Query 037770
Match_columns 65
No_of_seqs 108 out of 1108
Neff 10.6
Searched_HMMs 46136
Date Fri Mar 29 04:13:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037770.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037770hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0084 GTPase Rab1/YPT1, smal 99.9 2.4E-21 5.2E-26 100.0 6.0 59 6-64 53-111 (205)
2 KOG0070 GTP-binding ADP-ribosy 99.8 6.5E-20 1.4E-24 93.8 8.0 64 1-64 51-114 (181)
3 KOG0092 GTPase Rab5/YPT51 and 99.8 1.5E-19 3.2E-24 93.1 7.3 62 3-64 44-107 (200)
4 KOG0071 GTP-binding ADP-ribosy 99.8 3.3E-19 7.2E-24 88.6 7.3 64 1-64 51-114 (180)
5 KOG0098 GTPase Rab2, small G p 99.8 7.3E-19 1.6E-23 90.5 6.4 61 4-64 48-108 (216)
6 KOG0079 GTP-binding protein H- 99.8 2E-18 4.3E-23 86.6 6.5 63 1-63 45-109 (198)
7 KOG0080 GTPase Rab18, small G 99.8 2.3E-18 5E-23 87.3 5.8 58 3-60 52-109 (209)
8 KOG0078 GTP-binding protein SE 99.8 1.1E-17 2.3E-22 87.2 7.6 64 1-64 49-114 (207)
9 KOG0087 GTPase Rab11/YPT3, sma 99.7 2.2E-18 4.8E-23 89.9 4.7 60 5-64 57-116 (222)
10 KOG0073 GTP-binding ADP-ribosy 99.7 1.7E-17 3.7E-22 84.0 7.7 63 1-63 50-112 (185)
11 KOG0094 GTPase Rab6/YPT6/Ryh1, 99.7 8.9E-18 1.9E-22 87.0 6.8 58 6-63 66-123 (221)
12 KOG0083 GTPase Rab26/Rab37, sm 99.7 6.7E-18 1.4E-22 83.6 5.0 57 5-61 41-97 (192)
13 KOG0088 GTPase Rab21, small G 99.7 8.8E-18 1.9E-22 85.1 4.1 56 7-62 58-113 (218)
14 KOG0086 GTPase Rab4, small G p 99.7 4E-17 8.8E-22 82.4 5.7 59 3-61 50-108 (214)
15 cd04120 Rab12 Rab12 subfamily. 99.7 1.7E-16 3.8E-21 83.2 8.3 58 4-61 40-99 (202)
16 KOG0075 GTP-binding ADP-ribosy 99.7 1.4E-16 3.1E-21 79.8 6.7 63 1-63 55-117 (186)
17 PF00025 Arf: ADP-ribosylation 99.7 3E-16 6.6E-21 80.6 8.1 64 1-64 48-111 (175)
18 KOG0093 GTPase Rab3, small G p 99.7 2.5E-16 5.3E-21 79.0 7.5 61 1-61 58-120 (193)
19 KOG0091 GTPase Rab39, small G 99.7 5.1E-17 1.1E-21 82.6 5.0 55 7-61 54-108 (213)
20 KOG0074 GTP-binding ADP-ribosy 99.7 4.2E-16 9E-21 77.8 8.0 63 1-63 51-114 (185)
21 PLN00223 ADP-ribosylation fact 99.7 6.6E-16 1.4E-20 79.7 8.1 62 2-63 52-113 (181)
22 cd04121 Rab40 Rab40 subfamily. 99.7 7.4E-16 1.6E-20 80.1 8.0 55 9-63 53-107 (189)
23 cd04150 Arf1_5_like Arf1-Arf5- 99.7 1.9E-15 4.1E-20 76.4 8.6 62 2-63 35-96 (159)
24 KOG0095 GTPase Rab30, small G 99.7 5.7E-16 1.2E-20 78.0 6.2 62 1-62 44-107 (213)
25 KOG0072 GTP-binding ADP-ribosy 99.7 3.8E-16 8.3E-21 78.1 5.5 63 1-63 52-114 (182)
26 smart00177 ARF ARF-like small 99.7 2.6E-15 5.6E-20 76.9 8.8 62 2-63 48-109 (175)
27 cd04102 RabL3 RabL3 (Rab-like3 99.7 1.5E-15 3.3E-20 79.7 7.9 54 9-62 52-105 (202)
28 PTZ00099 rab6; Provisional 99.6 7.4E-16 1.6E-20 79.3 5.9 57 7-63 25-81 (176)
29 cd04149 Arf6 Arf6 subfamily. 99.6 4.3E-15 9.4E-20 75.8 8.5 61 3-63 45-105 (168)
30 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 99.6 9.6E-16 2.1E-20 79.2 6.1 56 7-62 49-105 (182)
31 KOG0081 GTPase Rab27, small G 99.6 4E-16 8.6E-21 79.2 4.3 55 10-64 66-120 (219)
32 cd01875 RhoG RhoG subfamily. 99.6 1.2E-15 2.5E-20 79.2 6.1 56 6-61 46-102 (191)
33 cd04133 Rop_like Rop subfamily 99.6 1.1E-15 2.5E-20 78.6 5.9 56 7-62 45-101 (176)
34 PTZ00133 ADP-ribosylation fact 99.6 7E-15 1.5E-19 75.9 8.6 62 2-63 52-113 (182)
35 cd04162 Arl9_Arfrp2_like Arl9/ 99.6 9.9E-15 2.1E-19 74.2 8.8 60 3-62 36-95 (164)
36 smart00176 RAN Ran (Ras-relate 99.6 2.6E-15 5.7E-20 78.6 6.3 55 8-62 41-95 (200)
37 cd04131 Rnd Rnd subfamily. Th 99.6 2.1E-15 4.5E-20 77.7 5.6 56 7-62 45-101 (178)
38 cd04161 Arl2l1_Arl13_like Arl2 99.6 1.3E-14 2.9E-19 73.8 8.4 62 2-63 34-95 (167)
39 cd04174 Rnd1_Rho6 Rnd1/Rho6 su 99.6 4E-15 8.7E-20 79.4 6.4 56 7-62 57-113 (232)
40 cd04158 ARD1 ARD1 subfamily. 99.6 3.5E-14 7.6E-19 72.3 8.6 61 3-63 35-95 (169)
41 PLN00023 GTP-binding protein; 99.6 7.5E-15 1.6E-19 81.4 6.5 54 9-62 81-134 (334)
42 cd04173 Rnd2_Rho7 Rnd2/Rho7 su 99.6 6.7E-15 1.4E-19 78.2 6.1 56 6-61 44-99 (222)
43 KOG0076 GTP-binding ADP-ribosy 99.6 6.9E-15 1.5E-19 75.3 5.8 62 2-63 60-121 (197)
44 cd04128 Spg1 Spg1p. Spg1p (se 99.6 8.5E-15 1.8E-19 75.6 6.2 54 9-62 47-100 (182)
45 KOG0394 Ras-related GTPase [Ge 99.6 3.2E-15 7E-20 77.1 4.2 58 6-63 53-110 (210)
46 KOG0393 Ras-related small GTPa 99.6 9.5E-15 2.1E-19 76.2 5.4 61 5-65 46-107 (198)
47 cd04122 Rab14 Rab14 subfamily. 99.6 2.1E-14 4.6E-19 72.7 6.5 54 9-62 49-102 (166)
48 cd04107 Rab32_Rab38 Rab38/Rab3 99.6 4.8E-14 1E-18 73.5 7.4 54 8-61 47-100 (201)
49 cd01874 Cdc42 Cdc42 subfamily. 99.6 2.6E-14 5.7E-19 73.3 6.2 53 9-61 47-100 (175)
50 cd04176 Rap2 Rap2 subgroup. T 99.5 3.7E-14 8E-19 71.5 6.5 54 9-62 47-100 (163)
51 cd04108 Rab36_Rab34 Rab34/Rab3 99.5 3E-14 6.5E-19 72.8 6.0 55 9-63 47-101 (170)
52 cd04157 Arl6 Arl6 subfamily. 99.5 1.8E-13 3.8E-18 68.8 8.7 60 3-62 37-96 (162)
53 PTZ00369 Ras-like protein; Pro 99.5 5.8E-14 1.3E-18 72.7 6.7 57 6-62 48-104 (189)
54 cd01871 Rac1_like Rac1-like su 99.5 3.9E-14 8.5E-19 72.6 6.1 54 8-61 46-100 (174)
55 cd04126 Rab20 Rab20 subfamily. 99.5 1.4E-13 3E-18 73.1 8.1 55 8-62 41-95 (220)
56 KOG0097 GTPase Rab14, small G 99.5 2.9E-14 6.3E-19 71.5 5.1 58 3-60 52-109 (215)
57 PLN03071 GTP-binding nuclear p 99.5 5.5E-14 1.2E-18 74.4 6.5 54 9-62 60-113 (219)
58 cd04136 Rap_like Rap-like subf 99.5 7.3E-14 1.6E-18 70.2 6.6 54 9-62 47-100 (163)
59 cd04144 Ras2 Ras2 subfamily. 99.5 6.7E-14 1.5E-18 72.5 6.4 54 9-62 45-98 (190)
60 cd04154 Arl2 Arl2 subfamily. 99.5 2.7E-13 5.8E-18 69.2 8.4 61 2-62 49-109 (173)
61 cd04141 Rit_Rin_Ric Rit/Rin/Ri 99.5 7.1E-14 1.5E-18 71.5 6.2 55 7-61 46-100 (172)
62 cd04175 Rap1 Rap1 subgroup. T 99.5 9.3E-14 2E-18 70.2 6.5 54 9-62 47-100 (164)
63 cd04117 Rab15 Rab15 subfamily. 99.5 2.7E-13 5.9E-18 68.6 8.0 53 10-62 48-100 (161)
64 cd04151 Arl1 Arl1 subfamily. 99.5 4.7E-13 1E-17 67.4 8.6 61 2-62 34-94 (158)
65 cd04153 Arl5_Arl8 Arl5/Arl8 su 99.5 4.2E-13 9.1E-18 68.7 8.4 61 3-63 51-111 (174)
66 cd04124 RabL2 RabL2 subfamily. 99.5 1.8E-13 3.9E-18 69.2 6.5 55 8-62 46-100 (161)
67 cd04127 Rab27A Rab27a subfamil 99.5 1.1E-13 2.5E-18 70.7 5.8 53 10-62 62-114 (180)
68 cd04143 Rhes_like Rhes_like su 99.5 2.7E-13 5.8E-18 73.0 6.9 54 9-62 46-99 (247)
69 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 99.5 2.2E-13 4.8E-18 68.9 6.2 53 10-62 50-102 (166)
70 cd04116 Rab9 Rab9 subfamily. 99.5 1.9E-13 4.2E-18 69.3 5.9 55 8-62 51-105 (170)
71 cd04110 Rab35 Rab35 subfamily. 99.5 8.1E-13 1.8E-17 68.9 8.3 53 10-62 54-106 (199)
72 cd04111 Rab39 Rab39 subfamily. 99.5 2.1E-13 4.6E-18 71.8 6.1 54 10-63 51-104 (211)
73 cd01865 Rab3 Rab3 subfamily. 99.5 6.6E-13 1.4E-17 67.3 7.6 53 10-62 49-101 (165)
74 cd04109 Rab28 Rab28 subfamily. 99.5 3.1E-13 6.6E-18 71.2 6.6 53 10-62 49-101 (215)
75 smart00178 SAR Sar1p-like memb 99.5 1.1E-12 2.4E-17 67.7 8.4 60 3-62 53-112 (184)
76 cd04134 Rho3 Rho3 subfamily. 99.5 2.2E-13 4.7E-18 70.6 5.7 55 8-62 45-100 (189)
77 cd00878 Arf_Arl Arf (ADP-ribos 99.5 2.5E-12 5.5E-17 64.5 8.9 62 2-63 34-95 (158)
78 cd04119 RJL RJL (RabJ-Like) su 99.5 4.6E-13 1E-17 67.4 6.2 54 9-62 47-100 (168)
79 cd01867 Rab8_Rab10_Rab13_like 99.5 4.2E-13 9.2E-18 68.1 6.0 53 10-62 51-103 (167)
80 cd01873 RhoBTB RhoBTB subfamil 99.5 3.8E-13 8.3E-18 70.2 5.9 54 6-61 61-115 (195)
81 cd01864 Rab19 Rab19 subfamily. 99.4 1.1E-12 2.5E-17 66.3 7.4 52 11-62 52-103 (165)
82 cd01866 Rab2 Rab2 subfamily. 99.4 6.7E-13 1.5E-17 67.4 6.6 53 10-62 52-104 (168)
83 cd04112 Rab26 Rab26 subfamily. 99.4 6.4E-13 1.4E-17 68.9 6.4 54 9-62 48-101 (191)
84 PF00071 Ras: Ras family; Int 99.4 2.9E-13 6.3E-18 68.1 4.9 54 9-62 46-99 (162)
85 cd04125 RabA_like RabA-like su 99.4 6.2E-13 1.3E-17 68.7 6.1 54 9-62 47-100 (188)
86 cd00877 Ran Ran (Ras-related n 99.4 7.1E-13 1.5E-17 67.4 6.2 54 9-62 47-100 (166)
87 cd04138 H_N_K_Ras_like H-Ras/N 99.4 1.2E-12 2.6E-17 65.6 6.7 53 10-62 48-100 (162)
88 cd04145 M_R_Ras_like M-Ras/R-R 99.4 1.2E-12 2.6E-17 65.9 6.6 54 9-62 48-101 (164)
89 cd04152 Arl4_Arl7 Arl4/Arl7 su 99.4 3.2E-12 7E-17 65.9 8.4 54 9-62 50-103 (183)
90 cd04140 ARHI_like ARHI subfami 99.4 1.7E-12 3.7E-17 65.8 7.2 53 9-61 47-99 (165)
91 cd04106 Rab23_lke Rab23-like s 99.4 1.2E-12 2.6E-17 65.8 6.4 54 9-62 49-102 (162)
92 PLN03110 Rab GTPase; Provision 99.4 8.6E-13 1.9E-17 69.7 6.1 54 9-62 59-112 (216)
93 cd04130 Wrch_1 Wrch-1 subfamil 99.4 7.5E-13 1.6E-17 67.5 5.7 52 10-61 47-99 (173)
94 cd04118 Rab24 Rab24 subfamily. 99.4 1.4E-12 3.1E-17 67.4 6.8 54 9-62 48-101 (193)
95 smart00173 RAS Ras subfamily o 99.4 2.2E-12 4.7E-17 65.0 7.3 54 9-62 46-99 (164)
96 cd01868 Rab11_like Rab11-like. 99.4 3.2E-12 6.9E-17 64.5 7.8 52 11-62 52-103 (165)
97 cd04160 Arfrp1 Arfrp1 subfamil 99.4 4.4E-12 9.5E-17 64.1 8.3 61 3-63 42-102 (167)
98 smart00174 RHO Rho (Ras homolo 99.4 1.1E-12 2.5E-17 66.7 6.1 54 9-62 44-98 (174)
99 cd04115 Rab33B_Rab33A Rab33B/R 99.4 1.1E-12 2.5E-17 66.7 5.9 54 9-62 49-103 (170)
100 cd04103 Centaurin_gamma Centau 99.4 1.6E-12 3.4E-17 65.9 6.3 50 9-63 45-94 (158)
101 cd04156 ARLTS1 ARLTS1 subfamil 99.4 6.1E-12 1.3E-16 63.2 8.2 55 9-63 42-96 (160)
102 cd04132 Rho4_like Rho4-like su 99.4 1.5E-12 3.3E-17 67.0 6.1 52 9-60 47-99 (187)
103 cd04113 Rab4 Rab4 subfamily. 99.4 2.3E-12 4.9E-17 64.9 6.5 53 9-61 47-99 (161)
104 cd01861 Rab6 Rab6 subfamily. 99.4 2.6E-12 5.6E-17 64.5 6.7 53 10-62 48-100 (161)
105 cd04101 RabL4 RabL4 (Rab-like4 99.4 1.6E-12 3.4E-17 65.6 5.6 54 9-62 50-103 (164)
106 PLN03118 Rab family protein; P 99.4 3.5E-12 7.5E-17 67.0 6.6 51 10-60 61-111 (211)
107 cd04177 RSR1 RSR1 subgroup. R 99.4 4.3E-12 9.3E-17 64.4 6.6 54 9-62 47-100 (168)
108 cd01860 Rab5_related Rab5-rela 99.4 3.1E-12 6.7E-17 64.4 5.9 55 9-63 48-102 (163)
109 cd04147 Ras_dva Ras-dva subfam 99.4 1.6E-11 3.5E-16 64.0 8.5 52 11-62 47-98 (198)
110 KOG1673 Ras GTPases [General f 99.4 2.6E-12 5.7E-17 65.2 5.2 56 7-62 65-120 (205)
111 cd04159 Arl10_like Arl10-like 99.4 2.5E-11 5.4E-16 60.3 8.7 61 2-62 35-95 (159)
112 PLN03108 Rab family protein; P 99.3 5.6E-12 1.2E-16 66.4 6.3 54 9-62 53-106 (210)
113 smart00175 RAB Rab subfamily o 99.3 1.9E-11 4.1E-16 61.4 7.7 52 11-62 49-100 (164)
114 cd00879 Sar1 Sar1 subfamily. 99.3 3E-11 6.4E-16 62.3 8.4 60 3-62 55-114 (190)
115 cd01892 Miro2 Miro2 subfamily. 99.3 1.4E-11 3.1E-16 62.8 6.7 53 8-60 51-103 (169)
116 cd04146 RERG_RasL11_like RERG/ 99.3 1.5E-11 3.2E-16 62.2 6.6 57 6-62 42-99 (165)
117 cd01863 Rab18 Rab18 subfamily. 99.3 1.3E-11 2.8E-16 62.1 6.2 54 9-62 47-100 (161)
118 cd01862 Rab7 Rab7 subfamily. 99.3 1.3E-11 2.8E-16 62.5 6.1 54 9-62 47-100 (172)
119 cd04123 Rab21 Rab21 subfamily. 99.3 1.9E-11 4E-16 61.2 6.4 54 9-62 47-100 (162)
120 cd00066 G-alpha G protein alph 99.3 3E-11 6.5E-16 67.1 7.7 62 2-63 152-223 (317)
121 cd01893 Miro1 Miro1 subfamily. 99.3 2.5E-11 5.4E-16 61.6 6.8 54 7-60 43-97 (166)
122 smart00275 G_alpha G protein a 99.3 4.8E-11 1E-15 66.9 8.3 62 2-63 175-246 (342)
123 KOG0395 Ras-related GTPase [Ge 99.3 5.1E-11 1.1E-15 62.5 7.0 58 5-62 45-102 (196)
124 cd01870 RhoA_like RhoA-like su 99.3 2.7E-11 5.8E-16 61.7 5.6 52 9-60 47-99 (175)
125 cd04135 Tc10 TC10 subfamily. 99.3 2.9E-11 6.3E-16 61.5 5.6 51 10-60 47-98 (174)
126 cd04114 Rab30 Rab30 subfamily. 99.2 5.7E-11 1.2E-15 60.1 6.1 51 10-60 55-105 (169)
127 PTZ00132 GTP-binding nuclear p 99.2 7.3E-11 1.6E-15 62.2 6.5 54 8-61 55-108 (215)
128 cd04155 Arl3 Arl3 subfamily. 99.2 2.8E-10 6.1E-15 57.8 8.3 61 2-62 49-109 (173)
129 cd04139 RalA_RalB RalA/RalB su 99.2 1.4E-10 3E-15 58.2 6.8 57 7-63 44-100 (164)
130 cd04148 RGK RGK subfamily. Th 99.2 2.1E-10 4.5E-15 60.9 6.6 52 9-62 48-100 (221)
131 cd00154 Rab Rab family. Rab G 99.2 1.9E-10 4.1E-15 57.1 6.2 53 10-62 48-100 (159)
132 cd04137 RheB Rheb (Ras Homolog 99.2 2.5E-10 5.5E-15 58.4 6.6 54 10-63 48-101 (180)
133 cd04142 RRP22 RRP22 subfamily. 99.2 3E-10 6.6E-15 59.5 6.9 54 9-62 47-108 (198)
134 PF08477 Miro: Miro-like prote 99.1 1.1E-10 2.4E-15 56.3 4.5 47 11-57 50-96 (119)
135 cd00876 Ras Ras family. The R 99.1 3.9E-10 8.5E-15 56.3 6.5 53 10-62 46-98 (160)
136 KOG4252 GTP-binding protein [S 99.1 5.5E-12 1.2E-16 65.4 -1.2 54 9-62 67-120 (246)
137 cd04105 SR_beta Signal recogni 99.1 1E-09 2.2E-14 57.7 7.1 54 9-62 46-101 (203)
138 cd00157 Rho Rho (Ras homology) 99.1 8.1E-10 1.7E-14 55.9 6.4 52 9-60 46-98 (171)
139 COG1100 GTPase SAR1 and relate 99.1 3.3E-10 7.3E-15 59.5 5.0 52 10-61 53-105 (219)
140 cd01890 LepA LepA subfamily. 99.1 1.2E-09 2.5E-14 55.8 6.3 49 8-56 64-112 (179)
141 cd04129 Rho2 Rho2 subfamily. 99.0 1.8E-09 4E-14 55.8 5.9 53 10-62 48-101 (187)
142 cd01891 TypA_BipA TypA (tyrosi 98.9 2E-08 4.3E-13 52.2 7.3 42 5-46 59-100 (194)
143 KOG0082 G-protein alpha subuni 98.9 1.9E-08 4.2E-13 56.7 6.6 60 5-64 189-258 (354)
144 KOG0077 Vesicle coat complex C 98.8 1E-08 2.3E-13 52.7 3.8 60 4-63 57-116 (193)
145 cd04171 SelB SelB subfamily. 98.7 8.9E-08 1.9E-12 48.0 6.3 37 10-46 50-86 (164)
146 cd01898 Obg Obg subfamily. Th 98.7 1.2E-07 2.5E-12 48.0 6.7 55 7-61 43-106 (170)
147 KOG4423 GTP-binding protein-li 98.7 7.6E-10 1.6E-14 57.8 -1.9 52 11-62 75-126 (229)
148 COG2229 Predicted GTPase [Gene 98.7 1.7E-07 3.8E-12 48.7 6.2 48 11-59 68-115 (187)
149 PF00503 G-alpha: G-protein al 98.7 3E-07 6.5E-12 52.4 7.5 58 6-63 230-298 (389)
150 cd00882 Ras_like_GTPase Ras-li 98.6 9.4E-07 2E-11 43.0 7.0 47 10-56 44-90 (157)
151 KOG0096 GTPase Ran/TC4/GSP1 (n 98.6 1E-07 2.2E-12 50.0 3.5 52 10-61 58-109 (216)
152 cd01887 IF2_eIF5B IF2/eIF5B (i 98.6 8.3E-07 1.8E-11 44.7 6.8 38 10-47 49-86 (168)
153 TIGR01393 lepA GTP-binding pro 98.6 2.4E-07 5.2E-12 55.4 5.3 47 10-56 69-115 (595)
154 KOG3883 Ras family small GTPas 98.6 5.7E-07 1.2E-11 46.0 5.9 44 11-54 60-104 (198)
155 PF04670 Gtr1_RagA: Gtr1/RagA 98.5 8.9E-07 1.9E-11 47.7 6.5 40 9-48 46-90 (232)
156 cd01879 FeoB Ferrous iron tran 98.5 3.4E-06 7.4E-11 42.0 7.7 45 5-49 37-89 (158)
157 cd04168 TetM_like Tet(M)-like 98.5 3.2E-06 6.8E-11 45.6 7.8 46 4-49 57-102 (237)
158 PRK12299 obgE GTPase CgtA; Rev 98.5 2.5E-06 5.4E-11 48.1 7.6 57 5-61 199-263 (335)
159 cd01897 NOG NOG1 is a nucleola 98.4 3.8E-06 8.2E-11 42.4 7.2 55 7-61 43-108 (168)
160 TIGR00231 small_GTP small GTP- 98.4 3.7E-06 8E-11 41.3 7.0 50 11-60 50-101 (161)
161 cd04167 Snu114p Snu114p subfam 98.4 1.8E-06 3.9E-11 45.6 6.0 42 9-50 69-110 (213)
162 PRK05433 GTP-binding protein L 98.4 1.3E-06 2.8E-11 52.5 5.9 42 9-50 72-113 (600)
163 TIGR00491 aIF-2 translation in 98.4 1.1E-06 2.4E-11 52.6 5.5 43 12-54 70-115 (590)
164 TIGR00450 mnmE_trmE_thdF tRNA 98.4 4.1E-06 8.8E-11 48.8 7.4 54 5-60 245-306 (442)
165 cd01885 EF2 EF2 (for archaea a 98.4 2.6E-06 5.6E-11 45.7 6.0 41 9-49 71-111 (222)
166 cd01881 Obg_like The Obg-like 98.4 7.8E-06 1.7E-10 41.4 7.3 56 6-61 38-107 (176)
167 cd04169 RF3 RF3 subfamily. Pe 98.3 7.6E-06 1.6E-10 44.9 7.4 44 4-47 64-107 (267)
168 cd00881 GTP_translation_factor 98.3 7.1E-06 1.5E-10 41.9 6.8 44 6-49 57-100 (189)
169 TIGR02729 Obg_CgtA Obg family 98.3 1.1E-05 2.4E-10 45.5 7.7 57 4-60 197-264 (329)
170 TIGR01394 TypA_BipA GTP-bindin 98.3 8.6E-06 1.9E-10 49.0 7.0 55 5-60 58-112 (594)
171 PRK10218 GTP-binding protein; 98.2 6E-06 1.3E-10 49.8 6.1 43 5-47 62-104 (607)
172 PRK05306 infB translation init 98.2 1.6E-05 3.5E-10 49.2 7.9 47 6-52 332-381 (787)
173 TIGR00475 selB selenocysteine- 98.2 1.1E-05 2.3E-10 48.5 6.3 48 6-53 45-95 (581)
174 TIGR03156 GTP_HflX GTP-binding 98.2 2E-05 4.3E-10 44.8 7.1 50 5-55 230-289 (351)
175 PRK13351 elongation factor G; 98.2 1.5E-05 3.3E-10 48.5 6.9 48 4-51 66-113 (687)
176 TIGR00487 IF-2 translation ini 98.2 2.7E-05 5.9E-10 46.9 7.5 35 12-46 136-170 (587)
177 CHL00189 infB translation init 98.2 7.4E-06 1.6E-10 50.3 5.2 45 9-53 293-340 (742)
178 TIGR00483 EF-1_alpha translati 98.1 6.2E-06 1.3E-10 47.7 4.6 45 5-49 79-123 (426)
179 PRK05291 trmE tRNA modificatio 98.1 2.8E-05 6E-10 45.5 7.3 50 5-54 257-314 (449)
180 PRK03003 GTP-binding protein D 98.1 2.7E-05 5.8E-10 45.7 7.2 44 7-50 82-133 (472)
181 PF09439 SRPRB: Signal recogni 98.1 7.2E-06 1.6E-10 42.8 4.2 53 11-63 49-105 (181)
182 PRK00093 GTP-binding protein D 98.1 5.3E-05 1.1E-09 43.8 8.1 44 5-48 43-94 (435)
183 PRK04004 translation initiatio 98.1 1.3E-05 2.8E-10 48.2 5.4 42 13-54 73-117 (586)
184 cd01894 EngA1 EngA1 subfamily. 98.1 4.6E-05 1E-09 37.8 6.6 45 5-49 39-91 (157)
185 PRK00741 prfC peptide chain re 98.1 2E-05 4.4E-10 46.9 6.0 45 3-47 71-115 (526)
186 cd04164 trmE TrmE (MnmE, ThdF, 98.1 8E-05 1.7E-09 36.9 7.4 51 5-55 43-101 (157)
187 cd01888 eIF2_gamma eIF2-gamma 98.1 1.6E-05 3.4E-10 41.9 5.0 36 11-46 83-118 (203)
188 cd01878 HflX HflX subfamily. 98.1 4.2E-05 9E-10 40.0 6.4 46 11-57 89-143 (204)
189 cd01883 EF1_alpha Eukaryotic e 98.0 2.2E-05 4.8E-10 41.8 5.3 43 5-47 71-113 (219)
190 cd01896 DRG The developmentall 98.0 0.00011 2.3E-09 39.7 7.6 44 5-48 41-91 (233)
191 cd04166 CysN_ATPS CysN_ATPS su 98.0 2.2E-05 4.8E-10 41.5 4.8 41 7-47 73-113 (208)
192 PRK12317 elongation factor 1-a 98.0 2.6E-05 5.6E-10 45.1 5.4 42 5-46 78-119 (425)
193 KOG0099 G protein subunit Galp 98.0 6.2E-05 1.3E-09 41.9 6.5 42 6-47 197-238 (379)
194 cd04170 EF-G_bact Elongation f 98.0 6.9E-05 1.5E-09 41.0 6.3 46 4-49 57-102 (268)
195 TIGR00503 prfC peptide chain r 97.9 4.9E-05 1.1E-09 45.3 5.9 43 4-46 73-115 (527)
196 PRK15494 era GTPase Era; Provi 97.9 0.00018 3.9E-09 40.8 7.1 42 5-46 94-143 (339)
197 cd01889 SelB_euk SelB subfamil 97.9 6.7E-05 1.4E-09 39.0 5.0 39 9-47 66-104 (192)
198 PRK03003 GTP-binding protein D 97.9 0.00018 4E-09 42.3 7.2 48 6-53 254-312 (472)
199 TIGR02528 EutP ethanolamine ut 97.8 1.1E-05 2.5E-10 39.8 1.8 38 14-52 38-80 (142)
200 cd01886 EF-G Elongation factor 97.8 0.00013 2.8E-09 40.2 6.0 42 5-46 58-99 (270)
201 PRK12297 obgE GTPase CgtA; Rev 97.8 0.00035 7.6E-09 40.8 7.9 51 10-60 205-265 (424)
202 KOG3886 GTP-binding protein [S 97.8 3.8E-05 8.2E-10 41.9 3.5 39 10-48 52-95 (295)
203 PRK11058 GTPase HflX; Provisio 97.8 0.00051 1.1E-08 40.2 7.9 49 6-54 239-296 (426)
204 PRK12740 elongation factor G; 97.8 0.00024 5.3E-09 43.3 6.7 47 4-50 53-99 (668)
205 TIGR03594 GTPase_EngA ribosome 97.7 0.00033 7.1E-09 40.5 6.4 47 7-53 216-273 (429)
206 PRK14845 translation initiatio 97.7 0.0002 4.3E-09 45.8 5.5 42 13-54 528-572 (1049)
207 TIGR03680 eif2g_arch translati 97.7 0.00017 3.7E-09 41.7 4.9 37 10-46 79-115 (406)
208 KOG0090 Signal recognition par 97.6 0.00057 1.2E-08 36.9 6.3 54 9-62 80-137 (238)
209 TIGR00484 EF-G translation elo 97.6 0.00059 1.3E-08 41.9 7.1 44 5-48 69-112 (689)
210 TIGR03594 GTPase_EngA ribosome 97.6 0.00085 1.8E-08 38.8 7.4 43 5-47 41-91 (429)
211 TIGR00437 feoB ferrous iron tr 97.6 0.00099 2.2E-08 40.4 7.3 44 6-49 36-87 (591)
212 PRK12296 obgE GTPase CgtA; Rev 97.6 0.0009 1.9E-08 40.0 6.9 44 3-46 198-248 (500)
213 TIGR00490 aEF-2 translation el 97.5 0.0009 1.9E-08 41.4 7.0 41 6-46 81-121 (720)
214 PF00009 GTP_EFTU: Elongation 97.5 0.00074 1.6E-08 35.1 5.7 39 8-46 67-105 (188)
215 TIGR00485 EF-Tu translation el 97.5 0.0011 2.4E-08 38.3 6.7 39 8-46 72-110 (394)
216 PRK09518 bifunctional cytidyla 97.5 0.0012 2.6E-08 40.8 7.1 39 8-46 320-366 (712)
217 TIGR00436 era GTP-binding prot 97.5 0.0016 3.5E-08 35.8 7.0 43 9-51 46-96 (270)
218 cd00880 Era_like Era (E. coli 97.4 0.001 2.2E-08 32.6 5.5 44 10-53 44-94 (163)
219 PRK04000 translation initiatio 97.4 0.00068 1.5E-08 39.4 5.0 36 11-46 85-120 (411)
220 PRK10512 selenocysteinyl-tRNA- 97.3 0.00084 1.8E-08 40.9 5.1 44 10-53 50-96 (614)
221 PRK15467 ethanolamine utilizat 97.3 0.00033 7.2E-09 35.6 3.0 36 15-50 41-80 (158)
222 cd01899 Ygr210 Ygr210 subfamil 97.3 0.0025 5.3E-08 36.1 6.6 37 10-46 68-111 (318)
223 PRK04213 GTP-binding protein; 97.3 0.00011 2.3E-09 38.3 1.1 36 12-47 53-103 (201)
224 cd04163 Era Era subfamily. Er 97.3 0.0033 7.1E-08 31.2 6.5 39 9-47 49-95 (168)
225 cd01895 EngA2 EngA2 subfamily. 97.2 0.0062 1.3E-07 30.5 7.3 46 7-52 46-102 (174)
226 TIGR00157 ribosome small subun 97.2 0.00073 1.6E-08 36.8 3.4 39 22-60 24-63 (245)
227 PRK12298 obgE GTPase CgtA; Rev 97.2 0.0063 1.4E-07 35.4 7.2 56 6-61 201-267 (390)
228 PRK09518 bifunctional cytidyla 97.0 0.0038 8.3E-08 38.7 5.9 48 7-54 494-552 (712)
229 PLN00043 elongation factor 1-a 97.0 0.0021 4.6E-08 37.9 4.6 41 6-46 80-120 (447)
230 PRK05124 cysN sulfate adenylyl 97.0 0.0033 7.1E-08 37.3 5.3 40 7-46 103-142 (474)
231 TIGR02034 CysN sulfate adenyly 97.0 0.003 6.5E-08 36.7 4.8 40 7-46 76-115 (406)
232 PRK12736 elongation factor Tu; 96.9 0.0071 1.5E-07 35.1 6.0 38 9-46 73-110 (394)
233 PRK00093 GTP-binding protein D 96.9 0.0099 2.2E-07 34.6 6.6 46 7-52 217-273 (435)
234 PRK12739 elongation factor G; 96.8 0.0044 9.6E-08 38.3 4.9 43 5-47 67-109 (691)
235 PRK09554 feoB ferrous iron tra 96.8 0.017 3.7E-07 36.4 7.4 44 6-49 45-100 (772)
236 cd01884 EF_Tu EF-Tu subfamily. 96.7 0.0062 1.3E-07 32.2 4.5 39 8-46 62-100 (195)
237 TIGR03598 GTPase_YsxC ribosome 96.7 0.0037 7.9E-08 32.2 3.4 38 12-49 65-115 (179)
238 PRK00089 era GTPase Era; Revie 96.6 0.018 4E-07 31.9 6.1 38 9-46 51-96 (292)
239 PTZ00141 elongation factor 1- 96.6 0.0089 1.9E-07 35.3 5.0 41 6-46 80-120 (446)
240 COG4108 PrfC Peptide chain rel 96.5 0.0078 1.7E-07 35.9 4.2 43 3-45 73-115 (528)
241 PRK12735 elongation factor Tu; 96.5 0.0096 2.1E-07 34.6 4.5 38 9-46 73-110 (396)
242 PRK00454 engB GTP-binding prot 96.4 0.0074 1.6E-07 31.2 3.5 40 10-49 69-121 (196)
243 PLN03126 Elongation factor Tu; 96.4 0.014 2.9E-07 34.9 4.9 40 7-46 140-179 (478)
244 KOG0085 G protein subunit Galp 96.4 0.00029 6.2E-09 38.8 -1.9 42 7-48 195-236 (359)
245 PRK09602 translation-associate 96.2 0.054 1.2E-06 31.7 6.5 35 11-45 72-113 (396)
246 PRK05506 bifunctional sulfate 96.2 0.017 3.6E-07 35.5 4.6 40 7-46 100-139 (632)
247 PF00350 Dynamin_N: Dynamin fa 95.9 0.033 7.2E-07 28.1 4.5 39 11-49 101-143 (168)
248 PRK07560 elongation factor EF- 95.9 0.031 6.7E-07 35.0 4.9 38 9-46 85-122 (731)
249 PF02421 FeoB_N: Ferrous iron 95.8 0.1 2.2E-06 26.9 7.0 46 4-49 40-93 (156)
250 CHL00071 tufA elongation facto 95.8 0.038 8.1E-07 32.3 4.8 39 8-46 72-110 (409)
251 cd04165 GTPBP1_like GTPBP1-lik 95.8 0.065 1.4E-06 29.0 5.3 40 7-46 80-121 (224)
252 PF01926 MMR_HSR1: 50S ribosom 95.7 0.082 1.8E-06 25.2 8.3 41 6-47 42-92 (116)
253 PLN03127 Elongation factor Tu; 95.7 0.081 1.8E-06 31.5 5.9 38 9-46 122-159 (447)
254 PRK00049 elongation factor Tu; 95.6 0.041 9E-07 32.0 4.6 38 9-46 73-110 (396)
255 KOG1144 Translation initiation 95.6 0.033 7.2E-07 35.4 4.1 43 11-53 540-585 (1064)
256 COG0481 LepA Membrane GTPase L 95.5 0.041 8.8E-07 33.4 4.2 38 9-46 74-111 (603)
257 KOG3887 Predicted small GTPase 95.5 0.026 5.6E-07 31.6 3.1 37 11-47 75-114 (347)
258 KOG0468 U5 snRNP-specific prot 95.4 0.054 1.2E-06 34.2 4.7 43 8-50 194-236 (971)
259 KOG0462 Elongation factor-type 95.4 0.14 3.1E-06 31.6 6.1 39 8-46 122-160 (650)
260 KOG0464 Elongation factor G [T 95.3 0.025 5.4E-07 33.9 2.8 42 5-46 96-137 (753)
261 PLN00116 translation elongatio 95.1 0.04 8.8E-07 35.0 3.5 37 10-46 97-133 (843)
262 PTZ00416 elongation factor 2; 94.9 0.061 1.3E-06 34.3 4.0 37 10-46 91-127 (836)
263 PF05783 DLIC: Dynein light in 94.9 0.14 3E-06 30.9 5.2 51 11-61 73-128 (472)
264 PRK13768 GTPase; Provisional 94.8 0.073 1.6E-06 29.3 3.7 37 11-47 97-141 (253)
265 COG5256 TEF1 Translation elong 94.8 0.11 2.5E-06 30.8 4.6 41 7-47 81-121 (428)
266 PRK00007 elongation factor G; 94.7 0.18 3.8E-06 31.6 5.5 42 5-46 69-110 (693)
267 cd01876 YihA_EngB The YihA (En 94.7 0.16 3.5E-06 25.1 4.7 36 12-47 46-94 (170)
268 KOG1707 Predicted Ras related/ 94.6 0.18 3.9E-06 31.2 5.2 56 9-64 54-109 (625)
269 COG1217 TypA Predicted membran 94.5 0.15 3.3E-06 31.0 4.6 41 6-46 63-103 (603)
270 COG0486 ThdF Predicted GTPase 94.4 0.34 7.4E-06 29.1 5.9 43 5-47 259-309 (454)
271 cd04104 p47_IIGP_like p47 (47- 94.2 0.1 2.2E-06 27.4 3.3 31 12-42 53-88 (197)
272 TIGR00991 3a0901s02IAP34 GTP-b 94.1 0.6 1.3E-05 26.8 7.5 37 9-45 84-129 (313)
273 COG0532 InfB Translation initi 93.8 0.09 2E-06 31.9 2.9 43 10-52 54-99 (509)
274 cd01852 AIG1 AIG1 (avrRpt2-ind 93.5 0.58 1.2E-05 24.5 7.5 40 7-46 45-95 (196)
275 cd01850 CDC_Septin CDC/Septin. 93.4 0.16 3.6E-06 28.3 3.4 11 11-21 63-73 (276)
276 COG1163 DRG Predicted GTPase [ 93.3 0.57 1.2E-05 27.4 5.3 52 6-57 105-164 (365)
277 PTZ00327 eukaryotic translatio 93.3 0.16 3.4E-06 30.5 3.3 35 12-46 118-152 (460)
278 COG3596 Predicted GTPase [Gene 93.2 0.2 4.2E-06 28.4 3.4 37 12-48 88-131 (296)
279 KOG1489 Predicted GTP-binding 93.1 1 2.2E-05 26.3 6.1 55 5-59 237-302 (366)
280 smart00010 small_GTPase Small 92.9 0.34 7.3E-06 22.9 3.8 28 26-53 38-65 (124)
281 COG0480 FusA Translation elong 92.6 0.69 1.5E-05 29.4 5.4 42 5-46 69-111 (697)
282 cd01855 YqeH YqeH. YqeH is an 91.6 0.22 4.7E-06 25.9 2.3 25 24-48 24-48 (190)
283 KOG0705 GTPase-activating prot 91.3 1.4 3E-05 27.8 5.5 49 7-60 73-121 (749)
284 KOG0458 Elongation factor 1 al 91.1 1.1 2.4E-05 27.9 5.0 41 5-45 249-289 (603)
285 PF03029 ATP_bind_1: Conserved 90.8 0.22 4.8E-06 27.2 1.9 34 12-45 92-133 (238)
286 KOG2052 Activin A type IB rece 90.5 1 2.2E-05 27.4 4.5 53 12-64 212-265 (513)
287 KOG1423 Ras-like GTPase ERA [C 89.5 2.7 5.8E-05 24.7 5.4 42 6-47 115-168 (379)
288 KOG1145 Mitochondrial translat 89.2 0.61 1.3E-05 29.1 3.0 38 9-46 199-236 (683)
289 COG1084 Predicted GTPase [Gene 88.8 3.3 7.2E-05 24.3 6.1 45 3-47 207-260 (346)
290 cd01859 MJ1464 MJ1464. This f 87.9 0.86 1.9E-05 22.9 2.7 23 25-47 3-25 (156)
291 COG2895 CysN GTPases - Sulfate 86.4 1.3 2.8E-05 26.3 3.1 38 7-44 82-119 (431)
292 COG1159 Era GTPase [General fu 86.0 4.8 0.0001 23.2 5.2 40 7-46 50-97 (298)
293 cd01900 YchF YchF subfamily. 85.8 2.4 5.2E-05 23.9 3.9 34 12-45 63-103 (274)
294 cd01854 YjeQ_engC YjeQ/EngC. 85.7 2.1 4.5E-05 24.1 3.6 30 31-60 75-105 (287)
295 KOG1191 Mitochondrial GTPase [ 85.5 6.7 0.00014 24.4 5.9 40 5-44 310-358 (531)
296 PF04548 AIG1: AIG1 family; I 84.3 4.7 0.0001 21.6 6.0 40 7-46 45-95 (212)
297 COG1160 Predicted GTPases [Gen 83.2 7 0.00015 23.8 5.1 38 9-46 49-95 (444)
298 PRK09866 hypothetical protein; 82.8 11 0.00023 24.6 6.1 37 11-47 230-271 (741)
299 COG0050 TufB GTPases - transla 82.6 2.9 6.3E-05 24.5 3.3 38 9-46 73-110 (394)
300 PF10662 PduV-EutP: Ethanolami 82.3 2.5 5.5E-05 21.6 2.8 35 14-48 39-77 (143)
301 PF12098 DUF3574: Protein of u 81.6 4.6 0.0001 19.6 3.5 49 13-61 38-88 (104)
302 KOG1707 Predicted Ras related/ 81.2 8.2 0.00018 24.5 5.0 47 8-56 471-517 (625)
303 PF11111 CENP-M: Centromere pr 80.6 3.1 6.8E-05 22.1 2.8 28 33-60 63-90 (176)
304 cd01857 HSR1_MMR1 HSR1/MMR1. 80.4 3.3 7.2E-05 20.5 2.9 9 10-18 13-21 (141)
305 PTZ00258 GTP-binding protein; 80.2 10 0.00022 22.7 5.4 34 12-45 86-126 (390)
306 KOG3905 Dynein light intermedi 79.4 7.2 0.00016 23.3 4.2 52 11-62 100-156 (473)
307 KOG4530 Predicted flavoprotein 79.2 7.6 0.00017 20.6 4.4 58 1-58 44-113 (199)
308 KOG0467 Translation elongation 78.5 5.3 0.00012 26.2 3.7 38 9-46 70-107 (887)
309 KOG1201 Hydroxysteroid 17-beta 78.1 11 0.00024 21.9 6.0 51 12-63 64-114 (300)
310 PRK12289 GTPase RsgA; Reviewed 77.5 6.1 0.00013 23.2 3.6 30 29-58 84-114 (352)
311 PF05049 IIGP: Interferon-indu 77.3 10 0.00022 22.7 4.5 32 11-42 86-122 (376)
312 KOG1954 Endocytosis/signaling 77.0 7.1 0.00015 23.7 3.8 49 12-60 148-207 (532)
313 PF09827 CRISPR_Cas2: CRISPR a 76.0 5.1 0.00011 17.9 2.6 23 37-59 3-25 (78)
314 cd01481 vWA_collagen_alpha3-VI 74.9 9.7 0.00021 19.6 3.9 27 38-64 3-32 (165)
315 PRK00098 GTPase RsgA; Reviewed 74.3 6.3 0.00014 22.4 3.1 27 32-58 78-105 (298)
316 cd01853 Toc34_like Toc34-like 73.1 14 0.0003 20.6 7.4 38 8-45 76-125 (249)
317 cd01882 BMS1 Bms1. Bms1 is an 73.1 13 0.00028 20.2 5.0 35 9-46 81-115 (225)
318 cd01475 vWA_Matrilin VWA_Matri 72.2 11 0.00025 20.2 3.7 26 38-63 5-33 (224)
319 TIGR03597 GTPase_YqeH ribosome 72.0 2.9 6.3E-05 24.3 1.5 27 22-48 51-77 (360)
320 KOG0461 Selenocysteine-specifi 71.5 7.9 0.00017 23.3 3.1 37 9-45 68-104 (522)
321 KOG1902 Putative signal transd 71.4 11 0.00023 22.5 3.5 42 15-58 93-134 (441)
322 PF00092 VWA: von Willebrand f 68.9 13 0.00028 18.6 3.7 26 38-63 2-30 (178)
323 PRK09601 GTP-binding protein Y 68.6 22 0.00047 21.2 4.5 34 12-45 67-107 (364)
324 cd01470 vWA_complement_factors 67.5 16 0.00035 19.1 3.7 26 38-63 3-31 (198)
325 KOG4273 Uncharacterized conser 67.3 7.6 0.00016 22.3 2.4 25 34-58 78-102 (418)
326 cd01469 vWA_integrins_alpha_su 67.1 16 0.00035 18.9 3.6 26 38-63 3-31 (177)
327 PHA02518 ParA-like protein; Pr 66.6 17 0.00037 19.0 5.3 34 10-45 76-109 (211)
328 KOG0460 Mitochondrial translat 66.4 5.2 0.00011 23.9 1.7 35 12-46 118-152 (449)
329 PRK12288 GTPase RsgA; Reviewed 65.6 15 0.00033 21.5 3.5 27 33-59 119-145 (347)
330 PRK00871 glutathione-regulated 64.3 12 0.00025 19.9 2.6 34 29-62 50-83 (176)
331 PF06858 NOG1: Nucleolar GTP-b 63.6 8.8 0.00019 16.7 1.8 13 35-47 14-26 (58)
332 cd01477 vWA_F09G8-8_type VWA F 63.2 21 0.00046 19.0 3.8 28 35-62 19-49 (193)
333 COG4474 Uncharacterized protei 62.5 19 0.00042 19.3 3.2 28 23-50 118-145 (180)
334 PRK04930 glutathione-regulated 62.3 15 0.00033 19.6 2.9 34 29-62 56-89 (184)
335 PF11185 DUF2971: Protein of u 62.2 9.5 0.00021 16.8 1.9 17 27-43 1-17 (90)
336 cd03110 Fer4_NifH_child This p 61.5 21 0.00045 18.3 5.4 47 9-58 91-137 (179)
337 TIGR00993 3a0901s04IAP86 chlor 61.2 45 0.00098 22.1 7.0 38 9-46 164-213 (763)
338 cd02038 FleN-like FleN is a me 60.8 20 0.00043 17.8 5.1 33 11-45 45-77 (139)
339 KOG0469 Elongation factor 2 [T 60.6 14 0.00031 23.5 2.9 38 9-46 96-133 (842)
340 COG3276 SelB Selenocysteine-sp 60.3 38 0.00083 20.9 4.9 37 9-45 48-84 (447)
341 COG0370 FeoB Fe2+ transport sy 59.5 46 0.001 21.6 6.6 44 6-49 45-96 (653)
342 PF08309 LVIVD: LVIVD repeat; 58.8 8.8 0.00019 15.4 1.3 11 39-49 23-33 (42)
343 KOG1486 GTP-binding protein DR 57.7 36 0.00078 19.8 5.0 42 8-49 106-154 (364)
344 KOG0465 Mitochondrial elongati 57.0 21 0.00045 23.1 3.1 40 6-45 99-138 (721)
345 COG4963 CpaE Flp pilus assembl 55.8 43 0.00093 20.1 5.8 48 11-61 218-265 (366)
346 COG5400 Uncharacterized protei 54.9 19 0.00041 19.3 2.4 16 34-49 131-146 (205)
347 cd01480 vWA_collagen_alpha_1-V 54.5 30 0.00066 18.0 3.2 25 38-62 5-32 (186)
348 COG2262 HflX GTPases [General 54.2 39 0.00085 20.6 3.8 43 11-53 240-290 (411)
349 cd01858 NGP_1 NGP-1. Autoanti 53.4 17 0.00036 18.3 2.1 17 31-47 5-21 (157)
350 KOG4378 Nuclear protein COP1 [ 53.2 23 0.00049 22.4 2.8 20 10-29 186-205 (673)
351 KOG1610 Corticosteroid 11-beta 52.8 21 0.00045 21.0 2.5 24 40-63 81-104 (322)
352 cd01482 vWA_collagen_alphaI-XI 51.1 33 0.00071 17.4 3.8 25 38-62 3-30 (164)
353 PF02525 Flavodoxin_2: Flavodo 50.0 26 0.00057 18.4 2.6 33 30-62 74-106 (199)
354 cd01458 vWA_ku Ku70/Ku80 N-ter 49.5 41 0.00089 18.0 3.6 28 36-63 2-39 (218)
355 cd01472 vWA_collagen von Wille 48.9 36 0.00077 17.1 3.9 25 38-62 3-30 (164)
356 KOG2361 Predicted methyltransf 48.7 51 0.0011 18.9 3.8 49 11-62 124-174 (264)
357 cd02042 ParA ParA and ParB of 47.2 30 0.00066 15.9 5.2 45 11-58 40-84 (104)
358 PF10087 DUF2325: Uncharacteri 46.8 32 0.00069 16.0 4.8 38 21-58 35-72 (97)
359 PF12508 DUF3714: Protein of u 46.4 43 0.00094 18.3 3.0 23 2-24 106-132 (200)
360 PRK01355 azoreductase; Reviewe 46.0 41 0.00088 17.9 2.9 32 30-61 73-104 (199)
361 PF13124 DUF3963: Protein of u 46.0 22 0.00048 13.9 1.8 11 50-60 13-23 (40)
362 PRK13556 azoreductase; Provisi 45.3 36 0.00078 18.2 2.7 33 30-62 85-117 (208)
363 TIGR01573 cas2 CRISPR-associat 44.0 37 0.0008 15.9 3.5 10 38-47 3-12 (95)
364 cd01478 Sec23-like Sec23-like: 43.8 61 0.0013 18.4 4.4 27 36-62 4-31 (267)
365 COG1343 CRISPR-associated prot 43.0 39 0.00085 16.0 3.4 12 37-48 2-13 (89)
366 PF09005 DUF1897: Domain of un 41.7 11 0.00024 14.9 0.3 17 19-35 6-22 (38)
367 cd01464 vWA_subfamily VWA subf 41.2 52 0.0011 16.8 3.4 23 38-60 6-31 (176)
368 PRK13660 hypothetical protein; 41.2 59 0.0013 17.5 3.4 25 24-48 119-143 (182)
369 cd01856 YlqF YlqF. Proteins o 40.9 35 0.00076 17.4 2.2 19 29-47 14-32 (171)
370 PRK03459 rnpA ribonuclease P; 40.6 49 0.0011 16.4 2.7 30 34-63 85-114 (122)
371 PF04811 Sec23_trunk: Sec23/Se 39.8 66 0.0014 17.6 3.7 29 35-63 3-35 (243)
372 PRK13555 azoreductase; Provisi 39.6 56 0.0012 17.7 2.8 34 29-62 84-117 (208)
373 COG5257 GCD11 Translation init 39.0 47 0.001 20.1 2.6 32 12-46 87-121 (415)
374 TIGR00578 ku70 ATP-dependent D 38.7 77 0.0017 20.2 3.6 14 33-46 8-21 (584)
375 KOG0780 Signal recognition par 38.7 85 0.0018 19.5 3.6 42 8-49 181-228 (483)
376 PRK00170 azoreductase; Reviewe 38.7 47 0.001 17.4 2.5 31 31-61 83-113 (201)
377 PRK01313 rnpA ribonuclease P; 38.4 56 0.0012 16.5 2.9 31 34-64 85-115 (129)
378 PF06577 DUF1134: Protein of u 38.4 64 0.0014 17.1 2.8 16 34-49 86-101 (160)
379 TIGR00064 ftsY signal recognit 38.1 78 0.0017 17.9 5.6 45 9-53 153-210 (272)
380 TIGR03815 CpaE_hom_Actino heli 37.7 81 0.0018 18.1 5.2 48 10-60 204-251 (322)
381 PF12123 Amidase02_C: N-acetyl 37.7 36 0.00078 14.0 2.6 24 36-59 14-38 (45)
382 PRK13957 indole-3-glycerol-pho 37.2 80 0.0017 17.9 3.5 29 26-54 116-144 (247)
383 TIGR00188 rnpA ribonuclease P 37.2 52 0.0011 15.7 3.1 29 33-61 76-104 (105)
384 PRK00499 rnpA ribonuclease P; 37.1 54 0.0012 15.9 3.0 29 34-62 75-103 (114)
385 PRK09739 hypothetical protein; 37.0 53 0.0011 17.4 2.5 33 29-61 74-106 (199)
386 TIGR00092 GTP-binding protein 37.0 96 0.0021 18.7 4.2 35 11-45 67-108 (368)
387 cd01453 vWA_transcription_fact 36.6 68 0.0015 16.8 3.3 25 38-62 6-38 (183)
388 COG2249 MdaB Putative NADPH-qu 36.5 50 0.0011 17.7 2.3 35 28-62 61-95 (189)
389 cd01468 trunk_domain trunk dom 34.6 83 0.0018 17.2 4.0 28 35-62 3-34 (239)
390 cd03111 CpaE_like This protein 34.5 57 0.0012 15.3 5.5 44 12-58 44-87 (106)
391 COG4679 Phage-related protein 33.8 68 0.0015 16.1 2.9 34 6-44 53-86 (116)
392 COG4352 RPL13 Ribosomal protei 33.6 67 0.0015 15.9 2.5 20 45-64 90-109 (113)
393 cd01471 vWA_micronemal_protein 33.6 74 0.0016 16.4 3.6 25 38-62 3-31 (186)
394 PRK00396 rnpA ribonuclease P; 33.5 46 0.00099 16.8 1.8 30 33-62 82-111 (130)
395 COG0012 Predicted GTPase, prob 33.3 1.2E+02 0.0025 18.5 4.1 37 10-46 66-109 (372)
396 PF12327 FtsZ_C: FtsZ family, 32.6 62 0.0013 15.2 3.5 33 30-62 31-63 (95)
397 PF00218 IGPS: Indole-3-glycer 32.5 68 0.0015 18.2 2.5 30 26-55 123-152 (254)
398 cd03071 PDI_b'_NRX PDIb' famil 32.5 72 0.0016 15.9 3.3 30 33-62 13-42 (116)
399 cd01479 Sec24-like Sec24-like: 32.0 96 0.0021 17.2 3.7 28 35-62 3-34 (244)
400 smart00053 DYNc Dynamin, GTPas 31.5 1E+02 0.0022 17.3 5.5 35 11-45 125-173 (240)
401 PRK01732 rnpA ribonuclease P; 31.3 73 0.0016 15.6 2.8 31 33-63 81-111 (114)
402 PRK14865 rnpA ribonuclease P; 31.3 72 0.0016 15.5 2.9 31 33-63 80-110 (116)
403 KOG1154 Gamma-glutamyl kinase 31.0 1E+02 0.0023 17.7 3.0 44 19-62 95-143 (285)
404 KOG2733 Uncharacterized membra 30.4 39 0.00086 20.5 1.4 23 35-57 62-84 (423)
405 PF00825 Ribonuclease_P: Ribon 30.0 73 0.0016 15.2 2.2 30 34-63 80-109 (111)
406 cd08166 MPP_Cdc1_like_1 unchar 28.8 55 0.0012 17.8 1.8 16 34-49 42-57 (195)
407 PRK03031 rnpA ribonuclease P; 28.5 85 0.0018 15.5 3.1 30 34-63 85-114 (122)
408 KOG0447 Dynamin-like GTP bindi 28.4 1.8E+02 0.0039 19.3 5.0 32 12-43 413-457 (980)
409 PRK13849 putative crown gall t 28.1 1.1E+02 0.0024 16.8 5.6 46 9-57 82-127 (231)
410 PRK04390 rnpA ribonuclease P; 28.0 87 0.0019 15.4 2.6 30 33-62 80-109 (120)
411 PF13667 ThiC-associated: ThiC 28.0 34 0.00074 15.9 0.8 11 11-21 40-50 (80)
412 PF04146 YTH: YT521-B-like dom 28.0 44 0.00096 16.9 1.3 35 14-50 22-56 (140)
413 PF06816 NOD: NOTCH protein; 27.9 64 0.0014 13.9 2.7 25 35-59 5-29 (57)
414 cd02036 MinD Bacterial cell di 27.8 92 0.002 15.6 5.4 41 12-55 64-104 (179)
415 cd01849 YlqF_related_GTPase Yl 27.5 64 0.0014 16.2 1.8 14 36-49 1-14 (155)
416 PF09826 Beta_propel: Beta pro 27.5 39 0.00085 21.1 1.2 18 31-49 342-359 (521)
417 PF12989 DUF3873: Domain of un 27.4 74 0.0016 14.4 2.6 41 15-55 11-52 (69)
418 PF03164 Mon1: Trafficking pro 26.9 1.4E+02 0.003 18.2 3.3 25 38-62 250-274 (415)
419 PF00043 GST_C: Glutathione S- 26.6 55 0.0012 14.5 1.4 16 48-63 79-94 (95)
420 smart00564 PQQ beta-propeller 26.5 45 0.00097 11.6 1.3 16 31-46 10-25 (33)
421 COG4064 MtrG Tetrahydromethano 25.8 81 0.0018 14.3 2.0 18 45-62 12-29 (75)
422 KOG3997 Major apurinic/apyrimi 25.4 51 0.0011 18.7 1.3 37 26-62 172-208 (281)
423 TIGR01287 nifH nitrogenase iro 24.7 1.4E+02 0.003 16.6 4.2 44 10-54 115-159 (275)
424 PF08548 Peptidase_M10_C: Pept 24.7 56 0.0012 17.3 1.3 16 10-25 31-46 (166)
425 PF13768 VWA_3: von Willebrand 24.6 1E+02 0.0023 15.2 3.4 26 38-63 3-30 (155)
426 cd00198 vWFA Von Willebrand fa 24.6 95 0.0021 14.7 3.5 25 38-62 3-30 (161)
427 TIGR03596 GTPase_YlqF ribosome 24.5 96 0.0021 17.4 2.3 19 29-47 16-34 (276)
428 cd02037 MRP-like MRP (Multiple 24.5 1.1E+02 0.0024 15.5 5.8 49 9-60 66-116 (169)
429 KOG3929 Uncharacterized conser 24.3 1.1E+02 0.0023 18.1 2.4 37 14-50 95-135 (363)
430 PLN00162 transport protein sec 24.2 2.3E+02 0.0049 19.0 4.1 28 35-62 124-152 (761)
431 PF08630 Dfp1_Him1_M: Dfp1/Him 24.0 26 0.00056 17.7 0.0 24 31-56 75-98 (125)
432 PF12965 DUF3854: Domain of un 24.0 1.1E+02 0.0024 15.3 3.9 32 29-60 62-94 (130)
433 TIGR03018 pepcterm_TyrKin exop 23.9 1.3E+02 0.0028 16.0 5.9 33 12-45 150-182 (207)
434 PF05244 Brucella_OMP2: Brucel 23.9 1.2E+02 0.0027 16.2 2.4 40 3-42 146-185 (240)
435 TIGR03371 cellulose_yhjQ cellu 23.8 1.3E+02 0.0029 16.1 6.0 43 12-57 116-158 (246)
436 PF13570 PQQ_3: PQQ-like domai 23.8 60 0.0013 12.1 1.1 14 31-44 25-38 (40)
437 COG1182 AcpD Acyl carrier prot 23.7 1.4E+02 0.0031 16.5 2.8 30 32-61 85-114 (202)
438 PRK04820 rnpA ribonuclease P; 23.2 1.3E+02 0.0027 15.6 3.2 31 33-63 84-114 (145)
439 PF12663 DUF3788: Protein of u 23.2 1.2E+02 0.0026 15.3 2.8 25 33-57 105-129 (133)
440 TIGR03779 Bac_Flav_CT_M Bacter 23.0 1.8E+02 0.0038 18.0 3.2 22 3-24 310-335 (410)
441 PF01115 F_actin_cap_B: F-acti 23.0 1.1E+02 0.0024 17.4 2.3 24 24-47 105-128 (242)
442 KOG3022 Predicted ATPase, nucl 22.7 69 0.0015 18.8 1.5 50 5-57 151-203 (300)
443 TIGR02690 resist_ArsH arsenica 22.7 1.5E+02 0.0033 16.4 2.9 32 28-59 84-118 (219)
444 TIGR01425 SRP54_euk signal rec 22.5 2E+02 0.0044 17.8 5.2 38 10-47 182-225 (429)
445 PRK09632 ATP-dependent DNA lig 22.4 2.6E+02 0.0056 18.9 4.0 33 12-45 533-565 (764)
446 PF00448 SRP54: SRP54-type pro 22.3 1.4E+02 0.0031 15.9 4.4 46 10-55 83-135 (196)
447 PF11459 DUF2893: Protein of u 22.2 97 0.0021 14.0 1.8 18 43-60 13-30 (69)
448 PF05378 Hydant_A_N: Hydantoin 22.0 1.3E+02 0.0028 15.9 2.3 23 37-59 152-174 (176)
449 PRK00588 rnpA ribonuclease P; 21.8 1.1E+02 0.0024 15.1 2.0 19 45-63 91-109 (118)
450 TIGR02408 ectoine_ThpD ectoine 21.8 1.6E+02 0.0034 16.7 2.8 30 34-63 26-55 (277)
451 KOG1491 Predicted GTP-binding 21.8 1.9E+02 0.0041 17.7 3.1 37 11-47 84-127 (391)
452 PRK10818 cell division inhibit 21.8 1.6E+02 0.0034 16.2 5.0 42 10-54 113-154 (270)
453 cd01363 Motor_domain Myosin an 21.7 86 0.0019 16.4 1.7 16 11-26 107-122 (186)
454 PRK09563 rbgA GTPase YlqF; Rev 21.5 1.2E+02 0.0026 17.2 2.3 19 29-47 19-37 (287)
455 PF03347 TDH: Vibrio thermosta 21.5 21 0.00045 18.4 -0.6 24 33-56 142-165 (166)
456 PF13117 Cag12: Cag pathogenic 20.7 1.3E+02 0.0029 14.9 2.6 30 30-59 73-102 (113)
457 PF11176 DUF2962: Protein of u 20.7 1.1E+02 0.0023 16.0 1.9 18 39-56 121-138 (155)
458 CHL00175 minD septum-site dete 20.6 1.7E+02 0.0038 16.3 5.2 41 10-53 126-166 (281)
459 cd01617 DCX Ubiquitin-like dom 20.4 1.1E+02 0.0023 13.8 2.6 27 36-62 14-40 (80)
460 COG1430 Uncharacterized conser 20.4 38 0.00083 17.1 0.2 35 11-45 16-50 (126)
461 PF11536 DUF3226: Protein of u 20.2 1.9E+02 0.0041 16.5 6.3 45 4-48 48-99 (239)
462 PF12535 Nudix_N: Hydrolase of 20.0 1E+02 0.0022 13.3 1.8 18 46-63 27-44 (58)
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=99.85 E-value=2.4e-21 Score=99.97 Aligned_cols=59 Identities=22% Similarity=0.554 Sum_probs=54.6
Q ss_pred EEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhccc
Q 037770 6 VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNEV 64 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~~ 64 (65)
++++.+.+++||++||++++.....||++++|||+|||+++.+||++++.|+.++-+..
T Consensus 53 ~~gk~iKlQIWDTAGQERFrtit~syYR~ahGii~vyDiT~~~SF~~v~~Wi~Ei~~~~ 111 (205)
T KOG0084|consen 53 LDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIFVYDITKQESFNNVKRWIQEIDRYA 111 (205)
T ss_pred ecceEEEEEeeeccccHHHhhhhHhhccCCCeEEEEEEcccHHHhhhHHHHHHHhhhhc
Confidence 45677999999999999999999999999999999999999999999999999987653
No 2
>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.83 E-value=6.5e-20 Score=93.81 Aligned_cols=64 Identities=84% Similarity=1.396 Sum_probs=61.7
Q ss_pred CcEEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhccc
Q 037770 1 FNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNEV 64 (65)
Q Consensus 1 f~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~~ 64 (65)
|||+++..+++++.+||.+|+.++++.|++||.+.+++|||+|+++++++.++++.+.+++++.
T Consensus 51 fnVE~v~ykn~~f~vWDvGGq~k~R~lW~~Y~~~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~ 114 (181)
T KOG0070|consen 51 FNVETVEYKNISFTVWDVGGQEKLRPLWKHYFQNTQGLIFVVDSSDRERIEEAKEELHRMLAEP 114 (181)
T ss_pred cceeEEEEcceEEEEEecCCCcccccchhhhccCCcEEEEEEeCCcHHHHHHHHHHHHHHHcCc
Confidence 8999999999999999999999999999999999999999999999999999999999988764
No 3
>KOG0092 consensus GTPase Rab5/YPT51 and related small G protein superfamily GTPases [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.82 E-value=1.5e-19 Score=93.14 Aligned_cols=62 Identities=24% Similarity=0.525 Sum_probs=55.2
Q ss_pred EEEEEECC--EEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhccc
Q 037770 3 VETVEYKN--ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNEV 64 (65)
Q Consensus 3 ~~~~~~~~--~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~~ 64 (65)
..++...+ ++|++|||+|+++|..+-+.||++++++|+|||+++.+||..+++|++++.++.
T Consensus 44 tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAivvYDit~~~SF~~aK~WvkeL~~~~ 107 (200)
T KOG0092|consen 44 TKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAIVVYDITDEESFEKAKNWVKELQRQA 107 (200)
T ss_pred EEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEEEEEecccHHHHHHHHHHHHHHHhhC
Confidence 34444444 899999999999999999999999999999999999999999999999987653
No 4
>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.81 E-value=3.3e-19 Score=88.59 Aligned_cols=64 Identities=78% Similarity=1.348 Sum_probs=61.5
Q ss_pred CcEEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhccc
Q 037770 1 FNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNEV 64 (65)
Q Consensus 1 f~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~~ 64 (65)
|||++++.+++.|.+||++|++..+++|.+||.+..|+|||.|+.+++..+++++.+.+++++.
T Consensus 51 FnvetVtykN~kfNvwdvGGqd~iRplWrhYy~gtqglIFV~Dsa~~dr~eeAr~ELh~ii~~~ 114 (180)
T KOG0071|consen 51 FNVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIEEARNELHRIINDR 114 (180)
T ss_pred eeEEEEEeeeeEEeeeeccCchhhhHHHHhhccCCceEEEEEeccchhhHHHHHHHHHHHhCCH
Confidence 8999999999999999999999999999999999999999999999999999999999988763
No 5
>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.79 E-value=7.3e-19 Score=90.54 Aligned_cols=61 Identities=25% Similarity=0.488 Sum_probs=57.2
Q ss_pred EEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhccc
Q 037770 4 ETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNEV 64 (65)
Q Consensus 4 ~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~~ 64 (65)
.+++.+++++++||++|+++++.....||+++.|+|+|||++++++|+++..|+..+.++.
T Consensus 48 ~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~GalLVydit~r~sF~hL~~wL~D~rq~~ 108 (216)
T KOG0098|consen 48 VTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAGALLVYDITRRESFNHLTSWLEDARQHS 108 (216)
T ss_pred EEEcCceEEEEEEecCCcHHHHHHHHHHhccCcceEEEEEccchhhHHHHHHHHHHHHHhc
Confidence 4577888999999999999999999999999999999999999999999999999998763
No 6
>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]
Probab=99.77 E-value=2e-18 Score=86.58 Aligned_cols=63 Identities=25% Similarity=0.614 Sum_probs=56.2
Q ss_pred CcEEEEEE--CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 1 FNVETVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 1 f~~~~~~~--~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
|.+++++. ..+.++|||++|+++++.+...||++.++++.|||+++.+||.++++|++++.++
T Consensus 45 fkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthgv~vVYDVTn~ESF~Nv~rWLeei~~n 109 (198)
T KOG0079|consen 45 FKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFNNVKRWLEEIRNN 109 (198)
T ss_pred EEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCceEEEEEECcchhhhHhHHHHHHHHHhc
Confidence 44566544 4589999999999999999999999999999999999999999999999998653
No 7
>KOG0080 consensus GTPase Rab18, small G protein superfamily [General function prediction only]
Probab=99.76 E-value=2.3e-18 Score=87.25 Aligned_cols=58 Identities=33% Similarity=0.624 Sum_probs=53.7
Q ss_pred EEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHH
Q 037770 3 VETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRM 60 (65)
Q Consensus 3 ~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~ 60 (65)
+.+++++.+++-+||++|+++++.+.+.||+++.|+|+|||++.+++|.++..|++++
T Consensus 52 ~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaqGiIlVYDVT~Rdtf~kLd~W~~El 109 (209)
T KOG0080|consen 52 VMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQGIILVYDVTSRDTFVKLDIWLKEL 109 (209)
T ss_pred EEEEcCceEEEEEEeccchHhhhccCHhHhccCceeEEEEEccchhhHHhHHHHHHHH
Confidence 3456778899999999999999999999999999999999999999999999998876
No 8
>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=99.75 E-value=1.1e-17 Score=87.22 Aligned_cols=64 Identities=23% Similarity=0.601 Sum_probs=56.2
Q ss_pred CcEEEEEE--CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhccc
Q 037770 1 FNVETVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNEV 64 (65)
Q Consensus 1 f~~~~~~~--~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~~ 64 (65)
|.++++.. +.+.+++||++||++++.+...||+++.|+++|||+++..||+++..|++.+-++.
T Consensus 49 Fk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyrgA~gi~LvyDitne~Sfeni~~W~~~I~e~a 114 (207)
T KOG0078|consen 49 FKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDITNEKSFENIRNWIKNIDEHA 114 (207)
T ss_pred EEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHhhcCeeEEEEEccchHHHHHHHHHHHHHHhhC
Confidence 34455544 55889999999999999999999999999999999999999999999999887653
No 9
>KOG0087 consensus GTPase Rab11/YPT3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.75 E-value=2.2e-18 Score=89.92 Aligned_cols=60 Identities=22% Similarity=0.479 Sum_probs=56.0
Q ss_pred EEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhccc
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNEV 64 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~~ 64 (65)
.++++.+..++||++||++|+.....||+++.|.++|||++.+.+|+++..|++++..|.
T Consensus 57 ~vd~k~vkaqIWDTAGQERyrAitSaYYrgAvGAllVYDITr~~Tfenv~rWL~ELRdha 116 (222)
T KOG0087|consen 57 NVDGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITRRQTFENVERWLKELRDHA 116 (222)
T ss_pred eecCcEEEEeeecccchhhhccccchhhcccceeEEEEechhHHHHHHHHHHHHHHHhcC
Confidence 456677899999999999999999999999999999999999999999999999998764
No 10
>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]
Probab=99.75 E-value=1.7e-17 Score=84.01 Aligned_cols=63 Identities=49% Similarity=1.014 Sum_probs=59.7
Q ss_pred CcEEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 1 FNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 1 f~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
|+++++..+...+.+||++|+...+.+|+.||.+.+|+|+|+|++++.++++++..++.++.+
T Consensus 50 f~Iktl~~~~~~L~iwDvGGq~~lr~~W~nYfestdglIwvvDssD~~r~~e~~~~L~~lL~e 112 (185)
T KOG0073|consen 50 FQIKTLEYKGYTLNIWDVGGQKTLRSYWKNYFESTDGLIWVVDSSDRMRMQECKQELTELLVE 112 (185)
T ss_pred eeeEEEEecceEEEEEEcCCcchhHHHHHHhhhccCeEEEEEECchHHHHHHHHHHHHHHHhh
Confidence 788999999999999999999999999999999999999999999999999999999887754
No 11
>KOG0094 consensus GTPase Rab6/YPT6/Ryh1, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.75 E-value=8.9e-18 Score=87.04 Aligned_cols=58 Identities=22% Similarity=0.504 Sum_probs=53.3
Q ss_pred EEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 6 VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
+.+..+.|++||++||++++.+.+.|++++..+|+|||+++.+||++..+|++.+.+.
T Consensus 66 l~d~~vrLQlWDTAGQERFrslipsY~Rds~vaviVyDit~~~Sfe~t~kWi~dv~~e 123 (221)
T KOG0094|consen 66 LEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVIVYDITDRNSFENTSKWIEDVRRE 123 (221)
T ss_pred EcCcEEEEEEEecccHHHHhhhhhhhccCCeEEEEEEeccccchHHHHHHHHHHHHhc
Confidence 3445689999999999999999999999999999999999999999999999988764
No 12
>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]
Probab=99.74 E-value=6.7e-18 Score=83.64 Aligned_cols=57 Identities=18% Similarity=0.518 Sum_probs=52.7
Q ss_pred EEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHh
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRML 61 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~ 61 (65)
.++.+.+++++||++||++++...+.||+.+++++++||++++.||++++.|+.+|-
T Consensus 41 ~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydiankasfdn~~~wlsei~ 97 (192)
T KOG0083|consen 41 DMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDIANKASFDNCQAWLSEIH 97 (192)
T ss_pred ccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeecccchhHHHHHHHHHHHH
Confidence 345567899999999999999999999999999999999999999999999998874
No 13
>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]
Probab=99.72 E-value=8.8e-18 Score=85.12 Aligned_cols=56 Identities=23% Similarity=0.509 Sum_probs=51.5
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
......+.+||++|+++|..+-+.||++.+|+++|||+++++||+.+++|..++.+
T Consensus 58 ed~ra~L~IWDTAGQErfHALGPIYYRgSnGalLVyDITDrdSFqKVKnWV~Elr~ 113 (218)
T KOG0088|consen 58 EDCRADLHIWDTAGQERFHALGPIYYRGSNGALLVYDITDRDSFQKVKNWVLELRT 113 (218)
T ss_pred ccceeeeeeeeccchHhhhccCceEEeCCCceEEEEeccchHHHHHHHHHHHHHHH
Confidence 34557899999999999999999999999999999999999999999999988753
No 14
>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.71 E-value=4e-17 Score=82.37 Aligned_cols=59 Identities=25% Similarity=0.520 Sum_probs=53.5
Q ss_pred EEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHh
Q 037770 3 VETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRML 61 (65)
Q Consensus 3 ~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~ 61 (65)
+..+.++.+++++||++|+++++.....||+++.|.++|||++++++|+.+.+|+..+.
T Consensus 50 IinVGgK~vKLQIWDTAGQErFRSVtRsYYRGAAGAlLVYD~TsrdsfnaLtnWL~DaR 108 (214)
T KOG0086|consen 50 IVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRDSFNALTNWLTDAR 108 (214)
T ss_pred eeeecCcEEEEEEeecccHHHHHHHHHHHhccccceEEEEeccchhhHHHHHHHHHHHH
Confidence 34456677999999999999999999999999999999999999999999999998653
No 15
>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=99.71 E-value=1.7e-16 Score=83.16 Aligned_cols=58 Identities=22% Similarity=0.555 Sum_probs=51.2
Q ss_pred EEEEEC--CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHh
Q 037770 4 ETVEYK--NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRML 61 (65)
Q Consensus 4 ~~~~~~--~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~ 61 (65)
.++... .+.+++||++|+++++.+|..|+++++++++|||+++++||++++.|+..+.
T Consensus 40 ~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVfDvtd~~Sf~~l~~w~~~i~ 99 (202)
T cd04120 40 KTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMID 99 (202)
T ss_pred EEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHH
Confidence 344443 4889999999999999999999999999999999999999999999887654
No 16
>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]
Probab=99.70 E-value=1.4e-16 Score=79.79 Aligned_cols=63 Identities=35% Similarity=0.856 Sum_probs=58.9
Q ss_pred CcEEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 1 FNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 1 f~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
||+.+++..++.+.+||++|+..++..|..|++++++++||+|.++++.....++.+..++..
T Consensus 55 fnmrk~tkgnvtiklwD~gGq~rfrsmWerycR~v~aivY~VDaad~~k~~~sr~EL~~LL~k 117 (186)
T KOG0075|consen 55 FNMRKVTKGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVYVVDAADPDKLEASRSELHDLLDK 117 (186)
T ss_pred ceeEEeccCceEEEEEecCCCccHHHHHHHHhhcCcEEEEEeecCCcccchhhHHHHHHHhcc
Confidence 789999999999999999999999999999999999999999999999998888888877754
No 17
>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=99.70 E-value=3e-16 Score=80.57 Aligned_cols=64 Identities=55% Similarity=1.131 Sum_probs=60.0
Q ss_pred CcEEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhccc
Q 037770 1 FNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNEV 64 (65)
Q Consensus 1 f~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~~ 64 (65)
|+++++...+..+.+||++|+..++..|+.|+.+++++|||+|+++.+++.++++.+.+++++.
T Consensus 48 ~~~~~i~~~~~~~~~~d~gG~~~~~~~w~~y~~~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~ 111 (175)
T PF00025_consen 48 FNIEEIKYKGYSLTIWDLGGQESFRPLWKSYFQNADGIIFVVDSSDPERLQEAKEELKELLNDP 111 (175)
T ss_dssp EEEEEEEETTEEEEEEEESSSGGGGGGGGGGHTTESEEEEEEETTGGGGHHHHHHHHHHHHTSG
T ss_pred cccceeeeCcEEEEEEeccccccccccceeeccccceeEEEEecccceeecccccchhhhcchh
Confidence 5788899999999999999999999999999999999999999999999999999999988753
No 18
>KOG0093 consensus GTPase Rab3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.70 E-value=2.5e-16 Score=79.03 Aligned_cols=61 Identities=26% Similarity=0.582 Sum_probs=53.4
Q ss_pred CcEEEEEE--CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHh
Q 037770 1 FNVETVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRML 61 (65)
Q Consensus 1 f~~~~~~~--~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~ 61 (65)
|.++++-. +.+.+++||++|+++++.+...|+++++|+|+|||+++.+||+.++.|..+|.
T Consensus 58 FKvKTvyr~~kRiklQiwDTagqEryrtiTTayyRgamgfiLmyDitNeeSf~svqdw~tqIk 120 (193)
T KOG0093|consen 58 FKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNSVQDWITQIK 120 (193)
T ss_pred EEEeEeeecccEEEEEEEecccchhhhHHHHHHhhccceEEEEEecCCHHHHHHHHHHHHHhe
Confidence 44555432 45899999999999999999999999999999999999999999999988763
No 19
>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]
Probab=99.69 E-value=5.1e-17 Score=82.64 Aligned_cols=55 Identities=22% Similarity=0.540 Sum_probs=51.2
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHh
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRML 61 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~ 61 (65)
.+..+++++||++|+++++.+...||++.-|+++|||++|++||++++.|+++..
T Consensus 54 pg~riklqlwdtagqerfrsitksyyrnsvgvllvyditnr~sfehv~~w~~ea~ 108 (213)
T KOG0091|consen 54 PGYRIKLQLWDTAGQERFRSITKSYYRNSVGVLLVYDITNRESFEHVENWVKEAA 108 (213)
T ss_pred CCcEEEEEEeeccchHHHHHHHHHHhhcccceEEEEeccchhhHHHHHHHHHHHH
Confidence 3456899999999999999999999999999999999999999999999998864
No 20
>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]
Probab=99.69 E-value=4.2e-16 Score=77.80 Aligned_cols=63 Identities=48% Similarity=0.991 Sum_probs=57.0
Q ss_pred CcEEEEEECC-EEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 1 FNVETVEYKN-ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 1 f~~~~~~~~~-~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
||+.++.... +++.+||.+|+...+.+|..||.+.+++|||+|+++...|++..+.+-++++.
T Consensus 51 Fn~k~v~~~g~f~LnvwDiGGqr~IRpyWsNYyenvd~lIyVIDS~D~krfeE~~~el~ELlee 114 (185)
T KOG0074|consen 51 FNTKKVEYDGTFHLNVWDIGGQRGIRPYWSNYYENVDGLIYVIDSTDEKRFEEISEELVELLEE 114 (185)
T ss_pred cceEEEeecCcEEEEEEecCCccccchhhhhhhhccceEEEEEeCCchHhHHHHHHHHHHHhhh
Confidence 7888888876 89999999999999999999999999999999999999999988877776643
No 21
>PLN00223 ADP-ribosylation factor; Provisional
Probab=99.68 E-value=6.6e-16 Score=79.65 Aligned_cols=62 Identities=98% Similarity=1.534 Sum_probs=56.0
Q ss_pred cEEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 2 NVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 2 ~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
++++++..++.+++||++|+++++..|..++++++++|+|+|+++++++.++++++.+++++
T Consensus 52 ~~~~~~~~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~ 113 (181)
T PLN00223 52 NVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNE 113 (181)
T ss_pred eEEEEEECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcC
Confidence 45567778899999999999999999999999999999999999999999999988887653
No 22
>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=99.67 E-value=7.4e-16 Score=80.10 Aligned_cols=55 Identities=22% Similarity=0.481 Sum_probs=50.8
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
..+.+++||++|+++++.++..++++++++++|||++++++|++++.|+.++.+.
T Consensus 53 ~~~~l~iwDt~G~~~~~~l~~~~~~~ad~illVfD~t~~~Sf~~~~~w~~~i~~~ 107 (189)
T cd04121 53 RRVKLQLWDTSGQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEH 107 (189)
T ss_pred EEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHh
Confidence 3488999999999999999999999999999999999999999999999988643
No 23
>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=99.66 E-value=1.9e-15 Score=76.44 Aligned_cols=62 Identities=94% Similarity=1.456 Sum_probs=55.5
Q ss_pred cEEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 2 NVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 2 ~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
+++.+....+.+.+||++|++++...|..++++++++++|+|++++++|+++.+++.+++++
T Consensus 35 ~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~ 96 (159)
T cd04150 35 NVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERIGEAREELQRMLNE 96 (159)
T ss_pred ceEEEEECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhc
Confidence 44566778899999999999999999999999999999999999999999999988887643
No 24
>KOG0095 consensus GTPase Rab30, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.66 E-value=5.7e-16 Score=78.03 Aligned_cols=62 Identities=26% Similarity=0.509 Sum_probs=54.8
Q ss_pred CcEEEEE--ECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 1 FNVETVE--YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 1 f~~~~~~--~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
|.++++. +..+++++||++|+++++.+...||++++++|+|||++=..+|.-+.+|+.+|.+
T Consensus 44 fmiktvev~gekiklqiwdtagqerfrsitqsyyrsahalilvydiscqpsfdclpewlreie~ 107 (213)
T KOG0095|consen 44 FMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAHALILVYDISCQPSFDCLPEWLREIEQ 107 (213)
T ss_pred EEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcceEEEEEecccCcchhhhHHHHHHHHH
Confidence 4455554 4569999999999999999999999999999999999999999999999998753
No 25
>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.66 E-value=3.8e-16 Score=78.06 Aligned_cols=63 Identities=62% Similarity=1.066 Sum_probs=58.7
Q ss_pred CcEEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 1 FNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 1 f~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
||++++..+++++++||++|+.+.+++|.-||.+.+++|||+|.+|+++..-.+..+..++++
T Consensus 52 fnve~v~yKNLk~~vwdLggqtSirPyWRcYy~dt~avIyVVDssd~dris~a~~el~~mL~E 114 (182)
T KOG0072|consen 52 FNVETVPYKNLKFQVWDLGGQTSIRPYWRCYYADTDAVIYVVDSSDRDRISIAGVELYSMLQE 114 (182)
T ss_pred cCccccccccccceeeEccCcccccHHHHHHhcccceEEEEEeccchhhhhhhHHHHHHHhcc
Confidence 799999999999999999999999999999999999999999999999988888877777654
No 26
>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=99.66 E-value=2.6e-15 Score=76.94 Aligned_cols=62 Identities=92% Similarity=1.450 Sum_probs=55.4
Q ss_pred cEEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 2 NVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 2 ~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
++..+....+.+.+||++|+++++..|..|+++++++++|+|++++++++++.+++.+++++
T Consensus 48 ~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~ 109 (175)
T smart00177 48 NVETVTYKNISFTVWDVGGQDKIRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNE 109 (175)
T ss_pred ceEEEEECCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHhhC
Confidence 34456677899999999999999999999999999999999999999999999999887653
No 27
>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=99.66 E-value=1.5e-15 Score=79.66 Aligned_cols=54 Identities=24% Similarity=0.489 Sum_probs=50.8
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
+.+.+++||++|++.+..++..++++++++|+|||+++++||+++..|+.++.+
T Consensus 52 ~~~~l~IwDtaG~e~~~~l~~~~yr~ad~iIlVyDvtn~~Sf~~l~~W~~ei~~ 105 (202)
T cd04102 52 KTFFVELWDVGGSESVKSTRAVFYNQVNGIILVHDLTNRKSSQNLQRWSLEALN 105 (202)
T ss_pred cEEEEEEEecCCchhHHHHHHHHhCcCCEEEEEEECcChHHHHHHHHHHHHHHH
Confidence 457899999999999999999999999999999999999999999999999865
No 28
>PTZ00099 rab6; Provisional
Probab=99.64 E-value=7.4e-16 Score=79.32 Aligned_cols=57 Identities=25% Similarity=0.531 Sum_probs=51.7
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
++..+.+.+||++|+++++..+..++++++++|+|||++++++|+++..|+.++++.
T Consensus 25 ~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~ 81 (176)
T PTZ00099 25 DEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNE 81 (176)
T ss_pred CCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence 344588999999999999999999999999999999999999999999999888653
No 29
>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=99.64 E-value=4.3e-15 Score=75.76 Aligned_cols=61 Identities=79% Similarity=1.354 Sum_probs=54.8
Q ss_pred EEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 3 VETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 3 ~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
+..+....+.+.+||++|+++++..|+.++++++++++|+|++++.+|+++.+++.+++++
T Consensus 45 ~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~ 105 (168)
T cd04149 45 VETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIIND 105 (168)
T ss_pred eEEEEECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCchhhHHHHHHHHHHHhcC
Confidence 4456677899999999999999999999999999999999999999999999998887753
No 30
>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=99.64 E-value=9.6e-16 Score=79.24 Aligned_cols=56 Identities=9% Similarity=0.285 Sum_probs=49.9
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHH-HHHHHHHhc
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEA-RDELHRMLN 62 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~-~~~~~~~~~ 62 (65)
+...+.+++||++|++.+..+++.++++++++++|||+++++||+++ ..|+.++.+
T Consensus 49 ~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~ 105 (182)
T cd04172 49 DTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQE 105 (182)
T ss_pred CCEEEEEEEEECCCchhhHhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHH
Confidence 44558899999999999999999999999999999999999999998 688777653
No 31
>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.64 E-value=4e-16 Score=79.22 Aligned_cols=55 Identities=22% Similarity=0.596 Sum_probs=51.8
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhccc
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNEV 64 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~~ 64 (65)
.+++++||++|+++++.+...+|+.+.|++++||+++.+||-++++|+.++..|.
T Consensus 66 rihLQlWDTAGQERFRSLTTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hA 120 (219)
T KOG0081|consen 66 RIHLQLWDTAGQERFRSLTTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHA 120 (219)
T ss_pred EEEEeeeccccHHHHHHHHHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhh
Confidence 3889999999999999999999999999999999999999999999999987653
No 32
>cd01875 RhoG RhoG subfamily. RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-termin
Probab=99.64 E-value=1.2e-15 Score=79.22 Aligned_cols=56 Identities=18% Similarity=0.309 Sum_probs=49.1
Q ss_pred EEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHH-HHHHHh
Q 037770 6 VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARD-ELHRML 61 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~-~~~~~~ 61 (65)
+++..+.+++||++|++.++.+++.|+++++++++|||+++++||++++. |..++.
T Consensus 46 ~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilvydit~~~Sf~~~~~~w~~~i~ 102 (191)
T cd01875 46 VDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVC 102 (191)
T ss_pred ECCEEEEEEEEECCCchhhhhhhhhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 44455889999999999999999999999999999999999999999974 665554
No 33
>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=99.63 E-value=1.1e-15 Score=78.63 Aligned_cols=56 Identities=11% Similarity=0.287 Sum_probs=50.4
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHH-HHHHHHHhc
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEA-RDELHRMLN 62 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~-~~~~~~~~~ 62 (65)
++..+.+.+||++|+++++.+++.++++++++|+|||+++++||+++ +.|+.++.+
T Consensus 45 ~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~ 101 (176)
T cd04133 45 DGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLISRASYENVLKKWVPELRH 101 (176)
T ss_pred CCEEEEEEEEECCCCccccccchhhcCCCcEEEEEEEcCCHHHHHHHHHHHHHHHHH
Confidence 44558899999999999999999999999999999999999999998 688887753
No 34
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=99.63 E-value=7e-15 Score=75.85 Aligned_cols=62 Identities=81% Similarity=1.376 Sum_probs=55.6
Q ss_pred cEEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 2 NVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 2 ~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
++..++..++.+.+||++|++.++..|..++++++++|+|+|++++++|+++.+++.+++++
T Consensus 52 ~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~ 113 (182)
T PTZ00133 52 NVETVEYKNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSE 113 (182)
T ss_pred ceEEEEECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhC
Confidence 34567778899999999999999999999999999999999999999999999888887653
No 35
>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=99.63 E-value=9.9e-15 Score=74.16 Aligned_cols=60 Identities=37% Similarity=0.765 Sum_probs=54.8
Q ss_pred EEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 3 VETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 3 ~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
...++.+.+.+.+||++|++.++..|..++++++++++|+|++++.+|..++.|+.++++
T Consensus 36 ~~~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~t~~~s~~~~~~~l~~~~~ 95 (164)
T cd04162 36 SVAIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDSADSERLPLARQELHQLLQ 95 (164)
T ss_pred eEEEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHh
Confidence 345677889999999999999999999999999999999999999999999999888764
No 36
>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=99.62 E-value=2.6e-15 Score=78.64 Aligned_cols=55 Identities=25% Similarity=0.400 Sum_probs=50.9
Q ss_pred ECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 8 YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.+.+.+.+||++|++.++.++..|+++++++++|||++++.+|.+++.|+.++.+
T Consensus 41 ~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~~S~~~i~~w~~~i~~ 95 (200)
T smart00176 41 RGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVR 95 (200)
T ss_pred CEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCChHHHHHHHHHHHHHHH
Confidence 3468899999999999999999999999999999999999999999999888864
No 37
>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=99.61 E-value=2.1e-15 Score=77.68 Aligned_cols=56 Identities=9% Similarity=0.288 Sum_probs=49.6
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHH-HHHHHHHhc
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEA-RDELHRMLN 62 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~-~~~~~~~~~ 62 (65)
+...+.+.+||++|++.+...++.++++++++++|||+++++||+++ +.|+.++.+
T Consensus 45 ~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~ 101 (178)
T cd04131 45 DEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLICFDISRPETLDSVLKKWRGEIQE 101 (178)
T ss_pred CCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEEEECCChhhHHHHHHHHHHHHHH
Confidence 44558899999999999999999999999999999999999999996 788777653
No 38
>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=99.61 E-value=1.3e-14 Score=73.82 Aligned_cols=62 Identities=31% Similarity=0.715 Sum_probs=55.9
Q ss_pred cEEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 2 NVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 2 ~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
+..++...+..+.+||++|+..++..|..|+++++++++|+|++++++|++++.++..++++
T Consensus 34 ~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~ 95 (167)
T cd04161 34 TPTKLRLDKYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVDSSDDDRVQEVKEILRELLQH 95 (167)
T ss_pred eEEEEEECCEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEECCchhHHHHHHHHHHHHHcC
Confidence 34566777899999999999999999999999999999999999999999999999988754
No 39
>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=99.60 E-value=4e-15 Score=79.44 Aligned_cols=56 Identities=11% Similarity=0.350 Sum_probs=49.7
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHH-HHHHHHHhc
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEA-RDELHRMLN 62 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~-~~~~~~~~~ 62 (65)
++..+.+.+||++|++.+..+++.|+++++++++|||++++++|+++ ..|+.++.+
T Consensus 57 ~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~vIlVyDit~~~Sf~~~~~~w~~~i~~ 113 (232)
T cd04174 57 EEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWKAEIMD 113 (232)
T ss_pred CCEEEEEEEEeCCCchhhHHHHHHHcCCCcEEEEEEECCChHHHHHHHHHHHHHHHH
Confidence 44558899999999999999999999999999999999999999985 788877653
No 40
>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=99.59 E-value=3.5e-14 Score=72.31 Aligned_cols=61 Identities=64% Similarity=1.205 Sum_probs=55.3
Q ss_pred EEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 3 VETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 3 ~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
+.+++..++.+.+||++|+..++..|..++++++++++|+|++++++|.++..|+.+++++
T Consensus 35 ~~~~~~~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~s~~~s~~~~~~~~~~~~~~ 95 (169)
T cd04158 35 VETVEYKNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVDSSHRDRVSEAHSELAKLLTE 95 (169)
T ss_pred EEEEEECCEEEEEEECCCChhcchHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcC
Confidence 4456778899999999999999999999999999999999999999999999999988754
No 41
>PLN00023 GTP-binding protein; Provisional
Probab=99.59 E-value=7.5e-15 Score=81.40 Aligned_cols=54 Identities=19% Similarity=0.441 Sum_probs=50.6
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
+.+.+++||++|++.++.+++.|+++++++|+|||++++++|+++.+|++++.+
T Consensus 81 k~v~LqIWDTAGqErfrsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~ 134 (334)
T PLN00023 81 RDFFVELWDVSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAA 134 (334)
T ss_pred ceEEEEEEECCCChhhhhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHH
Confidence 347899999999999999999999999999999999999999999999998864
No 42
>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=99.59 E-value=6.7e-15 Score=78.18 Aligned_cols=56 Identities=9% Similarity=0.296 Sum_probs=48.2
Q ss_pred EEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHh
Q 037770 6 VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRML 61 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~ 61 (65)
+++..+.+.+||++|++.+..+++.++++++++++|||++++++|+++.++|...+
T Consensus 44 ~~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illvfdis~~~Sf~~i~~~w~~~~ 99 (222)
T cd04173 44 IDKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGET 99 (222)
T ss_pred ECCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence 34456889999999999999999999999999999999999999999965444433
No 43
>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.59 E-value=6.9e-15 Score=75.26 Aligned_cols=62 Identities=34% Similarity=0.866 Sum_probs=57.2
Q ss_pred cEEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 2 NVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 2 ~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
|++++...+..+.+||++|++..+.+|..||.-++++|+++|.++++.|++.+..++.++.+
T Consensus 60 nig~i~v~~~~l~fwdlgGQe~lrSlw~~yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~ 121 (197)
T KOG0076|consen 60 NIGTIEVCNAPLSFWDLGGQESLRSLWKKYYWLAHGIIYVIDATDRERFEESKTAFEKVVEN 121 (197)
T ss_pred eecceeeccceeEEEEcCChHHHHHHHHHHHHHhceeEEeecCCCHHHHHHHHHHHHHHHHH
Confidence 67777888889999999999999999999999999999999999999999999988887654
No 44
>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=99.58 E-value=8.5e-15 Score=75.61 Aligned_cols=54 Identities=17% Similarity=0.458 Sum_probs=49.9
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++++...++.++++++++++|||++++++|.++++|+.++.+
T Consensus 47 ~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~D~t~~~s~~~i~~~~~~~~~ 100 (182)
T cd04128 47 TEITFSIWDLGGQREFINMLPLVCNDAVAILFMFDLTRKSTLNSIKEWYRQARG 100 (182)
T ss_pred EEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence 347899999999999999999999999999999999999999999999988764
No 45
>KOG0394 consensus Ras-related GTPase [General function prediction only]
Probab=99.58 E-value=3.2e-15 Score=77.08 Aligned_cols=58 Identities=17% Similarity=0.448 Sum_probs=53.5
Q ss_pred EEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 6 VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
++.+.+.+++||++|+++++.+...+|+++|+.++|||+++++||+.+.+|-++.+..
T Consensus 53 Vd~~~vtlQiWDTAGQERFqsLg~aFYRgaDcCvlvydv~~~~Sfe~L~~Wr~EFl~q 110 (210)
T KOG0394|consen 53 VDDRSVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVNNPKSFENLENWRKEFLIQ 110 (210)
T ss_pred EcCeEEEEEEEecccHHHhhhcccceecCCceEEEEeecCChhhhccHHHHHHHHHHh
Confidence 4555689999999999999999999999999999999999999999999999998764
No 46
>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]
Probab=99.57 E-value=9.5e-15 Score=76.20 Aligned_cols=61 Identities=16% Similarity=0.356 Sum_probs=51.8
Q ss_pred EEE-ECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcccC
Q 037770 5 TVE-YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNEVC 65 (65)
Q Consensus 5 ~~~-~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~~~ 65 (65)
+++ ++.+.+.+||++||+.|..+++..|.++|.+|+||++.+++||+++++-|...+++-|
T Consensus 46 ~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvfl~cfsv~~p~S~~nv~~kW~pEi~~~c 107 (198)
T KOG0393|consen 46 TVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVFLLCFSVVSPESFENVKSKWIPEIKHHC 107 (198)
T ss_pred EecCCCEEEEeeeecCCCcccccccccCCCCCCEEEEEEEcCChhhHHHHHhhhhHHHHhhC
Confidence 453 7789999999999999999999999999999999999999999998755544444443
No 47
>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=99.56 E-value=2.1e-14 Score=72.73 Aligned_cols=54 Identities=26% Similarity=0.534 Sum_probs=49.4
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++.++..+..++++++++++|||++++++|+++.+|+..+.+
T Consensus 49 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~ 102 (166)
T cd04122 49 QKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARN 102 (166)
T ss_pred EEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 457889999999999999999999999999999999999999999999887643
No 48
>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=99.55 E-value=4.8e-14 Score=73.53 Aligned_cols=54 Identities=19% Similarity=0.376 Sum_probs=49.5
Q ss_pred ECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHh
Q 037770 8 YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRML 61 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~ 61 (65)
+..+.+.+||++|++.++..+..++++++++++|||++++++|+++..|+.++.
T Consensus 47 ~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv~D~t~~~s~~~~~~~~~~i~ 100 (201)
T cd04107 47 NTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIVFDVTRPSTFEAVLKWKADLD 100 (201)
T ss_pred CCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence 346789999999999999999999999999999999999999999998887764
No 49
>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=99.55 E-value=2.6e-14 Score=73.31 Aligned_cols=53 Identities=9% Similarity=0.205 Sum_probs=47.3
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHH-HHHHHh
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARD-ELHRML 61 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~-~~~~~~ 61 (65)
..+.+.+||++|++.+...+..++++++++++|||++++++|+++.+ |+.++.
T Consensus 47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~ 100 (175)
T cd01874 47 EPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEIT 100 (175)
T ss_pred EEEEEEEEECCCccchhhhhhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 34789999999999999999999999999999999999999999974 766654
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=99.55 E-value=3.7e-14 Score=71.52 Aligned_cols=54 Identities=15% Similarity=0.332 Sum_probs=49.2
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
....+++||++|++++..++..++++++++++|||++++++|.++..|+..+.+
T Consensus 47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~~~~ 100 (163)
T cd04176 47 SPSVLEILDTAGTEQFASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVR 100 (163)
T ss_pred EEEEEEEEECCCcccccchHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 346788999999999999999999999999999999999999999998887754
No 51
>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=99.54 E-value=3e-14 Score=72.78 Aligned_cols=55 Identities=27% Similarity=0.534 Sum_probs=50.4
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
..+.+++||++|++.+...+..++++++++++|||++++++|..+.+|+.++++.
T Consensus 47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~ 101 (170)
T cd04108 47 VPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKE 101 (170)
T ss_pred EEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHh
Confidence 3478999999999999999999999999999999999999999999999887654
No 52
>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=99.54 E-value=1.8e-13 Score=68.79 Aligned_cols=60 Identities=55% Similarity=0.947 Sum_probs=53.3
Q ss_pred EEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 3 VETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 3 ~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
+..+...++.+.+||++|+..++..|..++++++++++|+|++++.++..++.++..+++
T Consensus 37 ~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~~~~ 96 (162)
T cd04157 37 VESFEKGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDSSDRLRLVVVKDELELLLN 96 (162)
T ss_pred eEEEEECCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEEeCCcHHHHHHHHHHHHHHHc
Confidence 344556778999999999999999999999999999999999999999999888887765
No 53
>PTZ00369 Ras-like protein; Provisional
Probab=99.54 E-value=5.8e-14 Score=72.66 Aligned_cols=57 Identities=18% Similarity=0.358 Sum_probs=51.0
Q ss_pred EEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 6 VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
++...+.+.+||++|++.+..+|..++++++++++|||++++++|+++..|+..+.+
T Consensus 48 ~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~ 104 (189)
T PTZ00369 48 IDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILR 104 (189)
T ss_pred ECCEEEEEEEEeCCCCccchhhHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 344457789999999999999999999999999999999999999999999887764
No 54
>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=99.54 E-value=3.9e-14 Score=72.61 Aligned_cols=54 Identities=15% Similarity=0.244 Sum_probs=47.4
Q ss_pred ECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHH-HHHHHHh
Q 037770 8 YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEAR-DELHRML 61 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~-~~~~~~~ 61 (65)
++.+.+.+||++|++.+...++.++++++++|+|||++++++|.++. .|+..+.
T Consensus 46 ~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~ 100 (174)
T cd01871 46 GKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR 100 (174)
T ss_pred CEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 34478999999999999999999999999999999999999999996 4665554
No 55
>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=99.53 E-value=1.4e-13 Score=73.10 Aligned_cols=55 Identities=16% Similarity=0.436 Sum_probs=50.4
Q ss_pred ECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 8 YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
...+.+.+||++|++.+...+..++++++++|+|||++++++|.++..|+..+.+
T Consensus 41 ~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~Dvt~~~Sf~~l~~~~~~l~~ 95 (220)
T cd04126 41 WGPYNISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTD 95 (220)
T ss_pred eeEEEEEEEeCCCcccchhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 3457899999999999999999999999999999999999999999999887764
No 56
>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.53 E-value=2.9e-14 Score=71.46 Aligned_cols=58 Identities=24% Similarity=0.488 Sum_probs=53.8
Q ss_pred EEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHH
Q 037770 3 VETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRM 60 (65)
Q Consensus 3 ~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~ 60 (65)
+-++.++.+++++||++|+++++.....||+++.|.+.|||++.+...+++..|+...
T Consensus 52 iievsgqkiklqiwdtagqerfravtrsyyrgaagalmvyditrrstynhlsswl~da 109 (215)
T KOG0097|consen 52 IIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDA 109 (215)
T ss_pred EEEecCcEEEEEEeecccHHHHHHHHHHHhccccceeEEEEehhhhhhhhHHHHHhhh
Confidence 4567788899999999999999999999999999999999999999999999998764
No 57
>PLN03071 GTP-binding nuclear protein Ran; Provisional
Probab=99.53 E-value=5.5e-14 Score=74.38 Aligned_cols=54 Identities=24% Similarity=0.356 Sum_probs=50.0
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++.+..++..++++++++|+|||++++++|.++..|+.++.+
T Consensus 60 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~ 113 (219)
T PLN03071 60 GKIRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCR 113 (219)
T ss_pred eEEEEEEEECCCchhhhhhhHHHcccccEEEEEEeCCCHHHHHHHHHHHHHHHH
Confidence 447899999999999999999999999999999999999999999999888763
No 58
>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=99.53 E-value=7.3e-14 Score=70.24 Aligned_cols=54 Identities=17% Similarity=0.393 Sum_probs=49.2
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++++...+..++++++++++|||++++++|+++..|++.+.+
T Consensus 47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~ 100 (163)
T cd04136 47 QQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVYSITSQSSFNDLQDLREQILR 100 (163)
T ss_pred EEEEEEEEECCCccccchHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 346788999999999999999999999999999999999999999998887754
No 59
>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=99.52 E-value=6.7e-14 Score=72.46 Aligned_cols=54 Identities=17% Similarity=0.311 Sum_probs=49.1
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++++...+..++++++++++|||++++++|+++..|+..+.+
T Consensus 45 ~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~i~~ 98 (190)
T cd04144 45 QPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQR 98 (190)
T ss_pred EEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 346789999999999999999999999999999999999999999999887753
No 60
>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=99.52 E-value=2.7e-13 Score=69.19 Aligned_cols=61 Identities=46% Similarity=0.986 Sum_probs=54.0
Q ss_pred cEEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 2 NVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 2 ~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
++.++......+.+||++|++.++..|..++++++++++|+|++++++|.++..++.++++
T Consensus 49 ~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~ 109 (173)
T cd04154 49 QIKTLEYEGYKLNIWDVGGQKTLRPYWRNYFESTDALIWVVDSSDRLRLDDCKRELKELLQ 109 (173)
T ss_pred ceEEEEECCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHh
Confidence 3455666778999999999999999999999999999999999999999999888888764
No 61
>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign
Probab=99.52 E-value=7.1e-14 Score=71.52 Aligned_cols=55 Identities=18% Similarity=0.335 Sum_probs=48.6
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHh
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRML 61 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~ 61 (65)
++..+.+.+||++|+..++.+|..++++++++++|||++++++|..+.+|+..+.
T Consensus 46 ~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~ 100 (172)
T cd04141 46 DNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKKLIT 100 (172)
T ss_pred CCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHH
Confidence 3344789999999999999999999999999999999999999999988765553
No 62
>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=99.52 E-value=9.3e-14 Score=70.15 Aligned_cols=54 Identities=17% Similarity=0.392 Sum_probs=49.8
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++.+...+..++++++++++|||+++..+|+++.+|+..+.+
T Consensus 47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~ 100 (164)
T cd04175 47 QQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILR 100 (164)
T ss_pred EEEEEEEEECCCcccchhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 356788999999999999999999999999999999999999999999888864
No 63
>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=99.51 E-value=2.7e-13 Score=68.58 Aligned_cols=53 Identities=17% Similarity=0.470 Sum_probs=48.7
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.+.+.+||++|++.+...+..++++++++++|||++++++|+++..|+.++.+
T Consensus 48 ~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~sf~~~~~~~~~~~~ 100 (161)
T cd04117 48 KVRIQIWDTAGQERYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDE 100 (161)
T ss_pred EEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 36789999999999999999999999999999999999999999999887653
No 64
>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=99.51 E-value=4.7e-13 Score=67.36 Aligned_cols=61 Identities=62% Similarity=1.148 Sum_probs=53.3
Q ss_pred cEEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 2 NVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 2 ~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
++..++..+..+++||++|+..++..|..++..++++++|+|++++.++....+++..+++
T Consensus 34 ~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~ 94 (158)
T cd04151 34 NVETVTYKNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDSTDRDRLGTAKEELHAMLE 94 (158)
T ss_pred CeEEEEECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHh
Confidence 4556777889999999999999999999999999999999999999988887777776654
No 65
>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=99.50 E-value=4.2e-13 Score=68.67 Aligned_cols=61 Identities=46% Similarity=0.953 Sum_probs=54.3
Q ss_pred EEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 3 VETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 3 ~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
+..+....+.+.+||++|+..+...|..++++++++++|+|+++++++..+.+++.+++++
T Consensus 51 ~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~ 111 (174)
T cd04153 51 VEEIVYKNIRFLMWDIGGQESLRSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAH 111 (174)
T ss_pred eEEEEECCeEEEEEECCCCHHHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHhc
Confidence 4456667889999999999999999999999999999999999999999998888887654
No 66
>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=99.49 E-value=1.8e-13 Score=69.22 Aligned_cols=55 Identities=18% Similarity=0.384 Sum_probs=49.9
Q ss_pred ECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 8 YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
...+.+.+||++|++.+...+..++++++++++|+|++++.+|.++..|+..+.+
T Consensus 46 ~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~ 100 (161)
T cd04124 46 GKTILVDFWDTAGQERFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELRE 100 (161)
T ss_pred CEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 3457889999999999999999999999999999999999999999999887754
No 67
>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=99.49 E-value=1.1e-13 Score=70.70 Aligned_cols=53 Identities=21% Similarity=0.618 Sum_probs=49.4
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.+.+.+||++|++.+...+..++++++++++|||++++++|.+++.|+..+.+
T Consensus 62 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~ 114 (180)
T cd04127 62 RIHLQLWDTAGQERFRSLTTAFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQT 114 (180)
T ss_pred EEEEEEEeCCChHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 47899999999999999999999999999999999999999999999888754
No 68
>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=99.48 E-value=2.7e-13 Score=73.01 Aligned_cols=54 Identities=15% Similarity=0.249 Sum_probs=49.2
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++.+...+..++..++++|+|||++++++|+++..|++++.+
T Consensus 46 ~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVfdv~~~~Sf~~i~~~~~~I~~ 99 (247)
T cd04143 46 EVYQLDILDTSGNHPFPAMRRLSILTGDVFILVFSLDNRESFEEVCRLREQILE 99 (247)
T ss_pred EEEEEEEEECCCChhhhHHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHH
Confidence 347889999999999999999999999999999999999999999999888764
No 69
>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=99.48 E-value=2.2e-13 Score=68.91 Aligned_cols=53 Identities=25% Similarity=0.618 Sum_probs=48.5
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.+.+++||++|++.+...+..++++++++++|||++++++|.++.+|+..+.+
T Consensus 50 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~l~~~~~~~~~ 102 (166)
T cd01869 50 TIKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDR 102 (166)
T ss_pred EEEEEEEECCCcHhHHHHHHHHhCcCCEEEEEEECcCHHHHHhHHHHHHHHHH
Confidence 46789999999999999999999999999999999999999999999887643
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=99.48 E-value=1.9e-13 Score=69.35 Aligned_cols=55 Identities=13% Similarity=0.397 Sum_probs=49.8
Q ss_pred ECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 8 YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
...+.+.+||++|++.++..+..++++++++++|||++++++|..+.+|..++++
T Consensus 51 ~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~ 105 (170)
T cd04116 51 GHFVTLQIWDTAGQERFRSLRTPFYRGSDCCLLTFAVDDSQSFQNLSNWKKEFIY 105 (170)
T ss_pred CeEEEEEEEeCCChHHHHHhHHHHhcCCCEEEEEEECCCHHHHHhHHHHHHHHHH
Confidence 3457889999999999999999999999999999999999999999999887754
No 71
>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=99.48 E-value=8.1e-13 Score=68.93 Aligned_cols=53 Identities=25% Similarity=0.617 Sum_probs=48.9
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.+.+.+||++|++.+...+..++++++++++|||++++++|+.+..|+.++..
T Consensus 54 ~~~l~l~D~~G~~~~~~~~~~~~~~a~~iilv~D~~~~~s~~~~~~~~~~i~~ 106 (199)
T cd04110 54 RVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQ 106 (199)
T ss_pred EEEEEEEeCCCchhHHHHHHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 36789999999999999999999999999999999999999999999887754
No 72
>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=99.47 E-value=2.1e-13 Score=71.81 Aligned_cols=54 Identities=28% Similarity=0.641 Sum_probs=50.0
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
.+.+++||++|++.+...+..++++++++++|||++++++|+++.+|+.++.+.
T Consensus 51 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~ 104 (211)
T cd04111 51 RIKLQLWDTAGQERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSH 104 (211)
T ss_pred EEEEEEEeCCcchhHHHHHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence 478999999999999999999999999999999999999999999999987643
No 73
>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=99.47 E-value=6.6e-13 Score=67.25 Aligned_cols=53 Identities=19% Similarity=0.528 Sum_probs=49.0
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.+.+.+||++|++.+...+..++++++++++|||++++++|+++.+|+.++.+
T Consensus 49 ~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~d~~~~~s~~~~~~~~~~i~~ 101 (165)
T cd01865 49 RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKT 101 (165)
T ss_pred EEEEEEEECCChHHHHHHHHHHccCCcEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 47899999999999999999999999999999999999999999999888753
No 74
>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=99.47 E-value=3.1e-13 Score=71.25 Aligned_cols=53 Identities=21% Similarity=0.429 Sum_probs=49.1
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.+.+.+||++|++.+...+..++++++++++|||++++++|+++.+|+..+.+
T Consensus 49 ~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV~D~t~~~s~~~~~~w~~~l~~ 101 (215)
T cd04109 49 NVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLVYDVTNSQSFENLEDWYSMVRK 101 (215)
T ss_pred EEEEEEEECCCcHHHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 57899999999999999999999999999999999999999999988887754
No 75
>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=99.47 E-value=1.1e-12 Score=67.74 Aligned_cols=60 Identities=37% Similarity=0.847 Sum_probs=53.9
Q ss_pred EEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 3 VETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 3 ~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
++.+...++.+.+||++|+..++..|..++.+++++++|+|+++++++.....++.++++
T Consensus 53 ~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~ 112 (184)
T smart00178 53 SEELAIGNIKFTTFDLGGHQQARRLWKDYFPEVNGIVYLVDAYDKERFAESKRELDALLS 112 (184)
T ss_pred eEEEEECCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCcHHHHHHHHHHHHHHHc
Confidence 455666788999999999999999999999999999999999999999999988888765
No 76
>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=99.47 E-value=2.2e-13 Score=70.56 Aligned_cols=55 Identities=16% Similarity=0.356 Sum_probs=48.4
Q ss_pred ECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHH-HHHHHHhc
Q 037770 8 YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEAR-DELHRMLN 62 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~-~~~~~~~~ 62 (65)
+..+.+.+||++|++.+..+++.++++++++++|||++++++|+.+. .|+..+.+
T Consensus 45 ~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~ 100 (189)
T cd04134 45 GLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFSVDSPDSLENVESKWLGEIRE 100 (189)
T ss_pred CEEEEEEEEECCCChhccccccccccCCCEEEEEEECCCHHHHHHHHHHHHHHHHH
Confidence 34478999999999999999999999999999999999999999886 57776653
No 77
>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=99.45 E-value=2.5e-12 Score=64.52 Aligned_cols=62 Identities=79% Similarity=1.396 Sum_probs=55.0
Q ss_pred cEEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 2 NVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 2 ~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
++..+......+.+||++|+..+...|..++++++++++|+|+++++++.++..++..+.++
T Consensus 34 ~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~ 95 (158)
T cd00878 34 NVETVEYKNVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVDSSDRERIEEAKEELHKLLNE 95 (158)
T ss_pred ceEEEEECCEEEEEEECCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhC
Confidence 34556667889999999999999999999999999999999999999999999998887653
No 78
>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=99.45 E-value=4.6e-13 Score=67.40 Aligned_cols=54 Identities=22% Similarity=0.462 Sum_probs=49.4
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++.+...+..++++++++++|+|++++++|+++..|+.++.+
T Consensus 47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~ 100 (168)
T cd04119 47 KEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQ 100 (168)
T ss_pred eEEEEEEEECCccHHHHHHHHHHhccCCEEEEEEECCCHHHHHhHHHHHHHHHH
Confidence 457889999999999999999999999999999999999999999999887754
No 79
>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=99.45 E-value=4.2e-13 Score=68.08 Aligned_cols=53 Identities=25% Similarity=0.599 Sum_probs=48.8
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.+.+.+||++|++.+...+..++++++++++|||++++++|.++.+|+..+.+
T Consensus 51 ~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~i~~ 103 (167)
T cd01867 51 KIKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDEKSFENIRNWMRNIEE 103 (167)
T ss_pred EEEEEEEeCCchHHHHHHHHHHhCCCCEEEEEEECcCHHHHHhHHHHHHHHHH
Confidence 36889999999999999999999999999999999999999999999887754
No 80
>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=99.45 E-value=3.8e-13 Score=70.23 Aligned_cols=54 Identities=11% Similarity=0.239 Sum_probs=44.9
Q ss_pred EEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHH-HHHHHh
Q 037770 6 VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARD-ELHRML 61 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~-~~~~~~ 61 (65)
+++..+.+.+||++|++. .....++++++++++|||+++++||+++++ |+..+.
T Consensus 61 ~~~~~v~l~iwDTaG~~~--~~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~ 115 (195)
T cd01873 61 VDGVSVSLRLWDTFGDHD--KDRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIR 115 (195)
T ss_pred eCCEEEEEEEEeCCCChh--hhhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHH
Confidence 455568999999999875 345678999999999999999999999974 766654
No 81
>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=99.45 E-value=1.1e-12 Score=66.30 Aligned_cols=52 Identities=19% Similarity=0.518 Sum_probs=48.4
Q ss_pred EEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 11 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
+.+.+||++|++.+...+..+++.++++++|+|++++.+|+.++.|+..+..
T Consensus 52 ~~l~i~D~~G~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~i~~ 103 (165)
T cd01864 52 VKLQIWDTAGQERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEK 103 (165)
T ss_pred EEEEEEECCChHHHHHHHHHHhccCCEEEEEEECcCHHHHHhHHHHHHHHHH
Confidence 6889999999999999999999999999999999999999999999888754
No 82
>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=99.45 E-value=6.7e-13 Score=67.44 Aligned_cols=53 Identities=25% Similarity=0.537 Sum_probs=49.1
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.+.+.+||++|++.+...+..++++++++++|+|++++++|+++.+|+.++.+
T Consensus 52 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il~v~d~~~~~s~~~~~~~~~~~~~ 104 (168)
T cd01866 52 QIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQ 104 (168)
T ss_pred EEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 47889999999999999999999999999999999999999999999988765
No 83
>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=99.44 E-value=6.4e-13 Score=68.86 Aligned_cols=54 Identities=19% Similarity=0.529 Sum_probs=49.1
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++.+...+..++++++++++|+|++++++|+++..|+..+.+
T Consensus 48 ~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~ 101 (191)
T cd04112 48 VKVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDITNKASFDNIRAWLTEIKE 101 (191)
T ss_pred EEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 447889999999999999999999999999999999999999999998887754
No 84
>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=99.44 E-value=2.9e-13 Score=68.12 Aligned_cols=54 Identities=22% Similarity=0.569 Sum_probs=49.7
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+++||++|++.+...+..++++++++++|||+++++||+++..|+..+.+
T Consensus 46 ~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd~~~~~S~~~~~~~~~~i~~ 99 (162)
T PF00071_consen 46 KPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFDVTDEESFENLKKWLEEIQK 99 (162)
T ss_dssp EEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEETTBHHHHHTHHHHHHHHHH
T ss_pred cccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 447899999999999999999999999999999999999999999999988764
No 85
>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=99.44 E-value=6.2e-13 Score=68.66 Aligned_cols=54 Identities=24% Similarity=0.558 Sum_probs=49.1
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++.+...+..++++++++++|||++++++|.++..|+.++.+
T Consensus 47 ~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~i~~~~~~i~~ 100 (188)
T cd04125 47 KIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVYDVTDQESFENLKFWINEINR 100 (188)
T ss_pred EEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence 347789999999999999999999999999999999999999999999887653
No 86
>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=99.44 E-value=7.1e-13 Score=67.44 Aligned_cols=54 Identities=26% Similarity=0.432 Sum_probs=49.4
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
+.+.+.+||++|++.+...+..++.+++++++|||+++.++|.++..|+.++.+
T Consensus 47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~ 100 (166)
T cd00877 47 GKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMFDVTSRVTYKNVPNWHRDLVR 100 (166)
T ss_pred EEEEEEEEECCCChhhccccHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 347889999999999999999999999999999999999999999999888764
No 87
>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=99.43 E-value=1.2e-12 Score=65.57 Aligned_cols=53 Identities=15% Similarity=0.342 Sum_probs=48.4
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.+.+.+||++|++.+..++..++++++++++|||+++.++|+++..|+.++.+
T Consensus 48 ~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v~~~~~~~s~~~~~~~~~~i~~ 100 (162)
T cd04138 48 TCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKR 100 (162)
T ss_pred EEEEEEEECCCCcchHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 36688999999999999999999999999999999999999999888887764
No 88
>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=99.43 E-value=1.2e-12 Score=65.89 Aligned_cols=54 Identities=19% Similarity=0.405 Sum_probs=49.4
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++.+...+..++++++++++|+|+++.++|..+.+|+.++.+
T Consensus 48 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~ 101 (164)
T cd04145 48 QWAILDILDTAGQEEFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILR 101 (164)
T ss_pred EEEEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 346789999999999999999999999999999999999999999999888764
No 89
>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=99.43 E-value=3.2e-12 Score=65.92 Aligned_cols=54 Identities=54% Similarity=1.065 Sum_probs=48.9
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++.++..|..++++++++++|+|+++++++..+..++.++.+
T Consensus 50 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~i~~ 103 (183)
T cd04152 50 KGITFHFWDVGGQEKLRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITR 103 (183)
T ss_pred CceEEEEEECCCcHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHh
Confidence 458899999999999999999999999999999999999999998888877654
No 90
>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=99.43 E-value=1.7e-12 Score=65.75 Aligned_cols=53 Identities=11% Similarity=0.205 Sum_probs=47.9
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHh
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRML 61 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~ 61 (65)
..+.+.+||++|++.+...+..++++++++++|||++++++|+++++|++.+.
T Consensus 47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~ 99 (165)
T cd04140 47 NICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSVTSKQSLEELKPIYELIC 99 (165)
T ss_pred EEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence 44778999999999999999999999999999999999999999998876654
No 91
>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=99.42 E-value=1.2e-12 Score=65.83 Aligned_cols=54 Identities=19% Similarity=0.493 Sum_probs=49.2
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++.+...+..++++++++++|||++++++|..+..|+..+..
T Consensus 49 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~v~d~~~~~s~~~l~~~~~~~~~ 102 (162)
T cd04106 49 EDVRLMLWDTAGQEEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEA 102 (162)
T ss_pred CEEEEEEeeCCchHHHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 357899999999999999999999999999999999999999999998887653
No 92
>PLN03110 Rab GTPase; Provisional
Probab=99.42 E-value=8.6e-13 Score=69.69 Aligned_cols=54 Identities=22% Similarity=0.519 Sum_probs=49.4
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+++||++|++++...+..++++++++++|||++++++|+++..|+..+.+
T Consensus 59 ~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~ 112 (216)
T PLN03110 59 KTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRD 112 (216)
T ss_pred EEEEEEEEECCCcHHHHHHHHHHhCCCCEEEEEEECCChHHHHHHHHHHHHHHH
Confidence 347899999999999999999999999999999999999999999999887654
No 93
>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=99.42 E-value=7.5e-13 Score=67.53 Aligned_cols=52 Identities=12% Similarity=0.229 Sum_probs=46.2
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHH-HHHHHHh
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEAR-DELHRML 61 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~-~~~~~~~ 61 (65)
.+.+.+||++|++.+...++.++++++++++|||++++++|+++. .|+..+.
T Consensus 47 ~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~d~~~~~sf~~~~~~~~~~~~ 99 (173)
T cd04130 47 PVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIR 99 (173)
T ss_pred EEEEEEEECCCChhhccccccccCCCcEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 478899999999999999999999999999999999999999985 5666554
No 94
>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=99.42 E-value=1.4e-12 Score=67.43 Aligned_cols=54 Identities=19% Similarity=0.454 Sum_probs=48.6
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++++...+..++++++++++|||++++.+|+++..|+..+.+
T Consensus 48 ~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~ 101 (193)
T cd04118 48 RVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQN 101 (193)
T ss_pred EEEEEEEEECCCchhhhhhhHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHh
Confidence 346788999999999999999999999999999999999999999888887754
No 95
>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=99.42 E-value=2.2e-12 Score=65.04 Aligned_cols=54 Identities=19% Similarity=0.412 Sum_probs=49.1
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++.+...+..++++++++++|||++++++|+++.+|...+.+
T Consensus 46 ~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~ 99 (164)
T smart00173 46 EVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILR 99 (164)
T ss_pred EEEEEEEEECCCcccchHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 457889999999999999999999999999999999999999999988877654
No 96
>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=99.42 E-value=3.2e-12 Score=64.55 Aligned_cols=52 Identities=21% Similarity=0.507 Sum_probs=48.4
Q ss_pred EEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 11 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
+.+.+||++|+..+...+..++++++++++|||++++++|.++.+|+.++.+
T Consensus 52 ~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~ 103 (165)
T cd01868 52 IKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKKQTFENVERWLKELRD 103 (165)
T ss_pred EEEEEEeCCChHHHHHHHHHHHCCCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence 6789999999999999999999999999999999999999999999888754
No 97
>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=99.42 E-value=4.4e-12 Score=64.09 Aligned_cols=61 Identities=36% Similarity=0.865 Sum_probs=53.8
Q ss_pred EEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 3 VETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 3 ~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
+..+...+..+.+||++|+..+...+..++.+++++++|+|+++.+++.....++.+++++
T Consensus 42 ~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~ 102 (167)
T cd04160 42 IGTIEVGNARLKFWDLGGQESLRSLWDKYYAECHAIIYVIDSTDRERFEESKSALEKVLRN 102 (167)
T ss_pred eEEEEECCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECchHHHHHHHHHHHHHHHhC
Confidence 3456667789999999999999999999999999999999999999999998888887654
No 98
>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=99.42 E-value=1.1e-12 Score=66.66 Aligned_cols=54 Identities=13% Similarity=0.304 Sum_probs=47.4
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHH-HHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEAR-DELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~-~~~~~~~~ 62 (65)
..+.+.+||++|++.+...+..++++++++++|||++++++|+++. .|+..+.+
T Consensus 44 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~ 98 (174)
T smart00174 44 KPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKH 98 (174)
T ss_pred EEEEEEEEECCCCcccchhchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence 4467999999999999999999999999999999999999999986 46666543
No 99
>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=99.41 E-value=1.1e-12 Score=66.71 Aligned_cols=54 Identities=22% Similarity=0.542 Sum_probs=47.9
Q ss_pred CCEEEEEEECCCCcCch-hhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIR-PLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~-~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++.++ ..+..++++++++++|||++++++|..+..|+.++.+
T Consensus 49 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~ 103 (170)
T cd04115 49 ERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQ 103 (170)
T ss_pred eEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEEEEECCCHHHHHhHHHHHHHHHH
Confidence 34789999999999887 5788999999999999999999999999999887754
No 100
>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=99.41 E-value=1.6e-12 Score=65.90 Aligned_cols=50 Identities=14% Similarity=0.258 Sum_probs=42.9
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
+.+.+.+||++|++. ..++++++++++|||+++++||++++.|+.++.+.
T Consensus 45 ~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~i~~~ 94 (158)
T cd04103 45 QSHLLLIRDEGGAPD-----AQFASWVDAVIFVFSLENEASFQTVYNLYHQLSSY 94 (158)
T ss_pred EEEEEEEEECCCCCc-----hhHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence 347799999999975 34678899999999999999999999999887643
No 101
>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=99.40 E-value=6.1e-12 Score=63.20 Aligned_cols=55 Identities=51% Similarity=1.037 Sum_probs=50.1
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
....+.+||++|+..+...|..++.+++++++|+|++++.++.++..++.+++++
T Consensus 42 ~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D~~~~~~~~~~~~~~~~~~~~ 96 (160)
T cd04156 42 KHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKN 96 (160)
T ss_pred CceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHhc
Confidence 3578999999999999999999999999999999999999999999998887654
No 102
>cd04132 Rho4_like Rho4-like subfamily. Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.
Probab=99.40 E-value=1.5e-12 Score=67.02 Aligned_cols=52 Identities=17% Similarity=0.357 Sum_probs=46.2
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHH-HHHHH
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARD-ELHRM 60 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~-~~~~~ 60 (65)
..+.+.+||++|++.+...++.++++++++++|||++++++|+++.. |+..+
T Consensus 47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v~d~~~~~s~~~~~~~~~~~~ 99 (187)
T cd04132 47 KIIELALWDTAGQEEYDRLRPLSYPDVDVLLICYAVDNPTSLDNVEDKWFPEV 99 (187)
T ss_pred cEEEEEEEECCCchhHHHHHHHhCCCCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence 35789999999999999999999999999999999999999999864 65554
No 103
>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=99.40 E-value=2.3e-12 Score=64.88 Aligned_cols=53 Identities=25% Similarity=0.541 Sum_probs=48.4
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHh
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRML 61 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~ 61 (65)
..+.+.+||++|++.+...+..++++++++++|||++++++|.++..|+.++.
T Consensus 47 ~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~ 99 (161)
T cd04113 47 KRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITNRTSFEALPTWLSDAR 99 (161)
T ss_pred EEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence 34788999999999999999999999999999999999999999999988764
No 104
>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=99.40 E-value=2.6e-12 Score=64.54 Aligned_cols=53 Identities=19% Similarity=0.471 Sum_probs=48.7
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.+.+.+||++|+..+...+..++++++++++|||++++++|+++..|+..+..
T Consensus 48 ~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~~~~ 100 (161)
T cd01861 48 TVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRD 100 (161)
T ss_pred EEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence 36789999999999999999999999999999999999999999999888754
No 105
>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=99.39 E-value=1.6e-12 Score=65.57 Aligned_cols=54 Identities=13% Similarity=0.350 Sum_probs=49.3
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++.+..++..+++.++++++|+|++++++|+++..|+.++.+
T Consensus 50 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~ 103 (164)
T cd04101 50 NTVELFIFDSAGQELYSDMVSNYWESPSVFILVYDVSNKASFENCSRWVNKVRT 103 (164)
T ss_pred CEEEEEEEECCCHHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence 458899999999999999999999999999999999999999999999887654
No 106
>PLN03118 Rab family protein; Provisional
Probab=99.38 E-value=3.5e-12 Score=67.02 Aligned_cols=51 Identities=31% Similarity=0.674 Sum_probs=45.9
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHH
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRM 60 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~ 60 (65)
.+.+.+||++|++.+...+..++++++++++|||++++++|.++...+...
T Consensus 61 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~ 111 (211)
T PLN03118 61 RLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKE 111 (211)
T ss_pred EEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence 468899999999999999999999999999999999999999998755443
No 107
>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=99.37 E-value=4.3e-12 Score=64.45 Aligned_cols=54 Identities=15% Similarity=0.374 Sum_probs=49.1
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+++||++|++.+..++..++++++++++|||++++++|+.+..|...+.+
T Consensus 47 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~~~~~~~s~~~~~~~~~~i~~ 100 (168)
T cd04177 47 RQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLR 100 (168)
T ss_pred EEEEEEEEeCCCcccchhhhHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 347889999999999999999999999999999999999999999988877653
No 108
>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=99.37 E-value=3.1e-12 Score=64.36 Aligned_cols=55 Identities=22% Similarity=0.516 Sum_probs=49.7
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
..+.+.+||++|++++...+..++++++++++|+|.+++++|..+..|+..+.+.
T Consensus 48 ~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~ 102 (163)
T cd01860 48 TTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQRN 102 (163)
T ss_pred EEEEEEEEeCCchHHHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHh
Confidence 3478899999999999999999999999999999999999999999998887654
No 109
>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=99.36 E-value=1.6e-11 Score=63.98 Aligned_cols=52 Identities=15% Similarity=0.307 Sum_probs=48.1
Q ss_pred EEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 11 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
+.+.+||++|+..+...+..++.+++++++|+|+++..+|+++..|+.++.+
T Consensus 47 ~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d~~~~~s~~~~~~~~~~i~~ 98 (198)
T cd04147 47 LTLDILDTSGSYSFPAMRKLSIQNSDAFALVYAVDDPESFEEVERLREEILE 98 (198)
T ss_pred EEEEEEECCCchhhhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 7889999999999999999999999999999999999999999988887764
No 110
>KOG1673 consensus Ras GTPases [General function prediction only]
Probab=99.36 E-value=2.6e-12 Score=65.24 Aligned_cols=56 Identities=20% Similarity=0.446 Sum_probs=50.8
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.+..+.+.+||++|++++....+...+++.+++++||++++.+++.+++|..+..+
T Consensus 65 ~~t~IsfSIwdlgG~~~~~n~lPiac~dsvaIlFmFDLt~r~TLnSi~~WY~QAr~ 120 (205)
T KOG1673|consen 65 RGTDISFSIWDLGGQREFINMLPIACKDSVAILFMFDLTRRSTLNSIKEWYRQARG 120 (205)
T ss_pred cceEEEEEEEecCCcHhhhccCceeecCcEEEEEEEecCchHHHHHHHHHHHHHhc
Confidence 44558899999999999999999999999999999999999999999999988653
No 111
>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=99.36 E-value=2.5e-11 Score=60.34 Aligned_cols=61 Identities=36% Similarity=0.841 Sum_probs=53.3
Q ss_pred cEEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 2 NVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 2 ~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
++..++...+.+.+||++|+..++..|..++..++++++|+|+++.+++.....++.++++
T Consensus 35 ~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~ 95 (159)
T cd04159 35 NMRKVTKGNVTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVDAADRTALEAAKNELHDLLE 95 (159)
T ss_pred ceEEEEECCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHc
Confidence 3455666778999999999999999999999999999999999999999888888887654
No 112
>PLN03108 Rab family protein; Provisional
Probab=99.35 E-value=5.6e-12 Score=66.35 Aligned_cols=54 Identities=26% Similarity=0.534 Sum_probs=48.8
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++.+...+..++++++++++|||++++++|..+.+|+..+..
T Consensus 53 ~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~ 106 (210)
T PLN03108 53 KPIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQ 106 (210)
T ss_pred EEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHH
Confidence 447789999999999999999999999999999999999999999998877653
No 113
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=99.34 E-value=1.9e-11 Score=61.44 Aligned_cols=52 Identities=21% Similarity=0.594 Sum_probs=48.1
Q ss_pred EEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 11 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+||++|++.+...+..++++++++++|||++++.+++.+..|+..+..
T Consensus 49 ~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~l~~~~~ 100 (164)
T smart00175 49 VKLQIWDTAGQERFRSITSSYYRGAVGALLVYDITNRESFENLKNWLKELRE 100 (164)
T ss_pred EEEEEEECCChHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 6889999999999999999999999999999999999999999988887654
No 114
>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=99.33 E-value=3e-11 Score=62.34 Aligned_cols=60 Identities=37% Similarity=0.851 Sum_probs=53.3
Q ss_pred EEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 3 VETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 3 ~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..++...+..+.+||++|+..++..|..++++++++++|+|+++.++|.....++.++++
T Consensus 55 ~~~i~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iilV~D~~~~~s~~~~~~~~~~i~~ 114 (190)
T cd00879 55 SEELTIGNIKFKTFDLGGHEQARRLWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLS 114 (190)
T ss_pred eEEEEECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHc
Confidence 345666778999999999999999999999999999999999999999988888888765
No 115
>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=99.32 E-value=1.4e-11 Score=62.84 Aligned_cols=53 Identities=13% Similarity=0.093 Sum_probs=47.7
Q ss_pred ECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHH
Q 037770 8 YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRM 60 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~ 60 (65)
+....+.+||++|++.+...+..++++++++++|+|++++++|+.+.+|+..+
T Consensus 51 ~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~~ 103 (169)
T cd01892 51 GQEKYLILREVGEDEVAILLNDAELAACDVACLVYDSSDPKSFSYCAEVYKKY 103 (169)
T ss_pred CeEEEEEEEecCCcccccccchhhhhcCCEEEEEEeCCCHHHHHHHHHHHHHh
Confidence 34478899999999999999999999999999999999999999998888765
No 116
>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily. RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu
Probab=99.32 E-value=1.5e-11 Score=62.22 Aligned_cols=57 Identities=16% Similarity=0.281 Sum_probs=46.5
Q ss_pred EEECCEEEEEEECCCCcCc-hhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 6 VEYKNISFTVWDVGGQDKI-RPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~-~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
++++.+.+++||++|+... ...+..++++++++++|+|++++++|+.+..|+..+.+
T Consensus 42 ~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~ 99 (165)
T cd04146 42 IDGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVYSITDRSSFDEISQLKQLIRE 99 (165)
T ss_pred ECCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 3445578999999999853 44567889999999999999999999999888766543
No 117
>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=99.31 E-value=1.3e-11 Score=62.07 Aligned_cols=54 Identities=30% Similarity=0.641 Sum_probs=48.7
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++.+...+..++++++++++|+|++++++|+.+..|+..+.+
T Consensus 47 ~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~ 100 (161)
T cd01863 47 KKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVYDVTRRDTFTNLETWLNELET 100 (161)
T ss_pred EEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEEECCCHHHHHhHHHHHHHHHH
Confidence 347899999999999999999999999999999999999999999888877654
No 118
>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=99.31 E-value=1.3e-11 Score=62.50 Aligned_cols=54 Identities=17% Similarity=0.389 Sum_probs=47.9
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|++.+...+..++++++++++|+|++++++|++...|..+++.
T Consensus 47 ~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~ 100 (172)
T cd01862 47 KLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLI 100 (172)
T ss_pred EEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 346788999999999999999999999999999999999999999888776654
No 119
>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=99.30 E-value=1.9e-11 Score=61.24 Aligned_cols=54 Identities=26% Similarity=0.578 Sum_probs=48.3
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..+.+.+||++|+..+...++.++++++++++|+|+++.++++....|+.++.+
T Consensus 47 ~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~ 100 (162)
T cd04123 47 KRIDLAIWDTAGQERYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQ 100 (162)
T ss_pred EEEEEEEEECCchHHHHHhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 346789999999999999999999999999999999999999999888877653
No 120
>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=99.30 E-value=3e-11 Score=67.09 Aligned_cols=62 Identities=31% Similarity=0.570 Sum_probs=54.1
Q ss_pred cEEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCCh----------hhHHHHHHHHHHHhcc
Q 037770 2 NVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDR----------DRIVEARDELHRMLNE 63 (65)
Q Consensus 2 ~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~----------~sf~~~~~~~~~~~~~ 63 (65)
+..++..+++.+.+||++|+...+..|..|+.+++++++|+|+++. .++.+....++.+.++
T Consensus 152 ~~~~f~~~~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~ 223 (317)
T cd00066 152 VETKFTIKNLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNS 223 (317)
T ss_pred eEEEEEecceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhC
Confidence 3456777889999999999999999999999999999999999975 5688888888887765
No 121
>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=99.30 E-value=2.5e-11 Score=61.59 Aligned_cols=54 Identities=11% Similarity=0.101 Sum_probs=45.5
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHH-HHHHH
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARD-ELHRM 60 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~-~~~~~ 60 (65)
+...+.+.+||++|...+...+..++++++++++|+|++++++|.++.. |+..+
T Consensus 43 ~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~i 97 (166)
T cd01893 43 TPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLI 97 (166)
T ss_pred cCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence 3356889999999999888888888899999999999999999999864 44443
No 122
>smart00275 G_alpha G protein alpha subunit. Subunit of G proteins that contains the guanine nucleotide binding site
Probab=99.29 E-value=4.8e-11 Score=66.90 Aligned_cols=62 Identities=29% Similarity=0.527 Sum_probs=54.1
Q ss_pred cEEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCCh----------hhHHHHHHHHHHHhcc
Q 037770 2 NVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDR----------DRIVEARDELHRMLNE 63 (65)
Q Consensus 2 ~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~----------~sf~~~~~~~~~~~~~ 63 (65)
+..++...++.+.+||++|+...+..|.+|+.++++++||+|+++. .++.+....++.+.++
T Consensus 175 ~~~~f~~~~~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~ 246 (342)
T smart00275 175 QETAFIVKKLFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNS 246 (342)
T ss_pred EEEEEEECCeEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcC
Confidence 4566778889999999999999999999999999999999999974 4688888888888765
No 123
>KOG0395 consensus Ras-related GTPase [General function prediction only]
Probab=99.26 E-value=5.1e-11 Score=62.46 Aligned_cols=58 Identities=24% Similarity=0.431 Sum_probs=52.8
Q ss_pred EEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
++++....+.++|++|++.+..+...|..+++|+++||+++++.||+.++.++++|++
T Consensus 45 ~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~lVysitd~~SF~~~~~l~~~I~r 102 (196)
T KOG0395|consen 45 TVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLLVYSITDRSSFEEAKQLREQILR 102 (196)
T ss_pred EECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 4555668899999999999999999999999999999999999999999999988854
No 124
>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=99.25 E-value=2.7e-11 Score=61.65 Aligned_cols=52 Identities=15% Similarity=0.366 Sum_probs=45.2
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHH-HHHHH
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARD-ELHRM 60 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~-~~~~~ 60 (65)
..+.+.+||++|++.+...+..++.+++++++|||++++++|+++.. |+..+
T Consensus 47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~~~~~~~s~~~~~~~~~~~~ 99 (175)
T cd01870 47 KQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEV 99 (175)
T ss_pred EEEEEEEEeCCCchhhhhccccccCCCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence 45788999999999999999889999999999999999999988864 55444
No 125
>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=99.25 E-value=2.9e-11 Score=61.48 Aligned_cols=51 Identities=10% Similarity=0.201 Sum_probs=44.6
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHH-HHHHH
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARD-ELHRM 60 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~-~~~~~ 60 (65)
.+.+.+||++|++.+...+..++++++++++|||++++++|+++.. |+..+
T Consensus 47 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~~~~~~~s~~~~~~~~~~~l 98 (174)
T cd04135 47 QYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPEL 98 (174)
T ss_pred EEEEEEEeCCCcccccccccccCCCCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence 4668899999999999999999999999999999999999999864 44443
No 126
>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=99.23 E-value=5.7e-11 Score=60.11 Aligned_cols=51 Identities=22% Similarity=0.522 Sum_probs=46.3
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHH
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRM 60 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~ 60 (65)
.+.+.+||++|+..+...+..+++.++++++|+|+++.++|..+..|+.++
T Consensus 55 ~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~l 105 (169)
T cd04114 55 KIKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREI 105 (169)
T ss_pred EEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence 477899999999999999999999999999999999999999888887655
No 127
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=99.23 E-value=7.3e-11 Score=62.15 Aligned_cols=54 Identities=26% Similarity=0.414 Sum_probs=49.2
Q ss_pred ECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHh
Q 037770 8 YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRML 61 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~ 61 (65)
.+.+.+.+||++|++.+...+..++.+++++++|||+++..+|..+..|+..+.
T Consensus 55 ~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~ 108 (215)
T PTZ00132 55 CGPICFNVWDTAGQEKFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIV 108 (215)
T ss_pred CeEEEEEEEECCCchhhhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHH
Confidence 355889999999999999999999999999999999999999999999887765
No 128
>cd04155 Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.
Probab=99.22 E-value=2.8e-10 Score=57.82 Aligned_cols=61 Identities=49% Similarity=0.956 Sum_probs=53.0
Q ss_pred cEEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 2 NVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 2 ~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
++..+...+..+.+||++|+..+...|..++++++++++|+|.++..++.....++..+++
T Consensus 49 ~~~~i~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~ 109 (173)
T cd04155 49 NIKTVQSDGFKLNVWDIGGQRAIRPYWRNYFENTDCLIYVIDSADKKRLEEAGAELVELLE 109 (173)
T ss_pred ceEEEEECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHh
Confidence 4556777788999999999999999999999999999999999999999888888776653
No 129
>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=99.21 E-value=1.4e-10 Score=58.21 Aligned_cols=57 Identities=14% Similarity=0.386 Sum_probs=50.7
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
+...+.+.+||++|+..+...+..+++.++++++|+|++++++|.++..|+..+...
T Consensus 44 ~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~ 100 (164)
T cd04139 44 DGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVFSITDMESFTATAEFREQILRV 100 (164)
T ss_pred CCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence 334578999999999999999999999999999999999999999999988877653
No 130
>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=99.17 E-value=2.1e-10 Score=60.90 Aligned_cols=52 Identities=15% Similarity=0.114 Sum_probs=43.4
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhh-CCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQ-NTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~-~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
....+.+||++|++ ......++. +++++++|||++++++|+.+.+|+..+.+
T Consensus 48 ~~~~l~i~Dt~G~~--~~~~~~~~~~~ad~iilV~d~td~~S~~~~~~~~~~l~~ 100 (221)
T cd04148 48 EESTLVVIDHWEQE--MWTEDSCMQYQGDAFVVVYSVTDRSSFERASELRIQLRR 100 (221)
T ss_pred EEEEEEEEeCCCcc--hHHHhHHhhcCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 45788999999998 334456677 99999999999999999999998887654
No 131
>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=99.17 E-value=1.9e-10 Score=57.09 Aligned_cols=53 Identities=23% Similarity=0.577 Sum_probs=48.5
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
...+.+||++|+..+...+..++++++++++|+|.++++++..+..|+..+..
T Consensus 48 ~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~ 100 (159)
T cd00154 48 TVKLQIWDTAGQERFRSITPSYYRGAHGAILVYDITNRESFENLDKWLKELKE 100 (159)
T ss_pred EEEEEEEecCChHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 47789999999999999999999999999999999999999999998887765
No 132
>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=99.17 E-value=2.5e-10 Score=58.40 Aligned_cols=54 Identities=20% Similarity=0.313 Sum_probs=49.0
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
.+.+.+||++|++.+...+..++..++++++|||+++..+++.++.++..+++.
T Consensus 48 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~ 101 (180)
T cd04137 48 DYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDM 101 (180)
T ss_pred EEEEEEEECCChHhhHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence 356789999999999999999999999999999999999999999998887653
No 133
>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=99.17 E-value=3e-10 Score=59.47 Aligned_cols=54 Identities=15% Similarity=0.167 Sum_probs=42.9
Q ss_pred CCEEEEEEECCCCcCchh--------hHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRP--------LWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~--------~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
+.+.+.+||++|...+.. ....+++.++++++|||++++++|+.++.|++++.+
T Consensus 47 ~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~ad~iilv~D~~~~~S~~~~~~~~~~i~~ 108 (198)
T cd04142 47 RVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRNSRAFILVYDICSPDSFHYVKLLRQQILE 108 (198)
T ss_pred EEEEEEEEeCCCcccCCccchhHHHHHHHhhhccCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 347889999999754321 133457899999999999999999999999887764
No 134
>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=99.15 E-value=1.1e-10 Score=56.28 Aligned_cols=47 Identities=23% Similarity=0.497 Sum_probs=41.6
Q ss_pred EEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHH
Q 037770 11 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDEL 57 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~ 57 (65)
..+.+||++|++.+...+...+.+++++++|||++++++|+.+.+++
T Consensus 50 ~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv~D~s~~~s~~~~~~~~ 96 (119)
T PF08477_consen 50 QSLQFWDFGGQEEFYSQHQFFLKKADAVILVYDLSDPESLEYLSQLL 96 (119)
T ss_dssp EEEEEEEESSSHCHHCTSHHHHHHSCEEEEEEECCGHHHHHHHHHHH
T ss_pred eEEEEEecCccceecccccchhhcCcEEEEEEcCCChHHHHHHHHHH
Confidence 35889999999999888888899999999999999999999986553
No 135
>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=99.14 E-value=3.9e-10 Score=56.32 Aligned_cols=53 Identities=21% Similarity=0.451 Sum_probs=48.5
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.+.+.+||++|+..+...+..++..++++++|+|+++++++.++..++..+.+
T Consensus 46 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~ 98 (160)
T cd00876 46 TYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYSITDRESFEEIKGYREQILR 98 (160)
T ss_pred EEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence 47889999999999999999999999999999999999999999988887764
No 136
>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=99.11 E-value=5.5e-12 Score=65.40 Aligned_cols=54 Identities=17% Similarity=0.458 Sum_probs=49.2
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.++.+.+||++|++++..+...||+++.+-++||+-+++.||+.+.+|.+++.+
T Consensus 67 Edvr~mlWdtagqeEfDaItkAyyrgaqa~vLVFSTTDr~SFea~~~w~~kv~~ 120 (246)
T KOG4252|consen 67 EDVRSMLWDTAGQEEFDAITKAYYRGAQASVLVFSTTDRYSFEATLEWYNKVQK 120 (246)
T ss_pred HHHHHHHHHhccchhHHHHHHHHhccccceEEEEecccHHHHHHHHHHHHHHHH
Confidence 345567899999999999999999999999999999999999999999988764
No 137
>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta). SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ
Probab=99.10 E-value=1e-09 Score=57.68 Aligned_cols=54 Identities=30% Similarity=0.471 Sum_probs=47.2
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCC-cEEEEEEECCCh-hhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNT-QGLIFVVDSNDR-DRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~-~~ii~v~d~~~~-~sf~~~~~~~~~~~~ 62 (65)
++..+.+||++|+.+++..+..+++++ +++|+|+|+++. +++..+.+++..++.
T Consensus 46 ~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~VvD~~~~~~~~~~~~~~l~~il~ 101 (203)
T cd04105 46 KGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVVDSATFQKNLKDVAEFLYDILT 101 (203)
T ss_pred CCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEEECccchhHHHHHHHHHHHHHH
Confidence 357899999999999999999999998 999999999987 678888888777653
No 138
>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=99.09 E-value=8.1e-10 Score=55.88 Aligned_cols=52 Identities=15% Similarity=0.376 Sum_probs=44.0
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHH-HHHHH
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARD-ELHRM 60 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~-~~~~~ 60 (65)
..+.+.+||++|+..+...+..+++.++++++|||.+++++|..... |+..+
T Consensus 46 ~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~ 98 (171)
T cd00157 46 KQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICFSVDSPSSFENVKTKWIPEI 98 (171)
T ss_pred EEEEEEEEeCCCcccccccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence 35679999999999988888888999999999999999999988754 44443
No 139
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=99.09 E-value=3.3e-10 Score=59.47 Aligned_cols=52 Identities=31% Similarity=0.608 Sum_probs=43.3
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHH-HHHHHHHh
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEA-RDELHRML 61 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~-~~~~~~~~ 61 (65)
.+.+.+||++|++.++..++.|+.+++++++|+|.++..++.++ ..|..++.
T Consensus 53 ~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~~d~~~~~~~~~~~~~~~~~l~ 105 (219)
T COG1100 53 NIKLQLWDTAGQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELR 105 (219)
T ss_pred EEEEEeecCCCHHHHHHHHHHHhcCCCEEEEEEecccchhhhHHHHHHHHHHH
Confidence 46799999999999999999999999999999999996665555 45554443
No 140
>cd01890 LepA LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and eukaryota (e.g. yeast GUF1p), but is missing from archaea. This pattern of phyletic distribution suggests that LepA evolved through a duplication of the EF-G gene in bacteria, followed by early transfer into the eukaryotic lineage, most likely from the promitochondrial endosymbiont. Yeast GUF1p is not essential and mutant cells did not reveal any marked phenotype.
Probab=99.06 E-value=1.2e-09 Score=55.80 Aligned_cols=49 Identities=10% Similarity=0.093 Sum_probs=41.2
Q ss_pred ECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHH
Q 037770 8 YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDE 56 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~ 56 (65)
.+.+.+.+||++|+..+...+..++++++++++|+|+++..++.....+
T Consensus 64 ~~~~~~~l~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~ 112 (179)
T cd01890 64 GQEYLLNLIDTPGHVDFSYEVSRSLAACEGALLLVDATQGVEAQTLANF 112 (179)
T ss_pred CCcEEEEEEECCCChhhHHHHHHHHHhcCeEEEEEECCCCccHhhHHHH
Confidence 3567899999999999999999999999999999999987655554443
No 141
>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=99.01 E-value=1.8e-09 Score=55.81 Aligned_cols=53 Identities=13% Similarity=0.344 Sum_probs=45.4
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHH-HHHHHHhc
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEAR-DELHRMLN 62 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~-~~~~~~~~ 62 (65)
.+.+.+||++|++.+...++.++.+++++++|||+++.++|.++. .|+..+.+
T Consensus 48 ~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~~i~~~~s~~~~~~~~~~~i~~ 101 (187)
T cd04129 48 PVQLALWDTAGQEEYERLRPLSYSKAHVILIGFAVDTPDSLENVRTKWIEEVRR 101 (187)
T ss_pred EEEEEEEECCCChhccccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHH
Confidence 467889999999988888778889999999999999999999997 46666643
No 142
>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=98.91 E-value=2e-08 Score=52.22 Aligned_cols=42 Identities=19% Similarity=0.408 Sum_probs=38.5
Q ss_pred EEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
.+..+...+.+||++|++.+...+..++++++++++|+|+++
T Consensus 59 ~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~d~~ilV~d~~~ 100 (194)
T cd01891 59 AVTYKDTKINIVDTPGHADFGGEVERVLSMVDGVLLLVDASE 100 (194)
T ss_pred EEEECCEEEEEEECCCcHHHHHHHHHHHHhcCEEEEEEECCC
Confidence 456678899999999999999999999999999999999986
No 143
>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]
Probab=98.86 E-value=1.9e-08 Score=56.72 Aligned_cols=60 Identities=28% Similarity=0.551 Sum_probs=48.8
Q ss_pred EEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhh----------HHHHHHHHHHHhccc
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDR----------IVEARDELHRMLNEV 64 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s----------f~~~~~~~~~~~~~~ 64 (65)
.+..++.++.++|++||.+.++.|.++|.+++++|||.++++.+. ..+..+.++.|.++.
T Consensus 189 ~F~~k~~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~ 258 (354)
T KOG0082|consen 189 EFTIKGLKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNK 258 (354)
T ss_pred EEEeCCCceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCc
Confidence 466788999999999999999999999999999999999987543 344456666665553
No 144
>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.79 E-value=1e-08 Score=52.67 Aligned_cols=60 Identities=30% Similarity=0.774 Sum_probs=54.1
Q ss_pred EEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 4 ETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 4 ~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
+++...++.+..+|++|+..-+..|..|+..++++++.+|.-+.++|.+.+..++.++..
T Consensus 57 E~l~Ig~m~ftt~DLGGH~qArr~wkdyf~~v~~iv~lvda~d~er~~es~~eld~ll~~ 116 (193)
T KOG0077|consen 57 EELSIGGMTFTTFDLGGHLQARRVWKDYFPQVDAIVYLVDAYDQERFAESKKELDALLSD 116 (193)
T ss_pred HHheecCceEEEEccccHHHHHHHHHHHHhhhceeEeeeehhhHHHhHHHHHHHHHHHhH
Confidence 345667899999999999999999999999999999999999999999999888877654
No 145
>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=98.74 E-value=8.9e-08 Score=48.00 Aligned_cols=37 Identities=16% Similarity=0.152 Sum_probs=32.5
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
+..+.+||++|++.+......++.+++++++|+|+++
T Consensus 50 ~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~V~d~~~ 86 (164)
T cd04171 50 GKRLGFIDVPGHEKFIKNMLAGAGGIDLVLLVVAADE 86 (164)
T ss_pred CcEEEEEECCChHHHHHHHHhhhhcCCEEEEEEECCC
Confidence 5688999999998887666778889999999999986
No 146
>cd01898 Obg Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.
Probab=98.74 E-value=1.2e-07 Score=48.00 Aligned_cols=55 Identities=20% Similarity=0.256 Sum_probs=38.6
Q ss_pred EECCE-EEEEEECCCCcC----chhhHHhh---hhCCcEEEEEEECCCh-hhHHHHHHHHHHHh
Q 037770 7 EYKNI-SFTVWDVGGQDK----IRPLWRHY---FQNTQGLIFVVDSNDR-DRIVEARDELHRML 61 (65)
Q Consensus 7 ~~~~~-~l~~~d~~g~~~----~~~~~~~~---~~~~~~ii~v~d~~~~-~sf~~~~~~~~~~~ 61 (65)
...+. .+.+||++|... .+.+...+ +..++++++|+|++++ +++..+..|.+.+.
T Consensus 43 ~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~ 106 (170)
T cd01898 43 RVDDGRSFVVADIPGLIEGASEGKGLGHRFLRHIERTRLLLHVIDLSGDDDPVEDYKTIRNELE 106 (170)
T ss_pred EcCCCCeEEEEecCcccCcccccCCchHHHHHHHHhCCEEEEEEecCCCCCHHHHHHHHHHHHH
Confidence 33444 899999999632 22223333 3469999999999998 78888877776654
No 147
>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]
Probab=98.70 E-value=7.6e-10 Score=57.76 Aligned_cols=52 Identities=17% Similarity=0.422 Sum_probs=48.1
Q ss_pred EEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 11 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
+.+++||++||+++..+...||+.+.+..+|||+++...|+.+.+|.+.+..
T Consensus 75 vRlqLwdIagQerfg~mtrVyykea~~~~iVfdvt~s~tfe~~skwkqdlds 126 (229)
T KOG4423|consen 75 VRLQLWDIAGQERFGNMTRVYYKEAHGAFIVFDVTRSLTFEPVSKWKQDLDS 126 (229)
T ss_pred HHHHHhcchhhhhhcceEEEEecCCcceEEEEEccccccccHHHHHHHhccC
Confidence 5678999999999999999999999999999999999999999999887654
No 148
>COG2229 Predicted GTPase [General function prediction only]
Probab=98.68 E-value=1.7e-07 Score=48.71 Aligned_cols=48 Identities=19% Similarity=0.369 Sum_probs=42.0
Q ss_pred EEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHH
Q 037770 11 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHR 59 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~ 59 (65)
..+.+++++||++++.+|..+.+++.|+++++|.+.+..+ +....+.-
T Consensus 68 ~~v~LfgtPGq~RF~fm~~~l~~ga~gaivlVDss~~~~~-~a~~ii~f 115 (187)
T COG2229 68 TGVHLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITF-HAEEIIDF 115 (187)
T ss_pred ceEEEecCCCcHHHHHHHHHHhCCcceEEEEEecCCCcch-HHHHHHHH
Confidence 6789999999999999999999999999999999999888 55444443
No 149
>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=98.66 E-value=3e-07 Score=52.45 Aligned_cols=58 Identities=31% Similarity=0.587 Sum_probs=48.7
Q ss_pred EEE-CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChh----------hHHHHHHHHHHHhcc
Q 037770 6 VEY-KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRD----------RIVEARDELHRMLNE 63 (65)
Q Consensus 6 ~~~-~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~----------sf~~~~~~~~~~~~~ 63 (65)
+.. ++..+.++|++|+...+..|.+++.+.++||||+++++.+ ++.+....++.+.++
T Consensus 230 f~~~~~~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~ 298 (389)
T PF00503_consen 230 FNFSGSRKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNN 298 (389)
T ss_dssp EEE-TTEEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTS
T ss_pred EEeecccccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhC
Confidence 455 7889999999999999999999999999999999997543 366667777777665
No 150
>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=98.57 E-value=9.4e-07 Score=42.98 Aligned_cols=47 Identities=30% Similarity=0.751 Sum_probs=42.4
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHH
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDE 56 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~ 56 (65)
...+.+||++|.......+..+++.++++++|+|+++..++.....+
T Consensus 44 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~ 90 (157)
T cd00882 44 KVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVTDRESFENVKEW 90 (157)
T ss_pred EEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHH
Confidence 57789999999999888888899999999999999999988888766
No 151
>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=98.57 E-value=1e-07 Score=49.99 Aligned_cols=52 Identities=27% Similarity=0.409 Sum_probs=47.8
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHh
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRML 61 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~ 61 (65)
.+++..||+.|++.+......||-++.+.|++||++.+-...++..|.+.+.
T Consensus 58 ~irf~~wdtagqEk~gglrdgyyI~~qcAiimFdVtsr~t~~n~~rwhrd~~ 109 (216)
T KOG0096|consen 58 QIRFNVWDTAGQEKKGGLRDGYYIQGQCAIIMFDVTSRFTYKNVPRWHRDLV 109 (216)
T ss_pred cEEEEeeecccceeecccccccEEecceeEEEeeeeehhhhhcchHHHHHHH
Confidence 4899999999999999999999999999999999999999999988877654
No 152
>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=98.56 E-value=8.3e-07 Score=44.72 Aligned_cols=38 Identities=21% Similarity=0.170 Sum_probs=34.7
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCCh
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~ 47 (65)
+..+.+||++|+..+...+..++..++++++|+|.++.
T Consensus 49 ~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~d~~~~ 86 (168)
T cd01887 49 IPGITFIDTPGHEAFTNMRARGASLTDIAILVVAADDG 86 (168)
T ss_pred cceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEEECCCC
Confidence 57899999999999999999899999999999999873
No 153
>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=98.55 E-value=2.4e-07 Score=55.41 Aligned_cols=47 Identities=11% Similarity=0.121 Sum_probs=39.7
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHH
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDE 56 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~ 56 (65)
.+.+.+||++|+..+...+..+++.++++++|+|+++..+......|
T Consensus 69 ~~~l~liDTPG~~dF~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~ 115 (595)
T TIGR01393 69 TYVLNLIDTPGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQTLANV 115 (595)
T ss_pred EEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHH
Confidence 47899999999999999999999999999999999986555444443
No 154
>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]
Probab=98.55 E-value=5.7e-07 Score=46.03 Aligned_cols=44 Identities=23% Similarity=0.400 Sum_probs=38.5
Q ss_pred EEEEEEECCCCcCc-hhhHHhhhhCCcEEEEEEECCChhhHHHHH
Q 037770 11 ISFTVWDVGGQDKI-RPLWRHYFQNTQGLIFVVDSNDRDRIVEAR 54 (65)
Q Consensus 11 ~~l~~~d~~g~~~~-~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~ 54 (65)
=.+.++|++|-... ..+-.+|+.-+||+++||+..+++||+.+.
T Consensus 60 E~l~lyDTaGlq~~~~eLprhy~q~aDafVLVYs~~d~eSf~rv~ 104 (198)
T KOG3883|consen 60 EQLRLYDTAGLQGGQQELPRHYFQFADAFVLVYSPMDPESFQRVE 104 (198)
T ss_pred heEEEeecccccCchhhhhHhHhccCceEEEEecCCCHHHHHHHH
Confidence 46889999998887 557788999999999999999999998874
No 155
>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1. RCC1 catalyzes guanine nucleotide exchange on Ran, a well characterised nuclear Ras-like small G protein that plays an essential role in the import and export of proteins and RNAs across the nuclear membrane through the nuclear pore complex. RCC1 is located inside the nucleus, bound to chromatin. The concentration of GTP within the cell is ~30 times higher than the concentration of GDP, thus resulting in the preferential production of the GTP form of Ran by RCC1 within the nucleus. Gtr1p is located within both the cytoplasm and the nucleus and has been reported to play a role in cell growth. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1 and Rag A and Gtr1p belong to the sixth subfamily of the Ras-like small GTPase superfamily []. ; GO: 0005525 GTP binding, 0005634 nucleus, 0005737 cytoplasm; PDB: 3R7W_B 2Q3F_B 3LLU_A.
Probab=98.52 E-value=8.9e-07 Score=47.75 Aligned_cols=40 Identities=30% Similarity=0.567 Sum_probs=31.1
Q ss_pred CCEEEEEEECCCCcCchh-----hHHhhhhCCcEEEEEEECCChh
Q 037770 9 KNISFTVWDVGGQDKIRP-----LWRHYFQNTQGLIFVVDSNDRD 48 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~-----~~~~~~~~~~~ii~v~d~~~~~ 48 (65)
..+.+++||+||+..+-. .....++++.++|||+|+.+.+
T Consensus 46 ~~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~~LIyV~D~qs~~ 90 (232)
T PF04670_consen 46 SFLPLNIWDCPGQDDFMENYFNSQREEIFSNVGVLIYVFDAQSDD 90 (232)
T ss_dssp TSCEEEEEEE-SSCSTTHTTHTCCHHHHHCTESEEEEEEETT-ST
T ss_pred CCcEEEEEEcCCccccccccccccHHHHHhccCEEEEEEEccccc
Confidence 457999999999976533 3578899999999999998444
No 156
>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=98.48 E-value=3.4e-06 Score=42.04 Aligned_cols=45 Identities=18% Similarity=0.360 Sum_probs=34.2
Q ss_pred EEEECCEEEEEEECCCCcCchh------hHHhhhh--CCcEEEEEEECCChhh
Q 037770 5 TVEYKNISFTVWDVGGQDKIRP------LWRHYFQ--NTQGLIFVVDSNDRDR 49 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~------~~~~~~~--~~~~ii~v~d~~~~~s 49 (65)
.+...+..+.+||++|+..+.. .+..++. +++++++|+|.+++++
T Consensus 37 ~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~ 89 (158)
T cd01879 37 RFKLGGKEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLIVNVVDATNLER 89 (158)
T ss_pred EEeeCCeEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEEEEEeeCCcchh
Confidence 3444557899999999877653 3555664 8999999999987655
No 157
>cd04168 TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.
Probab=98.47 E-value=3.2e-06 Score=45.64 Aligned_cols=46 Identities=11% Similarity=0.213 Sum_probs=40.0
Q ss_pred EEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhh
Q 037770 4 ETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDR 49 (65)
Q Consensus 4 ~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s 49 (65)
..+..++..+.+||++|+..+...+..+++.++++++|+|.++..+
T Consensus 57 ~~~~~~~~~i~liDTPG~~~f~~~~~~~l~~aD~~IlVvd~~~g~~ 102 (237)
T cd04168 57 ASFQWEDTKVNLIDTPGHMDFIAEVERSLSVLDGAILVISAVEGVQ 102 (237)
T ss_pred EEEEECCEEEEEEeCCCccchHHHHHHHHHHhCeEEEEEeCCCCCC
Confidence 4566778899999999999998888999999999999999986543
No 158
>PRK12299 obgE GTPase CgtA; Reviewed
Probab=98.46 E-value=2.5e-06 Score=48.15 Aligned_cols=57 Identities=18% Similarity=0.214 Sum_probs=41.2
Q ss_pred EEEE-CCEEEEEEECCCCcC-------chhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHh
Q 037770 5 TVEY-KNISFTVWDVGGQDK-------IRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRML 61 (65)
Q Consensus 5 ~~~~-~~~~l~~~d~~g~~~-------~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~ 61 (65)
.+.. ....+.+||++|.-. ....+..++..++++++|+|+++.+++++...|..++.
T Consensus 199 ~v~~~~~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a~vlI~ViD~s~~~s~e~~~~~~~EL~ 263 (335)
T PRK12299 199 VVRVDDYKSFVIADIPGLIEGASEGAGLGHRFLKHIERTRLLLHLVDIEAVDPVEDYKTIRNELE 263 (335)
T ss_pred EEEeCCCcEEEEEeCCCccCCCCccccHHHHHHHHhhhcCEEEEEEcCCCCCCHHHHHHHHHHHH
Confidence 3444 346799999999742 22333445667999999999998878888887777664
No 159
>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=98.43 E-value=3.8e-06 Score=42.42 Aligned_cols=55 Identities=15% Similarity=0.187 Sum_probs=34.1
Q ss_pred EECCEEEEEEECCCCcCch---------hhHHhhhhCCcEEEEEEECCChhhH--HHHHHHHHHHh
Q 037770 7 EYKNISFTVWDVGGQDKIR---------PLWRHYFQNTQGLIFVVDSNDRDRI--VEARDELHRML 61 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~---------~~~~~~~~~~~~ii~v~d~~~~~sf--~~~~~~~~~~~ 61 (65)
...+..+.+||++|..... ..........+++++|+|.++..++ +....|+..+.
T Consensus 43 ~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~ 108 (168)
T cd01897 43 DYKYLRWQVIDTPGLLDRPLEERNTIEMQAITALAHLRAAVLFLFDPSETCGYSLEEQLSLFEEIK 108 (168)
T ss_pred ccCceEEEEEECCCcCCccccCCchHHHHHHHHHHhccCcEEEEEeCCcccccchHHHHHHHHHHH
Confidence 3355789999999974211 1111112235789999999987653 55556666554
No 160
>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=98.43 E-value=3.7e-06 Score=41.35 Aligned_cols=50 Identities=20% Similarity=0.320 Sum_probs=41.4
Q ss_pred EEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCCh-hhHHHHH-HHHHHH
Q 037770 11 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDR-DRIVEAR-DELHRM 60 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~-~sf~~~~-~~~~~~ 60 (65)
..+.+||++|+..+...+..+.+.+.+++.++|+... .++.+.. .+...+
T Consensus 50 ~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~~d~~~~v~~~~~~~~~~~~~~ 101 (161)
T TIGR00231 50 YKFNLLDTAGQEDYRAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEI 101 (161)
T ss_pred EEEEEEECCCcccchHHHHHHHhhhhEEEEEEEEeeeehhhhhHhHHHHHHH
Confidence 7889999999999999999999999999999999877 6666655 444433
No 161
>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=98.42 E-value=1.8e-06 Score=45.62 Aligned_cols=42 Identities=19% Similarity=0.240 Sum_probs=36.7
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhH
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRI 50 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf 50 (65)
+...+.+||++|+..+......++..++++++|+|.++..++
T Consensus 69 ~~~~i~iiDtpG~~~f~~~~~~~~~~aD~~llVvD~~~~~~~ 110 (213)
T cd04167 69 KSYLFNIIDTPGHVNFMDEVAAALRLSDGVVLVVDVVEGVTS 110 (213)
T ss_pred CEEEEEEEECCCCcchHHHHHHHHHhCCEEEEEEECCCCCCH
Confidence 347899999999999988888899999999999999876554
No 162
>PRK05433 GTP-binding protein LepA; Provisional
Probab=98.41 E-value=1.3e-06 Score=52.46 Aligned_cols=42 Identities=14% Similarity=0.192 Sum_probs=37.2
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhH
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRI 50 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf 50 (65)
+.+.+.+||++|+..+...+..++..++++++|+|.++..+.
T Consensus 72 ~~~~lnLiDTPGh~dF~~~v~~sl~~aD~aILVVDas~gv~~ 113 (600)
T PRK05433 72 ETYILNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEA 113 (600)
T ss_pred CcEEEEEEECCCcHHHHHHHHHHHHHCCEEEEEEECCCCCCH
Confidence 468899999999999999999999999999999999875433
No 163
>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=98.40 E-value=1.1e-06 Score=52.64 Aligned_cols=43 Identities=16% Similarity=0.147 Sum_probs=37.3
Q ss_pred EEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC---hhhHHHHH
Q 037770 12 SFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND---RDRIVEAR 54 (65)
Q Consensus 12 ~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~sf~~~~ 54 (65)
.+.+||++|++.+..++..++..++++++|+|+++ +++++.+.
T Consensus 70 ~l~~iDTpG~e~f~~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~ 115 (590)
T TIGR00491 70 GLLFIDTPGHEAFTNLRKRGGALADLAILIVDINEGFKPQTQEALN 115 (590)
T ss_pred cEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCcCCCHhHHHHHH
Confidence 38899999999999999999999999999999986 66665543
No 164
>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=98.38 E-value=4.1e-06 Score=48.80 Aligned_cols=54 Identities=13% Similarity=0.159 Sum_probs=40.5
Q ss_pred EEEECCEEEEEEECCCCcCchhhH--------HhhhhCCcEEEEEEECCChhhHHHHHHHHHHH
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPLW--------RHYFQNTQGLIFVVDSNDRDRIVEARDELHRM 60 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~~--------~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~ 60 (65)
.+...+..+.+||++|........ ..+++.++++++|+|.+++.+++.. |+..+
T Consensus 245 ~i~~~g~~v~l~DTaG~~~~~~~ie~~gi~~~~~~~~~aD~il~V~D~s~~~s~~~~--~l~~~ 306 (442)
T TIGR00450 245 DFELNGILIKLLDTAGIREHADFVERLGIEKSFKAIKQADLVIYVLDASQPLTKDDF--LIIDL 306 (442)
T ss_pred EEEECCEEEEEeeCCCcccchhHHHHHHHHHHHHHHhhCCEEEEEEECCCCCChhHH--HHHHH
Confidence 355567788999999986654322 3578899999999999988877654 55544
No 165
>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=98.37 E-value=2.6e-06 Score=45.66 Aligned_cols=41 Identities=15% Similarity=0.138 Sum_probs=36.5
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhh
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDR 49 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s 49 (65)
+...+.+||++|+..+......+++.++++++|+|+++...
T Consensus 71 ~~~~i~iiDTPG~~~f~~~~~~~l~~aD~~ilVvD~~~g~~ 111 (222)
T cd01885 71 NEYLINLIDSPGHVDFSSEVTAALRLCDGALVVVDAVEGVC 111 (222)
T ss_pred CceEEEEECCCCccccHHHHHHHHHhcCeeEEEEECCCCCC
Confidence 36889999999999999888999999999999999986543
No 166
>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=98.35 E-value=7.8e-06 Score=41.41 Aligned_cols=56 Identities=20% Similarity=0.226 Sum_probs=38.5
Q ss_pred EEEC-CEEEEEEECCCCcC----chhh---HHhhhhCCcEEEEEEECCCh------hhHHHHHHHHHHHh
Q 037770 6 VEYK-NISFTVWDVGGQDK----IRPL---WRHYFQNTQGLIFVVDSNDR------DRIVEARDELHRML 61 (65)
Q Consensus 6 ~~~~-~~~l~~~d~~g~~~----~~~~---~~~~~~~~~~ii~v~d~~~~------~sf~~~~~~~~~~~ 61 (65)
+... ...+.+||++|... .+.. ...++++++++++|+|.++. .++.+.+.+..++.
T Consensus 38 ~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~ 107 (176)
T cd01881 38 VEVPDGARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAILHVVDASEDDDIGGVDPLEDYEILNAELK 107 (176)
T ss_pred EEcCCCCeEEEEeccccchhhhcCCCccHHHHHHHhccCEEEEEEeccCCccccccCHHHHHHHHHHHHH
Confidence 3344 67889999999632 1222 23457789999999999987 46777666655553
No 167
>cd04169 RF3 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.
Probab=98.34 E-value=7.6e-06 Score=44.90 Aligned_cols=44 Identities=14% Similarity=0.280 Sum_probs=37.5
Q ss_pred EEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCCh
Q 037770 4 ETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 4 ~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~ 47 (65)
..+..++..+.+||++|+..+.......++.++++++|+|.++.
T Consensus 64 ~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvda~~g 107 (267)
T cd04169 64 MQFEYRDCVINLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKG 107 (267)
T ss_pred EEEeeCCEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCC
Confidence 35677889999999999988877666788999999999999864
No 168
>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=98.33 E-value=7.1e-06 Score=41.93 Aligned_cols=44 Identities=20% Similarity=0.307 Sum_probs=37.6
Q ss_pred EEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhh
Q 037770 6 VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDR 49 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s 49 (65)
+......+.+||++|...+...+..+++.++++++|+|.++..+
T Consensus 57 ~~~~~~~~~liDtpG~~~~~~~~~~~~~~~d~~i~v~d~~~~~~ 100 (189)
T cd00881 57 FEWPDRRVNFIDTPGHEDFSSEVIRGLSVSDGAILVVDANEGVQ 100 (189)
T ss_pred EeeCCEEEEEEeCCCcHHHHHHHHHHHHhcCEEEEEEECCCCCc
Confidence 34456789999999999998899999999999999999986544
No 169
>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=98.31 E-value=1.1e-05 Score=45.50 Aligned_cols=57 Identities=18% Similarity=0.215 Sum_probs=38.5
Q ss_pred EEEEECC-EEEEEEECCCCcC-------chhhHHhhhhCCcEEEEEEECCCh---hhHHHHHHHHHHH
Q 037770 4 ETVEYKN-ISFTVWDVGGQDK-------IRPLWRHYFQNTQGLIFVVDSNDR---DRIVEARDELHRM 60 (65)
Q Consensus 4 ~~~~~~~-~~l~~~d~~g~~~-------~~~~~~~~~~~~~~ii~v~d~~~~---~sf~~~~~~~~~~ 60 (65)
..+...+ ..+.+||++|... ....+..+...++++++|+|+++. +.+++...|.+++
T Consensus 197 g~v~~~~~~~~~i~D~PGli~~a~~~~gLg~~flrhierad~ll~VvD~s~~~~~~~~e~l~~l~~EL 264 (329)
T TIGR02729 197 GVVRVDDGRSFVIADIPGLIEGASEGAGLGHRFLKHIERTRVLLHLIDISPLDGRDPIEDYEIIRNEL 264 (329)
T ss_pred EEEEeCCceEEEEEeCCCcccCCcccccHHHHHHHHHHhhCEEEEEEcCccccccCHHHHHHHHHHHH
Confidence 3344444 7899999999743 222333445579999999999976 5666666665554
No 170
>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA. This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.
Probab=98.26 E-value=8.6e-06 Score=48.99 Aligned_cols=55 Identities=15% Similarity=0.317 Sum_probs=43.2
Q ss_pred EEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHH
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRM 60 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~ 60 (65)
.+..++..+.+||++|+..+...+..+++.+|++++|+|.++- .....+.++..+
T Consensus 58 ~v~~~~~kinlIDTPGh~DF~~ev~~~l~~aD~alLVVDa~~G-~~~qT~~~l~~a 112 (594)
T TIGR01394 58 AIRYNGTKINIVDTPGHADFGGEVERVLGMVDGVLLLVDASEG-PMPQTRFVLKKA 112 (594)
T ss_pred EEEECCEEEEEEECCCHHHHHHHHHHHHHhCCEEEEEEeCCCC-CcHHHHHHHHHH
Confidence 4667789999999999999998889999999999999999752 233444444443
No 171
>PRK10218 GTP-binding protein; Provisional
Probab=98.25 E-value=6e-06 Score=49.77 Aligned_cols=43 Identities=14% Similarity=0.295 Sum_probs=38.2
Q ss_pred EEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCCh
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~ 47 (65)
.+..++..+.+||++|+..+...+..+++.++++++|+|+++.
T Consensus 62 ~i~~~~~~inliDTPG~~df~~~v~~~l~~aDg~ILVVDa~~G 104 (607)
T PRK10218 62 AIKWNDYRINIVDTPGHADFGGEVERVMSMVDSVLLVVDAFDG 104 (607)
T ss_pred EEecCCEEEEEEECCCcchhHHHHHHHHHhCCEEEEEEecccC
Confidence 3455778999999999999999999999999999999999763
No 172
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=98.24 E-value=1.6e-05 Score=49.21 Aligned_cols=47 Identities=23% Similarity=0.262 Sum_probs=38.7
Q ss_pred EEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC---hhhHHH
Q 037770 6 VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND---RDRIVE 52 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~sf~~ 52 (65)
+...+..+.+||++|+..|...+......+|++|+|+|.++ +++.+.
T Consensus 332 v~~~~~~ItfiDTPGhe~F~~m~~rga~~aDiaILVVdAddGv~~qT~e~ 381 (787)
T PRK05306 332 VETNGGKITFLDTPGHEAFTAMRARGAQVTDIVVLVVAADDGVMPQTIEA 381 (787)
T ss_pred EEECCEEEEEEECCCCccchhHHHhhhhhCCEEEEEEECCCCCCHhHHHH
Confidence 34446788999999999999999989999999999999986 444443
No 173
>TIGR00475 selB selenocysteine-specific elongation factor SelB. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.
Probab=98.19 E-value=1.1e-05 Score=48.47 Aligned_cols=48 Identities=15% Similarity=0.101 Sum_probs=39.4
Q ss_pred EEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC---hhhHHHH
Q 037770 6 VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND---RDRIVEA 53 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~sf~~~ 53 (65)
+...+..+.+||++|++.+.......+.+++++++|+|+++ +++++++
T Consensus 45 ~~~~~~~v~~iDtPGhe~f~~~~~~g~~~aD~aILVVDa~~G~~~qT~ehl 95 (581)
T TIGR00475 45 FPLPDYRLGFIDVPGHEKFISNAIAGGGGIDAALLVVDADEGVMTQTGEHL 95 (581)
T ss_pred EEeCCEEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCcHHHHHHH
Confidence 34455788999999999998888888899999999999987 5665554
No 174
>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=98.18 E-value=2e-05 Score=44.79 Aligned_cols=50 Identities=20% Similarity=0.225 Sum_probs=35.2
Q ss_pred EEEE-CCEEEEEEECCCCcC---------chhhHHhhhhCCcEEEEEEECCChhhHHHHHH
Q 037770 5 TVEY-KNISFTVWDVGGQDK---------IRPLWRHYFQNTQGLIFVVDSNDRDRIVEARD 55 (65)
Q Consensus 5 ~~~~-~~~~l~~~d~~g~~~---------~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~ 55 (65)
.+.. .+..+.+|||+|..+ ++..+ ..+.++|++++|+|.+++.++.+...
T Consensus 230 ~i~~~~~~~i~l~DT~G~~~~l~~~lie~f~~tl-e~~~~ADlil~VvD~s~~~~~~~~~~ 289 (351)
T TIGR03156 230 RLDLPDGGEVLLTDTVGFIRDLPHELVAAFRATL-EEVREADLLLHVVDASDPDREEQIEA 289 (351)
T ss_pred EEEeCCCceEEEEecCcccccCCHHHHHHHHHHH-HHHHhCCEEEEEEECCCCchHHHHHH
Confidence 3444 356889999999722 22222 24778999999999999887766543
No 175
>PRK13351 elongation factor G; Reviewed
Probab=98.18 E-value=1.5e-05 Score=48.49 Aligned_cols=48 Identities=13% Similarity=0.156 Sum_probs=40.8
Q ss_pred EEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHH
Q 037770 4 ETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIV 51 (65)
Q Consensus 4 ~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~ 51 (65)
..+...+..+.+||++|+..+...+..+++.++++++|+|.++..+..
T Consensus 66 ~~~~~~~~~i~liDtPG~~df~~~~~~~l~~aD~~ilVvd~~~~~~~~ 113 (687)
T PRK13351 66 TSCDWDNHRINLIDTPGHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQ 113 (687)
T ss_pred EEEEECCEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEEeCCCCCCHH
Confidence 345667889999999999999888899999999999999998765543
No 176
>TIGR00487 IF-2 translation initiation factor IF-2. This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.
Probab=98.15 E-value=2.7e-05 Score=46.89 Aligned_cols=35 Identities=20% Similarity=0.291 Sum_probs=32.7
Q ss_pred EEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 12 SFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 12 ~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
.+.+||++|++.+...+...+..+|++++|+|.++
T Consensus 136 ~i~~iDTPGhe~F~~~r~rga~~aDiaILVVda~d 170 (587)
T TIGR00487 136 MITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADD 170 (587)
T ss_pred EEEEEECCCCcchhhHHHhhhccCCEEEEEEECCC
Confidence 78999999999999999999999999999999875
No 177
>CHL00189 infB translation initiation factor 2; Provisional
Probab=98.15 E-value=7.4e-06 Score=50.32 Aligned_cols=45 Identities=16% Similarity=0.228 Sum_probs=38.0
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC---hhhHHHH
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND---RDRIVEA 53 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~sf~~~ 53 (65)
....+.+||++|++.+...+..++..++++++|+|.++ +++++.+
T Consensus 293 ~~~kItfiDTPGhe~F~~mr~rg~~~aDiaILVVDA~dGv~~QT~E~I 340 (742)
T CHL00189 293 ENQKIVFLDTPGHEAFSSMRSRGANVTDIAILIIAADDGVKPQTIEAI 340 (742)
T ss_pred CceEEEEEECCcHHHHHHHHHHHHHHCCEEEEEEECcCCCChhhHHHH
Confidence 35789999999999999999999999999999999876 4554443
No 178
>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=98.14 E-value=6.2e-06 Score=47.67 Aligned_cols=45 Identities=16% Similarity=0.134 Sum_probs=35.8
Q ss_pred EEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhh
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDR 49 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s 49 (65)
.+...+..+.+||++|++.+.......+..++++++|+|.++.++
T Consensus 79 ~~~~~~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~ 123 (426)
T TIGR00483 79 KFETDKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEF 123 (426)
T ss_pred EEccCCeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCc
Confidence 345567889999999998876555556788999999999987743
No 179
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=98.14 E-value=2.8e-05 Score=45.46 Aligned_cols=50 Identities=12% Similarity=0.214 Sum_probs=37.3
Q ss_pred EEEECCEEEEEEECCCCcCchhh--------HHhhhhCCcEEEEEEECCChhhHHHHH
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPL--------WRHYFQNTQGLIFVVDSNDRDRIVEAR 54 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~--------~~~~~~~~~~ii~v~d~~~~~sf~~~~ 54 (65)
.+...+..+.+||++|....... ...+++.++++++|+|.+++.++++..
T Consensus 257 ~i~~~g~~i~l~DT~G~~~~~~~ie~~gi~~~~~~~~~aD~il~VvD~s~~~s~~~~~ 314 (449)
T PRK05291 257 HINLDGIPLRLIDTAGIRETDDEVEKIGIERSREAIEEADLVLLVLDASEPLTEEDDE 314 (449)
T ss_pred EEEECCeEEEEEeCCCCCCCccHHHHHHHHHHHHHHHhCCEEEEEecCCCCCChhHHH
Confidence 34556778999999998654321 234688999999999999887776543
No 180
>PRK03003 GTP-binding protein Der; Reviewed
Probab=98.14 E-value=2.7e-05 Score=45.68 Aligned_cols=44 Identities=25% Similarity=0.395 Sum_probs=33.9
Q ss_pred EECCEEEEEEECCCCcC--------chhhHHhhhhCCcEEEEEEECCChhhH
Q 037770 7 EYKNISFTVWDVGGQDK--------IRPLWRHYFQNTQGLIFVVDSNDRDRI 50 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~--------~~~~~~~~~~~~~~ii~v~d~~~~~sf 50 (65)
...+..+.+||++|.+. +...+..+++.++++++|+|+++..++
T Consensus 82 ~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~aD~il~VvD~~~~~s~ 133 (472)
T PRK03003 82 EWNGRRFTVVDTGGWEPDAKGLQASVAEQAEVAMRTADAVLFVVDATVGATA 133 (472)
T ss_pred EECCcEEEEEeCCCcCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCH
Confidence 34556789999999763 334456788999999999999986554
No 181
>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.
Probab=98.13 E-value=7.2e-06 Score=42.85 Aligned_cols=53 Identities=26% Similarity=0.543 Sum_probs=40.2
Q ss_pred EEEEEEECCCCcCchhhHHh---hhhCCcEEEEEEECCC-hhhHHHHHHHHHHHhcc
Q 037770 11 ISFTVWDVGGQDKIRPLWRH---YFQNTQGLIFVVDSND-RDRIVEARDELHRMLNE 63 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~---~~~~~~~ii~v~d~~~-~~sf~~~~~~~~~~~~~ 63 (65)
-.+.+.|+||+.+.+..... +...+.|||||+|.+. .....++.+.+..++.+
T Consensus 49 ~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~IIfvvDSs~~~~~~~~~Ae~Ly~iL~~ 105 (181)
T PF09439_consen 49 KKLRLVDIPGHPRLRSKLLDELKYLSNAKGIIFVVDSSTDQKELRDVAEYLYDILSD 105 (181)
T ss_dssp TCECEEEETT-HCCCHHHHHHHHHHGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHH
T ss_pred CEEEEEECCCcHHHHHHHHHhhhchhhCCEEEEEEeCccchhhHHHHHHHHHHHHHh
Confidence 46889999999998874433 5888999999999984 45577777777777643
No 182
>PRK00093 GTP-binding protein Der; Reviewed
Probab=98.12 E-value=5.3e-05 Score=43.82 Aligned_cols=44 Identities=25% Similarity=0.372 Sum_probs=33.8
Q ss_pred EEEECCEEEEEEECCCCcC--------chhhHHhhhhCCcEEEEEEECCChh
Q 037770 5 TVEYKNISFTVWDVGGQDK--------IRPLWRHYFQNTQGLIFVVDSNDRD 48 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~--------~~~~~~~~~~~~~~ii~v~d~~~~~ 48 (65)
.+...+..+.+||++|... +......++..++++++|+|.++..
T Consensus 43 ~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvd~~~~~ 94 (435)
T PRK00093 43 EAEWLGREFILIDTGGIEPDDDGFEKQIREQAELAIEEADVILFVVDGRAGL 94 (435)
T ss_pred EEEECCcEEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCC
Confidence 3445568899999999987 3334456788999999999998743
No 183
>PRK04004 translation initiation factor IF-2; Validated
Probab=98.10 E-value=1.3e-05 Score=48.22 Aligned_cols=42 Identities=21% Similarity=0.199 Sum_probs=36.5
Q ss_pred EEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC---hhhHHHHH
Q 037770 13 FTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND---RDRIVEAR 54 (65)
Q Consensus 13 l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~sf~~~~ 54 (65)
+.+||++|++.+...+...+..++++++|+|.++ ++++..+.
T Consensus 73 i~~iDTPG~e~f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~ 117 (586)
T PRK04004 73 LLFIDTPGHEAFTNLRKRGGALADIAILVVDINEGFQPQTIEAIN 117 (586)
T ss_pred EEEEECCChHHHHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHH
Confidence 6899999999999999888899999999999987 66666553
No 184
>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=98.08 E-value=4.6e-05 Score=37.80 Aligned_cols=45 Identities=20% Similarity=0.297 Sum_probs=34.0
Q ss_pred EEEECCEEEEEEECCCCcCchh--------hHHhhhhCCcEEEEEEECCChhh
Q 037770 5 TVEYKNISFTVWDVGGQDKIRP--------LWRHYFQNTQGLIFVVDSNDRDR 49 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~--------~~~~~~~~~~~ii~v~d~~~~~s 49 (65)
.+...+..+.+||++|...... .+..+.+.++++++|+|..+..+
T Consensus 39 ~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~~~ 91 (157)
T cd01894 39 EAEWGGREFILIDTGGIEPDDEGISKEIREQAELAIEEADVILFVVDGREGLT 91 (157)
T ss_pred EEEECCeEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCCEEEEEEeccccCC
Confidence 3444567899999999988654 33457788999999999976543
No 185
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=98.08 E-value=2e-05 Score=46.88 Aligned_cols=45 Identities=13% Similarity=0.258 Sum_probs=38.0
Q ss_pred EEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCCh
Q 037770 3 VETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 3 ~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~ 47 (65)
+.++..++..+.+||++|+..+......+++.++++++|+|.++.
T Consensus 71 ~~~~~~~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~g 115 (526)
T PRK00741 71 VMQFPYRDCLINLLDTPGHEDFSEDTYRTLTAVDSALMVIDAAKG 115 (526)
T ss_pred eEEEEECCEEEEEEECCCchhhHHHHHHHHHHCCEEEEEEecCCC
Confidence 345677889999999999998887666788999999999999864
No 186
>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=98.08 E-value=8e-05 Score=36.89 Aligned_cols=51 Identities=14% Similarity=0.198 Sum_probs=36.5
Q ss_pred EEEECCEEEEEEECCCCcCchhh--------HHhhhhCCcEEEEEEECCChhhHHHHHH
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPL--------WRHYFQNTQGLIFVVDSNDRDRIVEARD 55 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~--------~~~~~~~~~~ii~v~d~~~~~sf~~~~~ 55 (65)
.+......+.+||++|....... ...++..++++++|+|++++.+..+.+.
T Consensus 43 ~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~d~~~~~~~~~~~~ 101 (157)
T cd04164 43 SIDIGGIPVRLIDTAGIRETEDEIEKIGIERAREAIEEADLVLFVIDASRGLDEEDLEI 101 (157)
T ss_pred EEEeCCEEEEEEECCCcCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCCHHHHHH
Confidence 34445678999999997665321 2346678999999999998777655543
No 187
>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2). eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel
Probab=98.08 E-value=1.6e-05 Score=41.89 Aligned_cols=36 Identities=11% Similarity=0.175 Sum_probs=31.7
Q ss_pred EEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 11 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
..+.+||++|++.+...+......++++++|+|+++
T Consensus 83 ~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~ 118 (203)
T cd01888 83 RHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANE 118 (203)
T ss_pred cEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCC
Confidence 678999999998887777777788899999999986
No 188
>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=98.06 E-value=4.2e-05 Score=40.01 Aligned_cols=46 Identities=20% Similarity=0.097 Sum_probs=32.5
Q ss_pred EEEEEEECCCCcCc---------hhhHHhhhhCCcEEEEEEECCChhhHHHHHHHH
Q 037770 11 ISFTVWDVGGQDKI---------RPLWRHYFQNTQGLIFVVDSNDRDRIVEARDEL 57 (65)
Q Consensus 11 ~~l~~~d~~g~~~~---------~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~ 57 (65)
..+.+||++|.... ...+ ..+..++++++|+|.+++.++.+...+.
T Consensus 89 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~-~~~~~~d~ii~v~D~~~~~~~~~~~~~~ 143 (204)
T cd01878 89 REVLLTDTVGFIRDLPHQLVEAFRSTL-EEVAEADLLLHVVDASDPDYEEQIETVE 143 (204)
T ss_pred ceEEEeCCCccccCCCHHHHHHHHHHH-HHHhcCCeEEEEEECCCCChhhHHHHHH
Confidence 37899999997331 1111 2366899999999999888877665443
No 189
>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily. EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in
Probab=98.05 E-value=2.2e-05 Score=41.76 Aligned_cols=43 Identities=21% Similarity=0.274 Sum_probs=35.2
Q ss_pred EEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCCh
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~ 47 (65)
.+..++..+.+||++|+..+...+......++++++|+|.++.
T Consensus 71 ~~~~~~~~i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~ 113 (219)
T cd01883 71 KFETEKYRFTILDAPGHRDFVPNMITGASQADVAVLVVDARKG 113 (219)
T ss_pred EEeeCCeEEEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCC
Confidence 4556778999999999877776666667789999999999874
No 190
>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins. GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.
Probab=98.02 E-value=0.00011 Score=39.66 Aligned_cols=44 Identities=16% Similarity=0.218 Sum_probs=33.1
Q ss_pred EEEECCEEEEEEECCCCcCch-------hhHHhhhhCCcEEEEEEECCChh
Q 037770 5 TVEYKNISFTVWDVGGQDKIR-------PLWRHYFQNTQGLIFVVDSNDRD 48 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~-------~~~~~~~~~~~~ii~v~d~~~~~ 48 (65)
.+...+..+++||++|..+.. .....++++++++++|+|+++++
T Consensus 41 ~~~~~~~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad~il~V~D~t~~~ 91 (233)
T cd01896 41 VLEYKGAKIQLLDLPGIIEGAADGKGRGRQVIAVARTADLILMVLDATKPE 91 (233)
T ss_pred EEEECCeEEEEEECCCcccccccchhHHHHHHHhhccCCEEEEEecCCcch
Confidence 344567889999999975432 12345788999999999998765
No 191
>cd04166 CysN_ATPS CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.
Probab=98.01 E-value=2.2e-05 Score=41.46 Aligned_cols=41 Identities=15% Similarity=0.134 Sum_probs=33.4
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCCh
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~ 47 (65)
...+..+.+||++|+..+..........++++++|+|.++.
T Consensus 73 ~~~~~~~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~ 113 (208)
T cd04166 73 STPKRKFIIADTPGHEQYTRNMVTGASTADLAILLVDARKG 113 (208)
T ss_pred ecCCceEEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCC
Confidence 34566889999999988766566678899999999999864
No 192
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=98.01 E-value=2.6e-05 Score=45.13 Aligned_cols=42 Identities=19% Similarity=0.227 Sum_probs=33.0
Q ss_pred EEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
.+...+..+.+||++|++.+..........++++++|+|.++
T Consensus 78 ~~~~~~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~ 119 (425)
T PRK12317 78 KFETDKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADD 119 (425)
T ss_pred EEecCCeEEEEEECCCcccchhhHhhchhcCCEEEEEEEccc
Confidence 345567889999999998775544445678999999999986
No 193
>KOG0099 consensus G protein subunit Galphas, small G protein superfamily [Signal transduction mechanisms]
Probab=98.01 E-value=6.2e-05 Score=41.89 Aligned_cols=42 Identities=31% Similarity=0.667 Sum_probs=37.2
Q ss_pred EEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCCh
Q 037770 6 VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~ 47 (65)
+....+.|+.+|++|+...+..|-.+|.+..++|+|.+.++.
T Consensus 197 FqVdkv~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsy 238 (379)
T KOG0099|consen 197 FQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSY 238 (379)
T ss_pred EeccccceeeeccCCchhhhhhHHHHhcCccEEEEEEeccch
Confidence 444568899999999999999999999999999999988753
No 194
>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=97.96 E-value=6.9e-05 Score=40.97 Aligned_cols=46 Identities=15% Similarity=0.195 Sum_probs=38.4
Q ss_pred EEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhh
Q 037770 4 ETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDR 49 (65)
Q Consensus 4 ~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s 49 (65)
..+...+..+.+||++|...+...+...+..++++++|+|.++...
T Consensus 57 ~~~~~~~~~i~liDtPG~~~f~~~~~~~l~~aD~~i~Vvd~~~g~~ 102 (268)
T cd04170 57 APLEWKGHKINLIDTPGYADFVGETRAALRAADAALVVVSAQSGVE 102 (268)
T ss_pred EEEEECCEEEEEEECcCHHHHHHHHHHHHHHCCEEEEEEeCCCCCC
Confidence 4456677889999999998887778889999999999999986543
No 195
>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=97.94 E-value=4.9e-05 Score=45.29 Aligned_cols=43 Identities=12% Similarity=0.242 Sum_probs=36.4
Q ss_pred EEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 4 ETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 4 ~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
.++..++..+.+||++|+..+......++..++++++|+|.++
T Consensus 73 ~~~~~~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~ 115 (527)
T TIGR00503 73 MQFPYRDCLVNLLDTPGHEDFSEDTYRTLTAVDNCLMVIDAAK 115 (527)
T ss_pred EEEeeCCeEEEEEECCChhhHHHHHHHHHHhCCEEEEEEECCC
Confidence 4566778999999999998887655667899999999999986
No 196
>PRK15494 era GTPase Era; Provisional
Probab=97.87 E-value=0.00018 Score=40.79 Aligned_cols=42 Identities=14% Similarity=0.232 Sum_probs=29.1
Q ss_pred EEEECCEEEEEEECCCCcC-chhhH-------HhhhhCCcEEEEEEECCC
Q 037770 5 TVEYKNISFTVWDVGGQDK-IRPLW-------RHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~-~~~~~-------~~~~~~~~~ii~v~d~~~ 46 (65)
.+...+..+.+||++|... +..+. ..++.+++++++|+|.++
T Consensus 94 ~~~~~~~qi~~~DTpG~~~~~~~l~~~~~r~~~~~l~~aDvil~VvD~~~ 143 (339)
T PRK15494 94 IITLKDTQVILYDTPGIFEPKGSLEKAMVRCAWSSLHSADLVLLIIDSLK 143 (339)
T ss_pred EEEeCCeEEEEEECCCcCCCcccHHHHHHHHHHHHhhhCCEEEEEEECCC
Confidence 3455667889999999843 22211 134678999999999764
No 197
>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=97.87 E-value=6.7e-05 Score=39.01 Aligned_cols=39 Identities=21% Similarity=0.204 Sum_probs=27.7
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCCh
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~ 47 (65)
....+.+||++|+..+..........++++++|+|.++.
T Consensus 66 ~~~~~~i~DtpG~~~~~~~~~~~~~~~d~vi~VvD~~~~ 104 (192)
T cd01889 66 ENLQITLVDCPGHASLIRTIIGGAQIIDLMLLVVDATKG 104 (192)
T ss_pred cCceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCC
Confidence 367899999999865432222334567899999999863
No 198
>PRK03003 GTP-binding protein Der; Reviewed
Probab=97.86 E-value=0.00018 Score=42.27 Aligned_cols=48 Identities=10% Similarity=0.204 Sum_probs=34.3
Q ss_pred EEECCEEEEEEECCCCcC----------chhhH-HhhhhCCcEEEEEEECCChhhHHHH
Q 037770 6 VEYKNISFTVWDVGGQDK----------IRPLW-RHYFQNTQGLIFVVDSNDRDRIVEA 53 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~----------~~~~~-~~~~~~~~~ii~v~d~~~~~sf~~~ 53 (65)
+...+..+.+||++|... +.... ..++++++++++|+|+++..++.+.
T Consensus 254 ~~~~~~~~~l~DTaG~~~~~~~~~~~e~~~~~~~~~~i~~ad~vilV~Da~~~~s~~~~ 312 (472)
T PRK03003 254 IELGGKTWRFVDTAGLRRRVKQASGHEYYASLRTHAAIEAAEVAVVLIDASEPISEQDQ 312 (472)
T ss_pred EEECCEEEEEEECCCccccccccchHHHHHHHHHHHHHhcCCEEEEEEeCCCCCCHHHH
Confidence 344566788999999532 22222 3457899999999999988777665
No 199
>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=97.84 E-value=1.1e-05 Score=39.76 Aligned_cols=38 Identities=13% Similarity=0.097 Sum_probs=29.0
Q ss_pred EEEECCCCc-----CchhhHHhhhhCCcEEEEEEECCChhhHHH
Q 037770 14 TVWDVGGQD-----KIRPLWRHYFQNTQGLIFVVDSNDRDRIVE 52 (65)
Q Consensus 14 ~~~d~~g~~-----~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~ 52 (65)
.+||++|+. .++.... .+++++++++|+|++++.++..
T Consensus 38 ~~iDt~G~~~~~~~~~~~~~~-~~~~ad~vilv~d~~~~~s~~~ 80 (142)
T TIGR02528 38 GAIDTPGEYVENRRLYSALIV-TAADADVIALVQSATDPESRFP 80 (142)
T ss_pred eeecCchhhhhhHHHHHHHHH-HhhcCCEEEEEecCCCCCcCCC
Confidence 689999973 2333333 4789999999999999988754
No 200
>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=97.84 E-value=0.00013 Score=40.25 Aligned_cols=42 Identities=17% Similarity=0.183 Sum_probs=36.8
Q ss_pred EEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
.+..++..+.++|++|+..+...+..+++.++++++|+|.++
T Consensus 58 ~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVVDa~~ 99 (270)
T cd01886 58 TCFWKDHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVA 99 (270)
T ss_pred EEEECCEEEEEEECCCcHHHHHHHHHHHHHcCEEEEEEECCC
Confidence 445577889999999998888888899999999999999975
No 201
>PRK12297 obgE GTPase CgtA; Reviewed
Probab=97.82 E-value=0.00035 Score=40.84 Aligned_cols=51 Identities=20% Similarity=0.203 Sum_probs=33.9
Q ss_pred CEEEEEEECCCCcC----chhhHHh---hhhCCcEEEEEEECCCh---hhHHHHHHHHHHH
Q 037770 10 NISFTVWDVGGQDK----IRPLWRH---YFQNTQGLIFVVDSNDR---DRIVEARDELHRM 60 (65)
Q Consensus 10 ~~~l~~~d~~g~~~----~~~~~~~---~~~~~~~ii~v~d~~~~---~sf~~~~~~~~~~ 60 (65)
...+.+||++|... ...+... +...++++++|+|+++. +.+++...+.+++
T Consensus 205 ~~~~~laD~PGliega~~~~gLg~~fLrhier~~llI~VID~s~~~~~dp~e~~~~i~~EL 265 (424)
T PRK12297 205 GRSFVMADIPGLIEGASEGVGLGHQFLRHIERTRVIVHVIDMSGSEGRDPIEDYEKINKEL 265 (424)
T ss_pred CceEEEEECCCCcccccccchHHHHHHHHHhhCCEEEEEEeCCccccCChHHHHHHHHHHH
Confidence 56799999999642 1223333 34568999999999864 5566665555544
No 202
>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=97.80 E-value=3.8e-05 Score=41.92 Aligned_cols=39 Identities=36% Similarity=0.713 Sum_probs=31.4
Q ss_pred CEEEEEEECCCCcCch-----hhHHhhhhCCcEEEEEEECCChh
Q 037770 10 NISFTVWDVGGQDKIR-----PLWRHYFQNTQGLIFVVDSNDRD 48 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~-----~~~~~~~~~~~~ii~v~d~~~~~ 48 (65)
++.+++||++|++.+- ......+++...+++|||++..+
T Consensus 52 nl~LnlwDcGgqe~fmen~~~~q~d~iF~nV~vli~vFDves~e 95 (295)
T KOG3886|consen 52 NLVLNLWDCGGQEEFMENYLSSQEDNIFRNVQVLIYVFDVESRE 95 (295)
T ss_pred hheeehhccCCcHHHHHHHHhhcchhhheeheeeeeeeeccchh
Confidence 4678899999998532 34467899999999999998764
No 203
>PRK11058 GTPase HflX; Provisional
Probab=97.77 E-value=0.00051 Score=40.15 Aligned_cols=49 Identities=16% Similarity=0.134 Sum_probs=33.7
Q ss_pred EEECCE-EEEEEECCCCcCc--hhhHH------hhhhCCcEEEEEEECCChhhHHHHH
Q 037770 6 VEYKNI-SFTVWDVGGQDKI--RPLWR------HYFQNTQGLIFVVDSNDRDRIVEAR 54 (65)
Q Consensus 6 ~~~~~~-~l~~~d~~g~~~~--~~~~~------~~~~~~~~ii~v~d~~~~~sf~~~~ 54 (65)
+...+. .+.+||++|..+. ...+. ...+.++++++|+|.+++.++.+..
T Consensus 239 i~l~~~~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~ADlIL~VvDaS~~~~~e~l~ 296 (426)
T PRK11058 239 IDVADVGETVLADTVGFIRHLPHDLVAAFKATLQETRQATLLLHVVDAADVRVQENIE 296 (426)
T ss_pred EEeCCCCeEEEEecCcccccCCHHHHHHHHHHHHHhhcCCEEEEEEeCCCccHHHHHH
Confidence 333333 7789999997432 22222 3467899999999999988776653
No 204
>PRK12740 elongation factor G; Reviewed
Probab=97.75 E-value=0.00024 Score=43.27 Aligned_cols=47 Identities=17% Similarity=0.145 Sum_probs=39.6
Q ss_pred EEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhH
Q 037770 4 ETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRI 50 (65)
Q Consensus 4 ~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf 50 (65)
..+..++..+.+||++|+..+...+...+..+|++++|+|.+.....
T Consensus 53 ~~~~~~~~~i~liDtPG~~~~~~~~~~~l~~aD~vllvvd~~~~~~~ 99 (668)
T PRK12740 53 TTCEWKGHKINLIDTPGHVDFTGEVERALRVLDGAVVVVCAVGGVEP 99 (668)
T ss_pred EEEEECCEEEEEEECCCcHHHHHHHHHHHHHhCeEEEEEeCCCCcCH
Confidence 45566788999999999988877788889999999999999875544
No 205
>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=97.69 E-value=0.00033 Score=40.48 Aligned_cols=47 Identities=11% Similarity=0.160 Sum_probs=33.9
Q ss_pred EECCEEEEEEECCCCcCchhhH-----------HhhhhCCcEEEEEEECCChhhHHHH
Q 037770 7 EYKNISFTVWDVGGQDKIRPLW-----------RHYFQNTQGLIFVVDSNDRDRIVEA 53 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~-----------~~~~~~~~~ii~v~d~~~~~sf~~~ 53 (65)
...+..+.+||++|........ ..+++.++++++|+|.++..+..+.
T Consensus 216 ~~~~~~~~liDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilV~D~~~~~~~~~~ 273 (429)
T TIGR03594 216 ERNGKKYLLIDTAGIRRKGKVTEGVEKYSVLRTLKAIERADVVLLVLDATEGITEQDL 273 (429)
T ss_pred EECCcEEEEEECCCccccccchhhHHHHHHHHHHHHHHhCCEEEEEEECCCCccHHHH
Confidence 3455678999999976543321 3467899999999999987665443
No 206
>PRK14845 translation initiation factor IF-2; Provisional
Probab=97.66 E-value=0.0002 Score=45.77 Aligned_cols=42 Identities=19% Similarity=0.206 Sum_probs=35.5
Q ss_pred EEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC---hhhHHHHH
Q 037770 13 FTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND---RDRIVEAR 54 (65)
Q Consensus 13 l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~sf~~~~ 54 (65)
+.+||++|++.+.......+..++++++|+|+++ ++++..+.
T Consensus 528 i~fiDTPGhe~F~~lr~~g~~~aDivlLVVDa~~Gi~~qT~e~I~ 572 (1049)
T PRK14845 528 LLFIDTPGHEAFTSLRKRGGSLADLAVLVVDINEGFKPQTIEAIN 572 (1049)
T ss_pred EEEEECCCcHHHHHHHHhhcccCCEEEEEEECcccCCHhHHHHHH
Confidence 7899999999998888888888999999999986 56665543
No 207
>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma. eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.
Probab=97.65 E-value=0.00017 Score=41.70 Aligned_cols=37 Identities=14% Similarity=0.171 Sum_probs=32.6
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
...+.+||++|++.+...+......++++++|+|.++
T Consensus 79 ~~~i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~ 115 (406)
T TIGR03680 79 LRRVSFVDAPGHETLMATMLSGAALMDGALLVIAANE 115 (406)
T ss_pred ccEEEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCC
Confidence 3678999999999998888777888999999999985
No 208
>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.63 E-value=0.00057 Score=36.90 Aligned_cols=54 Identities=22% Similarity=0.399 Sum_probs=41.1
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhh---CCcEEEEEEECCC-hhhHHHHHHHHHHHhc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQ---NTQGLIFVVDSND-RDRIVEARDELHRMLN 62 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~---~~~~ii~v~d~~~-~~sf~~~~~~~~~~~~ 62 (65)
++-..++.|.||+.+.+.....+++ ++.+++||+|+.. .....++.+.+..++.
T Consensus 80 gs~~~~LVD~PGH~rlR~kl~e~~~~~~~akaiVFVVDSa~f~k~vrdvaefLydil~ 137 (238)
T KOG0090|consen 80 GSENVTLVDLPGHSRLRRKLLEYLKHNYSAKAIVFVVDSATFLKNVRDVAEFLYDILL 137 (238)
T ss_pred cCcceEEEeCCCcHHHHHHHHHHccccccceeEEEEEeccccchhhHHHHHHHHHHHH
Confidence 3344789999999999988777888 7999999999874 3335666677766653
No 209
>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=97.63 E-value=0.00059 Score=41.90 Aligned_cols=44 Identities=18% Similarity=0.179 Sum_probs=37.5
Q ss_pred EEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChh
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRD 48 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~ 48 (65)
.+...+..+.+||++|+..+...+...++.+|++++|+|.++..
T Consensus 69 ~~~~~~~~i~liDTPG~~~~~~~~~~~l~~~D~~ilVvda~~g~ 112 (689)
T TIGR00484 69 TVFWKGHRINIIDTPGHVDFTVEVERSLRVLDGAVAVLDAVGGV 112 (689)
T ss_pred EEEECCeEEEEEECCCCcchhHHHHHHHHHhCEEEEEEeCCCCC
Confidence 44556788999999999988878888999999999999998643
No 210
>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.
Probab=97.62 E-value=0.00085 Score=38.82 Aligned_cols=43 Identities=26% Similarity=0.457 Sum_probs=32.4
Q ss_pred EEEECCEEEEEEECCCCc--------CchhhHHhhhhCCcEEEEEEECCCh
Q 037770 5 TVEYKNISFTVWDVGGQD--------KIRPLWRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~--------~~~~~~~~~~~~~~~ii~v~d~~~~ 47 (65)
.+...+..+.+||++|.. .+......+++.++++++|+|..+.
T Consensus 41 ~~~~~~~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~ad~vl~vvD~~~~ 91 (429)
T TIGR03594 41 DAEWGGREFILIDTGGIEEDDDGLDKQIREQAEIAIEEADVILFVVDGREG 91 (429)
T ss_pred EEEECCeEEEEEECCCCCCcchhHHHHHHHHHHHHHhhCCEEEEEEeCCCC
Confidence 344566789999999963 3334456678899999999999764
No 211
>TIGR00437 feoB ferrous iron transporter FeoB. FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum.
Probab=97.56 E-value=0.00099 Score=40.42 Aligned_cols=44 Identities=18% Similarity=0.369 Sum_probs=32.3
Q ss_pred EEECCEEEEEEECCCCcCchhh------HHhhhh--CCcEEEEEEECCChhh
Q 037770 6 VEYKNISFTVWDVGGQDKIRPL------WRHYFQ--NTQGLIFVVDSNDRDR 49 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~------~~~~~~--~~~~ii~v~d~~~~~s 49 (65)
+..++.++.+||++|+.++... ...++. .+++++.|+|.++.++
T Consensus 36 i~~~~~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~VvDat~ler 87 (591)
T TIGR00437 36 LGFQGEDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVNVVDASNLER 87 (591)
T ss_pred EEECCeEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEEEecCCcchh
Confidence 4455677899999999887543 334433 6899999999987554
No 212
>PRK12296 obgE GTPase CgtA; Reviewed
Probab=97.55 E-value=0.0009 Score=39.96 Aligned_cols=44 Identities=25% Similarity=0.226 Sum_probs=30.9
Q ss_pred EEEEEECCEEEEEEECCCCcC----ch---hhHHhhhhCCcEEEEEEECCC
Q 037770 3 VETVEYKNISFTVWDVGGQDK----IR---PLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 3 ~~~~~~~~~~l~~~d~~g~~~----~~---~~~~~~~~~~~~ii~v~d~~~ 46 (65)
+..+...+..+.+||++|... .. .....+...++++++|+|+++
T Consensus 198 lGvv~~~~~~f~laDtPGliegas~g~gLg~~fLrhieradvLv~VVD~s~ 248 (500)
T PRK12296 198 LGVVQAGDTRFTVADVPGLIPGASEGKGLGLDFLRHIERCAVLVHVVDCAT 248 (500)
T ss_pred EEEEEECCeEEEEEECCCCccccchhhHHHHHHHHHHHhcCEEEEEECCcc
Confidence 445666778999999999532 11 112335677999999999985
No 213
>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=97.53 E-value=0.0009 Score=41.38 Aligned_cols=41 Identities=17% Similarity=0.131 Sum_probs=35.6
Q ss_pred EEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 6 VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
++..+..+.++|++|+..+.......++.+|++++|+|..+
T Consensus 81 ~~~~~~~i~liDTPG~~~f~~~~~~al~~aD~~llVvda~~ 121 (720)
T TIGR00490 81 YEGNEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVE 121 (720)
T ss_pred ecCCceEEEEEeCCCccccHHHHHHHHHhcCEEEEEEecCC
Confidence 44567889999999999988777788999999999999875
No 214
>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=97.50 E-value=0.00074 Score=35.08 Aligned_cols=39 Identities=26% Similarity=0.281 Sum_probs=34.8
Q ss_pred ECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 8 YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
.....+.+.|+||+..+..........+|++|+|+|..+
T Consensus 67 ~~~~~i~~iDtPG~~~f~~~~~~~~~~~D~ailvVda~~ 105 (188)
T PF00009_consen 67 ENNRKITLIDTPGHEDFIKEMIRGLRQADIAILVVDAND 105 (188)
T ss_dssp ESSEEEEEEEESSSHHHHHHHHHHHTTSSEEEEEEETTT
T ss_pred ccccceeecccccccceeecccceecccccceeeeeccc
Confidence 567899999999999888877888999999999999974
No 215
>TIGR00485 EF-Tu translation elongation factor TU. This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.
Probab=97.50 E-value=0.0011 Score=38.29 Aligned_cols=39 Identities=21% Similarity=0.192 Sum_probs=30.0
Q ss_pred ECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 8 YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
.++..+.+||++|++.|......-...+|++++|+|+..
T Consensus 72 ~~~~~~~liDtpGh~~f~~~~~~~~~~~D~~ilVvda~~ 110 (394)
T TIGR00485 72 TENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSATD 110 (394)
T ss_pred CCCEEEEEEECCchHHHHHHHHHHHhhCCEEEEEEECCC
Confidence 345678999999998876544444556799999999976
No 216
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=97.48 E-value=0.0012 Score=40.75 Aligned_cols=39 Identities=23% Similarity=0.381 Sum_probs=30.2
Q ss_pred ECCEEEEEEECCCCcC--------chhhHHhhhhCCcEEEEEEECCC
Q 037770 8 YKNISFTVWDVGGQDK--------IRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~--------~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
..+..+.+||++|... +......++..++++++|+|.++
T Consensus 320 ~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~aD~iL~VvDa~~ 366 (712)
T PRK09518 320 WAGTDFKLVDTGGWEADVEGIDSAIASQAQIAVSLADAVVFVVDGQV 366 (712)
T ss_pred ECCEEEEEEeCCCcCCCCccHHHHHHHHHHHHHHhCCEEEEEEECCC
Confidence 3467899999999764 23344567889999999999975
No 217
>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=97.47 E-value=0.0016 Score=35.77 Aligned_cols=43 Identities=19% Similarity=0.146 Sum_probs=31.2
Q ss_pred CCEEEEEEECCCCcCchh--------hHHhhhhCCcEEEEEEECCChhhHH
Q 037770 9 KNISFTVWDVGGQDKIRP--------LWRHYFQNTQGLIFVVDSNDRDRIV 51 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~--------~~~~~~~~~~~ii~v~d~~~~~sf~ 51 (65)
.+..+.+||++|...... ....++.++|++++|+|.++..+..
T Consensus 46 ~~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~aDvvl~VvD~~~~~~~~ 96 (270)
T TIGR00436 46 GASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGGVDLILFVVDSDQWNGDG 96 (270)
T ss_pred CCcEEEEEECcCCCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCchH
Confidence 345788999999754311 1245678999999999999876653
No 218
>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=97.43 E-value=0.001 Score=32.57 Aligned_cols=44 Identities=25% Similarity=0.271 Sum_probs=33.9
Q ss_pred CEEEEEEECCCCcCchh-------hHHhhhhCCcEEEEEEECCChhhHHHH
Q 037770 10 NISFTVWDVGGQDKIRP-------LWRHYFQNTQGLIFVVDSNDRDRIVEA 53 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~-------~~~~~~~~~~~ii~v~d~~~~~sf~~~ 53 (65)
...+.+||++|...... ....+++.++++++|+|.++..+....
T Consensus 44 ~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~il~v~~~~~~~~~~~~ 94 (163)
T cd00880 44 LGPVVLIDTPGIDEAGGLGREREELARRVLERADLILFVVDADLRADEEEE 94 (163)
T ss_pred CCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHH
Confidence 45789999999776543 334578899999999999987765444
No 219
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=97.38 E-value=0.00068 Score=39.41 Aligned_cols=36 Identities=17% Similarity=0.215 Sum_probs=27.3
Q ss_pred EEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 11 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
..+.+||++|+..+......-...++++++|+|+++
T Consensus 85 ~~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~ 120 (411)
T PRK04000 85 RRVSFVDAPGHETLMATMLSGAALMDGAILVIAANE 120 (411)
T ss_pred cEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCC
Confidence 578999999987765443333445699999999984
No 220
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=97.33 E-value=0.00084 Score=40.90 Aligned_cols=44 Identities=16% Similarity=0.117 Sum_probs=34.3
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC---hhhHHHH
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND---RDRIVEA 53 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~sf~~~ 53 (65)
+..+.+||++|++.+.........++|++++|+|.++ +++.+.+
T Consensus 50 g~~i~~IDtPGhe~fi~~m~~g~~~~D~~lLVVda~eg~~~qT~ehl 96 (614)
T PRK10512 50 GRVLGFIDVPGHEKFLSNMLAGVGGIDHALLVVACDDGVMAQTREHL 96 (614)
T ss_pred CcEEEEEECCCHHHHHHHHHHHhhcCCEEEEEEECCCCCcHHHHHHH
Confidence 3568899999999886666667889999999999875 4554444
No 221
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=97.32 E-value=0.00033 Score=35.58 Aligned_cols=36 Identities=28% Similarity=0.391 Sum_probs=26.1
Q ss_pred EEECCCCcCchhhH----HhhhhCCcEEEEEEECCChhhH
Q 037770 15 VWDVGGQDKIRPLW----RHYFQNTQGLIFVVDSNDRDRI 50 (65)
Q Consensus 15 ~~d~~g~~~~~~~~----~~~~~~~~~ii~v~d~~~~~sf 50 (65)
+||+||.......+ ...+++++++++|+|.++.+++
T Consensus 41 ~iDtpG~~~~~~~~~~~~~~~~~~ad~il~v~d~~~~~s~ 80 (158)
T PRK15467 41 DIDTPGEYFSHPRWYHALITTLQDVDMLIYVHGANDPESR 80 (158)
T ss_pred cccCCccccCCHHHHHHHHHHHhcCCEEEEEEeCCCcccc
Confidence 69999973322222 2346899999999999988765
No 222
>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=97.32 E-value=0.0025 Score=36.12 Aligned_cols=37 Identities=24% Similarity=0.372 Sum_probs=28.4
Q ss_pred CEEEEEEECCCC----cCchhhHHh---hhhCCcEEEEEEECCC
Q 037770 10 NISFTVWDVGGQ----DKIRPLWRH---YFQNTQGLIFVVDSND 46 (65)
Q Consensus 10 ~~~l~~~d~~g~----~~~~~~~~~---~~~~~~~ii~v~d~~~ 46 (65)
.+.+++||++|. ...+.+... .+++++++++|+|++.
T Consensus 68 ~v~i~l~D~aGlv~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~~ 111 (318)
T cd01899 68 YVPVELIDVAGLVPGAHEGKGLGNKFLDDLRDADALIHVVDASG 111 (318)
T ss_pred cceEEEEECCCCCCCccchhhHHHHHHHHHHHCCEEEEEEeCCC
Confidence 378999999997 334444333 5899999999999973
No 223
>PRK04213 GTP-binding protein; Provisional
Probab=97.31 E-value=0.00011 Score=38.34 Aligned_cols=36 Identities=31% Similarity=0.481 Sum_probs=25.5
Q ss_pred EEEEEECCC-----------CcCchhhHHhhhh-C---CcEEEEEEECCCh
Q 037770 12 SFTVWDVGG-----------QDKIRPLWRHYFQ-N---TQGLIFVVDSNDR 47 (65)
Q Consensus 12 ~l~~~d~~g-----------~~~~~~~~~~~~~-~---~~~ii~v~d~~~~ 47 (65)
.+.+||++| ++.++..+..++. + ++++++|+|.++.
T Consensus 53 ~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~ 103 (201)
T PRK04213 53 DFILTDLPGFGFMSGVPKEVQEKIKDEIVRYIEDNADRILAAVLVVDGKSF 103 (201)
T ss_pred ceEEEeCCccccccccCHHHHHHHHHHHHHHHHhhhhhheEEEEEEeCccc
Confidence 578999999 4566666666665 3 4677778877543
No 224
>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=97.30 E-value=0.0033 Score=31.15 Aligned_cols=39 Identities=18% Similarity=0.268 Sum_probs=29.8
Q ss_pred CCEEEEEEECCCCcCchh--------hHHhhhhCCcEEEEEEECCCh
Q 037770 9 KNISFTVWDVGGQDKIRP--------LWRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~--------~~~~~~~~~~~ii~v~d~~~~ 47 (65)
....+.+||++|...... .....+..++++++|+|.++.
T Consensus 49 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~i~~v~d~~~~ 95 (168)
T cd04163 49 DDAQIIFVDTPGIHKPKKKLGERMVKAAWSALKDVDLVLFVVDASEP 95 (168)
T ss_pred CCeEEEEEECCCCCcchHHHHHHHHHHHHHHHHhCCEEEEEEECCCc
Confidence 457788999999765432 234467889999999999876
No 225
>cd01895 EngA2 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=97.25 E-value=0.0062 Score=30.47 Aligned_cols=46 Identities=15% Similarity=0.247 Sum_probs=31.6
Q ss_pred EECCEEEEEEECCCCcCchh-----------hHHhhhhCCcEEEEEEECCChhhHHH
Q 037770 7 EYKNISFTVWDVGGQDKIRP-----------LWRHYFQNTQGLIFVVDSNDRDRIVE 52 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~-----------~~~~~~~~~~~ii~v~d~~~~~sf~~ 52 (65)
...+..+.+||++|...... .....+.+++++++|+|.+++.+...
T Consensus 46 ~~~~~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~ 102 (174)
T cd01895 46 EYDGKKYTLIDTAGIRRKGKVEEGIEKYSVLRTLKAIERADVVLLVIDATEGITEQD 102 (174)
T ss_pred EECCeeEEEEECCCCccccchhccHHHHHHHHHHHHHhhcCeEEEEEeCCCCcchhH
Confidence 34556688999999754311 11235678999999999988766443
No 226
>TIGR00157 ribosome small subunit-dependent GTPase A. The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).
Probab=97.16 E-value=0.00073 Score=36.81 Aligned_cols=39 Identities=13% Similarity=0.102 Sum_probs=33.1
Q ss_pred cCchhhHHhhhhCCcEEEEEEECCChh-hHHHHHHHHHHH
Q 037770 22 DKIRPLWRHYFQNTQGLIFVVDSNDRD-RIVEARDELHRM 60 (65)
Q Consensus 22 ~~~~~~~~~~~~~~~~ii~v~d~~~~~-sf~~~~~~~~~~ 60 (65)
+++..+.+.++++++++++|+|+++++ +|+.+.+|+..+
T Consensus 24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~ 63 (245)
T TIGR00157 24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVA 63 (245)
T ss_pred cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHH
Confidence 566677788999999999999999877 899998888654
No 227
>PRK12298 obgE GTPase CgtA; Reviewed
Probab=97.15 E-value=0.0063 Score=35.39 Aligned_cols=56 Identities=20% Similarity=0.223 Sum_probs=36.8
Q ss_pred EEECC-EEEEEEECCCCcCch-------hhHHhhhhCCcEEEEEEECC---ChhhHHHHHHHHHHHh
Q 037770 6 VEYKN-ISFTVWDVGGQDKIR-------PLWRHYFQNTQGLIFVVDSN---DRDRIVEARDELHRML 61 (65)
Q Consensus 6 ~~~~~-~~l~~~d~~g~~~~~-------~~~~~~~~~~~~ii~v~d~~---~~~sf~~~~~~~~~~~ 61 (65)
+...+ ..+.++|+||...-. .....+...++++++|+|++ +.+.+++...+++++.
T Consensus 201 v~~~~~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~radvlL~VVD~s~~~~~d~~e~~~~l~~eL~ 267 (390)
T PRK12298 201 VRVDDERSFVVADIPGLIEGASEGAGLGIRFLKHLERCRVLLHLIDIAPIDGSDPVENARIIINELE 267 (390)
T ss_pred EEeCCCcEEEEEeCCCccccccchhhHHHHHHHHHHhCCEEEEEeccCcccccChHHHHHHHHHHHH
Confidence 33443 468999999975321 11223577899999999998 4556666666666554
No 228
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=97.04 E-value=0.0038 Score=38.65 Aligned_cols=48 Identities=13% Similarity=0.215 Sum_probs=32.9
Q ss_pred EECCEEEEEEECCCCcC----------chhhH-HhhhhCCcEEEEEEECCChhhHHHHH
Q 037770 7 EYKNISFTVWDVGGQDK----------IRPLW-RHYFQNTQGLIFVVDSNDRDRIVEAR 54 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~----------~~~~~-~~~~~~~~~ii~v~d~~~~~sf~~~~ 54 (65)
...+..+.+||++|... +.... ..+++.++++++|+|.++..++.+.+
T Consensus 494 ~~~~~~~~liDTaG~~~~~~~~~~~e~~~~~r~~~~i~~advvilViDat~~~s~~~~~ 552 (712)
T PRK09518 494 EIDGEDWLFIDTAGIKRRQHKLTGAEYYSSLRTQAAIERSELALFLFDASQPISEQDLK 552 (712)
T ss_pred EECCCEEEEEECCCcccCcccchhHHHHHHHHHHHHhhcCCEEEEEEECCCCCCHHHHH
Confidence 34555678999999532 11111 23468899999999999877766553
No 229
>PLN00043 elongation factor 1-alpha; Provisional
Probab=97.02 E-value=0.0021 Score=37.87 Aligned_cols=41 Identities=17% Similarity=0.145 Sum_probs=35.3
Q ss_pred EEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 6 VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
+...+..+.+.|++|+..|...-......+|++|+|+|.++
T Consensus 80 ~~~~~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~ 120 (447)
T PLN00043 80 FETTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTT 120 (447)
T ss_pred ecCCCEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEccc
Confidence 34456788999999999998887888899999999999976
No 230
>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional
Probab=97.00 E-value=0.0033 Score=37.32 Aligned_cols=40 Identities=13% Similarity=0.160 Sum_probs=31.2
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
...+..+.++|++|+..+......-...+|++++|+|...
T Consensus 103 ~~~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~ 142 (474)
T PRK05124 103 STEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARK 142 (474)
T ss_pred ccCCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCC
Confidence 3456788999999998876544445688999999999864
No 231
>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=96.96 E-value=0.003 Score=36.73 Aligned_cols=40 Identities=15% Similarity=0.161 Sum_probs=31.6
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
..++..+.++|++|++.+......-...+|++++|+|...
T Consensus 76 ~~~~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~ 115 (406)
T TIGR02034 76 STDKRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARK 115 (406)
T ss_pred ccCCeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCC
Confidence 3456788999999998886555556778999999999863
No 232
>PRK12736 elongation factor Tu; Reviewed
Probab=96.90 E-value=0.0071 Score=35.07 Aligned_cols=38 Identities=18% Similarity=0.180 Sum_probs=29.4
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
.+..+.++|++|+..+......-...+|++++|+|.+.
T Consensus 73 ~~~~i~~iDtPGh~~f~~~~~~~~~~~d~~llVvd~~~ 110 (394)
T PRK12736 73 EKRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATD 110 (394)
T ss_pred CCcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCC
Confidence 44578899999988776544445567899999999875
No 233
>PRK00093 GTP-binding protein Der; Reviewed
Probab=96.90 E-value=0.0099 Score=34.63 Aligned_cols=46 Identities=13% Similarity=0.221 Sum_probs=32.2
Q ss_pred EECCEEEEEEECCCCcCchhh----------H-HhhhhCCcEEEEEEECCChhhHHH
Q 037770 7 EYKNISFTVWDVGGQDKIRPL----------W-RHYFQNTQGLIFVVDSNDRDRIVE 52 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~----------~-~~~~~~~~~ii~v~d~~~~~sf~~ 52 (65)
...+..+.+||++|....... . ..+++.++++++|+|.++..+..+
T Consensus 217 ~~~~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilViD~~~~~~~~~ 273 (435)
T PRK00093 217 ERDGQKYTLIDTAGIRRKGKVTEGVEKYSVIRTLKAIERADVVLLVIDATEGITEQD 273 (435)
T ss_pred EECCeeEEEEECCCCCCCcchhhHHHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHH
Confidence 345667899999996443221 1 236778999999999997655443
No 234
>PRK12739 elongation factor G; Reviewed
Probab=96.82 E-value=0.0044 Score=38.28 Aligned_cols=43 Identities=16% Similarity=0.163 Sum_probs=36.3
Q ss_pred EEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCCh
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~ 47 (65)
++..++..+.++|++|+..+...+....+.+|++++|+|.++.
T Consensus 67 ~~~~~~~~i~liDTPG~~~f~~e~~~al~~~D~~ilVvDa~~g 109 (691)
T PRK12739 67 TCFWKGHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVSG 109 (691)
T ss_pred EEEECCEEEEEEcCCCHHHHHHHHHHHHHHhCeEEEEEeCCCC
Confidence 3455678899999999988877788889999999999998753
No 235
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=96.81 E-value=0.017 Score=36.36 Aligned_cols=44 Identities=25% Similarity=0.364 Sum_probs=31.7
Q ss_pred EEECCEEEEEEECCCCcCchhh----------HHhhh--hCCcEEEEEEECCChhh
Q 037770 6 VEYKNISFTVWDVGGQDKIRPL----------WRHYF--QNTQGLIFVVDSNDRDR 49 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~----------~~~~~--~~~~~ii~v~d~~~~~s 49 (65)
++..+..+.++|++|..++... ...++ ..+|++++|+|.++.++
T Consensus 45 ~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l~~~~aD~vI~VvDat~ler 100 (772)
T PRK09554 45 FSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASNLER 100 (772)
T ss_pred EEcCceEEEEEECCCccccccccccccHHHHHHHHHHhccCCCEEEEEecCCcchh
Confidence 4456678999999998776421 22233 37899999999988654
No 236
>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=96.71 E-value=0.0062 Score=32.16 Aligned_cols=39 Identities=21% Similarity=0.175 Sum_probs=31.5
Q ss_pred ECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 8 YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
.++..+.+.|++|+..+..........++++++|+|...
T Consensus 62 ~~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~ilVvda~~ 100 (195)
T cd01884 62 TANRHYAHVDCPGHADYIKNMITGAAQMDGAILVVSATD 100 (195)
T ss_pred CCCeEEEEEECcCHHHHHHHHHHHhhhCCEEEEEEECCC
Confidence 345678899999998776656667778999999999875
No 237
>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=96.67 E-value=0.0037 Score=32.18 Aligned_cols=38 Identities=18% Similarity=0.414 Sum_probs=24.9
Q ss_pred EEEEEECCCCcC----------chhhHHhhhhC---CcEEEEEEECCChhh
Q 037770 12 SFTVWDVGGQDK----------IRPLWRHYFQN---TQGLIFVVDSNDRDR 49 (65)
Q Consensus 12 ~l~~~d~~g~~~----------~~~~~~~~~~~---~~~ii~v~d~~~~~s 49 (65)
.+.+||++|... +......+++. .+++++|+|.++.-+
T Consensus 65 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ii~vvd~~~~~~ 115 (179)
T TIGR03598 65 GFRLVDLPGYGYAKVSKEEKEKWQKLIEEYLEKRENLKGVVLLMDIRHPLK 115 (179)
T ss_pred cEEEEeCCCCccccCChhHHHHHHHHHHHHHHhChhhcEEEEEecCCCCCC
Confidence 578999999532 22222345543 579999999987544
No 238
>PRK00089 era GTPase Era; Reviewed
Probab=96.61 E-value=0.018 Score=31.87 Aligned_cols=38 Identities=18% Similarity=0.297 Sum_probs=28.6
Q ss_pred CCEEEEEEECCCCcCch--------hhHHhhhhCCcEEEEEEECCC
Q 037770 9 KNISFTVWDVGGQDKIR--------PLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~--------~~~~~~~~~~~~ii~v~d~~~ 46 (65)
.+..+.++|++|..... ......+..+|++++|+|.++
T Consensus 51 ~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~~~D~il~vvd~~~ 96 (292)
T PRK00089 51 DDAQIIFVDTPGIHKPKRALNRAMNKAAWSSLKDVDLVLFVVDADE 96 (292)
T ss_pred CCceEEEEECCCCCCchhHHHHHHHHHHHHHHhcCCEEEEEEeCCC
Confidence 44789999999975532 222346778999999999987
No 239
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=96.61 E-value=0.0089 Score=35.31 Aligned_cols=41 Identities=22% Similarity=0.159 Sum_probs=34.2
Q ss_pred EEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 6 VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
+...+..+.+.|++|+..|..........+|++++|+|.+.
T Consensus 80 ~~~~~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~ 120 (446)
T PTZ00141 80 FETPKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTA 120 (446)
T ss_pred EccCCeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCC
Confidence 34456789999999999987777777889999999999875
No 240
>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]
Probab=96.47 E-value=0.0078 Score=35.87 Aligned_cols=43 Identities=14% Similarity=0.270 Sum_probs=36.5
Q ss_pred EEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECC
Q 037770 3 VETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSN 45 (65)
Q Consensus 3 ~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~ 45 (65)
|.+++..+..+++.|++|++.+..=.-..+..+|+.+.|+|..
T Consensus 73 VMqF~Y~~~~iNLLDTPGHeDFSEDTYRtLtAvDsAvMVIDaA 115 (528)
T COG4108 73 VMQFDYADCLVNLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAA 115 (528)
T ss_pred EEEeccCCeEEeccCCCCccccchhHHHHHHhhheeeEEEecc
Confidence 6778889999999999999998765555677889999999986
No 241
>PRK12735 elongation factor Tu; Reviewed
Probab=96.46 E-value=0.0096 Score=34.57 Aligned_cols=38 Identities=21% Similarity=0.192 Sum_probs=29.3
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
.+..+.++|++|+..+...-..-...+|++++|+|..+
T Consensus 73 ~~~~i~~iDtPGh~~f~~~~~~~~~~aD~~llVvda~~ 110 (396)
T PRK12735 73 ANRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAAD 110 (396)
T ss_pred CCcEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCC
Confidence 45678899999997765544455667899999999875
No 242
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=96.38 E-value=0.0074 Score=31.19 Aligned_cols=40 Identities=23% Similarity=0.444 Sum_probs=25.8
Q ss_pred CEEEEEEECCCCc----------CchhhHHhhhhCC---cEEEEEEECCChhh
Q 037770 10 NISFTVWDVGGQD----------KIRPLWRHYFQNT---QGLIFVVDSNDRDR 49 (65)
Q Consensus 10 ~~~l~~~d~~g~~----------~~~~~~~~~~~~~---~~ii~v~d~~~~~s 49 (65)
...+.+||++|.. .+......+++.+ +++++++|.+++.+
T Consensus 69 ~~~l~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~ 121 (196)
T PRK00454 69 NDKLRLVDLPGYGYAKVSKEEKEKWQKLIEEYLRTRENLKGVVLLIDSRHPLK 121 (196)
T ss_pred CCeEEEeCCCCCCCcCCCchHHHHHHHHHHHHHHhCccceEEEEEEecCCCCC
Confidence 3578899999942 2333445556554 56778888776543
No 243
>PLN03126 Elongation factor Tu; Provisional
Probab=96.38 E-value=0.014 Score=34.92 Aligned_cols=40 Identities=23% Similarity=0.204 Sum_probs=31.4
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
...+..+.++|++|+..+-..-..-...+|++++|+|..+
T Consensus 140 ~~~~~~i~liDtPGh~~f~~~~~~g~~~aD~ailVVda~~ 179 (478)
T PLN03126 140 ETENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSGAD 179 (478)
T ss_pred ecCCcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCC
Confidence 3456788999999998876655555668899999999874
No 244
>KOG0085 consensus G protein subunit Galphaq/Galphay, small G protein superfamily [Signal transduction mechanisms]
Probab=96.36 E-value=0.00029 Score=38.80 Aligned_cols=42 Identities=38% Similarity=0.707 Sum_probs=35.9
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChh
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRD 48 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~ 48 (65)
+..++.+.+.|.+|+.+.+..|-+||.+...++++..++..+
T Consensus 195 dl~~iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYD 236 (359)
T KOG0085|consen 195 DLQKIIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYD 236 (359)
T ss_pred chhhheeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 445677889999999999999999999999999988776543
No 245
>PRK09602 translation-associated GTPase; Reviewed
Probab=96.19 E-value=0.054 Score=31.74 Aligned_cols=35 Identities=31% Similarity=0.469 Sum_probs=26.2
Q ss_pred EEEEEEECCCCc----CchhhHHhh---hhCCcEEEEEEECC
Q 037770 11 ISFTVWDVGGQD----KIRPLWRHY---FQNTQGLIFVVDSN 45 (65)
Q Consensus 11 ~~l~~~d~~g~~----~~~~~~~~~---~~~~~~ii~v~d~~ 45 (65)
..+++||++|-. ....+...+ .++++++++|+|..
T Consensus 72 ~~i~i~D~aGl~~ga~~g~glg~~fL~~ir~ad~ll~Vvd~~ 113 (396)
T PRK09602 72 IPVELIDVAGLVPGAHEGRGLGNQFLDDLRQADALIHVVDAS 113 (396)
T ss_pred eeEEEEEcCCcCCCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence 678999999942 233333344 88999999999997
No 246
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=96.18 E-value=0.017 Score=35.48 Aligned_cols=40 Identities=18% Similarity=0.138 Sum_probs=30.5
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
...+..+.++|++|++.+..........+|++++|+|...
T Consensus 100 ~~~~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~ 139 (632)
T PRK05506 100 ATPKRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARK 139 (632)
T ss_pred ccCCceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCC
Confidence 3455678899999998775544445678999999999864
No 247
>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=95.95 E-value=0.033 Score=28.14 Aligned_cols=39 Identities=26% Similarity=0.377 Sum_probs=30.7
Q ss_pred EEEEEEECCCCcC----chhhHHhhhhCCcEEEEEEECCChhh
Q 037770 11 ISFTVWDVGGQDK----IRPLWRHYFQNTQGLIFVVDSNDRDR 49 (65)
Q Consensus 11 ~~l~~~d~~g~~~----~~~~~~~~~~~~~~ii~v~d~~~~~s 49 (65)
..+.+.|+||-.. ....+..|...++++++|.+.+...+
T Consensus 101 ~~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~ 143 (168)
T PF00350_consen 101 RNLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLT 143 (168)
T ss_dssp CSEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGG
T ss_pred cceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccc
Confidence 4588999999744 23567788899999999999987544
No 248
>PRK07560 elongation factor EF-2; Reviewed
Probab=95.89 E-value=0.031 Score=34.96 Aligned_cols=38 Identities=21% Similarity=0.244 Sum_probs=32.9
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
.+..+.+.|++|+..+........+.+|++++|+|...
T Consensus 85 ~~~~i~liDtPG~~df~~~~~~~l~~~D~avlVvda~~ 122 (731)
T PRK07560 85 KEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDAVE 122 (731)
T ss_pred CcEEEEEEcCCCccChHHHHHHHHHhcCEEEEEEECCC
Confidence 46788999999999887777778899999999999874
No 249
>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=95.83 E-value=0.1 Score=26.90 Aligned_cols=46 Identities=20% Similarity=0.340 Sum_probs=29.1
Q ss_pred EEEEECCEEEEEEECCCCcCch------hhHHhhh--hCCcEEEEEEECCChhh
Q 037770 4 ETVEYKNISFTVWDVGGQDKIR------PLWRHYF--QNTQGLIFVVDSNDRDR 49 (65)
Q Consensus 4 ~~~~~~~~~l~~~d~~g~~~~~------~~~~~~~--~~~~~ii~v~d~~~~~s 49 (65)
..+...+-.+.+.|+||.-+.. .....+. ...|+++.|.|.++.++
T Consensus 40 g~~~~~~~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~~D~ii~VvDa~~l~r 93 (156)
T PF02421_consen 40 GIFKLGDQQVELVDLPGIYSLSSKSEEERVARDYLLSEKPDLIIVVVDATNLER 93 (156)
T ss_dssp EEEEETTEEEEEEE----SSSSSSSHHHHHHHHHHHHTSSSEEEEEEEGGGHHH
T ss_pred EEEEecCceEEEEECCCcccCCCCCcHHHHHHHHHhhcCCCEEEEECCCCCHHH
Confidence 3456677889999999954432 2334443 57999999999987654
No 250
>CHL00071 tufA elongation factor Tu
Probab=95.80 E-value=0.038 Score=32.32 Aligned_cols=39 Identities=21% Similarity=0.185 Sum_probs=30.8
Q ss_pred ECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 8 YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
.++..+.+.|++|+..+..........+|++++|+|...
T Consensus 72 ~~~~~~~~iDtPGh~~~~~~~~~~~~~~D~~ilVvda~~ 110 (409)
T CHL00071 72 TENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAAD 110 (409)
T ss_pred cCCeEEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCC
Confidence 345678899999988776555566778999999999874
No 251
>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=95.77 E-value=0.065 Score=28.96 Aligned_cols=40 Identities=18% Similarity=0.151 Sum_probs=28.8
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhh--CCcEEEEEEECCC
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQ--NTQGLIFVVDSND 46 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~--~~~~ii~v~d~~~ 46 (65)
..++..+.+.|++|++.+......... .++++++|+|...
T Consensus 80 ~~~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~ 121 (224)
T cd04165 80 EKSSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANA 121 (224)
T ss_pred eeCCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCC
Confidence 344567899999999887654333332 5789999999864
No 252
>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=95.74 E-value=0.082 Score=25.21 Aligned_cols=41 Identities=27% Similarity=0.460 Sum_probs=28.9
Q ss_pred EEECCEEEEEEECCCCcCc----------hhhHHhhhhCCcEEEEEEECCCh
Q 037770 6 VEYKNISFTVWDVGGQDKI----------RPLWRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~----------~~~~~~~~~~~~~ii~v~d~~~~ 47 (65)
+...+..+.++|++|-..- ..... ....++++++|+|.+++
T Consensus 42 ~~~~~~~~~~vDtpG~~~~~~~~~~~~~~~~~~~-~~~~~d~ii~vv~~~~~ 92 (116)
T PF01926_consen 42 FEYNNKKFILVDTPGINDGESQDNDGKEIRKFLE-QISKSDLIIYVVDASNP 92 (116)
T ss_dssp EEETTEEEEEEESSSCSSSSHHHHHHHHHHHHHH-HHCTESEEEEEEETTSH
T ss_pred eeeceeeEEEEeCCCCcccchhhHHHHHHHHHHH-HHHHCCEEEEEEECCCC
Confidence 4456778889999996442 12223 33789999999998774
No 253
>PLN03127 Elongation factor Tu; Provisional
Probab=95.69 E-value=0.081 Score=31.47 Aligned_cols=38 Identities=18% Similarity=0.133 Sum_probs=29.3
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
.+..+.+.|++|+..+-.....-...+|++++|+|..+
T Consensus 122 ~~~~i~~iDtPGh~~f~~~~~~g~~~aD~allVVda~~ 159 (447)
T PLN03127 122 AKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPD 159 (447)
T ss_pred CCeEEEEEECCCccchHHHHHHHHhhCCEEEEEEECCC
Confidence 45678899999998875544445567999999999864
No 254
>PRK00049 elongation factor Tu; Reviewed
Probab=95.65 E-value=0.041 Score=32.05 Aligned_cols=38 Identities=18% Similarity=0.180 Sum_probs=30.2
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
++..+.+.|++|+..+......-...+|++++|+|...
T Consensus 73 ~~~~i~~iDtPG~~~f~~~~~~~~~~aD~~llVVDa~~ 110 (396)
T PRK00049 73 EKRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAAD 110 (396)
T ss_pred CCeEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCC
Confidence 45678899999997765555556678999999999875
No 255
>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]
Probab=95.56 E-value=0.033 Score=35.44 Aligned_cols=43 Identities=21% Similarity=0.151 Sum_probs=35.2
Q ss_pred EEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECC---ChhhHHHH
Q 037770 11 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSN---DRDRIVEA 53 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~---~~~sf~~~ 53 (65)
.-+.+.|++|+++|.+++..-...++.+|+|+|+. .+++.+.+
T Consensus 540 Pg~lvIdtpghEsFtnlRsrgsslC~~aIlvvdImhGlepqtiESi 585 (1064)
T KOG1144|consen 540 PGLLVIDTPGHESFTNLRSRGSSLCDLAILVVDIMHGLEPQTIESI 585 (1064)
T ss_pred CeeEEecCCCchhhhhhhhccccccceEEEEeehhccCCcchhHHH
Confidence 34678999999999999998888999999999997 45544443
No 256
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=95.50 E-value=0.041 Score=33.38 Aligned_cols=38 Identities=16% Similarity=0.257 Sum_probs=32.7
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
..+.+++.||+|+..+..=-...+..+.|.++|+|.+.
T Consensus 74 ~~Y~lnlIDTPGHVDFsYEVSRSLAACEGalLvVDAsQ 111 (603)
T COG0481 74 ETYVLNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQ 111 (603)
T ss_pred CEEEEEEcCCCCccceEEEehhhHhhCCCcEEEEECcc
Confidence 45889999999999987766677889999999999984
No 257
>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.47 E-value=0.026 Score=31.59 Aligned_cols=37 Identities=38% Similarity=0.701 Sum_probs=28.8
Q ss_pred EEEEEEECCCCcCchh-h--HHhhhhCCcEEEEEEECCCh
Q 037770 11 ISFTVWDVGGQDKIRP-L--WRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~-~--~~~~~~~~~~ii~v~d~~~~ 47 (65)
+.+++||.+||..+-. . ....+++.-++++|+|..+.
T Consensus 75 inf~v~dfPGQ~~~Fd~s~D~e~iF~~~gALifvIDaQdd 114 (347)
T KOG3887|consen 75 INFQVWDFPGQMDFFDPSFDYEMIFRGVGALIFVIDAQDD 114 (347)
T ss_pred cceEEeecCCccccCCCccCHHHHHhccCeEEEEEechHH
Confidence 6789999999966432 2 26678899999999998653
No 258
>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]
Probab=95.44 E-value=0.054 Score=34.21 Aligned_cols=43 Identities=16% Similarity=0.219 Sum_probs=35.3
Q ss_pred ECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhH
Q 037770 8 YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRI 50 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf 50 (65)
++..-+++.|++|+..+..=....++-+|++++|+|+..--.+
T Consensus 194 ~KS~l~nilDTPGHVnF~DE~ta~l~~sDgvVlvvDv~EGVml 236 (971)
T KOG0468|consen 194 GKSYLMNILDTPGHVNFSDETTASLRLSDGVVLVVDVAEGVML 236 (971)
T ss_pred CceeeeeeecCCCcccchHHHHHHhhhcceEEEEEEcccCcee
Confidence 3456789999999999988777888999999999999754433
No 259
>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]
Probab=95.37 E-value=0.14 Score=31.61 Aligned_cols=39 Identities=15% Similarity=0.219 Sum_probs=34.0
Q ss_pred ECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 8 YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
++...+++.||+|+..|..=-...+.-++|+|+|+|.+.
T Consensus 122 ~~~ylLNLIDTPGHvDFs~EVsRslaac~G~lLvVDA~q 160 (650)
T KOG0462|consen 122 GQSYLLNLIDTPGHVDFSGEVSRSLAACDGALLVVDASQ 160 (650)
T ss_pred CCceEEEeecCCCcccccceehehhhhcCceEEEEEcCc
Confidence 455889999999999998877778889999999999973
No 260
>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]
Probab=95.26 E-value=0.025 Score=33.92 Aligned_cols=42 Identities=17% Similarity=0.272 Sum_probs=37.4
Q ss_pred EEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
+++.++..+.+.|++|+..++.--..|.+--||++.|||.+.
T Consensus 96 ~fdwkg~rinlidtpghvdf~leverclrvldgavav~dasa 137 (753)
T KOG0464|consen 96 NFDWKGHRINLIDTPGHVDFRLEVERCLRVLDGAVAVFDASA 137 (753)
T ss_pred ecccccceEeeecCCCcceEEEEHHHHHHHhcCeEEEEeccC
Confidence 456788899999999999999888999999999999999873
No 261
>PLN00116 translation elongation factor EF-2 subunit; Provisional
Probab=95.08 E-value=0.04 Score=35.05 Aligned_cols=37 Identities=19% Similarity=0.214 Sum_probs=32.3
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
+..+.+.|++|+..+..-.....+.+|++|+|+|...
T Consensus 97 ~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~ 133 (843)
T PLN00116 97 EYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIE 133 (843)
T ss_pred ceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCC
Confidence 5678999999999987777777889999999999874
No 262
>PTZ00416 elongation factor 2; Provisional
Probab=94.91 E-value=0.061 Score=34.27 Aligned_cols=37 Identities=19% Similarity=0.224 Sum_probs=31.9
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
+..+.+.|++|+..+..--....+.+|++|+|+|..+
T Consensus 91 ~~~i~liDtPG~~~f~~~~~~al~~~D~ailVvda~~ 127 (836)
T PTZ00416 91 PFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVE 127 (836)
T ss_pred ceEEEEEcCCCHHhHHHHHHHHHhcCCeEEEEEECCC
Confidence 5678899999998887766778889999999999875
No 263
>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=94.90 E-value=0.14 Score=30.87 Aligned_cols=51 Identities=16% Similarity=0.249 Sum_probs=35.9
Q ss_pred EEEEEEECCCCcCchhhHHhhhh----CCcEEEEEEECCChhhH-HHHHHHHHHHh
Q 037770 11 ISFTVWDVGGQDKIRPLWRHYFQ----NTQGLIFVVDSNDRDRI-VEARDELHRML 61 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~~~~----~~~~ii~v~d~~~~~sf-~~~~~~~~~~~ 61 (65)
..+.+|.+.|...+..+...... ....+++|.|.+.+..+ +.+..|+.-+.
T Consensus 73 ~rl~vw~L~g~~~~~~LLk~~lt~~~l~~t~vvIvlDlS~PW~~~esL~~W~~vl~ 128 (472)
T PF05783_consen 73 ARLNVWELDGDPSHSDLLKFALTPENLPNTLVVIVLDLSKPWNIMESLEKWLSVLR 128 (472)
T ss_pred ceeeEEEcCCCcchHhHhcccCCcccccceEEEEEecCCChHHHHHHHHHHHHHHH
Confidence 57899999987777766544333 23568889999999874 56666665443
No 264
>PRK13768 GTPase; Provisional
Probab=94.82 E-value=0.073 Score=29.26 Aligned_cols=37 Identities=19% Similarity=0.323 Sum_probs=25.9
Q ss_pred EEEEEEECCCCcCc---hhhHHhhhhC-----CcEEEEEEECCCh
Q 037770 11 ISFTVWDVGGQDKI---RPLWRHYFQN-----TQGLIFVVDSNDR 47 (65)
Q Consensus 11 ~~l~~~d~~g~~~~---~~~~~~~~~~-----~~~ii~v~d~~~~ 47 (65)
..+.+||++|+.+. +..++.+.+. .+++++++|.+..
T Consensus 97 ~~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~ 141 (253)
T PRK13768 97 ADYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLA 141 (253)
T ss_pred CCEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHh
Confidence 36789999998663 4444444443 7899999999643
No 265
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=94.78 E-value=0.11 Score=30.76 Aligned_cols=41 Identities=22% Similarity=0.247 Sum_probs=32.3
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCCh
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~ 47 (65)
......+.+.|++|+..+-.---.-...+|+.|+|+|..+.
T Consensus 81 et~k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~ 121 (428)
T COG5256 81 ETDKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDG 121 (428)
T ss_pred ecCCceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCC
Confidence 33456789999999887776655666789999999999765
No 266
>PRK00007 elongation factor G; Reviewed
Probab=94.74 E-value=0.18 Score=31.61 Aligned_cols=42 Identities=17% Similarity=0.186 Sum_probs=32.8
Q ss_pred EEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
++...+..+.+.|++|+..+..--......+|++++|+|...
T Consensus 69 ~~~~~~~~~~liDTPG~~~f~~ev~~al~~~D~~vlVvda~~ 110 (693)
T PRK00007 69 TCFWKDHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVG 110 (693)
T ss_pred EEEECCeEEEEEeCCCcHHHHHHHHHHHHHcCEEEEEEECCC
Confidence 345567889999999987765545566778999999999864
No 267
>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=94.72 E-value=0.16 Score=25.08 Aligned_cols=36 Identities=25% Similarity=0.501 Sum_probs=23.9
Q ss_pred EEEEEECCCCcC----------chhhHHhhhhC---CcEEEEEEECCCh
Q 037770 12 SFTVWDVGGQDK----------IRPLWRHYFQN---TQGLIFVVDSNDR 47 (65)
Q Consensus 12 ~l~~~d~~g~~~----------~~~~~~~~~~~---~~~ii~v~d~~~~ 47 (65)
.+.+||++|... +......|+.. .+++++++|....
T Consensus 46 ~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~ 94 (170)
T cd01876 46 KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLENRENLKGVVLLIDSRHG 94 (170)
T ss_pred eEEEecCCCccccccCHHHHHHHHHHHHHHHHhChhhhEEEEEEEcCcC
Confidence 678999999543 33344455554 4678888888754
No 268
>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]
Probab=94.60 E-value=0.18 Score=31.24 Aligned_cols=56 Identities=11% Similarity=0.211 Sum_probs=44.6
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhccc
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNEV 64 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~~ 64 (65)
..+...+.|++....-+.....-.+.++.+.++|+++++++.+.++..|-.+++++
T Consensus 54 e~vpt~ivD~ss~~~~~~~l~~EirkA~vi~lvyavd~~~T~D~ist~WLPlir~~ 109 (625)
T KOG1707|consen 54 ENVPTSIVDTSSDSDDRLCLRKEIRKADVICLVYAVDDESTVDRISTKWLPLIRQL 109 (625)
T ss_pred CcCceEEEecccccchhHHHHHHHhhcCEEEEEEecCChHHhhhhhhhhhhhhhcc
Confidence 34567889988666666665677899999999999999999999987777766554
No 269
>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]
Probab=94.47 E-value=0.15 Score=31.04 Aligned_cols=41 Identities=17% Similarity=0.385 Sum_probs=35.5
Q ss_pred EEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 6 VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
+..+++.+++.|++|+..|..=-....+=.|++++++|..+
T Consensus 63 v~~~~~~INIvDTPGHADFGGEVERvl~MVDgvlLlVDA~E 103 (603)
T COG1217 63 VNYNGTRINIVDTPGHADFGGEVERVLSMVDGVLLLVDASE 103 (603)
T ss_pred eecCCeEEEEecCCCcCCccchhhhhhhhcceEEEEEEccc
Confidence 56677899999999999998777778888999999999873
No 270
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=94.38 E-value=0.34 Score=29.15 Aligned_cols=43 Identities=14% Similarity=0.322 Sum_probs=33.7
Q ss_pred EEEECCEEEEEEECCCCcCchhh--------HHhhhhCCcEEEEEEECCCh
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPL--------WRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~--------~~~~~~~~~~ii~v~d~~~~ 47 (65)
.++..++.+++.||+|-+..... .......+|.+++|+|.+.+
T Consensus 259 ~i~i~G~pv~l~DTAGiRet~d~VE~iGIeRs~~~i~~ADlvL~v~D~~~~ 309 (454)
T COG0486 259 DINLNGIPVRLVDTAGIRETDDVVERIGIERAKKAIEEADLVLFVLDASQP 309 (454)
T ss_pred EEEECCEEEEEEecCCcccCccHHHHHHHHHHHHHHHhCCEEEEEEeCCCC
Confidence 46778899999999998765422 13457789999999999874
No 271
>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=94.16 E-value=0.1 Score=27.40 Aligned_cols=31 Identities=19% Similarity=0.270 Sum_probs=20.0
Q ss_pred EEEEEECCCCcCchhhH-----HhhhhCCcEEEEEE
Q 037770 12 SFTVWDVGGQDKIRPLW-----RHYFQNTQGLIFVV 42 (65)
Q Consensus 12 ~l~~~d~~g~~~~~~~~-----~~~~~~~~~ii~v~ 42 (65)
.+.+||++|........ ...+.+++.++++.
T Consensus 53 ~l~l~DtpG~~~~~~~~~~~l~~~~~~~~d~~l~v~ 88 (197)
T cd04104 53 NVTLWDLPGIGSTAFPPDDYLEEMKFSEYDFFIIIS 88 (197)
T ss_pred CceEEeCCCCCcccCCHHHHHHHhCccCcCEEEEEe
Confidence 57899999976432222 22256778888874
No 272
>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase).
Probab=94.13 E-value=0.6 Score=26.85 Aligned_cols=37 Identities=11% Similarity=0.135 Sum_probs=24.2
Q ss_pred CCEEEEEEECCCCcCchhhHH---hhh------hCCcEEEEEEECC
Q 037770 9 KNISFTVWDVGGQDKIRPLWR---HYF------QNTQGLIFVVDSN 45 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~---~~~------~~~~~ii~v~d~~ 45 (65)
.+..+.++||+|......... ... .+.+++++|..++
T Consensus 84 ~G~~l~VIDTPGL~d~~~~~e~~~~~ik~~l~~~g~DvVLyV~rLD 129 (313)
T TIGR00991 84 AGFTLNIIDTPGLIEGGYINDQAVNIIKRFLLGKTIDVLLYVDRLD 129 (313)
T ss_pred CCeEEEEEECCCCCchHHHHHHHHHHHHHHhhcCCCCEEEEEeccC
Confidence 567899999999776432211 111 2588899996554
No 273
>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=93.81 E-value=0.09 Score=31.87 Aligned_cols=43 Identities=21% Similarity=0.189 Sum_probs=35.1
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC---hhhHHH
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND---RDRIVE 52 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~sf~~ 52 (65)
.-.+.+.||||++-|..++..=..-+|.+++|++..+ +++.+.
T Consensus 54 ~~~itFiDTPGHeAFt~mRaRGa~vtDIaILVVa~dDGv~pQTiEA 99 (509)
T COG0532 54 IPGITFIDTPGHEAFTAMRARGASVTDIAILVVAADDGVMPQTIEA 99 (509)
T ss_pred CceEEEEcCCcHHHHHHHHhcCCccccEEEEEEEccCCcchhHHHH
Confidence 3578899999999999999887788999999999975 454433
No 274
>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=93.48 E-value=0.58 Score=24.50 Aligned_cols=40 Identities=13% Similarity=0.074 Sum_probs=27.1
Q ss_pred EECCEEEEEEECCCCcCchh-----------hHHhhhhCCcEEEEEEECCC
Q 037770 7 EYKNISFTVWDVGGQDKIRP-----------LWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~-----------~~~~~~~~~~~ii~v~d~~~ 46 (65)
...+..+.+.|+||-..... .......+.+++++|.++.+
T Consensus 45 ~~~~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~~~~g~~~illVi~~~~ 95 (196)
T cd01852 45 VWDGRRVNVIDTPGLFDTSVSPEQLSKEIVRCLSLSAPGPHAFLLVVPLGR 95 (196)
T ss_pred EECCeEEEEEECcCCCCccCChHHHHHHHHHHHHhcCCCCEEEEEEEECCC
Confidence 34567899999999654321 11223457899999999875
No 275
>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=93.44 E-value=0.16 Score=28.29 Aligned_cols=11 Identities=36% Similarity=0.489 Sum_probs=9.6
Q ss_pred EEEEEEECCCC
Q 037770 11 ISFTVWDVGGQ 21 (65)
Q Consensus 11 ~~l~~~d~~g~ 21 (65)
+.+.+||++|-
T Consensus 63 ~~l~iiDTpGf 73 (276)
T cd01850 63 LKLTVIDTPGF 73 (276)
T ss_pred EEEEEEecCCc
Confidence 67999999994
No 276
>COG1163 DRG Predicted GTPase [General function prediction only]
Probab=93.29 E-value=0.57 Score=27.35 Aligned_cols=52 Identities=21% Similarity=0.172 Sum_probs=34.0
Q ss_pred EEECCEEEEEEECCCCcCch-------hhHHhhhhCCcEEEEEEECCChhh-HHHHHHHH
Q 037770 6 VEYKNISFTVWDVGGQDKIR-------PLWRHYFQNTQGLIFVVDSNDRDR-IVEARDEL 57 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~-------~~~~~~~~~~~~ii~v~d~~~~~s-f~~~~~~~ 57 (65)
+..++..+++.|+||--.-. ..--...++||.+++|+|+..... .+.+.+.+
T Consensus 105 l~Y~ga~IQild~Pgii~gas~g~grG~~vlsv~R~ADlIiiVld~~~~~~~~~~i~~EL 164 (365)
T COG1163 105 LEYKGAQIQLLDLPGIIEGASSGRGRGRQVLSVARNADLIIIVLDVFEDPHHRDIIEREL 164 (365)
T ss_pred EeecCceEEEEcCcccccCcccCCCCcceeeeeeccCCEEEEEEecCCChhHHHHHHHHH
Confidence 34577889999999743221 122346778999999999986554 33333333
No 277
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=93.25 E-value=0.16 Score=30.49 Aligned_cols=35 Identities=11% Similarity=0.177 Sum_probs=28.7
Q ss_pred EEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 12 SFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 12 ~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
.+.+.|++|++.+-.....-...+|++++|+|...
T Consensus 118 ~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~ 152 (460)
T PTZ00327 118 HVSFVDCPGHDILMATMLNGAAVMDAALLLIAANE 152 (460)
T ss_pred eEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCC
Confidence 67899999998876655555678899999999975
No 278
>COG3596 Predicted GTPase [General function prediction only]
Probab=93.21 E-value=0.2 Score=28.45 Aligned_cols=37 Identities=24% Similarity=0.673 Sum_probs=29.0
Q ss_pred EEEEEECCCCcC-------chhhHHhhhhCCcEEEEEEECCChh
Q 037770 12 SFTVWDVGGQDK-------IRPLWRHYFQNTQGLIFVVDSNDRD 48 (65)
Q Consensus 12 ~l~~~d~~g~~~-------~~~~~~~~~~~~~~ii~v~d~~~~~ 48 (65)
.+.+||++|-+. ++.....+....+.++.+.+..++.
T Consensus 88 ~l~lwDtPG~gdg~~~D~~~r~~~~d~l~~~DLvL~l~~~~dra 131 (296)
T COG3596 88 NLVLWDTPGLGDGKDKDAEHRQLYRDYLPKLDLVLWLIKADDRA 131 (296)
T ss_pred ceEEecCCCcccchhhhHHHHHHHHHHhhhccEEEEeccCCCcc
Confidence 478999999766 6666677888899888888877664
No 279
>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]
Probab=93.05 E-value=1 Score=26.30 Aligned_cols=55 Identities=24% Similarity=0.326 Sum_probs=34.6
Q ss_pred EEEECCE-EEEEEECCCCcCc-------hhhHHhhhhCCcEEEEEEECCCh---hhHHHHHHHHHH
Q 037770 5 TVEYKNI-SFTVWDVGGQDKI-------RPLWRHYFQNTQGLIFVVDSNDR---DRIVEARDELHR 59 (65)
Q Consensus 5 ~~~~~~~-~l~~~d~~g~~~~-------~~~~~~~~~~~~~ii~v~d~~~~---~sf~~~~~~~~~ 59 (65)
++...+. .+.+-|++|--+- ....-.+...+..++||+|++.. .-+++++..+.+
T Consensus 237 ~v~yddf~q~tVADiPGiI~GAh~nkGlG~~FLrHiER~~~l~fVvD~s~~~~~~p~~~~~lL~~E 302 (366)
T KOG1489|consen 237 TVNYDDFSQITVADIPGIIEGAHMNKGLGYKFLRHIERCKGLLFVVDLSGKQLRNPWQQLQLLIEE 302 (366)
T ss_pred eeeccccceeEeccCccccccccccCcccHHHHHHHHhhceEEEEEECCCcccCCHHHHHHHHHHH
Confidence 3333333 3888899985332 22334556679999999999988 445555544444
No 280
>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=92.93 E-value=0.34 Score=22.93 Aligned_cols=28 Identities=11% Similarity=0.050 Sum_probs=22.4
Q ss_pred hhHHhhhhCCcEEEEEEECCChhhHHHH
Q 037770 26 PLWRHYFQNTQGLIFVVDSNDRDRIVEA 53 (65)
Q Consensus 26 ~~~~~~~~~~~~ii~v~d~~~~~sf~~~ 53 (65)
.....++++.++++.||+.+++++++.+
T Consensus 38 ~~~~~~~~s~~~~~~v~~~~~~~s~~~~ 65 (124)
T smart00010 38 VYDPTSYESFDVVLQCWRVDDRDSADNK 65 (124)
T ss_pred hccccccCCCCEEEEEEEccCHHHHHHH
Confidence 3446678888999999999999988765
No 281
>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]
Probab=92.60 E-value=0.69 Score=29.36 Aligned_cols=42 Identities=19% Similarity=0.268 Sum_probs=35.4
Q ss_pred EEEEC-CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 5 TVEYK-NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 5 ~~~~~-~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
++..+ +..+++.||+|+-.+-.--....+-.||++.|+|...
T Consensus 69 s~~~~~~~~iNlIDTPGHVDFt~EV~rslrvlDgavvVvdave 111 (697)
T COG0480 69 TLFWKGDYRINLIDTPGHVDFTIEVERSLRVLDGAVVVVDAVE 111 (697)
T ss_pred EEEEcCceEEEEeCCCCccccHHHHHHHHHhhcceEEEEECCC
Confidence 34455 4899999999999998877888899999999999874
No 282
>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=91.60 E-value=0.22 Score=25.92 Aligned_cols=25 Identities=24% Similarity=0.117 Sum_probs=20.5
Q ss_pred chhhHHhhhhCCcEEEEEEECCChh
Q 037770 24 IRPLWRHYFQNTQGLIFVVDSNDRD 48 (65)
Q Consensus 24 ~~~~~~~~~~~~~~ii~v~d~~~~~ 48 (65)
++..+..++++++++++|+|+++..
T Consensus 24 ~~~~l~~~~~~ad~il~VvD~~~~~ 48 (190)
T cd01855 24 ILNLLSSISPKKALVVHVVDIFDFP 48 (190)
T ss_pred HHHHHHhcccCCcEEEEEEECccCC
Confidence 4667788889999999999998653
No 283
>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]
Probab=91.25 E-value=1.4 Score=27.76 Aligned_cols=49 Identities=18% Similarity=0.345 Sum_probs=36.3
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHH
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRM 60 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~ 60 (65)
+++...+.+.|.+|... ..|...++++|+||.+-+.++|..++...-++
T Consensus 73 ~gqs~lLlirdeg~~~~-----aQft~wvdavIfvf~~~d~~s~q~v~~l~~~l 121 (749)
T KOG0705|consen 73 DGQSHLLLIRDEGGHPD-----AQFCQWVDAVVFVFSVEDEQSFQAVQALAHEM 121 (749)
T ss_pred eccceEeeeecccCCch-----hhhhhhccceEEEEEeccccCHHHHHHHHhhc
Confidence 44556778888887332 24677899999999999999998887655443
No 284
>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]
Probab=91.06 E-value=1.1 Score=27.94 Aligned_cols=41 Identities=22% Similarity=0.188 Sum_probs=30.8
Q ss_pred EEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECC
Q 037770 5 TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSN 45 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~ 45 (65)
.++...-.+.+.|.+|+..|..--..-...+|..++|+|.+
T Consensus 249 ~fes~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s 289 (603)
T KOG0458|consen 249 WFESKSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDAS 289 (603)
T ss_pred EEecCceeEEEecCCCccccchhhhccccccceEEEEEECC
Confidence 34455677889999998777655555556788999999986
No 285
>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=90.84 E-value=0.22 Score=27.24 Aligned_cols=34 Identities=21% Similarity=0.268 Sum_probs=21.4
Q ss_pred EEEEEECCCCcCchhhHHhhh--------hCCcEEEEEEECC
Q 037770 12 SFTVWDVGGQDKIRPLWRHYF--------QNTQGLIFVVDSN 45 (65)
Q Consensus 12 ~l~~~d~~g~~~~~~~~~~~~--------~~~~~ii~v~d~~ 45 (65)
.+.++|+|||-+.-..|.... ...-++++++|..
T Consensus 92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~ 133 (238)
T PF03029_consen 92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSS 133 (238)
T ss_dssp SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GG
T ss_pred cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecc
Confidence 578999999998877665555 5667888999886
No 286
>KOG2052 consensus Activin A type IB receptor, serine/threonine protein kinase [Signal transduction mechanisms]
Probab=90.54 E-value=1 Score=27.43 Aligned_cols=53 Identities=13% Similarity=0.286 Sum_probs=41.3
Q ss_pred EEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHH-HHHhccc
Q 037770 12 SFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDEL-HRMLNEV 64 (65)
Q Consensus 12 ~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~-~~~~~~~ 64 (65)
.+.+-.+-|+.+|...|.-.+++.+..+=+|...+..|+-...+.+ .-+++|.
T Consensus 212 qI~L~e~IGkGRyGEVwrG~wrGe~VAVKiF~srdE~SWfrEtEIYqTvmLRHE 265 (513)
T KOG2052|consen 212 QIVLQEIIGKGRFGEVWRGRWRGEDVAVKIFSSRDERSWFRETEIYQTVMLRHE 265 (513)
T ss_pred eeEEEEEecCccccceeeccccCCceEEEEecccchhhhhhHHHHHHHHHhccc
Confidence 4667888999999999999999999999999999998854444443 3345553
No 287
>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]
Probab=89.55 E-value=2.7 Score=24.69 Aligned_cols=42 Identities=19% Similarity=0.223 Sum_probs=29.2
Q ss_pred EEECCEEEEEEECCCCcCchhh------------HHhhhhCCcEEEEEEECCCh
Q 037770 6 VEYKNISFTVWDVGGQDKIRPL------------WRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~------------~~~~~~~~~~ii~v~d~~~~ 47 (65)
++.+...+.++|++|--.-... -.....++|.++.|+|+++.
T Consensus 115 ~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq~~~~a~q~AD~vvVv~Das~t 168 (379)
T KOG1423|consen 115 ITSGETQLVFYDTPGLVSKKMHRRHHLMMSVLQNPRDAAQNADCVVVVVDASAT 168 (379)
T ss_pred EecCceEEEEecCCcccccchhhhHHHHHHhhhCHHHHHhhCCEEEEEEeccCC
Confidence 4557788999999995432111 12345579999999999953
No 288
>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=89.19 E-value=0.61 Score=29.11 Aligned_cols=38 Identities=21% Similarity=0.252 Sum_probs=32.0
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
++-.+.+.||+|+.-|..++..=-.-.|.+++|+...|
T Consensus 199 ~G~~iTFLDTPGHaAF~aMRaRGA~vtDIvVLVVAadD 236 (683)
T KOG1145|consen 199 SGKSITFLDTPGHAAFSAMRARGANVTDIVVLVVAADD 236 (683)
T ss_pred CCCEEEEecCCcHHHHHHHHhccCccccEEEEEEEccC
Confidence 34678899999999999998887777899999997764
No 289
>COG1084 Predicted GTPase [General function prediction only]
Probab=88.78 E-value=3.3 Score=24.29 Aligned_cols=45 Identities=16% Similarity=0.147 Sum_probs=27.9
Q ss_pred EEEEEECCEEEEEEECCCCcCch--------hhHHhhhhC-CcEEEEEEECCCh
Q 037770 3 VETVEYKNISFTVWDVGGQDKIR--------PLWRHYFQN-TQGLIFVVDSNDR 47 (65)
Q Consensus 3 ~~~~~~~~~~l~~~d~~g~~~~~--------~~~~~~~~~-~~~ii~v~d~~~~ 47 (65)
|+.+..+...+++.||+|--... ..--...++ ++.|+|++|.|..
T Consensus 207 vGhfe~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~hl~~~IlF~~D~Se~ 260 (346)
T COG1084 207 VGHFERGYLRIQVIDTPGLLDRPLEERNEIERQAILALRHLAGVILFLFDPSET 260 (346)
T ss_pred EeeeecCCceEEEecCCcccCCChHHhcHHHHHHHHHHHHhcCeEEEEEcCccc
Confidence 45555666789999999953211 111222233 5678899999854
No 290
>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=87.86 E-value=0.86 Score=22.87 Aligned_cols=23 Identities=22% Similarity=0.380 Sum_probs=16.7
Q ss_pred hhhHHhhhhCCcEEEEEEECCCh
Q 037770 25 RPLWRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 25 ~~~~~~~~~~~~~ii~v~d~~~~ 47 (65)
+.++.+..++++.+++|+|.+++
T Consensus 3 ~~~~~~i~~~aD~vl~V~D~~~~ 25 (156)
T cd01859 3 KRLVRRIIKESDVVLEVLDARDP 25 (156)
T ss_pred HHHHHHHHhhCCEEEEEeeCCCC
Confidence 44566677778888888888664
No 291
>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]
Probab=86.35 E-value=1.3 Score=26.33 Aligned_cols=38 Identities=16% Similarity=0.174 Sum_probs=25.9
Q ss_pred EECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEEC
Q 037770 7 EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDS 44 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~ 44 (65)
....-+|-+-|+||+++|-..--.=-..++..|+++|.
T Consensus 82 sT~KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDA 119 (431)
T COG2895 82 STEKRKFIIADTPGHEQYTRNMATGASTADLAILLVDA 119 (431)
T ss_pred ccccceEEEecCCcHHHHhhhhhcccccccEEEEEEec
Confidence 33556788999999988764433333456777777776
No 292
>COG1159 Era GTPase [General function prediction only]
Probab=86.01 E-value=4.8 Score=23.21 Aligned_cols=40 Identities=23% Similarity=0.337 Sum_probs=28.8
Q ss_pred EECCEEEEEEECCCCcCch--------hhHHhhhhCCcEEEEEEECCC
Q 037770 7 EYKNISFTVWDVGGQDKIR--------PLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~--------~~~~~~~~~~~~ii~v~d~~~ 46 (65)
+..+..+-+.||||-..-+ ..-...+..+|.+++|.|.+.
T Consensus 50 t~~~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl~dvDlilfvvd~~~ 97 (298)
T COG1159 50 TTDNAQIIFVDTPGIHKPKHALGELMNKAARSALKDVDLILFVVDADE 97 (298)
T ss_pred EcCCceEEEEeCCCCCCcchHHHHHHHHHHHHHhccCcEEEEEEeccc
Confidence 3456788899999954322 222456678999999999986
No 293
>cd01900 YchF YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.
Probab=85.76 E-value=2.4 Score=23.92 Aligned_cols=34 Identities=15% Similarity=0.148 Sum_probs=23.1
Q ss_pred EEEEEECCCCcCc----hh---hHHhhhhCCcEEEEEEECC
Q 037770 12 SFTVWDVGGQDKI----RP---LWRHYFQNTQGLIFVVDSN 45 (65)
Q Consensus 12 ~l~~~d~~g~~~~----~~---~~~~~~~~~~~ii~v~d~~ 45 (65)
.+.+.|++|-..- .. ..-...+.+|+++.|+|..
T Consensus 63 ~i~lvD~pGl~~~a~~~~glg~~fL~~i~~~D~li~VV~~f 103 (274)
T cd01900 63 TIEFVDIAGLVKGASKGEGLGNKFLSHIREVDAIAHVVRCF 103 (274)
T ss_pred EEEEEECCCcCCCCchhhHHHHHHHHHHHhCCEEEEEEeCc
Confidence 4899999995431 11 2233456799999999874
No 294
>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=85.69 E-value=2.1 Score=24.12 Aligned_cols=30 Identities=20% Similarity=0.047 Sum_probs=23.2
Q ss_pred hhhCCcEEEEEEECCChh-hHHHHHHHHHHH
Q 037770 31 YFQNTQGLIFVVDSNDRD-RIVEARDELHRM 60 (65)
Q Consensus 31 ~~~~~~~ii~v~d~~~~~-sf~~~~~~~~~~ 60 (65)
...++|.+++|+|+.++. ++..+.+|+..+
T Consensus 75 i~anvD~vllV~d~~~p~~s~~~ldr~L~~~ 105 (287)
T cd01854 75 IAANVDQLVIVVSLNEPFFNPRLLDRYLVAA 105 (287)
T ss_pred EEEeCCEEEEEEEcCCCCCCHHHHHHHHHHH
Confidence 477899999999998887 777776666543
No 295
>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]
Probab=85.52 E-value=6.7 Score=24.38 Aligned_cols=40 Identities=18% Similarity=0.267 Sum_probs=29.9
Q ss_pred EEEECCEEEEEEECCCCcCch---------hhHHhhhhCCcEEEEEEEC
Q 037770 5 TVEYKNISFTVWDVGGQDKIR---------PLWRHYFQNTQGLIFVVDS 44 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~~~~~---------~~~~~~~~~~~~ii~v~d~ 44 (65)
.++..+..+.+.||+|-.+-. ..-......+|.+++|+|.
T Consensus 310 ~v~~~G~~v~L~DTAGiRe~~~~~iE~~gI~rA~k~~~~advi~~vvda 358 (531)
T KOG1191|consen 310 QVTVNGVPVRLSDTAGIREESNDGIEALGIERARKRIERADVILLVVDA 358 (531)
T ss_pred EeecCCeEEEEEeccccccccCChhHHHhHHHHHHHHhhcCEEEEEecc
Confidence 356778999999999976611 1124556789999999999
No 296
>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....
Probab=84.28 E-value=4.7 Score=21.57 Aligned_cols=40 Identities=15% Similarity=0.098 Sum_probs=24.2
Q ss_pred EECCEEEEEEECCCCcCch-----------hhHHhhhhCCcEEEEEEECCC
Q 037770 7 EYKNISFTVWDVGGQDKIR-----------PLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 7 ~~~~~~l~~~d~~g~~~~~-----------~~~~~~~~~~~~ii~v~d~~~ 46 (65)
...+..+.+.||||-.... ........+.+++++|+++..
T Consensus 45 ~~~g~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~~~~~g~ha~llVi~~~r 95 (212)
T PF04548_consen 45 EVDGRQVTVIDTPGLFDSDGSDEEIIREIKRCLSLCSPGPHAFLLVIPLGR 95 (212)
T ss_dssp EETTEEEEEEE--SSEETTEEHHHHHHHHHHHHHHTTT-ESEEEEEEETTB
T ss_pred eecceEEEEEeCCCCCCCcccHHHHHHHHHHHHHhccCCCeEEEEEEecCc
Confidence 4567889999999943211 111234567899999999873
No 297
>COG1160 Predicted GTPases [General function prediction only]
Probab=83.22 E-value=7 Score=23.85 Aligned_cols=38 Identities=24% Similarity=0.319 Sum_probs=28.0
Q ss_pred CCEEEEEEECCCCcCch---------hhHHhhhhCCcEEEEEEECCC
Q 037770 9 KNISFTVWDVGGQDKIR---------PLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~---------~~~~~~~~~~~~ii~v~d~~~ 46 (65)
.+..+.+.||+|-+... .........+|.+|||+|.-.
T Consensus 49 ~~~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~eADvilfvVD~~~ 95 (444)
T COG1160 49 LGREFILIDTGGLDDGDEDELQELIREQALIAIEEADVILFVVDGRE 95 (444)
T ss_pred cCceEEEEECCCCCcCCchHHHHHHHHHHHHHHHhCCEEEEEEeCCC
Confidence 45669999999977533 233556668999999999864
No 298
>PRK09866 hypothetical protein; Provisional
Probab=82.84 E-value=11 Score=24.58 Aligned_cols=37 Identities=14% Similarity=0.242 Sum_probs=26.8
Q ss_pred EEEEEEECCCCcCc--h---hhHHhhhhCCcEEEEEEECCCh
Q 037770 11 ISFTVWDVGGQDKI--R---PLWRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 11 ~~l~~~d~~g~~~~--~---~~~~~~~~~~~~ii~v~d~~~~ 47 (65)
..+.+.||||-..- . ..-......+|.|++|+|.+..
T Consensus 230 ~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~ 271 (741)
T PRK09866 230 GQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQL 271 (741)
T ss_pred CCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCC
Confidence 45778999997542 1 1223467889999999999763
No 299
>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]
Probab=82.55 E-value=2.9 Score=24.47 Aligned_cols=38 Identities=21% Similarity=0.192 Sum_probs=26.8
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
.+-++-..|++|+..|-+.--.--.+.|+.|+|++.++
T Consensus 73 ~~rhyahVDcPGHaDYvKNMItgAaqmDgAILVVsA~d 110 (394)
T COG0050 73 ANRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATD 110 (394)
T ss_pred CCceEEeccCCChHHHHHHHhhhHHhcCccEEEEEcCC
Confidence 44566788999988776544444556788888887764
No 300
>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=82.26 E-value=2.5 Score=21.63 Aligned_cols=35 Identities=11% Similarity=0.149 Sum_probs=21.3
Q ss_pred EEEECCCCc----CchhhHHhhhhCCcEEEEEEECCChh
Q 037770 14 TVWDVGGQD----KIRPLWRHYFQNTQGLIFVVDSNDRD 48 (65)
Q Consensus 14 ~~~d~~g~~----~~~~~~~~~~~~~~~ii~v~d~~~~~ 48 (65)
.+.|+||.- .+....-.....++.++++.|.+++.
T Consensus 39 ~~IDTPGEyiE~~~~y~aLi~ta~dad~V~ll~dat~~~ 77 (143)
T PF10662_consen 39 NTIDTPGEYIENPRFYHALIVTAQDADVVLLLQDATEPR 77 (143)
T ss_pred cEEECChhheeCHHHHHHHHHHHhhCCEEEEEecCCCCC
Confidence 357888742 12222234455788888888887654
No 301
>PF12098 DUF3574: Protein of unknown function (DUF3574); InterPro: IPR021957 This family of proteins is functionally uncharacterised. This protein is found in bacteria and viruses. Proteins in this family are typically between 144 to 163 amino acids in length. This protein has a conserved TPRF sequence motif.
Probab=81.63 E-value=4.6 Score=19.62 Aligned_cols=49 Identities=24% Similarity=0.243 Sum_probs=28.2
Q ss_pred EEEEECCCCcCchhhHHhhhhCCcEEEEEEECC--ChhhHHHHHHHHHHHh
Q 037770 13 FTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSN--DRDRIVEARDELHRML 61 (65)
Q Consensus 13 l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~--~~~sf~~~~~~~~~~~ 61 (65)
+.+||..|+..-+..-...-.++..++++.+-+ .....+++.+.+++-.
T Consensus 38 lTv~Da~GqW~~~~~g~~~rE~Skvv~i~~~~~~~~~~~i~~Ir~~Yk~rF 88 (104)
T PF12098_consen 38 LTVLDAYGQWRDRATGRLIRERSKVVIIVHPDTPAAEARIEAIREAYKQRF 88 (104)
T ss_pred ceEEeccceEecCCCCcEeecccEEEEEEeCCChHHHHHHHHHHHHHHHHh
Confidence 568999998666444344444566666666433 2334555555555433
No 302
>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]
Probab=81.17 E-value=8.2 Score=24.51 Aligned_cols=47 Identities=11% Similarity=0.028 Sum_probs=29.5
Q ss_pred ECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHH
Q 037770 8 YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDE 56 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~ 56 (65)
+..-.+.+.|.+-. ........- ..++.+.++||++++.+|.-+...
T Consensus 471 g~~k~LiL~ei~~~-~~~~l~~ke-~~cDv~~~~YDsS~p~sf~~~a~v 517 (625)
T KOG1707|consen 471 GQQKYLILREIGED-DQDFLTSKE-AACDVACLVYDSSNPRSFEYLAEV 517 (625)
T ss_pred cccceEEEeecCcc-ccccccCcc-ceeeeEEEecccCCchHHHHHHHH
Confidence 34445566666543 222222222 678899999999999999776544
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=80.64 E-value=3.1 Score=22.12 Aligned_cols=28 Identities=11% Similarity=0.297 Sum_probs=23.5
Q ss_pred hCCcEEEEEEECCChhhHHHHHHHHHHH
Q 037770 33 QNTQGLIFVVDSNDRDRIVEARDELHRM 60 (65)
Q Consensus 33 ~~~~~ii~v~d~~~~~sf~~~~~~~~~~ 60 (65)
...|-|+|++|+.+..|+..++.-+..+
T Consensus 63 prIDlIVFvinl~sk~SL~~ve~SL~~v 90 (176)
T PF11111_consen 63 PRIDLIVFVINLHSKYSLQSVEASLSHV 90 (176)
T ss_pred ceeEEEEEEEecCCcccHHHHHHHHhhC
Confidence 3678999999999999999988766654
No 304
>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=80.41 E-value=3.3 Score=20.51 Aligned_cols=9 Identities=22% Similarity=0.394 Sum_probs=4.5
Q ss_pred CEEEEEEEC
Q 037770 10 NISFTVWDV 18 (65)
Q Consensus 10 ~~~l~~~d~ 18 (65)
++-+.+.|.
T Consensus 13 D~vl~ViD~ 21 (141)
T cd01857 13 DIVVQIVDA 21 (141)
T ss_pred CEEEEEEEc
Confidence 344555554
No 305
>PTZ00258 GTP-binding protein; Provisional
Probab=80.17 E-value=10 Score=22.68 Aligned_cols=34 Identities=18% Similarity=0.227 Sum_probs=23.6
Q ss_pred EEEEEECCCCcCc-------hhhHHhhhhCCcEEEEEEECC
Q 037770 12 SFTVWDVGGQDKI-------RPLWRHYFQNTQGLIFVVDSN 45 (65)
Q Consensus 12 ~l~~~d~~g~~~~-------~~~~~~~~~~~~~ii~v~d~~ 45 (65)
.+.+.|++|-..- ........+.++++++|+|..
T Consensus 86 qi~lvDtpGLv~ga~~g~gLg~~fL~~Ir~aD~il~VVd~f 126 (390)
T PTZ00258 86 QLDITDIAGLVKGASEGEGLGNAFLSHIRAVDGIYHVVRAF 126 (390)
T ss_pred CeEEEECCCcCcCCcchhHHHHHHHHHHHHCCEEEEEEeCC
Confidence 4889999995321 112233567899999999974
No 306
>KOG3905 consensus Dynein light intermediate chain [Cell motility]
Probab=79.39 E-value=7.2 Score=23.30 Aligned_cols=52 Identities=10% Similarity=0.099 Sum_probs=35.5
Q ss_pred EEEEEEECCCCcCchhhHHhhhhC----CcEEEEEEECCChhh-HHHHHHHHHHHhc
Q 037770 11 ISFTVWDVGGQDKIRPLWRHYFQN----TQGLIFVVDSNDRDR-IVEARDELHRMLN 62 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~~~~~----~~~ii~v~d~~~~~s-f~~~~~~~~~~~~ 62 (65)
..+.+|-+.|...+..+....... -..+|++.|.+++-. ++.+++|..-+.+
T Consensus 100 tr~~VWiLDGd~~h~~LLk~al~ats~aetlviltasms~Pw~~lesLqkWa~Vl~e 156 (473)
T KOG3905|consen 100 TRCNVWILDGDLYHKGLLKFALPATSLAETLVILTASMSNPWTLLESLQKWASVLRE 156 (473)
T ss_pred hhcceEEecCchhhhhHHhhcccccCccceEEEEEEecCCcHHHHHHHHHHHHHHHH
Confidence 567899999988777766544433 235778889999944 6667777654433
No 307
>KOG4530 consensus Predicted flavoprotein [General function prediction only]
Probab=79.22 E-value=7.6 Score=20.63 Aligned_cols=58 Identities=17% Similarity=0.277 Sum_probs=34.4
Q ss_pred CcEEEEEECCEEEEEEECCCCc------C---chhhHHhhhhCCcEEEEE---EECCChhhHHHHHHHHH
Q 037770 1 FNVETVEYKNISFTVWDVGGQD------K---IRPLWRHYFQNTQGLIFV---VDSNDRDRIVEARDELH 58 (65)
Q Consensus 1 f~~~~~~~~~~~l~~~d~~g~~------~---~~~~~~~~~~~~~~ii~v---~d~~~~~sf~~~~~~~~ 58 (65)
|.++.++..++.+.--|..+.. . .-..|..-...+|+++|| |.-.-+.-+.++..|+.
T Consensus 44 l~ie~vDls~lPL~~~D~e~~pi~~vd~y~~~~t~aw~~ki~~aD~ivFvtPqYN~gypA~LKNAlD~ly 113 (199)
T KOG4530|consen 44 LQIEYVDLSPLPLINTDLEVNPIKSVDEYYPPVTEAWRQKILEADSIVFVTPQYNFGYPAPLKNALDWLY 113 (199)
T ss_pred CceEEEeccCCccccCCcccCccccccccCcHHHHHHHHHHhhcceEEEecccccCCCchHHHHHHHHhh
Confidence 3566677777666656655543 2 234677777789999998 22223334555555543
No 308
>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]
Probab=78.51 E-value=5.3 Score=26.17 Aligned_cols=38 Identities=16% Similarity=0.183 Sum_probs=32.3
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
+++.+.+.|++|+..+..--....+-+|+++..+|+..
T Consensus 70 ~~~~~nlidspghvdf~sevssas~l~d~alvlvdvve 107 (887)
T KOG0467|consen 70 KDYLINLIDSPGHVDFSSEVSSASRLSDGALVLVDVVE 107 (887)
T ss_pred CceEEEEecCCCccchhhhhhhhhhhcCCcEEEEeecc
Confidence 56788999999999998877777888899999998863
No 309
>KOG1201 consensus Hydroxysteroid 17-beta dehydrogenase 11 [Secondary metabolites biosynthesis, transport and catabolism]
Probab=78.14 E-value=11 Score=21.85 Aligned_cols=51 Identities=14% Similarity=0.334 Sum_probs=34.4
Q ss_pred EEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 12 SFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 12 ~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
.+-+||+-.+........ .-+...+--|..|+++++....+.+.+++..++
T Consensus 64 ~~vl~Din~~~~~etv~~-~~~~g~~~~y~cdis~~eei~~~a~~Vk~e~G~ 114 (300)
T KOG1201|consen 64 KLVLWDINKQGNEETVKE-IRKIGEAKAYTCDISDREEIYRLAKKVKKEVGD 114 (300)
T ss_pred eEEEEeccccchHHHHHH-HHhcCceeEEEecCCCHHHHHHHHHHHHHhcCC
Confidence 577899876655443322 111136778899999999888888777776554
No 310
>PRK12289 GTPase RsgA; Reviewed
Probab=77.53 E-value=6.1 Score=23.18 Aligned_cols=30 Identities=13% Similarity=0.078 Sum_probs=20.6
Q ss_pred HhhhhCCcEEEEEEECCChh-hHHHHHHHHH
Q 037770 29 RHYFQNTQGLIFVVDSNDRD-RIVEARDELH 58 (65)
Q Consensus 29 ~~~~~~~~~ii~v~d~~~~~-sf~~~~~~~~ 58 (65)
.....++|.+++|+|+.++. +...+..++.
T Consensus 84 R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~ 114 (352)
T PRK12289 84 RPPVANADQILLVFALAEPPLDPWQLSRFLV 114 (352)
T ss_pred chhhhcCCEEEEEEECCCCCCCHHHHHHHHH
Confidence 34578899999999998765 3334444444
No 311
>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence. IIGP is predominantly associated with the Golgi apparatus and also localizes to the endoplasmic reticulum and exerts a distinct role in IFN-induced intracellular membrane trafficking or processing [].; GO: 0005525 GTP binding, 0016817 hydrolase activity, acting on acid anhydrides, 0016020 membrane; PDB: 1TPZ_A 1TQD_A 1TQ6_A 1TQ2_B 1TQ4_A.
Probab=77.32 E-value=10 Score=22.66 Aligned_cols=32 Identities=19% Similarity=0.266 Sum_probs=16.7
Q ss_pred EEEEEEECCCCcCchhhHHhhh-----hCCcEEEEEE
Q 037770 11 ISFTVWDVGGQDKIRPLWRHYF-----QNTQGLIFVV 42 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~~~-----~~~~~ii~v~ 42 (65)
-.+.+||+||...-......|+ ...|.+|++.
T Consensus 86 pnv~lWDlPG~gt~~f~~~~Yl~~~~~~~yD~fiii~ 122 (376)
T PF05049_consen 86 PNVTLWDLPGIGTPNFPPEEYLKEVKFYRYDFFIIIS 122 (376)
T ss_dssp TTEEEEEE--GGGSS--HHHHHHHTTGGG-SEEEEEE
T ss_pred CCCeEEeCCCCCCCCCCHHHHHHHccccccCEEEEEe
Confidence 3588999999755443334444 3567777654
No 312
>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=77.02 E-value=7.1 Score=23.71 Aligned_cols=49 Identities=16% Similarity=0.188 Sum_probs=29.9
Q ss_pred EEEEEECCCCcCchhh-----------HHhhhhCCcEEEEEEECCChhhHHHHHHHHHHH
Q 037770 12 SFTVWDVGGQDKIRPL-----------WRHYFQNTQGLIFVVDSNDRDRIVEARDELHRM 60 (65)
Q Consensus 12 ~l~~~d~~g~~~~~~~-----------~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~ 60 (65)
++.+.|++|.-+-++. ..=+...+|.|+++||....+--.+.++.+..+
T Consensus 148 ~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aL 207 (532)
T KOG1954|consen 148 SVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDAL 207 (532)
T ss_pred heeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHh
Confidence 4678899986554433 233556799999999876543333333333333
No 313
>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=76.00 E-value=5.1 Score=17.88 Aligned_cols=23 Identities=22% Similarity=0.221 Sum_probs=15.3
Q ss_pred EEEEEEECCChhhHHHHHHHHHH
Q 037770 37 GLIFVVDSNDRDRIVEARDELHR 59 (65)
Q Consensus 37 ~ii~v~d~~~~~sf~~~~~~~~~ 59 (65)
-++++||+++...-..+.+.++.
T Consensus 3 ~~lv~YDi~~~k~~~kv~k~L~~ 25 (78)
T PF09827_consen 3 LYLVAYDISDNKRRNKVRKILKS 25 (78)
T ss_dssp EEEEEEEEHSHHHHHHHHHHHHH
T ss_pred EEEEEEECCCcHHHHHHHHHHHH
Confidence 36788999877655565555543
No 314
>cd01481 vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(VI) like: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=74.89 E-value=9.7 Score=19.60 Aligned_cols=27 Identities=22% Similarity=0.587 Sum_probs=20.7
Q ss_pred EEEEEECCC---hhhHHHHHHHHHHHhccc
Q 037770 38 LIFVVDSND---RDRIVEARDELHRMLNEV 64 (65)
Q Consensus 38 ii~v~d~~~---~~sf~~~~~~~~~~~~~~ 64 (65)
+++++|.+. +..|+..++.+..+++.+
T Consensus 3 ivfllD~S~Si~~~~f~~~k~fi~~lv~~f 32 (165)
T cd01481 3 IVFLIDGSDNVGSGNFPAIRDFIERIVQSL 32 (165)
T ss_pred EEEEEeCCCCcCHHHHHHHHHHHHHHHhhc
Confidence 577888874 467999999888887653
No 315
>PRK00098 GTPase RsgA; Reviewed
Probab=74.29 E-value=6.3 Score=22.36 Aligned_cols=27 Identities=15% Similarity=0.134 Sum_probs=18.7
Q ss_pred hhCCcEEEEEEECCChhhHHHH-HHHHH
Q 037770 32 FQNTQGLIFVVDSNDRDRIVEA-RDELH 58 (65)
Q Consensus 32 ~~~~~~ii~v~d~~~~~sf~~~-~~~~~ 58 (65)
..++|.+++|+|+++++.+... ..++.
T Consensus 78 aaniD~vllV~d~~~p~~~~~~idr~L~ 105 (298)
T PRK00098 78 AANVDQAVLVFAAKEPDFSTDLLDRFLV 105 (298)
T ss_pred eecCCEEEEEEECCCCCCCHHHHHHHHH
Confidence 3788999999999877654443 44443
No 316
>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=73.13 E-value=14 Score=20.57 Aligned_cols=38 Identities=11% Similarity=0.235 Sum_probs=23.4
Q ss_pred ECCEEEEEEECCCCcCchh---h-------HHhhhh--CCcEEEEEEECC
Q 037770 8 YKNISFTVWDVGGQDKIRP---L-------WRHYFQ--NTQGLIFVVDSN 45 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~---~-------~~~~~~--~~~~ii~v~d~~ 45 (65)
..+..+.++|++|-..... . ...+.. ..+++++|..++
T Consensus 76 ~~g~~i~vIDTPGl~~~~~~~~~~~~~~~~I~~~l~~~~idvIL~V~rlD 125 (249)
T cd01853 76 VDGFKLNIIDTPGLLESVMDQRVNRKILSSIKRYLKKKTPDVVLYVDRLD 125 (249)
T ss_pred ECCeEEEEEECCCcCcchhhHHHHHHHHHHHHHHHhccCCCEEEEEEcCC
Confidence 3457899999999765521 1 112332 467788886555
No 317
>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=73.09 E-value=13 Score=20.17 Aligned_cols=35 Identities=9% Similarity=0.115 Sum_probs=24.7
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
....+.+.|++|.. .... ...+.++.+++++|.+.
T Consensus 81 ~~~~i~~vDtPg~~--~~~l-~~ak~aDvVllviDa~~ 115 (225)
T cd01882 81 KKRRLTFIECPNDI--NAMI-DIAKVADLVLLLIDASF 115 (225)
T ss_pred CCceEEEEeCCchH--HHHH-HHHHhcCEEEEEEecCc
Confidence 45677889999853 3332 23577899999999874
No 318
>cd01475 vWA_Matrilin VWA_Matrilin: In cartilaginous plate, extracellular matrix molecules mediate cell-matrix and matrix-matrix interactions thereby providing tissue integrity. Some members of the matrilin family are expressed specifically in developing cartilage rudiments. The matrilin family consists of at least four members. All the members of the matrilin family contain VWA domains, EGF-like domains and a heptad repeat coiled-coiled domain at the carboxy terminus which is responsible for the oligomerization of the matrilins. The VWA domains have been shown to be essential for matrilin network formation by interacting with matrix ligands.
Probab=72.16 E-value=11 Score=20.21 Aligned_cols=26 Identities=19% Similarity=0.511 Sum_probs=19.3
Q ss_pred EEEEEECCCh---hhHHHHHHHHHHHhcc
Q 037770 38 LIFVVDSNDR---DRIVEARDELHRMLNE 63 (65)
Q Consensus 38 ii~v~d~~~~---~sf~~~~~~~~~~~~~ 63 (65)
+++++|.|.. +.|+.+++.+..+++.
T Consensus 5 lvfllD~S~Sm~~~~~~~~k~f~~~l~~~ 33 (224)
T cd01475 5 LVFLIDSSRSVRPENFELVKQFLNQIIDS 33 (224)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHHHHHh
Confidence 5778888743 5688888888877764
No 319
>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=72.02 E-value=2.9 Score=24.35 Aligned_cols=27 Identities=22% Similarity=0.258 Sum_probs=18.7
Q ss_pred cCchhhHHhhhhCCcEEEEEEECCChh
Q 037770 22 DKIRPLWRHYFQNTQGLIFVVDSNDRD 48 (65)
Q Consensus 22 ~~~~~~~~~~~~~~~~ii~v~d~~~~~ 48 (65)
+.+......++++++.+++|+|+.+..
T Consensus 51 e~f~~~l~~~~~~~~~Il~VvD~~d~~ 77 (360)
T TIGR03597 51 DDFLNLLNSLGDSNALIVYVVDIFDFE 77 (360)
T ss_pred HHHHHHHhhcccCCcEEEEEEECcCCC
Confidence 345666667777788888888876543
No 320
>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]
Probab=71.52 E-value=7.9 Score=23.34 Aligned_cols=37 Identities=22% Similarity=0.237 Sum_probs=24.1
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECC
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSN 45 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~ 45 (65)
.++.+.+.|++|+.+.....-.-..-.|..++|+|+.
T Consensus 68 e~lq~tlvDCPGHasLIRtiiggaqiiDlm~lviDv~ 104 (522)
T KOG0461|consen 68 EQLQFTLVDCPGHASLIRTIIGGAQIIDLMILVIDVQ 104 (522)
T ss_pred ccceeEEEeCCCcHHHHHHHHhhhheeeeeeEEEehh
Confidence 3467889999998776543332223346667778876
No 321
>KOG1902 consensus Putative signal transduction protein involved in RNA splicing [Signal transduction mechanisms; RNA processing and modification]
Probab=71.37 E-value=11 Score=22.53 Aligned_cols=42 Identities=14% Similarity=0.256 Sum_probs=30.3
Q ss_pred EEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHH
Q 037770 15 VWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELH 58 (65)
Q Consensus 15 ~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~ 58 (65)
||-| +..........|.....||++|++.....|.-..+...
T Consensus 93 iWaT--q~sNE~kLn~AF~~s~~ViLIFSVn~SghFQG~ArMsS 134 (441)
T KOG1902|consen 93 VWST--QPSNEKKLNLAFRSSRSVILIFSVNESGHFQGFARMSS 134 (441)
T ss_pred eecc--ccccHHHHHHHHhhcCcEEEEEEecccccchhhhhhcc
Confidence 7854 55566666778888889999999988777766554433
No 322
>PF00092 VWA: von Willebrand factor type A domain; InterPro: IPR002035 The von Willebrand factor is a large multimeric glycoprotein found in blood plasma. Mutant forms are involved in the aetiology of bleeding disorders []. In von Willebrand factor, the type A domain (vWF) is the prototype for a protein superfamily. The vWF domain is found in various plasma proteins: complement factors B, C2, CR3 and CR4; the integrins (I-domains); collagen types VI, VII, XII and XIV; and other extracellular proteins [, , ]. Although the majority of VWA-containing proteins are extracellular, the most ancient ones present in all eukaryotes are all intracellular proteins involved in functions such as transcription, DNA repair, ribosomal and membrane transport and the proteasome. A common feature appears to be involvement in multiprotein complexes. Proteins that incorporate vWF domains participate in numerous biological events (e.g. cell adhesion, migration, homing, pattern formation, and signal transduction), involving interaction with a large array of ligands []. A number of human diseases arise from mutations in VWA domains. Secondary structure prediction from 75 aligned vWF sequences has revealed a largely alternating sequence of alpha-helices and beta-strands []. Fold recognition algorithms were used to score sequence compatibility with a library of known structures: the vWF domain fold was predicted to be a doubly-wound, open, twisted beta-sheet flanked by alpha-helices []. 3D structures have been determined for the I-domains of integrins CD11b (with bound magnesium) [] and CD11a (with bound manganese) []. The domain adopts a classic alpha/beta Rossmann fold and contains an unusual metal ion coordination site at its surface. It has been suggested that this site represents a general metal ion-dependent adhesion site (MIDAS) for binding protein ligands []. The residues constituting the MIDAS motif in the CD11b and CD11a I-domains are completely conserved, but the manner in which the metal ion is coordinated differs slightly [].; GO: 0005515 protein binding; PDB: 2XGG_B 3ZQK_B 3GXB_A 3PPV_A 3PPX_A 3PPW_A 3PPY_A 1CQP_B 3TCX_B 2ICA_A ....
Probab=68.94 E-value=13 Score=18.60 Aligned_cols=26 Identities=19% Similarity=0.520 Sum_probs=19.1
Q ss_pred EEEEEECCC---hhhHHHHHHHHHHHhcc
Q 037770 38 LIFVVDSND---RDRIVEARDELHRMLNE 63 (65)
Q Consensus 38 ii~v~d~~~---~~sf~~~~~~~~~~~~~ 63 (65)
+++++|.+. ...|..+++++..+++.
T Consensus 2 ivflvD~S~sm~~~~~~~~~~~v~~~i~~ 30 (178)
T PF00092_consen 2 IVFLVDTSGSMSGDNFEKAKQFVKSIISR 30 (178)
T ss_dssp EEEEEE-STTSCHHHHHHHHHHHHHHHHH
T ss_pred EEEEEeCCCCCchHHHHHHHHHHHHHHHh
Confidence 678888885 34588888888888764
No 323
>PRK09601 GTP-binding protein YchF; Reviewed
Probab=68.56 E-value=22 Score=21.20 Aligned_cols=34 Identities=15% Similarity=0.193 Sum_probs=23.6
Q ss_pred EEEEEECCCCcCc----hh---hHHhhhhCCcEEEEEEECC
Q 037770 12 SFTVWDVGGQDKI----RP---LWRHYFQNTQGLIFVVDSN 45 (65)
Q Consensus 12 ~l~~~d~~g~~~~----~~---~~~~~~~~~~~ii~v~d~~ 45 (65)
.+.+.|++|-..- .. ..-...+.+++++.|+|..
T Consensus 67 ~i~lvD~pGL~~~a~~g~glg~~fL~~i~~aD~li~VVd~f 107 (364)
T PRK09601 67 TIEFVDIAGLVKGASKGEGLGNQFLANIREVDAIVHVVRCF 107 (364)
T ss_pred eEEEEECCCCCCCCChHHHHHHHHHHHHHhCCEEEEEEeCC
Confidence 5899999995431 11 2233457899999999985
No 324
>cd01470 vWA_complement_factors Complement factors B and C2 are two critical proteases for complement activation. They both contain three CCP or Sushi domains, a trypsin-type serine protease domain and a single VWA domain with a conserved metal ion dependent adhesion site referred commonly as the MIDAS motif. Orthologues of these molecules are found from echinoderms to chordates. During complement activation, the CCP domains are cleaved off, resulting in the formation of an active protease that cleaves and activates complement C3. Complement C2 is in the classical pathway and complement B is in the alternative pathway. The interaction of C2 with C4 and of factor B with C3b are both dependent on Mg2+ binding sites within the VWA domains and the VWA domain of factor B has been shown to mediate the binding of C3. This is consistent with the common inferred function of VWA domains as magnesium-dependent protein interaction domains.
Probab=67.46 E-value=16 Score=19.11 Aligned_cols=26 Identities=15% Similarity=0.502 Sum_probs=17.3
Q ss_pred EEEEEECCC---hhhHHHHHHHHHHHhcc
Q 037770 38 LIFVVDSND---RDRIVEARDELHRMLNE 63 (65)
Q Consensus 38 ii~v~d~~~---~~sf~~~~~~~~~~~~~ 63 (65)
+++++|.|. .+.|+.++..+..+++.
T Consensus 3 i~~vlD~SgSM~~~~~~~~k~~~~~l~~~ 31 (198)
T cd01470 3 IYIALDASDSIGEEDFDEAKNAIKTLIEK 31 (198)
T ss_pred EEEEEECCCCccHHHHHHHHHHHHHHHHH
Confidence 567777763 45677777777776653
No 325
>KOG4273 consensus Uncharacterized conserved protein [Function unknown]
Probab=67.33 E-value=7.6 Score=22.31 Aligned_cols=25 Identities=20% Similarity=0.310 Sum_probs=21.0
Q ss_pred CCcEEEEEEECCChhhHHHHHHHHH
Q 037770 34 NTQGLIFVVDSNDRDRIVEARDELH 58 (65)
Q Consensus 34 ~~~~ii~v~d~~~~~sf~~~~~~~~ 58 (65)
...+++.+||++....+..++.|+-
T Consensus 78 pl~a~vmvfdlse~s~l~alqdwl~ 102 (418)
T KOG4273|consen 78 PLQAFVMVFDLSEKSGLDALQDWLP 102 (418)
T ss_pred ceeeEEEEEeccchhhhHHHHhhcc
Confidence 4567899999999998988888864
No 326
>cd01469 vWA_integrins_alpha_subunit Integrins are a class of adhesion receptors that link the extracellular matrix to the cytoskeleton and cooperate with growth factor receptors to promote celll survival, cell cycle progression and cell migration. Integrins consist of an alpha and a beta sub-unit. Each sub-unit has a large extracellular portion, a single transmembrane segment and a short cytoplasmic domain. The N-terminal domains of the alpha and beta subunits associate to form the integrin headpiece, which contains the ligand binding site, whereas the C-terminal segments traverse the plasma membrane and mediate interaction with the cytoskeleton and with signalling proteins.The VWA domains present in the alpha subunits of integrins seem to be a chordate specific radiation of the gene family being found only in vertebrates. They mediate protein-protein interactions.
Probab=67.12 E-value=16 Score=18.88 Aligned_cols=26 Identities=19% Similarity=0.516 Sum_probs=19.0
Q ss_pred EEEEEECCCh---hhHHHHHHHHHHHhcc
Q 037770 38 LIFVVDSNDR---DRIVEARDELHRMLNE 63 (65)
Q Consensus 38 ii~v~d~~~~---~sf~~~~~~~~~~~~~ 63 (65)
+++++|.+.. ..|+.+++.+..+++.
T Consensus 3 i~fvlD~S~S~~~~~f~~~k~fi~~~i~~ 31 (177)
T cd01469 3 IVFVLDGSGSIYPDDFQKVKNFLSTVMKK 31 (177)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHHHHHH
Confidence 5778888754 5688888888777654
No 327
>PHA02518 ParA-like protein; Provisional
Probab=66.59 E-value=17 Score=18.98 Aligned_cols=34 Identities=21% Similarity=0.230 Sum_probs=24.4
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECC
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSN 45 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~ 45 (65)
...+.+.|++|.. ..........+|.+|++...+
T Consensus 76 ~~d~viiD~p~~~--~~~~~~~l~~aD~viip~~ps 109 (211)
T PHA02518 76 GYDYVVVDGAPQD--SELARAALRIADMVLIPVQPS 109 (211)
T ss_pred cCCEEEEeCCCCc--cHHHHHHHHHCCEEEEEeCCC
Confidence 3567899999863 344456777888888887665
No 328
>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]
Probab=66.40 E-value=5.2 Score=23.93 Aligned_cols=35 Identities=20% Similarity=0.187 Sum_probs=22.9
Q ss_pred EEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 12 SFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 12 ~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
++---|++|+..|.+.--.=-.+-||.|+|++.+|
T Consensus 118 hYaH~DCPGHADYIKNMItGaaqMDGaILVVaatD 152 (449)
T KOG0460|consen 118 HYAHTDCPGHADYIKNMITGAAQMDGAILVVAATD 152 (449)
T ss_pred ccccCCCCchHHHHHHhhcCccccCceEEEEEcCC
Confidence 34467888887776443333345688888887775
No 329
>PRK12288 GTPase RsgA; Reviewed
Probab=65.64 E-value=15 Score=21.53 Aligned_cols=27 Identities=11% Similarity=-0.015 Sum_probs=21.7
Q ss_pred hCCcEEEEEEECCChhhHHHHHHHHHH
Q 037770 33 QNTQGLIFVVDSNDRDRIVEARDELHR 59 (65)
Q Consensus 33 ~~~~~ii~v~d~~~~~sf~~~~~~~~~ 59 (65)
.++|.+++|+++++..++..+..|+..
T Consensus 119 ANvD~vlIV~s~~p~~s~~~Ldr~L~~ 145 (347)
T PRK12288 119 ANIDQIVIVSAVLPELSLNIIDRYLVA 145 (347)
T ss_pred EEccEEEEEEeCCCCCCHHHHHHHHHH
Confidence 458999999999888888888777653
No 330
>PRK00871 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional
Probab=64.29 E-value=12 Score=19.86 Aligned_cols=34 Identities=3% Similarity=-0.062 Sum_probs=27.1
Q ss_pred HhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 29 RHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 29 ~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
......+|.+|+.+.+-...--..+|.|++++..
T Consensus 50 q~~l~~aD~iV~~fP~~w~~~Pa~lK~wiD~V~~ 83 (176)
T PRK00871 50 QEALSRADLIVWQHPMQWYSIPPLLKLWIDKVLS 83 (176)
T ss_pred HHHHHhCCEEEEEcChhhccccHHHHHHHHHHhh
Confidence 4457789999999988776666778899988864
No 331
>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=63.61 E-value=8.8 Score=16.68 Aligned_cols=13 Identities=15% Similarity=0.795 Sum_probs=8.6
Q ss_pred CcEEEEEEECCCh
Q 037770 35 TQGLIFVVDSNDR 47 (65)
Q Consensus 35 ~~~ii~v~d~~~~ 47 (65)
.++++|++|+|..
T Consensus 14 ~~~ilfi~D~Se~ 26 (58)
T PF06858_consen 14 ADAILFIIDPSEQ 26 (58)
T ss_dssp -SEEEEEE-TT-T
T ss_pred cceEEEEEcCCCC
Confidence 5789999999864
No 332
>cd01477 vWA_F09G8-8_type VWA F09G8.8 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of mo
Probab=63.23 E-value=21 Score=18.99 Aligned_cols=28 Identities=18% Similarity=0.402 Sum_probs=19.7
Q ss_pred CcEEEEEEECCCh---hhHHHHHHHHHHHhc
Q 037770 35 TQGLIFVVDSNDR---DRIVEARDELHRMLN 62 (65)
Q Consensus 35 ~~~ii~v~d~~~~---~sf~~~~~~~~~~~~ 62 (65)
..-+++++|.|+. +.|+.+++.+..++.
T Consensus 19 ~~DivfvlD~S~Sm~~~~f~~~k~fi~~~~~ 49 (193)
T cd01477 19 WLDIVFVVDNSKGMTQGGLWQVRATISSLFG 49 (193)
T ss_pred eeeEEEEEeCCCCcchhhHHHHHHHHHHHHh
Confidence 3457889999854 558888877766554
No 333
>COG4474 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=62.45 E-value=19 Score=19.25 Aligned_cols=28 Identities=11% Similarity=0.298 Sum_probs=21.5
Q ss_pred CchhhHHhhhhCCcEEEEEEECCChhhH
Q 037770 23 KIRPLWRHYFQNTQGLIFVVDSNDRDRI 50 (65)
Q Consensus 23 ~~~~~~~~~~~~~~~ii~v~d~~~~~sf 50 (65)
.++....-...+.+|++++||-.+..+.
T Consensus 118 Qf~q~nqf~le~sdg~ll~YD~ekegs~ 145 (180)
T COG4474 118 QFRQYNQFLLEKSDGALLFYDEEKEGSP 145 (180)
T ss_pred HHHHhhhhhhccCceeEEEEcCcccCCh
Confidence 3555556677889999999999877664
No 334
>PRK04930 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional
Probab=62.29 E-value=15 Score=19.56 Aligned_cols=34 Identities=12% Similarity=0.142 Sum_probs=26.9
Q ss_pred HhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 29 RHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 29 ~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
...+..+|.+|+.+.+=...--..+|.|++++..
T Consensus 56 q~~l~~aD~iV~~fPl~w~~~Pa~LK~wiD~V~~ 89 (184)
T PRK04930 56 QALLREHDVIVFQHPLYTYSCPALLKEWLDRVLS 89 (184)
T ss_pred HHHHHhCCEEEEEcCccccCCcHHHHHHHHHHHh
Confidence 4467789999999988766666778899988864
No 335
>PF11185 DUF2971: Protein of unknown function (DUF2971); InterPro: IPR021352 This bacterial family of proteins has no known function.
Probab=62.22 E-value=9.5 Score=16.84 Aligned_cols=17 Identities=41% Similarity=0.958 Sum_probs=14.2
Q ss_pred hHHhhhhCCcEEEEEEE
Q 037770 27 LWRHYFQNTQGLIFVVD 43 (65)
Q Consensus 27 ~~~~~~~~~~~ii~v~d 43 (65)
+|..|..+..|+.+.||
T Consensus 1 mW~~Y~~~~~Gv~i~f~ 17 (90)
T PF11185_consen 1 MWRHYADNHKGVCIGFD 17 (90)
T ss_pred ChHHhCCCCceEEEEEc
Confidence 47888888899999985
No 336
>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=61.48 E-value=21 Score=18.28 Aligned_cols=47 Identities=4% Similarity=0.021 Sum_probs=29.4
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHH
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELH 58 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~ 58 (65)
....+-+.|+++...- .....+..++.++++...+.. +...+.+.++
T Consensus 91 ~~~d~viiDtpp~~~~--~~~~~l~~aD~vliv~~~~~~-~~~~~~~~~~ 137 (179)
T cd03110 91 EGAELIIIDGPPGIGC--PVIASLTGADAALLVTEPTPS-GLHDLERAVE 137 (179)
T ss_pred cCCCEEEEECcCCCcH--HHHHHHHcCCEEEEEecCCcc-cHHHHHHHHH
Confidence 4567889999976433 223456789999998876532 3344444433
No 337
>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=61.15 E-value=45 Score=22.06 Aligned_cols=38 Identities=11% Similarity=0.238 Sum_probs=24.6
Q ss_pred CCEEEEEEECCCCcCch-------hh---HHhhhh--CCcEEEEEEECCC
Q 037770 9 KNISFTVWDVGGQDKIR-------PL---WRHYFQ--NTQGLIFVVDSND 46 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~-------~~---~~~~~~--~~~~ii~v~d~~~ 46 (65)
.+..+.+.||+|-.... .. ...+.. +.+++|+|..++.
T Consensus 164 dG~~L~VIDTPGL~dt~~dq~~neeILk~Ik~~Lsk~gpDVVLlV~RLd~ 213 (763)
T TIGR00993 164 QGVKIRVIDTPGLKSSASDQSKNEKILSSVKKFIKKNPPDIVLYVDRLDM 213 (763)
T ss_pred CCceEEEEECCCCCccccchHHHHHHHHHHHHHHhcCCCCEEEEEEeCCC
Confidence 45678999999976531 11 112323 5789999988763
No 338
>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=60.82 E-value=20 Score=17.79 Aligned_cols=33 Identities=15% Similarity=0.265 Sum_probs=22.9
Q ss_pred EEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECC
Q 037770 11 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSN 45 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~ 45 (65)
..+.+.|+++... .........+|.++++.+.+
T Consensus 45 yd~VIiD~p~~~~--~~~~~~l~~aD~vviv~~~~ 77 (139)
T cd02038 45 YDYIIIDTGAGIS--DNVLDFFLAADEVIVVTTPE 77 (139)
T ss_pred CCEEEEECCCCCC--HHHHHHHHhCCeEEEEcCCC
Confidence 3567889987533 23345788899999887764
No 339
>KOG0469 consensus Elongation factor 2 [Translation, ribosomal structure and biogenesis]
Probab=60.64 E-value=14 Score=23.49 Aligned_cols=38 Identities=18% Similarity=0.218 Sum_probs=31.5
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCC
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
...-+++.|.+|+..+..--...++-.||.+.|+|.-+
T Consensus 96 ~~FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~ 133 (842)
T KOG0469|consen 96 NGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVS 133 (842)
T ss_pred cceeEEeccCCCcccchhhhhheeEeccCcEEEEEccC
Confidence 34678899999999998877778888899999988754
No 340
>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]
Probab=60.25 E-value=38 Score=20.91 Aligned_cols=37 Identities=14% Similarity=0.094 Sum_probs=28.2
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECC
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSN 45 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~ 45 (65)
.+..+.+.|.+|++.+-..--.-....+..++|++.+
T Consensus 48 ~d~~~~fIDvpgh~~~i~~miag~~~~d~alLvV~~d 84 (447)
T COG3276 48 EDGVMGFIDVPGHPDFISNLLAGLGGIDYALLVVAAD 84 (447)
T ss_pred CCCceEEeeCCCcHHHHHHHHhhhcCCceEEEEEeCc
Confidence 3456788999998887765555566788999999884
No 341
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=59.53 E-value=46 Score=21.64 Aligned_cols=44 Identities=20% Similarity=0.418 Sum_probs=30.7
Q ss_pred EEECCEEEEEEECCCCcCchh------hHHhhhh--CCcEEEEEEECCChhh
Q 037770 6 VEYKNISFTVWDVGGQDKIRP------LWRHYFQ--NTQGLIFVVDSNDRDR 49 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~------~~~~~~~--~~~~ii~v~d~~~~~s 49 (65)
+..++-.+++-|+||.-+... ....|.. ..|.++-|.|.++.++
T Consensus 45 ~~~~~~~i~ivDLPG~YSL~~~S~DE~Var~~ll~~~~D~ivnVvDAtnLeR 96 (653)
T COG0370 45 LKYKGHEIEIVDLPGTYSLTAYSEDEKVARDFLLEGKPDLIVNVVDATNLER 96 (653)
T ss_pred EEecCceEEEEeCCCcCCCCCCCchHHHHHHHHhcCCCCEEEEEcccchHHH
Confidence 444566789999999765432 2233333 4699999999998876
No 342
>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=58.77 E-value=8.8 Score=15.36 Aligned_cols=11 Identities=18% Similarity=0.465 Sum_probs=8.4
Q ss_pred EEEEECCChhh
Q 037770 39 IFVVDSNDRDR 49 (65)
Q Consensus 39 i~v~d~~~~~s 49 (65)
+.++|++++.+
T Consensus 23 l~IvDISnPs~ 33 (42)
T PF08309_consen 23 LVIVDISNPSN 33 (42)
T ss_pred EEEEECCCCCC
Confidence 56889998764
No 343
>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]
Probab=57.68 E-value=36 Score=19.81 Aligned_cols=42 Identities=12% Similarity=0.186 Sum_probs=28.3
Q ss_pred ECCEEEEEEECCCCcCchhh-------HHhhhhCCcEEEEEEECCChhh
Q 037770 8 YKNISFTVWDVGGQDKIRPL-------WRHYFQNTQGLIFVVDSNDRDR 49 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~~-------~~~~~~~~~~ii~v~d~~~~~s 49 (65)
..+..+++.|++|.-+-... --...+.+|.++.|.|.+..+.
T Consensus 106 y~ga~IQllDLPGIieGAsqgkGRGRQviavArtaDlilMvLDatk~e~ 154 (364)
T KOG1486|consen 106 YNGANIQLLDLPGIIEGASQGKGRGRQVIAVARTADLILMVLDATKSED 154 (364)
T ss_pred ecCceEEEecCcccccccccCCCCCceEEEEeecccEEEEEecCCcchh
Confidence 35567899999985432211 1234567899999999986643
No 344
>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]
Probab=57.01 E-value=21 Score=23.12 Aligned_cols=40 Identities=13% Similarity=0.252 Sum_probs=28.3
Q ss_pred EEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECC
Q 037770 6 VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSN 45 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~ 45 (65)
+..++..+.+.|++|+-.+-.=-....+--||.+.+++..
T Consensus 99 ~~w~~~~iNiIDTPGHvDFT~EVeRALrVlDGaVlvl~aV 138 (721)
T KOG0465|consen 99 FTWRDYRINIIDTPGHVDFTFEVERALRVLDGAVLVLDAV 138 (721)
T ss_pred eeeccceeEEecCCCceeEEEEehhhhhhccCeEEEEEcc
Confidence 3445788999999999776544455666677777777654
No 345
>COG4963 CpaE Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]
Probab=55.81 E-value=43 Score=20.13 Aligned_cols=48 Identities=15% Similarity=0.268 Sum_probs=33.2
Q ss_pred EEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHh
Q 037770 11 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRML 61 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~ 61 (65)
..+.++|++ + ....-...+..+++.|++|.+. +.-+..+.++.++++.
T Consensus 218 ~~~vV~Dlp-~-~~~~~t~~vL~~Sd~iviv~e~-sl~slR~ak~lld~l~ 265 (366)
T COG4963 218 FDFVVVDLP-N-IWTDWTRQVLSGSDEIVIVAEP-SLASLRNAKELLDELK 265 (366)
T ss_pred CCeEEEcCC-C-ccchHHHHHHhcCCeEEEEecc-cHHHHHHHHHHHHHHH
Confidence 457789988 2 3333446788899999999877 4445667777766654
No 346
>COG5400 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=54.87 E-value=19 Score=19.30 Aligned_cols=16 Identities=19% Similarity=0.393 Sum_probs=11.2
Q ss_pred CCcEEEEEEECCChhh
Q 037770 34 NTQGLIFVVDSNDRDR 49 (65)
Q Consensus 34 ~~~~ii~v~d~~~~~s 49 (65)
.....++||++.+.+.
T Consensus 131 gsRvmmLvYnL~~v~a 146 (205)
T COG5400 131 GSRVMMLVYNLDDVDA 146 (205)
T ss_pred ceEEEEEEecCCCHHH
Confidence 4456788888877654
No 347
>cd01480 vWA_collagen_alpha_1-VI-type VWA_collagen alpha(VI) type: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=54.46 E-value=30 Score=17.98 Aligned_cols=25 Identities=20% Similarity=0.418 Sum_probs=15.0
Q ss_pred EEEEEECCCh---hhHHHHHHHHHHHhc
Q 037770 38 LIFVVDSNDR---DRIVEARDELHRMLN 62 (65)
Q Consensus 38 ii~v~d~~~~---~sf~~~~~~~~~~~~ 62 (65)
+++++|.|.. +.|+..++.++.+++
T Consensus 5 vv~vlD~S~Sm~~~~~~~~k~~~~~~~~ 32 (186)
T cd01480 5 ITFVLDSSESVGLQNFDITKNFVKRVAE 32 (186)
T ss_pred EEEEEeCCCccchhhHHHHHHHHHHHHH
Confidence 5677787643 456666655555544
No 348
>COG2262 HflX GTPases [General function prediction only]
Probab=54.24 E-value=39 Score=20.64 Aligned_cols=43 Identities=16% Similarity=0.141 Sum_probs=25.9
Q ss_pred EEEEEEECCCCcC-chhhHHhh-------hhCCcEEEEEEECCChhhHHHH
Q 037770 11 ISFTVWDVGGQDK-IRPLWRHY-------FQNTQGLIFVVDSNDRDRIVEA 53 (65)
Q Consensus 11 ~~l~~~d~~g~~~-~~~~~~~~-------~~~~~~ii~v~d~~~~~sf~~~ 53 (65)
-.+-+-||.|--+ .+...-.. -..+|.++.|+|.++++-..++
T Consensus 240 ~~vlLtDTVGFI~~LP~~LV~AFksTLEE~~~aDlllhVVDaSdp~~~~~~ 290 (411)
T COG2262 240 RKVLLTDTVGFIRDLPHPLVEAFKSTLEEVKEADLLLHVVDASDPEILEKL 290 (411)
T ss_pred ceEEEecCccCcccCChHHHHHHHHHHHHhhcCCEEEEEeecCChhHHHHH
Confidence 4566778877322 11111111 2368999999999999654443
No 349
>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=53.44 E-value=17 Score=18.28 Aligned_cols=17 Identities=24% Similarity=0.376 Sum_probs=14.3
Q ss_pred hhhCCcEEEEEEECCCh
Q 037770 31 YFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 31 ~~~~~~~ii~v~d~~~~ 47 (65)
....+|.+++|.|..++
T Consensus 5 ~l~~aD~il~VvD~~~p 21 (157)
T cd01858 5 VIDSSDVVIQVLDARDP 21 (157)
T ss_pred hhhhCCEEEEEEECCCC
Confidence 46689999999999875
No 350
>KOG4378 consensus Nuclear protein COP1 [Signal transduction mechanisms]
Probab=53.17 E-value=23 Score=22.43 Aligned_cols=20 Identities=30% Similarity=0.404 Sum_probs=14.2
Q ss_pred CEEEEEEECCCCcCchhhHH
Q 037770 10 NISFTVWDVGGQDKIRPLWR 29 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~ 29 (65)
+-.+.+||+-|+..+-..-.
T Consensus 186 ~G~VtlwDv~g~sp~~~~~~ 205 (673)
T KOG4378|consen 186 KGAVTLWDVQGMSPIFHASE 205 (673)
T ss_pred CCeEEEEeccCCCcccchhh
Confidence 34578999999887654433
No 351
>KOG1610 consensus Corticosteroid 11-beta-dehydrogenase and related short chain-type dehydrogenases [Secondary metabolites biosynthesis, transport and catabolism; General function prediction only]
Probab=52.82 E-value=21 Score=21.01 Aligned_cols=24 Identities=21% Similarity=0.332 Sum_probs=20.7
Q ss_pred EEEECCChhhHHHHHHHHHHHhcc
Q 037770 40 FVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 40 ~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
+-.|++++++..++.+|.+..+++
T Consensus 81 ~~LDVT~~esi~~a~~~V~~~l~~ 104 (322)
T KOG1610|consen 81 LQLDVTKPESVKEAAQWVKKHLGE 104 (322)
T ss_pred EeeccCCHHHHHHHHHHHHHhccc
Confidence 367999999999999999987765
No 352
>cd01482 vWA_collagen_alphaI-XII-like Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=51.13 E-value=33 Score=17.36 Aligned_cols=25 Identities=24% Similarity=0.397 Sum_probs=15.9
Q ss_pred EEEEEECCC---hhhHHHHHHHHHHHhc
Q 037770 38 LIFVVDSND---RDRIVEARDELHRMLN 62 (65)
Q Consensus 38 ii~v~d~~~---~~sf~~~~~~~~~~~~ 62 (65)
+++++|.|. ...|..+++.+..+++
T Consensus 3 v~~vlD~S~Sm~~~~~~~~k~~~~~l~~ 30 (164)
T cd01482 3 IVFLVDGSWSIGRSNFNLVRSFLSSVVE 30 (164)
T ss_pred EEEEEeCCCCcChhhHHHHHHHHHHHHh
Confidence 466777763 2457777776666654
No 353
>PF02525 Flavodoxin_2: Flavodoxin-like fold; InterPro: IPR003680 This family consists of a domain with a flavodoxin-like fold. The family includes bacterial and eukaryotic NAD(P)H dehydrogenase (quinone) 1.6.99.2 from EC. These enzymes catalyse the NAD(P)H-dependent two-electron reductions of quinones and protect cells against damage by free radicals and reactive oxygen species []. This enzyme uses a FAD cofactor. The equation for this reaction is NAD(P)H + acceptor = NAD(P)(+) + reduced acceptor. This enzyme is also involved in the bioactivation of prodrugs used in chemotherapy []. The family also includes acyl carrier protein phosphodiesterase 3.1.4.14 from EC. This enzyme converts holo-ACP to apo-ACP by hydrolytic cleavage of the phosphopantetheine residue from ACP []. This family is related to FMN_red IPR005025 from INTERPRO and Flavodoxin_1 IPR008254 from INTERPRO.; GO: 0009055 electron carrier activity, 0016491 oxidoreductase activity, 0050662 coenzyme binding; PDB: 1T5B_B 1DXQ_B 2B3D_A 2Z9D_B 2Z9C_A 2Z98_A 2D5I_A 2Z9B_A 1TIK_A 1V4B_A ....
Probab=50.00 E-value=26 Score=18.38 Aligned_cols=33 Identities=6% Similarity=0.027 Sum_probs=25.1
Q ss_pred hhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 30 HYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 30 ~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.-+..+|.+|+.+.+=...--..++.|++++..
T Consensus 74 ~~l~~AD~iV~~~Pl~~~~~Pa~lK~~iD~v~~ 106 (199)
T PF02525_consen 74 EELLWADHIVFAFPLYWFSMPAQLKGWIDRVFT 106 (199)
T ss_dssp HHHHHSSEEEEEEEEBTTBC-HHHHHHHHHHSH
T ss_pred HHHHHcCcceEeccceecccChhHHHHHHHhCc
Confidence 567789999999988766555678888888754
No 354
>cd01458 vWA_ku Ku70/Ku80 N-terminal domain. The Ku78 heterodimer (composed of Ku70 and Ku80) contributes to genomic integrity through its ability to bind DNA double-strand breaks (DSB) in a preferred orientation. DSB's are repaired by either homologues recombination or non-homologues end joining and facilitate repair by the non-homologous end-joining pathway (NHEJ). The Ku heterodimer is required for accurate process that tends to preserve the sequence at the junction. Ku78 is found in all three kingdoms of life. However, only the eukaryotic proteins have a vWA domain fused to them at their N-termini. The vWA domain is not involved in DNA binding but may very likey mediate Ku78's interactions with other proteins. Members of this subgroup lack the conserved MIDAS motif.
Probab=49.55 E-value=41 Score=18.02 Aligned_cols=28 Identities=18% Similarity=0.418 Sum_probs=17.5
Q ss_pred cEEEEEEECCC----------hhhHHHHHHHHHHHhcc
Q 037770 36 QGLIFVVDSND----------RDRIVEARDELHRMLNE 63 (65)
Q Consensus 36 ~~ii~v~d~~~----------~~sf~~~~~~~~~~~~~ 63 (65)
+++++++|++. +..|..+++.+..++++
T Consensus 2 e~ivf~iDvS~SM~~~~~~~~~s~l~~a~~~i~~~~~~ 39 (218)
T cd01458 2 ESVVFLVDVSPSMFESKDGEYESPFEEALKCIRQLMKS 39 (218)
T ss_pred cEEEEEEeCCHHHcCCCCCCCCChHHHHHHHHHHHHHh
Confidence 45666776653 34577777777766653
No 355
>cd01472 vWA_collagen von Willebrand factor (vWF) type A domain; equivalent to the I-domain of integrins. This domain has a variety of functions including: intermolecular adhesion, cell migration, signalling, transcription, and DNA repair. In integrins these domains form heterodimers while in vWF it forms homodimers and multimers. There are different interaction surfaces of this domain as seen by its complexes with collagen with either integrin or human vWFA. In integrins collagen binding occurs via the metal ion-dependent adhesion site (MIDAS) and involves three surface loops located on the upper surface of the molecule. In human vWFA, collagen binding is thought to occur on the bottom of the molecule and does not involve the vestigial MIDAS motif.
Probab=48.88 E-value=36 Score=17.14 Aligned_cols=25 Identities=20% Similarity=0.486 Sum_probs=14.3
Q ss_pred EEEEEECCC---hhhHHHHHHHHHHHhc
Q 037770 38 LIFVVDSND---RDRIVEARDELHRMLN 62 (65)
Q Consensus 38 ii~v~d~~~---~~sf~~~~~~~~~~~~ 62 (65)
+++++|.|. ...++.+++.+..++.
T Consensus 3 vv~vlD~SgSm~~~~~~~~k~~~~~~~~ 30 (164)
T cd01472 3 IVFLVDGSESIGLSNFNLVKDFVKRVVE 30 (164)
T ss_pred EEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence 456777663 2345666666665544
No 356
>KOG2361 consensus Predicted methyltransferase [General function prediction only]
Probab=48.69 E-value=51 Score=18.88 Aligned_cols=49 Identities=20% Similarity=0.341 Sum_probs=27.5
Q ss_pred EEEEEEECCCCcCchhhHHhhhhCCcE--EEEEEECCChhhHHHHHHHHHHHhc
Q 037770 11 ISFTVWDVGGQDKIRPLWRHYFQNTQG--LIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~~~~~~~~--ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
+.--+||+.+...-... .-.+.|+ .|+|++.-.++....+-+-+.++++
T Consensus 124 ~~afv~Dlt~~~~~~~~---~~~svD~it~IFvLSAi~pek~~~a~~nl~~llK 174 (264)
T KOG2361|consen 124 VEAFVWDLTSPSLKEPP---EEGSVDIITLIFVLSAIHPEKMQSVIKNLRTLLK 174 (264)
T ss_pred hcccceeccchhccCCC---CcCccceEEEEEEEeccChHHHHHHHHHHHHHhC
Confidence 44557888876622211 2223333 4667777677777666666555543
No 357
>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=47.16 E-value=30 Score=15.87 Aligned_cols=45 Identities=9% Similarity=0.072 Sum_probs=28.3
Q ss_pred EEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHH
Q 037770 11 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELH 58 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~ 58 (65)
..+-+.|+++...... ...+..++.++++.+. +..++..+.+.++
T Consensus 40 ~d~viiD~p~~~~~~~--~~~l~~ad~viv~~~~-~~~s~~~~~~~~~ 84 (104)
T cd02042 40 YDYIIIDTPPSLGLLT--RNALAAADLVLIPVQP-SPLDLDGLEKLLE 84 (104)
T ss_pred CCEEEEeCcCCCCHHH--HHHHHHCCEEEEeccC-CHHHHHHHHHHHH
Confidence 3466899988654332 2566778888887755 4445555555443
No 358
>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=46.80 E-value=32 Score=16.00 Aligned_cols=38 Identities=8% Similarity=0.107 Sum_probs=26.4
Q ss_pred CcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHH
Q 037770 21 QDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELH 58 (65)
Q Consensus 21 ~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~ 58 (65)
........+.-...+|.+|++.|..+-.....+++.-+
T Consensus 35 ~~~~~~~l~~~i~~aD~VIv~t~~vsH~~~~~vk~~ak 72 (97)
T PF10087_consen 35 DEKKASRLPSKIKKADLVIVFTDYVSHNAMWKVKKAAK 72 (97)
T ss_pred CccchhHHHHhcCCCCEEEEEeCCcChHHHHHHHHHHH
Confidence 33333345677888999999988888777766665543
No 359
>PF12508 DUF3714: Protein of unknown function (DUF3714) ; InterPro: IPR022187 Proteins in this entry are designated TraM and are found in a proposed transfer region of a class of conjugative transposon found in the Bacteroides lineage.
Probab=46.40 E-value=43 Score=18.28 Aligned_cols=23 Identities=26% Similarity=0.755 Sum_probs=16.6
Q ss_pred cEEEEEEC----CEEEEEEECCCCcCc
Q 037770 2 NVETVEYK----NISFTVWDVGGQDKI 24 (65)
Q Consensus 2 ~~~~~~~~----~~~l~~~d~~g~~~~ 24 (65)
+|..+... ++.|.++|+.|++..
T Consensus 106 ~I~SI~~~~~IipV~L~vYD~DG~eGl 132 (200)
T PF12508_consen 106 TITSIEYGGNIIPVELSVYDLDGQEGL 132 (200)
T ss_pred EEEEEEECCEEEEEEEEEECCCCCccc
Confidence 35555555 578899999998764
No 360
>PRK01355 azoreductase; Reviewed
Probab=46.03 E-value=41 Score=17.88 Aligned_cols=32 Identities=3% Similarity=0.116 Sum_probs=21.8
Q ss_pred hhhhCCcEEEEEEECCChhhHHHHHHHHHHHh
Q 037770 30 HYFQNTQGLIFVVDSNDRDRIVEARDELHRML 61 (65)
Q Consensus 30 ~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~ 61 (65)
.-+..+|++|++..+=+-.--..++.|++++.
T Consensus 73 ~~l~~AD~iV~~sP~y~~~ipa~LK~~iDrv~ 104 (199)
T PRK01355 73 NQLKSVDKVVISCPMTNFNVPATLKNYLDHIA 104 (199)
T ss_pred HHHHhCCEEEEEcCccccCChHHHHHHHHHHH
Confidence 45667899999876654444456677777764
No 361
>PF13124 DUF3963: Protein of unknown function (DUF3963)
Probab=46.02 E-value=22 Score=13.90 Aligned_cols=11 Identities=0% Similarity=0.121 Sum_probs=8.9
Q ss_pred HHHHHHHHHHH
Q 037770 50 IVEARDELHRM 60 (65)
Q Consensus 50 f~~~~~~~~~~ 60 (65)
|++.++|++.+
T Consensus 13 fddiqkwirni 23 (40)
T PF13124_consen 13 FDDIQKWIRNI 23 (40)
T ss_pred HHHHHHHHHHH
Confidence 78888888775
No 362
>PRK13556 azoreductase; Provisional
Probab=45.32 E-value=36 Score=18.17 Aligned_cols=33 Identities=6% Similarity=0.026 Sum_probs=22.6
Q ss_pred hhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 30 HYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 30 ~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.-+..+|.+++++..=+-.=-..+|.|++++..
T Consensus 85 ~~l~~AD~iVi~~P~yn~~~Pa~LK~~iD~v~~ 117 (208)
T PRK13556 85 NQFLEADKVVFAFPLWNFTIPAVLHTYIDYLNR 117 (208)
T ss_pred HHHHHCCEEEEeccccccCCcHHHHHHHHHHhc
Confidence 446678999998766554444567788877753
No 363
>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=43.99 E-value=37 Score=15.92 Aligned_cols=10 Identities=20% Similarity=0.292 Sum_probs=6.7
Q ss_pred EEEEEECCCh
Q 037770 38 LIFVVDSNDR 47 (65)
Q Consensus 38 ii~v~d~~~~ 47 (65)
++++||+++.
T Consensus 3 ~lV~YDI~~~ 12 (95)
T TIGR01573 3 VLVVYDIPTD 12 (95)
T ss_pred EEEEEECCCC
Confidence 5667777755
No 364
>cd01478 Sec23-like Sec23-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes of vesicular carriers within the endocytic and the biosynthetic pathways are COP- and clathrin-coated vesicles. Formation of COPII vesicles requires the ordered assembly of the coat built from several cytosolic components GTPase Sar1, complexes of Sec23-Sec24 and Sec13-Sec31. The process is initiated by the conversion of GDP to GTP by the GTPase Sar1 which then recruits the heterodimeric complex of Sec23 and Sec24. This heterodimeric complex generates the pre-budding complex. The final step leading to membrane deformation and budding of COPII-coated vesicles is carried by the heterodimeric complex Sec13-Sec31. The members of this CD belong to the Sec23-like family. Sec 23 is very similar to Sec24. The Sec23 and Sec24
Probab=43.84 E-value=61 Score=18.36 Aligned_cols=27 Identities=22% Similarity=0.346 Sum_probs=17.6
Q ss_pred cEEEEEEECCC-hhhHHHHHHHHHHHhc
Q 037770 36 QGLIFVVDSND-RDRIVEARDELHRMLN 62 (65)
Q Consensus 36 ~~ii~v~d~~~-~~sf~~~~~~~~~~~~ 62 (65)
..++||+|++- ..+++.+++.+.+.++
T Consensus 4 p~~vFviDvs~~~~el~~l~~sl~~~L~ 31 (267)
T cd01478 4 PVFLFVVDTCMDEEELDALKESLIMSLS 31 (267)
T ss_pred CEEEEEEECccCHHHHHHHHHHHHHHHH
Confidence 46789999984 4446666666655543
No 365
>COG1343 CRISPR-associated protein Cas2 [Defense mechanisms]
Probab=43.01 E-value=39 Score=15.97 Aligned_cols=12 Identities=25% Similarity=0.315 Sum_probs=9.0
Q ss_pred EEEEEEECCChh
Q 037770 37 GLIFVVDSNDRD 48 (65)
Q Consensus 37 ~ii~v~d~~~~~ 48 (65)
-+++|||+++..
T Consensus 2 ~vlvvYDI~~d~ 13 (89)
T COG1343 2 YVLVVYDISDDG 13 (89)
T ss_pred EEEEEEecCCcH
Confidence 367889998764
No 366
>PF09005 DUF1897: Domain of unknown function (DUF1897); InterPro: IPR015096 This domain is found in Psi proteins produced by Drosophila, and in various eukaryotic hypothetical proteins. It has no known function. ; PDB: 2BN6_A 2BN5_A.
Probab=41.67 E-value=11 Score=14.93 Aligned_cols=17 Identities=29% Similarity=0.823 Sum_probs=9.1
Q ss_pred CCCcCchhhHHhhhhCC
Q 037770 19 GGQDKIRPLWRHYFQNT 35 (65)
Q Consensus 19 ~g~~~~~~~~~~~~~~~ 35 (65)
.|+..|...|..||++.
T Consensus 6 ~gq~DYSaqW~eYYr~~ 22 (38)
T PF09005_consen 6 GGQPDYSAQWAEYYRQI 22 (38)
T ss_dssp ------CCHHHHHHCCC
T ss_pred CCCCCHHHHHHHHHHHc
Confidence 46777888999998863
No 367
>cd01464 vWA_subfamily VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if
Probab=41.17 E-value=52 Score=16.84 Aligned_cols=23 Identities=13% Similarity=0.351 Sum_probs=12.2
Q ss_pred EEEEEECCCh---hhHHHHHHHHHHH
Q 037770 38 LIFVVDSNDR---DRIVEARDELHRM 60 (65)
Q Consensus 38 ii~v~d~~~~---~sf~~~~~~~~~~ 60 (65)
+++++|.|.. +.+..+++.+..+
T Consensus 6 v~~llD~SgSM~~~~~~~~k~a~~~~ 31 (176)
T cd01464 6 IYLLLDTSGSMAGEPIEALNQGLQML 31 (176)
T ss_pred EEEEEECCCCCCChHHHHHHHHHHHH
Confidence 5667776632 3455555544444
No 368
>PRK13660 hypothetical protein; Provisional
Probab=41.16 E-value=59 Score=17.47 Aligned_cols=25 Identities=20% Similarity=0.433 Sum_probs=18.4
Q ss_pred chhhHHhhhhCCcEEEEEEECCChh
Q 037770 24 IRPLWRHYFQNTQGLIFVVDSNDRD 48 (65)
Q Consensus 24 ~~~~~~~~~~~~~~ii~v~d~~~~~ 48 (65)
++....-+..+++++|.+||-..+.
T Consensus 119 ~~~rn~fmv~~sd~~i~~YD~e~~G 143 (182)
T PRK13660 119 FRQYNQFMLEHTDGALLVYDEENEG 143 (182)
T ss_pred HHHHHHHHHHccCeEEEEEcCCCCC
Confidence 4555566778899999999976543
No 369
>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=40.92 E-value=35 Score=17.44 Aligned_cols=19 Identities=16% Similarity=0.050 Sum_probs=13.7
Q ss_pred HhhhhCCcEEEEEEECCCh
Q 037770 29 RHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 29 ~~~~~~~~~ii~v~d~~~~ 47 (65)
......+|.+++|+|.+++
T Consensus 14 ~~~i~~aD~il~v~D~~~~ 32 (171)
T cd01856 14 KEKLKLVDLVIEVRDARIP 32 (171)
T ss_pred HHHHhhCCEEEEEeeccCc
Confidence 3456678888888888654
No 370
>PRK03459 rnpA ribonuclease P; Reviewed
Probab=40.61 E-value=49 Score=16.41 Aligned_cols=30 Identities=10% Similarity=0.096 Sum_probs=18.7
Q ss_pred CCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 34 NTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 34 ~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
+.|.+++.-......+|.++.+.+..+++.
T Consensus 85 g~D~Viiar~~~~~~~~~~l~~~l~~ll~k 114 (122)
T PRK03459 85 THHVVIRALPGAATASSAELERDVRAGLGK 114 (122)
T ss_pred CcEEEEEECcccccCCHHHHHHHHHHHHHH
Confidence 456666554444555677777777776653
No 371
>PF04811 Sec23_trunk: Sec23/Sec24 trunk domain; InterPro: IPR006896 COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex []. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation []. Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger (IPR006895 from INTERPRO), an alpha/beta trunk domain, an all-helical region (IPR006900 from INTERPRO), and a C-terminal gelsolin-like domain (IPR007123 from INTERPRO). This entry describes the Sec23/24 alpha/beta trunk domain, which is formed from a single, approximately 250-residue segment plugged into the beta-barrel between strands beta-1 and beta-19. The trunk has an alpha/beta fold with a vWA topology, and it forms the dimer interface, primarily involving strand beta-14 on Sec23 and Sec24; in addition, the trunk domain of Sec23 contacts Sar1.; GO: 0006886 intracellular protein transport, 0006888 ER to Golgi vesicle-mediated transport, 0030127 COPII vesicle coat; PDB: 3EGD_A 2NUP_A 3EG9_A 3EFO_A 3EGX_A 2NUT_A 1PD0_A 1PD1_A 1M2V_B 1PCX_A ....
Probab=39.80 E-value=66 Score=17.60 Aligned_cols=29 Identities=17% Similarity=0.280 Sum_probs=18.4
Q ss_pred CcEEEEEEECCCh----hhHHHHHHHHHHHhcc
Q 037770 35 TQGLIFVVDSNDR----DRIVEARDELHRMLNE 63 (65)
Q Consensus 35 ~~~ii~v~d~~~~----~sf~~~~~~~~~~~~~ 63 (65)
...+++|+|++-. ..++.+.+.+...++.
T Consensus 3 pp~y~FvID~s~~av~~g~~~~~~~sl~~~l~~ 35 (243)
T PF04811_consen 3 PPVYVFVIDVSYEAVQSGLLQSLIESLKSALDS 35 (243)
T ss_dssp --EEEEEEE-SHHHHHHTHHHHHHHHHHHHGCT
T ss_pred CCEEEEEEECchhhhhccHHHHHHHHHHHHHHh
Confidence 3568899999843 4567777777776654
No 372
>PRK13555 azoreductase; Provisional
Probab=39.56 E-value=56 Score=17.73 Aligned_cols=34 Identities=6% Similarity=-0.001 Sum_probs=23.9
Q ss_pred HhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 29 RHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 29 ~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..-+..+|.+++++..=+-.--..+|.|++++..
T Consensus 84 ~~~~~~AD~lvi~~P~~n~~~Pa~LK~~iD~v~~ 117 (208)
T PRK13555 84 LNQFLEADKVVFAFPLWNFTVPAPLITYISYLSQ 117 (208)
T ss_pred HHHHHHcCEEEEEcCcccccchHHHHHHHHHHhc
Confidence 3456678999998877655545567888887754
No 373
>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=39.02 E-value=47 Score=20.07 Aligned_cols=32 Identities=16% Similarity=0.414 Sum_probs=21.5
Q ss_pred EEEEEECCCCcCchhhHHhhhhC---CcEEEEEEECCC
Q 037770 12 SFTVWDVGGQDKIRPLWRHYFQN---TQGLIFVVDSND 46 (65)
Q Consensus 12 ~l~~~d~~g~~~~~~~~~~~~~~---~~~ii~v~d~~~ 46 (65)
.+.+.|.+|++-.- ..++.+ .||.++|++.+.
T Consensus 87 ~VSfVDaPGHe~LM---ATMLsGAAlMDgAlLvIaANE 121 (415)
T COG5257 87 RVSFVDAPGHETLM---ATMLSGAALMDGALLVIAANE 121 (415)
T ss_pred EEEEeeCCchHHHH---HHHhcchhhhcceEEEEecCC
Confidence 46788999976543 334444 478888888764
No 374
>TIGR00578 ku70 ATP-dependent DNA helicase ii, 70 kDa subunit (ku70). Proteins in this family are involved in non-homologous end joining, a process used for the repair of double stranded DNA breaks. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Cutoff does not detect the putative ku70 homologs in yeast.
Probab=38.73 E-value=77 Score=20.21 Aligned_cols=14 Identities=36% Similarity=0.693 Sum_probs=11.6
Q ss_pred hCCcEEEEEEECCC
Q 037770 33 QNTQGLIFVVDSND 46 (65)
Q Consensus 33 ~~~~~ii~v~d~~~ 46 (65)
...+|+|+++|++.
T Consensus 8 ~~keailflIDvs~ 21 (584)
T TIGR00578 8 SGRDSLIFLVDASK 21 (584)
T ss_pred cceeEEEEEEECCH
Confidence 46799999999974
No 375
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.72 E-value=85 Score=19.52 Aligned_cols=42 Identities=21% Similarity=0.347 Sum_probs=26.5
Q ss_pred ECCEEEEEEECCCCcCchh-hHH-----hhhhCCcEEEEEEECCChhh
Q 037770 8 YKNISFTVWDVGGQDKIRP-LWR-----HYFQNTQGLIFVVDSNDRDR 49 (65)
Q Consensus 8 ~~~~~l~~~d~~g~~~~~~-~~~-----~~~~~~~~ii~v~d~~~~~s 49 (65)
..++.+-+.||+|...... +.. .-.-+.+-+|+|.|.+--+.
T Consensus 181 ke~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDasiGQa 228 (483)
T KOG0780|consen 181 KENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDASIGQA 228 (483)
T ss_pred hcCCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEeccccHh
Confidence 3557888999999655332 111 11225678999999984433
No 376
>PRK00170 azoreductase; Reviewed
Probab=38.70 E-value=47 Score=17.38 Aligned_cols=31 Identities=3% Similarity=0.039 Sum_probs=21.2
Q ss_pred hhhCCcEEEEEEECCChhhHHHHHHHHHHHh
Q 037770 31 YFQNTQGLIFVVDSNDRDRIVEARDELHRML 61 (65)
Q Consensus 31 ~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~ 61 (65)
-...+|++|++..+=.-.--..++.|++++.
T Consensus 83 ~i~~AD~iV~~sP~y~~~~pa~LK~~iDrv~ 113 (201)
T PRK00170 83 EFLAADKIVIAAPMYNFSIPTQLKAYIDLIA 113 (201)
T ss_pred HHHHCCEEEEeecccccCCcHHHHHHHHhhe
Confidence 3567899999876654444456777777764
No 377
>PRK01313 rnpA ribonuclease P; Reviewed
Probab=38.45 E-value=56 Score=16.45 Aligned_cols=31 Identities=16% Similarity=0.155 Sum_probs=19.5
Q ss_pred CCcEEEEEEECCChhhHHHHHHHHHHHhccc
Q 037770 34 NTQGLIFVVDSNDRDRIVEARDELHRMLNEV 64 (65)
Q Consensus 34 ~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~~ 64 (65)
+.|.|+++-......+|.++.+.+...++..
T Consensus 85 g~DiVivar~~~~~~~~~~l~~~L~~~l~~~ 115 (129)
T PRK01313 85 GTDYVIVARRDALNAPFSQLTEELSRRIEAK 115 (129)
T ss_pred CceEEEEECcccccCCHHHHHHHHHHHHHhh
Confidence 3455555544445567888888777776543
No 378
>PF06577 DUF1134: Protein of unknown function (DUF1134); InterPro: IPR008325 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=38.41 E-value=64 Score=17.07 Aligned_cols=16 Identities=19% Similarity=0.341 Sum_probs=11.7
Q ss_pred CCcEEEEEEECCChhh
Q 037770 34 NTQGLIFVVDSNDRDR 49 (65)
Q Consensus 34 ~~~~ii~v~d~~~~~s 49 (65)
.+...++||++.+.+.
T Consensus 86 ~~r~~~LVYnL~~~~~ 101 (160)
T PF06577_consen 86 GSRVFMLVYNLPDPDD 101 (160)
T ss_pred ceEEEEEEEcCCCHHH
Confidence 4556788888887765
No 379
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=38.10 E-value=78 Score=17.94 Aligned_cols=45 Identities=16% Similarity=0.263 Sum_probs=27.7
Q ss_pred CCEEEEEEECCCCcCchhhHH-------hh-----hhCCcEEEEEEECCCh-hhHHHH
Q 037770 9 KNISFTVWDVGGQDKIRPLWR-------HY-----FQNTQGLIFVVDSNDR-DRIVEA 53 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~-------~~-----~~~~~~ii~v~d~~~~-~sf~~~ 53 (65)
.+..+-+.|++|........- .. -...+.+++|.|.+.. +.+..+
T Consensus 153 ~~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~~~~~~~ 210 (272)
T TIGR00064 153 RNIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQNALEQA 210 (272)
T ss_pred CCCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCHHHHHHH
Confidence 346788999999876433211 01 1237889999999743 344444
No 380
>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein. Members of this protein family belong to the MinD/ParA family of P-loop NTPases, and in particular show homology to the CpaE family of pilus assembly proteins (see PubMed:12370432). Nearly all members are found, not only in a gene context consistent with pilus biogenesis or a pilus-like secretion apparatus, but also near a DEAD/DEAH-box helicase, suggesting an involvement in DNA transfer activity. The model describes a clade restricted to the Actinobacteria.
Probab=37.75 E-value=81 Score=18.06 Aligned_cols=48 Identities=13% Similarity=0.072 Sum_probs=31.4
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHH
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRM 60 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~ 60 (65)
...+.+.|+++.... ........++.++++.+. +..+...+++.++.+
T Consensus 204 ~~D~VIID~p~~~~~--~~~~~L~~AD~vliV~~~-~~~sl~~a~r~l~~l 251 (322)
T TIGR03815 204 GGDLVVVDLPRRLTP--AAETALESADLVLVVVPA-DVRAVAAAARVCPEL 251 (322)
T ss_pred cCCEEEEeCCCCCCH--HHHHHHHHCCEEEEEcCC-cHHHHHHHHHHHHHH
Confidence 356789999976543 345567889998888755 444555665555443
No 381
>PF12123 Amidase02_C: N-acetylmuramoyl-l-alanine amidase; InterPro: IPR021976 This domain is found in bacteria and viruses. This domain is about 50 amino acids in length. This domain is classified with the enzyme classification code 3.5.1.28 from EC. This domain is the C-terminal of the enzyme which hydrolyses the link between N-acetylmuramoyl residues and L-amino acid residues in certain cell-wall glycopeptides. ; PDB: 2L48_B.
Probab=37.68 E-value=36 Score=13.97 Aligned_cols=24 Identities=21% Similarity=0.262 Sum_probs=13.2
Q ss_pred cEEEEEE-ECCChhhHHHHHHHHHH
Q 037770 36 QGLIFVV-DSNDRDRIVEARDELHR 59 (65)
Q Consensus 36 ~~ii~v~-d~~~~~sf~~~~~~~~~ 59 (65)
+|+.++. +..+...++..+.|+++
T Consensus 14 ~Gl~y~vT~~~s~~~L~k~~~wld~ 38 (45)
T PF12123_consen 14 DGLPYFVTDPLSDAELDKFTAWLDE 38 (45)
T ss_dssp TS-EEEEE----HHHHHHHHHHHHH
T ss_pred CCcEEEEeCCCCHHHHHHHHHHHHh
Confidence 5666555 45556668888888764
No 382
>PRK13957 indole-3-glycerol-phosphate synthase; Provisional
Probab=37.25 E-value=80 Score=17.87 Aligned_cols=29 Identities=7% Similarity=0.045 Sum_probs=21.5
Q ss_pred hhHHhhhhCCcEEEEEEECCChhhHHHHH
Q 037770 26 PLWRHYFQNTQGLIFVVDSNDRDRIVEAR 54 (65)
Q Consensus 26 ~~~~~~~~~~~~ii~v~d~~~~~sf~~~~ 54 (65)
+....+..++|++++.+.+.+++.+.+..
T Consensus 116 QI~ea~~~GADavLLI~~~L~~~~l~~l~ 144 (247)
T PRK13957 116 QIREARAFGASAILLIVRILTPSQIKSFL 144 (247)
T ss_pred HHHHHHHcCCCEEEeEHhhCCHHHHHHHH
Confidence 45566778999999999888776655543
No 383
>TIGR00188 rnpA ribonuclease P protein component, eubacterial. The yeast mitochondrial RNase P protein component gene RPM2 has no obvious sequence similarity to rnpA, but resembles eukaryotic nuclear RNase P instead.
Probab=37.16 E-value=52 Score=15.68 Aligned_cols=29 Identities=7% Similarity=-0.017 Sum_probs=20.4
Q ss_pred hCCcEEEEEEECCChhhHHHHHHHHHHHh
Q 037770 33 QNTQGLIFVVDSNDRDRIVEARDELHRML 61 (65)
Q Consensus 33 ~~~~~ii~v~d~~~~~sf~~~~~~~~~~~ 61 (65)
.+.|.++++-......++.++.+.+..++
T Consensus 76 ~~~d~v~i~r~~~~~~~~~~l~~~l~~l~ 104 (105)
T TIGR00188 76 KALDVVVIVRKGFSELTYEAFLKLLLQLF 104 (105)
T ss_pred CCccEEEEECCCcCcCCHHHHHHHHHHHh
Confidence 35677777666666777888887777664
No 384
>PRK00499 rnpA ribonuclease P; Reviewed
Probab=37.11 E-value=54 Score=15.88 Aligned_cols=29 Identities=10% Similarity=0.085 Sum_probs=17.8
Q ss_pred CCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 34 NTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 34 ~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
+.+.++++-......+|.++.+.+..++.
T Consensus 75 ~~d~v~i~r~~~~~~~~~~l~~~l~~ll~ 103 (114)
T PRK00499 75 GYDFVVIARKPAAELDYKEIKKSLIHVLK 103 (114)
T ss_pred CceEEEEECCCcccCCHHHHHHHHHHHHH
Confidence 45555555444555667777777766654
No 385
>PRK09739 hypothetical protein; Provisional
Probab=37.01 E-value=53 Score=17.37 Aligned_cols=33 Identities=12% Similarity=0.027 Sum_probs=22.9
Q ss_pred HhhhhCCcEEEEEEECCChhhHHHHHHHHHHHh
Q 037770 29 RHYFQNTQGLIFVVDSNDRDRIVEARDELHRML 61 (65)
Q Consensus 29 ~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~ 61 (65)
..-+..+|++|+.+..=.-.--..++.|++++.
T Consensus 74 ~~~l~~AD~iV~~~P~y~~~~Pa~LK~~iD~v~ 106 (199)
T PRK09739 74 YSELLEHDALVFVFPLWWYSFPAMLKGYIDRVW 106 (199)
T ss_pred HHHHHhCCEEEEECchhhhcchHHHHHHHHHHc
Confidence 345668999999876655444456778887764
No 386
>TIGR00092 GTP-binding protein YchF. This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.
Probab=36.97 E-value=96 Score=18.69 Aligned_cols=35 Identities=11% Similarity=0.079 Sum_probs=25.6
Q ss_pred EEEEEEECCCCcC-------chhhHHhhhhCCcEEEEEEECC
Q 037770 11 ISFTVWDVGGQDK-------IRPLWRHYFQNTQGLIFVVDSN 45 (65)
Q Consensus 11 ~~l~~~d~~g~~~-------~~~~~~~~~~~~~~ii~v~d~~ 45 (65)
..+.+.|++|-.. ..+..-...+.+++++.|++..
T Consensus 67 a~i~~~DiaGlv~gAs~g~Glgn~fL~~ir~~d~l~hVvr~f 108 (368)
T TIGR00092 67 TTTEFVDIAGLVGGASKGEGLGNQFLANIREVDIIQHVVRCF 108 (368)
T ss_pred ceEEEEeccccccchhcccCcchHHHHHHHhCCEEEEEEeCC
Confidence 4578889998544 2234455788999999999885
No 387
>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme. Orthologues of these genes are found in all completed eukaryotic genomes and all these proteins contain a VWA domain. The p44 subunit of TFIIH functions as a DNA helicase in RNA polymerase II transcription initiation and DNA repair, and its transcriptional activity is dependent on its C-terminal Zn-binding domains. The function of the vWA domain is unclear, but may be involved in complex assembly. The MIDAS motif is not conserved in this sub-group.
Probab=36.60 E-value=68 Score=16.84 Aligned_cols=25 Identities=24% Similarity=0.401 Sum_probs=16.5
Q ss_pred EEEEEECCCh--------hhHHHHHHHHHHHhc
Q 037770 38 LIFVVDSNDR--------DRIVEARDELHRMLN 62 (65)
Q Consensus 38 ii~v~d~~~~--------~sf~~~~~~~~~~~~ 62 (65)
+++++|.|.. .+++.++..+.++++
T Consensus 6 ivi~lD~S~SM~a~D~~ptRl~~ak~~~~~fi~ 38 (183)
T cd01453 6 LIIVIDCSRSMEEQDLKPSRLAVVLKLLELFIE 38 (183)
T ss_pred EEEEEECcHHHhcCCCCchHHHHHHHHHHHHHH
Confidence 5667777643 577777777766554
No 388
>COG2249 MdaB Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]
Probab=36.46 E-value=50 Score=17.74 Aligned_cols=35 Identities=3% Similarity=-0.126 Sum_probs=24.5
Q ss_pred HHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 28 WRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 28 ~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
...-+..+|.++++|.+==...-.-+|.|++++..
T Consensus 61 E~e~l~~AD~ivlqfPlwW~~~PaiLKg~iDrV~~ 95 (189)
T COG2249 61 EQEKLLWADVIVLQFPLWWYSMPALLKGWIDRVFT 95 (189)
T ss_pred HHHHHHhcceEEEEcCchhccCcHHHHHHHHHHhc
Confidence 34567789999999877533334567888888764
No 389
>cd01468 trunk_domain trunk domain. COPII-coated vesicles carry proteins from the endoplasmic reticulum to the Golgi complex. This vesicular transport can be reconstituted by using three cytosolic components containing five proteins: the small GTPase Sar1p, the Sec23p/24p complex, and the Sec13p/Sec31p complex. This domain is known as the trunk domain and has an alpha/beta vWA fold and forms the dimer interface. Some members of this family possess a partial MIDAS motif that is a characteristic feature of most vWA domain proteins.
Probab=34.64 E-value=83 Score=17.24 Aligned_cols=28 Identities=18% Similarity=0.326 Sum_probs=18.8
Q ss_pred CcEEEEEEECCCh----hhHHHHHHHHHHHhc
Q 037770 35 TQGLIFVVDSNDR----DRIVEARDELHRMLN 62 (65)
Q Consensus 35 ~~~ii~v~d~~~~----~sf~~~~~~~~~~~~ 62 (65)
...+++|+|++.. +.++.+.+.+...++
T Consensus 3 pp~~vFvID~s~~ai~~~~l~~~~~sl~~~l~ 34 (239)
T cd01468 3 PPVFVFVIDVSYEAIKEGLLQALKESLLASLD 34 (239)
T ss_pred CCEEEEEEEcchHhccccHHHHHHHHHHHHHH
Confidence 3567899999854 456666666666554
No 390
>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=34.47 E-value=57 Score=15.34 Aligned_cols=44 Identities=16% Similarity=0.182 Sum_probs=26.6
Q ss_pred EEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHHH
Q 037770 12 SFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDELH 58 (65)
Q Consensus 12 ~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~ 58 (65)
.+-+.|+++..... ....+..++.++++.+.+ ..+...+...++
T Consensus 44 D~IIiDtpp~~~~~--~~~~l~~aD~vlvvv~~~-~~s~~~~~~~~~ 87 (106)
T cd03111 44 DYVVVDLGRSLDEV--SLAALDQADRVFLVTQQD-LPSIRNAKRLLE 87 (106)
T ss_pred CEEEEeCCCCcCHH--HHHHHHHcCeEEEEecCC-hHHHHHHHHHHH
Confidence 56789998865432 234667888888887554 333444444433
No 391
>COG4679 Phage-related protein [Function unknown]
Probab=33.83 E-value=68 Score=16.05 Aligned_cols=34 Identities=12% Similarity=0.182 Sum_probs=21.9
Q ss_pred EEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEEC
Q 037770 6 VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDS 44 (65)
Q Consensus 6 ~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~ 44 (65)
+...-.++.+||..|.. +..|...-++.++|..+
T Consensus 53 ~G~gv~El~i~~~~g~~-----R~~y~~~~~~~vyvLH~ 86 (116)
T COG4679 53 IGPGVKELRIRDARGIY-----RVFYVAKFDEAVYVLHC 86 (116)
T ss_pred cCCCeeEEEeeccCCce-----EEEEEEEecceEEeehh
Confidence 33334578899988864 23466667777777644
No 392
>COG4352 RPL13 Ribosomal protein L13E [Translation, ribosomal structure and biogenesis]
Probab=33.59 E-value=67 Score=15.89 Aligned_cols=20 Identities=5% Similarity=0.288 Sum_probs=15.6
Q ss_pred CChhhHHHHHHHHHHHhccc
Q 037770 45 NDRDRIVEARDELHRMLNEV 64 (65)
Q Consensus 45 ~~~~sf~~~~~~~~~~~~~~ 64 (65)
.+++.|+.+.+++++++++.
T Consensus 90 ~~~en~eal~k~ik~ll~~~ 109 (113)
T COG4352 90 RNPENFEALVKRIKELLEKI 109 (113)
T ss_pred CCHHHHHHHHHHHHHHHhcC
Confidence 36778999999999887653
No 393
>cd01471 vWA_micronemal_protein Micronemal proteins: The Toxoplasma lytic cycle begins when the parasite actively invades a target cell. In association with invasion, T. gondii sequentially discharges three sets of secretory organelles beginning with the micronemes, which contain adhesive proteins involved in parasite attachment to a host cell. Deployed as protein complexes, several micronemal proteins possess vertebrate-derived adhesive sequences that function in binding receptors. The VWA domain likely mediates the protein-protein interactions of these with their interacting partners.
Probab=33.58 E-value=74 Score=16.37 Aligned_cols=25 Identities=20% Similarity=0.376 Sum_probs=14.5
Q ss_pred EEEEEECCCh---hh-HHHHHHHHHHHhc
Q 037770 38 LIFVVDSNDR---DR-IVEARDELHRMLN 62 (65)
Q Consensus 38 ii~v~d~~~~---~s-f~~~~~~~~~~~~ 62 (65)
+++++|.|.. .. +..++..+..+++
T Consensus 3 v~~vlD~SgSm~~~~~~~~~k~~~~~~~~ 31 (186)
T cd01471 3 LYLLVDGSGSIGYSNWVTHVVPFLHTFVQ 31 (186)
T ss_pred EEEEEeCCCCccchhhHHHHHHHHHHHHH
Confidence 4667777643 23 5666666665554
No 394
>PRK00396 rnpA ribonuclease P; Reviewed
Probab=33.45 E-value=46 Score=16.78 Aligned_cols=30 Identities=3% Similarity=-0.017 Sum_probs=18.3
Q ss_pred hCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 33 QNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 33 ~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.+.|.|+++-......++.++.+.+..+++
T Consensus 82 ~g~DiVviaR~~~~~~~~~~l~~~l~~ll~ 111 (130)
T PRK00396 82 AGWDIVVVARKGLGELENPELHQQFGKLWK 111 (130)
T ss_pred CCeeEEEEeCCCcccCCHHHHHHHHHHHHH
Confidence 456666666555555566777666666554
No 395
>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]
Probab=33.30 E-value=1.2e+02 Score=18.51 Aligned_cols=37 Identities=16% Similarity=0.219 Sum_probs=27.2
Q ss_pred CEEEEEEECCCCcC-------chhhHHhhhhCCcEEEEEEECCC
Q 037770 10 NISFTVWDVGGQDK-------IRPLWRHYFQNTQGLIFVVDSND 46 (65)
Q Consensus 10 ~~~l~~~d~~g~~~-------~~~~~~~~~~~~~~ii~v~d~~~ 46 (65)
...+++.|.+|-.+ ..+..-...+.+++++-|++...
T Consensus 66 ~~~ve~vDIAGLV~GAs~GeGLGNkFL~~IRevdaI~hVVr~f~ 109 (372)
T COG0012 66 PAPVEFVDIAGLVKGASKGEGLGNKFLDNIREVDAIIHVVRCFG 109 (372)
T ss_pred eeeeEEEEecccCCCcccCCCcchHHHHhhhhcCeEEEEEEecC
Confidence 35788999998543 33455667788999999998864
No 396
>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=32.61 E-value=62 Score=15.20 Aligned_cols=33 Identities=6% Similarity=0.189 Sum_probs=20.0
Q ss_pred hhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 30 HYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 30 ~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.-++++.++++-+.....-++.++.+..+.+.+
T Consensus 31 ~~i~~A~~vLvni~~~~d~~l~ev~~~~~~i~~ 63 (95)
T PF12327_consen 31 VDIKGAKGVLVNITGGPDLSLSEVNEAMEIIRE 63 (95)
T ss_dssp S-GGG-SEEEEEEEE-TTS-HHHHHHHHHHHHH
T ss_pred CChHHhceEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence 456788899888877665667777666655543
No 397
>PF00218 IGPS: Indole-3-glycerol phosphate synthase; InterPro: IPR013798 Indole-3-glycerol phosphate synthase (4.1.1.48 from EC) (IGPS) catalyses the fourth step in the biosynthesis of tryptophan, the ring closure of 1-(2-carboxy-phenylamino)-1-deoxyribulose into indol-3-glycerol-phosphate. In some bacteria, IGPS is a single chain enzyme. In others, such as Escherichia coli, it is the N-terminal domain of a bifunctional enzyme that also catalyses N-(5'-phosphoribosyl)anthranilate isomerase (5.3.1.24 from EC) (PRAI) activity (see IPR001240 from INTERPRO), the third step of tryptophan biosynthesis. In fungi, IGPS is the central domain of a trifunctional enzyme that contains a PRAI C-terminal domain and a glutamine amidotransferase (2.4.2 from EC) (GATase) N-terminal domain (see IPR000991 from INTERPRO). A structure of the IGPS domain of the bifunctional enzyme from the mesophilic bacterium E. coli (eIGPS) has been compared with the monomeric indole-3-glycerol phosphate synthase from the hyperthermophilic archaeon Sulfolobus solfataricus (sIGPS). Both are single-domain (beta/alpha)8 barrel proteins, with one (eIGPS) or two (sIGPS) additional helices inserted before the first beta strand []. ; GO: 0004425 indole-3-glycerol-phosphate synthase activity; PDB: 1VC4_A 1PII_A 1JCM_P 1I4N_B 1J5T_A 3TSM_B 4FB7_A 3QJA_A 1JUL_A 2C3Z_A ....
Probab=32.52 E-value=68 Score=18.18 Aligned_cols=30 Identities=7% Similarity=0.216 Sum_probs=21.4
Q ss_pred hhHHhhhhCCcEEEEEEECCChhhHHHHHH
Q 037770 26 PLWRHYFQNTQGLIFVVDSNDRDRIVEARD 55 (65)
Q Consensus 26 ~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~ 55 (65)
+.+.....++|++++...+.+.+.+.++-+
T Consensus 123 QI~eA~~~GADaVLLI~~~L~~~~l~~l~~ 152 (254)
T PF00218_consen 123 QIYEARAAGADAVLLIAAILSDDQLEELLE 152 (254)
T ss_dssp HHHHHHHTT-SEEEEEGGGSGHHHHHHHHH
T ss_pred HHHHHHHcCCCEeehhHHhCCHHHHHHHHH
Confidence 456777889999999988887776555443
No 398
>cd03071 PDI_b'_NRX PDIb' family, NRX subgroup, redox inactive TRX-like domain b'; composed of vertebrate nucleoredoxins (NRX). NRX is a 400-amino acid nuclear protein with one redox active TRX domain followed by one redox inactive TRX-like domain homologous to the b' domain of PDI. In vitro studies show that NRX has thiol oxidoreductase activity and that it may be involved in the redox regulation of transcription, in a manner different from that of TRX or glutaredoxin. NRX enhances the activation of NF-kB by TNFalpha, as well as PMA-1 induced AP-1 and FK-induced CREB activation. Mouse NRX transcripts are expressed in all adult tissues but is restricted to the nervous system and limb buds in embryos. The mouse NRX gene is implicated in streptozotocin-induced diabetes. Similar to PDI, the b' domain of NRX is likely involved in substrate recognition.
Probab=32.51 E-value=72 Score=15.89 Aligned_cols=30 Identities=20% Similarity=0.325 Sum_probs=20.7
Q ss_pred hCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 33 QNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 33 ~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
....++++..|..+....+.+++.++.+-+
T Consensus 13 n~~p~lvlf~D~Edeg~l~~A~~llQpiAd 42 (116)
T cd03071 13 NEGPCLVLFVDSEDEGESEAAKQLIQPIAE 42 (116)
T ss_pred cCCceEEEEecccchhhHHHHHHHHHHHHH
Confidence 345567777788777677777777776644
No 399
>cd01479 Sec24-like Sec24-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes of vesicular carriers within the endocytic and the biosynthetic pathways are COP- and clathrin-coated vesicles. Formation of COPII vesicles requires the ordered assembly of the coat built from several cytosolic components GTPase Sar1, complexes of Sec23-Sec24 and Sec13-Sec31. The process is initiated by the conversion of GDP to GTP by the GTPase Sar1 which then recruits the heterodimeric complex of Sec23 and Sec24. This heterodimeric complex generates the pre-budding complex. The final step leading to membrane deformation and budding of COPII-coated vesicles is carried by the heterodimeric complex Sec13-Sec31. The members of this CD belong to the Sec23-like family. Sec 24 is very similar to Sec23. The Sec23 and Sec24
Probab=31.97 E-value=96 Score=17.19 Aligned_cols=28 Identities=18% Similarity=0.273 Sum_probs=17.7
Q ss_pred CcEEEEEEECCChh----hHHHHHHHHHHHhc
Q 037770 35 TQGLIFVVDSNDRD----RIVEARDELHRMLN 62 (65)
Q Consensus 35 ~~~ii~v~d~~~~~----sf~~~~~~~~~~~~ 62 (65)
...++||+|++-.. .++.+.+.+...++
T Consensus 3 pp~~~FvIDvs~~a~~~g~~~~~~~si~~~L~ 34 (244)
T cd01479 3 PAVYVFLIDVSYNAIKSGLLATACEALLSNLD 34 (244)
T ss_pred CCEEEEEEEccHHHHhhChHHHHHHHHHHHHH
Confidence 35688999997543 25556666655554
No 400
>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=31.53 E-value=1e+02 Score=17.28 Aligned_cols=35 Identities=17% Similarity=0.402 Sum_probs=23.1
Q ss_pred EEEEEEECCCCcCc-------------hhhHHhhhhC-CcEEEEEEECC
Q 037770 11 ISFTVWDVGGQDKI-------------RPLWRHYFQN-TQGLIFVVDSN 45 (65)
Q Consensus 11 ~~l~~~d~~g~~~~-------------~~~~~~~~~~-~~~ii~v~d~~ 45 (65)
..+.+.|++|-... ..+-..|.++ .+.+++|.|..
T Consensus 125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~ 173 (240)
T smart00053 125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPAN 173 (240)
T ss_pred CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECC
Confidence 67889999997521 1233556664 45777888764
No 401
>PRK01732 rnpA ribonuclease P; Reviewed
Probab=31.28 E-value=73 Score=15.58 Aligned_cols=31 Identities=6% Similarity=-0.031 Sum_probs=19.7
Q ss_pred hCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 33 QNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 33 ~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
.+.|.++++-......++.++.+.+..+++.
T Consensus 81 ~~~diVviar~~~~~~~~~~l~~~l~~ll~k 111 (114)
T PRK01732 81 PAMDFVVIAKKGVADLDNRELFELLEKLWRR 111 (114)
T ss_pred CCCeEEEEeCCCcccCCHHHHHHHHHHHHHH
Confidence 4566666655555556677777777776653
No 402
>PRK14865 rnpA ribonuclease P; Provisional
Probab=31.27 E-value=72 Score=15.55 Aligned_cols=31 Identities=13% Similarity=0.066 Sum_probs=19.4
Q ss_pred hCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 33 QNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 33 ~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
.+.|.++++.......++.++.+.+..+++.
T Consensus 80 ~~~divii~r~~~~~~~~~~l~~~l~~ll~~ 110 (116)
T PRK14865 80 IVADYNIIAKKGAEQLDFQQISRELANALER 110 (116)
T ss_pred CCCCEEEEEeCCcccCCHHHHHHHHHHHHHH
Confidence 4566666655544555677777777766543
No 403
>KOG1154 consensus Gamma-glutamyl kinase [Amino acid transport and metabolism]
Probab=30.97 E-value=1e+02 Score=17.74 Aligned_cols=44 Identities=20% Similarity=0.291 Sum_probs=29.7
Q ss_pred CCCcCchhhHHhhhhCC-----cEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 19 GGQDKIRPLWRHYFQNT-----QGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 19 ~g~~~~~~~~~~~~~~~-----~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.|+.+.-..|...|.+- ..++.--|+.+.+.-.++...+.+++.
T Consensus 95 vGQ~~Lmalye~lF~Qy~~~iAQvLvT~~Di~d~~~r~Nl~~Ti~eLL~ 143 (285)
T KOG1154|consen 95 VGQSGLMALYETLFTQYGITIAQVLVTRNDILDEQQRKNLQNTISELLS 143 (285)
T ss_pred hCcchHHHHHHHHHHHhccchheeeecCcchhhHHHHHHHHHHHHHHHh
Confidence 47777777887777753 223333466677777888888888763
No 404
>KOG2733 consensus Uncharacterized membrane protein [Function unknown]
Probab=30.39 E-value=39 Score=20.54 Aligned_cols=23 Identities=17% Similarity=0.364 Sum_probs=17.6
Q ss_pred CcEEEEEEECCChhhHHHHHHHH
Q 037770 35 TQGLIFVVDSNDRDRIVEARDEL 57 (65)
Q Consensus 35 ~~~ii~v~d~~~~~sf~~~~~~~ 57 (65)
...+|++.|.+|+.|+.+.-+.-
T Consensus 62 s~~~i~i~D~~n~~Sl~emak~~ 84 (423)
T KOG2733|consen 62 SSSVILIADSANEASLDEMAKQA 84 (423)
T ss_pred ccceEEEecCCCHHHHHHHHhhh
Confidence 34568899999999988875543
No 405
>PF00825 Ribonuclease_P: Ribonuclease P; InterPro: IPR000100 Ribonuclease P (3.1.26.5 from EC) (RNase P) [, , ] is a site specific endonuclease that generates mature tRNAs by catalysing the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'-terminus. It can also cleave other RNA substrates such as 4.5S RNA. In bacteria RNase P is known to be composed of two components: a large RNA (about 400 base pairs) encoded by rnpB, and a small protein (119 to 133 amino acids) encoded by rnpA. The RNA moiety of RNase P carries the catalytic activity; the protein component plays an auxiliary, but essential, role in vivo by binding to the 5'-leader sequence and broadening the substrate specificity of the ribozyme. The sequence of rnpA is not highly conserved, however there is, in the central part of the protein, a conserved basic region.; GO: 0000049 tRNA binding, 0004526 ribonuclease P activity, 0008033 tRNA processing; PDB: 1D6T_A 1A6F_A 2LJP_A 1NZ0_C 3Q1Q_A 3Q1R_A.
Probab=30.00 E-value=73 Score=15.23 Aligned_cols=30 Identities=13% Similarity=0.119 Sum_probs=18.1
Q ss_pred CCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 34 NTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 34 ~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
+.+.+++.-......+|.++.+.+..+++.
T Consensus 80 ~~d~v~~~r~~~~~~~~~~l~~~l~~ll~k 109 (111)
T PF00825_consen 80 GYDIVFIARPGALELSFEELEKELKKLLKK 109 (111)
T ss_dssp SSEEEEEE-CGGGGS-HHHHHHHHHHHHHH
T ss_pred CcEEEEEEcCCcCcCCHHHHHHHHHHHHHh
Confidence 455555554444566788888887777653
No 406
>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=28.81 E-value=55 Score=17.76 Aligned_cols=16 Identities=25% Similarity=0.291 Sum_probs=13.3
Q ss_pred CCcEEEEEEECCChhh
Q 037770 34 NTQGLIFVVDSNDRDR 49 (65)
Q Consensus 34 ~~~~ii~v~d~~~~~s 49 (65)
+.+.++++-|+.+...
T Consensus 42 ~PD~Vi~lGDL~D~G~ 57 (195)
T cd08166 42 QPDIVIFLGDLMDEGS 57 (195)
T ss_pred CCCEEEEeccccCCCC
Confidence 5799999999987654
No 407
>PRK03031 rnpA ribonuclease P; Reviewed
Probab=28.52 E-value=85 Score=15.46 Aligned_cols=30 Identities=17% Similarity=0.117 Sum_probs=17.8
Q ss_pred CCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 34 NTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 34 ~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
+.|.|+++-.-...-++.++.+.+..+++.
T Consensus 85 g~diVvi~r~~~~~~~~~~l~~~l~~ll~k 114 (122)
T PRK03031 85 GWDLVIIVKPTAAECNYEQFLQELEQLLIQ 114 (122)
T ss_pred CceEEEEECCCcccCCHHHHHHHHHHHHHH
Confidence 345555554444555677777777766653
No 408
>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]
Probab=28.44 E-value=1.8e+02 Score=19.26 Aligned_cols=32 Identities=22% Similarity=0.413 Sum_probs=23.3
Q ss_pred EEEEEECCCCc-------------CchhhHHhhhhCCcEEEEEEE
Q 037770 12 SFTVWDVGGQD-------------KIRPLWRHYFQNTQGLIFVVD 43 (65)
Q Consensus 12 ~l~~~d~~g~~-------------~~~~~~~~~~~~~~~ii~v~d 43 (65)
...+.|++|-- ....+...|..+.++||+|+.
T Consensus 413 RMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQ 457 (980)
T KOG0447|consen 413 RMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQ 457 (980)
T ss_pred eeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEec
Confidence 45567888732 234567889999999999983
No 409
>PRK13849 putative crown gall tumor protein VirC1; Provisional
Probab=28.14 E-value=1.1e+02 Score=16.79 Aligned_cols=46 Identities=15% Similarity=0.122 Sum_probs=28.0
Q ss_pred CCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHH
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDEL 57 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~ 57 (65)
....+.+.|++|... ......+..+|.+|+.... ++.++..+.+.+
T Consensus 82 ~~yD~iiID~pp~~~--~~~~~al~~aD~vliP~~p-s~~d~~~~~~~~ 127 (231)
T PRK13849 82 QGFDYALADTHGGSS--ELNNTIIASSNLLLIPTML-TPLDIDEALSTY 127 (231)
T ss_pred CCCCEEEEeCCCCcc--HHHHHHHHHCCEEEEeccC-cHHHHHHHHHHH
Confidence 356788999999764 3334456678888766554 333344443333
No 410
>PRK04390 rnpA ribonuclease P; Reviewed
Probab=28.04 E-value=87 Score=15.42 Aligned_cols=30 Identities=20% Similarity=0.188 Sum_probs=17.4
Q ss_pred hCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 33 QNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 33 ~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.+.|.++.+-......++.++.+.+..++.
T Consensus 80 ~~~DiVvi~r~~~~~~~~~~l~~~l~~ll~ 109 (120)
T PRK04390 80 PPVDFVVRVQRKFDRATAKQAVAELAQLMA 109 (120)
T ss_pred CCceEEEEeCCCcccCCHHHHHHHHHHHHH
Confidence 345666655444455566777666666554
No 411
>PF13667 ThiC-associated: ThiC-associated domain ; PDB: 3EPO_A 3EPN_B 3EPM_B.
Probab=28.02 E-value=34 Score=15.85 Aligned_cols=11 Identities=27% Similarity=0.516 Sum_probs=5.0
Q ss_pred EEEEEEECCCC
Q 037770 11 ISFTVWDVGGQ 21 (65)
Q Consensus 11 ~~l~~~d~~g~ 21 (65)
-.+.++|++|.
T Consensus 40 ~p~~vYDTSGP 50 (80)
T PF13667_consen 40 PPVPVYDTSGP 50 (80)
T ss_dssp --EEEE---GG
T ss_pred CCcCcccCCCC
Confidence 57889999985
No 412
>PF04146 YTH: YT521-B-like domain; InterPro: IPR007275 A protein of the YTH family has been shown to selectively remove transcripts of meiosis-specific genes expressed in mitotic cells []. It has been speculated that in higher eukaryotic YTH-family members may be involved in similar mechanaisms to suppress gene regulation during gametogenesis or general silencing. The rat protein YT521-B, Q9QY02 from SWISSPROT, is a tyrosine-phosphorylated nuclear protein, that interacts with the nuclear transcriptosomal component scaffold attachment factor B, and the 68kDa Src substrate associated during mitosis, Sam68. In vivo splicing assays demonstrated that YT521-B modulates alternative splice site selection in a concentration-dependent manner []. The domain is predicted to have four alpha helices and six beta strands []. In plant cells environmental stimuli, which light, pathogens, hormones, and abiotic stresses, elicit changes in the cytosolic Ca levels but little is known of the cytosolic-nuclear Ca-signaling pathway; where gene regulation occurs to respond appropriately to the stress. It has been demonstrated that two novel Arabidopsis thaliana (Mouse-ear cress) proteins, (ECT1 and ECT2), specifically associated with Calcineurin B-Like-Interacting Protein Kinase1 (CIPK1), a member of Ser/Thr protein kinases that interact with the calcineurin B-like Ca-binding proteins. These two proteins contain a very similar C-terminal region (180 amino acids in length, 81% similarity), which is required and sufficient for both interaction with CIPK1 and translocation to the nucleus. This domain, the YTH-domain, is conserved across all eukaryotes and suggests that the conserved C-terminal region plays a critical role in relaying the cytosolic Ca-signals to the nucleus, thereby regulating gene expression [].; PDB: 2YUD_A 2YU6_A.
Probab=28.01 E-value=44 Score=16.92 Aligned_cols=35 Identities=14% Similarity=0.292 Sum_probs=20.6
Q ss_pred EEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhH
Q 037770 14 TVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRI 50 (65)
Q Consensus 14 ~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf 50 (65)
.+|-+.- .........|+.+..|+++|++.....|
T Consensus 22 gvW~t~~--~~~~~L~~Af~~~~~V~L~FSvn~S~~F 56 (140)
T PF04146_consen 22 GVWATQP--KNEKKLNEAFKESRNVYLFFSVNGSGHF 56 (140)
T ss_dssp TEEE--C--CCHHHHHHHHHHSS-EEEEEEETTTSEE
T ss_pred CEEcccc--cchHHHHHHHHhCCCEEEEEeecCcceE
Confidence 3675543 3445555667777788888988765443
No 413
>PF06816 NOD: NOTCH protein; InterPro: IPR010660 NOTCH signalling plays a fundamental role during a great number of developmental processes in multicellular animals []. NOD (NOTCH protein domain) represents a region present in many NOTCH proteins and NOTCH homologues in multiple species such as 0, NOTCH2 and NOTCH3, LIN12, SC1 and TAN1. Role of NOD domain remains to be elucidated.; GO: 0030154 cell differentiation, 0016021 integral to membrane; PDB: 2OO4_A 3ETO_A 3I08_A 3L95_X.
Probab=27.92 E-value=64 Score=13.87 Aligned_cols=25 Identities=16% Similarity=0.264 Sum_probs=14.4
Q ss_pred CcEEEEEEECCChhhHHHHHHHHHH
Q 037770 35 TQGLIFVVDSNDRDRIVEARDELHR 59 (65)
Q Consensus 35 ~~~ii~v~d~~~~~sf~~~~~~~~~ 59 (65)
+.|.+.+.-+.+++.|.+-...+-+
T Consensus 5 a~G~lvivvl~~P~~f~~~~~~FLr 29 (57)
T PF06816_consen 5 AEGTLVIVVLMDPEEFRNNSVQFLR 29 (57)
T ss_dssp -BSEEEEEESS-HHHHHHTHHHHHH
T ss_pred cceeEEEEEEeCHHHHHHHHHHHHH
Confidence 4555666667788888766544433
No 414
>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=27.81 E-value=92 Score=15.64 Aligned_cols=41 Identities=7% Similarity=0.084 Sum_probs=24.8
Q ss_pred EEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHH
Q 037770 12 SFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARD 55 (65)
Q Consensus 12 ~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~ 55 (65)
.+-+.|+++..... ....+..++.++++.+.+. .++..+..
T Consensus 64 d~viiD~p~~~~~~--~~~~l~~ad~viiv~~~~~-~s~~~~~~ 104 (179)
T cd02036 64 DYILIDSPAGIERG--FITAIAPADEALLVTTPEI-SSLRDADR 104 (179)
T ss_pred CEEEEECCCCCcHH--HHHHHHhCCcEEEEeCCCc-chHHHHHH
Confidence 57789998764433 2334578888888876643 33444433
No 415
>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=27.55 E-value=64 Score=16.15 Aligned_cols=14 Identities=21% Similarity=0.226 Sum_probs=8.7
Q ss_pred cEEEEEEECCChhh
Q 037770 36 QGLIFVVDSNDRDR 49 (65)
Q Consensus 36 ~~ii~v~d~~~~~s 49 (65)
|.+++|+|..++.+
T Consensus 1 Dvvl~VvD~~~p~~ 14 (155)
T cd01849 1 DVILEVLDARDPLG 14 (155)
T ss_pred CEEEEEEeccCCcc
Confidence 45677777765543
No 416
>PF09826 Beta_propel: Beta propeller domain; InterPro: IPR019198 This entry consists of predicted secreted proteins containing a C-terminal beta-propeller domain distantly related to WD-40 repeats.
Probab=27.47 E-value=39 Score=21.12 Aligned_cols=18 Identities=28% Similarity=0.560 Sum_probs=13.2
Q ss_pred hhhCCcEEEEEEECCChhh
Q 037770 31 YFQNTQGLIFVVDSNDRDR 49 (65)
Q Consensus 31 ~~~~~~~ii~v~d~~~~~s 49 (65)
.|++.|+ +|++|++|+..
T Consensus 342 TFrqvDP-LfviDLsdP~~ 359 (521)
T PF09826_consen 342 TFRQVDP-LFVIDLSDPAN 359 (521)
T ss_pred EEeecCc-eEEEECCCCCC
Confidence 4566777 67899998764
No 417
>PF12989 DUF3873: Domain of unknown function, B. Theta Gene description (DUF3873); InterPro: IPR024356 This entry represents a family of uncharacterised proteins found primarily in Bacteroides species. The Bacteroides thetaiotaomicron gene appears to be upregulated in the presence of host or other bacterial species compared to growth in pure culture [, ].
Probab=27.35 E-value=74 Score=14.39 Aligned_cols=41 Identities=7% Similarity=0.055 Sum_probs=23.2
Q ss_pred EEECCCCcCchhhHHhh-hhCCcEEEEEEECCChhhHHHHHH
Q 037770 15 VWDVGGQDKIRPLWRHY-FQNTQGLIFVVDSNDRDRIVEARD 55 (65)
Q Consensus 15 ~~d~~g~~~~~~~~~~~-~~~~~~ii~v~d~~~~~sf~~~~~ 55 (65)
+.-++|.++|....... +++...+.|=|-.++-+-|.-+..
T Consensus 11 ~c~~~G~E~Y~~f~~~~~~k~~~~~qYdYr~~~GeLFscV~~ 52 (69)
T PF12989_consen 11 ICQTPGEEKYEKFQLGIGRKGVTKYQYDYRHTDGELFSCVAP 52 (69)
T ss_pred ecCCCCceeeeeeeeccccccceEEEEeeecCCccchhhhhc
Confidence 45568888887655444 455555555555555554544433
No 418
>PF03164 Mon1: Trafficking protein Mon1; InterPro: IPR004353 Members of this family have been called SAND proteins [] although these proteins do not contain a SAND domain. In Saccharomyces cerevisiae a protein complex of Mon1 and Ccz1 functions with the small GTPase Ypt7 to mediate vesicle trafficking to the vacuole [, ]. The Mon1/Ccz1 complex is conserved in eukaryotic evolution and members of this family (previously known as DUF254) are distant homologues to domains of known structure that assemble into cargo vesicle adapter (AP) complexes [, ].
Probab=26.88 E-value=1.4e+02 Score=18.22 Aligned_cols=25 Identities=24% Similarity=0.465 Sum_probs=15.7
Q ss_pred EEEEEECCChhhHHHHHHHHHHHhc
Q 037770 38 LIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 38 ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
+.+|.=.+++++|..+++.-+.+.+
T Consensus 250 ~~lvLiS~~~~~F~~l~~~~~~i~~ 274 (415)
T PF03164_consen 250 VCLVLISTDKDAFFELSEAKDRIID 274 (415)
T ss_pred eEEEEEeCCHHHHHHHHHHHHHHHH
Confidence 3344445578889888776655543
No 419
>PF00043 GST_C: Glutathione S-transferase, C-terminal domain; InterPro: IPR004046 In eukaryotes, glutathione S-transferases (GSTs) participate in the detoxification of reactive electrophillic compounds by catalysing their conjugation to glutathione. The GST domain is also found in S-crystallins from squid, and proteins with no known GST activity, such as eukaryotic elongation factors 1-gamma and the HSP26 family of stress-related proteins, which include auxin-regulated proteins in plants and stringent starvation proteins in Escherichia coli. The major lens polypeptide of cephalopods is also a GST [, , , ]. Bacterial GSTs of known function often have a specific, growth-supporting role in biodegradative metabolism: epoxide ring opening and tetrachlorohydroquinone reductive dehalogenation are two examples of the reactions catalysed by these bacterial GSTs. Some regulatory proteins, like the stringent starvation proteins, also belong to the GST family [, ]. GST seems to be absent from Archaea in which gamma-glutamylcysteine substitute to glutathione as major thiol. Glutathione S-transferases form homodimers, but in eukaryotes can also form heterodimers of the A1 and A2 or YC1 and YC2 subunits. The homodimeric enzymes display a conserved structural fold. Each monomer is composed of a distinct N-terminal sub-domain, which adopts the thioredoxin fold, and a C-terminal all-helical sub-domain. This entry is the C-terminal domain.; PDB: 3UAP_A 3UAR_A 3QAV_A 3QAW_A 1Y6E_A 1U88_B 4AI6_B 1UA5_A 4AKH_A 3QMZ_S ....
Probab=26.64 E-value=55 Score=14.50 Aligned_cols=16 Identities=13% Similarity=0.314 Sum_probs=12.8
Q ss_pred hhHHHHHHHHHHHhcc
Q 037770 48 DRIVEARDELHRMLNE 63 (65)
Q Consensus 48 ~sf~~~~~~~~~~~~~ 63 (65)
+.+.++.+|++++.+.
T Consensus 79 ~~~P~l~~w~~~~~~~ 94 (95)
T PF00043_consen 79 EKFPKLKKWYERMFAR 94 (95)
T ss_dssp TTSHHHHHHHHHHHTS
T ss_pred ccCHHHHHHHHHHHcC
Confidence 6688889998888764
No 420
>smart00564 PQQ beta-propeller repeat. Beta-propeller repeat occurring in enzymes with pyrrolo-quinoline quinone (PQQ) as cofactor, in Ire1p-like Ser/Thr kinases, and in prokaryotic dehydrogenases.
Probab=26.49 E-value=45 Score=11.62 Aligned_cols=16 Identities=25% Similarity=0.686 Sum_probs=10.2
Q ss_pred hhhCCcEEEEEEECCC
Q 037770 31 YFQNTQGLIFVVDSND 46 (65)
Q Consensus 31 ~~~~~~~ii~v~d~~~ 46 (65)
|....++.++.+|..+
T Consensus 10 ~~~~~~g~l~a~d~~~ 25 (33)
T smart00564 10 YVGSTDGTLYALDAKT 25 (33)
T ss_pred EEEcCCCEEEEEEccc
Confidence 3445667788887743
No 421
>COG4064 MtrG Tetrahydromethanopterin S-methyltransferase, subunit G [Coenzyme metabolism]
Probab=25.76 E-value=81 Score=14.33 Aligned_cols=18 Identities=22% Similarity=0.270 Sum_probs=13.2
Q ss_pred CChhhHHHHHHHHHHHhc
Q 037770 45 NDRDRIVEARDELHRMLN 62 (65)
Q Consensus 45 ~~~~sf~~~~~~~~~~~~ 62 (65)
.+++.|+++.+.++++-+
T Consensus 12 v~~~dfne~~kRLdeiee 29 (75)
T COG4064 12 VDPDDFNEIHKRLDEIEE 29 (75)
T ss_pred cCHHHHHHHHHHHHHHHH
Confidence 377888888887777643
No 422
>KOG3997 consensus Major apurinic/apyrimidinic endonuclease/3'-repair diesterase APN1 [Replication, recombination and repair]
Probab=25.40 E-value=51 Score=18.68 Aligned_cols=37 Identities=8% Similarity=0.058 Sum_probs=28.6
Q ss_pred hhHHhhhhCCcEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 26 PLWRHYFQNTQGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 26 ~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
..|..|...++.+---||++..++|+++-+.+.+++.
T Consensus 172 ~RigVClDTCH~FaaGyDI~Tee~y~evmkeFdevVG 208 (281)
T KOG3997|consen 172 SRIGVCLDTCHTFAAGYDIRTEEAYEEVMKEFDEVVG 208 (281)
T ss_pred hhheeeHhhhhhhccccccchHHHHHHHHHHHHHHhh
Confidence 3456677777777788999999999999888777653
No 423
>TIGR01287 nifH nitrogenase iron protein. This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.
Probab=24.71 E-value=1.4e+02 Score=16.60 Aligned_cols=44 Identities=16% Similarity=0.178 Sum_probs=22.5
Q ss_pred CEEEEEEECCCCcCchhh-HHhhhhCCcEEEEEEECCChhhHHHHH
Q 037770 10 NISFTVWDVGGQDKIRPL-WRHYFQNTQGLIFVVDSNDRDRIVEAR 54 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~-~~~~~~~~~~ii~v~d~~~~~sf~~~~ 54 (65)
++.+-+.|++|....... .+.....++.++++... ++.++..+.
T Consensus 115 ~yD~iiIDt~~~~~~~~~~~~~~~~aAD~viip~~p-~~~sl~~~~ 159 (275)
T TIGR01287 115 DLDFVFYDVLGDVVCGGFAMPIREGKAQEIYIVTSG-EMMALYAAN 159 (275)
T ss_pred cCCEEEEeccCcceecceeeccccccccEEEEEecc-hHHHHHHHH
Confidence 467788998764432211 12222356777776644 334444443
No 424
>PF08548 Peptidase_M10_C: Peptidase M10 serralysin C terminal; InterPro: IPR013858 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 []. Proteins in this entry are metalloendopeptidases belong to the MEROPS peptidase family M10 (subfamily M10B, clan MA). They include serralysin, epralysin, mirabilysin, aeruginolysin and other related peptidases. The peptidase unit is found at the N terminus while in this entry it is found at the C terminus and forms a corkscrew. It is thought to be important for secretion of the protein through the bacterial cell wall. Proteins in this entry contain a calcium ion binding domain. ; GO: 0004222 metalloendopeptidase activity, 0005509 calcium ion binding, 0008270 zinc ion binding, 0005615 extracellular space; PDB: 1K7Q_A 1GO8_P 3HBV_P 3HBU_P 3HB2_P 1GO7_P 1K7G_A 3HDA_P 1K7I_A 1JIW_P ....
Probab=24.68 E-value=56 Score=17.29 Aligned_cols=16 Identities=50% Similarity=1.161 Sum_probs=8.0
Q ss_pred CEEEEEEECCCCcCch
Q 037770 10 NISFTVWDVGGQDKIR 25 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~ 25 (65)
.+.+.+||.+|.+-+.
T Consensus 31 ~~~~tIwD~GG~DTlD 46 (166)
T PF08548_consen 31 KIIFTIWDAGGNDTLD 46 (166)
T ss_dssp ---EEE--SSSS-EEE
T ss_pred ccEEEEEeCCcceeEE
Confidence 4668899999987654
No 425
>PF13768 VWA_3: von Willebrand factor type A domain
Probab=24.63 E-value=1e+02 Score=15.22 Aligned_cols=26 Identities=19% Similarity=0.350 Sum_probs=14.0
Q ss_pred EEEEEECCChh--hHHHHHHHHHHHhcc
Q 037770 38 LIFVVDSNDRD--RIVEARDELHRMLNE 63 (65)
Q Consensus 38 ii~v~d~~~~~--sf~~~~~~~~~~~~~ 63 (65)
+++++|.+..- ..+.++..+..+++.
T Consensus 3 vvilvD~S~Sm~g~~~~~k~al~~~l~~ 30 (155)
T PF13768_consen 3 VVILVDTSGSMSGEKELVKDALRAILRS 30 (155)
T ss_pred EEEEEeCCCCCCCcHHHHHHHHHHHHHh
Confidence 56777776432 224555555555543
No 426
>cd00198 vWFA Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A domains.
Probab=24.61 E-value=95 Score=14.74 Aligned_cols=25 Identities=16% Similarity=0.587 Sum_probs=14.0
Q ss_pred EEEEEECCC---hhhHHHHHHHHHHHhc
Q 037770 38 LIFVVDSND---RDRIVEARDELHRMLN 62 (65)
Q Consensus 38 ii~v~d~~~---~~sf~~~~~~~~~~~~ 62 (65)
+++++|.|. ...+..++..+..++.
T Consensus 3 v~~viD~S~Sm~~~~~~~~~~~~~~~~~ 30 (161)
T cd00198 3 IVFLLDVSGSMGGEKLDKAKEALKALVS 30 (161)
T ss_pred EEEEEeCCCCcCcchHHHHHHHHHHHHH
Confidence 566777663 2345555555555543
No 427
>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=24.52 E-value=96 Score=17.43 Aligned_cols=19 Identities=16% Similarity=0.135 Sum_probs=13.6
Q ss_pred HhhhhCCcEEEEEEECCCh
Q 037770 29 RHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 29 ~~~~~~~~~ii~v~d~~~~ 47 (65)
......+|.+++|+|...+
T Consensus 16 ~~~l~~aDvVl~V~Dar~p 34 (276)
T TIGR03596 16 KEKLKLVDVVIEVLDARIP 34 (276)
T ss_pred HHHHhhCCEEEEEEeCCCC
Confidence 3456678888888887654
No 428
>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.
Probab=24.45 E-value=1.1e+02 Score=15.50 Aligned_cols=49 Identities=10% Similarity=0.138 Sum_probs=28.9
Q ss_pred CCEEEEEEECCCCcCchhhHHhhh--hCCcEEEEEEECCChhhHHHHHHHHHHH
Q 037770 9 KNISFTVWDVGGQDKIRPLWRHYF--QNTQGLIFVVDSNDRDRIVEARDELHRM 60 (65)
Q Consensus 9 ~~~~l~~~d~~g~~~~~~~~~~~~--~~~~~ii~v~d~~~~~sf~~~~~~~~~~ 60 (65)
....+-+.|+++...-.. .... ..++.++++...+ ..+...+.+.++.+
T Consensus 66 ~~yD~VIiD~pp~~~~~~--~~~~~~~~ad~viiV~~p~-~~s~~~~~~~~~~l 116 (169)
T cd02037 66 GELDYLVIDMPPGTGDEH--LTLAQSLPIDGAVIVTTPQ-EVALDDVRKAIDMF 116 (169)
T ss_pred CCCCEEEEeCCCCCcHHH--HHHHhccCCCeEEEEECCc-hhhHHHHHHHHHHH
Confidence 456788999998643221 2222 4678888887553 44455555555444
No 429
>KOG3929 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.27 E-value=1.1e+02 Score=18.06 Aligned_cols=37 Identities=24% Similarity=0.488 Sum_probs=22.4
Q ss_pred EEEECCCCcCchhhHHhhhh----CCcEEEEEEECCChhhH
Q 037770 14 TVWDVGGQDKIRPLWRHYFQ----NTQGLIFVVDSNDRDRI 50 (65)
Q Consensus 14 ~~~d~~g~~~~~~~~~~~~~----~~~~ii~v~d~~~~~sf 50 (65)
++|+++|......+...=.. ..-++|++.|+++++.|
T Consensus 95 N~WELGgg~~~~~LLsVPit~~~l~~~slIL~LDls~p~~~ 135 (363)
T KOG3929|consen 95 NFWELGGGTSLLDLLSVPITGDTLRTFSLILVLDLSKPNDL 135 (363)
T ss_pred HHHHhcCCccHHHHhcCcccccchhhhhheeeeecCChHHH
Confidence 46887776665443321111 12357889999998764
No 430
>PLN00162 transport protein sec23; Provisional
Probab=24.15 E-value=2.3e+02 Score=18.96 Aligned_cols=28 Identities=18% Similarity=0.326 Sum_probs=18.1
Q ss_pred CcEEEEEEECCC-hhhHHHHHHHHHHHhc
Q 037770 35 TQGLIFVVDSND-RDRIVEARDELHRMLN 62 (65)
Q Consensus 35 ~~~ii~v~d~~~-~~sf~~~~~~~~~~~~ 62 (65)
...++||+|.+- .+.++.++..+...++
T Consensus 124 pp~fvFvID~s~~~~~l~~lk~sl~~~L~ 152 (761)
T PLN00162 124 PPVFVFVVDTCMIEEELGALKSALLQAIA 152 (761)
T ss_pred CcEEEEEEecchhHHHHHHHHHHHHHHHH
Confidence 467899999984 3345556655555443
No 431
>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=23.98 E-value=26 Score=17.67 Aligned_cols=24 Identities=29% Similarity=0.577 Sum_probs=0.0
Q ss_pred hhhCCcEEEEEEECCChhhHHHHHHH
Q 037770 31 YFQNTQGLIFVVDSNDRDRIVEARDE 56 (65)
Q Consensus 31 ~~~~~~~ii~v~d~~~~~sf~~~~~~ 56 (65)
||+ ...|||+|+.....--.+++|
T Consensus 75 yFk--~~yiyV~D~~q~~rPImvrEy 98 (125)
T PF08630_consen 75 YFK--GPYIYVYDLDQKTRPIMVREY 98 (125)
T ss_dssp --------------------------
T ss_pred ecC--CCEEEEEecCcCCCcEEEEec
Confidence 444 568999999876655555555
No 432
>PF12965 DUF3854: Domain of unknown function (DUF3854); InterPro: IPR024385 This is a family of uncharacterised proteins, found by clustering human gut metagenomic sequences [].
Probab=23.98 E-value=1.1e+02 Score=15.35 Aligned_cols=32 Identities=9% Similarity=0.204 Sum_probs=18.9
Q ss_pred HhhhhCCcEEEEEEECCC-hhhHHHHHHHHHHH
Q 037770 29 RHYFQNTQGLIFVVDSND-RDRIVEARDELHRM 60 (65)
Q Consensus 29 ~~~~~~~~~ii~v~d~~~-~~sf~~~~~~~~~~ 60 (65)
..+.....-++++||... +.+..++.+.+.++
T Consensus 62 ~~~~~~gr~v~iaFD~D~~~~Tn~~V~~a~~~l 94 (130)
T PF12965_consen 62 AKLAKPGREVYIAFDADTKPKTNKNVRRAIKRL 94 (130)
T ss_pred HHhccCCceEEEEecCCCccchhHHHHHHHHHH
Confidence 344445677999999974 33344555444443
No 433
>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase. Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.
Probab=23.93 E-value=1.3e+02 Score=15.99 Aligned_cols=33 Identities=12% Similarity=0.112 Sum_probs=22.2
Q ss_pred EEEEEECCCCcCchhhHHhhhhCCcEEEEEEECC
Q 037770 12 SFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSN 45 (65)
Q Consensus 12 ~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~ 45 (65)
.+-+.|++........ ......+|.+++|....
T Consensus 150 D~IiiD~pp~~~~~~~-~~l~~~aD~viiV~~~~ 182 (207)
T TIGR03018 150 RIIIIDTPPLLVFSEA-RALARLVGQIVLVVEEG 182 (207)
T ss_pred CEEEEECCCCcchhHH-HHHHHhCCEEEEEEECC
Confidence 5788999876554322 23456689999888764
No 434
>PF05244 Brucella_OMP2: Brucella outer membrane protein 2; InterPro: IPR007908 This family consists of several outer membrane proteins (2a and 2b) from Brucella abortus. B. abortus is Gram-negative, facultative intracellular bacteria that can infect many species of animals and Homo sapiens [].
Probab=23.90 E-value=1.2e+02 Score=16.17 Aligned_cols=40 Identities=18% Similarity=0.233 Sum_probs=26.7
Q ss_pred EEEEEECCEEEEEEECCCCcCchhhHHhhhhCCcEEEEEE
Q 037770 3 VETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV 42 (65)
Q Consensus 3 ~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~ 42 (65)
+.++++..+.+.+.|+.-+..-....+.....+.++|--+
T Consensus 146 i~evtgegmef~fidtn~~tt~~di~~l~~ga~a~~i~~~ 185 (240)
T PF05244_consen 146 IAEVTGEGMEFRFIDTNAQTTERDICELHDGAAAGFITIF 185 (240)
T ss_pred hhhhccCccEEEEEecCcccchhhHHHhhcccccceeeee
Confidence 4456778899999998876665555555555555665544
No 435
>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=23.83 E-value=1.3e+02 Score=16.13 Aligned_cols=43 Identities=14% Similarity=0.227 Sum_probs=27.2
Q ss_pred EEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHHHHH
Q 037770 12 SFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEARDEL 57 (65)
Q Consensus 12 ~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~~~~ 57 (65)
.+-+.|+++. ...........++.++++...+ ..+...+...+
T Consensus 116 D~viiD~pp~--~~~~~~~~l~~ad~vii~~~~~-~~s~~~~~~~~ 158 (246)
T TIGR03371 116 DWVLIDVPRG--PSPITRQALAAADLVLVVVNAD-AACYATLHQQA 158 (246)
T ss_pred CEEEEECCCC--chHHHHHHHHhCCeEEEEeCCC-HHHHHHHHHHH
Confidence 6788999984 3334455667888888887653 34444444333
No 436
>PF13570 PQQ_3: PQQ-like domain; PDB: 3HXJ_B 3Q54_A.
Probab=23.77 E-value=60 Score=12.15 Aligned_cols=14 Identities=21% Similarity=0.629 Sum_probs=7.4
Q ss_pred hhhCCcEEEEEEEC
Q 037770 31 YFQNTQGLIFVVDS 44 (65)
Q Consensus 31 ~~~~~~~ii~v~d~ 44 (65)
|....++-++++|.
T Consensus 25 yv~~~dg~l~ald~ 38 (40)
T PF13570_consen 25 YVGTGDGNLYALDA 38 (40)
T ss_dssp EEE-TTSEEEEEET
T ss_pred EEEcCCCEEEEEeC
Confidence 34445566666665
No 437
>COG1182 AcpD Acyl carrier protein phosphodiesterase [Lipid metabolism]
Probab=23.65 E-value=1.4e+02 Score=16.47 Aligned_cols=30 Identities=3% Similarity=0.110 Sum_probs=21.4
Q ss_pred hhCCcEEEEEEECCChhhHHHHHHHHHHHh
Q 037770 32 FQNTQGLIFVVDSNDRDRIVEARDELHRML 61 (65)
Q Consensus 32 ~~~~~~ii~v~d~~~~~sf~~~~~~~~~~~ 61 (65)
+..+|.+++.+..-|..--..++.|+..+.
T Consensus 85 f~aAD~vVi~~PM~Nf~iPa~LK~yiD~i~ 114 (202)
T COG1182 85 FLAADKVVIAAPMYNFNIPAQLKAYIDHIA 114 (202)
T ss_pred HHhcCeEEEEecccccCCCHHHHHHHHHHh
Confidence 346888888877776655567778877764
No 438
>PRK04820 rnpA ribonuclease P; Reviewed
Probab=23.20 E-value=1.3e+02 Score=15.61 Aligned_cols=31 Identities=13% Similarity=0.202 Sum_probs=20.7
Q ss_pred hCCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 33 QNTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 33 ~~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
.+.|.|+++.......++.++.+.+..+++.
T Consensus 84 ~~~DiVviar~~~~~~~~~~l~~~l~~LL~k 114 (145)
T PRK04820 84 APGDYVVVARSAAAKASNPQLRDAFLRLLRR 114 (145)
T ss_pred CCCCEEEEEeCCcccCCHHHHHHHHHHHHHH
Confidence 3456666666555666788888777776653
No 439
>PF12663 DUF3788: Protein of unknown function (DUF3788); InterPro: IPR024265 This family of functionally uncharacterised proteins is found in bacteria and archaea. Proteins in this family are typically between 137 and 149 amino acids in length and may be distantly related to RelE proteins.
Probab=23.18 E-value=1.2e+02 Score=15.32 Aligned_cols=25 Identities=4% Similarity=0.256 Sum_probs=17.5
Q ss_pred hCCcEEEEEEECCChhhHHHHHHHH
Q 037770 33 QNTQGLIFVVDSNDRDRIVEARDEL 57 (65)
Q Consensus 33 ~~~~~ii~v~d~~~~~sf~~~~~~~ 57 (65)
...+|-=+++++.+.+.+.++.+.+
T Consensus 105 ~~~~GkWl~~~V~~~~~l~Di~~Li 129 (133)
T PF12663_consen 105 TYGDGKWLMIEVRSEEDLEDIKKLI 129 (133)
T ss_pred CCCCCcEEEEEeCChhhHHHHHHHH
Confidence 3455666788888888887776654
No 440
>TIGR03779 Bac_Flav_CT_M Bacteroides conjugative transposon TraM protein. Members of this protein family are designated TraM and are found in a proposed transfer region of a class of conjugative transposon found in the Bacteroides lineage.
Probab=23.04 E-value=1.8e+02 Score=18.02 Aligned_cols=22 Identities=32% Similarity=0.806 Sum_probs=15.8
Q ss_pred EEEEEEC----CEEEEEEECCCCcCc
Q 037770 3 VETVEYK----NISFTVWDVGGQDKI 24 (65)
Q Consensus 3 ~~~~~~~----~~~l~~~d~~g~~~~ 24 (65)
|..|... ++.+.++|+-|++..
T Consensus 310 I~si~~~g~iipV~L~vyD~DG~eGi 335 (410)
T TIGR03779 310 ISSIEYNGTILPVELSVYDTDGQEGI 335 (410)
T ss_pred EEEEEECCEEEEEEEEEEcCCCCCcc
Confidence 4555555 478889999998764
No 441
>PF01115 F_actin_cap_B: F-actin capping protein, beta subunit; InterPro: IPR001698 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53. The actin filament system, a prominent part of the cytoskeleton in eukaryotic cells, is both a static structure and a dynamic network that can undergo rearrangements: it is thought to be involved in processes such as cell movement and phagocytosis [], as well as muscle contraction. The F-actin capping protein binds in a calcium-independent manner to the fast growing ends of actin filaments (barbed end) thereby blocking the exchange of subunits at these ends. Unlike gelsolin (see IPR007122 from INTERPRO) and severin this protein does not sever actin filaments. The F-actin capping protein is a heterodimer composed of two unrelated subunits: alpha and beta. Neither of the subunits shows sequence similarity to other filament-capping proteins []. The beta subunit is a protein of about 280 amino acid residues whose sequence is well conserved in eukaryotic species [].; GO: 0003779 actin binding, 0030036 actin cytoskeleton organization, 0005737 cytoplasm, 0008290 F-actin capping protein complex; PDB: 3AAE_D 3LK4_Q 2KXP_B 2KZ7_B 3AA1_B 3LK2_B 3AA7_B 3AAA_B 1IZN_B 3AA0_B ....
Probab=22.97 E-value=1.1e+02 Score=17.36 Aligned_cols=24 Identities=13% Similarity=0.302 Sum_probs=18.3
Q ss_pred chhhHHhhhhCCcEEEEEEECCCh
Q 037770 24 IRPLWRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 24 ~~~~~~~~~~~~~~ii~v~d~~~~ 47 (65)
+..++..||.++-.-+|++|+.+.
T Consensus 105 Fd~Yr~lYyeGGvSSVYlWd~d~~ 128 (242)
T PF01115_consen 105 FDIYRDLYYEGGVSSVYLWDLDDD 128 (242)
T ss_dssp HHHHHHHHHSSSEEEEEEEEETT-
T ss_pred HHHHHHHHhCCCeeEEEEEecCCC
Confidence 445678899998888899988654
No 442
>KOG3022 consensus Predicted ATPase, nucleotide-binding [Cell cycle control, cell division, chromosome partitioning]
Probab=22.71 E-value=69 Score=18.76 Aligned_cols=50 Identities=14% Similarity=0.359 Sum_probs=27.5
Q ss_pred EEEECCEEEEEEECCCC-cCchhhHHhhhhCCcEEEEEEECCChhh--HHHHHHHH
Q 037770 5 TVEYKNISFTVWDVGGQ-DKIRPLWRHYFQNTQGLIFVVDSNDRDR--IVEARDEL 57 (65)
Q Consensus 5 ~~~~~~~~l~~~d~~g~-~~~~~~~~~~~~~~~~ii~v~d~~~~~s--f~~~~~~~ 57 (65)
.++...+.+-+.|++.. .......-.+.+..+|.++| |.++. +.++++.+
T Consensus 151 ~vdwg~lDyLviDtPPGtsDehls~~~~~~~~~gAviV---TTPQ~vAl~Dv~K~i 203 (300)
T KOG3022|consen 151 DVDWGELDYLVIDTPPGTSDEHLSLVQFLRESDGAVIV---TTPQEVALQDVRKEI 203 (300)
T ss_pred cCCCCCcCEEEEeCCCCCChhhhheeecccccCceEEE---eCchhhhhHHHHhhh
Confidence 45566788889998743 22222233445555776665 44443 45555443
No 443
>TIGR02690 resist_ArsH arsenical resistance protein ArsH. Members of this protein family occur in arsenate resistance operons that include at least two different types of arsenate reductase. ArsH is not required for arsenate resistance in some systems. This family belongs to the larger family of NADPH-dependent FMN reductases (Pfam model pfam03358). The function of ArsH is not known.
Probab=22.69 E-value=1.5e+02 Score=16.40 Aligned_cols=32 Identities=9% Similarity=0.067 Sum_probs=21.6
Q ss_pred HHhhhhCCcEEEEE---EECCChhhHHHHHHHHHH
Q 037770 28 WRHYFQNTQGLIFV---VDSNDRDRIVEARDELHR 59 (65)
Q Consensus 28 ~~~~~~~~~~ii~v---~d~~~~~sf~~~~~~~~~ 59 (65)
+..-.+.+|++|++ |.-+=+..+.+...|+.+
T Consensus 84 l~~~v~~ADgvii~TPEYn~sipg~LKNaiDwls~ 118 (219)
T TIGR02690 84 LRQLSEWSEGQVWCSPERHGAITGSQKDQIDWIPL 118 (219)
T ss_pred HHHHHHhCCEEEEeCCccccCcCHHHHHHHHhccc
Confidence 45667789999988 444455667777666654
No 444
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=22.51 E-value=2e+02 Score=17.79 Aligned_cols=38 Identities=21% Similarity=0.298 Sum_probs=24.1
Q ss_pred CEEEEEEECCCCcCchhhH----Hhh--hhCCcEEEEEEECCCh
Q 037770 10 NISFTVWDVGGQDKIRPLW----RHY--FQNTQGLIFVVDSNDR 47 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~----~~~--~~~~~~ii~v~d~~~~ 47 (65)
...+-+.||+|........ ..+ ....+-+++|.|.+--
T Consensus 182 ~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~G 225 (429)
T TIGR01425 182 NFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIG 225 (429)
T ss_pred CCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccC
Confidence 4678899999976654222 111 1245678999998743
No 445
>PRK09632 ATP-dependent DNA ligase; Reviewed
Probab=22.41 E-value=2.6e+02 Score=18.92 Aligned_cols=33 Identities=15% Similarity=0.083 Sum_probs=21.4
Q ss_pred EEEEEECCCCcCchhhHHhhhhCCcEEEEEEECC
Q 037770 12 SFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSN 45 (65)
Q Consensus 12 ~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~ 45 (65)
++-+||-.|...+..+... .+......++||+.
T Consensus 533 EiVvld~~G~~~F~~Lq~r-~~~~~v~y~vFDLL 565 (764)
T PRK09632 533 EIVALDDSGVPSFGLLQNR-GRDTRVEFWAFDLL 565 (764)
T ss_pred EEEEeCCCCCCCHHHHhhh-hhcCCeEEEEEeee
Confidence 4556777777677665543 34456777788886
No 446
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=22.26 E-value=1.4e+02 Score=15.95 Aligned_cols=46 Identities=11% Similarity=0.203 Sum_probs=26.5
Q ss_pred CEEEEEEECCCCcCchhhH----Hhhhh--CCcEEEEEEECCChh-hHHHHHH
Q 037770 10 NISFTVWDVGGQDKIRPLW----RHYFQ--NTQGLIFVVDSNDRD-RIVEARD 55 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~----~~~~~--~~~~ii~v~d~~~~~-sf~~~~~ 55 (65)
+..+-+.|++|......-. ..+.. ..+-+++|.+.+..+ ....+..
T Consensus 83 ~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~~~~~~ 135 (196)
T PF00448_consen 83 GYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDLEQALA 135 (196)
T ss_dssp TSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHHHHHHH
T ss_pred CCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChHHHHHHHH
Confidence 4568899999987754321 11111 466788888887544 3444433
No 447
>PF11459 DUF2893: Protein of unknwon function (DUF2893); InterPro: IPR021561 This is a bacterial family of uncharacterised proteins.
Probab=22.20 E-value=97 Score=13.97 Aligned_cols=18 Identities=17% Similarity=0.305 Sum_probs=12.3
Q ss_pred ECCChhhHHHHHHHHHHH
Q 037770 43 DSNDRDRIVEARDELHRM 60 (65)
Q Consensus 43 d~~~~~sf~~~~~~~~~~ 60 (65)
++.+..+|.++.+.++.+
T Consensus 13 ~~p~~~s~e~a~~l~egL 30 (69)
T PF11459_consen 13 EVPKRQSFEEADELMEGL 30 (69)
T ss_pred hCCccCCHHHHHHHHHHH
Confidence 455677788877766654
No 448
>PF05378 Hydant_A_N: Hydantoinase/oxoprolinase N-terminal region; InterPro: IPR008040 This domain is found at the N terminus of the hydantoinase/oxoprolinase IPR002821 from INTERPRO family.
Probab=21.96 E-value=1.3e+02 Score=15.88 Aligned_cols=23 Identities=0% Similarity=0.109 Sum_probs=14.8
Q ss_pred EEEEEEECCChhhHHHHHHHHHH
Q 037770 37 GLIFVVDSNDRDRIVEARDELHR 59 (65)
Q Consensus 37 ~ii~v~d~~~~~sf~~~~~~~~~ 59 (65)
+|.++++..|++.-..+++++++
T Consensus 152 AV~~~fS~~np~hE~~v~eii~e 174 (176)
T PF05378_consen 152 AVSLLFSYRNPEHEQRVAEIIRE 174 (176)
T ss_pred EEECccCCCCHHHHHHHHHHHHh
Confidence 34445677788776667666654
No 449
>PRK00588 rnpA ribonuclease P; Reviewed
Probab=21.84 E-value=1.1e+02 Score=15.07 Aligned_cols=19 Identities=11% Similarity=0.041 Sum_probs=11.8
Q ss_pred CChhhHHHHHHHHHHHhcc
Q 037770 45 NDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 45 ~~~~sf~~~~~~~~~~~~~ 63 (65)
....++.++.+.+..+++.
T Consensus 91 ~~~~~~~~l~~~l~~ll~~ 109 (118)
T PRK00588 91 SRHVSSARLEQQLRCGLRR 109 (118)
T ss_pred cccCCHHHHHHHHHHHHHH
Confidence 3445677777777666554
No 450
>TIGR02408 ectoine_ThpD ectoine hydroxylase. Both ectoine and hydroxyectoine are compatible solvents that serve as protectants against osmotic and thermal stresses. A number of genomes synthesize ectoine. This enzyme allows conversion of ectoine to hydroxyectoine, which may be more effective for some purposes, and is found in a subset of ectoine-producing organisms.
Probab=21.83 E-value=1.6e+02 Score=16.68 Aligned_cols=30 Identities=17% Similarity=0.370 Sum_probs=24.6
Q ss_pred CCcEEEEEEECCChhhHHHHHHHHHHHhcc
Q 037770 34 NTQGLIFVVDSNDRDRIVEARDELHRMLNE 63 (65)
Q Consensus 34 ~~~~ii~v~d~~~~~sf~~~~~~~~~~~~~ 63 (65)
.-+|.+.+-++-+.+..+.++..+.+++.+
T Consensus 26 ~~dGyvvl~~vls~eev~~lr~~i~~~~~~ 55 (277)
T TIGR02408 26 ERDGFLLLENLFSDDEVAALLAEVERMTRD 55 (277)
T ss_pred HHCCEEECcccCCHHHHHHHHHHHHHHHhc
Confidence 457888888898999999999988887653
No 451
>KOG1491 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]
Probab=21.81 E-value=1.9e+02 Score=17.73 Aligned_cols=37 Identities=19% Similarity=0.321 Sum_probs=25.7
Q ss_pred EEEEEEECCCCcC-------chhhHHhhhhCCcEEEEEEECCCh
Q 037770 11 ISFTVWDVGGQDK-------IRPLWRHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 11 ~~l~~~d~~g~~~-------~~~~~~~~~~~~~~ii~v~d~~~~ 47 (65)
..+.++|++|-.+ ..+..-...+++|+++=|++....
T Consensus 84 a~l~v~DIAGLvkGAs~G~GLGN~FLs~iR~vDaifhVVr~f~d 127 (391)
T KOG1491|consen 84 AFLTVYDIAGLVKGASAGEGLGNKFLSHIRHVDAIFHVVRAFED 127 (391)
T ss_pred eeEEEEeecccccCcccCcCchHHHHHhhhhccceeEEEEecCc
Confidence 5788999998544 233445667789998888776543
No 452
>PRK10818 cell division inhibitor MinD; Provisional
Probab=21.76 E-value=1.6e+02 Score=16.25 Aligned_cols=42 Identities=10% Similarity=0.100 Sum_probs=26.9
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHHH
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEAR 54 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~~ 54 (65)
...+.+.|+++...... ......++.++++.+.+ ..++..+.
T Consensus 113 ~yd~viiD~p~~~~~~~--~~~l~~ad~vivv~~p~-~~sl~~~~ 154 (270)
T PRK10818 113 DFEFIVCDSPAGIETGA--LMALYFADEAIITTNPE-VSSVRDSD 154 (270)
T ss_pred CCCEEEEeCCCCccHHH--HHHHHhCCeEEEEcCCC-chHHHhHH
Confidence 46788999987664432 33467889988887664 33333443
No 453
>cd01363 Motor_domain Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes.
Probab=21.68 E-value=86 Score=16.43 Aligned_cols=16 Identities=19% Similarity=0.322 Sum_probs=12.6
Q ss_pred EEEEEEECCCCcCchh
Q 037770 11 ISFTVWDVGGQDKIRP 26 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~ 26 (65)
-.+.+.|++|.++...
T Consensus 107 s~l~lVDLAGsE~~~~ 122 (186)
T cd01363 107 GKINLVDLAGSERIDF 122 (186)
T ss_pred eeEEEEEccccccccc
Confidence 4678999999987653
No 454
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=21.53 E-value=1.2e+02 Score=17.17 Aligned_cols=19 Identities=16% Similarity=0.148 Sum_probs=14.3
Q ss_pred HhhhhCCcEEEEEEECCCh
Q 037770 29 RHYFQNTQGLIFVVDSNDR 47 (65)
Q Consensus 29 ~~~~~~~~~ii~v~d~~~~ 47 (65)
......+|.+++|+|...+
T Consensus 19 ~~~l~~aDvIL~VvDar~p 37 (287)
T PRK09563 19 KENLKLVDVVIEVLDARIP 37 (287)
T ss_pred HHHhhhCCEEEEEEECCCC
Confidence 3456688999999988654
No 455
>PF03347 TDH: Vibrio thermostable direct hemolysin; InterPro: IPR005015 Thermostable direct haemolysin (TDH) is considered an important virulence factor in Vibrio parahaemolyticus gastroenteritis and is a dimer composed of two identical subunit molecules of approximately 21 kDa. A number of biological properties have been attributed to TDH including haemolytic activity, enterotoxicity, cytotoxicity and cardiotoxicity [].; GO: 0019836 hemolysis by symbiont of host erythrocytes, 0005576 extracellular region; PDB: 3A57_A.
Probab=21.50 E-value=21 Score=18.37 Aligned_cols=24 Identities=17% Similarity=0.375 Sum_probs=13.0
Q ss_pred hCCcEEEEEEECCChhhHHHHHHH
Q 037770 33 QNTQGLIFVVDSNDRDRIVEARDE 56 (65)
Q Consensus 33 ~~~~~ii~v~d~~~~~sf~~~~~~ 56 (65)
.+.+|=+++-=+++.++|.++..+
T Consensus 142 eSGnG~~~vMCIsNk~s~~eC~sQ 165 (166)
T PF03347_consen 142 ESGNGHMFVMCISNKESFDECLSQ 165 (166)
T ss_dssp EETTEEEEEEEEE-TTTGGGGT--
T ss_pred EcCCCcEEEEEecCcccHhhHhhc
Confidence 344555555556778888777543
No 456
>PF13117 Cag12: Cag pathogenicity island protein Cag12
Probab=20.72 E-value=1.3e+02 Score=14.93 Aligned_cols=30 Identities=10% Similarity=0.241 Sum_probs=20.2
Q ss_pred hhhhCCcEEEEEEECCChhhHHHHHHHHHH
Q 037770 30 HYFQNTQGLIFVVDSNDRDRIVEARDELHR 59 (65)
Q Consensus 30 ~~~~~~~~ii~v~d~~~~~sf~~~~~~~~~ 59 (65)
.+|.=++.--.++...+...+...++|++.
T Consensus 73 ~~yalAH~~~iIv~~~~~~~~~~~K~wL~~ 102 (113)
T PF13117_consen 73 VFYALAHSAKIIVLTGDGNLFFQYKNWLRK 102 (113)
T ss_pred EeeeeeccccEEEEcCCHHHHHHHHHHHHH
Confidence 344444444455556788889999999875
No 457
>PF11176 DUF2962: Protein of unknown function (DUF2962); InterPro: IPR021346 This eukaryotic family of proteins has no known function. ; PDB: 2KKM_A.
Probab=20.65 E-value=1.1e+02 Score=15.96 Aligned_cols=18 Identities=22% Similarity=0.154 Sum_probs=11.0
Q ss_pred EEEEECCChhhHHHHHHH
Q 037770 39 IFVVDSNDRDRIVEARDE 56 (65)
Q Consensus 39 i~v~d~~~~~sf~~~~~~ 56 (65)
+.|-|+++...+..+..|
T Consensus 121 ~~vPDLtd~~nv~~Lr~W 138 (155)
T PF11176_consen 121 FEVPDLTDEKNVKLLREW 138 (155)
T ss_dssp EEEE-S--HHHHHHHHT-
T ss_pred eeCCCCCCHHHHHHHHhc
Confidence 557899999988877765
No 458
>CHL00175 minD septum-site determining protein; Validated
Probab=20.61 E-value=1.7e+02 Score=16.26 Aligned_cols=41 Identities=15% Similarity=0.140 Sum_probs=24.8
Q ss_pred CEEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECCChhhHHHH
Q 037770 10 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRIVEA 53 (65)
Q Consensus 10 ~~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~sf~~~ 53 (65)
...+-+.|+++.... ........++.+++|.+.+ ..+...+
T Consensus 126 ~yD~VIiDtpp~~~~--~~~~~l~~aD~viiV~~p~-~~si~~~ 166 (281)
T CHL00175 126 GYDYILIDCPAGIDV--GFINAIAPAQEAIVVTTPE-ITAIRDA 166 (281)
T ss_pred CCCEEEEeCCCCCCH--HHHHHHHhcCeeEEEcCCC-hHHHHHH
Confidence 467889999876433 2233456688888876543 3334443
No 459
>cd01617 DCX Ubiquitin-like domain of DCX. DCX The ubiquitin-like DCX domain is present in tandem within the N-terminal half of the doublecortin protein. Doublecortin is expressed in migrating neurons. Mutations in the gene encoding doublecortin cause lissencephaly in males and 'double-cortex syndrome' in females.
Probab=20.41 E-value=1.1e+02 Score=13.83 Aligned_cols=27 Identities=15% Similarity=0.262 Sum_probs=17.6
Q ss_pred cEEEEEEECCChhhHHHHHHHHHHHhc
Q 037770 36 QGLIFVVDSNDRDRIVEARDELHRMLN 62 (65)
Q Consensus 36 ~~ii~v~d~~~~~sf~~~~~~~~~~~~ 62 (65)
.++.+++.-....+|+.+.+.+.+.++
T Consensus 14 ~g~~~~i~~~~~~sfd~lL~~lt~~l~ 40 (80)
T cd01617 14 KGVRLLVNRRRFKSFDALLDDLTEKVQ 40 (80)
T ss_pred CCEEEEEChhhhCCHHHHHHHHHHHhC
Confidence 355666655556678888777776554
No 460
>COG1430 Uncharacterized conserved protein [Function unknown]
Probab=20.37 E-value=38 Score=17.11 Aligned_cols=35 Identities=17% Similarity=0.323 Sum_probs=26.6
Q ss_pred EEEEEEECCCCcCchhhHHhhhhCCcEEEEEEECC
Q 037770 11 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSN 45 (65)
Q Consensus 11 ~~l~~~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~ 45 (65)
..+++=|+..+.....+....+....|.||++.-+
T Consensus 16 ~~vevA~t~~~r~~GLMfR~sl~~d~GMLFv~~~~ 50 (126)
T COG1430 16 FAVEVADTFAKRARGLMFRTSLPDDHGMLFVFPET 50 (126)
T ss_pred EEEEEeCCHHHHhccccccccCCCCceEEEecCCC
Confidence 56777888777777777777777889999998733
No 461
>PF11536 DUF3226: Protein of unknown function (DUF3226); InterPro: IPR024508 This family of proteins is functionally uncharacterised.; PDB: 2P62_B.
Probab=20.17 E-value=1.9e+02 Score=16.49 Aligned_cols=45 Identities=7% Similarity=0.244 Sum_probs=28.3
Q ss_pred EEEEECCEEEEEEECCCCcCchhhHHhhhh-------CCcEEEEEEECCChh
Q 037770 4 ETVEYKNISFTVWDVGGQDKIRPLWRHYFQ-------NTQGLIFVVDSNDRD 48 (65)
Q Consensus 4 ~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~-------~~~~ii~v~d~~~~~ 48 (65)
..+...++.+-+|...|.+.........++ ..+.+-++.|+...+
T Consensus 48 ~~L~Kd~~~laI~~~eGk~~i~~~L~~~l~am~~~~~~v~~IgVarDiDed~ 99 (239)
T PF11536_consen 48 ICLKKDDVYLAIIHSEGKSNIIRNLKNFLKAMELFEFSVESIGVARDIDEDE 99 (239)
T ss_dssp EEEEETTEEEEEE-S--TTTHHHHHHHHHHHHHCT---EEEEEEEEETTSSS
T ss_pred eeEeecCcEEEEEecCCcchHHHHHHHHHHHHHhhhcccceEEEEEecCcch
Confidence 345567889999999999888765544443 455677778886543
No 462
>PF12535 Nudix_N: Hydrolase of X-linked nucleoside diphosphate N terminal ; PDB: 3Q1P_B 3Q4I_B.
Probab=20.04 E-value=1e+02 Score=13.27 Aligned_cols=18 Identities=39% Similarity=0.553 Sum_probs=12.7
Q ss_pred ChhhHHHHHHHHHHHhcc
Q 037770 46 DRDRIVEARDELHRMLNE 63 (65)
Q Consensus 46 ~~~sf~~~~~~~~~~~~~ 63 (65)
|.++++++++...+++.+
T Consensus 27 D~ERy~~lr~ia~ella~ 44 (58)
T PF12535_consen 27 DRERYEELREIAAELLAE 44 (58)
T ss_dssp HHHHHHHHHHHHHHHHCC
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 567788887777777654
Done!