Query 047889
Match_columns 72
No_of_seqs 175 out of 1415
Neff 9.6
Searched_HMMs 46136
Date Fri Mar 29 04:12:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047889.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047889hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0084 GTPase Rab1/YPT1, smal 99.9 3.1E-26 6.8E-31 130.6 7.0 71 1-71 73-143 (205)
2 KOG0078 GTP-binding protein SE 99.9 1E-24 2.2E-29 125.4 6.7 71 1-71 76-146 (207)
3 KOG0098 GTPase Rab2, small G p 99.9 1.1E-24 2.4E-29 123.8 6.2 71 1-71 70-140 (216)
4 KOG0092 GTPase Rab5/YPT51 and 99.9 1.9E-24 4.2E-29 122.9 7.2 71 1-71 69-139 (200)
5 KOG0087 GTPase Rab11/YPT3, sma 99.9 3.3E-24 7.3E-29 123.4 6.5 71 1-71 78-148 (222)
6 KOG0088 GTPase Rab21, small G 99.9 9.9E-24 2.1E-28 117.9 6.1 71 1-71 77-147 (218)
7 KOG0093 GTPase Rab3, small G p 99.9 8.4E-23 1.8E-27 112.9 6.2 70 2-71 86-155 (193)
8 KOG0080 GTPase Rab18, small G 99.9 1.5E-22 3.2E-27 113.3 4.8 71 1-71 75-146 (209)
9 KOG0094 GTPase Rab6/YPT6/Ryh1, 99.9 1E-21 2.2E-26 112.4 6.4 71 1-71 86-157 (221)
10 KOG0086 GTPase Rab4, small G p 99.9 1.4E-21 3.1E-26 108.8 5.6 70 2-71 74-143 (214)
11 cd04120 Rab12 Rab12 subfamily. 99.9 5.7E-21 1.2E-25 110.6 8.1 70 2-71 65-134 (202)
12 KOG0079 GTP-binding protein H- 99.8 2.2E-21 4.8E-26 107.5 5.7 69 2-71 73-141 (198)
13 cd04121 Rab40 Rab40 subfamily. 99.8 1E-20 2.2E-25 108.6 7.8 69 2-71 71-139 (189)
14 cd04133 Rop_like Rop subfamily 99.8 3.6E-20 7.7E-25 105.3 8.1 69 2-71 65-144 (176)
15 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 99.8 4.1E-20 9E-25 105.4 7.7 69 2-71 69-150 (182)
16 KOG0091 GTPase Rab39, small G 99.8 2.2E-20 4.8E-25 104.9 6.4 71 1-71 73-145 (213)
17 cd04131 Rnd Rnd subfamily. Th 99.8 8.5E-20 1.8E-24 103.7 8.0 69 2-71 65-146 (178)
18 KOG0083 GTPase Rab26/Rab37, sm 99.8 6.2E-21 1.3E-25 104.4 2.8 71 1-71 62-132 (192)
19 KOG0395 Ras-related GTPase [Ge 99.8 1.3E-19 2.8E-24 104.6 7.8 70 2-71 67-137 (196)
20 cd04174 Rnd1_Rho6 Rnd1/Rho6 su 99.8 2.8E-19 6E-24 105.4 7.9 69 2-71 77-158 (232)
21 KOG0081 GTPase Rab27, small G 99.8 1.2E-19 2.6E-24 101.7 5.2 71 1-71 82-153 (219)
22 cd01875 RhoG RhoG subfamily. 99.8 5.4E-19 1.2E-23 101.1 8.0 69 2-71 67-148 (191)
23 cd01873 RhoBTB RhoBTB subfamil 99.8 6.4E-19 1.4E-23 101.5 8.3 69 2-71 80-168 (195)
24 PTZ00099 rab6; Provisional 99.8 1.1E-18 2.4E-23 99.1 8.5 69 2-70 45-113 (176)
25 cd04122 Rab14 Rab14 subfamily. 99.8 9.9E-19 2.2E-23 97.6 8.2 70 2-71 67-136 (166)
26 PF00071 Ras: Ras family; Int 99.8 8.8E-19 1.9E-23 97.1 7.8 70 2-71 64-133 (162)
27 cd04117 Rab15 Rab15 subfamily. 99.8 1.9E-18 4.1E-23 96.4 8.4 70 2-71 65-134 (161)
28 cd04141 Rit_Rin_Ric Rit/Rin/Ri 99.8 1.4E-18 3.1E-23 98.0 7.5 70 2-71 66-136 (172)
29 cd04126 Rab20 Rab20 subfamily. 99.8 1.8E-18 3.9E-23 101.3 8.1 70 2-71 60-148 (220)
30 KOG0095 GTPase Rab30, small G 99.8 4.3E-19 9.4E-24 98.7 5.1 70 1-70 71-140 (213)
31 cd04102 RabL3 RabL3 (Rab-like3 99.8 1.5E-18 3.3E-23 100.5 7.4 63 2-64 70-151 (202)
32 PLN00023 GTP-binding protein; 99.8 4.9E-18 1.1E-22 104.0 8.1 70 2-71 99-186 (334)
33 cd01874 Cdc42 Cdc42 subfamily. 99.8 5.2E-18 1.1E-22 96.0 7.7 69 2-71 65-146 (175)
34 KOG0394 Ras-related GTPase [Ge 99.8 3.2E-18 6.9E-23 97.4 6.7 71 1-71 73-149 (210)
35 KOG0097 GTPase Rab14, small G 99.8 2E-18 4.2E-23 95.5 4.9 70 2-71 76-145 (215)
36 cd04107 Rab32_Rab38 Rab38/Rab3 99.7 1.6E-17 3.4E-22 95.5 8.3 70 2-71 66-139 (201)
37 cd04127 Rab27A Rab27a subfamil 99.7 1.6E-17 3.5E-22 93.5 8.0 70 2-71 79-149 (180)
38 cd04103 Centaurin_gamma Centau 99.7 1.2E-17 2.7E-22 93.2 7.3 68 4-71 60-130 (158)
39 cd04109 Rab28 Rab28 subfamily. 99.7 2.5E-17 5.3E-22 95.7 8.2 70 2-71 66-138 (215)
40 cd01865 Rab3 Rab3 subfamily. 99.7 3E-17 6.6E-22 91.6 8.0 70 2-71 66-135 (165)
41 cd01867 Rab8_Rab10_Rab13_like 99.7 4.4E-17 9.6E-22 91.1 8.1 70 2-71 68-137 (167)
42 cd04144 Ras2 Ras2 subfamily. 99.7 3.3E-17 7.1E-22 93.5 7.7 69 2-70 63-134 (190)
43 cd01871 Rac1_like Rac1-like su 99.7 4E-17 8.7E-22 92.3 7.7 69 2-71 65-146 (174)
44 cd04173 Rnd2_Rho7 Rnd2/Rho7 su 99.7 5.6E-17 1.2E-21 95.1 8.2 69 2-71 65-146 (222)
45 cd04136 Rap_like Rap-like subf 99.7 6.8E-17 1.5E-21 89.4 7.7 69 2-70 65-134 (163)
46 smart00176 RAN Ran (Ras-relate 99.7 6.4E-17 1.4E-21 93.6 7.9 66 2-70 60-125 (200)
47 cd04134 Rho3 Rho3 subfamily. 99.7 7.3E-17 1.6E-21 92.1 8.0 69 2-71 64-145 (189)
48 cd04115 Rab33B_Rab33A Rab33B/R 99.7 8.4E-17 1.8E-21 90.2 7.9 70 2-71 68-138 (170)
49 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 99.7 8.3E-17 1.8E-21 89.6 7.8 69 2-70 67-135 (166)
50 cd04176 Rap2 Rap2 subgroup. T 99.7 9.6E-17 2.1E-21 89.1 8.0 69 2-70 65-134 (163)
51 cd04175 Rap1 Rap1 subgroup. T 99.7 7.8E-17 1.7E-21 89.6 7.5 69 2-70 65-134 (164)
52 cd01868 Rab11_like Rab11-like. 99.7 1.1E-16 2.4E-21 89.0 8.1 69 2-70 68-136 (165)
53 cd04125 RabA_like RabA-like su 99.7 1.2E-16 2.5E-21 90.9 8.3 69 2-70 65-133 (188)
54 cd01864 Rab19 Rab19 subfamily. 99.7 1.2E-16 2.7E-21 89.0 8.1 70 2-71 68-137 (165)
55 cd04112 Rab26 Rab26 subfamily. 99.7 1.2E-16 2.6E-21 91.2 8.0 69 2-70 66-134 (191)
56 PLN03110 Rab GTPase; Provision 99.7 1.1E-16 2.4E-21 93.2 7.8 69 2-70 77-145 (216)
57 smart00174 RHO Rho (Ras homolo 99.7 1.4E-16 3E-21 89.2 7.6 69 2-71 62-143 (174)
58 cd04146 RERG_RasL11_like RERG/ 99.7 1.5E-16 3.3E-21 88.6 7.6 69 3-71 65-135 (165)
59 KOG4252 GTP-binding protein [S 99.7 5.1E-17 1.1E-21 92.7 5.7 69 2-71 85-153 (246)
60 cd04106 Rab23_lke Rab23-like s 99.7 1.7E-16 3.6E-21 87.9 7.7 69 2-71 67-135 (162)
61 PTZ00369 Ras-like protein; Pro 99.7 2E-16 4.4E-21 90.2 8.1 69 2-70 69-138 (189)
62 cd04111 Rab39 Rab39 subfamily. 99.7 2.1E-16 4.5E-21 91.8 8.1 70 2-71 68-138 (211)
63 cd01866 Rab2 Rab2 subfamily. 99.7 2.5E-16 5.5E-21 88.2 8.2 70 2-71 69-138 (168)
64 cd04110 Rab35 Rab35 subfamily. 99.7 2.8E-16 6.1E-21 90.3 8.0 68 2-70 71-138 (199)
65 PLN03108 Rab family protein; P 99.7 3.5E-16 7.5E-21 90.7 8.1 70 2-71 71-140 (210)
66 cd04140 ARHI_like ARHI subfami 99.7 3.2E-16 6.9E-21 87.4 7.7 69 2-70 65-136 (165)
67 cd04128 Spg1 Spg1p. Spg1p (se 99.7 2.5E-16 5.4E-21 89.7 7.2 69 2-71 65-138 (182)
68 cd04113 Rab4 Rab4 subfamily. 99.7 4.7E-16 1E-20 86.1 8.1 70 2-71 65-134 (161)
69 cd04119 RJL RJL (RabJ-Like) su 99.7 5.4E-16 1.2E-20 85.9 8.0 70 2-71 65-139 (168)
70 cd04116 Rab9 Rab9 subfamily. 99.7 5.6E-16 1.2E-20 86.6 8.0 69 2-71 70-142 (170)
71 PLN03071 GTP-binding nuclear p 99.7 4.4E-16 9.5E-21 90.9 7.6 66 2-70 78-143 (219)
72 cd04142 RRP22 RRP22 subfamily. 99.7 6E-16 1.3E-20 89.2 8.1 66 5-70 76-144 (198)
73 cd04130 Wrch_1 Wrch-1 subfamil 99.7 7.5E-16 1.6E-20 86.6 7.9 69 2-71 64-145 (173)
74 cd04143 Rhes_like Rhes_like su 99.7 7.9E-16 1.7E-20 91.4 8.2 69 2-70 64-141 (247)
75 cd04145 M_R_Ras_like M-Ras/R-R 99.7 7.9E-16 1.7E-20 85.2 7.6 70 2-71 66-136 (164)
76 KOG0393 Ras-related small GTPa 99.7 5.6E-16 1.2E-20 89.3 6.6 69 2-71 69-150 (198)
77 cd04148 RGK RGK subfamily. Th 99.6 1.7E-15 3.7E-20 88.6 7.9 68 3-70 65-134 (221)
78 cd04132 Rho4_like Rho4-like su 99.6 1.7E-15 3.8E-20 85.8 7.5 69 2-71 65-138 (187)
79 smart00173 RAS Ras subfamily o 99.6 2E-15 4.4E-20 83.8 7.5 70 2-71 64-134 (164)
80 cd04108 Rab36_Rab34 Rab34/Rab3 99.6 2.9E-15 6.3E-20 84.4 8.0 69 2-70 65-136 (170)
81 smart00175 RAB Rab subfamily o 99.6 3.7E-15 7.9E-20 82.4 7.9 70 2-71 65-134 (164)
82 cd04123 Rab21 Rab21 subfamily. 99.6 5.8E-15 1.3E-19 81.3 8.4 69 2-70 65-133 (162)
83 cd04101 RabL4 RabL4 (Rab-like4 99.6 5.4E-15 1.2E-19 82.0 8.1 68 2-70 68-135 (164)
84 KOG3883 Ras family small GTPas 99.6 3.2E-15 6.9E-20 83.5 7.0 70 2-71 77-147 (198)
85 cd04177 RSR1 RSR1 subgroup. R 99.6 6.8E-15 1.5E-19 82.3 8.1 70 2-71 65-135 (168)
86 cd01892 Miro2 Miro2 subfamily. 99.6 2.5E-15 5.4E-20 84.5 6.3 67 2-70 70-136 (169)
87 cd01861 Rab6 Rab6 subfamily. 99.6 9E-15 2E-19 80.8 8.2 69 2-70 65-133 (161)
88 cd04138 H_N_K_Ras_like H-Ras/N 99.6 6.9E-15 1.5E-19 81.0 7.6 68 2-70 65-133 (162)
89 cd00877 Ran Ran (Ras-related n 99.6 9E-15 1.9E-19 82.0 7.7 65 2-69 65-129 (166)
90 cd04162 Arl9_Arfrp2_like Arl9/ 99.6 2.6E-15 5.7E-20 84.1 5.1 59 2-61 60-118 (164)
91 cd01860 Rab5_related Rab5-rela 99.6 1.9E-14 4.1E-19 79.7 8.2 69 2-70 66-134 (163)
92 cd04118 Rab24 Rab24 subfamily. 99.6 2E-14 4.3E-19 81.9 8.1 68 2-70 66-137 (193)
93 cd04135 Tc10 TC10 subfamily. 99.6 2.8E-14 6.1E-19 79.9 8.0 69 2-71 64-145 (174)
94 cd04129 Rho2 Rho2 subfamily. 99.6 3.5E-14 7.6E-19 80.9 7.9 68 3-71 66-144 (187)
95 cd04114 Rab30 Rab30 subfamily. 99.6 4.7E-14 1E-18 78.6 8.3 68 3-70 73-140 (169)
96 PLN03118 Rab family protein; P 99.6 4.6E-14 1E-18 81.7 8.1 69 2-70 78-148 (211)
97 cd04158 ARD1 ARD1 subfamily. 99.5 3.8E-14 8.3E-19 79.5 7.4 66 2-69 59-125 (169)
98 cd04149 Arf6 Arf6 subfamily. 99.5 3.3E-14 7.2E-19 79.9 7.1 66 2-69 69-135 (168)
99 cd01863 Rab18 Rab18 subfamily. 99.5 8.3E-14 1.8E-18 77.1 8.4 68 2-70 65-133 (161)
100 cd04124 RabL2 RabL2 subfamily. 99.5 6.7E-14 1.5E-18 77.9 7.6 54 2-56 65-118 (161)
101 smart00177 ARF ARF-like small 99.5 1E-13 2.2E-18 78.3 7.4 55 2-56 73-128 (175)
102 cd01862 Rab7 Rab7 subfamily. 99.5 2E-13 4.4E-18 76.0 8.2 69 2-70 65-137 (172)
103 PLN00223 ADP-ribosylation fact 99.5 1.1E-13 2.4E-18 78.7 7.3 55 2-56 77-132 (181)
104 cd04161 Arl2l1_Arl13_like Arl2 99.5 1.1E-13 2.4E-18 77.6 6.2 57 2-58 59-116 (167)
105 cd00876 Ras Ras family. The R 99.5 2.5E-13 5.4E-18 74.7 7.5 69 3-71 64-133 (160)
106 cd04150 Arf1_5_like Arf1-Arf5- 99.5 1.8E-13 3.9E-18 76.2 6.9 55 2-56 60-115 (159)
107 cd01870 RhoA_like RhoA-like su 99.5 3.8E-13 8.2E-18 75.3 8.2 68 2-70 65-145 (175)
108 cd04147 Ras_dva Ras-dva subfam 99.5 5.4E-13 1.2E-17 76.6 8.2 67 2-68 63-131 (198)
109 cd00154 Rab Rab family. Rab G 99.5 5.7E-13 1.2E-17 72.7 8.0 68 3-70 66-133 (159)
110 cd04139 RalA_RalB RalA/RalB su 99.5 6.1E-13 1.3E-17 73.4 7.9 69 2-70 64-133 (164)
111 TIGR00157 ribosome small subun 99.4 4E-13 8.8E-18 79.8 6.7 65 1-68 28-93 (245)
112 PTZ00133 ADP-ribosylation fact 99.4 1E-12 2.2E-17 74.8 7.5 55 2-56 77-132 (182)
113 cd04137 RheB Rheb (Ras Homolog 99.4 1.5E-12 3.2E-17 73.4 7.7 68 3-70 66-134 (180)
114 cd01893 Miro1 Miro1 subfamily. 99.4 1.3E-12 2.8E-17 73.0 7.4 55 4-59 65-120 (166)
115 cd04154 Arl2 Arl2 subfamily. 99.4 1.2E-12 2.5E-17 73.6 7.1 66 2-69 74-140 (173)
116 cd00157 Rho Rho (Ras homology) 99.4 1.6E-12 3.5E-17 72.3 7.4 68 2-70 64-143 (171)
117 PF08477 Miro: Miro-like prote 99.4 1.8E-12 3.9E-17 68.8 5.7 48 5-53 69-119 (119)
118 cd04152 Arl4_Arl7 Arl4/Arl7 su 99.4 4.6E-12 1E-16 72.0 7.7 64 2-67 68-132 (183)
119 cd04157 Arl6 Arl6 subfamily. 99.4 5E-12 1.1E-16 69.8 7.2 55 2-56 61-118 (162)
120 smart00178 SAR Sar1p-like memb 99.3 6.3E-12 1.4E-16 71.5 7.0 64 2-67 77-141 (184)
121 cd00879 Sar1 Sar1 subfamily. 99.3 1.1E-11 2.4E-16 70.4 7.6 65 3-69 80-145 (190)
122 cd04153 Arl5_Arl8 Arl5/Arl8 su 99.3 1.7E-11 3.7E-16 69.1 7.5 55 2-56 75-130 (174)
123 PTZ00132 GTP-binding nuclear p 99.3 1.6E-11 3.5E-16 71.2 7.6 59 2-62 74-132 (215)
124 cd04156 ARLTS1 ARLTS1 subfamil 99.3 1.7E-11 3.7E-16 67.7 7.4 54 3-56 61-115 (160)
125 cd04160 Arfrp1 Arfrp1 subfamil 99.3 1.9E-11 4.2E-16 67.9 7.0 65 2-68 66-131 (167)
126 cd00878 Arf_Arl Arf (ADP-ribos 99.3 3.3E-11 7.1E-16 66.5 7.4 56 2-57 59-115 (158)
127 COG1100 GTPase SAR1 and relate 99.3 1.7E-11 3.7E-16 70.9 6.4 57 2-58 70-127 (219)
128 smart00010 small_GTPase Small 99.3 5.2E-11 1.1E-15 63.2 6.9 68 2-71 39-106 (124)
129 PF00025 Arf: ADP-ribosylation 99.3 1E-10 2.2E-15 66.3 8.4 64 2-67 74-138 (175)
130 cd04151 Arl1 Arl1 subfamily. 99.2 6.4E-11 1.4E-15 65.5 6.3 55 2-56 59-114 (158)
131 cd01898 Obg Obg subfamily. Th 99.1 2.2E-10 4.7E-15 63.7 6.4 51 9-59 78-131 (170)
132 KOG0070 GTP-binding ADP-ribosy 99.1 5.1E-10 1.1E-14 63.8 7.1 63 1-65 76-139 (181)
133 KOG1673 Ras GTPases [General f 99.1 1.1E-10 2.4E-15 65.6 4.4 52 3-55 86-137 (205)
134 KOG0096 GTPase Ran/TC4/GSP1 (n 99.1 8.2E-11 1.8E-15 67.7 3.7 54 2-56 75-128 (216)
135 TIGR02528 EutP ethanolamine ut 99.1 1.1E-10 2.3E-15 63.6 4.0 57 6-70 59-115 (142)
136 PRK12299 obgE GTPase CgtA; Rev 99.1 3.4E-10 7.4E-15 70.0 6.6 63 6-68 233-297 (335)
137 cd04159 Arl10_like Arl10-like 99.1 6.1E-10 1.3E-14 60.7 6.3 55 3-57 61-116 (159)
138 KOG0073 GTP-binding ADP-ribosy 99.1 1.3E-09 2.8E-14 61.6 7.0 55 2-56 76-131 (185)
139 KOG4423 GTP-binding protein-li 99.1 1.7E-10 3.7E-15 66.4 3.4 56 1-56 90-149 (229)
140 KOG1707 Predicted Ras related/ 99.0 1.6E-09 3.5E-14 70.5 5.8 55 6-60 76-133 (625)
141 cd01890 LepA LepA subfamily. 99.0 3.2E-09 6.9E-14 59.6 6.4 50 3-56 84-133 (179)
142 KOG0071 GTP-binding ADP-ribosy 98.9 5.1E-09 1.1E-13 58.1 6.4 65 2-68 77-142 (180)
143 cd01878 HflX HflX subfamily. 98.9 4E-09 8.7E-14 60.6 6.2 51 7-57 118-168 (204)
144 KOG0075 GTP-binding ADP-ribosy 98.9 3E-09 6.5E-14 59.4 5.1 56 1-56 80-136 (186)
145 cd04155 Arl3 Arl3 subfamily. 98.9 1.2E-08 2.5E-13 57.0 7.3 54 3-56 75-129 (173)
146 cd01881 Obg_like The Obg-like 98.9 1.1E-08 2.5E-13 56.9 6.4 55 6-60 71-138 (176)
147 TIGR03156 GTP_HflX GTP-binding 98.9 7.2E-09 1.6E-13 64.5 5.9 51 6-56 265-315 (351)
148 cd04105 SR_beta Signal recogni 98.8 2.3E-08 4.9E-13 58.0 6.7 54 4-57 66-124 (203)
149 cd01897 NOG NOG1 is a nucleola 98.8 2E-08 4.4E-13 55.7 5.6 51 9-60 79-131 (168)
150 TIGR02729 Obg_CgtA Obg family 98.8 3.2E-08 7E-13 61.2 6.4 50 8-57 234-288 (329)
151 PRK11058 GTPase HflX; Provisio 98.8 3.7E-08 8E-13 62.8 6.4 51 6-56 273-323 (426)
152 cd00882 Ras_like_GTPase Ras-li 98.7 9.9E-08 2.1E-12 50.9 7.0 55 4-58 63-118 (157)
153 KOG0076 GTP-binding ADP-ribosy 98.7 9.6E-09 2.1E-13 58.6 3.1 56 1-56 84-140 (197)
154 cd01891 TypA_BipA TypA (tyrosi 98.7 6.5E-08 1.4E-12 55.4 5.7 51 3-57 82-132 (194)
155 TIGR00450 mnmE_trmE_thdF tRNA 98.7 6.3E-08 1.4E-12 61.9 5.2 48 4-56 277-324 (442)
156 TIGR00231 small_GTP small GTP- 98.6 3.4E-07 7.3E-12 49.4 5.9 56 3-58 67-124 (161)
157 PRK12289 GTPase RsgA; Reviewed 98.5 5.6E-07 1.2E-11 56.3 7.2 52 2-56 82-134 (352)
158 PRK12297 obgE GTPase CgtA; Rev 98.5 5.3E-07 1.1E-11 57.6 7.1 49 8-56 235-288 (424)
159 cd01885 EF2 EF2 (for archaea a 98.5 5.3E-07 1.2E-11 53.2 6.5 60 4-67 91-151 (222)
160 PRK03003 GTP-binding protein D 98.5 2.5E-07 5.4E-12 59.5 5.2 49 4-56 112-160 (472)
161 PRK05291 trmE tRNA modificatio 98.5 1.8E-07 3.9E-12 59.9 4.5 47 5-57 290-336 (449)
162 cd01879 FeoB Ferrous iron tran 98.5 4.6E-07 1E-11 49.6 5.6 53 3-61 66-120 (158)
163 PRK15467 ethanolamine utilizat 98.5 4.1E-07 8.8E-12 50.8 5.4 54 7-69 62-115 (158)
164 KOG0074 GTP-binding ADP-ribosy 98.5 2.3E-07 4.9E-12 51.8 4.2 55 2-56 78-133 (185)
165 cd04171 SelB SelB subfamily. 98.5 7E-07 1.5E-11 49.1 6.2 47 5-57 70-119 (164)
166 PRK03003 GTP-binding protein D 98.5 5.7E-07 1.2E-11 57.9 5.8 48 5-56 289-336 (472)
167 COG2229 Predicted GTPase [Gene 98.4 2E-06 4.3E-11 49.5 6.7 61 2-67 84-144 (187)
168 TIGR03597 GTPase_YqeH ribosome 98.4 4.6E-07 9.9E-12 56.7 4.5 60 2-68 56-115 (360)
169 cd01855 YqeH YqeH. YqeH is an 98.4 4.5E-07 9.9E-12 51.8 4.2 49 2-56 27-75 (190)
170 cd01895 EngA2 EngA2 subfamily. 98.4 1.5E-06 3.3E-11 47.9 6.1 49 6-58 81-129 (174)
171 cd01854 YjeQ_engC YjeQ/EngC. 98.4 5.7E-07 1.2E-11 54.7 4.6 49 6-57 75-124 (287)
172 PRK04213 GTP-binding protein; 98.4 9.3E-08 2E-12 54.8 1.0 17 41-57 129-145 (201)
173 KOG0072 GTP-binding ADP-ribosy 98.4 1.7E-06 3.7E-11 48.4 5.5 55 2-56 78-133 (182)
174 KOG0077 Vesicle coat complex C 98.4 1.6E-06 3.4E-11 49.4 5.1 54 3-56 81-135 (193)
175 cd01887 IF2_eIF5B IF2/eIF5B (i 98.3 2.1E-06 4.5E-11 47.5 5.5 47 3-56 67-116 (168)
176 cd04164 trmE TrmE (MnmE, ThdF, 98.3 1.7E-06 3.6E-11 47.1 5.0 47 5-57 76-122 (157)
177 TIGR01393 lepA GTP-binding pro 98.3 2.3E-06 4.9E-11 56.7 6.3 50 3-56 87-136 (595)
178 PRK12298 obgE GTPase CgtA; Rev 98.3 2.8E-06 6E-11 53.8 6.5 52 6-57 234-290 (390)
179 PRK12288 GTPase RsgA; Reviewed 98.3 2.8E-06 6.1E-11 53.1 5.7 45 9-56 120-164 (347)
180 TIGR03594 GTPase_EngA ribosome 98.3 4.5E-06 9.7E-11 52.9 6.2 47 5-55 250-296 (429)
181 PRK00098 GTPase RsgA; Reviewed 98.2 2.6E-06 5.7E-11 52.1 4.8 47 7-56 78-125 (298)
182 TIGR00436 era GTP-binding prot 98.2 4.7E-06 1E-10 50.1 5.7 47 5-56 75-121 (270)
183 PRK12296 obgE GTPase CgtA; Rev 98.2 5.2E-06 1.1E-10 54.1 5.7 53 6-58 233-300 (500)
184 cd00066 G-alpha G protein alph 98.2 3.1E-06 6.6E-11 52.2 4.3 55 2-56 177-242 (317)
185 TIGR00491 aIF-2 translation in 98.2 3.8E-06 8.3E-11 55.6 5.0 48 2-56 85-135 (590)
186 cd00881 GTP_translation_factor 98.2 8.5E-06 1.8E-10 45.7 5.7 50 3-56 79-128 (189)
187 PRK15494 era GTPase Era; Provi 98.2 8.5E-06 1.8E-10 50.7 6.0 46 6-56 128-174 (339)
188 smart00275 G_alpha G protein a 98.2 6.1E-06 1.3E-10 51.5 5.1 55 2-56 200-265 (342)
189 cd04167 Snu114p Snu114p subfam 98.1 1.5E-05 3.1E-10 46.4 5.5 48 4-55 89-136 (213)
190 PRK09518 bifunctional cytidyla 98.1 1.3E-05 2.8E-10 54.0 5.6 47 6-56 529-575 (712)
191 cd01894 EngA1 EngA1 subfamily. 98.0 1.8E-05 3.9E-10 43.1 5.0 49 5-57 72-120 (157)
192 cd04168 TetM_like Tet(M)-like 98.0 1.8E-05 3.8E-10 47.1 5.2 49 4-56 82-130 (237)
193 TIGR00437 feoB ferrous iron tr 98.0 1E-05 2.2E-10 53.6 4.4 55 9-70 72-126 (591)
194 TIGR00483 EF-1_alpha translati 98.0 1.5E-05 3.2E-10 50.8 4.9 49 6-56 105-155 (426)
195 cd00880 Era_like Era (E. coli 98.0 1.8E-05 3.9E-10 42.5 4.5 49 5-57 71-119 (163)
196 cd01857 HSR1_MMR1 HSR1/MMR1. 98.0 1.8E-05 3.9E-10 43.4 4.1 47 6-56 8-56 (141)
197 PF09439 SRPRB: Signal recogni 98.0 6.2E-05 1.3E-09 43.4 6.4 52 6-57 72-127 (181)
198 PRK05433 GTP-binding protein L 97.9 3.3E-05 7.1E-10 51.3 5.8 50 3-56 91-140 (600)
199 cd04163 Era Era subfamily. Er 97.9 4.6E-05 1E-09 41.5 5.5 47 5-56 78-125 (168)
200 PRK00093 GTP-binding protein D 97.9 4.4E-05 9.6E-10 48.5 5.8 47 4-56 75-123 (435)
201 PF06858 NOG1: Nucleolar GTP-b 97.9 0.00015 3.2E-09 34.5 5.9 43 10-53 14-58 (58)
202 PRK04004 translation initiatio 97.9 4.5E-05 9.7E-10 50.6 5.3 46 3-55 88-136 (586)
203 cd01859 MJ1464 MJ1464. This f 97.9 1.7E-05 3.7E-10 43.9 2.9 50 3-56 6-55 (156)
204 KOG1707 Predicted Ras related/ 97.9 3.6E-05 7.8E-10 50.9 4.7 61 8-70 494-554 (625)
205 PRK00089 era GTPase Era; Revie 97.8 6.4E-05 1.4E-09 45.6 5.5 46 6-56 81-127 (292)
206 CHL00189 infB translation init 97.8 3.3E-05 7.2E-10 52.4 4.6 48 2-56 311-361 (742)
207 TIGR00487 IF-2 translation ini 97.8 8E-05 1.7E-09 49.5 6.1 48 2-56 151-201 (587)
208 cd04169 RF3 RF3 subfamily. Pe 97.8 8.1E-05 1.8E-09 45.0 5.7 49 4-56 89-137 (267)
209 TIGR03598 GTPase_YsxC ribosome 97.8 7.3E-05 1.6E-09 42.3 5.0 48 5-56 93-143 (179)
210 TIGR01394 TypA_BipA GTP-bindin 97.8 9.8E-05 2.1E-09 49.1 5.8 51 4-58 82-132 (594)
211 PRK09518 bifunctional cytidyla 97.8 7.9E-05 1.7E-09 50.3 5.4 48 4-56 349-397 (712)
212 PRK00093 GTP-binding protein D 97.7 0.0001 2.2E-09 46.9 5.5 47 6-56 252-298 (435)
213 TIGR00475 selB selenocysteine- 97.7 0.00012 2.6E-09 48.6 5.9 46 5-57 69-118 (581)
214 PRK13351 elongation factor G; 97.7 9.9E-05 2.2E-09 49.6 5.4 49 4-56 91-139 (687)
215 PRK05306 infB translation init 97.7 5.8E-05 1.3E-09 51.6 4.3 47 3-56 354-403 (787)
216 TIGR03594 GTPase_EngA ribosome 97.7 0.00014 3E-09 46.1 5.8 50 4-57 73-122 (429)
217 KOG1489 Predicted GTP-binding 97.6 0.00027 5.8E-09 44.1 5.5 48 8-55 273-325 (366)
218 cd01888 eIF2_gamma eIF2-gamma 97.6 0.00018 3.9E-09 41.6 4.6 44 7-56 104-151 (203)
219 cd01889 SelB_euk SelB subfamil 97.6 0.00028 6.2E-09 40.2 5.4 45 8-56 90-134 (192)
220 PRK14845 translation initiatio 97.6 0.00021 4.5E-09 50.2 5.1 46 4-56 544-592 (1049)
221 PRK09554 feoB ferrous iron tra 97.5 0.00033 7.2E-09 47.9 6.0 54 9-69 85-138 (772)
222 cd01896 DRG The developmentall 97.5 0.00086 1.9E-08 39.8 7.0 24 5-28 73-97 (233)
223 cd01858 NGP_1 NGP-1. Autoanti 97.5 0.00023 5E-09 39.6 4.2 46 7-56 6-53 (157)
224 COG2262 HflX GTPases [General 97.5 0.00076 1.6E-08 43.1 6.4 49 8-56 270-318 (411)
225 PRK12317 elongation factor 1-a 97.4 0.00039 8.4E-09 44.4 4.8 48 7-56 105-153 (425)
226 PRK00741 prfC peptide chain re 97.4 0.00057 1.2E-08 45.0 5.3 49 4-56 97-145 (526)
227 cd01849 YlqF_related_GTPase Yl 97.3 0.00042 9E-09 38.5 3.9 43 11-56 1-43 (155)
228 PRK10218 GTP-binding protein; 97.3 0.00097 2.1E-08 44.7 5.8 51 3-57 85-135 (607)
229 cd04170 EF-G_bact Elongation f 97.3 0.0016 3.6E-08 39.1 6.3 49 4-56 82-130 (268)
230 cd04166 CysN_ATPS CysN_ATPS su 97.3 0.0017 3.6E-08 37.8 6.1 48 6-56 97-144 (208)
231 TIGR00503 prfC peptide chain r 97.3 0.00083 1.8E-08 44.3 5.3 48 5-56 99-146 (527)
232 PRK13796 GTPase YqeH; Provisio 97.3 0.0011 2.4E-08 41.8 5.5 53 9-68 68-121 (365)
233 cd01883 EF1_alpha Eukaryotic e 97.2 0.0014 3.1E-08 38.4 4.8 46 7-55 98-150 (219)
234 PRK04000 translation initiatio 97.1 0.0013 2.8E-08 42.1 5.0 46 5-56 101-153 (411)
235 TIGR00484 EF-G translation elo 97.1 0.0012 2.6E-08 44.6 4.8 49 4-56 93-141 (689)
236 PF00009 GTP_EFTU: Elongation 97.1 0.0038 8.1E-08 35.6 6.2 45 7-55 91-135 (188)
237 PRK09866 hypothetical protein; 97.1 0.0051 1.1E-07 41.9 7.2 49 6-56 255-303 (741)
238 cd04104 p47_IIGP_like p47 (47- 97.0 0.0011 2.3E-08 38.3 3.6 42 7-55 78-120 (197)
239 PRK01889 GTPase RsgA; Reviewed 97.0 0.0033 7.1E-08 39.6 5.5 47 7-56 110-156 (356)
240 PRK12740 elongation factor G; 96.9 0.0026 5.7E-08 42.8 5.0 49 4-56 78-126 (668)
241 TIGR03680 eif2g_arch translati 96.9 0.0029 6.3E-08 40.4 5.0 44 7-56 101-148 (406)
242 PF04670 Gtr1_RagA: Gtr1/RagA 96.9 0.0043 9.3E-08 37.1 5.4 51 4-55 71-124 (232)
243 PRK00454 engB GTP-binding prot 96.9 0.0038 8.2E-08 35.4 5.0 48 5-56 99-149 (196)
244 KOG4273 Uncharacterized conser 96.8 0.0017 3.6E-08 39.9 3.2 46 10-57 79-124 (418)
245 COG0536 Obg Predicted GTPase [ 96.8 0.0063 1.4E-07 38.5 5.7 49 8-56 236-289 (369)
246 cd01886 EF-G Elongation factor 96.8 0.005 1.1E-07 37.4 5.2 49 4-56 82-130 (270)
247 cd01876 YihA_EngB The YihA (En 96.8 0.0047 1E-07 33.6 4.7 40 10-55 82-123 (170)
248 COG1084 Predicted GTPase [Gene 96.7 0.008 1.7E-07 37.8 5.4 46 10-57 248-295 (346)
249 cd04178 Nucleostemin_like Nucl 96.6 0.0082 1.8E-07 34.2 5.1 44 11-56 1-44 (172)
250 PLN00043 elongation factor 1-a 96.6 0.008 1.7E-07 39.0 5.2 47 5-55 104-158 (447)
251 cd01856 YlqF YlqF. Proteins o 96.5 0.0031 6.8E-08 35.5 2.8 46 5-56 15-60 (171)
252 PRK10512 selenocysteinyl-tRNA- 96.5 0.018 3.8E-07 38.8 6.5 44 6-56 71-118 (614)
253 TIGR00485 EF-Tu translation el 96.5 0.013 2.9E-07 37.2 5.7 44 9-56 98-142 (394)
254 KOG0082 G-protein alpha subuni 96.5 0.006 1.3E-07 38.6 4.1 55 3-57 212-277 (354)
255 PF00503 G-alpha: G-protein al 96.4 0.0061 1.3E-07 38.6 4.0 53 3-55 253-316 (389)
256 PF02421 FeoB_N: Ferrous iron 96.4 0.0049 1.1E-07 34.8 3.1 46 8-59 77-122 (156)
257 cd01850 CDC_Septin CDC/Septin. 96.3 0.0056 1.2E-07 37.3 3.3 15 42-56 143-157 (276)
258 PRK12736 elongation factor Tu; 96.3 0.021 4.6E-07 36.4 5.9 45 8-56 97-142 (394)
259 TIGR03596 GTPase_YlqF ribosome 96.2 0.0076 1.7E-07 36.6 3.4 46 5-56 17-62 (276)
260 PRK13768 GTPase; Provisional 96.1 0.0071 1.5E-07 36.4 3.0 47 10-57 129-177 (253)
261 cd04165 GTPBP1_like GTPBP1-lik 96.1 0.032 6.9E-07 33.0 5.7 44 9-56 109-152 (224)
262 TIGR00490 aEF-2 translation el 96.0 0.013 2.8E-07 40.0 4.2 48 4-55 104-151 (720)
263 COG0486 ThdF Predicted GTPase 96.0 0.018 3.9E-07 37.6 4.6 47 6-57 293-339 (454)
264 cd01884 EF_Tu EF-Tu subfamily. 96.0 0.051 1.1E-06 31.5 6.1 45 7-55 86-131 (195)
265 PRK09563 rbgA GTPase YlqF; Rev 96.0 0.0092 2E-07 36.5 3.1 45 6-56 21-65 (287)
266 PF01926 MMR_HSR1: 50S ribosom 95.9 0.079 1.7E-06 27.7 6.1 40 7-51 77-116 (116)
267 KOG0090 Signal recognition par 95.7 0.11 2.4E-06 31.2 6.6 48 9-56 108-159 (238)
268 KOG0705 GTPase-activating prot 95.7 0.014 3.1E-07 39.2 3.2 66 4-69 90-158 (749)
269 PRK12739 elongation factor G; 95.7 0.04 8.6E-07 37.6 5.2 48 5-56 92-139 (691)
270 PRK12735 elongation factor Tu; 95.5 0.079 1.7E-06 33.8 5.9 45 8-56 97-142 (396)
271 cd03110 Fer4_NifH_child This p 95.5 0.18 3.9E-06 28.4 6.9 47 6-56 111-157 (179)
272 COG1160 Predicted GTPases [Gen 95.4 0.036 7.8E-07 36.1 4.3 43 7-55 81-125 (444)
273 KOG3886 GTP-binding protein [S 95.3 0.096 2.1E-06 32.0 5.4 52 4-56 76-130 (295)
274 COG0532 InfB Translation initi 95.0 0.11 2.3E-06 34.6 5.4 41 9-56 78-121 (509)
275 TIGR02034 CysN sulfate adenyly 94.8 0.1 2.2E-06 33.4 5.1 47 7-56 101-147 (406)
276 CHL00071 tufA elongation facto 94.7 0.17 3.6E-06 32.5 5.8 46 7-56 96-142 (409)
277 PLN03126 Elongation factor Tu; 94.7 0.15 3.3E-06 33.6 5.6 45 8-56 166-211 (478)
278 PRK05124 cysN sulfate adenylyl 94.6 0.12 2.5E-06 34.0 5.0 47 7-56 128-174 (474)
279 PTZ00416 elongation factor 2; 94.6 0.075 1.6E-06 37.1 4.2 45 7-55 113-157 (836)
280 PRK00007 elongation factor G; 94.5 0.14 3E-06 35.0 5.3 46 7-56 96-141 (693)
281 PF14331 ImcF-related_N: ImcF- 94.4 0.18 3.9E-06 30.7 5.2 48 9-56 25-83 (266)
282 PF00350 Dynamin_N: Dynamin fa 94.3 0.15 3.3E-06 28.1 4.5 47 3-52 122-168 (168)
283 COG1159 Era GTPase [General fu 94.3 0.19 4.2E-06 31.3 5.2 49 5-57 81-129 (298)
284 PLN00116 translation elongatio 94.1 0.14 2.9E-06 35.9 4.6 45 7-55 119-163 (843)
285 PLN03127 Elongation factor Tu; 93.9 0.25 5.5E-06 32.3 5.4 45 8-56 146-191 (447)
286 TIGR03348 VI_IcmF type VI secr 93.9 0.11 2.3E-06 37.6 3.9 47 9-55 201-256 (1169)
287 COG1162 Predicted GTPases [Gen 93.8 0.54 1.2E-05 29.4 6.4 47 8-57 78-125 (301)
288 PRK00049 elongation factor Tu; 93.7 0.29 6.3E-06 31.3 5.4 46 7-56 96-142 (396)
289 PRK05506 bifunctional sulfate 93.5 0.27 5.7E-06 33.3 5.1 47 7-56 125-171 (632)
290 KOG0468 U5 snRNP-specific prot 93.4 0.12 2.6E-06 35.8 3.4 45 6-54 217-261 (971)
291 TIGR00101 ureG urease accessor 93.4 0.18 4E-06 29.3 3.9 39 10-56 113-151 (199)
292 KOG1145 Mitochondrial translat 93.3 0.34 7.5E-06 32.9 5.3 41 9-56 224-267 (683)
293 KOG1490 GTP-binding protein CR 93.0 0.59 1.3E-05 31.5 5.9 52 12-64 250-303 (620)
294 PRK07560 elongation factor EF- 92.9 0.27 5.9E-06 33.9 4.6 46 6-55 107-152 (731)
295 smart00053 DYNc Dynamin, GTPas 92.8 0.52 1.1E-05 28.4 5.2 50 3-56 155-206 (240)
296 KOG1423 Ras-like GTPase ERA [C 92.7 0.12 2.5E-06 32.8 2.4 46 8-56 154-199 (379)
297 COG1160 Predicted GTPases [Gen 92.5 1.1 2.5E-05 29.5 6.7 57 7-67 258-314 (444)
298 cd01882 BMS1 Bms1. Bms1 is an 92.5 0.57 1.2E-05 27.7 5.1 46 7-56 101-147 (225)
299 KOG0462 Elongation factor-type 92.2 0.87 1.9E-05 31.0 5.9 48 7-58 146-193 (650)
300 PTZ00327 eukaryotic translatio 92.2 0.65 1.4E-05 30.6 5.4 46 8-56 139-185 (460)
301 cd02038 FleN-like FleN is a me 91.3 1.4 3E-05 24.0 5.4 49 5-55 62-110 (139)
302 PF03709 OKR_DC_1_N: Orn/Lys/A 90.8 1.1 2.4E-05 23.8 4.6 40 9-52 38-77 (115)
303 PF11111 CENP-M: Centromere pr 90.5 2.2 4.7E-05 24.8 5.9 62 9-71 64-125 (176)
304 COG4963 CpaE Flp pilus assembl 90.4 1.5 3.2E-05 28.3 5.5 52 3-55 233-284 (366)
305 COG1149 MinD superfamily P-loo 90.4 2.8 6E-05 26.1 6.5 45 7-55 183-227 (284)
306 COG1161 Predicted GTPases [Gen 90.1 0.4 8.6E-06 30.0 2.8 45 6-56 31-75 (322)
307 KOG2484 GTPase [General functi 89.4 1.3 2.9E-05 29.0 4.8 44 9-56 146-191 (435)
308 cd02067 B12-binding B12 bindin 89.3 1.6 3.5E-05 23.0 4.5 40 13-52 52-91 (119)
309 KOG3929 Uncharacterized conser 89.0 2.9 6.2E-05 26.3 5.8 14 42-55 190-203 (363)
310 COG0480 FusA Translation elong 88.7 0.84 1.8E-05 31.7 3.8 46 7-56 97-142 (697)
311 KOG1191 Mitochondrial GTPase [ 88.6 0.7 1.5E-05 30.9 3.2 51 7-57 346-404 (531)
312 TIGR00073 hypB hydrogenase acc 88.4 0.35 7.7E-06 28.0 1.7 15 43-57 149-163 (207)
313 KOG1424 Predicted GTP-binding 88.3 1.6 3.5E-05 29.5 4.7 46 9-56 174-219 (562)
314 COG3640 CooC CO dehydrogenase 87.9 3.9 8.6E-05 25.1 5.9 46 7-55 153-198 (255)
315 KOG1954 Endocytosis/signaling 87.3 2.7 5.8E-05 27.7 5.1 48 6-56 178-225 (532)
316 cd03111 CpaE_like This protein 86.8 3 6.6E-05 21.6 5.4 45 6-51 61-106 (106)
317 COG0218 Predicted GTPase [Gene 86.6 3.5 7.6E-05 24.4 5.1 43 10-56 107-149 (200)
318 KOG0447 Dynamin-like GTP bindi 86.1 2.9 6.3E-05 29.0 5.0 64 2-68 441-505 (980)
319 PRK13505 formate--tetrahydrofo 85.8 2.7 5.9E-05 28.6 4.8 41 25-70 358-398 (557)
320 COG1010 CobJ Precorrin-3B meth 85.7 4.1 9E-05 24.9 5.1 45 8-52 153-197 (249)
321 COG0050 TufB GTPases - transla 85.4 0.85 1.8E-05 29.0 2.2 42 9-57 98-143 (394)
322 COG3523 IcmF Type VI protein s 85.2 2.4 5.1E-05 31.3 4.5 48 9-56 214-270 (1188)
323 PTZ00141 elongation factor 1- 83.4 2.3 5E-05 27.9 3.7 46 7-55 106-158 (446)
324 cd02071 MM_CoA_mut_B12_BD meth 82.6 5.6 0.00012 21.2 4.9 42 9-52 50-91 (122)
325 PF14784 ECIST_Cterm: C-termin 82.5 4.8 0.0001 22.1 4.2 37 11-47 85-123 (126)
326 PF03029 ATP_bind_1: Conserved 82.1 3.6 7.7E-05 24.7 3.9 45 10-56 123-170 (238)
327 PF10662 PduV-EutP: Ethanolami 82.0 4.3 9.4E-05 22.7 4.0 53 9-69 63-115 (143)
328 COG0481 LepA Membrane GTPase L 81.9 7.7 0.00017 26.4 5.6 46 7-56 97-142 (603)
329 PF08468 MTS_N: Methyltransfer 81.1 7.8 0.00017 21.9 5.0 41 9-53 69-109 (155)
330 TIGR00750 lao LAO/AO transport 80.0 4.1 8.8E-05 25.2 3.8 40 9-56 147-186 (300)
331 COG5257 GCD11 Translation init 79.6 3.5 7.6E-05 26.6 3.4 54 11-70 111-170 (415)
332 COG2813 RsmC 16S RNA G1207 met 79.3 9.5 0.00021 24.0 5.1 42 9-54 37-78 (300)
333 PF10551 MULE: MULE transposas 78.7 6.5 0.00014 19.5 3.8 38 11-49 25-62 (93)
334 cd01852 AIG1 AIG1 (avrRpt2-ind 77.8 11 0.00023 21.5 5.0 47 7-55 81-129 (196)
335 KOG1532 GTPase XAB1, interacts 76.9 5.3 0.00011 25.4 3.5 16 41-56 180-195 (366)
336 KOG1144 Translation initiation 76.1 4.9 0.00011 28.8 3.5 41 7-54 561-604 (1064)
337 COG5256 TEF1 Translation elong 75.6 11 0.00025 24.9 4.9 56 8-65 107-168 (428)
338 COG1163 DRG Predicted GTPase [ 75.3 8.1 0.00018 24.9 4.1 28 7-34 138-166 (365)
339 PRK04017 hypothetical protein; 75.2 9.4 0.0002 21.2 3.9 32 22-54 3-34 (132)
340 PF06953 ArsD: Arsenical resis 75.1 7.5 0.00016 21.2 3.5 61 8-69 37-98 (123)
341 PF02492 cobW: CobW/HypB/UreG, 74.3 7.9 0.00017 21.9 3.7 42 10-57 114-156 (178)
342 cd03112 CobW_like The function 74.2 10 0.00023 21.1 4.1 39 10-54 119-158 (158)
343 cd07379 MPP_239FB Homo sapiens 73.1 10 0.00022 20.3 3.8 44 8-53 18-61 (135)
344 KOG2423 Nucleolar GTPase [Gene 71.4 13 0.00029 24.9 4.5 46 9-56 213-258 (572)
345 PRK09435 membrane ATPase/prote 71.4 10 0.00022 24.1 3.9 41 8-56 168-208 (332)
346 TIGR00991 3a0901s02IAP34 GTP-b 70.1 25 0.00055 22.3 6.1 55 9-64 118-175 (313)
347 PRK02261 methylaspartate mutas 69.6 17 0.00036 20.0 4.4 41 9-52 54-94 (137)
348 PF09827 CRISPR_Cas2: CRISPR a 69.3 7.8 0.00017 18.9 2.6 24 12-35 3-26 (78)
349 cd05295 MDH_like Malate dehydr 68.9 15 0.00032 24.5 4.4 49 6-54 196-255 (452)
350 TIGR02370 pyl_corrinoid methyl 68.7 21 0.00045 20.8 4.7 39 13-51 137-176 (197)
351 cd01832 SGNH_hydrolase_like_1 68.5 18 0.00039 20.0 4.6 38 9-49 67-112 (185)
352 KOG0099 G protein subunit Galp 68.1 12 0.00026 23.7 3.6 53 4-56 220-283 (379)
353 PF05783 DLIC: Dynein light in 67.3 14 0.00031 24.7 4.1 24 12-35 103-127 (472)
354 TIGR02836 spore_IV_A stage IV 67.1 23 0.00051 23.9 4.9 42 9-53 144-191 (492)
355 COG0523 Putative GTPases (G3E 66.9 30 0.00065 22.0 5.5 42 10-57 117-160 (323)
356 PRK06756 flavodoxin; Provision 66.3 19 0.00042 19.6 4.2 44 7-50 47-91 (148)
357 TIGR01757 Malate-DH_plant mala 65.4 14 0.00031 24.1 3.7 49 6-54 117-175 (387)
358 PRK09489 rsmC 16S ribosomal RN 65.1 33 0.00072 21.8 5.4 42 9-54 76-117 (342)
359 PRK15029 arginine decarboxylas 64.2 23 0.00049 25.2 4.7 44 9-53 53-96 (755)
360 cd01338 MDH_choloroplast_like 63.8 23 0.00049 22.4 4.3 49 6-54 75-133 (322)
361 PF01656 CbiA: CobQ/CobB/MinD/ 63.8 24 0.00051 19.7 4.2 50 6-56 113-162 (195)
362 COG4502 5'(3')-deoxyribonucleo 63.7 20 0.00044 20.5 3.7 41 11-52 85-125 (180)
363 COG0370 FeoB Fe2+ transport sy 63.5 19 0.0004 25.3 4.1 46 9-60 81-126 (653)
364 COG0420 SbcD DNA repair exonuc 63.0 21 0.00046 22.8 4.2 45 9-53 40-86 (390)
365 KOG3905 Dynein light intermedi 62.4 21 0.00045 23.4 4.0 26 12-37 130-156 (473)
366 PRK14719 bifunctional RNAse/5- 61.9 19 0.00042 23.2 3.8 35 20-55 2-36 (360)
367 PF10995 DUF2819: Protein of u 61.4 40 0.00087 21.5 5.9 47 8-54 102-148 (316)
368 cd08166 MPP_Cdc1_like_1 unchar 59.9 34 0.00073 20.2 5.6 61 8-68 41-107 (195)
369 PRK15478 cbiH cobalt-precorrin 59.8 36 0.00078 20.5 5.4 44 8-51 150-193 (241)
370 TIGR01756 LDH_protist lactate 59.8 27 0.00058 22.0 4.2 49 6-54 57-115 (313)
371 COG1435 Tdk Thymidine kinase [ 59.7 35 0.00077 20.4 4.4 39 32-70 99-138 (201)
372 cd01339 LDH-like_MDH L-lactate 59.2 34 0.00073 21.1 4.5 47 7-54 64-120 (300)
373 cd07393 MPP_DR1119 Deinococcus 59.0 27 0.00059 20.6 4.0 41 9-51 41-81 (232)
374 cd05294 LDH-like_MDH_nadp A la 58.5 43 0.00093 20.9 4.9 47 7-54 70-126 (309)
375 cd01899 Ygr210 Ygr210 subfamil 58.2 29 0.00063 21.9 4.1 16 6-21 96-111 (318)
376 cd02070 corrinoid_protein_B12- 57.7 36 0.00078 19.8 4.7 39 14-52 136-175 (201)
377 PLN00112 malate dehydrogenase 57.4 22 0.00049 23.6 3.7 49 6-54 173-231 (444)
378 KOG0460 Mitochondrial translat 57.2 36 0.00079 22.4 4.4 41 10-56 141-184 (449)
379 cd01853 Toc34_like Toc34-like 56.9 42 0.00091 20.4 4.7 47 9-56 114-163 (249)
380 PLN00135 malate dehydrogenase 56.5 40 0.00086 21.2 4.5 50 5-54 54-113 (309)
381 COG2895 CysN GTPases - Sulfate 56.1 57 0.0012 21.6 5.9 48 9-59 109-156 (431)
382 PRK11148 cyclic 3',5'-adenosin 56.1 24 0.00052 21.4 3.5 40 9-51 55-95 (275)
383 cd01844 SGNH_hydrolase_like_6 55.7 34 0.00075 19.0 5.7 43 9-52 57-103 (177)
384 PRK05569 flavodoxin; Provision 55.2 32 0.00069 18.4 4.0 44 7-50 46-91 (141)
385 KOG0448 Mitofusin 1 GTPase, in 55.1 46 0.001 23.8 4.9 49 4-56 227-275 (749)
386 cd00704 MDH Malate dehydrogena 54.6 39 0.00085 21.3 4.3 50 5-54 72-131 (323)
387 KOG0467 Translation elongation 53.7 27 0.00059 25.2 3.7 51 8-65 94-148 (887)
388 TIGR01753 flav_short flavodoxi 53.6 33 0.00071 18.1 4.0 44 7-50 43-88 (140)
389 TIGR01759 MalateDH-SF1 malate 53.4 45 0.00098 21.1 4.4 49 6-54 76-134 (323)
390 COG1217 TypA Predicted membran 52.3 29 0.00063 23.8 3.5 47 9-59 91-137 (603)
391 cd07399 MPP_YvnB Bacillus subt 52.3 29 0.00064 20.3 3.3 43 9-51 35-79 (214)
392 KOG0458 Elongation factor 1 al 52.2 25 0.00055 24.4 3.3 53 9-64 278-337 (603)
393 PTZ00235 DNA polymerase epsilo 50.4 32 0.00069 21.7 3.3 42 13-54 30-76 (291)
394 TIGR03369 cellulose_bcsE cellu 50.1 67 0.0015 20.6 5.8 48 8-55 107-154 (322)
395 KOG0410 Predicted GTP binding 49.9 32 0.00069 22.5 3.3 49 8-56 256-308 (410)
396 TIGR03566 FMN_reduc_MsuE FMN r 49.4 45 0.00097 18.7 3.7 9 8-16 67-75 (174)
397 PF13124 DUF3963: Protein of u 48.9 22 0.00049 15.2 1.8 14 23-36 11-24 (40)
398 cd02117 NifH_like This family 48.8 52 0.0011 19.0 7.3 47 8-55 140-188 (212)
399 PF12327 FtsZ_C: FtsZ family, 48.5 38 0.00083 17.4 5.6 49 4-53 30-78 (95)
400 cd01611 GABARAP Ubiquitin doma 47.3 45 0.00097 17.9 3.3 33 22-54 4-37 (112)
401 TIGR01771 L-LDH-NAD L-lactate 47.3 37 0.00081 21.2 3.4 48 6-54 61-118 (299)
402 cd00300 LDH_like L-lactate deh 47.0 39 0.00085 21.0 3.4 48 6-54 63-120 (300)
403 PF11185 DUF2971: Protein of u 46.9 17 0.00037 17.5 1.6 17 2-18 1-17 (90)
404 PTZ00380 microtubule-associate 46.7 48 0.001 18.2 3.3 27 22-48 7-33 (121)
405 KOG1486 GTP-binding protein DR 45.8 47 0.001 21.1 3.5 25 42-71 238-262 (364)
406 cd05292 LDH_2 A subgroup of L- 45.6 51 0.0011 20.6 3.8 47 7-54 65-121 (308)
407 PF00072 Response_reg: Respons 45.5 39 0.00085 16.7 4.5 40 10-54 44-83 (112)
408 PRK10463 hydrogenase nickel in 45.3 17 0.00036 22.8 1.6 14 43-56 231-244 (290)
409 KOG3662 Cell division control 44.9 92 0.002 20.8 5.0 64 5-68 89-157 (410)
410 PF00319 SRF-TF: SRF-type tran 44.3 25 0.00054 16.1 1.8 15 7-21 30-44 (51)
411 PRK11340 phosphodiesterase Yae 44.2 44 0.00095 20.3 3.3 42 9-51 80-122 (271)
412 TIGR01763 MalateDH_bact malate 43.8 80 0.0017 19.7 4.5 47 7-54 67-123 (305)
413 PRK05442 malate dehydrogenase; 43.7 84 0.0018 20.0 5.1 49 6-54 77-135 (326)
414 KOG1496 Malate dehydrogenase [ 43.6 76 0.0016 20.0 4.2 49 6-54 77-135 (332)
415 COG0378 HypB Ni2+-binding GTPa 43.5 20 0.00044 21.4 1.7 22 46-67 146-167 (202)
416 cd02036 MinD Bacterial cell di 43.2 57 0.0012 17.8 5.5 47 6-55 81-127 (179)
417 cd00840 MPP_Mre11_N Mre11 nucl 42.9 60 0.0013 18.5 3.6 43 9-51 41-86 (223)
418 cd00650 LDH_MDH_like NAD-depen 42.7 41 0.00088 20.3 3.0 48 6-54 67-124 (263)
419 cd07388 MPP_Tt1561 Thermus the 42.5 75 0.0016 19.1 4.0 43 8-53 30-73 (224)
420 PRK15045 cellulose biosynthesi 42.5 1.1E+02 0.0024 21.0 5.8 48 8-55 255-302 (519)
421 cd02069 methionine_synthase_B1 42.4 73 0.0016 18.9 4.3 37 13-50 141-177 (213)
422 COG1358 RPL8A Ribosomal protei 41.9 38 0.00082 18.3 2.5 42 9-56 43-84 (116)
423 PRK06223 malate dehydrogenase; 41.7 65 0.0014 19.8 3.8 47 7-54 68-124 (307)
424 cd05291 HicDH_like L-2-hydroxy 41.6 73 0.0016 19.7 4.0 47 7-54 66-122 (306)
425 cd00838 MPP_superfamily metall 41.2 49 0.0011 16.5 3.1 42 8-50 25-67 (131)
426 KOG2485 Conserved ATP/GTP bind 41.2 56 0.0012 21.1 3.4 43 8-56 45-87 (335)
427 PF08630 Dfp1_Him1_M: Dfp1/Him 41.1 8.9 0.00019 21.1 0.0 25 5-31 74-98 (125)
428 PF12850 Metallophos_2: Calcin 40.5 59 0.0013 17.3 3.8 15 8-22 24-38 (156)
429 PRK06242 flavodoxin; Provision 40.2 62 0.0013 17.4 3.7 42 7-50 41-82 (150)
430 PF00701 DHDPS: Dihydrodipicol 39.8 89 0.0019 19.1 4.8 40 8-49 95-134 (289)
431 TIGR03371 cellulose_yhjQ cellu 39.7 78 0.0017 18.5 5.0 50 5-55 132-181 (246)
432 COG3584 Uncharacterized protei 39.6 10 0.00022 20.4 0.1 22 46-70 81-102 (109)
433 PRK09602 translation-associate 39.5 63 0.0014 21.1 3.6 14 7-20 100-113 (396)
434 TIGR00640 acid_CoA_mut_C methy 39.5 66 0.0014 17.6 4.9 39 14-52 56-94 (132)
435 KOG0085 G protein subunit Galp 39.4 48 0.001 20.8 2.9 17 41-57 265-281 (359)
436 TIGR01758 MDH_euk_cyt malate d 39.3 89 0.0019 19.8 4.2 50 5-54 71-130 (324)
437 PF03641 Lysine_decarbox: Poss 39.0 66 0.0014 17.4 4.9 44 6-51 50-93 (133)
438 PF11232 Med25: Mediator compl 38.8 67 0.0014 18.3 3.2 28 3-32 68-95 (152)
439 PRK07308 flavodoxin; Validated 38.8 67 0.0014 17.4 4.1 43 8-50 47-90 (146)
440 KOG2455 Delta-1-pyrroline-5-ca 38.7 42 0.0009 22.8 2.7 37 17-56 386-422 (561)
441 cd05293 LDH_1 A subgroup of L- 38.6 37 0.0008 21.3 2.4 48 6-54 68-125 (312)
442 TIGR03677 rpl7ae 50S ribosomal 38.6 46 0.001 17.8 2.5 16 41-56 68-83 (117)
443 cd07402 MPP_GpdQ Enterobacter 38.6 76 0.0016 18.4 3.7 40 9-51 40-80 (240)
444 KOG1752 Glutaredoxin and relat 38.3 64 0.0014 17.0 3.2 35 16-52 43-77 (104)
445 KOG2486 Predicted GTPase [Gene 37.9 34 0.00074 21.8 2.1 15 41-55 247-261 (320)
446 TIGR03729 acc_ester putative p 37.7 86 0.0019 18.5 3.8 40 8-51 31-71 (239)
447 PF00056 Ldh_1_N: lactate/mala 37.5 50 0.0011 18.1 2.6 49 5-54 65-123 (141)
448 PRK10569 NAD(P)H-dependent FMN 37.0 76 0.0017 18.4 3.4 11 7-17 64-74 (191)
449 TIGR00381 cdhD CO dehydrogenas 36.9 73 0.0016 21.1 3.5 43 8-50 152-196 (389)
450 PF00532 Peripla_BP_1: Peripla 36.9 50 0.0011 20.0 2.8 38 8-55 55-92 (279)
451 TIGR01573 cas2 CRISPR-associat 36.8 63 0.0014 16.5 3.5 10 13-22 3-12 (95)
452 TIGR01772 MDH_euk_gproteo mala 36.5 79 0.0017 20.0 3.6 49 5-54 63-121 (312)
453 PF08309 LVIVD: LVIVD repeat; 36.1 19 0.00042 15.7 0.7 13 12-24 21-33 (42)
454 PF01653 DNA_ligase_aden: NAD- 36.0 42 0.00091 21.2 2.4 40 14-53 77-116 (315)
455 TIGR01007 eps_fam capsular exo 35.8 87 0.0019 17.9 6.1 47 7-56 148-194 (204)
456 PRK12399 tagatose 1,6-diphosph 35.7 1.2E+02 0.0026 19.6 4.3 36 13-48 124-161 (324)
457 PF06490 FleQ: Flagellar regul 35.4 71 0.0015 16.7 4.6 25 29-54 57-81 (109)
458 PRK00066 ldh L-lactate dehydro 35.2 1.1E+02 0.0023 19.3 4.1 48 6-54 70-127 (315)
459 COG0252 AnsB L-asparaginase/ar 34.7 1.2E+02 0.0025 19.8 4.2 39 10-54 101-139 (351)
460 cd01840 SGNH_hydrolase_yrhL_li 34.2 82 0.0018 17.1 5.5 39 9-51 50-88 (150)
461 PRK04161 tagatose 1,6-diphosph 34.0 1.3E+02 0.0029 19.4 4.3 36 13-48 126-163 (329)
462 PRK13957 indole-3-glycerol-pho 33.9 52 0.0011 20.2 2.5 26 4-29 119-144 (247)
463 PF05193 Peptidase_M16_C: Pept 33.7 51 0.0011 17.7 2.3 27 24-52 3-29 (184)
464 cd01835 SGNH_hydrolase_like_3 33.6 91 0.002 17.4 5.0 42 9-50 69-119 (193)
465 PRK13660 hypothetical protein; 33.5 1E+02 0.0022 18.0 6.2 38 8-48 128-166 (182)
466 PF00462 Glutaredoxin: Glutare 33.4 53 0.0012 14.7 2.6 38 8-51 20-58 (60)
467 PRK13556 azoreductase; Provisi 33.4 1E+02 0.0022 17.9 4.4 33 6-38 86-118 (208)
468 PF02310 B12-binding: B12 bind 33.3 75 0.0016 16.3 4.7 35 15-50 55-89 (121)
469 COG1343 CRISPR-associated prot 33.1 76 0.0017 16.4 3.5 11 13-23 3-13 (89)
470 TIGR02181 GRX_bact Glutaredoxi 32.8 63 0.0014 15.3 2.5 12 41-52 48-59 (79)
471 PHA02763 hypothetical protein; 32.8 64 0.0014 16.7 2.3 17 23-39 65-81 (102)
472 PF13462 Thioredoxin_4: Thiore 32.8 85 0.0018 16.8 4.1 41 26-69 120-160 (162)
473 KOG1036 Mitotic spindle checkp 32.7 36 0.00079 21.7 1.7 24 8-31 250-273 (323)
474 PF00158 Sigma54_activat: Sigm 32.7 98 0.0021 17.5 3.5 22 29-50 9-30 (168)
475 cd08578 GDPD_NUC-2_fungi Putat 32.5 1.3E+02 0.0029 19.0 5.2 17 55-71 224-240 (300)
476 cd07400 MPP_YydB Bacillus subt 32.1 85 0.0018 16.6 4.3 28 8-35 34-64 (144)
477 PF00149 Metallophos: Calcineu 32.1 79 0.0017 16.2 4.3 21 8-28 30-50 (200)
478 TIGR01968 minD_bact septum sit 32.0 1.1E+02 0.0024 17.9 5.6 45 7-54 131-175 (261)
479 cd01336 MDH_cytoplasmic_cytoso 31.8 1.2E+02 0.0025 19.3 3.8 49 6-54 75-133 (325)
480 KOG3887 Predicted small GTPase 31.7 1.4E+02 0.003 19.0 4.4 49 5-54 97-147 (347)
481 PF05577 Peptidase_S28: Serine 31.5 1.1E+02 0.0023 19.9 3.8 32 19-50 87-120 (434)
482 smart00432 MADS MADS domain. 31.4 51 0.0011 15.5 1.8 16 7-22 37-52 (59)
483 PTZ00082 L-lactate dehydrogena 31.4 1.2E+02 0.0026 19.2 3.8 48 6-54 71-133 (321)
484 cd02042 ParA ParA and ParB of 31.3 76 0.0016 15.8 5.3 27 6-33 58-84 (104)
485 PF09419 PGP_phosphatase: Mito 31.3 1.1E+02 0.0024 17.6 6.5 61 7-70 36-103 (168)
486 PRK11537 putative GTP-binding 31.3 1.4E+02 0.003 18.9 4.4 11 46-56 154-164 (318)
487 TIGR01232 lacD tagatose 1,6-di 30.7 1.5E+02 0.0033 19.1 4.3 37 13-49 125-163 (325)
488 PF06582 DUF1136: Repeat of un 30.1 47 0.001 13.2 1.3 16 16-31 2-17 (28)
489 COG0647 NagD Predicted sugar p 29.7 72 0.0016 19.8 2.6 41 6-53 11-51 (269)
490 COG0329 DapA Dihydrodipicolina 29.5 1.5E+02 0.0032 18.6 6.2 58 9-70 99-156 (299)
491 KOG1143 Predicted translation 29.5 79 0.0017 21.3 2.8 17 41-57 302-318 (591)
492 COG3253 ywfI Predicted heme pe 29.4 1.4E+02 0.0031 18.3 4.8 43 13-56 180-224 (230)
493 cd00120 MADS MADS: MCM1, Agamo 29.0 65 0.0014 15.1 1.9 16 7-22 37-52 (59)
494 PTZ00325 malate dehydrogenase; 28.8 1.3E+02 0.0028 19.1 3.7 49 5-54 72-130 (321)
495 PRK06703 flavodoxin; Provision 28.8 1.1E+02 0.0023 16.7 4.0 44 7-50 46-90 (151)
496 PF10087 DUF2325: Uncharacteri 28.7 89 0.0019 15.8 3.8 38 5-48 44-81 (97)
497 PF12757 DUF3812: Protein of u 28.7 45 0.00098 18.2 1.5 24 48-71 57-80 (126)
498 COG2179 Predicted hydrolase of 28.7 1E+02 0.0022 18.1 2.9 28 22-52 45-72 (175)
499 PF08438 MMR_HSR1_C: GTPase of 28.3 24 0.00052 18.9 0.3 8 48-55 1-8 (109)
500 TIGR00993 3a0901s04IAP86 chlor 28.3 2.4E+02 0.0052 20.6 5.9 56 9-64 201-263 (763)
No 1
>KOG0084 consensus GTPase Rab1/YPT1, small G protein superfamily, and related GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.93 E-value=3.1e-26 Score=130.61 Aligned_cols=71 Identities=41% Similarity=0.674 Sum_probs=67.7
Q ss_pred CcccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 1 AITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 1 sl~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+++.+|||+|||+|+|||+|+++||+++..|+.+++.+...++|++|||||+|+.+.+.|+.++|+.||.+
T Consensus 73 tit~syYR~ahGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~~ 143 (205)
T KOG0084|consen 73 TITSSYYRGAHGIIFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLTEKRVVSTEEAQEFADE 143 (205)
T ss_pred hhhHhhccCCCeEEEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccHhheecCHHHHHHHHHh
Confidence 47789999999999999999999999999999999999988999999999999999999999999999864
No 2
>KOG0078 consensus GTP-binding protein SEC4, small G protein superfamily, and related Ras family GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.91 E-value=1e-24 Score=125.37 Aligned_cols=71 Identities=44% Similarity=0.785 Sum_probs=67.8
Q ss_pred CcccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 1 AITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 1 sl~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
++++.|||+|+|+++|||+++..||+++..|++.+.++.+.++|++|||||+|+.++|+|+.+.++++|++
T Consensus 76 ti~~sYyrgA~gi~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e 146 (207)
T KOG0078|consen 76 TITTAYYRGAMGILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLEEKRQVSKERGEALARE 146 (207)
T ss_pred HHHHHHHhhcCeeEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeeccccccccccccHHHHHHHHHH
Confidence 36789999999999999999999999999999999999988999999999999999999999999999975
No 3
>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.91 E-value=1.1e-24 Score=123.78 Aligned_cols=71 Identities=49% Similarity=0.803 Sum_probs=68.0
Q ss_pred CcccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 1 AITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 1 sl~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
|+++.|||+|.|++||||+++++||+++..|+.+++++..+++.++|+|||+||...|.|+.||+++||++
T Consensus 70 sv~~syYr~a~GalLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~~rR~Vs~EEGeaFA~e 140 (216)
T KOG0098|consen 70 SVTRSYYRGAAGALLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLEARREVSKEEGEAFARE 140 (216)
T ss_pred HHHHHHhccCcceEEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhhccccccHHHHHHHHHH
Confidence 46789999999999999999999999999999999999889999999999999999999999999999986
No 4
>KOG0092 consensus GTPase Rab5/YPT51 and related small G protein superfamily GTPases [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.91 E-value=1.9e-24 Score=122.93 Aligned_cols=71 Identities=41% Similarity=0.682 Sum_probs=68.1
Q ss_pred CcccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 1 AITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 1 sl~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+|.|+|||+|+++|+|||+++.+||..++.|++++++..++++.+.|||||+||.+.|+|..+|+..+|.+
T Consensus 69 slapMYyRgA~AAivvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~~~R~V~~~ea~~yAe~ 139 (200)
T KOG0092|consen 69 SLAPMYYRGANAAIVVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLLERREVEFEEAQAYAES 139 (200)
T ss_pred ccccceecCCcEEEEEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhhhcccccHHHHHHHHHh
Confidence 57899999999999999999999999999999999999888999999999999999999999999999975
No 5
>KOG0087 consensus GTPase Rab11/YPT3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.91 E-value=3.3e-24 Score=123.42 Aligned_cols=71 Identities=68% Similarity=0.995 Sum_probs=68.1
Q ss_pred CcccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 1 AITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 1 sl~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
++++.|||+|.|+++|||++.+.+|+++.+|+.+++.+.+++++++|||||+||.+.|.|+.+++..+|++
T Consensus 78 AitSaYYrgAvGAllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~~lraV~te~~k~~Ae~ 148 (222)
T KOG0087|consen 78 AITSAYYRGAVGALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLNHLRAVPTEDGKAFAEK 148 (222)
T ss_pred cccchhhcccceeEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhhhccccchhhhHhHHHh
Confidence 46789999999999999999999999999999999999999999999999999999999999999999974
No 6
>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]
Probab=99.90 E-value=9.9e-24 Score=117.90 Aligned_cols=71 Identities=38% Similarity=0.668 Sum_probs=67.7
Q ss_pred CcccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 1 AITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 1 sl~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+|.|.|||+++|+++|||++|+.||+.++.|..+++...+..+.+++||||+||.++|.|+.+|++.+|++
T Consensus 77 ALGPIYYRgSnGalLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEeeR~Vt~qeAe~YAes 147 (218)
T KOG0088|consen 77 ALGPIYYRGSNGALLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEEERQVTRQEAEAYAES 147 (218)
T ss_pred ccCceEEeCCCceEEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHHhhhhhHHHHHHHHHh
Confidence 46799999999999999999999999999999999999888999999999999999999999999999875
No 7
>KOG0093 consensus GTPase Rab3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.88 E-value=8.4e-23 Score=112.92 Aligned_cols=70 Identities=33% Similarity=0.598 Sum_probs=65.8
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
++..|||+|+|+|+|||++|.+||+.++.|..++..+.-.++|+++|||||||.++|.++.|.++.+++.
T Consensus 86 iTTayyRgamgfiLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd~eRvis~e~g~~l~~~ 155 (193)
T KOG0093|consen 86 ITTAYYRGAMGFILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMDSERVISHERGRQLADQ 155 (193)
T ss_pred HHHHHhhccceEEEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCccceeeeHHHHHHHHHH
Confidence 6788999999999999999999999999999999888768999999999999999999999999998864
No 8
>KOG0080 consensus GTPase Rab18, small G protein superfamily [General function prediction only]
Probab=99.87 E-value=1.5e-22 Score=113.31 Aligned_cols=71 Identities=42% Similarity=0.601 Sum_probs=66.8
Q ss_pred CcccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 1 AITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 1 sl~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+|+++|||+|.|+|+|||++.+++|..+..|++++..+.. +++..++||||+|-..+|.|+.+|+.+||++
T Consensus 75 tLTpSyyRgaqGiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~reEG~kfAr~ 146 (209)
T KOG0080|consen 75 TLTPSYYRGAQGIILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDREEGLKFARK 146 (209)
T ss_pred ccCHhHhccCceeEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccHHHHHHHHHh
Confidence 5889999999999999999999999999999999988875 6788999999999988999999999999986
No 9
>KOG0094 consensus GTPase Rab6/YPT6/Ryh1, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.86 E-value=1e-21 Score=112.38 Aligned_cols=71 Identities=37% Similarity=0.675 Sum_probs=66.0
Q ss_pred CcccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCC-CCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 1 AITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGS-NIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 1 sl~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+|.|.|+|++.++|+|||++++.||+++.+|++.++...++ ++.++|||||.||.++|+++.+|+...|++
T Consensus 86 slipsY~Rds~vaviVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eEg~~kAke 157 (221)
T KOG0094|consen 86 SLIPSYIRDSSVAVIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEEGERKAKE 157 (221)
T ss_pred hhhhhhccCCeEEEEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhHHHHHHHHHH
Confidence 57899999999999999999999999999999999887765 588999999999999999999999988874
No 10
>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.85 E-value=1.4e-21 Score=108.85 Aligned_cols=70 Identities=43% Similarity=0.677 Sum_probs=67.1
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
.++.|||+|.|.++|||+++++||+.+..|+..++...++++.++|+|||.||.++|+|+..|+.+||++
T Consensus 74 VtRsYYRGAAGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~~~R~VtflEAs~FaqE 143 (214)
T KOG0086|consen 74 VTRSYYRGAAGALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQE 143 (214)
T ss_pred HHHHHhccccceEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcChhhhhhHHHHHhhhcc
Confidence 5689999999999999999999999999999999999889999999999999999999999999999975
No 11
>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=99.85 E-value=5.7e-21 Score=110.56 Aligned_cols=70 Identities=36% Similarity=0.576 Sum_probs=64.0
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+++.||+++||+++|||+++++||+.+..|++.+++....++|+++||||+||..++.++.+++.++|++
T Consensus 65 l~~~y~~~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~a~~ 134 (202)
T cd04120 65 ITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREISRQQGEKFAQQ 134 (202)
T ss_pred HHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHh
Confidence 5788999999999999999999999999999988877667899999999999988899999999988853
No 12
>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]
Probab=99.85 E-value=2.2e-21 Score=107.47 Aligned_cols=69 Identities=38% Similarity=0.648 Sum_probs=64.9
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
|+..||++.+++++|||+++.+||.+++.|++++++.. +.+|.+|||||.|+++.|.|..++|++||..
T Consensus 73 itstyyrgthgv~vVYDVTn~ESF~Nv~rWLeei~~nc-dsv~~vLVGNK~d~~~RrvV~t~dAr~~A~~ 141 (198)
T KOG0079|consen 73 ITSTYYRGTHGVIVVYDVTNGESFNNVKRWLEEIRNNC-DSVPKVLVGNKNDDPERRVVDTEDARAFALQ 141 (198)
T ss_pred HHHHHccCCceEEEEEECcchhhhHhHHHHHHHHHhcC-ccccceecccCCCCccceeeehHHHHHHHHh
Confidence 56889999999999999999999999999999999887 6899999999999999999999999999864
No 13
>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=99.84 E-value=1e-20 Score=108.55 Aligned_cols=69 Identities=32% Similarity=0.614 Sum_probs=63.6
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+++.||+++|++++|||++++.||+++..|++++.+.. +++|++|||||.||.+.+.++.++++++|++
T Consensus 71 l~~~~~~~ad~illVfD~t~~~Sf~~~~~w~~~i~~~~-~~~piilVGNK~DL~~~~~v~~~~~~~~a~~ 139 (189)
T cd04121 71 IFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHA-PGVPKILVGNRLHLAFKRQVATEQAQAYAER 139 (189)
T ss_pred HHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccchhccCCCHHHHHHHHHH
Confidence 56789999999999999999999999999999997765 6899999999999998899999999999864
No 14
>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=99.83 E-value=3.6e-20 Score=105.26 Aligned_cols=69 Identities=28% Similarity=0.454 Sum_probs=61.4
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCcccc----------cCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENV-SRWLKDLRDHAGSNIVIMLIGNKSDLKHLL----------NSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~----------~v~~~e~~~~a~ 70 (72)
+++.||++++++++|||+++++||+++ +.|+.++.+.. +++|++|||||+||.+.+ .++.+++.++|+
T Consensus 65 ~~~~~~~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~ 143 (176)
T cd04133 65 LRPLSYRGADVFVLAFSLISRASYENVLKKWVPELRHYA-PNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRK 143 (176)
T ss_pred cchhhcCCCcEEEEEEEcCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHH
Confidence 678899999999999999999999998 78999998765 579999999999997653 589999999987
Q ss_pred c
Q 047889 71 S 71 (72)
Q Consensus 71 ~ 71 (72)
+
T Consensus 144 ~ 144 (176)
T cd04133 144 Q 144 (176)
T ss_pred H
Confidence 5
No 15
>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=99.83 E-value=4.1e-20 Score=105.42 Aligned_cols=69 Identities=19% Similarity=0.447 Sum_probs=61.9
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCcc------------cccCCHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENV-SRWLKDLRDHAGSNIVIMLIGNKSDLKH------------LLNSMCEEYLIK 68 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~vlvgnK~Dl~~------------~~~v~~~e~~~~ 68 (72)
+++.||+++|++++|||++++.||+++ ..|++.+++.. +++|++|||||+||.+ .+.|+.++|.++
T Consensus 69 ~~~~~~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~ 147 (182)
T cd04172 69 VRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANM 147 (182)
T ss_pred hhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHH
Confidence 568899999999999999999999998 89999998875 6799999999999964 357999999999
Q ss_pred Hhc
Q 047889 69 SRS 71 (72)
Q Consensus 69 a~~ 71 (72)
|++
T Consensus 148 a~~ 150 (182)
T cd04172 148 AKQ 150 (182)
T ss_pred HHH
Confidence 975
No 16
>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]
Probab=99.83 E-value=2.2e-20 Score=104.86 Aligned_cols=71 Identities=38% Similarity=0.660 Sum_probs=64.3
Q ss_pred CcccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-C-CCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 1 AITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-S-NIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 1 sl~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~-~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
|++.+|||++-|+++|||++|++||++++.|+++...+.+ + .+...|||+|+||...|+|+.|||+++|++
T Consensus 73 sitksyyrnsvgvllvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EEaEklAa~ 145 (213)
T KOG0091|consen 73 SITKSYYRNSVGVLLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAEEAEKLAAS 145 (213)
T ss_pred HHHHHHhhcccceEEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHHHHHHHHHh
Confidence 5789999999999999999999999999999999877664 4 455789999999999999999999999975
No 17
>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=99.82 E-value=8.5e-20 Score=103.71 Aligned_cols=69 Identities=19% Similarity=0.463 Sum_probs=61.6
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCcc------------cccCCHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENV-SRWLKDLRDHAGSNIVIMLIGNKSDLKH------------LLNSMCEEYLIK 68 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~vlvgnK~Dl~~------------~~~v~~~e~~~~ 68 (72)
+++.||++++++++|||+++++||+++ ..|++.+++.. +++|++|||||+||.+ .+.++.+++.++
T Consensus 65 ~~~~~~~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~~~-~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~ 143 (178)
T cd04131 65 VRPLCYPDSDAVLICFDISRPETLDSVLKKWRGEIQEFC-PNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAI 143 (178)
T ss_pred cchhhcCCCCEEEEEEECCChhhHHHHHHHHHHHHHHHC-CCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHH
Confidence 578899999999999999999999996 89999998875 6799999999999964 356999999999
Q ss_pred Hhc
Q 047889 69 SRS 71 (72)
Q Consensus 69 a~~ 71 (72)
|++
T Consensus 144 a~~ 146 (178)
T cd04131 144 AKQ 146 (178)
T ss_pred HHH
Confidence 975
No 18
>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]
Probab=99.82 E-value=6.2e-21 Score=104.39 Aligned_cols=71 Identities=32% Similarity=0.599 Sum_probs=66.5
Q ss_pred CcccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 1 AITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 1 sl~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
|.+..|||+||+.+++||++++.||++++.|+.++.++....+.+.++|||+|+..+|.|..++++++|+.
T Consensus 62 svt~ayyrda~allllydiankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~er~v~~ddg~kla~~ 132 (192)
T KOG0083|consen 62 SVTHAYYRDADALLLLYDIANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAHERAVKRDDGEKLAEA 132 (192)
T ss_pred hhhHhhhcccceeeeeeecccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccchhhccccchHHHHHHH
Confidence 45678999999999999999999999999999999999888899999999999999999999999999863
No 19
>KOG0395 consensus Ras-related GTPase [General function prediction only]
Probab=99.81 E-value=1.3e-19 Score=104.62 Aligned_cols=70 Identities=31% Similarity=0.470 Sum_probs=63.4
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+...|+++++|+++||+++++.||+.+..+++++.+... ..+|+++||||+||...|.|+.+||.++|+.
T Consensus 67 ~~~~~~~~~~gF~lVysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~eeg~~la~~ 137 (196)
T KOG0395|consen 67 MRDLYIRNGDGFLLVYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLERERQVSEEEGKALARS 137 (196)
T ss_pred HHHHhhccCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchhccccCHHHHHHHHHh
Confidence 567899999999999999999999999999999966554 6789999999999999999999999998764
No 20
>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=99.80 E-value=2.8e-19 Score=105.41 Aligned_cols=69 Identities=22% Similarity=0.424 Sum_probs=61.5
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCcc------------cccCCHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENV-SRWLKDLRDHAGSNIVIMLIGNKSDLKH------------LLNSMCEEYLIK 68 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~vlvgnK~Dl~~------------~~~v~~~e~~~~ 68 (72)
+++.||++|+++++|||+++++||+++ ..|++++.+.. +++|++|||||+||.+ .+.|+.++|.++
T Consensus 77 ~~~~~~~~ad~vIlVyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~ 155 (232)
T cd04174 77 VRPLCYSDSDAVLLCFDISRPETVDSALKKWKAEIMDYC-PSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCAL 155 (232)
T ss_pred HHHHHcCCCcEEEEEEECCChHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHH
Confidence 567899999999999999999999985 89999998765 5789999999999965 378999999999
Q ss_pred Hhc
Q 047889 69 SRS 71 (72)
Q Consensus 69 a~~ 71 (72)
|++
T Consensus 156 a~~ 158 (232)
T cd04174 156 AKQ 158 (232)
T ss_pred HHH
Confidence 975
No 21
>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.80 E-value=1.2e-19 Score=101.68 Aligned_cols=71 Identities=35% Similarity=0.583 Sum_probs=65.0
Q ss_pred CcccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 1 AITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 1 sl~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
||+..|||+|.|++++||+++..||-+++.|+.+++.+. ..+.-||++|||+||.+.|.|+.+++.++|++
T Consensus 82 SLTTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~~La~k 153 (219)
T KOG0081|consen 82 SLTTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAAALADK 153 (219)
T ss_pred HHHHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHHHHHHH
Confidence 467889999999999999999999999999999998875 35677999999999999999999999999875
No 22
>cd01875 RhoG RhoG subfamily. RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-termin
Probab=99.80 E-value=5.4e-19 Score=101.12 Aligned_cols=69 Identities=19% Similarity=0.404 Sum_probs=59.6
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCccc------------ccCCHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVS-RWLKDLRDHAGSNIVIMLIGNKSDLKHL------------LNSMCEEYLIK 68 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~vlvgnK~Dl~~~------------~~v~~~e~~~~ 68 (72)
+++.||+++|++++|||++++.||+.+. .|.+.+.... +++|++|||||.||.+. +.++.+++.++
T Consensus 67 l~~~~~~~a~~~ilvydit~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~ 145 (191)
T cd01875 67 LRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHC-PNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGAL 145 (191)
T ss_pred hhhhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHH
Confidence 6788999999999999999999999996 6988887654 67999999999999754 34788899998
Q ss_pred Hhc
Q 047889 69 SRS 71 (72)
Q Consensus 69 a~~ 71 (72)
|++
T Consensus 146 a~~ 148 (191)
T cd01875 146 AKQ 148 (191)
T ss_pred HHH
Confidence 864
No 23
>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=99.79 E-value=6.4e-19 Score=101.47 Aligned_cols=69 Identities=19% Similarity=0.274 Sum_probs=60.8
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCcc-------------------cccCC
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVS-RWLKDLRDHAGSNIVIMLIGNKSDLKH-------------------LLNSM 61 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~vlvgnK~Dl~~-------------------~~~v~ 61 (72)
+++.||+++|++++|||++++.||+++. .|++.+.... +++|+++||||+||.+ .+.|+
T Consensus 80 ~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~ 158 (195)
T cd01873 80 DRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFC-PRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILP 158 (195)
T ss_pred hhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhccccccchhhhcccccccccccCCccC
Confidence 4567999999999999999999999996 6999887765 5789999999999964 47899
Q ss_pred HHHHHHHHhc
Q 047889 62 CEEYLIKSRS 71 (72)
Q Consensus 62 ~~e~~~~a~~ 71 (72)
.++|.++|++
T Consensus 159 ~~e~~~~a~~ 168 (195)
T cd01873 159 PETGRAVAKE 168 (195)
T ss_pred HHHHHHHHHH
Confidence 9999999975
No 24
>PTZ00099 rab6; Provisional
Probab=99.79 E-value=1.1e-18 Score=99.14 Aligned_cols=69 Identities=35% Similarity=0.725 Sum_probs=61.7
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+++.||++||++++|||++++.||+.+..|+..+......++|++|||||+||...+.+..+++..+++
T Consensus 45 ~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~e~~~~~~ 113 (176)
T PTZ00099 45 LIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLRKVTYEEGMQKAQ 113 (176)
T ss_pred ccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccCCCHHHHHHHHH
Confidence 567899999999999999999999999999999876655679999999999998778899989888775
No 25
>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=99.79 E-value=9.9e-19 Score=97.59 Aligned_cols=70 Identities=44% Similarity=0.746 Sum_probs=63.2
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+++.||++++++++|||+++++||+.+..|++.+.....++.|+++||||+|+...+.++.+++.+++++
T Consensus 67 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~ 136 (166)
T cd04122 67 VTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEAKQFADE 136 (166)
T ss_pred HHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCcCHHHHHHHHHH
Confidence 3567999999999999999999999999999998777667899999999999998889999999988864
No 26
>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=99.79 E-value=8.8e-19 Score=97.12 Aligned_cols=70 Identities=30% Similarity=0.579 Sum_probs=64.6
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+++.+++++|++++|||+++++||+.+..|++.+....+.++|++|+|||.|+.+.+.++.+++.++|++
T Consensus 64 ~~~~~~~~~~~~ii~fd~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~~~~v~~~~~~~~~~~ 133 (162)
T PF00071_consen 64 LRDIFYRNSDAIIIVFDVTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLSDEREVSVEEAQEFAKE 133 (162)
T ss_dssp HHHHHHTTESEEEEEEETTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGGGSSSCHHHHHHHHHH
T ss_pred cccccccccccccccccccccccccccccccccccccccccccceeeeccccccccccchhhHHHHHHHH
Confidence 3467899999999999999999999999999999988766799999999999999999999999999875
No 27
>cd04117 Rab15 Rab15 subfamily. Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to
Probab=99.78 E-value=1.9e-18 Score=96.38 Aligned_cols=70 Identities=30% Similarity=0.538 Sum_probs=63.3
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+++.|++++|++++|||+++++||+.+..|++.+.+....++|+++||||.|+.+.+.++.+++..+++.
T Consensus 65 ~~~~~~~~~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~ 134 (161)
T cd04117 65 ITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQGNKLAKE 134 (161)
T ss_pred hHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHH
Confidence 4578999999999999999999999999999999877656799999999999998899999999988864
No 28
>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign
Probab=99.78 E-value=1.4e-18 Score=97.99 Aligned_cols=70 Identities=27% Similarity=0.397 Sum_probs=62.6
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+++.||++++++++|||++++.||+.+..|...+.+.. ..++|+++||||+|+.+.+.++.+++.+++++
T Consensus 66 l~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~a~~ 136 (172)
T cd04141 66 MRDQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQRQVTTEEGRNLARE 136 (172)
T ss_pred HhHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcCccCHHHHHHHHHH
Confidence 56889999999999999999999999999988887654 36799999999999988889999999998864
No 29
>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=99.78 E-value=1.8e-18 Score=101.29 Aligned_cols=70 Identities=27% Similarity=0.420 Sum_probs=62.3
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc-------------------cccCCH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH-------------------LLNSMC 62 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~-------------------~~~v~~ 62 (72)
+++.||++++++|+|||+++++||+.+..|+..+.+....++|++|||||+||.+ .|.|+.
T Consensus 60 l~~~~~~~ad~~IlV~Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~ 139 (220)
T cd04126 60 LGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTL 139 (220)
T ss_pred hHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccccccccccccccccccccCCH
Confidence 4678999999999999999999999999888887766556799999999999976 689999
Q ss_pred HHHHHHHhc
Q 047889 63 EEYLIKSRS 71 (72)
Q Consensus 63 ~e~~~~a~~ 71 (72)
+++.++|++
T Consensus 140 ~e~~~~a~~ 148 (220)
T cd04126 140 EDAKAFYKR 148 (220)
T ss_pred HHHHHHHHH
Confidence 999999875
No 30
>KOG0095 consensus GTPase Rab30, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.78 E-value=4.3e-19 Score=98.69 Aligned_cols=70 Identities=30% Similarity=0.518 Sum_probs=65.8
Q ss_pred CcccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 1 AITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 1 sl~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
|++.+|||.|+++|++||++-..||+-++.|+.++.++....+..++||||.|+.+.|+|+.+-+++|++
T Consensus 71 sitqsyyrsahalilvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~drrevp~qigeefs~ 140 (213)
T KOG0095|consen 71 SITQSYYRSAHALILVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLADRREVPQQIGEEFSE 140 (213)
T ss_pred HHHHHHhhhcceEEEEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchhhhhhhhHHHHHHHHH
Confidence 4678999999999999999999999999999999999988889999999999999999999999998875
No 31
>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=99.77 E-value=1.5e-18 Score=100.49 Aligned_cols=63 Identities=25% Similarity=0.418 Sum_probs=55.0
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-------------------CCCCeEEEEeeCCCCcccccCCH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-------------------GSNIVIMLIGNKSDLKHLLNSMC 62 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-------------------~~~~~~vlvgnK~Dl~~~~~v~~ 62 (72)
+++.||++++++|+|||+++++||+++..|++++.+.. +.++|++|||||+|+.++|.+..
T Consensus 70 l~~~~yr~ad~iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r~~~~ 149 (202)
T cd04102 70 TRAVFYNQVNGIILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEKESSG 149 (202)
T ss_pred HHHHHhCcCCEEEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhcccch
Confidence 56789999999999999999999999999999987631 24699999999999988887776
Q ss_pred HH
Q 047889 63 EE 64 (72)
Q Consensus 63 ~e 64 (72)
++
T Consensus 150 ~~ 151 (202)
T cd04102 150 NL 151 (202)
T ss_pred HH
Confidence 64
No 32
>PLN00023 GTP-binding protein; Provisional
Probab=99.76 E-value=4.9e-18 Score=103.98 Aligned_cols=70 Identities=17% Similarity=0.326 Sum_probs=60.0
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC------------CCCeEEEEeeCCCCcccc---c---CCHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG------------SNIVIMLIGNKSDLKHLL---N---SMCE 63 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~------------~~~~~vlvgnK~Dl~~~~---~---v~~~ 63 (72)
+++.||++++++|+|||+++++||+++..|++.+..... .++|++|||||+||..++ . +..+
T Consensus 99 L~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~~~~r~~s~~~~e 178 (334)
T PLN00023 99 CRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPKEGTRGSSGNLVD 178 (334)
T ss_pred hhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECccccccccccccccccHH
Confidence 678899999999999999999999999999999987631 258999999999997643 3 4688
Q ss_pred HHHHHHhc
Q 047889 64 EYLIKSRS 71 (72)
Q Consensus 64 e~~~~a~~ 71 (72)
+++++|++
T Consensus 179 ~a~~~A~~ 186 (334)
T PLN00023 179 AARQWVEK 186 (334)
T ss_pred HHHHHHHH
Confidence 99999875
No 33
>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=99.76 E-value=5.2e-18 Score=95.97 Aligned_cols=69 Identities=22% Similarity=0.378 Sum_probs=59.6
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCccc------------ccCCHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVS-RWLKDLRDHAGSNIVIMLIGNKSDLKHL------------LNSMCEEYLIK 68 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~vlvgnK~Dl~~~------------~~v~~~e~~~~ 68 (72)
+++.||+++|++++|||+++++||+.+. .|...+.... +++|+++||||+|+... +.++.+++.++
T Consensus 65 ~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~ 143 (175)
T cd01874 65 LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKL 143 (175)
T ss_pred hhhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHH
Confidence 5678999999999999999999999996 6998887654 57999999999998653 67889999988
Q ss_pred Hhc
Q 047889 69 SRS 71 (72)
Q Consensus 69 a~~ 71 (72)
+++
T Consensus 144 a~~ 146 (175)
T cd01874 144 ARD 146 (175)
T ss_pred HHH
Confidence 764
No 34
>KOG0394 consensus Ras-related GTPase [General function prediction only]
Probab=99.76 E-value=3.2e-18 Score=97.41 Aligned_cols=71 Identities=30% Similarity=0.491 Sum_probs=62.6
Q ss_pred CcccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC----CCCeEEEEeeCCCCcc--cccCCHHHHHHHHhc
Q 047889 1 AITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG----SNIVIMLIGNKSDLKH--LLNSMCEEYLIKSRS 71 (72)
Q Consensus 1 sl~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~----~~~~~vlvgnK~Dl~~--~~~v~~~e~~~~a~~ 71 (72)
||.-.|||+||+++++||++++.||+++..|.+++....+ ...|.||+|||+|+.+ .|+|+.+.|.+||++
T Consensus 73 sLg~aFYRgaDcCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s 149 (210)
T KOG0394|consen 73 SLGVAFYRGADCCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKS 149 (210)
T ss_pred hcccceecCCceEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHHh
Confidence 4667899999999999999999999999999999765543 4589999999999976 399999999999975
No 35
>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.75 E-value=2e-18 Score=95.51 Aligned_cols=70 Identities=44% Similarity=0.748 Sum_probs=66.2
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
.+++|||++.|.++|||++.+++++++..|+...+....++..++++|||.||...|.|+.+|+++||.+
T Consensus 76 vtrsyyrgaagalmvyditrrstynhlsswl~dar~ltnpnt~i~lignkadle~qrdv~yeeak~faee 145 (215)
T KOG0097|consen 76 VTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLESQRDVTYEEAKEFAEE 145 (215)
T ss_pred HHHHHhccccceeEEEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhhhhcccCcHHHHHHHHhh
Confidence 4689999999999999999999999999999999988888999999999999999999999999999875
No 36
>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=99.74 E-value=1.6e-17 Score=95.52 Aligned_cols=70 Identities=41% Similarity=0.689 Sum_probs=61.5
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc----CCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA----GSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~----~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+++.||++++++++|||+++++||+.+..|+..+.... ..++|++|||||+|+...+.+..+++.+++++
T Consensus 66 ~~~~~~~~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~ 139 (201)
T cd04107 66 MTRVYYRGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCKE 139 (201)
T ss_pred hHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHHH
Confidence 56789999999999999999999999999999886542 25789999999999987788999999988764
No 37
>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=99.74 E-value=1.6e-17 Score=93.51 Aligned_cols=70 Identities=36% Similarity=0.588 Sum_probs=61.9
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
++..|++++|++++|||+++++||..+..|+..+..... ++.|+++||||+|+.+.+.++.+++.+++++
T Consensus 79 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~ 149 (180)
T cd04127 79 LTTAFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALADK 149 (180)
T ss_pred HHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHHHH
Confidence 457789999999999999999999999999999877643 5789999999999988888999999888764
No 38
>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=99.74 E-value=1.2e-17 Score=93.25 Aligned_cols=68 Identities=12% Similarity=0.181 Sum_probs=59.6
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCc--ccccCCHHHHHHHHhc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLK--HLLNSMCEEYLIKSRS 71 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~--~~~~v~~~e~~~~a~~ 71 (72)
..|++++|++++|||+++++||+.+..|++++..... +++|+++||||.|+. ..+.++.+++.+++++
T Consensus 60 ~~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~ 130 (158)
T cd04103 60 AQFASWVDAVIFVFSLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARARQLCAD 130 (158)
T ss_pred hhHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHH
Confidence 4688999999999999999999999999999987653 679999999999995 3578999999888853
No 39
>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=99.73 E-value=2.5e-17 Score=95.72 Aligned_cols=70 Identities=31% Similarity=0.520 Sum_probs=61.5
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC---CCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG---SNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+++.||+++|++++|||+++++||+.+..|+..+.+... .++|+++||||+|+.+.+.++.+++.++++.
T Consensus 66 l~~~~~~~ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~~~ 138 (215)
T cd04109 66 MLDKYIYGAHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFAQA 138 (215)
T ss_pred HHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHHHH
Confidence 456899999999999999999999999999999987642 4578999999999988889999998888764
No 40
>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=99.73 E-value=3e-17 Score=91.59 Aligned_cols=70 Identities=33% Similarity=0.586 Sum_probs=61.8
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
++..++++++++++|||++++++|+.+..|++.+.+.....+|+++||||+|+.+.+.+..+++.++++.
T Consensus 66 ~~~~~~~~~~~~l~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~ 135 (165)
T cd01865 66 ITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVVSSERGRQLADQ 135 (165)
T ss_pred HHHHHccCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCcccccCHHHHHHHHHH
Confidence 4577899999999999999999999999999999876656899999999999988888888888877653
No 41
>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=99.73 E-value=4.4e-17 Score=91.06 Aligned_cols=70 Identities=40% Similarity=0.740 Sum_probs=62.1
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
++..+++++|++++|||+++++||+.+..|+..+.+....++|+++||||+|+.+.+.+..+++.++++.
T Consensus 68 ~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~ 137 (167)
T cd01867 68 ITTAYYRGAMGIILVYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEEKRVVSKEEGEALADE 137 (167)
T ss_pred HHHHHhCCCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHH
Confidence 3567899999999999999999999999999999877657899999999999998888888888887753
No 42
>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=99.72 E-value=3.3e-17 Score=93.52 Aligned_cols=69 Identities=29% Similarity=0.454 Sum_probs=60.6
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC---CCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG---SNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+++.||+++|++++|||+++++||+.+..|+..+..... .+.|+++||||+|+.+++.++.+++.++++
T Consensus 63 ~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~~~ 134 (190)
T cd04144 63 LRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAALAR 134 (190)
T ss_pred HHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccCHHHHHHHHH
Confidence 467899999999999999999999999999998876542 578999999999998888898888887765
No 43
>cd01871 Rac1_like Rac1-like subfamily. The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleoti
Probab=99.72 E-value=4e-17 Score=92.27 Aligned_cols=69 Identities=25% Similarity=0.450 Sum_probs=59.0
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCccc------------ccCCHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVS-RWLKDLRDHAGSNIVIMLIGNKSDLKHL------------LNSMCEEYLIK 68 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~vlvgnK~Dl~~~------------~~v~~~e~~~~ 68 (72)
+++.||+++|++|+|||+++++||+.+. .|+..+.... +++|+++||||+||.+. +.++.+++.++
T Consensus 65 ~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~ 143 (174)
T cd01871 65 LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 143 (174)
T ss_pred hhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHH
Confidence 5678999999999999999999999995 6988887654 67999999999999643 35889999988
Q ss_pred Hhc
Q 047889 69 SRS 71 (72)
Q Consensus 69 a~~ 71 (72)
+++
T Consensus 144 ~~~ 146 (174)
T cd01871 144 AKE 146 (174)
T ss_pred HHH
Confidence 864
No 44
>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in sperma
Probab=99.72 E-value=5.6e-17 Score=95.13 Aligned_cols=69 Identities=17% Similarity=0.435 Sum_probs=58.4
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCccc------------ccCCHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENV-SRWLKDLRDHAGSNIVIMLIGNKSDLKHL------------LNSMCEEYLIK 68 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~------------~~v~~~e~~~~ 68 (72)
+++.||+++|++++|||+++++||+++ ..|...+.... +++|++|||||+||... ..++.+++..+
T Consensus 65 l~~~~~~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~~-~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ 143 (222)
T cd04173 65 VRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFC-PNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVL 143 (222)
T ss_pred HhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHH
Confidence 568899999999999999999999999 56887776554 67999999999999652 24888899998
Q ss_pred Hhc
Q 047889 69 SRS 71 (72)
Q Consensus 69 a~~ 71 (72)
|++
T Consensus 144 ak~ 146 (222)
T cd04173 144 AKQ 146 (222)
T ss_pred HHH
Confidence 875
No 45
>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=99.71 E-value=6.8e-17 Score=89.43 Aligned_cols=69 Identities=25% Similarity=0.405 Sum_probs=60.2
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+++.|+++++++++|||++++++|+.+..|...+.+... .+.|+++||||+|+.+.+.+..+++.++++
T Consensus 65 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~ 134 (163)
T cd04136 65 MRDLYIKNGQGFVLVYSITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSREEGQALAR 134 (163)
T ss_pred HHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceecHHHHHHHHH
Confidence 467899999999999999999999999999999877543 579999999999998777888888777765
No 46
>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=99.71 E-value=6.4e-17 Score=93.57 Aligned_cols=66 Identities=33% Similarity=0.553 Sum_probs=55.7
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+++.||++++++++|||++++.||+.+..|++++.+.. +++|++|||||+|+.. +.+..++. .+++
T Consensus 60 l~~~~~~~ad~~ilV~D~t~~~S~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~-~~v~~~~~-~~~~ 125 (200)
T smart00176 60 LRDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDVKD-RKVKAKSI-TFHR 125 (200)
T ss_pred hhHHHhcCCCEEEEEEECCChHHHHHHHHHHHHHHHhC-CCCCEEEEEECccccc-ccCCHHHH-HHHH
Confidence 56789999999999999999999999999999998765 6899999999999964 55665443 4543
No 47
>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=99.71 E-value=7.3e-17 Score=92.10 Aligned_cols=69 Identities=26% Similarity=0.482 Sum_probs=58.1
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCcccc------------cCCHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVS-RWLKDLRDHAGSNIVIMLIGNKSDLKHLL------------NSMCEEYLIK 68 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~------------~v~~~e~~~~ 68 (72)
+++.||++++++++|||+++++||+.+. .|+..+.... +++|+++||||+||.+.+ .++.+++.++
T Consensus 64 l~~~~~~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~~~-~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~ 142 (189)
T cd04134 64 LRSLSYADTDVIMLCFSVDSPDSLENVESKWLGEIREHC-PGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAV 142 (189)
T ss_pred cccccccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHH
Confidence 5678999999999999999999999995 6999988654 579999999999997654 3667778777
Q ss_pred Hhc
Q 047889 69 SRS 71 (72)
Q Consensus 69 a~~ 71 (72)
+++
T Consensus 143 ~~~ 145 (189)
T cd04134 143 AKR 145 (189)
T ss_pred HHH
Confidence 653
No 48
>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=99.71 E-value=8.4e-17 Score=90.24 Aligned_cols=70 Identities=24% Similarity=0.516 Sum_probs=62.0
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+++.|++++|++++|||+++++||..+..|++.+..... .++|+++||||+|+...+.++.+++.++++.
T Consensus 68 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~ 138 (170)
T cd04115 68 MVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADA 138 (170)
T ss_pred hHHHhhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCCHHHHHHHHHH
Confidence 456789999999999999999999999999999877643 6799999999999998889998888888753
No 49
>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=99.71 E-value=8.3e-17 Score=89.64 Aligned_cols=69 Identities=41% Similarity=0.647 Sum_probs=61.7
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
++..|+++++++++|||+++++||..+..|+..+.....++.|++++|||+|+...+.+..+++..+++
T Consensus 67 ~~~~~~~~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~ 135 (166)
T cd01869 67 ITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKRVVDYSEAQEFAD 135 (166)
T ss_pred HHHHHhCcCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcccccCCCHHHHHHHHH
Confidence 456789999999999999999999999999999987665679999999999998888888888888875
No 50
>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=99.71 E-value=9.6e-17 Score=89.09 Aligned_cols=69 Identities=22% Similarity=0.390 Sum_probs=60.1
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+++.|++++|++++|||+++++||+++..|+..+.+... .+.|+++||||+|+..++.+..+++..+++
T Consensus 65 ~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~~~~~~~~ 134 (163)
T cd04176 65 MRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEGRALAE 134 (163)
T ss_pred hHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCccCHHHHHHHHH
Confidence 567899999999999999999999999999998877543 679999999999998777888777777764
No 51
>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=7.8e-17 Score=89.62 Aligned_cols=69 Identities=23% Similarity=0.369 Sum_probs=60.4
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+++.|++++|++++|||+++++||+.+..|...+.+.. ..+.|++++|||+|+.+.+.++.+++.++++
T Consensus 65 ~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~ 134 (164)
T cd04175 65 MRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLAR 134 (164)
T ss_pred HHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHHHHHHHHH
Confidence 56789999999999999999999999999999987654 3679999999999998877888888777765
No 52
>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=99.71 E-value=1.1e-16 Score=89.00 Aligned_cols=69 Identities=71% Similarity=1.038 Sum_probs=62.0
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+++.|+++++++++|||++++.+|..+..|+..+.+....++|+++||||+|+...+.+..+++..+++
T Consensus 68 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~ 136 (165)
T cd01868 68 ITSAYYRGAVGALLVYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTEEAKAFAE 136 (165)
T ss_pred HHHHHHCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccccCCHHHHHHHHH
Confidence 457789999999999999999999999999999988765679999999999998888888888888775
No 53
>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=99.71 E-value=1.2e-16 Score=90.92 Aligned_cols=69 Identities=35% Similarity=0.559 Sum_probs=61.8
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+++.+++++|++++|||+++++||+.+..|+..+........|++++|||+|+.+.+.+..+++..+++
T Consensus 65 ~~~~~~~~~d~iilv~d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~~ 133 (188)
T cd04125 65 LNNSYYRGAHGYLLVYDVTDQESFENLKFWINEINRYARENVIKVIVANKSDLVNNKVVDSNIAKSFCD 133 (188)
T ss_pred hHHHHccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCcccccCCHHHHHHHHH
Confidence 456789999999999999999999999999999987765679999999999998888888888888775
No 54
>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=99.71 E-value=1.2e-16 Score=88.98 Aligned_cols=70 Identities=39% Similarity=0.739 Sum_probs=62.3
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
++..+++++|++++|||++++.||+.++.|+..+.......+|+++||||+|+.+.+.+..+++.++++.
T Consensus 68 ~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~ 137 (165)
T cd01864 68 ITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQREVLFEEACTLAEK 137 (165)
T ss_pred HHHHHhccCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHH
Confidence 3567899999999999999999999999999999876657899999999999988888888888888764
No 55
>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=99.70 E-value=1.2e-16 Score=91.24 Aligned_cols=69 Identities=36% Similarity=0.652 Sum_probs=61.6
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
++..|++++|++++|||+++++||+++..|+..+.+.....+|+++||||+|+..++.+..+++..+++
T Consensus 66 ~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~ 134 (191)
T cd04112 66 VTHAYYRDAHALLLLYDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGERVVKREDGERLAK 134 (191)
T ss_pred hhHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccchhccccCHHHHHHHHH
Confidence 356789999999999999999999999999999988766689999999999998778888888888765
No 56
>PLN03110 Rab GTPase; Provisional
Probab=99.70 E-value=1.1e-16 Score=93.15 Aligned_cols=69 Identities=65% Similarity=0.993 Sum_probs=62.4
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+++.|+++++++++|||++++.+|+.+..|+..+.+..+.++|+++||||+|+...+.+..+++..+++
T Consensus 77 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~ 145 (216)
T PLN03110 77 ITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAE 145 (216)
T ss_pred HHHHHhCCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcccccCCCHHHHHHHHH
Confidence 457799999999999999999999999999999988766789999999999998888898888888765
No 57
>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases. Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.
Probab=99.70 E-value=1.4e-16 Score=89.22 Aligned_cols=69 Identities=23% Similarity=0.404 Sum_probs=58.7
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCccc------------ccCCHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVS-RWLKDLRDHAGSNIVIMLIGNKSDLKHL------------LNSMCEEYLIK 68 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~vlvgnK~Dl~~~------------~~v~~~e~~~~ 68 (72)
+++.+++++|++++|||+++++||+.+. .|+..+.... ++.|+++||||+|+..+ +.++.+++.++
T Consensus 62 ~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~ 140 (174)
T smart00174 62 LRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFC-PNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEAL 140 (174)
T ss_pred hchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHH
Confidence 4677899999999999999999999995 6999887764 68999999999999653 34888888888
Q ss_pred Hhc
Q 047889 69 SRS 71 (72)
Q Consensus 69 a~~ 71 (72)
+++
T Consensus 141 ~~~ 143 (174)
T smart00174 141 AKR 143 (174)
T ss_pred HHH
Confidence 764
No 58
>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=99.70 E-value=1.5e-16 Score=88.61 Aligned_cols=69 Identities=29% Similarity=0.393 Sum_probs=60.6
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc--CCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA--GSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
...+++++|++++|||+++++||+.+..|+..+.... ..++|+++||||+|+...+.++.+++.+++++
T Consensus 65 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~ 135 (165)
T cd04146 65 LERSIRWADGFVLVYSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQVSTEEGEKLASE 135 (165)
T ss_pred HHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCccCHHHHHHHHHH
Confidence 4568899999999999999999999999999887754 35799999999999988888999998888764
No 59
>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=99.69 E-value=5.1e-17 Score=92.66 Aligned_cols=69 Identities=29% Similarity=0.428 Sum_probs=64.0
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
++..|||+|.+.++||+.+|+.||+.+..|+++++... .++|.++|-||+||.++.+++.++++.++++
T Consensus 85 ItkAyyrgaqa~vLVFSTTDr~SFea~~~w~~kv~~e~-~~IPtV~vqNKIDlveds~~~~~evE~lak~ 153 (246)
T KOG4252|consen 85 ITKAYYRGAQASVLVFSTTDRYSFEATLEWYNKVQKET-ERIPTVFVQNKIDLVEDSQMDKGEVEGLAKK 153 (246)
T ss_pred HHHHHhccccceEEEEecccHHHHHHHHHHHHHHHHHh-ccCCeEEeeccchhhHhhhcchHHHHHHHHH
Confidence 56789999999999999999999999999999998766 7899999999999999999999999888864
No 60
>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=99.69 E-value=1.7e-16 Score=87.86 Aligned_cols=69 Identities=30% Similarity=0.510 Sum_probs=61.0
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
++..|+++++++++|||+++++||+.+..|+..+.... .++|+++||||+|+..++.++.+++.++++.
T Consensus 67 ~~~~~~~~~~~~v~v~d~~~~~s~~~l~~~~~~~~~~~-~~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~ 135 (162)
T cd04106 67 ITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAEC-GDIPMVLVQTKIDLLDQAVITNEEAEALAKR 135 (162)
T ss_pred hHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhcccccCCCHHHHHHHHHH
Confidence 45779999999999999999999999999999987654 6799999999999988888888888887753
No 61
>PTZ00369 Ras-like protein; Provisional
Probab=99.69 E-value=2e-16 Score=90.19 Aligned_cols=69 Identities=23% Similarity=0.400 Sum_probs=60.5
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+++.|+++++++++|||+++++||+.+..|...+.+... .++|++++|||+|+.+.+.++.+++.++++
T Consensus 69 l~~~~~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~ 138 (189)
T PTZ00369 69 MRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEGQELAK 138 (189)
T ss_pred hHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHH
Confidence 467899999999999999999999999999998876543 589999999999998878888888877765
No 62
>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=99.69 E-value=2.1e-16 Score=91.81 Aligned_cols=70 Identities=37% Similarity=0.663 Sum_probs=61.6
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+++.||+++|++++|||+++++||+.+..|+..+.+... ..+|+++||||+|+...+.++.+++.++++.
T Consensus 68 ~~~~~~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~~~~~~~~~ 138 (211)
T cd04111 68 ITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAEKLAKD 138 (211)
T ss_pred HHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccCHHHHHHHHHH
Confidence 456899999999999999999999999999999877653 4688999999999988888999999888764
No 63
>cd01866 Rab2 Rab2 subfamily. Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur
Probab=99.69 E-value=2.5e-16 Score=88.15 Aligned_cols=70 Identities=50% Similarity=0.806 Sum_probs=62.0
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
++..|++++|++++|||+++++||+.+..|+..+++...+.+|+++||||.|+...+.++.+++..++++
T Consensus 69 ~~~~~~~~~d~il~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~~~~~~~~~~~~~~ 138 (168)
T cd01866 69 ITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVSYEEGEAFAKE 138 (168)
T ss_pred HHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHH
Confidence 4567899999999999999999999999999999876557899999999999987788888888887653
No 64
>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=99.68 E-value=2.8e-16 Score=90.34 Aligned_cols=68 Identities=37% Similarity=0.648 Sum_probs=60.3
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
++..|+++++++++|||+++++||+.+..|++.+.... +.+|+++||||+|+.+.+.+..+++..+++
T Consensus 71 ~~~~~~~~a~~iilv~D~~~~~s~~~~~~~~~~i~~~~-~~~piivVgNK~Dl~~~~~~~~~~~~~~~~ 138 (199)
T cd04110 71 ITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNC-DDVCKVLVGNKNDDPERKVVETEDAYKFAG 138 (199)
T ss_pred HHHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccccCHHHHHHHHH
Confidence 46789999999999999999999999999999987654 679999999999998877888888887765
No 65
>PLN03108 Rab family protein; Provisional
Probab=99.68 E-value=3.5e-16 Score=90.74 Aligned_cols=70 Identities=51% Similarity=0.815 Sum_probs=62.6
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+++.|++++|++++|||+++++||+.+..|+..+........|++++|||+|+.+.+.++.+++.+++++
T Consensus 71 ~~~~~~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~ 140 (210)
T PLN03108 71 ITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTEEGEQFAKE 140 (210)
T ss_pred HHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccCCCHHHHHHHHHH
Confidence 4567899999999999999999999999999988776657899999999999998888999999988864
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=99.68 E-value=3.2e-16 Score=87.44 Aligned_cols=69 Identities=25% Similarity=0.299 Sum_probs=59.2
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC---CCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG---SNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
++..++++++++++|||+++++||+.+..|++.+.+... +++|+++||||+|+...+.+..+++..+++
T Consensus 65 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~ 136 (165)
T cd04140 65 MQRLSISKGHAFILVYSVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSNEGAACAT 136 (165)
T ss_pred HHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHHHHHHHHH
Confidence 356789999999999999999999999999988876542 579999999999998778888888877764
No 67
>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=99.68 E-value=2.5e-16 Score=89.72 Aligned_cols=69 Identities=19% Similarity=0.401 Sum_probs=54.8
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc-----cccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH-----LLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~-----~~~v~~~e~~~~a~~ 71 (72)
+++.|+++++++++|||+++++||+++..|+.++.+..+..+| ++||||+|+.. ++....+++.++|++
T Consensus 65 ~~~~~~~~a~~iilv~D~t~~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~ 138 (182)
T cd04128 65 MLPLVCNDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLFADLPPEEQEEITKQARKYAKA 138 (182)
T ss_pred hhHHHCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhccccccchhhhhhHHHHHHHHHH
Confidence 5678999999999999999999999999999999876555677 68899999942 222234667777653
No 68
>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=99.68 E-value=4.7e-16 Score=86.15 Aligned_cols=70 Identities=47% Similarity=0.734 Sum_probs=62.4
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+++.++++++++++|||++++++|..+..|+..++....+++|++++|||.|+...+.+..+++..+++.
T Consensus 65 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~ 134 (161)
T cd04113 65 VTRSYYRGAAGALLVYDITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQREVTFLEASRFAQE 134 (161)
T ss_pred hHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcchhccCCHHHHHHHHHH
Confidence 3567899999999999999999999999999998877667899999999999988888888898887764
No 69
>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=99.67 E-value=5.4e-16 Score=85.87 Aligned_cols=70 Identities=34% Similarity=0.631 Sum_probs=60.7
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-----CCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-----SNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-----~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+++.|+++++++++|||++++++|+.+..|+..+..... ...|+++||||+|+.+++.+..+++..++++
T Consensus 65 ~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~ 139 (168)
T cd04119 65 VRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAES 139 (168)
T ss_pred HHHHHhccCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHHHH
Confidence 457889999999999999999999999999999877653 4699999999999987778888888877653
No 70
>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=99.67 E-value=5.6e-16 Score=86.57 Aligned_cols=69 Identities=29% Similarity=0.487 Sum_probs=59.5
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc----CCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA----GSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~----~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+++.|++++|++++|||+++++||+.+..|...+.... ..++|+++||||+|+. ++.++.+++.+++++
T Consensus 70 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~ 142 (170)
T cd04116 70 LRTPFYRGSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIP-ERQVSTEEAQAWCRE 142 (170)
T ss_pred hHHHHhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECcccc-ccccCHHHHHHHHHH
Confidence 46789999999999999999999999999998876643 2468999999999997 578888899888764
No 71
>PLN03071 GTP-binding nuclear protein Ran; Provisional
Probab=99.67 E-value=4.4e-16 Score=90.94 Aligned_cols=66 Identities=33% Similarity=0.550 Sum_probs=55.4
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+++.||++++++|+|||+++++||+.+..|++.+.+.. +++|++|||||+|+.. +.+..+++ ++++
T Consensus 78 ~~~~~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~-~~v~~~~~-~~~~ 143 (219)
T PLN03071 78 LRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVC-ENIPIVLCGNKVDVKN-RQVKAKQV-TFHR 143 (219)
T ss_pred hhHHHcccccEEEEEEeCCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEEchhhhh-ccCCHHHH-HHHH
Confidence 56789999999999999999999999999999998764 6799999999999964 45555554 4443
No 72
>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=99.67 E-value=6e-16 Score=89.25 Aligned_cols=66 Identities=20% Similarity=0.257 Sum_probs=57.3
Q ss_pred chhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc---CCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 5 AYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA---GSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~---~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
.+++++|++++|||+++++||+.+..|++.+.+.. ...+|+++||||+|+...+.+..+++.++++
T Consensus 76 ~~~~~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~ 144 (198)
T cd04142 76 RGLRNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVR 144 (198)
T ss_pred hhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHH
Confidence 45789999999999999999999999999887764 3679999999999998878888888777654
No 73
>cd04130 Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus,
Probab=99.66 E-value=7.5e-16 Score=86.57 Aligned_cols=69 Identities=20% Similarity=0.432 Sum_probs=59.0
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCcc------------cccCCHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENV-SRWLKDLRDHAGSNIVIMLIGNKSDLKH------------LLNSMCEEYLIK 68 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~vlvgnK~Dl~~------------~~~v~~~e~~~~ 68 (72)
+++.|++++|++++|||+++++||+.+ ..|+..+.... ++.|++++|||.|+.. ++.+..+++.++
T Consensus 64 ~~~~~~~~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~ 142 (173)
T cd04130 64 LRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHN-PKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKAL 142 (173)
T ss_pred ccccccCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHH
Confidence 567899999999999999999999998 47998887643 5799999999999963 467888899988
Q ss_pred Hhc
Q 047889 69 SRS 71 (72)
Q Consensus 69 a~~ 71 (72)
+++
T Consensus 143 a~~ 145 (173)
T cd04130 143 AEK 145 (173)
T ss_pred HHH
Confidence 864
No 74
>cd04143 Rhes_like Rhes_like subfamily. This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression l
Probab=99.66 E-value=7.9e-16 Score=91.42 Aligned_cols=69 Identities=17% Similarity=0.202 Sum_probs=59.3
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc---------CCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA---------GSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~---------~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+++.|++++|++|+|||+++++||+.+..|++++.+.. ..+.|+++||||+|+..++.+..+++.+++.
T Consensus 64 ~~~~~~~~ad~iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~ 141 (247)
T cd04143 64 MRRLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVG 141 (247)
T ss_pred HHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHH
Confidence 45678999999999999999999999999999986541 2579999999999998778889888887754
No 75
>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=99.66 E-value=7.9e-16 Score=85.21 Aligned_cols=70 Identities=30% Similarity=0.454 Sum_probs=60.5
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+++.|+++++++++|||++++++|+.+..|+..+.+.. ..++|++++|||+|+...+.+..+++.+++++
T Consensus 66 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~~~ 136 (164)
T cd04145 66 MREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVSREEGQELARK 136 (164)
T ss_pred HHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceecHHHHHHHHHH
Confidence 45689999999999999999999999999999887653 35799999999999988778888888877653
No 76
>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]
Probab=99.65 E-value=5.6e-16 Score=89.33 Aligned_cols=69 Identities=29% Similarity=0.517 Sum_probs=61.8
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCccc------------ccCCHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENV-SRWLKDLRDHAGSNIVIMLIGNKSDLKHL------------LNSMCEEYLIK 68 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~------------~~v~~~e~~~~ 68 (72)
+++..|.++|.+++||++.+++||+++ ..|+.+++.+. +++|++|||+|.||+.+ ..|+.+++.++
T Consensus 69 lRplsY~~tdvfl~cfsv~~p~S~~nv~~kW~pEi~~~c-p~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~l 147 (198)
T KOG0393|consen 69 LRPLSYPQTDVFLLCFSVVSPESFENVKSKWIPEIKHHC-PNVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLEL 147 (198)
T ss_pred ccccCCCCCCEEEEEEEcCChhhHHHHHhhhhHHHHhhC-CCCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHH
Confidence 567889999999999999999999998 78999999887 89999999999999853 26888999988
Q ss_pred Hhc
Q 047889 69 SRS 71 (72)
Q Consensus 69 a~~ 71 (72)
|++
T Consensus 148 A~~ 150 (198)
T KOG0393|consen 148 AKE 150 (198)
T ss_pred HHH
Confidence 875
No 77
>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=99.64 E-value=1.7e-15 Score=88.55 Aligned_cols=68 Identities=26% Similarity=0.312 Sum_probs=59.0
Q ss_pred ccchhh-CCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 3 TSAYYR-GALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 3 ~~~y~~-~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
...+++ ++|++++|||++++.||+.+..|+..+.+... .++|+++||||+|+...+.++.+++.+++.
T Consensus 65 ~~~~~~~~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a~ 134 (221)
T cd04148 65 EDSCMQYQGDAFVVVYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRACAV 134 (221)
T ss_pred HhHHhhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHHHHHHHHH
Confidence 345677 99999999999999999999999998877643 579999999999998888899888887765
No 78
>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=99.64 E-value=1.7e-15 Score=85.82 Aligned_cols=69 Identities=22% Similarity=0.380 Sum_probs=57.2
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCccc----ccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVS-RWLKDLRDHAGSNIVIMLIGNKSDLKHL----LNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~vlvgnK~Dl~~~----~~v~~~e~~~~a~~ 71 (72)
+++.|++++|++++|||+++++||+.+. .|+..+.... +++|+++||||.|+... +.+..+++.++++.
T Consensus 65 ~~~~~~~~ad~ii~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~ 138 (187)
T cd04132 65 LRPLSYPDVDVLLICYAVDNPTSLDNVEDKWFPEVNHFC-PGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKK 138 (187)
T ss_pred HHHHhCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhhhCccccCCcCHHHHHHHHHH
Confidence 4567899999999999999999999995 6988876553 67999999999999653 35778888887753
No 79
>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=99.63 E-value=2e-15 Score=83.75 Aligned_cols=70 Identities=29% Similarity=0.449 Sum_probs=59.9
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+++.|+++++++++|||++++++|+.+..|...+.+... .+.|+++||||+|+...+.+..+++..+++.
T Consensus 64 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~~ 134 (164)
T smart00173 64 MRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELARQ 134 (164)
T ss_pred HHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEcHHHHHHHHHH
Confidence 456789999999999999999999999999988866543 5789999999999988778888888777653
No 80
>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=99.63 E-value=2.9e-15 Score=84.36 Aligned_cols=69 Identities=30% Similarity=0.597 Sum_probs=56.2
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCccccc--CCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKHLLN--SMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~~~~--v~~~e~~~~a~ 70 (72)
+++.||+++|++++|||+++++||+.+..|++.+.+.. +..+|+++||||.|+...+. +..+++.++++
T Consensus 65 ~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~ 136 (170)
T cd04108 65 IASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAA 136 (170)
T ss_pred hHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccccccccHHHHHHHHH
Confidence 56789999999999999999999999999999986553 34688999999999965443 34566666654
No 81
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=99.63 E-value=3.7e-15 Score=82.45 Aligned_cols=70 Identities=54% Similarity=0.848 Sum_probs=61.3
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
++..+++++|++++|||++++.+|+.+..|+..+.....+++|+++++||+|+...+.+..+++.++++.
T Consensus 65 ~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~~~~~~~~~~~~~~ 134 (164)
T smart00175 65 ITSSYYRGAVGALLVYDITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLEDQRQVSREEAEAFAEE 134 (164)
T ss_pred HHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcccccCCCHHHHHHHHHH
Confidence 3567899999999999999999999999999998877657899999999999987778888888877653
No 82
>cd04123 Rab21 Rab21 subfamily. The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site
Probab=99.62 E-value=5.8e-15 Score=81.31 Aligned_cols=69 Identities=36% Similarity=0.668 Sum_probs=60.2
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+++.+++++|++++|||++++++|+.+..|++.+......++|++++|||+|+...+.+..++..++++
T Consensus 65 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~ 133 (162)
T cd04123 65 LGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVSKSEAEEYAK 133 (162)
T ss_pred hhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHH
Confidence 467789999999999999999999999999999887765689999999999998777887777776654
No 83
>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=99.62 E-value=5.4e-15 Score=82.04 Aligned_cols=68 Identities=29% Similarity=0.501 Sum_probs=58.5
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+.+.+++++|++++|||++++++|+.+..|++.+.... ..+|+++||||+|+.+.+.+..+++..+++
T Consensus 68 ~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~ 135 (164)
T cd04101 68 MVSNYWESPSVFILVYDVSNKASFENCSRWVNKVRTAS-KHMPGVLVGNKMDLADKAEVTDAQAQAFAQ 135 (164)
T ss_pred HHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccCCCHHHHHHHHH
Confidence 45678999999999999999999999999999988764 679999999999998777788777666553
No 84
>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]
Probab=99.62 E-value=3.2e-15 Score=83.45 Aligned_cols=70 Identities=20% Similarity=0.298 Sum_probs=62.1
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
|.++||.-+||+++||+..|++||+.+.-..+.|....+ ..+||+++|||+|+.+.+.+..+-|..||++
T Consensus 77 Lprhy~q~aDafVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd~d~A~~Wa~r 147 (198)
T KOG3883|consen 77 LPRHYFQFADAFVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVDMDVAQIWAKR 147 (198)
T ss_pred hhHhHhccCceEEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhcCHHHHHHHHhh
Confidence 457899999999999999999999998777777766665 6799999999999999999999999999875
No 85
>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=99.61 E-value=6.8e-15 Score=82.27 Aligned_cols=70 Identities=24% Similarity=0.388 Sum_probs=60.8
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+++.++++++++++|||++++++|+.+..|.+.+.+.. ..+.|++++|||.|+...+.++.+++.+++++
T Consensus 65 ~~~~~~~~~~~~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~ 135 (168)
T cd04177 65 MRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQQ 135 (168)
T ss_pred hhHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCccCHHHHHHHHHH
Confidence 56789999999999999999999999999999887644 36799999999999988888888888777653
No 86
>cd01892 Miro2 Miro2 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.
Probab=99.61 E-value=2.5e-15 Score=84.50 Aligned_cols=67 Identities=19% Similarity=0.155 Sum_probs=53.6
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+++.||+++|++++|||.+++.+|+.+..|+..+... .++|+++||||+|+.+.+.+..+++.++++
T Consensus 70 ~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~~~~~--~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~ 136 (169)
T cd01892 70 LNDAELAACDVACLVYDSSDPKSFSYCAEVYKKYFML--GEIPCLFVAAKADLDEQQQRYEVQPDEFCR 136 (169)
T ss_pred cchhhhhcCCEEEEEEeCCCHHHHHHHHHHHHHhccC--CCCeEEEEEEcccccccccccccCHHHHHH
Confidence 4677899999999999999999999999998876432 479999999999997666554444555543
No 87
>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=99.61 E-value=9e-15 Score=80.84 Aligned_cols=69 Identities=35% Similarity=0.689 Sum_probs=59.4
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+...++++++++++|||+++++||+.+..|+..+......+.|++++|||+|+.+.+.+..++...+++
T Consensus 65 ~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~ 133 (161)
T cd01861 65 LIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGEKKAK 133 (161)
T ss_pred HHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhccccCccCHHHHHHHHH
Confidence 356789999999999999999999999999999876654579999999999997777788888777664
No 88
>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=99.60 E-value=6.9e-15 Score=81.03 Aligned_cols=68 Identities=19% Similarity=0.397 Sum_probs=57.8
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+++.|+++++++++|||++++.+|+.+..|+..+.+... .+.|+++||||+|+.. +.+..+++.++++
T Consensus 65 l~~~~~~~~~~~i~v~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~-~~~~~~~~~~~~~ 133 (162)
T cd04138 65 MRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVSSRQGQDLAK 133 (162)
T ss_pred HHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccc-ceecHHHHHHHHH
Confidence 467899999999999999999999999999998877643 5799999999999976 5667777777654
No 89
>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=99.60 E-value=9e-15 Score=81.98 Aligned_cols=65 Identities=34% Similarity=0.593 Sum_probs=53.8
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKS 69 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a 69 (72)
+++.+|+++|++++|||+++++||..++.|+..+.... .++|+++||||+|+.. +.+.. ++.+++
T Consensus 65 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~piiiv~nK~Dl~~-~~~~~-~~~~~~ 129 (166)
T cd00877 65 LRDGYYIGGQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-GNIPIVLCGNKVDIKD-RKVKA-KQITFH 129 (166)
T ss_pred ccHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEEchhccc-ccCCH-HHHHHH
Confidence 46789999999999999999999999999999998876 4899999999999973 44443 334444
No 90
>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=99.59 E-value=2.6e-15 Score=84.06 Aligned_cols=59 Identities=22% Similarity=0.348 Sum_probs=50.8
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCC
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSM 61 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~ 61 (72)
+++.||+++|++++|||.+++.+|..++.|+..+.... +++|+++||||+|+...+.+.
T Consensus 60 ~~~~~~~~ad~ii~V~D~t~~~s~~~~~~~l~~~~~~~-~~~piilv~NK~Dl~~~~~~~ 118 (164)
T cd04162 60 YWKRYLSGSQGLIFVVDSADSERLPLARQELHQLLQHP-PDLPLVVLANKQDLPAARSVQ 118 (164)
T ss_pred HHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHhCC-CCCcEEEEEeCcCCcCCCCHH
Confidence 46789999999999999999999999999988886543 689999999999998765443
No 91
>cd01860 Rab5_related Rab5-related subfamily. This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo
Probab=99.59 E-value=1.9e-14 Score=79.70 Aligned_cols=69 Identities=39% Similarity=0.693 Sum_probs=60.6
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+++.+++++|++++|||.+++++|.....|+..+.....+.+|+++++||+|+...+.+..+++..+++
T Consensus 66 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~ 134 (163)
T cd01860 66 LAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLESKRQVSTEEAQEYAD 134 (163)
T ss_pred HHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccCcCCHHHHHHHHH
Confidence 346789999999999999999999999999999987765789999999999998777888888777765
No 92
>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=99.58 E-value=2e-14 Score=81.92 Aligned_cols=68 Identities=34% Similarity=0.552 Sum_probs=56.5
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc----cccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH----LLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~----~~~v~~~e~~~~a~ 70 (72)
++..||+++|++++|||++++.||+.+..|++.++... ++.|+++||||.|+.. .+.+..+++.++++
T Consensus 66 ~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~ 137 (193)
T cd04118 66 MSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNLE-EHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFAD 137 (193)
T ss_pred hhHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHhcC-CCCCEEEEEEcccccccccccCccCHHHHHHHHH
Confidence 45678999999999999999999999999999987754 5799999999999853 24566677777654
No 93
>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=99.57 E-value=2.8e-14 Score=79.87 Aligned_cols=69 Identities=20% Similarity=0.387 Sum_probs=57.8
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCccc------------ccCCHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVS-RWLKDLRDHAGSNIVIMLIGNKSDLKHL------------LNSMCEEYLIK 68 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~vlvgnK~Dl~~~------------~~v~~~e~~~~ 68 (72)
+++.++++++++++|||++++++|+.+. .|...+... .++.|++++|||+|+.+. +.++.+++..+
T Consensus 64 ~~~~~~~~~~~~ilv~~~~~~~s~~~~~~~~~~~l~~~-~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~ 142 (174)
T cd04135 64 LRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY-APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKL 142 (174)
T ss_pred cccccCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHH
Confidence 4677899999999999999999999995 788888765 478999999999998543 36778888887
Q ss_pred Hhc
Q 047889 69 SRS 71 (72)
Q Consensus 69 a~~ 71 (72)
++.
T Consensus 143 ~~~ 145 (174)
T cd04135 143 AKE 145 (174)
T ss_pred HHH
Confidence 753
No 94
>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=99.56 E-value=3.5e-14 Score=80.87 Aligned_cols=68 Identities=22% Similarity=0.383 Sum_probs=56.4
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCcc----------cccCCHHHHHHHHhc
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVS-RWLKDLRDHAGSNIVIMLIGNKSDLKH----------LLNSMCEEYLIKSRS 71 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~vlvgnK~Dl~~----------~~~v~~~e~~~~a~~ 71 (72)
.+.+++++++++++||++++++|+.+. .|+..++... +++|+++||||+|+.+ .+.++.+++.+++++
T Consensus 66 ~~~~~~~a~~~llv~~i~~~~s~~~~~~~~~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~ 144 (187)
T cd04129 66 RPLSYSKAHVILIGFAVDTPDSLENVRTKWIEEVRRYC-PNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKE 144 (187)
T ss_pred chhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHH
Confidence 346788999999999999999999996 6999987765 5699999999999954 356777788877753
No 95
>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=99.56 E-value=4.7e-14 Score=78.58 Aligned_cols=68 Identities=29% Similarity=0.518 Sum_probs=58.5
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+..|++++|++++|||++++.+|+.+..|+..+.......+|++++|||+|+.+.+.+..+.+..+.+
T Consensus 73 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~ 140 (169)
T cd04114 73 TQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERREVSQQRAEEFSD 140 (169)
T ss_pred HHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHH
Confidence 46789999999999999999999999999998877665679999999999998777877766666554
No 96
>PLN03118 Rab family protein; Provisional
Probab=99.55 E-value=4.6e-14 Score=81.71 Aligned_cols=69 Identities=41% Similarity=0.605 Sum_probs=57.4
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHH-HHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSR-WLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~-~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
++..|++++|++++|||++++++|..+.. |...+..... .+.|+++||||+|+...+.++.+++..+++
T Consensus 78 ~~~~~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~ 148 (211)
T PLN03118 78 LTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREEGMALAK 148 (211)
T ss_pred HHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHH
Confidence 45789999999999999999999999965 7666654432 568999999999998878888888877765
No 97
>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=99.55 E-value=3.8e-14 Score=79.50 Aligned_cols=66 Identities=17% Similarity=0.211 Sum_probs=54.5
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCcccccCCHHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKHLLNSMCEEYLIKS 69 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a 69 (72)
+++.|++++|++++|||.+++++|..+..|+..+.+.. ..+.|++++|||+|+.. .++.+++.+++
T Consensus 59 ~~~~~~~~ad~ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~ 125 (169)
T cd04158 59 LWKHYYLNTQAVVFVVDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAG--ALSVEEMTELL 125 (169)
T ss_pred HHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCccc--CCCHHHHHHHh
Confidence 35678999999999999999999999999988886543 25689999999999964 46777776654
No 98
>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=79.90 Aligned_cols=66 Identities=20% Similarity=0.318 Sum_probs=52.3
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCcccccCCHHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKHLLNSMCEEYLIKS 69 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a 69 (72)
+++.||+++|++++|||.+++.+|+.+..|+.++.... ..++|++|||||+|+.+ .++.+++.++.
T Consensus 69 ~~~~~~~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~i~~~~ 135 (168)
T cd04149 69 LWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPD--AMKPHEIQEKL 135 (168)
T ss_pred HHHHHhccCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCcc--CCCHHHHHHHc
Confidence 35679999999999999999999999988776664322 25689999999999975 35666666543
No 99
>cd01863 Rab18 Rab18 subfamily. Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos
Probab=99.54 E-value=8.3e-14 Score=77.05 Aligned_cols=68 Identities=47% Similarity=0.725 Sum_probs=57.6
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+...+++++|++++|||++++.+|+.+..|+..+.+... .+.|++++|||+|+. .+.+..+++.++++
T Consensus 65 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~-~~~~~~~~~~~~~~ 133 (161)
T cd01863 65 LTSSYYRGAQGVILVYDVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKE-NREVTREEGLKFAR 133 (161)
T ss_pred hhHHHhCCCCEEEEEEECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCccc-ccccCHHHHHHHHH
Confidence 356788999999999999999999999999999887753 679999999999997 35667777777765
No 100
>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=99.54 E-value=6.7e-14 Score=77.92 Aligned_cols=54 Identities=35% Similarity=0.733 Sum_probs=48.4
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
+++.|++++|++++|||++++.+|+.+..|+..+.+.. ++.|++++|||+|+..
T Consensus 65 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~p~ivv~nK~Dl~~ 118 (161)
T cd04124 65 MHASYYHKAHACILVFDVTRKITYKNLSKWYEELREYR-PEIPCIVVANKIDLDP 118 (161)
T ss_pred hhHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEECccCch
Confidence 56789999999999999999999999999999997654 5799999999999853
No 101
>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=99.52 E-value=1e-13 Score=78.30 Aligned_cols=55 Identities=22% Similarity=0.387 Sum_probs=46.8
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCcc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~ 56 (72)
+++.||++++++++|||++++++|+.+..|+..+.+.. ..++|++|||||+|+.+
T Consensus 73 ~~~~~~~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~ 128 (175)
T smart00177 73 LWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPD 128 (175)
T ss_pred HHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCccc
Confidence 45779999999999999999999999988887775432 25789999999999975
No 102
>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=99.51 E-value=2e-13 Score=76.02 Aligned_cols=69 Identities=30% Similarity=0.504 Sum_probs=57.2
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC----CCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG----SNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~----~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
++..|++++++++++||++++.+|+.+..|.+.+..... .++|+++||||+|+..++.++.++...+++
T Consensus 65 ~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~ 137 (172)
T cd01862 65 LGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQ 137 (172)
T ss_pred HHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccccCHHHHHHHHH
Confidence 456789999999999999999999999999887655432 379999999999998667777777776654
No 103
>PLN00223 ADP-ribosylation factor; Provisional
Probab=99.51 E-value=1.1e-13 Score=78.70 Aligned_cols=55 Identities=18% Similarity=0.343 Sum_probs=46.3
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCcc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDH-AGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~vlvgnK~Dl~~ 56 (72)
+++.||+++|++|+|||.+++++|..+..|+..+... ..+++|++|+|||+|++.
T Consensus 77 ~~~~~~~~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~ 132 (181)
T PLN00223 77 LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN 132 (181)
T ss_pred HHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCC
Confidence 4678999999999999999999999998877766432 225799999999999975
No 104
>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=99.49 E-value=1.1e-13 Score=77.62 Aligned_cols=57 Identities=32% Similarity=0.476 Sum_probs=49.5
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLL 58 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~ 58 (72)
+++.||++++++++|||.+++.+|+.+..|+..+.+... .+.|+++||||+|+...+
T Consensus 59 ~~~~~~~~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~ 116 (167)
T cd04161 59 IWVNYYAEAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNAL 116 (167)
T ss_pred HHHHHHcCCCEEEEEEECCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCC
Confidence 457899999999999999999999999999988865532 579999999999997644
No 105
>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=99.49 E-value=2.5e-13 Score=74.65 Aligned_cols=69 Identities=28% Similarity=0.421 Sum_probs=59.8
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
...++++++++++|||+++++++..+..|...+.+... ...|++++|||+|+...+.++.+++.+++++
T Consensus 64 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~ 133 (160)
T cd00876 64 RDLYIRQGDGFILVYSITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQVSKEEGKALAKE 133 (160)
T ss_pred HHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccceecHHHHHHHHHH
Confidence 45788999999999999999999999999888877654 5899999999999988778888888877653
No 106
>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=99.49 E-value=1.8e-13 Score=76.25 Aligned_cols=55 Identities=18% Similarity=0.364 Sum_probs=45.8
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCcc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDH-AGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~vlvgnK~Dl~~ 56 (72)
+++.||+++|++++|||.+++.+|+.+..|+..+... .....|++|+|||+|+.+
T Consensus 60 ~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~ 115 (159)
T cd04150 60 LWRHYFQNTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPN 115 (159)
T ss_pred HHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCC
Confidence 4578899999999999999999999998877666432 224689999999999965
No 107
>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=99.49 E-value=3.8e-13 Score=75.33 Aligned_cols=68 Identities=22% Similarity=0.404 Sum_probs=54.8
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCccc------------ccCCHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVS-RWLKDLRDHAGSNIVIMLIGNKSDLKHL------------LNSMCEEYLIK 68 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~vlvgnK~Dl~~~------------~~v~~~e~~~~ 68 (72)
+++.+++++|++++|||+++++||+.+. .|...+.... .+.|+++||||+|+... +.+..+++.++
T Consensus 65 ~~~~~~~~~d~~i~v~~~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~ 143 (175)
T cd01870 65 LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDM 143 (175)
T ss_pred ccccccCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHH
Confidence 3457889999999999999999999994 6888887653 57999999999998542 34566777777
Q ss_pred Hh
Q 047889 69 SR 70 (72)
Q Consensus 69 a~ 70 (72)
++
T Consensus 144 ~~ 145 (175)
T cd01870 144 AN 145 (175)
T ss_pred HH
Confidence 65
No 108
>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=99.47 E-value=5.4e-13 Score=76.63 Aligned_cols=67 Identities=21% Similarity=0.287 Sum_probs=55.4
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcc-cccCCHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKH-LLNSMCEEYLIK 68 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~-~~~v~~~e~~~~ 68 (72)
+++.|++++|++++|||++++.+|+.+..|+..+.+... .++|+++|+||.|+.. ++.+..+++.+.
T Consensus 63 ~~~~~~~~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~ 131 (198)
T cd04147 63 MRKLSIQNSDAFALVYAVDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALST 131 (198)
T ss_pred HHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHH
Confidence 456789999999999999999999999999988877654 5799999999999965 466666555443
No 109
>cd00154 Rab Rab family. Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di
Probab=99.47 E-value=5.7e-13 Score=72.67 Aligned_cols=68 Identities=47% Similarity=0.785 Sum_probs=59.5
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
...+++++|++++|||.+++++++.+..|+..+........|+++++||+|+..+..+..++..++++
T Consensus 66 ~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~ 133 (159)
T cd00154 66 TPSYYRGAHGAILVYDITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLEDQRQVSTEEAQQFAK 133 (159)
T ss_pred HHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccccccccccHHHHHHHHH
Confidence 46788999999999999999999999999999887765679999999999997566778888887765
No 110
>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=99.47 E-value=6.1e-13 Score=73.43 Aligned_cols=69 Identities=28% Similarity=0.438 Sum_probs=57.3
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+++.+++++++++++||++++.+|..+..|+..+..... .+.|+++|+||+|+...+.+..++...+++
T Consensus 64 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~~ 133 (164)
T cd04139 64 IRDNYHRSGEGFLLVFSITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKRQVSSEEAANLAR 133 (164)
T ss_pred HHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEccccccccccCHHHHHHHHH
Confidence 356789999999999999999999999999988877643 579999999999997756666666665554
No 111
>TIGR00157 ribosome small subunit-dependent GTPase A. The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).
Probab=99.45 E-value=4e-13 Score=79.82 Aligned_cols=65 Identities=18% Similarity=0.145 Sum_probs=52.9
Q ss_pred CcccchhhCCCEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHH
Q 047889 1 AITSAYYRGALGALLVYDVTKST-TFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIK 68 (72)
Q Consensus 1 sl~~~y~~~a~~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~ 68 (72)
+|.+.|++++|++++|||++++. ||+.+..|+..+.. .++|+++|+||+||.+++.+..+++..+
T Consensus 28 ~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~---~~i~~vIV~NK~DL~~~~~~~~~~~~~~ 93 (245)
T TIGR00157 28 ELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEA---QNIEPIIVLNKIDLLDDEDMEKEQLDIY 93 (245)
T ss_pred eEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECcccCCCHHHHHHHHHHH
Confidence 36788999999999999999988 89999999876653 5699999999999976555554555444
No 112
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=99.43 E-value=1e-12 Score=74.78 Aligned_cols=55 Identities=20% Similarity=0.368 Sum_probs=45.5
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCcc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDH-AGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~vlvgnK~Dl~~ 56 (72)
+++.||+++|++|+|||.+++++|+....++..+... ...++|++|||||.|+.+
T Consensus 77 ~~~~~~~~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~ 132 (182)
T PTZ00133 77 LWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPN 132 (182)
T ss_pred HHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCC
Confidence 4577999999999999999999999998777666332 225689999999999965
No 113
>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=99.43 E-value=1.5e-12 Score=73.37 Aligned_cols=68 Identities=32% Similarity=0.394 Sum_probs=56.9
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+..++.++++++++||+++..+|+.+..|+..+.+.. ..+.|+++++||+|+...+.+..+++..+++
T Consensus 66 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~ 134 (180)
T cd04137 66 PQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQVSTEEGKELAE 134 (180)
T ss_pred HHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCccCHHHHHHHHH
Confidence 4578899999999999999999999999888876643 3578999999999998777777777666654
No 114
>cd01893 Miro1 Miro1 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.
Probab=99.42 E-value=1.3e-12 Score=73.00 Aligned_cols=55 Identities=36% Similarity=0.554 Sum_probs=47.1
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCccccc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVS-RWLKDLRDHAGSNIVIMLIGNKSDLKHLLN 59 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~ 59 (72)
..+++++|++++|||++++.||+.+. .|.+.++... .+.|+++||||+|+.+.+.
T Consensus 65 ~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~~-~~~pviiv~nK~Dl~~~~~ 120 (166)
T cd01893 65 AAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLG-VKVPIILVGNKSDLRDGSS 120 (166)
T ss_pred hhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhcccccc
Confidence 45678999999999999999999984 6888887765 5799999999999976554
No 115
>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=99.42 E-value=1.2e-12 Score=73.58 Aligned_cols=66 Identities=20% Similarity=0.236 Sum_probs=51.5
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCcccccCCHHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDH-AGSNIVIMLIGNKSDLKHLLNSMCEEYLIKS 69 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a 69 (72)
++..||+++|++++|||.+++.+|..+..|+..+... ...++|+++||||+|+.+. ...++..++.
T Consensus 74 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~--~~~~~~~~~~ 140 (173)
T cd04154 74 YWRNYFESTDALIWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGA--LSEEEIREAL 140 (173)
T ss_pred HHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccC--CCHHHHHHHh
Confidence 3567899999999999999999999998888776543 2367999999999999753 2445554443
No 116
>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=99.42 E-value=1.6e-12 Score=72.29 Aligned_cols=68 Identities=26% Similarity=0.447 Sum_probs=54.2
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCcccc-----------cCCHHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENV-SRWLKDLRDHAGSNIVIMLIGNKSDLKHLL-----------NSMCEEYLIKS 69 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~-----------~v~~~e~~~~a 69 (72)
+.+.+++.+|++++|||++++.+|... ..|+..+.... .+.|+++||||+|+...+ .+..+++.+++
T Consensus 64 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~ 142 (171)
T cd00157 64 LRPLSYPNTDVFLICFSVDSPSSFENVKTKWIPEIRHYC-PNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLA 142 (171)
T ss_pred cchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHH
Confidence 356778899999999999999999987 56888877655 589999999999996644 34566666665
Q ss_pred h
Q 047889 70 R 70 (72)
Q Consensus 70 ~ 70 (72)
.
T Consensus 143 ~ 143 (171)
T cd00157 143 K 143 (171)
T ss_pred H
Confidence 4
No 117
>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=99.38 E-value=1.8e-12 Score=68.77 Aligned_cols=48 Identities=40% Similarity=0.685 Sum_probs=38.2
Q ss_pred chhhCCCEEEEEEECCChhhHHHHHHH---HHHHHHhcCCCCeEEEEeeCCC
Q 047889 5 AYYRGALGALLVYDVTKSTTFENVSRW---LKDLRDHAGSNIVIMLIGNKSD 53 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~~~~---~~~~~~~~~~~~~~vlvgnK~D 53 (72)
.++.++|++++|||+++++||+.+..+ +..+.... .++|+++||||.|
T Consensus 69 ~~~~~~d~~ilv~D~s~~~s~~~~~~~~~~l~~~~~~~-~~~piilv~nK~D 119 (119)
T PF08477_consen 69 FFLKKADAVILVYDLSDPESLEYLSQLLKWLKNIRKRD-KNIPIILVGNKSD 119 (119)
T ss_dssp HHHHHSCEEEEEEECCGHHHHHHHHHHHHHHHHHHHHS-SCSEEEEEEE-TC
T ss_pred chhhcCcEEEEEEcCCChHHHHHHHHHHHHHHHHHccC-CCCCEEEEEeccC
Confidence 357889999999999999999998555 55554433 5699999999998
No 118
>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=99.38 E-value=4.6e-12 Score=72.00 Aligned_cols=64 Identities=19% Similarity=0.279 Sum_probs=51.2
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEYLI 67 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~~~ 67 (72)
+++.|+++++++++|||.+++.+++.+..|+..+..... .+.|+++++||+|+.. .+..++...
T Consensus 68 ~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~--~~~~~~~~~ 132 (183)
T cd04152 68 LWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPN--ALSVSEVEK 132 (183)
T ss_pred HHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCccc--cCCHHHHHH
Confidence 457789999999999999999999999999888765432 5799999999999864 344444443
No 119
>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=99.36 E-value=5e-12 Score=69.79 Aligned_cols=55 Identities=25% Similarity=0.395 Sum_probs=47.1
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc---CCCCeEEEEeeCCCCcc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA---GSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~---~~~~~~vlvgnK~Dl~~ 56 (72)
++..||++++++++|+|.+++.+|..+..|+..+.+.. ..++|+++||||+|+..
T Consensus 61 ~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~ 118 (162)
T cd04157 61 LWEHYYKNIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPD 118 (162)
T ss_pred HHHHHHccCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccC
Confidence 45788999999999999999999999998888875532 25799999999999965
No 120
>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=99.35 E-value=6.3e-12 Score=71.54 Aligned_cols=64 Identities=19% Similarity=0.280 Sum_probs=51.5
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCcccccCCHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKHLLNSMCEEYLI 67 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~~~~v~~~e~~~ 67 (72)
++..||++++++++|+|.+++.+|.....|+..+.+.. ..+.|+++++||+|+.. .++.++..+
T Consensus 77 ~~~~~~~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~--~~~~~~i~~ 141 (184)
T smart00178 77 LWKDYFPEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPY--AASEDELRY 141 (184)
T ss_pred HHHHHhCCCCEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccC--CCCHHHHHH
Confidence 45789999999999999999999999988877765432 25789999999999864 566666543
No 121
>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=99.34 E-value=1.1e-11 Score=70.37 Aligned_cols=65 Identities=22% Similarity=0.312 Sum_probs=53.1
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHHHHHH
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEYLIKS 69 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a 69 (72)
+..|+++++++++|+|.+++.+|.....|+..+.+... .+.|++++|||+|+.. .+..++..+..
T Consensus 80 ~~~~~~~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~--~~~~~~~~~~~ 145 (190)
T cd00879 80 WKDYFPEVDGIVFLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPG--AVSEEELRQAL 145 (190)
T ss_pred HHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCC--CcCHHHHHHHh
Confidence 46789999999999999999999998888887765432 5699999999999964 56677766654
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=99.31 E-value=1.7e-11 Score=69.07 Aligned_cols=55 Identities=25% Similarity=0.338 Sum_probs=45.8
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCcc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~ 56 (72)
+++.||+++|++++|+|.+++++|..+..|+..+.+.. ..++|+++++||+|+.+
T Consensus 75 ~~~~~~~~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~ 130 (174)
T cd04153 75 SWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKG 130 (174)
T ss_pred HHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCC
Confidence 35678999999999999999999999888777765433 25699999999999965
No 123
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=99.31 E-value=1.6e-11 Score=71.19 Aligned_cols=59 Identities=34% Similarity=0.626 Sum_probs=50.0
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMC 62 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~ 62 (72)
++..|+++++++++|||++++.||..+..|+..+.... .++|++++|||+|+.+ +.+..
T Consensus 74 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~i~lv~nK~Dl~~-~~~~~ 132 (215)
T PTZ00132 74 LRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVC-ENIPIVLVGNKVDVKD-RQVKA 132 (215)
T ss_pred hhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccCcc-ccCCH
Confidence 45678999999999999999999999999999987664 6799999999999864 34443
No 124
>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=99.31 E-value=1.7e-11 Score=67.69 Aligned_cols=54 Identities=20% Similarity=0.337 Sum_probs=45.9
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCcc
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~ 56 (72)
+..|+++++++++|+|.+++.+|..+..|+..+.+.. ..+.|+++|+||+|+..
T Consensus 61 ~~~~~~~~~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~ 115 (160)
T cd04156 61 WKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPG 115 (160)
T ss_pred HHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECccccc
Confidence 4568999999999999999999999988888775432 25799999999999964
No 125
>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=99.30 E-value=1.9e-11 Score=67.90 Aligned_cols=65 Identities=22% Similarity=0.297 Sum_probs=51.1
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCcccccCCHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKHLLNSMCEEYLIK 68 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~ 68 (72)
++..++++++++++|+|.++++++.....|+..+.+.. ..++|+++++||+|+.. .+..++..++
T Consensus 66 ~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~--~~~~~~~~~~ 131 (167)
T cd04160 66 LWDKYYAECHAIIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPD--ALSVEEIKEV 131 (167)
T ss_pred HHHHHhCCCCEEEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEcccccc--CCCHHHHHHH
Confidence 34678999999999999999999999988888875543 25799999999999865 3444554443
No 126
>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=99.28 E-value=3.3e-11 Score=66.51 Aligned_cols=56 Identities=21% Similarity=0.370 Sum_probs=47.4
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCccc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~~ 57 (72)
+++.++++++++++|||.+++.+|..+..|+..+.... ....|+++++||+|+...
T Consensus 59 ~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~ 115 (158)
T cd00878 59 LWKHYYENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGA 115 (158)
T ss_pred HHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCccc
Confidence 35678899999999999999999999988888775543 367999999999999763
No 127
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=99.28 E-value=1.7e-11 Score=70.86 Aligned_cols=57 Identities=42% Similarity=0.705 Sum_probs=49.2
Q ss_pred cccchhhCCCEEEEEEECCC-hhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccc
Q 047889 2 ITSAYYRGALGALLVYDVTK-STTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLL 58 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~-~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~ 58 (72)
+++.||+++++++++||.++ ..+++....|...+....+...|++++|||+|+...+
T Consensus 70 ~~~~y~~~~~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~ 127 (219)
T COG1100 70 LRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQ 127 (219)
T ss_pred HHHHHhcCCCEEEEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccch
Confidence 57899999999999999999 4556666999999988765679999999999998764
No 128
>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=99.25 E-value=5.2e-11 Score=63.19 Aligned_cols=68 Identities=18% Similarity=0.145 Sum_probs=56.4
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
+...++++++++++||+.+++.+++.+ |...+......++|.+++|||.|+.+++.+..+++..+++.
T Consensus 39 ~~~~~~~s~~~~~~v~~~~~~~s~~~~--~~~~i~~~~k~dl~~~~~~nk~dl~~~~~~~~~~~~~~~~~ 106 (124)
T smart00010 39 YDPTSYESFDVVLQCWRVDDRDSADNK--NVPEVLVGNKSDLPILVGGNRDVLEEERQVATEEGLEFAET 106 (124)
T ss_pred ccccccCCCCEEEEEEEccCHHHHHHH--hHHHHHhcCCCCCcEEEEeechhhHhhCcCCHHHHHHHHHH
Confidence 356789999999999999999999877 88777655556789999999999976667888888777764
No 129
>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=99.25 E-value=1e-10 Score=66.27 Aligned_cols=64 Identities=25% Similarity=0.377 Sum_probs=52.3
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCcccccCCHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKHLLNSMCEEYLI 67 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~~~~v~~~e~~~ 67 (72)
+|+.||.+++|+|+|.|.++++.+......+..+.... ..++|+++++||+|+++ .++.++...
T Consensus 74 ~w~~y~~~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~--~~~~~~i~~ 138 (175)
T PF00025_consen 74 LWKSYFQNADGIIFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPD--AMSEEEIKE 138 (175)
T ss_dssp GGGGGHTTESEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTT--SSTHHHHHH
T ss_pred cceeeccccceeEEEEecccceeecccccchhhhcchhhcccceEEEEeccccccC--cchhhHHHh
Confidence 68899999999999999999999999987777765533 26799999999999875 455565543
No 130
>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=99.22 E-value=6.4e-11 Score=65.55 Aligned_cols=55 Identities=18% Similarity=0.296 Sum_probs=43.9
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHH-HHhcCCCCeEEEEeeCCCCcc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDL-RDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~-~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
+++.|+++++++++|+|.+++.++.....|+..+ +.....+.|+++++||+|+.+
T Consensus 59 ~~~~~~~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~ 114 (158)
T cd04151 59 YWRCYYSNTDAIIYVVDSTDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPG 114 (158)
T ss_pred HHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCC
Confidence 3567899999999999999999998876665544 322235799999999999964
No 131
>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=99.15 E-value=2.2e-10 Score=63.74 Aligned_cols=51 Identities=18% Similarity=0.052 Sum_probs=43.2
Q ss_pred CCCEEEEEEECCCh-hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCccccc
Q 047889 9 GALGALLVYDVTKS-TTFENVSRWLKDLRDHAG--SNIVIMLIGNKSDLKHLLN 59 (72)
Q Consensus 9 ~a~~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~--~~~~~vlvgnK~Dl~~~~~ 59 (72)
.+|++++|+|.+++ .+++.+..|.+.+.+... ...|+++|+||+|+.....
T Consensus 78 ~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~ 131 (170)
T cd01898 78 RTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEE 131 (170)
T ss_pred hCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchh
Confidence 59999999999999 899999999998877642 3689999999999965443
No 132
>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.12 E-value=5.1e-10 Score=63.84 Aligned_cols=63 Identities=19% Similarity=0.320 Sum_probs=51.6
Q ss_pred CcccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHH
Q 047889 1 AITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEY 65 (72)
Q Consensus 1 sl~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~ 65 (72)
.+|++||++++++|+|.|.+|++.+...+.-+..+..+.. ..+|+++.+||.|++. ..+..|.
T Consensus 76 ~lW~~Y~~~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~--als~~ei 139 (181)
T KOG0070|consen 76 PLWKHYFQNTQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPG--ALSAAEI 139 (181)
T ss_pred cchhhhccCCcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhccc--cCCHHHH
Confidence 3689999999999999999999999998776666655544 6899999999999986 4444443
No 133
>KOG1673 consensus Ras GTPases [General function prediction only]
Probab=99.12 E-value=1.1e-10 Score=65.63 Aligned_cols=52 Identities=23% Similarity=0.523 Sum_probs=45.6
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
.|.-..++-+++++||++.+++++++..|+.+.+...+..+| ++||+|.|+-
T Consensus 86 lPiac~dsvaIlFmFDLt~r~TLnSi~~WY~QAr~~NktAiP-ilvGTKyD~f 137 (205)
T KOG1673|consen 86 LPIACKDSVAILFMFDLTRRSTLNSIKEWYRQARGLNKTAIP-ILVGTKYDLF 137 (205)
T ss_pred CceeecCcEEEEEEEecCchHHHHHHHHHHHHHhccCCccce-EEeccchHhh
Confidence 456678899999999999999999999999999887767788 7899999973
No 134
>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.11 E-value=8.2e-11 Score=67.67 Aligned_cols=54 Identities=41% Similarity=0.696 Sum_probs=49.3
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
++.-||-++.|.|++||++.+-++.++..|..++.... .++|||++|||.|..+
T Consensus 75 lrdgyyI~~qcAiimFdVtsr~t~~n~~rwhrd~~rv~-~NiPiv~cGNKvDi~~ 128 (216)
T KOG0096|consen 75 LRDGYYIQGQCAIIMFDVTSRFTYKNVPRWHRDLVRVR-ENIPIVLCGNKVDIKA 128 (216)
T ss_pred cccccEEecceeEEEeeeeehhhhhcchHHHHHHHHHh-cCCCeeeeccceeccc
Confidence 45779999999999999999999999999999998877 6699999999999865
No 135
>TIGR02528 EutP ethanolamine utilization protein, EutP. This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.
Probab=99.11 E-value=1.1e-10 Score=63.57 Aligned_cols=57 Identities=14% Similarity=-0.079 Sum_probs=42.2
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
+|+++|++++|||++++.++.. ..|.+.. ..|+++|+||+|+.+ +.+..+++.++++
T Consensus 59 ~~~~ad~vilv~d~~~~~s~~~-~~~~~~~------~~p~ilv~NK~Dl~~-~~~~~~~~~~~~~ 115 (142)
T TIGR02528 59 TAADADVIALVQSATDPESRFP-PGFASIF------VKPVIGLVTKIDLAE-ADVDIERAKELLE 115 (142)
T ss_pred HhhcCCEEEEEecCCCCCcCCC-hhHHHhc------cCCeEEEEEeeccCC-cccCHHHHHHHHH
Confidence 4789999999999999999865 3453321 139999999999965 4556666666654
No 136
>PRK12299 obgE GTPase CgtA; Reviewed
Probab=99.11 E-value=3.4e-10 Score=70.02 Aligned_cols=63 Identities=14% Similarity=0.067 Sum_probs=49.3
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCcccccCCHHHHHHH
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG--SNIVIMLIGNKSDLKHLLNSMCEEYLIK 68 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~~~vlvgnK~Dl~~~~~v~~~e~~~~ 68 (72)
++..++++++|+|++++++++.+..|.+++..+.+ .+.|+++|+||+|+.+...+..++...+
T Consensus 233 hie~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~ 297 (335)
T PRK12299 233 HIERTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALE 297 (335)
T ss_pred HhhhcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHHHHHHHHH
Confidence 34568999999999998899999999999987653 4689999999999976544444444433
No 137
>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=99.09 E-value=6.1e-10 Score=60.71 Aligned_cols=55 Identities=29% Similarity=0.421 Sum_probs=45.5
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCccc
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~~ 57 (72)
+..|++++|++++|+|.+++.++.....|+..+.... ..+.|+++|+||+|+...
T Consensus 61 ~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~ 116 (159)
T cd04159 61 WERYCRGVNAIVYVVDAADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGA 116 (159)
T ss_pred HHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCC
Confidence 4678999999999999999999999887777764432 257899999999998654
No 138
>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]
Probab=99.06 E-value=1.3e-09 Score=61.55 Aligned_cols=55 Identities=18% Similarity=0.319 Sum_probs=45.7
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHH-HHhcCCCCeEEEEeeCCCCcc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDL-RDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~-~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.|+.||..+||+|+|+|..|+..|+.....+..+ .+..-...|+++++||.|++.
T Consensus 76 ~W~nYfestdglIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~ 131 (185)
T KOG0073|consen 76 YWKNYFESTDGLIWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPG 131 (185)
T ss_pred HHHHhhhccCeEEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCcc
Confidence 5789999999999999999999999986665554 333335689999999999984
No 139
>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]
Probab=99.06 E-value=1.7e-10 Score=66.42 Aligned_cols=56 Identities=43% Similarity=0.773 Sum_probs=49.2
Q ss_pred CcccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc----CCCCeEEEEeeCCCCcc
Q 047889 1 AITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA----GSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 1 sl~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~----~~~~~~vlvgnK~Dl~~ 56 (72)
.|+..||+.+++.++|||+++.-+|+.+..|.+++.... +..+|+++.+||||+..
T Consensus 90 ~mtrVyykea~~~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~ 149 (229)
T KOG4423|consen 90 NMTRVYYKEAHGAFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEK 149 (229)
T ss_pred ceEEEEecCCcceEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccCh
Confidence 378899999999999999999999999999999986543 25688999999999865
No 140
>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]
Probab=98.98 E-value=1.6e-09 Score=70.50 Aligned_cols=55 Identities=33% Similarity=0.471 Sum_probs=47.7
Q ss_pred hhhCCCEEEEEEECCChhhHHHH-HHHHHHHHHhcC--CCCeEEEEeeCCCCcccccC
Q 047889 6 YYRGALGALLVYDVTKSTTFENV-SRWLKDLRDHAG--SNIVIMLIGNKSDLKHLLNS 60 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~--~~~~~vlvgnK~Dl~~~~~v 60 (72)
=.+.||.+.++|+++++++++.+ ..|++.+++..+ .++|+||||||+|+......
T Consensus 76 EirkA~vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~ 133 (625)
T KOG1707|consen 76 EIRKADVICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENN 133 (625)
T ss_pred HHhhcCEEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCcccccc
Confidence 36789999999999999999999 679999988763 57999999999999765444
No 141
>cd01890 LepA LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and eukaryota (e.g. yeast GUF1p), but is missing from archaea. This pattern of phyletic distribution suggests that LepA evolved through a duplication of the EF-G gene in bacteria, followed by early transfer into the eukaryotic lineage, most likely from the promitochondrial endosymbiont. Yeast GUF1p is not essential and mutant cells did not reveal any marked phenotype.
Probab=98.97 E-value=3.2e-09 Score=59.59 Aligned_cols=50 Identities=28% Similarity=0.355 Sum_probs=40.0
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
+..+++++|++++|||.++..++.....|.... ..++|+++|+||+|+.+
T Consensus 84 ~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~----~~~~~iiiv~NK~Dl~~ 133 (179)
T cd01890 84 VSRSLAACEGALLLVDATQGVEAQTLANFYLAL----ENNLEIIPVINKIDLPS 133 (179)
T ss_pred HHHHHHhcCeEEEEEECCCCccHhhHHHHHHHH----HcCCCEEEEEECCCCCc
Confidence 456899999999999999987777777664332 24689999999999864
No 142
>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.95 E-value=5.1e-09 Score=58.15 Aligned_cols=65 Identities=23% Similarity=0.374 Sum_probs=51.0
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcccccCCHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHLLNSMCEEYLIK 68 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~~~v~~~e~~~~ 68 (72)
+|++||.+..|+|+|.|..++..++..+.-+..+.+... .+.|+++.+||.|++. ..+++|...+
T Consensus 77 lWrhYy~gtqglIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~--A~~pqei~d~ 142 (180)
T KOG0071|consen 77 LWRHYYTGTQGLIFVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPD--AMKPQEIQDK 142 (180)
T ss_pred HHHhhccCCceEEEEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCccccc--ccCHHHHHHH
Confidence 688999999999999999999888887665555444332 6799999999999987 5556665544
No 143
>cd01878 HflX HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.
Probab=98.95 E-value=4e-09 Score=60.60 Aligned_cols=51 Identities=25% Similarity=0.181 Sum_probs=43.9
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCccc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~ 57 (72)
++++|++++|+|.+++.++..+..|.+.+......+.|+++|+||+|+...
T Consensus 118 ~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~ 168 (204)
T cd01878 118 VAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDD 168 (204)
T ss_pred HhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCCh
Confidence 678999999999999999998888888777655467899999999998653
No 144
>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]
Probab=98.93 E-value=3e-09 Score=59.40 Aligned_cols=56 Identities=29% Similarity=0.453 Sum_probs=47.2
Q ss_pred CcccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcc
Q 047889 1 AITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKH 56 (72)
Q Consensus 1 sl~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~ 56 (72)
++|..|||+++++++|.|..+++.+...+.-+..+....+ ..+|+++.|||.|+++
T Consensus 80 smWerycR~v~aivY~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~ 136 (186)
T KOG0075|consen 80 SMWERYCRGVSAIVYVVDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPG 136 (186)
T ss_pred HHHHHHhhcCcEEEEEeecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCcc
Confidence 4688999999999999999999999888766666544333 7899999999999976
No 145
>cd04155 Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.
Probab=98.92 E-value=1.2e-08 Score=57.00 Aligned_cols=54 Identities=19% Similarity=0.297 Sum_probs=43.9
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHh-cCCCCeEEEEeeCCCCcc
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDH-AGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~vlvgnK~Dl~~ 56 (72)
+..++++++++++|+|.++..+|.....|+..+... ....+|+++++||+|+..
T Consensus 75 ~~~~~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~ 129 (173)
T cd04155 75 WRNYFENTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLAT 129 (173)
T ss_pred HHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCcc
Confidence 356789999999999999999999887776665433 235799999999999864
No 146
>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=98.88 E-value=1.1e-08 Score=56.92 Aligned_cols=55 Identities=20% Similarity=0.132 Sum_probs=44.2
Q ss_pred hhhCCCEEEEEEECCCh------hhHHHHHHHHHHHHHhcC-------CCCeEEEEeeCCCCcccccC
Q 047889 6 YYRGALGALLVYDVTKS------TTFENVSRWLKDLRDHAG-------SNIVIMLIGNKSDLKHLLNS 60 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~------~s~~~~~~~~~~~~~~~~-------~~~~~vlvgnK~Dl~~~~~v 60 (72)
++++++++++|+|.+++ .++.....|...+..... ...|+++|+||+|+......
T Consensus 71 ~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~ 138 (176)
T cd01881 71 HIRRADAILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEEL 138 (176)
T ss_pred HHhccCEEEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHH
Confidence 56789999999999998 588888888888765432 36899999999999764443
No 147
>TIGR03156 GTP_HflX GTP-binding protein HflX. This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).
Probab=98.87 E-value=7.2e-09 Score=64.52 Aligned_cols=51 Identities=27% Similarity=0.193 Sum_probs=43.6
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
++++||++++|+|.+++.+++.+..|.+.+......+.|+++|+||+|+..
T Consensus 265 ~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~ 315 (351)
T TIGR03156 265 EVREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLD 315 (351)
T ss_pred HHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCC
Confidence 478999999999999999998888887777665545789999999999965
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=98.83 E-value=2.3e-08 Score=57.99 Aligned_cols=54 Identities=20% Similarity=0.324 Sum_probs=42.8
Q ss_pred cchhhCC-CEEEEEEECCCh-hhHHHHHHHHHHHHHhc---CCCCeEEEEeeCCCCccc
Q 047889 4 SAYYRGA-LGALLVYDVTKS-TTFENVSRWLKDLRDHA---GSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 4 ~~y~~~a-~~~i~v~d~~~~-~s~~~~~~~~~~~~~~~---~~~~~~vlvgnK~Dl~~~ 57 (72)
..||+++ +++|+|+|.++. +++..+..|+..+.... .+.+|+++++||+|+...
T Consensus 66 ~~~~~~~~~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a 124 (203)
T cd04105 66 LETLKNSAKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTA 124 (203)
T ss_pred HHHHhccCCEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhccc
Confidence 4678898 999999999998 78888877765553321 257999999999998653
No 149
>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.
Probab=98.80 E-value=2e-08 Score=55.74 Aligned_cols=51 Identities=16% Similarity=0.272 Sum_probs=39.5
Q ss_pred CCCEEEEEEECCChhhH--HHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccC
Q 047889 9 GALGALLVYDVTKSTTF--ENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNS 60 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~--~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v 60 (72)
.+|++++|+|.+++.++ +....|++.+.... .+.|+++|+||+|+...+.+
T Consensus 79 ~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~-~~~pvilv~NK~Dl~~~~~~ 131 (168)
T cd01897 79 LRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLF-KNKPVIVVLNKIDLLTFEDL 131 (168)
T ss_pred ccCcEEEEEeCCcccccchHHHHHHHHHHHhhc-CcCCeEEEEEccccCchhhH
Confidence 36899999999988754 66677888876543 47999999999999764443
No 150
>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=98.78 E-value=3.2e-08 Score=61.20 Aligned_cols=50 Identities=16% Similarity=0.127 Sum_probs=41.8
Q ss_pred hCCCEEEEEEECCCh---hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCccc
Q 047889 8 RGALGALLVYDVTKS---TTFENVSRWLKDLRDHAG--SNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~---~s~~~~~~~~~~~~~~~~--~~~~~vlvgnK~Dl~~~ 57 (72)
..++++++|+|+++. ++++.+..|.+++..... ...|+++|+||+|+.+.
T Consensus 234 erad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~ 288 (329)
T TIGR02729 234 ERTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDE 288 (329)
T ss_pred HhhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCCh
Confidence 369999999999987 788888889888876643 46899999999999654
No 151
>PRK11058 GTPase HflX; Provisional
Probab=98.76 E-value=3.7e-08 Score=62.76 Aligned_cols=51 Identities=25% Similarity=0.182 Sum_probs=42.3
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
++++||++++|+|.+++.+++.+..|...+......+.|+++|+||+|+..
T Consensus 273 ~~~~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~ 323 (426)
T PRK11058 273 ETRQATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLD 323 (426)
T ss_pred HhhcCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCC
Confidence 468899999999999999998887666666655445799999999999864
No 152
>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=98.75 E-value=9.9e-08 Score=50.86 Aligned_cols=55 Identities=53% Similarity=0.827 Sum_probs=43.4
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHH-HHHhcCCCCeEEEEeeCCCCcccc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKD-LRDHAGSNIVIMLIGNKSDLKHLL 58 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~-~~~~~~~~~~~vlvgnK~Dl~~~~ 58 (72)
..+++.++++++|+|.+++.++.....|... .........|+++++||+|+....
T Consensus 63 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~ 118 (157)
T cd00882 63 RLYYRGADGIILVYDVTDRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEER 118 (157)
T ss_pred HHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCcEEEEEecccccccc
Confidence 3477899999999999999999999887322 333334789999999999987543
No 153
>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.74 E-value=9.6e-09 Score=58.58 Aligned_cols=56 Identities=23% Similarity=0.388 Sum_probs=48.1
Q ss_pred CcccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHH-hcCCCCeEEEEeeCCCCcc
Q 047889 1 AITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRD-HAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 1 sl~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~~~vlvgnK~Dl~~ 56 (72)
|||..||-.+||+|+++|.++++.|+....-++.+.. ....++|+++.+||.|+.+
T Consensus 84 Slw~~yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~ 140 (197)
T KOG0076|consen 84 SLWKKYYWLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQN 140 (197)
T ss_pred HHHHHHHHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhh
Confidence 5788999999999999999999999999776666543 3347899999999999976
No 154
>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. co
Probab=98.70 E-value=6.5e-08 Score=55.35 Aligned_cols=51 Identities=18% Similarity=0.153 Sum_probs=37.0
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCccc
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~ 57 (72)
...|++++|++++|||.++. .+.....|+..+.. .++|+++|+||+|+...
T Consensus 82 ~~~~~~~~d~~ilV~d~~~~-~~~~~~~~~~~~~~---~~~p~iiv~NK~Dl~~~ 132 (194)
T cd01891 82 VERVLSMVDGVLLLVDASEG-PMPQTRFVLKKALE---LGLKPIVVINKIDRPDA 132 (194)
T ss_pred HHHHHHhcCEEEEEEECCCC-ccHHHHHHHHHHHH---cCCCEEEEEECCCCCCC
Confidence 46789999999999999874 23333444444432 46899999999999653
No 155
>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE, also called MnmE and previously designated ThdF (thiophene and furan oxidation protein), is a GTPase involved in tRNA modification to create 5-methylaminomethyl-2-thiouridine in the wobble position of some tRNAs. This protein and GidA form an alpha2/beta2 heterotetramer.
Probab=98.65 E-value=6.3e-08 Score=61.93 Aligned_cols=48 Identities=27% Similarity=0.257 Sum_probs=39.7
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..|++++|++++|||.+++.+++.. |+..+.. .+.|+++|+||+|+..
T Consensus 277 ~~~~~~aD~il~V~D~s~~~s~~~~--~l~~~~~---~~~piIlV~NK~Dl~~ 324 (442)
T TIGR00450 277 FKAIKQADLVIYVLDASQPLTKDDF--LIIDLNK---SKKPFILVLNKIDLKI 324 (442)
T ss_pred HHHHhhCCEEEEEEECCCCCChhHH--HHHHHhh---CCCCEEEEEECccCCC
Confidence 4688999999999999999888775 7665542 4689999999999964
No 156
>TIGR00231 small_GTP small GTP-binding protein domain. This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.
Probab=98.56 E-value=3.4e-07 Score=49.40 Aligned_cols=56 Identities=34% Similarity=0.539 Sum_probs=44.9
Q ss_pred ccchhhCCCEEEEEEECCCh-hhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCcccc
Q 047889 3 TSAYYRGALGALLVYDVTKS-TTFENVS-RWLKDLRDHAGSNIVIMLIGNKSDLKHLL 58 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~-~s~~~~~-~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~ 58 (72)
+..+++++++++.++|+... .++.... .|...+......+.|+++++||.|+....
T Consensus 67 ~~~~~~~~~~~i~~~d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~ 124 (161)
T TIGR00231 67 RRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLRDAK 124 (161)
T ss_pred HHHHHhhhhEEEEEEEEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCCcch
Confidence 45668899999999999988 7888775 77777766553488999999999997643
No 157
>PRK12289 GTPase RsgA; Reviewed
Probab=98.55 E-value=5.6e-07 Score=56.26 Aligned_cols=52 Identities=25% Similarity=0.287 Sum_probs=40.9
Q ss_pred cccchhhCCCEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 2 ITSAYYRGALGALLVYDVTKST-TFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
|.+..+.++|.+++|+|+.++. +...+..|+..+.. .++|+++|+||+||..
T Consensus 82 L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~---~~ip~ILVlNK~DLv~ 134 (352)
T PRK12289 82 LDRPPVANADQILLVFALAEPPLDPWQLSRFLVKAES---TGLEIVLCLNKADLVS 134 (352)
T ss_pred eechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEchhcCC
Confidence 3455789999999999999876 56667778765532 5689999999999953
No 158
>PRK12297 obgE GTPase CgtA; Reviewed
Probab=98.54 E-value=5.3e-07 Score=57.56 Aligned_cols=49 Identities=20% Similarity=0.194 Sum_probs=40.2
Q ss_pred hCCCEEEEEEECCCh---hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCcc
Q 047889 8 RGALGALLVYDVTKS---TTFENVSRWLKDLRDHAG--SNIVIMLIGNKSDLKH 56 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~---~s~~~~~~~~~~~~~~~~--~~~~~vlvgnK~Dl~~ 56 (72)
..++++++|+|+++. +++++...|.+++..+.. ...|+++|+||+|+..
T Consensus 235 er~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~ 288 (424)
T PRK12297 235 ERTRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPE 288 (424)
T ss_pred hhCCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcC
Confidence 348999999999865 678888888888877643 4689999999999853
No 159
>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=98.54 E-value=5.3e-07 Score=53.18 Aligned_cols=60 Identities=23% Similarity=0.117 Sum_probs=42.5
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc-ccccCCHHHHHH
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK-HLLNSMCEEYLI 67 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~-~~~~v~~~e~~~ 67 (72)
..+++.+|++++|+|.++..+......|. .+. ...+|+++++||+|+. .++.++++++..
T Consensus 91 ~~~l~~aD~~ilVvD~~~g~~~~t~~~l~-~~~---~~~~p~ilviNKiD~~~~e~~~~~~~~~~ 151 (222)
T cd01885 91 TAALRLCDGALVVVDAVEGVCVQTETVLR-QAL---KERVKPVLVINKIDRLILELKLSPEEAYQ 151 (222)
T ss_pred HHHHHhcCeeEEEEECCCCCCHHHHHHHH-HHH---HcCCCEEEEEECCCcchhhhcCCHHHHHH
Confidence 46789999999999999876555433322 222 2357999999999975 556777776644
No 160
>PRK03003 GTP-binding protein Der; Reviewed
Probab=98.52 E-value=2.5e-07 Score=59.49 Aligned_cols=49 Identities=29% Similarity=0.262 Sum_probs=37.4
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..+++++|++++|+|.++..++.. ..|...++. .+.|+++|+||+|+..
T Consensus 112 ~~~~~~aD~il~VvD~~~~~s~~~-~~i~~~l~~---~~~piilV~NK~Dl~~ 160 (472)
T PRK03003 112 EVAMRTADAVLFVVDATVGATATD-EAVARVLRR---SGKPVILAANKVDDER 160 (472)
T ss_pred HHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECccCCc
Confidence 457899999999999999866543 344444443 4689999999999864
No 161
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=98.51 E-value=1.8e-07 Score=59.92 Aligned_cols=47 Identities=23% Similarity=0.134 Sum_probs=38.5
Q ss_pred chhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCccc
Q 047889 5 AYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~ 57 (72)
.+++++|++++|||.+++.+++....|.. ..+.|+++|+||+|+...
T Consensus 290 ~~~~~aD~il~VvD~s~~~s~~~~~~l~~------~~~~piiiV~NK~DL~~~ 336 (449)
T PRK05291 290 EAIEEADLVLLVLDASEPLTEEDDEILEE------LKDKPVIVVLNKADLTGE 336 (449)
T ss_pred HHHHhCCEEEEEecCCCCCChhHHHHHHh------cCCCCcEEEEEhhhcccc
Confidence 47889999999999999988887655543 356899999999999653
No 162
>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.
Probab=98.51 E-value=4.6e-07 Score=49.61 Aligned_cols=53 Identities=11% Similarity=-0.064 Sum_probs=37.4
Q ss_pred ccchhh--CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCC
Q 047889 3 TSAYYR--GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSM 61 (72)
Q Consensus 3 ~~~y~~--~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~ 61 (72)
+..|+. ++|++++|+|.+++++.. .|..++.. .+.|+++++||+|+.....+.
T Consensus 66 ~~~~~~~~~~d~vi~v~d~~~~~~~~---~~~~~~~~---~~~~~iiv~NK~Dl~~~~~~~ 120 (158)
T cd01879 66 ARDFLLGEKPDLIVNVVDATNLERNL---YLTLQLLE---LGLPVVVALNMIDEAEKRGIK 120 (158)
T ss_pred HHHHhcCCCCcEEEEEeeCCcchhHH---HHHHHHHH---cCCCEEEEEehhhhcccccch
Confidence 345664 999999999998865532 34444433 358999999999997654443
No 163
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=98.51 E-value=4.1e-07 Score=50.85 Aligned_cols=54 Identities=11% Similarity=0.032 Sum_probs=38.4
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHH
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKS 69 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a 69 (72)
++++|++++|+|.++..++ +..|+..+ ....|+++++||+|+.+ ...++..+++
T Consensus 62 ~~~ad~il~v~d~~~~~s~--~~~~~~~~----~~~~~ii~v~nK~Dl~~---~~~~~~~~~~ 115 (158)
T PRK15467 62 LQDVDMLIYVHGANDPESR--LPAGLLDI----GVSKRQIAVISKTDMPD---ADVAATRKLL 115 (158)
T ss_pred HhcCCEEEEEEeCCCcccc--cCHHHHhc----cCCCCeEEEEEccccCc---ccHHHHHHHH
Confidence 6799999999999998876 33454333 13578999999999964 2344555544
No 164
>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]
Probab=98.51 E-value=2.3e-07 Score=51.77 Aligned_cols=55 Identities=27% Similarity=0.444 Sum_probs=46.1
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVS-RWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.|..||.+.|++|+|.|.+|+..|+.+. ++.+.+.+..-..+|+.+.+||.|+-.
T Consensus 78 yWsNYyenvd~lIyVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdllt 133 (185)
T KOG0074|consen 78 YWSNYYENVDGLIYVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLT 133 (185)
T ss_pred hhhhhhhccceEEEEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHh
Confidence 4788999999999999999999999994 555555555557899999999999854
No 165
>cd04171 SelB SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo
Probab=98.50 E-value=7e-07 Score=49.08 Aligned_cols=47 Identities=23% Similarity=0.051 Sum_probs=32.8
Q ss_pred chhhCCCEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCccc
Q 047889 5 AYYRGALGALLVYDVTK---STTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~ 57 (72)
.+++++|++++|+|.++ +.+++.+. .+... ...|+++++||+|+...
T Consensus 70 ~~~~~ad~ii~V~d~~~~~~~~~~~~~~----~~~~~--~~~~~ilv~NK~Dl~~~ 119 (164)
T cd04171 70 AGAGGIDLVLLVVAADEGIMPQTREHLE----ILELL--GIKRGLVVLTKADLVDE 119 (164)
T ss_pred hhhhcCCEEEEEEECCCCccHhHHHHHH----HHHHh--CCCcEEEEEECccccCH
Confidence 46789999999999987 44544332 22222 22489999999999653
No 166
>PRK03003 GTP-binding protein Der; Reviewed
Probab=98.46 E-value=5.7e-07 Score=57.86 Aligned_cols=48 Identities=21% Similarity=0.170 Sum_probs=38.3
Q ss_pred chhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 5 AYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.+++++|++++|+|.++..++..+. ++..+.. .+.|+++|+||+|+.+
T Consensus 289 ~~i~~ad~vilV~Da~~~~s~~~~~-~~~~~~~---~~~piIiV~NK~Dl~~ 336 (472)
T PRK03003 289 AAIEAAEVAVVLIDASEPISEQDQR-VLSMVIE---AGRALVLAFNKWDLVD 336 (472)
T ss_pred HHHhcCCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCC
Confidence 3578999999999999998888764 3444433 4689999999999964
No 167
>COG2229 Predicted GTPase [General function prediction only]
Probab=98.43 E-value=2e-06 Score=49.45 Aligned_cols=61 Identities=25% Similarity=0.295 Sum_probs=45.5
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLI 67 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~ 67 (72)
++..+.+++.|.|++.|-+.+..| .....++.+.... .+|+++..||.||.+ ..++++..+
T Consensus 84 m~~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~~--~ip~vVa~NK~DL~~--a~ppe~i~e 144 (187)
T COG2229 84 MWEILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSRN--PIPVVVAINKQDLFD--ALPPEKIRE 144 (187)
T ss_pred HHHHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhcc--CCCEEEEeeccccCC--CCCHHHHHH
Confidence 467789999999999999999998 4445555554432 399999999999987 444444433
No 168
>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH. This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.
Probab=98.42 E-value=4.6e-07 Score=56.68 Aligned_cols=60 Identities=15% Similarity=0.135 Sum_probs=42.7
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIK 68 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~ 68 (72)
+.+.|+++++++++|+|+.+.. ..|.+.+.+.. .+.|+++|+||+||.. +.+..++..++
T Consensus 56 ~l~~~~~~~~~Il~VvD~~d~~-----~s~~~~l~~~~-~~~piilV~NK~DLl~-k~~~~~~~~~~ 115 (360)
T TIGR03597 56 LLNSLGDSNALIVYVVDIFDFE-----GSLIPELKRFV-GGNPVLLVGNKIDLLP-KSVNLSKIKEW 115 (360)
T ss_pred HHhhcccCCcEEEEEEECcCCC-----CCccHHHHHHh-CCCCEEEEEEchhhCC-CCCCHHHHHHH
Confidence 3467888999999999997654 33666666554 3678999999999964 34445555443
No 169
>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=98.42 E-value=4.5e-07 Score=51.80 Aligned_cols=49 Identities=24% Similarity=0.236 Sum_probs=35.3
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
+...|++++|++++|+|.+++.. .|...+.... .+.|+++|+||+|+..
T Consensus 27 ~l~~~~~~ad~il~VvD~~~~~~-----~~~~~l~~~~-~~~~~ilV~NK~Dl~~ 75 (190)
T cd01855 27 LLSSISPKKALVVHVVDIFDFPG-----SLIPRLRLFG-GNNPVILVGNKIDLLP 75 (190)
T ss_pred HHHhcccCCcEEEEEEECccCCC-----ccchhHHHhc-CCCcEEEEEEchhcCC
Confidence 34678999999999999988642 1333332222 4689999999999864
No 170
>cd01895 EngA2 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=98.41 E-value=1.5e-06 Score=47.86 Aligned_cols=49 Identities=22% Similarity=0.142 Sum_probs=36.3
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccc
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLL 58 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~ 58 (72)
+++++|++++|+|.+++.+..... +...+.. .+.|+++++||+|+...+
T Consensus 81 ~~~~~d~vi~v~d~~~~~~~~~~~-~~~~~~~---~~~~~iiv~nK~Dl~~~~ 129 (174)
T cd01895 81 AIERADVVLLVIDATEGITEQDLR-IAGLILE---EGKALVIVVNKWDLVEKD 129 (174)
T ss_pred HHhhcCeEEEEEeCCCCcchhHHH-HHHHHHh---cCCCEEEEEeccccCCcc
Confidence 567899999999999987765542 3333322 358999999999997643
No 171
>cd01854 YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.
Probab=98.41 E-value=5.7e-07 Score=54.70 Aligned_cols=49 Identities=14% Similarity=0.124 Sum_probs=41.4
Q ss_pred hhhCCCEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCccc
Q 047889 6 YYRGALGALLVYDVTKST-TFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~ 57 (72)
.+.++|.+++|+|.+++. ++..+..|+..+.. .++|+++|.||+||.++
T Consensus 75 i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~---~~ip~iIVlNK~DL~~~ 124 (287)
T cd01854 75 IAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEA---AGIEPVIVLTKADLLDD 124 (287)
T ss_pred EEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHH---cCCCEEEEEEHHHCCCh
Confidence 377899999999999998 88888889877654 35899999999999653
No 172
>PRK04213 GTP-binding protein; Provisional
Probab=98.40 E-value=9.3e-08 Score=54.78 Aligned_cols=17 Identities=24% Similarity=0.038 Sum_probs=14.4
Q ss_pred CCCeEEEEeeCCCCccc
Q 047889 41 SNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 41 ~~~~~vlvgnK~Dl~~~ 57 (72)
.++|+++|+||+|+...
T Consensus 129 ~~~p~iiv~NK~Dl~~~ 145 (201)
T PRK04213 129 LGIPPIVAVNKMDKIKN 145 (201)
T ss_pred cCCCeEEEEECccccCc
Confidence 46999999999999653
No 173
>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.37 E-value=1.7e-06 Score=48.42 Aligned_cols=55 Identities=15% Similarity=0.212 Sum_probs=43.0
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHH-HHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSR-WLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
+|+.||.+.+++|+|.|.+|+........ ++..+++..-....+++++||.|...
T Consensus 78 yWRcYy~dt~avIyVVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~ 133 (182)
T KOG0072|consen 78 YWRCYYADTDAVIYVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSG 133 (182)
T ss_pred HHHHHhcccceEEEEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchh
Confidence 57899999999999999999987766643 44444444445688999999999865
No 174
>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.35 E-value=1.6e-06 Score=49.44 Aligned_cols=54 Identities=17% Similarity=0.283 Sum_probs=45.5
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCcc
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~ 56 (72)
+..||-.+|++++.+|.-+++.|...+.-++.+.... -.++|+++.|||+|.+.
T Consensus 81 wkdyf~~v~~iv~lvda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~ 135 (193)
T KOG0077|consen 81 WKDYFPQVDAIVYLVDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPY 135 (193)
T ss_pred HHHHHhhhceeEeeeehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCC
Confidence 5679999999999999999999999877666654433 26899999999999876
No 175
>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.
Probab=98.34 E-value=2.1e-06 Score=47.47 Aligned_cols=47 Identities=19% Similarity=0.114 Sum_probs=34.0
Q ss_pred ccchhhCCCEEEEEEECCCh---hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 3 TSAYYRGALGALLVYDVTKS---TTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~---~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
+..+++.+|++++|+|.++. .++..+. .+.. .+.|+++|+||+|+..
T Consensus 67 ~~~~~~~~d~il~v~d~~~~~~~~~~~~~~----~~~~---~~~p~ivv~NK~Dl~~ 116 (168)
T cd01887 67 RARGASLTDIAILVVAADDGVMPQTIEAIK----LAKA---ANVPFIVALNKIDKPN 116 (168)
T ss_pred HHHHHhhcCEEEEEEECCCCccHHHHHHHH----HHHH---cCCCEEEEEEceeccc
Confidence 45678899999999999884 3343322 2222 4589999999999864
No 176
>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.
Probab=98.34 E-value=1.7e-06 Score=47.14 Aligned_cols=47 Identities=23% Similarity=0.137 Sum_probs=37.6
Q ss_pred chhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCccc
Q 047889 5 AYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~ 57 (72)
.+++.+|++++|+|.+++.+......|.. ....|+++|+||+|+.+.
T Consensus 76 ~~~~~~~~~v~v~d~~~~~~~~~~~~~~~------~~~~~vi~v~nK~D~~~~ 122 (157)
T cd04164 76 EAIEEADLVLFVIDASRGLDEEDLEILEL------PADKPIIVVLNKSDLLPD 122 (157)
T ss_pred HHHhhCCEEEEEEECCCCCCHHHHHHHHh------hcCCCEEEEEEchhcCCc
Confidence 46778999999999999888777655432 356899999999998653
No 177
>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=98.33 E-value=2.3e-06 Score=56.66 Aligned_cols=50 Identities=24% Similarity=0.295 Sum_probs=39.9
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
...+++.+|++++|+|.++..++.....|...+. .++|+++|+||+|+..
T Consensus 87 v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~----~~ipiIiViNKiDl~~ 136 (595)
T TIGR01393 87 VSRSLAACEGALLLVDAAQGIEAQTLANVYLALE----NDLEIIPVINKIDLPS 136 (595)
T ss_pred HHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH----cCCCEEEEEECcCCCc
Confidence 3568899999999999999877777777654332 3579999999999964
No 178
>PRK12298 obgE GTPase CgtA; Reviewed
Probab=98.33 E-value=2.8e-06 Score=53.80 Aligned_cols=52 Identities=21% Similarity=0.140 Sum_probs=41.9
Q ss_pred hhhCCCEEEEEEECC---ChhhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCccc
Q 047889 6 YYRGALGALLVYDVT---KSTTFENVSRWLKDLRDHAG--SNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 6 y~~~a~~~i~v~d~~---~~~s~~~~~~~~~~~~~~~~--~~~~~vlvgnK~Dl~~~ 57 (72)
++..++++++|+|++ +.+.++....|.+++..... ...|+++|.||+|+...
T Consensus 234 ~i~radvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~ 290 (390)
T PRK12298 234 HLERCRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDE 290 (390)
T ss_pred HHHhCCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCCh
Confidence 467899999999998 56778888888888876542 46899999999999653
No 179
>PRK12288 GTPase RsgA; Reviewed
Probab=98.29 E-value=2.8e-06 Score=53.07 Aligned_cols=45 Identities=20% Similarity=0.218 Sum_probs=38.2
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
++|.+++|++++...++..+..|+..+.. .++|.++|+||+||..
T Consensus 120 NvD~vlIV~s~~p~~s~~~Ldr~L~~a~~---~~i~~VIVlNK~DL~~ 164 (347)
T PRK12288 120 NIDQIVIVSAVLPELSLNIIDRYLVACET---LGIEPLIVLNKIDLLD 164 (347)
T ss_pred EccEEEEEEeCCCCCCHHHHHHHHHHHHh---cCCCEEEEEECccCCC
Confidence 48999999999988899999999775542 4589999999999964
No 180
>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=98.26 E-value=4.5e-06 Score=52.85 Aligned_cols=47 Identities=23% Similarity=0.197 Sum_probs=36.2
Q ss_pred chhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 5 AYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
.+++.+|++++|+|.++..+..... +...+.+ .+.|+++|+||+|+.
T Consensus 250 ~~~~~ad~~ilV~D~~~~~~~~~~~-~~~~~~~---~~~~iiiv~NK~Dl~ 296 (429)
T TIGR03594 250 KAIERADVVLLVLDATEGITEQDLR-IAGLILE---AGKALVIVVNKWDLV 296 (429)
T ss_pred HHHHhCCEEEEEEECCCCccHHHHH-HHHHHHH---cCCcEEEEEECcccC
Confidence 3688999999999999887766653 3333332 458999999999996
No 181
>PRK00098 GTPase RsgA; Reviewed
Probab=98.24 E-value=2.6e-06 Score=52.09 Aligned_cols=47 Identities=21% Similarity=0.236 Sum_probs=37.6
Q ss_pred hhCCCEEEEEEECCChhhHHH-HHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 7 YRGALGALLVYDVTKSTTFEN-VSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..++|.+++|+|++++.++.. +..|+..+.. .++|+++|+||+||.+
T Consensus 78 aaniD~vllV~d~~~p~~~~~~idr~L~~~~~---~~ip~iIVlNK~DL~~ 125 (298)
T PRK00098 78 AANVDQAVLVFAAKEPDFSTDLLDRFLVLAEA---NGIKPIIVLNKIDLLD 125 (298)
T ss_pred eecCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEhHHcCC
Confidence 378999999999998876555 4778766643 4689999999999963
No 182
>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=98.23 E-value=4.7e-06 Score=50.14 Aligned_cols=47 Identities=23% Similarity=0.123 Sum_probs=36.3
Q ss_pred chhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 5 AYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.+++++|++++|+|.++..+.. ..+...+.. .+.|+++|+||+|+..
T Consensus 75 ~~l~~aDvvl~VvD~~~~~~~~--~~i~~~l~~---~~~p~ilV~NK~Dl~~ 121 (270)
T TIGR00436 75 SAIGGVDLILFVVDSDQWNGDG--EFVLTKLQN---LKRPVVLTRNKLDNKF 121 (270)
T ss_pred HHHhhCCEEEEEEECCCCCchH--HHHHHHHHh---cCCCEEEEEECeeCCC
Confidence 4678999999999999887765 344444443 4589999999999864
No 183
>PRK12296 obgE GTPase CgtA; Reviewed
Probab=98.20 E-value=5.2e-06 Score=54.06 Aligned_cols=53 Identities=13% Similarity=0.087 Sum_probs=38.5
Q ss_pred hhhCCCEEEEEEECCC----hhhHHHHHHHHHHHHHhcC-----------CCCeEEEEeeCCCCcccc
Q 047889 6 YYRGALGALLVYDVTK----STTFENVSRWLKDLRDHAG-----------SNIVIMLIGNKSDLKHLL 58 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~----~~s~~~~~~~~~~~~~~~~-----------~~~~~vlvgnK~Dl~~~~ 58 (72)
++..++++++|+|.++ ++.+..+..|..++..+.. ...|+++|+||+|+.+.+
T Consensus 233 hieradvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~ 300 (500)
T PRK12296 233 HIERCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDAR 300 (500)
T ss_pred HHHhcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhH
Confidence 4567899999999986 3456666666666654431 368999999999997543
No 184
>cd00066 G-alpha G protein alpha subunit. The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.
Probab=98.19 E-value=3.1e-06 Score=52.22 Aligned_cols=55 Identities=15% Similarity=0.184 Sum_probs=41.3
Q ss_pred cccchhhCCCEEEEEEECCCh----------hhHHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCcc
Q 047889 2 ITSAYYRGALGALLVYDVTKS----------TTFENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKH 56 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~----------~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~ 56 (72)
.|.+||.+++++++|.|+++. ..+......++.+-+... .+.|++|++||.|+-.
T Consensus 177 kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~D~f~ 242 (317)
T cd00066 177 KWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKKDLFE 242 (317)
T ss_pred hHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccChHHHH
Confidence 467899999999999999974 456555555555544332 5799999999999744
No 185
>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=98.19 E-value=3.8e-06 Score=55.58 Aligned_cols=48 Identities=21% Similarity=0.098 Sum_probs=36.9
Q ss_pred cccchhhCCCEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 2 ITSAYYRGALGALLVYDVTK---STTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
++..+++.+|++++|+|.++ +.+++.+..+ +. .++|+++++||+|+..
T Consensus 85 l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~~l----~~---~~vpiIVv~NK~Dl~~ 135 (590)
T TIGR00491 85 LRKRGGALADLAILIVDINEGFKPQTQEALNIL----RM---YKTPFVVAANKIDRIP 135 (590)
T ss_pred HHHHHHhhCCEEEEEEECCcCCCHhHHHHHHHH----HH---cCCCEEEEEECCCccc
Confidence 34568899999999999997 6677665432 22 3589999999999963
No 186
>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=98.18 E-value=8.5e-06 Score=45.68 Aligned_cols=50 Identities=22% Similarity=0.192 Sum_probs=36.8
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
+..+++.+|++++|+|.++..+... ..++..+.. ...|+++++||+|+..
T Consensus 79 ~~~~~~~~d~~i~v~d~~~~~~~~~-~~~~~~~~~---~~~~i~iv~nK~D~~~ 128 (189)
T cd00881 79 VIRGLSVSDGAILVVDANEGVQPQT-REHLRIARE---GGLPIIVAINKIDRVG 128 (189)
T ss_pred HHHHHHhcCEEEEEEECCCCCcHHH-HHHHHHHHH---CCCCeEEEEECCCCcc
Confidence 3567889999999999987665443 233333333 5689999999999965
No 187
>PRK15494 era GTPase Era; Provisional
Probab=98.17 E-value=8.5e-06 Score=50.69 Aligned_cols=46 Identities=33% Similarity=0.459 Sum_probs=32.9
Q ss_pred hhhCCCEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 6 YYRGALGALLVYDVTKSTTFENVS-RWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
+++++|++++|+|..+ +|.... .|++.+... +.|.++|+||+|+..
T Consensus 128 ~l~~aDvil~VvD~~~--s~~~~~~~il~~l~~~---~~p~IlViNKiDl~~ 174 (339)
T PRK15494 128 SLHSADLVLLIIDSLK--SFDDITHNILDKLRSL---NIVPIFLLNKIDIES 174 (339)
T ss_pred HhhhCCEEEEEEECCC--CCCHHHHHHHHHHHhc---CCCEEEEEEhhcCcc
Confidence 4679999999998544 566663 455555433 356678999999964
No 188
>smart00275 G_alpha G protein alpha subunit. Subunit of G proteins that contains the guanine nucleotide binding site
Probab=98.15 E-value=6.1e-06 Score=51.46 Aligned_cols=55 Identities=13% Similarity=0.147 Sum_probs=41.7
Q ss_pred cccchhhCCCEEEEEEECCCh----------hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCcc
Q 047889 2 ITSAYYRGALGALLVYDVTKS----------TTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~----------~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~ 56 (72)
.|..||.+++++++|.|+++- ..+......++.+-+.. -.++|++|++||.|+-.
T Consensus 200 kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~piil~~NK~D~~~ 265 (342)
T smart00275 200 KWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSIILFLNKIDLFE 265 (342)
T ss_pred hHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEEEEEecHHhHH
Confidence 467899999999999999973 45666655555554432 26799999999999854
No 189
>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=98.08 E-value=1.5e-05 Score=46.42 Aligned_cols=48 Identities=29% Similarity=0.295 Sum_probs=35.4
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
..+++.+|++++|+|.++..++.. ..|+..+.. ...|+++++||+|+.
T Consensus 89 ~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~---~~~p~iiviNK~D~~ 136 (213)
T cd04167 89 AAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAIL---EGLPIVLVINKIDRL 136 (213)
T ss_pred HHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECcccC
Confidence 456889999999999988766543 334444332 348999999999974
No 190
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=98.06 E-value=1.3e-05 Score=53.99 Aligned_cols=47 Identities=19% Similarity=0.209 Sum_probs=37.3
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
+++.+|++++|+|.++..++..+.-| ..+.. .+.|+++|+||+|+.+
T Consensus 529 ~i~~advvilViDat~~~s~~~~~i~-~~~~~---~~~piIiV~NK~DL~~ 575 (712)
T PRK09518 529 AIERSELALFLFDASQPISEQDLKVM-SMAVD---AGRALVLVFNKWDLMD 575 (712)
T ss_pred HhhcCCEEEEEEECCCCCCHHHHHHH-HHHHH---cCCCEEEEEEchhcCC
Confidence 46889999999999999888876543 33432 4589999999999964
No 191
>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=98.03 E-value=1.8e-05 Score=43.08 Aligned_cols=49 Identities=27% Similarity=0.121 Sum_probs=34.4
Q ss_pred chhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCccc
Q 047889 5 AYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~ 57 (72)
.+++++|++++|+|..+..+.... .....++. ...|+++|+||+|+.+.
T Consensus 72 ~~~~~~d~ii~v~d~~~~~~~~~~-~~~~~~~~---~~~piiiv~nK~D~~~~ 120 (157)
T cd01894 72 LAIEEADVILFVVDGREGLTPADE-EIAKYLRK---SKKPVILVVNKVDNIKE 120 (157)
T ss_pred HHHHhCCEEEEEEeccccCCccHH-HHHHHHHh---cCCCEEEEEECcccCCh
Confidence 467889999999999876554432 12222332 35899999999999763
No 192
>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=98.03 E-value=1.8e-05 Score=47.09 Aligned_cols=49 Identities=22% Similarity=0.167 Sum_probs=36.8
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..+++.+|++++|+|.++.... ....++..+.. .++|+++++||+|+..
T Consensus 82 ~~~l~~aD~~IlVvd~~~g~~~-~~~~~~~~~~~---~~~P~iivvNK~D~~~ 130 (237)
T cd04168 82 ERSLSVLDGAILVISAVEGVQA-QTRILWRLLRK---LNIPTIIFVNKIDRAG 130 (237)
T ss_pred HHHHHHhCeEEEEEeCCCCCCH-HHHHHHHHHHH---cCCCEEEEEECccccC
Confidence 4578999999999999886543 33445555544 3589999999999874
No 193
>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=98.01 E-value=1e-05 Score=53.58 Aligned_cols=55 Identities=13% Similarity=-0.115 Sum_probs=36.2
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
++|+++.|+|.++.+. ...+..++. ..+.|+++++||+|+.+++.+.. +..++++
T Consensus 72 ~aDvvI~VvDat~ler---~l~l~~ql~---~~~~PiIIVlNK~Dl~~~~~i~~-d~~~L~~ 126 (591)
T TIGR00437 72 KPDLVVNVVDASNLER---NLYLTLQLL---ELGIPMILALNLVDEAEKKGIRI-DEEKLEE 126 (591)
T ss_pred CCCEEEEEecCCcchh---hHHHHHHHH---hcCCCEEEEEehhHHHHhCCChh-hHHHHHH
Confidence 7899999999887432 223333333 24689999999999976555542 3444443
No 194
>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=98.00 E-value=1.5e-05 Score=50.80 Aligned_cols=49 Identities=18% Similarity=0.001 Sum_probs=32.3
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHH--HHHhcCCCCeEEEEeeCCCCcc
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKD--LRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~--~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
+++++|++++|+|.++.+++.. ..+... +.... ...|+++++||+|+..
T Consensus 105 ~~~~aD~~ilVvDa~~~~~~~~-~~t~~~~~~~~~~-~~~~iIVviNK~Dl~~ 155 (426)
T TIGR00483 105 GASQADAAVLVVAVGDGEFEVQ-PQTREHAFLARTL-GINQLIVAINKMDSVN 155 (426)
T ss_pred hhhhCCEEEEEEECCCCCcccC-CchHHHHHHHHHc-CCCeEEEEEEChhccC
Confidence 4578999999999999865422 222111 22222 3357999999999963
No 195
>cd00880 Era_like Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se
Probab=97.99 E-value=1.8e-05 Score=42.53 Aligned_cols=49 Identities=27% Similarity=0.154 Sum_probs=37.9
Q ss_pred chhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCccc
Q 047889 5 AYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~ 57 (72)
.+++.+|++++++|..+..+..... |..... ....|+++|+||+|+..+
T Consensus 71 ~~~~~~d~il~v~~~~~~~~~~~~~-~~~~~~---~~~~~~ivv~nK~D~~~~ 119 (163)
T cd00880 71 RVLERADLILFVVDADLRADEEEEK-LLELLR---ERGKPVLLVLNKIDLLPE 119 (163)
T ss_pred HHHHhCCEEEEEEeCCCCCCHHHHH-HHHHHH---hcCCeEEEEEEccccCCh
Confidence 4788999999999999988776655 333332 357899999999998653
No 196
>cd01857 HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.
Probab=97.96 E-value=1.8e-05 Score=43.36 Aligned_cols=47 Identities=19% Similarity=0.273 Sum_probs=34.3
Q ss_pred hhhCCCEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 6 YYRGALGALLVYDVTKSTTFE--NVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
....+|++++|+|..++.+.. .+..|+... . .+.|+++|.||+|+..
T Consensus 8 ~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~---~-~~k~~iivlNK~DL~~ 56 (141)
T cd01857 8 VVERSDIVVQIVDARNPLLFRPPDLERYVKEV---D-PRKKNILLLNKADLLT 56 (141)
T ss_pred HHhhCCEEEEEEEccCCcccCCHHHHHHHHhc---c-CCCcEEEEEechhcCC
Confidence 456899999999999876544 344444322 2 4689999999999854
No 197
>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=97.95 E-value=6.2e-05 Score=43.37 Aligned_cols=52 Identities=25% Similarity=0.406 Sum_probs=35.2
Q ss_pred hhhCCCEEEEEEECCC-hhhHHHHHHHHHHHHHhc---CCCCeEEEEeeCCCCccc
Q 047889 6 YYRGALGALLVYDVTK-STTFENVSRWLKDLRDHA---GSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~-~~s~~~~~~~~~~~~~~~---~~~~~~vlvgnK~Dl~~~ 57 (72)
|..++.|+|+|.|.+. +..+..+..++-.+.... ...+|+++++||.|+...
T Consensus 72 ~~~~~k~IIfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A 127 (181)
T PF09439_consen 72 YLSNAKGIIFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTA 127 (181)
T ss_dssp HHGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT-
T ss_pred chhhCCEEEEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCcccccc
Confidence 5678999999999874 566777755544443222 367999999999999763
No 198
>PRK05433 GTP-binding protein LepA; Provisional
Probab=97.95 E-value=3.3e-05 Score=51.35 Aligned_cols=50 Identities=26% Similarity=0.304 Sum_probs=38.0
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
+..+++.+|++++|+|.++.........|.... ..++|+++|+||+|+..
T Consensus 91 v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~----~~~lpiIvViNKiDl~~ 140 (600)
T PRK05433 91 VSRSLAACEGALLVVDASQGVEAQTLANVYLAL----ENDLEIIPVLNKIDLPA 140 (600)
T ss_pred HHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHH----HCCCCEEEEEECCCCCc
Confidence 356789999999999999876665555554322 14689999999999864
No 199
>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=97.93 E-value=4.6e-05 Score=41.49 Aligned_cols=47 Identities=23% Similarity=0.223 Sum_probs=33.1
Q ss_pred chhhCCCEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 5 AYYRGALGALLVYDVTKSTTFENV-SRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.++.++|++++|+|.+++. ... ..+...+.. ...|+++++||+|+..
T Consensus 78 ~~~~~~d~i~~v~d~~~~~--~~~~~~~~~~~~~---~~~~~iiv~nK~Dl~~ 125 (168)
T cd04163 78 SALKDVDLVLFVVDASEPI--GEGDEFILELLKK---SKTPVILVLNKIDLVK 125 (168)
T ss_pred HHHHhCCEEEEEEECCCcc--CchHHHHHHHHHH---hCCCEEEEEEchhccc
Confidence 4578899999999999872 222 223333333 2589999999999974
No 200
>PRK00093 GTP-binding protein Der; Reviewed
Probab=97.91 E-value=4.4e-05 Score=48.54 Aligned_cols=47 Identities=26% Similarity=0.198 Sum_probs=33.8
Q ss_pred cchhhCCCEEEEEEECCChhhHH--HHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFE--NVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..+++++|++++|+|.++..+.. .+..|+. . .+.|+++|+||+|+..
T Consensus 75 ~~~~~~ad~il~vvd~~~~~~~~~~~~~~~l~---~---~~~piilv~NK~D~~~ 123 (435)
T PRK00093 75 ELAIEEADVILFVVDGRAGLTPADEEIAKILR---K---SNKPVILVVNKVDGPD 123 (435)
T ss_pred HHHHHhCCEEEEEEECCCCCCHHHHHHHHHHH---H---cCCcEEEEEECccCcc
Confidence 35678999999999998754432 2334432 2 2689999999999754
No 201
>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1). The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.
Probab=97.89 E-value=0.00015 Score=34.53 Aligned_cols=43 Identities=21% Similarity=0.316 Sum_probs=27.3
Q ss_pred CCEEEEEEECCChhhH--HHHHHHHHHHHHhcCCCCeEEEEeeCCC
Q 047889 10 ALGALLVYDVTKSTTF--ENVSRWLKDLRDHAGSNIVIMLIGNKSD 53 (72)
Q Consensus 10 a~~~i~v~d~~~~~s~--~~~~~~~~~~~~~~~~~~~~vlvgnK~D 53 (72)
.+++++++|++....+ +.=...+++++..- ++.|+++|.||+|
T Consensus 14 ~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F-~~~P~i~V~nK~D 58 (58)
T PF06858_consen 14 ADAILFIIDPSEQCGYSIEEQLSLFKEIKPLF-PNKPVIVVLNKID 58 (58)
T ss_dssp -SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHT-TTS-EEEEE--TT
T ss_pred cceEEEEEcCCCCCCCCHHHHHHHHHHHHHHc-CCCCEEEEEeccC
Confidence 4679999999987644 44345566666655 5899999999998
No 202
>PRK04004 translation initiation factor IF-2; Validated
Probab=97.86 E-value=4.5e-05 Score=50.61 Aligned_cols=46 Identities=22% Similarity=0.144 Sum_probs=35.5
Q ss_pred ccchhhCCCEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 3 TSAYYRGALGALLVYDVTK---STTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
+..+++.+|++++|+|.++ +.+++.+..+ .. .++|+++++||+|+.
T Consensus 88 ~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~~----~~---~~vpiIvviNK~D~~ 136 (586)
T PRK04004 88 RKRGGALADIAILVVDINEGFQPQTIEAINIL----KR---RKTPFVVAANKIDRI 136 (586)
T ss_pred HHHhHhhCCEEEEEEECCCCCCHhHHHHHHHH----HH---cCCCEEEEEECcCCc
Confidence 3456778999999999997 7777766432 22 468999999999985
No 203
>cd01859 MJ1464 MJ1464. This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.
Probab=97.85 E-value=1.7e-05 Score=43.92 Aligned_cols=50 Identities=14% Similarity=0.100 Sum_probs=33.9
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.++..+++|.+++|+|.+++..... ..+...+. ..+.|+++|.||+|+..
T Consensus 6 ~~~i~~~aD~vl~V~D~~~~~~~~~-~~l~~~~~---~~~~p~iiv~NK~Dl~~ 55 (156)
T cd01859 6 VRRIIKESDVVLEVLDARDPELTRS-RKLERYVL---ELGKKLLIVLNKADLVP 55 (156)
T ss_pred HHHHHhhCCEEEEEeeCCCCcccCC-HHHHHHHH---hCCCcEEEEEEhHHhCC
Confidence 4567788999999999987653222 11222221 23579999999999853
No 204
>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]
Probab=97.85 E-value=3.6e-05 Score=50.86 Aligned_cols=61 Identities=21% Similarity=0.231 Sum_probs=44.3
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
..+|.+.++||.+++.||..+....+..... ..+|+++|+.|.|+.+..+...-+-.++++
T Consensus 494 ~~cDv~~~~YDsS~p~sf~~~a~v~~~~~~~--~~~Pc~~va~K~dlDe~~Q~~~iqpde~~~ 554 (625)
T KOG1707|consen 494 AACDVACLVYDSSNPRSFEYLAEVYNKYFDL--YKIPCLMVATKADLDEVPQRYSIQPDEFCR 554 (625)
T ss_pred ceeeeEEEecccCCchHHHHHHHHHHHhhhc--cCCceEEEeeccccchhhhccCCChHHHHH
Confidence 4579999999999999999987765554322 679999999999997754322222244444
No 205
>PRK00089 era GTPase Era; Reviewed
Probab=97.85 E-value=6.4e-05 Score=45.55 Aligned_cols=46 Identities=22% Similarity=0.194 Sum_probs=31.7
Q ss_pred hhhCCCEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 6 YYRGALGALLVYDVTKSTTFENV-SRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.+.++|++++|+|.++.. ... ....+.+. ..+.|+++|+||+|+..
T Consensus 81 ~~~~~D~il~vvd~~~~~--~~~~~~i~~~l~---~~~~pvilVlNKiDl~~ 127 (292)
T PRK00089 81 SLKDVDLVLFVVDADEKI--GPGDEFILEKLK---KVKTPVILVLNKIDLVK 127 (292)
T ss_pred HHhcCCEEEEEEeCCCCC--ChhHHHHHHHHh---hcCCCEEEEEECCcCCC
Confidence 567899999999998832 222 22222232 24689999999999963
No 206
>CHL00189 infB translation initiation factor 2; Provisional
Probab=97.84 E-value=3.3e-05 Score=52.41 Aligned_cols=48 Identities=21% Similarity=0.215 Sum_probs=35.4
Q ss_pred cccchhhCCCEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 2 ITSAYYRGALGALLVYDVTK---STTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
++..+++.+|++++|+|.++ +.+++.+.. +. ..++|+++++||+|+..
T Consensus 311 mr~rg~~~aDiaILVVDA~dGv~~QT~E~I~~----~k---~~~iPiIVViNKiDl~~ 361 (742)
T CHL00189 311 MRSRGANVTDIAILIIAADDGVKPQTIEAINY----IQ---AANVPIIVAINKIDKAN 361 (742)
T ss_pred HHHHHHHHCCEEEEEEECcCCCChhhHHHHHH----HH---hcCceEEEEEECCCccc
Confidence 34568899999999999887 445544332 22 24689999999999965
No 207
>TIGR00487 IF-2 translation initiation factor IF-2. This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.
Probab=97.83 E-value=8e-05 Score=49.47 Aligned_cols=48 Identities=21% Similarity=0.177 Sum_probs=34.0
Q ss_pred cccchhhCCCEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 2 ITSAYYRGALGALLVYDVTK---STTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
++..+++.+|++++|+|.++ +.+++.+. .+ ...++|+++++||+|+.+
T Consensus 151 ~r~rga~~aDiaILVVda~dgv~~qT~e~i~----~~---~~~~vPiIVviNKiDl~~ 201 (587)
T TIGR00487 151 MRARGAKVTDIVVLVVAADDGVMPQTIEAIS----HA---KAANVPIIVAINKIDKPE 201 (587)
T ss_pred HHHhhhccCCEEEEEEECCCCCCHhHHHHHH----HH---HHcCCCEEEEEECccccc
Confidence 34557788999999999886 34444321 12 224689999999999864
No 208
>cd04169 RF3 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.
Probab=97.83 E-value=8.1e-05 Score=45.03 Aligned_cols=49 Identities=20% Similarity=0.142 Sum_probs=33.9
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..+++.+|++++|+|.++...- ....++..... .++|+++++||+|+..
T Consensus 89 ~~~l~~aD~~IlVvda~~g~~~-~~~~i~~~~~~---~~~P~iivvNK~D~~~ 137 (267)
T cd04169 89 YRTLTAVDSAVMVIDAAKGVEP-QTRKLFEVCRL---RGIPIITFINKLDREG 137 (267)
T ss_pred HHHHHHCCEEEEEEECCCCccH-HHHHHHHHHHh---cCCCEEEEEECCccCC
Confidence 3467889999999999875321 22333333332 4689999999999864
No 209
>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB. Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.
Probab=97.80 E-value=7.3e-05 Score=42.25 Aligned_cols=48 Identities=21% Similarity=0.336 Sum_probs=33.2
Q ss_pred chhhC---CCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 5 AYYRG---ALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 5 ~y~~~---a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.|++. ++++++|+|.+++-+...... +..+.. ...|+++++||+|+..
T Consensus 93 ~~l~~~~~~~~ii~vvd~~~~~~~~~~~~-~~~~~~---~~~pviiv~nK~D~~~ 143 (179)
T TIGR03598 93 EYLEKRENLKGVVLLMDIRHPLKELDLEM-LEWLRE---RGIPVLIVLTKADKLK 143 (179)
T ss_pred HHHHhChhhcEEEEEecCCCCCCHHHHHH-HHHHHH---cCCCEEEEEECcccCC
Confidence 45654 579999999988655555422 233332 3689999999999864
No 210
>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA. This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.
Probab=97.77 E-value=9.8e-05 Score=49.12 Aligned_cols=51 Identities=18% Similarity=0.130 Sum_probs=38.1
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLL 58 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~ 58 (72)
..+++.+|++++|+|.++- .....+.|+..+.. .++|.+++.||+|+...+
T Consensus 82 ~~~l~~aD~alLVVDa~~G-~~~qT~~~l~~a~~---~~ip~IVviNKiD~~~a~ 132 (594)
T TIGR01394 82 ERVLGMVDGVLLLVDASEG-PMPQTRFVLKKALE---LGLKPIVVINKIDRPSAR 132 (594)
T ss_pred HHHHHhCCEEEEEEeCCCC-CcHHHHHHHHHHHH---CCCCEEEEEECCCCCCcC
Confidence 4578899999999998763 34455666666654 358899999999996543
No 211
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=97.76 E-value=7.9e-05 Score=50.33 Aligned_cols=48 Identities=21% Similarity=0.150 Sum_probs=34.8
Q ss_pred cchhhCCCEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENV-SRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..+++.+|++++|+|.++. +... ..|.+.++. .+.|+++|+||+|+..
T Consensus 349 ~~~~~~aD~iL~VvDa~~~--~~~~d~~i~~~Lr~---~~~pvIlV~NK~D~~~ 397 (712)
T PRK09518 349 QIAVSLADAVVFVVDGQVG--LTSTDERIVRMLRR---AGKPVVLAVNKIDDQA 397 (712)
T ss_pred HHHHHhCCEEEEEEECCCC--CCHHHHHHHHHHHh---cCCCEEEEEECccccc
Confidence 3468899999999999763 2222 245555543 5689999999999854
No 212
>PRK00093 GTP-binding protein Der; Reviewed
Probab=97.75 E-value=0.0001 Score=46.92 Aligned_cols=47 Identities=23% Similarity=0.167 Sum_probs=35.7
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
+++.+|++++|+|.++..+..... +...+.+ ...|+++++||+|+..
T Consensus 252 ~~~~ad~~ilViD~~~~~~~~~~~-i~~~~~~---~~~~~ivv~NK~Dl~~ 298 (435)
T PRK00093 252 AIERADVVLLVIDATEGITEQDLR-IAGLALE---AGRALVIVVNKWDLVD 298 (435)
T ss_pred HHHHCCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCcEEEEEECccCCC
Confidence 678899999999999887766543 3333333 3589999999999863
No 213
>TIGR00475 selB selenocysteine-specific elongation factor SelB. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.
Probab=97.75 E-value=0.00012 Score=48.58 Aligned_cols=46 Identities=28% Similarity=0.179 Sum_probs=33.6
Q ss_pred chhhCCCEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCccc
Q 047889 5 AYYRGALGALLVYDVTK---STTFENVSRWLKDLRDHAGSNIV-IMLIGNKSDLKHL 57 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~-~vlvgnK~Dl~~~ 57 (72)
.++.++|++++|+|.++ +.+++.+. .+.. .++| +++|+||+|+.++
T Consensus 69 ~g~~~aD~aILVVDa~~G~~~qT~ehl~----il~~---lgi~~iIVVlNK~Dlv~~ 118 (581)
T TIGR00475 69 AGGGGIDAALLVVDADEGVMTQTGEHLA----VLDL---LGIPHTIVVITKADRVNE 118 (581)
T ss_pred hhhccCCEEEEEEECCCCCcHHHHHHHH----HHHH---cCCCeEEEEEECCCCCCH
Confidence 45678999999999998 56665543 2222 2466 9999999999653
No 214
>PRK13351 elongation factor G; Reviewed
Probab=97.73 E-value=9.9e-05 Score=49.60 Aligned_cols=49 Identities=20% Similarity=0.225 Sum_probs=38.2
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..+++.+|++++|+|.++..+......|. .+.. .++|+++++||+|+..
T Consensus 91 ~~~l~~aD~~ilVvd~~~~~~~~~~~~~~-~~~~---~~~p~iiviNK~D~~~ 139 (687)
T PRK13351 91 ERSLRVLDGAVVVFDAVTGVQPQTETVWR-QADR---YGIPRLIFINKMDRVG 139 (687)
T ss_pred HHHHHhCCEEEEEEeCCCCCCHHHHHHHH-HHHh---cCCCEEEEEECCCCCC
Confidence 46789999999999999887776655552 3332 3589999999999875
No 215
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=97.72 E-value=5.8e-05 Score=51.58 Aligned_cols=47 Identities=17% Similarity=0.111 Sum_probs=34.1
Q ss_pred ccchhhCCCEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 3 TSAYYRGALGALLVYDVTK---STTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
+..+++.+|++++|+|.++ +.+++.+. .....++|+++++||+|+..
T Consensus 354 ~~rga~~aDiaILVVdAddGv~~qT~e~i~-------~a~~~~vPiIVviNKiDl~~ 403 (787)
T PRK05306 354 RARGAQVTDIVVLVVAADDGVMPQTIEAIN-------HAKAAGVPIIVAINKIDKPG 403 (787)
T ss_pred HHhhhhhCCEEEEEEECCCCCCHhHHHHHH-------HHHhcCCcEEEEEECccccc
Confidence 4456788999999999987 44544432 12224689999999999964
No 216
>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.
Probab=97.72 E-value=0.00014 Score=46.13 Aligned_cols=50 Identities=30% Similarity=0.174 Sum_probs=34.4
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCccc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~ 57 (72)
..+++.+|++++|+|..+..+.... .+...+++ .+.|+++|+||+|+...
T Consensus 73 ~~~~~~ad~vl~vvD~~~~~~~~d~-~i~~~l~~---~~~piilVvNK~D~~~~ 122 (429)
T TIGR03594 73 EIAIEEADVILFVVDGREGLTPEDE-EIAKWLRK---SGKPVILVANKIDGKKE 122 (429)
T ss_pred HHHHhhCCEEEEEEeCCCCCCHHHH-HHHHHHHH---hCCCEEEEEECccCCcc
Confidence 3567899999999999875443321 12222333 35899999999998653
No 217
>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]
Probab=97.60 E-value=0.00027 Score=44.13 Aligned_cols=48 Identities=19% Similarity=0.340 Sum_probs=39.7
Q ss_pred hCCCEEEEEEECCCh---hhHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCc
Q 047889 8 RGALGALLVYDVTKS---TTFENVSRWLKDLRDHAG--SNIVIMLIGNKSDLK 55 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~---~s~~~~~~~~~~~~~~~~--~~~~~vlvgnK~Dl~ 55 (72)
..++.+++|.|++.+ +.+++++....++..+.. .+-|.++|+||+|++
T Consensus 273 ER~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~ 325 (366)
T KOG1489|consen 273 ERCKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLP 325 (366)
T ss_pred HhhceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCch
Confidence 468899999999999 888888877777765543 678999999999995
No 218
>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2). eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel
Probab=97.60 E-value=0.00018 Score=41.62 Aligned_cols=44 Identities=25% Similarity=0.215 Sum_probs=29.5
Q ss_pred hhCCCEEEEEEECCCh----hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 7 YRGALGALLVYDVTKS----TTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~----~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..++|++++|+|.+++ .+++.+..| ... ...|++++.||+|+..
T Consensus 104 ~~~~D~~llVvd~~~~~~~~~t~~~l~~~----~~~--~~~~iiivvNK~Dl~~ 151 (203)
T cd01888 104 AAVMDGALLLIAANEPCPQPQTSEHLAAL----EIM--GLKHIIIVQNKIDLVK 151 (203)
T ss_pred hhcCCEEEEEEECCCCCCCcchHHHHHHH----HHc--CCCcEEEEEEchhccC
Confidence 4466999999999873 344443333 221 2247899999999964
No 219
>cd01889 SelB_euk SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk
Probab=97.59 E-value=0.00028 Score=40.25 Aligned_cols=45 Identities=22% Similarity=0.135 Sum_probs=30.0
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
+.+|++++|+|.++.........+. +... ...|+++++||+|+..
T Consensus 90 ~~~d~vi~VvD~~~~~~~~~~~~~~--~~~~--~~~~~iiv~NK~Dl~~ 134 (192)
T cd01889 90 QIIDLMLLVVDATKGIQTQTAECLV--IGEI--LCKKLIVVLNKIDLIP 134 (192)
T ss_pred hhCCEEEEEEECCCCccHHHHHHHH--HHHH--cCCCEEEEEECcccCC
Confidence 3568999999998754444333332 1122 2469999999999863
No 220
>PRK14845 translation initiation factor IF-2; Provisional
Probab=97.55 E-value=0.00021 Score=50.22 Aligned_cols=46 Identities=28% Similarity=0.223 Sum_probs=34.6
Q ss_pred cchhhCCCEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 4 SAYYRGALGALLVYDVTK---STTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..+++.+|++++|+|.++ +.+++.+.. +.. .++|+++++||+|+..
T Consensus 544 ~~g~~~aDivlLVVDa~~Gi~~qT~e~I~~----lk~---~~iPiIVViNKiDL~~ 592 (1049)
T PRK14845 544 KRGGSLADLAVLVVDINEGFKPQTIEAINI----LRQ---YKTPFVVAANKIDLIP 592 (1049)
T ss_pred HhhcccCCEEEEEEECcccCCHhHHHHHHH----HHH---cCCCEEEEEECCCCcc
Confidence 445678999999999986 666666543 222 3579999999999953
No 221
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=97.55 E-value=0.00033 Score=47.91 Aligned_cols=54 Identities=17% Similarity=-0.043 Sum_probs=37.7
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHH
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKS 69 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a 69 (72)
.+|++++|+|.++.+. ...|..++.+. +.|++++.||+|+.+++.+. .+..+++
T Consensus 85 ~aD~vI~VvDat~ler---~l~l~~ql~e~---giPvIvVlNK~Dl~~~~~i~-id~~~L~ 138 (772)
T PRK09554 85 DADLLINVVDASNLER---NLYLTLQLLEL---GIPCIVALNMLDIAEKQNIR-IDIDALS 138 (772)
T ss_pred CCCEEEEEecCCcchh---hHHHHHHHHHc---CCCEEEEEEchhhhhccCcH-HHHHHHH
Confidence 7899999999887543 33455555543 58999999999987655553 3344443
No 222
>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins. GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.
Probab=97.54 E-value=0.00086 Score=39.78 Aligned_cols=24 Identities=38% Similarity=0.224 Sum_probs=18.5
Q ss_pred chhhCCCEEEEEEECCChh-hHHHH
Q 047889 5 AYYRGALGALLVYDVTKST-TFENV 28 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~-s~~~~ 28 (72)
.+++++|++++|+|.+++. ....+
T Consensus 73 ~~~~~ad~il~V~D~t~~~~~~~~~ 97 (233)
T cd01896 73 AVARTADLILMVLDATKPEGHREIL 97 (233)
T ss_pred HhhccCCEEEEEecCCcchhHHHHH
Confidence 4688999999999998866 34333
No 223
>cd01858 NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.
Probab=97.51 E-value=0.00023 Score=39.55 Aligned_cols=46 Identities=17% Similarity=0.251 Sum_probs=31.9
Q ss_pred hhCCCEEEEEEECCChhh--HHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 7 YRGALGALLVYDVTKSTT--FENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s--~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
+.++|.+++|.|..++.. -..+..+ +... ..+.|+++|.||+|+..
T Consensus 6 l~~aD~il~VvD~~~p~~~~~~~i~~~---l~~~-~~~~p~ilVlNKiDl~~ 53 (157)
T cd01858 6 IDSSDVVIQVLDARDPMGTRCKHVEEY---LKKE-KPHKHLIFVLNKCDLVP 53 (157)
T ss_pred hhhCCEEEEEEECCCCccccCHHHHHH---HHhc-cCCCCEEEEEEchhcCC
Confidence 568999999999988742 2222332 3322 24589999999999954
No 224
>COG2262 HflX GTPases [General function prediction only]
Probab=97.46 E-value=0.00076 Score=43.14 Aligned_cols=49 Identities=27% Similarity=0.243 Sum_probs=40.3
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..||.++.|.|.++|...+.+..-.+-+.+..-.++|+++|-||+|+-.
T Consensus 270 ~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~ 318 (411)
T COG2262 270 KEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLE 318 (411)
T ss_pred hcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccC
Confidence 4689999999999998877777766667666556799999999999643
No 225
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=97.42 E-value=0.00039 Score=44.39 Aligned_cols=48 Identities=17% Similarity=0.014 Sum_probs=30.1
Q ss_pred hhCCCEEEEEEECCChhhHHH-HHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 7 YRGALGALLVYDVTKSTTFEN-VSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.+++|++++|+|.+++.++.. ...+...+... ...|+++++||+|+..
T Consensus 105 ~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~--~~~~iivviNK~Dl~~ 153 (425)
T PRK12317 105 ASQADAAVLVVAADDAGGVMPQTREHVFLARTL--GINQLIVAINKMDAVN 153 (425)
T ss_pred hhcCCEEEEEEEcccCCCCCcchHHHHHHHHHc--CCCeEEEEEEcccccc
Confidence 457999999999987422212 12222223222 2246899999999964
No 226
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=97.38 E-value=0.00057 Score=45.00 Aligned_cols=49 Identities=20% Similarity=0.154 Sum_probs=34.4
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..+++.+|++++|+|.++.-. .....++..... .++|+++++||+|+..
T Consensus 97 ~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~~~~~---~~iPiiv~iNK~D~~~ 145 (526)
T PRK00741 97 YRTLTAVDSALMVIDAAKGVE-PQTRKLMEVCRL---RDTPIFTFINKLDRDG 145 (526)
T ss_pred HHHHHHCCEEEEEEecCCCCC-HHHHHHHHHHHh---cCCCEEEEEECCcccc
Confidence 356889999999999987432 123334333332 4689999999999865
No 227
>cd01849 YlqF_related_GTPase YlqF-related GTPases. These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.
Probab=97.35 E-value=0.00042 Score=38.47 Aligned_cols=43 Identities=19% Similarity=0.046 Sum_probs=29.0
Q ss_pred CEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 11 LGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 11 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
|.+++|.|..++.+... .++.. ......+.|+++|.||+|+..
T Consensus 1 Dvvl~VvD~~~p~~~~~--~~i~~-~~~~~~~~p~IiVlNK~Dl~~ 43 (155)
T cd01849 1 DVILEVLDARDPLGTRS--PDIER-VLIKEKGKKLILVLNKADLVP 43 (155)
T ss_pred CEEEEEEeccCCccccC--HHHHH-HHHhcCCCCEEEEEechhcCC
Confidence 67899999988765442 23331 111225689999999999954
No 228
>PRK10218 GTP-binding protein; Provisional
Probab=97.31 E-value=0.00097 Score=44.65 Aligned_cols=51 Identities=16% Similarity=-0.009 Sum_probs=35.4
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCccc
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~ 57 (72)
+..+++.+|++++|+|.++.... ..+.++..+.. .++|.+++.||+|+...
T Consensus 85 v~~~l~~aDg~ILVVDa~~G~~~-qt~~~l~~a~~---~gip~IVviNKiD~~~a 135 (607)
T PRK10218 85 VERVMSMVDSVLLVVDAFDGPMP-QTRFVTKKAFA---YGLKPIVVINKVDRPGA 135 (607)
T ss_pred HHHHHHhCCEEEEEEecccCccH-HHHHHHHHHHH---cCCCEEEEEECcCCCCC
Confidence 35688999999999999874322 22333334433 35788999999998753
No 229
>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=97.30 E-value=0.0016 Score=39.12 Aligned_cols=49 Identities=22% Similarity=0.223 Sum_probs=35.6
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..+++.+|++++|+|.++.........|. .+.. .++|.+++.||+|+..
T Consensus 82 ~~~l~~aD~~i~Vvd~~~g~~~~~~~~~~-~~~~---~~~p~iivvNK~D~~~ 130 (268)
T cd04170 82 RAALRAADAALVVVSAQSGVEVGTEKLWE-FADE---AGIPRIIFINKMDRER 130 (268)
T ss_pred HHHHHHCCEEEEEEeCCCCCCHHHHHHHH-HHHH---cCCCEEEEEECCccCC
Confidence 45678899999999998866554434442 3332 4589999999999875
No 230
>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=97.29 E-value=0.0017 Score=37.76 Aligned_cols=48 Identities=25% Similarity=0.070 Sum_probs=29.6
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.++.+|++++|+|.++... .........+... ...++++|.||+|+..
T Consensus 97 ~~~~ad~~llVvD~~~~~~-~~~~~~~~~~~~~--~~~~iIvviNK~D~~~ 144 (208)
T cd04166 97 GASTADLAILLVDARKGVL-EQTRRHSYILSLL--GIRHVVVAVNKMDLVD 144 (208)
T ss_pred hhhhCCEEEEEEECCCCcc-HhHHHHHHHHHHc--CCCcEEEEEEchhccc
Confidence 4678999999999987532 1111222222222 2245788999999864
No 231
>TIGR00503 prfC peptide chain release factor 3. This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus.
Probab=97.29 E-value=0.00083 Score=44.26 Aligned_cols=48 Identities=19% Similarity=0.134 Sum_probs=33.3
Q ss_pred chhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 5 AYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.+++.+|++++|+|.++.- ......+++..+. .++|+++++||+|+..
T Consensus 99 ~~l~~aD~aIlVvDa~~gv-~~~t~~l~~~~~~---~~~PiivviNKiD~~~ 146 (527)
T TIGR00503 99 RTLTAVDNCLMVIDAAKGV-ETRTRKLMEVTRL---RDTPIFTFMNKLDRDI 146 (527)
T ss_pred HHHHhCCEEEEEEECCCCC-CHHHHHHHHHHHh---cCCCEEEEEECccccC
Confidence 4678899999999988631 1223344443332 4689999999999864
No 232
>PRK13796 GTPase YqeH; Provisional
Probab=97.26 E-value=0.0011 Score=41.77 Aligned_cols=53 Identities=21% Similarity=0.240 Sum_probs=34.2
Q ss_pred CCC-EEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHH
Q 047889 9 GAL-GALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIK 68 (72)
Q Consensus 9 ~a~-~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~ 68 (72)
.++ .+++|.|+.+.. ..|.+.+.+.. .+.|+++|+||+||.. +.+..++..++
T Consensus 68 ~~~~lIv~VVD~~D~~-----~s~~~~L~~~~-~~kpviLViNK~DLl~-~~~~~~~i~~~ 121 (365)
T PRK13796 68 DSDALVVNVVDIFDFN-----GSWIPGLHRFV-GNNPVLLVGNKADLLP-KSVKKNKVKNW 121 (365)
T ss_pred ccCcEEEEEEECccCC-----CchhHHHHHHh-CCCCEEEEEEchhhCC-CccCHHHHHHH
Confidence 345 778889987743 33555665544 3678999999999954 34444444433
No 233
>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily. EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in
Probab=97.15 E-value=0.0014 Score=38.36 Aligned_cols=46 Identities=24% Similarity=0.076 Sum_probs=29.2
Q ss_pred hhCCCEEEEEEECCChhh---H----HHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 7 YRGALGALLVYDVTKSTT---F----ENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s---~----~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
.+.+|++++|.|.++... | .....| ...... ...|++++.||+|+.
T Consensus 98 ~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~-~~~~~~--~~~~iiivvNK~Dl~ 150 (219)
T cd01883 98 ASQADVAVLVVDARKGEFEAGFEKGGQTREHA-LLARTL--GVKQLIVAVNKMDDV 150 (219)
T ss_pred hhhCCEEEEEEECCCCccccccccccchHHHH-HHHHHc--CCCeEEEEEEccccc
Confidence 456999999999988421 1 112222 222221 236899999999997
No 234
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=97.15 E-value=0.0013 Score=42.06 Aligned_cols=46 Identities=28% Similarity=0.290 Sum_probs=29.7
Q ss_pred chhhC---CCEEEEEEECCCh----hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 5 AYYRG---ALGALLVYDVTKS----TTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 5 ~y~~~---a~~~i~v~d~~~~----~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.|+++ +|++++|+|.++. .+.+.+.. +... ...|+++|+||+|+.+
T Consensus 101 ~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~----l~~~--~i~~iiVVlNK~Dl~~ 153 (411)
T PRK04000 101 TMLSGAALMDGAILVIAANEPCPQPQTKEHLMA----LDII--GIKNIVIVQNKIDLVS 153 (411)
T ss_pred HHHHHHhhCCEEEEEEECCCCCCChhHHHHHHH----HHHc--CCCcEEEEEEeecccc
Confidence 34454 5999999999953 34443332 2221 2246899999999965
No 235
>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=97.12 E-value=0.0012 Score=44.65 Aligned_cols=49 Identities=18% Similarity=0.191 Sum_probs=35.3
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..+++.+|++++|+|.++.........| ..+.. .++|+++++||+|+..
T Consensus 93 ~~~l~~~D~~ilVvda~~g~~~~~~~~~-~~~~~---~~~p~ivviNK~D~~~ 141 (689)
T TIGR00484 93 ERSLRVLDGAVAVLDAVGGVQPQSETVW-RQANR---YEVPRIAFVNKMDKTG 141 (689)
T ss_pred HHHHHHhCEEEEEEeCCCCCChhHHHHH-HHHHH---cCCCEEEEEECCCCCC
Confidence 3568899999999999876554433333 23332 3589999999999875
No 236
>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=97.10 E-value=0.0038 Score=35.59 Aligned_cols=45 Identities=36% Similarity=0.352 Sum_probs=30.6
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
.+.+|++++|.|..+.-.-.. ...+..+.. .++|++++.||+|+.
T Consensus 91 ~~~~D~ailvVda~~g~~~~~-~~~l~~~~~---~~~p~ivvlNK~D~~ 135 (188)
T PF00009_consen 91 LRQADIAILVVDANDGIQPQT-EEHLKILRE---LGIPIIVVLNKMDLI 135 (188)
T ss_dssp HTTSSEEEEEEETTTBSTHHH-HHHHHHHHH---TT-SEEEEEETCTSS
T ss_pred ecccccceeeeeccccccccc-ccccccccc---cccceEEeeeeccch
Confidence 567999999999986533322 222333333 458899999999987
No 237
>PRK09866 hypothetical protein; Provisional
Probab=97.06 E-value=0.0051 Score=41.91 Aligned_cols=49 Identities=16% Similarity=0.174 Sum_probs=33.3
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.+..+|.+++|.|.+...+... ....+.++... ...|+++|.||+|+..
T Consensus 255 qL~eADvVLFVVDat~~~s~~D-eeIlk~Lkk~~-K~~PVILVVNKIDl~d 303 (741)
T PRK09866 255 QLARASAVLAVLDYTQLKSISD-EEVREAILAVG-QSVPLYVLVNKFDQQD 303 (741)
T ss_pred HHhhCCEEEEEEeCCCCCChhH-HHHHHHHHhcC-CCCCEEEEEEcccCCC
Confidence 4778999999999987544333 12233343322 3369999999999854
No 238
>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=97.04 E-value=0.0011 Score=38.26 Aligned_cols=42 Identities=12% Similarity=0.126 Sum_probs=29.2
Q ss_pred hhCCCEEEEEEECCChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 7 YRGALGALLVYDVTKSTTFENV-SRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
+.++|.++++-+ .+|... ..|++.+... ..|+++|+||+|+.
T Consensus 78 ~~~~d~~l~v~~----~~~~~~d~~~~~~l~~~---~~~~ilV~nK~D~~ 120 (197)
T cd04104 78 FSEYDFFIIISS----TRFSSNDVKLAKAIQCM---GKKFYFVRTKVDRD 120 (197)
T ss_pred ccCcCEEEEEeC----CCCCHHHHHHHHHHHHh---CCCEEEEEecccch
Confidence 567888888732 335555 4566666554 47899999999983
No 239
>PRK01889 GTPase RsgA; Reviewed
Probab=96.97 E-value=0.0033 Score=39.61 Aligned_cols=47 Identities=15% Similarity=0.203 Sum_probs=34.9
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
-.++|.+++|.+....-+...+..++..+.. .+++.++|.||+||.+
T Consensus 110 aANvD~vliV~s~~p~~~~~~ldr~L~~a~~---~~i~piIVLNK~DL~~ 156 (356)
T PRK01889 110 AANVDTVFIVCSLNHDFNLRRIERYLALAWE---SGAEPVIVLTKADLCE 156 (356)
T ss_pred EEeCCEEEEEEecCCCCChhHHHHHHHHHHH---cCCCEEEEEEChhcCC
Confidence 3678999999999755566666666655544 3467788999999965
No 240
>PRK12740 elongation factor G; Reviewed
Probab=96.92 E-value=0.0026 Score=42.79 Aligned_cols=49 Identities=16% Similarity=0.137 Sum_probs=36.3
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..+++.+|++++|+|.++.........|. .+.. .++|++++.||+|+..
T Consensus 78 ~~~l~~aD~vllvvd~~~~~~~~~~~~~~-~~~~---~~~p~iiv~NK~D~~~ 126 (668)
T PRK12740 78 ERALRVLDGAVVVVCAVGGVEPQTETVWR-QAEK---YGVPRIIFVNKMDRAG 126 (668)
T ss_pred HHHHHHhCeEEEEEeCCCCcCHHHHHHHH-HHHH---cCCCEEEEEECCCCCC
Confidence 35678899999999998876665544442 3332 4589999999999865
No 241
>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=96.92 E-value=0.0029 Score=40.38 Aligned_cols=44 Identities=30% Similarity=0.214 Sum_probs=28.7
Q ss_pred hhCCCEEEEEEECCCh----hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 7 YRGALGALLVYDVTKS----TTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~----~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
...+|++++|+|.++. .+.+.+. .+... ...|++++.||+|+.+
T Consensus 101 ~~~aD~aIlVVDa~~g~~~~qt~e~l~----~l~~~--gi~~iIVvvNK~Dl~~ 148 (406)
T TIGR03680 101 AALMDGALLVIAANEPCPQPQTKEHLM----ALEII--GIKNIVIVQNKIDLVS 148 (406)
T ss_pred HHHCCEEEEEEECCCCccccchHHHHH----HHHHc--CCCeEEEEEEccccCC
Confidence 3457999999999863 2333332 22222 2246899999999964
No 242
>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1. RCC1 catalyzes guanine nucleotide exchange on Ran, a well characterised nuclear Ras-like small G protein that plays an essential role in the import and export of proteins and RNAs across the nuclear membrane through the nuclear pore complex. RCC1 is located inside the nucleus, bound to chromatin. The concentration of GTP within the cell is ~30 times higher than the concentration of GDP, thus resulting in the preferential production of the GTP form of Ran by RCC1 within the nucleus. Gtr1p is located within both the cytoplasm and the nucleus and has been reported to play a role in cell growth. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1 and Rag A and Gtr1p belong to the sixth subfamily of the Ras-like small GTPase superfamily []. ; GO: 0005525 GTP binding, 0005634 nucleus, 0005737 cytoplasm; PDB: 3R7W_B 2Q3F_B 3LLU_A.
Probab=96.91 E-value=0.0043 Score=37.10 Aligned_cols=51 Identities=22% Similarity=0.303 Sum_probs=35.7
Q ss_pred cchhhCCCEEEEEEECCChhhHHHH---HHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENV---SRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~---~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
...|+++.++|+|+|..+.+-.+.+ ...+..+.+.+ +++.+.+.-+|+|+.
T Consensus 71 ~~if~~v~~LIyV~D~qs~~~~~~l~~~~~~i~~l~~~s-p~~~v~vfiHK~D~l 124 (232)
T PF04670_consen 71 EEIFSNVGVLIYVFDAQSDDYDEDLAYLSDCIEALRQYS-PNIKVFVFIHKMDLL 124 (232)
T ss_dssp HHHHCTESEEEEEEETT-STCHHHHHHHHHHHHHHHHHS-TT-EEEEEEE-CCCS
T ss_pred HHHHhccCEEEEEEEcccccHHHHHHHHHHHHHHHHHhC-CCCeEEEEEeecccC
Confidence 4578999999999999955544444 44445555554 789999999999984
No 243
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=96.90 E-value=0.0038 Score=35.37 Aligned_cols=48 Identities=19% Similarity=0.318 Sum_probs=29.7
Q ss_pred chhhCC---CEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 5 AYYRGA---LGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 5 ~y~~~a---~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.|++.+ +++++++|.+++.+.... .+...+.. ...|+++++||+|+..
T Consensus 99 ~~~~~~~~~~~~~~v~d~~~~~~~~~~-~i~~~l~~---~~~~~iiv~nK~Dl~~ 149 (196)
T PRK00454 99 EYLRTRENLKGVVLLIDSRHPLKELDL-QMIEWLKE---YGIPVLIVLTKADKLK 149 (196)
T ss_pred HHHHhCccceEEEEEEecCCCCCHHHH-HHHHHHHH---cCCcEEEEEECcccCC
Confidence 455654 577888888776543321 11122222 3588999999999854
No 244
>KOG4273 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.82 E-value=0.0017 Score=39.88 Aligned_cols=46 Identities=22% Similarity=0.400 Sum_probs=33.8
Q ss_pred CCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCccc
Q 047889 10 ALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 10 a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~ 57 (72)
..+++++||++..+.+..++.|+..-.-. .--..+.+|||.|....
T Consensus 79 l~a~vmvfdlse~s~l~alqdwl~htdin--sfdillcignkvdrvph 124 (418)
T KOG4273|consen 79 LQAFVMVFDLSEKSGLDALQDWLPHTDIN--SFDILLCIGNKVDRVPH 124 (418)
T ss_pred eeeEEEEEeccchhhhHHHHhhccccccc--cchhheecccccccccc
Confidence 36899999999999999999997643222 11234668999997543
No 245
>COG0536 Obg Predicted GTPase [General function prediction only]
Probab=96.81 E-value=0.0063 Score=38.45 Aligned_cols=49 Identities=18% Similarity=0.147 Sum_probs=36.4
Q ss_pred hCCCEEEEEEECCChh---hHHHHHHHHHHHHHhcC--CCCeEEEEeeCCCCcc
Q 047889 8 RGALGALLVYDVTKST---TFENVSRWLKDLRDHAG--SNIVIMLIGNKSDLKH 56 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~---s~~~~~~~~~~~~~~~~--~~~~~vlvgnK~Dl~~ 56 (72)
..+..++.|.|++..+ -.++......++..+.. .+.|.++|.||+|+..
T Consensus 236 ERt~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~ 289 (369)
T COG0536 236 ERTRVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPL 289 (369)
T ss_pred HhhheeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCc
Confidence 3567888899998665 36666666667766653 5789999999999643
No 246
>cd01886 EF-G Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta
Probab=96.80 E-value=0.005 Score=37.40 Aligned_cols=49 Identities=18% Similarity=0.136 Sum_probs=32.9
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..+++.+|++++|.|..+...-. ....+..+.. .+.|++++.||+|+..
T Consensus 82 ~~~l~~aD~ailVVDa~~g~~~~-t~~~~~~~~~---~~~p~ivviNK~D~~~ 130 (270)
T cd01886 82 ERSLRVLDGAVAVFDAVAGVEPQ-TETVWRQADR---YNVPRIAFVNKMDRTG 130 (270)
T ss_pred HHHHHHcCEEEEEEECCCCCCHH-HHHHHHHHHH---cCCCEEEEEECCCCCC
Confidence 35788999999999987642211 1223333332 4589999999999864
No 247
>cd01876 YihA_EngB The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.
Probab=96.78 E-value=0.0047 Score=33.59 Aligned_cols=40 Identities=23% Similarity=0.355 Sum_probs=26.6
Q ss_pred CCEEEEEEECCChhh--HHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 10 ALGALLVYDVTKSTT--FENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 10 a~~~i~v~d~~~~~s--~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
.+++++++|.++..+ ...+..|+.. ...|+++++||+|+.
T Consensus 82 ~~~~~~v~d~~~~~~~~~~~~~~~l~~------~~~~vi~v~nK~D~~ 123 (170)
T cd01876 82 LKGVVLLIDSRHGPTEIDLEMLDWLEE------LGIPFLVVLTKADKL 123 (170)
T ss_pred hhEEEEEEEcCcCCCHhHHHHHHHHHH------cCCCEEEEEEchhcC
Confidence 467888998876632 2223344322 247899999999984
No 248
>COG1084 Predicted GTPase [General function prediction only]
Probab=96.66 E-value=0.008 Score=37.78 Aligned_cols=46 Identities=20% Similarity=0.301 Sum_probs=34.5
Q ss_pred CCEEEEEEECCChh--hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCccc
Q 047889 10 ALGALLVYDVTKST--TFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 10 a~~~i~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~ 57 (72)
+++++++||.+... +++.=.+.+.+++.... .|+++|.||.|+.+.
T Consensus 248 ~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~--~p~v~V~nK~D~~~~ 295 (346)
T COG1084 248 AGVILFLFDPSETCGYSLEEQISLLEEIKELFK--APIVVVINKIDIADE 295 (346)
T ss_pred cCeEEEEEcCccccCCCHHHHHHHHHHHHHhcC--CCeEEEEecccccch
Confidence 46788999998765 44554566777776653 899999999998753
No 249
>cd04178 Nucleostemin_like Nucleostemin-like. Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the
Probab=96.65 E-value=0.0082 Score=34.22 Aligned_cols=44 Identities=25% Similarity=0.178 Sum_probs=27.6
Q ss_pred CEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 11 LGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 11 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
|.++++.|..++.+-.. ..+.+.+. ....+.|+++|.||+|+..
T Consensus 1 DvVl~VvDar~p~~~~~-~~i~~~~~-l~~~~kp~IlVlNK~DL~~ 44 (172)
T cd04178 1 DVILEVLDARDPLGCRC-PQVEEAVL-QAGGNKKLVLVLNKIDLVP 44 (172)
T ss_pred CEEEEEEECCCCCCCCC-HHHHHHHH-hccCCCCEEEEEehhhcCC
Confidence 67899999887643211 22222221 1224589999999999954
No 250
>PLN00043 elongation factor 1-alpha; Provisional
Probab=96.57 E-value=0.008 Score=39.00 Aligned_cols=47 Identities=21% Similarity=0.095 Sum_probs=30.6
Q ss_pred chhhCCCEEEEEEECCChhhHH-------HHHHHHHHHHHhcCCCC-eEEEEeeCCCCc
Q 047889 5 AYYRGALGALLVYDVTKSTTFE-------NVSRWLKDLRDHAGSNI-VIMLIGNKSDLK 55 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~-------~~~~~~~~~~~~~~~~~-~~vlvgnK~Dl~ 55 (72)
..++.+|++++|+|.++ .+|+ ..+..+..+.. ..+ +++++.||+|+.
T Consensus 104 ~g~~~aD~aIlVVda~~-G~~e~g~~~~~qT~eh~~~~~~---~gi~~iIV~vNKmD~~ 158 (447)
T PLN00043 104 TGTSQADCAVLIIDSTT-GGFEAGISKDGQTREHALLAFT---LGVKQMICCCNKMDAT 158 (447)
T ss_pred hhhhhccEEEEEEEccc-CceecccCCCchHHHHHHHHHH---cCCCcEEEEEEcccCC
Confidence 35678999999999986 3343 23222222222 346 478899999986
No 251
>cd01856 YlqF YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.
Probab=96.52 E-value=0.0031 Score=35.50 Aligned_cols=46 Identities=22% Similarity=0.081 Sum_probs=30.6
Q ss_pred chhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 5 AYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
....+||.+++|+|..++..-.. ..+.+.+ .+.|.++|.||+|+.+
T Consensus 15 ~~i~~aD~il~v~D~~~~~~~~~-~~i~~~~-----~~k~~ilVlNK~Dl~~ 60 (171)
T cd01856 15 EKLKLVDLVIEVRDARIPLSSRN-PLLEKIL-----GNKPRIIVLNKADLAD 60 (171)
T ss_pred HHHhhCCEEEEEeeccCccCcCC-hhhHhHh-----cCCCEEEEEehhhcCC
Confidence 34678999999999987653221 1111111 2468899999999954
No 252
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=96.48 E-value=0.018 Score=38.85 Aligned_cols=44 Identities=23% Similarity=0.117 Sum_probs=30.0
Q ss_pred hhhCCCEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCcc
Q 047889 6 YYRGALGALLVYDVTK---STTFENVSRWLKDLRDHAGSNIV-IMLIGNKSDLKH 56 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~-~vlvgnK~Dl~~ 56 (72)
.+.++|++++|+|.++ +.+.+.+. .+.. .++| +++|.||+|+.+
T Consensus 71 g~~~~D~~lLVVda~eg~~~qT~ehl~----il~~---lgi~~iIVVlNKiDlv~ 118 (614)
T PRK10512 71 GVGGIDHALLVVACDDGVMAQTREHLA----ILQL---TGNPMLTVALTKADRVD 118 (614)
T ss_pred HhhcCCEEEEEEECCCCCcHHHHHHHH----HHHH---cCCCeEEEEEECCccCC
Confidence 4668999999999887 44544432 2222 2244 679999999964
No 253
>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=96.48 E-value=0.013 Score=37.23 Aligned_cols=44 Identities=23% Similarity=0.246 Sum_probs=26.3
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCcc
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIV-IMLIGNKSDLKH 56 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-~vlvgnK~Dl~~ 56 (72)
++|++++|+|.++...-. ....+..+.. ..+| ++++.||+|+.+
T Consensus 98 ~~D~~ilVvda~~g~~~q-t~e~l~~~~~---~gi~~iIvvvNK~Dl~~ 142 (394)
T TIGR00485 98 QMDGAILVVSATDGPMPQ-TREHILLARQ---VGVPYIVVFLNKCDMVD 142 (394)
T ss_pred hCCEEEEEEECCCCCcHH-HHHHHHHHHH---cCCCEEEEEEEecccCC
Confidence 469999999998732111 1122222332 2456 457899999864
No 254
>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]
Probab=96.47 E-value=0.006 Score=38.58 Aligned_cols=55 Identities=13% Similarity=0.189 Sum_probs=38.6
Q ss_pred ccchhhCCCEEEEEEECCChhh----------HHHHHHHHHHHHHhcC-CCCeEEEEeeCCCCccc
Q 047889 3 TSAYYRGALGALLVYDVTKSTT----------FENVSRWLKDLRDHAG-SNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s----------~~~~~~~~~~~~~~~~-~~~~~vlvgnK~Dl~~~ 57 (72)
|-++|.+++++|+|.++++-.- +......++.+-++.- .+.+++|.-||.||-++
T Consensus 212 WihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~tsiiLFLNK~DLFeE 277 (354)
T KOG0082|consen 212 WIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFANTSIILFLNKKDLFEE 277 (354)
T ss_pred HHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCcccccCcEEEEeecHHHHHH
Confidence 4678999999999999986432 2223344555544332 57899999999999654
No 255
>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=96.44 E-value=0.0061 Score=38.61 Aligned_cols=53 Identities=15% Similarity=0.195 Sum_probs=36.5
Q ss_pred ccchhhCCCEEEEEEECCCh----------hhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCc
Q 047889 3 TSAYYRGALGALLVYDVTKS----------TTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLK 55 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~----------~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~ 55 (72)
|-+||.+++++|+|.++++- ..+......++.+-+.. -.+.|++|+.||.|+-
T Consensus 253 W~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~~~iil~lnK~D~f 316 (389)
T PF00503_consen 253 WIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKNTPIILFLNKIDLF 316 (389)
T ss_dssp GGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTTSEEEEEEE-HHHH
T ss_pred HHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccccCceEEeeecHHHH
Confidence 56899999999999998642 23444444455554332 2579999999999973
No 256
>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=96.39 E-value=0.0049 Score=34.80 Aligned_cols=46 Identities=17% Similarity=0.062 Sum_probs=33.0
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCccccc
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLN 59 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~ 59 (72)
...|+++.|.|.++.+ .-.....++.+. ..|++++.||+|....+.
T Consensus 77 ~~~D~ii~VvDa~~l~---r~l~l~~ql~e~---g~P~vvvlN~~D~a~~~g 122 (156)
T PF02421_consen 77 EKPDLIIVVVDATNLE---RNLYLTLQLLEL---GIPVVVVLNKMDEAERKG 122 (156)
T ss_dssp TSSSEEEEEEEGGGHH---HHHHHHHHHHHT---TSSEEEEEETHHHHHHTT
T ss_pred cCCCEEEEECCCCCHH---HHHHHHHHHHHc---CCCEEEEEeCHHHHHHcC
Confidence 5789999999988744 323344455543 599999999999865443
No 257
>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=96.33 E-value=0.0056 Score=37.31 Aligned_cols=15 Identities=20% Similarity=0.202 Sum_probs=13.0
Q ss_pred CCeEEEEeeCCCCcc
Q 047889 42 NIVIMLIGNKSDLKH 56 (72)
Q Consensus 42 ~~~~vlvgnK~Dl~~ 56 (72)
.+|+++|+||+|+..
T Consensus 143 ~v~vi~VinK~D~l~ 157 (276)
T cd01850 143 RVNIIPVIAKADTLT 157 (276)
T ss_pred cCCEEEEEECCCcCC
Confidence 689999999999843
No 258
>PRK12736 elongation factor Tu; Reviewed
Probab=96.31 E-value=0.021 Score=36.38 Aligned_cols=45 Identities=22% Similarity=0.232 Sum_probs=27.9
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCcc
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIV-IMLIGNKSDLKH 56 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-~vlvgnK~Dl~~ 56 (72)
..+|++++|+|.++... ......+..+... .+| ++++.||+|+.+
T Consensus 97 ~~~d~~llVvd~~~g~~-~~t~~~~~~~~~~---g~~~~IvviNK~D~~~ 142 (394)
T PRK12736 97 AQMDGAILVVAATDGPM-PQTREHILLARQV---GVPYLVVFLNKVDLVD 142 (394)
T ss_pred hhCCEEEEEEECCCCCc-hhHHHHHHHHHHc---CCCEEEEEEEecCCcc
Confidence 45799999999876321 1112222233332 467 678999999863
No 259
>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF. Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.
Probab=96.20 E-value=0.0076 Score=36.59 Aligned_cols=46 Identities=20% Similarity=0.202 Sum_probs=30.8
Q ss_pred chhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 5 AYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.....+|.+++|.|...+.+... .++.... .+.|+++|.||+|+.+
T Consensus 17 ~~l~~aDvVl~V~Dar~p~~~~~--~~i~~~l----~~kp~IiVlNK~DL~~ 62 (276)
T TIGR03596 17 EKLKLVDVVIEVLDARIPLSSRN--PMIDEIR----GNKPRLIVLNKADLAD 62 (276)
T ss_pred HHHhhCCEEEEEEeCCCCCCCCC--hhHHHHH----CCCCEEEEEEccccCC
Confidence 34568999999999977654322 1111111 2478999999999953
No 260
>PRK13768 GTPase; Provisional
Probab=96.13 E-value=0.0071 Score=36.36 Aligned_cols=47 Identities=15% Similarity=0.008 Sum_probs=30.0
Q ss_pred CCEEEEEEECCChhhHHHH--HHHHHHHHHhcCCCCeEEEEeeCCCCccc
Q 047889 10 ALGALLVYDVTKSTTFENV--SRWLKDLRDHAGSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 10 a~~~i~v~d~~~~~s~~~~--~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~ 57 (72)
++++++++|.....+.... ..|+...... ..+.|+++|.||+|+...
T Consensus 129 ~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~-~~~~~~i~v~nK~D~~~~ 177 (253)
T PRK13768 129 KSVVVFLIDAVLAKTPSDFVSLLLLALSVQL-RLGLPQIPVLNKADLLSE 177 (253)
T ss_pred CeEEEEEechHHhCCHHHHHHHHHHHHHHHH-HcCCCEEEEEEhHhhcCc
Confidence 7899999999654433332 2232222222 246899999999998653
No 261
>cd04165 GTPBP1_like GTPBP1-like. Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and
Probab=96.13 E-value=0.032 Score=33.04 Aligned_cols=44 Identities=20% Similarity=0.113 Sum_probs=29.5
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.+|++++|.|...... .....++..+.. .++|++++.||+|+..
T Consensus 109 ~~D~~llVvda~~g~~-~~d~~~l~~l~~---~~ip~ivvvNK~D~~~ 152 (224)
T cd04165 109 APDYAMLVVAANAGII-GMTKEHLGLALA---LNIPVFVVVTKIDLAP 152 (224)
T ss_pred CCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCEEEEEECccccC
Confidence 5799999999865432 222334444443 3478999999999854
No 262
>TIGR00490 aEF-2 translation elongation factor aEF-2. This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD.
Probab=96.05 E-value=0.013 Score=40.04 Aligned_cols=48 Identities=19% Similarity=0.102 Sum_probs=31.3
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
...++.+|++++|+|..+--.-.....|. .+. ..+.|++++.||+|..
T Consensus 104 ~~al~~aD~~llVvda~~g~~~~t~~~~~-~~~---~~~~p~ivviNKiD~~ 151 (720)
T TIGR00490 104 TRAMRAVDGAIVVVCAVEGVMPQTETVLR-QAL---KENVKPVLFINKVDRL 151 (720)
T ss_pred HHHHHhcCEEEEEEecCCCCCccHHHHHH-HHH---HcCCCEEEEEEChhcc
Confidence 34678999999999987632222222222 222 2356788999999985
No 263
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=96.03 E-value=0.018 Score=37.58 Aligned_cols=47 Identities=23% Similarity=0.207 Sum_probs=32.4
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCccc
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~ 57 (72)
-..+||.+++|+|.+.+.+=.... +.+....+.|+++|.||.||..+
T Consensus 293 ~i~~ADlvL~v~D~~~~~~~~d~~-----~~~~~~~~~~~i~v~NK~DL~~~ 339 (454)
T COG0486 293 AIEEADLVLFVLDASQPLDKEDLA-----LIELLPKKKPIIVVLNKADLVSK 339 (454)
T ss_pred HHHhCCEEEEEEeCCCCCchhhHH-----HHHhcccCCCEEEEEechhcccc
Confidence 356899999999999862211111 11123467899999999999764
No 264
>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=96.02 E-value=0.051 Score=31.51 Aligned_cols=45 Identities=24% Similarity=0.251 Sum_probs=28.3
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIV-IMLIGNKSDLK 55 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-~vlvgnK~Dl~ 55 (72)
...+|++++|.|....-. ......+..+.. .++| ++++-||+|+.
T Consensus 86 ~~~~D~~ilVvda~~g~~-~~~~~~~~~~~~---~~~~~iIvviNK~D~~ 131 (195)
T cd01884 86 AAQMDGAILVVSATDGPM-PQTREHLLLARQ---VGVPYIVVFLNKADMV 131 (195)
T ss_pred hhhCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCcEEEEEeCCCCC
Confidence 457899999999876322 112223333333 2355 77889999985
No 265
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=96.00 E-value=0.0092 Score=36.45 Aligned_cols=45 Identities=27% Similarity=0.190 Sum_probs=30.6
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
-...+|.+++|.|...+.+.+. .++.+.. .+.|+++|.||+|+.+
T Consensus 21 ~l~~aDvIL~VvDar~p~~~~~--~~l~~~~----~~kp~iiVlNK~DL~~ 65 (287)
T PRK09563 21 NLKLVDVVIEVLDARIPLSSEN--PMIDKII----GNKPRLLILNKSDLAD 65 (287)
T ss_pred HhhhCCEEEEEEECCCCCCCCC--hhHHHHh----CCCCEEEEEEchhcCC
Confidence 4567999999999877654322 1222221 2578999999999953
No 266
>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=95.90 E-value=0.079 Score=27.68 Aligned_cols=40 Identities=25% Similarity=0.301 Sum_probs=26.6
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeC
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNK 51 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK 51 (72)
+..+|++++|+|..++.. +.....++.++ ...|+++|.||
T Consensus 77 ~~~~d~ii~vv~~~~~~~-~~~~~~~~~l~----~~~~~i~v~NK 116 (116)
T PF01926_consen 77 ISKSDLIIYVVDASNPIT-EDDKNILRELK----NKKPIILVLNK 116 (116)
T ss_dssp HCTESEEEEEEETTSHSH-HHHHHHHHHHH----TTSEEEEEEES
T ss_pred HHHCCEEEEEEECCCCCC-HHHHHHHHHHh----cCCCEEEEEcC
Confidence 368899999999777422 12223333332 56899999998
No 267
>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.73 E-value=0.11 Score=31.18 Aligned_cols=48 Identities=21% Similarity=0.254 Sum_probs=32.4
Q ss_pred CCCEEEEEEECC-ChhhHHHHHHHHHHHHHhc---CCCCeEEEEeeCCCCcc
Q 047889 9 GALGALLVYDVT-KSTTFENVSRWLKDLRDHA---GSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 9 ~a~~~i~v~d~~-~~~s~~~~~~~~~~~~~~~---~~~~~~vlvgnK~Dl~~ 56 (72)
.+-|+++|.|.. ...-...+..++-++.... ...+|++++.||.|+..
T Consensus 108 ~akaiVFVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~t 159 (238)
T KOG0090|consen 108 SAKAIVFVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFT 159 (238)
T ss_pred cceeEEEEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhh
Confidence 688888888754 3445566655544443222 36789999999999965
No 268
>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]
Probab=95.72 E-value=0.014 Score=39.22 Aligned_cols=66 Identities=12% Similarity=0.207 Sum_probs=48.8
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCcc--cccCCHHHHHHHH
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKH--LLNSMCEEYLIKS 69 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~--~~~v~~~e~~~~a 69 (72)
.+|-..+|++|+||.+.+..+|+.+..+.-.+.... -..+|++++|++--... .+.+...++.+++
T Consensus 90 aQft~wvdavIfvf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~ 158 (749)
T KOG0705|consen 90 AQFCQWVDAVVFVFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHISAKRPRVITDDRARQLS 158 (749)
T ss_pred hhhhhhccceEEEEEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhhcccccccchHHHHHHH
Confidence 467788999999999999999999988766664333 26789999998865433 3455556665554
No 269
>PRK12739 elongation factor G; Reviewed
Probab=95.65 E-value=0.04 Score=37.58 Aligned_cols=48 Identities=17% Similarity=0.120 Sum_probs=32.5
Q ss_pred chhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 5 AYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..++.+|++++|.|..+...-... ..+..+.. .+.|++++.||+|+..
T Consensus 92 ~al~~~D~~ilVvDa~~g~~~qt~-~i~~~~~~---~~~p~iv~iNK~D~~~ 139 (691)
T PRK12739 92 RSLRVLDGAVAVFDAVSGVEPQSE-TVWRQADK---YGVPRIVFVNKMDRIG 139 (691)
T ss_pred HHHHHhCeEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECCCCCC
Confidence 457789999999998765332222 22223332 3578899999999875
No 270
>PRK12735 elongation factor Tu; Reviewed
Probab=95.48 E-value=0.079 Score=33.85 Aligned_cols=45 Identities=18% Similarity=0.211 Sum_probs=27.6
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEE-EEeeCCCCcc
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIM-LIGNKSDLKH 56 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~v-lvgnK~Dl~~ 56 (72)
..+|++++|+|..+... ......+..+.. ..+|.+ ++.||+|+.+
T Consensus 97 ~~aD~~llVvda~~g~~-~qt~e~l~~~~~---~gi~~iivvvNK~Dl~~ 142 (396)
T PRK12735 97 AQMDGAILVVSAADGPM-PQTREHILLARQ---VGVPYIVVFLNKCDMVD 142 (396)
T ss_pred ccCCEEEEEEECCCCCc-hhHHHHHHHHHH---cCCCeEEEEEEecCCcc
Confidence 46799999999876322 122222333332 346744 6799999964
No 271
>cd03110 Fer4_NifH_child This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.
Probab=95.47 E-value=0.18 Score=28.36 Aligned_cols=47 Identities=30% Similarity=0.360 Sum_probs=34.9
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.+..+|.++++...+ ..++..+..+.+.+++. +.|+.+|.||.|...
T Consensus 111 ~l~~aD~vliv~~~~-~~~~~~~~~~~~~l~~~---~~~~~vV~N~~~~~~ 157 (179)
T cd03110 111 SLTGADAALLVTEPT-PSGLHDLERAVELVRHF---GIPVGVVINKYDLND 157 (179)
T ss_pred HHHcCCEEEEEecCC-cccHHHHHHHHHHHHHc---CCCEEEEEeCCCCCc
Confidence 457799999998876 55777777777766653 356789999999753
No 272
>COG1160 Predicted GTPases [General function prediction only]
Probab=95.43 E-value=0.036 Score=36.12 Aligned_cols=43 Identities=26% Similarity=0.244 Sum_probs=28.6
Q ss_pred hhCCCEEEEEEECCChh-hHH-HHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 7 YRGALGALLVYDVTKST-TFE-NVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~-s~~-~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
+..||++++|.|...-- .-+ .+..| ++ ..+.|++||.||+|-.
T Consensus 81 i~eADvilfvVD~~~Git~~D~~ia~~---Lr---~~~kpviLvvNK~D~~ 125 (444)
T COG1160 81 IEEADVILFVVDGREGITPADEEIAKI---LR---RSKKPVILVVNKIDNL 125 (444)
T ss_pred HHhCCEEEEEEeCCCCCCHHHHHHHHH---HH---hcCCCEEEEEEcccCc
Confidence 46799999999976521 111 12222 23 2568999999999975
No 273
>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=95.27 E-value=0.096 Score=31.97 Aligned_cols=52 Identities=19% Similarity=0.271 Sum_probs=39.5
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHH---HHHHhcCCCCeEEEEeeCCCCcc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLK---DLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~---~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..-|++.++++.|||+...+--.++.++.+ .+.++ ++...++..-.|.||..
T Consensus 76 d~iF~nV~vli~vFDves~e~~~D~~~yqk~Le~ll~~-SP~AkiF~l~hKmDLv~ 130 (295)
T KOG3886|consen 76 DNIFRNVQVLIYVFDVESREMEKDFHYYQKCLEALLQN-SPEAKIFCLLHKMDLVQ 130 (295)
T ss_pred hhhheeheeeeeeeeccchhhhhhHHHHHHHHHHHHhc-CCcceEEEEEeechhcc
Confidence 456789999999999999876666665554 33444 37788899999999964
No 274
>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=94.97 E-value=0.11 Score=34.59 Aligned_cols=41 Identities=22% Similarity=0.201 Sum_probs=30.9
Q ss_pred CCCEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 9 GALGALLVYDVTK---STTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 9 ~a~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
=+|.+++|.+.++ |++.+.+.+. + ..++|+++..||+|..+
T Consensus 78 vtDIaILVVa~dDGv~pQTiEAI~ha----k---~a~vP~iVAiNKiDk~~ 121 (509)
T COG0532 78 VTDIAILVVAADDGVMPQTIEAINHA----K---AAGVPIVVAINKIDKPE 121 (509)
T ss_pred cccEEEEEEEccCCcchhHHHHHHHH----H---HCCCCEEEEEecccCCC
Confidence 3688999999887 5666654442 2 35799999999999874
No 275
>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=94.83 E-value=0.1 Score=33.45 Aligned_cols=47 Identities=21% Similarity=-0.002 Sum_probs=28.0
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
...+|++++|+|......-....+|. .+... ...+++++.||+|+..
T Consensus 101 ~~~aD~allVVda~~G~~~qt~~~~~-~~~~~--~~~~iivviNK~D~~~ 147 (406)
T TIGR02034 101 ASTADLAVLLVDARKGVLEQTRRHSY-IASLL--GIRHVVLAVNKMDLVD 147 (406)
T ss_pred HhhCCEEEEEEECCCCCccccHHHHH-HHHHc--CCCcEEEEEEeccccc
Confidence 45789999999986532111112221 22222 2235889999999864
No 276
>CHL00071 tufA elongation factor Tu
Probab=94.73 E-value=0.17 Score=32.51 Aligned_cols=46 Identities=17% Similarity=0.175 Sum_probs=29.3
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCcc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIV-IMLIGNKSDLKH 56 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-~vlvgnK~Dl~~ 56 (72)
...+|++++|.|...... ......+..+.. ..+| ++++.||+|+.+
T Consensus 96 ~~~~D~~ilVvda~~g~~-~qt~~~~~~~~~---~g~~~iIvvvNK~D~~~ 142 (409)
T CHL00071 96 AAQMDGAILVVSAADGPM-PQTKEHILLAKQ---VGVPNIVVFLNKEDQVD 142 (409)
T ss_pred HHhCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCEEEEEEEccCCCC
Confidence 356899999999875321 222223333333 3467 778999999864
No 277
>PLN03126 Elongation factor Tu; Provisional
Probab=94.69 E-value=0.15 Score=33.56 Aligned_cols=45 Identities=16% Similarity=0.152 Sum_probs=29.1
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCcc
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIV-IMLIGNKSDLKH 56 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-~vlvgnK~Dl~~ 56 (72)
..+|++++|.|..+-.. .....++..+... .+| ++++.||+|+.+
T Consensus 166 ~~aD~ailVVda~~G~~-~qt~e~~~~~~~~---gi~~iIvvvNK~Dl~~ 211 (478)
T PLN03126 166 AQMDGAILVVSGADGPM-PQTKEHILLAKQV---GVPNMVVFLNKQDQVD 211 (478)
T ss_pred hhCCEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCeEEEEEecccccC
Confidence 46799999999875422 2223333334333 467 788999999854
No 278
>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional
Probab=94.64 E-value=0.12 Score=33.97 Aligned_cols=47 Identities=17% Similarity=-0.048 Sum_probs=27.7
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.+.+|++++|.|.+....=....+| ..+... ...|++++.||+|+..
T Consensus 128 l~~aD~allVVDa~~G~~~qt~~~~-~l~~~l--g~~~iIvvvNKiD~~~ 174 (474)
T PRK05124 128 ASTCDLAILLIDARKGVLDQTRRHS-FIATLL--GIKHLVVAVNKMDLVD 174 (474)
T ss_pred HhhCCEEEEEEECCCCccccchHHH-HHHHHh--CCCceEEEEEeecccc
Confidence 3678999999998653211111122 112222 1246889999999864
No 279
>PTZ00416 elongation factor 2; Provisional
Probab=94.58 E-value=0.075 Score=37.11 Aligned_cols=45 Identities=24% Similarity=0.234 Sum_probs=30.6
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
.+.+|++++|.|..+--.-..-..| ..+.. .+.|++++.||+|+.
T Consensus 113 l~~~D~ailVvda~~g~~~~t~~~~-~~~~~---~~~p~iv~iNK~D~~ 157 (836)
T PTZ00416 113 LRVTDGALVVVDCVEGVCVQTETVL-RQALQ---ERIRPVLFINKVDRA 157 (836)
T ss_pred HhcCCeEEEEEECCCCcCccHHHHH-HHHHH---cCCCEEEEEEChhhh
Confidence 4679999999998774322222223 33333 358999999999985
No 280
>PRK00007 elongation factor G; Reviewed
Probab=94.48 E-value=0.14 Score=35.04 Aligned_cols=46 Identities=20% Similarity=0.256 Sum_probs=30.7
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.+.+|++++|.|...--.-.....| ..+.. ...|++++.||+|+..
T Consensus 96 l~~~D~~vlVvda~~g~~~qt~~~~-~~~~~---~~~p~iv~vNK~D~~~ 141 (693)
T PRK00007 96 LRVLDGAVAVFDAVGGVEPQSETVW-RQADK---YKVPRIAFVNKMDRTG 141 (693)
T ss_pred HHHcCEEEEEEECCCCcchhhHHHH-HHHHH---cCCCEEEEEECCCCCC
Confidence 4678999999997654333332323 23333 3478899999999875
No 281
>PF14331 ImcF-related_N: ImcF-related N-terminal domain
Probab=94.44 E-value=0.18 Score=30.70 Aligned_cols=48 Identities=21% Similarity=0.312 Sum_probs=31.9
Q ss_pred CCCEEEEEEECCChh-------hHHH----HHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 9 GALGALLVYDVTKST-------TFEN----VSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~-------s~~~----~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
-.+|+|++.|+.+.- .+.. ++.-+.++.+..+..+|+.++-+|+|+-.
T Consensus 25 PlnGvil~vs~~~Ll~~~~~~r~l~~~a~~lR~rL~el~~~lg~~~PVYvv~Tk~D~l~ 83 (266)
T PF14331_consen 25 PLNGVILTVSVDDLLNADEAERELEALARALRQRLEELQRTLGVRLPVYVVFTKCDLLP 83 (266)
T ss_pred CCCEEEEEEEHHHHhcCChhhhHHHHHHHHHHHHHHHHHHHhCCCCCeEeeeECCCccc
Confidence 359999999987421 2222 23334444444457899999999999843
No 282
>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=94.32 E-value=0.15 Score=28.12 Aligned_cols=47 Identities=19% Similarity=0.167 Sum_probs=30.5
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCC
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKS 52 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~ 52 (72)
+..|+..+|++++|.+.+..-+-.....+.+..... ...+++|-||.
T Consensus 122 ~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~---~~~~i~V~nk~ 168 (168)
T PF00350_consen 122 TEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPD---KSRTIFVLNKA 168 (168)
T ss_dssp HHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTT---CSSEEEEEE-G
T ss_pred HHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCC---CCeEEEEEcCC
Confidence 457889999999999998865544444444444332 23378888874
No 283
>COG1159 Era GTPase [General function prediction only]
Probab=94.31 E-value=0.19 Score=31.28 Aligned_cols=49 Identities=18% Similarity=0.121 Sum_probs=32.3
Q ss_pred chhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCccc
Q 047889 5 AYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~ 57 (72)
.-+.++|.+++|.|.+..-.-. -...++.++. .+.|++++.||+|....
T Consensus 81 ~sl~dvDlilfvvd~~~~~~~~-d~~il~~lk~---~~~pvil~iNKID~~~~ 129 (298)
T COG1159 81 SALKDVDLILFVVDADEGWGPG-DEFILEQLKK---TKTPVILVVNKIDKVKP 129 (298)
T ss_pred HHhccCcEEEEEEeccccCCcc-HHHHHHHHhh---cCCCeEEEEEccccCCc
Confidence 3467899999999988743211 1122333333 46899999999997553
No 284
>PLN00116 translation elongation factor EF-2 subunit; Provisional
Probab=94.07 E-value=0.14 Score=35.90 Aligned_cols=45 Identities=27% Similarity=0.203 Sum_probs=30.7
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
.+.+|++++|.|...--.-.....|. .+. ..++|++++.||+|+.
T Consensus 119 l~~~D~ailVvda~~Gv~~~t~~~~~-~~~---~~~~p~i~~iNK~D~~ 163 (843)
T PLN00116 119 LRITDGALVVVDCIEGVCVQTETVLR-QAL---GERIRPVLTVNKMDRC 163 (843)
T ss_pred HhhcCEEEEEEECCCCCcccHHHHHH-HHH---HCCCCEEEEEECCccc
Confidence 46789999999987643333223332 232 2468999999999986
No 285
>PLN03127 Elongation factor Tu; Provisional
Probab=93.91 E-value=0.25 Score=32.25 Aligned_cols=45 Identities=16% Similarity=0.200 Sum_probs=28.0
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCcc
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIV-IMLIGNKSDLKH 56 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-~vlvgnK~Dl~~ 56 (72)
..+|++++|.|.++... ......+..+.. ..+| ++++-||+|+.+
T Consensus 146 ~~aD~allVVda~~g~~-~qt~e~l~~~~~---~gip~iIvviNKiDlv~ 191 (447)
T PLN03127 146 AQMDGGILVVSAPDGPM-PQTKEHILLARQ---VGVPSLVVFLNKVDVVD 191 (447)
T ss_pred hhCCEEEEEEECCCCCc-hhHHHHHHHHHH---cCCCeEEEEEEeeccCC
Confidence 35899999999875321 112222223332 3477 578899999864
No 286
>TIGR03348 VI_IcmF type VI secretion protein IcmF. Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.
Probab=93.89 E-value=0.11 Score=37.61 Aligned_cols=47 Identities=21% Similarity=0.352 Sum_probs=35.2
Q ss_pred CCCEEEEEEECCChhh-----H----HHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 9 GALGALLVYDVTKSTT-----F----ENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s-----~----~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
-.||+|++.|+.+.-. . ..++..+.++.+..+-.+|+.++.+|+|+-
T Consensus 201 plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~Tk~Dll 256 (1169)
T TIGR03348 201 PLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLTKADLL 256 (1169)
T ss_pred CCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEecchhh
Confidence 4799999999876421 1 345666677766666789999999999974
No 287
>COG1162 Predicted GTPases [General function prediction only]
Probab=93.79 E-value=0.54 Score=29.42 Aligned_cols=47 Identities=19% Similarity=0.173 Sum_probs=31.5
Q ss_pred hCCCEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCccc
Q 047889 8 RGALGALLVYDVTKST-TFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~ 57 (72)
.+.|-.+++++..+|+ +...+..++-.+.. .++.-+++-||+||.++
T Consensus 78 ~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~---~gi~pvIvlnK~DL~~~ 125 (301)
T COG1162 78 ANNDQAIIVVSLVDPDFNTNLLDRYLVLAEA---GGIEPVIVLNKIDLLDD 125 (301)
T ss_pred cccceEEEEEeccCCCCCHHHHHHHHHHHHH---cCCcEEEEEEccccCcc
Confidence 3466667777777776 67777666544433 34555777999999763
No 288
>PRK00049 elongation factor Tu; Reviewed
Probab=93.75 E-value=0.29 Score=31.34 Aligned_cols=46 Identities=17% Similarity=0.191 Sum_probs=29.2
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEE-EEeeCCCCcc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIM-LIGNKSDLKH 56 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~v-lvgnK~Dl~~ 56 (72)
...+|++++|.|...... ......+..+.. ..+|.+ ++.||+|+..
T Consensus 96 ~~~aD~~llVVDa~~g~~-~qt~~~~~~~~~---~g~p~iiVvvNK~D~~~ 142 (396)
T PRK00049 96 AAQMDGAILVVSAADGPM-PQTREHILLARQ---VGVPYIVVFLNKCDMVD 142 (396)
T ss_pred hccCCEEEEEEECCCCCc-hHHHHHHHHHHH---cCCCEEEEEEeecCCcc
Confidence 357899999999876422 222233333433 247765 5899999863
No 289
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=93.50 E-value=0.27 Score=33.34 Aligned_cols=47 Identities=21% Similarity=0.036 Sum_probs=28.2
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
...+|++++|.|.+.... .........+... ...+++++.||+|+.+
T Consensus 125 ~~~aD~~llVvda~~g~~-~~t~e~~~~~~~~--~~~~iivvvNK~D~~~ 171 (632)
T PRK05506 125 ASTADLAIILVDARKGVL-TQTRRHSFIASLL--GIRHVVLAVNKMDLVD 171 (632)
T ss_pred HHhCCEEEEEEECCCCcc-ccCHHHHHHHHHh--CCCeEEEEEEeccccc
Confidence 457899999999865321 1111111122222 2357889999999864
No 290
>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]
Probab=93.44 E-value=0.12 Score=35.82 Aligned_cols=45 Identities=27% Similarity=0.349 Sum_probs=31.7
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
-++-+|++++++|+.+--.++. ...++. ....+.|+++|.||.|.
T Consensus 217 ~l~~sDgvVlvvDv~EGVmlnt-Er~ikh---aiq~~~~i~vviNKiDR 261 (971)
T KOG0468|consen 217 SLRLSDGVVLVVDVAEGVMLNT-ERIIKH---AIQNRLPIVVVINKVDR 261 (971)
T ss_pred HhhhcceEEEEEEcccCceeeH-HHHHHH---HHhccCcEEEEEehhHH
Confidence 4677999999999876555543 222222 22367999999999996
No 291
>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=93.44 E-value=0.18 Score=29.30 Aligned_cols=39 Identities=23% Similarity=0.168 Sum_probs=24.5
Q ss_pred CCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 10 ALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 10 a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
+++++.|+|.++-.+... .+..++ ...-+++.||+|+..
T Consensus 113 ~~~~i~vvD~~~~~~~~~--~~~~qi------~~ad~~~~~k~d~~~ 151 (199)
T TIGR00101 113 ADLTIFVIDVAAGDKIPR--KGGPGI------TRSDLLVINKIDLAP 151 (199)
T ss_pred hCcEEEEEEcchhhhhhh--hhHhHh------hhccEEEEEhhhccc
Confidence 678999999987665321 111111 122388999999974
No 292
>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=93.31 E-value=0.34 Score=32.91 Aligned_cols=41 Identities=22% Similarity=0.186 Sum_probs=30.9
Q ss_pred CCCEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 9 GALGALLVYDVTK---STTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 9 ~a~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
-+|.+++|...+| +.+.+.+++ ..+.++|+++.-||+|-++
T Consensus 224 vtDIvVLVVAadDGVmpQT~EaIkh-------Ak~A~VpiVvAinKiDkp~ 267 (683)
T KOG1145|consen 224 VTDIVVLVVAADDGVMPQTLEAIKH-------AKSANVPIVVAINKIDKPG 267 (683)
T ss_pred cccEEEEEEEccCCccHhHHHHHHH-------HHhcCCCEEEEEeccCCCC
Confidence 4688999998876 566665544 2346799999999999764
No 293
>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]
Probab=92.96 E-value=0.59 Score=31.52 Aligned_cols=52 Identities=15% Similarity=0.144 Sum_probs=33.9
Q ss_pred EEEEEEECCChhh--HHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHH
Q 047889 12 GALLVYDVTKSTT--FENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEE 64 (72)
Q Consensus 12 ~~i~v~d~~~~~s--~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e 64 (72)
+|+++-|++..-. ...=-..+..++... .+-|.++|.||+|+-....++.+.
T Consensus 250 aVLYfmDLSe~CGySva~QvkLfhsIKpLF-aNK~~IlvlNK~D~m~~edL~~~~ 303 (620)
T KOG1490|consen 250 AVLYFMDLSEMCGYSVAAQVKLYHSIKPLF-ANKVTILVLNKIDAMRPEDLDQKN 303 (620)
T ss_pred hheeeeechhhhCCCHHHHHHHHHHhHHHh-cCCceEEEeecccccCccccCHHH
Confidence 4777888887653 333233444554443 678999999999986655555443
No 294
>PRK07560 elongation factor EF-2; Reviewed
Probab=92.93 E-value=0.27 Score=33.88 Aligned_cols=46 Identities=20% Similarity=0.139 Sum_probs=29.6
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
..+.+|++++|.|...--.-..-..|. .+... ..|.+++.||+|+.
T Consensus 107 ~l~~~D~avlVvda~~g~~~~t~~~~~-~~~~~---~~~~iv~iNK~D~~ 152 (731)
T PRK07560 107 AMRAVDGAIVVVDAVEGVMPQTETVLR-QALRE---RVKPVLFINKVDRL 152 (731)
T ss_pred HHHhcCEEEEEEECCCCCCccHHHHHH-HHHHc---CCCeEEEEECchhh
Confidence 467899999999977643322223332 22222 35778999999975
No 295
>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=92.82 E-value=0.52 Score=28.45 Aligned_cols=50 Identities=10% Similarity=-0.009 Sum_probs=28.9
Q ss_pred ccchhhCC-CEEEEEEECCC-hhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 3 TSAYYRGA-LGALLVYDVTK-STTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 3 ~~~y~~~a-~~~i~v~d~~~-~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
...|+++. +.+++|.|.+. .... ..... ++...+...|+++|.||.|..+
T Consensus 155 v~~yi~~~~~IIL~Vvda~~d~~~~-d~l~i---a~~ld~~~~rti~ViTK~D~~~ 206 (240)
T smart00053 155 IKQFISKEECLILAVTPANVDLANS-DALKL---AKEVDPQGERTIGVITKLDLMD 206 (240)
T ss_pred HHHHHhCccCeEEEEEECCCCCCch-hHHHH---HHHHHHcCCcEEEEEECCCCCC
Confidence 45677755 46777776543 2211 11122 2222235689999999999864
No 296
>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]
Probab=92.72 E-value=0.12 Score=32.76 Aligned_cols=46 Identities=28% Similarity=0.244 Sum_probs=31.9
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..||++++++|.++....-+ ++.+..+..+ ..+|-+||.||.|...
T Consensus 154 q~AD~vvVv~Das~tr~~l~-p~vl~~l~~y--s~ips~lvmnkid~~k 199 (379)
T KOG1423|consen 154 QNADCVVVVVDASATRTPLH-PRVLHMLEEY--SKIPSILVMNKIDKLK 199 (379)
T ss_pred hhCCEEEEEEeccCCcCccC-hHHHHHHHHH--hcCCceeeccchhcch
Confidence 46899999999997443222 2333445544 4688999999999754
No 297
>COG1160 Predicted GTPases [General function prediction only]
Probab=92.50 E-value=1.1 Score=29.47 Aligned_cols=57 Identities=23% Similarity=0.181 Sum_probs=37.2
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHH
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLI 67 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~ 67 (72)
...++.+++|.|.+.+-+-...+ ....+.+ ...++++|-||-|+-++...+.++.++
T Consensus 258 I~~a~vvllviDa~~~~~~qD~~-ia~~i~~---~g~~~vIvvNKWDl~~~~~~~~~~~k~ 314 (444)
T COG1160 258 IERADVVLLVIDATEGISEQDLR-IAGLIEE---AGRGIVIVVNKWDLVEEDEATMEEFKK 314 (444)
T ss_pred HhhcCEEEEEEECCCCchHHHHH-HHHHHHH---cCCCeEEEEEccccCCchhhHHHHHHH
Confidence 34689999999998875533321 2222332 457889999999987655455555443
No 298
>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=92.50 E-value=0.57 Score=27.68 Aligned_cols=46 Identities=22% Similarity=0.133 Sum_probs=28.0
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCcc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIV-IMLIGNKSDLKH 56 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~-~vlvgnK~Dl~~ 56 (72)
.+.+|.++++.|.+....... ...+..+.. ...| +++|.||.|+..
T Consensus 101 ak~aDvVllviDa~~~~~~~~-~~i~~~l~~---~g~p~vi~VvnK~D~~~ 147 (225)
T cd01882 101 AKVADLVLLLIDASFGFEMET-FEFLNILQV---HGFPRVMGVLTHLDLFK 147 (225)
T ss_pred HHhcCEEEEEEecCcCCCHHH-HHHHHHHHH---cCCCeEEEEEeccccCC
Confidence 457899999999875433222 222333332 2356 455999999853
No 299
>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]
Probab=92.17 E-value=0.87 Score=31.02 Aligned_cols=48 Identities=25% Similarity=0.322 Sum_probs=30.2
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLL 58 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~ 58 (72)
+.-++|++++.|-..--.-+.+..++.-+ ..+..+|.|-||+|++..+
T Consensus 146 laac~G~lLvVDA~qGvqAQT~anf~lAf----e~~L~iIpVlNKIDlp~ad 193 (650)
T KOG0462|consen 146 LAACDGALLVVDASQGVQAQTVANFYLAF----EAGLAIIPVLNKIDLPSAD 193 (650)
T ss_pred hhhcCceEEEEEcCcCchHHHHHHHHHHH----HcCCeEEEeeeccCCCCCC
Confidence 34589999999977532222222222222 1457788999999998754
No 300
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=92.15 E-value=0.65 Score=30.58 Aligned_cols=46 Identities=20% Similarity=0.128 Sum_probs=27.6
Q ss_pred hCCCEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 8 RGALGALLVYDVTKST-TFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..+|++++|.|.++.. .-....++ ..+... .-.+++++-||+|+.+
T Consensus 139 ~~~D~alLVVda~~g~~~~qT~ehl-~i~~~l--gi~~iIVvlNKiDlv~ 185 (460)
T PTZ00327 139 AVMDAALLLIAANESCPQPQTSEHL-AAVEIM--KLKHIIILQNKIDLVK 185 (460)
T ss_pred hhCCEEEEEEECCCCccchhhHHHH-HHHHHc--CCCcEEEEEecccccC
Confidence 3579999999998631 11111222 222222 2246889999999864
No 301
>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.
Probab=91.30 E-value=1.4 Score=24.00 Aligned_cols=49 Identities=12% Similarity=0.217 Sum_probs=32.9
Q ss_pred chhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 5 AYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
..+..+|.++++.+.+ ..++......++.+.+.. ...++.++.|+.+-.
T Consensus 62 ~~l~~aD~vviv~~~~-~~s~~~~~~~l~~l~~~~-~~~~~~lVvN~~~~~ 110 (139)
T cd02038 62 DFFLAADEVIVVTTPE-PTSITDAYALIKKLAKQL-RVLNFRVVVNRAESP 110 (139)
T ss_pred HHHHhCCeEEEEcCCC-hhHHHHHHHHHHHHHHhc-CCCCEEEEEeCCCCH
Confidence 3466789988887764 566666655555665433 445677899999743
No 302
>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure. Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.
Probab=90.77 E-value=1.1 Score=23.83 Aligned_cols=40 Identities=13% Similarity=0.355 Sum_probs=27.2
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCC
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKS 52 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~ 52 (72)
+..|+++-|| .+..+.....++.++... .++|+++++++-
T Consensus 38 ~i~avvi~~d---~~~~~~~~~ll~~i~~~~-~~iPVFl~~~~~ 77 (115)
T PF03709_consen 38 DIAAVVISWD---GEEEDEAQELLDKIRERN-FGIPVFLLAERD 77 (115)
T ss_dssp TEEEEEEECH---HHHHHHHHHHHHHHHHHS-TT-EEEEEESCC
T ss_pred CeeEEEEEcc---cccchhHHHHHHHHHHhC-CCCCEEEEecCC
Confidence 3445555555 555666677888887765 889999999855
No 303
>PF11111 CENP-M: Centromere protein M (CENP-M); InterPro: IPR020987 The prime candidate for specifying centromere identity is the array of nucleosomes assembles associated with CENP-A []. CENP-A recruits a nucleosome associated complex (CENP-A-NAC complex) comprised of CENP-M which this entry represents, along with two other proteins []. Assembly of the CENP-A NAC at centromeres is partly dependent on CENP-M. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival [].
Probab=90.55 E-value=2.2 Score=24.79 Aligned_cols=62 Identities=6% Similarity=-0.014 Sum_probs=40.9
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
..|-++++.|+++..||..++.=+..+....--.. ++++++-....+...+...+..++|.+
T Consensus 64 rIDlIVFvinl~sk~SL~~ve~SL~~vd~~fflGK-VCfl~t~a~~~~~~sv~~~~V~kla~~ 125 (176)
T PF11111_consen 64 RIDLIVFVINLHSKYSLQSVEASLSHVDPSFFLGK-VCFLATNAGRESHCSVHPNEVRKLAAT 125 (176)
T ss_pred eeEEEEEEEecCCcccHHHHHHHHhhCChhhhccc-eEEEEcCCCcccccccCHHHHHHHHHH
Confidence 35889999999999999988665444432211112 344445555455568888888888764
No 304
>COG4963 CpaE Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]
Probab=90.40 E-value=1.5 Score=28.28 Aligned_cols=52 Identities=15% Similarity=0.217 Sum_probs=43.4
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
+..+..++|.+++|.+. +-.++.+.++.++.+++...++.+..++.||.+-+
T Consensus 233 t~~vL~~Sd~iviv~e~-sl~slR~ak~lld~l~~~r~~~~~p~lv~n~~~~~ 284 (366)
T COG4963 233 TRQVLSGSDEIVIVAEP-SLASLRNAKELLDELKRLRPNDPKPILVLNRVGVP 284 (366)
T ss_pred HHHHHhcCCeEEEEecc-cHHHHHHHHHHHHHHHHhCCCCCCceEEeeecCCC
Confidence 35677899999999986 46788888899999998887888889999999864
No 305
>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]
Probab=90.36 E-value=2.8 Score=26.14 Aligned_cols=45 Identities=24% Similarity=0.264 Sum_probs=34.2
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
..++|.+++|--.| +..+.+++..++..... ++|..+|-||.++.
T Consensus 183 l~~aD~ai~VTEPT-p~glhD~kr~~el~~~f---~ip~~iViNr~~~g 227 (284)
T COG1149 183 LKGADLAILVTEPT-PFGLHDLKRALELVEHF---GIPTGIVINRYNLG 227 (284)
T ss_pred hccCCEEEEEecCC-ccchhHHHHHHHHHHHh---CCceEEEEecCCCC
Confidence 56889999886554 66778887777666654 49999999999654
No 306
>COG1161 Predicted GTPases [General function prediction only]
Probab=90.07 E-value=0.4 Score=30.02 Aligned_cols=45 Identities=20% Similarity=0.159 Sum_probs=30.9
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
....+|.++-|.|.-++.+... ..+.+.. ...|.++|.||+||..
T Consensus 31 ~~~~~d~vvevvDar~P~~s~~-----~~l~~~v-~~k~~i~vlNK~DL~~ 75 (322)
T COG1161 31 VLKSVDVVVEVVDARDPLGTRN-----PELERIV-KEKPKLLVLNKADLAP 75 (322)
T ss_pred hcccCCEEEEEEeccccccccC-----ccHHHHH-ccCCcEEEEehhhcCC
Confidence 4456899999999999876443 2233333 2344499999999965
No 307
>KOG2484 consensus GTPase [General function prediction only]
Probab=89.41 E-value=1.3 Score=28.95 Aligned_cols=44 Identities=25% Similarity=0.153 Sum_probs=30.7
Q ss_pred CCCEEEEEEECCChhhHHH--HHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 9 GALGALLVYDVTKSTTFEN--VSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.+|.+|-|.|--||.+-.. +..|. .+ .+++-..|+|-||.||..
T Consensus 146 ~sDVVleVlDARDPlgtR~~~vE~~V---~~-~~gnKkLILVLNK~DLVP 191 (435)
T KOG2484|consen 146 ASDVVLEVLDARDPLGTRCPEVEEAV---LQ-AHGNKKLILVLNKIDLVP 191 (435)
T ss_pred hhheEEEeeeccCCCCCCChhHHHHH---Hh-ccCCceEEEEeehhccCC
Confidence 5799999999999976443 23332 11 224577899999999843
No 308
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=89.28 E-value=1.6 Score=22.96 Aligned_cols=40 Identities=10% Similarity=0.137 Sum_probs=27.9
Q ss_pred EEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCC
Q 047889 13 ALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKS 52 (72)
Q Consensus 13 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~ 52 (72)
-+++++.++...+..+..+.+.+++....++++++-|+-.
T Consensus 52 dvV~iS~~~~~~~~~~~~~i~~l~~~~~~~~~i~vGG~~~ 91 (119)
T cd02067 52 DAIGLSGLLTTHMTLMKEVIEELKEAGLDDIPVLVGGAIV 91 (119)
T ss_pred CEEEEeccccccHHHHHHHHHHHHHcCCCCCeEEEECCCC
Confidence 3555566677788899999999988743267766666543
No 309
>KOG3929 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.02 E-value=2.9 Score=26.26 Aligned_cols=14 Identities=21% Similarity=0.548 Sum_probs=12.1
Q ss_pred CCeEEEEeeCCCCc
Q 047889 42 NIVIMLIGNKSDLK 55 (72)
Q Consensus 42 ~~~~vlvgnK~Dl~ 55 (72)
.+|+++||.|.|--
T Consensus 190 P~PV~IVgsKYDvF 203 (363)
T KOG3929|consen 190 PVPVVIVGSKYDVF 203 (363)
T ss_pred CCceEEeccchhhh
Confidence 48899999999964
No 310
>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]
Probab=88.67 E-value=0.84 Score=31.65 Aligned_cols=46 Identities=22% Similarity=0.219 Sum_probs=30.5
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.|-.||+++|+|...--....-.-|. ++. ..++|.+++-||+|...
T Consensus 97 lrvlDgavvVvdaveGV~~QTEtv~r-qa~---~~~vp~i~fiNKmDR~~ 142 (697)
T COG0480 97 LRVLDGAVVVVDAVEGVEPQTETVWR-QAD---KYGVPRILFVNKMDRLG 142 (697)
T ss_pred HHhhcceEEEEECCCCeeecHHHHHH-HHh---hcCCCeEEEEECccccc
Confidence 45679999999987643333223332 232 35699999999999743
No 311
>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]
Probab=88.56 E-value=0.7 Score=30.90 Aligned_cols=51 Identities=27% Similarity=0.205 Sum_probs=31.4
Q ss_pred hhCCCEEEEEEEC--CChhhHHHHHHHHHHHHHhc------CCCCeEEEEeeCCCCccc
Q 047889 7 YRGALGALLVYDV--TKSTTFENVSRWLKDLRDHA------GSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 7 ~~~a~~~i~v~d~--~~~~s~~~~~~~~~~~~~~~------~~~~~~vlvgnK~Dl~~~ 57 (72)
.+.||.+++|+|. ++-++-..+...++...... ...-|++++.||.|+..+
T Consensus 346 ~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~ 404 (531)
T KOG1191|consen 346 IERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSK 404 (531)
T ss_pred HhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCc
Confidence 4578999999998 44444333333333322111 134789999999999664
No 312
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=88.39 E-value=0.35 Score=28.04 Aligned_cols=15 Identities=27% Similarity=0.299 Sum_probs=12.4
Q ss_pred CeEEEEeeCCCCccc
Q 047889 43 IVIMLIGNKSDLKHL 57 (72)
Q Consensus 43 ~~~vlvgnK~Dl~~~ 57 (72)
.|.+++.||.|+.+.
T Consensus 149 ~a~iiv~NK~Dl~~~ 163 (207)
T TIGR00073 149 EADLIVINKADLAEA 163 (207)
T ss_pred hCCEEEEEHHHcccc
Confidence 567999999999653
No 313
>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]
Probab=88.28 E-value=1.6 Score=29.45 Aligned_cols=46 Identities=15% Similarity=0.148 Sum_probs=30.9
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.+|.++.+.|.-+|--|.. ......+.+. ++....+|+-||.||-.
T Consensus 174 rSDivvqIVDARnPllfr~-~dLe~Yvke~-d~~K~~~LLvNKaDLl~ 219 (562)
T KOG1424|consen 174 RSDIVVQIVDARNPLLFRS-PDLEDYVKEV-DPSKANVLLVNKADLLP 219 (562)
T ss_pred hcceEEEEeecCCccccCC-hhHHHHHhcc-ccccceEEEEehhhcCC
Confidence 5799999999998866543 2222223322 24466789999999854
No 314
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=87.91 E-value=3.9 Score=25.07 Aligned_cols=46 Identities=17% Similarity=0.140 Sum_probs=29.6
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
-+++|.++.|.|.+ .+|+....+..+...+. .--++.+|.||.|-.
T Consensus 153 ~~~vD~vivVvDpS-~~sl~taeri~~L~~el--g~k~i~~V~NKv~e~ 198 (255)
T COG3640 153 IEGVDLVIVVVDPS-YKSLRTAERIKELAEEL--GIKRIFVVLNKVDEE 198 (255)
T ss_pred ccCCCEEEEEeCCc-HHHHHHHHHHHHHHHHh--CCceEEEEEeeccch
Confidence 45789999999865 44555444433333322 236799999999854
No 315
>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=87.27 E-value=2.7 Score=27.71 Aligned_cols=48 Identities=21% Similarity=0.297 Sum_probs=29.6
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
|-..+|.++++||....+--......++.++ +..-.+-+|-||.|..+
T Consensus 178 FaeR~D~IiLlfD~hKLDIsdEf~~vi~aLk---G~EdkiRVVLNKADqVd 225 (532)
T KOG1954|consen 178 FAERVDRIILLFDAHKLDISDEFKRVIDALK---GHEDKIRVVLNKADQVD 225 (532)
T ss_pred HHHhccEEEEEechhhccccHHHHHHHHHhh---CCcceeEEEeccccccC
Confidence 3456899999999765543333333333443 34455667779999643
No 316
>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.
Probab=86.78 E-value=3 Score=21.62 Aligned_cols=45 Identities=27% Similarity=0.169 Sum_probs=31.4
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCC-CCeEEEEeeC
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGS-NIVIMLIGNK 51 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~~~vlvgnK 51 (72)
.+..+|.++++.+ .+..++..+..+.+.+++...+ ...+.+|.|+
T Consensus 61 ~l~~aD~vlvvv~-~~~~s~~~~~~~~~~l~~~~~~~~~~~~lVvNr 106 (106)
T cd03111 61 ALDQADRVFLVTQ-QDLPSIRNAKRLLELLRVLDYSLPAKIELVLNR 106 (106)
T ss_pred HHHHcCeEEEEec-CChHHHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence 4567888888775 4577888888888877765433 4556677775
No 317
>COG0218 Predicted GTPase [General function prediction only]
Probab=86.62 E-value=3.5 Score=24.44 Aligned_cols=43 Identities=16% Similarity=0.195 Sum_probs=25.5
Q ss_pred CCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 10 ALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 10 a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
-.+++++.|.-.+..-.+. ..++.+.. .++|++++.||+|--.
T Consensus 107 L~~vvlliD~r~~~~~~D~-em~~~l~~---~~i~~~vv~tK~DKi~ 149 (200)
T COG0218 107 LKGVVLLIDARHPPKDLDR-EMIEFLLE---LGIPVIVVLTKADKLK 149 (200)
T ss_pred heEEEEEEECCCCCcHHHH-HHHHHHHH---cCCCeEEEEEccccCC
Confidence 3566777776544332221 22233333 5699999999999643
No 318
>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]
Probab=86.15 E-value=2.9 Score=28.97 Aligned_cols=64 Identities=14% Similarity=0.093 Sum_probs=40.5
Q ss_pred cccchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEEeeCCCCcccccCCHHHHHHH
Q 047889 2 ITSAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLIGNKSDLKHLLNSMCEEYLIK 68 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~ 68 (72)
|...|+.+.+++|+|..=.+ .+.-+.-...+-... +.....++|.+|.||.++...++...+++
T Consensus 441 msKayM~NPNAIILCIQDGS---VDAERSnVTDLVsq~DP~GrRTIfVLTKVDlAEknlA~PdRI~kI 505 (980)
T KOG0447|consen 441 ISKAYMQNPNAIILCIQDGS---VDAERSIVTDLVSQMDPHGRRTIFVLTKVDLAEKNVASPSRIQQI 505 (980)
T ss_pred HHHHHhcCCCeEEEEeccCC---cchhhhhHHHHHHhcCCCCCeeEEEEeecchhhhccCCHHHHHHH
Confidence 56789999999999974322 222222223332222 34566789999999988766666655543
No 319
>PRK13505 formate--tetrahydrofolate ligase; Provisional
Probab=85.77 E-value=2.7 Score=28.56 Aligned_cols=41 Identities=15% Similarity=0.160 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 25 FENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 25 ~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
|.++.+-++.++. -.+|++++-||.|...+.+ .+..+++|+
T Consensus 358 l~NL~RHIenvr~---FGvPvVVAINKFd~DTe~E--i~~I~~~c~ 398 (557)
T PRK13505 358 FANLERHIENIRK---FGVPVVVAINKFVTDTDAE--IAALKELCE 398 (557)
T ss_pred HHHHHHHHHHHHH---cCCCEEEEEeCCCCCCHHH--HHHHHHHHH
Confidence 3444444444443 3699999999999875322 233444544
No 320
>COG1010 CobJ Precorrin-3B methylase [Coenzyme metabolism]
Probab=85.69 E-value=4.1 Score=24.88 Aligned_cols=45 Identities=18% Similarity=0.236 Sum_probs=35.7
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCC
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKS 52 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~ 52 (72)
..+|-++..|+.-++..=+++..-++-+.++.+++.|+.++-|--
T Consensus 153 A~adfVi~~YNP~s~~R~~~~~~a~eil~~~r~~~tpVgivrnag 197 (249)
T COG1010 153 AEADFVIALYNPISKRRPEQLGRAFEILREHRSPDTPVGIVRNAG 197 (249)
T ss_pred hhCCEEEEEECCccccchHHHHHHHHHHHHhcCCCCcEEEEecCC
Confidence 357889999998887766677777778888888899998886644
No 321
>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]
Probab=85.37 E-value=0.85 Score=29.00 Aligned_cols=42 Identities=29% Similarity=0.271 Sum_probs=26.4
Q ss_pred CCCEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCe-EEEEeeCCCCccc
Q 047889 9 GALGALLVYDVTK---STTFENVSRWLKDLRDHAGSNIV-IMLIGNKSDLKHL 57 (72)
Q Consensus 9 ~a~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~-~vlvgnK~Dl~~~ 57 (72)
+.|+.|+|.+-++ |.+-+++. ..++ -.+| ++++-||+|+.++
T Consensus 98 qmDgAILVVsA~dGpmPqTrEHiL----larq---vGvp~ivvflnK~Dmvdd 143 (394)
T COG0050 98 QMDGAILVVAATDGPMPQTREHIL----LARQ---VGVPYIVVFLNKVDMVDD 143 (394)
T ss_pred hcCccEEEEEcCCCCCCcchhhhh----hhhh---cCCcEEEEEEecccccCc
Confidence 3589999998887 33333321 1122 3465 6777899999764
No 322
>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]
Probab=85.19 E-value=2.4 Score=31.32 Aligned_cols=48 Identities=23% Similarity=0.313 Sum_probs=33.5
Q ss_pred CCCEEEEEEECCChhh---------HHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 9 GALGALLVYDVTKSTT---------FENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s---------~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
--||+|+..|+.+.-+ ...++.-+.++.+.-.-..|+.|+.||.|+-.
T Consensus 214 piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~~~PVYl~lTk~Dll~ 270 (1188)
T COG3523 214 PLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHARLPVYLVLTKADLLP 270 (1188)
T ss_pred CCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhccCCceEEEEecccccc
Confidence 4589999998875311 22244445666665567899999999999843
No 323
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=83.40 E-value=2.3 Score=27.87 Aligned_cols=46 Identities=20% Similarity=0.021 Sum_probs=27.1
Q ss_pred hhCCCEEEEEEECCChh---hH---HHHHHHHHHHHHhcCCCCe-EEEEeeCCCCc
Q 047889 7 YRGALGALLVYDVTKST---TF---ENVSRWLKDLRDHAGSNIV-IMLIGNKSDLK 55 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~---s~---~~~~~~~~~~~~~~~~~~~-~vlvgnK~Dl~ 55 (72)
...+|++++|.|.+.-. .| ...+..+..+.. -.+| ++++-||+|+.
T Consensus 106 ~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~---~gi~~iiv~vNKmD~~ 158 (446)
T PTZ00141 106 TSQADVAILVVASTAGEFEAGISKDGQTREHALLAFT---LGVKQMIVCINKMDDK 158 (446)
T ss_pred hhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHH---cCCCeEEEEEEccccc
Confidence 35789999999987531 11 122222222332 2455 67899999953
No 324
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=82.63 E-value=5.6 Score=21.22 Aligned_cols=42 Identities=12% Similarity=0.011 Sum_probs=27.8
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCC
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKS 52 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~ 52 (72)
+++.+.+. ..+..+...++.+.+.+++...+.+++++-|+..
T Consensus 50 ~~d~V~iS--~~~~~~~~~~~~~~~~L~~~~~~~i~i~~GG~~~ 91 (122)
T cd02071 50 DVDVIGLS--SLSGGHMTLFPEVIELLRELGAGDILVVGGGIIP 91 (122)
T ss_pred CCCEEEEc--ccchhhHHHHHHHHHHHHhcCCCCCEEEEECCCC
Confidence 45555554 4467778888999999888754566666665543
No 325
>PF14784 ECIST_Cterm: C-terminal domain of the ECSIT protein
Probab=82.50 E-value=4.8 Score=22.14 Aligned_cols=37 Identities=14% Similarity=0.435 Sum_probs=25.4
Q ss_pred CEEEEEEECCChhhHHHHHHHHHHHHHhcC--CCCeEEE
Q 047889 11 LGALLVYDVTKSTTFENVSRWLKDLRDHAG--SNIVIML 47 (72)
Q Consensus 11 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~~~vl 47 (72)
||.|+..-++...+=..+..|+..+++.++ ..+|+++
T Consensus 85 dGti~Amc~tg~~~~~sL~~WI~~Lq~~NP~L~~ipV~F 123 (126)
T PF14784_consen 85 DGTIFAMCMTGTSDKDSLLSWIRGLQETNPNLAQIPVLF 123 (126)
T ss_pred cceEEEEEeccCCCHHHHHHHHHHHHhhCCchhcceEEE
Confidence 566666656666666667779999988654 4677664
No 326
>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=82.10 E-value=3.6 Score=24.73 Aligned_cols=45 Identities=18% Similarity=0.116 Sum_probs=21.3
Q ss_pred CCEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 10 ALGALLVYDVTK---STTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 10 a~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.-+++++.|... +..|-.. ++-.+.....-+.|.+.|-||+|+..
T Consensus 123 ~~~~v~LvD~~~~~~~~~f~s~--~L~s~s~~~~~~lP~vnvlsK~Dl~~ 170 (238)
T PF03029_consen 123 RLVVVFLVDSSFCSDPSKFVSS--LLLSLSIMLRLELPHVNVLSKIDLLS 170 (238)
T ss_dssp --EEEEEE-GGG-SSHHHHHHH--HHHHHHHHHHHTSEEEEEE--GGGS-
T ss_pred ceEEEEEEecccccChhhHHHH--HHHHHHHHhhCCCCEEEeeeccCccc
Confidence 345666766553 3333322 22122111124699999999999976
No 327
>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=81.98 E-value=4.3 Score=22.73 Aligned_cols=53 Identities=19% Similarity=0.026 Sum_probs=32.4
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHH
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKS 69 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a 69 (72)
+||.++++.|.+++.+.-. +.+... -+.|++=|-+|+|+.. .....+.++++.
T Consensus 63 dad~V~ll~dat~~~~~~p-----P~fa~~--f~~pvIGVITK~Dl~~-~~~~i~~a~~~L 115 (143)
T PF10662_consen 63 DADVVLLLQDATEPRSVFP-----PGFASM--FNKPVIGVITKIDLPS-DDANIERAKKWL 115 (143)
T ss_pred hCCEEEEEecCCCCCccCC-----chhhcc--cCCCEEEEEECccCcc-chhhHHHHHHHH
Confidence 6899999999988754210 111111 2478899999999983 123344444443
No 328
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=81.90 E-value=7.7 Score=26.41 Aligned_cols=46 Identities=28% Similarity=0.344 Sum_probs=29.2
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
+..|.|.+++.|-+.----+.+...+--+ ..+..++-|-||+||+.
T Consensus 97 LAACEGalLvVDAsQGveAQTlAN~YlAl----e~~LeIiPViNKIDLP~ 142 (603)
T COG0481 97 LAACEGALLVVDASQGVEAQTLANVYLAL----ENNLEIIPVLNKIDLPA 142 (603)
T ss_pred HhhCCCcEEEEECccchHHHHHHHHHHHH----HcCcEEEEeeecccCCC
Confidence 44578899999987532222222222222 25678888999999986
No 329
>PF08468 MTS_N: Methyltransferase small domain N-terminal; InterPro: IPR013675 This domain is found to the N terminus of the methyltransferase small domain (IPR007848 from INTERPRO) in bacterial proteins []. ; GO: 0008990 rRNA (guanine-N2-)-methyltransferase activity, 0006364 rRNA processing; PDB: 2PJD_A.
Probab=81.08 E-value=7.8 Score=21.88 Aligned_cols=41 Identities=17% Similarity=0.248 Sum_probs=24.9
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCC
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSD 53 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~D 53 (72)
++|.+|+.|--.. .....++..+....+.+.+++|||-|..
T Consensus 69 ~~D~vvly~PKaK----~e~~~lL~~l~~~L~~g~~i~vVGEnk~ 109 (155)
T PF08468_consen 69 DFDTVVLYWPKAK----AEAQYLLANLLSHLPPGTEIFVVGENKG 109 (155)
T ss_dssp T-SEEEEE--SSH----HHHHHHHHHHHTTS-TT-EEEEEEEGGG
T ss_pred CCCEEEEEccCcH----HHHHHHHHHHHHhCCCCCEEEEEecCcc
Confidence 5788888875433 3455566677766667899999997653
No 330
>TIGR00750 lao LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.
Probab=79.96 E-value=4.1 Score=25.17 Aligned_cols=40 Identities=20% Similarity=0.047 Sum_probs=22.9
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.+|.++++-. +.+-+.+......+ ...|.+++.||+|+..
T Consensus 147 ~aD~i~vv~~---~~~~~el~~~~~~l-----~~~~~ivv~NK~Dl~~ 186 (300)
T TIGR00750 147 MADTFVVVTI---PGTGDDLQGIKAGL-----MEIADIYVVNKADGEG 186 (300)
T ss_pred hhceEEEEec---CCccHHHHHHHHHH-----hhhccEEEEEcccccc
Confidence 4566666532 33334443333222 2466799999999864
No 331
>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=79.59 E-value=3.5 Score=26.63 Aligned_cols=54 Identities=26% Similarity=0.162 Sum_probs=30.7
Q ss_pred CEEEEEEECCCh----hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCccc--ccCCHHHHHHHHh
Q 047889 11 LGALLVYDVTKS----TTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHL--LNSMCEEYLIKSR 70 (72)
Q Consensus 11 ~~~i~v~d~~~~----~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~--~~v~~~e~~~~a~ 70 (72)
||.++|..-+.+ ++-+++.. +.-. .-.-++++-||+||... -....++.++|.+
T Consensus 111 DgAlLvIaANEpcPQPQT~EHl~A----leIi--gik~iiIvQNKIDlV~~E~AlE~y~qIk~Fvk 170 (415)
T COG5257 111 DGALLVIAANEPCPQPQTREHLMA----LEII--GIKNIIIVQNKIDLVSRERALENYEQIKEFVK 170 (415)
T ss_pred cceEEEEecCCCCCCCchHHHHHH----Hhhh--ccceEEEEecccceecHHHHHHHHHHHHHHhc
Confidence 788888887764 33333222 2212 12347899999999542 1234555666554
No 332
>COG2813 RsmC 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]
Probab=79.27 E-value=9.5 Score=24.05 Aligned_cols=42 Identities=21% Similarity=0.175 Sum_probs=30.9
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
++|++++-+.-+.. ..+.++.++....+++..|+++|.|.|-
T Consensus 37 ~~d~~l~~~pK~~~----e~e~qLa~ll~~~~~g~~i~v~g~~~~g 78 (300)
T COG2813 37 DFDAVLLYWPKHKA----EAEFQLAQLLARLPPGGEIVVVGEKRDG 78 (300)
T ss_pred CCCEEEEEccCchH----HHHHHHHHHHhhCCCCCeEEEEecccch
Confidence 57888888765544 3455566666666788999999999885
No 333
>PF10551 MULE: MULE transposase domain; InterPro: IPR018289 This entry represents a domain found in Mutator-like elements (MULE)-encoded tranposases, some of which also contain a zinc-finger motif [, ]. This domain is also found in a transposase for the insertion sequence element IS256 in transposon Tn4001 [].
Probab=78.72 E-value=6.5 Score=19.52 Aligned_cols=38 Identities=16% Similarity=0.279 Sum_probs=27.9
Q ss_pred CEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEe
Q 047889 11 LGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIG 49 (72)
Q Consensus 11 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvg 49 (72)
.++++.|.+...++-+.....++.+++..... |.+++.
T Consensus 25 ~~~~v~~~l~~~e~~~~~~~~l~~~~~~~~~~-p~~ii~ 62 (93)
T PF10551_consen 25 RGFPVAFALVSSESEESYEWFLEKLKEAMPQK-PKVIIS 62 (93)
T ss_pred CEEEEEEEEEcCCChhhhHHHHHHhhhccccC-ceeeec
Confidence 66788888888888888877777777665444 766554
No 334
>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=77.82 E-value=11 Score=21.54 Aligned_cols=47 Identities=19% Similarity=0.144 Sum_probs=27.3
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCC--CCeEEEEeeCCCCc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGS--NIVIMLIGNKSDLK 55 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~~~vlvgnK~Dl~ 55 (72)
..+.|++++|.+..+. +-.. ...++.+++..+. ..+++++-++.|-.
T Consensus 81 ~~g~~~illVi~~~~~-t~~d-~~~l~~l~~~fg~~~~~~~ivv~T~~d~l 129 (196)
T cd01852 81 APGPHAFLLVVPLGRF-TEEE-EQAVETLQELFGEKVLDHTIVLFTRGDDL 129 (196)
T ss_pred CCCCEEEEEEEECCCc-CHHH-HHHHHHHHHHhChHhHhcEEEEEECcccc
Confidence 4678999999998762 2111 2233334433222 24677778888753
No 335
>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]
Probab=76.86 E-value=5.3 Score=25.36 Aligned_cols=16 Identities=19% Similarity=0.459 Sum_probs=14.3
Q ss_pred CCCeEEEEeeCCCCcc
Q 047889 41 SNIVIMLIGNKSDLKH 56 (72)
Q Consensus 41 ~~~~~vlvgnK~Dl~~ 56 (72)
...|.+++.||+|+.+
T Consensus 180 tklp~ivvfNK~Dv~d 195 (366)
T KOG1532|consen 180 TKLPFIVVFNKTDVSD 195 (366)
T ss_pred ccCCeEEEEecccccc
Confidence 6799999999999865
No 336
>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]
Probab=76.09 E-value=4.9 Score=28.81 Aligned_cols=41 Identities=22% Similarity=0.105 Sum_probs=26.9
Q ss_pred hhCCCEEEEEEECCC---hhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 7 YRGALGALLVYDVTK---STTFENVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
-.-||..|+|.|+.. +.+++++ .-....+.|+|+..||+|.
T Consensus 561 sslC~~aIlvvdImhGlepqtiESi-------~lLR~rktpFivALNKiDR 604 (1064)
T KOG1144|consen 561 SSLCDLAILVVDIMHGLEPQTIESI-------NLLRMRKTPFIVALNKIDR 604 (1064)
T ss_pred ccccceEEEEeehhccCCcchhHHH-------HHHHhcCCCeEEeehhhhh
Confidence 345777888888753 3444432 2222357999999999996
No 337
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=75.56 E-value=11 Score=24.86 Aligned_cols=56 Identities=23% Similarity=0.108 Sum_probs=32.0
Q ss_pred hCCCEEEEEEECCChh---hHHH---HHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHH
Q 047889 8 RGALGALLVYDVTKST---TFEN---VSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEY 65 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~---s~~~---~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~ 65 (72)
.+||+.|+|.|..+.+ .|.- .+.-. .+.... .--.++++-||+|+.+.++-..+|.
T Consensus 107 sqAD~aVLVV~a~~~efE~g~~~~gQtrEH~-~La~tl-Gi~~lIVavNKMD~v~wde~rf~ei 168 (428)
T COG5256 107 SQADVAVLVVDARDGEFEAGFGVGGQTREHA-FLARTL-GIKQLIVAVNKMDLVSWDEERFEEI 168 (428)
T ss_pred hhccEEEEEEECCCCccccccccCCchhHHH-HHHHhc-CCceEEEEEEcccccccCHHHHHHH
Confidence 4689999999987763 2211 11111 122221 2345788899999987554444443
No 338
>COG1163 DRG Predicted GTPase [General function prediction only]
Probab=75.33 E-value=8.1 Score=24.91 Aligned_cols=28 Identities=29% Similarity=0.273 Sum_probs=20.4
Q ss_pred hhCCCEEEEEEECCChhh-HHHHHHHHHH
Q 047889 7 YRGALGALLVYDVTKSTT-FENVSRWLKD 34 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s-~~~~~~~~~~ 34 (72)
.|+||.+++|.|+....+ .+.+...++.
T Consensus 138 ~R~ADlIiiVld~~~~~~~~~~i~~ELe~ 166 (365)
T COG1163 138 ARNADLIIIVLDVFEDPHHRDIIERELED 166 (365)
T ss_pred eccCCEEEEEEecCCChhHHHHHHHHHHh
Confidence 578999999999997766 5555444433
No 339
>PRK04017 hypothetical protein; Provisional
Probab=75.24 E-value=9.4 Score=21.17 Aligned_cols=32 Identities=13% Similarity=0.426 Sum_probs=23.1
Q ss_pred hhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 22 STTFENVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 22 ~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
++.|+.+..|++++.+.+....+ ++|-.|.|.
T Consensus 3 ~~~~~~~~e~i~~L~e~s~~g~v-IVVEGk~D~ 34 (132)
T PRK04017 3 RENYERFEEIIEELKEFSEAGAP-IIVEGKRDV 34 (132)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCE-EEEeCccHH
Confidence 45688999999999988754455 555556664
No 340
>PF06953 ArsD: Arsenical resistance operon trans-acting repressor ArsD; InterPro: IPR010712 This family consists of several bacterial arsenical resistance operon trans-acting repressor ArsD proteins. ArsD is a trans-acting repressor of the arsRDABC operon that confers resistance to arsenicals and antimonials in Escherichia coli. It possesses two-pairs of vicinal cysteine residues, Cys(12)-Cys(13) and Cys(112)-Cys(113), that potentially form separate binding sites for the metalloids that trigger dissociation of ArsD from the operon. However, as a homodimer it has four vicinal cysteine pairs [].; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent, 0046685 response to arsenic-containing substance; PDB: 3MWH_A 3KGK_A 3KTB_B.
Probab=75.12 E-value=7.5 Score=21.23 Aligned_cols=61 Identities=11% Similarity=0.037 Sum_probs=38.1
Q ss_pred hCCCEEEEEEECCC-hhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHH
Q 047889 8 RGALGALLVYDVTK-STTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKS 69 (72)
Q Consensus 8 ~~a~~~i~v~d~~~-~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a 69 (72)
++...-+-.|.+++ |..|..-+...+.+........|+++|-.++=... +--+.+|..+|+
T Consensus 37 k~~gv~v~RyNL~~~P~aF~~n~~V~~~L~~~G~e~LPitlVdGeiv~~G-~YPt~eEl~~~~ 98 (123)
T PF06953_consen 37 KEQGVEVERYNLAQNPQAFVENPEVNQLLQTEGAEALPITLVDGEIVKTG-RYPTNEELAEWL 98 (123)
T ss_dssp HHTT-EEEEEETTT-TTHHHHSHHHHHHHHHH-GGG-SEEEETTEEEEES-S---HHHHHHHH
T ss_pred HhCCceEEEEccccCHHHHHhCHHHHHHHHHcCcccCCEEEECCEEEEec-CCCCHHHHHHHh
Confidence 44456677888876 56788877777777777667799999877764432 455666666654
No 341
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=74.29 E-value=7.9 Score=21.90 Aligned_cols=42 Identities=21% Similarity=0.148 Sum_probs=23.7
Q ss_pred CCEEEEEEECCChhhHHHHH-HHHHHHHHhcCCCCeEEEEeeCCCCccc
Q 047889 10 ALGALLVYDVTKSTTFENVS-RWLKDLRDHAGSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 10 a~~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~vlvgnK~Dl~~~ 57 (72)
-+.++.|.|..+-.....+. .+.+++.. .=+++.||.|+.+.
T Consensus 114 ~~~iI~vVDa~~~~~~~~~~~~~~~Qi~~------ADvIvlnK~D~~~~ 156 (178)
T PF02492_consen 114 LDSIITVVDATNFDELENIPELLREQIAF------ADVIVLNKIDLVSD 156 (178)
T ss_dssp ESEEEEEEEGTTHGGHTTHCHHHHHHHCT-------SEEEEE-GGGHHH
T ss_pred ccceeEEeccccccccccchhhhhhcchh------cCEEEEeccccCCh
Confidence 46788888876654334442 23333322 12778899998653
No 342
>cd03112 CobW_like The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.
Probab=74.24 E-value=10 Score=21.07 Aligned_cols=39 Identities=15% Similarity=0.192 Sum_probs=19.3
Q ss_pred CCEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 10 ALGALLVYDVTKSTT-FENVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 10 a~~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
.++++.+.|..+-.. +.....+.+++... =+++-||+|+
T Consensus 119 ~d~vv~vvDa~~~~~~~~~~~~~~~Qi~~a------d~ivlnk~dl 158 (158)
T cd03112 119 LDGVITLVDAKHANQHLDQQTEAQSQIAFA------DRILLNKTDL 158 (158)
T ss_pred eccEEEEEEhhHhHHHhhccHHHHHHHHHC------CEEEEecccC
Confidence 577777777543222 11112233333221 2567788885
No 343
>cd07379 MPP_239FB Homo sapiens 239FB and related proteins, metallophosphatase domain. 239FB (Fetal brain protein 239) is thought to play a role in central nervous system development, but its specific role in unknown. 239FB is expressed predominantly in human fetal brain from a gene located in the chromosome 11p13 region associated with the mental retardation component of the WAGR (Wilms tumor, Aniridia, Genitourinary anomalies, Mental retardation) syndrome. Orthologous brp-like (brain protein 239-like) proteins have been identified in the invertebrate amphioxus group and in vertebrates. 239FB belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzyme
Probab=73.12 E-value=10 Score=20.25 Aligned_cols=44 Identities=23% Similarity=0.280 Sum_probs=24.4
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCC
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSD 53 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~D 53 (72)
.++|.+++.-|+.+.........+.+.+.+.. ....+++.|| .|
T Consensus 18 ~~~D~vi~~GD~~~~~~~~~~~~~~~~l~~~~-~~~~~~v~GN-HD 61 (135)
T cd07379 18 PDGDVLIHAGDLTERGTLEELQKFLDWLKSLP-HPHKIVIAGN-HD 61 (135)
T ss_pred CCCCEEEECCCCCCCCCHHHHHHHHHHHHhCC-CCeEEEEECC-CC
Confidence 46899999999887654443333333333322 1122456777 44
No 344
>KOG2423 consensus Nucleolar GTPase [General function prediction only]
Probab=71.40 E-value=13 Score=24.85 Aligned_cols=46 Identities=15% Similarity=0.104 Sum_probs=30.3
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.+|.+|-|.|.-||-.- .+.+.-+.++... +...+++|.||+||..
T Consensus 213 SSDVvvqVlDARDPmGT-rc~~ve~ylkke~-phKHli~vLNKvDLVP 258 (572)
T KOG2423|consen 213 SSDVVVQVLDARDPMGT-RCKHVEEYLKKEK-PHKHLIYVLNKVDLVP 258 (572)
T ss_pred ccceeEEeeeccCCccc-ccHHHHHHHhhcC-CcceeEEEeecccccc
Confidence 57889999998887431 1222222344443 5667899999999954
No 345
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=71.38 E-value=10 Score=24.14 Aligned_cols=41 Identities=15% Similarity=0.090 Sum_probs=22.9
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.-||.++++.+......+..+ ...+-+ +.-++|.||.|+..
T Consensus 168 ~~aD~vlvv~~p~~gd~iq~~---k~gi~E-----~aDIiVVNKaDl~~ 208 (332)
T PRK09435 168 GMVDFFLLLQLPGAGDELQGI---KKGIME-----LADLIVINKADGDN 208 (332)
T ss_pred HhCCEEEEEecCCchHHHHHH---Hhhhhh-----hhheEEeehhcccc
Confidence 357888888553333333322 221222 22389999999864
No 346
>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase).
Probab=70.09 E-value=25 Score=22.33 Aligned_cols=55 Identities=7% Similarity=0.023 Sum_probs=30.8
Q ss_pred CCCEEEEEEECCChhhHHHH-HHHHHHHHHhcC--CCCeEEEEeeCCCCcccccCCHHH
Q 047889 9 GALGALLVYDVTKSTTFENV-SRWLKDLRDHAG--SNIVIMLIGNKSDLKHLLNSMCEE 64 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~--~~~~~vlvgnK~Dl~~~~~v~~~e 64 (72)
+.|++++|..++... +... ...++.++...+ -..+++++.++.|.......+.++
T Consensus 118 g~DvVLyV~rLD~~R-~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~~pd~~~~e~ 175 (313)
T TIGR00991 118 TIDVLLYVDRLDAYR-VDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFSPPDGLEYND 175 (313)
T ss_pred CCCEEEEEeccCccc-CCHHHHHHHHHHHHHhhhhhhccEEEEEECCccCCCCCCCHHH
Confidence 588999996665322 2222 333444444322 224688899999975434455443
No 347
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=69.55 E-value=17 Score=20.03 Aligned_cols=41 Identities=10% Similarity=0.053 Sum_probs=25.3
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCC
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKS 52 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~ 52 (72)
++|.+.+ +.....+...++.+.+.+++...++++++ +|-..
T Consensus 54 ~~d~V~l--S~~~~~~~~~~~~~~~~L~~~~~~~~~i~-vGG~~ 94 (137)
T PRK02261 54 DADAILV--SSLYGHGEIDCRGLREKCIEAGLGDILLY-VGGNL 94 (137)
T ss_pred CCCEEEE--cCccccCHHHHHHHHHHHHhcCCCCCeEE-EECCC
Confidence 3444444 44455777788889988887754566544 44444
No 348
>PF09827 CRISPR_Cas2: CRISPR associated protein Cas2; InterPro: IPR019199 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. Members of this family of bacterial proteins comprise various hypothetical proteins, as well as CRISPR (clustered regularly interspaced short palindromic repeats) associated proteins, conferring resistance to infection by certain bacteriophages. ; PDB: 3EXC_X 2I0X_A 3OQ2_B 3UI3_A 1ZPW_X 2I8E_A 2IVY_A.
Probab=69.31 E-value=7.8 Score=18.91 Aligned_cols=24 Identities=25% Similarity=0.390 Sum_probs=16.7
Q ss_pred EEEEEEECCChhhHHHHHHHHHHH
Q 047889 12 GALLVYDVTKSTTFENVSRWLKDL 35 (72)
Q Consensus 12 ~~i~v~d~~~~~s~~~~~~~~~~~ 35 (72)
-++++||+.+......+...++..
T Consensus 3 ~~lv~YDi~~~k~~~kv~k~L~~~ 26 (78)
T PF09827_consen 3 LYLVAYDISDNKRRNKVRKILKSY 26 (78)
T ss_dssp EEEEEEEEHSHHHHHHHHHHHHHT
T ss_pred EEEEEEECCCcHHHHHHHHHHHHh
Confidence 478999998887666665544443
No 349
>cd05295 MDH_like Malate dehydrogenase-like. These MDH-like proteins are related to other groups in the MDH family but do not have conserved substrate and cofactor binding residues. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. Members of this subgroup are uncharacterized MDH-like proteins from animals. They are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=68.89 E-value=15 Score=24.52 Aligned_cols=49 Identities=12% Similarity=0.127 Sum_probs=31.6
Q ss_pred hhhCCCEEEEEEECCChhh---HHH-------HHHHHHHHHHhcCCCCeEEEEe-eCCCC
Q 047889 6 YYRGALGALLVYDVTKSTT---FEN-------VSRWLKDLRDHAGSNIVIMLIG-NKSDL 54 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s---~~~-------~~~~~~~~~~~~~~~~~~vlvg-nK~Dl 54 (72)
-+.++|.+|++-....... .+- ++.+.+.+..+..++..++|+| |-+|.
T Consensus 196 a~~daDvvIitag~prk~G~~R~DLL~~N~~Ifk~~g~~I~~~a~~~~~VlVv~tNPvD~ 255 (452)
T cd05295 196 AFKDAHVIVLLDDFLIKEGEDLEGCIRSRVAICQLYGPLIEKNAKEDVKVIVAGRTFLNL 255 (452)
T ss_pred HhCCCCEEEECCCCCCCcCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCeEEEEeCCcHHH
Confidence 4678999999998754322 221 2344445555555567788888 88875
No 350
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=68.74 E-value=21 Score=20.80 Aligned_cols=39 Identities=15% Similarity=0.149 Sum_probs=25.9
Q ss_pred EEEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeC
Q 047889 13 ALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNK 51 (72)
Q Consensus 13 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK 51 (72)
=++..+.....+...++.+++.+++... +++++++-|.-
T Consensus 137 d~v~lS~~~~~~~~~~~~~i~~l~~~~~~~~v~i~vGG~~ 176 (197)
T TIGR02370 137 LMLTGSALMTTTMYGQKDINDKLKEEGYRDSVKFMVGGAP 176 (197)
T ss_pred CEEEEccccccCHHHHHHHHHHHHHcCCCCCCEEEEEChh
Confidence 3555666667778888899999988753 34565554433
No 351
>cd01832 SGNH_hydrolase_like_1 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid. Myxobacterial members of this subfamily have been reported to be involved in adventurous gliding motility.
Probab=68.50 E-value=18 Score=20.03 Aligned_cols=38 Identities=8% Similarity=0.038 Sum_probs=24.6
Q ss_pred CCCEEEEEEECCChhh--------HHHHHHHHHHHHHhcCCCCeEEEEe
Q 047889 9 GALGALLVYDVTKSTT--------FENVSRWLKDLRDHAGSNIVIMLIG 49 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s--------~~~~~~~~~~~~~~~~~~~~~vlvg 49 (72)
+.|.+++.+-++|... .+.+...++.++ .++.++++++
T Consensus 67 ~~d~vii~~G~ND~~~~~~~~~~~~~~~~~~i~~i~---~~~~~vil~~ 112 (185)
T cd01832 67 RPDLVTLLAGGNDILRPGTDPDTYRADLEEAVRRLR---AAGARVVVFT 112 (185)
T ss_pred CCCEEEEeccccccccCCCCHHHHHHHHHHHHHHHH---hCCCEEEEec
Confidence 6788888887776643 444566666665 2456666665
No 352
>KOG0099 consensus G protein subunit Galphas, small G protein superfamily [Signal transduction mechanisms]
Probab=68.14 E-value=12 Score=23.68 Aligned_cols=53 Identities=15% Similarity=0.172 Sum_probs=30.7
Q ss_pred cchhhCCCEEEEEEECCChh-------hHHHHHHHHHHHHH----hcCCCCeEEEEeeCCCCcc
Q 047889 4 SAYYRGALGALLVYDVTKST-------TFENVSRWLKDLRD----HAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~-------s~~~~~~~~~~~~~----~~~~~~~~vlvgnK~Dl~~ 56 (72)
=++|.+..++|+|..-++-. +-+.++.-++..+. .....+-++|..||.|+-.
T Consensus 220 IQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRwL~tisvIlFLNKqDlla 283 (379)
T KOG0099|consen 220 IQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLA 283 (379)
T ss_pred HHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhHHhhhheeEEecHHHHHH
Confidence 46788999999998765321 11122222222211 1124577899999999854
No 353
>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=67.32 E-value=14 Score=24.70 Aligned_cols=24 Identities=29% Similarity=0.583 Sum_probs=16.4
Q ss_pred EEEEEEECCChhhH-HHHHHHHHHH
Q 047889 12 GALLVYDVTKSTTF-ENVSRWLKDL 35 (72)
Q Consensus 12 ~~i~v~d~~~~~s~-~~~~~~~~~~ 35 (72)
.+++|.|++.|..+ +.+..|+..+
T Consensus 103 ~vvIvlDlS~PW~~~esL~~W~~vl 127 (472)
T PF05783_consen 103 LVVIVLDLSKPWNIMESLEKWLSVL 127 (472)
T ss_pred EEEEEecCCChHHHHHHHHHHHHHH
Confidence 57888999999764 4556554433
No 354
>TIGR02836 spore_IV_A stage IV sporulation protein A. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.
Probab=67.05 E-value=23 Score=23.85 Aligned_cols=42 Identities=17% Similarity=0.268 Sum_probs=27.7
Q ss_pred CCCEEEEEE-ECC----ChhhHHHH-HHHHHHHHHhcCCCCeEEEEeeCCC
Q 047889 9 GALGALLVY-DVT----KSTTFENV-SRWLKDLRDHAGSNIVIMLIGNKSD 53 (72)
Q Consensus 9 ~a~~~i~v~-d~~----~~~s~~~~-~~~~~~~~~~~~~~~~~vlvgnK~D 53 (72)
.++..++|. |-+ .++.+... ..|++++++. +.|.+++-||.|
T Consensus 144 hstIgivVtTDgsi~dI~Re~y~~aEe~~i~eLk~~---~kPfiivlN~~d 191 (492)
T TIGR02836 144 HSTIGVVVTTDGTITDIPREDYVEAEERVIEELKEL---NKPFIILLNSTH 191 (492)
T ss_pred cCcEEEEEEcCCCccccccccchHHHHHHHHHHHhc---CCCEEEEEECcC
Confidence 566667776 432 12344444 5677777654 599999999999
No 355
>COG0523 Putative GTPases (G3E family) [General function prediction only]
Probab=66.89 E-value=30 Score=21.98 Aligned_cols=42 Identities=19% Similarity=0.171 Sum_probs=22.7
Q ss_pred CCEEEEEEECCChhhHHH-HHHH-HHHHHHhcCCCCeEEEEeeCCCCccc
Q 047889 10 ALGALLVYDVTKSTTFEN-VSRW-LKDLRDHAGSNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 10 a~~~i~v~d~~~~~s~~~-~~~~-~~~~~~~~~~~~~~vlvgnK~Dl~~~ 57 (72)
-|+++.|.|...-..-.. +... .+++. ..=+|+.||.|+.+.
T Consensus 117 ld~vvtvVDa~~~~~~~~~~~~~~~~Qia------~AD~ivlNK~Dlv~~ 160 (323)
T COG0523 117 LDGVVTVVDAAHFLEGLDAIAELAEDQLA------FADVIVLNKTDLVDA 160 (323)
T ss_pred eceEEEEEeHHHhhhhHHHHHHHHHHHHH------hCcEEEEecccCCCH
Confidence 467888887554332111 2222 22221 223788899999764
No 356
>PRK06756 flavodoxin; Provisional
Probab=66.27 E-value=19 Score=19.56 Aligned_cols=44 Identities=7% Similarity=0.006 Sum_probs=26.3
Q ss_pred hhCCCEEEEEEECCChhhHH-HHHHHHHHHHHhcCCCCeEEEEee
Q 047889 7 YRGALGALLVYDVTKSTTFE-NVSRWLKDLRDHAGSNIVIMLIGN 50 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~-~~~~~~~~~~~~~~~~~~~vlvgn 50 (72)
+.+.|++++....-....+. .+..+++.+......+.++.++|+
T Consensus 47 ~~~~d~vi~gspt~~~g~~p~~~~~fl~~l~~~~l~~k~~~~fgt 91 (148)
T PRK06756 47 LEQYDGIILGAYTWGDGDLPDDFLDFYDAMDSIDLTGKKAAVFGS 91 (148)
T ss_pred HhcCCeEEEEeCCCCCCCCcHHHHHHHHHHhcCCCCCCEEEEEeC
Confidence 45678888877554322222 355666666443335678888877
No 357
>TIGR01757 Malate-DH_plant malate dehydrogenase, NADP-dependent. This model represents the NADP-dependent malate dehydrogenase found in plants, mosses and green algae and localized to the chloroplast. Malate dehydrogenase converts oxaloacetate into malate, a critical step in the C4 cycle which allows circumvention of the effects of photorespiration. Malate is subsequenctly transported from the chloroplast to the cytoplasm (and then to the bundle sheath cells in C4 plants). The plant and moss enzymes are light regulated via cysteine disulfide bonds. The enzyme from Sorghum has been crystallized.
Probab=65.39 E-value=14 Score=24.05 Aligned_cols=49 Identities=20% Similarity=0.213 Sum_probs=32.8
Q ss_pred hhhCCCEEEEEEECCChh---hHHH-------HHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 6 YYRGALGALLVYDVTKST---TFEN-------VSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~---s~~~-------~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
-++++|.+|+........ .++. ++.+.+.+.++.+++..+++++|=+|.
T Consensus 117 ~~kdaDIVVitAG~prkpg~tR~dll~~N~~I~k~i~~~I~~~a~~~~iviVVsNPvDv 175 (387)
T TIGR01757 117 VFEDADWALLIGAKPRGPGMERADLLDINGQIFADQGKALNAVASKNCKVLVVGNPCNT 175 (387)
T ss_pred HhCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCeEEEEcCCcHHH
Confidence 467899999987765422 2221 345556666655577889999998885
No 358
>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional
Probab=65.08 E-value=33 Score=21.84 Aligned_cols=42 Identities=10% Similarity=0.041 Sum_probs=28.5
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
..|.+++.+-- +-...+.++..+.....++.+++++|.|.+-
T Consensus 76 ~~d~~~~~~pk----~k~~~~~~l~~~~~~l~~g~~i~~~G~~~~g 117 (342)
T PRK09489 76 DCDTLIYYWPK----NKQEAQFQLMNLLSLLPVGTDIFVVGENRSG 117 (342)
T ss_pred CCCEEEEECCC----CHHHHHHHHHHHHHhCCCCCEEEEEEecccc
Confidence 35666666543 3334556666776666678999999999885
No 359
>PRK15029 arginine decarboxylase; Provisional
Probab=64.22 E-value=23 Score=25.25 Aligned_cols=44 Identities=16% Similarity=0.423 Sum_probs=32.8
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCC
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSD 53 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~D 53 (72)
..|++|+=+.+.+.+.++....++..+++.. .++|++++..+.|
T Consensus 53 ~~DlVLLD~~LPd~dG~~~~~ell~~IR~~~-~~iPIIlLTar~~ 96 (755)
T PRK15029 53 AIDCLMFSYQMEHPDEHQNVRQLIGKLHERQ-QNVPVFLLGDREK 96 (755)
T ss_pred CCcEEEEECCCCCCccchhHHHHHHHHHhhC-CCCCEEEEEcCCc
Confidence 4577777777888887766666777777543 6799999988776
No 360
>cd01338 MDH_choloroplast_like Chloroplast-like malate dehydrogenases. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. Members of this subfamily are bacterial MDHs, and plant MDHs localized to the choloroplasts. MDHs are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=63.77 E-value=23 Score=22.39 Aligned_cols=49 Identities=22% Similarity=0.269 Sum_probs=32.2
Q ss_pred hhhCCCEEEEEEECCChhh---HH-------HHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 6 YYRGALGALLVYDVTKSTT---FE-------NVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s---~~-------~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
-+.++|.+|+......... ++ -++.+.+.+..+.+++..+++++|=+|.
T Consensus 75 ~~~daDivvitaG~~~k~g~tR~dll~~N~~i~~~i~~~i~~~~~~~~iiivvsNPvD~ 133 (322)
T cd01338 75 AFKDADWALLVGAKPRGPGMERADLLKANGKIFTAQGKALNDVASRDVKVLVVGNPCNT 133 (322)
T ss_pred HhCCCCEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHHHHhhCCCCeEEEEecCcHHH
Confidence 4678999999887754321 21 1345556666665347778899998875
No 361
>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....
Probab=63.76 E-value=24 Score=19.67 Aligned_cols=50 Identities=14% Similarity=0.127 Sum_probs=36.3
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.+..+|.+|++.+.+ +.++..+..+.+.++........+.+|-|+.+..+
T Consensus 113 ~l~~ad~viv~~~~~-~~~i~~~~~~~~~l~~~~~~~~~~~vv~N~v~~~~ 162 (195)
T PF01656_consen 113 ALAAADYVIVPIEPD-PSSIEGAERLIELLKRLGKKLKIIGVVINRVDPGN 162 (195)
T ss_dssp HHHTSSEEEEEEESS-HHHHHHHHHHHHHHHHHTHTEEEEEEEEEEETSCC
T ss_pred HHHhCceeeeecCCc-HHHHHHHHHHHHHHHHhccccceEEEEEeeeCCCc
Confidence 456789999998865 46688888888888766433235678889998764
No 362
>COG4502 5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism]
Probab=63.75 E-value=20 Score=20.49 Aligned_cols=41 Identities=22% Similarity=0.301 Sum_probs=25.8
Q ss_pred CEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCC
Q 047889 11 LGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKS 52 (72)
Q Consensus 11 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~ 52 (72)
+..|..-.++-+.|++.--.|+.+.--.. +..-++++|||-
T Consensus 85 ~vYivtaamdhp~s~~dK~eWl~E~FPFi-~~qn~vfCgnKn 125 (180)
T COG4502 85 NVYIVTAAMDHPKSCEDKGEWLKEKFPFI-SYQNIVFCGNKN 125 (180)
T ss_pred eEEEEEeccCCchhHHHHHHHHHHHCCCC-ChhhEEEecCCC
Confidence 45555556667889998888876542211 223478888874
No 363
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=63.45 E-value=19 Score=25.26 Aligned_cols=46 Identities=17% Similarity=-0.051 Sum_probs=31.1
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccC
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNS 60 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v 60 (72)
..|.++-|.|-++.+.= -...=++.+. +.|++++-|++|..+++.+
T Consensus 81 ~~D~ivnVvDAtnLeRn---LyltlQLlE~---g~p~ilaLNm~D~A~~~Gi 126 (653)
T COG0370 81 KPDLIVNVVDATNLERN---LYLTLQLLEL---GIPMILALNMIDEAKKRGI 126 (653)
T ss_pred CCCEEEEEcccchHHHH---HHHHHHHHHc---CCCeEEEeccHhhHHhcCC
Confidence 46899999998876531 1122234443 4889999999998766544
No 364
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=63.01 E-value=21 Score=22.75 Aligned_cols=45 Identities=18% Similarity=0.233 Sum_probs=29.0
Q ss_pred CCCEEEEEEECCC--hhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCC
Q 047889 9 GALGALLVYDVTK--STTFENVSRWLKDLRDHAGSNIVIMLIGNKSD 53 (72)
Q Consensus 9 ~a~~~i~v~d~~~--~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~D 53 (72)
++|++|+--|+=+ ..+...+....+.++.....++|++++..-=|
T Consensus 40 ~vD~vliAGDlFd~~~Ps~~a~~~~~~~l~~l~~~~Ipv~~I~GNHD 86 (390)
T COG0420 40 KVDFVLIAGDLFDTNNPSPRALKLFLEALRRLKDAGIPVVVIAGNHD 86 (390)
T ss_pred cCCEEEEccccccCCCCCHHHHHHHHHHHHHhccCCCcEEEecCCCC
Confidence 4688888544433 34566677777777777667899766543333
No 365
>KOG3905 consensus Dynein light intermediate chain [Cell motility]
Probab=62.41 E-value=21 Score=23.38 Aligned_cols=26 Identities=19% Similarity=0.426 Sum_probs=19.3
Q ss_pred EEEEEEECCChh-hHHHHHHHHHHHHH
Q 047889 12 GALLVYDVTKST-TFENVSRWLKDLRD 37 (72)
Q Consensus 12 ~~i~v~d~~~~~-s~~~~~~~~~~~~~ 37 (72)
.+|++.|+++|. -++++++|..-+++
T Consensus 130 lviltasms~Pw~~lesLqkWa~Vl~e 156 (473)
T KOG3905|consen 130 LVILTASMSNPWTLLESLQKWASVLRE 156 (473)
T ss_pred EEEEEEecCCcHHHHHHHHHHHHHHHH
Confidence 478899999994 57777888665543
No 366
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=61.90 E-value=19 Score=23.17 Aligned_cols=35 Identities=23% Similarity=0.334 Sum_probs=25.3
Q ss_pred CChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 20 TKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 20 ~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
..++.|+.+..|+++++.......| |||-.|.|..
T Consensus 2 ~~~~~~~~~~~~~~~l~~~~~~~~~-ilveg~~d~~ 36 (360)
T PRK14719 2 DKQESLEKLLLIIDDLKLLAEKGIP-ILVEGPNDIL 36 (360)
T ss_pred CHHHHHHHHHHHHHHHHHhhhCCCE-EEEEcchHHH
Confidence 3456799999999999887644566 5566677753
No 367
>PF10995 DUF2819: Protein of unknown function (DUF2819); InterPro: IPR017745 This protein, called BcsE (bacterial cellulose synthase E) or YhjS, is required for cellulose biosynthesis in Salmonella enteritidis. Its role is this process across multiple bacterial species is implied by the partial phylogenetic profiling algorithm []. The protein is encoded in the vicinity of other cellulose biosynthesis genes and has been [] suggested to act as a protease.
Probab=61.40 E-value=40 Score=21.52 Aligned_cols=47 Identities=23% Similarity=0.366 Sum_probs=38.4
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
.++.+.-++|++++.+-++.+....-.++...++...|+|.-.+.=|
T Consensus 102 ~~a~AATvifs~~~~~qi~~LA~~ih~LRr~~G~~LKIvVRE~~~~L 148 (316)
T PF10995_consen 102 DTAQAATVIFSCTQNDQIEQLARQIHQLRRQRGSALKIVVREMGQCL 148 (316)
T ss_pred cccceeEEEEEeCChHHHHHHHHHHHHHHHhcCccceEEEEecchhH
Confidence 35788999999999999999988888998888777888876665433
No 368
>cd08166 MPP_Cdc1_like_1 uncharacterized subgroup related to Saccharomyces cerevisiae CDC1, metallophosphatase domain. A functionally uncharacterized subgroup related to the metallophosphatase domain of Saccharomyces cerevisiae Cdc1, S. cerevisiae Ted1 and human MPPE1. Cdc1 is an endoplasmic reticulum-localized transmembrane lipid phosphatase and is a subunit of DNA polymerase delta. TED1 (trafficking of Emp24p/Erv25p-dependent cargo disrupted 1), acts together with Emp24p and Erv25p in cargo exit from the ER. The MPPE1 gene is a candidate susceptibility gene for Bipolar disorder. Proteins in this uncharacterized subgroup belong to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like R
Probab=59.89 E-value=34 Score=20.19 Aligned_cols=61 Identities=7% Similarity=0.035 Sum_probs=36.4
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-----CCCCeEEEEeeCCCCccc-ccCCHHHHHHH
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHA-----GSNIVIMLIGNKSDLKHL-LNSMCEEYLIK 68 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-----~~~~~~vlvgnK~Dl~~~-~~v~~~e~~~~ 68 (72)
-+.|+++++-|+.|......-..|.+.+.+.. ++.+|++.|..--|...+ ....++....|
T Consensus 41 l~PD~Vi~lGDL~D~G~~~~~~e~~e~l~Rf~~If~~~~~~~~~~VpGNHDIG~~~~~~~~~~v~RF 107 (195)
T cd08166 41 VQPDIVIFLGDLMDEGSIANDDEYYSYVQRFINIFEVPNGTKIIYLPGDNDIGGEEEDPIESKIRRF 107 (195)
T ss_pred cCCCEEEEeccccCCCCCCCHHHHHHHHHHHHHHhcCCCCCcEEEECCCCCcCCCCCCcCHHHHHHH
Confidence 36899999999999866554555665554432 245676555444566542 23444444444
No 369
>PRK15478 cbiH cobalt-precorrin-3B C(17)-methyltransferase; Provisional
Probab=59.85 E-value=36 Score=20.50 Aligned_cols=44 Identities=9% Similarity=0.038 Sum_probs=28.3
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeC
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNK 51 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK 51 (72)
.+++..+++|.-.++.+...+..-.+.+....+++.|+.++.+-
T Consensus 150 ~~~~~tlvlym~~~~~~~~~l~~~~~ll~~g~~~~tPvaiv~~~ 193 (241)
T PRK15478 150 GEADFVICFYNPRSRGREGHLARAFDLLAASKSAQTPVGVVKSA 193 (241)
T ss_pred hcCCeEEEEECCcccccHHHHHHHHHHHHccCCCCCEEEEEEeC
Confidence 45677788887666655556554444555555678898877553
No 370
>TIGR01756 LDH_protist lactate dehydrogenase. This model represents a family of protist lactate dehydrogenases which have aparrently evolved from a recent protist malate dehydrogenase ancestor. Lactate dehydrogenase converts the hydroxyl at C-2 of lactate to a carbonyl in the product, pyruvate. The preference of this enzyme for NAD or NADP has not been determined. A critical residue in malate dehydrogenase, arginine-91 (T. vaginalis numbering) has been mutated to a leucine, eliminating the positive charge which complemeted the carboxylate in malate which is absent in lactate. Several other more subtle changes are proposed to make the active site smaller to accomadate the less bulky lactate molecule.
Probab=59.79 E-value=27 Score=22.02 Aligned_cols=49 Identities=18% Similarity=0.203 Sum_probs=31.6
Q ss_pred hhhCCCEEEEEEECCCh---hhHHH-------HHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 6 YYRGALGALLVYDVTKS---TTFEN-------VSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~---~s~~~-------~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
-++++|.+++.-..... ...+. ++.+.+.+..+.+++..+++++|=+|.
T Consensus 57 ~~~daDiVVitaG~~~k~g~tR~dll~~N~~I~~~i~~~i~~~a~~~~ivivvtNPvDv 115 (313)
T TIGR01756 57 AFKDIDCAFLVASVPLKPGEVRADLLTKNTPIFKATGEALSEYAKPTVKVLVIGNPVNT 115 (313)
T ss_pred HhCCCCEEEECCCCCCCcCCCHHHHHHHHHHHHHHHHHHHHhhCCCCeEEEEeCCchHH
Confidence 46789999988776432 22221 345555666665455668899998885
No 371
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=59.75 E-value=35 Score=20.36 Aligned_cols=39 Identities=15% Similarity=0.112 Sum_probs=25.7
Q ss_pred HHHHHHhcCC-CCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 32 LKDLRDHAGS-NIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 32 ~~~~~~~~~~-~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
...+.+..+. ++|+++.|-+.|...+.=-......++|.
T Consensus 99 v~~l~~lad~lgi~Vi~~GL~~DFrgepFe~s~~Lla~AD 138 (201)
T COG1435 99 VYVLNELADRLGIPVICYGLDTDFRGEPFEGSKYLLAIAD 138 (201)
T ss_pred HHHHHHHHhhcCCEEEEeccccccccCCCccHHHHHHHHH
Confidence 3345555554 89999999999987764444445555543
No 372
>cd01339 LDH-like_MDH L-lactate dehydrogenase-like malate dehydrogenase proteins. Members of this subfamily have an LDH-like structure and an MDH enzymatic activity. Some members, like MJ0490 from Methanococcus jannaschii, exhibit both MDH and LDH activities. Tetrameric MDHs, including those from phototrophic bacteria, are more similar to LDHs than to other MDHs. LDH catalyzes the last step of glycolysis in which pyruvate is converted to L-lactate. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. The LDH-like MDHs are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenas
Probab=59.21 E-value=34 Score=21.11 Aligned_cols=47 Identities=15% Similarity=0.287 Sum_probs=30.0
Q ss_pred hhCCCEEEEEEECCC----------hhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 7 YRGALGALLVYDVTK----------STTFENVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~----------~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
+++||.+++...... ++.+.-++...+++.+.. ++.-++++.|-.|.
T Consensus 64 l~dADiVIit~g~p~~~~~~r~e~~~~n~~i~~~i~~~i~~~~-p~~~iIv~sNP~di 120 (300)
T cd01339 64 IAGSDVVVITAGIPRKPGMSRDDLLGTNAKIVKEVAENIKKYA-PNAIVIVVTNPLDV 120 (300)
T ss_pred hCCCCEEEEecCCCCCcCCCHHHHHHHHHHHHHHHHHHHHHHC-CCeEEEEecCcHHH
Confidence 567898888775433 223344456666666665 45566888888875
No 373
>cd07393 MPP_DR1119 Deinococcus radiodurans DR1119 and related proteins, metallophosphatase domain. DR1119 is an uncharacterized Deinococcus radiodurans protein with a metallophosphatase domain. The domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordinat
Probab=58.96 E-value=27 Score=20.65 Aligned_cols=41 Identities=17% Similarity=0.106 Sum_probs=22.7
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeC
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNK 51 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK 51 (72)
++|.+++.-|+++....+.....+..+... +...+++.||-
T Consensus 41 ~~D~viiaGDl~~~~~~~~~~~~l~~l~~l--~~~v~~V~GNH 81 (232)
T cd07393 41 PEDIVLIPGDISWAMKLEEAKLDLAWIDAL--PGTKVLLKGNH 81 (232)
T ss_pred CCCEEEEcCCCccCCChHHHHHHHHHHHhC--CCCeEEEeCCc
Confidence 689999999998754443332223233322 12235666663
No 374
>cd05294 LDH-like_MDH_nadp A lactate dehydrogenases-like structure with malate dehydrogenase enzymatic activity. The LDH-like MDH proteins have a lactate dehyhydrogenase-like (LDH-like) structure and malate dehydrogenase (MDH) enzymatic activity. This subgroup is composed of some archaeal LDH-like MDHs that prefer NADP(H) rather than NAD(H) as a cofactor. One member, MJ0490 from Methanococcus jannaschii, has been observed to form dimers and tetramers during crystalization, although it is believed to exist primarilly as a tetramer in solution. In addition to its MDH activity, MJ0490 also possesses fructose-1,6-bisphosphate-activated LDH activity. Members of this subgroup have a higher sequence similarity to LDHs than to other MDHs. LDH catalyzes the last step of glycolysis in which pyruvate is converted to L-lactate. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carbox
Probab=58.49 E-value=43 Score=20.93 Aligned_cols=47 Identities=17% Similarity=0.331 Sum_probs=30.3
Q ss_pred hhCCCEEEEEEECCCh-----hhH-----HHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 7 YRGALGALLVYDVTKS-----TTF-----ENVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~-----~s~-----~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
++++|.+++....... ..+ ..++...+.+.+.. ++..+++++|-+|.
T Consensus 70 l~~aDiViitag~p~~~~~~r~dl~~~n~~i~~~~~~~i~~~~-~~~~viv~~npvd~ 126 (309)
T cd05294 70 VAGSDIVIITAGVPRKEGMSRLDLAKKNAKIVKKYAKQIAEFA-PDTKILVVTNPVDV 126 (309)
T ss_pred hCCCCEEEEecCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHC-CCeEEEEeCCchHH
Confidence 6789999999876432 222 22344455555554 56678888888885
No 375
>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=58.23 E-value=29 Score=21.89 Aligned_cols=16 Identities=25% Similarity=0.171 Sum_probs=14.2
Q ss_pred hhhCCCEEEEEEECCC
Q 047889 6 YYRGALGALLVYDVTK 21 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~ 21 (72)
++++||++++|+|.+.
T Consensus 96 ~ir~aD~ii~Vvd~~~ 111 (318)
T cd01899 96 DLRDADALIHVVDASG 111 (318)
T ss_pred HHHHCCEEEEEEeCCC
Confidence 4899999999999973
No 376
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=57.69 E-value=36 Score=19.77 Aligned_cols=39 Identities=15% Similarity=0.250 Sum_probs=26.7
Q ss_pred EEEEECCChhhHHHHHHHHHHHHHhcC-CCCeEEEEeeCC
Q 047889 14 LLVYDVTKSTTFENVSRWLKDLRDHAG-SNIVIMLIGNKS 52 (72)
Q Consensus 14 i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~vlvgnK~ 52 (72)
++..+.+...++..++.+++.+++... .++++++-|.=.
T Consensus 136 ~v~lS~~~~~~~~~~~~~i~~lr~~~~~~~~~i~vGG~~~ 175 (201)
T cd02070 136 ILGLSALMTTTMGGMKEVIEALKEAGLRDKVKVMVGGAPV 175 (201)
T ss_pred EEEEeccccccHHHHHHHHHHHHHCCCCcCCeEEEECCcC
Confidence 555566666778888999999988753 266666655433
No 377
>PLN00112 malate dehydrogenase (NADP); Provisional
Probab=57.45 E-value=22 Score=23.63 Aligned_cols=49 Identities=20% Similarity=0.278 Sum_probs=32.2
Q ss_pred hhhCCCEEEEEEECCChh---hHHH-------HHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 6 YYRGALGALLVYDVTKST---TFEN-------VSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~---s~~~-------~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
-++++|.+|+........ .++. ++.+.+.+..+..++..+++|+|=+|.
T Consensus 173 ~~kdaDiVVitAG~prkpG~tR~dLl~~N~~I~k~i~~~I~~~a~p~~ivIVVsNPvDv 231 (444)
T PLN00112 173 VFQDAEWALLIGAKPRGPGMERADLLDINGQIFAEQGKALNEVASRNVKVIVVGNPCNT 231 (444)
T ss_pred HhCcCCEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhcCCCeEEEEcCCcHHH
Confidence 467899999988774322 2222 245555566543477889999998885
No 378
>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]
Probab=57.20 E-value=36 Score=22.44 Aligned_cols=41 Identities=34% Similarity=0.266 Sum_probs=25.0
Q ss_pred CCEEEEEEECCCh---hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 10 ALGALLVYDVTKS---TTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 10 a~~~i~v~d~~~~---~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
-||.|+|..-+|- .+=++ +-..++.. -..+++.-||.|+.+
T Consensus 141 MDGaILVVaatDG~MPQTrEH----lLLArQVG--V~~ivvfiNKvD~V~ 184 (449)
T KOG0460|consen 141 MDGAILVVAATDGPMPQTREH----LLLARQVG--VKHIVVFINKVDLVD 184 (449)
T ss_pred cCceEEEEEcCCCCCcchHHH----HHHHHHcC--CceEEEEEecccccC
Confidence 3889999988873 33222 21234433 133777889999864
No 379
>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=56.94 E-value=42 Score=20.35 Aligned_cols=47 Identities=11% Similarity=0.048 Sum_probs=25.2
Q ss_pred CCCEEEEEEECCChh-hHHHHHHHHHHHHHhcCC--CCeEEEEeeCCCCcc
Q 047889 9 GALGALLVYDVTKST-TFENVSRWLKDLRDHAGS--NIVIMLIGNKSDLKH 56 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~--~~~~vlvgnK~Dl~~ 56 (72)
..+++++|..++... .... ...++.+.+..+. ..++++|-|++|...
T Consensus 114 ~idvIL~V~rlD~~r~~~~d-~~llk~I~e~fG~~i~~~~ivV~T~~d~~~ 163 (249)
T cd01853 114 TPDVVLYVDRLDMYRRDYLD-LPLLRAITDSFGPSIWRNAIVVLTHAASSP 163 (249)
T ss_pred CCCEEEEEEcCCCCCCCHHH-HHHHHHHHHHhChhhHhCEEEEEeCCccCC
Confidence 467777776555432 2221 2333344433221 245888999999743
No 380
>PLN00135 malate dehydrogenase
Probab=56.55 E-value=40 Score=21.25 Aligned_cols=50 Identities=14% Similarity=0.205 Sum_probs=32.4
Q ss_pred chhhCCCEEEEEEECCChh---hHHH-------HHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 5 AYYRGALGALLVYDVTKST---TFEN-------VSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~---s~~~-------~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
.-+.+||.+|+........ ..+. ++...+.+..+..++..+++++|=+|.
T Consensus 54 ~~~~daDiVVitAG~~~k~g~sR~dll~~N~~I~~~i~~~i~~~~~p~aivivvsNPvDv 113 (309)
T PLN00135 54 EACKGVNIAVMVGGFPRKEGMERKDVMSKNVSIYKSQASALEKHAAPDCKVLVVANPANT 113 (309)
T ss_pred HHhCCCCEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHHHHHhcCCCeEEEEeCCcHHH
Confidence 3467899999988775322 1221 244555566543467889999998885
No 381
>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]
Probab=56.11 E-value=57 Score=21.63 Aligned_cols=48 Identities=21% Similarity=0.154 Sum_probs=26.2
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCccccc
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLN 59 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~ 59 (72)
.||..|++.|. ...-+++.+.- ..+.... .=..+++.-||+||.+-.+
T Consensus 109 TadlAIlLVDA-R~Gvl~QTrRH-s~I~sLL-GIrhvvvAVNKmDLvdy~e 156 (431)
T COG2895 109 TADLAILLVDA-RKGVLEQTRRH-SFIASLL-GIRHVVVAVNKMDLVDYSE 156 (431)
T ss_pred cccEEEEEEec-chhhHHHhHHH-HHHHHHh-CCcEEEEEEeeecccccCH
Confidence 37888888886 22233333221 1121111 2234788889999976443
No 382
>PRK11148 cyclic 3',5'-adenosine monophosphate phosphodiesterase; Provisional
Probab=56.10 E-value=24 Score=21.36 Aligned_cols=40 Identities=13% Similarity=0.042 Sum_probs=25.8
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeE-EEEeeC
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVI-MLIGNK 51 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~-vlvgnK 51 (72)
.+|.+|+.-|+++..+.+....+.+.+.+. .+|+ ++.||-
T Consensus 55 ~~D~vvitGDl~~~~~~~~~~~~~~~l~~l---~~Pv~~v~GNH 95 (275)
T PRK11148 55 EFDLIVATGDLAQDHSSEAYQHFAEGIAPL---RKPCVWLPGNH 95 (275)
T ss_pred CCCEEEECCCCCCCCCHHHHHHHHHHHhhc---CCcEEEeCCCC
Confidence 478999999999876655555554444433 3554 556664
No 383
>cd01844 SGNH_hydrolase_like_6 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=55.70 E-value=34 Score=18.98 Aligned_cols=43 Identities=16% Similarity=0.147 Sum_probs=28.4
Q ss_pred CCCEEEEEEECCChhh----HHHHHHHHHHHHHhcCCCCeEEEEeeCC
Q 047889 9 GALGALLVYDVTKSTT----FENVSRWLKDLRDHAGSNIVIMLIGNKS 52 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s----~~~~~~~~~~~~~~~~~~~~~vlvgnK~ 52 (72)
..+.+++.+-.+|-.. .+++...++.+++.. ++.|+++++-..
T Consensus 57 ~pd~vii~~G~ND~~~~~~~~~~~~~~i~~i~~~~-p~~~iil~~~~~ 103 (177)
T cd01844 57 PADLYIIDCGPNIVGAEAMVRERLGPLVKGLRETH-PDTPILLVSPRY 103 (177)
T ss_pred CCCEEEEEeccCCCccHHHHHHHHHHHHHHHHHHC-cCCCEEEEecCC
Confidence 5688888888877533 344556666666554 578888887543
No 384
>PRK05569 flavodoxin; Provisional
Probab=55.16 E-value=32 Score=18.43 Aligned_cols=44 Identities=14% Similarity=0.169 Sum_probs=25.0
Q ss_pred hhCCCEEEEEEECCChhhH--HHHHHHHHHHHHhcCCCCeEEEEee
Q 047889 7 YRGALGALLVYDVTKSTTF--ENVSRWLKDLRDHAGSNIVIMLIGN 50 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~--~~~~~~~~~~~~~~~~~~~~vlvgn 50 (72)
+.++|++++..-+-.-.-+ ..+..+++.+......+.+++++|+
T Consensus 46 ~~~~d~iilgsPty~~~~~~~~~~~~~~~~l~~~~~~~K~v~~f~t 91 (141)
T PRK05569 46 VLEADAVAFGSPSMDNNNIEQEEMAPFLDQFKLTPNENKKCILFGS 91 (141)
T ss_pred HhhCCEEEEECCCcCCCcCChHHHHHHHHHhhccCcCCCEEEEEeC
Confidence 4567888887654322211 3455566665443335667777776
No 385
>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]
Probab=55.08 E-value=46 Score=23.76 Aligned_cols=49 Identities=16% Similarity=0.264 Sum_probs=29.7
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
..+..++|.+|+|-.-.+.-+... ++++... .....-|+++-||-|...
T Consensus 227 d~~cldaDVfVlV~NaEntlt~se-k~Ff~~v---s~~KpniFIlnnkwDasa 275 (749)
T KOG0448|consen 227 DSFCLDADVFVLVVNAENTLTLSE-KQFFHKV---SEEKPNIFILNNKWDASA 275 (749)
T ss_pred HHHhhcCCeEEEEecCccHhHHHH-HHHHHHh---hccCCcEEEEechhhhhc
Confidence 456778999999976544433222 3333333 223455788889989854
No 386
>cd00704 MDH Malate dehydrogenase. Malate dehydrogenase (MDH) is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. MDHs belong to the NAD-dependent, lactate dehydrogenase (LDH)-like, 2-hydroxycarboxylate dehydrogenase family, which also includes the GH4 family of glycoside hydrolases. They are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=54.57 E-value=39 Score=21.35 Aligned_cols=50 Identities=14% Similarity=0.207 Sum_probs=32.2
Q ss_pred chhhCCCEEEEEEECCChh---hHH-------HHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 5 AYYRGALGALLVYDVTKST---TFE-------NVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~---s~~-------~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
.-+.++|.+++.-...... ..+ -++.+.+.+..+..++..+++++|=+|.
T Consensus 72 ~~~~~aDiVVitAG~~~~~g~tR~dll~~N~~i~~~i~~~i~~~~~~~~iiivvsNPvD~ 131 (323)
T cd00704 72 EAFKDVDVAILVGAFPRKPGMERADLLRKNAKIFKEQGEALNKVAKPTVKVLVVGNPANT 131 (323)
T ss_pred HHhCCCCEEEEeCCCCCCcCCcHHHHHHHhHHHHHHHHHHHHHhCCCCeEEEEeCCcHHH
Confidence 3467889999988765432 111 1345566666664366778888998885
No 387
>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]
Probab=53.67 E-value=27 Score=25.20 Aligned_cols=51 Identities=27% Similarity=0.227 Sum_probs=29.3
Q ss_pred hCCCEEEEEEECCCh---hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC-cccccCCHHHH
Q 047889 8 RGALGALLVYDVTKS---TTFENVSRWLKDLRDHAGSNIVIMLIGNKSDL-KHLLNSMCEEY 65 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~---~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl-~~~~~v~~~e~ 65 (72)
+-+|++++..|+..- .+..-+ ++..-.....+||-||+|. ..+-..++.|+
T Consensus 94 ~l~d~alvlvdvvegv~~qt~~vl-------rq~~~~~~~~~lvinkidrl~~el~lsp~ea 148 (887)
T KOG0467|consen 94 RLSDGALVLVDVVEGVCSQTYAVL-------RQAWIEGLKPILVINKIDRLITELKLSPQEA 148 (887)
T ss_pred hhcCCcEEEEeeccccchhHHHHH-------HHHHHccCceEEEEehhhhHHHHHhcChHHH
Confidence 446888888887642 233322 2222234556899999993 33334555555
No 388
>TIGR01753 flav_short flavodoxin, short chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the short chain type. Many of these are involved in sulfite reduction.
Probab=53.56 E-value=33 Score=18.10 Aligned_cols=44 Identities=14% Similarity=0.176 Sum_probs=22.9
Q ss_pred hhCCCEEEEEEECCChhhH--HHHHHHHHHHHHhcCCCCeEEEEee
Q 047889 7 YRGALGALLVYDVTKSTTF--ENVSRWLKDLRDHAGSNIVIMLIGN 50 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~--~~~~~~~~~~~~~~~~~~~~vlvgn 50 (72)
+..+|.+++...+-..... ..+..|++.+......+.++.++|+
T Consensus 43 l~~~d~iilgspty~~g~~p~~~~~~f~~~l~~~~~~gk~~~vfgt 88 (140)
T TIGR01753 43 LLSYDAVLLGCSTWGDEDLEQDDFEPFFEELEDIDLGGKKVALFGS 88 (140)
T ss_pred HhcCCEEEEEcCCCCCCCCCcchHHHHHHHhhhCCCCCCEEEEEec
Confidence 4557777777655332212 3445555555443224555666654
No 389
>TIGR01759 MalateDH-SF1 malate dehydrogenase. This model represents a family of malate dehydrogenases in bacteria and eukaryotes which utilize either NAD or NADP depending on the species and context. MDH interconverts malate and oxaloacetate and is a part of the citric acid cycle as well as the C4 cycle in certain photosynthetic organisms.
Probab=53.40 E-value=45 Score=21.11 Aligned_cols=49 Identities=18% Similarity=0.268 Sum_probs=32.4
Q ss_pred hhhCCCEEEEEEECCChh---hHH-------HHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 6 YYRGALGALLVYDVTKST---TFE-------NVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~---s~~-------~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
-++++|.+|+.-...... ..+ -++.+.+.+..+.+++..+++++|=+|.
T Consensus 76 ~~~daDvVVitAG~~~k~g~tR~dll~~Na~i~~~i~~~i~~~~~~~~iiivvsNPvDv 134 (323)
T TIGR01759 76 AFKDVDAALLVGAFPRKPGMERADLLSKNGKIFKEQGKALNKVAKKDVKVLVVGNPANT 134 (323)
T ss_pred HhCCCCEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHHHHhhCCCCeEEEEeCCcHHH
Confidence 467889999988775432 121 1345566666665447778889998885
No 390
>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]
Probab=52.33 E-value=29 Score=23.78 Aligned_cols=47 Identities=19% Similarity=0.135 Sum_probs=27.0
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCccccc
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLN 59 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~ 59 (72)
=.|+++++.|-.+-. .-+.+--.++... ...+-++|-||+|.+..|.
T Consensus 91 MVDgvlLlVDA~EGp-MPQTrFVlkKAl~---~gL~PIVVvNKiDrp~Arp 137 (603)
T COG1217 91 MVDGVLLLVDASEGP-MPQTRFVLKKALA---LGLKPIVVINKIDRPDARP 137 (603)
T ss_pred hcceEEEEEEcccCC-CCchhhhHHHHHH---cCCCcEEEEeCCCCCCCCH
Confidence 368999999876521 1111222233332 2344577889999987654
No 391
>cd07399 MPP_YvnB Bacillus subtilis YvnB and related proteins, metallophosphatase domain. YvnB (BSU35040) is an uncharacterized Bacillus subtilis protein with a metallophosphatase domain. This family includes bacterial and eukaryotic proteins similar to YvnB. YvnB belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for
Probab=52.31 E-value=29 Score=20.25 Aligned_cols=43 Identities=16% Similarity=0.050 Sum_probs=22.5
Q ss_pred CCCEEEEEEECCChhh-HHHHHHHHHHHHHhcCCCCeE-EEEeeC
Q 047889 9 GALGALLVYDVTKSTT-FENVSRWLKDLRDHAGSNIVI-MLIGNK 51 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~~~-vlvgnK 51 (72)
+.|.+++.-|+.+... -..-..+.+.++......+|+ ++.||-
T Consensus 35 ~~d~iv~~GDl~~~~~~~~~~~~~~~~~~~l~~~~~p~~~~~GNH 79 (214)
T cd07399 35 NIAFVLHLGDIVDDGDNDAEWEAADKAFARLDKAGIPYSVLAGNH 79 (214)
T ss_pred CCCEEEECCCccCCCCCHHHHHHHHHHHHHHHHcCCcEEEECCCC
Confidence 4788888888887543 222233333333322234664 445663
No 392
>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]
Probab=52.22 E-value=25 Score=24.37 Aligned_cols=53 Identities=28% Similarity=0.205 Sum_probs=30.4
Q ss_pred CCCEEEEEEECCChhhHHH-------HHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHH
Q 047889 9 GALGALLVYDVTKSTTFEN-------VSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEE 64 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~-------~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e 64 (72)
.||+.++|.|.+- ..|+. ++.....++.. .-..++++-||.|+.+..+-..++
T Consensus 278 qaD~avLvvd~s~-~~FE~gfd~~gQtrEha~llr~L--gi~qlivaiNKmD~V~Wsq~RF~e 337 (603)
T KOG0458|consen 278 QADVAVLVVDAST-GEFESGFDPGGQTREHALLLRSL--GISQLIVAINKMDLVSWSQDRFEE 337 (603)
T ss_pred ccceEEEEEECCc-chhhhccCCCCchHHHHHHHHHc--CcceEEEEeecccccCccHHHHHH
Confidence 5789999999763 33332 22222222222 234578889999997654433333
No 393
>PTZ00235 DNA polymerase epsilon subunit B; Provisional
Probab=50.38 E-value=32 Score=21.71 Aligned_cols=42 Identities=17% Similarity=0.289 Sum_probs=26.9
Q ss_pred EEEEEE--CCChhhHHHHHHHHHHHHHhc-CCC--CeEEEEeeCCCC
Q 047889 13 ALLVYD--VTKSTTFENVSRWLKDLRDHA-GSN--IVIMLIGNKSDL 54 (72)
Q Consensus 13 ~i~v~d--~~~~~s~~~~~~~~~~~~~~~-~~~--~~~vlvgnK~Dl 54 (72)
++++=| ++++.+++.++..+....... ... ..+|+.||=+-.
T Consensus 30 ~VilSDV~LD~p~tl~~L~kvf~~y~~~~~~~~~P~~fVL~GnF~S~ 76 (291)
T PTZ00235 30 WIIMHDVYLDSPYTFEVLDKMLSLYVNTYPENELPVGFIFMGDFISL 76 (291)
T ss_pred EEEEEeeccCCHHHHHHHHHHHHHhhccCcccCCCeEEEEecCccCC
Confidence 344444 478899999998887775332 233 446888886543
No 394
>TIGR03369 cellulose_bcsE cellulose biosynthesis protein BcsE. This protein, called BcsE (bacterial cellulose synthase E) or YhjS, is required for cellulose biosynthesis in Salmonella enteritidis. Its role is this process across multiple bacterial species is implied by the partial phylogenetic profiling algorithm. Members are found in the vicinity of other cellulose biosynthesis genes. The model does not include a much less well-conserved N-terminal region about 150 amino acids in length for most members. Solano, et al. suggest this protein acts as a protease.
Probab=50.07 E-value=67 Score=20.64 Aligned_cols=48 Identities=29% Similarity=0.391 Sum_probs=38.2
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
.++.+.-++|+.++..-++.+..-.-.+++..+....|++.-++.=|+
T Consensus 107 ~~a~AATvvfs~~~~~qle~La~qih~LRr~~G~aLKIvVRE~~~~LR 154 (322)
T TIGR03369 107 SGAHAATVVLSCTGTTQLEQLAAQVHALRRQCGSALKIVVREMKECLR 154 (322)
T ss_pred cccceeEEEEEcCCchHHHHHHHHHHHHHHhcCccceEEEEechhHHH
Confidence 467889999999999999999777778888777778888876665543
No 395
>KOG0410 consensus Predicted GTP binding protein [General function prediction only]
Probab=49.91 E-value=32 Score=22.52 Aligned_cols=49 Identities=20% Similarity=0.129 Sum_probs=32.9
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCe----EEEEeeCCCCcc
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIV----IMLIGNKSDLKH 56 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~----~vlvgnK~Dl~~ 56 (72)
..+|.++-|.|++.|.-=.+...-+.-+.+..-++.| ++=|-||+|...
T Consensus 256 aeadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~ 308 (410)
T KOG0410|consen 256 AEADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEE 308 (410)
T ss_pred hhcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhcccccccc
Confidence 4578999999999997655555544455544333444 566889999754
No 396
>TIGR03566 FMN_reduc_MsuE FMN reductase, MsuE subfamily. Members of this protein family use NAD(P)H to reduce FMN and regenerate FMNH2. Members include the NADH-dependent enzyme MsuE from Pseudomonas aeruginosa, which serves as a partner to an FMNH2-dependent alkanesulfonate monooxygenase. The NADP-dependent enzyme from E. coli is outside the scope of this model.
Probab=49.39 E-value=45 Score=18.74 Aligned_cols=9 Identities=11% Similarity=-0.223 Sum_probs=4.4
Q ss_pred hCCCEEEEE
Q 047889 8 RGALGALLV 16 (72)
Q Consensus 8 ~~a~~~i~v 16 (72)
+.||++|++
T Consensus 67 ~~AD~iIi~ 75 (174)
T TIGR03566 67 ESADLLVVG 75 (174)
T ss_pred HHCCEEEEE
Confidence 345555554
No 397
>PF13124 DUF3963: Protein of unknown function (DUF3963)
Probab=48.86 E-value=22 Score=15.22 Aligned_cols=14 Identities=14% Similarity=0.959 Sum_probs=10.1
Q ss_pred hhHHHHHHHHHHHH
Q 047889 23 TTFENVSRWLKDLR 36 (72)
Q Consensus 23 ~s~~~~~~~~~~~~ 36 (72)
.-|+++++|+..+.
T Consensus 11 ryfddiqkwirnit 24 (40)
T PF13124_consen 11 RYFDDIQKWIRNIT 24 (40)
T ss_pred HHHHHHHHHHHHHH
Confidence 45788888887664
No 398
>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase. Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.
Probab=48.80 E-value=52 Score=19.01 Aligned_cols=47 Identities=17% Similarity=0.052 Sum_probs=29.3
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcC-CCCe-EEEEeeCCCCc
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAG-SNIV-IMLIGNKSDLK 55 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~-~vlvgnK~Dl~ 55 (72)
+.||.++++... +..++..+....+.+++... .+.+ ..++-|+.+..
T Consensus 140 ~~ad~vliv~~p-~~~sl~~~~~l~~~i~~~~~~~~~~~~gvv~N~~~~~ 188 (212)
T cd02117 140 GKADEIYIVTSG-EFMALYAANNICKGIRKYAKSGGVRLGGLICNSRNTD 188 (212)
T ss_pred ccCcEEEEEecc-cHHHHHHHHHHHHHHHHhCcccCCcEEEEEEeCCCCc
Confidence 368888888865 55666555555445544332 1333 46889999854
No 399
>PF12327 FtsZ_C: FtsZ family, C-terminal domain; InterPro: IPR024757 The FtsZ family of proteins are involved in polymer formation. FtsZ is the polymer-forming protein of bacterial cell division. It is part of a ring in the middle of the dividing cell that is required for constriction of cell membrane and cell envelope to yield two daughter cells. FtsZ is a GTPase, like tubulin []. FtsZ can polymerise into tubes, sheets, and rings in vitro and is ubiquitous in eubacteria and archaea []. This entry represents a domain of FtsZ. In most FtsZ proteins is found in the C terminus, except in some alphaproteobacteria proteins where there is an extension C-terminal domain TIGR03483 from TIGRFAMs.; PDB: 2RHO_B 2RHJ_A 2VXY_A 2RHL_B 2RHH_A 2VAM_A 1W5F_B 2R75_1 2R6R_1 1RQ7_A ....
Probab=48.52 E-value=38 Score=17.37 Aligned_cols=49 Identities=18% Similarity=0.288 Sum_probs=33.5
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCC
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSD 53 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~D 53 (72)
..-+++|.++++-+.....-++..+..-.+.+++..+++.- ++.|...|
T Consensus 30 ~~~i~~A~~vLvni~~~~d~~l~ev~~~~~~i~~~~~~~a~-ii~G~~id 78 (95)
T PF12327_consen 30 DVDIKGAKGVLVNITGGPDLSLSEVNEAMEIIREKADPDAN-IIWGASID 78 (95)
T ss_dssp TS-GGG-SEEEEEEEE-TTS-HHHHHHHHHHHHHHSSTTSE-EEEEEEE-
T ss_pred cCChHHhceEEEEEEcCCCCCHHHHHHHHHHHHHHhhcCce-EEEEEEEC
Confidence 35578899999988776667899999888899888765544 55676665
No 400
>cd01611 GABARAP Ubiquitin domain of GABA-receptor-associated protein. GABARAP (GABA-receptor-associated protein) belongs ot a large family of proteins that mediate intracellular membrane trafficking and/or fusion. GABARAP binds not only to GABA, type A but also to tubulin, gephrin, and ULK1. Orthologues of GABARAP include Gate-16 (golgi-associated ATPase enhancer), LC3 (microtubule-associated protein light chain 3), and ATG8 (autophagy protein 8). ATG8 is a ubiquitin-like protein that is conjugated to the membrane phospholipid, phosphatidylethanolamine as part of a ubiquitin-like conjugation system essential for autophagosome-formation.
Probab=47.32 E-value=45 Score=17.85 Aligned_cols=33 Identities=24% Similarity=0.282 Sum_probs=21.4
Q ss_pred hhhHHHHHHHHHHHHHhcCCCCeEEEE-eeCCCC
Q 047889 22 STTFENVSRWLKDLRDHAGSNIVIMLI-GNKSDL 54 (72)
Q Consensus 22 ~~s~~~~~~~~~~~~~~~~~~~~~vlv-gnK~Dl 54 (72)
..||+.-..-...+++.-+..+|+|+- ..+.++
T Consensus 4 ~~s~e~R~~e~~~ir~kyp~~iPVIvE~~~~~~~ 37 (112)
T cd01611 4 RHPFEKRKAEVERIRAKYPDRIPVIVERYPKSDL 37 (112)
T ss_pred ccCHHHHHHHHHHHHHHCCCceEEEEEEcCCCCc
Confidence 456777666666677766788997774 244554
No 401
>TIGR01771 L-LDH-NAD L-lactate dehydrogenase. This model represents the NAD-dependent L-lactate dehydrogenases from bacteria and eukaryotes. This enzyme function as as the final step in anaerobic glycolysis. Although lactate dehydrogenases have in some cases been mistaken for malate dehydrogenases due to the similarity of these two substrates and the apparent ease with which evolution can toggle these activities, critical residues have been identified which can discriminate between the two activities. At the time of the creation of this model no hits above the trusted cutoff contained critical residues typical of malate dehydrogenases.
Probab=47.27 E-value=37 Score=21.15 Aligned_cols=48 Identities=8% Similarity=0.115 Sum_probs=30.9
Q ss_pred hhhCCCEEEEEEECCChh---hHH-------HHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 6 YYRGALGALLVYDVTKST---TFE-------NVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~---s~~-------~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
-+++||.+|+........ ..+ -++.+.+.+.+.. ++..+++++|-.|.
T Consensus 61 ~~~daDivVitag~~rk~g~~R~dll~~N~~i~~~~~~~i~~~~-p~~~vivvsNP~d~ 118 (299)
T TIGR01771 61 DCKDADLVVITAGAPQKPGETRLELVGRNVRIMKSIVPEVVKSG-FDGIFLVATNPVDI 118 (299)
T ss_pred HHCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhC-CCeEEEEeCCHHHH
Confidence 467899999987763321 111 1345555566554 67778999998885
No 402
>cd00300 LDH_like L-lactate dehydrogenase-like enzymes. Members of this subfamily are tetrameric NAD-dependent 2-hydroxycarboxylate dehydrogenases including LDHs, L-2-hydroxyisocaproate dehydrogenases (L-HicDH), and LDH-like malate dehydrogenases (MDH). Dehydrogenases catalyze the conversion of carbonyl compounds to alcohols or amino acids. LDHs catalyze the last step of glycolysis in which pyruvate is converted to L-lactate. Vertebrate LDHs are non-allosteric, but some bacterial LDHs are activated by an allosteric effector such as fructose-1,6-bisphosphate. L-HicDH catalyzes the conversion of a variety of 2-oxo carboxylic acids with medium-sized aliphatic or aromatic side chains. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. The LDH-like subfamily is part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of prot
Probab=46.99 E-value=39 Score=20.95 Aligned_cols=48 Identities=10% Similarity=0.223 Sum_probs=30.6
Q ss_pred hhhCCCEEEEEEECCChh---hHH-------HHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 6 YYRGALGALLVYDVTKST---TFE-------NVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~---s~~-------~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
-+.++|.+++........ ..+ -++...+.+.++. ++.-+++++|-.|+
T Consensus 63 ~l~~aDiVIitag~p~~~~~~R~~l~~~n~~i~~~~~~~i~~~~-p~~~viv~sNP~d~ 120 (300)
T cd00300 63 DAADADIVVITAGAPRKPGETRLDLINRNAPILRSVITNLKKYG-PDAIILVVSNPVDI 120 (300)
T ss_pred HhCCCCEEEEcCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhC-CCeEEEEccChHHH
Confidence 467889999988764321 111 1334555555555 66778889998886
No 403
>PF11185 DUF2971: Protein of unknown function (DUF2971); InterPro: IPR021352 This bacterial family of proteins has no known function.
Probab=46.86 E-value=17 Score=17.48 Aligned_cols=17 Identities=18% Similarity=0.302 Sum_probs=14.9
Q ss_pred cccchhhCCCEEEEEEE
Q 047889 2 ITSAYYRGALGALLVYD 18 (72)
Q Consensus 2 l~~~y~~~a~~~i~v~d 18 (72)
||..|-.+..|+.+.|+
T Consensus 1 mW~~Y~~~~~Gv~i~f~ 17 (90)
T PF11185_consen 1 MWRHYADNHKGVCIGFD 17 (90)
T ss_pred ChHHhCCCCceEEEEEc
Confidence 57788888999999997
No 404
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=46.69 E-value=48 Score=18.15 Aligned_cols=27 Identities=11% Similarity=0.095 Sum_probs=19.2
Q ss_pred hhhHHHHHHHHHHHHHhcCCCCeEEEE
Q 047889 22 STTFENVSRWLKDLRDHAGSNIVIMLI 48 (72)
Q Consensus 22 ~~s~~~~~~~~~~~~~~~~~~~~~vlv 48 (72)
..+|+.-..-...++...+..+|+|+-
T Consensus 7 ~~s~e~R~~e~~~Ir~kyPdrIPVIvE 33 (121)
T PTZ00380 7 SNPVEARRAECARLQAKYPGHVAVVVE 33 (121)
T ss_pred cCCHHHHHHHHHHHHHHCCCccEEEEe
Confidence 456777666666777777788998774
No 405
>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]
Probab=45.82 E-value=47 Score=21.06 Aligned_cols=25 Identities=28% Similarity=0.167 Sum_probs=20.0
Q ss_pred CCeEEEEeeCCCCcccccCCHHHHHHHHhc
Q 047889 42 NIVIMLIGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 42 ~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
-++++-|-||+| +++.||...+|+.
T Consensus 238 Y~~ClYvYnKID-----~vs~eevdrlAr~ 262 (364)
T KOG1486|consen 238 YIKCLYVYNKID-----QVSIEEVDRLARQ 262 (364)
T ss_pred EEEEEEEeeccc-----eecHHHHHHHhcC
Confidence 478888999999 6778888888763
No 406
>cd05292 LDH_2 A subgroup of L-lactate dehydrogenases. L-lactate dehydrogenases (LDH) are tetrameric enzymes catalyzing the last step of glycolysis in which pyruvate is converted to L-lactate. This subgroup is composed predominantly of bacterial LDHs and a few fungal LDHs. Bacterial LDHs may be non-allosteric or may be activated by an allosteric effector such as fructose-1,6-bisphosphate. LDHs are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=45.62 E-value=51 Score=20.55 Aligned_cols=47 Identities=13% Similarity=0.251 Sum_probs=30.0
Q ss_pred hhCCCEEEEEEECCCh---h-------hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 7 YRGALGALLVYDVTKS---T-------TFENVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~---~-------s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
+++||.+++....... . +..-++.+.+.+.+.. ++..++++.|-.|.
T Consensus 65 l~~aDiViita~~~~~~~~~r~dl~~~n~~i~~~~~~~l~~~~-~~giiiv~tNP~d~ 121 (308)
T cd05292 65 CKGADVVVITAGANQKPGETRLDLLKRNVAIFKEIIPQILKYA-PDAILLVVTNPVDV 121 (308)
T ss_pred hCCCCEEEEccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHC-CCeEEEEecCcHHH
Confidence 5788899988776422 1 2233456666776665 55667777787764
No 407
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=45.55 E-value=39 Score=16.69 Aligned_cols=40 Identities=15% Similarity=0.297 Sum_probs=24.8
Q ss_pred CCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 10 ALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 10 a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
.|.+++=+.+.+.+.++ ..+.+++.. +..|++++++..|.
T Consensus 44 ~d~iiid~~~~~~~~~~----~~~~i~~~~-~~~~ii~~t~~~~~ 83 (112)
T PF00072_consen 44 PDLIIIDLELPDGDGLE----LLEQIRQIN-PSIPIIVVTDEDDS 83 (112)
T ss_dssp ESEEEEESSSSSSBHHH----HHHHHHHHT-TTSEEEEEESSTSH
T ss_pred ceEEEEEeeeccccccc----ccccccccc-ccccEEEecCCCCH
Confidence 45555555566654444 344455544 78999999988773
No 408
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=45.34 E-value=17 Score=22.83 Aligned_cols=14 Identities=29% Similarity=0.311 Sum_probs=11.3
Q ss_pred CeEEEEeeCCCCcc
Q 047889 43 IVIMLIGNKSDLKH 56 (72)
Q Consensus 43 ~~~vlvgnK~Dl~~ 56 (72)
.+-++|-||+||..
T Consensus 231 ~ADIVVLNKiDLl~ 244 (290)
T PRK10463 231 AASLMLLNKVDLLP 244 (290)
T ss_pred cCcEEEEEhHHcCc
Confidence 45688999999964
No 409
>KOG3662 consensus Cell division control protein/predicted DNA repair exonuclease [Replication, recombination and repair]
Probab=44.93 E-value=92 Score=20.75 Aligned_cols=64 Identities=13% Similarity=0.073 Sum_probs=42.5
Q ss_pred chhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhc---C--CCCeEEEEeeCCCCcccccCCHHHHHHH
Q 047889 5 AYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHA---G--SNIVIMLIGNKSDLKHLLNSMCEEYLIK 68 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~---~--~~~~~vlvgnK~Dl~~~~~v~~~e~~~~ 68 (72)
+++-+-|+++++-|+-|..-+..-+.|.+...+.. + .+++.+.+.+--|+.-.++...+.+..+
T Consensus 89 ~~~lkPdvvffLGDLfDeG~~~~~eEf~~~~~RfkkIf~~k~~~~~~~i~GNhDIGf~~~~~~~~i~Rf 157 (410)
T KOG3662|consen 89 QWRLKPDVVFFLGDLFDEGQWAGDEEFKKRYERFKKIFGRKGNIKVIYIAGNHDIGFGNELIPEWIDRF 157 (410)
T ss_pred HhccCCCEEEEeccccccCccCChHHHHHHHHHHHHhhCCCCCCeeEEeCCccccccccccchhHHHHH
Confidence 45667899999999988555444455555554432 2 4788888877788877666665555444
No 410
>PF00319 SRF-TF: SRF-type transcription factor (DNA-binding and dimerisation domain); InterPro: IPR002100 Human serum response factor (SRF) is a ubiquitous nuclear protein important for cell proliferation and differentiation. SRF function is essential for transcriptional regulation of numerous growth-factor-inducible genes, such as c-fos oncogene and muscle-specific actin genes. A core domain of around 90 amino acids is sufficient for the activities of DNA-binding, dimerisation and interaction with accessory factors. Within the core is a DNA-binding region, designated the MADS box [], that is highly similar to many eukaryotic regulatory proteins: among these are MCM1, the regulator of cell type-specific genes in fission yeast; DSRF, a Drosophila trachea development factor; the MEF2 family of myocyte-specific enhancer factors; and the Agamous and Deficiens families of plant homeotic proteins. In SRF, the MADS box has been shown to be involved in DNA-binding and dimerisation []. Proteins belonging to the MADS family function as dimers, the primary DNA-binding element of which is an anti-parallel coiled coil of two amphipathic alpha-helices, one from each subunit. The DNA wraps around the coiled coil allowing the basic N-termini of the helices to fit into the DNA major groove. The chain extending from the helix N-termini reaches over the DNA backbone and penetrates into the minor groove. A 4-stranded, anti-parallel beta-sheet packs against the coiled-coil face opposite the DNA and is the central element of the dimerisation interface. The MADS-box domain is commonly found associated with K-box region see IPR002487 from INTERPRO ; GO: 0003677 DNA binding, 0046983 protein dimerization activity; PDB: 1MNM_B 1N6J_A 1TQE_S 3MU6_D 3P57_I 1EGW_A 1C7U_B 3KOV_A 1HBX_A 1K6O_C ....
Probab=44.28 E-value=25 Score=16.12 Aligned_cols=15 Identities=27% Similarity=0.279 Sum_probs=11.1
Q ss_pred hhCCCEEEEEEECCC
Q 047889 7 YRGALGALLVYDVTK 21 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~ 21 (72)
+-++++.+++|+.++
T Consensus 30 LC~~~v~~iv~~~~g 44 (51)
T PF00319_consen 30 LCGVDVALIVFSPDG 44 (51)
T ss_dssp HHT-EEEEEEEETTS
T ss_pred ecCCeEEEEEECCCC
Confidence 457899999998765
No 411
>PRK11340 phosphodiesterase YaeI; Provisional
Probab=44.15 E-value=44 Score=20.33 Aligned_cols=42 Identities=21% Similarity=-0.042 Sum_probs=21.6
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeE-EEEeeC
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVI-MLIGNK 51 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~-vlvgnK 51 (72)
+.|.+++.-|+.+...-.....+.+.++.... ..|+ .+.||-
T Consensus 80 ~pDlVli~GD~~d~~~~~~~~~~~~~L~~L~~-~~pv~~V~GNH 122 (271)
T PRK11340 80 KPDLILLGGDYVLFDMPLNFSAFSDVLSPLAE-CAPTFACFGNH 122 (271)
T ss_pred CCCEEEEccCcCCCCccccHHHHHHHHHHHhh-cCCEEEecCCC
Confidence 57888888888773222222334333333332 2454 455664
No 412
>TIGR01763 MalateDH_bact malate dehydrogenase, NAD-dependent. The annotation of Botryococcus braunii as lactate dehydrogenase appears top be in error. This was initially annotated as MDH by Swiss-Prot and then changed. The rationale for either of these annotations is not traceable.
Probab=43.85 E-value=80 Score=19.73 Aligned_cols=47 Identities=13% Similarity=0.157 Sum_probs=31.2
Q ss_pred hhCCCEEEEEEECCChh----------hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 7 YRGALGALLVYDVTKST----------TFENVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~----------s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
+.++|.+++........ ....+....+.+.+.. ++..++++.|=.|.
T Consensus 67 ~~~aDiVIitag~p~~~~~sR~~l~~~N~~iv~~i~~~I~~~~-p~~~iIv~tNP~di 123 (305)
T TIGR01763 67 TANSDIVVITAGLPRKPGMSREDLLSMNAGIVREVTGRIMEHS-PNPIIVVVSNPLDA 123 (305)
T ss_pred hCCCCEEEEcCCCCCCcCCCHHHHHHHHHHHHHHHHHHHHHHC-CCeEEEEecCcHHH
Confidence 57889999887753321 2233455666666664 66778999998885
No 413
>PRK05442 malate dehydrogenase; Provisional
Probab=43.74 E-value=84 Score=19.96 Aligned_cols=49 Identities=20% Similarity=0.264 Sum_probs=32.0
Q ss_pred hhhCCCEEEEEEECCChh---hHHH-------HHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 6 YYRGALGALLVYDVTKST---TFEN-------VSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~---s~~~-------~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
-+.+||.+++........ ..+. ++...+.+..+.+++..+++++|=.|.
T Consensus 77 ~~~daDiVVitaG~~~k~g~tR~dll~~Na~i~~~i~~~i~~~~~~~~iiivvsNPvDv 135 (326)
T PRK05442 77 AFKDADVALLVGARPRGPGMERKDLLEANGAIFTAQGKALNEVAARDVKVLVVGNPANT 135 (326)
T ss_pred HhCCCCEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHHHHHhCCCCeEEEEeCCchHH
Confidence 467899999988764432 2221 245555566655467888999998885
No 414
>KOG1496 consensus Malate dehydrogenase [Energy production and conversion]
Probab=43.62 E-value=76 Score=20.02 Aligned_cols=49 Identities=18% Similarity=0.291 Sum_probs=33.7
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHH-------H---HHHHHHhcCCCCeEEEEeeCCCC
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSR-------W---LKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~-------~---~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
-|.+.+..+++-.+..++..+.-.- + -..+..+..+++.+++|||-+.-
T Consensus 77 afkdv~~ailvGa~PR~eGMERkDll~~NvkIfk~Qg~AL~k~A~~~~KVlVVgNPaNT 135 (332)
T KOG1496|consen 77 AFKDVDVAILVGAMPRREGMERKDLLSANVKIFKSQGAALEKYAKPNVKVLVVGNPANT 135 (332)
T ss_pred hhccCcEEEEeccccCcccchhhhHHhhcceeehhhhHHHHHhcCCCceEEEecCcccc
Confidence 4778899999999888877665221 1 11234445678899999997753
No 415
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=43.52 E-value=20 Score=21.37 Aligned_cols=22 Identities=27% Similarity=0.271 Sum_probs=14.6
Q ss_pred EEEeeCCCCcccccCCHHHHHH
Q 047889 46 MLIGNKSDLKHLLNSMCEEYLI 67 (72)
Q Consensus 46 vlvgnK~Dl~~~~~v~~~e~~~ 67 (72)
++|-||.||...-..+.+...+
T Consensus 146 llVInK~DLa~~v~~dlevm~~ 167 (202)
T COG0378 146 LLVINKTDLAPYVGADLEVMAR 167 (202)
T ss_pred EEEEehHHhHHHhCccHHHHHH
Confidence 7889999997654444444433
No 416
>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.
Probab=43.18 E-value=57 Score=17.85 Aligned_cols=47 Identities=21% Similarity=0.076 Sum_probs=31.1
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
.+..+|.++++.+.+ ..++..+..+.+.+... ......++.|+.+-.
T Consensus 81 ~l~~ad~viiv~~~~-~~s~~~~~~~~~~~~~~--~~~~~~iv~N~~~~~ 127 (179)
T cd02036 81 AIAPADEALLVTTPE-ISSLRDADRVKGLLEAL--GIKVVGVIVNRVRPD 127 (179)
T ss_pred HHHhCCcEEEEeCCC-cchHHHHHHHHHHHHHc--CCceEEEEEeCCccc
Confidence 356788888887654 45666666666666542 223467889998764
No 417
>cd00840 MPP_Mre11_N Mre11 nuclease, N-terminal metallophosphatase domain. Mre11 (also known as SbcD in Escherichia coli) is a subunit of the MRX protein complex. This complex includes: Mre11, Rad50, and Xrs2/Nbs1, and plays a vital role in several nuclear processes including DNA double-strand break repair, telomere length maintenance, cell cycle checkpoint control, and meiotic recombination, in eukaryotes. During double-strand break repair, the MRX complex is required to hold the two ends of a broken chromosome together. In vitro studies show that Mre11 has 3'-5' exonuclease activity on dsDNA templates and endonuclease activity on dsDNA and ssDNA templates. In addition to the N-terminal phosphatase domain, the eukaryotic MRE11 members of this family have a C-terminal DNA binding domain (not included in this alignment model). MRE11-like proteins are found in prokaryotes and archaea was well as in eukaryotes. Mre11 belongs to the metallophosphatase (MPP) superfamily. MPPs are functi
Probab=42.85 E-value=60 Score=18.49 Aligned_cols=43 Identities=21% Similarity=0.247 Sum_probs=23.3
Q ss_pred CCCEEEEEEECCChh--hHHHHHHHHHHHHHhcCCCCeE-EEEeeC
Q 047889 9 GALGALLVYDVTKST--TFENVSRWLKDLRDHAGSNIVI-MLIGNK 51 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~~~-vlvgnK 51 (72)
++|.+++.-|+.+.. +......+.+.+.+.....+|+ ++.||-
T Consensus 41 ~~d~i~~~GD~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~GNH 86 (223)
T cd00840 41 KVDFVLIAGDLFDSNNPSPEALELLIEALRRLKEAGIPVFIIAGNH 86 (223)
T ss_pred CCCEEEECCcccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEecCCC
Confidence 678888888888753 2223333343444332235665 445653
No 418
>cd00650 LDH_MDH_like NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family. Members of this family include ubiquitous enzymes like L-lactate dehydrogenases (LDH), L-2-hydroxyisocaproate dehydrogenases, and some malate dehydrogenases (MDH). LDH catalyzes the last step of glycolysis in which pyruvate is converted to L-lactate. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. The LDH/MDH-like proteins are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains
Probab=42.72 E-value=41 Score=20.29 Aligned_cols=48 Identities=13% Similarity=0.214 Sum_probs=29.5
Q ss_pred hhhCCCEEEEEEECCChh----------hHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 6 YYRGALGALLVYDVTKST----------TFENVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~----------s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
-+.+||.+++........ ...-++...+.+.+.. ++.-+++++|-.|.
T Consensus 67 ~~~~aDiVv~t~~~~~~~g~~r~~~~~~n~~i~~~i~~~i~~~~-p~a~~i~~tNP~d~ 124 (263)
T cd00650 67 AFKDADVVIITAGVGRKPGMGRLDLLKRNVPIVKEIGDNIEKYS-PDAWIIVVSNPVDI 124 (263)
T ss_pred HhCCCCEEEECCCCCCCcCCCHHHHHHHHHHHHHHHHHHHHHHC-CCeEEEEecCcHHH
Confidence 357888888866543221 1222345566666665 66677888888875
No 419
>cd07388 MPP_Tt1561 Thermus thermophilus Tt1561 and related proteins, metallophosphatase domain. This family includes bacterial proteins related to Tt1561 (also known as Aq1956 in Aquifex aeolicus), an uncharacterized Thermus thermophilus protein. The conserved domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets,
Probab=42.54 E-value=75 Score=19.06 Aligned_cols=43 Identities=14% Similarity=0.261 Sum_probs=27.3
Q ss_pred hCCCEEEEEEECCChh-hHHHHHHHHHHHHHhcCCCCeEEEEeeCCC
Q 047889 8 RGALGALLVYDVTKST-TFENVSRWLKDLRDHAGSNIVIMLIGNKSD 53 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~vlvgnK~D 53 (72)
.++|.++++-|+++.. .-+....+++.+... ..|++.|---.|
T Consensus 30 ~~~D~vv~~GDl~~~g~~~~~~~~~l~~l~~l---~~pv~~V~GNhD 73 (224)
T cd07388 30 TGADAIVLIGNLLPKAAKSEDYAAFFRILGEA---HLPTFYVPGPQD 73 (224)
T ss_pred cCCCEEEECCCCCCCCCCHHHHHHHHHHHHhc---CCceEEEcCCCC
Confidence 4789999999999975 344444555555432 356655544455
No 420
>PRK15045 cellulose biosynthesis protein BcsE; Provisional
Probab=42.53 E-value=1.1e+02 Score=21.05 Aligned_cols=48 Identities=27% Similarity=0.479 Sum_probs=38.3
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
.++.+.-+||+.++..-.+.+..-...+++..+....|+|.-++.=|+
T Consensus 255 ~~a~AATvVfs~~~~~qle~LA~qih~LRRq~G~aLKIvVRE~~~~LR 302 (519)
T PRK15045 255 RTAQAATVVFSLQQNAQIEPLARSIHTLRRQRGSAMKILVRENTASLR 302 (519)
T ss_pred cccceeEEEEEcCCchHHHHHHHHHHHHHHhcCccceEEEEechhHHH
Confidence 467888999999999999999777778888777778888877665543
No 421
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=42.42 E-value=73 Score=18.88 Aligned_cols=37 Identities=5% Similarity=0.168 Sum_probs=26.3
Q ss_pred EEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEee
Q 047889 13 ALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGN 50 (72)
Q Consensus 13 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgn 50 (72)
=++..+.....+...++.+.+.+++.. .++++++-|.
T Consensus 141 ~~V~lS~~~~~~~~~~~~~i~~L~~~~-~~~~i~vGG~ 177 (213)
T cd02069 141 DIIGLSGLLVPSLDEMVEVAEEMNRRG-IKIPLLIGGA 177 (213)
T ss_pred CEEEEccchhccHHHHHHHHHHHHhcC-CCCeEEEECh
Confidence 345556666788888899999998764 5677666554
No 422
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=41.90 E-value=38 Score=18.32 Aligned_cols=42 Identities=17% Similarity=0.272 Sum_probs=27.0
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.+.-+++.=|++-++....++.. -+ ..++|++.|++|..|..
T Consensus 43 ~a~LVviA~Dv~P~~~~~~l~~l----c~--~~~vpyv~V~sk~~LG~ 84 (116)
T COG1358 43 KAKLVVIAEDVSPEELVKHLPAL----CE--EKNVPYVYVGSKKELGK 84 (116)
T ss_pred CCcEEEEecCCCHHHHHHHHHHH----HH--hcCCCEEEeCCHHHHHH
Confidence 35666677676555555444332 22 25799999999998854
No 423
>PRK06223 malate dehydrogenase; Reviewed
Probab=41.66 E-value=65 Score=19.82 Aligned_cols=47 Identities=11% Similarity=0.208 Sum_probs=27.1
Q ss_pred hhCCCEEEEEEECCCh----------hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 7 YRGALGALLVYDVTKS----------TTFENVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~----------~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
+.+||.+++...+... ....-++...+.+.+.. ++.-++++.|-+|.
T Consensus 68 ~~~aDiVii~~~~p~~~~~~r~~~~~~n~~i~~~i~~~i~~~~-~~~~viv~tNP~d~ 124 (307)
T PRK06223 68 IAGSDVVVITAGVPRKPGMSRDDLLGINAKIMKDVAEGIKKYA-PDAIVIVVTNPVDA 124 (307)
T ss_pred HCCCCEEEECCCCCCCcCCCHHHHHHHHHHHHHHHHHHHHHHC-CCeEEEEecCcHHH
Confidence 5678888877644321 22233445555565554 44557777887764
No 424
>cd05291 HicDH_like L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases. L-2-hydroxyisocapronate dehydrogenase (HicDH) catalyzes the conversion of a variety of 2-oxo carboxylic acids with medium-sized aliphatic or aromatic side chains. This subfamily is composed of HicDHs and some bacterial L-lactate dehydrogenases (LDH). LDHs catalyze the last step of glycolysis in which pyruvate is converted to L-lactate. Bacterial LDHs can be non-allosteric or may be activated by an allosteric effector such as fructose-1,6-bisphosphate. Members of this subfamily with known structures such as the HicDH of Lactobacillus confusus, the non-allosteric LDH of Lactobacillus pentosus, and the allosteric LDH of Bacillus stearothermophilus, show that they exist as homotetramers. The HicDH-like subfamily is part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine
Probab=41.63 E-value=73 Score=19.75 Aligned_cols=47 Identities=6% Similarity=0.152 Sum_probs=30.2
Q ss_pred hhCCCEEEEEEECCChh---hHH-------HHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 7 YRGALGALLVYDVTKST---TFE-------NVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~---s~~-------~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
+.++|.+|+........ ..+ -++.+.+.+.++. ++..+++++|-.|.
T Consensus 66 l~~aDIVIitag~~~~~g~~R~dll~~N~~i~~~~~~~i~~~~-~~~~vivvsNP~d~ 122 (306)
T cd05291 66 CKDADIVVITAGAPQKPGETRLDLLEKNAKIMKSIVPKIKASG-FDGIFLVASNPVDV 122 (306)
T ss_pred hCCCCEEEEccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhC-CCeEEEEecChHHH
Confidence 56889999888764221 111 1345555666655 56778999998875
No 425
>cd00838 MPP_superfamily metallophosphatase superfamily, metallophosphatase domain. Metallophosphatases (MPPs), also known as metallophosphoesterases, phosphodiesterases (PDEs), binuclear metallophosphoesterases, and dimetal-containing phosphoesterases (DMPs), represent a diverse superfamily of enzymes with a conserved domain containing an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. This superfamily includes: the phosphoprotein phosphatases (PPPs), Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive me
Probab=41.21 E-value=49 Score=16.54 Aligned_cols=42 Identities=14% Similarity=-0.066 Sum_probs=22.9
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeE-EEEee
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVI-MLIGN 50 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~-vlvgn 50 (72)
.+.+.+++.-|+.+.........+.. +........|+ ++.||
T Consensus 25 ~~~~~vi~~GD~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~GN 67 (131)
T cd00838 25 EKPDFVLVLGDLVGDGPDPEEVLAAA-LALLLLLGIPVYVVPGN 67 (131)
T ss_pred cCCCEEEECCcccCCCCCchHHHHHH-HHHhhcCCCCEEEeCCC
Confidence 56788888889888665444333322 22222244554 44454
No 426
>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]
Probab=41.20 E-value=56 Score=21.08 Aligned_cols=43 Identities=19% Similarity=0.077 Sum_probs=25.9
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
+..|++|-+=|.-=|=|-++ +.+++.. +..|-++|-||+||.+
T Consensus 45 ~~~D~iiEvrDaRiPLssrn-----~~~~~~~-~~k~riiVlNK~DLad 87 (335)
T KOG2485|consen 45 PLVDCIIEVRDARIPLSSRN-----ELFQDFL-PPKPRIIVLNKMDLAD 87 (335)
T ss_pred ccccEEEEeeccccCCcccc-----HHHHHhc-CCCceEEEEecccccC
Confidence 45677777776544322221 1223322 3678899999999976
No 427
>PF08630 Dfp1_Him1_M: Dfp1/Him1, central region; InterPro: IPR013939 This region, together with the C-terminal zinc finger (IPR006572 from INTERPRO) is essential for the mitotic and kinase activation functions of Dfp1/Him1 []. ; PDB: 3OQ0_J 3OQ4_D 3QBZ_A.
Probab=41.12 E-value=8.9 Score=21.05 Aligned_cols=25 Identities=24% Similarity=0.401 Sum_probs=0.0
Q ss_pred chhhCCCEEEEEEECCChhhHHHHHHH
Q 047889 5 AYYRGALGALLVYDVTKSTTFENVSRW 31 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~~~~ 31 (72)
.||+ ..+|+|||+...-.=-.++.|
T Consensus 74 ~yFk--~~yiyV~D~~q~~rPImvrEy 98 (125)
T PF08630_consen 74 HYFK--GPYIYVYDLDQKTRPIMVREY 98 (125)
T ss_dssp ---------------------------
T ss_pred EecC--CCEEEEEecCcCCCcEEEEec
Confidence 4566 558999998876544445666
No 428
>PF12850 Metallophos_2: Calcineurin-like phosphoesterase superfamily domain; InterPro: IPR024654 Domains in this entry are members of the calcineurin-like phosphoesterase domain superfamily [].; PDB: 2GJU_A 1Z2W_A 1Z2X_B 3PSO_B 3PSN_B 1W24_A 2R17_B 3QFN_B 3QFO_A 3QFM_A ....
Probab=40.51 E-value=59 Score=17.28 Aligned_cols=15 Identities=7% Similarity=0.016 Sum_probs=11.8
Q ss_pred hCCCEEEEEEECCCh
Q 047889 8 RGALGALLVYDVTKS 22 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~ 22 (72)
++++.++++-|+.++
T Consensus 24 ~~~d~vi~~GDi~~~ 38 (156)
T PF12850_consen 24 NEPDFVIILGDIFDP 38 (156)
T ss_dssp TTESEEEEES-SCSH
T ss_pred cCCCEEEECCCchhH
Confidence 678999999999885
No 429
>PRK06242 flavodoxin; Provisional
Probab=40.20 E-value=62 Score=17.42 Aligned_cols=42 Identities=5% Similarity=-0.083 Sum_probs=18.6
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEee
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGN 50 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgn 50 (72)
+.++|++++...+-.-.-...+..|++.+... .+.+++++++
T Consensus 41 ~~~~d~ii~g~pvy~~~~~~~~~~fl~~~~~~--~~k~~~~f~t 82 (150)
T PRK06242 41 LSEYDLIGFGSGIYFGKFHKSLLKLIEKLPPV--SGKKAFIFST 82 (150)
T ss_pred HhHCCEEEEeCchhcCCcCHHHHHHHHhhhhh--cCCeEEEEEC
Confidence 34566666655432222223344444444321 2345555544
No 430
>PF00701 DHDPS: Dihydrodipicolinate synthetase family; InterPro: IPR002220 Dihydropicolinate synthase (DHDPS) is the key enzyme in lysine biosynthesis via the diaminopimelate pathway of prokaryotes, some phycomycetes and higher plants. The enzyme catalyses the condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a ping-pong mechanism in which pyruvate binds to the enzyme by forming a Schiff-base with a lysine residue []. Three other proteins are structurally related to DHDPS and probably also act via a similar catalytic mechanism. These are Escherichia coli N-acetylneuraminate lyase (4.1.3.3 from EC) (gene nanA), which catalyzes the condensation of N-acetyl-D-mannosamine and pyruvate to form N-acetylneuraminate; Rhizobium meliloti (Sinorhizobium meliloti) protein mosA [], which is involved in the biosynthesis of the rhizopine 3-o-methyl-scyllo-inosamine; and E. coli hypothetical protein yjhH. The sequences of DHDPS from different sources are well-conserved. The structure takes the form of a homotetramer, in which 2 monomers are related by an approximate 2-fold symmetry []. Each monomer comprises 2 domains: an 8-fold alpha-/beta-barrel, and a C-terminal alpha-helical domain. The fold resembles that of N-acetylneuraminate lyase. The active site lysine is located in the barrel domain, and has access via 2 channels on the C-terminal side of the barrel.; GO: 0016829 lyase activity, 0008152 metabolic process; PDB: 3B4U_B 3S8H_A 3QZE_B 1XXX_F 3L21_F 3IRD_A 3A5F_B 3G0S_B 3DAQ_C 3UQN_A ....
Probab=39.83 E-value=89 Score=19.11 Aligned_cols=40 Identities=15% Similarity=0.296 Sum_probs=26.9
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEe
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIG 49 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvg 49 (72)
.++|++++.--.-.+.+-+.+..|+..+... .+.|+++-=
T Consensus 95 ~Gad~v~v~~P~~~~~s~~~l~~y~~~ia~~--~~~pi~iYn 134 (289)
T PF00701_consen 95 AGADAVLVIPPYYFKPSQEELIDYFRAIADA--TDLPIIIYN 134 (289)
T ss_dssp TT-SEEEEEESTSSSCCHHHHHHHHHHHHHH--SSSEEEEEE
T ss_pred cCceEEEEeccccccchhhHHHHHHHHHHhh--cCCCEEEEE
Confidence 3688888876554555667777788887754 568887643
No 431
>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ. Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=39.66 E-value=78 Score=18.45 Aligned_cols=50 Identities=16% Similarity=0.103 Sum_probs=29.6
Q ss_pred chhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 5 AYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
..+..+|.++++... +..++..+..-...+.+......+.-++.|+.+..
T Consensus 132 ~~l~~ad~vii~~~~-~~~s~~~~~~~~~~l~~~~~~~~~~~iv~n~~~~~ 181 (246)
T TIGR03371 132 QALAAADLVLVVVNA-DAACYATLHQQALALFAGSGPRIGPHFLINQFDPA 181 (246)
T ss_pred HHHHhCCeEEEEeCC-CHHHHHHHHHHHHHHhhcccccccceEEeeccCcc
Confidence 345678888888875 45566666532222222222344567888998854
No 432
>COG3584 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.59 E-value=10 Score=20.35 Aligned_cols=22 Identities=27% Similarity=0.238 Sum_probs=13.7
Q ss_pred EEEeeCCCCcccccCCHHHHHHHHh
Q 047889 46 MLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 46 vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
.+-|||+|+-- -+.+|+..|-+
T Consensus 81 aIkGNkIDl~~---~s~~da~~wG~ 102 (109)
T COG3584 81 AIKGNKIDLYM---PSERDAINWGR 102 (109)
T ss_pred cccCcEEEEEc---CcHHHHHhhCc
Confidence 34689999853 34556665543
No 433
>PRK09602 translation-associated GTPase; Reviewed
Probab=39.50 E-value=63 Score=21.12 Aligned_cols=14 Identities=29% Similarity=0.261 Sum_probs=13.2
Q ss_pred hhCCCEEEEEEECC
Q 047889 7 YRGALGALLVYDVT 20 (72)
Q Consensus 7 ~~~a~~~i~v~d~~ 20 (72)
++++|++++|+|..
T Consensus 100 ir~ad~ll~Vvd~~ 113 (396)
T PRK09602 100 LRQADALIHVVDAS 113 (396)
T ss_pred HHHCCEEEEEEeCC
Confidence 88999999999997
No 434
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=39.47 E-value=66 Score=17.56 Aligned_cols=39 Identities=13% Similarity=0.139 Sum_probs=23.6
Q ss_pred EEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCC
Q 047889 14 LLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKS 52 (72)
Q Consensus 14 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~ 52 (72)
+++.+..+..+.+.++...+.+++.....+++++=|+..
T Consensus 56 ii~iSsl~~~~~~~~~~~~~~L~~~g~~~i~vivGG~~~ 94 (132)
T TIGR00640 56 VVGVSSLAGGHLTLVPALRKELDKLGRPDILVVVGGVIP 94 (132)
T ss_pred EEEEcCchhhhHHHHHHHHHHHHhcCCCCCEEEEeCCCC
Confidence 444455566777778888888877653445544433443
No 435
>KOG0085 consensus G protein subunit Galphaq/Galphay, small G protein superfamily [Signal transduction mechanisms]
Probab=39.40 E-value=48 Score=20.77 Aligned_cols=17 Identities=35% Similarity=0.368 Sum_probs=13.7
Q ss_pred CCCeEEEEeeCCCCccc
Q 047889 41 SNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 41 ~~~~~vlvgnK~Dl~~~ 57 (72)
.+.++++..||.||-++
T Consensus 265 ~nssVIlFLNKkDlLEe 281 (359)
T KOG0085|consen 265 QNSSVILFLNKKDLLEE 281 (359)
T ss_pred cCCceEEEechhhhhhh
Confidence 35778999999998654
No 436
>TIGR01758 MDH_euk_cyt malate dehydrogenase, NAD-dependent. This model represents the NAD-dependent cytosolic malate dehydrogenase from eukaryotes. The enzyme from pig has been studied by X-ray crystallography
Probab=39.29 E-value=89 Score=19.80 Aligned_cols=50 Identities=14% Similarity=0.168 Sum_probs=31.5
Q ss_pred chhhCCCEEEEEEECCChh--h-HHH-------HHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 5 AYYRGALGALLVYDVTKST--T-FEN-------VSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~--s-~~~-------~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
.-+.++|.+|+.-.....+ + .+. ++.+.+.+..+..++..+++++|=+|.
T Consensus 71 ~~~~~aDiVVitAG~~~~~~~tr~~ll~~N~~i~k~i~~~i~~~~~~~~iiivvsNPvDv 130 (324)
T TIGR01758 71 VAFTDVDVAILVGAFPRKEGMERRDLLSKNVKIFKEQGRALDKLAKKDCKVLVVGNPANT 130 (324)
T ss_pred HHhCCCCEEEEcCCCCCCCCCcHHHHHHHHHHHHHHHHHHHHhhCCCCeEEEEeCCcHHH
Confidence 3456789999887765432 1 211 345555666553366778888998885
No 437
>PF03641 Lysine_decarbox: Possible lysine decarboxylase; InterPro: IPR005269 This entry represents a cytokinin-activating enzyme working in the direct activation pathway. It is a phosphoribohydrolase that converts inactive cytokinin nucleotides to the biologically active free-base forms [, ]. The proteins in this entry belong to the LOG family of proteins.; PDB: 1YDH_B 2Q4D_A 1RCU_C 1WEH_B 3SBX_F 3BQ9_B 2PMB_D 3GH1_D 1WEK_C 3QUA_A ....
Probab=39.01 E-value=66 Score=17.41 Aligned_cols=44 Identities=9% Similarity=0.055 Sum_probs=22.8
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeC
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNK 51 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK 51 (72)
..+.+|++|++ .-..-+++.+-..+...+-.....+|+++++..
T Consensus 50 m~~~sda~I~l--PGG~GTl~El~~~~~~~~l~~~~~~Piil~~~~ 93 (133)
T PF03641_consen 50 MIESSDAFIAL--PGGIGTLDELFEALTLMQLGRHNKVPIILLNID 93 (133)
T ss_dssp HHHHESEEEEE--S-SHHHHHHHHHHHHHHHTTSSTS-EEEEEECG
T ss_pred HHHhCCEEEEE--ecCCchHHHHHHHHHHHhhccccCCCEEEeCCc
Confidence 34567887777 234455666533332222222245699998854
No 438
>PF11232 Med25: Mediator complex subunit 25 PTOV activation and synapsin 2; InterPro: IPR021394 Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species [],[]. It is arranged into four different sections, a core, a head, a tail and a kinase-active part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function []. The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain, an SD1 - synapsin 1 - domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This family is the combined PTOV and SD2 domains. the PTOV domain being the domain through which Med25 co-operates with the histone acetyltransferase CBP, but the function of the SD2 domain is unclear []. ; PDB: 2KY6_A 2L23_A 2XNF_A 2L6U_A.
Probab=38.82 E-value=67 Score=18.35 Aligned_cols=28 Identities=7% Similarity=0.320 Sum_probs=18.8
Q ss_pred ccchhhCCCEEEEEEECCChhhHHHHHHHH
Q 047889 3 TSAYYRGALGALLVYDVTKSTTFENVSRWL 32 (72)
Q Consensus 3 ~~~y~~~a~~~i~v~d~~~~~s~~~~~~~~ 32 (72)
.+.| +++-.+++-|+ ++.++++.+...+
T Consensus 68 ~~~~-kns~~v~f~~~-~~~E~l~~L~~im 95 (152)
T PF11232_consen 68 GGLF-KNSRSVVFHFT-TDCESLKSLYRIM 95 (152)
T ss_dssp GGGG-SSEEEEEEEES-S-HHHHHHHHHHH
T ss_pred HHHH-hcCeEEEEEcC-CChHHHHHHHHHh
Confidence 3445 88888777777 6778888765543
No 439
>PRK07308 flavodoxin; Validated
Probab=38.81 E-value=67 Score=17.40 Aligned_cols=43 Identities=16% Similarity=0.183 Sum_probs=21.4
Q ss_pred hCCCEEEEEEECCChhhH-HHHHHHHHHHHHhcCCCCeEEEEee
Q 047889 8 RGALGALLVYDVTKSTTF-ENVSRWLKDLRDHAGSNIVIMLIGN 50 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~-~~~~~~~~~~~~~~~~~~~~vlvgn 50 (72)
...+++++....-....+ ..+..+++.+......+.++.++|.
T Consensus 47 ~~~d~vi~g~~t~g~G~~p~~~~~fl~~l~~~~l~~k~~~vfG~ 90 (146)
T PRK07308 47 EDADIAIVATYTYGDGELPDEIVDFYEDLADLDLSGKIYGVVGS 90 (146)
T ss_pred ccCCEEEEEeCccCCCCCCHHHHHHHHHHhcCCCCCCEEEEEee
Confidence 455666665544432222 2445555555443334556666554
No 440
>KOG2455 consensus Delta-1-pyrroline-5-carboxylate dehydrogenase [Amino acid transport and metabolism]
Probab=38.69 E-value=42 Score=22.80 Aligned_cols=37 Identities=19% Similarity=0.320 Sum_probs=26.7
Q ss_pred EECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 17 YDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 17 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
-.+-+..+|..++.|++..+.. ++ .-||.|.|+|-..
T Consensus 386 gavIh~~sF~rl~k~le~ak~~--~~-leiL~GGk~DdS~ 422 (561)
T KOG2455|consen 386 GAVIHDKSFARLKKVLEHAKKD--PE-LEILAGGKCDDST 422 (561)
T ss_pred hhhccHHHHHHHHHHHHhhccC--cc-ceeeecCcccCCC
Confidence 3445678999999998777543 33 4588999999644
No 441
>cd05293 LDH_1 A subgroup of L-lactate dehydrogenases. L-lactate dehydrogenases (LDH) are tetrameric enzymes catalyzing the last step of glycolysis in which pyruvate is converted to L-lactate. This subgroup is composed of eukaryotic LDHs. Vertebrate LDHs are non-allosteric. This is in contrast to some bacterial LDHs that are activated by an allosteric effector such as fructose-1,6-bisphosphate. LDHs are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=38.63 E-value=37 Score=21.33 Aligned_cols=48 Identities=8% Similarity=0.192 Sum_probs=28.8
Q ss_pred hhhCCCEEEEEEECCChh---hHHH-------HHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 6 YYRGALGALLVYDVTKST---TFEN-------VSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~---s~~~-------~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
-++++|.+++........ ..+. ++...+.+.++. ++.-+++++|-.|.
T Consensus 68 ~~~~adivvitaG~~~k~g~~R~dll~~N~~i~~~~~~~i~~~~-p~~~vivvsNP~d~ 125 (312)
T cd05293 68 VTANSKVVIVTAGARQNEGESRLDLVQRNVDIFKGIIPKLVKYS-PNAILLVVSNPVDI 125 (312)
T ss_pred HhCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhC-CCcEEEEccChHHH
Confidence 367888888866543221 1111 234445555554 66778999998885
No 442
>TIGR03677 rpl7ae 50S ribosomal protein L7Ae. Multifunctional RNA-binding protein that recognizes the K-turn motif in ribosomal RNA, box H/ACA, box C/D and box C'/D' sRNAs. Interacts with protein L15e.
Probab=38.58 E-value=46 Score=17.82 Aligned_cols=16 Identities=25% Similarity=0.347 Sum_probs=12.7
Q ss_pred CCCeEEEEeeCCCCcc
Q 047889 41 SNIVIMLIGNKSDLKH 56 (72)
Q Consensus 41 ~~~~~vlvgnK~Dl~~ 56 (72)
.++|++.+++|.+|..
T Consensus 68 ~~Ip~~~~~sk~eLG~ 83 (117)
T TIGR03677 68 KGIPYVYVKKKEDLGA 83 (117)
T ss_pred cCCCEEEeCCHHHHHH
Confidence 4689999999988743
No 443
>cd07402 MPP_GpdQ Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain. GpdQ (glycerophosphodiesterase Q, also known as Rv0805 in Mycobacterium tuberculosis) is a binuclear metallophosphoesterase from Enterobacter aerogenes that catalyzes the hydrolysis of mono-, di-, and triester substrates, including some organophosphate pesticides and products of the degradation of nerve agents. The GpdQ homolog, Rv0805, has 2',3'-cyclic nucleotide phosphodiesterase activity. GpdQ and Rv0805 belong to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosa
Probab=38.57 E-value=76 Score=18.44 Aligned_cols=40 Identities=25% Similarity=0.167 Sum_probs=22.6
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEE-EEeeC
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIM-LIGNK 51 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~v-lvgnK 51 (72)
+.|.++++-|+.+.........+.+.+.+. .+|++ +.||-
T Consensus 40 ~~d~vi~~GDl~~~~~~~~~~~~~~~l~~~---~~p~~~v~GNH 80 (240)
T cd07402 40 RPDLVLVTGDLTDDGSPESYERLRELLAAL---PIPVYLLPGNH 80 (240)
T ss_pred CCCEEEECccCCCCCCHHHHHHHHHHHhhc---CCCEEEeCCCC
Confidence 678899999988764433333333333332 46654 44553
No 444
>KOG1752 consensus Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]
Probab=38.28 E-value=64 Score=17.03 Aligned_cols=35 Identities=20% Similarity=0.301 Sum_probs=20.6
Q ss_pred EEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCC
Q 047889 16 VYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKS 52 (72)
Q Consensus 16 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~ 52 (72)
++.++..+--..++.++.++. ....+|.+.+|.|.
T Consensus 43 vvELD~~~~g~eiq~~l~~~t--g~~tvP~vFI~Gk~ 77 (104)
T KOG1752|consen 43 VVELDEDEDGSEIQKALKKLT--GQRTVPNVFIGGKF 77 (104)
T ss_pred EEEccCCCCcHHHHHHHHHhc--CCCCCCEEEECCEE
Confidence 444444444446666655442 23578988888775
No 445
>KOG2486 consensus Predicted GTPase [General function prediction only]
Probab=37.88 E-value=34 Score=21.80 Aligned_cols=15 Identities=20% Similarity=0.259 Sum_probs=13.0
Q ss_pred CCCeEEEEeeCCCCc
Q 047889 41 SNIVIMLIGNKSDLK 55 (72)
Q Consensus 41 ~~~~~vlvgnK~Dl~ 55 (72)
.++|+.+|.||+|-.
T Consensus 247 ~~VP~t~vfTK~DK~ 261 (320)
T KOG2486|consen 247 NNVPMTSVFTKCDKQ 261 (320)
T ss_pred cCCCeEEeeehhhhh
Confidence 579999999999963
No 446
>TIGR03729 acc_ester putative phosphoesterase. Members of this protein family belong to the larger family pfam00149 (calcineurin-like phosphoesterase), a family largely defined by small motifs of metal-chelating residues. The subfamily in this model shows a good but imperfect co-occurrence in species with domain TIGR03715 that defines a novel class of signal peptide typical of the accessory secretory system.
Probab=37.73 E-value=86 Score=18.51 Aligned_cols=40 Identities=13% Similarity=0.214 Sum_probs=25.6
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeE-EEEeeC
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVI-MLIGNK 51 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~-vlvgnK 51 (72)
.++|.+++.-|+.+.. .....++..+.+. ...|+ ++.||-
T Consensus 31 ~~~d~vv~~GDl~~~~--~~~~~~~~~l~~~--~~~pv~~v~GNH 71 (239)
T TIGR03729 31 QKIDHLHIAGDISNDF--QRSLPFIEKLQEL--KGIKVTFNAGNH 71 (239)
T ss_pred cCCCEEEECCccccch--hhHHHHHHHHHHh--cCCcEEEECCCC
Confidence 3689999999998742 3344566555543 34565 566775
No 447
>PF00056 Ldh_1_N: lactate/malate dehydrogenase, NAD binding domain Prosite entry for lactate dehydrogenase Prosite entry for malate dehydrogenase; InterPro: IPR001236 L-lactate dehydrogenases are metabolic enzymes which catalyse the conversion of L-lactate to pyruvate, the last step in anaerobic glycolysis []. L-lactate dehydrogenase is also found as a lens crystallin in bird and crocodile eyes. L-2-hydroxyisocaproate dehydrogenases are also members of the family. Malate dehydrogenases catalyse the interconversion of malate to oxaloacetate []. The enzyme participates in the citric acid cycle. This entry represents the N-terminal, and is thought to be a Rossmann NAD-binding fold.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1IB6_B 3HHP_C 1IE3_A 2PWZ_A 1EMD_A 2CMD_A 1EZ4_D 9LDT_B 9LDB_B 2D4A_C ....
Probab=37.53 E-value=50 Score=18.08 Aligned_cols=49 Identities=14% Similarity=0.234 Sum_probs=30.1
Q ss_pred chhhCCCEEEEEEECCChh---h---H----HHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 5 AYYRGALGALLVYDVTKST---T---F----ENVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~---s---~----~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
.-++++|.+++.-.....+ . + .-++.+.+.+.+.. ++..++++.|=+|+
T Consensus 65 ~~~~~aDivvitag~~~~~g~sR~~ll~~N~~i~~~~~~~i~~~~-p~~~vivvtNPvd~ 123 (141)
T PF00056_consen 65 EALKDADIVVITAGVPRKPGMSRLDLLEANAKIVKEIAKKIAKYA-PDAIVIVVTNPVDV 123 (141)
T ss_dssp GGGTTESEEEETTSTSSSTTSSHHHHHHHHHHHHHHHHHHHHHHS-TTSEEEE-SSSHHH
T ss_pred cccccccEEEEeccccccccccHHHHHHHhHhHHHHHHHHHHHhC-CccEEEEeCCcHHH
Confidence 3467888888877654321 1 1 11345666666665 67778888888874
No 448
>PRK10569 NAD(P)H-dependent FMN reductase; Provisional
Probab=37.00 E-value=76 Score=18.39 Aligned_cols=11 Identities=18% Similarity=0.154 Sum_probs=6.3
Q ss_pred hhCCCEEEEEE
Q 047889 7 YRGALGALLVY 17 (72)
Q Consensus 7 ~~~a~~~i~v~ 17 (72)
++.||++|++.
T Consensus 64 i~~AD~iIi~t 74 (191)
T PRK10569 64 LAQADGLIVAT 74 (191)
T ss_pred HHHCCEEEEEC
Confidence 34566666654
No 449
>TIGR00381 cdhD CO dehydrogenase/acetyl-CoA synthase, delta subunit. This is the small subunit of a heterodimer which catalyzes the reaction CO + H2O + Acceptor = CO2 + Reduced acceptor and is involved in the synthesis of acetyl-CoA from CO2 and H2.
Probab=36.93 E-value=73 Score=21.06 Aligned_cols=43 Identities=19% Similarity=0.074 Sum_probs=28.2
Q ss_pred hCCCEEEEEEECCChhhHHHHHH-HHHHHHHhc-CCCCeEEEEee
Q 047889 8 RGALGALLVYDVTKSTTFENVSR-WLKDLRDHA-GSNIVIMLIGN 50 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~-~~~~~~~~~-~~~~~~vlvgn 50 (72)
-++|.+.+.+..+|++..+.... +.+-+.... ..++|++|.|+
T Consensus 152 ~~aD~Ialr~~S~DP~~~d~~~~e~a~~vk~V~~av~vPLIL~gs 196 (389)
T TIGR00381 152 FGADMVTIHLISTDPKLDDKSPSEAAKVLEDVLQAVDVPIVIGGS 196 (389)
T ss_pred hCCCEEEEEecCCCccccccCHHHHHHHHHHHHHhCCCCEEEeCC
Confidence 46899999999999984443322 333333332 26799999977
No 450
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=36.89 E-value=50 Score=20.05 Aligned_cols=38 Identities=26% Similarity=0.280 Sum_probs=21.2
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCc
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLK 55 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~ 55 (72)
+++||+|+. +.... ...+. .+.+ .++|+|+++...+..
T Consensus 55 ~~vDGiI~~-s~~~~--~~~l~----~~~~---~~iPvV~~~~~~~~~ 92 (279)
T PF00532_consen 55 RRVDGIILA-SSEND--DEELR----RLIK---SGIPVVLIDRYIDNP 92 (279)
T ss_dssp TTSSEEEEE-SSSCT--CHHHH----HHHH---TTSEEEEESS-SCTT
T ss_pred cCCCEEEEe-cccCC--hHHHH----HHHH---cCCCEEEEEeccCCc
Confidence 568898887 33222 22211 1221 369999999886654
No 451
>TIGR01573 cas2 CRISPR-associated endoribonuclease Cas2. This model describes most members of the family of Cas2, one of the first four protein families found to mark prokaryotic genomes that contain multiple CRISPR elements. It is an endoribonuclease, capable of cleaving single-stranded RNA. CRISPR is an acronym for Clustered Regularly Interspaced Short Palindromic Repeats. The cas genes are found near the repeats. A distinct branch of the Cas2 family shows a very low level of sequence identity and is modeled by TIGR01873 instead.
Probab=36.84 E-value=63 Score=16.51 Aligned_cols=10 Identities=40% Similarity=0.853 Sum_probs=8.1
Q ss_pred EEEEEECCCh
Q 047889 13 ALLVYDVTKS 22 (72)
Q Consensus 13 ~i~v~d~~~~ 22 (72)
++++||+.+.
T Consensus 3 ~lV~YDI~~~ 12 (95)
T TIGR01573 3 VLVVYDIPTD 12 (95)
T ss_pred EEEEEECCCC
Confidence 6788888877
No 452
>TIGR01772 MDH_euk_gproteo malate dehydrogenase, NAD-dependent. Although malate dehydrogenases have in some cases been mistaken for lactate dehydrogenases due to the similarity of these two substrates and the apparent ease with which evolution can toggle these activities, critical residues have been identified which can discriminate between the two activities. At the time of the creation of this model no hits above the trusted cutoff contained critical residues typical of lactate dehydrogenases.
Probab=36.51 E-value=79 Score=19.96 Aligned_cols=49 Identities=16% Similarity=0.207 Sum_probs=32.4
Q ss_pred chhhCCCEEEEEEECCCh---hhHHH-------HHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 5 AYYRGALGALLVYDVTKS---TTFEN-------VSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~---~s~~~-------~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
.-++++|.+++....... +.++. ++.+.+.+..+. ++..++++.|=+|.
T Consensus 63 ~~~~daDivvitaG~~~~~g~~R~dll~~N~~I~~~i~~~i~~~~-p~~iiivvsNPvDv 121 (312)
T TIGR01772 63 NALKGADVVVIPAGVPRKPGMTRDDLFNVNAGIVKDLVAAVAESC-PKAMILVITNPVNS 121 (312)
T ss_pred HHcCCCCEEEEeCCCCCCCCccHHHHHHHhHHHHHHHHHHHHHhC-CCeEEEEecCchhh
Confidence 357889999998877532 22222 234555555554 67779999999994
No 453
>PF08309 LVIVD: LVIVD repeat; InterPro: IPR013211 This repeat is found in bacterial and archaeal cell surface proteins, many of which are hypothetical. The secondary structure corresponding to this repeat is predicted to comprise 4 beta-strands, which may associate to form a beta-propeller. The repeat copy number varies from 2-14. This repeat is sometimes found with the PKD domain IPR000601 from INTERPRO.
Probab=36.10 E-value=19 Score=15.73 Aligned_cols=13 Identities=15% Similarity=0.544 Sum_probs=9.0
Q ss_pred EEEEEEECCChhh
Q 047889 12 GALLVYDVTKSTT 24 (72)
Q Consensus 12 ~~i~v~d~~~~~s 24 (72)
.=+.++|++||.+
T Consensus 21 ~Gl~IvDISnPs~ 33 (42)
T PF08309_consen 21 NGLVIVDISNPSN 33 (42)
T ss_pred CCEEEEECCCCCC
Confidence 3366889888753
No 454
>PF01653 DNA_ligase_aden: NAD-dependent DNA ligase adenylation domain; InterPro: IPR013839 DNA ligase (polydeoxyribonucleotide synthase) is the enzyme that joins two DNA fragments by catalyzing the formation of an internucleotide ester bond between phosphate and deoxyribose. It is active during DNA replication, DNA repair and DNA recombination. There are two forms of DNA ligase: one requires ATP (6.5.1.1 from EC), the other NAD (6.5.1.2 from EC). This entry represents the N-terminal adenylation domain of NAD-dependent DNA ligases. These are proteins of about 75 to 85 Kd whose sequence is well conserved [, ]. They also show similarity to yicF, an Escherichia coli hypothetical protein of 63 Kd. Despite a complete lack of detectable sequence similarity, the fold of the central core of this adenyaltion domain shares homology with the equivalent region of ATP-dependent DNA ligases [, ].; GO: 0003911 DNA ligase (NAD+) activity; PDB: 1ZAU_A 3SGI_A 1B04_A 3JSL_A 3JSN_A 1DGS_A 1V9P_A 3PN1_A 3BAC_A 3UQ8_A ....
Probab=36.00 E-value=42 Score=21.22 Aligned_cols=40 Identities=20% Similarity=0.379 Sum_probs=25.5
Q ss_pred EEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCC
Q 047889 14 LLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSD 53 (72)
Q Consensus 14 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~D 53 (72)
.-|.++.+..+.+.+..|...+....+....-++|--|+|
T Consensus 77 ~pMlSL~k~~s~eel~~w~~r~~~~~~~~~~~~~~e~KiD 116 (315)
T PF01653_consen 77 VPMLSLDKAYSEEELRKWLKRVEKALGEEEEEFVVEPKID 116 (315)
T ss_dssp S-----EEESSHHHHHHHHHHHHHHCSS-SSEEEEEEEES
T ss_pred ccccCccccCCHHHHHHHHHHHHHHhcccccceeEeeccc
Confidence 3466777778889999999998775543333577777877
No 455
>TIGR01007 eps_fam capsular exopolysaccharide family. This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes.
Probab=35.80 E-value=87 Score=17.86 Aligned_cols=47 Identities=19% Similarity=0.214 Sum_probs=30.9
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
.+.+|++++|.+. +..+...+..-.+.+++.. ...+-+|.||.+...
T Consensus 148 ~~~~D~vilV~~~-~~~~~~~~~~~~~~l~~~~--~~~~gvVlN~~~~~~ 194 (204)
T TIGR01007 148 ARACDASILVTDA-GEIKKRDVQKAKEQLEQTG--SNFLGVVLNKVDISV 194 (204)
T ss_pred HHhCCeEEEEEEC-CCCCHHHHHHHHHHHHhCC--CCEEEEEEeCccccc
Confidence 4568999999876 3455666666666665432 234567889998654
No 456
>PRK12399 tagatose 1,6-diphosphate aldolase; Reviewed
Probab=35.68 E-value=1.2e+02 Score=19.57 Aligned_cols=36 Identities=19% Similarity=0.362 Sum_probs=26.0
Q ss_pred EEEEEECCChhhHHHH-HHHHHHHHHhcC-CCCeEEEE
Q 047889 13 ALLVYDVTKSTTFENV-SRWLKDLRDHAG-SNIVIMLI 48 (72)
Q Consensus 13 ~i~v~d~~~~~s~~~~-~~~~~~~~~~~~-~~~~~vlv 48 (72)
+++-|+.+++.-.+.. ..|++.+..... .++|.+|=
T Consensus 124 ~Llyy~pD~~~~in~~k~a~vervg~eC~a~dipf~lE 161 (324)
T PRK12399 124 FLLYYDVDEPDEINEQKKAYIERIGSECVAEDIPFFLE 161 (324)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCeEEE
Confidence 5778899988878777 457777755543 67887763
No 457
>PF06490 FleQ: Flagellar regulatory protein FleQ; InterPro: IPR010518 This domain is found at the N terminus of a subset of sigma54-dependent transcriptional activators that are involved in regulation of flagellar motility e.g. FleQ in Pseudomonas aeruginosa. It is clearly related to IPR001789 from INTERPRO, but lacks the conserved aspartate residue that undergoes phosphorylation in the classic two-component system response regulator (IPR001789 from INTERPRO).
Probab=35.36 E-value=71 Score=16.71 Aligned_cols=25 Identities=28% Similarity=0.506 Sum_probs=16.4
Q ss_pred HHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 29 SRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 29 ~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
...++.+.+.. +.+|++++|.+-..
T Consensus 57 ~~~l~~l~~~~-~~~Pvlllg~~~~~ 81 (109)
T PF06490_consen 57 AELLKELLKWA-PHIPVLLLGEHDSP 81 (109)
T ss_pred HHHHHHHHhhC-CCCCEEEECCCCcc
Confidence 33444444433 78999999987765
No 458
>PRK00066 ldh L-lactate dehydrogenase; Reviewed
Probab=35.19 E-value=1.1e+02 Score=19.30 Aligned_cols=48 Identities=8% Similarity=0.111 Sum_probs=28.8
Q ss_pred hhhCCCEEEEEEECCCh------hhHHH----HHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 6 YYRGALGALLVYDVTKS------TTFEN----VSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~------~s~~~----~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
-+++||.+|+....... +-+.. ++...+.+.++. ++..+++++|-.|.
T Consensus 70 ~~~~adivIitag~~~k~g~~R~dll~~N~~i~~~i~~~i~~~~-~~~~vivvsNP~d~ 127 (315)
T PRK00066 70 DCKDADLVVITAGAPQKPGETRLDLVEKNLKIFKSIVGEVMASG-FDGIFLVASNPVDI 127 (315)
T ss_pred HhCCCCEEEEecCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhC-CCeEEEEccCcHHH
Confidence 36789999998776432 11111 223344444444 56678889998875
No 459
>COG0252 AnsB L-asparaginase/archaeal Glu-tRNAGln amidotransferase subunit D [Amino acid transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=34.67 E-value=1.2e+02 Score=19.75 Aligned_cols=39 Identities=15% Similarity=0.191 Sum_probs=26.7
Q ss_pred CCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 10 ALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 10 a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
+||+++.- .-++++....++....+ ...|+|++|.-.-.
T Consensus 101 ~dGvVItH---GTDTmeeTA~~L~l~l~---~~kPVVlTGamr~s 139 (351)
T COG0252 101 VDGVVITH---GTDTMEETAFFLSLTLN---TPKPVVLTGAMRPA 139 (351)
T ss_pred CCeEEEeC---CCchHHHHHHHHHHHhc---CCCCEEEeCCCCCC
Confidence 48887764 34667777667666543 36899999986654
No 460
>cd01840 SGNH_hydrolase_yrhL_like yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases. Most members of this sub-family appear to co-occur with N-terminal acyltransferase domains. Might be involved in lipid metabolism.
Probab=34.18 E-value=82 Score=17.06 Aligned_cols=39 Identities=13% Similarity=0.165 Sum_probs=27.7
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeC
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNK 51 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK 51 (72)
..+.+++.+-.++...-+++...++.+ +++.++++++..
T Consensus 50 ~~d~vvi~lGtNd~~~~~nl~~ii~~~----~~~~~ivlv~~~ 88 (150)
T cd01840 50 LRKTVVIGLGTNGPFTKDQLDELLDAL----GPDRQVYLVNPH 88 (150)
T ss_pred CCCeEEEEecCCCCCCHHHHHHHHHHc----CCCCEEEEEECC
Confidence 468899999998886666666554444 245778888876
No 461
>PRK04161 tagatose 1,6-diphosphate aldolase; Reviewed
Probab=34.02 E-value=1.3e+02 Score=19.43 Aligned_cols=36 Identities=19% Similarity=0.374 Sum_probs=25.8
Q ss_pred EEEEEECCChhhHHHH-HHHHHHHHHhcC-CCCeEEEE
Q 047889 13 ALLVYDVTKSTTFENV-SRWLKDLRDHAG-SNIVIMLI 48 (72)
Q Consensus 13 ~i~v~d~~~~~s~~~~-~~~~~~~~~~~~-~~~~~vlv 48 (72)
+++-|+.++..-.+.. ..|++.+..... .++|.+|=
T Consensus 126 ~Llyy~pD~~~ein~~k~a~vervg~eC~a~dipf~lE 163 (329)
T PRK04161 126 FLLYYDVDGDEEINDQKQAYIERIGSECTAEDIPFFLE 163 (329)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCeEEE
Confidence 5778899988877776 457777755543 67887774
No 462
>PRK13957 indole-3-glycerol-phosphate synthase; Provisional
Probab=33.94 E-value=52 Score=20.20 Aligned_cols=26 Identities=19% Similarity=0.215 Sum_probs=20.4
Q ss_pred cchhhCCCEEEEEEECCChhhHHHHH
Q 047889 4 SAYYRGALGALLVYDVTKSTTFENVS 29 (72)
Q Consensus 4 ~~y~~~a~~~i~v~d~~~~~s~~~~~ 29 (72)
..+.-+||++++.+.+-+++.+..+.
T Consensus 119 ea~~~GADavLLI~~~L~~~~l~~l~ 144 (247)
T PRK13957 119 EARAFGASAILLIVRILTPSQIKSFL 144 (247)
T ss_pred HHHHcCCCEEEeEHhhCCHHHHHHHH
Confidence 34567899999999999887666654
No 463
>PF05193 Peptidase_M16_C: Peptidase M16 inactive domain; InterPro: IPR007863 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. These metallopeptidases belong to MEROPS peptidase family M16 (clan ME). They include proteins, which are classified as non-peptidase homologues either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity. The peptidases in this group of sequences include: Insulinase, insulin-degrading enzyme (3.4.24.56 from EC) Mitochondrial processing peptidase alpha subunit, (Alpha-MPP, 3.4.24.64 from EC) Pitrlysin, Protease III precursor (3.4.24.55 from EC) Nardilysin, (3.4.24.61 from EC) Ubiquinol-cytochrome C reductase complex core protein I,mitochondrial precursor (1.10.2.2 from EC) Coenzyme PQQ synthesis protein F (3.4.99 from EC) These proteins do not share many regions of sequence similarity; the most noticeable is in the N-terminal section. This region includes a conserved histidine followed, two residues later by a glutamate and another histidine. In pitrilysin, it has been shown [] that this H-x-x-E-H motif is involved in enzymatic activity; the two histidines bind zinc and the glutamate is necessary for catalytic activity. The mitochondrial processing peptidase consists of two structurally related domains. One is the active peptidase whereas the other, the C-terminal region, is inactive. The two domains hold the substrate like a clamp [].; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis; PDB: 1BE3_B 1PP9_B 2A06_B 1SQB_B 1SQP_B 1L0N_B 1SQX_B 1NU1_B 1L0L_B 2FYU_B ....
Probab=33.66 E-value=51 Score=17.66 Aligned_cols=27 Identities=22% Similarity=0.527 Sum_probs=16.1
Q ss_pred hHHHHHHHHHHHHHhcCCCCeEEEEeeCC
Q 047889 24 TFENVSRWLKDLRDHAGSNIVIMLIGNKS 52 (72)
Q Consensus 24 s~~~~~~~~~~~~~~~~~~~~~vlvgnK~ 52 (72)
+++.++.|++..- .+.+.-++++|+--
T Consensus 3 t~e~l~~f~~~~y--~p~n~~l~i~Gd~~ 29 (184)
T PF05193_consen 3 TLEDLRAFYKKFY--RPSNMTLVIVGDID 29 (184)
T ss_dssp -HHHHHHHHHHHS--SGGGEEEEEEESSG
T ss_pred CHHHHHHHHHHhc--CccceEEEEEcCcc
Confidence 3556666766553 23567788888643
No 464
>cd01835 SGNH_hydrolase_like_3 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=33.57 E-value=91 Score=17.40 Aligned_cols=42 Identities=12% Similarity=0.124 Sum_probs=23.8
Q ss_pred CCCEEEEEEECCChhh---------HHHHHHHHHHHHHhcCCCCeEEEEee
Q 047889 9 GALGALLVYDVTKSTT---------FENVSRWLKDLRDHAGSNIVIMLIGN 50 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s---------~~~~~~~~~~~~~~~~~~~~~vlvgn 50 (72)
..|.+++.+-++|... .+.....+..+........++++++-
T Consensus 69 ~pd~V~i~~G~ND~~~~~~~~~~~~~~~~~~~~~~ii~~~~~~~~vi~~~~ 119 (193)
T cd01835 69 VPNRLVLSVGLNDTARGGRKRPQLSARAFLFGLNQLLEEAKRLVPVLVVGP 119 (193)
T ss_pred CCCEEEEEecCcccccccCcccccCHHHHHHHHHHHHHHHhcCCcEEEEeC
Confidence 5688999998887532 23333333333332224567777653
No 465
>PRK13660 hypothetical protein; Provisional
Probab=33.47 E-value=1e+02 Score=18.01 Aligned_cols=38 Identities=24% Similarity=0.299 Sum_probs=22.3
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHhc-CCCCeEEEE
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDHA-GSNIVIMLI 48 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~vlv 48 (72)
..++++|++||-..+.+-... ++.++... ..+.|+.++
T Consensus 128 ~~sd~~i~~YD~e~~Ggt~y~---~~~A~k~~~~~~y~i~~I 166 (182)
T PRK13660 128 EHTDGALLVYDEENEGSPKYF---YEAAKKKQEKEDYPLDLI 166 (182)
T ss_pred HccCeEEEEEcCCCCCChHHH---HHHHHHhhhccCceEEEe
Confidence 468999999997765433332 22333221 246777665
No 466
>PF00462 Glutaredoxin: Glutaredoxin; InterPro: IPR002109 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This entry represents Glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis; PDB: 1QFN_A 1GRX_A 1EGO_A 1EGR_A 3RHC_A 3RHB_A 3IPZ_A 1NHO_A 3GX8_A 3D5J_A ....
Probab=33.37 E-value=53 Score=14.69 Aligned_cols=38 Identities=13% Similarity=0.077 Sum_probs=19.6
Q ss_pred hCCCEEEEEEECCChhhHHHHHHHHHHHHHh-cCCCCeEEEEeeC
Q 047889 8 RGALGALLVYDVTKSTTFENVSRWLKDLRDH-AGSNIVIMLIGNK 51 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~vlvgnK 51 (72)
+....-.-..|+++.+ . ..+.+.+. ....+|.++++++
T Consensus 20 ~~~~i~y~~~dv~~~~---~---~~~~l~~~~g~~~~P~v~i~g~ 58 (60)
T PF00462_consen 20 DEKGIPYEEVDVDEDE---E---AREELKELSGVRTVPQVFIDGK 58 (60)
T ss_dssp HHTTBEEEEEEGGGSH---H---HHHHHHHHHSSSSSSEEEETTE
T ss_pred HHcCCeeeEcccccch---h---HHHHHHHHcCCCccCEEEECCE
Confidence 3333344556666553 1 22223332 3367998888765
No 467
>PRK13556 azoreductase; Provisional
Probab=33.37 E-value=1e+02 Score=17.89 Aligned_cols=33 Identities=9% Similarity=0.078 Sum_probs=21.6
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHh
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDH 38 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~ 38 (72)
-++.||++|+++-+=+-.==..++.|++.+...
T Consensus 86 ~l~~AD~iVi~~P~yn~~~Pa~LK~~iD~v~~~ 118 (208)
T PRK13556 86 QFLEADKVVFAFPLWNFTIPAVLHTYIDYLNRA 118 (208)
T ss_pred HHHHCCEEEEeccccccCCcHHHHHHHHHHhcC
Confidence 356799999987665533223457788887653
No 468
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=33.25 E-value=75 Score=16.31 Aligned_cols=35 Identities=17% Similarity=0.337 Sum_probs=19.1
Q ss_pred EEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEee
Q 047889 15 LVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGN 50 (72)
Q Consensus 15 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgn 50 (72)
+.++.....++.......+.+++.. +++++++-|.
T Consensus 55 V~iS~~~~~~~~~~~~l~~~~k~~~-p~~~iv~GG~ 89 (121)
T PF02310_consen 55 VGISVSMTPNLPEAKRLARAIKERN-PNIPIVVGGP 89 (121)
T ss_dssp EEEEESSSTHHHHHHHHHHHHHTTC-TTSEEEEEES
T ss_pred EEEEccCcCcHHHHHHHHHHHHhcC-CCCEEEEECC
Confidence 4445544555666666666655443 5666555443
No 469
>COG1343 CRISPR-associated protein Cas2 [Defense mechanisms]
Probab=33.06 E-value=76 Score=16.37 Aligned_cols=11 Identities=36% Similarity=0.797 Sum_probs=8.3
Q ss_pred EEEEEECCChh
Q 047889 13 ALLVYDVTKST 23 (72)
Q Consensus 13 ~i~v~d~~~~~ 23 (72)
+++|||+++..
T Consensus 3 vlvvYDI~~d~ 13 (89)
T COG1343 3 VLVVYDISDDG 13 (89)
T ss_pred EEEEEecCCcH
Confidence 67788888774
No 470
>TIGR02181 GRX_bact Glutaredoxin, GrxC family. This family of glutaredoxins includes the E. coli protein GrxC (Grx3) which appears to have a secondary role in reducing ribonucleotide reductase (in the absence of GrxA) possibly indicating a role in the reduction of other protein disulfides.
Probab=32.85 E-value=63 Score=15.31 Aligned_cols=12 Identities=17% Similarity=0.420 Sum_probs=9.2
Q ss_pred CCCeEEEEeeCC
Q 047889 41 SNIVIMLIGNKS 52 (72)
Q Consensus 41 ~~~~~vlvgnK~ 52 (72)
..+|.++++.+.
T Consensus 48 ~~vP~i~i~g~~ 59 (79)
T TIGR02181 48 RTVPQIFIGDVH 59 (79)
T ss_pred CCcCEEEECCEE
Confidence 679999887653
No 471
>PHA02763 hypothetical protein; Provisional
Probab=32.84 E-value=64 Score=16.73 Aligned_cols=17 Identities=41% Similarity=0.804 Sum_probs=14.2
Q ss_pred hhHHHHHHHHHHHHHhc
Q 047889 23 TTFENVSRWLKDLRDHA 39 (72)
Q Consensus 23 ~s~~~~~~~~~~~~~~~ 39 (72)
+.|+++..|+.+.++.-
T Consensus 65 SGFe~VEeWl~eArrLh 81 (102)
T PHA02763 65 SGFENVEEWLNEARRLH 81 (102)
T ss_pred cchhhHHHHHHHHHHHh
Confidence 56899999999988764
No 472
>PF13462 Thioredoxin_4: Thioredoxin; PDB: 3FEU_A 3HZ8_A 3DVW_A 3A3T_E 3GMF_A 1Z6M_A 3GYK_C 3BCK_A 3BD2_A 3BCI_A ....
Probab=32.83 E-value=85 Score=16.84 Aligned_cols=41 Identities=12% Similarity=-0.086 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHH
Q 047889 26 ENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKS 69 (72)
Q Consensus 26 ~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a 69 (72)
..+..+....++..-..+|.++|+.|. +. ...+.++..++.
T Consensus 120 ~~~~~~~~~~~~~~i~~tPt~~inG~~-~~--~~~~~~~l~~~I 160 (162)
T PF13462_consen 120 AQLEADSQLARQLGITGTPTFFINGKY-VV--GPYTIEELKELI 160 (162)
T ss_dssp HHHHHHHHHHHHHT-SSSSEEEETTCE-EE--TTTSHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccccEEEECCEE-eC--CCCCHHHHHHHH
Confidence 334444555555444689988887776 32 245566655544
No 473
>KOG1036 consensus Mitotic spindle checkpoint protein BUB3, WD repeat superfamily [Cell cycle control, cell division, chromosome partitioning]
Probab=32.71 E-value=36 Score=21.74 Aligned_cols=24 Identities=13% Similarity=0.458 Sum_probs=19.3
Q ss_pred hCCCEEEEEEECCChhhHHHHHHH
Q 047889 8 RGALGALLVYDVTKSTTFENVSRW 31 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~~~~ 31 (72)
.++||++..||..++..+.++..+
T Consensus 250 gGsDG~V~~Wd~~~rKrl~q~~~~ 273 (323)
T KOG1036|consen 250 GGSDGIVNIWDLFNRKRLKQLAKY 273 (323)
T ss_pred cCCCceEEEccCcchhhhhhccCC
Confidence 478999999999999877665443
No 474
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=32.66 E-value=98 Score=17.51 Aligned_cols=22 Identities=18% Similarity=0.428 Sum_probs=13.6
Q ss_pred HHHHHHHHHhcCCCCeEEEEee
Q 047889 29 SRWLKDLRDHAGSNIVIMLIGN 50 (72)
Q Consensus 29 ~~~~~~~~~~~~~~~~~vlvgn 50 (72)
+..++.++.....+.|++|.|.
T Consensus 9 ~~~~~~~~~~a~~~~pVlI~GE 30 (168)
T PF00158_consen 9 KRLREQAKRAASSDLPVLITGE 30 (168)
T ss_dssp HHHHHHHHHHTTSTS-EEEECS
T ss_pred HHHHHHHHHHhCCCCCEEEEcC
Confidence 4445556666666788888773
No 475
>cd08578 GDPD_NUC-2_fungi Putative glycerophosphodiester phosphodiesterase domain of ankyrin repeat protein NUC-2 and similar proteins. This subfamily corresponds to a putative glycerophosphodiester phosphodiesterase domain (GDPD) present in Neurospora crassa ankyrin repeat protein NUC-2 and its Saccharomyces cerevisiae counterpart, Phosphate system positive regulatory protein PHO81. Some uncharecaterized NUC-2 sequence homologs are also included in this family. NUC-2 plays an important role in the phosphate-regulated signal transduction pathway in Neurospora crassa. It shows high similarity to a cyclin-dependent kinase inhibitory protein PHO81, which is part of the phosphate regulatory cascade in S. cerevisiae. Both NUC-2 and PHO81 have multi-domain architecture, including an SPX N-terminal domain following by several ankyrin repeats and a putative C-terminal GDPD domain with unknown function. Although the putative GDPD domain displays sequence homology to that of bacterial glycerophos
Probab=32.48 E-value=1.3e+02 Score=18.95 Aligned_cols=17 Identities=6% Similarity=-0.054 Sum_probs=12.9
Q ss_pred cccccCCHHHHHHHHhc
Q 047889 55 KHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 55 ~~~~~v~~~e~~~~a~~ 71 (72)
.+.|..+.++|..||++
T Consensus 224 ~d~r~~Si~~Av~fA~~ 240 (300)
T cd08578 224 ADPRSRSIKEAVRFAKN 240 (300)
T ss_pred cCchhhhHHHHHHHHHH
Confidence 34567888999999875
No 476
>cd07400 MPP_YydB Bacillus subtilis YydB and related proteins, metallophosphatase domain. YydB (BSU40220) is an uncharacterized Bacillus subtilis protein that belongs to the following Bacillus subtilis gene cluster yydB-yydC-yydD-yydG-yydH-yydI-yydJ. YydB belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productiv
Probab=32.14 E-value=85 Score=16.63 Aligned_cols=28 Identities=21% Similarity=0.264 Sum_probs=17.7
Q ss_pred hCCCEEEEEEECCChhh---HHHHHHHHHHH
Q 047889 8 RGALGALLVYDVTKSTT---FENVSRWLKDL 35 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s---~~~~~~~~~~~ 35 (72)
.+.|.+++.-|+.+... +.....+++.+
T Consensus 34 ~~~d~vi~~GDl~~~~~~~~~~~~~~~~~~l 64 (144)
T cd07400 34 LDPDLVVITGDLTQRGLPEEFEEAREFLDAL 64 (144)
T ss_pred cCCCEEEECCCCCCCCCHHHHHHHHHHHHHc
Confidence 45788999889887643 34444444444
No 477
>PF00149 Metallophos: Calcineurin-like phosphoesterase; InterPro: IPR004843 This domain is found in a diverse range of phosphoesterases [], including protein phosphoserine phosphatases, nucleotidases, sphingomyelin phosphodiesterases and 2'-3' cAMP phosphodiesterases, as well as nucleases such as bacterial SbcD or yeast MRE11. The most conserved regions in this domain centre around the metal chelating residues.; GO: 0016787 hydrolase activity; PDB: 2IAE_C 3DW8_F 3FGA_C 2IE4_C 2NYM_C 2NYL_C 3K7V_C 2NPP_C 2IE3_C 3K7W_C ....
Probab=32.09 E-value=79 Score=16.22 Aligned_cols=21 Identities=5% Similarity=-0.088 Sum_probs=15.5
Q ss_pred hCCCEEEEEEECCChhhHHHH
Q 047889 8 RGALGALLVYDVTKSTTFENV 28 (72)
Q Consensus 8 ~~a~~~i~v~d~~~~~s~~~~ 28 (72)
.+.+.+|+.-|+.+.......
T Consensus 30 ~~~d~ii~~GD~~~~~~~~~~ 50 (200)
T PF00149_consen 30 NKPDFIIFLGDLVDGGNPSEE 50 (200)
T ss_dssp TTTSEEEEESTSSSSSSHHHH
T ss_pred CCCCEEEeecccccccccccc
Confidence 467888899999887655443
No 478
>TIGR01968 minD_bact septum site-determining protein MinD. This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.
Probab=31.99 E-value=1.1e+02 Score=17.90 Aligned_cols=45 Identities=20% Similarity=0.103 Sum_probs=30.8
Q ss_pred hhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 7 YRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
...+|.++++... +..++..+...++.+.+.. ..++.++.|+.+-
T Consensus 131 l~~aD~viiv~~~-~~~s~~~~~~~~~~l~~~~--~~~~~iviN~~~~ 175 (261)
T TIGR01968 131 VAPADEAIVVTTP-EVSAVRDADRVIGLLEAKG--IEKIHLIVNRLRP 175 (261)
T ss_pred HHhCCeEEEEcCC-CcHHHHHHHHHHHHHHHcC--CCceEEEEeCcCc
Confidence 4568888888765 4667777777776666543 2356777898875
No 479
>cd01336 MDH_cytoplasmic_cytosolic Cytoplasmic and cytosolic Malate dehydrogenases. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. Members of this subfamily are eukaryotic MDHs localized to the cytoplasm and cytosol. MDHs are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenases, aminoacid dehydrogenases, repressor rex, and NAD-binding potassium channel domains, among others.
Probab=31.80 E-value=1.2e+02 Score=19.25 Aligned_cols=49 Identities=16% Similarity=0.220 Sum_probs=31.0
Q ss_pred hhhCCCEEEEEEECCChhh---HHH-------HHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 6 YYRGALGALLVYDVTKSTT---FEN-------VSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s---~~~-------~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
-++++|.+++.-....... .+. ++.+.+.+..+..++..+++++|=.|.
T Consensus 75 ~l~~aDiVI~tAG~~~~~~~~R~~l~~~N~~i~~~i~~~i~~~~~~~~iiivvsNPvD~ 133 (325)
T cd01336 75 AFKDVDVAILVGAMPRKEGMERKDLLKANVKIFKEQGEALDKYAKKNVKVLVVGNPANT 133 (325)
T ss_pred HhCCCCEEEEeCCcCCCCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCeEEEEecCcHHH
Confidence 3678999998877754321 111 234445555554457778889997775
No 480
>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.68 E-value=1.4e+02 Score=18.95 Aligned_cols=49 Identities=16% Similarity=0.193 Sum_probs=30.4
Q ss_pred chhhCCCEEEEEEECCCh--hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 5 AYYRGALGALLVYDVTKS--TTFENVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~--~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
.-|+++-+.++|.|..+. +.+..+.......... .+++.+=+.-.|.|=
T Consensus 97 ~iF~~~gALifvIDaQddy~eala~L~~~v~raykv-Np~in~EVfiHKvDG 147 (347)
T KOG3887|consen 97 MIFRGVGALIFVIDAQDDYMEALARLHMTVERAYKV-NPNINFEVFIHKVDG 147 (347)
T ss_pred HHHhccCeEEEEEechHHHHHHHHHHHHHhhheeec-CCCceEEEEEEeccC
Confidence 457889999999987653 2333333333333222 267777778899984
No 481
>PF05577 Peptidase_S28: Serine carboxypeptidase S28; InterPro: IPR008758 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to MEROPS peptidase family S28 (clan SC). The predicted active site residues for members of this family and family S10 occur in the same order in the sequence: S, D, H. These serine proteases include several eukaryotic enzymes such as lysosomal Pro-X carboxypeptidase, dipeptidyl-peptidase II, and thymus-specific serine peptidase [, , , ].; GO: 0008236 serine-type peptidase activity, 0006508 proteolysis; PDB: 3N2Z_B 3JYH_A 3N0T_C.
Probab=31.53 E-value=1.1e+02 Score=19.90 Aligned_cols=32 Identities=9% Similarity=0.333 Sum_probs=21.1
Q ss_pred CCChhhHHHHHHHHHHHHHhc--CCCCeEEEEee
Q 047889 19 VTKSTTFENVSRWLKDLRDHA--GSNIVIMLIGN 50 (72)
Q Consensus 19 ~~~~~s~~~~~~~~~~~~~~~--~~~~~~vlvgn 50 (72)
++....+.++.+++..++... .++.|+|++|.
T Consensus 87 Lt~~QALaD~a~F~~~~~~~~~~~~~~pwI~~Gg 120 (434)
T PF05577_consen 87 LTSEQALADLAYFIRYVKKKYNTAPNSPWIVFGG 120 (434)
T ss_dssp -SHHHHHHHHHHHHHHHHHHTTTGCC--EEEEEE
T ss_pred cCHHHHHHHHHHHHHHHHHhhcCCCCCCEEEECC
Confidence 455677888888887777443 36789999985
No 482
>smart00432 MADS MADS domain.
Probab=31.41 E-value=51 Score=15.52 Aligned_cols=16 Identities=31% Similarity=0.254 Sum_probs=12.5
Q ss_pred hhCCCEEEEEEECCCh
Q 047889 7 YRGALGALLVYDVTKS 22 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~ 22 (72)
+-++++.+++|+.+..
T Consensus 37 Lc~~~v~~iv~sp~g~ 52 (59)
T smart00432 37 LCDAEVALIVFSPTGK 52 (59)
T ss_pred ccCCeEEEEEECCCCC
Confidence 4578999999987764
No 483
>PTZ00082 L-lactate dehydrogenase; Provisional
Probab=31.36 E-value=1.2e+02 Score=19.16 Aligned_cols=48 Identities=15% Similarity=0.195 Sum_probs=29.3
Q ss_pred hhhCCCEEEEEEECCC---------------hhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 6 YYRGALGALLVYDVTK---------------STTFENVSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~---------------~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
-+++||.+|+...... .....-++.+.+.+.+.. ++.-++++.|-+|+
T Consensus 71 ~l~~aDiVI~tag~~~~~~~~~~~~~r~~~l~~n~~i~~~i~~~i~~~~-p~a~~iv~sNP~di 133 (321)
T PTZ00082 71 DIAGSDVVIVTAGLTKRPGKSDKEWNRDDLLPLNAKIMDEVAEGIKKYC-PNAFVIVITNPLDV 133 (321)
T ss_pred HhCCCCEEEECCCCCCCCCCCcCCCCHHHHHHHHHHHHHHHHHHHHHHC-CCeEEEEecCcHHH
Confidence 3578888888664421 112333455666666665 55567888888875
No 484
>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.
Probab=31.34 E-value=76 Score=15.81 Aligned_cols=27 Identities=11% Similarity=0.105 Sum_probs=19.0
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHH
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLK 33 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~ 33 (72)
.+..+|.++++.+. +..++..+..+.+
T Consensus 58 ~l~~ad~viv~~~~-~~~s~~~~~~~~~ 84 (104)
T cd02042 58 ALAAADLVLIPVQP-SPLDLDGLEKLLE 84 (104)
T ss_pred HHHHCCEEEEeccC-CHHHHHHHHHHHH
Confidence 34568888888765 5667777777665
No 485
>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.
Probab=31.31 E-value=1.1e+02 Score=17.64 Aligned_cols=61 Identities=13% Similarity=0.254 Sum_probs=33.9
Q ss_pred hhCCCEEEEEEECCCh-------hhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 7 YRGALGALLVYDVTKS-------TTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~-------~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
.+....=.++||.+|- +--..+..|++++++... .--+++|-|-.-... ....++++.+++
T Consensus 36 Lk~~Gik~li~DkDNTL~~~~~~~i~~~~~~~~~~l~~~~~-~~~v~IvSNsaGs~~--d~~~~~a~~~~~ 103 (168)
T PF09419_consen 36 LKKKGIKALIFDKDNTLTPPYEDEIPPEYAEWLNELKKQFG-KDRVLIVSNSAGSSD--DPDGERAEALEK 103 (168)
T ss_pred hhhcCceEEEEcCCCCCCCCCcCcCCHHHHHHHHHHHHHCC-CCeEEEEECCCCccc--CccHHHHHHHHH
Confidence 3444445567777662 223567788888887652 225788888653322 233445554443
No 486
>PRK11537 putative GTP-binding protein YjiA; Provisional
Probab=31.26 E-value=1.4e+02 Score=18.87 Aligned_cols=11 Identities=18% Similarity=0.286 Sum_probs=8.9
Q ss_pred EEEeeCCCCcc
Q 047889 46 MLIGNKSDLKH 56 (72)
Q Consensus 46 vlvgnK~Dl~~ 56 (72)
+++-||.|+..
T Consensus 154 ~IvlnK~Dl~~ 164 (318)
T PRK11537 154 RILLTKTDVAG 164 (318)
T ss_pred EEEEeccccCC
Confidence 67779999865
No 487
>TIGR01232 lacD tagatose 1,6-diphosphate aldolase. This family consists of Gram-positive proteins. Tagatose 1,6-diphosphate aldolase is part of the tagatose-6-phosphate pathway of galactose-6-phosphate degradation.
Probab=30.75 E-value=1.5e+02 Score=19.13 Aligned_cols=37 Identities=19% Similarity=0.289 Sum_probs=26.5
Q ss_pred EEEEEECCChhhHHHH-HHHHHHHHHhcC-CCCeEEEEe
Q 047889 13 ALLVYDVTKSTTFENV-SRWLKDLRDHAG-SNIVIMLIG 49 (72)
Q Consensus 13 ~i~v~d~~~~~s~~~~-~~~~~~~~~~~~-~~~~~vlvg 49 (72)
+++-|++++..-.+.. ..|++.+..... .++|.+|=-
T Consensus 125 ~Llyy~pD~~~ein~~k~a~vervg~ec~a~dipf~lE~ 163 (325)
T TIGR01232 125 FLLYYDVDDAEEINIQKKAYIERIGSECVAEDIPFFLEV 163 (325)
T ss_pred EEEEeCCCCChHHHHHHHHHHHHHHHHHHHCCCCeEEEE
Confidence 5778899987777776 557777766543 678877743
No 488
>PF06582 DUF1136: Repeat of unknown function (DUF1136); InterPro: IPR010939 This family consists of several eukaryote specific repeats of unknown function. This repeat seems to always be found with IPR007110 from INTERPRO.
Probab=30.12 E-value=47 Score=13.24 Aligned_cols=16 Identities=13% Similarity=0.410 Sum_probs=11.0
Q ss_pred EEECCChhhHHHHHHH
Q 047889 16 VYDVTKSTTFENVSRW 31 (72)
Q Consensus 16 v~d~~~~~s~~~~~~~ 31 (72)
++|...+++++.|+..
T Consensus 2 ~~dTQhp~~lekIq~L 17 (28)
T PF06582_consen 2 ILDTQHPESLEKIQEL 17 (28)
T ss_pred cccccCHHHHHHHHHH
Confidence 4567778888776653
No 489
>COG0647 NagD Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]
Probab=29.70 E-value=72 Score=19.82 Aligned_cols=41 Identities=17% Similarity=0.244 Sum_probs=28.4
Q ss_pred hhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCC
Q 047889 6 YYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSD 53 (72)
Q Consensus 6 y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~D 53 (72)
|+-+.||+++. ..+.+.....+++.+++. ++|++++-|..-
T Consensus 11 ~l~DlDGvl~~----G~~~ipga~e~l~~L~~~---g~~~iflTNn~~ 51 (269)
T COG0647 11 FLFDLDGVLYR----GNEAIPGAAEALKRLKAA---GKPVIFLTNNST 51 (269)
T ss_pred EEEcCcCceEe----CCccCchHHHHHHHHHHc---CCeEEEEeCCCC
Confidence 45556666653 456677777777777764 589999988664
No 490
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=29.51 E-value=1.5e+02 Score=18.57 Aligned_cols=58 Identities=16% Similarity=0.149 Sum_probs=34.6
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEEeeCCCCcccccCCHHHHHHHHh
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLIGNKSDLKHLLNSMCEEYLIKSR 70 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~Dl~~~~~v~~~e~~~~a~ 70 (72)
++|+++++--.=.+.+-+.+..|+..+.+.. +.|+++-=+ -......++.+...++++
T Consensus 99 Gad~il~v~PyY~k~~~~gl~~hf~~ia~a~--~lPvilYN~--P~~tg~~l~~e~i~~la~ 156 (299)
T COG0329 99 GADGILVVPPYYNKPSQEGLYAHFKAIAEAV--DLPVILYNI--PSRTGVDLSPETIARLAE 156 (299)
T ss_pred CCCEEEEeCCCCcCCChHHHHHHHHHHHHhc--CCCEEEEeC--ccccCCCCCHHHHHHHhc
Confidence 6788888766666666777777777776654 678666321 111123345555555553
No 491
>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]
Probab=29.48 E-value=79 Score=21.31 Aligned_cols=17 Identities=29% Similarity=0.302 Sum_probs=14.6
Q ss_pred CCCeEEEEeeCCCCccc
Q 047889 41 SNIVIMLIGNKSDLKHL 57 (72)
Q Consensus 41 ~~~~~vlvgnK~Dl~~~ 57 (72)
-++|++++-+|+|+...
T Consensus 302 L~iPfFvlvtK~Dl~~~ 318 (591)
T KOG1143|consen 302 LNIPFFVLVTKMDLVDR 318 (591)
T ss_pred hCCCeEEEEEeeccccc
Confidence 46999999999999764
No 492
>COG3253 ywfI Predicted heme peroxidase involved in anaerobic stress response [General function prediction only]
Probab=29.36 E-value=1.4e+02 Score=18.30 Aligned_cols=43 Identities=12% Similarity=0.328 Sum_probs=27.0
Q ss_pred EEEEEECCChhhHHHHHHH--HHHHHHhcCCCCeEEEEeeCCCCcc
Q 047889 13 ALLVYDVTKSTTFENVSRW--LKDLRDHAGSNIVIMLIGNKSDLKH 56 (72)
Q Consensus 13 ~i~v~d~~~~~s~~~~~~~--~~~~~~~~~~~~~~vlvgnK~Dl~~ 56 (72)
+++.|...+...|..+-+- ..+.+.......| +++|++.++.+
T Consensus 180 wvV~~e~ddi~~~v~lv~elR~~EAr~~~~~e~p-ff~G~~~~~~~ 224 (230)
T COG3253 180 WVVTYEADDILAWVDLVEELRFTEARKWIGEETP-FFVGRRVPLED 224 (230)
T ss_pred EEEEEecCcHHHHHHHHHHHHHHHHHHHHhccCC-eeeecccCHHH
Confidence 5677888888777766332 2223333335566 67899998754
No 493
>cd00120 MADS MADS: MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptonal regulators. Binds DNA and exists as hetero and homo-dimers. Composed of 2 main subgroups: SRF-like/Type I and MEF2-like (myocyte enhancer factor 2)/ Type II. These subgroups differ mainly in position of the alpha 2 helix responsible for the dimerization interface; Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=28.96 E-value=65 Score=15.13 Aligned_cols=16 Identities=19% Similarity=0.187 Sum_probs=12.4
Q ss_pred hhCCCEEEEEEECCCh
Q 047889 7 YRGALGALLVYDVTKS 22 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~ 22 (72)
+-++++.+++|+.+..
T Consensus 37 Lc~~~v~~iv~sp~g~ 52 (59)
T cd00120 37 LCDAEVAVIVFSPSGK 52 (59)
T ss_pred ccCCcEEEEEECCCCC
Confidence 4578899999987754
No 494
>PTZ00325 malate dehydrogenase; Provisional
Probab=28.84 E-value=1.3e+02 Score=19.12 Aligned_cols=49 Identities=18% Similarity=0.274 Sum_probs=31.2
Q ss_pred chhhCCCEEEEEEECCChhh------HHH----HHHHHHHHHHhcCCCCeEEEEeeCCCC
Q 047889 5 AYYRGALGALLVYDVTKSTT------FEN----VSRWLKDLRDHAGSNIVIMLIGNKSDL 54 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s------~~~----~~~~~~~~~~~~~~~~~~vlvgnK~Dl 54 (72)
.-+.++|++++......... +.. ++...+.+..+. .+..++++.|=+|.
T Consensus 72 ~~l~gaDvVVitaG~~~~~~~tR~dll~~N~~i~~~i~~~i~~~~-~~~iviv~SNPvdv 130 (321)
T PTZ00325 72 KALRGADLVLICAGVPRKPGMTRDDLFNTNAPIVRDLVAAVASSA-PKAIVGIVSNPVNS 130 (321)
T ss_pred HHhCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHC-CCeEEEEecCcHHH
Confidence 35678999999887754421 211 244555555554 56678888888875
No 495
>PRK06703 flavodoxin; Provisional
Probab=28.79 E-value=1.1e+02 Score=16.67 Aligned_cols=44 Identities=14% Similarity=0.082 Sum_probs=21.5
Q ss_pred hhCCCEEEEEEECCChhhH-HHHHHHHHHHHHhcCCCCeEEEEee
Q 047889 7 YRGALGALLVYDVTKSTTF-ENVSRWLKDLRDHAGSNIVIMLIGN 50 (72)
Q Consensus 7 ~~~a~~~i~v~d~~~~~s~-~~~~~~~~~~~~~~~~~~~~vlvgn 50 (72)
+.+.+.++++...-....+ ..+..+++.+.+....+.++.++|.
T Consensus 46 l~~~d~viigspt~~~g~~p~~~~~f~~~l~~~~l~~k~~~vfg~ 90 (151)
T PRK06703 46 LLAYDGIILGSYTWGDGDLPYEAEDFHEDLENIDLSGKKVAVFGS 90 (151)
T ss_pred HhcCCcEEEEECCCCCCcCcHHHHHHHHHHhcCCCCCCEEEEEcc
Confidence 4466777776654432111 1234444444432234556666653
No 496
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=28.74 E-value=89 Score=15.79 Aligned_cols=38 Identities=13% Similarity=0.086 Sum_probs=25.8
Q ss_pred chhhCCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCeEEEE
Q 047889 5 AYYRGALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIVIMLI 48 (72)
Q Consensus 5 ~y~~~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~vlv 48 (72)
.-...+|.+|++-|..+..+...++.. .+. .++|++.+
T Consensus 44 ~~i~~aD~VIv~t~~vsH~~~~~vk~~---akk---~~ip~~~~ 81 (97)
T PF10087_consen 44 SKIKKADLVIVFTDYVSHNAMWKVKKA---AKK---YGIPIIYS 81 (97)
T ss_pred HhcCCCCEEEEEeCCcChHHHHHHHHH---HHH---cCCcEEEE
Confidence 345678999999998888776665442 222 45787765
No 497
>PF12757 DUF3812: Protein of unknown function (DUF3812); InterPro: IPR024527 This family of fungal proteins represents the eisosome 1 family. Eisosome protein 1 is required for normal formation of eisosomes, large cytoplasmic protein assemblies that localize to specialised domains on plasma membrane and mark the site of endocytosis [].
Probab=28.69 E-value=45 Score=18.17 Aligned_cols=24 Identities=25% Similarity=-0.014 Sum_probs=19.5
Q ss_pred EeeCCCCcccccCCHHHHHHHHhc
Q 047889 48 IGNKSDLKHLLNSMCEEYLIKSRS 71 (72)
Q Consensus 48 vgnK~Dl~~~~~v~~~e~~~~a~~ 71 (72)
-.+|+||....-++.++...+|++
T Consensus 57 ~~gkV~lGGGl~m~~~evd~IA~~ 80 (126)
T PF12757_consen 57 NAGKVNLGGGLFMDQEEVDAIARK 80 (126)
T ss_pred CCCeeeCCCCcccCHHHHHHHHHH
Confidence 356888988888999999888865
No 498
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=28.67 E-value=1e+02 Score=18.08 Aligned_cols=28 Identities=18% Similarity=0.557 Sum_probs=20.7
Q ss_pred hhhHHHHHHHHHHHHHhcCCCCeEEEEeeCC
Q 047889 22 STTFENVSRWLKDLRDHAGSNIVIMLIGNKS 52 (72)
Q Consensus 22 ~~s~~~~~~~~~~~~~~~~~~~~~vlvgnK~ 52 (72)
++.-..++.|+.+++.. .+-++++-|..
T Consensus 45 ~~~tpe~~~W~~e~k~~---gi~v~vvSNn~ 72 (175)
T COG2179 45 PDATPELRAWLAELKEA---GIKVVVVSNNK 72 (175)
T ss_pred CCCCHHHHHHHHHHHhc---CCEEEEEeCCC
Confidence 45556788999998875 37788888854
No 499
>PF08438 MMR_HSR1_C: GTPase of unknown function C-terminal; InterPro: IPR013646 This domain is found at the C terminus of IPR002917 from INTERPRO in archaeal and eukaryotic GTP-binding proteins. ; PDB: 1WXQ_A.
Probab=28.33 E-value=24 Score=18.92 Aligned_cols=8 Identities=50% Similarity=0.663 Sum_probs=5.0
Q ss_pred EeeCCCCc
Q 047889 48 IGNKSDLK 55 (72)
Q Consensus 48 vgnK~Dl~ 55 (72)
++||+|++
T Consensus 1 AaNK~D~~ 8 (109)
T PF08438_consen 1 AANKADLP 8 (109)
T ss_dssp EEE-GGG-
T ss_pred CCcccccc
Confidence 58999984
No 500
>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=28.32 E-value=2.4e+02 Score=20.58 Aligned_cols=56 Identities=14% Similarity=-0.008 Sum_probs=0.0
Q ss_pred CCCEEEEEEECCChhhHHHHHHHHHHHHHhcCCCCe--EEEEeeCCCCccccc-----CCHHH
Q 047889 9 GALGALLVYDVTKSTTFENVSRWLKDLRDHAGSNIV--IMLIGNKSDLKHLLN-----SMCEE 64 (72)
Q Consensus 9 ~a~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~--~vlvgnK~Dl~~~~~-----v~~~e 64 (72)
+.|++++|..++.......-..+++.++...+..+- +|||.+.-|...... ++.++
T Consensus 201 gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lppdg~ng~~~tye~ 263 (763)
T TIGR00993 201 PPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAPPDGPNGTPLSYDV 263 (763)
T ss_pred CCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCCCCCCCCCCcCHHH
Done!