Query psy5805
Match_columns 75
No_of_seqs 152 out of 1198
Neff 9.2
Searched_HMMs 46136
Date Fri Aug 16 18:25:02 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5805.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5805hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0084|consensus 99.9 2.8E-26 6.1E-31 135.8 5.6 70 2-74 65-134 (205)
2 KOG0078|consensus 99.9 1.2E-24 2.6E-29 129.9 6.1 71 2-75 68-138 (207)
3 KOG0087|consensus 99.9 1.4E-24 3.1E-29 129.8 5.2 71 2-75 70-140 (222)
4 KOG0094|consensus 99.9 5.3E-24 1.1E-28 126.4 5.2 72 2-75 78-149 (221)
5 KOG0092|consensus 99.9 2.1E-23 4.6E-28 123.3 5.5 70 2-74 61-130 (200)
6 KOG0098|consensus 99.9 2.6E-23 5.5E-28 122.8 5.7 71 2-75 62-132 (216)
7 KOG0093|consensus 99.9 1.7E-22 3.7E-27 116.0 6.0 71 2-75 77-147 (193)
8 KOG0080|consensus 99.9 3.9E-23 8.4E-28 120.1 3.3 72 2-75 67-138 (209)
9 KOG0079|consensus 99.9 2.9E-22 6.3E-27 115.2 5.6 69 2-74 64-132 (198)
10 KOG0088|consensus 99.9 1.9E-22 4.1E-27 117.2 4.3 70 2-74 69-138 (218)
11 KOG0081|consensus 99.9 4.1E-22 9E-27 115.8 4.1 71 2-74 74-144 (219)
12 KOG0091|consensus 99.8 1.4E-21 3E-26 113.9 5.3 72 2-75 65-137 (213)
13 KOG0086|consensus 99.8 7.6E-21 1.6E-25 110.0 5.6 70 2-74 65-134 (214)
14 KOG0095|consensus 99.8 1E-20 2.2E-25 109.2 4.5 70 2-74 63-132 (213)
15 cd04120 Rab12 Rab12 subfamily. 99.8 5E-20 1.1E-24 110.6 7.2 68 3-73 57-124 (202)
16 KOG0083|consensus 99.8 5.9E-21 1.3E-25 108.5 2.9 71 2-75 54-124 (192)
17 cd04102 RabL3 RabL3 (Rab-like3 99.8 8.4E-20 1.8E-24 109.7 7.5 69 3-73 62-148 (202)
18 cd04121 Rab40 Rab40 subfamily. 99.8 6E-20 1.3E-24 109.2 6.8 68 3-74 63-130 (189)
19 cd04133 Rop_like Rop subfamily 99.8 1.4E-19 3E-24 106.6 6.3 65 2-70 56-121 (176)
20 KOG0394|consensus 99.8 1.5E-19 3.2E-24 106.8 4.9 71 2-74 65-140 (210)
21 KOG0395|consensus 99.8 6.8E-19 1.5E-23 105.4 7.0 71 3-75 59-129 (196)
22 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 99.8 5.2E-19 1.1E-23 104.6 6.4 62 3-68 61-123 (182)
23 cd01875 RhoG RhoG subfamily. 99.8 2.1E-18 4.5E-23 102.3 7.1 64 2-69 58-122 (191)
24 cd04131 Rnd Rnd subfamily. Th 99.8 1.4E-18 3E-23 102.3 6.1 62 3-68 57-119 (178)
25 cd04174 Rnd1_Rho6 Rnd1/Rho6 su 99.8 3E-18 6.5E-23 104.8 7.1 62 3-68 69-131 (232)
26 PTZ00099 rab6; Provisional 99.8 3.2E-18 7E-23 100.8 7.0 68 3-73 37-104 (176)
27 cd04141 Rit_Rin_Ric Rit/Rin/Ri 99.8 3.2E-18 6.8E-23 100.1 6.7 70 3-74 58-127 (172)
28 smart00176 RAN Ran (Ras-relate 99.7 4.9E-18 1.1E-22 101.8 6.8 63 2-68 51-113 (200)
29 cd04127 Rab27A Rab27a subfamil 99.7 9E-18 1.9E-22 97.9 6.8 69 3-73 71-139 (180)
30 cd04136 Rap_like Rap-like subf 99.7 1.7E-17 3.7E-22 95.1 7.2 69 3-73 57-125 (163)
31 cd04122 Rab14 Rab14 subfamily. 99.7 1.7E-17 3.7E-22 95.8 7.2 69 2-73 58-126 (166)
32 PLN00023 GTP-binding protein; 99.7 1.9E-17 4.1E-22 105.3 7.8 65 3-69 91-166 (334)
33 KOG0097|consensus 99.7 5.4E-18 1.2E-22 97.4 4.0 70 2-74 67-136 (215)
34 cd04176 Rap2 Rap2 subgroup. T 99.7 2.9E-17 6.2E-22 94.4 7.0 68 3-72 57-124 (163)
35 cd04175 Rap1 Rap1 subgroup. T 99.7 4E-17 8.7E-22 94.0 7.1 70 2-73 56-125 (164)
36 cd01874 Cdc42 Cdc42 subfamily. 99.7 2.7E-17 5.9E-22 96.4 6.4 64 2-69 56-120 (175)
37 PF00071 Ras: Ras family; Int 99.7 3.1E-17 6.6E-22 94.1 6.3 68 3-73 56-123 (162)
38 cd04126 Rab20 Rab20 subfamily. 99.7 4.6E-17 9.9E-22 98.9 7.3 64 2-68 51-114 (220)
39 cd04107 Rab32_Rab38 Rab38/Rab3 99.7 4.9E-17 1.1E-21 96.9 7.3 69 3-73 58-129 (201)
40 cd04117 Rab15 Rab15 subfamily. 99.7 5.3E-17 1.1E-21 93.7 7.1 68 3-73 57-124 (161)
41 cd04144 Ras2 Ras2 subfamily. 99.7 7E-17 1.5E-21 95.5 7.0 69 3-73 55-125 (190)
42 cd04109 Rab28 Rab28 subfamily. 99.7 1.1E-16 2.4E-21 96.4 7.2 69 3-73 58-128 (215)
43 PTZ00369 Ras-like protein; Pro 99.7 2.1E-16 4.5E-21 93.4 8.1 69 3-73 61-129 (189)
44 cd04173 Rnd2_Rho7 Rnd2/Rho7 su 99.7 1.6E-16 3.5E-21 96.7 7.4 62 3-68 57-119 (222)
45 cd04108 Rab36_Rab34 Rab34/Rab3 99.7 2.5E-16 5.4E-21 91.9 7.6 67 3-71 57-123 (170)
46 cd04134 Rho3 Rho3 subfamily. 99.7 1.5E-16 3.3E-21 94.0 6.4 64 3-70 56-120 (189)
47 cd04111 Rab39 Rab39 subfamily. 99.7 2.3E-16 4.9E-21 95.0 7.2 69 3-73 60-128 (211)
48 cd04115 Rab33B_Rab33A Rab33B/R 99.7 2E-16 4.4E-21 91.8 6.5 69 3-73 59-128 (170)
49 PLN03071 GTP-binding nuclear p 99.7 2.5E-16 5.4E-21 95.3 6.9 63 2-68 69-131 (219)
50 cd01871 Rac1_like Rac1-like su 99.7 3.6E-16 7.8E-21 91.6 6.9 62 3-68 57-119 (174)
51 cd01865 Rab3 Rab3 subfamily. 99.7 4.1E-16 8.8E-21 90.1 6.9 67 3-72 58-124 (165)
52 cd04106 Rab23_lke Rab23-like s 99.7 3.5E-16 7.6E-21 89.6 6.5 67 3-73 59-125 (162)
53 cd04140 ARHI_like ARHI subfami 99.7 5.7E-16 1.2E-20 89.5 7.4 70 2-73 56-127 (165)
54 cd01867 Rab8_Rab10_Rab13_like 99.7 5.5E-16 1.2E-20 89.7 7.0 68 3-73 60-127 (167)
55 cd04145 M_R_Ras_like M-Ras/R-R 99.7 7.8E-16 1.7E-20 88.2 7.3 69 3-73 58-126 (164)
56 cd04110 Rab35 Rab35 subfamily. 99.7 6.2E-16 1.3E-20 92.1 7.1 68 2-73 62-129 (199)
57 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 99.6 7.3E-16 1.6E-20 88.9 6.9 68 3-73 59-126 (166)
58 cd01873 RhoBTB RhoBTB subfamil 99.6 5.4E-16 1.2E-20 92.6 6.5 60 3-68 74-134 (195)
59 cd04162 Arl9_Arfrp2_like Arl9/ 99.6 1.1E-15 2.5E-20 88.6 7.6 66 3-72 52-117 (164)
60 PLN03110 Rab GTPase; Provision 99.6 6.5E-16 1.4E-20 93.2 6.8 68 3-73 69-136 (216)
61 cd04143 Rhes_like Rhes_like su 99.6 8.4E-16 1.8E-20 94.7 7.3 69 3-73 56-132 (247)
62 smart00173 RAS Ras subfamily o 99.6 1.1E-15 2.5E-20 87.7 7.4 69 3-73 56-124 (164)
63 cd04119 RJL RJL (RabJ-Like) su 99.6 1E-15 2.2E-20 87.7 7.0 68 3-72 57-128 (168)
64 KOG0393|consensus 99.6 4.2E-16 9.1E-21 93.2 5.4 63 3-69 61-124 (198)
65 cd01868 Rab11_like Rab11-like. 99.6 1.4E-15 3.1E-20 87.4 7.1 68 3-73 60-127 (165)
66 cd04116 Rab9 Rab9 subfamily. 99.6 1.4E-15 2.9E-20 88.0 6.9 67 3-72 62-131 (170)
67 cd04128 Spg1 Spg1p. Spg1p (se 99.6 1.5E-15 3.3E-20 89.6 6.9 61 3-67 57-117 (182)
68 cd01864 Rab19 Rab19 subfamily. 99.6 1.7E-15 3.7E-20 87.3 6.9 67 3-72 60-126 (165)
69 cd04112 Rab26 Rab26 subfamily. 99.6 1.7E-15 3.6E-20 89.7 6.9 68 3-73 58-125 (191)
70 cd01866 Rab2 Rab2 subfamily. 99.6 2.1E-15 4.6E-20 87.4 7.2 68 3-73 61-128 (168)
71 cd04125 RabA_like RabA-like su 99.6 2.1E-15 4.5E-20 88.8 7.2 68 3-73 57-124 (188)
72 smart00174 RHO Rho (Ras homolo 99.6 1.8E-15 4E-20 87.6 6.7 63 3-69 54-117 (174)
73 cd00877 Ran Ran (Ras-related n 99.6 2E-15 4.3E-20 87.7 6.7 62 2-67 56-117 (166)
74 KOG4252|consensus 99.6 7.8E-16 1.7E-20 91.2 4.9 68 2-73 76-143 (246)
75 cd04138 H_N_K_Ras_like H-Ras/N 99.6 4.3E-15 9.4E-20 84.6 7.9 64 3-68 57-120 (162)
76 smart00177 ARF ARF-like small 99.6 3E-15 6.4E-20 87.6 7.2 65 3-69 65-129 (175)
77 cd04177 RSR1 RSR1 subgroup. R 99.6 2.8E-15 6.2E-20 86.8 7.1 68 3-72 57-124 (168)
78 PLN00223 ADP-ribosylation fact 99.6 3E-15 6.6E-20 88.2 7.1 65 3-69 69-133 (181)
79 cd04103 Centaurin_gamma Centau 99.6 1.9E-15 4.1E-20 87.4 6.1 58 14-73 61-120 (158)
80 cd04161 Arl2l1_Arl13_like Arl2 99.6 3.9E-15 8.4E-20 86.5 7.4 66 3-70 51-116 (167)
81 cd04150 Arf1_5_like Arf1-Arf5- 99.6 4.1E-15 8.8E-20 85.8 7.3 64 3-68 52-115 (159)
82 cd04132 Rho4_like Rho4-like su 99.6 3.8E-15 8.3E-20 87.4 7.1 63 3-69 57-120 (187)
83 cd04124 RabL2 RabL2 subfamily. 99.6 5.1E-15 1.1E-19 85.4 7.3 61 3-67 57-117 (161)
84 cd04113 Rab4 Rab4 subfamily. 99.6 4.5E-15 9.7E-20 85.1 6.8 67 3-72 57-123 (161)
85 cd04149 Arf6 Arf6 subfamily. 99.6 4.1E-15 8.9E-20 86.6 6.7 64 3-68 61-124 (168)
86 cd01892 Miro2 Miro2 subfamily. 99.6 6.6E-15 1.4E-19 85.7 7.0 66 2-72 61-126 (169)
87 cd04101 RabL4 RabL4 (Rab-like4 99.6 8.8E-15 1.9E-19 84.0 7.5 67 3-73 60-126 (164)
88 cd04146 RERG_RasL11_like RERG/ 99.6 6.4E-15 1.4E-19 84.9 6.6 69 3-73 55-125 (165)
89 cd04130 Wrch_1 Wrch-1 subfamil 99.6 6E-15 1.3E-19 85.8 6.1 62 3-68 56-118 (173)
90 PLN03108 Rab family protein; P 99.6 1E-14 2.2E-19 87.6 7.2 68 3-73 63-130 (210)
91 PLN03118 Rab family protein; P 99.6 1.8E-14 3.9E-19 86.4 7.4 69 3-73 70-139 (211)
92 cd04158 ARD1 ARD1 subfamily. 99.6 2.1E-14 4.5E-19 83.4 7.2 64 3-68 51-114 (169)
93 PTZ00133 ADP-ribosylation fact 99.6 2.3E-14 5.1E-19 84.5 7.3 64 3-68 69-132 (182)
94 cd04123 Rab21 Rab21 subfamily. 99.6 2.7E-14 5.8E-19 81.4 7.1 67 3-72 57-123 (162)
95 cd01861 Rab6 Rab6 subfamily. 99.5 3.4E-14 7.3E-19 81.3 7.1 68 2-72 56-123 (161)
96 cd04118 Rab24 Rab24 subfamily. 99.5 6E-14 1.3E-18 82.8 7.4 62 3-68 58-119 (193)
97 smart00175 RAB Rab subfamily o 99.5 5.4E-14 1.2E-18 80.4 6.8 67 3-72 57-123 (164)
98 cd01860 Rab5_related Rab5-rela 99.5 6.9E-14 1.5E-18 80.1 7.1 68 2-72 57-124 (163)
99 cd04114 Rab30 Rab30 subfamily. 99.5 8.2E-14 1.8E-18 80.3 7.1 68 3-73 64-131 (169)
100 cd04147 Ras_dva Ras-dva subfam 99.5 1.3E-13 2.7E-18 82.1 8.0 64 3-68 55-118 (198)
101 cd04154 Arl2 Arl2 subfamily. 99.5 1.1E-13 2.4E-18 80.5 7.3 65 3-69 66-130 (173)
102 cd04148 RGK RGK subfamily. Th 99.5 8.8E-14 1.9E-18 84.3 7.1 62 11-73 64-125 (221)
103 cd01863 Rab18 Rab18 subfamily. 99.5 1.9E-13 4.1E-18 78.3 7.5 63 3-67 57-119 (161)
104 cd04142 RRP22 RRP22 subfamily. 99.5 1.6E-13 3.5E-18 82.0 6.7 54 20-73 80-135 (198)
105 cd04157 Arl6 Arl6 subfamily. 99.5 3.4E-13 7.4E-18 77.1 7.6 65 3-69 53-119 (162)
106 cd04139 RalA_RalB RalA/RalB su 99.5 3E-13 6.5E-18 77.2 7.3 66 3-70 56-121 (164)
107 cd01862 Rab7 Rab7 subfamily. 99.5 2.9E-13 6.4E-18 78.0 7.1 66 3-70 57-125 (172)
108 cd01893 Miro1 Miro1 subfamily. 99.5 3.6E-13 7.7E-18 77.9 7.4 65 3-71 55-120 (166)
109 cd04152 Arl4_Arl7 Arl4/Arl7 su 99.5 3.4E-13 7.5E-18 79.4 7.5 64 3-68 60-123 (183)
110 cd04135 Tc10 TC10 subfamily. 99.5 2.5E-13 5.4E-18 78.7 6.7 62 3-68 56-118 (174)
111 cd01870 RhoA_like RhoA-like su 99.5 3.5E-13 7.7E-18 78.1 6.7 62 3-68 57-119 (175)
112 cd04153 Arl5_Arl8 Arl5/Arl8 su 99.4 5.8E-13 1.3E-17 77.7 7.3 64 3-68 67-130 (174)
113 cd04129 Rho2 Rho2 subfamily. 99.4 3.6E-13 7.8E-18 79.5 6.2 62 3-68 57-119 (187)
114 cd04156 ARLTS1 ARLTS1 subfamil 99.4 7.8E-13 1.7E-17 75.6 7.2 64 3-68 52-115 (160)
115 cd04137 RheB Rheb (Ras Homolog 99.4 5.4E-13 1.2E-17 77.8 6.7 68 3-72 57-124 (180)
116 PF08477 Miro: Miro-like prote 99.4 5.9E-13 1.3E-17 73.1 6.3 59 3-65 58-119 (119)
117 cd00876 Ras Ras family. The R 99.4 1.1E-12 2.3E-17 74.6 7.0 68 3-72 55-122 (160)
118 cd04151 Arl1 Arl1 subfamily. 99.4 1.5E-12 3.3E-17 74.6 7.5 64 3-68 51-114 (158)
119 PTZ00132 GTP-binding nuclear p 99.4 1.7E-12 3.7E-17 78.0 7.5 62 3-68 66-127 (215)
120 smart00178 SAR Sar1p-like memb 99.4 1.4E-12 3E-17 76.9 6.7 64 3-68 69-132 (184)
121 cd00878 Arf_Arl Arf (ADP-ribos 99.4 2.5E-12 5.3E-17 73.5 7.5 66 3-70 51-116 (158)
122 TIGR00157 ribosome small subun 99.4 5.3E-13 1.2E-17 82.2 4.4 62 5-72 23-85 (245)
123 cd04160 Arfrp1 Arfrp1 subfamil 99.4 3E-12 6.5E-17 73.6 7.0 64 3-68 58-121 (167)
124 cd00879 Sar1 Sar1 subfamily. 99.4 3.8E-12 8.2E-17 74.8 7.2 64 3-68 71-134 (190)
125 KOG3883|consensus 99.4 3.3E-12 7.2E-17 74.2 6.2 63 9-73 75-137 (198)
126 cd00157 Rho Rho (Ras homology) 99.4 3.5E-12 7.6E-17 73.4 6.2 64 3-70 56-120 (171)
127 cd04159 Arl10_like Arl10-like 99.3 1.1E-11 2.3E-16 70.0 7.3 66 3-70 52-117 (159)
128 cd00154 Rab Rab family. Rab G 99.3 9.4E-12 2E-16 70.1 6.8 62 3-67 57-118 (159)
129 COG1100 GTPase SAR1 and relate 99.3 7.1E-12 1.5E-16 75.0 6.6 65 3-70 62-127 (219)
130 KOG0070|consensus 99.3 1.1E-11 2.4E-16 73.2 6.3 67 3-71 69-135 (181)
131 PF00025 Arf: ADP-ribosylation 99.3 2.7E-11 5.8E-16 71.2 7.8 64 3-68 66-129 (175)
132 KOG0096|consensus 99.3 2.6E-12 5.6E-17 76.6 3.3 62 3-68 67-128 (216)
133 cd01890 LepA LepA subfamily. 99.2 1.9E-10 4.2E-15 66.8 6.7 59 3-68 75-133 (179)
134 cd04155 Arl3 Arl3 subfamily. 99.1 3.2E-10 6.8E-15 65.6 7.2 64 3-68 66-129 (173)
135 KOG4423|consensus 99.1 1.4E-11 3.1E-16 73.4 1.5 64 3-68 83-149 (229)
136 KOG0075|consensus 99.1 1.3E-10 2.8E-15 67.2 5.3 64 3-68 73-136 (186)
137 cd01898 Obg Obg subfamily. Th 99.1 2.1E-10 4.6E-15 66.0 6.0 64 8-71 65-131 (170)
138 cd04105 SR_beta Signal recogni 99.1 5.9E-10 1.3E-14 66.9 6.3 65 3-69 56-124 (203)
139 cd01891 TypA_BipA TypA (tyrosi 99.0 1.8E-09 3.9E-14 64.0 6.5 60 3-69 73-132 (194)
140 KOG1673|consensus 99.0 7.7E-10 1.7E-14 64.6 4.7 60 3-66 77-136 (205)
141 KOG0073|consensus 99.0 2.7E-09 5.8E-14 62.6 6.7 64 3-68 68-131 (185)
142 KOG0071|consensus 99.0 2.8E-09 6.2E-14 61.4 6.1 68 3-72 69-136 (180)
143 PRK12299 obgE GTPase CgtA; Rev 99.0 2E-09 4.4E-14 69.1 6.0 63 8-70 223-287 (335)
144 KOG0076|consensus 98.9 1.4E-09 3.1E-14 64.2 2.8 67 3-71 77-143 (197)
145 cd00882 Ras_like_GTPase Ras-li 98.9 2.5E-08 5.4E-13 55.0 7.4 65 3-69 53-117 (157)
146 KOG1707|consensus 98.9 9.2E-09 2E-13 69.6 6.3 58 10-70 72-131 (625)
147 TIGR03156 GTP_HflX GTP-binding 98.8 1.6E-08 3.4E-13 65.4 6.2 60 6-69 257-316 (351)
148 cd01878 HflX HflX subfamily. 98.8 2E-08 4.4E-13 59.7 6.0 49 20-69 120-168 (204)
149 cd01897 NOG NOG1 is a nucleola 98.8 1.8E-08 4E-13 57.8 5.2 50 21-72 80-131 (168)
150 cd01881 Obg_like The Obg-like 98.8 2.1E-08 4.5E-13 57.8 5.3 52 20-71 74-137 (176)
151 cd04171 SelB SelB subfamily. 98.7 3.9E-08 8.5E-13 56.0 5.4 58 3-69 59-119 (164)
152 cd01885 EF2 EF2 (for archaea a 98.7 4.4E-08 9.6E-13 59.8 5.7 58 3-67 81-138 (222)
153 TIGR02729 Obg_CgtA Obg family 98.7 3.9E-08 8.5E-13 63.0 5.6 61 9-69 223-288 (329)
154 TIGR02528 EutP ethanolamine ut 98.7 1.2E-08 2.5E-13 57.4 2.5 52 6-68 51-102 (142)
155 smart00010 small_GTPase Small 98.7 5.2E-08 1.1E-12 53.3 4.8 56 12-72 40-95 (124)
156 TIGR01393 lepA GTP-binding pro 98.7 6.9E-08 1.5E-12 66.0 6.2 59 3-68 78-136 (595)
157 TIGR00491 aIF-2 translation in 98.6 8.8E-08 1.9E-12 65.5 5.9 56 3-68 77-135 (590)
158 COG2229 Predicted GTPase [Gene 98.6 1E-07 2.2E-12 56.6 5.4 63 3-71 76-138 (187)
159 TIGR00231 small_GTP small GTP- 98.6 1.7E-07 3.7E-12 52.2 6.0 63 3-68 58-122 (161)
160 cd01887 IF2_eIF5B IF2/eIF5B (i 98.6 2.3E-07 4.9E-12 53.1 6.5 56 3-68 58-116 (168)
161 PRK11058 GTPase HflX; Provisio 98.6 1.7E-07 3.7E-12 62.0 6.3 48 20-68 276-323 (426)
162 PRK03003 GTP-binding protein D 98.6 2.4E-07 5.2E-12 61.8 6.0 58 4-68 278-336 (472)
163 cd04167 Snu114p Snu114p subfam 98.5 5.1E-07 1.1E-11 54.4 6.3 58 3-67 79-136 (213)
164 KOG0074|consensus 98.5 2.4E-07 5.3E-12 53.6 4.0 64 3-68 70-133 (185)
165 TIGR00450 mnmE_trmE_thdF tRNA 98.5 4.7E-07 1E-11 60.1 5.9 47 14-68 278-324 (442)
166 PRK03003 GTP-binding protein D 98.5 4.8E-07 1E-11 60.3 5.4 54 8-68 107-160 (472)
167 PRK04004 translation initiatio 98.4 5.8E-07 1.3E-11 61.5 5.8 55 3-67 79-136 (586)
168 cd00066 G-alpha G protein alph 98.4 7.3E-07 1.6E-11 56.9 5.9 63 3-67 169-241 (317)
169 PRK12297 obgE GTPase CgtA; Rev 98.4 9.4E-07 2E-11 58.5 6.4 61 8-68 223-288 (424)
170 smart00275 G_alpha G protein a 98.4 9.4E-07 2E-11 57.0 6.2 63 3-67 192-264 (342)
171 PRK05433 GTP-binding protein L 98.4 9.8E-07 2.1E-11 60.5 6.5 59 3-68 82-140 (600)
172 CHL00189 infB translation init 98.4 7E-07 1.5E-11 62.5 5.7 56 3-68 303-361 (742)
173 cd01854 YjeQ_engC YjeQ/EngC. 98.4 6.6E-07 1.4E-11 56.4 5.1 45 20-68 78-123 (287)
174 TIGR00487 IF-2 translation ini 98.4 9.4E-07 2E-11 60.5 6.2 56 3-68 143-201 (587)
175 cd01879 FeoB Ferrous iron tran 98.4 1.4E-06 3.1E-11 49.3 5.9 61 4-71 52-118 (158)
176 PRK05306 infB translation init 98.4 1.1E-06 2.3E-11 61.9 6.2 56 3-68 345-403 (787)
177 cd04168 TetM_like Tet(M)-like 98.4 2E-06 4.2E-11 53.0 6.5 59 3-68 72-130 (237)
178 PRK05291 trmE tRNA modificatio 98.4 8.9E-07 1.9E-11 58.9 5.1 47 15-70 291-337 (449)
179 PRK04213 GTP-binding protein; 98.3 2.2E-07 4.8E-12 55.1 1.7 62 5-69 73-145 (201)
180 cd00881 GTP_translation_factor 98.3 3.2E-06 7E-11 49.0 6.3 59 3-68 70-128 (189)
181 PRK12289 GTPase RsgA; Reviewed 98.3 1.8E-06 3.9E-11 56.0 5.4 45 20-68 89-134 (352)
182 TIGR00483 EF-1_alpha translati 98.3 9.3E-07 2E-11 58.2 3.8 62 3-68 93-155 (426)
183 TIGR01394 TypA_BipA GTP-bindin 98.3 3.2E-06 7E-11 58.0 6.3 61 3-70 72-132 (594)
184 cd04169 RF3 RF3 subfamily. Pe 98.3 4.5E-06 9.8E-11 52.2 6.4 59 3-68 79-137 (267)
185 TIGR03597 GTPase_YqeH ribosome 98.3 6.1E-07 1.3E-11 58.2 2.6 55 5-68 50-104 (360)
186 cd01855 YqeH YqeH. YqeH is an 98.3 1.3E-06 2.9E-11 51.6 3.9 52 8-68 24-75 (190)
187 PRK12288 GTPase RsgA; Reviewed 98.2 3.2E-06 6.9E-11 54.8 5.3 45 20-68 120-164 (347)
188 PRK14845 translation initiatio 98.2 4.4E-06 9.6E-11 60.3 6.1 56 3-68 534-592 (1049)
189 KOG0077|consensus 98.2 3.2E-06 6.8E-11 50.0 4.5 64 3-68 72-135 (193)
190 PRK15467 ethanolamine utilizat 98.2 2.8E-06 6E-11 49.2 4.3 42 20-68 64-105 (158)
191 PRK00098 GTPase RsgA; Reviewed 98.2 2.6E-06 5.6E-11 54.0 4.5 45 20-68 80-125 (298)
192 TIGR00475 selB selenocysteine- 98.2 3E-06 6.4E-11 58.0 4.7 57 3-69 58-118 (581)
193 PRK12296 obgE GTPase CgtA; Rev 98.2 3.5E-06 7.6E-11 56.8 4.8 62 9-70 224-300 (500)
194 cd04164 trmE TrmE (MnmE, ThdF, 98.2 6.3E-06 1.4E-10 46.3 4.9 43 20-69 80-122 (157)
195 PRK13351 elongation factor G; 98.1 1.2E-05 2.6E-10 55.9 6.5 59 3-68 81-139 (687)
196 PRK15494 era GTPase Era; Provi 98.1 1.1E-05 2.3E-10 52.0 5.5 43 20-68 131-174 (339)
197 TIGR03594 GTPase_EngA ribosome 98.0 1.6E-05 3.4E-10 52.2 5.8 46 15-67 251-296 (429)
198 PRK09518 bifunctional cytidyla 98.0 1.4E-05 3E-10 55.8 5.7 57 5-68 518-575 (712)
199 cd01894 EngA1 EngA1 subfamily. 98.0 1.8E-05 3.8E-10 44.6 5.2 45 20-69 76-120 (157)
200 cd01857 HSR1_MMR1 HSR1/MMR1. 98.0 7.7E-06 1.7E-10 46.4 3.6 44 20-68 11-56 (141)
201 PRK10218 GTP-binding protein; 98.0 3.5E-05 7.7E-10 53.2 6.8 60 3-69 76-135 (607)
202 cd01888 eIF2_gamma eIF2-gamma 98.0 1.9E-05 4.2E-10 47.3 5.0 57 3-68 91-151 (203)
203 PF09439 SRPRB: Signal recogni 98.0 2.8E-05 6E-10 46.4 5.6 65 4-70 58-128 (181)
204 PRK00741 prfC peptide chain re 98.0 1.6E-05 3.4E-10 54.0 4.9 59 3-68 87-145 (526)
205 TIGR00436 era GTP-binding prot 98.0 2E-05 4.2E-10 49.2 5.0 43 20-68 79-121 (270)
206 PRK00093 GTP-binding protein D 98.0 4E-05 8.7E-10 50.5 6.6 48 12-68 74-123 (435)
207 cd01895 EngA2 EngA2 subfamily. 98.0 4E-05 8.8E-10 43.5 5.8 45 20-69 84-128 (174)
208 PRK12317 elongation factor 1-a 97.9 1.8E-05 3.8E-10 52.2 4.6 61 3-68 92-153 (425)
209 cd00880 Era_like Era (E. coli 97.9 5.3E-05 1.1E-09 42.0 5.9 50 14-70 71-120 (163)
210 PRK12298 obgE GTPase CgtA; Rev 97.9 3.6E-05 7.9E-10 50.6 5.1 50 20-69 237-290 (390)
211 TIGR00437 feoB ferrous iron tr 97.9 2.8E-05 6.1E-10 53.4 4.6 62 3-71 49-116 (591)
212 KOG0072|consensus 97.9 5.5E-05 1.2E-09 44.0 5.0 60 10-69 74-134 (182)
213 TIGR00503 prfC peptide chain r 97.8 6.9E-05 1.5E-09 51.0 6.1 59 3-68 88-146 (527)
214 PF00009 GTP_EFTU: Elongation 97.8 0.00016 3.5E-09 42.6 6.3 58 3-67 78-135 (188)
215 TIGR03598 GTPase_YsxC ribosome 97.7 0.00011 2.5E-09 42.9 5.2 58 6-68 85-143 (179)
216 cd01859 MJ1464 MJ1464. This f 97.7 6E-05 1.3E-09 43.2 3.9 52 9-67 3-54 (156)
217 TIGR03594 GTPase_EngA ribosome 97.7 0.00013 2.7E-09 48.0 5.8 55 6-69 66-122 (429)
218 PRK09518 bifunctional cytidyla 97.7 0.0001 2.2E-09 51.6 5.6 53 8-68 344-397 (712)
219 PF06858 NOG1: Nucleolar GTP-b 97.7 0.00031 6.7E-09 34.6 5.7 43 21-65 14-58 (58)
220 cd04166 CysN_ATPS CysN_ATPS su 97.7 0.00018 3.9E-09 43.2 5.8 60 3-68 85-144 (208)
221 TIGR03680 eif2g_arch translati 97.7 0.00012 2.7E-09 48.2 5.4 57 3-68 88-148 (406)
222 PRK00093 GTP-binding protein D 97.7 0.00013 2.9E-09 48.0 5.4 57 5-68 241-298 (435)
223 TIGR00484 EF-G translation elo 97.6 0.00027 5.9E-09 49.3 6.6 59 3-68 83-141 (689)
224 cd01889 SelB_euk SelB subfamil 97.6 0.00033 7.1E-09 41.4 6.0 43 20-67 91-133 (192)
225 cd01883 EF1_alpha Eukaryotic e 97.6 0.00024 5.2E-09 43.1 5.3 59 3-67 85-150 (219)
226 COG2262 HflX GTPases [General 97.6 0.00048 1E-08 45.6 6.6 56 8-67 262-317 (411)
227 cd04170 EF-G_bact Elongation f 97.5 0.00046 9.9E-09 43.0 6.1 58 4-68 73-130 (268)
228 PLN00043 elongation factor 1-a 97.5 0.00028 6.1E-09 47.2 5.3 58 3-67 93-158 (447)
229 PRK04000 translation initiatio 97.5 0.00047 1E-08 45.6 6.0 56 3-68 93-153 (411)
230 cd04163 Era Era subfamily. Er 97.5 0.00026 5.7E-09 39.7 4.2 43 20-68 82-125 (168)
231 PRK10512 selenocysteinyl-tRNA- 97.4 0.00061 1.3E-08 47.3 6.4 56 3-68 59-118 (614)
232 cd01876 YihA_EngB The YihA (En 97.4 0.00043 9.3E-09 39.0 4.5 56 5-67 65-123 (170)
233 PRK12740 elongation factor G; 97.4 0.00077 1.7E-08 46.9 6.5 59 3-68 68-126 (668)
234 PRK00089 era GTPase Era; Revie 97.3 0.00059 1.3E-08 42.8 4.9 42 20-67 84-126 (292)
235 cd01886 EF-G Elongation factor 97.3 0.0019 4E-08 40.7 6.6 59 3-68 72-130 (270)
236 KOG1707|consensus 97.2 0.0011 2.4E-08 45.7 5.2 49 20-71 495-543 (625)
237 TIGR00490 aEF-2 translation el 97.2 0.0013 2.8E-08 46.4 5.5 58 3-67 94-151 (720)
238 TIGR00485 EF-Tu translation el 97.1 0.0024 5.2E-08 42.0 6.3 56 3-68 83-142 (394)
239 PRK00454 engB GTP-binding prot 97.1 0.0019 4.1E-08 37.9 5.3 59 5-68 90-149 (196)
240 cd01858 NGP_1 NGP-1. Autoanti 97.1 0.0011 2.4E-08 38.1 4.0 44 20-68 8-53 (157)
241 COG0532 InfB Translation initi 97.1 0.0013 2.9E-08 44.6 4.8 56 3-68 63-121 (509)
242 cd01849 YlqF_related_GTPase Yl 97.1 0.00087 1.9E-08 38.5 3.5 43 22-68 1-43 (155)
243 KOG1489|consensus 97.1 0.0021 4.5E-08 41.8 5.3 47 21-67 275-325 (366)
244 cd04165 GTPBP1_like GTPBP1-lik 96.9 0.0049 1.1E-07 37.7 6.0 61 3-68 92-152 (224)
245 PRK01889 GTPase RsgA; Reviewed 96.9 0.004 8.7E-08 40.6 5.6 46 20-69 112-157 (356)
246 PRK13796 GTPase YqeH; Provisio 96.9 0.0017 3.7E-08 42.4 3.8 52 7-68 58-110 (365)
247 KOG0090|consensus 96.8 0.0072 1.6E-07 37.3 5.7 64 4-67 91-158 (238)
248 PRK09554 feoB ferrous iron tra 96.8 0.0038 8.2E-08 44.5 5.1 46 20-72 85-130 (772)
249 PRK12736 elongation factor Tu; 96.7 0.0069 1.5E-07 39.9 5.9 56 3-68 83-142 (394)
250 PRK12735 elongation factor Tu; 96.6 0.0075 1.6E-07 39.8 5.6 59 3-68 83-142 (396)
251 PF04670 Gtr1_RagA: Gtr1/RagA 96.6 0.011 2.3E-07 36.7 5.9 53 11-67 69-124 (232)
252 cd01896 DRG The developmentall 96.6 0.015 3.2E-07 35.8 6.1 24 14-39 73-97 (233)
253 KOG1144|consensus 96.5 0.0041 8.9E-08 44.5 3.7 54 3-66 548-604 (1064)
254 cd04104 p47_IIGP_like p47 (47- 96.5 0.0067 1.4E-07 36.2 4.2 40 20-67 80-120 (197)
255 PRK12739 elongation factor G; 96.5 0.014 3.1E-07 41.0 6.3 59 3-68 81-139 (691)
256 cd01884 EF_Tu EF-Tu subfamily. 96.5 0.017 3.6E-07 34.7 5.8 57 4-67 74-131 (195)
257 TIGR02034 CysN sulfate adenyly 96.4 0.0086 1.9E-07 39.6 4.9 60 3-68 88-147 (406)
258 PRK13768 GTPase; Provisional 96.4 0.0055 1.2E-07 38.1 3.8 59 9-69 114-177 (253)
259 PRK05124 cysN sulfate adenylyl 96.3 0.013 2.9E-07 39.6 5.2 60 3-68 115-174 (474)
260 PF00503 G-alpha: G-protein al 96.3 0.015 3.3E-07 38.1 5.3 63 3-67 244-316 (389)
261 PLN00116 translation elongatio 96.2 0.016 3.5E-07 41.7 5.3 58 3-67 106-163 (843)
262 PLN03126 Elongation factor Tu; 96.1 0.025 5.4E-07 38.4 5.8 59 3-68 152-211 (478)
263 cd01856 YlqF YlqF. Proteins o 96.1 0.0054 1.2E-07 35.7 2.4 42 20-68 19-60 (171)
264 KOG1145|consensus 96.0 0.019 4.1E-07 39.9 5.0 56 3-68 209-267 (683)
265 CHL00071 tufA elongation facto 95.9 0.037 8.1E-07 36.7 6.0 58 4-68 84-142 (409)
266 PRK07560 elongation factor EF- 95.9 0.025 5.4E-07 40.1 5.1 58 3-67 95-152 (731)
267 PRK05506 bifunctional sulfate 95.8 0.024 5.1E-07 39.5 4.9 60 3-68 112-171 (632)
268 PF02421 FeoB_N: Ferrous iron 95.8 0.012 2.7E-07 34.4 3.0 44 20-70 78-121 (156)
269 PTZ00327 eukaryotic translatio 95.8 0.034 7.4E-07 37.6 5.4 60 3-68 125-185 (460)
270 KOG0082|consensus 95.7 0.043 9.3E-07 36.1 5.5 60 9-68 206-276 (354)
271 PTZ00416 elongation factor 2; 95.7 0.028 6E-07 40.5 5.0 58 3-67 100-157 (836)
272 KOG3886|consensus 95.7 0.056 1.2E-06 34.1 5.6 64 3-68 61-130 (295)
273 PRK00049 elongation factor Tu; 95.7 0.044 9.6E-07 36.2 5.5 58 4-68 84-142 (396)
274 TIGR03596 GTPase_YlqF ribosome 95.6 0.024 5.2E-07 35.7 4.0 42 20-68 21-62 (276)
275 cd01850 CDC_Septin CDC/Septin. 95.5 0.013 2.9E-07 36.9 2.5 15 54-68 143-157 (276)
276 PRK09563 rbgA GTPase YlqF; Rev 95.5 0.022 4.7E-07 36.1 3.5 42 20-68 24-65 (287)
277 COG1084 Predicted GTPase [Gene 95.5 0.045 9.8E-07 35.7 4.8 46 21-69 248-295 (346)
278 PRK00007 elongation factor G; 95.4 0.094 2E-06 37.1 6.6 58 4-68 84-141 (693)
279 KOG0462|consensus 95.3 0.086 1.9E-06 36.8 6.0 61 3-70 133-193 (650)
280 cd04178 Nucleostemin_like Nucl 95.3 0.022 4.7E-07 33.6 2.8 44 22-68 1-44 (172)
281 KOG4273|consensus 95.3 0.013 2.8E-07 37.4 1.9 43 21-67 79-122 (418)
282 PLN03127 Elongation factor Tu; 95.3 0.085 1.8E-06 35.6 5.8 59 3-68 132-191 (447)
283 KOG0468|consensus 95.2 0.047 1E-06 39.0 4.5 58 2-66 204-261 (971)
284 PRK09866 hypothetical protein; 95.1 0.083 1.8E-06 37.6 5.5 46 20-68 258-303 (741)
285 COG0486 ThdF Predicted GTPase 95.0 0.062 1.3E-06 36.4 4.5 43 20-69 296-339 (454)
286 COG1160 Predicted GTPases [Gen 94.8 0.13 2.9E-06 34.8 5.6 41 20-67 83-125 (444)
287 PF01926 MMR_HSR1: 50S ribosom 94.6 0.19 4.2E-06 27.1 5.2 36 20-63 79-116 (116)
288 COG0536 Obg Predicted GTPase [ 94.4 0.13 2.8E-06 33.9 4.9 47 21-67 238-288 (369)
289 PTZ00141 elongation factor 1- 93.6 0.21 4.6E-06 33.6 4.9 57 3-66 93-157 (446)
290 COG0480 FusA Translation elong 92.9 0.28 6.2E-06 35.0 4.7 58 3-67 84-141 (697)
291 PF00350 Dynamin_N: Dynamin fa 92.8 0.78 1.7E-05 26.1 5.9 54 5-64 115-168 (168)
292 KOG0705|consensus 92.8 0.079 1.7E-06 37.1 1.9 53 13-67 90-142 (749)
293 smart00053 DYNc Dynamin, GTPas 92.7 0.66 1.4E-05 28.9 5.7 55 8-68 151-206 (240)
294 COG1162 Predicted GTPases [Gen 92.3 0.73 1.6E-05 29.8 5.7 46 20-69 79-125 (301)
295 COG0218 Predicted GTPase [Gene 91.9 0.77 1.7E-05 28.1 5.2 59 5-68 90-149 (200)
296 PF14331 ImcF-related_N: ImcF- 91.4 0.32 6.9E-06 30.6 3.4 47 20-67 25-82 (266)
297 KOG1424|consensus 91.3 0.25 5.5E-06 34.2 2.9 55 9-71 166-222 (562)
298 COG2895 CysN GTPases - Sulfate 91.1 0.99 2.2E-05 30.3 5.4 62 3-70 94-155 (431)
299 TIGR03348 VI_IcmF type VI secr 90.6 0.58 1.3E-05 35.2 4.4 47 20-67 201-256 (1169)
300 COG0481 LepA Membrane GTPase L 90.5 1.1 2.5E-05 31.1 5.4 58 4-68 85-142 (603)
301 KOG1490|consensus 90.2 0.62 1.3E-05 32.5 4.0 48 21-70 248-297 (620)
302 KOG3929|consensus 90.2 0.7 1.5E-05 29.9 4.0 13 54-66 190-202 (363)
303 cd01882 BMS1 Bms1. Bms1 is an 90.1 1.3 2.8E-05 27.0 5.1 43 20-67 103-146 (225)
304 COG1159 Era GTPase [General fu 90.0 1.6 3.4E-05 28.3 5.5 42 20-68 85-128 (298)
305 COG1160 Predicted GTPases [Gen 89.9 1.4 3E-05 30.1 5.4 59 4-69 245-304 (444)
306 cd03110 Fer4_NifH_child This p 89.8 2.1 4.5E-05 24.8 5.7 43 20-67 114-156 (179)
307 COG1161 Predicted GTPases [Gen 89.5 0.43 9.3E-06 30.9 2.8 42 20-68 34-75 (322)
308 KOG1954|consensus 87.9 1.4 3.1E-05 29.8 4.4 56 7-68 170-225 (532)
309 KOG1423|consensus 87.2 1.2 2.5E-05 29.4 3.6 45 20-68 155-199 (379)
310 KOG0447|consensus 86.4 2.1 4.6E-05 30.6 4.7 58 7-69 437-494 (980)
311 COG4108 PrfC Peptide chain rel 84.4 2.7 5.8E-05 29.1 4.3 59 3-68 89-147 (528)
312 cd02067 B12-binding B12 bindin 84.0 4.5 9.7E-05 22.0 4.6 40 20-62 50-89 (119)
313 KOG2423|consensus 83.9 3.9 8.5E-05 28.1 4.9 52 11-67 203-257 (572)
314 KOG2484|consensus 82.2 2.6 5.6E-05 28.6 3.6 44 20-68 146-191 (435)
315 TIGR00101 ureG urease accessor 81.5 1.3 2.8E-05 26.6 1.9 37 21-68 113-151 (199)
316 COG0050 TufB GTPases - transla 80.7 1.6 3.4E-05 28.8 2.2 56 4-70 84-144 (394)
317 TIGR02836 spore_IV_A stage IV 80.5 8.9 0.00019 26.6 5.7 42 20-65 144-191 (492)
318 KOG1191|consensus 80.3 2.7 5.9E-05 29.2 3.3 49 21-69 349-404 (531)
319 PF03029 ATP_bind_1: Conserved 79.6 2.6 5.7E-05 26.1 2.9 45 21-68 123-170 (238)
320 COG3640 CooC CO dehydrogenase 79.6 13 0.00029 23.6 5.9 44 20-67 155-198 (255)
321 COG5256 TEF1 Translation elong 78.4 4 8.7E-05 27.8 3.6 61 4-70 94-161 (428)
322 KOG0458|consensus 77.9 3.7 7.9E-05 29.1 3.4 61 4-69 264-330 (603)
323 PF10662 PduV-EutP: Ethanolami 77.6 4.1 9E-05 23.6 3.1 40 20-67 63-102 (143)
324 TIGR00750 lao LAO/AO transport 77.5 5.4 0.00012 25.5 3.9 15 54-68 172-186 (300)
325 TIGR00073 hypB hydrogenase acc 76.8 2.4 5.2E-05 25.4 2.1 14 55-68 149-162 (207)
326 cd01899 Ygr210 Ygr210 subfamil 71.7 11 0.00024 24.5 4.3 27 6-32 84-111 (318)
327 cd01852 AIG1 AIG1 (avrRpt2-ind 70.7 17 0.00037 21.4 4.7 46 20-67 83-129 (196)
328 COG1217 TypA Predicted membran 70.4 13 0.00028 26.2 4.5 61 3-70 76-136 (603)
329 PF14784 ECIST_Cterm: C-termin 70.2 13 0.00028 21.1 3.9 39 21-59 84-123 (126)
330 PF09827 CRISPR_Cas2: CRISPR a 69.7 8.1 0.00018 19.5 2.8 22 23-44 3-24 (78)
331 KOG1532|consensus 69.6 19 0.00042 23.7 4.9 16 53-68 180-195 (366)
332 KOG0099|consensus 69.1 16 0.00034 24.0 4.4 48 20-67 225-282 (379)
333 COG4502 5'(3')-deoxyribonucleo 68.8 16 0.00035 21.6 4.1 41 22-64 85-125 (180)
334 PF10995 DUF2819: Protein of u 66.6 31 0.00066 22.7 5.4 39 20-60 103-141 (316)
335 COG1149 MinD superfamily P-loo 65.7 33 0.00071 22.3 5.3 44 20-68 185-228 (284)
336 PRK09435 membrane ATPase/prote 64.3 22 0.00049 23.4 4.6 39 21-68 170-208 (332)
337 cd02070 corrinoid_protein_B12- 64.2 26 0.00057 21.0 4.6 41 20-62 133-173 (201)
338 COG4963 CpaE Flp pilus assembl 63.7 40 0.00087 22.7 5.6 46 20-67 239-284 (366)
339 cd02071 MM_CoA_mut_B12_BD meth 62.8 24 0.00052 19.4 5.0 42 20-64 50-91 (122)
340 COG3523 IcmF Type VI protein s 62.2 29 0.00063 26.9 5.3 47 20-67 214-269 (1188)
341 KOG0467|consensus 62.2 18 0.00039 26.8 4.1 52 3-65 80-135 (887)
342 TIGR02370 pyl_corrinoid methyl 61.2 30 0.00064 20.8 4.5 40 20-61 135-174 (197)
343 COG2813 RsmC 16S RNA G1207 met 61.0 36 0.00078 22.3 5.0 42 20-66 37-78 (300)
344 TIGR03677 rpl7ae 50S ribosomal 60.8 18 0.00039 20.0 3.2 40 21-67 43-82 (117)
345 KOG0410|consensus 60.7 22 0.00047 24.0 4.0 48 20-68 257-308 (410)
346 PRK15029 arginine decarboxylas 60.4 25 0.00055 25.8 4.6 44 20-65 53-96 (755)
347 PF05783 DLIC: Dynein light in 60.4 21 0.00046 24.7 4.1 26 21-46 101-127 (472)
348 PRK13505 formate--tetrahydrofo 59.8 17 0.00036 25.8 3.5 31 35-69 357-387 (557)
349 COG3276 SelB Selenocysteine-sp 59.8 32 0.00068 23.8 4.7 57 3-69 58-118 (447)
350 COG4917 EutP Ethanolamine util 58.4 8.4 0.00018 22.3 1.7 17 54-70 90-106 (148)
351 KOG1752|consensus 57.0 23 0.00049 19.4 3.2 40 20-64 38-77 (104)
352 PRK04017 hypothetical protein; 56.9 30 0.00065 19.8 3.8 33 33-67 3-35 (132)
353 COG5257 GCD11 Translation init 56.7 17 0.00037 24.4 3.0 41 21-68 110-154 (415)
354 PF03709 OKR_DC_1_N: Orn/Lys/A 56.3 32 0.00069 18.8 5.7 39 21-64 39-77 (115)
355 COG1358 RPL8A Ribosomal protei 55.0 25 0.00053 19.7 3.1 41 20-67 43-83 (116)
356 cd07379 MPP_239FB Homo sapiens 54.3 36 0.00077 18.7 4.0 44 20-66 19-62 (135)
357 COG0523 Putative GTPases (G3E 54.0 47 0.001 21.8 4.7 43 21-69 117-160 (323)
358 PTZ00235 DNA polymerase epsilo 53.8 48 0.001 21.6 4.7 43 22-64 28-74 (291)
359 COG5258 GTPBP1 GTPase [General 53.7 56 0.0012 22.7 5.1 59 3-68 209-269 (527)
360 PF02492 cobW: CobW/HypB/UreG, 53.6 30 0.00064 20.2 3.5 42 20-68 113-155 (178)
361 KOG2455|consensus 53.5 25 0.00055 24.5 3.5 37 29-69 387-423 (561)
362 PF10551 MULE: MULE transposas 53.5 30 0.00064 17.6 3.8 39 21-61 24-62 (93)
363 KOG2485|consensus 53.4 28 0.00061 23.1 3.6 42 20-68 46-87 (335)
364 cd03112 CobW_like The function 52.1 40 0.00087 19.3 3.9 40 20-66 118-158 (158)
365 cd03111 CpaE_like This protein 51.9 36 0.00078 18.1 5.6 43 20-63 64-106 (106)
366 TIGR03369 cellulose_bcsE cellu 51.7 69 0.0015 21.2 5.3 43 20-64 108-151 (322)
367 KOG3905|consensus 51.1 35 0.00076 23.1 3.8 27 22-48 129-156 (473)
368 PF00462 Glutaredoxin: Glutare 50.7 23 0.00051 16.5 2.4 36 22-63 23-58 (60)
369 COG1010 CobJ Precorrin-3B meth 50.4 65 0.0014 20.6 5.0 44 20-64 154-197 (249)
370 COG0370 FeoB Fe2+ transport sy 49.8 32 0.00068 25.0 3.6 46 20-72 81-126 (653)
371 PRK09602 translation-associate 49.1 48 0.001 22.3 4.3 28 4-31 85-113 (396)
372 PRK04175 rpl7ae 50S ribosomal 48.7 36 0.00077 19.0 3.2 40 21-67 47-86 (122)
373 cd01832 SGNH_hydrolase_like_1 48.5 51 0.0011 18.8 4.8 38 20-61 67-112 (185)
374 PF08468 MTS_N: Methyltransfer 47.2 57 0.0012 19.0 4.8 40 20-64 69-108 (155)
375 PRK13660 hypothetical protein; 46.9 64 0.0014 19.5 4.3 38 20-60 129-166 (182)
376 cd07393 MPP_DR1119 Deinococcus 46.9 57 0.0012 19.9 4.2 40 20-62 41-80 (232)
377 cd08166 MPP_Cdc1_like_1 unchar 46.3 48 0.001 20.2 3.7 49 20-68 42-94 (195)
378 TIGR02181 GRX_bact Glutaredoxi 45.2 36 0.00077 16.8 2.7 12 52-63 47-58 (79)
379 COG4221 Short-chain alcohol de 44.0 55 0.0012 20.8 3.8 33 4-39 39-71 (246)
380 PF13124 DUF3963: Protein of u 43.2 29 0.00064 15.4 1.8 15 33-47 10-24 (40)
381 PF04684 BAF1_ABF1: BAF1 / ABF 42.5 13 0.00028 25.8 0.9 27 33-59 25-51 (496)
382 PF00319 SRF-TF: SRF-type tran 42.3 27 0.00058 16.6 1.8 14 20-33 32-45 (51)
383 PRK14719 bifunctional RNAse/5- 42.1 48 0.001 22.1 3.4 36 31-68 2-37 (360)
384 PRK11148 cyclic 3',5'-adenosin 41.8 54 0.0012 20.5 3.6 40 20-63 55-95 (275)
385 TIGR00381 cdhD CO dehydrogenas 41.3 49 0.0011 22.5 3.4 44 19-62 152-196 (389)
386 PRK15045 cellulose biosynthesi 41.0 1.3E+02 0.0028 21.4 5.4 43 20-64 256-299 (519)
387 cd02038 FleN-like FleN is a me 40.6 66 0.0014 17.9 5.5 44 20-66 66-109 (139)
388 PF14606 Lipase_GDSL_3: GDSL-l 40.5 83 0.0018 18.9 4.5 40 20-61 59-100 (178)
389 PRK02261 methylaspartate mutas 39.1 74 0.0016 18.0 4.3 41 20-64 54-94 (137)
390 KOG0460|consensus 38.7 51 0.0011 22.5 3.2 41 21-68 141-184 (449)
391 PF11111 CENP-M: Centromere pr 38.4 67 0.0015 19.4 3.4 27 21-47 65-91 (176)
392 cd02069 methionine_synthase_B1 36.8 1E+02 0.0022 18.9 4.5 39 20-62 139-177 (213)
393 KOG2733|consensus 36.2 48 0.0011 22.6 2.8 21 21-41 62-82 (423)
394 COG4564 Signal transduction hi 36.2 29 0.00062 23.5 1.7 16 19-34 91-106 (459)
395 TIGR01573 cas2 CRISPR-associat 35.9 71 0.0015 16.8 3.4 11 23-33 2-12 (95)
396 KOG0085|consensus 35.8 58 0.0013 21.1 3.0 17 53-69 265-281 (359)
397 PF14639 YqgF: Holliday-juncti 35.6 33 0.00071 19.9 1.8 41 20-60 63-104 (150)
398 COG0745 OmpR Response regulato 34.7 1.1E+02 0.0024 18.8 4.3 41 21-66 44-84 (229)
399 COG0012 Predicted GTPase, prob 34.7 61 0.0013 21.9 3.1 17 52-68 204-220 (372)
400 PF13401 AAA_22: AAA domain; P 34.5 77 0.0017 16.8 4.9 43 21-67 86-128 (131)
401 TIGR00991 3a0901s02IAP34 GTP-b 34.4 1.3E+02 0.0029 19.8 4.5 47 20-67 118-166 (313)
402 COG1163 DRG Predicted GTPase [ 34.0 92 0.002 21.0 3.7 24 20-43 140-164 (365)
403 KOG1036|consensus 33.1 27 0.0006 23.0 1.3 23 20-42 251-273 (323)
404 PRK13185 chlL protochlorophyll 32.7 1.2E+02 0.0027 18.7 5.5 45 21-66 141-186 (270)
405 COG1553 DsrE Uncharacterized c 32.5 37 0.00081 19.4 1.6 42 21-66 41-84 (126)
406 PF11176 DUF2962: Protein of u 32.5 45 0.00097 19.5 2.0 18 25-42 121-138 (155)
407 cd01844 SGNH_hydrolase_like_6 32.2 1E+02 0.0022 17.6 6.4 42 20-63 57-102 (177)
408 TIGR01459 HAD-SF-IIA-hyp4 HAD- 32.0 1.2E+02 0.0027 18.4 4.0 38 21-63 125-162 (242)
409 PF08309 LVIVD: LVIVD repeat; 31.8 32 0.00069 15.5 1.1 15 21-35 19-33 (42)
410 COG2179 Predicted hydrolase of 31.8 79 0.0017 19.1 2.9 41 20-64 27-72 (175)
411 cd07388 MPP_Tt1561 Thermus the 31.4 1.3E+02 0.0029 18.6 4.4 43 20-66 31-74 (224)
412 PF10087 DUF2325: Uncharacteri 31.3 85 0.0018 16.4 5.9 35 20-61 48-82 (97)
413 PHA03050 glutaredoxin; Provisi 31.2 79 0.0017 17.1 2.8 37 25-64 43-79 (108)
414 PF05193 Peptidase_M16_C: Pept 31.2 45 0.00098 18.4 1.9 27 35-64 3-29 (184)
415 cd02117 NifH_like This family 31.0 1.2E+02 0.0026 18.0 6.0 46 21-67 142-188 (212)
416 KOG2792|consensus 30.9 1E+02 0.0022 20.1 3.4 27 33-59 156-182 (280)
417 COG0252 AnsB L-asparaginase/ar 30.8 1.4E+02 0.003 20.0 4.2 38 21-65 101-138 (351)
418 TIGR02256 ICE_VC0181 integrati 30.8 81 0.0018 18.0 2.8 28 34-64 89-116 (131)
419 cd06292 PBP1_LacI_like_10 Liga 30.4 1.3E+02 0.0028 18.1 4.6 13 53-65 82-94 (273)
420 COG1343 CRISPR-associated prot 29.8 46 0.001 17.7 1.6 12 23-34 2-13 (89)
421 KOG0448|consensus 29.7 2.4E+02 0.0052 21.1 5.5 55 7-68 221-275 (749)
422 PRK13602 putative ribosomal pr 29.6 88 0.0019 16.1 2.7 39 21-67 28-66 (82)
423 KOG1154|consensus 29.2 1.6E+02 0.0036 19.0 4.6 60 2-67 94-156 (285)
424 PF00072 Response_reg: Respons 29.1 88 0.0019 15.8 4.2 41 20-66 43-83 (112)
425 PRK09489 rsmC 16S ribosomal RN 28.9 1.7E+02 0.0038 19.2 5.1 41 21-66 77-117 (342)
426 smart00432 MADS MADS domain. 28.5 59 0.0013 15.8 1.8 14 20-33 39-52 (59)
427 COG4474 Uncharacterized protei 28.5 1.1E+02 0.0025 18.5 3.2 24 20-43 129-152 (180)
428 cd02032 Bchl_like This family 28.4 1.5E+02 0.0032 18.3 5.4 45 21-66 139-184 (267)
429 PRK06756 flavodoxin; Provision 28.1 1.2E+02 0.0025 17.0 4.0 42 20-62 49-91 (148)
430 cd00840 MPP_Mre11_N Mre11 nucl 28.0 1.3E+02 0.0029 17.6 4.1 43 20-63 41-86 (223)
431 TIGR02313 HpaI-NOT-DapA 2,4-di 28.0 1.7E+02 0.0036 18.7 4.4 39 20-60 95-133 (294)
432 PF00701 DHDPS: Dihydrodipicol 27.4 1.5E+02 0.0032 18.7 3.9 39 20-61 96-134 (289)
433 PHA02763 hypothetical protein; 27.3 83 0.0018 16.9 2.3 17 34-50 65-81 (102)
434 PF05577 Peptidase_S28: Serine 27.0 1.2E+02 0.0026 20.3 3.5 33 30-62 87-120 (434)
435 PF11658 DUF3260: Protein of u 26.9 1.5E+02 0.0033 21.1 4.0 36 36-73 382-425 (518)
436 cd01538 PBP1_ABC_xylose_bindin 26.7 1.6E+02 0.0035 18.1 4.9 36 20-64 55-90 (288)
437 cd00838 MPP_superfamily metall 26.6 1E+02 0.0022 15.8 2.9 41 20-62 26-67 (131)
438 cd05294 LDH-like_MDH_nadp A la 26.5 1.8E+02 0.004 18.7 4.8 45 20-66 72-126 (309)
439 cd00120 MADS MADS: MCM1, Agamo 26.5 75 0.0016 15.4 1.9 14 20-33 39-52 (59)
440 cd06323 PBP1_ribose_binding Pe 26.5 1.5E+02 0.0032 17.6 4.9 37 20-65 55-91 (268)
441 cd06299 PBP1_LacI_like_13 Liga 26.4 1.5E+02 0.0033 17.6 4.5 34 20-64 55-88 (265)
442 PTZ00222 60S ribosomal protein 26.3 97 0.0021 20.0 2.8 41 20-67 148-188 (263)
443 COG0329 DapA Dihydrodipicolina 25.3 1.7E+02 0.0037 18.9 3.9 38 20-60 99-136 (299)
444 PF06821 Ser_hydrolase: Serine 25.2 1E+02 0.0022 18.1 2.7 52 4-62 11-62 (171)
445 TIGR03368 cellulose_yhjU cellu 25.0 1.6E+02 0.0035 20.9 3.8 35 37-73 380-422 (518)
446 KOG2052|consensus 24.9 76 0.0016 22.3 2.3 32 4-37 220-251 (513)
447 KOG0463|consensus 24.9 53 0.0011 22.8 1.6 14 53-66 272-285 (641)
448 cd07399 MPP_YvnB Bacillus subt 24.5 1.6E+02 0.0035 17.7 3.5 42 20-62 35-78 (214)
449 COG1663 LpxK Tetraacyldisaccha 24.4 44 0.00096 22.2 1.1 11 54-64 46-56 (336)
450 KOG0464|consensus 24.2 17 0.00036 25.4 -0.9 57 3-66 110-166 (753)
451 cd00954 NAL N-Acetylneuraminic 24.2 2E+02 0.0043 18.2 4.2 39 20-60 96-134 (288)
452 PRK01906 tetraacyldisaccharide 24.1 44 0.00095 22.1 1.1 11 53-63 54-64 (338)
453 TIGR00682 lpxK tetraacyldisacc 23.7 50 0.0011 21.5 1.3 12 53-64 26-37 (311)
454 cd01339 LDH-like_MDH L-lactate 23.6 2.1E+02 0.0045 18.2 4.6 45 20-66 66-120 (300)
455 cd02036 MinD Bacterial cell di 23.4 1.5E+02 0.0033 16.6 5.4 44 20-67 84-127 (179)
456 TIGR00683 nanA N-acetylneurami 22.6 2.2E+02 0.0047 18.2 4.2 39 20-60 96-134 (290)
457 PRK06242 flavodoxin; Provision 22.6 1.5E+02 0.0033 16.4 3.4 40 20-62 43-82 (150)
458 PF02310 B12-binding: B12 bind 22.3 1.4E+02 0.003 15.8 5.0 38 20-61 51-88 (121)
459 PF12997 DUF3881: Domain of un 22.2 72 0.0016 20.8 1.7 22 52-73 251-272 (283)
460 cd00952 CHBPH_aldolase Trans-o 22.2 2.1E+02 0.0046 18.4 3.9 39 20-60 103-141 (309)
461 COG1703 ArgK Putative periplas 22.1 2.2E+02 0.0048 19.0 3.9 12 57-68 192-203 (323)
462 cd01853 Toc34_like Toc34-like 21.9 2.2E+02 0.0047 17.9 4.3 46 20-67 114-162 (249)
463 TIGR03566 FMN_reduc_MsuE FMN r 21.8 1.8E+02 0.0038 16.8 4.0 42 20-62 68-109 (174)
464 PRK08576 hypothetical protein; 21.8 1.7E+02 0.0038 20.2 3.5 36 25-63 28-63 (438)
465 COG0300 DltE Short-chain dehyd 21.8 1.8E+02 0.004 18.6 3.5 37 5-41 40-76 (265)
466 PF08348 PAS_6: YheO-like PAS 21.7 1E+02 0.0022 17.1 2.1 24 11-34 8-31 (118)
467 PF06490 FleQ: Flagellar regul 21.5 1.5E+02 0.0033 15.9 4.6 26 39-66 56-81 (109)
468 cd03027 GRX_DEP Glutaredoxin ( 21.3 1.2E+02 0.0026 14.6 2.2 12 52-63 49-60 (73)
469 COG1660 Predicted P-loop-conta 21.2 2E+02 0.0044 18.8 3.5 29 21-49 51-79 (286)
470 cd07400 MPP_YydB Bacillus subt 21.2 1.6E+02 0.0034 16.0 3.9 27 20-46 35-64 (144)
471 COG1182 AcpD Acyl carrier prot 21.0 1.5E+02 0.0032 18.4 2.8 36 10-48 80-115 (202)
472 PRK13235 nifH nitrogenase redu 20.9 2.2E+02 0.0048 17.6 5.6 43 21-64 143-186 (274)
473 KOG1143|consensus 20.4 76 0.0017 22.1 1.6 45 20-69 274-318 (591)
474 COG0647 NagD Predicted sugar p 20.2 1.7E+02 0.0037 18.8 3.1 38 20-65 14-51 (269)
No 1
>KOG0084|consensus
Probab=99.93 E-value=2.8e-26 Score=135.85 Aligned_cols=70 Identities=17% Similarity=0.361 Sum_probs=65.3
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcccC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVTH 74 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~~ 74 (75)
..|||||++++.+||| |++|+|+|||+|+++||+++..|+.++.... ..++|++|||||+|+.+.|.|+.
T Consensus 65 TAGQERFrtit~syYR--~ahGii~vyDiT~~~SF~~v~~Wi~Ei~~~~-~~~v~~lLVGNK~Dl~~~~~v~~ 134 (205)
T KOG0084|consen 65 TAGQERFRTITSSYYR--GAHGIIFVYDITKQESFNNVKRWIQEIDRYA-SENVPKLLVGNKCDLTEKRVVST 134 (205)
T ss_pred ccccHHHhhhhHhhcc--CCCeEEEEEEcccHHHhhhHHHHHHHhhhhc-cCCCCeEEEeeccccHhheecCH
Confidence 3689999999999999 7999999999999999999999999999875 57899999999999999998875
No 2
>KOG0078|consensus
Probab=99.91 E-value=1.2e-24 Score=129.93 Aligned_cols=71 Identities=24% Similarity=0.442 Sum_probs=66.3
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcccCC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVTHS 75 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~~e 75 (75)
..|||+|++++.+||+ +|+++++|||+++..||+++..|++.+.++. ++++|++|||||+||+++|+|+.|
T Consensus 68 taGQerf~ti~~sYyr--gA~gi~LvyDitne~Sfeni~~W~~~I~e~a-~~~v~~~LvGNK~D~~~~R~V~~e 138 (207)
T KOG0078|consen 68 TAGQERFRTITTAYYR--GAMGILLVYDITNEKSFENIRNWIKNIDEHA-SDDVVKILVGNKCDLEEKRQVSKE 138 (207)
T ss_pred cccchhHHHHHHHHHh--hcCeeEEEEEccchHHHHHHHHHHHHHHhhC-CCCCcEEEeeccccccccccccHH
Confidence 4799999999999999 7999999999999999999999999999875 579999999999999999999754
No 3
>KOG0087|consensus
Probab=99.91 E-value=1.4e-24 Score=129.75 Aligned_cols=71 Identities=25% Similarity=0.408 Sum_probs=66.3
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcccCC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVTHS 75 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~~e 75 (75)
..|||||++++++||+ |+.|+++|||+|.+.||+++.+|+.+++.+. .++++++|||||+||...|.|+.|
T Consensus 70 TAGQERyrAitSaYYr--gAvGAllVYDITr~~Tfenv~rWL~ELRdha-d~nivimLvGNK~DL~~lraV~te 140 (222)
T KOG0087|consen 70 TAGQERYRAITSAYYR--GAVGALLVYDITRRQTFENVERWLKELRDHA-DSNIVIMLVGNKSDLNHLRAVPTE 140 (222)
T ss_pred ccchhhhccccchhhc--ccceeEEEEechhHHHHHHHHHHHHHHHhcC-CCCeEEEEeecchhhhhccccchh
Confidence 4699999999999999 8999999999999999999999999999975 479999999999999999998764
No 4
>KOG0094|consensus
Probab=99.90 E-value=5.3e-24 Score=126.40 Aligned_cols=72 Identities=25% Similarity=0.500 Sum_probs=66.7
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcccCC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVTHS 75 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~~e 75 (75)
..|||||+++.|+|+| |+.++|+|||+++.+||++..+|++.+.....+.++-++|||||.||.++|+|+.|
T Consensus 78 TAGQERFrslipsY~R--ds~vaviVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~e 149 (221)
T KOG0094|consen 78 TAGQERFRSLIPSYIR--DSSVAVIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIE 149 (221)
T ss_pred cccHHHHhhhhhhhcc--CCeEEEEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhHH
Confidence 3699999999999999 79999999999999999999999999998776667899999999999999998754
No 5
>KOG0092|consensus
Probab=99.89 E-value=2.1e-23 Score=123.27 Aligned_cols=70 Identities=26% Similarity=0.442 Sum_probs=65.0
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcccC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVTH 74 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~~ 74 (75)
..|||+|.++.|.||| |++++|+|||+|+.+||..++.|+.++++.. ++++.+.|||||+||.+.|+|..
T Consensus 61 TAGQERy~slapMYyR--gA~AAivvYDit~~~SF~~aK~WvkeL~~~~-~~~~vialvGNK~DL~~~R~V~~ 130 (200)
T KOG0092|consen 61 TAGQERYHSLAPMYYR--GANAAIVVYDITDEESFEKAKNWVKELQRQA-SPNIVIALVGNKADLLERREVEF 130 (200)
T ss_pred cCCcccccccccceec--CCcEEEEEEecccHHHHHHHHHHHHHHHhhC-CCCeEEEEecchhhhhhcccccH
Confidence 3699999999999999 8999999999999999999999999999865 48899999999999999898864
No 6
>KOG0098|consensus
Probab=99.89 E-value=2.6e-23 Score=122.83 Aligned_cols=71 Identities=21% Similarity=0.424 Sum_probs=66.4
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcccCC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVTHS 75 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~~e 75 (75)
..|||+|++++.+||+ ++.|+|||||+++++||.++..|+.+++++. .+++.++|+|||+||...|.|+.|
T Consensus 62 taGqe~frsv~~syYr--~a~GalLVydit~r~sF~hL~~wL~D~rq~~-~~NmvImLiGNKsDL~~rR~Vs~E 132 (216)
T KOG0098|consen 62 TAGQESFRSVTRSYYR--GAAGALLVYDITRRESFNHLTSWLEDARQHS-NENMVIMLIGNKSDLEARREVSKE 132 (216)
T ss_pred cCCcHHHHHHHHHHhc--cCcceEEEEEccchhhHHHHHHHHHHHHHhc-CCCcEEEEEcchhhhhccccccHH
Confidence 3699999999999999 7999999999999999999999999999974 589999999999999999999865
No 7
>KOG0093|consensus
Probab=99.87 E-value=1.7e-22 Score=116.01 Aligned_cols=71 Identities=18% Similarity=0.441 Sum_probs=65.4
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcccCC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVTHS 75 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~~e 75 (75)
..|+|+|+.++..||| +++|+|++||+++.+||..++.|...++... -.++|+|||||||||.++|.|+.|
T Consensus 77 TagqEryrtiTTayyR--gamgfiLmyDitNeeSf~svqdw~tqIktys-w~naqvilvgnKCDmd~eRvis~e 147 (193)
T KOG0093|consen 77 TAGQERYRTITTAYYR--GAMGFILMYDITNEESFNSVQDWITQIKTYS-WDNAQVILVGNKCDMDSERVISHE 147 (193)
T ss_pred cccchhhhHHHHHHhh--ccceEEEEEecCCHHHHHHHHHHHHHheeee-ccCceEEEEecccCCccceeeeHH
Confidence 3589999999999999 7999999999999999999999999998764 478999999999999999998864
No 8
>KOG0080|consensus
Probab=99.87 E-value=3.9e-23 Score=120.07 Aligned_cols=72 Identities=28% Similarity=0.316 Sum_probs=66.6
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcccCC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVTHS 75 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~~e 75 (75)
..|||+|++++++||| |++|+|+|||+|.++||.++..|++++......+++.+++||||+|-+.+|.|+.|
T Consensus 67 TAGqErFRtLTpSyyR--gaqGiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~re 138 (209)
T KOG0080|consen 67 TAGQERFRTLTPSYYR--GAQGIILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDRE 138 (209)
T ss_pred ccchHhhhccCHhHhc--cCceeEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccHH
Confidence 3699999999999999 89999999999999999999999999998777788999999999999888998754
No 9
>KOG0079|consensus
Probab=99.87 E-value=2.9e-22 Score=115.21 Aligned_cols=69 Identities=20% Similarity=0.359 Sum_probs=63.6
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcccC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVTH 74 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~~ 74 (75)
+.|+|+|+.++..||+ +.+++++|||+|+.+||.++++|++++++ .++.+|.+|||||+|+.+.|.|..
T Consensus 64 tAGqErFrtitstyyr--gthgv~vVYDVTn~ESF~Nv~rWLeei~~--ncdsv~~vLVGNK~d~~~RrvV~t 132 (198)
T KOG0079|consen 64 TAGQERFRTITSTYYR--GTHGVIVVYDVTNGESFNNVKRWLEEIRN--NCDSVPKVLVGNKNDDPERRVVDT 132 (198)
T ss_pred cccHHHHHHHHHHHcc--CCceEEEEEECcchhhhHhHHHHHHHHHh--cCccccceecccCCCCccceeeeh
Confidence 4699999999999999 79999999999999999999999999998 568999999999999998777643
No 10
>KOG0088|consensus
Probab=99.86 E-value=1.9e-22 Score=117.15 Aligned_cols=70 Identities=27% Similarity=0.406 Sum_probs=64.4
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcccC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVTH 74 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~~ 74 (75)
..|||+|..+.|-||+ +++|+++||||||++||+.+++|..+++... ...+.+++||||+||+++|+|+.
T Consensus 69 TAGQErfHALGPIYYR--gSnGalLVyDITDrdSFqKVKnWV~Elr~ml-Gnei~l~IVGNKiDLEeeR~Vt~ 138 (218)
T KOG0088|consen 69 TAGQERFHALGPIYYR--GSNGALLVYDITDRDSFQKVKNWVLELRTML-GNEIELLIVGNKIDLEEERQVTR 138 (218)
T ss_pred ccchHhhhccCceEEe--CCCceEEEEeccchHHHHHHHHHHHHHHHHh-CCeeEEEEecCcccHHHhhhhhH
Confidence 3689999999999999 7999999999999999999999999999864 36788999999999999999974
No 11
>KOG0081|consensus
Probab=99.86 E-value=4.1e-22 Score=115.80 Aligned_cols=71 Identities=24% Similarity=0.463 Sum_probs=66.9
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcccC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVTH 74 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~~ 74 (75)
..|||+|++++..|++ +|.|+++.||+|+++||.++++|+.+++.+..+.+.-||++|||+||++.|.|++
T Consensus 74 TAGQERFRSLTTAFfR--DAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~ 144 (219)
T KOG0081|consen 74 TAGQERFRSLTTAFFR--DAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSE 144 (219)
T ss_pred cccHHHHHHHHHHHHH--hhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhH
Confidence 3689999999999999 5999999999999999999999999999988889999999999999999998875
No 12
>KOG0091|consensus
Probab=99.85 E-value=1.4e-21 Score=113.88 Aligned_cols=72 Identities=22% Similarity=0.393 Sum_probs=64.3
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcC-CCCCeEEEEeeCCCCcCCCcccCC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKY-IGEKAVILVANKADLERRRQVTHS 75 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~ilvgnK~Dl~~~r~v~~e 75 (75)
..|||+|++++.+||+ |+-|+++|||++|++||++++.|+++...... +.++...|||.|+||...|+|+.|
T Consensus 65 tagqerfrsitksyyr--nsvgvllvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~E 137 (213)
T KOG0091|consen 65 TAGQERFRSITKSYYR--NSVGVLLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAE 137 (213)
T ss_pred ccchHHHHHHHHHHhh--cccceEEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHH
Confidence 3699999999999999 79999999999999999999999999877654 445667899999999999999854
No 13
>KOG0086|consensus
Probab=99.83 E-value=7.6e-21 Score=110.02 Aligned_cols=70 Identities=23% Similarity=0.356 Sum_probs=64.9
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcccC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVTH 74 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~~ 74 (75)
..|||+|++.+.+||+ |+.|.++|||+++++||+.+.+|+.+++... ++++.++++|||.||.++|+|+.
T Consensus 65 TAGQErFRSVtRsYYR--GAAGAlLVYD~TsrdsfnaLtnWL~DaR~lA-s~nIvviL~GnKkDL~~~R~Vtf 134 (214)
T KOG0086|consen 65 TAGQERFRSVTRSYYR--GAAGALLVYDITSRDSFNALTNWLTDARTLA-SPNIVVILCGNKKDLDPEREVTF 134 (214)
T ss_pred cccHHHHHHHHHHHhc--cccceEEEEeccchhhHHHHHHHHHHHHhhC-CCcEEEEEeCChhhcChhhhhhH
Confidence 3689999999999999 8999999999999999999999999998764 68999999999999999999874
No 14
>KOG0095|consensus
Probab=99.82 E-value=1e-20 Score=109.18 Aligned_cols=70 Identities=21% Similarity=0.382 Sum_probs=64.6
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcccC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVTH 74 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~~ 74 (75)
..|||+|++++.+||+ .++++|++||++-+.||+.+..|+.++.+.. ..++..|+||||.|+.+.|+|+.
T Consensus 63 tagqerfrsitqsyyr--sahalilvydiscqpsfdclpewlreie~ya-n~kvlkilvgnk~d~~drrevp~ 132 (213)
T KOG0095|consen 63 TAGQERFRSITQSYYR--SAHALILVYDISCQPSFDCLPEWLREIEQYA-NNKVLKILVGNKIDLADRREVPQ 132 (213)
T ss_pred ccchHHHHHHHHHHhh--hcceEEEEEecccCcchhhhHHHHHHHHHHh-hcceEEEeeccccchhhhhhhhH
Confidence 3689999999999999 5999999999999999999999999999975 47889999999999999988864
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=99.82 E-value=5e-20 Score=110.59 Aligned_cols=68 Identities=19% Similarity=0.402 Sum_probs=61.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+|+|+++++.|++ +++++|+|||+++++||+++..|+..+.+.. ..++|+++||||+||...++|+
T Consensus 57 aGqe~~~~l~~~y~~--~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~-~~~~piilVgNK~DL~~~~~v~ 124 (202)
T cd04120 57 AGQERFNSITSAYYR--SAKGIILVYDITKKETFDDLPKWMKMIDKYA-SEDAELLLVGNKLDCETDREIS 124 (202)
T ss_pred CCchhhHHHHHHHhc--CCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCcEEEEEECcccccccccC
Confidence 689999999999999 6999999999999999999999999887643 4679999999999998777765
No 16
>KOG0083|consensus
Probab=99.82 E-value=5.9e-21 Score=108.50 Aligned_cols=71 Identities=18% Similarity=0.428 Sum_probs=64.4
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcccCC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVTHS 75 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~~e 75 (75)
..|||+|++.+.+||+ ++|+++++||++++.||++++.|+.++.+.. ...+.+.++|||+|+..+|.|..+
T Consensus 54 tagqerfrsvt~ayyr--da~allllydiankasfdn~~~wlsei~ey~-k~~v~l~llgnk~d~a~er~v~~d 124 (192)
T KOG0083|consen 54 TAGQERFRSVTHAYYR--DADALLLLYDIANKASFDNCQAWLSEIHEYA-KEAVALMLLGNKCDLAHERAVKRD 124 (192)
T ss_pred ccchHHHhhhhHhhhc--ccceeeeeeecccchhHHHHHHHHHHHHHHH-HhhHhHhhhccccccchhhccccc
Confidence 3689999999999999 5999999999999999999999999999875 367889999999999988988653
No 17
>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=99.81 E-value=8.4e-20 Score=109.69 Aligned_cols=69 Identities=9% Similarity=0.129 Sum_probs=60.4
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhc------------------CCCCCeEEEEeeCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSK------------------YIGEKAVILVANKA 64 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~------------------~~~~~~~ilvgnK~ 64 (75)
+|+|+|+.+++.||+ +++++|+|||+++++||+++..|+.++.+.. ...++|++|||||+
T Consensus 62 aG~e~~~~l~~~~yr--~ad~iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~ 139 (202)
T cd04102 62 GGSESVKSTRAVFYN--QVNGIILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKL 139 (202)
T ss_pred CCchhHHHHHHHHhC--cCCEEEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECc
Confidence 689999999999999 6999999999999999999999999987631 12478999999999
Q ss_pred CCcCCCccc
Q psy5805 65 DLERRRQVT 73 (75)
Q Consensus 65 Dl~~~r~v~ 73 (75)
||.++|.++
T Consensus 140 Dl~~~r~~~ 148 (202)
T cd04102 140 DQIPEKESS 148 (202)
T ss_pred cchhhcccc
Confidence 998777554
No 18
>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=99.81 E-value=6e-20 Score=109.24 Aligned_cols=68 Identities=22% Similarity=0.364 Sum_probs=61.8
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcccC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVTH 74 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~~ 74 (75)
+|+++|+.+++.|++ +++++|+|||++++.||+++..|+.++... .+++|++|||||+||.+.|.|+.
T Consensus 63 ~G~~~~~~l~~~~~~--~ad~illVfD~t~~~Sf~~~~~w~~~i~~~--~~~~piilVGNK~DL~~~~~v~~ 130 (189)
T cd04121 63 SGQGRFCTIFRSYSR--GAQGIILVYDITNRWSFDGIDRWIKEIDEH--APGVPKILVGNRLHLAFKRQVAT 130 (189)
T ss_pred CCcHHHHHHHHHHhc--CCCEEEEEEECcCHHHHHHHHHHHHHHHHh--CCCCCEEEEEECccchhccCCCH
Confidence 689999999999999 699999999999999999999999999764 36899999999999988777753
No 19
>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=99.80 E-value=1.4e-19 Score=106.64 Aligned_cols=65 Identities=22% Similarity=0.376 Sum_probs=58.2
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHH-HHHHHHHHhhcCCCCCeEEEEeeCCCCcCCC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKA-EDMLKTLWDSKYIGEKAVILVANKADLERRR 70 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r 70 (75)
.+|+|+|+.+++.|++ +++++|+|||+++++||+++ +.|+.++.+.. +++|++|||||+||.+++
T Consensus 56 t~G~~~~~~~~~~~~~--~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~--~~~piilvgnK~Dl~~~~ 121 (176)
T cd04133 56 TAGQEDYNRLRPLSYR--GADVFVLAFSLISRASYENVLKKWVPELRHYA--PNVPIVLVGTKLDLRDDK 121 (176)
T ss_pred CCCCccccccchhhcC--CCcEEEEEEEcCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEeChhhccCh
Confidence 3789999999999999 69999999999999999998 78999998743 679999999999997654
No 20
>KOG0394|consensus
Probab=99.79 E-value=1.5e-19 Score=106.78 Aligned_cols=71 Identities=27% Similarity=0.383 Sum_probs=62.1
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcC---CCCCeEEEEeeCCCCcC--CCcccC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKY---IGEKAVILVANKADLER--RRQVTH 74 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~---~~~~~~ilvgnK~Dl~~--~r~v~~ 74 (75)
..|||||+++.-.+|| |+|++++|||+++++||+++..|.+++..... +...|.||+|||.|+.+ .|+|+.
T Consensus 65 TAGQERFqsLg~aFYR--gaDcCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~ 140 (210)
T KOG0394|consen 65 TAGQERFQSLGVAFYR--GADCCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSE 140 (210)
T ss_pred cccHHHhhhcccceec--CCceEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeH
Confidence 4699999999999999 89999999999999999999999999876532 34679999999999976 278764
No 21
>KOG0395|consensus
Probab=99.78 E-value=6.8e-19 Score=105.40 Aligned_cols=71 Identities=31% Similarity=0.541 Sum_probs=64.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcccCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVTHS 75 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~~e 75 (75)
.|++.|..++..|.+ +++|+++||+++++.||+.+..++..+.+......+|+++||||+||...|+|+.+
T Consensus 59 ~g~~~~~~~~~~~~~--~~~gF~lVysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~e 129 (196)
T KOG0395|consen 59 AGQEEFSAMRDLYIR--NGDGFLLVYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLERERQVSEE 129 (196)
T ss_pred CCcccChHHHHHhhc--cCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchhccccCHH
Confidence 568999999999999 69999999999999999999999999976666678999999999999998998753
No 22
>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=99.78 E-value=5.2e-19 Score=104.61 Aligned_cols=62 Identities=16% Similarity=0.247 Sum_probs=56.6
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHH-HHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKA-EDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|+|+|+.+++.|++ +++++++|||+++++||+++ ..|++++.+. .+++|++|||||+||.+
T Consensus 61 aG~e~~~~~~~~~~~--~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~--~~~~piilVgNK~DL~~ 123 (182)
T cd04172 61 SGSPYYDNVRPLSYP--DSDAVLICFDISRPETLDSVLKKWKGEIQEF--CPNTKMLLVGCKSDLRT 123 (182)
T ss_pred CCchhhHhhhhhhcC--CCCEEEEEEECCCHHHHHHHHHHHHHHHHHH--CCCCCEEEEeEChhhhc
Confidence 689999999999999 69999999999999999998 8999999874 36799999999999964
No 23
>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=99.77 E-value=2.1e-18 Score=102.32 Aligned_cols=64 Identities=16% Similarity=0.305 Sum_probs=56.8
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHH-HHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAE-DMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
.+|+|+|+.+++.|++ +++++|+|||+++++||+++. .|..++... .+++|++|||||+||.+.
T Consensus 58 t~G~e~~~~l~~~~~~--~a~~~ilvydit~~~Sf~~~~~~w~~~i~~~--~~~~piilvgNK~DL~~~ 122 (191)
T cd01875 58 TAGQEEYDRLRTLSYP--QTNVFIICFSIASPSSYENVRHKWHPEVCHH--CPNVPILLVGTKKDLRND 122 (191)
T ss_pred CCCchhhhhhhhhhcc--CCCEEEEEEECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEEeChhhhcC
Confidence 3799999999999999 699999999999999999996 698888763 367999999999999754
No 24
>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=99.76 E-value=1.4e-18 Score=102.33 Aligned_cols=62 Identities=18% Similarity=0.265 Sum_probs=56.4
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHH-HHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKA-EDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|+|+|..+++.|++ +++++|+|||+++++||+++ ..|..++++. .+++|++|||||+||.+
T Consensus 57 ~G~~~~~~~~~~~~~--~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~~--~~~~~iilVgnK~DL~~ 119 (178)
T cd04131 57 SGSPYYDNVRPLCYP--DSDAVLICFDISRPETLDSVLKKWRGEIQEF--CPNTKVLLVGCKTDLRT 119 (178)
T ss_pred CCchhhhhcchhhcC--CCCEEEEEEECCChhhHHHHHHHHHHHHHHH--CCCCCEEEEEEChhhhc
Confidence 689999999999999 69999999999999999996 8999999874 36899999999999964
No 25
>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=99.76 E-value=3e-18 Score=104.84 Aligned_cols=62 Identities=16% Similarity=0.283 Sum_probs=56.2
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHH-HHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKA-EDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|+|+|+.+++.||+ +++++++|||+++++||+++ ..|+.++... .+++|++|||||+||.+
T Consensus 69 aG~e~~~~~~~~~~~--~ad~vIlVyDit~~~Sf~~~~~~w~~~i~~~--~~~~piilVgNK~DL~~ 131 (232)
T cd04174 69 SGSPYYDNVRPLCYS--DSDAVLLCFDISRPETVDSALKKWKAEIMDY--CPSTRILLIGCKTDLRT 131 (232)
T ss_pred CCchhhHHHHHHHcC--CCcEEEEEEECCChHHHHHHHHHHHHHHHHh--CCCCCEEEEEECccccc
Confidence 689999999999999 69999999999999999985 8999999874 36789999999999964
No 26
>PTZ00099 rab6; Provisional
Probab=99.76 E-value=3.2e-18 Score=100.80 Aligned_cols=68 Identities=22% Similarity=0.488 Sum_probs=60.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++|+.+++.|++ +++++|+|||+++++||+.+..|+..+.... .+++|++|||||+||.+.+.|+
T Consensus 37 ~G~e~~~~~~~~~~~--~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~-~~~~piilVgNK~DL~~~~~v~ 104 (176)
T PTZ00099 37 AGQERFRSLIPSYIR--DSAAAIVVYDITNRQSFENTTKWIQDILNER-GKDVIIALVGNKTDLGDLRKVT 104 (176)
T ss_pred CChHHhhhccHHHhC--CCcEEEEEEECCCHHHHHHHHHHHHHHHHhc-CCCCeEEEEEECcccccccCCC
Confidence 689999999999999 7999999999999999999999999887643 3678999999999997666554
No 27
>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign
Probab=99.76 E-value=3.2e-18 Score=100.06 Aligned_cols=70 Identities=31% Similarity=0.526 Sum_probs=61.4
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcccC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVTH 74 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~~ 74 (75)
+|+++|+.+++.|++ +++++++|||++++.||+.+..|...+.+....+++|+++||||+|+.+.++++.
T Consensus 58 ~G~~~~~~l~~~~~~--~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~ 127 (172)
T cd04141 58 AGQAEFTAMRDQYMR--CGEGFIICYSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQRQVTT 127 (172)
T ss_pred CCchhhHHHhHHHhh--cCCEEEEEEECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcCccCH
Confidence 688999999999999 6999999999999999999999988887654446799999999999987777653
No 28
>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=99.75 E-value=4.9e-18 Score=101.83 Aligned_cols=63 Identities=19% Similarity=0.319 Sum_probs=57.6
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.+|+|+|+.+++.|++ +++++|+|||++++.||+++..|+.++.+. .+++|++|||||+||..
T Consensus 51 t~G~e~~~~l~~~~~~--~ad~~ilV~D~t~~~S~~~i~~w~~~i~~~--~~~~piilvgNK~Dl~~ 113 (200)
T smart00176 51 TAGQEKFGGLRDGYYI--QGQCAIIMFDVTARVTYKNVPNWHRDLVRV--CENIPIVLCGNKVDVKD 113 (200)
T ss_pred CCCchhhhhhhHHHhc--CCCEEEEEEECCChHHHHHHHHHHHHHHHh--CCCCCEEEEEECccccc
Confidence 3789999999999999 699999999999999999999999999874 36899999999999964
No 29
>cd04127 Rab27A Rab27a subfamily. The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated
Probab=99.74 E-value=9e-18 Score=97.91 Aligned_cols=69 Identities=25% Similarity=0.489 Sum_probs=61.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++|..++..+++ +++++++|||+++++||.++..|+.++......+++|+++||||+|+.+.+.++
T Consensus 71 ~G~~~~~~~~~~~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~ 139 (180)
T cd04127 71 AGQERFRSLTTAFFR--DAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVS 139 (180)
T ss_pred CChHHHHHHHHHHhC--CCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccC
Confidence 688999999999999 699999999999999999999999998875445678999999999997766654
No 30
>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=99.73 E-value=1.7e-17 Score=95.06 Aligned_cols=69 Identities=29% Similarity=0.479 Sum_probs=60.7
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++|+.+++.|++ +++++++|||+++++||+.+..|...+.......++|+++||||+|+.+.+.++
T Consensus 57 ~G~~~~~~~~~~~~~--~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~ 125 (163)
T cd04136 57 AGTEQFTAMRDLYIK--NGQGFVLVYSITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVS 125 (163)
T ss_pred CCccccchHHHHHhh--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceec
Confidence 688999999999999 699999999999999999999999988875445689999999999997655543
No 31
>cd04122 Rab14 Rab14 subfamily. Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GT
Probab=99.73 E-value=1.7e-17 Score=95.84 Aligned_cols=69 Identities=23% Similarity=0.386 Sum_probs=60.7
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
.+|+++|+.++..+++ +++++|+|||+++++||+.+..|+.++.... .++.|+++||||+|+.+.+.++
T Consensus 58 t~G~~~~~~~~~~~~~--~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~iiiv~nK~Dl~~~~~~~ 126 (166)
T cd04122 58 TAGQERFRAVTRSYYR--GAAGALMVYDITRRSTYNHLSSWLTDARNLT-NPNTVIFLIGNKADLEAQRDVT 126 (166)
T ss_pred CCCcHHHHHHHHHHhc--CCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEECcccccccCcC
Confidence 3689999999999998 6999999999999999999999999887653 3678999999999998777654
No 32
>PLN00023 GTP-binding protein; Provisional
Probab=99.73 E-value=1.9e-17 Score=105.30 Aligned_cols=65 Identities=15% Similarity=0.147 Sum_probs=57.7
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcC-----------CCCCeEEEEeeCCCCcCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKY-----------IGEKAVILVANKADLERR 69 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-----------~~~~~~ilvgnK~Dl~~~ 69 (75)
+|+|+|+.+++.|++ +++++|+|||+++++||+++..|+.++..... ..++|++|||||+||..+
T Consensus 91 AGqErfrsL~~~yyr--~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~ 166 (334)
T PLN00023 91 SGHERYKDCRSLFYS--QINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPK 166 (334)
T ss_pred CCChhhhhhhHHhcc--CCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECcccccc
Confidence 789999999999999 69999999999999999999999999987521 135899999999999764
No 33
>KOG0097|consensus
Probab=99.72 E-value=5.4e-18 Score=97.37 Aligned_cols=70 Identities=23% Similarity=0.372 Sum_probs=64.3
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcccC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVTH 74 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~~ 74 (75)
..|||+|+..+.+||+ |+.+.++|||++.+.+++++..|+...++.. .++..++++|||.||+.+|.|+-
T Consensus 67 tagqerfravtrsyyr--gaagalmvyditrrstynhlsswl~dar~lt-npnt~i~lignkadle~qrdv~y 136 (215)
T KOG0097|consen 67 TAGQERFRAVTRSYYR--GAAGALMVYDITRRSTYNHLSSWLTDARNLT-NPNTVIFLIGNKADLESQRDVTY 136 (215)
T ss_pred cccHHHHHHHHHHHhc--cccceeEEEEehhhhhhhhHHHHHhhhhccC-CCceEEEEecchhhhhhcccCcH
Confidence 3689999999999999 8999999999999999999999999988764 47889999999999999998874
No 34
>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=99.72 E-value=2.9e-17 Score=94.40 Aligned_cols=68 Identities=29% Similarity=0.494 Sum_probs=59.7
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v 72 (75)
+|+|+|..+++.|++ +++++++|||+++++||+++..|...+.+.....++|+++||||+|+...+.+
T Consensus 57 ~G~~~~~~~~~~~~~--~ad~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~ 124 (163)
T cd04176 57 AGTEQFASMRDLYIK--NGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREV 124 (163)
T ss_pred CCcccccchHHHHHh--hCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCcc
Confidence 688999999999999 69999999999999999999999988887544468999999999999665544
No 35
>cd04175 Rap1 Rap1 subgroup. The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n
Probab=99.71 E-value=4e-17 Score=93.96 Aligned_cols=70 Identities=31% Similarity=0.472 Sum_probs=61.2
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
.+|+++|+.+++.|++ +++++++|||++++.||+.+..|...+.......++|+++||||+|+...+.++
T Consensus 56 t~G~~~~~~~~~~~~~--~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~ 125 (164)
T cd04175 56 TAGTEQFTAMRDLYMK--NGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVG 125 (164)
T ss_pred CCCcccchhHHHHHHh--hCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEc
Confidence 3689999999999999 699999999999999999999999988765445789999999999997655543
No 36
>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=99.71 E-value=2.7e-17 Score=96.39 Aligned_cols=64 Identities=17% Similarity=0.324 Sum_probs=56.2
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHH-HHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAE-DMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
.+|+++|+.+++.|++ +++++|+|||+++++||+++. .|..++... .+++|+++||||+|+...
T Consensus 56 t~G~~~~~~~~~~~~~--~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~--~~~~piilvgnK~Dl~~~ 120 (175)
T cd01874 56 TAGQEDYDRLRPLSYP--QTDVFLVCFSVVSPSSFENVKEKWVPEITHH--CPKTPFLLVGTQIDLRDD 120 (175)
T ss_pred CCCccchhhhhhhhcc--cCCEEEEEEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEECHhhhhC
Confidence 3789999999999998 699999999999999999996 598888763 367999999999999653
No 37
>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=99.71 E-value=3.1e-17 Score=94.10 Aligned_cols=68 Identities=28% Similarity=0.474 Sum_probs=61.2
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++|..+++.+++ +++++|+|||+++++||+++..|+..+..... .++|+++||||+|+.+.++|+
T Consensus 56 ~g~~~~~~~~~~~~~--~~~~~ii~fd~~~~~S~~~~~~~~~~i~~~~~-~~~~iivvg~K~D~~~~~~v~ 123 (162)
T PF00071_consen 56 SGQERFDSLRDIFYR--NSDAIIIVFDVTDEESFENLKKWLEEIQKYKP-EDIPIIVVGNKSDLSDEREVS 123 (162)
T ss_dssp TTSGGGHHHHHHHHT--TESEEEEEEETTBHHHHHTHHHHHHHHHHHST-TTSEEEEEEETTTGGGGSSSC
T ss_pred ccccccccccccccc--cccccccccccccccccccccccccccccccc-ccccceeeeccccccccccch
Confidence 689999999999998 59999999999999999999999999988642 579999999999998877765
No 38
>cd04126 Rab20 Rab20 subfamily. Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bo
Probab=99.71 E-value=4.6e-17 Score=98.93 Aligned_cols=64 Identities=20% Similarity=0.292 Sum_probs=56.5
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.+|+++|+.+++.|++ +++++|+|||+++++||+++..|+..+.+.. ..++|++|||||+||.+
T Consensus 51 t~G~e~~~~l~~~~~~--~ad~~IlV~Dvt~~~Sf~~l~~~~~~l~~~~-~~~~piIlVgNK~DL~~ 114 (220)
T cd04126 51 TAGREQFHGLGSMYCR--GAAAVILTYDVSNVQSLEELEDRFLGLTDTA-NEDCLFAVVGNKLDLTE 114 (220)
T ss_pred CCCcccchhhHHHHhc--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhc-CCCCcEEEEEECccccc
Confidence 3689999999999999 6999999999999999999998887776643 46799999999999965
No 39
>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=99.71 E-value=4.9e-17 Score=96.87 Aligned_cols=69 Identities=20% Similarity=0.207 Sum_probs=58.9
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhc---CCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSK---YIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~---~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++|+.+++.|++ +++++|+|||+++++||+.+..|+.++.... ...++|+++||||+|+...+.++
T Consensus 58 ~G~~~~~~~~~~~~~--~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~ 129 (201)
T cd04107 58 AGQERFGGMTRVYYR--GAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKD 129 (201)
T ss_pred CCchhhhhhHHHHhC--CCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccC
Confidence 688999999999999 6999999999999999999999998887532 13578999999999997545443
No 40
>cd04117 Rab15 Rab15 subfamily. Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to
Probab=99.71 E-value=5.3e-17 Score=93.75 Aligned_cols=68 Identities=18% Similarity=0.328 Sum_probs=60.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++|..+++.|++ +++++++|||+++++||+.+..|+.++.... ..++|+++||||.|+.+.+.++
T Consensus 57 ~g~~~~~~~~~~~~~--~~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~-~~~~~iilvgnK~Dl~~~~~v~ 124 (161)
T cd04117 57 AGQERYQTITKQYYR--RAQGIFLVYDISSERSYQHIMKWVSDVDEYA-PEGVQKILIGNKADEEQKRQVG 124 (161)
T ss_pred CCcHhHHhhHHHHhc--CCcEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEECcccccccCCC
Confidence 678999999999998 6999999999999999999999999887653 3579999999999998777664
No 41
>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=99.70 E-value=7e-17 Score=95.49 Aligned_cols=69 Identities=25% Similarity=0.448 Sum_probs=59.8
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcC--CCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKY--IGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~--~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++|..++..|++ +++++|+|||+++++||+.+..|+..+..... ..++|+++||||+|+...+.++
T Consensus 55 ~G~~~~~~~~~~~~~--~ad~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~ 125 (190)
T cd04144 55 AGQEEYTALRDQWIR--EGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVS 125 (190)
T ss_pred CCchhhHHHHHHHHH--hCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccC
Confidence 688999999999999 69999999999999999999999988876532 2578999999999997666654
No 42
>cd04109 Rab28 Rab28 subfamily. First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumbly the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs
Probab=99.69 E-value=1.1e-16 Score=96.36 Aligned_cols=69 Identities=25% Similarity=0.360 Sum_probs=59.7
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcC--CCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKY--IGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~--~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|++.|..+.+.|++ ++|++|+|||+++++||+++..|...+.+... ..++|+++||||+||.+.+.++
T Consensus 58 ~G~~~~~~l~~~~~~--~ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~ 128 (215)
T cd04109 58 GGQSIGGKMLDKYIY--GAHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVK 128 (215)
T ss_pred CCcHHHHHHHHHHhh--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccC
Confidence 578999999999999 69999999999999999999999999887532 2457899999999998767654
No 43
>PTZ00369 Ras-like protein; Provisional
Probab=99.69 E-value=2.1e-16 Score=93.39 Aligned_cols=69 Identities=25% Similarity=0.431 Sum_probs=60.6
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++|..+++.|++ +++++++|||+++++||+++..|...+.+....+++|+++||||+|+.+.+.++
T Consensus 61 ~G~~~~~~l~~~~~~--~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~ 129 (189)
T PTZ00369 61 AGQEEYSAMRDQYMR--TGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVS 129 (189)
T ss_pred CCCccchhhHHHHhh--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccC
Confidence 688999999999999 699999999999999999999999988765444689999999999997666554
No 44
>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in sperma
Probab=99.68 E-value=1.6e-16 Score=96.69 Aligned_cols=62 Identities=18% Similarity=0.273 Sum_probs=55.2
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHH-HHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKA-EDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|++.|..+++.+|+ ++|++++|||+++++||+++ ..|..++.. ..+++|++|||||+||.+
T Consensus 57 ~G~e~~~~l~~~~~~--~~d~illvfdis~~~Sf~~i~~~w~~~~~~--~~~~~piiLVgnK~DL~~ 119 (222)
T cd04173 57 SGSSYYDNVRPLAYP--DSDAVLICFDISRPETLDSVLKKWQGETQE--FCPNAKVVLVGCKLDMRT 119 (222)
T ss_pred CCcHHHHHHhHHhcc--CCCEEEEEEECCCHHHHHHHHHHHHHHHHh--hCCCCCEEEEEECccccc
Confidence 689999999999999 69999999999999999999 568877765 347899999999999965
No 45
>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=99.68 E-value=2.5e-16 Score=91.88 Aligned_cols=67 Identities=15% Similarity=0.285 Sum_probs=58.0
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQ 71 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~ 71 (75)
+|+++|..++..+++ +++++++|||+++++||+.+..|+.++.+.....++|+++||||+|+...+.
T Consensus 57 ~G~~~~~~~~~~~~~--~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~ 123 (170)
T cd04108 57 AGQERFKCIASTYYR--GAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQ 123 (170)
T ss_pred CChHHHHhhHHHHhc--CCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCcccc
Confidence 688999999999999 6999999999999999999999999887644345688999999999965443
No 46
>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=99.68 E-value=1.5e-16 Score=94.03 Aligned_cols=64 Identities=23% Similarity=0.303 Sum_probs=56.6
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHH-HHHHHHHhhcCCCCCeEEEEeeCCCCcCCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAE-DMLKTLWDSKYIGEKAVILVANKADLERRR 70 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r 70 (75)
+|++.|+.+++.|++ +++++++|||+++++||+.+. .|+..+... .+++|+++||||+||.+.+
T Consensus 56 ~G~~~~~~l~~~~~~--~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~~--~~~~piilvgNK~Dl~~~~ 120 (189)
T cd04134 56 AGQEEFDRLRSLSYA--DTDVIMLCFSVDSPDSLENVESKWLGEIREH--CPGVKLVLVALKCDLREAR 120 (189)
T ss_pred CCChhcccccccccc--CCCEEEEEEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEEChhhccCh
Confidence 688999999999998 699999999999999999996 699888763 4689999999999997654
No 47
>cd04111 Rab39 Rab39 subfamily. Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=99.67 E-value=2.3e-16 Score=95.02 Aligned_cols=69 Identities=25% Similarity=0.409 Sum_probs=60.2
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++|..++..|++ +++++++|||+++++||+++..|+.++.+......+|+++||||+|+...+.++
T Consensus 60 ~G~~~~~~~~~~~~~--~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~ 128 (211)
T cd04111 60 AGQERFRSITRSYYR--NSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVT 128 (211)
T ss_pred CcchhHHHHHHHHhc--CCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccC
Confidence 688999999999998 699999999999999999999999998765444568899999999998766654
No 48
>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine
Probab=99.67 E-value=2e-16 Score=91.84 Aligned_cols=69 Identities=25% Similarity=0.354 Sum_probs=59.6
Q ss_pred cccccch-hhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFT-NLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~-~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++|+ .+.+.|++ ++|++++|||+++++||+.+..|..++.......++|+++||||+|+...++++
T Consensus 59 ~G~~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~ 128 (170)
T cd04115 59 AGQERFRKSMVQHYYR--NVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVP 128 (170)
T ss_pred CChHHHHHhhHHHhhc--CCCEEEEEEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCC
Confidence 6788887 57888888 699999999999999999999999988875444689999999999998777654
No 49
>PLN03071 GTP-binding nuclear protein Ran; Provisional
Probab=99.67 E-value=2.5e-16 Score=95.33 Aligned_cols=63 Identities=21% Similarity=0.342 Sum_probs=57.2
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.+|+++|+.+++.|++ +++++|+|||+++++||+++..|+.++... .+++|+++||||+|+..
T Consensus 69 t~G~~~~~~~~~~~~~--~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~--~~~~piilvgNK~Dl~~ 131 (219)
T PLN03071 69 TAGQEKFGGLRDGYYI--HGQCAIIMFDVTARLTYKNVPTWHRDLCRV--CENIPIVLCGNKVDVKN 131 (219)
T ss_pred CCCchhhhhhhHHHcc--cccEEEEEEeCCCHHHHHHHHHHHHHHHHh--CCCCcEEEEEEchhhhh
Confidence 3789999999999999 699999999999999999999999999874 46899999999999963
No 50
>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=99.66 E-value=3.6e-16 Score=91.56 Aligned_cols=62 Identities=21% Similarity=0.345 Sum_probs=55.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHH-HHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAE-DMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|+++|..+++.|++ +++++|+|||+++++||+++. .|+..+... .+++|+++||||+||.+
T Consensus 57 ~G~~~~~~~~~~~~~--~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~--~~~~piilvgnK~Dl~~ 119 (174)
T cd01871 57 AGQEDYDRLRPLSYP--QTDVFLICFSLVSPASFENVRAKWYPEVRHH--CPNTPIILVGTKLDLRD 119 (174)
T ss_pred CCchhhhhhhhhhcC--CCCEEEEEEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEeeChhhcc
Confidence 688999999999998 699999999999999999995 698888763 36899999999999964
No 51
>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=99.66 E-value=4.1e-16 Score=90.10 Aligned_cols=67 Identities=21% Similarity=0.404 Sum_probs=59.0
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v 72 (75)
+|+++|..++..+++ +++++++|||+++++||+.+..|+.++.+.. ..++|+++||||+|+.+.+.+
T Consensus 58 ~g~~~~~~~~~~~~~--~~~~~l~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl~~~~~~ 124 (165)
T cd01865 58 AGQERYRTITTAYYR--GAMGFILMYDITNEESFNAVQDWSTQIKTYS-WDNAQVILVGNKCDMEDERVV 124 (165)
T ss_pred CChHHHHHHHHHHcc--CCcEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCCEEEEEECcccCccccc
Confidence 578899999999999 6999999999999999999999999987643 357899999999999776654
No 52
>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=99.66 E-value=3.5e-16 Score=89.59 Aligned_cols=67 Identities=19% Similarity=0.370 Sum_probs=59.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++|..+++.|++ +++++++|||+++++||+.+..|+..+... ..++|+++||||+|+..++.++
T Consensus 59 ~G~~~~~~~~~~~~~--~~~~~v~v~d~~~~~s~~~l~~~~~~~~~~--~~~~p~iiv~nK~Dl~~~~~v~ 125 (162)
T cd04106 59 AGQEEFDAITKAYYR--GAQACILVFSTTDRESFEAIESWKEKVEAE--CGDIPMVLVQTKIDLLDQAVIT 125 (162)
T ss_pred CchHHHHHhHHHHhc--CCCEEEEEEECCCHHHHHHHHHHHHHHHHh--CCCCCEEEEEEChhcccccCCC
Confidence 588999999999998 699999999999999999999999988763 4689999999999997666554
No 53
>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=99.66 E-value=5.7e-16 Score=89.48 Aligned_cols=70 Identities=21% Similarity=0.413 Sum_probs=59.2
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcC--CCCCeEEEEeeCCCCcCCCccc
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKY--IGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~--~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
.+|+++|..++..+++ +++++++|||+++++||+++..|+..+.+... .+++|+++||||+|+...+.+.
T Consensus 56 t~G~~~~~~~~~~~~~--~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~ 127 (165)
T cd04140 56 TTGSHQFPAMQRLSIS--KGHAFILVYSVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVS 127 (165)
T ss_pred CCCCCcchHHHHHHhh--cCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeec
Confidence 3688999999998888 59999999999999999999999887776432 2578999999999997666553
No 54
>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=99.66 E-value=5.5e-16 Score=89.71 Aligned_cols=68 Identities=19% Similarity=0.432 Sum_probs=59.6
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++|..++..+++ +++++++|||+++++||+.+..|+..+.+.. ..++|+++||||+|+.+.+.++
T Consensus 60 ~g~~~~~~~~~~~~~--~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~ 127 (167)
T cd01867 60 AGQERFRTITTAYYR--GAMGIILVYDITDEKSFENIRNWMRNIEEHA-SEDVERMLVGNKCDMEEKRVVS 127 (167)
T ss_pred CchHHHHHHHHHHhC--CCCEEEEEEECcCHHHHHhHHHHHHHHHHhC-CCCCcEEEEEECcccccccCCC
Confidence 578899999999888 6999999999999999999999999988753 4679999999999998766554
No 55
>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=99.65 E-value=7.8e-16 Score=88.21 Aligned_cols=69 Identities=29% Similarity=0.504 Sum_probs=60.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
.|+++|..+++.+++ +++++++|||++++.+|+.+..|...+.+.....++|++++|||+|+...+.++
T Consensus 58 ~G~~~~~~~~~~~~~--~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~ 126 (164)
T cd04145 58 AGQEEFSAMREQYMR--TGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVS 126 (164)
T ss_pred CCCcchhHHHHHHHh--hCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceec
Confidence 688999999999998 699999999999999999999999888765445689999999999997655443
No 56
>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=99.65 E-value=6.2e-16 Score=92.14 Aligned_cols=68 Identities=19% Similarity=0.350 Sum_probs=59.5
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
.+|+++|+.++..|++ +++++++|||+++++||+.+..|+..+... .+.+|+++||||+|+...+.++
T Consensus 62 ~~G~~~~~~~~~~~~~--~a~~iilv~D~~~~~s~~~~~~~~~~i~~~--~~~~piivVgNK~Dl~~~~~~~ 129 (199)
T cd04110 62 TAGQERFRTITSTYYR--GTHGVIVVYDVTNGESFVNVKRWLQEIEQN--CDDVCKVLVGNKNDDPERKVVE 129 (199)
T ss_pred CCCchhHHHHHHHHhC--CCcEEEEEEECCCHHHHHHHHHHHHHHHHh--CCCCCEEEEEECcccccccccC
Confidence 3688999999999999 699999999999999999999999988763 4678999999999997655543
No 57
>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=99.65 E-value=7.3e-16 Score=88.86 Aligned_cols=68 Identities=22% Similarity=0.392 Sum_probs=59.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++|..++..+++ +++++++|||+++++||..+..|+..+.... .++.|+++||||+|+...+.++
T Consensus 59 ~G~~~~~~~~~~~~~--~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~-~~~~~~iiv~nK~Dl~~~~~~~ 126 (166)
T cd01869 59 AGQERFRTITSSYYR--GAHGIIIVYDVTDQESFNNVKQWLQEIDRYA-SENVNKLLVGNKCDLTDKRVVD 126 (166)
T ss_pred CCcHhHHHHHHHHhC--cCCEEEEEEECcCHHHHHhHHHHHHHHHHhC-CCCCcEEEEEEChhcccccCCC
Confidence 688999999999999 6999999999999999999999999988753 3678999999999997665543
No 58
>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=99.65 E-value=5.4e-16 Score=92.60 Aligned_cols=60 Identities=17% Similarity=0.130 Sum_probs=49.6
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHH-HHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAE-DMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|++. .+++.|++ +++++|+|||+++++||+++. .|..++... .+++|+++||||+||.+
T Consensus 74 aG~~~--~~~~~~~~--~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~--~~~~piilvgNK~DL~~ 134 (195)
T cd01873 74 FGDHD--KDRRFAYG--RSDVVLLCFSIASPNSLRNVKTMWYPEIRHF--CPRVPVILVGCKLDLRY 134 (195)
T ss_pred CCChh--hhhcccCC--CCCEEEEEEECCChhHHHHHHHHHHHHHHHh--CCCCCEEEEEEchhccc
Confidence 35554 35667787 699999999999999999996 699888764 36789999999999964
No 59
>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=99.65 E-value=1.1e-15 Score=88.60 Aligned_cols=66 Identities=17% Similarity=0.262 Sum_probs=58.4
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v 72 (75)
+|+++|+.+++.|++ +++++++|||.+++.+|..++.|+.++... .+++|+++||||+|+...+.+
T Consensus 52 ~G~~~~~~~~~~~~~--~ad~ii~V~D~t~~~s~~~~~~~l~~~~~~--~~~~piilv~NK~Dl~~~~~~ 117 (164)
T cd04162 52 GGSQNLRKYWKRYLS--GSQGLIFVVDSADSERLPLARQELHQLLQH--PPDLPLVVLANKQDLPAARSV 117 (164)
T ss_pred CCCcchhHHHHHHHh--hCCEEEEEEECCCHHHHHHHHHHHHHHHhC--CCCCcEEEEEeCcCCcCCCCH
Confidence 688999999999999 699999999999999999999998888653 368999999999999876654
No 60
>PLN03110 Rab GTPase; Provisional
Probab=99.65 E-value=6.5e-16 Score=93.25 Aligned_cols=68 Identities=21% Similarity=0.394 Sum_probs=60.4
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
.|+++|.++++.+++ +++++++|||++++.||+++..|+..+.... ..++|+++||||+|+...+.++
T Consensus 69 ~G~~~~~~~~~~~~~--~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~piiiv~nK~Dl~~~~~~~ 136 (216)
T PLN03110 69 AGQERYRAITSAYYR--GAVGALLVYDITKRQTFDNVQRWLRELRDHA-DSNIVIMMAGNKSDLNHLRSVA 136 (216)
T ss_pred CCcHHHHHHHHHHhC--CCCEEEEEEECCChHHHHHHHHHHHHHHHhC-CCCCeEEEEEEChhcccccCCC
Confidence 688999999999999 6999999999999999999999999888753 3679999999999998777664
No 61
>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=99.64 E-value=8.4e-16 Score=94.69 Aligned_cols=69 Identities=23% Similarity=0.350 Sum_probs=58.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhc--------CCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSK--------YIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~--------~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|++.|..++..++. ++|++|+|||+++++||+++..|+.++.... ...++|+++||||+|+..++++.
T Consensus 56 ~G~~~~~~~~~~~~~--~ad~iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~ 132 (247)
T cd04143 56 SGNHPFPAMRRLSIL--TGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQ 132 (247)
T ss_pred CCChhhhHHHHHHhc--cCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccC
Confidence 678999999998888 5999999999999999999999998887542 23578999999999997655553
No 62
>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=99.64 E-value=1.1e-15 Score=87.69 Aligned_cols=69 Identities=25% Similarity=0.489 Sum_probs=59.8
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
.|+++|..+++.+++ +++++++|||+++++||+.+..|...+.+.....+.|+++||||+|+...+.++
T Consensus 56 ~g~~~~~~~~~~~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~ 124 (164)
T smart00173 56 AGQEEFSAMRDQYMR--TGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVS 124 (164)
T ss_pred CCcccchHHHHHHHh--hCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEc
Confidence 688999999999999 599999999999999999999999888765444578999999999997665543
No 63
>cd04119 RJL RJL (RabJ-Like) subfamily. RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.
Probab=99.64 E-value=1e-15 Score=87.72 Aligned_cols=68 Identities=25% Similarity=0.393 Sum_probs=58.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCC----CCCeEEEEeeCCCCcCCCcc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYI----GEKAVILVANKADLERRRQV 72 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~----~~~~~ilvgnK~Dl~~~r~v 72 (75)
+|+++|..+++.+++ +++++|+|||+++++||+.+..|+.++...... .+.|+++||||+|+.+++.+
T Consensus 57 ~G~~~~~~~~~~~~~--~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~ 128 (168)
T cd04119 57 SGHPEYLEVRNEFYK--DTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAV 128 (168)
T ss_pred CccHHHHHHHHHHhc--cCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhccccccc
Confidence 678899999999998 699999999999999999999999998875322 56899999999999754443
No 64
>KOG0393|consensus
Probab=99.64 E-value=4.2e-16 Score=93.23 Aligned_cols=63 Identities=22% Similarity=0.367 Sum_probs=57.2
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHH-HHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKA-EDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
.|||.|..+++..|. ++|.+++||++.+++||+++ .+|+.+++.+ ++++|+||||+|.||.+.
T Consensus 61 AGqedYDrlRplsY~--~tdvfl~cfsv~~p~S~~nv~~kW~pEi~~~--cp~vpiiLVGtk~DLr~d 124 (198)
T KOG0393|consen 61 AGQEDYDRLRPLSYP--QTDVFLLCFSVVSPESFENVKSKWIPEIKHH--CPNVPIILVGTKADLRDD 124 (198)
T ss_pred CCCcccccccccCCC--CCCEEEEEEEcCChhhHHHHHhhhhHHHHhh--CCCCCEEEEeehHHhhhC
Confidence 499999999999888 59999999999999999998 6899999984 599999999999999843
No 65
>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=99.63 E-value=1.4e-15 Score=87.44 Aligned_cols=68 Identities=25% Similarity=0.415 Sum_probs=59.2
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++|..+++.+++ +++++++|||++++.||+++..|+.++.+.. ..++|+++||||+|+...+.++
T Consensus 60 ~g~~~~~~~~~~~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~pi~vv~nK~Dl~~~~~~~ 127 (165)
T cd01868 60 AGQERYRAITSAYYR--GAVGALLVYDITKKQTFENVERWLKELRDHA-DSNIVIMLVGNKSDLRHLRAVP 127 (165)
T ss_pred CChHHHHHHHHHHHC--CCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEECccccccccCC
Confidence 578899999999998 5999999999999999999999999988753 3468999999999997666543
No 66
>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=99.63 E-value=1.4e-15 Score=88.02 Aligned_cols=67 Identities=19% Similarity=0.309 Sum_probs=57.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcC---CCCCeEEEEeeCCCCcCCCcc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKY---IGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~---~~~~~~ilvgnK~Dl~~~r~v 72 (75)
+|+++|+.++..+++ +++++++|||+++++||+.+..|..++..... ..++|+++||||+|+. .+.+
T Consensus 62 ~G~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~ 131 (170)
T cd04116 62 AGQERFRSLRTPFYR--GSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIP-ERQV 131 (170)
T ss_pred CChHHHHHhHHHHhc--CCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECcccc-cccc
Confidence 689999999999999 69999999999999999999999988765432 2568999999999996 3443
No 67
>cd04128 Spg1 Spg1p. Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are
Probab=99.63 E-value=1.5e-15 Score=89.62 Aligned_cols=61 Identities=15% Similarity=0.215 Sum_probs=53.8
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
+|+++|+.+++.|++ +++++++|||+++++||+++..|+.++.+.. ...+| ++||||+||.
T Consensus 57 ~G~~~~~~~~~~~~~--~a~~iilv~D~t~~~s~~~i~~~~~~~~~~~-~~~~p-ilVgnK~Dl~ 117 (182)
T cd04128 57 GGQREFINMLPLVCN--DAVAILFMFDLTRKSTLNSIKEWYRQARGFN-KTAIP-ILVGTKYDLF 117 (182)
T ss_pred CCchhHHHhhHHHCc--CCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCE-EEEEEchhcc
Confidence 689999999999999 6999999999999999999999999987753 34567 6899999994
No 68
>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=99.63 E-value=1.7e-15 Score=87.31 Aligned_cols=67 Identities=19% Similarity=0.416 Sum_probs=58.9
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v 72 (75)
+|+++|..++..+++ +++++++|||++++.||+.+..|+..+.... ..++|+++||||+|+...+.+
T Consensus 60 ~G~~~~~~~~~~~~~--~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~ 126 (165)
T cd01864 60 AGQERFRTITQSYYR--SANGAIIAYDITRRSSFESVPHWIEEVEKYG-ASNVVLLLIGNKCDLEEQREV 126 (165)
T ss_pred CChHHHHHHHHHHhc--cCCEEEEEEECcCHHHHHhHHHHHHHHHHhC-CCCCcEEEEEECccccccccc
Confidence 678999999999998 5999999999999999999999999987643 467999999999999766544
No 69
>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=99.62 E-value=1.7e-15 Score=89.65 Aligned_cols=68 Identities=16% Similarity=0.392 Sum_probs=59.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++|..++..+++ +++++|+|||+++++||+++..|+..+.... ..++|+++||||+|+..++.++
T Consensus 58 ~G~~~~~~~~~~~~~--~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~-~~~~piiiv~NK~Dl~~~~~~~ 125 (191)
T cd04112 58 AGQERFRSVTHAYYR--DAHALLLLYDITNKASFDNIRAWLTEIKEYA-QEDVVIMLLGNKADMSGERVVK 125 (191)
T ss_pred CCcHHHHHhhHHHcc--CCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCcEEEEEEcccchhccccC
Confidence 578999999999988 6999999999999999999999999988753 3578999999999997666543
No 70
>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=99.62 E-value=2.1e-15 Score=87.38 Aligned_cols=68 Identities=24% Similarity=0.453 Sum_probs=59.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++|..++..+++ +++++++|||+++++||+.+..|+.+++... .+++|+++||||.|+...+.++
T Consensus 61 ~G~~~~~~~~~~~~~--~~d~il~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~pvivv~nK~Dl~~~~~~~ 128 (168)
T cd01866 61 AGQESFRSITRSYYR--GAAGALLVYDITRRETFNHLTSWLEDARQHS-NSNMTIMLIGNKCDLESRREVS 128 (168)
T ss_pred CCcHHHHHHHHHHhc--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCcEEEEEECcccccccCCC
Confidence 688999999999998 5999999999999999999999999988753 4689999999999997655543
No 71
>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=99.62 E-value=2.1e-15 Score=88.83 Aligned_cols=68 Identities=19% Similarity=0.333 Sum_probs=59.0
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++|..+++.+++ +++++++|||+++++||+.+..|+.++.... ..++|+++||||+|+.+.+.++
T Consensus 57 ~g~~~~~~~~~~~~~--~~d~iilv~d~~~~~s~~~i~~~~~~i~~~~-~~~~~~ivv~nK~Dl~~~~~v~ 124 (188)
T cd04125 57 NGQERFRSLNNSYYR--GAHGYLLVYDVTDQESFENLKFWINEINRYA-RENVIKVIVANKSDLVNNKVVD 124 (188)
T ss_pred CCcHHHHhhHHHHcc--CCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEECCCCcccccCC
Confidence 578889999999998 6999999999999999999999999988753 3568999999999998666553
No 72
>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=99.62 E-value=1.8e-15 Score=87.63 Aligned_cols=63 Identities=22% Similarity=0.290 Sum_probs=55.6
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHH-HHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAE-DMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
+|+++|..+++.+++ +++++|+|||+++++||+.+. .|+..+... .+++|+++||||+|+...
T Consensus 54 ~G~~~~~~~~~~~~~--~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~~--~~~~piilv~nK~Dl~~~ 117 (174)
T smart00174 54 AGQEDYDRLRPLSYP--DTDVFLICFSVDSPASFENVKEKWYPEVKHF--CPNTPIILVGTKLDLRED 117 (174)
T ss_pred CCCcccchhchhhcC--CCCEEEEEEECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEecChhhhhC
Confidence 688999999999988 699999999999999999995 699988764 368999999999999653
No 73
>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=99.62 E-value=2e-15 Score=87.65 Aligned_cols=62 Identities=21% Similarity=0.349 Sum_probs=56.3
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
.+|++.|..+++.+++ ++|++|+|||+++++||++++.|+.++.... .++|+++||||+|+.
T Consensus 56 t~G~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~--~~~piiiv~nK~Dl~ 117 (166)
T cd00877 56 TAGQEKFGGLRDGYYI--GGQCAIIMFDVTSRVTYKNVPNWHRDLVRVC--GNIPIVLCGNKVDIK 117 (166)
T ss_pred CCCChhhccccHHHhc--CCCEEEEEEECCCHHHHHHHHHHHHHHHHhC--CCCcEEEEEEchhcc
Confidence 4688999999999998 6999999999999999999999999998753 489999999999996
No 74
>KOG4252|consensus
Probab=99.62 E-value=7.8e-16 Score=91.21 Aligned_cols=68 Identities=18% Similarity=0.290 Sum_probs=61.9
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
..|||.|..++..||+ |+++.++||+.+|+.||+.+..|..+++. .+.++|.++|-||+||.+..+++
T Consensus 76 tagqeEfDaItkAyyr--gaqa~vLVFSTTDr~SFea~~~w~~kv~~--e~~~IPtV~vqNKIDlveds~~~ 143 (246)
T KOG4252|consen 76 TAGQEEFDAITKAYYR--GAQASVLVFSTTDRYSFEATLEWYNKVQK--ETERIPTVFVQNKIDLVEDSQMD 143 (246)
T ss_pred hccchhHHHHHHHHhc--cccceEEEEecccHHHHHHHHHHHHHHHH--HhccCCeEEeeccchhhHhhhcc
Confidence 3689999999999999 89999999999999999999999999987 46899999999999998765554
No 75
>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=99.62 E-value=4.3e-15 Score=84.64 Aligned_cols=64 Identities=19% Similarity=0.358 Sum_probs=57.4
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|+++|+.+++.|++ +++++++|||++++.+|+.+..|+..+.+.....++|+++||||+|+..
T Consensus 57 ~G~~~~~~l~~~~~~--~~~~~i~v~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~ 120 (162)
T cd04138 57 AGQEEYSAMRDQYMR--TGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAA 120 (162)
T ss_pred CCCcchHHHHHHHHh--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccc
Confidence 688999999999999 6999999999999999999999998888754446889999999999964
No 76
>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=99.62 E-value=3e-15 Score=87.64 Aligned_cols=65 Identities=15% Similarity=0.282 Sum_probs=55.9
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
+|+++|+.+++.|++ +++++|+|||++++++|+.+..|+..+.+.....++|+++||||+||.+.
T Consensus 65 ~G~~~~~~~~~~~~~--~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~ 129 (175)
T smart00177 65 GGQDKIRPLWRHYYT--NTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDA 129 (175)
T ss_pred CCChhhHHHHHHHhC--CCCEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccC
Confidence 688999999999999 69999999999999999999888877754322357899999999999653
No 77
>cd04177 RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu
Probab=99.61 E-value=2.8e-15 Score=86.78 Aligned_cols=68 Identities=29% Similarity=0.436 Sum_probs=60.2
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v 72 (75)
+|+++|..+++.+++ +++++++|||++++++|+.+..|...+.+.....+.|++++|||.|+.+.+.+
T Consensus 57 ~G~~~~~~~~~~~~~--~~~~~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~ 124 (168)
T cd04177 57 AGTEQFTAMRELYIK--SGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQV 124 (168)
T ss_pred CCcccchhhhHHHHh--hCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCcc
Confidence 689999999999999 69999999999999999999999998876544568999999999999766654
No 78
>PLN00223 ADP-ribosylation factor; Provisional
Probab=99.61 E-value=3e-15 Score=88.22 Aligned_cols=65 Identities=18% Similarity=0.293 Sum_probs=55.7
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
+|+++|+.+++.|++ +++++|+|||++++++|..+..|+..+.+....+++|+++||||+|+...
T Consensus 69 ~Gq~~~~~~~~~~~~--~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~ 133 (181)
T PLN00223 69 GGQDKIRPLWRHYFQ--NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA 133 (181)
T ss_pred CCCHHHHHHHHHHhc--cCCEEEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCC
Confidence 689999999999999 69999999999999999999888777654323467999999999999653
No 79
>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=99.61 E-value=1.9e-15 Score=87.44 Aligned_cols=58 Identities=21% Similarity=0.397 Sum_probs=48.7
Q ss_pred hhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC--CCccc
Q psy5805 14 NFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER--RRQVT 73 (75)
Q Consensus 14 ~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~--~r~v~ 73 (75)
.|++ +++++++|||+++++||+++..|++++......+++|+++||||.||.. .+.|+
T Consensus 61 ~~~~--~~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~ 120 (158)
T cd04103 61 QFAS--WVDAVIFVFSLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVID 120 (158)
T ss_pred hHHh--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccC
Confidence 4556 6999999999999999999999999998765446799999999999853 45554
No 80
>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=3.9e-15 Score=86.52 Aligned_cols=66 Identities=18% Similarity=0.338 Sum_probs=58.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRR 70 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r 70 (75)
+|+++|+.++..|++ +++++++|||.+++.+|+.+..|+..+.+.....++|+++|+||+|+.+.+
T Consensus 51 ~G~~~~~~~~~~~~~--~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~ 116 (167)
T cd04161 51 GGGANFRGIWVNYYA--EAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNAL 116 (167)
T ss_pred CCcHHHHHHHHHHHc--CCCEEEEEEECCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCC
Confidence 688899999999998 699999999999999999999999888764334578999999999997655
No 81
>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=99.61 E-value=4.1e-15 Score=85.84 Aligned_cols=64 Identities=17% Similarity=0.306 Sum_probs=54.7
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|+++|+.+++.|++ +++++++|||.+++.||+.+..|+..+.......++|++++|||+|+..
T Consensus 52 ~G~~~~~~~~~~~~~--~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~ 115 (159)
T cd04150 52 GGQDKIRPLWRHYFQ--NTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPN 115 (159)
T ss_pred CCCHhHHHHHHHHhc--CCCEEEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCC
Confidence 688999999999999 6999999999999999999988877765432235689999999999964
No 82
>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=99.61 E-value=3.8e-15 Score=87.41 Aligned_cols=63 Identities=19% Similarity=0.249 Sum_probs=55.2
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHH-HHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAE-DMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
+|+++|..+++.+++ +++++++|||+++++||+++. .|+..+... .+++|+++||||+|+...
T Consensus 57 ~G~~~~~~~~~~~~~--~ad~ii~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~ 120 (187)
T cd04132 57 AGQEEYDRLRPLSYP--DVDVLLICYAVDNPTSLDNVEDKWFPEVNHF--CPGTPIMLVGLKTDLRKD 120 (187)
T ss_pred CCchhHHHHHHHhCC--CCCEEEEEEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEeChhhhhC
Confidence 688999999999998 699999999999999999995 698887753 468999999999999653
No 83
>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=99.60 E-value=5.1e-15 Score=85.37 Aligned_cols=61 Identities=23% Similarity=0.402 Sum_probs=55.8
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
+|+++|..+++.|++ +++++++|||++++.+|+++..|+..+++. .+++|+++||||+|+.
T Consensus 57 ~G~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~--~~~~p~ivv~nK~Dl~ 117 (161)
T cd04124 57 AGQERFQTMHASYYH--KAHACILVFDVTRKITYKNLSKWYEELREY--RPEIPCIVVANKIDLD 117 (161)
T ss_pred CCchhhhhhhHHHhC--CCCEEEEEEECCCHHHHHHHHHHHHHHHHh--CCCCcEEEEEECccCc
Confidence 689999999999999 699999999999999999999999998763 3679999999999985
No 84
>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=99.60 E-value=4.5e-15 Score=85.10 Aligned_cols=67 Identities=24% Similarity=0.366 Sum_probs=58.9
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v 72 (75)
+|+++|..+++.+++ +++++++|||++++.+|.++..|+.+++... .+++|+++||||.|+...+.+
T Consensus 57 ~G~~~~~~~~~~~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~iivv~nK~D~~~~~~~ 123 (161)
T cd04113 57 AGQERFRSVTRSYYR--GAAGALLVYDITNRTSFEALPTWLSDARALA-SPNIVVILVGNKSDLADQREV 123 (161)
T ss_pred cchHHHHHhHHHHhc--CCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEEchhcchhccC
Confidence 688899999999998 6999999999999999999999999887653 478999999999999765554
No 85
>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=99.60 E-value=4.1e-15 Score=86.60 Aligned_cols=64 Identities=16% Similarity=0.269 Sum_probs=54.9
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|+++|+.+++.|++ +++++++|||++++.+|+++..|+.++.......++|++|||||+|+.+
T Consensus 61 ~G~~~~~~~~~~~~~--~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~ 124 (168)
T cd04149 61 GGQDKIRPLWRHYYT--GTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPD 124 (168)
T ss_pred CCCHHHHHHHHHHhc--cCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCcc
Confidence 789999999999999 6999999999999999999988877765432235789999999999964
No 86
>cd01892 Miro2 Miro2 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.
Probab=99.59 E-value=6.6e-15 Score=85.75 Aligned_cols=66 Identities=26% Similarity=0.344 Sum_probs=56.2
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcc
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v 72 (75)
.+|++.|+.+++.|++ ++|++++|||++++.||+.+..|+..+.. ..++|+++||||+|+.+.+++
T Consensus 61 ~~g~~~~~~~~~~~~~--~~d~~llv~d~~~~~s~~~~~~~~~~~~~---~~~~p~iiv~NK~Dl~~~~~~ 126 (169)
T cd01892 61 VGEDEVAILLNDAELA--ACDVACLVYDSSDPKSFSYCAEVYKKYFM---LGEIPCLFVAAKADLDEQQQR 126 (169)
T ss_pred cCCcccccccchhhhh--cCCEEEEEEeCCCHHHHHHHHHHHHHhcc---CCCCeEEEEEEcccccccccc
Confidence 4688899999999998 69999999999999999999999887643 247999999999999655543
No 87
>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=99.59 E-value=8.8e-15 Score=84.01 Aligned_cols=67 Identities=25% Similarity=0.527 Sum_probs=58.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|++.|..+.+.+++ ++|++++|||+++++||+.+..|+..+.... .++|+++||||+|+...+++.
T Consensus 60 ~G~~~~~~~~~~~~~--~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~~~ 126 (164)
T cd04101 60 AGQELYSDMVSNYWE--SPSVFILVYDVSNKASFENCSRWVNKVRTAS--KHMPGVLVGNKMDLADKAEVT 126 (164)
T ss_pred CCHHHHHHHHHHHhC--CCCEEEEEEECcCHHHHHHHHHHHHHHHHhC--CCCCEEEEEECcccccccCCC
Confidence 588999999999998 5999999999999999999999999888642 578999999999997665543
No 88
>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=99.59 E-value=6.4e-15 Score=84.91 Aligned_cols=69 Identities=33% Similarity=0.426 Sum_probs=55.5
Q ss_pred ccccc-chhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcC-CCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSC-FTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKY-IGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~-f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++ +......+++ ++|++++|||+++++||+.+..|+..+..... ..++|+++||||+|+...+.++
T Consensus 55 ~g~~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~ 125 (165)
T cd04146 55 AGQQQADTEQLERSIR--WADGFVLVYSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQVS 125 (165)
T ss_pred CCCcccccchHHHHHH--hCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCccC
Confidence 46665 3455667777 59999999999999999999999988876532 4579999999999997666554
No 89
>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=99.58 E-value=6e-15 Score=85.85 Aligned_cols=62 Identities=24% Similarity=0.411 Sum_probs=54.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHH-HHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKA-EDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|+++|..+++.+++ +++++++|||+++++||+.+ ..|+..+... .+++|+++||||+|+..
T Consensus 56 ~G~~~~~~~~~~~~~--~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~ 118 (173)
T cd04130 56 AGQDEFDKLRPLCYP--DTDVFLLCFSVVNPSSFQNISEKWIPEIRKH--NPKAPIILVGTQADLRT 118 (173)
T ss_pred CCChhhccccccccC--CCcEEEEEEECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEeeChhhcc
Confidence 688999999999888 69999999999999999998 4799888753 35789999999999963
No 90
>PLN03108 Rab family protein; Provisional
Probab=99.58 E-value=1e-14 Score=87.65 Aligned_cols=68 Identities=22% Similarity=0.429 Sum_probs=59.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++|..++..+++ +++++++|||++++.||+.+..|+..+.... .+++|+++||||+|+...+.++
T Consensus 63 ~G~~~~~~~~~~~~~--~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~-~~~~piiiv~nK~Dl~~~~~~~ 130 (210)
T PLN03108 63 AGQESFRSITRSYYR--GAAGALLVYDITRRETFNHLASWLEDARQHA-NANMTIMLIGNKCDLAHRRAVS 130 (210)
T ss_pred CCcHHHHHHHHHHhc--cCCEEEEEEECCcHHHHHHHHHHHHHHHHhc-CCCCcEEEEEECccCccccCCC
Confidence 578899999999998 6999999999999999999999998877643 3679999999999998766654
No 91
>PLN03118 Rab family protein; Provisional
Probab=99.56 E-value=1.8e-14 Score=86.44 Aligned_cols=69 Identities=26% Similarity=0.349 Sum_probs=57.4
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHH-HHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAED-MLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~-~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|+++|..++..|++ +++++++|||+++++||+.+.. |...+.......+.|+++||||+|+...+.++
T Consensus 70 ~G~~~~~~~~~~~~~--~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~ 139 (211)
T PLN03118 70 AGQERFRTLTSSYYR--NAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVS 139 (211)
T ss_pred CCchhhHHHHHHHHh--cCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccC
Confidence 688999999999999 6999999999999999999965 76666544333568999999999997666553
No 92
>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=99.56 E-value=2.1e-14 Score=83.44 Aligned_cols=64 Identities=19% Similarity=0.254 Sum_probs=55.7
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|+++|+.++..+++ +++++++|||.+++++|+.+..|+..+.+.....+.|+++||||+|+.+
T Consensus 51 ~G~~~~~~~~~~~~~--~ad~ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~ 114 (169)
T cd04158 51 GGKHKLRPLWKHYYL--NTQAVVFVVDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAG 114 (169)
T ss_pred CCChhcchHHHHHhc--cCCEEEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCccc
Confidence 578899999999998 6999999999999999999999998887543345689999999999964
No 93
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=99.56 E-value=2.3e-14 Score=84.46 Aligned_cols=64 Identities=17% Similarity=0.298 Sum_probs=54.6
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|+++|+.+++.|++ +++++|+|||++++++|+.+..|+.++.......++|+++||||.|+.+
T Consensus 69 ~G~~~~~~~~~~~~~--~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~ 132 (182)
T PTZ00133 69 GGQDKLRPLWRHYYQ--NTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPN 132 (182)
T ss_pred CCCHhHHHHHHHHhc--CCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCC
Confidence 688999999999999 6999999999999999999988777665432235789999999999964
No 94
>cd04123 Rab21 Rab21 subfamily. The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site
Probab=99.55 E-value=2.7e-14 Score=81.36 Aligned_cols=67 Identities=25% Similarity=0.439 Sum_probs=58.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v 72 (75)
+|++.|..+++.+++ +++++++|||++++++|+.+..|..++.... ..++|+++|+||+|+...+++
T Consensus 57 ~g~~~~~~~~~~~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piiiv~nK~D~~~~~~~ 123 (162)
T cd04123 57 AGQERYHALGPIYYR--DADGAILVYDITDADSFQKVKKWIKELKQMR-GNNISLVIVGNKIDLERQRVV 123 (162)
T ss_pred CchHHHHHhhHHHhc--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEECcccccccCC
Confidence 678899999999988 6999999999999999999999999988754 247999999999999765554
No 95
>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=99.54 E-value=3.4e-14 Score=81.27 Aligned_cols=68 Identities=26% Similarity=0.570 Sum_probs=58.0
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcc
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v 72 (75)
.+|+++|..+.+.+++ +++++++|||+++++||+.+..|+..+.... ..++|+++||||+|+.+.+.+
T Consensus 56 ~~G~~~~~~~~~~~~~--~~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~iilv~nK~D~~~~~~~ 123 (161)
T cd01861 56 TAGQERFRSLIPSYIR--DSSVAVVVYDITNRQSFDNTDKWIDDVRDER-GNDVIIVLVGNKTDLSDKRQV 123 (161)
T ss_pred CCCcHHHHHHHHHHhc--cCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEEEChhccccCcc
Confidence 3688999999999998 5999999999999999999999999887643 347999999999999655543
No 96
>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=99.53 E-value=6e-14 Score=82.77 Aligned_cols=62 Identities=15% Similarity=0.275 Sum_probs=55.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|+++|..++..+++ +++++++|||++++.||+++..|+..+... .+++|+++||||+|+..
T Consensus 58 ~G~~~~~~~~~~~~~--~~d~iilv~d~~~~~s~~~~~~~~~~i~~~--~~~~piilv~nK~Dl~~ 119 (193)
T cd04118 58 AGSERYEAMSRIYYR--GAKAAIVCYDLTDSSSFERAKFWVKELQNL--EEHCKIYLCGTKSDLIE 119 (193)
T ss_pred CCchhhhhhhHhhcC--CCCEEEEEEECCCHHHHHHHHHHHHHHHhc--CCCCCEEEEEEcccccc
Confidence 578899999999888 699999999999999999999999998764 35799999999999853
No 97
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=99.52 E-value=5.4e-14 Score=80.44 Aligned_cols=67 Identities=27% Similarity=0.456 Sum_probs=58.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v 72 (75)
+|+++|..++..+++ ++|++++|||++++.+|+.+..|+..+.... .+++|+++|+||+|+...+++
T Consensus 57 ~G~~~~~~~~~~~~~--~~d~~ilv~d~~~~~s~~~~~~~l~~~~~~~-~~~~pivvv~nK~D~~~~~~~ 123 (164)
T smart00175 57 AGQERFRSITSSYYR--GAVGALLVYDITNRESFENLKNWLKELREYA-DPNVVIMLVGNKSDLEDQRQV 123 (164)
T ss_pred CChHHHHHHHHHHhC--CCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEEchhcccccCC
Confidence 678889999999998 6999999999999999999999999887754 368999999999999765443
No 98
>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=99.52 E-value=6.9e-14 Score=80.12 Aligned_cols=68 Identities=28% Similarity=0.447 Sum_probs=58.7
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcc
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v 72 (75)
.+|+++|...++.+++ +++++++|||.+++++|+.+..|+..+.... .+.+|+++++||+|+...+.+
T Consensus 57 ~~G~~~~~~~~~~~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~iivv~nK~D~~~~~~~ 124 (163)
T cd01860 57 TAGQERYRSLAPMYYR--GAAAAIVVYDITSEESFEKAKSWVKELQRNA-SPNIIIALVGNKADLESKRQV 124 (163)
T ss_pred CCchHHHHHHHHHHhc--cCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEECccccccCcC
Confidence 3678899999998888 6999999999999999999999999988754 367999999999999755443
No 99
>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=99.51 E-value=8.2e-14 Score=80.30 Aligned_cols=68 Identities=21% Similarity=0.417 Sum_probs=58.2
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+|++.|...+..+++ +++++++|||+++++||+.+..|+.++.... ..++|+++||||+|+...+++.
T Consensus 64 ~g~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~~~i~v~NK~D~~~~~~i~ 131 (169)
T cd04114 64 AGQERFRSITQSYYR--SANALILTYDITCEESFRCLPEWLREIEQYA-NNKVITILVGNKIDLAERREVS 131 (169)
T ss_pred CCcHHHHHHHHHHhc--CCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEECcccccccccC
Confidence 578889988888888 5999999999999999999999998887653 3579999999999997666543
No 100
>cd04147 Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.
Probab=99.51 E-value=1.3e-13 Score=82.07 Aligned_cols=64 Identities=25% Similarity=0.364 Sum_probs=56.6
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|++.|..++..+++ +++++++|||++++.+|+.+..|+..+.......++|+++|+||.|+..
T Consensus 55 ~G~~~~~~~~~~~~~--~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~ 118 (198)
T cd04147 55 SGSYSFPAMRKLSIQ--NSDAFALVYAVDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLE 118 (198)
T ss_pred CCchhhhHHHHHHhh--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEcccccc
Confidence 578899999999888 6999999999999999999999998887764446799999999999954
No 101
>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=99.51 E-value=1.1e-13 Score=80.50 Aligned_cols=65 Identities=18% Similarity=0.310 Sum_probs=55.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
+|++.|+.++..|++ +++++++|||.+++.+|..+..|+..+.......++|+++||||+|+.+.
T Consensus 66 ~G~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~ 130 (173)
T cd04154 66 GGQKTLRPYWRNYFE--STDALIWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGA 130 (173)
T ss_pred CCCHHHHHHHHHHhC--CCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccC
Confidence 588899999999988 69999999999999999999888877754333467999999999999643
No 102
>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=99.51 E-value=8.8e-14 Score=84.33 Aligned_cols=62 Identities=35% Similarity=0.611 Sum_probs=50.9
Q ss_pred hhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 11 LVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 11 ~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+...++++ ++|++++|||++++.||+.+..|+..+.+.....++|+++||||+|+...+.|+
T Consensus 64 ~~~~~~~~-~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~ 125 (221)
T cd04148 64 TEDSCMQY-QGDAFVVVYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVS 125 (221)
T ss_pred HHhHHhhc-CCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceec
Confidence 44455542 599999999999999999999999988775444689999999999997777664
No 103
>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=99.49 E-value=1.9e-13 Score=78.26 Aligned_cols=63 Identities=27% Similarity=0.368 Sum_probs=56.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
+|++.|..+...+++ +++++++|||++++.||+.+..|+..+.......++|+++||||+|+.
T Consensus 57 ~g~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~ 119 (161)
T cd01863 57 AGQERFRTLTSSYYR--GAQGVILVYDVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKE 119 (161)
T ss_pred CCchhhhhhhHHHhC--CCCEEEEEEECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCccc
Confidence 578888888888888 699999999999999999999999988876555789999999999996
No 104
>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=99.48 E-value=1.6e-13 Score=82.05 Aligned_cols=54 Identities=20% Similarity=0.429 Sum_probs=46.2
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhc--CCCCCeEEEEeeCCCCcCCCccc
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSK--YIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~--~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
++|++++|||+++++||+.+..|+..+.+.. ...++|+++||||+|+...+.++
T Consensus 80 ~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~ 135 (198)
T cd04142 80 NSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAP 135 (198)
T ss_pred cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECcccccccccc
Confidence 6999999999999999999999998887653 24679999999999997665543
No 105
>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=99.48 E-value=3.4e-13 Score=77.07 Aligned_cols=65 Identities=18% Similarity=0.234 Sum_probs=55.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcC--CCCCeEEEEeeCCCCcCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKY--IGEKAVILVANKADLERR 69 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~--~~~~~~ilvgnK~Dl~~~ 69 (75)
+|+++|+.+++.|++ +++++++|+|.+++.+|..+..|+..+.+... ..++|+++|+||+|+.+.
T Consensus 53 ~G~~~~~~~~~~~~~--~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~ 119 (162)
T cd04157 53 SGQGKYRGLWEHYYK--NIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDA 119 (162)
T ss_pred CCCHhhHHHHHHHHc--cCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCC
Confidence 688999999999998 69999999999999999999999888765321 247999999999999653
No 106
>cd04139 RalA_RalB RalA/RalB subfamily. The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo
Probab=99.47 E-value=3e-13 Score=77.24 Aligned_cols=66 Identities=21% Similarity=0.415 Sum_probs=57.6
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRR 70 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r 70 (75)
.|++.|..+++.+++ ++++++++||+++++||+++..|...+.......++|+++|+||+|+...+
T Consensus 56 ~g~~~~~~~~~~~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~ 121 (164)
T cd04139 56 AGQEDYAAIRDNYHR--SGEGFLLVFSITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKR 121 (164)
T ss_pred CChhhhhHHHHHHhh--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEcccccccc
Confidence 578899999999998 699999999999999999999999888875444689999999999996533
No 107
>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=99.47 E-value=2.9e-13 Score=77.98 Aligned_cols=66 Identities=26% Similarity=0.387 Sum_probs=55.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcC---CCCCeEEEEeeCCCCcCCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKY---IGEKAVILVANKADLERRR 70 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~---~~~~~~ilvgnK~Dl~~~r 70 (75)
+|++.|..++..+++ +++++|++||++++.+|+++..|...+..... ..++|+++||||+|+...+
T Consensus 57 ~g~~~~~~~~~~~~~--~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~ 125 (172)
T cd01862 57 AGQERFQSLGVAFYR--GADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKR 125 (172)
T ss_pred CChHHHHhHHHHHhc--CCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECccccccc
Confidence 578899999999998 69999999999999999999999887655322 2378999999999997433
No 108
>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=99.47 E-value=3.6e-13 Score=77.91 Aligned_cols=65 Identities=23% Similarity=0.249 Sum_probs=53.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHH-HHHHHHHhhcCCCCCeEEEEeeCCCCcCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAE-DMLKTLWDSKYIGEKAVILVANKADLERRRQ 71 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~ 71 (75)
+|++.++.....+++ +++++++|||+++++||+.+. .|...++.. ..++|+++||||+|+.+.+.
T Consensus 55 ~G~~~~~~~~~~~~~--~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~--~~~~pviiv~nK~Dl~~~~~ 120 (166)
T cd01893 55 SSRPQDRANLAAEIR--KANVICLVYSVDRPSTLERIRTKWLPLIRRL--GVKVPIILVGNKSDLRDGSS 120 (166)
T ss_pred CCchhhhHHHhhhcc--cCCEEEEEEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEEchhcccccc
Confidence 567777777677776 699999999999999999985 688888764 35799999999999976543
No 109
>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=99.47 E-value=3.4e-13 Score=79.36 Aligned_cols=64 Identities=19% Similarity=0.223 Sum_probs=55.8
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|+++|+.+++.+++ +++++++|||.+++++++.+..|+.++.......+.|+++|+||+|+..
T Consensus 60 ~G~~~~~~~~~~~~~--~~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~ 123 (183)
T cd04152 60 GGQEKLRPLWKSYTR--CTDGIVFVVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPN 123 (183)
T ss_pred CCcHhHHHHHHHHhc--cCCEEEEEEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCccc
Confidence 688999999999998 6999999999999999999999988877643345789999999999864
No 110
>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=99.47 E-value=2.5e-13 Score=78.67 Aligned_cols=62 Identities=21% Similarity=0.333 Sum_probs=54.6
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHH-HHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAE-DMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|++.|..+++.+++ +++++++|||+++++||+.+. .|...+... .+++|+++||||+|+.+
T Consensus 56 ~G~~~~~~~~~~~~~--~~~~~ilv~~~~~~~s~~~~~~~~~~~l~~~--~~~~piivv~nK~Dl~~ 118 (174)
T cd04135 56 AGQEDYDRLRPLSYP--MTDVFLICFSVVNPASFQNVKEEWVPELKEY--APNVPYLLVGTQIDLRD 118 (174)
T ss_pred CCcccccccccccCC--CCCEEEEEEECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEeEchhhhc
Confidence 688899999999888 699999999999999999995 788888764 47899999999999854
No 111
>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=99.45 E-value=3.5e-13 Score=78.09 Aligned_cols=62 Identities=18% Similarity=0.224 Sum_probs=53.6
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHH-HHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAE-DMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|++.|+.+++.+++ +++++++|||+++++||+++. .|...+... .+++|+++||||+|+..
T Consensus 57 ~G~~~~~~~~~~~~~--~~d~~i~v~~~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~ 119 (175)
T cd01870 57 AGQEDYDRLRPLSYP--DTDVILMCFSIDSPDSLENIPEKWTPEVKHF--CPNVPIILVGNKKDLRN 119 (175)
T ss_pred CCchhhhhccccccC--CCCEEEEEEECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEeeChhccc
Confidence 688889888888887 699999999999999999995 688888763 36899999999999864
No 112
>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=99.45 E-value=5.8e-13 Score=77.73 Aligned_cols=64 Identities=14% Similarity=0.288 Sum_probs=54.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|+++|+.+++.+++ +++++++|+|.+++++|..+..|+..+.+.....++|+++++||+|+.+
T Consensus 67 ~G~~~~~~~~~~~~~--~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~ 130 (174)
T cd04153 67 GGQESLRSSWNTYYT--NTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKG 130 (174)
T ss_pred CCCHHHHHHHHHHhh--cCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCC
Confidence 688899999999888 6999999999999999999988777765533345789999999999864
No 113
>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=99.44 E-value=3.6e-13 Score=79.45 Aligned_cols=62 Identities=18% Similarity=0.214 Sum_probs=52.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHH-HHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAE-DMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|++.|..+.+.+++ ++++++++||+++++||+.+. .|+..+... .+++|+++||||+|+..
T Consensus 57 ~g~~~~~~~~~~~~~--~a~~~llv~~i~~~~s~~~~~~~~~~~i~~~--~~~~piilvgnK~Dl~~ 119 (187)
T cd04129 57 AGQEEYERLRPLSYS--KAHVILIGFAVDTPDSLENVRTKWIEEVRRY--CPNVPVILVGLKKDLRQ 119 (187)
T ss_pred CCChhccccchhhcC--CCCEEEEEEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEeeChhhhh
Confidence 467788777777777 699999999999999999996 699988764 35799999999999853
No 114
>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=99.44 E-value=7.8e-13 Score=75.62 Aligned_cols=64 Identities=20% Similarity=0.297 Sum_probs=54.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|++.|..++..+++ +++++++|+|.+++.+|..+..|+.++.......+.|+++|+||+|+..
T Consensus 52 ~G~~~~~~~~~~~~~--~~~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~ 115 (160)
T cd04156 52 GGQEKMRTVWKCYLE--NTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPG 115 (160)
T ss_pred CCCHhHHHHHHHHhc--cCCEEEEEEECCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECccccc
Confidence 578888888888888 6999999999999999999998888776543336799999999999853
No 115
>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=99.44 E-value=5.4e-13 Score=77.77 Aligned_cols=68 Identities=26% Similarity=0.401 Sum_probs=57.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v 72 (75)
+|+++|+.+.+.++. ++++++++||+++..+|+.+..|+..+.+.....+.|+++|+||+|+...+.+
T Consensus 57 ~g~~~~~~~~~~~~~--~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~ 124 (180)
T cd04137 57 AGQDEYSILPQKYSI--GIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQV 124 (180)
T ss_pred CChHhhHHHHHHHHh--hCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCcc
Confidence 578889989888888 59999999999999999999998887776433457899999999999755443
No 116
>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=99.43 E-value=5.9e-13 Score=73.12 Aligned_cols=59 Identities=22% Similarity=0.362 Sum_probs=44.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHH---HHHHHHhhcCCCCCeEEEEeeCCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAED---MLKTLWDSKYIGEKAVILVANKAD 65 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~---~~~~~~~~~~~~~~~~ilvgnK~D 65 (75)
+|++.+......+.. +++++++|||++++.||+.+.+ |+..+... .+++|+++||||.|
T Consensus 58 ~g~~~~~~~~~~~~~--~~d~~ilv~D~s~~~s~~~~~~~~~~l~~~~~~--~~~~piilv~nK~D 119 (119)
T PF08477_consen 58 GGQEEFYSQHQFFLK--KADAVILVYDLSDPESLEYLSQLLKWLKNIRKR--DKNIPIILVGNKSD 119 (119)
T ss_dssp SSSHCHHCTSHHHHH--HSCEEEEEEECCGHHHHHHHHHHHHHHHHHHHH--SSCSEEEEEEE-TC
T ss_pred Cccceecccccchhh--cCcEEEEEEcCCChHHHHHHHHHHHHHHHHHcc--CCCCCEEEEEeccC
Confidence 355666665555566 4999999999999999999855 55555542 46799999999998
No 117
>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=99.42 E-value=1.1e-12 Score=74.57 Aligned_cols=68 Identities=28% Similarity=0.499 Sum_probs=57.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v 72 (75)
+|++.+..++..+++ +++++++|||++++++++++..|...+.+......+|+++|+||+|+...+.+
T Consensus 55 ~g~~~~~~~~~~~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~ 122 (160)
T cd00876 55 AGQEEFSAMRDLYIR--QGDGFILVYSITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQV 122 (160)
T ss_pred CChHHHHHHHHHHHh--cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCccccccee
Confidence 577888888888888 69999999999999999999999888877543358999999999999764443
No 118
>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=99.42 E-value=1.5e-12 Score=74.59 Aligned_cols=64 Identities=14% Similarity=0.280 Sum_probs=52.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|++.|+.++..|++ +++++++|+|.+++.++.....|+..+.+.....+.|+++|+||+|+.+
T Consensus 51 ~G~~~~~~~~~~~~~--~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~ 114 (158)
T cd04151 51 GGQTSIRPYWRCYYS--NTDAIIYVVDSTDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPG 114 (158)
T ss_pred CCCHHHHHHHHHHhc--CCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCC
Confidence 688899999999998 6999999999999999988766665543322235789999999999964
No 119
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=99.41 E-value=1.7e-12 Score=78.02 Aligned_cols=62 Identities=19% Similarity=0.328 Sum_probs=55.4
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|+++|..++..|++ +++++++|||++++.||..+..|+..+... .+++|++++|||+|+.+
T Consensus 66 ~g~~~~~~~~~~~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~--~~~~~i~lv~nK~Dl~~ 127 (215)
T PTZ00132 66 AGQEKFGGLRDGYYI--KGQCAIIMFDVTSRITYKNVPNWHRDIVRV--CENIPIVLVGNKVDVKD 127 (215)
T ss_pred CCchhhhhhhHHHhc--cCCEEEEEEECcCHHHHHHHHHHHHHHHHh--CCCCCEEEEEECccCcc
Confidence 578899999999988 599999999999999999999999988864 36799999999999864
No 120
>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases. Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.
Probab=99.40 E-value=1.4e-12 Score=76.93 Aligned_cols=64 Identities=13% Similarity=0.224 Sum_probs=54.7
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|+++++.++..|+. +++++++|+|.+++++|.....|+.++.+.....++|+++|+||+|+..
T Consensus 69 ~G~~~~~~~~~~~~~--~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~ 132 (184)
T smart00178 69 GGHQQARRLWKDYFP--EVNGIVYLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPY 132 (184)
T ss_pred CCCHHHHHHHHHHhC--CCCEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccC
Confidence 688889999999998 6999999999999999999988887776432336789999999999864
No 121
>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=99.40 E-value=2.5e-12 Score=73.49 Aligned_cols=66 Identities=17% Similarity=0.277 Sum_probs=56.2
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRR 70 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r 70 (75)
+|++.|..++..+++ +++++++|||++++++|..+..|+..+.......+.|+++|+||+|+...+
T Consensus 51 ~G~~~~~~~~~~~~~--~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~ 116 (158)
T cd00878 51 GGQDKIRPLWKHYYE--NTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGAL 116 (158)
T ss_pred CCChhhHHHHHHHhc--cCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCcccc
Confidence 578889989998888 599999999999999999998888877654334688999999999997533
No 122
>TIGR00157 ribosome small subunit-dependent GTPase A. The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).
Probab=99.38 E-value=5.3e-13 Score=82.24 Aligned_cols=62 Identities=23% Similarity=0.223 Sum_probs=53.6
Q ss_pred cccchhhhhhhhhccCCcEEEEEEECCChh-HHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcc
Q psy5805 5 TSCFTNLVVNFVQTYHPDVFVIVYSVIERK-TFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 5 ~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v 72 (75)
.|+|..+.+.|++ |+|++++|||++++. ||+.+.+|+..+.. .++|+++|+||+||.+.+++
T Consensus 23 ~eR~~~L~r~~~~--n~D~viiV~d~~~p~~s~~~l~r~l~~~~~----~~i~~vIV~NK~DL~~~~~~ 85 (245)
T TIGR00157 23 AERKNELTRPIVA--NIDQIVIVSSAVLPELSLNQLDRFLVVAEA----QNIEPIIVLNKIDLLDDEDM 85 (245)
T ss_pred ecccceEECcccc--cCCEEEEEEECCCCCCCHHHHHHHHHHHHH----CCCCEEEEEECcccCCCHHH
Confidence 4889999999999 799999999999988 99999999976653 56899999999999765544
No 123
>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=99.38 E-value=3e-12 Score=73.61 Aligned_cols=64 Identities=16% Similarity=0.316 Sum_probs=55.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|++.|..++..+++ +++++++|+|.++++++..+..|+..+.+.....++|+++++||+|+..
T Consensus 58 ~G~~~~~~~~~~~~~--~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~ 121 (167)
T cd04160 58 GGQESLRSLWDKYYA--ECHAIIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPD 121 (167)
T ss_pred CCChhhHHHHHHHhC--CCCEEEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEcccccc
Confidence 588899999888888 6999999999999999999998988876643346799999999999864
No 124
>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=99.37 E-value=3.8e-12 Score=74.84 Aligned_cols=64 Identities=16% Similarity=0.293 Sum_probs=54.2
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|+++|+.++..|++ +++++++|+|.+++.+|.....|+.++.+.....+.|+++++||+|+..
T Consensus 71 ~G~~~~~~~~~~~~~--~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~ 134 (190)
T cd00879 71 GGHEQARRLWKDYFP--EVDGIVFLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPG 134 (190)
T ss_pred CCCHHHHHHHHHHhc--cCCEEEEEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCC
Confidence 578888888888888 6999999999999999999988888876543345789999999999863
No 125
>KOG3883|consensus
Probab=99.35 E-value=3.3e-12 Score=74.21 Aligned_cols=63 Identities=30% Similarity=0.463 Sum_probs=51.6
Q ss_pred hhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCccc
Q psy5805 9 TNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 9 ~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
..+...|++. +||+++|||..|++||+.+.-..+++....+...+||++.|||+|+.+.++|.
T Consensus 75 ~eLprhy~q~--aDafVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd 137 (198)
T KOG3883|consen 75 QELPRHYFQF--ADAFVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVD 137 (198)
T ss_pred hhhhHhHhcc--CceEEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhcC
Confidence 4566778885 99999999999999999876655555555556789999999999998887764
No 126
>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=99.35 E-value=3.5e-12 Score=73.41 Aligned_cols=64 Identities=22% Similarity=0.312 Sum_probs=53.8
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHH-HHHHHHHHhhcCCCCCeEEEEeeCCCCcCCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKA-EDMLKTLWDSKYIGEKAVILVANKADLERRR 70 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r 70 (75)
+|++.|..+++.+++ +++++++|||++++.||... ..|+..+... ..+.|+++||||+|+...+
T Consensus 56 ~g~~~~~~~~~~~~~--~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~p~ivv~nK~Dl~~~~ 120 (171)
T cd00157 56 AGQEEYDRLRPLSYP--NTDVFLICFSVDSPSSFENVKTKWIPEIRHY--CPNVPIILVGTKIDLRDDE 120 (171)
T ss_pred CCcccccccchhhcC--CCCEEEEEEECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEEccHHhhhch
Confidence 578888888888888 59999999999999999987 5688877763 3589999999999996544
No 127
>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=99.33 E-value=1.1e-11 Score=70.01 Aligned_cols=66 Identities=17% Similarity=0.292 Sum_probs=55.0
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRR 70 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r 70 (75)
+|++.|+.++..+++ +++++++|+|++++.++.....|+..+.......++|+++|+||+|+.+..
T Consensus 52 ~g~~~~~~~~~~~~~--~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~ 117 (159)
T cd04159 52 GGQPRFRSMWERYCR--GVNAIVYVVDAADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGAL 117 (159)
T ss_pred CCCHhHHHHHHHHHh--cCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCc
Confidence 578889999899888 599999999999999999988887776653334578999999999986543
No 128
>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=99.32 E-value=9.4e-12 Score=70.12 Aligned_cols=62 Identities=26% Similarity=0.445 Sum_probs=54.7
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
+|++.|..+...+++ +++++++|||++++++++.+..|+..+.... ..+.|+++++||+|+.
T Consensus 57 ~g~~~~~~~~~~~~~--~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~ 118 (159)
T cd00154 57 AGQERFRSITPSYYR--GAHGAILVYDITNRESFENLDKWLKELKEYA-PENIPIILVGNKIDLE 118 (159)
T ss_pred CChHHHHHHHHHHhc--CCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCcEEEEEEccccc
Confidence 577888888888888 6999999999999999999999999888743 3678999999999996
No 129
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=99.32 E-value=7.1e-12 Score=74.99 Aligned_cols=65 Identities=20% Similarity=0.294 Sum_probs=55.9
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCC-hhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIE-RKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRR 70 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~-~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r 70 (75)
.|+++|+.+++.|++ ++++++++||.++ ..+++....|..++.... ....|+++||||+||...+
T Consensus 62 ~gq~~~~~~~~~y~~--~~~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~-~~~~~iilv~nK~Dl~~~~ 127 (219)
T COG1100 62 AGQEEYRSLRPEYYR--GANGILIVYDSTLRESSDELTEEWLEELRELA-PDDVPILLVGNKIDLFDEQ 127 (219)
T ss_pred CCHHHHHHHHHHHhc--CCCEEEEEEecccchhhhHHHHHHHHHHHHhC-CCCceEEEEecccccccch
Confidence 589999999999999 7999999999999 555566689999988753 2579999999999998764
No 130
>KOG0070|consensus
Probab=99.30 E-value=1.1e-11 Score=73.22 Aligned_cols=67 Identities=16% Similarity=0.268 Sum_probs=59.6
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQ 71 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~ 71 (75)
+||++++.+++.||+ +.+++|+|.|-+|++.+...+.-+..+......+++|+++.+||.|+.+...
T Consensus 69 GGq~k~R~lW~~Y~~--~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~als 135 (181)
T KOG0070|consen 69 GGQEKLRPLWKHYFQ--NTQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGALS 135 (181)
T ss_pred CCCcccccchhhhcc--CCcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhccccCC
Confidence 799999999999999 6999999999999999999988777777665567999999999999986554
No 131
>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=99.29 E-value=2.7e-11 Score=71.15 Aligned_cols=64 Identities=22% Similarity=0.386 Sum_probs=56.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|++.++.+++.|++ +++++|+|.|.++++.+......+..+.......++|+++++||+|+.+
T Consensus 66 gG~~~~~~~w~~y~~--~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~ 129 (175)
T PF00025_consen 66 GGQESFRPLWKSYFQ--NADGIIFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPD 129 (175)
T ss_dssp SSSGGGGGGGGGGHT--TESEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTT
T ss_pred cccccccccceeecc--ccceeEEEEecccceeecccccchhhhcchhhcccceEEEEeccccccC
Confidence 688999999999999 6999999999999999999988887777654456899999999999875
No 132
>KOG0096|consensus
Probab=99.29 E-value=2.6e-12 Score=76.55 Aligned_cols=62 Identities=18% Similarity=0.242 Sum_probs=56.7
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|+|.|..++.-||- ++.+.|++||++.+-++.++.+|..++... +.++||+++|||.|...
T Consensus 67 agqEk~gglrdgyyI--~~qcAiimFdVtsr~t~~n~~rwhrd~~rv--~~NiPiv~cGNKvDi~~ 128 (216)
T KOG0096|consen 67 AGQEKKGGLRDGYYI--QGQCAIIMFDVTSRFTYKNVPRWHRDLVRV--RENIPIVLCGNKVDIKA 128 (216)
T ss_pred ccceeecccccccEE--ecceeEEEeeeeehhhhhcchHHHHHHHHH--hcCCCeeeeccceeccc
Confidence 589999999999998 499999999999999999999999999874 57899999999999864
No 133
>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=99.16 E-value=1.9e-10 Score=66.78 Aligned_cols=59 Identities=15% Similarity=0.110 Sum_probs=48.4
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|++.|..+...+++ ++|++|+|||.++..++..+..|..... .++|+++|+||+|+.+
T Consensus 75 ~G~~~~~~~~~~~~~--~ad~~i~v~D~~~~~~~~~~~~~~~~~~-----~~~~iiiv~NK~Dl~~ 133 (179)
T cd01890 75 PGHVDFSYEVSRSLA--ACEGALLLVDATQGVEAQTLANFYLALE-----NNLEIIPVINKIDLPS 133 (179)
T ss_pred CCChhhHHHHHHHHH--hcCeEEEEEECCCCccHhhHHHHHHHHH-----cCCCEEEEEECCCCCc
Confidence 578899999888888 6999999999999888877777753321 4579999999999864
No 134
>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=99.15 E-value=3.2e-10 Score=65.57 Aligned_cols=64 Identities=20% Similarity=0.335 Sum_probs=52.0
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|++.|...+..+++ +++++++|+|.++..+|.....|+..+.......++|+++++||+|+.+
T Consensus 66 ~G~~~~~~~~~~~~~--~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~ 129 (173)
T cd04155 66 GGQRAIRPYWRNYFE--NTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLAT 129 (173)
T ss_pred CCCHHHHHHHHHHhc--CCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCcc
Confidence 567778888888887 6999999999999999999887776665433335799999999999864
No 135
>KOG4423|consensus
Probab=99.14 E-value=1.4e-11 Score=73.45 Aligned_cols=64 Identities=22% Similarity=0.256 Sum_probs=56.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhh---cCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDS---KYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~---~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|||+|..|+..||+ .+++.++|||+++.-+|+.+..|..++... ....++|+++.+||||++.
T Consensus 83 agQerfg~mtrVyyk--ea~~~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~ 149 (229)
T KOG4423|consen 83 AGQERFGNMTRVYYK--EAHGAFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEK 149 (229)
T ss_pred hhhhhhcceEEEEec--CCcceEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccCh
Confidence 489999999999999 599999999999999999999999887643 2335788999999999863
No 136
>KOG0075|consensus
Probab=99.14 E-value=1.3e-10 Score=67.23 Aligned_cols=64 Identities=16% Similarity=0.264 Sum_probs=56.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+||.+|+++++.|++ +.+++++|.|..+++.+...+.-+..+........+|+++.|||.|+.+
T Consensus 73 gGq~rfrsmWerycR--~v~aivY~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~ 136 (186)
T KOG0075|consen 73 GGQPRFRSMWERYCR--GVSAIVYVVDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPG 136 (186)
T ss_pred CCCccHHHHHHHHhh--cCcEEEEEeecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCcc
Confidence 689999999999999 7999999999999999988877666666545567899999999999975
No 137
>cd01898 Obg Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.
Probab=99.13 E-value=2.1e-10 Score=65.99 Aligned_cols=64 Identities=19% Similarity=0.154 Sum_probs=48.5
Q ss_pred chhhhhhhhhcc-CCcEEEEEEECCCh-hHHHHHHHHHHHHHhhcC-CCCCeEEEEeeCCCCcCCCc
Q psy5805 8 FTNLVVNFVQTY-HPDVFVIVYSVIER-KTFKKAEDMLKTLWDSKY-IGEKAVILVANKADLERRRQ 71 (75)
Q Consensus 8 f~~~~~~~~~~~-~~~~~ilv~d~~~~-~s~~~~~~~~~~~~~~~~-~~~~~~ilvgnK~Dl~~~r~ 71 (75)
++.+...+++.+ +++++++|+|.+++ ++++++..|.+++..... ....|+++|+||+|+.....
T Consensus 65 ~~~~~~~~~~~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~ 131 (170)
T cd01898 65 GKGLGHRFLRHIERTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEE 131 (170)
T ss_pred cCCchHHHHHHHHhCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchh
Confidence 334555555533 59999999999999 899999999988876421 24689999999999965433
No 138
>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=99.07 E-value=5.9e-10 Score=66.92 Aligned_cols=65 Identities=15% Similarity=0.203 Sum_probs=51.9
Q ss_pred cccccchhhhhhhhhccCC-cEEEEEEECCCh-hHHHHHHHHHHHHHhhc--CCCCCeEEEEeeCCCCcCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHP-DVFVIVYSVIER-KTFKKAEDMLKTLWDSK--YIGEKAVILVANKADLERR 69 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~-~~~ilv~d~~~~-~s~~~~~~~~~~~~~~~--~~~~~~~ilvgnK~Dl~~~ 69 (75)
.||++|+.....+++ ++ +++|+|+|.++. +++..+..|+..+.... ..+.+|+++++||+|+...
T Consensus 56 pG~~~~~~~~~~~~~--~~~~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a 124 (203)
T cd04105 56 PGHPKLRDKLLETLK--NSAKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTA 124 (203)
T ss_pred CCCHHHHHHHHHHHh--ccCCEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhccc
Confidence 589999988888888 58 999999999998 78888877765543321 1257999999999998653
No 139
>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. co
Probab=99.00 E-value=1.8e-09 Score=63.98 Aligned_cols=60 Identities=18% Similarity=0.138 Sum_probs=45.8
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
.|+++|..+...+++ ++|++++|+|.++. .+.....|+..+.. .++|+++|+||+|+...
T Consensus 73 pG~~~~~~~~~~~~~--~~d~~ilV~d~~~~-~~~~~~~~~~~~~~----~~~p~iiv~NK~Dl~~~ 132 (194)
T cd01891 73 PGHADFGGEVERVLS--MVDGVLLLVDASEG-PMPQTRFVLKKALE----LGLKPIVVINKIDRPDA 132 (194)
T ss_pred CCcHHHHHHHHHHHH--hcCEEEEEEECCCC-ccHHHHHHHHHHHH----cCCCEEEEEECCCCCCC
Confidence 589999999999998 69999999999874 23444444444432 46899999999999643
No 140
>KOG1673|consensus
Probab=99.00 E-value=7.7e-10 Score=64.63 Aligned_cols=60 Identities=17% Similarity=0.248 Sum_probs=51.7
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADL 66 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl 66 (75)
+|+++|..+.|.-+. ++-+++++||++.+.++.++..|+.+.+... ...+| |+||+|.|+
T Consensus 77 gG~~~~~n~lPiac~--dsvaIlFmFDLt~r~TLnSi~~WY~QAr~~N-ktAiP-ilvGTKyD~ 136 (205)
T KOG1673|consen 77 GGQREFINMLPIACK--DSVAILFMFDLTRRSTLNSIKEWYRQARGLN-KTAIP-ILVGTKYDL 136 (205)
T ss_pred CCcHhhhccCceeec--CcEEEEEEEecCchHHHHHHHHHHHHHhccC-Cccce-EEeccchHh
Confidence 689999999999999 6999999999999999999999998887642 13344 679999996
No 141
>KOG0073|consensus
Probab=98.99 E-value=2.7e-09 Score=62.55 Aligned_cols=64 Identities=17% Similarity=0.294 Sum_probs=53.7
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+||-.+++.++.||.. +||+|+|+|.+|+..|+.+..-+.++.........|+++++||.|+..
T Consensus 68 GGq~~lr~~W~nYfes--tdglIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~ 131 (185)
T KOG0073|consen 68 GGQKTLRSYWKNYFES--TDGLIWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPG 131 (185)
T ss_pred CCcchhHHHHHHhhhc--cCeEEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCcc
Confidence 6888899999999994 999999999999999999877666655433345689999999999974
No 142
>KOG0071|consensus
Probab=98.97 E-value=2.8e-09 Score=61.35 Aligned_cols=68 Identities=15% Similarity=0.272 Sum_probs=57.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v 72 (75)
+|+++.+.++..||. |+.|+|+|.|..+++..+..++-+..+.+.+...++|+++.+||.|+.+.+.+
T Consensus 69 GGqd~iRplWrhYy~--gtqglIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~~p 136 (180)
T KOG0071|consen 69 GGQDKIRPLWRHYYT--GTQGLIFVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDAMKP 136 (180)
T ss_pred cCchhhhHHHHhhcc--CCceEEEEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccccCH
Confidence 688888888888888 89999999999999999988777666666555678999999999999876654
No 143
>PRK12299 obgE GTPase CgtA; Reviewed
Probab=98.96 E-value=2e-09 Score=69.08 Aligned_cols=63 Identities=17% Similarity=0.190 Sum_probs=49.3
Q ss_pred chhhhhhhhhcc-CCcEEEEEEECCChhHHHHHHHHHHHHHhhcC-CCCCeEEEEeeCCCCcCCC
Q psy5805 8 FTNLVVNFVQTY-HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKY-IGEKAVILVANKADLERRR 70 (75)
Q Consensus 8 f~~~~~~~~~~~-~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~~ilvgnK~Dl~~~r 70 (75)
...+...|++.+ .++++++|+|+++.++++.+..|..++..... ..+.|+++|+||+|+.+..
T Consensus 223 ~~gLg~~flrhie~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~ 287 (335)
T PRK12299 223 GAGLGHRFLKHIERTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEE 287 (335)
T ss_pred cccHHHHHHHHhhhcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCch
Confidence 344555655543 69999999999998899999999999987531 2468999999999996544
No 144
>KOG0076|consensus
Probab=98.88 E-value=1.4e-09 Score=64.23 Aligned_cols=67 Identities=15% Similarity=0.306 Sum_probs=57.9
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQ 71 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~ 71 (75)
+|||.-++++..||.. ++++|+++|.++++-|+....-++.+.......++|+++.+||.|+.+..+
T Consensus 77 gGQe~lrSlw~~yY~~--~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~~~ 143 (197)
T KOG0076|consen 77 GGQESLRSLWKKYYWL--AHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNAME 143 (197)
T ss_pred CChHHHHHHHHHHHHH--hceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhhhh
Confidence 6899999999999995 999999999999999999877776666555567899999999999976543
No 145
>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=98.86 E-value=2.5e-08 Score=54.96 Aligned_cols=65 Identities=26% Similarity=0.393 Sum_probs=48.9
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
+|++.+......+.+ +++++++|+|.+++.++.....|............+|+++++||+|+...
T Consensus 53 ~g~~~~~~~~~~~~~--~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~ 117 (157)
T cd00882 53 AGQERFRSLRRLYYR--GADGIILVYDVTDRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEE 117 (157)
T ss_pred CChHHHHhHHHHHhc--CCCEEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccc
Confidence 455556555566666 59999999999999999999888433332224578999999999998643
No 146
>KOG1707|consensus
Probab=98.86 E-value=9.2e-09 Score=69.58 Aligned_cols=58 Identities=28% Similarity=0.306 Sum_probs=47.4
Q ss_pred hhhhhhhhccCCcEEEEEEECCChhHHHHH-HHHHHHHHhhcC-CCCCeEEEEeeCCCCcCCC
Q psy5805 10 NLVVNFVQTYHPDVFVIVYSVIERKTFKKA-EDMLKTLWDSKY-IGEKAVILVANKADLERRR 70 (75)
Q Consensus 10 ~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~-~~~~~~ilvgnK~Dl~~~r 70 (75)
.++....+ |+++.++|+.+++.|++.+ ..|++.+++... ..++|+||||||+|+.+..
T Consensus 72 ~l~~Eirk---A~vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~ 131 (625)
T KOG1707|consen 72 CLRKEIRK---ADVICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNE 131 (625)
T ss_pred HHHHHHhh---cCEEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCcccc
Confidence 34555555 9999999999999999999 689999987531 2589999999999997543
No 147
>TIGR03156 GTP_HflX GTP-binding protein HflX. This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).
Probab=98.81 E-value=1.6e-08 Score=65.36 Aligned_cols=60 Identities=22% Similarity=0.252 Sum_probs=45.5
Q ss_pred ccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 6 SCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 6 e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
|.|++..+. ++ ++|++++|+|.+++.+++++..|...+.... ..+.|+++|+||+|+...
T Consensus 257 e~f~~tle~-~~--~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~-~~~~piIlV~NK~Dl~~~ 316 (351)
T TIGR03156 257 AAFRATLEE-VR--EADLLLHVVDASDPDREEQIEAVEKVLEELG-AEDIPQLLVYNKIDLLDE 316 (351)
T ss_pred HHHHHHHHH-HH--hCCEEEEEEECCCCchHHHHHHHHHHHHHhc-cCCCCEEEEEEeecCCCh
Confidence 345544433 34 5999999999999999998888877666543 357899999999999653
No 148
>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=98.80 E-value=2e-08 Score=59.70 Aligned_cols=49 Identities=24% Similarity=0.250 Sum_probs=41.3
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
+++++++|+|.+++.++..+..|...+.... ..+.|+++|+||+|+...
T Consensus 120 ~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~-~~~~~viiV~NK~Dl~~~ 168 (204)
T cd01878 120 EADLLLHVVDASDPDYEEQIETVEKVLKELG-AEDIPMILVLNKIDLLDD 168 (204)
T ss_pred cCCeEEEEEECCCCChhhHHHHHHHHHHHcC-cCCCCEEEEEEccccCCh
Confidence 5999999999999999999888887776543 356899999999998654
No 149
>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.
Probab=98.78 E-value=1.8e-08 Score=57.84 Aligned_cols=50 Identities=18% Similarity=0.268 Sum_probs=39.3
Q ss_pred CcEEEEEEECCChhHH--HHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcc
Q psy5805 21 PDVFVIVYSVIERKTF--KKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~--~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v 72 (75)
++++++|+|.+++.++ +....|+..++.. ..+.|+++|+||+|+...+.+
T Consensus 80 ~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~--~~~~pvilv~NK~Dl~~~~~~ 131 (168)
T cd01897 80 RAAVLFLFDPSETCGYSLEEQLSLFEEIKPL--FKNKPVIVVLNKIDLLTFEDL 131 (168)
T ss_pred cCcEEEEEeCCcccccchHHHHHHHHHHHhh--cCcCCeEEEEEccccCchhhH
Confidence 6899999999988764 6667788887653 257899999999999755443
No 150
>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=98.77 E-value=2.1e-08 Score=57.78 Aligned_cols=52 Identities=25% Similarity=0.227 Sum_probs=41.8
Q ss_pred CCcEEEEEEECCCh------hHHHHHHHHHHHHHhhcCC------CCCeEEEEeeCCCCcCCCc
Q psy5805 20 HPDVFVIVYSVIER------KTFKKAEDMLKTLWDSKYI------GEKAVILVANKADLERRRQ 71 (75)
Q Consensus 20 ~~~~~ilv~d~~~~------~s~~~~~~~~~~~~~~~~~------~~~~~ilvgnK~Dl~~~r~ 71 (75)
+++++++|+|.++. .+++....|..++...... .+.|+++|+||+|+...+.
T Consensus 74 ~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~ 137 (176)
T cd01881 74 RADAILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEE 137 (176)
T ss_pred ccCEEEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhH
Confidence 69999999999998 6888888888887654321 4689999999999965443
No 151
>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=98.73 E-value=3.9e-08 Score=55.96 Aligned_cols=58 Identities=24% Similarity=0.193 Sum_probs=40.8
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIE---RKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
.|+++|......+++ ++|++++|+|.++ +++++.+. .+.. .+..|+++|+||+|+...
T Consensus 59 pG~~~~~~~~~~~~~--~ad~ii~V~d~~~~~~~~~~~~~~----~~~~---~~~~~~ilv~NK~Dl~~~ 119 (164)
T cd04171 59 PGHEKFIKNMLAGAG--GIDLVLLVVAADEGIMPQTREHLE----ILEL---LGIKRGLVVLTKADLVDE 119 (164)
T ss_pred CChHHHHHHHHhhhh--cCCEEEEEEECCCCccHhHHHHHH----HHHH---hCCCcEEEEEECccccCH
Confidence 578888766666666 6999999999987 55555443 1222 122489999999999653
No 152
>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=98.72 E-value=4.4e-08 Score=59.83 Aligned_cols=58 Identities=17% Similarity=0.118 Sum_probs=44.2
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
.||+.|......+++ ++|++++|+|.++..+.+....|. .... .++|+++|+||+|+.
T Consensus 81 PG~~~f~~~~~~~l~--~aD~~ilVvD~~~g~~~~t~~~l~-~~~~----~~~p~ilviNKiD~~ 138 (222)
T cd01885 81 PGHVDFSSEVTAALR--LCDGALVVVDAVEGVCVQTETVLR-QALK----ERVKPVLVINKIDRL 138 (222)
T ss_pred CCccccHHHHHHHHH--hcCeeEEEEECCCCCCHHHHHHHH-HHHH----cCCCEEEEEECCCcc
Confidence 588999998888888 599999999999876655433332 2221 357999999999975
No 153
>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=98.71 E-value=3.9e-08 Score=63.05 Aligned_cols=61 Identities=21% Similarity=0.231 Sum_probs=47.1
Q ss_pred hhhhhhhhhcc-CCcEEEEEEECCCh---hHHHHHHHHHHHHHhhc-CCCCCeEEEEeeCCCCcCC
Q psy5805 9 TNLVVNFVQTY-HPDVFVIVYSVIER---KTFKKAEDMLKTLWDSK-YIGEKAVILVANKADLERR 69 (75)
Q Consensus 9 ~~~~~~~~~~~-~~~~~ilv~d~~~~---~s~~~~~~~~~~~~~~~-~~~~~~~ilvgnK~Dl~~~ 69 (75)
..+...|++.+ .++++++|+|+++. ++++.+..|..++.... ...+.|+++|+||+|+.+.
T Consensus 223 ~gLg~~flrhierad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~ 288 (329)
T TIGR02729 223 AGLGHRFLKHIERTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDE 288 (329)
T ss_pred ccHHHHHHHHHHhhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCCh
Confidence 34566666533 59999999999987 78889989988887642 1246899999999999654
No 154
>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=98.69 E-value=1.2e-08 Score=57.43 Aligned_cols=52 Identities=23% Similarity=0.307 Sum_probs=37.8
Q ss_pred ccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 6 SCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 6 e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+.|+.+.+. ++ ++|++++|||++++.|+.. ..|...+ . .|+++|+||+|+.+
T Consensus 51 ~~~~~~~~~-~~--~ad~vilv~d~~~~~s~~~-~~~~~~~------~-~p~ilv~NK~Dl~~ 102 (142)
T TIGR02528 51 RLYSALIVT-AA--DADVIALVQSATDPESRFP-PGFASIF------V-KPVIGLVTKIDLAE 102 (142)
T ss_pred HHHHHHHHH-hh--cCCEEEEEecCCCCCcCCC-hhHHHhc------c-CCeEEEEEeeccCC
Confidence 345666553 55 6999999999999999865 3453321 1 39999999999964
No 155
>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily. SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily.
Probab=98.68 E-value=5.2e-08 Score=53.28 Aligned_cols=56 Identities=18% Similarity=0.205 Sum_probs=43.7
Q ss_pred hhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcc
Q psy5805 12 VVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 12 ~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v 72 (75)
...+++ +++++++||+.++++|++.+ |...+.... ..++|.+++|||.|+.+++++
T Consensus 40 ~~~~~~--s~~~~~~v~~~~~~~s~~~~--~~~~i~~~~-k~dl~~~~~~nk~dl~~~~~~ 95 (124)
T smart00010 40 DPTSYE--SFDVVLQCWRVDDRDSADNK--NVPEVLVGN-KSDLPILVGGNRDVLEEERQV 95 (124)
T ss_pred cccccC--CCCEEEEEEEccCHHHHHHH--hHHHHHhcC-CCCCcEEEEeechhhHhhCcC
Confidence 455666 69999999999999999877 887776532 356889999999999655443
No 156
>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=98.67 E-value=6.9e-08 Score=66.01 Aligned_cols=59 Identities=15% Similarity=0.116 Sum_probs=48.6
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.||+.|......+++ ++|++|+|+|.++..+++....|...+. .++|+++|+||+|+.+
T Consensus 78 PG~~dF~~~v~~~l~--~aD~aILVvDat~g~~~qt~~~~~~~~~-----~~ipiIiViNKiDl~~ 136 (595)
T TIGR01393 78 PGHVDFSYEVSRSLA--ACEGALLLVDAAQGIEAQTLANVYLALE-----NDLEIIPVINKIDLPS 136 (595)
T ss_pred CCcHHHHHHHHHHHH--hCCEEEEEecCCCCCCHhHHHHHHHHHH-----cCCCEEEEEECcCCCc
Confidence 689999988888888 5999999999999877777777754432 3579999999999964
No 157
>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=98.64 E-value=8.8e-08 Score=65.47 Aligned_cols=56 Identities=20% Similarity=0.154 Sum_probs=45.6
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIE---RKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.||+.|..++..+++ ++|++++|+|.++ +++++.+..+ .. .++|+++++||+|+..
T Consensus 77 pG~e~f~~l~~~~~~--~aD~~IlVvD~~~g~~~qt~e~i~~l----~~----~~vpiIVv~NK~Dl~~ 135 (590)
T TIGR00491 77 PGHEAFTNLRKRGGA--LADLAILIVDINEGFKPQTQEALNIL----RM----YKTPFVVAANKIDRIP 135 (590)
T ss_pred CCcHhHHHHHHHHHh--hCCEEEEEEECCcCCCHhHHHHHHHH----HH----cCCCEEEEEECCCccc
Confidence 589999999999888 5999999999997 6777765432 21 3579999999999953
No 158
>COG2229 Predicted GTPase [General function prediction only]
Probab=98.64 E-value=1e-07 Score=56.65 Aligned_cols=63 Identities=17% Similarity=0.155 Sum_probs=50.7
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQ 71 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~ 71 (75)
-||+||.-+++.+.+ |+.++|++.|-+.+..| ....-+..+... ..+|+++..||.||...+.
T Consensus 76 PGq~RF~fm~~~l~~--ga~gaivlVDss~~~~~-~a~~ii~f~~~~---~~ip~vVa~NK~DL~~a~p 138 (187)
T COG2229 76 PGQERFKFMWEILSR--GAVGAIVLVDSSRPITF-HAEEIIDFLTSR---NPIPVVVAINKQDLFDALP 138 (187)
T ss_pred CCcHHHHHHHHHHhC--CcceEEEEEecCCCcch-HHHHHHHHHhhc---cCCCEEEEeeccccCCCCC
Confidence 489999999999999 89999999999999999 444444444431 2299999999999986543
No 159
>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=98.63 E-value=1.7e-07 Score=52.23 Aligned_cols=63 Identities=14% Similarity=0.188 Sum_probs=51.7
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCCh-hHHHHHH-HHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIER-KTFKKAE-DMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~-~s~~~~~-~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|++.|..+...+.+ ++++++.++|+... .++.... .|...+..... .+.|+++++||+|+..
T Consensus 58 ~G~~~~~~~~~~~~~--~~~~~i~~~d~~~~v~~~~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~ 122 (161)
T TIGR00231 58 AGQEDYRAIRRLYYR--AVESSLRVFDIVILVLDVEEILEKQTKEIIHHAE-SNVPIILVGNKIDLRD 122 (161)
T ss_pred CCcccchHHHHHHHh--hhhEEEEEEEEeeeehhhhhHhHHHHHHHHHhcc-cCCcEEEEEEcccCCc
Confidence 467888888888888 49999999999998 8888775 78777766432 2889999999999965
No 160
>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=98.62 E-value=2.3e-07 Score=53.11 Aligned_cols=56 Identities=18% Similarity=0.203 Sum_probs=41.8
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCCh---hHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIER---KTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~---~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|++.|..++..+++ .+|++++|+|.++. +++..+. .+.. .++|+++|+||+|+.+
T Consensus 58 pG~~~~~~~~~~~~~--~~d~il~v~d~~~~~~~~~~~~~~----~~~~----~~~p~ivv~NK~Dl~~ 116 (168)
T cd01887 58 PGHEAFTNMRARGAS--LTDIAILVVAADDGVMPQTIEAIK----LAKA----ANVPFIVALNKIDKPN 116 (168)
T ss_pred CCcHHHHHHHHHHHh--hcCEEEEEEECCCCccHHHHHHHH----HHHH----cCCCEEEEEEceeccc
Confidence 578888888888777 59999999999984 4444332 2222 4579999999999864
No 161
>PRK11058 GTPase HflX; Provisional
Probab=98.60 E-value=1.7e-07 Score=61.97 Aligned_cols=48 Identities=19% Similarity=0.223 Sum_probs=38.9
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
++|++++|+|.+++.+++++..|...+.... ..++|+++|+||+|+..
T Consensus 276 ~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~-~~~~pvIiV~NKiDL~~ 323 (426)
T PRK11058 276 QATLLLHVVDAADVRVQENIEAVNTVLEEID-AHEIPTLLVMNKIDMLD 323 (426)
T ss_pred cCCEEEEEEeCCCccHHHHHHHHHHHHHHhc-cCCCCEEEEEEcccCCC
Confidence 5999999999999999998876655555432 25789999999999854
No 162
>PRK03003 GTP-binding protein Der; Reviewed
Probab=98.55 E-value=2.4e-07 Score=61.76 Aligned_cols=58 Identities=19% Similarity=0.289 Sum_probs=43.7
Q ss_pred ccccchhhhhh-hhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 4 RTSCFTNLVVN-FVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 4 ~~e~f~~~~~~-~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
++|.|..++.. +++ +++++++|+|.++..++..+. ++..+.. .+.|+++|+||+||.+
T Consensus 278 ~~e~~~~~~~~~~i~--~ad~vilV~Da~~~~s~~~~~-~~~~~~~----~~~piIiV~NK~Dl~~ 336 (472)
T PRK03003 278 GHEYYASLRTHAAIE--AAEVAVVLIDASEPISEQDQR-VLSMVIE----AGRALVLAFNKWDLVD 336 (472)
T ss_pred hHHHHHHHHHHHHHh--cCCEEEEEEeCCCCCCHHHHH-HHHHHHH----cCCCEEEEEECcccCC
Confidence 35677766543 455 599999999999998988774 3444432 4689999999999964
No 163
>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=98.52 E-value=5.1e-07 Score=54.36 Aligned_cols=58 Identities=24% Similarity=0.248 Sum_probs=44.0
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
.|++.|......+++ .+|++++|+|.++..++.. ..|+..... .+.|+++|+||+|+.
T Consensus 79 pG~~~f~~~~~~~~~--~aD~~llVvD~~~~~~~~~-~~~~~~~~~----~~~p~iiviNK~D~~ 136 (213)
T cd04167 79 PGHVNFMDEVAAALR--LSDGVVLVVDVVEGVTSNT-ERLIRHAIL----EGLPIVLVINKIDRL 136 (213)
T ss_pred CCCcchHHHHHHHHH--hCCEEEEEEECCCCCCHHH-HHHHHHHHH----cCCCEEEEEECcccC
Confidence 578889888888887 4999999999988776643 344444432 348999999999974
No 164
>KOG0074|consensus
Probab=98.48 E-value=2.4e-07 Score=53.56 Aligned_cols=64 Identities=22% Similarity=0.326 Sum_probs=51.8
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+||-..+..+..||. +.|++|+|-|.+|+.-|+.+..-+.++.+......+|+.+.+||.|+.-
T Consensus 70 GGqr~IRpyWsNYye--nvd~lIyVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdllt 133 (185)
T KOG0074|consen 70 GGQRGIRPYWSNYYE--NVDGLIYVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLT 133 (185)
T ss_pred CCccccchhhhhhhh--ccceEEEEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHh
Confidence 466566677777777 7999999999999999999976666665555567899999999999853
No 165
>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=98.48 E-value=4.7e-07 Score=60.14 Aligned_cols=47 Identities=26% Similarity=0.327 Sum_probs=37.8
Q ss_pred hhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 14 NFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 14 ~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.+++ ++|++++|||.+++.+++.. |+..+.. .+.|+++|+||+|+..
T Consensus 278 ~~~~--~aD~il~V~D~s~~~s~~~~--~l~~~~~----~~~piIlV~NK~Dl~~ 324 (442)
T TIGR00450 278 KAIK--QADLVIYVLDASQPLTKDDF--LIIDLNK----SKKPFILVLNKIDLKI 324 (442)
T ss_pred HHHh--hCCEEEEEEECCCCCChhHH--HHHHHhh----CCCCEEEEEECccCCC
Confidence 4555 69999999999999988876 7666542 4679999999999854
No 166
>PRK03003 GTP-binding protein Der; Reviewed
Probab=98.45 E-value=4.8e-07 Score=60.35 Aligned_cols=54 Identities=28% Similarity=0.285 Sum_probs=38.9
Q ss_pred chhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 8 FTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 8 f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+......+++ ++|++++|+|.++..++.. ..|...++. .+.|+++|+||+|+..
T Consensus 107 ~~~~~~~~~~--~aD~il~VvD~~~~~s~~~-~~i~~~l~~----~~~piilV~NK~Dl~~ 160 (472)
T PRK03003 107 VAEQAEVAMR--TADAVLFVVDATVGATATD-EAVARVLRR----SGKPVILAANKVDDER 160 (472)
T ss_pred HHHHHHHHHH--hCCEEEEEEECCCCCCHHH-HHHHHHHHH----cCCCEEEEEECccCCc
Confidence 4445556666 5999999999998866543 334444442 4689999999999853
No 167
>PRK04004 translation initiation factor IF-2; Validated
Probab=98.44 E-value=5.8e-07 Score=61.48 Aligned_cols=55 Identities=22% Similarity=0.219 Sum_probs=45.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIE---RKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
.||+.|..++...++ .+|++++|+|.++ +++++.+..+ .. .++|+++++||+|+.
T Consensus 79 PG~e~f~~~~~~~~~--~aD~~IlVvDa~~g~~~qt~e~i~~~----~~----~~vpiIvviNK~D~~ 136 (586)
T PRK04004 79 PGHEAFTNLRKRGGA--LADIAILVVDINEGFQPQTIEAINIL----KR----RKTPFVVAANKIDRI 136 (586)
T ss_pred CChHHHHHHHHHhHh--hCCEEEEEEECCCCCCHhHHHHHHHH----HH----cCCCEEEEEECcCCc
Confidence 589999999988887 5999999999997 7788776432 21 468999999999985
No 168
>cd00066 G-alpha G protein alpha subunit. The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.
Probab=98.44 E-value=7.3e-07 Score=56.94 Aligned_cols=63 Identities=14% Similarity=0.297 Sum_probs=49.0
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCCh----------hHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIER----------KTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~----------~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
|||...+..+..|+. +++++|+|.|+++. +.+......++.+.+.....++|++|++||.|+-
T Consensus 169 gGq~~~R~kW~~~f~--~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~D~f 241 (317)
T cd00066 169 GGQRSERKKWIHCFE--DVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKKDLF 241 (317)
T ss_pred CCCcccchhHHHHhC--CCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccChHHH
Confidence 788888888888888 79999999999974 4555555555555544334689999999999974
No 169
>PRK12297 obgE GTPase CgtA; Reviewed
Probab=98.43 E-value=9.4e-07 Score=58.51 Aligned_cols=61 Identities=26% Similarity=0.231 Sum_probs=45.8
Q ss_pred chhhhhhhhhcc-CCcEEEEEEECCCh---hHHHHHHHHHHHHHhhcC-CCCCeEEEEeeCCCCcC
Q psy5805 8 FTNLVVNFVQTY-HPDVFVIVYSVIER---KTFKKAEDMLKTLWDSKY-IGEKAVILVANKADLER 68 (75)
Q Consensus 8 f~~~~~~~~~~~-~~~~~ilv~d~~~~---~s~~~~~~~~~~~~~~~~-~~~~~~ilvgnK~Dl~~ 68 (75)
...+...|++.+ .++++++|+|+++. ++++....|..++..... ..+.|+++|+||+||.+
T Consensus 223 ~~gLg~~fLrhier~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~ 288 (424)
T PRK12297 223 GVGLGHQFLRHIERTRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPE 288 (424)
T ss_pred cchHHHHHHHHHhhCCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcC
Confidence 344556665533 58999999999865 788888888888876421 24689999999999853
No 170
>smart00275 G_alpha G protein alpha subunit. Subunit of G proteins that contains the guanine nucleotide binding site
Probab=98.43 E-value=9.4e-07 Score=57.03 Aligned_cols=63 Identities=13% Similarity=0.280 Sum_probs=49.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCCh----------hHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIER----------KTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~----------~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
|||..++..+..|+. +++++|+|.|+++. ..+......++.+.+.....++|++|+.||.|+-
T Consensus 192 gGqr~~R~kW~~~f~--~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~piil~~NK~D~~ 264 (342)
T smart00275 192 GGQRSERKKWIHCFD--NVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSIILFLNKIDLF 264 (342)
T ss_pred CCchhhhhhHHHHhC--CCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEEEEEecHHhH
Confidence 788888999999888 79999999999973 4565555555555554444689999999999984
No 171
>PRK05433 GTP-binding protein LepA; Provisional
Probab=98.42 E-value=9.8e-07 Score=60.52 Aligned_cols=59 Identities=17% Similarity=0.117 Sum_probs=46.6
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.||+.|......+++ ++|++|+|+|.++....+....|..... .++|+++|+||+|+..
T Consensus 82 PGh~dF~~~v~~sl~--~aD~aILVVDas~gv~~qt~~~~~~~~~-----~~lpiIvViNKiDl~~ 140 (600)
T PRK05433 82 PGHVDFSYEVSRSLA--ACEGALLVVDASQGVEAQTLANVYLALE-----NDLEIIPVLNKIDLPA 140 (600)
T ss_pred CCcHHHHHHHHHHHH--HCCEEEEEEECCCCCCHHHHHHHHHHHH-----CCCCEEEEEECCCCCc
Confidence 689999988888888 5999999999998766666666643321 3579999999999864
No 172
>CHL00189 infB translation initiation factor 2; Provisional
Probab=98.41 E-value=7e-07 Score=62.48 Aligned_cols=56 Identities=13% Similarity=0.214 Sum_probs=44.0
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIE---RKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.||+.|..++..+++ .+|++|+|+|.++ +.+++.+.. +. ..++|+++++||+|+..
T Consensus 303 PGhe~F~~mr~rg~~--~aDiaILVVDA~dGv~~QT~E~I~~----~k----~~~iPiIVViNKiDl~~ 361 (742)
T CHL00189 303 PGHEAFSSMRSRGAN--VTDIAILIIAADDGVKPQTIEAINY----IQ----AANVPIIVAINKIDKAN 361 (742)
T ss_pred CcHHHHHHHHHHHHH--HCCEEEEEEECcCCCChhhHHHHHH----HH----hcCceEEEEEECCCccc
Confidence 589999999998888 4999999999987 455554432 22 24689999999999864
No 173
>cd01854 YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.
Probab=98.41 E-value=6.6e-07 Score=56.42 Aligned_cols=45 Identities=27% Similarity=0.194 Sum_probs=39.4
Q ss_pred CCcEEEEEEECCChh-HHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERK-TFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
|+|.+++|+|++++. ++..+.+|+..+.. .++|+++|.||+||..
T Consensus 78 nvD~vllV~d~~~p~~s~~~ldr~L~~~~~----~~ip~iIVlNK~DL~~ 123 (287)
T cd01854 78 NVDQLVIVVSLNEPFFNPRLLDRYLVAAEA----AGIEPVIVLTKADLLD 123 (287)
T ss_pred eCCEEEEEEEcCCCCCCHHHHHHHHHHHHH----cCCCEEEEEEHHHCCC
Confidence 799999999999998 88999999887764 4589999999999954
No 174
>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=98.41 E-value=9.4e-07 Score=60.51 Aligned_cols=56 Identities=18% Similarity=0.227 Sum_probs=43.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIE---RKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.||+.|..++..+++ .+|++++|+|.++ +++++.+. ... ..++|+++++||+|+.+
T Consensus 143 PGhe~F~~~r~rga~--~aDiaILVVda~dgv~~qT~e~i~----~~~----~~~vPiIVviNKiDl~~ 201 (587)
T TIGR00487 143 PGHEAFTSMRARGAK--VTDIVVLVVAADDGVMPQTIEAIS----HAK----AANVPIIVAINKIDKPE 201 (587)
T ss_pred CCCcchhhHHHhhhc--cCCEEEEEEECCCCCCHhHHHHHH----HHH----HcCCCEEEEEECccccc
Confidence 689999999988887 5999999999986 45554432 122 24689999999999853
No 175
>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=98.40 E-value=1.4e-06 Score=49.26 Aligned_cols=61 Identities=18% Similarity=0.188 Sum_probs=40.0
Q ss_pred ccccchh------hhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCc
Q psy5805 4 RTSCFTN------LVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQ 71 (75)
Q Consensus 4 ~~e~f~~------~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~ 71 (75)
|++.|.. ++..++..-+++++++|+|.+++++.. .|...+.. .++|+++|+||+|+...+.
T Consensus 52 G~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~---~~~~~~~~----~~~~~iiv~NK~Dl~~~~~ 118 (158)
T cd01879 52 GTYSLSPYSEDEKVARDFLLGEKPDLIVNVVDATNLERNL---YLTLQLLE----LGLPVVVALNMIDEAEKRG 118 (158)
T ss_pred CccccCCCChhHHHHHHHhcCCCCcEEEEEeeCCcchhHH---HHHHHHHH----cCCCEEEEEehhhhccccc
Confidence 5555543 345555301599999999999865533 34444443 3579999999999965443
No 176
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=98.39 E-value=1.1e-06 Score=61.89 Aligned_cols=56 Identities=20% Similarity=0.217 Sum_probs=43.6
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIE---RKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.||+.|..++..+.+ .+|++|+|+|.++ +++++.+.. +. ..++|+++++||+|+.+
T Consensus 345 PGhe~F~~m~~rga~--~aDiaILVVdAddGv~~qT~e~i~~----a~----~~~vPiIVviNKiDl~~ 403 (787)
T PRK05306 345 PGHEAFTAMRARGAQ--VTDIVVLVVAADDGVMPQTIEAINH----AK----AAGVPIIVAINKIDKPG 403 (787)
T ss_pred CCCccchhHHHhhhh--hCCEEEEEEECCCCCCHhHHHHHHH----HH----hcCCcEEEEEECccccc
Confidence 589999999988887 4999999999987 455554321 11 24689999999999954
No 177
>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=98.38 E-value=2e-06 Score=52.97 Aligned_cols=59 Identities=19% Similarity=0.119 Sum_probs=45.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|++.|......+++ .+|++++|+|.++.... ....|+..+.. .++|+++++||+|+..
T Consensus 72 PG~~~f~~~~~~~l~--~aD~~IlVvd~~~g~~~-~~~~~~~~~~~----~~~P~iivvNK~D~~~ 130 (237)
T cd04168 72 PGHMDFIAEVERSLS--VLDGAILVISAVEGVQA-QTRILWRLLRK----LNIPTIIFVNKIDRAG 130 (237)
T ss_pred CCccchHHHHHHHHH--HhCeEEEEEeCCCCCCH-HHHHHHHHHHH----cCCCEEEEEECccccC
Confidence 578889888888888 59999999999986543 34455555543 3579999999999864
No 178
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=98.37 E-value=8.9e-07 Score=58.88 Aligned_cols=47 Identities=30% Similarity=0.374 Sum_probs=37.2
Q ss_pred hhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCC
Q psy5805 15 FVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRR 70 (75)
Q Consensus 15 ~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r 70 (75)
+++ ++|++++|+|.+++.+++....|.. ..+.|+++|+||+|+....
T Consensus 291 ~~~--~aD~il~VvD~s~~~s~~~~~~l~~-------~~~~piiiV~NK~DL~~~~ 337 (449)
T PRK05291 291 AIE--EADLVLLVLDASEPLTEEDDEILEE-------LKDKPVIVVLNKADLTGEI 337 (449)
T ss_pred HHH--hCCEEEEEecCCCCCChhHHHHHHh-------cCCCCcEEEEEhhhccccc
Confidence 445 6999999999999998887655543 2568999999999996543
No 179
>PRK04213 GTP-binding protein; Provisional
Probab=98.34 E-value=2.2e-07 Score=55.07 Aligned_cols=62 Identities=18% Similarity=0.148 Sum_probs=35.8
Q ss_pred cccchhhhhhhhhcc--CCcEEEEEEECCChhHHHHH-HHHHH--------HHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 5 TSCFTNLVVNFVQTY--HPDVFVIVYSVIERKTFKKA-EDMLK--------TLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 5 ~e~f~~~~~~~~~~~--~~~~~ilv~d~~~~~s~~~~-~~~~~--------~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
+|+|+.++..|++.. .++++++|.|. .++.++ ..|.. ++.......++|+++|+||+|+.+.
T Consensus 73 ~~~~~~~~~~~~~~~~~~~~~vi~v~d~---~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~p~iiv~NK~Dl~~~ 145 (201)
T PRK04213 73 QEKIKDEIVRYIEDNADRILAAVLVVDG---KSFIEIIERWEGRGEIPIDVEMFDFLRELGIPPIVAVNKMDKIKN 145 (201)
T ss_pred HHHHHHHHHHHHHhhhhhheEEEEEEeC---ccccccccccccCCCcHHHHHHHHHHHHcCCCeEEEEECccccCc
Confidence 678888888887631 23455555554 444333 33421 1111111246899999999999643
No 180
>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=98.32 E-value=3.2e-06 Score=49.02 Aligned_cols=59 Identities=19% Similarity=0.196 Sum_probs=44.0
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|++.|......+++ ++|++++|+|.++..+... ..++..+.. .+.|+++|+||+|+..
T Consensus 70 pG~~~~~~~~~~~~~--~~d~~i~v~d~~~~~~~~~-~~~~~~~~~----~~~~i~iv~nK~D~~~ 128 (189)
T cd00881 70 PGHEDFSSEVIRGLS--VSDGAILVVDANEGVQPQT-REHLRIARE----GGLPIIVAINKIDRVG 128 (189)
T ss_pred CCcHHHHHHHHHHHH--hcCEEEEEEECCCCCcHHH-HHHHHHHHH----CCCCeEEEEECCCCcc
Confidence 467788888888888 5999999999987665443 233333332 5689999999999964
No 181
>PRK12289 GTPase RsgA; Reviewed
Probab=98.31 E-value=1.8e-06 Score=56.02 Aligned_cols=45 Identities=22% Similarity=0.268 Sum_probs=36.8
Q ss_pred CCcEEEEEEECCChh-HHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERK-TFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
|+|.+++|+|++++. +...+.+|+..+.. .++|+++|.||+||..
T Consensus 89 NvD~vLlV~d~~~p~~~~~~LdR~L~~a~~----~~ip~ILVlNK~DLv~ 134 (352)
T PRK12289 89 NADQILLVFALAEPPLDPWQLSRFLVKAES----TGLEIVLCLNKADLVS 134 (352)
T ss_pred cCCEEEEEEECCCCCCCHHHHHHHHHHHHH----CCCCEEEEEEchhcCC
Confidence 799999999999876 55577888766632 5689999999999964
No 182
>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=98.29 E-value=9.3e-07 Score=58.23 Aligned_cols=62 Identities=18% Similarity=0.134 Sum_probs=40.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHH-HHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAED-MLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~-~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.||++|.......++ ++|++++|+|.++.+++...+. +...+.. ..+..++++++||+|+.+
T Consensus 93 pGh~~f~~~~~~~~~--~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~--~~~~~~iIVviNK~Dl~~ 155 (426)
T TIGR00483 93 PGHRDFIKNMITGAS--QADAAVLVVAVGDGEFEVQPQTREHAFLAR--TLGINQLIVAINKMDSVN 155 (426)
T ss_pred CCHHHHHHHHHhhhh--hCCEEEEEEECCCCCcccCCchHHHHHHHH--HcCCCeEEEEEEChhccC
Confidence 578888655555555 5999999999998865422211 1112222 123457999999999963
No 183
>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=98.28 E-value=3.2e-06 Score=58.01 Aligned_cols=61 Identities=20% Similarity=0.156 Sum_probs=47.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRR 70 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r 70 (75)
.||+.|......+++ .+|++++|+|.++. ...+.+.|+..+.. .++|+++|.||+|+.+.+
T Consensus 72 PGh~DF~~ev~~~l~--~aD~alLVVDa~~G-~~~qT~~~l~~a~~----~~ip~IVviNKiD~~~a~ 132 (594)
T TIGR01394 72 PGHADFGGEVERVLG--MVDGVLLLVDASEG-PMPQTRFVLKKALE----LGLKPIVVINKIDRPSAR 132 (594)
T ss_pred CCHHHHHHHHHHHHH--hCCEEEEEEeCCCC-CcHHHHHHHHHHHH----CCCCEEEEEECCCCCCcC
Confidence 589999988888888 49999999999763 34555666666654 457899999999986543
No 184
>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=98.27 E-value=4.5e-06 Score=52.22 Aligned_cols=59 Identities=15% Similarity=0.113 Sum_probs=41.8
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|+++|......+++ ++|++++|+|.++.-. .....++..... .++|+++++||+|+..
T Consensus 79 PG~~df~~~~~~~l~--~aD~~IlVvda~~g~~-~~~~~i~~~~~~----~~~P~iivvNK~D~~~ 137 (267)
T cd04169 79 PGHEDFSEDTYRTLT--AVDSAVMVIDAAKGVE-PQTRKLFEVCRL----RGIPIITFINKLDREG 137 (267)
T ss_pred CCchHHHHHHHHHHH--HCCEEEEEEECCCCcc-HHHHHHHHHHHh----cCCCEEEEEECCccCC
Confidence 578888876666777 5999999999987532 222334333332 4689999999999864
No 185
>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH. This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.
Probab=98.27 E-value=6.1e-07 Score=58.16 Aligned_cols=55 Identities=25% Similarity=0.335 Sum_probs=42.9
Q ss_pred cccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 5 TSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 5 ~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|.|+.+.+.+++ +++++++|+|+.+.. ..|.+++.+.. .+.|+++|+||+||..
T Consensus 50 ~e~f~~~l~~~~~--~~~~Il~VvD~~d~~-----~s~~~~l~~~~--~~~piilV~NK~DLl~ 104 (360)
T TIGR03597 50 DDDFLNLLNSLGD--SNALIVYVVDIFDFE-----GSLIPELKRFV--GGNPVLLVGNKIDLLP 104 (360)
T ss_pred HHHHHHHHhhccc--CCcEEEEEEECcCCC-----CCccHHHHHHh--CCCCEEEEEEchhhCC
Confidence 4678889898888 599999999997654 34666666542 4679999999999854
No 186
>cd01855 YqeH YqeH. YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.
Probab=98.27 E-value=1.3e-06 Score=51.63 Aligned_cols=52 Identities=27% Similarity=0.309 Sum_probs=37.7
Q ss_pred chhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 8 FTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 8 f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
|+++.+.|++ +++++++|+|++++.. .|...+... ..+.|+++|+||+|+..
T Consensus 24 ~~~~l~~~~~--~ad~il~VvD~~~~~~-----~~~~~l~~~--~~~~~~ilV~NK~Dl~~ 75 (190)
T cd01855 24 ILNLLSSISP--KKALVVHVVDIFDFPG-----SLIPRLRLF--GGNNPVILVGNKIDLLP 75 (190)
T ss_pred HHHHHHhccc--CCcEEEEEEECccCCC-----ccchhHHHh--cCCCcEEEEEEchhcCC
Confidence 5777788887 5999999999987642 233333221 24679999999999853
No 187
>PRK12288 GTPase RsgA; Reviewed
Probab=98.24 E-value=3.2e-06 Score=54.77 Aligned_cols=45 Identities=24% Similarity=0.209 Sum_probs=38.9
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
|.|.+++|++++...++..+..|+..+.. .++|.++|.||+||..
T Consensus 120 NvD~vlIV~s~~p~~s~~~Ldr~L~~a~~----~~i~~VIVlNK~DL~~ 164 (347)
T PRK12288 120 NIDQIVIVSAVLPELSLNIIDRYLVACET----LGIEPLIVLNKIDLLD 164 (347)
T ss_pred EccEEEEEEeCCCCCCHHHHHHHHHHHHh----cCCCEEEEEECccCCC
Confidence 79999999999988999999999875542 4589999999999964
No 188
>PRK14845 translation initiation factor IF-2; Provisional
Probab=98.21 E-value=4.4e-06 Score=60.32 Aligned_cols=56 Identities=25% Similarity=0.233 Sum_probs=44.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIE---RKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.||+.|.+++...++ .+|++++|+|.++ +++++.+.. +.. .++|+++|+||+|+..
T Consensus 534 PGhe~F~~lr~~g~~--~aDivlLVVDa~~Gi~~qT~e~I~~----lk~----~~iPiIVViNKiDL~~ 592 (1049)
T PRK14845 534 PGHEAFTSLRKRGGS--LADLAVLVVDINEGFKPQTIEAINI----LRQ----YKTPFVVAANKIDLIP 592 (1049)
T ss_pred CCcHHHHHHHHhhcc--cCCEEEEEEECcccCCHhHHHHHHH----HHH----cCCCEEEEEECCCCcc
Confidence 589999999888777 5999999999986 677776643 222 3579999999999953
No 189
>KOG0077|consensus
Probab=98.21 E-value=3.2e-06 Score=50.00 Aligned_cols=64 Identities=13% Similarity=0.252 Sum_probs=52.6
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+||-.-+..+..|+.. ++++++.+|.-|.+.|...+.-++.+.......++|+++.|||+|...
T Consensus 72 GGH~qArr~wkdyf~~--v~~iv~lvda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~ 135 (193)
T KOG0077|consen 72 GGHLQARRVWKDYFPQ--VDAIVYLVDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPY 135 (193)
T ss_pred ccHHHHHHHHHHHHhh--hceeEeeeehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCC
Confidence 5676677777788874 999999999999999999887776666544457899999999999864
No 190
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=98.21 E-value=2.8e-06 Score=49.16 Aligned_cols=42 Identities=19% Similarity=0.146 Sum_probs=32.5
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
++|++++|+|.++..++. ..|+..+ ..+.|+++++||+|+.+
T Consensus 64 ~ad~il~v~d~~~~~s~~--~~~~~~~-----~~~~~ii~v~nK~Dl~~ 105 (158)
T PRK15467 64 DVDMLIYVHGANDPESRL--PAGLLDI-----GVSKRQIAVISKTDMPD 105 (158)
T ss_pred cCCEEEEEEeCCCccccc--CHHHHhc-----cCCCCeEEEEEccccCc
Confidence 599999999999998763 3454443 13568999999999854
No 191
>PRK00098 GTPase RsgA; Reviewed
Probab=98.21 E-value=2.6e-06 Score=54.00 Aligned_cols=45 Identities=24% Similarity=0.202 Sum_probs=36.9
Q ss_pred CCcEEEEEEECCChhHHHH-HHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFKK-AEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~-~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
|+|.+++|+|++++.++.. +.+|+..+.. .++|+++|.||+||.+
T Consensus 80 niD~vllV~d~~~p~~~~~~idr~L~~~~~----~~ip~iIVlNK~DL~~ 125 (298)
T PRK00098 80 NVDQAVLVFAAKEPDFSTDLLDRFLVLAEA----NGIKPIIVLNKIDLLD 125 (298)
T ss_pred cCCEEEEEEECCCCCCCHHHHHHHHHHHHH----CCCCEEEEEEhHHcCC
Confidence 7999999999999877655 4788776653 4689999999999963
No 192
>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=3e-06 Score=58.01 Aligned_cols=57 Identities=19% Similarity=0.019 Sum_probs=43.2
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHhhcCCCCCe-EEEEeeCCCCcCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIE---RKTFKKAEDMLKTLWDSKYIGEKA-VILVANKADLERR 69 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~-~ilvgnK~Dl~~~ 69 (75)
.||++|......++. ++|++++|+|.++ +++++++. .+.. .++| +++|+||+|+.+.
T Consensus 58 PGhe~f~~~~~~g~~--~aD~aILVVDa~~G~~~qT~ehl~----il~~----lgi~~iIVVlNK~Dlv~~ 118 (581)
T TIGR00475 58 PGHEKFISNAIAGGG--GIDAALLVVDADEGVMTQTGEHLA----VLDL----LGIPHTIVVITKADRVNE 118 (581)
T ss_pred CCHHHHHHHHHhhhc--cCCEEEEEEECCCCCcHHHHHHHH----HHHH----cCCCeEEEEEECCCCCCH
Confidence 588999877777777 6999999999998 66766653 1222 3466 9999999999653
No 193
>PRK12296 obgE GTPase CgtA; Reviewed
Probab=98.18 E-value=3.5e-06 Score=56.84 Aligned_cols=62 Identities=21% Similarity=0.297 Sum_probs=42.2
Q ss_pred hhhhhhhhhcc-CCcEEEEEEECCC----hhHHHHHHHHHHHHHhhc----------CCCCCeEEEEeeCCCCcCCC
Q psy5805 9 TNLVVNFVQTY-HPDVFVIVYSVIE----RKTFKKAEDMLKTLWDSK----------YIGEKAVILVANKADLERRR 70 (75)
Q Consensus 9 ~~~~~~~~~~~-~~~~~ilv~d~~~----~~s~~~~~~~~~~~~~~~----------~~~~~~~ilvgnK~Dl~~~r 70 (75)
..+...+++.+ .++++++|+|+++ ++.++.+..|..++.... ...+.|+++|+||+|+.+.+
T Consensus 224 ~gLg~~fLrhieradvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~ 300 (500)
T PRK12296 224 KGLGLDFLRHIERCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDAR 300 (500)
T ss_pred hHHHHHHHHHHHhcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhH
Confidence 34444444433 6999999999986 346666666666665432 12468999999999996543
No 194
>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=98.15 E-value=6.3e-06 Score=46.34 Aligned_cols=43 Identities=23% Similarity=0.244 Sum_probs=34.9
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
+++++++|+|.+++.+......|.. ....|+++|+||+|+.+.
T Consensus 80 ~~~~~v~v~d~~~~~~~~~~~~~~~-------~~~~~vi~v~nK~D~~~~ 122 (157)
T cd04164 80 EADLVLFVIDASRGLDEEDLEILEL-------PADKPIIVVLNKSDLLPD 122 (157)
T ss_pred hCCEEEEEEECCCCCCHHHHHHHHh-------hcCCCEEEEEEchhcCCc
Confidence 5999999999999888877655532 256899999999998653
No 195
>PRK13351 elongation factor G; Reviewed
Probab=98.12 E-value=1.2e-05 Score=55.87 Aligned_cols=59 Identities=15% Similarity=0.010 Sum_probs=46.9
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|+..|......+++ .+|++++|+|.++..+......|. .+.. .++|+++++||+|+..
T Consensus 81 PG~~df~~~~~~~l~--~aD~~ilVvd~~~~~~~~~~~~~~-~~~~----~~~p~iiviNK~D~~~ 139 (687)
T PRK13351 81 PGHIDFTGEVERSLR--VLDGAVVVFDAVTGVQPQTETVWR-QADR----YGIPRLIFINKMDRVG 139 (687)
T ss_pred CCcHHHHHHHHHHHH--hCCEEEEEEeCCCCCCHHHHHHHH-HHHh----cCCCEEEEEECCCCCC
Confidence 578889888888888 599999999999887777665563 3332 4689999999999875
No 196
>PRK15494 era GTPase Era; Provisional
Probab=98.09 E-value=1.1e-05 Score=52.04 Aligned_cols=43 Identities=23% Similarity=0.438 Sum_probs=30.6
Q ss_pred CCcEEEEEEECCChhHHHHHH-HHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAE-DMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
++|++++|+|.+ ++|.... .|+..+.. .+.|.++|+||+|+..
T Consensus 131 ~aDvil~VvD~~--~s~~~~~~~il~~l~~----~~~p~IlViNKiDl~~ 174 (339)
T PRK15494 131 SADLVLLIIDSL--KSFDDITHNILDKLRS----LNIVPIFLLNKIDIES 174 (339)
T ss_pred hCCEEEEEEECC--CCCCHHHHHHHHHHHh----cCCCEEEEEEhhcCcc
Confidence 799999999854 4666664 45555543 2356678999999864
No 197
>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.
Probab=98.04 E-value=1.6e-05 Score=52.18 Aligned_cols=46 Identities=26% Similarity=0.320 Sum_probs=34.6
Q ss_pred hhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 15 FVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 15 ~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
+++ ++|++++|+|.++..+.....- ...+.. .+.|+++|+||+|+.
T Consensus 251 ~~~--~ad~~ilV~D~~~~~~~~~~~~-~~~~~~----~~~~iiiv~NK~Dl~ 296 (429)
T TIGR03594 251 AIE--RADVVLLVLDATEGITEQDLRI-AGLILE----AGKALVIVVNKWDLV 296 (429)
T ss_pred HHH--hCCEEEEEEECCCCccHHHHHH-HHHHHH----cCCcEEEEEECcccC
Confidence 455 5999999999998877766532 233332 458999999999996
No 198
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=98.04 E-value=1.4e-05 Score=55.85 Aligned_cols=57 Identities=18% Similarity=0.290 Sum_probs=41.0
Q ss_pred cccchhhhhh-hhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 5 TSCFTNLVVN-FVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 5 ~e~f~~~~~~-~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|.|..++.. +++ ++|++++|+|.++..++..+.-| ..+.. .+.|+++|+||+||.+
T Consensus 518 ~e~~~~~r~~~~i~--~advvilViDat~~~s~~~~~i~-~~~~~----~~~piIiV~NK~DL~~ 575 (712)
T PRK09518 518 AEYYSSLRTQAAIE--RSELALFLFDASQPISEQDLKVM-SMAVD----AGRALVLVFNKWDLMD 575 (712)
T ss_pred HHHHHHHHHHHHhh--cCCEEEEEEECCCCCCHHHHHHH-HHHHH----cCCCEEEEEEchhcCC
Confidence 3455554433 345 59999999999999888877544 33332 4589999999999964
No 199
>cd01894 EngA1 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=98.03 E-value=1.8e-05 Score=44.56 Aligned_cols=45 Identities=36% Similarity=0.352 Sum_probs=31.2
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
++|++++|+|..+..+..... ....++. .+.|+++|+||+|+.+.
T Consensus 76 ~~d~ii~v~d~~~~~~~~~~~-~~~~~~~----~~~piiiv~nK~D~~~~ 120 (157)
T cd01894 76 EADVILFVVDGREGLTPADEE-IAKYLRK----SKKPVILVVNKVDNIKE 120 (157)
T ss_pred hCCEEEEEEeccccCCccHHH-HHHHHHh----cCCCEEEEEECcccCCh
Confidence 699999999998765544321 1122222 34899999999998653
No 200
>cd01857 HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.
Probab=98.03 E-value=7.7e-06 Score=46.42 Aligned_cols=44 Identities=30% Similarity=0.352 Sum_probs=32.9
Q ss_pred CCcEEEEEEECCChhHHH--HHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFK--KAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~--~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
++|++++|+|..++.+.. .+..|+... . .+.|+++|.||+|+..
T Consensus 11 ~aD~vl~ViD~~~p~~~~~~~l~~~l~~~----~-~~k~~iivlNK~DL~~ 56 (141)
T cd01857 11 RSDIVVQIVDARNPLLFRPPDLERYVKEV----D-PRKKNILLLNKADLLT 56 (141)
T ss_pred hCCEEEEEEEccCCcccCCHHHHHHHHhc----c-CCCcEEEEEechhcCC
Confidence 499999999999887654 445554432 1 4579999999999954
No 201
>PRK10218 GTP-binding protein; Provisional
Probab=97.99 E-value=3.5e-05 Score=53.16 Aligned_cols=60 Identities=17% Similarity=0.117 Sum_probs=44.0
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
.||+.|......+++ ++|++++|+|.++.... +.+.++..+.. .++|.+++.||+|+...
T Consensus 76 PG~~df~~~v~~~l~--~aDg~ILVVDa~~G~~~-qt~~~l~~a~~----~gip~IVviNKiD~~~a 135 (607)
T PRK10218 76 PGHADFGGEVERVMS--MVDSVLLVVDAFDGPMP-QTRFVTKKAFA----YGLKPIVVINKVDRPGA 135 (607)
T ss_pred CCcchhHHHHHHHHH--hCCEEEEEEecccCccH-HHHHHHHHHHH----cCCCEEEEEECcCCCCC
Confidence 589999999898888 59999999999875322 22333333332 45788999999998653
No 202
>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2). eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel
Probab=97.99 E-value=1.9e-05 Score=47.27 Aligned_cols=57 Identities=19% Similarity=0.190 Sum_probs=37.2
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCCh----hHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIER----KTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~----~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.||++|......... ++|++++|+|.+++ .+++.+..| .. ....|+++|.||+|+..
T Consensus 91 PG~~~~~~~~~~~~~--~~D~~llVvd~~~~~~~~~t~~~l~~~----~~---~~~~~iiivvNK~Dl~~ 151 (203)
T cd01888 91 PGHEILMATMLSGAA--VMDGALLLIAANEPCPQPQTSEHLAAL----EI---MGLKHIIIVQNKIDLVK 151 (203)
T ss_pred CChHHHHHHHHHhhh--cCCEEEEEEECCCCCCCcchHHHHHHH----HH---cCCCcEEEEEEchhccC
Confidence 356666554444444 58999999999873 455544433 21 12247899999999964
No 203
>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.
Probab=97.99 E-value=2.8e-05 Score=46.42 Aligned_cols=65 Identities=11% Similarity=0.236 Sum_probs=39.8
Q ss_pred ccccchhhhhhh---hhccCCcEEEEEEECC-ChhHHHHHHHHHHHHHhhc--CCCCCeEEEEeeCCCCcCCC
Q psy5805 4 RTSCFTNLVVNF---VQTYHPDVFVIVYSVI-ERKTFKKAEDMLKTLWDSK--YIGEKAVILVANKADLERRR 70 (75)
Q Consensus 4 ~~e~f~~~~~~~---~~~~~~~~~ilv~d~~-~~~s~~~~~~~~~~~~~~~--~~~~~~~ilvgnK~Dl~~~r 70 (75)
||++.+.....+ .. ++.|+|+|.|.+ .+..+..+..++-.+.... ....+|+++++||.|+...+
T Consensus 58 GH~rlr~~~~~~~~~~~--~~k~IIfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A~ 128 (181)
T PF09439_consen 58 GHPRLRSKLLDELKYLS--NAKGIIFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTAK 128 (181)
T ss_dssp T-HCCCHHHHHHHHHHG--GEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT--
T ss_pred CcHHHHHHHHHhhhchh--hCCEEEEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccccC
Confidence 777776533333 44 599999999987 4556666655554443321 23678999999999996543
No 204
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=97.98 E-value=1.6e-05 Score=54.02 Aligned_cols=59 Identities=10% Similarity=0.157 Sum_probs=42.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.||+.|......+++ .+|++|+|+|.++.-. .....++.... ..++|++++.||+|+..
T Consensus 87 PG~~df~~~~~~~l~--~aD~aIlVvDa~~gv~-~~t~~l~~~~~----~~~iPiiv~iNK~D~~~ 145 (526)
T PRK00741 87 PGHEDFSEDTYRTLT--AVDSALMVIDAAKGVE-PQTRKLMEVCR----LRDTPIFTFINKLDRDG 145 (526)
T ss_pred CCchhhHHHHHHHHH--HCCEEEEEEecCCCCC-HHHHHHHHHHH----hcCCCEEEEEECCcccc
Confidence 578889877777777 5999999999987421 12333333332 25689999999999864
No 205
>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=97.97 E-value=2e-05 Score=49.19 Aligned_cols=43 Identities=23% Similarity=0.179 Sum_probs=33.4
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
++|++++|+|.++..+.+ ..+...+.. .+.|+++|+||+|+..
T Consensus 79 ~aDvvl~VvD~~~~~~~~--~~i~~~l~~----~~~p~ilV~NK~Dl~~ 121 (270)
T TIGR00436 79 GVDLILFVVDSDQWNGDG--EFVLTKLQN----LKRPVVLTRNKLDNKF 121 (270)
T ss_pred hCCEEEEEEECCCCCchH--HHHHHHHHh----cCCCEEEEEECeeCCC
Confidence 699999999999887775 344444443 4579999999999864
No 206
>PRK00093 GTP-binding protein Der; Reviewed
Probab=97.97 E-value=4e-05 Score=50.46 Aligned_cols=48 Identities=27% Similarity=0.273 Sum_probs=33.3
Q ss_pred hhhhhhccCCcEEEEEEECCChhHHH--HHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 12 VVNFVQTYHPDVFVIVYSVIERKTFK--KAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 12 ~~~~~~~~~~~~~ilv~d~~~~~s~~--~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
...+++ ++|++++|+|.++..+.. .+..|+.. .+.|+++|+||+|+.+
T Consensus 74 ~~~~~~--~ad~il~vvd~~~~~~~~~~~~~~~l~~-------~~~piilv~NK~D~~~ 123 (435)
T PRK00093 74 AELAIE--EADVILFVVDGRAGLTPADEEIAKILRK-------SNKPVILVVNKVDGPD 123 (435)
T ss_pred HHHHHH--hCCEEEEEEECCCCCCHHHHHHHHHHHH-------cCCcEEEEEECccCcc
Confidence 344555 699999999998754432 33444332 2579999999999753
No 207
>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=97.95 E-value=4e-05 Score=43.54 Aligned_cols=45 Identities=27% Similarity=0.364 Sum_probs=33.7
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
++|++++|+|.+++.+..... +...+.. .+.|+++++||+|+...
T Consensus 84 ~~d~vi~v~d~~~~~~~~~~~-~~~~~~~----~~~~~iiv~nK~Dl~~~ 128 (174)
T cd01895 84 RADVVLLVIDATEGITEQDLR-IAGLILE----EGKALVIVVNKWDLVEK 128 (174)
T ss_pred hcCeEEEEEeCCCCcchhHHH-HHHHHHh----cCCCEEEEEeccccCCc
Confidence 599999999999988766543 3333332 35799999999999654
No 208
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=97.94 E-value=1.8e-05 Score=52.22 Aligned_cols=61 Identities=15% Similarity=0.150 Sum_probs=37.6
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHH-HHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKA-EDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.||+.|........+ ++|++++|+|.+++.++... ..+...+.. .+..|+++++||+|+.+
T Consensus 92 pG~~~~~~~~~~~~~--~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~---~~~~~iivviNK~Dl~~ 153 (425)
T PRK12317 92 PGHRDFVKNMITGAS--QADAAVLVVAADDAGGVMPQTREHVFLART---LGINQLIVAINKMDAVN 153 (425)
T ss_pred CCcccchhhHhhchh--cCCEEEEEEEcccCCCCCcchHHHHHHHHH---cCCCeEEEEEEcccccc
Confidence 578888654434444 59999999999874233222 222222222 23346899999999964
No 209
>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=97.94 E-value=5.3e-05 Score=42.02 Aligned_cols=50 Identities=26% Similarity=0.321 Sum_probs=37.5
Q ss_pred hhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCC
Q psy5805 14 NFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRR 70 (75)
Q Consensus 14 ~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r 70 (75)
.+.+ +++++++++|.++..+..... |..... ..+.|+++|.||+|+....
T Consensus 71 ~~~~--~~d~il~v~~~~~~~~~~~~~-~~~~~~----~~~~~~ivv~nK~D~~~~~ 120 (163)
T cd00880 71 RVLE--RADLILFVVDADLRADEEEEK-LLELLR----ERGKPVLLVLNKIDLLPEE 120 (163)
T ss_pred HHHH--hCCEEEEEEeCCCCCCHHHHH-HHHHHH----hcCCeEEEEEEccccCChh
Confidence 3455 599999999999998877665 433333 2578999999999986543
No 210
>PRK12298 obgE GTPase CgtA; Reviewed
Probab=97.87 E-value=3.6e-05 Score=50.58 Aligned_cols=50 Identities=22% Similarity=0.222 Sum_probs=39.6
Q ss_pred CCcEEEEEEECC---ChhHHHHHHHHHHHHHhhc-CCCCCeEEEEeeCCCCcCC
Q psy5805 20 HPDVFVIVYSVI---ERKTFKKAEDMLKTLWDSK-YIGEKAVILVANKADLERR 69 (75)
Q Consensus 20 ~~~~~ilv~d~~---~~~s~~~~~~~~~~~~~~~-~~~~~~~ilvgnK~Dl~~~ 69 (75)
.++++++|+|++ +.+.++.+..|..++.... ...+.|+++|.||+|+...
T Consensus 237 radvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~ 290 (390)
T PRK12298 237 RCRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDE 290 (390)
T ss_pred hCCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCCh
Confidence 599999999998 5678888888888887642 1236799999999999643
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=97.86 E-value=2.8e-05 Score=53.44 Aligned_cols=62 Identities=16% Similarity=0.180 Sum_probs=38.5
Q ss_pred cccccchhh------hhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCc
Q psy5805 3 SRTSCFTNL------VVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQ 71 (75)
Q Consensus 3 s~~e~f~~~------~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~ 71 (75)
.|+++|.+. ...|+...++|+++.|+|.++.+. ...+..++.+ .++|+++|+||+|+.+++.
T Consensus 49 PG~~~~~~~s~~e~v~~~~l~~~~aDvvI~VvDat~ler---~l~l~~ql~~----~~~PiIIVlNK~Dl~~~~~ 116 (591)
T TIGR00437 49 PGIYSLTTFSLEEEVARDYLLNEKPDLVVNVVDASNLER---NLYLTLQLLE----LGIPMILALNLVDEAEKKG 116 (591)
T ss_pred CCccccCccchHHHHHHHHHhhcCCCEEEEEecCCcchh---hHHHHHHHHh----cCCCEEEEEehhHHHHhCC
Confidence 356666543 333433115899999999987432 2233333332 4689999999999965444
No 212
>KOG0072|consensus
Probab=97.85 E-value=5.5e-05 Score=44.04 Aligned_cols=60 Identities=17% Similarity=0.226 Sum_probs=39.6
Q ss_pred hhhhhhhhcc-CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 10 NLVVNFVQTY-HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 10 ~~~~~~~~~~-~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
+++|.+..+| +.+++|+|.|.+|++-..-...-+..+.+........+++++||.|....
T Consensus 74 SirPyWRcYy~dt~avIyVVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~ 134 (182)
T KOG0072|consen 74 SIRPYWRCYYADTDAVIYVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGA 134 (182)
T ss_pred cccHHHHHHhcccceEEEEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhh
Confidence 3444333333 89999999999999876655433323322223456788999999998653
No 213
>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=97.84 E-value=6.9e-05 Score=50.97 Aligned_cols=59 Identities=10% Similarity=0.151 Sum_probs=41.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.||+.|......+++ .+|++|+|+|.++. -......++.... ..++|+++++||+|+..
T Consensus 88 PG~~df~~~~~~~l~--~aD~aIlVvDa~~g-v~~~t~~l~~~~~----~~~~PiivviNKiD~~~ 146 (527)
T TIGR00503 88 PGHEDFSEDTYRTLT--AVDNCLMVIDAAKG-VETRTRKLMEVTR----LRDTPIFTFMNKLDRDI 146 (527)
T ss_pred CChhhHHHHHHHHHH--hCCEEEEEEECCCC-CCHHHHHHHHHHH----hcCCCEEEEEECccccC
Confidence 578888776666677 59999999999863 1122334443332 25689999999999853
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=97.76 E-value=0.00016 Score=42.63 Aligned_cols=58 Identities=22% Similarity=0.267 Sum_probs=39.8
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
.||+.|......-.+ .+|++|+|.|..+.-.-..... +..+.. .++|+++|.||+|+.
T Consensus 78 PG~~~f~~~~~~~~~--~~D~ailvVda~~g~~~~~~~~-l~~~~~----~~~p~ivvlNK~D~~ 135 (188)
T PF00009_consen 78 PGHEDFIKEMIRGLR--QADIAILVVDANDGIQPQTEEH-LKILRE----LGIPIIVVLNKMDLI 135 (188)
T ss_dssp SSSHHHHHHHHHHHT--TSSEEEEEEETTTBSTHHHHHH-HHHHHH----TT-SEEEEEETCTSS
T ss_pred ccccceeecccceec--ccccceeeeecccccccccccc-cccccc----cccceEEeeeeccch
Confidence 478888777777676 4999999999986533322222 233332 457899999999986
No 215
>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB. Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.
Probab=97.73 E-value=0.00011 Score=42.90 Aligned_cols=58 Identities=17% Similarity=0.200 Sum_probs=38.4
Q ss_pred ccchhhhhhhhhcc-CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 6 SCFTNLVVNFVQTY-HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 6 e~f~~~~~~~~~~~-~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+.|..+...|++.. +++++++|+|.+++-+...... +..+.. .+.|+++++||+|+..
T Consensus 85 ~~~~~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~~~-~~~~~~----~~~pviiv~nK~D~~~ 143 (179)
T TIGR03598 85 EKWQKLIEEYLEKRENLKGVVLLMDIRHPLKELDLEM-LEWLRE----RGIPVLIVLTKADKLK 143 (179)
T ss_pred HHHHHHHHHHHHhChhhcEEEEEecCCCCCCHHHHHH-HHHHHH----cCCCEEEEEECcccCC
Confidence 34555566666532 3579999999988655555432 223332 4589999999999854
No 216
>cd01859 MJ1464 MJ1464. This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.
Probab=97.73 E-value=6e-05 Score=43.19 Aligned_cols=52 Identities=23% Similarity=0.304 Sum_probs=33.7
Q ss_pred hhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 9 TNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 9 ~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
+.+.....+ ++|.+++|+|.+++.+... ..+...+. ..+.|+++|.||+|+.
T Consensus 3 ~~~~~~i~~--~aD~vl~V~D~~~~~~~~~-~~l~~~~~----~~~~p~iiv~NK~Dl~ 54 (156)
T cd01859 3 KRLVRRIIK--ESDVVLEVLDARDPELTRS-RKLERYVL----ELGKKLLIVLNKADLV 54 (156)
T ss_pred HHHHHHHHh--hCCEEEEEeeCCCCcccCC-HHHHHHHH----hCCCcEEEEEEhHHhC
Confidence 344555555 5999999999987653322 11211222 2357999999999985
No 217
>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.
Probab=97.72 E-value=0.00013 Score=47.98 Aligned_cols=55 Identities=27% Similarity=0.238 Sum_probs=37.4
Q ss_pred ccchhhhhhhhhccCCcEEEEEEECCChhHHHH--HHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 6 SCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKK--AEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 6 e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~--~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
+.+......+++ ++|++++|+|.++.-+... +..|+ +. .+.|+++|+||+|+...
T Consensus 66 ~~~~~~~~~~~~--~ad~vl~vvD~~~~~~~~d~~i~~~l---~~----~~~piilVvNK~D~~~~ 122 (429)
T TIGR03594 66 KQIREQAEIAIE--EADVILFVVDGREGLTPEDEEIAKWL---RK----SGKPVILVANKIDGKKE 122 (429)
T ss_pred HHHHHHHHHHHh--hCCEEEEEEeCCCCCCHHHHHHHHHH---HH----hCCCEEEEEECccCCcc
Confidence 445555566666 6999999999987544332 33343 22 35799999999998653
No 218
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=97.72 E-value=0.0001 Score=51.61 Aligned_cols=53 Identities=23% Similarity=0.234 Sum_probs=36.0
Q ss_pred chhhhhhhhhccCCcEEEEEEECCChhHHHHH-HHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 8 FTNLVVNFVQTYHPDVFVIVYSVIERKTFKKA-EDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 8 f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
|......+++ ++|++++|+|.++. +... ..|...++. .+.|+++|+||+|+..
T Consensus 344 ~~~~~~~~~~--~aD~iL~VvDa~~~--~~~~d~~i~~~Lr~----~~~pvIlV~NK~D~~~ 397 (712)
T PRK09518 344 IASQAQIAVS--LADAVVFVVDGQVG--LTSTDERIVRMLRR----AGKPVVLAVNKIDDQA 397 (712)
T ss_pred HHHHHHHHHH--hCCEEEEEEECCCC--CCHHHHHHHHHHHh----cCCCEEEEEECccccc
Confidence 3444455566 59999999999763 2222 235444543 5689999999999854
No 219
>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1). The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.
Probab=97.71 E-value=0.00031 Score=34.65 Aligned_cols=43 Identities=23% Similarity=0.316 Sum_probs=26.9
Q ss_pred CcEEEEEEECCChhHH--HHHHHHHHHHHhhcCCCCCeEEEEeeCCC
Q psy5805 21 PDVFVIVYSVIERKTF--KKAEDMLKTLWDSKYIGEKAVILVANKAD 65 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~--~~~~~~~~~~~~~~~~~~~~~ilvgnK~D 65 (75)
++++++++|++....+ +.=...+++++... ++.|+++|.||+|
T Consensus 14 ~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F--~~~P~i~V~nK~D 58 (58)
T PF06858_consen 14 ADAILFIIDPSEQCGYSIEEQLSLFKEIKPLF--PNKPVIVVLNKID 58 (58)
T ss_dssp -SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHT--TTS-EEEEE--TT
T ss_pred cceEEEEEcCCCCCCCCHHHHHHHHHHHHHHc--CCCCEEEEEeccC
Confidence 7899999999988655 33234456666643 5789999999998
No 220
>cd04166 CysN_ATPS CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.
Probab=97.70 E-value=0.00018 Score=43.24 Aligned_cols=60 Identities=17% Similarity=0.182 Sum_probs=36.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|+++|........+ ++|++++|+|.++... .........+.. ....++++|.||+|+..
T Consensus 85 pG~~~~~~~~~~~~~--~ad~~llVvD~~~~~~-~~~~~~~~~~~~---~~~~~iIvviNK~D~~~ 144 (208)
T cd04166 85 PGHEQYTRNMVTGAS--TADLAILLVDARKGVL-EQTRRHSYILSL---LGIRHVVVAVNKMDLVD 144 (208)
T ss_pred CcHHHHHHHHHHhhh--hCCEEEEEEECCCCcc-HhHHHHHHHHHH---cCCCcEEEEEEchhccc
Confidence 467777654455555 5999999999987532 111222222222 12235788999999864
No 221
>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=97.69 E-value=0.00012 Score=48.15 Aligned_cols=57 Identities=23% Similarity=0.191 Sum_probs=38.4
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCCh----hHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIER----KTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~----~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.||++|....-.... ++|++++|+|.++. ++.+.+. .+.. ..-.|++++.||+|+.+
T Consensus 88 PGh~~f~~~~~~g~~--~aD~aIlVVDa~~g~~~~qt~e~l~----~l~~---~gi~~iIVvvNK~Dl~~ 148 (406)
T TIGR03680 88 PGHETLMATMLSGAA--LMDGALLVIAANEPCPQPQTKEHLM----ALEI---IGIKNIVIVQNKIDLVS 148 (406)
T ss_pred CCHHHHHHHHHHHHH--HCCEEEEEEECCCCccccchHHHHH----HHHH---cCCCeEEEEEEccccCC
Confidence 478888666555555 48999999999953 3444433 2222 12346899999999964
No 222
>PRK00093 GTP-binding protein Der; Reviewed
Probab=97.67 E-value=0.00013 Score=48.00 Aligned_cols=57 Identities=19% Similarity=0.247 Sum_probs=38.3
Q ss_pred cccchhhhh-hhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 5 TSCFTNLVV-NFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 5 ~e~f~~~~~-~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|.|...+. .+++ .+|++++|+|.++..+.....- ...+.+ ...|+++|+||+|+.+
T Consensus 241 ~e~~~~~~~~~~~~--~ad~~ilViD~~~~~~~~~~~i-~~~~~~----~~~~~ivv~NK~Dl~~ 298 (435)
T PRK00093 241 VEKYSVIRTLKAIE--RADVVLLVIDATEGITEQDLRI-AGLALE----AGRALVIVVNKWDLVD 298 (435)
T ss_pred HHHHHHHHHHHHHH--HCCEEEEEEeCCCCCCHHHHHH-HHHHHH----cCCcEEEEEECccCCC
Confidence 344443333 2455 4999999999998877766532 233332 3579999999999863
No 223
>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=97.62 E-value=0.00027 Score=49.33 Aligned_cols=59 Identities=19% Similarity=-0.019 Sum_probs=42.8
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|+..|......+++ .+|++++|+|.++........-|. .+.. .++|+++++||+|+..
T Consensus 83 PG~~~~~~~~~~~l~--~~D~~ilVvda~~g~~~~~~~~~~-~~~~----~~~p~ivviNK~D~~~ 141 (689)
T TIGR00484 83 PGHVDFTVEVERSLR--VLDGAVAVLDAVGGVQPQSETVWR-QANR----YEVPRIAFVNKMDKTG 141 (689)
T ss_pred CCCcchhHHHHHHHH--HhCEEEEEEeCCCCCChhHHHHHH-HHHH----cCCCEEEEEECCCCCC
Confidence 477788777777777 599999999998765544433332 3332 3579999999999864
No 224
>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=97.61 E-value=0.00033 Score=41.39 Aligned_cols=43 Identities=26% Similarity=0.251 Sum_probs=29.2
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
.+|++++|+|.++..+......|. +... .+.|+++|+||+|+.
T Consensus 91 ~~d~vi~VvD~~~~~~~~~~~~~~--~~~~---~~~~~iiv~NK~Dl~ 133 (192)
T cd01889 91 IIDLMLLVVDATKGIQTQTAECLV--IGEI---LCKKLIVVLNKIDLI 133 (192)
T ss_pred hCCEEEEEEECCCCccHHHHHHHH--HHHH---cCCCEEEEEECcccC
Confidence 578999999998754443333332 1111 246999999999985
No 225
>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily. EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in
Probab=97.59 E-value=0.00024 Score=43.05 Aligned_cols=59 Identities=24% Similarity=0.267 Sum_probs=36.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhH---H----HHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKT---F----KKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s---~----~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
.|+..|........+ .++++++|.|.++... | +....|. .... ....|++++.||+|+.
T Consensus 85 pG~~~~~~~~~~~~~--~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~-~~~~---~~~~~iiivvNK~Dl~ 150 (219)
T cd01883 85 PGHRDFVPNMITGAS--QADVAVLVVDARKGEFEAGFEKGGQTREHAL-LART---LGVKQLIVAVNKMDDV 150 (219)
T ss_pred CChHHHHHHHHHHhh--hCCEEEEEEECCCCccccccccccchHHHHH-HHHH---cCCCeEEEEEEccccc
Confidence 466666544444444 5999999999998421 1 1122232 2221 2335899999999996
No 226
>COG2262 HflX GTPases [General function prediction only]
Probab=97.55 E-value=0.00048 Score=45.60 Aligned_cols=56 Identities=25% Similarity=0.315 Sum_probs=42.7
Q ss_pred chhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 8 FTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 8 f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
|++-.+.-. .+|.++.|.|.+++...+++..-..-+.+.. ..++|+++|-||+|+.
T Consensus 262 FksTLEE~~---~aDlllhVVDaSdp~~~~~~~~v~~vL~el~-~~~~p~i~v~NKiD~~ 317 (411)
T COG2262 262 FKSTLEEVK---EADLLLHVVDASDPEILEKLEAVEDVLAEIG-ADEIPIILVLNKIDLL 317 (411)
T ss_pred HHHHHHHhh---cCCEEEEEeecCChhHHHHHHHHHHHHHHcC-CCCCCEEEEEeccccc
Confidence 444444433 4999999999999988888877666666643 4679999999999964
No 227
>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=97.53 E-value=0.00046 Score=42.96 Aligned_cols=58 Identities=17% Similarity=0.066 Sum_probs=41.4
Q ss_pred ccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 4 RTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 4 ~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
|+..|......+++ .+|++++|+|.++.........|. .+.. .++|.+++.||+|+..
T Consensus 73 G~~~f~~~~~~~l~--~aD~~i~Vvd~~~g~~~~~~~~~~-~~~~----~~~p~iivvNK~D~~~ 130 (268)
T cd04170 73 GYADFVGETRAALR--AADAALVVVSAQSGVEVGTEKLWE-FADE----AGIPRIIFINKMDRER 130 (268)
T ss_pred CHHHHHHHHHHHHH--HCCEEEEEEeCCCCCCHHHHHHHH-HHHH----cCCCEEEEEECCccCC
Confidence 55667666667777 499999999999876554444442 2322 4579999999999864
No 228
>PLN00043 elongation factor 1-alpha; Provisional
Probab=97.52 E-value=0.00028 Score=47.17 Aligned_cols=58 Identities=14% Similarity=0.153 Sum_probs=40.2
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHH-------HHHHHHHHHHhhcCCCCC-eEEEEeeCCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFK-------KAEDMLKTLWDSKYIGEK-AVILVANKADLE 67 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~-------~~~~~~~~~~~~~~~~~~-~~ilvgnK~Dl~ 67 (75)
-||+.|........+ .+|++|+|+|.++ .+|+ +.+..+..+.. ..+ +++++.||+|+.
T Consensus 93 PGh~df~~~~~~g~~--~aD~aIlVVda~~-G~~e~g~~~~~qT~eh~~~~~~----~gi~~iIV~vNKmD~~ 158 (447)
T PLN00043 93 PGHRDFIKNMITGTS--QADCAVLIIDSTT-GGFEAGISKDGQTREHALLAFT----LGVKQMICCCNKMDAT 158 (447)
T ss_pred CCHHHHHHHHHhhhh--hccEEEEEEEccc-CceecccCCCchHHHHHHHHHH----cCCCcEEEEEEcccCC
Confidence 589999877777777 4999999999986 4443 33222222222 345 478899999975
No 229
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=97.49 E-value=0.00047 Score=45.61 Aligned_cols=56 Identities=21% Similarity=0.203 Sum_probs=34.4
Q ss_pred cccccchhhhhhhhhcc-CCcEEEEEEECCC----hhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTY-HPDVFVIVYSVIE----RKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~-~~~~~ilv~d~~~----~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.||+.|.. .++... ++|++++|+|.++ ..+.+.+..+ .. ....|+++|+||+|+.+
T Consensus 93 PG~~~f~~---~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~l----~~---~~i~~iiVVlNK~Dl~~ 153 (411)
T PRK04000 93 PGHETLMA---TMLSGAALMDGAILVIAANEPCPQPQTKEHLMAL----DI---IGIKNIVIVQNKIDLVS 153 (411)
T ss_pred CCHHHHHH---HHHHHHhhCCEEEEEEECCCCCCChhHHHHHHHH----HH---cCCCcEEEEEEeecccc
Confidence 35666543 233311 4799999999994 4455544332 21 12236899999999864
No 230
>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=97.47 E-value=0.00026 Score=39.74 Aligned_cols=43 Identities=30% Similarity=0.440 Sum_probs=30.1
Q ss_pred CCcEEEEEEECCChhHHHHHHHH-HHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDM-LKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~-~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+++++++|+|.+++ +.....| ...+.. .+.|+++|+||+|+..
T Consensus 82 ~~d~i~~v~d~~~~--~~~~~~~~~~~~~~----~~~~~iiv~nK~Dl~~ 125 (168)
T cd04163 82 DVDLVLFVVDASEP--IGEGDEFILELLKK----SKTPVILVLNKIDLVK 125 (168)
T ss_pred hCCEEEEEEECCCc--cCchHHHHHHHHHH----hCCCEEEEEEchhccc
Confidence 59999999999987 2222222 233332 2579999999999873
No 231
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=97.45 E-value=0.00061 Score=47.25 Aligned_cols=56 Identities=16% Similarity=0.054 Sum_probs=39.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHhhcCCCCCe-EEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIE---RKTFKKAEDMLKTLWDSKYIGEKA-VILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~-~ilvgnK~Dl~~ 68 (75)
.|||+|......... ++|++++|+|.++ +++.+.+. .+.. .++| +++|.||+|+.+
T Consensus 59 PGhe~fi~~m~~g~~--~~D~~lLVVda~eg~~~qT~ehl~----il~~----lgi~~iIVVlNKiDlv~ 118 (614)
T PRK10512 59 PGHEKFLSNMLAGVG--GIDHALLVVACDDGVMAQTREHLA----ILQL----TGNPMLTVALTKADRVD 118 (614)
T ss_pred CCHHHHHHHHHHHhh--cCCEEEEEEECCCCCcHHHHHHHH----HHHH----cCCCeEEEEEECCccCC
Confidence 588999655555566 5999999999987 55655542 2222 2244 679999999964
No 232
>cd01876 YihA_EngB The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.
Probab=97.41 E-value=0.00043 Score=38.99 Aligned_cols=56 Identities=14% Similarity=0.113 Sum_probs=36.3
Q ss_pred cccchhhhhhhhhcc-CCcEEEEEEECCChh--HHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 5 TSCFTNLVVNFVQTY-HPDVFVIVYSVIERK--TFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 5 ~e~f~~~~~~~~~~~-~~~~~ilv~d~~~~~--s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
.+.|..+...|+... +.+++++++|.+... ....+..|+.. ...|+++|+||+|+.
T Consensus 65 ~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~-------~~~~vi~v~nK~D~~ 123 (170)
T cd01876 65 KEKWGKLIEEYLENRENLKGVVLLIDSRHGPTEIDLEMLDWLEE-------LGIPFLVVLTKADKL 123 (170)
T ss_pred HHHHHHHHHHHHHhChhhhEEEEEEEcCcCCCHhHHHHHHHHHH-------cCCCEEEEEEchhcC
Confidence 344566666666542 457888999988663 22334455433 237999999999984
No 233
>PRK12740 elongation factor G; Reviewed
Probab=97.41 E-value=0.00077 Score=46.88 Aligned_cols=59 Identities=17% Similarity=0.010 Sum_probs=43.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|+..|......+++ .+|++++|+|.+...+......|. .+.. .++|+++|.||+|+..
T Consensus 68 PG~~~~~~~~~~~l~--~aD~vllvvd~~~~~~~~~~~~~~-~~~~----~~~p~iiv~NK~D~~~ 126 (668)
T PRK12740 68 PGHVDFTGEVERALR--VLDGAVVVVCAVGGVEPQTETVWR-QAEK----YGVPRIIFVNKMDRAG 126 (668)
T ss_pred CCcHHHHHHHHHHHH--HhCeEEEEEeCCCCcCHHHHHHHH-HHHH----cCCCEEEEEECCCCCC
Confidence 467777766677777 499999999999876665554443 3332 4579999999999864
No 234
>PRK00089 era GTPase Era; Reviewed
Probab=97.33 E-value=0.00059 Score=42.85 Aligned_cols=42 Identities=29% Similarity=0.379 Sum_probs=29.1
Q ss_pred CCcEEEEEEECCChhHHHHHHHHH-HHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDML-KTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~-~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
++|++++|+|.++. +.....++ ..+. ..+.|+++|+||+|+.
T Consensus 84 ~~D~il~vvd~~~~--~~~~~~~i~~~l~----~~~~pvilVlNKiDl~ 126 (292)
T PRK00089 84 DVDLVLFVVDADEK--IGPGDEFILEKLK----KVKTPVILVLNKIDLV 126 (292)
T ss_pred cCCEEEEEEeCCCC--CChhHHHHHHHHh----hcCCCEEEEEECCcCC
Confidence 69999999999982 22222222 2222 2468999999999996
No 235
>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=97.27 E-value=0.0019 Score=40.66 Aligned_cols=59 Identities=19% Similarity=0.064 Sum_probs=39.9
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|+..|......+++ .+|++++|.|.++.-.-. ....+..+.. .++|++++.||+|+.+
T Consensus 72 PG~~df~~~~~~~l~--~aD~ailVVDa~~g~~~~-t~~~~~~~~~----~~~p~ivviNK~D~~~ 130 (270)
T cd01886 72 PGHVDFTIEVERSLR--VLDGAVAVFDAVAGVEPQ-TETVWRQADR----YNVPRIAFVNKMDRTG 130 (270)
T ss_pred CCcHHHHHHHHHHHH--HcCEEEEEEECCCCCCHH-HHHHHHHHHH----cCCCEEEEEECCCCCC
Confidence 467777777777777 499999999987642211 1222233332 4579999999999864
No 236
>KOG1707|consensus
Probab=97.19 E-value=0.0011 Score=45.73 Aligned_cols=49 Identities=27% Similarity=0.433 Sum_probs=40.2
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCc
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQ 71 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~ 71 (75)
.+|.+.++||.+++.||..+......... ....|+++|+.|+||.+..+
T Consensus 495 ~cDv~~~~YDsS~p~sf~~~a~v~~~~~~---~~~~Pc~~va~K~dlDe~~Q 543 (625)
T KOG1707|consen 495 ACDVACLVYDSSNPRSFEYLAEVYNKYFD---LYKIPCLMVATKADLDEVPQ 543 (625)
T ss_pred eeeeEEEecccCCchHHHHHHHHHHHhhh---ccCCceEEEeeccccchhhh
Confidence 38999999999999999998776555443 36799999999999976553
No 237
>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=97.16 E-value=0.0013 Score=46.35 Aligned_cols=58 Identities=16% Similarity=0.081 Sum_probs=39.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
.|++.|.......++ .+|++++|+|..+--.-+....|. .+.. .+.|++++.||+|..
T Consensus 94 PG~~~f~~~~~~al~--~aD~~llVvda~~g~~~~t~~~~~-~~~~----~~~p~ivviNKiD~~ 151 (720)
T TIGR00490 94 PGHVDFGGDVTRAMR--AVDGAIVVVCAVEGVMPQTETVLR-QALK----ENVKPVLFINKVDRL 151 (720)
T ss_pred CCccccHHHHHHHHH--hcCEEEEEEecCCCCCccHHHHHH-HHHH----cCCCEEEEEEChhcc
Confidence 578888877777777 499999999987632222222232 1221 346778999999985
No 238
>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=97.14 E-value=0.0024 Score=41.97 Aligned_cols=56 Identities=13% Similarity=0.093 Sum_probs=34.4
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHhhcCCCCCeE-EEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIE---RKTFKKAEDMLKTLWDSKYIGEKAV-ILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~-ilvgnK~Dl~~ 68 (75)
.||++|....-.-.. ++|++++|+|.++ +++.+.+. .+.. .++|. +++.||+|+.+
T Consensus 83 pGh~~f~~~~~~~~~--~~D~~ilVvda~~g~~~qt~e~l~----~~~~----~gi~~iIvvvNK~Dl~~ 142 (394)
T TIGR00485 83 PGHADYVKNMITGAA--QMDGAILVVSATDGPMPQTREHIL----LARQ----VGVPYIVVFLNKCDMVD 142 (394)
T ss_pred CchHHHHHHHHHHHh--hCCEEEEEEECCCCCcHHHHHHHH----HHHH----cCCCEEEEEEEecccCC
Confidence 478887533333233 5899999999987 33433222 2322 24564 57899999864
No 239
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=97.13 E-value=0.0019 Score=37.87 Aligned_cols=59 Identities=17% Similarity=0.175 Sum_probs=36.4
Q ss_pred cccchhhhhhhhhcc-CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 5 TSCFTNLVVNFVQTY-HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 5 ~e~f~~~~~~~~~~~-~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+++|..+...|++.. +.+++++++|.+++.+.... .....+.. .+.|+++++||+|+..
T Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~-~i~~~l~~----~~~~~iiv~nK~Dl~~ 149 (196)
T PRK00454 90 KEKWQKLIEEYLRTRENLKGVVLLIDSRHPLKELDL-QMIEWLKE----YGIPVLIVLTKADKLK 149 (196)
T ss_pred HHHHHHHHHHHHHhCccceEEEEEEecCCCCCHHHH-HHHHHHHH----cCCcEEEEEECcccCC
Confidence 455666667777632 34678888888776544321 11122221 3578999999999854
No 240
>cd01858 NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.
Probab=97.09 E-value=0.0011 Score=38.07 Aligned_cols=44 Identities=30% Similarity=0.308 Sum_probs=30.3
Q ss_pred CCcEEEEEEECCChhH--HHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKT--FKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s--~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
++|.+++|.|..++.+ -..+..++ .. ...+.|+++|.||+|+..
T Consensus 8 ~aD~il~VvD~~~p~~~~~~~i~~~l---~~--~~~~~p~ilVlNKiDl~~ 53 (157)
T cd01858 8 SSDVVIQVLDARDPMGTRCKHVEEYL---KK--EKPHKHLIFVLNKCDLVP 53 (157)
T ss_pred hCCEEEEEEECCCCccccCHHHHHHH---Hh--ccCCCCEEEEEEchhcCC
Confidence 5999999999988742 22333332 22 124579999999999954
No 241
>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=97.09 E-value=0.0013 Score=44.65 Aligned_cols=56 Identities=14% Similarity=0.201 Sum_probs=44.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIE---RKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
-|||.|.+|+..=... +|.+|||.++++ +++.+.+.+ ++ ..++|+++..||+|..+
T Consensus 63 PGHeAFt~mRaRGa~v--tDIaILVVa~dDGv~pQTiEAI~h----ak----~a~vP~iVAiNKiDk~~ 121 (509)
T COG0532 63 PGHEAFTAMRARGASV--TDIAILVVAADDGVMPQTIEAINH----AK----AAGVPIVVAINKIDKPE 121 (509)
T ss_pred CcHHHHHHHHhcCCcc--ccEEEEEEEccCCcchhHHHHHHH----HH----HCCCCEEEEEecccCCC
Confidence 4899999999987776 999999999986 356555432 22 36799999999999863
No 242
>cd01849 YlqF_related_GTPase YlqF-related GTPases. These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.
Probab=97.08 E-value=0.00087 Score=38.45 Aligned_cols=43 Identities=28% Similarity=0.189 Sum_probs=29.1
Q ss_pred cEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 22 DVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 22 ~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
|.+++|.|..++.+... .|+.. ... ...+.|+++|.||+|+..
T Consensus 1 Dvvl~VvD~~~p~~~~~--~~i~~-~~~-~~~~~p~IiVlNK~Dl~~ 43 (155)
T cd01849 1 DVILEVLDARDPLGTRS--PDIER-VLI-KEKGKKLILVLNKADLVP 43 (155)
T ss_pred CEEEEEEeccCCccccC--HHHHH-HHH-hcCCCCEEEEEechhcCC
Confidence 57899999988866542 23331 111 125689999999999953
No 243
>KOG1489|consensus
Probab=97.07 E-value=0.0021 Score=41.75 Aligned_cols=47 Identities=17% Similarity=0.287 Sum_probs=37.7
Q ss_pred CcEEEEEEECCCh---hHHHHHHHHHHHHHhhc-CCCCCeEEEEeeCCCCc
Q psy5805 21 PDVFVIVYSVIER---KTFKKAEDMLKTLWDSK-YIGEKAVILVANKADLE 67 (75)
Q Consensus 21 ~~~~ilv~d~~~~---~s~~~~~~~~~~~~~~~-~~~~~~~ilvgnK~Dl~ 67 (75)
+..+++|.|++.. .-+++++....++..+. ...+-|.++|+||+|+.
T Consensus 275 ~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~ 325 (366)
T KOG1489|consen 275 CKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLP 325 (366)
T ss_pred hceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCch
Confidence 8899999999999 77787777666665542 34577999999999994
No 244
>cd04165 GTPBP1_like GTPBP1-like. Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and
Probab=96.93 E-value=0.0049 Score=37.73 Aligned_cols=61 Identities=16% Similarity=0.154 Sum_probs=36.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.||++|..-.-.-.....+|++++|.|.+...+ .....++..+.. .++|+++|.||+|+..
T Consensus 92 pG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~-~~d~~~l~~l~~----~~ip~ivvvNK~D~~~ 152 (224)
T cd04165 92 AGHERYLKTTLFGLTGYAPDYAMLVVAANAGII-GMTKEHLGLALA----LNIPVFVVVTKIDLAP 152 (224)
T ss_pred CCcHHHHHHHHHhhcccCCCEEEEEEECCCCCc-HHHHHHHHHHHH----cCCCEEEEEECccccC
Confidence 477777543322221003899999999875432 222333333433 3478999999999853
No 245
>PRK01889 GTPase RsgA; Reviewed
Probab=96.88 E-value=0.004 Score=40.59 Aligned_cols=46 Identities=26% Similarity=0.398 Sum_probs=34.7
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
|.|.+++|.+++..-+...+.+++..+.. .+++.++|.||+||.+.
T Consensus 112 NvD~vliV~s~~p~~~~~~ldr~L~~a~~----~~i~piIVLNK~DL~~~ 157 (356)
T PRK01889 112 NVDTVFIVCSLNHDFNLRRIERYLALAWE----SGAEPVIVLTKADLCED 157 (356)
T ss_pred eCCEEEEEEecCCCCChhHHHHHHHHHHH----cCCCEEEEEEChhcCCC
Confidence 78999999999755555566777666554 45677889999999643
No 246
>PRK13796 GTPase YqeH; Provisional
Probab=96.86 E-value=0.0017 Score=42.39 Aligned_cols=52 Identities=29% Similarity=0.360 Sum_probs=33.8
Q ss_pred cchhhhhhhhhccCCc-EEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 7 CFTNLVVNFVQTYHPD-VFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 7 ~f~~~~~~~~~~~~~~-~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|..+...... .+ .+++|.|+.+.. ..|...+.+.. .+.|+++|+||+||..
T Consensus 58 ~~~~~l~~i~~---~~~lIv~VVD~~D~~-----~s~~~~L~~~~--~~kpviLViNK~DLl~ 110 (365)
T PRK13796 58 DFLKLLNGIGD---SDALVVNVVDIFDFN-----GSWIPGLHRFV--GNNPVLLVGNKADLLP 110 (365)
T ss_pred HHHHHHHhhcc---cCcEEEEEEECccCC-----CchhHHHHHHh--CCCCEEEEEEchhhCC
Confidence 34444333333 44 788899987743 33566666532 4678999999999953
No 247
>KOG0090|consensus
Probab=96.77 E-value=0.0072 Score=37.32 Aligned_cols=64 Identities=20% Similarity=0.336 Sum_probs=38.2
Q ss_pred ccccchhhhhhhhh-ccCCcEEEEEEECC-ChhHHHHHHHHHHHH-Hhhc-CCCCCeEEEEeeCCCCc
Q psy5805 4 RTSCFTNLVVNFVQ-TYHPDVFVIVYSVI-ERKTFKKAEDMLKTL-WDSK-YIGEKAVILVANKADLE 67 (75)
Q Consensus 4 ~~e~f~~~~~~~~~-~~~~~~~ilv~d~~-~~~s~~~~~~~~~~~-~~~~-~~~~~~~ilvgnK~Dl~ 67 (75)
||++-+.-...|+. .|.+-++++|.|.. ...-...+..++-.+ .... ....+|++++.||.|+.
T Consensus 91 GH~rlR~kl~e~~~~~~~akaiVFVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~ 158 (238)
T KOG0090|consen 91 GHSRLRRKLLEYLKHNYSAKAIVFVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLF 158 (238)
T ss_pred CcHHHHHHHHHHccccccceeEEEEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhh
Confidence 67777644444443 33588888887754 333444444443333 3221 23578899999999985
No 248
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=96.77 E-value=0.0038 Score=44.48 Aligned_cols=46 Identities=13% Similarity=0.160 Sum_probs=33.4
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcc
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v 72 (75)
.+|++++|.|.++.+.- ..|..++.+ .++|++++.||+|+.+++.+
T Consensus 85 ~aD~vI~VvDat~ler~---l~l~~ql~e----~giPvIvVlNK~Dl~~~~~i 130 (772)
T PRK09554 85 DADLLINVVDASNLERN---LYLTLQLLE----LGIPCIVALNMLDIAEKQNI 130 (772)
T ss_pred CCCEEEEEecCCcchhh---HHHHHHHHH----cCCCEEEEEEchhhhhccCc
Confidence 59999999999886542 235455544 35899999999998655443
No 249
>PRK12736 elongation factor Tu; Reviewed
Probab=96.74 E-value=0.0069 Score=39.90 Aligned_cols=56 Identities=13% Similarity=0.112 Sum_probs=34.9
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCCh---hHHHHHHHHHHHHHhhcCCCCCe-EEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIER---KTFKKAEDMLKTLWDSKYIGEKA-VILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~---~s~~~~~~~~~~~~~~~~~~~~~-~ilvgnK~Dl~~ 68 (75)
-||+.|....-.-.. .+|++++|.|.+.. .+.+.+ ..+.. .++| ++++.||+|+.+
T Consensus 83 PGh~~f~~~~~~~~~--~~d~~llVvd~~~g~~~~t~~~~----~~~~~----~g~~~~IvviNK~D~~~ 142 (394)
T PRK12736 83 PGHADYVKNMITGAA--QMDGAILVVAATDGPMPQTREHI----LLARQ----VGVPYLVVFLNKVDLVD 142 (394)
T ss_pred CCHHHHHHHHHHHHh--hCCEEEEEEECCCCCchhHHHHH----HHHHH----cCCCEEEEEEEecCCcc
Confidence 367777543333334 48999999999763 333322 22332 2467 678999999863
No 250
>PRK12735 elongation factor Tu; Reviewed
Probab=96.65 E-value=0.0075 Score=39.76 Aligned_cols=59 Identities=12% Similarity=0.113 Sum_probs=34.2
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEE-EEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVI-LVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~i-lvgnK~Dl~~ 68 (75)
-||+.|......-.. ++|++++|+|.++... .+....+..+.. .++|.+ ++.||+|+.+
T Consensus 83 PGh~~f~~~~~~~~~--~aD~~llVvda~~g~~-~qt~e~l~~~~~----~gi~~iivvvNK~Dl~~ 142 (396)
T PRK12735 83 PGHADYVKNMITGAA--QMDGAILVVSAADGPM-PQTREHILLARQ----VGVPYIVVFLNKCDMVD 142 (396)
T ss_pred CCHHHHHHHHHhhhc--cCCEEEEEEECCCCCc-hhHHHHHHHHHH----cCCCeEEEEEEecCCcc
Confidence 367666433333333 5899999999986321 122222233332 346754 6799999953
No 251
>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1. RCC1 catalyzes guanine nucleotide exchange on Ran, a well characterised nuclear Ras-like small G protein that plays an essential role in the import and export of proteins and RNAs across the nuclear membrane through the nuclear pore complex. RCC1 is located inside the nucleus, bound to chromatin. The concentration of GTP within the cell is ~30 times higher than the concentration of GDP, thus resulting in the preferential production of the GTP form of Ran by RCC1 within the nucleus. Gtr1p is located within both the cytoplasm and the nucleus and has been reported to play a role in cell growth. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1 and Rag A and Gtr1p belong to the sixth subfamily of the Ras-like small GTPase superfamily []. ; GO: 0005525 GTP binding, 0005634 nucleus, 0005737 cytoplasm; PDB: 3R7W_B 2Q3F_B 3LLU_A.
Probab=96.63 E-value=0.011 Score=36.69 Aligned_cols=53 Identities=15% Similarity=0.177 Sum_probs=35.6
Q ss_pred hhhhhhhccCCcEEEEEEECCChhHHHHHHH---HHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 11 LVVNFVQTYHPDVFVIVYSVIERKTFKKAED---MLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 11 ~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~---~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
.++..++ +..++|+|+|+.+.+-.+.+.. .+..+.+ ..+++.+.+.-+|.|+.
T Consensus 69 ~~~~if~--~v~~LIyV~D~qs~~~~~~l~~~~~~i~~l~~--~sp~~~v~vfiHK~D~l 124 (232)
T PF04670_consen 69 QREEIFS--NVGVLIYVFDAQSDDYDEDLAYLSDCIEALRQ--YSPNIKVFVFIHKMDLL 124 (232)
T ss_dssp CHHHHHC--TESEEEEEEETT-STCHHHHHHHHHHHHHHHH--HSTT-EEEEEEE-CCCS
T ss_pred cHHHHHh--ccCEEEEEEEcccccHHHHHHHHHHHHHHHHH--hCCCCeEEEEEeecccC
Confidence 4566666 6999999999996654444444 4444444 35889999999999984
No 252
>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=96.55 E-value=0.015 Score=35.78 Aligned_cols=24 Identities=8% Similarity=0.176 Sum_probs=17.5
Q ss_pred hhhhccCCcEEEEEEECCChh-HHHHH
Q psy5805 14 NFVQTYHPDVFVIVYSVIERK-TFKKA 39 (75)
Q Consensus 14 ~~~~~~~~~~~ilv~d~~~~~-s~~~~ 39 (75)
.+++ +++++++|+|.++++ ..+.+
T Consensus 73 ~~~~--~ad~il~V~D~t~~~~~~~~~ 97 (233)
T cd01896 73 AVAR--TADLILMVLDATKPEGHREIL 97 (233)
T ss_pred Hhhc--cCCEEEEEecCCcchhHHHHH
Confidence 3455 699999999998876 44433
No 253
>KOG1144|consensus
Probab=96.48 E-value=0.0041 Score=44.46 Aligned_cols=54 Identities=24% Similarity=0.303 Sum_probs=42.0
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECC---ChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVI---ERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADL 66 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~---~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl 66 (75)
-|||.|..++...... ++.+|+|.||. .+++.+++. .++ ..+.|+|+.-||+|.
T Consensus 548 pghEsFtnlRsrgssl--C~~aIlvvdImhGlepqtiESi~----lLR----~rktpFivALNKiDR 604 (1064)
T KOG1144|consen 548 PGHESFTNLRSRGSSL--CDLAILVVDIMHGLEPQTIESIN----LLR----MRKTPFIVALNKIDR 604 (1064)
T ss_pred CCchhhhhhhhccccc--cceEEEEeehhccCCcchhHHHH----HHH----hcCCCeEEeehhhhh
Confidence 4899999999998884 99999999996 344554432 222 367899999999995
No 254
>cd04104 p47_IIGP_like p47 (47-kDa) family. The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei
Probab=96.47 E-value=0.0067 Score=36.15 Aligned_cols=40 Identities=25% Similarity=0.344 Sum_probs=27.2
Q ss_pred CCcEEEEEEECCChhHHHHH-HHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 20 HPDVFVIVYSVIERKTFKKA-EDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
++|.++++-+ .+|... ..|++.++.. ..|+++|+||+|+.
T Consensus 80 ~~d~~l~v~~----~~~~~~d~~~~~~l~~~----~~~~ilV~nK~D~~ 120 (197)
T cd04104 80 EYDFFIIISS----TRFSSNDVKLAKAIQCM----GKKFYFVRTKVDRD 120 (197)
T ss_pred CcCEEEEEeC----CCCCHHHHHHHHHHHHh----CCCEEEEEecccch
Confidence 5888888732 345555 4566666542 46899999999983
No 255
>PRK12739 elongation factor G; Reviewed
Probab=96.47 E-value=0.014 Score=41.04 Aligned_cols=59 Identities=17% Similarity=0.012 Sum_probs=39.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|+..|........+ .+|++++|.|.++.-.-....-| ..+.. .++|++++.||+|+..
T Consensus 81 PG~~~f~~e~~~al~--~~D~~ilVvDa~~g~~~qt~~i~-~~~~~----~~~p~iv~iNK~D~~~ 139 (691)
T PRK12739 81 PGHVDFTIEVERSLR--VLDGAVAVFDAVSGVEPQSETVW-RQADK----YGVPRIVFVNKMDRIG 139 (691)
T ss_pred CCHHHHHHHHHHHHH--HhCeEEEEEeCCCCCCHHHHHHH-HHHHH----cCCCEEEEEECCCCCC
Confidence 366667666666666 49999999998765332222222 22322 4578899999999864
No 256
>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=96.45 E-value=0.017 Score=34.69 Aligned_cols=57 Identities=14% Similarity=0.132 Sum_probs=33.5
Q ss_pred ccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCe-EEEEeeCCCCc
Q psy5805 4 RTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKA-VILVANKADLE 67 (75)
Q Consensus 4 ~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~-~ilvgnK~Dl~ 67 (75)
|+..|......-.. .+|++++|.|.+..-.- .....+..+.. .++| ++++.||.|+.
T Consensus 74 G~~~~~~~~~~~~~--~~D~~ilVvda~~g~~~-~~~~~~~~~~~----~~~~~iIvviNK~D~~ 131 (195)
T cd01884 74 GHADYIKNMITGAA--QMDGAILVVSATDGPMP-QTREHLLLARQ----VGVPYIVVFLNKADMV 131 (195)
T ss_pred CHHHHHHHHHHHhh--hCCEEEEEEECCCCCcH-HHHHHHHHHHH----cCCCcEEEEEeCCCCC
Confidence 55555433333344 59999999998764221 12222233332 3355 77899999985
No 257
>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=96.44 E-value=0.0086 Score=39.62 Aligned_cols=60 Identities=17% Similarity=0.141 Sum_probs=35.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
-||+.|......-.. .+|++++|.|.+..-.-+..+.|. .+.. .+..+++++.||+|+.+
T Consensus 88 PGh~~f~~~~~~~~~--~aD~allVVda~~G~~~qt~~~~~-~~~~---~~~~~iivviNK~D~~~ 147 (406)
T TIGR02034 88 PGHEQYTRNMATGAS--TADLAVLLVDARKGVLEQTRRHSY-IASL---LGIRHVVLAVNKMDLVD 147 (406)
T ss_pred CCHHHHHHHHHHHHh--hCCEEEEEEECCCCCccccHHHHH-HHHH---cCCCcEEEEEEeccccc
Confidence 478888543334344 499999999986542211112222 2222 12236889999999853
No 258
>PRK13768 GTPase; Provisional
Probab=96.43 E-value=0.0055 Score=38.14 Aligned_cols=59 Identities=22% Similarity=0.094 Sum_probs=35.0
Q ss_pred hhhhhhhhhcc---CCcEEEEEEECCChhHHHHH--HHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 9 TNLVVNFVQTY---HPDVFVIVYSVIERKTFKKA--EDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 9 ~~~~~~~~~~~---~~~~~ilv~d~~~~~s~~~~--~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
+...+.+.+.+ ++++++++.|.....+-... ..|+....... .+.|+++|.||+|+...
T Consensus 114 ~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~--~~~~~i~v~nK~D~~~~ 177 (253)
T PRK13768 114 RESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLR--LGLPQIPVLNKADLLSE 177 (253)
T ss_pred hHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHHH--cCCCEEEEEEhHhhcCc
Confidence 44444444432 27899999999654333222 23333333222 46899999999998643
No 259
>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional
Probab=96.28 E-value=0.013 Score=39.58 Aligned_cols=60 Identities=13% Similarity=0.112 Sum_probs=34.4
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.||+.|......-.. .+|++++|.|.+..-.=.....|. .+.. .+..+++++.||+|+.+
T Consensus 115 PGh~~f~~~~~~~l~--~aD~allVVDa~~G~~~qt~~~~~-l~~~---lg~~~iIvvvNKiD~~~ 174 (474)
T PRK05124 115 PGHEQYTRNMATGAS--TCDLAILLIDARKGVLDQTRRHSF-IATL---LGIKHLVVAVNKMDLVD 174 (474)
T ss_pred CCcHHHHHHHHHHHh--hCCEEEEEEECCCCccccchHHHH-HHHH---hCCCceEEEEEeecccc
Confidence 468888533333334 599999999987532111111221 1221 12237889999999863
No 260
>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []. G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....
Probab=96.27 E-value=0.015 Score=38.13 Aligned_cols=63 Identities=14% Similarity=0.258 Sum_probs=39.8
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChh----------HHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERK----------TFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~----------s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
|||-.-+.-+..++. +.+++|+|.++++-+ .+...-..++.+.+.....+.|++|+-||.|+-
T Consensus 244 GGqr~eRkKW~~~F~--~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~~~iil~lnK~D~f 316 (389)
T PF00503_consen 244 GGQRSERKKWIHCFE--DVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKNTPIILFLNKIDLF 316 (389)
T ss_dssp TSSGGGGGGGGGGGT--TESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTTSEEEEEEE-HHHH
T ss_pred CCCchhhhhHHHHhc--cccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccccCceEEeeecHHHH
Confidence 566444444555555 799999999986432 243333344455443334689999999999983
No 261
>PLN00116 translation elongation factor EF-2 subunit; Provisional
Probab=96.16 E-value=0.016 Score=41.67 Aligned_cols=58 Identities=17% Similarity=0.092 Sum_probs=39.7
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
-||..|..-...-.+ .+|++|+|.|...--......-|. .+. ..++|++++.||.|..
T Consensus 106 PGh~dF~~e~~~al~--~~D~ailVvda~~Gv~~~t~~~~~-~~~----~~~~p~i~~iNK~D~~ 163 (843)
T PLN00116 106 PGHVDFSSEVTAALR--ITDGALVVVDCIEGVCVQTETVLR-QAL----GERIRPVLTVNKMDRC 163 (843)
T ss_pred CCHHHHHHHHHHHHh--hcCEEEEEEECCCCCcccHHHHHH-HHH----HCCCCEEEEEECCccc
Confidence 477788666666566 499999999988653333333343 222 2568999999999985
No 262
>PLN03126 Elongation factor Tu; Provisional
Probab=96.10 E-value=0.025 Score=38.41 Aligned_cols=59 Identities=10% Similarity=0.069 Sum_probs=36.6
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCe-EEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKA-VILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~-~ilvgnK~Dl~~ 68 (75)
-||+.|-.....-.. .+|++++|.|.++-.. .+.+.++..+.. .++| ++++.||+|+.+
T Consensus 152 PGh~~f~~~~~~g~~--~aD~ailVVda~~G~~-~qt~e~~~~~~~----~gi~~iIvvvNK~Dl~~ 211 (478)
T PLN03126 152 PGHADYVKNMITGAA--QMDGAILVVSGADGPM-PQTKEHILLAKQ----VGVPNMVVFLNKQDQVD 211 (478)
T ss_pred CCHHHHHHHHHHHHh--hCCEEEEEEECCCCCc-HHHHHHHHHHHH----cCCCeEEEEEecccccC
Confidence 467777544433344 4999999999875422 222333333332 3467 788999999854
No 263
>cd01856 YlqF YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.
Probab=96.10 E-value=0.0054 Score=35.74 Aligned_cols=42 Identities=29% Similarity=0.296 Sum_probs=28.3
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
++|.+++|+|..++.+-... .+... ..+.|+++|.||+|+..
T Consensus 19 ~aD~il~v~D~~~~~~~~~~-~i~~~------~~~k~~ilVlNK~Dl~~ 60 (171)
T cd01856 19 LVDLVIEVRDARIPLSSRNP-LLEKI------LGNKPRIIVLNKADLAD 60 (171)
T ss_pred hCCEEEEEeeccCccCcCCh-hhHhH------hcCCCEEEEEehhhcCC
Confidence 69999999999876432211 11111 13468999999999964
No 264
>KOG1145|consensus
Probab=96.05 E-value=0.019 Score=39.92 Aligned_cols=56 Identities=14% Similarity=0.219 Sum_probs=43.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCC---hhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIE---RKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~---~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
-||..|.+||..=-. .+|.+++|...+| +++.+.+++ . ...++|+|+.-||+|-.+
T Consensus 209 PGHaAF~aMRaRGA~--vtDIvVLVVAadDGVmpQT~EaIkh----A----k~A~VpiVvAinKiDkp~ 267 (683)
T KOG1145|consen 209 PGHAAFSAMRARGAN--VTDIVVLVVAADDGVMPQTLEAIKH----A----KSANVPIVVAINKIDKPG 267 (683)
T ss_pred CcHHHHHHHHhccCc--cccEEEEEEEccCCccHhHHHHHHH----H----HhcCCCEEEEEeccCCCC
Confidence 489999999988777 4999999998876 356555432 1 247899999999999754
No 265
>CHL00071 tufA elongation factor Tu
Probab=95.94 E-value=0.037 Score=36.66 Aligned_cols=58 Identities=10% Similarity=0.097 Sum_probs=34.6
Q ss_pred ccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCe-EEEEeeCCCCcC
Q psy5805 4 RTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKA-VILVANKADLER 68 (75)
Q Consensus 4 ~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~-~ilvgnK~Dl~~ 68 (75)
||+.|-.....-.. .+|++++|.|.+..-. .+....+..+.. .++| ++++.||.|+.+
T Consensus 84 Gh~~~~~~~~~~~~--~~D~~ilVvda~~g~~-~qt~~~~~~~~~----~g~~~iIvvvNK~D~~~ 142 (409)
T CHL00071 84 GHADYVKNMITGAA--QMDGAILVVSAADGPM-PQTKEHILLAKQ----VGVPNIVVFLNKEDQVD 142 (409)
T ss_pred ChHHHHHHHHHHHH--hCCEEEEEEECCCCCc-HHHHHHHHHHHH----cCCCEEEEEEEccCCCC
Confidence 56666433333334 4999999999875321 222222233332 3467 778999999864
No 266
>PRK07560 elongation factor EF-2; Reviewed
Probab=95.85 E-value=0.025 Score=40.10 Aligned_cols=58 Identities=16% Similarity=0.084 Sum_probs=38.3
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
-||..|........+ .+|++++|.|...--.-.....|.. ... .+.|.+++.||+|+.
T Consensus 95 PG~~df~~~~~~~l~--~~D~avlVvda~~g~~~~t~~~~~~-~~~----~~~~~iv~iNK~D~~ 152 (731)
T PRK07560 95 PGHVDFGGDVTRAMR--AVDGAIVVVDAVEGVMPQTETVLRQ-ALR----ERVKPVLFINKVDRL 152 (731)
T ss_pred CCccChHHHHHHHHH--hcCEEEEEEECCCCCCccHHHHHHH-HHH----cCCCeEEEEECchhh
Confidence 377778776677677 4999999999876433222233432 222 235778999999975
No 267
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=95.84 E-value=0.024 Score=39.53 Aligned_cols=60 Identities=18% Similarity=0.156 Sum_probs=35.0
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.||+.|......-.. .+|++++|.|.+..-.-+....+ ..+.. .+..+++++.||+|+.+
T Consensus 112 PG~~~f~~~~~~~~~--~aD~~llVvda~~g~~~~t~e~~-~~~~~---~~~~~iivvvNK~D~~~ 171 (632)
T PRK05506 112 PGHEQYTRNMVTGAS--TADLAIILVDARKGVLTQTRRHS-FIASL---LGIRHVVLAVNKMDLVD 171 (632)
T ss_pred CChHHHHHHHHHHHH--hCCEEEEEEECCCCccccCHHHH-HHHHH---hCCCeEEEEEEeccccc
Confidence 467777543333344 59999999998654211111112 12222 13357889999999863
No 268
>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=95.82 E-value=0.012 Score=34.36 Aligned_cols=44 Identities=23% Similarity=0.316 Sum_probs=31.0
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRR 70 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r 70 (75)
..|+++.|.|.++.+.-.. ...++.+ -++|+++|.||+|....+
T Consensus 78 ~~D~ii~VvDa~~l~r~l~---l~~ql~e----~g~P~vvvlN~~D~a~~~ 121 (156)
T PF02421_consen 78 KPDLIIVVVDATNLERNLY---LTLQLLE----LGIPVVVVLNKMDEAERK 121 (156)
T ss_dssp SSSEEEEEEEGGGHHHHHH---HHHHHHH----TTSSEEEEEETHHHHHHT
T ss_pred CCCEEEEECCCCCHHHHHH---HHHHHHH----cCCCEEEEEeCHHHHHHc
Confidence 5999999999987543222 2333443 358999999999986443
No 269
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=95.81 E-value=0.034 Score=37.63 Aligned_cols=60 Identities=17% Similarity=0.173 Sum_probs=34.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChh-HHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERK-TFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
-||+.|-.-.-.-.. ++|++++|.|.+..- .-+..+.+ ..+.. .+-.++++|-||+|+.+
T Consensus 125 PGH~~fi~~m~~g~~--~~D~alLVVda~~g~~~~qT~ehl-~i~~~---lgi~~iIVvlNKiDlv~ 185 (460)
T PTZ00327 125 PGHDILMATMLNGAA--VMDAALLLIAANESCPQPQTSEHL-AAVEI---MKLKHIIILQNKIDLVK 185 (460)
T ss_pred CCHHHHHHHHHHHHh--hCCEEEEEEECCCCccchhhHHHH-HHHHH---cCCCcEEEEEecccccC
Confidence 367777433223233 499999999998631 11111222 22221 12246899999999864
No 270
>KOG0082|consensus
Probab=95.74 E-value=0.043 Score=36.07 Aligned_cols=60 Identities=15% Similarity=0.332 Sum_probs=37.3
Q ss_pred hhhhhhhhhcc-CCcEEEEEEECCChhHH--HH--------HHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 9 TNLVVNFVQTY-HPDVFVIVYSVIERKTF--KK--------AEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 9 ~~~~~~~~~~~-~~~~~ilv~d~~~~~s~--~~--------~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
++-+..+.+.+ |++++|+|.++++-+-. +. ..+.++.+.+...-.+.++||.-||.||-+
T Consensus 206 RseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~tsiiLFLNK~DLFe 276 (354)
T KOG0082|consen 206 RSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFANTSIILFLNKKDLFE 276 (354)
T ss_pred HHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCcccccCcEEEEeecHHHHH
Confidence 34444555555 89999999999865321 11 122333333333235789999999999954
No 271
>PTZ00416 elongation factor 2; Provisional
Probab=95.74 E-value=0.028 Score=40.51 Aligned_cols=58 Identities=16% Similarity=0.165 Sum_probs=37.9
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
-||..|..-...-.+ .+|++|+|.|.++--.-..-.-| ..+.. .++|++++.||+|+.
T Consensus 100 PG~~~f~~~~~~al~--~~D~ailVvda~~g~~~~t~~~~-~~~~~----~~~p~iv~iNK~D~~ 157 (836)
T PTZ00416 100 PGHVDFSSEVTAALR--VTDGALVVVDCVEGVCVQTETVL-RQALQ----ERIRPVLFINKVDRA 157 (836)
T ss_pred CCHHhHHHHHHHHHh--cCCeEEEEEECCCCcCccHHHHH-HHHHH----cCCCEEEEEEChhhh
Confidence 366667555555556 49999999998764322222233 23332 457999999999985
No 272
>KOG3886|consensus
Probab=95.69 E-value=0.056 Score=34.11 Aligned_cols=64 Identities=20% Similarity=0.196 Sum_probs=42.3
Q ss_pred cccccc-----hhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhh-cCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCF-----TNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDS-KYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f-----~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|||.| ++.....++ +.+++|.|||+...+--..+..+.+-++.. +.++...+.+.-.|.||..
T Consensus 61 Ggqe~fmen~~~~q~d~iF~--nV~vli~vFDves~e~~~D~~~yqk~Le~ll~~SP~AkiF~l~hKmDLv~ 130 (295)
T KOG3886|consen 61 GGQEEFMENYLSSQEDNIFR--NVQVLIYVFDVESREMEKDFHYYQKCLEALLQNSPEAKIFCLLHKMDLVQ 130 (295)
T ss_pred CCcHHHHHHHHhhcchhhhe--eheeeeeeeeccchhhhhhHHHHHHHHHHHHhcCCcceEEEEEeechhcc
Confidence 466644 223334445 799999999999887665555554433222 1457778899999999954
No 273
>PRK00049 elongation factor Tu; Reviewed
Probab=95.69 E-value=0.044 Score=36.20 Aligned_cols=58 Identities=12% Similarity=0.112 Sum_probs=34.6
Q ss_pred ccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEE-EEeeCCCCcC
Q psy5805 4 RTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVI-LVANKADLER 68 (75)
Q Consensus 4 ~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~i-lvgnK~Dl~~ 68 (75)
||++|......-.. .+|++++|.|.+..-. ......+..+.. .++|.+ ++.||.|+..
T Consensus 84 G~~~f~~~~~~~~~--~aD~~llVVDa~~g~~-~qt~~~~~~~~~----~g~p~iiVvvNK~D~~~ 142 (396)
T PRK00049 84 GHADYVKNMITGAA--QMDGAILVVSAADGPM-PQTREHILLARQ----VGVPYIVVFLNKCDMVD 142 (396)
T ss_pred CHHHHHHHHHhhhc--cCCEEEEEEECCCCCc-hHHHHHHHHHHH----cCCCEEEEEEeecCCcc
Confidence 56666433333344 5999999999876422 222223333332 346865 6899999863
No 274
>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=95.65 E-value=0.024 Score=35.65 Aligned_cols=42 Identities=29% Similarity=0.363 Sum_probs=28.8
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
++|.+++|.|...+.+..+ .++.+.. .+.|+++|.||+||..
T Consensus 21 ~aDvVl~V~Dar~p~~~~~--~~i~~~l-----~~kp~IiVlNK~DL~~ 62 (276)
T TIGR03596 21 LVDVVIEVLDARIPLSSRN--PMIDEIR-----GNKPRLIVLNKADLAD 62 (276)
T ss_pred hCCEEEEEEeCCCCCCCCC--hhHHHHH-----CCCCEEEEEEccccCC
Confidence 5999999999987654332 1122221 2469999999999953
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=95.52 E-value=0.013 Score=36.94 Aligned_cols=15 Identities=33% Similarity=0.257 Sum_probs=13.0
Q ss_pred CCeEEEEeeCCCCcC
Q psy5805 54 EKAVILVANKADLER 68 (75)
Q Consensus 54 ~~~~ilvgnK~Dl~~ 68 (75)
.+|+++|+||+|+..
T Consensus 143 ~v~vi~VinK~D~l~ 157 (276)
T cd01850 143 RVNIIPVIAKADTLT 157 (276)
T ss_pred cCCEEEEEECCCcCC
Confidence 689999999999843
No 276
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=95.50 E-value=0.022 Score=36.05 Aligned_cols=42 Identities=26% Similarity=0.348 Sum_probs=29.2
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.+|.+++|.|...+.+..+ .++.+.. .+.|+++|.||+||.+
T Consensus 24 ~aDvIL~VvDar~p~~~~~--~~l~~~~-----~~kp~iiVlNK~DL~~ 65 (287)
T PRK09563 24 LVDVVIEVLDARIPLSSEN--PMIDKII-----GNKPRLLILNKSDLAD 65 (287)
T ss_pred hCCEEEEEEECCCCCCCCC--hhHHHHh-----CCCCEEEEEEchhcCC
Confidence 5999999999977654332 1222222 2578999999999953
No 277
>COG1084 Predicted GTPase [General function prediction only]
Probab=95.46 E-value=0.045 Score=35.73 Aligned_cols=46 Identities=15% Similarity=0.335 Sum_probs=33.2
Q ss_pred CcEEEEEEECCChhHH--HHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 21 PDVFVIVYSVIERKTF--KKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~--~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
+++++++||.+....| +.=.+.+++++... +.|+++|.||.|+.+.
T Consensus 248 ~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f---~~p~v~V~nK~D~~~~ 295 (346)
T COG1084 248 AGVILFLFDPSETCGYSLEEQISLLEEIKELF---KAPIVVVINKIDIADE 295 (346)
T ss_pred cCeEEEEEcCccccCCCHHHHHHHHHHHHHhc---CCCeEEEEecccccch
Confidence 6889999999877643 33344556666533 3899999999998743
No 278
>PRK00007 elongation factor G; Reviewed
Probab=95.41 E-value=0.094 Score=37.08 Aligned_cols=58 Identities=17% Similarity=-0.015 Sum_probs=36.1
Q ss_pred ccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 4 RTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 4 ~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
|+..|..-...-.+ .+|++++|.|...--.-+...-|. .+.. .+.|.+++.||.|+..
T Consensus 84 G~~~f~~ev~~al~--~~D~~vlVvda~~g~~~qt~~~~~-~~~~----~~~p~iv~vNK~D~~~ 141 (693)
T PRK00007 84 GHVDFTIEVERSLR--VLDGAVAVFDAVGGVEPQSETVWR-QADK----YKVPRIAFVNKMDRTG 141 (693)
T ss_pred CcHHHHHHHHHHHH--HcCEEEEEEECCCCcchhhHHHHH-HHHH----cCCCEEEEEECCCCCC
Confidence 55566543444445 499999999976543333333332 2332 3478899999999864
No 279
>KOG0462|consensus
Probab=95.33 E-value=0.086 Score=36.76 Aligned_cols=61 Identities=18% Similarity=0.131 Sum_probs=39.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRR 70 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r 70 (75)
-||-.|+.-....+.. ++|+++|.|.+.---=+.+.+++..+. .+..+|.|-||+|+...+
T Consensus 133 PGHvDFs~EVsRslaa--c~G~lLvVDA~qGvqAQT~anf~lAfe-----~~L~iIpVlNKIDlp~ad 193 (650)
T KOG0462|consen 133 PGHVDFSGEVSRSLAA--CDGALLVVDASQGVQAQTVANFYLAFE-----AGLAIIPVLNKIDLPSAD 193 (650)
T ss_pred CCcccccceehehhhh--cCceEEEEEcCcCchHHHHHHHHHHHH-----cCCeEEEeeeccCCCCCC
Confidence 4777887555555553 999999999874322222333332222 457889999999997643
No 280
>cd04178 Nucleostemin_like Nucleostemin-like. Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the
Probab=95.29 E-value=0.022 Score=33.61 Aligned_cols=44 Identities=25% Similarity=0.279 Sum_probs=27.0
Q ss_pred cEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 22 DVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 22 ~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
|+++++.|..++.+-.+ ....+.+. . ...+.|+++|.||+||..
T Consensus 1 DvVl~VvDar~p~~~~~-~~i~~~~~-l-~~~~kp~IlVlNK~DL~~ 44 (172)
T cd04178 1 DVILEVLDARDPLGCRC-PQVEEAVL-Q-AGGNKKLVLVLNKIDLVP 44 (172)
T ss_pred CEEEEEEECCCCCCCCC-HHHHHHHH-h-ccCCCCEEEEEehhhcCC
Confidence 67899999887633221 11222211 1 124579999999999964
No 281
>KOG4273|consensus
Probab=95.28 E-value=0.013 Score=37.37 Aligned_cols=43 Identities=23% Similarity=0.344 Sum_probs=32.5
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCe-EEEEeeCCCCc
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKA-VILVANKADLE 67 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~-~ilvgnK~Dl~ 67 (75)
..+++++||++....+..++.|+..-. ....- .+.+|||.|..
T Consensus 79 l~a~vmvfdlse~s~l~alqdwl~htd----insfdillcignkvdrv 122 (418)
T KOG4273|consen 79 LQAFVMVFDLSEKSGLDALQDWLPHTD----INSFDILLCIGNKVDRV 122 (418)
T ss_pred eeeEEEEEeccchhhhHHHHhhccccc----cccchhheecccccccc
Confidence 468999999999999999999975432 12233 35689999963
No 282
>PLN03127 Elongation factor Tu; Provisional
Probab=95.27 E-value=0.085 Score=35.57 Aligned_cols=59 Identities=10% Similarity=0.094 Sum_probs=33.7
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCe-EEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKA-VILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~-~ilvgnK~Dl~~ 68 (75)
-||+.|-.....-.. .+|++++|.|.++.-. .+....+..+.. .++| ++++.||+|+.+
T Consensus 132 PGh~~f~~~~~~g~~--~aD~allVVda~~g~~-~qt~e~l~~~~~----~gip~iIvviNKiDlv~ 191 (447)
T PLN03127 132 PGHADYVKNMITGAA--QMDGGILVVSAPDGPM-PQTKEHILLARQ----VGVPSLVVFLNKVDVVD 191 (447)
T ss_pred CCccchHHHHHHHHh--hCCEEEEEEECCCCCc-hhHHHHHHHHHH----cCCCeEEEEEEeeccCC
Confidence 366666433333333 4999999999875321 111222222332 3467 578899999864
No 283
>KOG0468|consensus
Probab=95.18 E-value=0.047 Score=39.00 Aligned_cols=58 Identities=21% Similarity=0.267 Sum_probs=41.6
Q ss_pred CcccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCC
Q psy5805 2 ASRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADL 66 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl 66 (75)
+.||-.|..-...-++. +|++++++|.-.--+++. .+.++... ..+.|+++|-||.|.
T Consensus 204 TPGHVnF~DE~ta~l~~--sDgvVlvvDv~EGVmlnt-Er~ikhai----q~~~~i~vviNKiDR 261 (971)
T KOG0468|consen 204 TPGHVNFSDETTASLRL--SDGVVLVVDVAEGVMLNT-ERIIKHAI----QNRLPIVVVINKVDR 261 (971)
T ss_pred CCCcccchHHHHHHhhh--cceEEEEEEcccCceeeH-HHHHHHHH----hccCcEEEEEehhHH
Confidence 46888887777777775 999999999976655543 22222222 256899999999996
No 284
>PRK09866 hypothetical protein; Provisional
Probab=95.10 E-value=0.083 Score=37.61 Aligned_cols=46 Identities=11% Similarity=0.166 Sum_probs=30.5
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
++|++++|.|.+...+...- ...+.++.. ....|+++|.||+|+.+
T Consensus 258 eADvVLFVVDat~~~s~~De-eIlk~Lkk~--~K~~PVILVVNKIDl~d 303 (741)
T PRK09866 258 RASAVLAVLDYTQLKSISDE-EVREAILAV--GQSVPLYVLVNKFDQQD 303 (741)
T ss_pred hCCEEEEEEeCCCCCChhHH-HHHHHHHhc--CCCCCEEEEEEcccCCC
Confidence 59999999999875443331 122333331 12369999999999853
No 285
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=94.99 E-value=0.062 Score=36.39 Aligned_cols=43 Identities=26% Similarity=0.220 Sum_probs=30.4
Q ss_pred CCcEEEEEEECCChh-HHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 20 HPDVFVIVYSVIERK-TFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
.||.+++|+|.+.+. ..+...-| ....+.|+++|.||.||..+
T Consensus 296 ~ADlvL~v~D~~~~~~~~d~~~~~-------~~~~~~~~i~v~NK~DL~~~ 339 (454)
T COG0486 296 EADLVLFVLDASQPLDKEDLALIE-------LLPKKKPIIVVLNKADLVSK 339 (454)
T ss_pred hCCEEEEEEeCCCCCchhhHHHHH-------hcccCCCEEEEEechhcccc
Confidence 499999999999862 22221111 12467899999999999764
No 286
>COG1160 Predicted GTPases [General function prediction only]
Probab=94.76 E-value=0.13 Score=34.79 Aligned_cols=41 Identities=32% Similarity=0.355 Sum_probs=28.5
Q ss_pred CCcEEEEEEECCCh-hHHH-HHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 20 HPDVFVIVYSVIER-KTFK-KAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 20 ~~~~~ilv~d~~~~-~s~~-~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
.||++|+|.|...- ...+ .+.+|+. ..+.|+++|.||+|-.
T Consensus 83 eADvilfvVD~~~Git~~D~~ia~~Lr-------~~~kpviLvvNK~D~~ 125 (444)
T COG1160 83 EADVILFVVDGREGITPADEEIAKILR-------RSKKPVILVVNKIDNL 125 (444)
T ss_pred hCCEEEEEEeCCCCCCHHHHHHHHHHH-------hcCCCEEEEEEcccCc
Confidence 59999999998652 2222 3344432 1457999999999975
No 287
>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=94.56 E-value=0.19 Score=27.06 Aligned_cols=36 Identities=28% Similarity=0.304 Sum_probs=25.5
Q ss_pred CCcEEEEEEECCCh--hHHHHHHHHHHHHHhhcCCCCCeEEEEeeC
Q psy5805 20 HPDVFVIVYSVIER--KTFKKAEDMLKTLWDSKYIGEKAVILVANK 63 (75)
Q Consensus 20 ~~~~~ilv~d~~~~--~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK 63 (75)
.+|++++|+|.+++ ++..++.+|+ + .+.|+++|-||
T Consensus 79 ~~d~ii~vv~~~~~~~~~~~~~~~~l---~-----~~~~~i~v~NK 116 (116)
T PF01926_consen 79 KSDLIIYVVDASNPITEDDKNILREL---K-----NKKPIILVLNK 116 (116)
T ss_dssp TESEEEEEEETTSHSHHHHHHHHHHH---H-----TTSEEEEEEES
T ss_pred HCCEEEEEEECCCCCCHHHHHHHHHH---h-----cCCCEEEEEcC
Confidence 59999999998774 2344443333 2 45799999998
No 288
>COG0536 Obg Predicted GTPase [General function prediction only]
Probab=94.45 E-value=0.13 Score=33.90 Aligned_cols=47 Identities=23% Similarity=0.249 Sum_probs=33.0
Q ss_pred CcEEEEEEECCChhH---HHHHHHHHHHHHhhc-CCCCCeEEEEeeCCCCc
Q psy5805 21 PDVFVIVYSVIERKT---FKKAEDMLKTLWDSK-YIGEKAVILVANKADLE 67 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s---~~~~~~~~~~~~~~~-~~~~~~~ilvgnK~Dl~ 67 (75)
+..++.|.|++..+- .+..+....++..+. ...+.|.++|.||+|+.
T Consensus 238 t~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~ 288 (369)
T COG0536 238 TRVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLP 288 (369)
T ss_pred hheeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCC
Confidence 778899999986653 555555555555542 34577999999999953
No 289
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=93.60 E-value=0.21 Score=33.63 Aligned_cols=57 Identities=18% Similarity=0.183 Sum_probs=34.8
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChh---HH---HHH-HHHHHHHHhhcCCCCCe-EEEEeeCCCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERK---TF---KKA-EDMLKTLWDSKYIGEKA-VILVANKADL 66 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~---s~---~~~-~~~~~~~~~~~~~~~~~-~ilvgnK~Dl 66 (75)
-||++|-.....-.. .+|++++|.|.+.-. .| .+. +.|. .+.. -.+| +|++-||.|+
T Consensus 93 PGh~~f~~~~~~g~~--~aD~ailVVda~~G~~e~~~~~~~qT~eh~~-~~~~----~gi~~iiv~vNKmD~ 157 (446)
T PTZ00141 93 PGHRDFIKNMITGTS--QADVAILVVASTAGEFEAGISKDGQTREHAL-LAFT----LGVKQMIVCINKMDD 157 (446)
T ss_pred CChHHHHHHHHHhhh--hcCEEEEEEEcCCCceecccCCCccHHHHHH-HHHH----cCCCeEEEEEEcccc
Confidence 478888554444445 499999999987531 11 122 2332 2322 3455 6789999994
No 290
>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]
Probab=92.88 E-value=0.28 Score=34.99 Aligned_cols=58 Identities=21% Similarity=0.004 Sum_probs=41.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
-||-.|..-...-.+. .|++++|+|...--..+.-.-|. +.. ..++|.+++-||.|..
T Consensus 84 PGHVDFt~EV~rslrv--lDgavvVvdaveGV~~QTEtv~r-qa~----~~~vp~i~fiNKmDR~ 141 (697)
T COG0480 84 PGHVDFTIEVERSLRV--LDGAVVVVDAVEGVEPQTETVWR-QAD----KYGVPRILFVNKMDRL 141 (697)
T ss_pred CCccccHHHHHHHHHh--hcceEEEEECCCCeeecHHHHHH-HHh----hcCCCeEEEEECcccc
Confidence 4788888777777775 99999999987553333333343 222 2568999999999974
No 291
>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=92.79 E-value=0.78 Score=26.08 Aligned_cols=54 Identities=24% Similarity=0.247 Sum_probs=35.4
Q ss_pred cccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCC
Q psy5805 5 TSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKA 64 (75)
Q Consensus 5 ~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~ 64 (75)
......+...|.. .+|++|+|.+.+..-+-.....+...... .....++|-||.
T Consensus 115 ~~~~~~~~~~~~~--~~d~vi~V~~~~~~~~~~~~~~l~~~~~~----~~~~~i~V~nk~ 168 (168)
T PF00350_consen 115 NSEHTEITEEYLP--KADVVIFVVDANQDLTESDMEFLKQMLDP----DKSRTIFVLNKA 168 (168)
T ss_dssp HTTTSHHHHHHHS--TTEEEEEEEETTSTGGGHHHHHHHHHHTT----TCSSEEEEEE-G
T ss_pred hhhhHHHHHHhhc--cCCEEEEEeccCcccchHHHHHHHHHhcC----CCCeEEEEEcCC
Confidence 3444567777887 59999999999886554555555544443 223488888884
No 292
>KOG0705|consensus
Probab=92.78 E-value=0.079 Score=37.10 Aligned_cols=53 Identities=23% Similarity=0.441 Sum_probs=41.6
Q ss_pred hhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 13 VNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 13 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
..|.. ..|++|+||.+.+..+|+.+......+........+|++++|++.-..
T Consensus 90 aQft~--wvdavIfvf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS 142 (749)
T KOG0705|consen 90 AQFCQ--WVDAVVFVFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHIS 142 (749)
T ss_pred hhhhh--hccceEEEEEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhh
Confidence 34555 599999999999999999998887777655445678899998875443
No 293
>smart00053 DYNc Dynamin, GTPase. Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.
Probab=92.68 E-value=0.66 Score=28.94 Aligned_cols=55 Identities=16% Similarity=0.128 Sum_probs=31.1
Q ss_pred chhhhhhhhhccCCcEEEEEEECCC-hhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 8 FTNLVVNFVQTYHPDVFVIVYSVIE-RKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 8 f~~~~~~~~~~~~~~~~ilv~d~~~-~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
...+...|.+. ..+.+++|.|.+. ....+ .......+. ....++++|.||.|..+
T Consensus 151 i~~lv~~yi~~-~~~IIL~Vvda~~d~~~~d-~l~ia~~ld----~~~~rti~ViTK~D~~~ 206 (240)
T smart00053 151 IKDMIKQFISK-EECLILAVTPANVDLANSD-ALKLAKEVD----PQGERTIGVITKLDLMD 206 (240)
T ss_pred HHHHHHHHHhC-ccCeEEEEEECCCCCCchh-HHHHHHHHH----HcCCcEEEEEECCCCCC
Confidence 44566677763 2346777876643 22211 111122222 24679999999999864
No 294
>COG1162 Predicted GTPases [General function prediction only]
Probab=92.30 E-value=0.73 Score=29.84 Aligned_cols=46 Identities=24% Similarity=0.253 Sum_probs=32.8
Q ss_pred CCcEEEEEEECCChh-HHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 20 HPDVFVIVYSVIERK-TFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
|.+-.+++++..+++ +...+.+++-.... .++.-++|-||+||.+.
T Consensus 79 n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~----~gi~pvIvlnK~DL~~~ 125 (301)
T COG1162 79 NNDQAIIVVSLVDPDFNTNLLDRYLVLAEA----GGIEPVIVLNKIDLLDD 125 (301)
T ss_pred ccceEEEEEeccCCCCCHHHHHHHHHHHHH----cCCcEEEEEEccccCcc
Confidence 567777777777776 66667777655543 55777778999999653
No 295
>COG0218 Predicted GTPase [General function prediction only]
Probab=91.92 E-value=0.77 Score=28.08 Aligned_cols=59 Identities=17% Similarity=0.210 Sum_probs=35.4
Q ss_pred cccchhhhhhhhhcc-CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 5 TSCFTNLVVNFVQTY-HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 5 ~e~f~~~~~~~~~~~-~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|....+...|.... +-.+++++.|..-.-.=... .-++-+.. .++|++++.||+|-..
T Consensus 90 ~e~w~~~i~~YL~~R~~L~~vvlliD~r~~~~~~D~-em~~~l~~----~~i~~~vv~tK~DKi~ 149 (200)
T COG0218 90 KEKWKKLIEEYLEKRANLKGVVLLIDARHPPKDLDR-EMIEFLLE----LGIPVIVVLTKADKLK 149 (200)
T ss_pred HHHHHHHHHHHHhhchhheEEEEEEECCCCCcHHHH-HHHHHHHH----cCCCeEEEEEccccCC
Confidence 345566777777653 56677777776544322111 11222222 5689999999999643
No 296
>PF14331 ImcF-related_N: ImcF-related N-terminal domain
Probab=91.44 E-value=0.32 Score=30.64 Aligned_cols=47 Identities=19% Similarity=0.104 Sum_probs=30.7
Q ss_pred CCcEEEEEEECCChhH-------HHH----HHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 20 HPDVFVIVYSVIERKT-------FKK----AEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s-------~~~----~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
..+|+|++.|+.+.-. +.. ++.-+.++.+.- .-.+|+++|-+|+|+.
T Consensus 25 PlnGvil~vs~~~Ll~~~~~~r~l~~~a~~lR~rL~el~~~l-g~~~PVYvv~Tk~D~l 82 (266)
T PF14331_consen 25 PLNGVILTVSVDDLLNADEAERELEALARALRQRLEELQRTL-GVRLPVYVVFTKCDLL 82 (266)
T ss_pred CCCEEEEEEEHHHHhcCChhhhHHHHHHHHHHHHHHHHHHHh-CCCCCeEeeeECCCcc
Confidence 5699999999875422 222 222333444422 3589999999999984
No 297
>KOG1424|consensus
Probab=91.26 E-value=0.25 Score=34.19 Aligned_cols=55 Identities=29% Similarity=0.317 Sum_probs=37.2
Q ss_pred hhhhhhhhhccCCcEEEEEEECCChhHHH--HHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCc
Q psy5805 9 TNLVVNFVQTYHPDVFVIVYSVIERKTFK--KAEDMLKTLWDSKYIGEKAVILVANKADLERRRQ 71 (75)
Q Consensus 9 ~~~~~~~~~~~~~~~~ilv~d~~~~~s~~--~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~ 71 (75)
+.++...-+ +|.++.+.|.-++--|. .+..+.++.. +..-.+|+.||+||....+
T Consensus 166 RQLWRVlEr---SDivvqIVDARnPllfr~~dLe~Yvke~d-----~~K~~~LLvNKaDLl~~~q 222 (562)
T KOG1424|consen 166 RQLWRVLER---SDIVVQIVDARNPLLFRSPDLEDYVKEVD-----PSKANVLLVNKADLLPPEQ 222 (562)
T ss_pred HHHHHHHhh---cceEEEEeecCCccccCChhHHHHHhccc-----cccceEEEEehhhcCCHHH
Confidence 344444444 99999999999987764 3455544432 3456789999999965433
No 298
>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]
Probab=91.10 E-value=0.99 Score=30.26 Aligned_cols=62 Identities=15% Similarity=0.220 Sum_probs=35.5
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRR 70 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r 70 (75)
-|||+|....-.=-.. ++.+|++.|. ...-+++.++.. .+... .+=-.+++..||+||.+..
T Consensus 94 PGHeQYTRNMaTGAST--adlAIlLVDA-R~Gvl~QTrRHs-~I~sL--LGIrhvvvAVNKmDLvdy~ 155 (431)
T COG2895 94 PGHEQYTRNMATGAST--ADLAILLVDA-RKGVLEQTRRHS-FIASL--LGIRHVVVAVNKMDLVDYS 155 (431)
T ss_pred CcHHHHhhhhhccccc--ccEEEEEEec-chhhHHHhHHHH-HHHHH--hCCcEEEEEEeeecccccC
Confidence 4788885333333332 8999999887 233444443321 12221 1223578889999997643
No 299
>TIGR03348 VI_IcmF type VI secretion protein IcmF. Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.
Probab=90.58 E-value=0.58 Score=35.16 Aligned_cols=47 Identities=26% Similarity=0.192 Sum_probs=34.4
Q ss_pred CCcEEEEEEECCChhHH---------HHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 20 HPDVFVIVYSVIERKTF---------KKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~---------~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
..+|+|++.|+.+.-+- ..++..+.++.+.- .-.+|+.++-+|+|+.
T Consensus 201 plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~l-g~~~PVYvv~Tk~Dll 256 (1169)
T TIGR03348 201 PLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQL-GARFPVYLVLTKADLL 256 (1169)
T ss_pred CCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHh-CCCCCEEEEEecchhh
Confidence 68999999998765321 24455666666643 3589999999999975
No 300
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=90.47 E-value=1.1 Score=31.13 Aligned_cols=58 Identities=17% Similarity=0.107 Sum_probs=36.3
Q ss_pred ccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 4 RTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 4 ~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
||-.|.--...... -+.|++++.|.+.---=+.+.+.+-.+. .+..++-|-||+||..
T Consensus 85 GHVDFsYEVSRSLA--ACEGalLvVDAsQGveAQTlAN~YlAle-----~~LeIiPViNKIDLP~ 142 (603)
T COG0481 85 GHVDFSYEVSRSLA--ACEGALLVVDASQGVEAQTLANVYLALE-----NNLEIIPVLNKIDLPA 142 (603)
T ss_pred CccceEEEehhhHh--hCCCcEEEEECccchHHHHHHHHHHHHH-----cCcEEEEeeecccCCC
Confidence 56666532233333 2899999999886533333433333332 4578899999999964
No 301
>KOG1490|consensus
Probab=90.23 E-value=0.62 Score=32.48 Aligned_cols=48 Identities=19% Similarity=0.192 Sum_probs=31.7
Q ss_pred CcEEEEEEECCChhHHH--HHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCC
Q psy5805 21 PDVFVIVYSVIERKTFK--KAEDMLKTLWDSKYIGEKAVILVANKADLERRR 70 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~--~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r 70 (75)
..+++++-|++..-.+. .=-..+..++... .+.|.|+|.||+|+-...
T Consensus 248 raaVLYfmDLSe~CGySva~QvkLfhsIKpLF--aNK~~IlvlNK~D~m~~e 297 (620)
T KOG1490|consen 248 RSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLF--ANKVTILVLNKIDAMRPE 297 (620)
T ss_pred hhhheeeeechhhhCCCHHHHHHHHHHhHHHh--cCCceEEEeecccccCcc
Confidence 35788888998875443 2223344555432 578999999999986433
No 302
>KOG3929|consensus
Probab=90.22 E-value=0.7 Score=29.86 Aligned_cols=13 Identities=31% Similarity=0.506 Sum_probs=11.7
Q ss_pred CCeEEEEeeCCCC
Q psy5805 54 EKAVILVANKADL 66 (75)
Q Consensus 54 ~~~~ilvgnK~Dl 66 (75)
++|+++||.|.|.
T Consensus 190 P~PV~IVgsKYDv 202 (363)
T KOG3929|consen 190 PVPVVIVGSKYDV 202 (363)
T ss_pred CCceEEeccchhh
Confidence 6789999999996
No 303
>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=90.10 E-value=1.3 Score=27.02 Aligned_cols=43 Identities=16% Similarity=0.081 Sum_probs=26.1
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCe-EEEEeeCCCCc
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKA-VILVANKADLE 67 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~-~ilvgnK~Dl~ 67 (75)
.+|.++++.|.+....... ...+..+.. .+.| +++|.||.|+.
T Consensus 103 ~aDvVllviDa~~~~~~~~-~~i~~~l~~----~g~p~vi~VvnK~D~~ 146 (225)
T cd01882 103 VADLVLLLIDASFGFEMET-FEFLNILQV----HGFPRVMGVLTHLDLF 146 (225)
T ss_pred hcCEEEEEEecCcCCCHHH-HHHHHHHHH----cCCCeEEEEEeccccC
Confidence 4999999999875432222 122222322 2356 45599999985
No 304
>COG1159 Era GTPase [General function prediction only]
Probab=89.98 E-value=1.6 Score=28.32 Aligned_cols=42 Identities=26% Similarity=0.313 Sum_probs=28.7
Q ss_pred CCcEEEEEEECCCh-hHHHHHHHHH-HHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIER-KTFKKAEDML-KTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~-~s~~~~~~~~-~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
++|.+++|-|.+.. ...+ +|. +.++. .+.|++++.||.|...
T Consensus 85 dvDlilfvvd~~~~~~~~d---~~il~~lk~----~~~pvil~iNKID~~~ 128 (298)
T COG1159 85 DVDLILFVVDADEGWGPGD---EFILEQLKK----TKTPVILVVNKIDKVK 128 (298)
T ss_pred cCcEEEEEEeccccCCccH---HHHHHHHhh----cCCCeEEEEEccccCC
Confidence 79999999998873 2222 232 22322 4579999999999754
No 305
>COG1160 Predicted GTPases [General function prediction only]
Probab=89.94 E-value=1.4 Score=30.08 Aligned_cols=59 Identities=15% Similarity=0.193 Sum_probs=38.1
Q ss_pred ccccchhhhhh-hhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 4 RTSCFTNLVVN-FVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 4 ~~e~f~~~~~~-~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
++|.|...+.. -.. -++.+++|.|.+..-+-+..+- ...+.+ ...++++|-||-|+.++
T Consensus 245 ~~E~~Sv~rt~~aI~--~a~vvllviDa~~~~~~qD~~i-a~~i~~----~g~~~vIvvNKWDl~~~ 304 (444)
T COG1160 245 SVEKYSVARTLKAIE--RADVVLLVIDATEGISEQDLRI-AGLIEE----AGRGIVIVVNKWDLVEE 304 (444)
T ss_pred ceEEEeehhhHhHHh--hcCEEEEEEECCCCchHHHHHH-HHHHHH----cCCCeEEEEEccccCCc
Confidence 46777655443 223 3999999999998765443321 112222 45689999999998654
No 306
>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=89.81 E-value=2.1 Score=24.82 Aligned_cols=43 Identities=21% Similarity=0.176 Sum_probs=32.4
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
.+|.++++...+ ..+...+..+.+.++.. +.|+.+|.||+|..
T Consensus 114 ~aD~vliv~~~~-~~~~~~~~~~~~~l~~~----~~~~~vV~N~~~~~ 156 (179)
T cd03110 114 GADAALLVTEPT-PSGLHDLERAVELVRHF----GIPVGVVINKYDLN 156 (179)
T ss_pred cCCEEEEEecCC-cccHHHHHHHHHHHHHc----CCCEEEEEeCCCCC
Confidence 499999998776 55777777777666642 35678999999975
No 307
>COG1161 Predicted GTPases [General function prediction only]
Probab=89.47 E-value=0.43 Score=30.89 Aligned_cols=42 Identities=33% Similarity=0.302 Sum_probs=29.8
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
..|.++.|.|.-++.+..+ ..+.+. ..+.|.++|.||+||..
T Consensus 34 ~~d~vvevvDar~P~~s~~-----~~l~~~--v~~k~~i~vlNK~DL~~ 75 (322)
T COG1161 34 SVDVVVEVVDARDPLGTRN-----PELERI--VKEKPKLLVLNKADLAP 75 (322)
T ss_pred cCCEEEEEEeccccccccC-----ccHHHH--HccCCcEEEEehhhcCC
Confidence 4999999999999976543 222222 13445599999999975
No 308
>KOG1954|consensus
Probab=87.85 E-value=1.4 Score=29.84 Aligned_cols=56 Identities=20% Similarity=0.277 Sum_probs=38.0
Q ss_pred cchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 7 CFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 7 ~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|....+.|... +|.+|++||.-..+--+....-+..++. ..-.+-+|-||+|..+
T Consensus 170 dF~~v~~WFaeR--~D~IiLlfD~hKLDIsdEf~~vi~aLkG----~EdkiRVVLNKADqVd 225 (532)
T KOG1954|consen 170 DFTGVLEWFAER--VDRIILLFDAHKLDISDEFKRVIDALKG----HEDKIRVVLNKADQVD 225 (532)
T ss_pred ChHHHHHHHHHh--ccEEEEEechhhccccHHHHHHHHHhhC----CcceeEEEeccccccC
Confidence 466666666663 9999999997766555555555555553 3335667889999764
No 309
>KOG1423|consensus
Probab=87.21 E-value=1.2 Score=29.45 Aligned_cols=45 Identities=27% Similarity=0.282 Sum_probs=30.7
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+||++++++|.++....-+. +.+..+..+ ..+|-++|-||.|+..
T Consensus 155 ~AD~vvVv~Das~tr~~l~p-~vl~~l~~y---s~ips~lvmnkid~~k 199 (379)
T KOG1423|consen 155 NADCVVVVVDASATRTPLHP-RVLHMLEEY---SKIPSILVMNKIDKLK 199 (379)
T ss_pred hCCEEEEEEeccCCcCccCh-HHHHHHHHH---hcCCceeeccchhcch
Confidence 69999999999975443321 223333332 5689999999999754
No 310
>KOG0447|consensus
Probab=86.44 E-value=2.1 Score=30.56 Aligned_cols=58 Identities=14% Similarity=0.277 Sum_probs=36.8
Q ss_pred cchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 7 CFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 7 ~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
...++...|.. |++++|+|..= -|.+.=+.-...+....++..-..|+|-+|.||.++
T Consensus 437 ~I~~msKayM~--NPNAIILCIQD---GSVDAERSnVTDLVsq~DP~GrRTIfVLTKVDlAEk 494 (980)
T KOG0447|consen 437 TIFSISKAYMQ--NPNAIILCIQD---GSVDAERSIVTDLVSQMDPHGRRTIFVLTKVDLAEK 494 (980)
T ss_pred HHHHHHHHHhc--CCCeEEEEecc---CCcchhhhhHHHHHHhcCCCCCeeEEEEeecchhhh
Confidence 34578888888 79999999532 233322222223333234456678999999999764
No 311
>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]
Probab=84.35 E-value=2.7 Score=29.05 Aligned_cols=59 Identities=17% Similarity=0.148 Sum_probs=36.1
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
-|||.|+.=+-.-.- -+|.+++|.|...- ++.--..+-+.....++||+-.-||.|-..
T Consensus 89 PGHeDFSEDTYRtLt--AvDsAvMVIDaAKG-----iE~qT~KLfeVcrlR~iPI~TFiNKlDR~~ 147 (528)
T COG4108 89 PGHEDFSEDTYRTLT--AVDSAVMVIDAAKG-----IEPQTLKLFEVCRLRDIPIFTFINKLDREG 147 (528)
T ss_pred CCccccchhHHHHHH--hhheeeEEEecccC-----ccHHHHHHHHHHhhcCCceEEEeecccccc
Confidence 478888643332223 48999999886532 211111222223358899999999999754
No 312
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=84.04 E-value=4.5 Score=21.96 Aligned_cols=40 Identities=10% Similarity=0.208 Sum_probs=26.5
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEee
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVAN 62 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgn 62 (75)
+++.+.+ +.++...+..+.++.+.+++.. .+++++++-|+
T Consensus 50 ~pdvV~i--S~~~~~~~~~~~~~i~~l~~~~-~~~~~i~vGG~ 89 (119)
T cd02067 50 DADAIGL--SGLLTTHMTLMKEVIEELKEAG-LDDIPVLVGGA 89 (119)
T ss_pred CCCEEEE--eccccccHHHHHHHHHHHHHcC-CCCCeEEEECC
Confidence 4564444 5667778889999999998742 22566665554
No 313
>KOG2423|consensus
Probab=83.88 E-value=3.9 Score=28.09 Aligned_cols=52 Identities=27% Similarity=0.260 Sum_probs=33.5
Q ss_pred hhhhhhhcc-CCcEEEEEEECCChhHH--HHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 11 LVVNFVQTY-HPDVFVIVYSVIERKTF--KKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 11 ~~~~~~~~~-~~~~~ilv~d~~~~~s~--~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
++...|+-. .+|++|-|.|.-|+-.- ..+..++ +.. .+-...|+|-||+||.
T Consensus 203 IW~ELyKViDSSDVvvqVlDARDPmGTrc~~ve~yl---kke--~phKHli~vLNKvDLV 257 (572)
T KOG2423|consen 203 IWGELYKVIDSSDVVVQVLDARDPMGTRCKHVEEYL---KKE--KPHKHLIYVLNKVDLV 257 (572)
T ss_pred HHHHHHHhhcccceeEEeeeccCCcccccHHHHHHH---hhc--CCcceeEEEeeccccc
Confidence 334444433 68999999999988532 3344443 221 2445689999999995
No 314
>KOG2484|consensus
Probab=82.17 E-value=2.6 Score=28.60 Aligned_cols=44 Identities=30% Similarity=0.323 Sum_probs=32.4
Q ss_pred CCcEEEEEEECCChhHHHH--HHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFKK--AEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~--~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.+|++|-|.|.-||.+-.+ +..|. .+ ..++.-.|+|-||.||..
T Consensus 146 ~sDVVleVlDARDPlgtR~~~vE~~V---~~--~~gnKkLILVLNK~DLVP 191 (435)
T KOG2484|consen 146 ASDVVLEVLDARDPLGTRCPEVEEAV---LQ--AHGNKKLILVLNKIDLVP 191 (435)
T ss_pred hhheEEEeeeccCCCCCCChhHHHHH---Hh--ccCCceEEEEeehhccCC
Confidence 5999999999999976543 44553 22 225577899999999963
No 315
>TIGR00101 ureG urease accessory protein UreG. This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.
Probab=81.46 E-value=1.3 Score=26.64 Aligned_cols=37 Identities=24% Similarity=0.248 Sum_probs=24.6
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeE--EEEeeCCCCcC
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAV--ILVANKADLER 68 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~--ilvgnK~Dl~~ 68 (75)
++++|.|+|.++-++... .+. ..+.. +++.||+|+.+
T Consensus 113 ~~~~i~vvD~~~~~~~~~--~~~---------~qi~~ad~~~~~k~d~~~ 151 (199)
T TIGR00101 113 ADLTIFVIDVAAGDKIPR--KGG---------PGITRSDLLVINKIDLAP 151 (199)
T ss_pred hCcEEEEEEcchhhhhhh--hhH---------hHhhhccEEEEEhhhccc
Confidence 677999999987666321 111 12333 88999999963
No 316
>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]
Probab=80.73 E-value=1.6 Score=28.79 Aligned_cols=56 Identities=16% Similarity=0.195 Sum_probs=32.8
Q ss_pred ccccc-hhhhhhhhhccCCcEEEEEEECCCh---hHHHHHHHHHHHHHhhcCCCCCe-EEEEeeCCCCcCCC
Q psy5805 4 RTSCF-TNLVVNFVQTYHPDVFVIVYSVIER---KTFKKAEDMLKTLWDSKYIGEKA-VILVANKADLERRR 70 (75)
Q Consensus 4 ~~e~f-~~~~~~~~~~~~~~~~ilv~d~~~~---~s~~~~~~~~~~~~~~~~~~~~~-~ilvgnK~Dl~~~r 70 (75)
||-.| .+|...-.+ .|+.|||.+.++- ++-+++ .+.+ . -.+| ++++-||+|+.+.+
T Consensus 84 GHaDYvKNMItgAaq---mDgAILVVsA~dGpmPqTrEHi-----Llar--q-vGvp~ivvflnK~Dmvdd~ 144 (394)
T COG0050 84 GHADYVKNMITGAAQ---MDGAILVVAATDGPMPQTREHI-----LLAR--Q-VGVPYIVVFLNKVDMVDDE 144 (394)
T ss_pred ChHHHHHHHhhhHHh---cCccEEEEEcCCCCCCcchhhh-----hhhh--h-cCCcEEEEEEecccccCcH
Confidence 34334 344444444 8999999998864 343332 1111 1 2355 67788999997643
No 317
>TIGR02836 spore_IV_A stage IV sporulation protein A. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.
Probab=80.50 E-value=8.9 Score=26.56 Aligned_cols=42 Identities=24% Similarity=0.364 Sum_probs=29.6
Q ss_pred CCcEEEEEE-ECC----ChhHHHHH-HHHHHHHHhhcCCCCCeEEEEeeCCC
Q psy5805 20 HPDVFVIVY-SVI----ERKTFKKA-EDMLKTLWDSKYIGEKAVILVANKAD 65 (75)
Q Consensus 20 ~~~~~ilv~-d~~----~~~s~~~~-~~~~~~~~~~~~~~~~~~ilvgnK~D 65 (75)
.++..++|. |-+ .++.+... .+|..++++ .+.|++++-||.|
T Consensus 144 hstIgivVtTDgsi~dI~Re~y~~aEe~~i~eLk~----~~kPfiivlN~~d 191 (492)
T TIGR02836 144 HSTIGVVVTTDGTITDIPREDYVEAEERVIEELKE----LNKPFIILLNSTH 191 (492)
T ss_pred cCcEEEEEEcCCCccccccccchHHHHHHHHHHHh----cCCCEEEEEECcC
Confidence 378888876 442 12345444 578888876 5689999999999
No 318
>KOG1191|consensus
Probab=80.31 E-value=2.7 Score=29.21 Aligned_cols=49 Identities=29% Similarity=0.365 Sum_probs=31.3
Q ss_pred CcEEEEEEEC--CChhHHHHHHHHHHHHHhh-----cCCCCCeEEEEeeCCCCcCC
Q psy5805 21 PDVFVIVYSV--IERKTFKKAEDMLKTLWDS-----KYIGEKAVILVANKADLERR 69 (75)
Q Consensus 21 ~~~~ilv~d~--~~~~s~~~~~~~~~~~~~~-----~~~~~~~~ilvgnK~Dl~~~ 69 (75)
+|.+++|+|. ++-++-..+.+-+.....- .....-+++++.||.|+...
T Consensus 349 advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~ 404 (531)
T KOG1191|consen 349 ADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSK 404 (531)
T ss_pred cCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCc
Confidence 9999999999 4444444444433333211 01134689999999999654
No 319
>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=79.60 E-value=2.6 Score=26.14 Aligned_cols=45 Identities=22% Similarity=0.120 Sum_probs=21.5
Q ss_pred CcEEEEEEECC---ChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 21 PDVFVIVYSVI---ERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 21 ~~~~ilv~d~~---~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.-+++++.|.. ++..|-.. ++--+... ..-+.|.|.|-||+|+..
T Consensus 123 ~~~~v~LvD~~~~~~~~~f~s~--~L~s~s~~-~~~~lP~vnvlsK~Dl~~ 170 (238)
T PF03029_consen 123 RLVVVFLVDSSFCSDPSKFVSS--LLLSLSIM-LRLELPHVNVLSKIDLLS 170 (238)
T ss_dssp --EEEEEE-GGG-SSHHHHHHH--HHHHHHHH-HHHTSEEEEEE--GGGS-
T ss_pred ceEEEEEEecccccChhhHHHH--HHHHHHHH-hhCCCCEEEeeeccCccc
Confidence 55777777765 33344322 22111110 013689999999999965
No 320
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=79.58 E-value=13 Score=23.62 Aligned_cols=44 Identities=27% Similarity=0.378 Sum_probs=29.8
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
+.|.+|.|.|.+ .+|+...++-.+...+ .+=-++.+|.||.|-.
T Consensus 155 ~vD~vivVvDpS-~~sl~taeri~~L~~e---lg~k~i~~V~NKv~e~ 198 (255)
T COG3640 155 GVDLVIVVVDPS-YKSLRTAERIKELAEE---LGIKRIFVVLNKVDEE 198 (255)
T ss_pred CCCEEEEEeCCc-HHHHHHHHHHHHHHHH---hCCceEEEEEeeccch
Confidence 799999999875 5566655554333332 1225899999999854
No 321
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=78.44 E-value=4 Score=27.75 Aligned_cols=61 Identities=26% Similarity=0.331 Sum_probs=34.4
Q ss_pred ccccc-hhhhhhhhhccCCcEEEEEEECCChh---HHH---HHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCC
Q psy5805 4 RTSCF-TNLVVNFVQTYHPDVFVIVYSVIERK---TFK---KAEDMLKTLWDSKYIGEKAVILVANKADLERRR 70 (75)
Q Consensus 4 ~~e~f-~~~~~~~~~~~~~~~~ilv~d~~~~~---s~~---~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r 70 (75)
||-.| ..+.....+ ||+.|+|.|..+.+ +|. +.+.- ..+.. ..+--.+|++-||.|+.+.+
T Consensus 94 GHrdFvknmItGasq---AD~aVLVV~a~~~efE~g~~~~gQtrEH-~~La~--tlGi~~lIVavNKMD~v~wd 161 (428)
T COG5256 94 GHRDFVKNMITGASQ---ADVAVLVVDARDGEFEAGFGVGGQTREH-AFLAR--TLGIKQLIVAVNKMDLVSWD 161 (428)
T ss_pred chHHHHHHhhcchhh---ccEEEEEEECCCCccccccccCCchhHH-HHHHH--hcCCceEEEEEEcccccccC
Confidence 44444 234444444 99999999998763 221 11111 12222 22333578889999997644
No 322
>KOG0458|consensus
Probab=77.89 E-value=3.7 Score=29.08 Aligned_cols=61 Identities=21% Similarity=0.227 Sum_probs=34.3
Q ss_pred ccccchhhhhhhhhccCCcEEEEEEECCCh---hHHHH---HHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 4 RTSCFTNLVVNFVQTYHPDVFVIVYSVIER---KTFKK---AEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 4 ~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~---~s~~~---~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
||-.|-.-.-+-.. .+|+.+||.|.+.- ..|+. .+.....++ ..+--.++++-||.|+.+.
T Consensus 264 GhkdFi~nmi~g~s--qaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr---~Lgi~qlivaiNKmD~V~W 330 (603)
T KOG0458|consen 264 GHKDFIPNMISGAS--QADVAVLVVDASTGEFESGFDPGGQTREHALLLR---SLGISQLIVAINKMDLVSW 330 (603)
T ss_pred Cccccchhhhcccc--ccceEEEEEECCcchhhhccCCCCchHHHHHHHH---HcCcceEEEEeecccccCc
Confidence 56666433323223 28999999998743 23331 222222222 2344468899999999764
No 323
>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=77.64 E-value=4.1 Score=23.57 Aligned_cols=40 Identities=25% Similarity=0.271 Sum_probs=28.2
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
+++.++++.|.+++.+.-- +.+.. .-+.|+|=|-+|+|+.
T Consensus 63 dad~V~ll~dat~~~~~~p-----P~fa~---~f~~pvIGVITK~Dl~ 102 (143)
T PF10662_consen 63 DADVVLLLQDATEPRSVFP-----PGFAS---MFNKPVIGVITKIDLP 102 (143)
T ss_pred hCCEEEEEecCCCCCccCC-----chhhc---ccCCCEEEEEECccCc
Confidence 6999999999998754211 11221 1246899999999997
No 324
>TIGR00750 lao LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.
Probab=77.46 E-value=5.4 Score=25.46 Aligned_cols=15 Identities=60% Similarity=0.463 Sum_probs=12.2
Q ss_pred CCeEEEEeeCCCCcC
Q psy5805 54 EKAVILVANKADLER 68 (75)
Q Consensus 54 ~~~~ilvgnK~Dl~~ 68 (75)
+.|.++|.||+|+..
T Consensus 172 ~~~~ivv~NK~Dl~~ 186 (300)
T TIGR00750 172 EIADIYVVNKADGEG 186 (300)
T ss_pred hhccEEEEEcccccc
Confidence 457799999999864
No 325
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=76.77 E-value=2.4 Score=25.37 Aligned_cols=14 Identities=50% Similarity=0.653 Sum_probs=11.8
Q ss_pred CeEEEEeeCCCCcC
Q psy5805 55 KAVILVANKADLER 68 (75)
Q Consensus 55 ~~~ilvgnK~Dl~~ 68 (75)
.|.+++.||.|+.+
T Consensus 149 ~a~iiv~NK~Dl~~ 162 (207)
T TIGR00073 149 EADLIVINKADLAE 162 (207)
T ss_pred hCCEEEEEHHHccc
Confidence 46799999999964
No 326
>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=71.66 E-value=11 Score=24.50 Aligned_cols=27 Identities=15% Similarity=0.123 Sum_probs=20.1
Q ss_pred ccchhhhhhhhhcc-CCcEEEEEEECCC
Q psy5805 6 SCFTNLVVNFVQTY-HPDVFVIVYSVIE 32 (75)
Q Consensus 6 e~f~~~~~~~~~~~-~~~~~ilv~d~~~ 32 (75)
++++.+...|...+ ++|++++|+|++.
T Consensus 84 ~~~~glg~~fL~~ir~aD~ii~Vvd~~~ 111 (318)
T cd01899 84 HEGKGLGNKFLDDLRDADALIHVVDASG 111 (318)
T ss_pred cchhhHHHHHHHHHHHCCEEEEEEeCCC
Confidence 56777777763322 6999999999973
No 327
>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=70.70 E-value=17 Score=21.36 Aligned_cols=46 Identities=17% Similarity=0.209 Sum_probs=24.8
Q ss_pred CCcEEEEEEECCChh-HHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 20 HPDVFVIVYSVIERK-TFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
+++++++|.++.+.. ....+-+++.++-.. ..-.+++++-++.|-.
T Consensus 83 g~~~illVi~~~~~t~~d~~~l~~l~~~fg~--~~~~~~ivv~T~~d~l 129 (196)
T cd01852 83 GPHAFLLVVPLGRFTEEEEQAVETLQELFGE--KVLDHTIVLFTRGDDL 129 (196)
T ss_pred CCEEEEEEEECCCcCHHHHHHHHHHHHHhCh--HhHhcEEEEEECcccc
Confidence 789999999987621 122222333222110 0113567777877743
No 328
>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]
Probab=70.36 E-value=13 Score=26.18 Aligned_cols=61 Identities=20% Similarity=0.149 Sum_probs=36.9
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRR 70 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r 70 (75)
-||-.|..-.+....- .|+++++.|...- ..-+.+-.++.... ...+-|+|.||+|-.+.|
T Consensus 76 PGHADFGGEVERvl~M--VDgvlLlVDA~EG-pMPQTrFVlkKAl~----~gL~PIVVvNKiDrp~Ar 136 (603)
T COG1217 76 PGHADFGGEVERVLSM--VDGVLLLVDASEG-PMPQTRFVLKKALA----LGLKPIVVINKIDRPDAR 136 (603)
T ss_pred CCcCCccchhhhhhhh--cceEEEEEEcccC-CCCchhhhHHHHHH----cCCCcEEEEeCCCCCCCC
Confidence 3677777666666664 8999999887532 11111222222222 345567789999987655
No 329
>PF14784 ECIST_Cterm: C-terminal domain of the ECSIT protein
Probab=70.16 E-value=13 Score=21.12 Aligned_cols=39 Identities=8% Similarity=0.142 Sum_probs=28.0
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHHhhc-CCCCCeEEE
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLWDSK-YIGEKAVIL 59 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~il 59 (75)
-+|.|+..-++...+=+.+..|+..+++.. ....+|+++
T Consensus 84 ~dGti~Amc~tg~~~~~sL~~WI~~Lq~~NP~L~~ipV~F 123 (126)
T PF14784_consen 84 EDGTIFAMCMTGTSDKDSLLSWIRGLQETNPNLAQIPVLF 123 (126)
T ss_pred ccceEEEEEeccCCCHHHHHHHHHHHHhhCCchhcceEEE
Confidence 577787777777777777888999888732 234667664
No 330
>PF09827 CRISPR_Cas2: CRISPR associated protein Cas2; InterPro: IPR019199 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. Members of this family of bacterial proteins comprise various hypothetical proteins, as well as CRISPR (clustered regularly interspaced short palindromic repeats) associated proteins, conferring resistance to infection by certain bacteriophages. ; PDB: 3EXC_X 2I0X_A 3OQ2_B 3UI3_A 1ZPW_X 2I8E_A 2IVY_A.
Probab=69.65 E-value=8.1 Score=19.49 Aligned_cols=22 Identities=23% Similarity=0.591 Sum_probs=15.9
Q ss_pred EEEEEEECCChhHHHHHHHHHH
Q psy5805 23 VFVIVYSVIERKTFKKAEDMLK 44 (75)
Q Consensus 23 ~~ilv~d~~~~~s~~~~~~~~~ 44 (75)
-++++||+.++.....+.+.++
T Consensus 3 ~~lv~YDi~~~k~~~kv~k~L~ 24 (78)
T PF09827_consen 3 LYLVAYDISDNKRRNKVRKILK 24 (78)
T ss_dssp EEEEEEEEHSHHHHHHHHHHHH
T ss_pred EEEEEEECCCcHHHHHHHHHHH
Confidence 4789999988876666655443
No 331
>KOG1532|consensus
Probab=69.58 E-value=19 Score=23.71 Aligned_cols=16 Identities=31% Similarity=0.403 Sum_probs=14.2
Q ss_pred CCCeEEEEeeCCCCcC
Q psy5805 53 GEKAVILVANKADLER 68 (75)
Q Consensus 53 ~~~~~ilvgnK~Dl~~ 68 (75)
.+.|.+++-||+|+.+
T Consensus 180 tklp~ivvfNK~Dv~d 195 (366)
T KOG1532|consen 180 TKLPFIVVFNKTDVSD 195 (366)
T ss_pred ccCCeEEEEecccccc
Confidence 5789999999999965
No 332
>KOG0099|consensus
Probab=69.07 E-value=16 Score=23.97 Aligned_cols=48 Identities=23% Similarity=0.494 Sum_probs=27.4
Q ss_pred CCcEEEEEEECCChh----------HHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 20 HPDVFVIVYSVIERK----------TFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~----------s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
+..++|+|...++-+ .+......++.+-+..-...+-+|+.-||.||-
T Consensus 225 dvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRwL~tisvIlFLNKqDll 282 (379)
T KOG0099|consen 225 DVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLL 282 (379)
T ss_pred CccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhHHhhhheeEEecHHHHH
Confidence 688999887765431 121111222222222223567889999999984
No 333
>COG4502 5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism]
Probab=68.77 E-value=16 Score=21.56 Aligned_cols=41 Identities=17% Similarity=0.412 Sum_probs=28.5
Q ss_pred cEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCC
Q psy5805 22 DVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKA 64 (75)
Q Consensus 22 ~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~ 64 (75)
+..|.--.++-+.|++.--.|+.+.-- ..+.--+|+||||.
T Consensus 85 ~vYivtaamdhp~s~~dK~eWl~E~FP--Fi~~qn~vfCgnKn 125 (180)
T COG4502 85 NVYIVTAAMDHPKSCEDKGEWLKEKFP--FISYQNIVFCGNKN 125 (180)
T ss_pred eEEEEEeccCCchhHHHHHHHHHHHCC--CCChhhEEEecCCC
Confidence 455655566678999999999876532 23344588999984
No 334
>PF10995 DUF2819: Protein of unknown function (DUF2819); InterPro: IPR017745 This protein, called BcsE (bacterial cellulose synthase E) or YhjS, is required for cellulose biosynthesis in Salmonella enteritidis. Its role is this process across multiple bacterial species is implied by the partial phylogenetic profiling algorithm []. The protein is encoded in the vicinity of other cellulose biosynthesis genes and has been [] suggested to act as a protease.
Probab=66.55 E-value=31 Score=22.74 Aligned_cols=39 Identities=13% Similarity=0.313 Sum_probs=31.6
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEE
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILV 60 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilv 60 (75)
++.+.-++|++++.+-++.+......++... ++..+|+|
T Consensus 103 ~a~AATvifs~~~~~qi~~LA~~ih~LRr~~--G~~LKIvV 141 (316)
T PF10995_consen 103 TAQAATVIFSCTQNDQIEQLARQIHQLRRQR--GSALKIVV 141 (316)
T ss_pred ccceeEEEEEeCChHHHHHHHHHHHHHHHhc--CccceEEE
Confidence 5899999999999999999999888888743 55555544
No 335
>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]
Probab=65.67 E-value=33 Score=22.28 Aligned_cols=44 Identities=14% Similarity=0.074 Sum_probs=32.8
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
++|.+|+|-..| +.++..++.-++.++. -++|..+|-||.++..
T Consensus 185 ~aD~ai~VTEPT-p~glhD~kr~~el~~~----f~ip~~iViNr~~~g~ 228 (284)
T COG1149 185 GADLAILVTEPT-PFGLHDLKRALELVEH----FGIPTGIVINRYNLGD 228 (284)
T ss_pred cCCEEEEEecCC-ccchhHHHHHHHHHHH----hCCceEEEEecCCCCc
Confidence 699999986665 5677777776666554 3589999999996643
No 336
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=64.30 E-value=22 Score=23.36 Aligned_cols=39 Identities=23% Similarity=0.287 Sum_probs=22.1
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
+|.++++.+....+.+..+. ..+.+ +.-++|.||+|+..
T Consensus 170 aD~vlvv~~p~~gd~iq~~k---~gi~E------~aDIiVVNKaDl~~ 208 (332)
T PRK09435 170 VDFFLLLQLPGAGDELQGIK---KGIME------LADLIVINKADGDN 208 (332)
T ss_pred CCEEEEEecCCchHHHHHHH---hhhhh------hhheEEeehhcccc
Confidence 88888885533333333222 21222 22389999999854
No 337
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=64.16 E-value=26 Score=20.98 Aligned_cols=41 Identities=15% Similarity=0.281 Sum_probs=25.7
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEee
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVAN 62 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgn 62 (75)
+++. +..+.+...++..+..+.+.+++....+++++++-|.
T Consensus 133 ~~d~--v~lS~~~~~~~~~~~~~i~~lr~~~~~~~~~i~vGG~ 173 (201)
T cd02070 133 KPDI--LGLSALMTTTMGGMKEVIEALKEAGLRDKVKVMVGGA 173 (201)
T ss_pred CCCE--EEEeccccccHHHHHHHHHHHHHCCCCcCCeEEEECC
Confidence 4554 4445555667888899999988742122566665553
No 338
>COG4963 CpaE Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]
Probab=63.65 E-value=40 Score=22.70 Aligned_cols=46 Identities=24% Similarity=0.310 Sum_probs=36.2
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
++|.+++|.+.+ -.|+.+.++.++++++.. ..+.+..++-||..-.
T Consensus 239 ~Sd~iviv~e~s-l~slR~ak~lld~l~~~r-~~~~~p~lv~n~~~~~ 284 (366)
T COG4963 239 GSDEIVIVAEPS-LASLRNAKELLDELKRLR-PNDPKPILVLNRVGVP 284 (366)
T ss_pred cCCeEEEEeccc-HHHHHHHHHHHHHHHHhC-CCCCCceEEeeecCCC
Confidence 699999999874 678888888888888765 4566778888887643
No 339
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=62.78 E-value=24 Score=19.37 Aligned_cols=42 Identities=12% Similarity=0.086 Sum_probs=28.3
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKA 64 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~ 64 (75)
+++.+.+.+ ++..+...++.+.+.+++.. .+++++++-|+..
T Consensus 50 ~~d~V~iS~--~~~~~~~~~~~~~~~L~~~~-~~~i~i~~GG~~~ 91 (122)
T cd02071 50 DVDVIGLSS--LSGGHMTLFPEVIELLRELG-AGDILVVGGGIIP 91 (122)
T ss_pred CCCEEEEcc--cchhhHHHHHHHHHHHHhcC-CCCCEEEEECCCC
Confidence 567766654 45777888899998888742 3466666665554
No 340
>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]
Probab=62.22 E-value=29 Score=26.91 Aligned_cols=47 Identities=26% Similarity=0.232 Sum_probs=32.2
Q ss_pred CCcEEEEEEECCChhHH---------HHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 20 HPDVFVIVYSVIERKTF---------KKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~---------~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
..+|+|+..|+.+.-+- ..++.-+.++.+.- .-.+|++++.||.|+.
T Consensus 214 piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL-~~~~PVYl~lTk~Dll 269 (1188)
T COG3523 214 PLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETL-HARLPVYLVLTKADLL 269 (1188)
T ss_pred CCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhh-ccCCceEEEEeccccc
Confidence 68999999998755222 22344455555532 2578999999999984
No 341
>KOG0467|consensus
Probab=62.21 E-value=18 Score=26.84 Aligned_cols=52 Identities=23% Similarity=0.256 Sum_probs=36.7
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCCh---hHHHHHH-HHHHHHHhhcCCCCCeEEEEeeCCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIER---KTFKKAE-DMLKTLWDSKYIGEKAVILVANKAD 65 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~---~s~~~~~-~~~~~~~~~~~~~~~~~ilvgnK~D 65 (75)
-||-.|.+...+..+. +|++++..|+..- ++..-++ .|. .+...++|-||+|
T Consensus 80 pghvdf~sevssas~l--~d~alvlvdvvegv~~qt~~vlrq~~~---------~~~~~~lvinkid 135 (887)
T KOG0467|consen 80 PGHVDFSSEVSSASRL--SDGALVLVDVVEGVCSQTYAVLRQAWI---------EGLKPILVINKID 135 (887)
T ss_pred CCccchhhhhhhhhhh--cCCcEEEEeeccccchhHHHHHHHHHH---------ccCceEEEEehhh
Confidence 4788898888887776 8999988887643 3433332 242 3456688999999
No 342
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=61.22 E-value=30 Score=20.80 Aligned_cols=40 Identities=15% Similarity=0.177 Sum_probs=24.6
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEe
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVA 61 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvg 61 (75)
+++.+. .+.+...+...++.+.+.+++....+++++++-|
T Consensus 135 ~pd~v~--lS~~~~~~~~~~~~~i~~l~~~~~~~~v~i~vGG 174 (197)
T TIGR02370 135 KPLMLT--GSALMTTTMYGQKDINDKLKEEGYRDSVKFMVGG 174 (197)
T ss_pred CCCEEE--EccccccCHHHHHHHHHHHHHcCCCCCCEEEEEC
Confidence 455444 4555666777888898888874322345555444
No 343
>COG2813 RsmC 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]
Probab=60.99 E-value=36 Score=22.27 Aligned_cols=42 Identities=19% Similarity=0.193 Sum_probs=28.5
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADL 66 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl 66 (75)
++|++++-|.-+. ...+.++..+... ..++..++++|.|-|-
T Consensus 37 ~~d~~l~~~pK~~----~e~e~qLa~ll~~-~~~g~~i~v~g~~~~g 78 (300)
T COG2813 37 DFDAVLLYWPKHK----AEAEFQLAQLLAR-LPPGGEIVVVGEKRDG 78 (300)
T ss_pred CCCEEEEEccCch----HHHHHHHHHHHhh-CCCCCeEEEEecccch
Confidence 5788888875443 3445555555553 3468899999998875
No 344
>TIGR03677 rpl7ae 50S ribosomal protein L7Ae. Multifunctional RNA-binding protein that recognizes the K-turn motif in ribosomal RNA, box H/ACA, box C/D and box C'/D' sRNAs. Interacts with protein L15e.
Probab=60.79 E-value=18 Score=20.05 Aligned_cols=40 Identities=18% Similarity=0.162 Sum_probs=25.2
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
+..+|+.=|++..+.-..+..+.+ ..++|++.+++|.+|.
T Consensus 43 a~LVilA~D~s~~~~~~~i~~lc~-------~~~Ip~~~~~sk~eLG 82 (117)
T TIGR03677 43 AKLVVIAEDVEPPEIVAHLPALCE-------EKGIPYVYVKKKEDLG 82 (117)
T ss_pred ccEEEEeCCCCcHHHHHHHHHHHH-------HcCCCEEEeCCHHHHH
Confidence 556666666655444444444422 2568999999998884
No 345
>KOG0410|consensus
Probab=60.69 E-value=22 Score=23.97 Aligned_cols=48 Identities=23% Similarity=0.308 Sum_probs=34.4
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCe----EEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKA----VILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~----~ilvgnK~Dl~~ 68 (75)
.+|.++.|-|++.|+-=.+....+.-+.+.. .++.| ++=|-||.|...
T Consensus 257 eadlllHvvDiShP~ae~q~e~Vl~vL~~ig-v~~~pkl~~mieVdnkiD~e~ 308 (410)
T KOG0410|consen 257 EADLLLHVVDISHPNAEEQRETVLHVLNQIG-VPSEPKLQNMIEVDNKIDYEE 308 (410)
T ss_pred hcceEEEEeecCCccHHHHHHHHHHHHHhcC-CCcHHHHhHHHhhcccccccc
Confidence 4999999999999987766666655555543 33344 466889999853
No 346
>PRK15029 arginine decarboxylase; Provisional
Probab=60.42 E-value=25 Score=25.80 Aligned_cols=44 Identities=11% Similarity=0.292 Sum_probs=33.3
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKAD 65 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~D 65 (75)
+.|++|+=+.+.+.+.++.+..++..+++. ..++|++++..+.|
T Consensus 53 ~~DlVLLD~~LPd~dG~~~~~ell~~IR~~--~~~iPIIlLTar~~ 96 (755)
T PRK15029 53 AIDCLMFSYQMEHPDEHQNVRQLIGKLHER--QQNVPVFLLGDREK 96 (755)
T ss_pred CCcEEEEECCCCCCccchhHHHHHHHHHhh--CCCCCEEEEEcCCc
Confidence 378888877788888887666677777652 35799999988876
No 347
>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=60.39 E-value=21 Score=24.66 Aligned_cols=26 Identities=23% Similarity=0.282 Sum_probs=19.4
Q ss_pred CcEEEEEEECCChhHH-HHHHHHHHHH
Q psy5805 21 PDVFVIVYSVIERKTF-KKAEDMLKTL 46 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~-~~~~~~~~~~ 46 (75)
--.+++|.|++.|-++ +.++.|+..+
T Consensus 101 ~t~vvIvlDlS~PW~~~esL~~W~~vl 127 (472)
T PF05783_consen 101 NTLVVIVLDLSKPWNIMESLEKWLSVL 127 (472)
T ss_pred ceEEEEEecCCChHHHHHHHHHHHHHH
Confidence 4578899999999765 5777776533
No 348
>PRK13505 formate--tetrahydrofolate ligase; Provisional
Probab=59.79 E-value=17 Score=25.80 Aligned_cols=31 Identities=16% Similarity=0.176 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 35 TFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 35 s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
.|.++.+.++.++. =++|++++-||.|...+
T Consensus 357 Gl~NL~RHIenvr~----FGvPvVVAINKFd~DTe 387 (557)
T PRK13505 357 GFANLERHIENIRK----FGVPVVVAINKFVTDTD 387 (557)
T ss_pred HHHHHHHHHHHHHH----cCCCEEEEEeCCCCCCH
Confidence 34455555555543 35899999999998644
No 349
>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]
Probab=59.77 E-value=32 Score=23.80 Aligned_cols=57 Identities=25% Similarity=0.133 Sum_probs=34.2
Q ss_pred cccccc-hhhhhhhhhccCCcEEEEEEECC---ChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 3 SRTSCF-TNLVVNFVQTYHPDVFVIVYSVI---ERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 3 s~~e~f-~~~~~~~~~~~~~~~~ilv~d~~---~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
-||++| .++..... +.+.+++|.+.+ ..++.+++.- +.. .+-.-.++|.+|+|..++
T Consensus 58 pgh~~~i~~miag~~---~~d~alLvV~~deGl~~qtgEhL~i----Ldl---lgi~~giivltk~D~~d~ 118 (447)
T COG3276 58 PGHPDFISNLLAGLG---GIDYALLVVAADEGLMAQTGEHLLI----LDL---LGIKNGIIVLTKADRVDE 118 (447)
T ss_pred CCcHHHHHHHHhhhc---CCceEEEEEeCccCcchhhHHHHHH----HHh---cCCCceEEEEeccccccH
Confidence 366666 33433333 489999999884 4556555422 221 123346899999998753
No 350
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=58.39 E-value=8.4 Score=22.31 Aligned_cols=17 Identities=47% Similarity=0.427 Sum_probs=12.6
Q ss_pred CCeEEEEeeCCCCcCCC
Q psy5805 54 EKAVILVANKADLERRR 70 (75)
Q Consensus 54 ~~~~ilvgnK~Dl~~~r 70 (75)
..|+|=|.+|.||.+..
T Consensus 90 ~k~vIgvVTK~DLaed~ 106 (148)
T COG4917 90 VKKVIGVVTKADLAEDA 106 (148)
T ss_pred ccceEEEEecccccchH
Confidence 34578889999998543
No 351
>KOG1752|consensus
Probab=56.99 E-value=23 Score=19.37 Aligned_cols=40 Identities=13% Similarity=-0.010 Sum_probs=24.6
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKA 64 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~ 64 (75)
++...++-.|-. +--.++++++.++. ....+|.|+||.|.
T Consensus 38 ~v~~~vvELD~~--~~g~eiq~~l~~~t---g~~tvP~vFI~Gk~ 77 (104)
T KOG1752|consen 38 GVNPKVVELDED--EDGSEIQKALKKLT---GQRTVPNVFIGGKF 77 (104)
T ss_pred CCCCEEEEccCC--CCcHHHHHHHHHhc---CCCCCCEEEECCEE
Confidence 444455544444 33337777776654 24689999888774
No 352
>PRK04017 hypothetical protein; Provisional
Probab=56.91 E-value=30 Score=19.83 Aligned_cols=33 Identities=27% Similarity=0.489 Sum_probs=23.8
Q ss_pred hhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 33 RKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 33 ~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
++.|+.+..|++++++.. .+=.+|+|-.|.|..
T Consensus 3 ~~~~~~~~e~i~~L~e~s--~~g~vIVVEGk~D~~ 35 (132)
T PRK04017 3 RENYERFEEIIEELKEFS--EAGAPIIVEGKRDVE 35 (132)
T ss_pred HHHHHHHHHHHHHHHHhc--CCCCEEEEeCccHHH
Confidence 456889999999999853 343556677787754
No 353
>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=56.66 E-value=17 Score=24.45 Aligned_cols=41 Identities=29% Similarity=0.331 Sum_probs=25.7
Q ss_pred CcEEEEEEECCCh----hHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 21 PDVFVIVYSVIER----KTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 21 ~~~~ilv~d~~~~----~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.||+++|...+.+ ++-+++... ++. +-.-++++-||.||..
T Consensus 110 MDgAlLvIaANEpcPQPQT~EHl~Al--eIi-----gik~iiIvQNKIDlV~ 154 (415)
T COG5257 110 MDGALLVIAANEPCPQPQTREHLMAL--EII-----GIKNIIIVQNKIDLVS 154 (415)
T ss_pred hcceEEEEecCCCCCCCchHHHHHHH--hhh-----ccceEEEEecccceec
Confidence 5888999888765 343333221 121 2235889999999954
No 354
>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure. Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.
Probab=56.33 E-value=32 Score=18.77 Aligned_cols=39 Identities=18% Similarity=0.253 Sum_probs=25.3
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCC
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKA 64 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~ 64 (75)
..++++-|| .+..+.....+..++.. ..++|+++++++.
T Consensus 39 i~avvi~~d---~~~~~~~~~ll~~i~~~--~~~iPVFl~~~~~ 77 (115)
T PF03709_consen 39 IAAVVISWD---GEEEDEAQELLDKIRER--NFGIPVFLLAERD 77 (115)
T ss_dssp EEEEEEECH---HHHHHHHHHHHHHHHHH--STT-EEEEEESCC
T ss_pred eeEEEEEcc---cccchhHHHHHHHHHHh--CCCCCEEEEecCC
Confidence 455555555 55555566677777764 4789999998854
No 355
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=54.99 E-value=25 Score=19.68 Aligned_cols=41 Identities=17% Similarity=0.226 Sum_probs=29.0
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
.+.-+++.=|++-++....+... .+ ..++|++.|++|..|.
T Consensus 43 ~a~LVviA~Dv~P~~~~~~l~~l----c~---~~~vpyv~V~sk~~LG 83 (116)
T COG1358 43 KAKLVVIAEDVSPEELVKHLPAL----CE---EKNVPYVYVGSKKELG 83 (116)
T ss_pred CCcEEEEecCCCHHHHHHHHHHH----HH---hcCCCEEEeCCHHHHH
Confidence 47778888887756665555443 22 2679999999998885
No 356
>cd07379 MPP_239FB Homo sapiens 239FB and related proteins, metallophosphatase domain. 239FB (Fetal brain protein 239) is thought to play a role in central nervous system development, but its specific role in unknown. 239FB is expressed predominantly in human fetal brain from a gene located in the chromosome 11p13 region associated with the mental retardation component of the WAGR (Wilms tumor, Aniridia, Genitourinary anomalies, Mental retardation) syndrome. Orthologous brp-like (brain protein 239-like) proteins have been identified in the invertebrate amphioxus group and in vertebrates. 239FB belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzyme
Probab=54.28 E-value=36 Score=18.71 Aligned_cols=44 Identities=23% Similarity=0.329 Sum_probs=24.1
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADL 66 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl 66 (75)
++|.++++=|+.+.........+.+.+.+.. ....+++.|| .|.
T Consensus 19 ~~D~vi~~GD~~~~~~~~~~~~~~~~l~~~~--~~~~~~v~GN-HD~ 62 (135)
T cd07379 19 DGDVLIHAGDLTERGTLEELQKFLDWLKSLP--HPHKIVIAGN-HDL 62 (135)
T ss_pred CCCEEEECCCCCCCCCHHHHHHHHHHHHhCC--CCeEEEEECC-CCC
Confidence 5899999999887654443333333333311 1112456676 553
No 357
>COG0523 Putative GTPases (G3E family) [General function prediction only]
Probab=54.04 E-value=47 Score=21.82 Aligned_cols=43 Identities=21% Similarity=0.097 Sum_probs=22.4
Q ss_pred CcEEEEEEECCChhHHHH-HHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 21 PDVFVIVYSVIERKTFKK-AEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~-~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
-++++-|.|...-..-.. +.....+... .-=+++.||.||.+.
T Consensus 117 ld~vvtvVDa~~~~~~~~~~~~~~~~Qia------~AD~ivlNK~Dlv~~ 160 (323)
T COG0523 117 LDGVVTVVDAAHFLEGLDAIAELAEDQLA------FADVIVLNKTDLVDA 160 (323)
T ss_pred eceEEEEEeHHHhhhhHHHHHHHHHHHHH------hCcEEEEecccCCCH
Confidence 577777777654433222 2222222211 122778899998653
No 358
>PTZ00235 DNA polymerase epsilon subunit B; Provisional
Probab=53.75 E-value=48 Score=21.61 Aligned_cols=43 Identities=14% Similarity=0.159 Sum_probs=27.0
Q ss_pred cEEEEEEE--CCChhHHHHHHHHHHHHHhhcCCC--CCeEEEEeeCC
Q psy5805 22 DVFVIVYS--VIERKTFKKAEDMLKTLWDSKYIG--EKAVILVANKA 64 (75)
Q Consensus 22 ~~~ilv~d--~~~~~s~~~~~~~~~~~~~~~~~~--~~~~ilvgnK~ 64 (75)
+.+|++=| ++++.+++.++..+..+....... +..+|++||=+
T Consensus 28 ~~~VilSDV~LD~p~tl~~L~kvf~~y~~~~~~~~~P~~fVL~GnF~ 74 (291)
T PTZ00235 28 HNWIIMHDVYLDSPYTFEVLDKMLSLYVNTYPENELPVGFIFMGDFI 74 (291)
T ss_pred eEEEEEEeeccCCHHHHHHHHHHHHHhhccCcccCCCeEEEEecCcc
Confidence 44555455 478899999998887775321112 34467888854
No 359
>COG5258 GTPBP1 GTPase [General function prediction only]
Probab=53.67 E-value=56 Score=22.72 Aligned_cols=59 Identities=20% Similarity=0.101 Sum_probs=34.6
Q ss_pred cccccc--hhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 3 SRTSCF--TNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 3 s~~e~f--~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|||++ .+++...-+ ..|-.+++...++--+--. +..+.... .-+.|++++-+|+|+..
T Consensus 209 vGHEpwLrTtirGL~gq--k~dYglLvVaAddG~~~~t-kEHLgi~~----a~~lPviVvvTK~D~~~ 269 (527)
T COG5258 209 VGHEPWLRTTIRGLLGQ--KVDYGLLVVAADDGVTKMT-KEHLGIAL----AMELPVIVVVTKIDMVP 269 (527)
T ss_pred CCccHHHHHHHHHHhcc--ccceEEEEEEccCCcchhh-hHhhhhhh----hhcCCEEEEEEecccCc
Confidence 578877 244444444 4788888877665432111 11111111 24689999999999954
No 360
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=53.62 E-value=30 Score=20.20 Aligned_cols=42 Identities=19% Similarity=0.226 Sum_probs=24.0
Q ss_pred CCcEEEEEEECCChhHHHHHHH-HHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAED-MLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~-~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
..+.+|.+.|..+-.....+.. +.+++.. -=+++-||+|+.+
T Consensus 113 ~~~~iI~vVDa~~~~~~~~~~~~~~~Qi~~-------ADvIvlnK~D~~~ 155 (178)
T PF02492_consen 113 RLDSIITVVDATNFDELENIPELLREQIAF-------ADVIVLNKIDLVS 155 (178)
T ss_dssp SESEEEEEEEGTTHGGHTTHCHHHHHHHCT--------SEEEEE-GGGHH
T ss_pred cccceeEEeccccccccccchhhhhhcchh-------cCEEEEeccccCC
Confidence 3678888888876544444432 2233322 1267889999853
No 361
>KOG2455|consensus
Probab=53.52 E-value=25 Score=24.50 Aligned_cols=37 Identities=27% Similarity=0.298 Sum_probs=27.5
Q ss_pred ECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 29 SVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 29 d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
-+-+..+|..++.|++..+. .++ .-||+|.|||-..-
T Consensus 387 avIh~~sF~rl~k~le~ak~---~~~-leiL~GGk~DdS~G 423 (561)
T KOG2455|consen 387 AVIHDKSFARLKKVLEHAKK---DPE-LEILAGGKCDDSTG 423 (561)
T ss_pred hhccHHHHHHHHHHHHhhcc---Ccc-ceeeecCcccCCCC
Confidence 34567899999999877764 233 56889999997543
No 362
>PF10551 MULE: MULE transposase domain; InterPro: IPR018289 This entry represents a domain found in Mutator-like elements (MULE)-encoded tranposases, some of which also contain a zinc-finger motif [, ]. This domain is also found in a transposase for the insertion sequence element IS256 in transposon Tn4001 [].
Probab=53.51 E-value=30 Score=17.59 Aligned_cols=39 Identities=10% Similarity=0.226 Sum_probs=27.8
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEe
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVA 61 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvg 61 (75)
..++++.|.+...++-+.....++.+++... .. |.+++.
T Consensus 24 ~~~~~v~~~l~~~e~~~~~~~~l~~~~~~~~-~~-p~~ii~ 62 (93)
T PF10551_consen 24 GRGFPVAFALVSSESEESYEWFLEKLKEAMP-QK-PKVIIS 62 (93)
T ss_pred CCEEEEEEEEEcCCChhhhHHHHHHhhhccc-cC-ceeeec
Confidence 4778999999999888888777776665432 24 666554
No 363
>KOG2485|consensus
Probab=53.44 E-value=28 Score=23.08 Aligned_cols=42 Identities=24% Similarity=0.268 Sum_probs=28.5
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
..|++|-+-|.-=|-|-.+ ..++. ..+..|-|+|-||+||.+
T Consensus 46 ~~D~iiEvrDaRiPLssrn-----~~~~~--~~~~k~riiVlNK~DLad 87 (335)
T KOG2485|consen 46 LVDCIIEVRDARIPLSSRN-----ELFQD--FLPPKPRIIVLNKMDLAD 87 (335)
T ss_pred cccEEEEeeccccCCcccc-----HHHHH--hcCCCceEEEEecccccC
Confidence 3788888888765544333 12222 235778999999999976
No 364
>cd03112 CobW_like The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.
Probab=52.07 E-value=40 Score=19.30 Aligned_cols=40 Identities=15% Similarity=0.112 Sum_probs=20.9
Q ss_pred CCcEEEEEEECCChhHH-HHHHHHHHHHHhhcCCCCCeEEEEeeCCCC
Q psy5805 20 HPDVFVIVYSVIERKTF-KKAEDMLKTLWDSKYIGEKAVILVANKADL 66 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~-~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl 66 (75)
..++++.+.|..+-... .+...+..++.. -=+++-||+|+
T Consensus 118 ~~d~vv~vvDa~~~~~~~~~~~~~~~Qi~~-------ad~ivlnk~dl 158 (158)
T cd03112 118 LLDGVITLVDAKHANQHLDQQTEAQSQIAF-------ADRILLNKTDL 158 (158)
T ss_pred eeccEEEEEEhhHhHHHhhccHHHHHHHHH-------CCEEEEecccC
Confidence 37788888885433221 111223333332 11568899986
No 365
>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=51.95 E-value=36 Score=18.08 Aligned_cols=43 Identities=21% Similarity=0.270 Sum_probs=28.2
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANK 63 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK 63 (75)
.+|.++++.+. +..++..+..+.+.+++....+...+.+|.|+
T Consensus 64 ~aD~vlvvv~~-~~~s~~~~~~~~~~l~~~~~~~~~~~~lVvNr 106 (106)
T cd03111 64 QADRVFLVTQQ-DLPSIRNAKRLLELLRVLDYSLPAKIELVLNR 106 (106)
T ss_pred HcCeEEEEecC-ChHHHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence 38888888754 57788888888777766432113456667664
No 366
>TIGR03369 cellulose_bcsE cellulose biosynthesis protein BcsE. This protein, called BcsE (bacterial cellulose synthase E) or YhjS, is required for cellulose biosynthesis in Salmonella enteritidis. Its role is this process across multiple bacterial species is implied by the partial phylogenetic profiling algorithm. Members are found in the vicinity of other cellulose biosynthesis genes. The model does not include a much less well-conserved N-terminal region about 150 amino acids in length for most members. Solano, et al. suggest this protein acts as a protease.
Probab=51.69 E-value=69 Score=21.24 Aligned_cols=43 Identities=16% Similarity=0.191 Sum_probs=31.9
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEE-eeCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILV-ANKA 64 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilv-gnK~ 64 (75)
++.+.-++|++++.+-.+.+..-...+++. .++..+|+| -++.
T Consensus 108 ~a~AATvvfs~~~~~qle~La~qih~LRr~--~G~aLKIvVRE~~~ 151 (322)
T TIGR03369 108 GAHAATVVLSCTGTTQLEQLAAQVHALRRQ--CGSALKIVVREMKE 151 (322)
T ss_pred ccceeEEEEEcCCchHHHHHHHHHHHHHHh--cCccceEEEEechh
Confidence 588999999999999999997777777764 355555444 4443
No 367
>KOG3905|consensus
Probab=51.06 E-value=35 Score=23.12 Aligned_cols=27 Identities=7% Similarity=0.171 Sum_probs=20.7
Q ss_pred cEEEEEEECCCh-hHHHHHHHHHHHHHh
Q psy5805 22 DVFVIVYSVIER-KTFKKAEDMLKTLWD 48 (75)
Q Consensus 22 ~~~ilv~d~~~~-~s~~~~~~~~~~~~~ 48 (75)
-.+|++-|++++ .-++++++|..-+.+
T Consensus 129 tlviltasms~Pw~~lesLqkWa~Vl~e 156 (473)
T KOG3905|consen 129 TLVILTASMSNPWTLLESLQKWASVLRE 156 (473)
T ss_pred eEEEEEEecCCcHHHHHHHHHHHHHHHH
Confidence 367889999999 667888999765543
No 368
>PF00462 Glutaredoxin: Glutaredoxin; InterPro: IPR002109 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This entry represents Glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis; PDB: 1QFN_A 1GRX_A 1EGO_A 1EGR_A 3RHC_A 3RHB_A 3IPZ_A 1NHO_A 3GX8_A 3D5J_A ....
Probab=50.71 E-value=23 Score=16.49 Aligned_cols=36 Identities=14% Similarity=0.110 Sum_probs=19.9
Q ss_pred cEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeC
Q psy5805 22 DVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANK 63 (75)
Q Consensus 22 ~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK 63 (75)
..-.-..|+++.. ..+. ++.+......+|.++++++
T Consensus 23 ~i~y~~~dv~~~~---~~~~---~l~~~~g~~~~P~v~i~g~ 58 (60)
T PF00462_consen 23 GIPYEEVDVDEDE---EARE---ELKELSGVRTVPQVFIDGK 58 (60)
T ss_dssp TBEEEEEEGGGSH---HHHH---HHHHHHSSSSSSEEEETTE
T ss_pred CCeeeEcccccch---hHHH---HHHHHcCCCccCEEEECCE
Confidence 3445567777654 2222 2222223578999998765
No 369
>COG1010 CobJ Precorrin-3B methylase [Coenzyme metabolism]
Probab=50.40 E-value=65 Score=20.56 Aligned_cols=44 Identities=16% Similarity=0.306 Sum_probs=32.1
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKA 64 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~ 64 (75)
.+|-++..|..-++.-=.++.+-++.+.++. .++.|+.+|-|=.
T Consensus 154 ~adfVi~~YNP~s~~R~~~~~~a~eil~~~r-~~~tpVgivrnag 197 (249)
T COG1010 154 EADFVIALYNPISKRRPEQLGRAFEILREHR-SPDTPVGIVRNAG 197 (249)
T ss_pred hCCEEEEEECCccccchHHHHHHHHHHHHhc-CCCCcEEEEecCC
Confidence 5888999998887776566666666677665 4788988876543
No 370
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=49.83 E-value=32 Score=24.97 Aligned_cols=46 Identities=22% Similarity=0.216 Sum_probs=31.3
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCCCcc
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERRRQV 72 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~r~v 72 (75)
++|.++-|.|.++.+.=-.+ .-++.+ -+.|++++-|+.|...++.+
T Consensus 81 ~~D~ivnVvDAtnLeRnLyl---tlQLlE----~g~p~ilaLNm~D~A~~~Gi 126 (653)
T COG0370 81 KPDLIVNVVDATNLERNLYL---TLQLLE----LGIPMILALNMIDEAKKRGI 126 (653)
T ss_pred CCCEEEEEcccchHHHHHHH---HHHHHH----cCCCeEEEeccHhhHHhcCC
Confidence 67999999999876532111 123333 35789999999999766544
No 371
>PRK09602 translation-associated GTPase; Reviewed
Probab=49.12 E-value=48 Score=22.31 Aligned_cols=28 Identities=14% Similarity=0.128 Sum_probs=20.3
Q ss_pred ccccchhhhhhhhhcc-CCcEEEEEEECC
Q psy5805 4 RTSCFTNLVVNFVQTY-HPDVFVIVYSVI 31 (75)
Q Consensus 4 ~~e~f~~~~~~~~~~~-~~~~~ilv~d~~ 31 (75)
|.+.+..+...|...+ ++|++++|+|..
T Consensus 85 ga~~g~glg~~fL~~ir~ad~ll~Vvd~~ 113 (396)
T PRK09602 85 GAHEGRGLGNQFLDDLRQADALIHVVDAS 113 (396)
T ss_pred CccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence 3455667777773332 699999999997
No 372
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=48.65 E-value=36 Score=19.04 Aligned_cols=40 Identities=18% Similarity=0.153 Sum_probs=24.8
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
+..+|+.=|++..+....+..+.+ ..++|++.+++|.+|.
T Consensus 47 akLVilA~D~s~~~i~~~~~~lc~-------~~~Vp~~~~~tk~eLG 86 (122)
T PRK04175 47 AKLVVIAEDVDPEEIVAHLPLLCE-------EKKIPYVYVPSKKDLG 86 (122)
T ss_pred ccEEEEeCCCChHHHHHHHHHHHH-------HcCCCEEEECCHHHHH
Confidence 555666666654443444444422 2568999999998874
No 373
>cd01832 SGNH_hydrolase_like_1 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid. Myxobacterial members of this subfamily have been reported to be involved in adventurous gliding motility.
Probab=48.49 E-value=51 Score=18.78 Aligned_cols=38 Identities=13% Similarity=0.216 Sum_probs=23.4
Q ss_pred CCcEEEEEEECCChhH--------HHHHHHHHHHHHhhcCCCCCeEEEEe
Q psy5805 20 HPDVFVIVYSVIERKT--------FKKAEDMLKTLWDSKYIGEKAVILVA 61 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s--------~~~~~~~~~~~~~~~~~~~~~~ilvg 61 (75)
+++.+++.+-.+|... .+.+...+..++ .++.++++++
T Consensus 67 ~~d~vii~~G~ND~~~~~~~~~~~~~~~~~~i~~i~----~~~~~vil~~ 112 (185)
T cd01832 67 RPDLVTLLAGGNDILRPGTDPDTYRADLEEAVRRLR----AAGARVVVFT 112 (185)
T ss_pred CCCEEEEeccccccccCCCCHHHHHHHHHHHHHHHH----hCCCEEEEec
Confidence 5889988887776643 344455555554 2455666664
No 374
>PF08468 MTS_N: Methyltransferase small domain N-terminal; InterPro: IPR013675 This domain is found to the N terminus of the methyltransferase small domain (IPR007848 from INTERPRO) in bacterial proteins []. ; GO: 0008990 rRNA (guanine-N2-)-methyltransferase activity, 0006364 rRNA processing; PDB: 2PJD_A.
Probab=47.24 E-value=57 Score=19.01 Aligned_cols=40 Identities=15% Similarity=0.196 Sum_probs=22.2
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKA 64 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~ 64 (75)
+.|.+|+.|-= +=..+..++..+...- ..+.+++|||-|.
T Consensus 69 ~~D~vvly~PK----aK~e~~~lL~~l~~~L-~~g~~i~vVGEnk 108 (155)
T PF08468_consen 69 DFDTVVLYWPK----AKAEAQYLLANLLSHL-PPGTEIFVVGENK 108 (155)
T ss_dssp T-SEEEEE--S----SHHHHHHHHHHHHTTS--TT-EEEEEEEGG
T ss_pred CCCEEEEEccC----cHHHHHHHHHHHHHhC-CCCCEEEEEecCc
Confidence 47888888743 3334455555555532 3578999999653
No 375
>PRK13660 hypothetical protein; Provisional
Probab=46.93 E-value=64 Score=19.48 Aligned_cols=38 Identities=16% Similarity=0.118 Sum_probs=22.2
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEE
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILV 60 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilv 60 (75)
+++++|++||-..+.+-... +...+......+.|++++
T Consensus 129 ~sd~~i~~YD~e~~Ggt~y~---~~~A~k~~~~~~y~i~~I 166 (182)
T PRK13660 129 HTDGALLVYDEENEGSPKYF---YEAAKKKQEKEDYPLDLI 166 (182)
T ss_pred ccCeEEEEEcCCCCCChHHH---HHHHHHhhhccCceEEEe
Confidence 89999999998765433322 222232212246677665
No 376
>cd07393 MPP_DR1119 Deinococcus radiodurans DR1119 and related proteins, metallophosphatase domain. DR1119 is an uncharacterized Deinococcus radiodurans protein with a metallophosphatase domain. The domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordinat
Probab=46.92 E-value=57 Score=19.89 Aligned_cols=40 Identities=18% Similarity=0.072 Sum_probs=22.6
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEee
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVAN 62 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgn 62 (75)
++|.+|+.=|+++....+.....+..+... ....+++.||
T Consensus 41 ~~D~viiaGDl~~~~~~~~~~~~l~~l~~l---~~~v~~V~GN 80 (232)
T cd07393 41 PEDIVLIPGDISWAMKLEEAKLDLAWIDAL---PGTKVLLKGN 80 (232)
T ss_pred CCCEEEEcCCCccCCChHHHHHHHHHHHhC---CCCeEEEeCC
Confidence 589999999999765444333333333321 2223455666
No 377
>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=46.31 E-value=48 Score=20.20 Aligned_cols=49 Identities=8% Similarity=0.249 Sum_probs=31.8
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhc----CCCCCeEEEEeeCCCCcC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSK----YIGEKAVILVANKADLER 68 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~----~~~~~~~ilvgnK~Dl~~ 68 (75)
++|+++++=|+.|......-..|.+.+++.. ..+++|++.|..--|...
T Consensus 42 ~PD~Vi~lGDL~D~G~~~~~~e~~e~l~Rf~~If~~~~~~~~~~VpGNHDIG~ 94 (195)
T cd08166 42 QPDIVIFLGDLMDEGSIANDDEYYSYVQRFINIFEVPNGTKIIYLPGDNDIGG 94 (195)
T ss_pred CCCEEEEeccccCCCCCCCHHHHHHHHHHHHHHhcCCCCCcEEEECCCCCcCC
Confidence 6999999999999976555555665555432 134567665544446543
No 378
>TIGR02181 GRX_bact Glutaredoxin, GrxC family. This family of glutaredoxins includes the E. coli protein GrxC (Grx3) which appears to have a secondary role in reducing ribonucleotide reductase (in the absence of GrxA) possibly indicating a role in the reduction of other protein disulfides.
Probab=45.19 E-value=36 Score=16.75 Aligned_cols=12 Identities=8% Similarity=0.105 Sum_probs=9.4
Q ss_pred CCCCeEEEEeeC
Q psy5805 52 IGEKAVILVANK 63 (75)
Q Consensus 52 ~~~~~~ilvgnK 63 (75)
...+|.|+++++
T Consensus 47 ~~~vP~i~i~g~ 58 (79)
T TIGR02181 47 RRTVPQIFIGDV 58 (79)
T ss_pred CCCcCEEEECCE
Confidence 467899988776
No 379
>COG4221 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]
Probab=44.02 E-value=55 Score=20.83 Aligned_cols=33 Identities=15% Similarity=0.216 Sum_probs=23.2
Q ss_pred ccccchhhhhhhhhccCCcEEEEEEECCChhHHHHH
Q psy5805 4 RTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKA 39 (75)
Q Consensus 4 ~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~ 39 (75)
+.|+-..+...+-. ..+..+++|++|+++.+..
T Consensus 39 R~drL~~la~~~~~---~~~~~~~~DVtD~~~~~~~ 71 (246)
T COG4221 39 REERLEALADEIGA---GAALALALDVTDRAAVEAA 71 (246)
T ss_pred cHHHHHHHHHhhcc---CceEEEeeccCCHHHHHHH
Confidence 44445555444443 5789999999999997765
No 380
>PF13124 DUF3963: Protein of unknown function (DUF3963)
Probab=43.17 E-value=29 Score=15.38 Aligned_cols=15 Identities=7% Similarity=0.333 Sum_probs=11.3
Q ss_pred hhHHHHHHHHHHHHH
Q psy5805 33 RKTFKKAEDMLKTLW 47 (75)
Q Consensus 33 ~~s~~~~~~~~~~~~ 47 (75)
+.-|+.+++|...+.
T Consensus 10 eryfddiqkwirnit 24 (40)
T PF13124_consen 10 ERYFDDIQKWIRNIT 24 (40)
T ss_pred HHHHHHHHHHHHHHH
Confidence 356888999987664
No 381
>PF04684 BAF1_ABF1: BAF1 / ABF1 chromatin reorganising factor; InterPro: IPR006774 ABF1 is a sequence-specific DNA binding protein involved in transcription activation, gene silencing and initiation of DNA replication. ABF1 is known to remodel chromatin, and it is proposed that it mediates its effects on transcription and gene expression by modifying local chromatin architecture []. These functions require a conserved stretch of 20 amino acids in the C-terminal region of ABF1 (amino acids 639 to 662 Saccharomyces cerevisiae (P14164 from SWISSPROT)) []. The N-terminal two thirds of the protein are necessary for DNA binding, and the N terminus (amino acids 9 to 91 in S. cerevisiae) is thought to contain a novel zinc-finger motif which may stabilise the protein structure [].; GO: 0003677 DNA binding, 0006338 chromatin remodeling, 0005634 nucleus
Probab=42.49 E-value=13 Score=25.77 Aligned_cols=27 Identities=19% Similarity=0.327 Sum_probs=20.3
Q ss_pred hhHHHHHHHHHHHHHhhcCCCCCeEEE
Q psy5805 33 RKTFKKAEDMLKTLWDSKYIGEKAVIL 59 (75)
Q Consensus 33 ~~s~~~~~~~~~~~~~~~~~~~~~~il 59 (75)
..+|..+..|+.-+..+..-..+||||
T Consensus 25 ~~~f~tl~~wy~v~ndyefq~rcpiil 51 (496)
T PF04684_consen 25 ARKFPTLEAWYNVINDYEFQSRCPIIL 51 (496)
T ss_pred ccCCCcHHHHHHHHhhhhhhhcCceee
Confidence 567999999998887665445677766
No 382
>PF00319 SRF-TF: SRF-type transcription factor (DNA-binding and dimerisation domain); InterPro: IPR002100 Human serum response factor (SRF) is a ubiquitous nuclear protein important for cell proliferation and differentiation. SRF function is essential for transcriptional regulation of numerous growth-factor-inducible genes, such as c-fos oncogene and muscle-specific actin genes. A core domain of around 90 amino acids is sufficient for the activities of DNA-binding, dimerisation and interaction with accessory factors. Within the core is a DNA-binding region, designated the MADS box [], that is highly similar to many eukaryotic regulatory proteins: among these are MCM1, the regulator of cell type-specific genes in fission yeast; DSRF, a Drosophila trachea development factor; the MEF2 family of myocyte-specific enhancer factors; and the Agamous and Deficiens families of plant homeotic proteins. In SRF, the MADS box has been shown to be involved in DNA-binding and dimerisation []. Proteins belonging to the MADS family function as dimers, the primary DNA-binding element of which is an anti-parallel coiled coil of two amphipathic alpha-helices, one from each subunit. The DNA wraps around the coiled coil allowing the basic N-termini of the helices to fit into the DNA major groove. The chain extending from the helix N-termini reaches over the DNA backbone and penetrates into the minor groove. A 4-stranded, anti-parallel beta-sheet packs against the coiled-coil face opposite the DNA and is the central element of the dimerisation interface. The MADS-box domain is commonly found associated with K-box region see IPR002487 from INTERPRO ; GO: 0003677 DNA binding, 0046983 protein dimerization activity; PDB: 1MNM_B 1N6J_A 1TQE_S 3MU6_D 3P57_I 1EGW_A 1C7U_B 3KOV_A 1HBX_A 1K6O_C ....
Probab=42.27 E-value=27 Score=16.58 Aligned_cols=14 Identities=36% Similarity=0.368 Sum_probs=10.7
Q ss_pred CCcEEEEEEECCCh
Q psy5805 20 HPDVFVIVYSVIER 33 (75)
Q Consensus 20 ~~~~~ilv~d~~~~ 33 (75)
|+++++++|+.++.
T Consensus 32 ~~~v~~iv~~~~g~ 45 (51)
T PF00319_consen 32 GVDVALIVFSPDGK 45 (51)
T ss_dssp T-EEEEEEEETTSE
T ss_pred CCeEEEEEECCCCC
Confidence 79999999987653
No 383
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=42.12 E-value=48 Score=22.12 Aligned_cols=36 Identities=17% Similarity=0.112 Sum_probs=25.4
Q ss_pred CChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 31 IERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 31 ~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
..++.|+.+..|+++++... .+--.|||-.|.|...
T Consensus 2 ~~~~~~~~~~~~~~~l~~~~--~~~~~ilveg~~d~~~ 37 (360)
T PRK14719 2 DKQESLEKLLLIIDDLKLLA--EKGIPILVEGPNDILS 37 (360)
T ss_pred CHHHHHHHHHHHHHHHHHhh--hCCCEEEEEcchHHHH
Confidence 34567999999999999743 4334566777888643
No 384
>PRK11148 cyclic 3',5'-adenosine monophosphate phosphodiesterase; Provisional
Probab=41.78 E-value=54 Score=20.48 Aligned_cols=40 Identities=13% Similarity=0.100 Sum_probs=26.4
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeE-EEEeeC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAV-ILVANK 63 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~-ilvgnK 63 (75)
.+|.+|+.=|+++..+.+....+.+.+.+. ++|+ ++.||-
T Consensus 55 ~~D~vvitGDl~~~~~~~~~~~~~~~l~~l----~~Pv~~v~GNH 95 (275)
T PRK11148 55 EFDLIVATGDLAQDHSSEAYQHFAEGIAPL----RKPCVWLPGNH 95 (275)
T ss_pred CCCEEEECCCCCCCCCHHHHHHHHHHHhhc----CCcEEEeCCCC
Confidence 489999999999876665555555555432 3565 455663
No 385
>TIGR00381 cdhD CO dehydrogenase/acetyl-CoA synthase, delta subunit. This is the small subunit of a heterodimer which catalyzes the reaction CO + H2O + Acceptor = CO2 + Reduced acceptor and is involved in the synthesis of acetyl-CoA from CO2 and H2.
Probab=41.26 E-value=49 Score=22.48 Aligned_cols=44 Identities=16% Similarity=0.157 Sum_probs=28.5
Q ss_pred cCCcEEEEEEECCChhHHHHHH-HHHHHHHhhcCCCCCeEEEEee
Q psy5805 19 YHPDVFVIVYSVIERKTFKKAE-DMLKTLWDSKYIGEKAVILVAN 62 (75)
Q Consensus 19 ~~~~~~ilv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~ilvgn 62 (75)
|++|.+.+.+.-+|++..+... ...+-++......++|++|.|+
T Consensus 152 ~~aD~Ialr~~S~DP~~~d~~~~e~a~~vk~V~~av~vPLIL~gs 196 (389)
T TIGR00381 152 FGADMVTIHLISTDPKLDDKSPSEAAKVLEDVLQAVDVPIVIGGS 196 (389)
T ss_pred hCCCEEEEEecCCCccccccCHHHHHHHHHHHHHhCCCCEEEeCC
Confidence 4799999999999998443321 1222233322246789999877
No 386
>PRK15045 cellulose biosynthesis protein BcsE; Provisional
Probab=40.98 E-value=1.3e+02 Score=21.42 Aligned_cols=43 Identities=23% Similarity=0.313 Sum_probs=31.9
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEE-eeCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILV-ANKA 64 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilv-gnK~ 64 (75)
++.+.-++|++++.+-.+.+..-...+++. .++..+|+| -++.
T Consensus 256 ~a~AATvVfs~~~~~qle~LA~qih~LRRq--~G~aLKIvVRE~~~ 299 (519)
T PRK15045 256 TAQAATVVFSLQQNAQIEPLARSIHTLRRQ--RGSAMKILVRENTA 299 (519)
T ss_pred ccceeEEEEEcCCchHHHHHHHHHHHHHHh--cCccceEEEEechh
Confidence 588999999999999999997777777774 355555444 4443
No 387
>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=40.60 E-value=66 Score=17.87 Aligned_cols=44 Identities=18% Similarity=0.220 Sum_probs=28.6
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADL 66 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl 66 (75)
.+|.++++.+.+ ..++..+..-++.+.+. ....++.+|.|+.+-
T Consensus 66 ~aD~vviv~~~~-~~s~~~~~~~l~~l~~~--~~~~~~~lVvN~~~~ 109 (139)
T cd02038 66 AADEVIVVTTPE-PTSITDAYALIKKLAKQ--LRVLNFRVVVNRAES 109 (139)
T ss_pred hCCeEEEEcCCC-hhHHHHHHHHHHHHHHh--cCCCCEEEEEeCCCC
Confidence 499999988764 55666555545555432 234567789999864
No 388
>PF14606 Lipase_GDSL_3: GDSL-like Lipase/Acylhydrolase family; PDB: 3SKV_B.
Probab=40.46 E-value=83 Score=18.94 Aligned_cols=40 Identities=18% Similarity=0.382 Sum_probs=23.3
Q ss_pred CCcEEEEEEECC-ChhHHH-HHHHHHHHHHhhcCCCCCeEEEEe
Q psy5805 20 HPDVFVIVYSVI-ERKTFK-KAEDMLKTLWDSKYIGEKAVILVA 61 (75)
Q Consensus 20 ~~~~~ilv~d~~-~~~s~~-~~~~~~~~~~~~~~~~~~~~ilvg 61 (75)
+++.+++-+-++ +++.|. .+...+..++. ..++.|++++-
T Consensus 59 ~a~~~~ld~~~N~~~~~~~~~~~~fv~~iR~--~hP~tPIllv~ 100 (178)
T PF14606_consen 59 DADLIVLDCGPNMSPEEFRERLDGFVKTIRE--AHPDTPILLVS 100 (178)
T ss_dssp --SEEEEEESHHCCTTTHHHHHHHHHHHHHT--T-SSS-EEEEE
T ss_pred CCCEEEEEeecCCCHHHHHHHHHHHHHHHHH--hCCCCCEEEEe
Confidence 567777766554 334554 34666677766 34789999875
No 389
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=39.11 E-value=74 Score=18.02 Aligned_cols=41 Identities=7% Similarity=0.130 Sum_probs=25.1
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKA 64 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~ 64 (75)
+++.+.+- .....+...++.+...++.. ..++++++ +|...
T Consensus 54 ~~d~V~lS--~~~~~~~~~~~~~~~~L~~~-~~~~~~i~-vGG~~ 94 (137)
T PRK02261 54 DADAILVS--SLYGHGEIDCRGLREKCIEA-GLGDILLY-VGGNL 94 (137)
T ss_pred CCCEEEEc--CccccCHHHHHHHHHHHHhc-CCCCCeEE-EECCC
Confidence 46666554 44446777788888888764 23455544 44443
No 390
>KOG0460|consensus
Probab=38.72 E-value=51 Score=22.48 Aligned_cols=41 Identities=24% Similarity=0.290 Sum_probs=25.8
Q ss_pred CcEEEEEEECCCh---hHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 21 PDVFVIVYSVIER---KTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 21 ~~~~ilv~d~~~~---~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.|+.|+|..-+|- ++=++ +-..++. +--.+++.-||.|+.+
T Consensus 141 MDGaILVVaatDG~MPQTrEH----lLLArQV---GV~~ivvfiNKvD~V~ 184 (449)
T KOG0460|consen 141 MDGAILVVAATDGPMPQTREH----LLLARQV---GVKHIVVFINKVDLVD 184 (449)
T ss_pred cCceEEEEEcCCCCCcchHHH----HHHHHHc---CCceEEEEEecccccC
Confidence 7999999988874 33232 2222332 2234778889999874
No 391
>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=38.41 E-value=67 Score=19.41 Aligned_cols=27 Identities=19% Similarity=0.259 Sum_probs=22.3
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHH
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLW 47 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~ 47 (75)
.|-++++.|+++..||+.++.=+..+.
T Consensus 65 IDlIVFvinl~sk~SL~~ve~SL~~vd 91 (176)
T PF11111_consen 65 IDLIVFVINLHSKYSLQSVEASLSHVD 91 (176)
T ss_pred eEEEEEEEecCCcccHHHHHHHHhhCC
Confidence 799999999999999998876554443
No 392
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=36.79 E-value=1e+02 Score=18.87 Aligned_cols=39 Identities=5% Similarity=0.051 Sum_probs=25.8
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEee
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVAN 62 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgn 62 (75)
+++.+.+ +.....+...++.+.+.+++. ..++++++-|.
T Consensus 139 ~~~~V~l--S~~~~~~~~~~~~~i~~L~~~--~~~~~i~vGG~ 177 (213)
T cd02069 139 KADIIGL--SGLLVPSLDEMVEVAEEMNRR--GIKIPLLIGGA 177 (213)
T ss_pred CCCEEEE--ccchhccHHHHHHHHHHHHhc--CCCCeEEEECh
Confidence 4555444 555667888889999998874 34666665553
No 393
>KOG2733|consensus
Probab=36.25 E-value=48 Score=22.60 Aligned_cols=21 Identities=0% Similarity=0.183 Sum_probs=17.2
Q ss_pred CcEEEEEEECCChhHHHHHHH
Q psy5805 21 PDVFVIVYSVIERKTFKKAED 41 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~ 41 (75)
+..+|++.|.+|++|++.+..
T Consensus 62 s~~~i~i~D~~n~~Sl~emak 82 (423)
T KOG2733|consen 62 SSSVILIADSANEASLDEMAK 82 (423)
T ss_pred ccceEEEecCCCHHHHHHHHh
Confidence 356699999999999998743
No 394
>COG4564 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=36.15 E-value=29 Score=23.51 Aligned_cols=16 Identities=25% Similarity=0.478 Sum_probs=13.3
Q ss_pred cCCcEEEEEEECCChh
Q psy5805 19 YHPDVFVIVYSVIERK 34 (75)
Q Consensus 19 ~~~~~~ilv~d~~~~~ 34 (75)
||+||.+++||....+
T Consensus 91 yG~DGYFF~YD~~G~N 106 (459)
T COG4564 91 YGSDGYFFVYDYQGTN 106 (459)
T ss_pred cCCCceEEEEecCCcc
Confidence 3899999999987654
No 395
>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=35.88 E-value=71 Score=16.85 Aligned_cols=11 Identities=18% Similarity=0.564 Sum_probs=7.9
Q ss_pred EEEEEEECCCh
Q psy5805 23 VFVIVYSVIER 33 (75)
Q Consensus 23 ~~ilv~d~~~~ 33 (75)
-++++||+++.
T Consensus 2 ~~lV~YDI~~~ 12 (95)
T TIGR01573 2 LVLVVYDIPTD 12 (95)
T ss_pred EEEEEEECCCC
Confidence 35778888866
No 396
>KOG0085|consensus
Probab=35.82 E-value=58 Score=21.07 Aligned_cols=17 Identities=41% Similarity=0.485 Sum_probs=13.6
Q ss_pred CCCeEEEEeeCCCCcCC
Q psy5805 53 GEKAVILVANKADLERR 69 (75)
Q Consensus 53 ~~~~~ilvgnK~Dl~~~ 69 (75)
.+.++|+.-||.||.++
T Consensus 265 ~nssVIlFLNKkDlLEe 281 (359)
T KOG0085|consen 265 QNSSVILFLNKKDLLEE 281 (359)
T ss_pred cCCceEEEechhhhhhh
Confidence 36689999999998654
No 397
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=35.58 E-value=33 Score=19.92 Aligned_cols=41 Identities=24% Similarity=0.404 Sum_probs=14.9
Q ss_pred CCcEEEE-EEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEE
Q psy5805 20 HPDVFVI-VYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILV 60 (75)
Q Consensus 20 ~~~~~il-v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilv 60 (75)
..+++.+ .++...+..++.++..+.+.........+++++|
T Consensus 63 kP~vI~v~g~~~~s~~l~~~v~~~v~~~~~~~~~~~i~V~~v 104 (150)
T PF14639_consen 63 KPDVIAVGGNSRESRKLYDDVRDIVEELDEDEQMPPIPVVIV 104 (150)
T ss_dssp --SEEEE--SSTHHHHHHHHHHHHHHHTTB-TTS-B--EEE-
T ss_pred CCeEEEEcCCChhHHHHHHHHHHHHHHhhhcccCCCceEEEE
Confidence 6888888 4333333333444444433321112245666655
No 398
>COG0745 OmpR Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=34.72 E-value=1.1e+02 Score=18.82 Aligned_cols=41 Identities=10% Similarity=0.182 Sum_probs=29.8
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCC
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADL 66 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl 66 (75)
.|.+|+-..+.+.+.++-++.+... . ...+|++++..+.+.
T Consensus 44 ~dlviLD~~lP~~dG~~~~~~iR~~-~----~~~~PIi~Lta~~~~ 84 (229)
T COG0745 44 PDLVLLDLMLPDLDGLELCRRLRAK-K----GSGPPIIVLTARDDE 84 (229)
T ss_pred CCEEEEECCCCCCCHHHHHHHHHhh-c----CCCCcEEEEECCCcH
Confidence 5778887777888888877776533 2 366889998887654
No 399
>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]
Probab=34.69 E-value=61 Score=21.91 Aligned_cols=17 Identities=24% Similarity=0.350 Sum_probs=13.8
Q ss_pred CCCCeEEEEeeCCCCcC
Q psy5805 52 IGEKAVILVANKADLER 68 (75)
Q Consensus 52 ~~~~~~ilvgnK~Dl~~ 68 (75)
....|+++++||.|...
T Consensus 204 lt~KP~lyvaN~~e~~~ 220 (372)
T COG0012 204 LTAKPMLYVANVSEDDL 220 (372)
T ss_pred hhcCCeEEEEECCcccc
Confidence 35679999999999754
No 400
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=34.48 E-value=77 Score=16.83 Aligned_cols=43 Identities=21% Similarity=0.278 Sum_probs=24.3
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
....+++.|= -+.+. -...+..++...+..+++++++|+- .+.
T Consensus 86 ~~~~~lviDe--~~~l~-~~~~l~~l~~l~~~~~~~vvl~G~~-~l~ 128 (131)
T PF13401_consen 86 RRVVLLVIDE--ADHLF-SDEFLEFLRSLLNESNIKVVLVGTP-ELE 128 (131)
T ss_dssp CTEEEEEEET--THHHH-THHHHHHHHHHTCSCBEEEEEEESS-TTT
T ss_pred cCCeEEEEeC--hHhcC-CHHHHHHHHHHHhCCCCeEEEEECh-hhH
Confidence 3446777663 33341 1344444444434577899999987 443
No 401
>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase).
Probab=34.39 E-value=1.3e+02 Score=19.80 Aligned_cols=47 Identities=15% Similarity=0.115 Sum_probs=25.7
Q ss_pred CCcEEEEEEECCChhHHHHH-HHHHHHHHhhcC-CCCCeEEEEeeCCCCc
Q psy5805 20 HPDVFVIVYSVIERKTFKKA-EDMLKTLWDSKY-IGEKAVILVANKADLE 67 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~-~~~~~~~~~~~~-~~~~~~ilvgnK~Dl~ 67 (75)
+.|++++|..++... +... ...++.++.... .--...+++-+++|..
T Consensus 118 g~DvVLyV~rLD~~R-~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~ 166 (313)
T TIGR00991 118 TIDVLLYVDRLDAYR-VDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFS 166 (313)
T ss_pred CCCEEEEEeccCccc-CCHHHHHHHHHHHHHhhhhhhccEEEEEECCccC
Confidence 689999997665332 2222 223333433211 0113578888998865
No 402
>COG1163 DRG Predicted GTPase [General function prediction only]
Probab=34.01 E-value=92 Score=21.00 Aligned_cols=24 Identities=29% Similarity=0.369 Sum_probs=18.2
Q ss_pred CCcEEEEEEECCChhH-HHHHHHHH
Q psy5805 20 HPDVFVIVYSVIERKT-FKKAEDML 43 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s-~~~~~~~~ 43 (75)
+||.+++|.|+....+ .+.+.+-+
T Consensus 140 ~ADlIiiVld~~~~~~~~~~i~~EL 164 (365)
T COG1163 140 NADLIIIVLDVFEDPHHRDIIEREL 164 (365)
T ss_pred cCCEEEEEEecCCChhHHHHHHHHH
Confidence 6999999999997766 55554443
No 403
>KOG1036|consensus
Probab=33.15 E-value=27 Score=22.97 Aligned_cols=23 Identities=22% Similarity=0.391 Sum_probs=19.9
Q ss_pred CCcEEEEEEECCChhHHHHHHHH
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDM 42 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~ 42 (75)
|+||++..||+-++..+.++..+
T Consensus 251 GsDG~V~~Wd~~~rKrl~q~~~~ 273 (323)
T KOG1036|consen 251 GSDGIVNIWDLFNRKRLKQLAKY 273 (323)
T ss_pred CCCceEEEccCcchhhhhhccCC
Confidence 89999999999999888776554
No 404
>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional
Probab=32.68 E-value=1.2e+02 Score=18.66 Aligned_cols=45 Identities=13% Similarity=0.062 Sum_probs=26.8
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeE-EEEeeCCCC
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAV-ILVANKADL 66 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~-ilvgnK~Dl 66 (75)
+|.+|++... +..++..+....+.+.......++++ -++.|+.+.
T Consensus 141 AD~viip~~~-~~~sl~~~~~~~~~i~~~~~~~~l~i~giv~N~~~~ 186 (270)
T PRK13185 141 ADYALIVTAN-DFDSIFAANRIAAAIQAKAKNYKVRLAGVIANRSAG 186 (270)
T ss_pred CcEEEEEecC-chhhHHHHHHHHHHHHhhhhccCCCceEEEEeccCh
Confidence 7888887744 56667666655554443222345654 377888763
No 405
>COG1553 DsrE Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]
Probab=32.52 E-value=37 Score=19.37 Aligned_cols=42 Identities=17% Similarity=-0.043 Sum_probs=29.1
Q ss_pred CcEEEEEEECCChh--HHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCC
Q psy5805 21 PDVFVIVYSVIERK--TFKKAEDMLKTLWDSKYIGEKAVILVANKADL 66 (75)
Q Consensus 21 ~~~~ilv~d~~~~~--s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl 66 (75)
.||+..--....|. .|...+.|++.+.+ .++|+-+|+.-++-
T Consensus 41 ~DgV~~~~~~~~Pa~dEf~l~~~~~~l~~~----~gv~v~~C~~ca~~ 84 (126)
T COG1553 41 QDGVHNGNKGQKPASDEFNLIQAWLELLTE----QGVPVKLCVACALR 84 (126)
T ss_pred eccccccccCCCCcccccchHHHHHHHHHH----cCCcEeeeHHHHHh
Confidence 35555555556666 89999999988775 45788777665553
No 406
>PF11176 DUF2962: Protein of unknown function (DUF2962); InterPro: IPR021346 This eukaryotic family of proteins has no known function. ; PDB: 2KKM_A.
Probab=32.47 E-value=45 Score=19.50 Aligned_cols=18 Identities=17% Similarity=0.156 Sum_probs=12.6
Q ss_pred EEEEECCChhHHHHHHHH
Q psy5805 25 VIVYSVIERKTFKKAEDM 42 (75)
Q Consensus 25 ilv~d~~~~~s~~~~~~~ 42 (75)
+.+-|++|+.++..+..|
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 567899999999999999
No 407
>cd01844 SGNH_hydrolase_like_6 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=32.18 E-value=1e+02 Score=17.58 Aligned_cols=42 Identities=14% Similarity=0.255 Sum_probs=27.3
Q ss_pred CCcEEEEEEECCChhH----HHHHHHHHHHHHhhcCCCCCeEEEEeeC
Q psy5805 20 HPDVFVIVYSVIERKT----FKKAEDMLKTLWDSKYIGEKAVILVANK 63 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s----~~~~~~~~~~~~~~~~~~~~~~ilvgnK 63 (75)
.++.+++.+-.+|-.+ .+++...+..+++. .++.|+++++-.
T Consensus 57 ~pd~vii~~G~ND~~~~~~~~~~~~~~i~~i~~~--~p~~~iil~~~~ 102 (177)
T cd01844 57 PADLYIIDCGPNIVGAEAMVRERLGPLVKGLRET--HPDTPILLVSPR 102 (177)
T ss_pred CCCEEEEEeccCCCccHHHHHHHHHHHHHHHHHH--CcCCCEEEEecC
Confidence 5898999887776533 24455555666552 357788887744
No 408
>TIGR01459 HAD-SF-IIA-hyp4 HAD-superfamily class IIA hydrolase, TIGR01459. This hypothetical equivalog is a member of the Class IIA subfamily of the haloacid dehalogenase superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this equivalog are all gram negative and primarily alpha proteobacteria. Only one sequence hase been annotated as other than "hypothetical." That one, from Brucella, is annotated as related to NagD, but only by sequence similarity and should be treated with some skepticism. (See comments for Class IIA subfamily)
Probab=31.96 E-value=1.2e+02 Score=18.44 Aligned_cols=38 Identities=13% Similarity=0.197 Sum_probs=19.4
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeC
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANK 63 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK 63 (75)
++++++..+....-+|..+..-+..+.. .++|. ++.||
T Consensus 125 ~~~vvv~~~~~~~~~~~~~~~~l~~l~~----~g~~~-i~tN~ 162 (242)
T TIGR01459 125 ASLITIYRSENEKLDLDEFDELFAPIVA----RKIPN-ICANP 162 (242)
T ss_pred CcEEEEcCCCcccCCHHHHHHHHHHHHh----CCCcE-EEECC
Confidence 4455555554333456666554444432 45665 55666
No 409
>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=31.85 E-value=32 Score=15.53 Aligned_cols=15 Identities=0% Similarity=0.058 Sum_probs=9.6
Q ss_pred CcEEEEEEECCChhH
Q psy5805 21 PDVFVIVYSVIERKT 35 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s 35 (75)
.+.=+.++|++|+.+
T Consensus 19 ~~~Gl~IvDISnPs~ 33 (42)
T PF08309_consen 19 GNNGLVIVDISNPSN 33 (42)
T ss_pred CCCCEEEEECCCCCC
Confidence 334466789988753
No 410
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=31.79 E-value=79 Score=19.10 Aligned_cols=41 Identities=12% Similarity=0.102 Sum_probs=27.1
Q ss_pred CCcEEEEEEECC-----ChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCC
Q psy5805 20 HPDVFVIVYSVI-----ERKTFKKAEDMLKTLWDSKYIGEKAVILVANKA 64 (75)
Q Consensus 20 ~~~~~ilv~d~~-----~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~ 64 (75)
|.-|+++=+|=| +++.-..++.|+.+++. ..+-++++-|+.
T Consensus 27 Gikgvi~DlDNTLv~wd~~~~tpe~~~W~~e~k~----~gi~v~vvSNn~ 72 (175)
T COG2179 27 GIKGVILDLDNTLVPWDNPDATPELRAWLAELKE----AGIKVVVVSNNK 72 (175)
T ss_pred CCcEEEEeccCceecccCCCCCHHHHHHHHHHHh----cCCEEEEEeCCC
Confidence 555665544432 34555678999999986 456778888754
No 411
>cd07388 MPP_Tt1561 Thermus thermophilus Tt1561 and related proteins, metallophosphatase domain. This family includes bacterial proteins related to Tt1561 (also known as Aq1956 in Aquifex aeolicus), an uncharacterized Thermus thermophilus protein. The conserved domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets,
Probab=31.38 E-value=1.3e+02 Score=18.59 Aligned_cols=43 Identities=12% Similarity=0.227 Sum_probs=28.3
Q ss_pred CCcEEEEEEECCChh-HHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCC
Q psy5805 20 HPDVFVIVYSVIERK-TFKKAEDMLKTLWDSKYIGEKAVILVANKADL 66 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~-s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl 66 (75)
++|.++++=|+++.. .-+.+..++..+.. -++|+++|-..+|-
T Consensus 31 ~~D~vv~~GDl~~~g~~~~~~~~~l~~l~~----l~~pv~~V~GNhD~ 74 (224)
T cd07388 31 GADAIVLIGNLLPKAAKSEDYAAFFRILGE----AHLPTFYVPGPQDA 74 (224)
T ss_pred CCCEEEECCCCCCCCCCHHHHHHHHHHHHh----cCCceEEEcCCCCh
Confidence 699999999999875 35555555555543 23576666555553
No 412
>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=31.33 E-value=85 Score=16.38 Aligned_cols=35 Identities=9% Similarity=0.108 Sum_probs=25.2
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEe
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVA 61 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvg 61 (75)
.+|.+|++-|..+..+...++... + ..++|++.+-
T Consensus 48 ~aD~VIv~t~~vsH~~~~~vk~~a---k----k~~ip~~~~~ 82 (97)
T PF10087_consen 48 KADLVIVFTDYVSHNAMWKVKKAA---K----KYGIPIIYSR 82 (97)
T ss_pred CCCEEEEEeCCcChHHHHHHHHHH---H----HcCCcEEEEC
Confidence 489999999999988877665432 2 2457877764
No 413
>PHA03050 glutaredoxin; Provisional
Probab=31.23 E-value=79 Score=17.13 Aligned_cols=37 Identities=11% Similarity=0.032 Sum_probs=21.2
Q ss_pred EEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCC
Q psy5805 25 VIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKA 64 (75)
Q Consensus 25 ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~ 64 (75)
.-+++++....-..++.++.++. ....+|.|+++.+.
T Consensus 43 ~~~i~i~~~~~~~~~~~~l~~~t---G~~tVP~IfI~g~~ 79 (108)
T PHA03050 43 YEIVDIKEFKPENELRDYFEQIT---GGRTVPRIFFGKTS 79 (108)
T ss_pred cEEEECCCCCCCHHHHHHHHHHc---CCCCcCEEEECCEE
Confidence 44677775333233444444433 34679999888763
No 414
>PF05193 Peptidase_M16_C: Peptidase M16 inactive domain; InterPro: IPR007863 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. These metallopeptidases belong to MEROPS peptidase family M16 (clan ME). They include proteins, which are classified as non-peptidase homologues either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity. The peptidases in this group of sequences include: Insulinase, insulin-degrading enzyme (3.4.24.56 from EC) Mitochondrial processing peptidase alpha subunit, (Alpha-MPP, 3.4.24.64 from EC) Pitrlysin, Protease III precursor (3.4.24.55 from EC) Nardilysin, (3.4.24.61 from EC) Ubiquinol-cytochrome C reductase complex core protein I,mitochondrial precursor (1.10.2.2 from EC) Coenzyme PQQ synthesis protein F (3.4.99 from EC) These proteins do not share many regions of sequence similarity; the most noticeable is in the N-terminal section. This region includes a conserved histidine followed, two residues later by a glutamate and another histidine. In pitrilysin, it has been shown [] that this H-x-x-E-H motif is involved in enzymatic activity; the two histidines bind zinc and the glutamate is necessary for catalytic activity. The mitochondrial processing peptidase consists of two structurally related domains. One is the active peptidase whereas the other, the C-terminal region, is inactive. The two domains hold the substrate like a clamp [].; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis; PDB: 1BE3_B 1PP9_B 2A06_B 1SQB_B 1SQP_B 1L0N_B 1SQX_B 1NU1_B 1L0L_B 2FYU_B ....
Probab=31.21 E-value=45 Score=18.42 Aligned_cols=27 Identities=11% Similarity=0.311 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHhhcCCCCCeEEEEeeCC
Q psy5805 35 TFKKAEDMLKTLWDSKYIGEKAVILVANKA 64 (75)
Q Consensus 35 s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~ 64 (75)
+++.++.|++..-. ..++.++++|+-.
T Consensus 3 t~e~l~~f~~~~y~---p~n~~l~i~Gd~~ 29 (184)
T PF05193_consen 3 TLEDLRAFYKKFYR---PSNMTLVIVGDID 29 (184)
T ss_dssp -HHHHHHHHHHHSS---GGGEEEEEEESSG
T ss_pred CHHHHHHHHHHhcC---ccceEEEEEcCcc
Confidence 34556666655542 3466777777543
No 415
>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase. Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.
Probab=30.98 E-value=1.2e+02 Score=18.03 Aligned_cols=46 Identities=22% Similarity=0.153 Sum_probs=27.0
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCe-EEEEeeCCCCc
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKA-VILVANKADLE 67 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~-~ilvgnK~Dl~ 67 (75)
+|.++++... +..++..+..-.+.++......+.+ ..++-||.+..
T Consensus 142 ad~vliv~~p-~~~sl~~~~~l~~~i~~~~~~~~~~~~gvv~N~~~~~ 188 (212)
T cd02117 142 ADEIYIVTSG-EFMALYAANNICKGIRKYAKSGGVRLGGLICNSRNTD 188 (212)
T ss_pred CcEEEEEecc-cHHHHHHHHHHHHHHHHhCcccCCcEEEEEEeCCCCc
Confidence 7888888765 4556555544444444332222343 45899999854
No 416
>KOG2792|consensus
Probab=30.88 E-value=1e+02 Score=20.06 Aligned_cols=27 Identities=4% Similarity=0.095 Sum_probs=21.4
Q ss_pred hhHHHHHHHHHHHHHhhcCCCCCeEEE
Q psy5805 33 RKTFKKAEDMLKTLWDSKYIGEKAVIL 59 (75)
Q Consensus 33 ~~s~~~~~~~~~~~~~~~~~~~~~~il 59 (75)
++-++.+..|+.++......+.+|+.|
T Consensus 156 PdELeKm~~~Vd~i~~~~~~~~~PlFI 182 (280)
T KOG2792|consen 156 PDELEKMSAVVDEIEAKPGLPPVPLFI 182 (280)
T ss_pred hHHHHHHHHHHHHHhccCCCCccceEE
Confidence 789999999999998865555667655
No 417
>COG0252 AnsB L-asparaginase/archaeal Glu-tRNAGln amidotransferase subunit D [Amino acid transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=30.84 E-value=1.4e+02 Score=20.03 Aligned_cols=38 Identities=21% Similarity=0.191 Sum_probs=27.6
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCC
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKAD 65 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~D 65 (75)
.||+++.. .-+|++....++....+ .+.|+|++|.-.-
T Consensus 101 ~dGvVItH---GTDTmeeTA~~L~l~l~----~~kPVVlTGamr~ 138 (351)
T COG0252 101 VDGVVITH---GTDTMEETAFFLSLTLN----TPKPVVLTGAMRP 138 (351)
T ss_pred CCeEEEeC---CCchHHHHHHHHHHHhc----CCCCEEEeCCCCC
Confidence 58888864 56777777777766654 3789999987643
No 418
>TIGR02256 ICE_VC0181 integrative and conjugative element protein, VC0181 family. This uncharacterized protein is found in several Proteobacteria, among them Rhizobium sp. NGR234, Vibrio cholerae, Myxococcus xanthus, and E. coli strain ECOR31. In the latter, it is part of an integrative and conjugative element that is readily induced to excise and circularize.
Probab=30.83 E-value=81 Score=18.00 Aligned_cols=28 Identities=7% Similarity=0.147 Sum_probs=19.5
Q ss_pred hHHHHHHHHHHHHHhhcCCCCCeEEEEeeCC
Q psy5805 34 KTFKKAEDMLKTLWDSKYIGEKAVILVANKA 64 (75)
Q Consensus 34 ~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~ 64 (75)
.|-.....|...++. .....+++||++-
T Consensus 89 PS~~D~~~~~~~~~~---~~~~l~iIvG~~~ 116 (131)
T TIGR02256 89 PSWTDRRSWRTIIRS---PEAMLLLIVGRKE 116 (131)
T ss_pred CCHHHHHHHHHHHhC---CCeeEEEEEcCCc
Confidence 466667778777764 3457788999984
No 419
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=30.36 E-value=1.3e+02 Score=18.10 Aligned_cols=13 Identities=31% Similarity=0.381 Sum_probs=9.7
Q ss_pred CCCeEEEEeeCCC
Q psy5805 53 GEKAVILVANKAD 65 (75)
Q Consensus 53 ~~~~~ilvgnK~D 65 (75)
.++|+|++++..+
T Consensus 82 ~~ipvV~i~~~~~ 94 (273)
T cd06292 82 RGLPVVLVNGRAP 94 (273)
T ss_pred CCCCEEEEcCCCC
Confidence 5689999887554
No 420
>COG1343 CRISPR-associated protein Cas2 [Defense mechanisms]
Probab=29.84 E-value=46 Score=17.74 Aligned_cols=12 Identities=17% Similarity=0.506 Sum_probs=9.5
Q ss_pred EEEEEEECCChh
Q psy5805 23 VFVIVYSVIERK 34 (75)
Q Consensus 23 ~~ilv~d~~~~~ 34 (75)
-+++|||+++..
T Consensus 2 ~vlvvYDI~~d~ 13 (89)
T COG1343 2 YVLVVYDISDDG 13 (89)
T ss_pred EEEEEEecCCcH
Confidence 368899999874
No 421
>KOG0448|consensus
Probab=29.70 E-value=2.4e+02 Score=21.07 Aligned_cols=55 Identities=20% Similarity=0.348 Sum_probs=32.6
Q ss_pred cchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcC
Q psy5805 7 CFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLER 68 (75)
Q Consensus 7 ~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~ 68 (75)
.+.+....++. ++|.+|+|-...+.-+... .+++....+ .+..++++-||-|...
T Consensus 221 e~tswid~~cl--daDVfVlV~NaEntlt~se-k~Ff~~vs~----~KpniFIlnnkwDasa 275 (749)
T KOG0448|consen 221 ELTSWIDSFCL--DADVFVLVVNAENTLTLSE-KQFFHKVSE----EKPNIFILNNKWDASA 275 (749)
T ss_pred hhhHHHHHHhh--cCCeEEEEecCccHhHHHH-HHHHHHhhc----cCCcEEEEechhhhhc
Confidence 34455556666 6999999965544433332 233333322 3456788889989853
No 422
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=29.60 E-value=88 Score=16.11 Aligned_cols=39 Identities=15% Similarity=0.065 Sum_probs=22.9
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
+..+++.=|.+. .+-..+..+. + ..++|++.+++|.+|.
T Consensus 28 aklViiA~D~~~-~~~~~i~~~c----~---~~~Vp~~~~~s~~eLG 66 (82)
T PRK13602 28 VKEVVVAEDADP-RLTEKVEALA----N---EKGVPVSKVDSMKKLG 66 (82)
T ss_pred eeEEEEECCCCH-HHHHHHHHHH----H---HcCCCEEEECCHHHHH
Confidence 455555555443 3444443332 1 2569999999998874
No 423
>KOG1154|consensus
Probab=29.24 E-value=1.6e+02 Score=19.01 Aligned_cols=60 Identities=20% Similarity=0.281 Sum_probs=38.9
Q ss_pred Ccccccchhhhhhhhhcc---CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 2 ASRTSCFTNLVVNFVQTY---HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 2 ~s~~e~f~~~~~~~~~~~---~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
|.||.+.-++.+..+.+| =|+..+---|+-+.+...++..-+.++.+. -+|-+.|-.|-.
T Consensus 94 AvGQ~~Lmalye~lF~Qy~~~iAQvLvT~~Di~d~~~r~Nl~~Ti~eLL~m------~viPIvNeNDav 156 (285)
T KOG1154|consen 94 AVGQSGLMALYETLFTQYGITIAQVLVTRNDILDEQQRKNLQNTISELLSM------NVIPIVNENDAV 156 (285)
T ss_pred HhCcchHHHHHHHHHHHhccchheeeecCcchhhHHHHHHHHHHHHHHHhC------CceeeecCCCcc
Confidence 456776666677766666 355566667777888888888887777652 233344655543
No 424
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=29.05 E-value=88 Score=15.84 Aligned_cols=41 Identities=15% Similarity=0.268 Sum_probs=27.4
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADL 66 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl 66 (75)
..+.+++=+.+.+.+.++-+ +.+++. .+.+|++++++..|.
T Consensus 43 ~~d~iiid~~~~~~~~~~~~----~~i~~~--~~~~~ii~~t~~~~~ 83 (112)
T PF00072_consen 43 PPDLIIIDLELPDGDGLELL----EQIRQI--NPSIPIIVVTDEDDS 83 (112)
T ss_dssp TESEEEEESSSSSSBHHHHH----HHHHHH--TTTSEEEEEESSTSH
T ss_pred CceEEEEEeeeccccccccc----cccccc--cccccEEEecCCCCH
Confidence 57778877777776555443 334442 277899999987763
No 425
>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional
Probab=28.92 E-value=1.7e+02 Score=19.23 Aligned_cols=41 Identities=15% Similarity=0.115 Sum_probs=25.3
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCC
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADL 66 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl 66 (75)
.|.+++.+- .+-..++.++..+...- .++.+++++|.|.+-
T Consensus 77 ~d~~~~~~p----k~k~~~~~~l~~~~~~l-~~g~~i~~~G~~~~g 117 (342)
T PRK09489 77 CDTLIYYWP----KNKQEAQFQLMNLLSLL-PVGTDIFVVGENRSG 117 (342)
T ss_pred CCEEEEECC----CCHHHHHHHHHHHHHhC-CCCCEEEEEEecccc
Confidence 566666653 33334555555555532 467889999988774
No 426
>smart00432 MADS MADS domain.
Probab=28.51 E-value=59 Score=15.81 Aligned_cols=14 Identities=29% Similarity=0.489 Sum_probs=11.8
Q ss_pred CCcEEEEEEECCCh
Q psy5805 20 HPDVFVIVYSVIER 33 (75)
Q Consensus 20 ~~~~~ilv~d~~~~ 33 (75)
++++++++|+.+..
T Consensus 39 ~~~v~~iv~sp~g~ 52 (59)
T smart00432 39 DAEVALIVFSPTGK 52 (59)
T ss_pred CCeEEEEEECCCCC
Confidence 89999999987753
No 427
>COG4474 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.46 E-value=1.1e+02 Score=18.46 Aligned_cols=24 Identities=13% Similarity=0.016 Sum_probs=19.4
Q ss_pred CCcEEEEEEECCChhHHHHHHHHH
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDML 43 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~ 43 (75)
+++|++++||-.++-|......-.
T Consensus 129 ~sdg~ll~YD~ekegs~ky~~~~~ 152 (180)
T COG4474 129 KSDGALLFYDEEKEGSPKYFLQKA 152 (180)
T ss_pred cCceeEEEEcCcccCChHHHHHHH
Confidence 899999999999988877654433
No 428
>cd02032 Bchl_like This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.
Probab=28.43 E-value=1.5e+02 Score=18.28 Aligned_cols=45 Identities=18% Similarity=0.163 Sum_probs=24.9
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeE-EEEeeCCCC
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAV-ILVANKADL 66 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~-ilvgnK~Dl 66 (75)
+|.++++... +..++..+..-.+.++......++++ .+|.|+.+.
T Consensus 139 aD~vlip~~p-~~~~l~~~~~~~~~i~~~~~~~~l~~~giV~Nr~~~ 184 (267)
T cd02032 139 ADYALIVTDN-DFDSIFAANRIAAAVREKAKTYKVRLAGLIANRTDK 184 (267)
T ss_pred cCEEEEEecC-CcccHHHHHHHHHHHHHHhhccCCceEEEEEeCCCH
Confidence 8888887654 44555555444433332211244543 467898874
No 429
>PRK06756 flavodoxin; Provisional
Probab=28.13 E-value=1.2e+02 Score=16.96 Aligned_cols=42 Identities=7% Similarity=-0.005 Sum_probs=25.5
Q ss_pred CCcEEEEEEECCChhHHH-HHHHHHHHHHhhcCCCCCeEEEEee
Q psy5805 20 HPDVFVIVYSVIERKTFK-KAEDMLKTLWDSKYIGEKAVILVAN 62 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~-~~~~~~~~~~~~~~~~~~~~ilvgn 62 (75)
+.+++++....-....+. .+..++..+... ...+.++.++|+
T Consensus 49 ~~d~vi~gspt~~~g~~p~~~~~fl~~l~~~-~l~~k~~~~fgt 91 (148)
T PRK06756 49 QYDGIILGAYTWGDGDLPDDFLDFYDAMDSI-DLTGKKAAVFGS 91 (148)
T ss_pred cCCeEEEEeCCCCCCCCcHHHHHHHHHHhcC-CCCCCEEEEEeC
Confidence 478888876544323332 466666666442 246778888877
No 430
>cd00840 MPP_Mre11_N Mre11 nuclease, N-terminal metallophosphatase domain. Mre11 (also known as SbcD in Escherichia coli) is a subunit of the MRX protein complex. This complex includes: Mre11, Rad50, and Xrs2/Nbs1, and plays a vital role in several nuclear processes including DNA double-strand break repair, telomere length maintenance, cell cycle checkpoint control, and meiotic recombination, in eukaryotes. During double-strand break repair, the MRX complex is required to hold the two ends of a broken chromosome together. In vitro studies show that Mre11 has 3'-5' exonuclease activity on dsDNA templates and endonuclease activity on dsDNA and ssDNA templates. In addition to the N-terminal phosphatase domain, the eukaryotic MRE11 members of this family have a C-terminal DNA binding domain (not included in this alignment model). MRE11-like proteins are found in prokaryotes and archaea was well as in eukaryotes. Mre11 belongs to the metallophosphatase (MPP) superfamily. MPPs are functi
Probab=27.99 E-value=1.3e+02 Score=17.56 Aligned_cols=43 Identities=16% Similarity=0.212 Sum_probs=23.0
Q ss_pred CCcEEEEEEECCChh--HHHHHHHHHHHHHhhcCCCCCeEE-EEeeC
Q psy5805 20 HPDVFVIVYSVIERK--TFKKAEDMLKTLWDSKYIGEKAVI-LVANK 63 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~--s~~~~~~~~~~~~~~~~~~~~~~i-lvgnK 63 (75)
++|.+++.=|+.+.. +......+...+.+.. ...+|++ +.||-
T Consensus 41 ~~d~i~~~GD~~~~~~~~~~~~~~~~~~~~~~~-~~~~~v~~~~GNH 86 (223)
T cd00840 41 KVDFVLIAGDLFDSNNPSPEALELLIEALRRLK-EAGIPVFIIAGNH 86 (223)
T ss_pred CCCEEEECCcccCCCCCCHHHHHHHHHHHHHHH-HCCCCEEEecCCC
Confidence 789999988888753 2222333333333321 1356654 45553
No 431
>TIGR02313 HpaI-NOT-DapA 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase. This model represents a subset of the DapA (dihydrodipicolinate synthase) family which has apparently evolved a separate function. The product of DapA, dihydrodipicolinate, results from the non-enzymatic cyclization and dehydration of 6-amino-2,4-dihydroxyhept-2-ene-1,7-dioic acid, which is different from the substrate of this reaction only in the presence of the amino group. In the absence of this amino group, and running the reaction in the opposite direction, the reaction corresponds to the HpaI aldolase component of the 4-hydroxyphenylacetic acid catabolism pathway (see TIGR02311). At present, this variant of DapA is found only in Oceanobacillus iheyensis HTE831 and Thermus thermophilus HB27. In both of these cases, one or more other DapA genes can be found and the one identified by this model is part of an operon for 4-hydroxyphenylacetic acid catabolism.
Probab=27.96 E-value=1.7e+02 Score=18.72 Aligned_cols=39 Identities=10% Similarity=0.202 Sum_probs=26.7
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEE
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILV 60 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilv 60 (75)
|+|++++.--.--+-+-+.+..|+..+.+. .++.|+++.
T Consensus 95 Gad~v~v~pP~y~~~~~~~l~~~f~~ia~a--~~~lpv~iY 133 (294)
T TIGR02313 95 GADAAMVIVPYYNKPNQEALYDHFAEVADA--VPDFPIIIY 133 (294)
T ss_pred CCCEEEEcCccCCCCCHHHHHHHHHHHHHh--ccCCCEEEE
Confidence 889988875544444567777777777653 236888876
No 432
>PF00701 DHDPS: Dihydrodipicolinate synthetase family; InterPro: IPR002220 Dihydropicolinate synthase (DHDPS) is the key enzyme in lysine biosynthesis via the diaminopimelate pathway of prokaryotes, some phycomycetes and higher plants. The enzyme catalyses the condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a ping-pong mechanism in which pyruvate binds to the enzyme by forming a Schiff-base with a lysine residue []. Three other proteins are structurally related to DHDPS and probably also act via a similar catalytic mechanism. These are Escherichia coli N-acetylneuraminate lyase (4.1.3.3 from EC) (gene nanA), which catalyzes the condensation of N-acetyl-D-mannosamine and pyruvate to form N-acetylneuraminate; Rhizobium meliloti (Sinorhizobium meliloti) protein mosA [], which is involved in the biosynthesis of the rhizopine 3-o-methyl-scyllo-inosamine; and E. coli hypothetical protein yjhH. The sequences of DHDPS from different sources are well-conserved. The structure takes the form of a homotetramer, in which 2 monomers are related by an approximate 2-fold symmetry []. Each monomer comprises 2 domains: an 8-fold alpha-/beta-barrel, and a C-terminal alpha-helical domain. The fold resembles that of N-acetylneuraminate lyase. The active site lysine is located in the barrel domain, and has access via 2 channels on the C-terminal side of the barrel.; GO: 0016829 lyase activity, 0008152 metabolic process; PDB: 3B4U_B 3S8H_A 3QZE_B 1XXX_F 3L21_F 3IRD_A 3A5F_B 3G0S_B 3DAQ_C 3UQN_A ....
Probab=27.39 E-value=1.5e+02 Score=18.71 Aligned_cols=39 Identities=10% Similarity=0.224 Sum_probs=26.7
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEe
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVA 61 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvg 61 (75)
|+|++++.--.-..-|-+.+..|+..+... .+.|+++.=
T Consensus 96 Gad~v~v~~P~~~~~s~~~l~~y~~~ia~~---~~~pi~iYn 134 (289)
T PF00701_consen 96 GADAVLVIPPYYFKPSQEELIDYFRAIADA---TDLPIIIYN 134 (289)
T ss_dssp T-SEEEEEESTSSSCCHHHHHHHHHHHHHH---SSSEEEEEE
T ss_pred CceEEEEeccccccchhhHHHHHHHHHHhh---cCCCEEEEE
Confidence 899998875554555677787888887752 567887643
No 433
>PHA02763 hypothetical protein; Provisional
Probab=27.26 E-value=83 Score=16.89 Aligned_cols=17 Identities=18% Similarity=0.267 Sum_probs=14.1
Q ss_pred hHHHHHHHHHHHHHhhc
Q psy5805 34 KTFKKAEDMLKTLWDSK 50 (75)
Q Consensus 34 ~s~~~~~~~~~~~~~~~ 50 (75)
..|++++.|+.+.++..
T Consensus 65 SGFe~VEeWl~eArrLh 81 (102)
T PHA02763 65 SGFENVEEWLNEARRLH 81 (102)
T ss_pred cchhhHHHHHHHHHHHh
Confidence 57889999999888764
No 434
>PF05577 Peptidase_S28: Serine carboxypeptidase S28; InterPro: IPR008758 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to MEROPS peptidase family S28 (clan SC). The predicted active site residues for members of this family and family S10 occur in the same order in the sequence: S, D, H. These serine proteases include several eukaryotic enzymes such as lysosomal Pro-X carboxypeptidase, dipeptidyl-peptidase II, and thymus-specific serine peptidase [, , , ].; GO: 0008236 serine-type peptidase activity, 0006508 proteolysis; PDB: 3N2Z_B 3JYH_A 3N0T_C.
Probab=26.97 E-value=1.2e+02 Score=20.27 Aligned_cols=33 Identities=3% Similarity=0.055 Sum_probs=21.5
Q ss_pred CCChhHHHHHHHHHHHHHhhc-CCCCCeEEEEee
Q psy5805 30 VIERKTFKKAEDMLKTLWDSK-YIGEKAVILVAN 62 (75)
Q Consensus 30 ~~~~~s~~~~~~~~~~~~~~~-~~~~~~~ilvgn 62 (75)
+|.++.+..+..+...++... ..++.|+|++|.
T Consensus 87 Lt~~QALaD~a~F~~~~~~~~~~~~~~pwI~~Gg 120 (434)
T PF05577_consen 87 LTSEQALADLAYFIRYVKKKYNTAPNSPWIVFGG 120 (434)
T ss_dssp -SHHHHHHHHHHHHHHHHHHTTTGCC--EEEEEE
T ss_pred cCHHHHHHHHHHHHHHHHHhhcCCCCCCEEEECC
Confidence 667788888877777777432 346789999985
No 435
>PF11658 DUF3260: Protein of unknown function (DUF3260); InterPro: IPR017744 This protein was identified by the partial phylogenetic profiling algorithm [] as part of the system for cellulose biosynthesis in bacteria, and in fact is found in cellulose biosynthesis gene regions. The protein was designated YhjU in Salmonella enteritidis, where disruption of its gene disrupts cellulose biosynthesis and biofilm formation [].
Probab=26.86 E-value=1.5e+02 Score=21.08 Aligned_cols=36 Identities=14% Similarity=0.250 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHhhcCCCCCeEEEE--------eeCCCCcCCCccc
Q psy5805 36 FKKAEDMLKTLWDSKYIGEKAVILV--------ANKADLERRRQVT 73 (75)
Q Consensus 36 ~~~~~~~~~~~~~~~~~~~~~~ilv--------gnK~Dl~~~r~v~ 73 (75)
|+.+...+.+++. ..+++.+++| |.|.-+.+.|+++
T Consensus 382 lddl~~F~~~Le~--SgR~v~vv~VPEHGAAlrGDk~QiaGLReIP 425 (518)
T PF11658_consen 382 LDDLDRFFDELEK--SGRKVMVVVVPEHGAALRGDKMQIAGLREIP 425 (518)
T ss_pred HHHHHHHHHHHHH--cCCcEEEEEecCccccccccchhhccccCCC
Confidence 4455555666654 3356666665 6777777777764
No 436
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=26.65 E-value=1.6e+02 Score=18.07 Aligned_cols=36 Identities=19% Similarity=0.183 Sum_probs=20.9
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKA 64 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~ 64 (75)
+.||+|++- .+.+. ...+++++.. .++|+|+++...
T Consensus 55 ~vdgiii~~--~~~~~---~~~~l~~l~~----~~ipvV~~~~~~ 90 (288)
T cd01538 55 GVDVLVIAP--VDGEA---LASAVEKAAD----AGIPVIAYDRLI 90 (288)
T ss_pred CCCEEEEec--CChhh---HHHHHHHHHH----CCCCEEEECCCC
Confidence 699998762 22222 2334445443 468988887543
No 437
>cd00838 MPP_superfamily metallophosphatase superfamily, metallophosphatase domain. Metallophosphatases (MPPs), also known as metallophosphoesterases, phosphodiesterases (PDEs), binuclear metallophosphoesterases, and dimetal-containing phosphoesterases (DMPs), represent a diverse superfamily of enzymes with a conserved domain containing an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. This superfamily includes: the phosphoprotein phosphatases (PPPs), Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive me
Probab=26.62 E-value=1e+02 Score=15.78 Aligned_cols=41 Identities=12% Similarity=0.036 Sum_probs=24.3
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEE-EEee
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVI-LVAN 62 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~i-lvgn 62 (75)
+.+.+++.-|+.+.........+.. +... .....|++ +.||
T Consensus 26 ~~~~vi~~GD~~~~~~~~~~~~~~~-~~~~-~~~~~~~~~~~GN 67 (131)
T cd00838 26 KPDFVLVLGDLVGDGPDPEEVLAAA-LALL-LLLGIPVYVVPGN 67 (131)
T ss_pred CCCEEEECCcccCCCCCchHHHHHH-HHHh-hcCCCCEEEeCCC
Confidence 7999999999988766555444432 1111 12455654 4555
No 438
>cd05294 LDH-like_MDH_nadp A lactate dehydrogenases-like structure with malate dehydrogenase enzymatic activity. The LDH-like MDH proteins have a lactate dehyhydrogenase-like (LDH-like) structure and malate dehydrogenase (MDH) enzymatic activity. This subgroup is composed of some archaeal LDH-like MDHs that prefer NADP(H) rather than NAD(H) as a cofactor. One member, MJ0490 from Methanococcus jannaschii, has been observed to form dimers and tetramers during crystalization, although it is believed to exist primarilly as a tetramer in solution. In addition to its MDH activity, MJ0490 also possesses fructose-1,6-bisphosphate-activated LDH activity. Members of this subgroup have a higher sequence similarity to LDHs than to other MDHs. LDH catalyzes the last step of glycolysis in which pyruvate is converted to L-lactate. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carbox
Probab=26.50 E-value=1.8e+02 Score=18.71 Aligned_cols=45 Identities=18% Similarity=0.307 Sum_probs=27.8
Q ss_pred CCcEEEEEEECCCh-----hHH-----HHHHHHHHHHHhhcCCCCCeEEEEeeCCCC
Q psy5805 20 HPDVFVIVYSVIER-----KTF-----KKAEDMLKTLWDSKYIGEKAVILVANKADL 66 (75)
Q Consensus 20 ~~~~~ilv~d~~~~-----~s~-----~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl 66 (75)
++|.+++....... ..+ ..++.....+... +++..+++++|-+|.
T Consensus 72 ~aDiViitag~p~~~~~~r~dl~~~n~~i~~~~~~~i~~~--~~~~~viv~~npvd~ 126 (309)
T cd05294 72 GSDIVIITAGVPRKEGMSRLDLAKKNAKIVKKYAKQIAEF--APDTKILVVTNPVDV 126 (309)
T ss_pred CCCEEEEecCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH--CCCeEEEEeCCchHH
Confidence 79999999875332 222 2233444445543 356678888888875
No 439
>cd00120 MADS MADS: MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptonal regulators. Binds DNA and exists as hetero and homo-dimers. Composed of 2 main subgroups: SRF-like/Type I and MEF2-like (myocyte enhancer factor 2)/ Type II. These subgroups differ mainly in position of the alpha 2 helix responsible for the dimerization interface; Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=26.49 E-value=75 Score=15.42 Aligned_cols=14 Identities=36% Similarity=0.498 Sum_probs=11.7
Q ss_pred CCcEEEEEEECCCh
Q psy5805 20 HPDVFVIVYSVIER 33 (75)
Q Consensus 20 ~~~~~ilv~d~~~~ 33 (75)
++++++++|+.+..
T Consensus 39 ~~~v~~iv~sp~g~ 52 (59)
T cd00120 39 DAEVAVIVFSPSGK 52 (59)
T ss_pred CCcEEEEEECCCCC
Confidence 79999999987653
No 440
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=26.48 E-value=1.5e+02 Score=17.62 Aligned_cols=37 Identities=14% Similarity=0.127 Sum_probs=20.5
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKAD 65 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~D 65 (75)
+.+|+|++ ..... .....+..+.+ .++|++++++..+
T Consensus 55 ~~dgii~~-~~~~~----~~~~~l~~l~~----~~ipvv~~~~~~~ 91 (268)
T cd06323 55 GVDAIIIN-PTDSD----AVVPAVKAANE----AGIPVFTIDREAN 91 (268)
T ss_pred CCCEEEEc-CCChH----HHHHHHHHHHH----CCCcEEEEccCCC
Confidence 68998885 22211 11223334432 5689998877554
No 441
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=26.37 E-value=1.5e+02 Score=17.64 Aligned_cols=34 Identities=18% Similarity=0.219 Sum_probs=18.4
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKA 64 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~ 64 (75)
+.||+|+.-.-.+... ++++.. .++|+|++++..
T Consensus 55 ~vdgiIi~~~~~~~~~-------~~~l~~----~~ipvV~~~~~~ 88 (265)
T cd06299 55 RVDGIIVVPHEQSAEQ-------LEDLLK----RGIPVVFVDREI 88 (265)
T ss_pred CCCEEEEcCCCCChHH-------HHHHHh----CCCCEEEEeccc
Confidence 6888888532111111 233332 468988888653
No 442
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=26.33 E-value=97 Score=19.97 Aligned_cols=41 Identities=17% Similarity=0.120 Sum_probs=27.1
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
.+..+|+.-|++..+ +..|+..+.+ .-++|.++|++|.+|.
T Consensus 148 KAkLVIIA~DVsPie----~vk~LpaLCr---k~~VPY~iVktKaeLG 188 (263)
T PTZ00222 148 QARMVVIANNVDPVE----LVLWMPNLCR---ANKIPYAIVKDMARLG 188 (263)
T ss_pred CceEEEEeCCCCHHH----HHHHHHHHHH---hcCCCEEEECCHHHHH
Confidence 366777777765443 2335555544 2579999999999884
No 443
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=25.28 E-value=1.7e+02 Score=18.87 Aligned_cols=38 Identities=16% Similarity=0.162 Sum_probs=27.5
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEE
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILV 60 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilv 60 (75)
|+|+++++--.=.+.+.+.+..|+..+.+. .+.|+++.
T Consensus 99 Gad~il~v~PyY~k~~~~gl~~hf~~ia~a---~~lPvilY 136 (299)
T COG0329 99 GADGILVVPPYYNKPSQEGLYAHFKAIAEA---VDLPVILY 136 (299)
T ss_pred CCCEEEEeCCCCcCCChHHHHHHHHHHHHh---cCCCEEEE
Confidence 899999886666667777787777777652 36777664
No 444
>PF06821 Ser_hydrolase: Serine hydrolase; InterPro: IPR010662 This family contains a number of hypothetical bacterial proteins of unknown function, which may be cytosolic. The Crystal Structure Of The Yden Gene Product Swiss:P96671 from B. Subtilis has been solved. The structure shows an alpha-beta hydrolase fold suggesting an enzymatic function for these proteins [].; GO: 0016787 hydrolase activity; PDB: 3BDV_B 2QS9_A 1UXO_A.
Probab=25.21 E-value=1e+02 Score=18.08 Aligned_cols=52 Identities=13% Similarity=0.072 Sum_probs=26.0
Q ss_pred ccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEee
Q psy5805 4 RTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVAN 62 (75)
Q Consensus 4 ~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgn 62 (75)
+.+-.......-+. +. .-+-.-+.+.+ .+..|...+.+.....+-++++||.
T Consensus 11 ~~~HW~~wl~~~l~--~~-~~V~~~~~~~P----~~~~W~~~l~~~i~~~~~~~ilVaH 62 (171)
T PF06821_consen 11 PPDHWQPWLERQLE--NS-VRVEQPDWDNP----DLDEWVQALDQAIDAIDEPTILVAH 62 (171)
T ss_dssp TTTSTHHHHHHHHT--TS-EEEEEC--TS------HHHHHHHHHHCCHC-TTTEEEEEE
T ss_pred CccHHHHHHHHhCC--CC-eEEeccccCCC----CHHHHHHHHHHHHhhcCCCeEEEEe
Confidence 33333444444444 23 44444444333 4567999988764334556888875
No 445
>TIGR03368 cellulose_yhjU cellulose synthase operon protein YhjU. This protein was identified by the partial phylogenetic profiling algorithm (PubMed:16930487) as part of the system for cellulose biosynthesis in bacteria, and in fact is found in cellulose biosynthesis gene regions. The protein was designated YhjU in Salmonella enteritidis, where disruption of its gene disrupts cellulose biosynthesis and biofilm formation (PubMed:11929533).
Probab=24.96 E-value=1.6e+02 Score=20.92 Aligned_cols=35 Identities=17% Similarity=0.268 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHhhcCCCCCeEEEE--------eeCCCCcCCCccc
Q psy5805 37 KKAEDMLKTLWDSKYIGEKAVILV--------ANKADLERRRQVT 73 (75)
Q Consensus 37 ~~~~~~~~~~~~~~~~~~~~~ilv--------gnK~Dl~~~r~v~ 73 (75)
+.+...+.++.. ..+++.+++| |.|.-+.+.|+++
T Consensus 380 ddld~F~~~le~--SgR~vvVv~VPEHGAAlrGDk~QisGLREIP 422 (518)
T TIGR03368 380 DDLDRFFDELEK--SGRKVVVVLVPEHGAALRGDKMQISGLREIP 422 (518)
T ss_pred HHHHHHHHHHHH--cCCcEEEEEecCcchhcccchhhhccccCCC
Confidence 344445555554 2355666555 6777777777764
No 446
>KOG2052|consensus
Probab=24.93 E-value=76 Score=22.33 Aligned_cols=32 Identities=16% Similarity=0.181 Sum_probs=26.9
Q ss_pred ccccchhhhhhhhhccCCcEEEEEEECCChhHHH
Q psy5805 4 RTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFK 37 (75)
Q Consensus 4 ~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~ 37 (75)
|.-||...+.--++ |.++++=+|...++.|+-
T Consensus 220 GkGRyGEVwrG~wr--Ge~VAVKiF~srdE~SWf 251 (513)
T KOG2052|consen 220 GKGRFGEVWRGRWR--GEDVAVKIFSSRDERSWF 251 (513)
T ss_pred cCccccceeecccc--CCceEEEEecccchhhhh
Confidence 56688888888888 899999999999998854
No 447
>KOG0463|consensus
Probab=24.92 E-value=53 Score=22.80 Aligned_cols=14 Identities=29% Similarity=0.351 Sum_probs=12.6
Q ss_pred CCCeEEEEeeCCCC
Q psy5805 53 GEKAVILVANKADL 66 (75)
Q Consensus 53 ~~~~~ilvgnK~Dl 66 (75)
-.+|+++|.+|+|+
T Consensus 272 L~VPVfvVVTKIDM 285 (641)
T KOG0463|consen 272 LHVPVFVVVTKIDM 285 (641)
T ss_pred hcCcEEEEEEeecc
Confidence 46899999999997
No 448
>cd07399 MPP_YvnB Bacillus subtilis YvnB and related proteins, metallophosphatase domain. YvnB (BSU35040) is an uncharacterized Bacillus subtilis protein with a metallophosphatase domain. This family includes bacterial and eukaryotic proteins similar to YvnB. YvnB belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for
Probab=24.45 E-value=1.6e+02 Score=17.70 Aligned_cols=42 Identities=10% Similarity=-0.023 Sum_probs=23.7
Q ss_pred CCcEEEEEEECCChhH-HHHHHHHHHHHHhhcCCCCCeEE-EEee
Q psy5805 20 HPDVFVIVYSVIERKT-FKKAEDMLKTLWDSKYIGEKAVI-LVAN 62 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s-~~~~~~~~~~~~~~~~~~~~~~i-lvgn 62 (75)
+++.+++.=|+.+... -.....+.+.++.... .++|++ +.||
T Consensus 35 ~~d~iv~~GDl~~~~~~~~~~~~~~~~~~~l~~-~~~p~~~~~GN 78 (214)
T cd07399 35 NIAFVLHLGDIVDDGDNDAEWEAADKAFARLDK-AGIPYSVLAGN 78 (214)
T ss_pred CCCEEEECCCccCCCCCHHHHHHHHHHHHHHHH-cCCcEEEECCC
Confidence 6899999999987554 3333333333333221 346654 4565
No 449
>COG1663 LpxK Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]
Probab=24.36 E-value=44 Score=22.23 Aligned_cols=11 Identities=36% Similarity=0.311 Sum_probs=9.0
Q ss_pred CCeEEEEeeCC
Q psy5805 54 EKAVILVANKA 64 (75)
Q Consensus 54 ~~~~ilvgnK~ 64 (75)
++|+|+|||-+
T Consensus 46 pvPVI~VGNlt 56 (336)
T COG1663 46 PVPVICVGNLT 56 (336)
T ss_pred CCCEEEEccEE
Confidence 58999999943
No 450
>KOG0464|consensus
Probab=24.19 E-value=17 Score=25.43 Aligned_cols=57 Identities=14% Similarity=-0.044 Sum_probs=37.9
Q ss_pred cccccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCC
Q psy5805 3 SRTSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADL 66 (75)
Q Consensus 3 s~~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl 66 (75)
-||-.|+--.+...+. -||++.|||-+-----+.+.-|... +.-++|-...-||.|-
T Consensus 110 pghvdf~leverclrv--ldgavav~dasagve~qtltvwrqa-----dk~~ip~~~finkmdk 166 (753)
T KOG0464|consen 110 PGHVDFRLEVERCLRV--LDGAVAVFDASAGVEAQTLTVWRQA-----DKFKIPAHCFINKMDK 166 (753)
T ss_pred CCcceEEEEHHHHHHH--hcCeEEEEeccCCcccceeeeehhc-----cccCCchhhhhhhhhh
Confidence 4677788777888885 8999999997633222233445311 2246788888888885
No 451
>cd00954 NAL N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL), which catalyses the reversible aldol reaction of N-acetyl-D-mannosamine and pyruvate to give N-acetyl-D-neuraminic acid (D-sialic acid). It has a widespread application as biocatalyst for the synthesis of sialic acid and its derivatives. This enzyme has been shown to be quite specific for pyruvate as the donor, but flexible to a variety of D- and, to some extent, L-hexoses and pentoses as acceptor substrates. NAL is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases.
Probab=24.17 E-value=2e+02 Score=18.24 Aligned_cols=39 Identities=10% Similarity=0.197 Sum_probs=24.5
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEE
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILV 60 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilv 60 (75)
|++++++.--.--+-+=+.+..++..+.+. .++.|+++.
T Consensus 96 Gad~v~~~~P~y~~~~~~~i~~~~~~v~~a--~~~lpi~iY 134 (288)
T cd00954 96 GYDAISAITPFYYKFSFEEIKDYYREIIAA--AASLPMIIY 134 (288)
T ss_pred CCCEEEEeCCCCCCCCHHHHHHHHHHHHHh--cCCCCEEEE
Confidence 889988754333333446677777777652 236787775
No 452
>PRK01906 tetraacyldisaccharide 4'-kinase; Provisional
Probab=24.11 E-value=44 Score=22.09 Aligned_cols=11 Identities=27% Similarity=0.235 Sum_probs=9.3
Q ss_pred CCCeEEEEeeC
Q psy5805 53 GEKAVILVANK 63 (75)
Q Consensus 53 ~~~~~ilvgnK 63 (75)
.++|+|.|||=
T Consensus 54 ~pvPVIsVGNi 64 (338)
T PRK01906 54 LGVPVVVVGNV 64 (338)
T ss_pred CCCCEEEECCc
Confidence 47899999984
No 453
>TIGR00682 lpxK tetraacyldisaccharide 4'-kinase. Also called lipid-A 4'-kinase. This essential gene encodes an enzyme in the pathway of lipid A biosynthesis in Gram-negative organisms. A single copy of this protein is found in Gram-negative bacteria. PSI-BLAST converges on this set of apparent orthologs without identifying any other homologs.
Probab=23.66 E-value=50 Score=21.52 Aligned_cols=12 Identities=25% Similarity=0.407 Sum_probs=9.9
Q ss_pred CCCeEEEEeeCC
Q psy5805 53 GEKAVILVANKA 64 (75)
Q Consensus 53 ~~~~~ilvgnK~ 64 (75)
.++|+|.|||=.
T Consensus 26 ~~vPVIsVGNit 37 (311)
T TIGR00682 26 APVPVVIVGNLS 37 (311)
T ss_pred CCCCEEEEeccc
Confidence 578999999853
No 454
>cd01339 LDH-like_MDH L-lactate dehydrogenase-like malate dehydrogenase proteins. Members of this subfamily have an LDH-like structure and an MDH enzymatic activity. Some members, like MJ0490 from Methanococcus jannaschii, exhibit both MDH and LDH activities. Tetrameric MDHs, including those from phototrophic bacteria, are more similar to LDHs than to other MDHs. LDH catalyzes the last step of glycolysis in which pyruvate is converted to L-lactate. MDH is one of the key enzymes in the citric acid cycle, facilitating both the conversion of malate to oxaloacetate and replenishing levels of oxalacetate by reductive carboxylation of pyruvate. The LDH-like MDHs are part of the NAD(P)-binding Rossmann fold superfamily, which includes a wide variety of protein families including the NAD(P)-binding domains of alcohol dehydrogenases, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate dehydrogenases, formate/glycerate dehydrogenases, siroheme synthases, 6-phosphogluconate dehydrogenas
Probab=23.56 E-value=2.1e+02 Score=18.22 Aligned_cols=45 Identities=22% Similarity=0.289 Sum_probs=27.1
Q ss_pred CCcEEEEEEECCCh----------hHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCC
Q psy5805 20 HPDVFVIVYSVIER----------KTFKKAEDMLKTLWDSKYIGEKAVILVANKADL 66 (75)
Q Consensus 20 ~~~~~ilv~d~~~~----------~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl 66 (75)
++|.+|+....... ..+.-++...+++.+. +++.-++++.|-+|+
T Consensus 66 dADiVIit~g~p~~~~~~r~e~~~~n~~i~~~i~~~i~~~--~p~~~iIv~sNP~di 120 (300)
T cd01339 66 GSDVVVITAGIPRKPGMSRDDLLGTNAKIVKEVAENIKKY--APNAIVIVVTNPLDV 120 (300)
T ss_pred CCCEEEEecCCCCCcCCCHHHHHHHHHHHHHHHHHHHHHH--CCCeEEEEecCcHHH
Confidence 79999987644321 2333344455566653 355566788887775
No 455
>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=23.37 E-value=1.5e+02 Score=16.61 Aligned_cols=44 Identities=18% Similarity=0.185 Sum_probs=29.0
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCc
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLE 67 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~ 67 (75)
.+|.+|++.+.+ ..++..+..+.+.++.. ......++.|+.+-.
T Consensus 84 ~ad~viiv~~~~-~~s~~~~~~~~~~~~~~---~~~~~~iv~N~~~~~ 127 (179)
T cd02036 84 PADEALLVTTPE-ISSLRDADRVKGLLEAL---GIKVVGVIVNRVRPD 127 (179)
T ss_pred hCCcEEEEeCCC-cchHHHHHHHHHHHHHc---CCceEEEEEeCCccc
Confidence 389999887664 45666666666666541 223466888988754
No 456
>TIGR00683 nanA N-acetylneuraminate lyase. N-acetylneuraminate lyase is also known as N-acetylneuraminic acid aldolase, sialic acid aldolase, or sialate lyase. It is an intracellular enzyme. The structure of this homotetrameric enzyme related to dihydrodipicolinate synthase is known. In Clostridium tertium, the enzyme appears to be in an operon with a secreted sialidase that releases sialic acid from host sialoglycoconjugates. In several E. coli strains, however, this enzyme is responsible for N-acetyl-D-neuraminic acid synthesis for capsule production by condensing N-acetyl-D-mannosamine and pyruvate.
Probab=22.61 E-value=2.2e+02 Score=18.17 Aligned_cols=39 Identities=15% Similarity=0.158 Sum_probs=25.0
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEE
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILV 60 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilv 60 (75)
|+|++++.--.--+.+-+.+..++..+.+ ..++.|+++.
T Consensus 96 Gad~v~v~~P~y~~~~~~~i~~yf~~v~~--~~~~lpv~lY 134 (290)
T TIGR00683 96 GYDCLSAVTPFYYKFSFPEIKHYYDTIIA--ETGGLNMIVY 134 (290)
T ss_pred CCCEEEEeCCcCCCCCHHHHHHHHHHHHh--hCCCCCEEEE
Confidence 88888885443334455677777777754 2346788775
No 457
>PRK06242 flavodoxin; Provisional
Probab=22.61 E-value=1.5e+02 Score=16.36 Aligned_cols=40 Identities=13% Similarity=0.104 Sum_probs=20.4
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEee
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVAN 62 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgn 62 (75)
+.|++++..-+-.-.-...+..|++.+.. ..+.+++++++
T Consensus 43 ~~d~ii~g~pvy~~~~~~~~~~fl~~~~~---~~~k~~~~f~t 82 (150)
T PRK06242 43 EYDLIGFGSGIYFGKFHKSLLKLIEKLPP---VSGKKAFIFST 82 (150)
T ss_pred HCCEEEEeCchhcCCcCHHHHHHHHhhhh---hcCCeEEEEEC
Confidence 46777776543333333345555554432 13456666654
No 458
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=22.29 E-value=1.4e+02 Score=15.76 Aligned_cols=38 Identities=18% Similarity=0.260 Sum_probs=20.9
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEe
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVA 61 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvg 61 (75)
+++.+.+ +.....++..+....+.+++ ..+++++++-|
T Consensus 51 ~pd~V~i--S~~~~~~~~~~~~l~~~~k~--~~p~~~iv~GG 88 (121)
T PF02310_consen 51 RPDVVGI--SVSMTPNLPEAKRLARAIKE--RNPNIPIVVGG 88 (121)
T ss_dssp TCSEEEE--EESSSTHHHHHHHHHHHHHT--TCTTSEEEEEE
T ss_pred CCcEEEE--EccCcCcHHHHHHHHHHHHh--cCCCCEEEEEC
Confidence 4666544 44445555556666656655 23556665544
No 459
>PF12997 DUF3881: Domain of unknown function, E. rectale Gene description (DUF3881); InterPro: IPR024541 This entry represents proteins of unknown function found primarily in Firmicutes. The Eubacterium rectale gene appears to be upregulated in the presence of Bacteroides thetaiotaomicron compared to growth in pure culture [].
Probab=22.21 E-value=72 Score=20.76 Aligned_cols=22 Identities=23% Similarity=0.155 Sum_probs=18.1
Q ss_pred CCCCeEEEEeeCCCCcCCCccc
Q psy5805 52 IGEKAVILVANKADLERRRQVT 73 (75)
Q Consensus 52 ~~~~~~ilvgnK~Dl~~~r~v~ 73 (75)
+.++++-++-||.||-++.+|-
T Consensus 251 cNdl~F~V~In~~dL~GEP~vG 272 (283)
T PF12997_consen 251 CNDLQFDVCINKKDLLGEPAVG 272 (283)
T ss_pred eCCeEEEEEEchhhccCCCCCC
Confidence 5678888999999998877663
No 460
>cd00952 CHBPH_aldolase Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA). HBPHA catalyzes HBP to salicyaldehyde and pyruvate. This reaction is part of the degradative pathways for naphthalene and naphthalenesulfonates by bacteria. CBPHA is homologous to HBPHA and catalyzes the cleavage of CBP to 2-carboxylbenzaldehyde and pyruvate during the degradation of phenanthrene. They are member of the DHDPS family of Schiff-base-dependent class I aldolases.
Probab=22.16 E-value=2.1e+02 Score=18.41 Aligned_cols=39 Identities=10% Similarity=0.090 Sum_probs=24.3
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEE
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILV 60 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilv 60 (75)
|+|++++.--.--+.+-+.+..+++.+.+. .+++|+++.
T Consensus 103 Gad~vlv~~P~y~~~~~~~l~~yf~~va~a--~~~lPv~iY 141 (309)
T cd00952 103 GADGTMLGRPMWLPLDVDTAVQFYRDVAEA--VPEMAIAIY 141 (309)
T ss_pred CCCEEEECCCcCCCCCHHHHHHHHHHHHHh--CCCCcEEEE
Confidence 889998874322233446676677777652 235888775
No 461
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=22.14 E-value=2.2e+02 Score=18.99 Aligned_cols=12 Identities=50% Similarity=0.517 Sum_probs=9.1
Q ss_pred EEEEeeCCCCcC
Q psy5805 57 VILVANKADLER 68 (75)
Q Consensus 57 ~ilvgnK~Dl~~ 68 (75)
=++|-||.|..+
T Consensus 192 Di~vINKaD~~~ 203 (323)
T COG1703 192 DIIVINKADRKG 203 (323)
T ss_pred heeeEeccChhh
Confidence 378889999653
No 462
>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=21.91 E-value=2.2e+02 Score=17.86 Aligned_cols=46 Identities=22% Similarity=0.243 Sum_probs=24.5
Q ss_pred CCcEEEEEEECCChh-HHHHHHHHHHHHHhhcCCCC--CeEEEEeeCCCCc
Q psy5805 20 HPDVFVIVYSVIERK-TFKKAEDMLKTLWDSKYIGE--KAVILVANKADLE 67 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~-s~~~~~~~~~~~~~~~~~~~--~~~ilvgnK~Dl~ 67 (75)
+.+++++|..++... ++.. ...+..+.+... .+ ..+++|-||+|..
T Consensus 114 ~idvIL~V~rlD~~r~~~~d-~~llk~I~e~fG-~~i~~~~ivV~T~~d~~ 162 (249)
T cd01853 114 TPDVVLYVDRLDMYRRDYLD-LPLLRAITDSFG-PSIWRNAIVVLTHAASS 162 (249)
T ss_pred CCCEEEEEEcCCCCCCCHHH-HHHHHHHHHHhC-hhhHhCEEEEEeCCccC
Confidence 477888887665432 2221 122223332211 11 3588999999974
No 463
>TIGR03566 FMN_reduc_MsuE FMN reductase, MsuE subfamily. Members of this protein family use NAD(P)H to reduce FMN and regenerate FMNH2. Members include the NADH-dependent enzyme MsuE from Pseudomonas aeruginosa, which serves as a partner to an FMNH2-dependent alkanesulfonate monooxygenase. The NADP-dependent enzyme from E. coli is outside the scope of this model.
Probab=21.78 E-value=1.8e+02 Score=16.81 Aligned_cols=42 Identities=17% Similarity=0.139 Sum_probs=18.4
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEee
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVAN 62 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgn 62 (75)
.+|++|++.-.=+-.-=-.+++|++.+... ...+.|++++++
T Consensus 68 ~AD~iIi~tP~Y~~s~~~~LKn~lD~~~~~-~l~~K~~~~v~~ 109 (174)
T TIGR03566 68 SADLLVVGSPVYRGSYTGLFKHLFDLVDPN-ALIGKPVLLAAT 109 (174)
T ss_pred HCCEEEEECCcCcCcCcHHHHHHHHhcCHh-HhCCCEEEEEEe
Confidence 488888863222221112234444433211 123456666554
No 464
>PRK08576 hypothetical protein; Provisional
Probab=21.78 E-value=1.7e+02 Score=20.18 Aligned_cols=36 Identities=19% Similarity=0.255 Sum_probs=29.2
Q ss_pred EEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeC
Q psy5805 25 VIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANK 63 (75)
Q Consensus 25 ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK 63 (75)
+=|.++-...+++.+..+++++.+ .+.+|++|.|-|
T Consensus 28 ~~v~~l~g~r~~~~~~~~~~~~~~---~~~~~~~l~g~~ 63 (438)
T PRK08576 28 LEVSSLGGARKFEEVEDNLEEALE---DDYFPILLLGRE 63 (438)
T ss_pred eEEEecCCCCCHHHHHHHHHhhcc---cCCceEEEeccc
Confidence 567788899999999998888764 467899998865
No 465
>COG0300 DltE Short-chain dehydrogenases of various substrate specificities [General function prediction only]
Probab=21.76 E-value=1.8e+02 Score=18.63 Aligned_cols=37 Identities=16% Similarity=0.193 Sum_probs=23.8
Q ss_pred cccchhhhhhhhhccCCcEEEEEEECCChhHHHHHHH
Q psy5805 5 TSCFTNLVVNFVQTYHPDVFVIVYSVIERKTFKKAED 41 (75)
Q Consensus 5 ~e~f~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~ 41 (75)
.|+-..+....-..++..+.++-.|+++++....+..
T Consensus 40 ~~kL~~la~~l~~~~~v~v~vi~~DLs~~~~~~~l~~ 76 (265)
T COG0300 40 EDKLEALAKELEDKTGVEVEVIPADLSDPEALERLED 76 (265)
T ss_pred HHHHHHHHHHHHHhhCceEEEEECcCCChhHHHHHHH
Confidence 3444444444443335678899999999988777644
No 466
>PF08348 PAS_6: YheO-like PAS domain; InterPro: IPR013559 This domain is found in various hypothetical bacterial proteins that are similar to the Escherichia coli protein YheO (P64624 from SWISSPROT). Their function is unknown, but a few members are annotated as being HTH-containing proteins and putative DNA-binding proteins.
Probab=21.69 E-value=1e+02 Score=17.13 Aligned_cols=24 Identities=21% Similarity=0.278 Sum_probs=14.7
Q ss_pred hhhhhhhccCCcEEEEEEECCChh
Q psy5805 11 LVVNFVQTYHPDVFVIVYSVIERK 34 (75)
Q Consensus 11 ~~~~~~~~~~~~~~ilv~d~~~~~ 34 (75)
+....-..+|.++-|+++|+++++
T Consensus 8 l~~~l~~~lG~~~EVVLHDl~~~~ 31 (118)
T PF08348_consen 8 LVDFLAATLGPNCEVVLHDLSDPE 31 (118)
T ss_pred HHHHHHHHhCCCeEEEEEECCCCC
Confidence 333333334778888888887553
No 467
>PF06490 FleQ: Flagellar regulatory protein FleQ; InterPro: IPR010518 This domain is found at the N terminus of a subset of sigma54-dependent transcriptional activators that are involved in regulation of flagellar motility e.g. FleQ in Pseudomonas aeruginosa. It is clearly related to IPR001789 from INTERPRO, but lacks the conserved aspartate residue that undergoes phosphorylation in the classic two-component system response regulator (IPR001789 from INTERPRO).
Probab=21.53 E-value=1.5e+02 Score=15.95 Aligned_cols=26 Identities=19% Similarity=0.353 Sum_probs=16.7
Q ss_pred HHHHHHHHHhhcCCCCCeEEEEeeCCCC
Q psy5805 39 AEDMLKTLWDSKYIGEKAVILVANKADL 66 (75)
Q Consensus 39 ~~~~~~~~~~~~~~~~~~~ilvgnK~Dl 66 (75)
...+++.+.. ..+.+|++++|.+...
T Consensus 56 ~~~~l~~l~~--~~~~~Pvlllg~~~~~ 81 (109)
T PF06490_consen 56 LAELLKELLK--WAPHIPVLLLGEHDSP 81 (109)
T ss_pred HHHHHHHHHh--hCCCCCEEEECCCCcc
Confidence 3334444444 2478999999988665
No 468
>cd03027 GRX_DEP Glutaredoxin (GRX) family, Dishevelled, Egl-10, and Pleckstrin (DEP) subfamily; composed of uncharacterized proteins containing a GRX domain and additional domains DEP and DUF547, both of which have unknown functions. GRX is a glutathione (GSH) dependent reductase containing a redox active CXXC motif in a TRX fold. It has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. By altering the redox state of target proteins, GRX is involved in many cellular functions.
Probab=21.29 E-value=1.2e+02 Score=14.61 Aligned_cols=12 Identities=17% Similarity=0.105 Sum_probs=8.9
Q ss_pred CCCCeEEEEeeC
Q psy5805 52 IGEKAVILVANK 63 (75)
Q Consensus 52 ~~~~~~ilvgnK 63 (75)
...+|.++++++
T Consensus 49 ~~~vP~v~i~~~ 60 (73)
T cd03027 49 SSVVPQIFFNEK 60 (73)
T ss_pred CCCcCEEEECCE
Confidence 357899888765
No 469
>COG1660 Predicted P-loop-containing kinase [General function prediction only]
Probab=21.17 E-value=2e+02 Score=18.79 Aligned_cols=29 Identities=28% Similarity=0.354 Sum_probs=25.6
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHHhh
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLWDS 49 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~ 49 (75)
-+-+.++.|+-+.+.|..+..++.++++.
T Consensus 51 ~~kvAv~iDiRs~~~~~~l~~~l~~l~~~ 79 (286)
T COG1660 51 ITKVAVVIDVRSREFFGDLEEVLDELKDN 79 (286)
T ss_pred CceEEEEEecccchhHHHHHHHHHHHHhc
Confidence 46788899999999999999999999874
No 470
>cd07400 MPP_YydB Bacillus subtilis YydB and related proteins, metallophosphatase domain. YydB (BSU40220) is an uncharacterized Bacillus subtilis protein that belongs to the following Bacillus subtilis gene cluster yydB-yydC-yydD-yydG-yydH-yydI-yydJ. YydB belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productiv
Probab=21.16 E-value=1.6e+02 Score=16.04 Aligned_cols=27 Identities=33% Similarity=0.609 Sum_probs=18.3
Q ss_pred CCcEEEEEEECCChhH---HHHHHHHHHHH
Q psy5805 20 HPDVFVIVYSVIERKT---FKKAEDMLKTL 46 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s---~~~~~~~~~~~ 46 (75)
+++.+++.=|+.+..+ +.....|+..+
T Consensus 35 ~~d~vi~~GDl~~~~~~~~~~~~~~~~~~l 64 (144)
T cd07400 35 DPDLVVITGDLTQRGLPEEFEEAREFLDAL 64 (144)
T ss_pred CCCEEEECCCCCCCCCHHHHHHHHHHHHHc
Confidence 6999999999887643 44444444444
No 471
>COG1182 AcpD Acyl carrier protein phosphodiesterase [Lipid metabolism]
Probab=21.02 E-value=1.5e+02 Score=18.39 Aligned_cols=36 Identities=14% Similarity=0.170 Sum_probs=26.6
Q ss_pred hhhhhhhhccCCcEEEEEEECCChhHHHHHHHHHHHHHh
Q psy5805 10 NLVVNFVQTYHPDVFVIVYSVIERKTFKKAEDMLKTLWD 48 (75)
Q Consensus 10 ~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~ 48 (75)
.+...+.. +|.+++++-+.|..-=..++.|++.+-.
T Consensus 80 ~l~~ef~a---AD~vVi~~PM~Nf~iPa~LK~yiD~i~~ 115 (202)
T COG1182 80 KLLEEFLA---ADKVVIAAPMYNFNIPAQLKAYIDHIAV 115 (202)
T ss_pred HHHHHHHh---cCeEEEEecccccCCCHHHHHHHHHHhc
Confidence 44455555 9999998888777655677889988865
No 472
>PRK13235 nifH nitrogenase reductase; Reviewed
Probab=20.90 E-value=2.2e+02 Score=17.65 Aligned_cols=43 Identities=19% Similarity=0.154 Sum_probs=25.1
Q ss_pred CcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeE-EEEeeCC
Q psy5805 21 PDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAV-ILVANKA 64 (75)
Q Consensus 21 ~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~-ilvgnK~ 64 (75)
+|.++++. -.++.|+..+...++.+.......+..+ -++.|+.
T Consensus 143 ad~vlIp~-~~e~~sl~g~~~ll~~i~~~~~~~~l~i~giv~n~~ 186 (274)
T PRK13235 143 AEEIYIVC-SGEMMAMYAANNICKGILKYADAGGVRLGGLICNSR 186 (274)
T ss_pred ccEEEEEe-cCchhHHHHHHHHHHHHHHHhhcCCCceeEEEEecC
Confidence 67777776 4467788777666555444322244443 3566764
No 473
>KOG1143|consensus
Probab=20.41 E-value=76 Score=22.05 Aligned_cols=45 Identities=20% Similarity=0.214 Sum_probs=26.5
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCCCcCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKADLERR 69 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~ 69 (75)
-.+...++.+.+.--.-. .+..+..+. .-++|++++.+|.||.+.
T Consensus 274 ~Ph~A~LvVsA~~Gi~~t-TrEHLgl~~----AL~iPfFvlvtK~Dl~~~ 318 (591)
T KOG1143|consen 274 TPHFACLVVSADRGITWT-TREHLGLIA----ALNIPFFVLVTKMDLVDR 318 (591)
T ss_pred CCceEEEEEEcCCCCccc-cHHHHHHHH----HhCCCeEEEEEeeccccc
Confidence 467777777665332111 111222222 247999999999999764
No 474
>COG0647 NagD Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]
Probab=20.21 E-value=1.7e+02 Score=18.78 Aligned_cols=38 Identities=24% Similarity=0.275 Sum_probs=28.0
Q ss_pred CCcEEEEEEECCChhHHHHHHHHHHHHHhhcCCCCCeEEEEeeCCC
Q psy5805 20 HPDVFVIVYSVIERKTFKKAEDMLKTLWDSKYIGEKAVILVANKAD 65 (75)
Q Consensus 20 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~ilvgnK~D 65 (75)
+.||+++ ...+.+.....+++.+++ .++|++++-|..-
T Consensus 14 DlDGvl~----~G~~~ipga~e~l~~L~~----~g~~~iflTNn~~ 51 (269)
T COG0647 14 DLDGVLY----RGNEAIPGAAEALKRLKA----AGKPVIFLTNNST 51 (269)
T ss_pred cCcCceE----eCCccCchHHHHHHHHHH----cCCeEEEEeCCCC
Confidence 5666666 356777777888888875 5689999988764
Done!