Query 045003
Match_columns 93
No_of_seqs 105 out of 811
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 08:54:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045003.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045003hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0532 InfB Translation initi 99.9 1.6E-27 3.4E-32 199.9 4.2 58 1-61 20-78 (509)
2 KOG1145 Mitochondrial translat 99.9 4.5E-27 9.8E-32 201.6 3.0 57 1-61 168-224 (683)
3 PRK14845 translation initiatio 99.8 2.7E-19 6E-24 159.3 4.3 55 1-58 476-546 (1049)
4 KOG1144 Translation initiation 99.7 2.2E-18 4.9E-23 152.5 2.9 56 1-59 490-561 (1064)
5 TIGR00487 IF-2 translation ini 99.4 1.5E-13 3.2E-18 115.7 3.9 56 1-60 102-157 (587)
6 PRK05306 infB translation init 99.4 5.7E-13 1.2E-17 116.1 4.3 54 1-59 305-358 (787)
7 PRK04004 translation initiatio 99.3 4.6E-13 1E-17 112.4 3.3 55 1-58 21-91 (586)
8 TIGR00491 aIF-2 translation in 99.3 1.7E-12 3.6E-17 109.7 3.5 55 1-58 19-89 (590)
9 CHL00189 infB translation init 99.2 8.8E-12 1.9E-16 108.4 3.3 55 1-58 259-315 (742)
10 cd01887 IF2_eIF5B IF2/eIF5B (i 98.6 8.2E-08 1.8E-12 63.5 4.0 50 1-50 15-65 (168)
11 PF00009 GTP_EFTU: Elongation 98.0 2.4E-06 5.3E-11 59.9 0.8 36 15-50 50-85 (188)
12 PRK10512 selenocysteinyl-tRNA- 97.9 1.2E-05 2.6E-10 68.4 3.6 49 1-50 15-66 (614)
13 TIGR00475 selB selenocysteine- 97.7 2.1E-05 4.6E-10 66.3 3.1 48 1-50 15-65 (581)
14 cd01879 FeoB Ferrous iron tran 97.7 7.9E-05 1.7E-09 48.6 4.6 48 1-50 11-58 (158)
15 cd04171 SelB SelB subfamily. 97.7 5.2E-05 1.1E-09 49.6 3.6 66 1-67 15-86 (164)
16 cd01885 EF2 EF2 (for archaea a 97.6 5.2E-05 1.1E-09 56.9 2.9 36 15-50 45-88 (222)
17 cd01884 EF_Tu EF-Tu subfamily. 97.6 3.5E-05 7.5E-10 56.2 1.8 33 16-50 48-80 (195)
18 PRK05124 cysN sulfate adenylyl 97.5 5.1E-05 1.1E-09 62.5 2.6 32 16-49 90-121 (474)
19 CHL00071 tufA elongation facto 97.5 6.1E-05 1.3E-09 60.3 2.8 32 16-49 58-89 (409)
20 TIGR02034 CysN sulfate adenyly 97.5 5E-05 1.1E-09 60.9 2.0 32 16-49 63-94 (406)
21 PLN00043 elongation factor 1-a 97.5 5E-05 1.1E-09 62.2 2.1 34 15-50 67-100 (447)
22 PTZ00141 elongation factor 1- 97.5 6.5E-05 1.4E-09 61.4 2.6 47 15-65 67-118 (446)
23 cd01890 LepA LepA subfamily. 97.5 0.00011 2.5E-09 49.4 3.1 35 16-50 45-82 (179)
24 cd01861 Rab6 Rab6 subfamily. 97.5 0.00015 3.3E-09 47.7 3.6 50 1-50 15-64 (161)
25 PRK12735 elongation factor Tu; 97.5 6.6E-05 1.4E-09 59.9 2.2 34 15-50 57-90 (396)
26 PLN03127 Elongation factor Tu; 97.5 7.5E-05 1.6E-09 61.3 2.5 32 16-49 107-138 (447)
27 PRK12317 elongation factor 1-a 97.4 0.00011 2.5E-09 58.4 3.3 33 16-50 67-99 (425)
28 cd01883 EF1_alpha Eukaryotic e 97.4 0.00012 2.6E-09 53.2 3.1 48 15-66 59-111 (219)
29 TIGR01394 TypA_BipA GTP-bindin 97.4 0.00011 2.5E-09 62.5 3.4 32 16-49 47-78 (594)
30 cd01889 SelB_euk SelB subfamil 97.4 0.00014 3.1E-09 50.8 3.3 34 16-49 37-82 (192)
31 cd01888 eIF2_gamma eIF2-gamma 97.4 0.0001 2.2E-09 52.9 2.4 64 2-66 16-117 (203)
32 PRK00049 elongation factor Tu; 97.4 9.3E-05 2E-09 59.1 2.1 33 15-49 57-89 (396)
33 COG4108 PrfC Peptide chain rel 97.3 0.00013 2.9E-09 62.8 2.5 32 17-50 65-96 (528)
34 PRK12736 elongation factor Tu; 97.3 0.00014 3.1E-09 57.9 2.3 33 16-50 58-90 (394)
35 cd01891 TypA_BipA TypA (tyrosi 97.3 0.00025 5.3E-09 49.7 3.2 33 16-50 48-80 (194)
36 cd04166 CysN_ATPS CysN_ATPS su 97.3 0.00017 3.7E-09 51.9 2.4 32 17-50 61-92 (208)
37 COG0480 FusA Translation elong 97.2 0.00034 7.4E-09 61.3 4.2 48 16-65 58-109 (697)
38 PRK05506 bifunctional sulfate 97.2 0.00016 3.5E-09 60.9 2.1 33 16-50 87-119 (632)
39 TIGR00485 EF-Tu translation el 97.2 0.00015 3.2E-09 57.6 1.7 33 15-49 57-89 (394)
40 TIGR00231 small_GTP small GTP- 97.2 0.00061 1.3E-08 42.6 4.0 52 1-52 16-67 (161)
41 cd01894 EngA1 EngA1 subfamily. 97.1 0.0011 2.3E-08 42.9 4.4 47 1-49 12-59 (157)
42 PTZ00327 eukaryotic translatio 97.1 0.00021 4.5E-09 59.4 1.0 63 2-66 50-151 (460)
43 cd04113 Rab4 Rab4 subfamily. 97.0 0.00092 2E-08 44.3 3.7 50 1-50 15-64 (161)
44 TIGR00483 EF-1_alpha translati 97.0 0.00045 9.9E-09 55.1 2.6 32 16-49 68-99 (426)
45 cd04119 RJL RJL (RabJ-Like) su 97.0 0.0011 2.4E-08 43.3 3.7 51 1-51 15-65 (168)
46 cd01886 EF-G Elongation factor 97.0 0.00077 1.7E-08 51.7 3.3 34 15-50 46-79 (270)
47 smart00175 RAB Rab subfamily o 97.0 0.0011 2.4E-08 43.5 3.5 51 1-51 15-65 (164)
48 PLN03126 Elongation factor Tu; 96.9 0.00064 1.4E-08 56.6 2.7 34 14-49 125-158 (478)
49 PRK07560 elongation factor EF- 96.9 0.00056 1.2E-08 58.9 2.3 49 17-65 67-120 (731)
50 cd01866 Rab2 Rab2 subfamily. 96.9 0.0014 2.9E-08 44.5 3.6 50 1-50 19-68 (168)
51 cd04124 RabL2 RabL2 subfamily. 96.9 0.002 4.3E-08 43.5 4.4 51 2-52 16-66 (161)
52 COG0481 LepA Membrane GTPase L 96.9 0.00077 1.7E-08 58.9 2.9 48 17-65 55-109 (603)
53 cd04168 TetM_like Tet(M)-like 96.9 0.00084 1.8E-08 50.3 2.8 48 16-65 47-97 (237)
54 TIGR01393 lepA GTP-binding pro 96.8 0.00073 1.6E-08 57.5 2.4 35 16-50 48-85 (595)
55 cd04167 Snu114p Snu114p subfam 96.8 0.00089 1.9E-08 48.1 2.5 50 16-65 49-104 (213)
56 PRK05433 GTP-binding protein L 96.8 0.00083 1.8E-08 57.2 2.4 35 16-50 52-89 (600)
57 cd04164 trmE TrmE (MnmE, ThdF, 96.8 0.0041 8.9E-08 40.0 5.1 66 2-69 17-94 (157)
58 cd04135 Tc10 TC10 subfamily. 96.7 0.0026 5.6E-08 42.7 4.1 51 2-53 16-66 (174)
59 TIGR00484 EF-G translation elo 96.7 0.0014 3.1E-08 55.8 3.4 33 16-50 58-90 (689)
60 KOG0465 Mitochondrial elongati 96.7 0.0012 2.6E-08 58.7 3.0 46 17-65 88-137 (721)
61 PRK12739 elongation factor G; 96.7 0.00087 1.9E-08 57.3 2.0 33 16-50 56-88 (691)
62 cd00881 GTP_translation_factor 96.7 0.0019 4.1E-08 43.1 3.2 33 16-50 45-77 (189)
63 PTZ00416 elongation factor 2; 96.7 0.0013 2.9E-08 57.7 2.9 50 16-65 65-125 (836)
64 cd04106 Rab23_lke Rab23-like s 96.6 0.0038 8.2E-08 41.1 4.1 51 1-51 15-67 (162)
65 cd00880 Era_like Era (E. coli 96.6 0.0065 1.4E-07 37.8 4.9 48 2-50 12-60 (163)
66 COG1217 TypA Predicted membran 96.5 0.0019 4.1E-08 56.5 3.0 38 10-50 46-83 (603)
67 KOG0462 Elongation factor-type 96.5 0.0024 5.1E-08 56.4 3.2 47 17-64 106-157 (650)
68 cd01862 Rab7 Rab7 subfamily. 96.5 0.0043 9.4E-08 41.1 3.8 42 28-69 42-86 (172)
69 PRK00741 prfC peptide chain re 96.5 0.0022 4.8E-08 53.9 2.8 33 16-50 62-94 (526)
70 PRK10218 GTP-binding protein; 96.4 0.0028 6E-08 54.5 3.2 33 16-50 51-83 (607)
71 cd01860 Rab5_related Rab5-rela 96.4 0.0051 1.1E-07 40.5 3.6 28 25-52 40-67 (163)
72 cd04169 RF3 RF3 subfamily. Pe 96.4 0.0027 5.9E-08 48.5 2.6 32 17-50 55-86 (267)
73 TIGR00503 prfC peptide chain r 96.4 0.003 6.4E-08 53.2 3.0 33 16-50 63-95 (527)
74 cd01852 AIG1 AIG1 (avrRpt2-ind 96.3 0.0048 1E-07 43.7 3.6 47 1-49 15-63 (196)
75 PRK00007 elongation factor G; 96.3 0.0027 5.9E-08 54.4 2.7 33 16-50 58-90 (693)
76 cd04165 GTPBP1_like GTPBP1-lik 96.3 0.003 6.4E-08 47.1 2.5 18 33-50 82-99 (224)
77 TIGR00437 feoB ferrous iron tr 96.3 0.009 1.9E-07 50.8 5.6 48 1-50 9-56 (591)
78 cd04116 Rab9 Rab9 subfamily. 96.3 0.0066 1.4E-07 40.6 3.8 26 27-52 46-71 (170)
79 cd04123 Rab21 Rab21 subfamily. 96.3 0.0066 1.4E-07 39.4 3.7 51 1-51 15-65 (162)
80 PLN00116 translation elongatio 96.3 0.0032 6.8E-08 55.4 2.8 50 16-65 65-131 (843)
81 cd04157 Arl6 Arl6 subfamily. 96.2 0.0043 9.3E-08 40.7 2.8 47 19-65 29-78 (162)
82 cd01864 Rab19 Rab19 subfamily. 96.2 0.006 1.3E-07 40.8 3.4 33 35-67 52-87 (165)
83 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 96.1 0.0082 1.8E-07 40.0 3.7 49 2-50 18-66 (166)
84 PRK12740 elongation factor G; 96.1 0.0041 9E-08 52.4 2.6 33 16-50 43-75 (668)
85 cd00154 Rab Rab family. Rab G 96.1 0.0076 1.6E-07 38.3 3.2 49 2-50 16-64 (159)
86 cd04145 M_R_Ras_like M-Ras/R-R 96.1 0.0092 2E-07 39.2 3.7 18 34-51 49-66 (164)
87 COG2895 CysN GTPases - Sulfate 96.0 0.0041 8.9E-08 52.8 2.1 36 16-55 69-104 (431)
88 cd04132 Rho4_like Rho4-like su 96.0 0.011 2.5E-07 40.3 3.9 33 34-66 48-83 (187)
89 cd00882 Ras_like_GTPase Ras-li 95.9 0.01 2.2E-07 36.2 3.0 50 1-50 11-60 (157)
90 cd04105 SR_beta Signal recogni 95.9 0.011 2.3E-07 42.8 3.6 50 19-68 32-85 (203)
91 cd04175 Rap1 Rap1 subgroup. T 95.9 0.011 2.5E-07 39.3 3.5 37 28-64 42-81 (164)
92 cd04160 Arfrp1 Arfrp1 subfamil 95.9 0.0098 2.1E-07 39.4 3.2 22 27-50 44-65 (167)
93 PRK13351 elongation factor G; 95.8 0.0059 1.3E-07 51.8 2.4 48 16-65 56-106 (687)
94 cd01897 NOG NOG1 is a nucleola 95.8 0.011 2.4E-07 39.3 3.2 45 1-47 15-59 (168)
95 cd01863 Rab18 Rab18 subfamily. 95.8 0.018 3.8E-07 38.0 4.0 49 2-50 16-64 (161)
96 smart00173 RAS Ras subfamily o 95.7 0.012 2.7E-07 38.9 3.1 63 2-65 16-81 (164)
97 cd04136 Rap_like Rap-like subf 95.7 0.014 3.1E-07 38.3 3.4 19 34-52 48-66 (163)
98 cd04176 Rap2 Rap2 subgroup. T 95.7 0.017 3.8E-07 38.2 3.7 28 27-54 41-68 (163)
99 cd00157 Rho Rho (Ras homology) 95.7 0.025 5.4E-07 37.4 4.4 64 2-66 16-82 (171)
100 cd04170 EF-G_bact Elongation f 95.6 0.011 2.3E-07 44.1 2.9 30 18-49 49-78 (268)
101 cd04114 Rab30 Rab30 subfamily. 95.6 0.02 4.4E-07 38.0 3.9 49 2-50 23-71 (169)
102 TIGR00490 aEF-2 translation el 95.6 0.0081 1.7E-07 51.9 2.5 49 17-65 66-119 (720)
103 PRK04000 translation initiatio 95.6 0.0072 1.6E-07 48.8 2.0 16 35-50 85-100 (411)
104 PTZ00369 Ras-like protein; Pro 95.6 0.018 3.9E-07 40.2 3.7 19 34-52 52-70 (189)
105 COG2229 Predicted GTPase [Gene 95.6 0.011 2.3E-07 45.5 2.7 42 20-64 56-100 (187)
106 cd04151 Arl1 Arl1 subfamily. 95.5 0.017 3.6E-07 38.5 3.3 34 33-66 41-77 (158)
107 cd01881 Obg_like The Obg-like 95.5 0.021 4.5E-07 37.8 3.7 45 1-46 11-55 (176)
108 smart00174 RHO Rho (Ras homolo 95.5 0.03 6.4E-07 37.5 4.4 53 1-54 13-65 (174)
109 COG3276 SelB Selenocysteine-sp 95.5 0.0087 1.9E-07 51.0 2.1 38 16-57 33-70 (447)
110 cd04147 Ras_dva Ras-dva subfam 95.5 0.015 3.2E-07 41.0 2.9 17 35-51 47-63 (198)
111 COG5256 TEF1 Translation elong 95.4 0.011 2.4E-07 50.1 2.7 45 16-64 68-117 (428)
112 KOG0464 Elongation factor G [T 95.4 0.011 2.3E-07 52.1 2.5 60 17-79 86-150 (753)
113 cd04107 Rab32_Rab38 Rab38/Rab3 95.4 0.037 8E-07 38.9 4.7 38 27-64 41-82 (201)
114 cd04138 H_N_K_Ras_like H-Ras/N 95.3 0.024 5.2E-07 36.7 3.5 18 34-51 48-65 (162)
115 cd04162 Arl9_Arfrp2_like Arl9/ 95.3 0.025 5.5E-07 38.7 3.6 33 20-52 29-61 (164)
116 cd04177 RSR1 RSR1 subgroup. R 95.3 0.029 6.2E-07 37.8 3.9 22 34-55 48-69 (168)
117 cd01867 Rab8_Rab10_Rab13_like 95.3 0.024 5.3E-07 38.2 3.4 25 28-52 45-69 (167)
118 TIGR03594 GTPase_EngA ribosome 95.2 0.02 4.3E-07 44.8 3.3 44 1-46 14-58 (429)
119 TIGR03598 GTPase_YsxC ribosome 95.1 0.023 5E-07 39.3 3.0 40 1-45 33-74 (179)
120 cd04122 Rab14 Rab14 subfamily. 95.1 0.031 6.8E-07 37.5 3.5 23 28-50 44-66 (166)
121 cd01868 Rab11_like Rab11-like. 95.1 0.033 7.1E-07 37.0 3.5 51 2-52 19-69 (165)
122 PLN03118 Rab family protein; P 95.0 0.038 8.2E-07 39.3 4.0 18 34-51 61-78 (211)
123 cd01865 Rab3 Rab3 subfamily. 95.0 0.036 7.7E-07 37.3 3.7 27 34-60 49-75 (165)
124 PRK00093 GTP-binding protein D 95.0 0.028 6E-07 44.4 3.5 44 2-47 17-61 (435)
125 cd01870 RhoA_like RhoA-like su 94.9 0.039 8.4E-07 37.0 3.6 24 28-51 42-65 (175)
126 PRK00093 GTP-binding protein D 94.8 0.046 9.9E-07 43.1 4.3 44 1-46 188-232 (435)
127 TIGR03680 eif2g_arch translati 94.8 0.013 2.7E-07 47.1 1.1 31 34-66 79-114 (406)
128 cd04110 Rab35 Rab35 subfamily. 94.8 0.046 1E-06 38.6 3.8 34 34-67 54-90 (199)
129 cd00877 Ran Ran (Ras-related n 94.8 0.072 1.6E-06 36.4 4.7 32 34-65 48-82 (166)
130 smart00178 SAR Sar1p-like memb 94.7 0.04 8.8E-07 38.5 3.4 29 20-50 48-76 (184)
131 cd01898 Obg Obg subfamily. Th 94.7 0.044 9.5E-07 36.3 3.5 43 1-46 15-59 (170)
132 KOG0458 Elongation factor 1 al 94.6 0.038 8.3E-07 48.7 3.7 35 14-50 236-270 (603)
133 cd04144 Ras2 Ras2 subfamily. 94.6 0.036 7.8E-07 38.7 2.9 17 35-51 47-63 (190)
134 cd04156 ARLTS1 ARLTS1 subfamil 94.6 0.057 1.2E-06 35.5 3.7 46 1-50 14-59 (160)
135 cd04139 RalA_RalB RalA/RalB su 94.5 0.047 1E-06 35.6 3.0 18 34-51 47-64 (164)
136 cd04161 Arl2l1_Arl13_like Arl2 94.4 0.042 9.1E-07 37.6 2.9 30 21-50 29-58 (167)
137 PTZ00099 rab6; Provisional 94.3 0.033 7.2E-07 39.6 2.3 33 28-60 22-54 (176)
138 cd01895 EngA2 EngA2 subfamily. 94.3 0.064 1.4E-06 34.8 3.4 44 2-47 18-62 (174)
139 cd04127 Rab27A Rab27a subfamil 94.3 0.07 1.5E-06 36.0 3.6 18 35-52 63-80 (180)
140 KOG0467 Translation elongation 94.2 0.03 6.4E-07 51.1 2.3 55 15-71 54-113 (887)
141 cd04108 Rab36_Rab34 Rab34/Rab3 94.2 0.08 1.7E-06 36.5 4.0 25 34-58 48-72 (170)
142 cd00876 Ras Ras family. The R 94.2 0.046 1E-06 35.3 2.5 18 34-51 46-63 (160)
143 PF01926 MMR_HSR1: 50S ribosom 94.1 0.057 1.2E-06 34.7 2.9 42 2-45 15-57 (116)
144 TIGR00436 era GTP-binding prot 94.1 0.066 1.4E-06 40.2 3.6 45 1-47 15-60 (270)
145 cd04159 Arl10_like Arl10-like 94.1 0.055 1.2E-06 34.4 2.7 46 1-50 14-59 (159)
146 TIGR03594 GTPase_EngA ribosome 94.0 0.14 3.1E-06 40.1 5.4 47 1-49 187-234 (429)
147 cd04101 RabL4 RabL4 (Rab-like4 94.0 0.099 2.1E-06 34.5 3.9 26 26-51 42-68 (164)
148 cd04112 Rab26 Rab26 subfamily. 93.9 0.08 1.7E-06 37.0 3.5 39 28-66 43-84 (191)
149 cd01853 Toc34_like Toc34-like 93.9 0.094 2E-06 40.1 4.2 46 1-48 46-92 (249)
150 cd04120 Rab12 Rab12 subfamily. 93.9 0.089 1.9E-06 38.5 3.9 25 27-51 41-65 (202)
151 cd04137 RheB Rheb (Ras Homolog 93.8 0.063 1.4E-06 36.3 2.7 48 2-50 17-64 (180)
152 cd04163 Era Era subfamily. Er 93.6 0.14 3.1E-06 32.5 4.0 16 33-48 49-64 (168)
153 cd04153 Arl5_Arl8 Arl5/Arl8 su 93.6 0.074 1.6E-06 36.5 2.9 18 33-50 57-74 (174)
154 cd04115 Rab33B_Rab33A Rab33B/R 93.5 0.14 2.9E-06 34.7 4.0 40 28-67 44-87 (170)
155 cd01871 Rac1_like Rac1-like su 93.5 0.13 2.8E-06 35.8 3.9 27 33-59 47-73 (174)
156 cd04154 Arl2 Arl2 subfamily. 93.5 0.078 1.7E-06 36.0 2.8 18 33-50 56-73 (173)
157 cd04130 Wrch_1 Wrch-1 subfamil 93.5 0.16 3.4E-06 34.5 4.2 35 28-62 41-75 (173)
158 cd04118 Rab24 Rab24 subfamily. 93.4 0.17 3.7E-06 34.8 4.4 24 28-51 43-66 (193)
159 cd04143 Rhes_like Rhes_like su 93.4 0.087 1.9E-06 39.7 3.1 51 1-52 15-65 (247)
160 cd04140 ARHI_like ARHI subfami 93.4 0.13 2.7E-06 34.6 3.6 18 34-51 48-65 (165)
161 PLN03071 GTP-binding nuclear p 93.3 0.18 3.8E-06 36.8 4.6 20 33-52 60-79 (219)
162 cd04134 Rho3 Rho3 subfamily. 93.3 0.16 3.5E-06 35.5 4.2 26 34-59 47-72 (189)
163 PRK09563 rbgA GTPase YlqF; Rev 93.3 0.13 2.7E-06 39.5 3.9 41 1-46 136-177 (287)
164 cd04111 Rab39 Rab39 subfamily. 93.2 0.16 3.5E-06 36.7 4.2 17 34-50 51-67 (211)
165 cd04109 Rab28 Rab28 subfamily. 93.2 0.17 3.6E-06 36.3 4.2 18 34-51 49-66 (215)
166 cd00878 Arf_Arl Arf (ADP-ribos 93.1 0.15 3.3E-06 33.5 3.7 18 33-50 41-58 (158)
167 cd01858 NGP_1 NGP-1. Autoanti 93.1 0.14 2.9E-06 35.1 3.5 39 1-44 117-156 (157)
168 smart00176 RAN Ran (Ras-relate 93.1 0.17 3.8E-06 36.9 4.3 19 33-51 42-60 (200)
169 cd04152 Arl4_Arl7 Arl4/Arl7 su 93.0 0.15 3.1E-06 35.5 3.5 18 33-50 50-67 (183)
170 cd00879 Sar1 Sar1 subfamily. 93.0 0.13 2.9E-06 35.2 3.3 29 20-50 50-78 (190)
171 PRK15494 era GTPase Era; Provi 92.9 0.16 3.4E-06 40.1 4.1 47 1-49 67-115 (339)
172 PF04548 AIG1: AIG1 family; I 92.9 0.1 2.2E-06 38.1 2.8 41 3-45 17-59 (212)
173 KOG0460 Mitochondrial translat 92.9 0.081 1.7E-06 45.2 2.5 48 14-65 98-150 (449)
174 cd01874 Cdc42 Cdc42 subfamily. 92.8 0.23 5E-06 34.5 4.3 18 34-51 48-65 (175)
175 PRK05291 trmE tRNA modificatio 92.6 0.22 4.9E-06 40.8 4.8 47 1-49 230-277 (449)
176 cd01878 HflX HflX subfamily. 92.6 0.18 4E-06 35.2 3.6 44 1-45 56-99 (204)
177 PRK03003 GTP-binding protein D 92.5 0.12 2.7E-06 42.2 3.1 43 1-45 226-269 (472)
178 cd04131 Rnd Rnd subfamily. Th 92.4 0.25 5.3E-06 34.8 4.2 33 28-60 42-74 (178)
179 PF02421 FeoB_N: Ferrous iron 92.4 0.099 2.1E-06 38.1 2.2 42 2-45 16-57 (156)
180 cd04155 Arl3 Arl3 subfamily. 92.3 0.19 4.2E-06 33.5 3.4 18 33-50 56-73 (173)
181 cd04178 Nucleostemin_like Nucl 92.3 0.16 3.4E-06 36.7 3.1 39 1-44 132-171 (172)
182 cd04125 RabA_like RabA-like su 92.3 0.26 5.6E-06 34.0 4.0 17 34-50 48-64 (188)
183 PLN03110 Rab GTPase; Provision 92.2 0.22 4.8E-06 36.0 3.8 26 27-52 53-78 (216)
184 TIGR03156 GTP_HflX GTP-binding 92.2 0.16 3.4E-06 40.6 3.2 44 1-45 204-247 (351)
185 PRK09554 feoB ferrous iron tra 92.0 0.25 5.4E-06 43.8 4.6 47 2-50 19-65 (772)
186 cd04133 Rop_like Rop subfamily 92.0 0.34 7.3E-06 34.4 4.5 29 30-58 44-72 (176)
187 PRK04213 GTP-binding protein; 92.0 0.19 4E-06 34.9 3.1 40 1-46 24-63 (201)
188 cd01857 HSR1_MMR1 HSR1/MMR1. 92.0 0.18 4E-06 34.0 3.0 40 2-46 99-139 (141)
189 cd01849 YlqF_related_GTPase Yl 92.0 0.17 3.8E-06 34.6 2.9 38 2-44 116-154 (155)
190 PRK03003 GTP-binding protein D 91.9 0.21 4.6E-06 40.8 3.8 44 1-46 53-97 (472)
191 TIGR03596 GTPase_YlqF ribosome 91.8 0.22 4.7E-06 37.9 3.5 40 1-45 133-173 (276)
192 cd04117 Rab15 Rab15 subfamily. 91.5 0.37 8E-06 32.5 4.1 27 24-50 38-64 (161)
193 cd04121 Rab40 Rab40 subfamily. 91.4 0.31 6.6E-06 35.1 3.8 25 27-51 47-71 (189)
194 cd04142 RRP22 RRP22 subfamily. 91.3 0.35 7.5E-06 34.8 4.0 15 35-49 49-63 (198)
195 COG0050 TufB GTPases - transla 91.3 0.22 4.8E-06 42.0 3.4 54 14-71 56-116 (394)
196 cd04146 RERG_RasL11_like RERG/ 91.2 0.28 6E-06 32.7 3.2 13 35-47 47-59 (165)
197 PF09439 SRPRB: Signal recogni 91.1 0.11 2.3E-06 38.9 1.3 34 33-66 47-86 (181)
198 cd04141 Rit_Rin_Ric Rit/Rin/Ri 91.1 0.35 7.6E-06 33.4 3.7 24 28-51 43-66 (172)
199 PRK09518 bifunctional cytidyla 90.9 0.25 5.5E-06 42.6 3.4 43 1-45 465-508 (712)
200 cd01855 YqeH YqeH. YqeH is an 90.8 0.18 4E-06 35.3 2.1 39 1-44 142-189 (190)
201 cd04158 ARD1 ARD1 subfamily. 90.8 0.4 8.7E-06 32.6 3.7 18 33-50 41-58 (169)
202 PRK00454 engB GTP-binding prot 90.6 0.34 7.3E-06 33.1 3.2 40 1-45 39-80 (196)
203 smart00177 ARF ARF-like small 90.6 0.3 6.5E-06 33.7 3.0 18 33-50 55-72 (175)
204 TIGR00450 mnmE_trmE_thdF tRNA 90.5 0.56 1.2E-05 38.8 5.0 47 1-49 218-265 (442)
205 cd04129 Rho2 Rho2 subfamily. 90.4 0.51 1.1E-05 32.8 4.0 25 34-58 48-72 (187)
206 cd01875 RhoG RhoG subfamily. 90.1 0.24 5.2E-06 34.9 2.2 19 34-52 50-68 (191)
207 cd01856 YlqF YlqF. Proteins o 89.9 0.39 8.5E-06 33.4 3.1 39 2-45 131-170 (171)
208 PLN03108 Rab family protein; P 89.9 0.46 9.9E-06 34.1 3.5 33 34-66 54-89 (210)
209 PF00071 Ras: Ras family; Int 89.7 0.38 8.2E-06 31.6 2.8 27 26-52 39-65 (162)
210 COG1100 GTPase SAR1 and relate 89.7 0.53 1.1E-05 32.8 3.6 62 2-63 21-82 (219)
211 PTZ00133 ADP-ribosylation fact 89.5 0.28 6.1E-06 34.4 2.2 18 33-50 59-76 (182)
212 cd04126 Rab20 Rab20 subfamily. 89.2 0.65 1.4E-05 34.6 4.0 26 34-59 43-68 (220)
213 KOG0468 U5 snRNP-specific prot 88.3 0.62 1.3E-05 42.9 4.0 49 17-65 176-230 (971)
214 cd04150 Arf1_5_like Arf1-Arf5- 88.3 0.49 1.1E-05 32.1 2.6 18 33-50 42-59 (159)
215 cd01893 Miro1 Miro1 subfamily. 87.7 1.1 2.3E-05 30.3 4.0 17 33-49 45-61 (166)
216 cd01876 YihA_EngB The YihA (En 87.5 0.87 1.9E-05 29.1 3.3 13 35-47 45-57 (170)
217 cd04128 Spg1 Spg1p. Spg1p (se 87.5 1.1 2.3E-05 31.6 4.0 33 28-60 42-74 (182)
218 cd04149 Arf6 Arf6 subfamily. 87.2 0.53 1.2E-05 32.4 2.3 33 33-65 51-86 (168)
219 KOG0461 Selenocysteine-specifi 86.9 0.57 1.2E-05 40.6 2.8 34 13-47 42-82 (522)
220 PRK00089 era GTPase Era; Revie 86.9 0.92 2E-05 34.0 3.6 15 33-47 51-65 (292)
221 cd01850 CDC_Septin CDC/Septin. 85.9 1.1 2.3E-05 34.5 3.6 47 2-48 20-76 (276)
222 PLN00223 ADP-ribosylation fact 85.7 0.84 1.8E-05 32.0 2.7 18 33-50 59-76 (181)
223 cd01859 MJ1464 MJ1464. This f 85.6 0.8 1.7E-05 30.9 2.5 38 2-44 117-155 (156)
224 TIGR03134 malonate_gamma malon 85.5 0.71 1.5E-05 35.9 2.5 52 34-85 67-145 (238)
225 KOG0469 Elongation factor 2 [T 85.3 0.61 1.3E-05 42.1 2.3 49 17-65 66-131 (842)
226 KOG2485 Conserved ATP/GTP bind 85.2 1 2.2E-05 37.5 3.4 42 1-45 158-206 (335)
227 cd04174 Rnd1_Rho6 Rnd1/Rho6 su 83.8 1.7 3.7E-05 32.9 3.8 33 29-61 55-87 (232)
228 TIGR02729 Obg_CgtA Obg family 83.2 1.9 4.1E-05 34.2 4.0 64 1-67 172-247 (329)
229 PRK12298 obgE GTPase CgtA; Rev 82.9 1.7 3.7E-05 35.5 3.7 44 1-45 174-217 (390)
230 cd01892 Miro2 Miro2 subfamily. 82.2 3.1 6.7E-05 28.5 4.3 25 27-51 46-70 (169)
231 PRK09518 bifunctional cytidyla 82.1 1.6 3.5E-05 37.8 3.5 43 1-46 290-334 (712)
232 cd04173 Rnd2_Rho7 Rnd2/Rho7 su 81.9 2 4.3E-05 32.2 3.5 24 29-52 43-66 (222)
233 cd01896 DRG The developmentall 81.7 2.2 4.7E-05 31.8 3.6 45 1-47 15-59 (233)
234 PTZ00132 GTP-binding nuclear p 81.4 3.2 6.9E-05 29.4 4.2 18 33-50 56-73 (215)
235 cd04148 RGK RGK subfamily. Th 81.1 2.7 5.8E-05 30.6 3.9 21 27-47 42-62 (221)
236 PF00350 Dynamin_N: Dynamin fa 80.5 1.2 2.7E-05 29.8 1.8 15 33-47 99-113 (168)
237 PRK09866 hypothetical protein; 79.6 1.5 3.2E-05 39.9 2.5 25 21-45 210-240 (741)
238 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 79.2 1.6 3.5E-05 31.0 2.2 34 28-61 46-79 (182)
239 COG1159 Era GTPase [General fu 78.7 1.3 2.8E-05 36.3 1.7 13 33-45 52-64 (298)
240 PRK12299 obgE GTPase CgtA; Rev 77.9 3.9 8.4E-05 32.7 4.2 66 1-67 173-248 (335)
241 cd04102 RabL3 RabL3 (Rab-like3 75.7 5.2 0.00011 29.4 4.1 17 35-51 54-70 (202)
242 PF08477 Miro: Miro-like prote 75.5 1.6 3.5E-05 27.5 1.2 63 1-65 14-83 (119)
243 TIGR03597 GTPase_YqeH ribosome 75.1 3.2 7E-05 33.1 3.0 42 2-48 170-217 (360)
244 COG1161 Predicted GTPases [Gen 75.0 2.4 5.1E-05 33.6 2.2 42 1-48 147-190 (322)
245 smart00053 DYNc Dynamin, GTPas 73.0 3.7 7.9E-05 31.7 2.8 31 16-47 107-137 (240)
246 TIGR00991 3a0901s02IAP34 GTP-b 73.0 4.5 9.7E-05 33.0 3.4 16 33-48 84-99 (313)
247 PRK12296 obgE GTPase CgtA; Rev 71.2 4.7 0.0001 34.6 3.3 42 1-44 174-215 (500)
248 PRK12297 obgE GTPase CgtA; Rev 70.9 6.8 0.00015 32.7 4.1 65 1-66 173-247 (424)
249 PRK11058 GTPase HflX; Provisio 70.4 5.5 0.00012 32.9 3.4 44 1-45 212-255 (426)
250 KOG1547 Septin CDC10 and relat 70.3 3.7 7.9E-05 34.2 2.4 14 35-48 104-117 (336)
251 cd01851 GBP Guanylate-binding 69.7 4.5 9.7E-05 30.1 2.5 31 17-47 41-72 (224)
252 PLN00023 GTP-binding protein; 69.5 9.9 0.00022 31.3 4.7 19 36-54 84-102 (334)
253 KOG0459 Polypeptide release fa 69.2 4.8 0.0001 35.2 3.0 35 13-50 138-172 (501)
254 TIGR00993 3a0901s04IAP86 chlor 69.1 7 0.00015 35.8 4.0 44 2-48 134-179 (763)
255 COG0218 Predicted GTPase [Gene 68.9 5.9 0.00013 30.7 3.1 41 1-46 39-81 (200)
256 COG1160 Predicted GTPases [Gen 68.9 6.7 0.00015 33.7 3.7 38 10-50 204-251 (444)
257 KOG0052 Translation elongation 67.2 4.3 9.3E-05 34.4 2.2 36 12-50 62-97 (391)
258 PF00735 Septin: Septin; Inte 66.5 5.5 0.00012 31.1 2.6 47 2-48 20-76 (281)
259 TIGR02528 EutP ethanolamine ut 65.0 2.4 5.2E-05 27.5 0.3 8 38-45 38-45 (142)
260 cd04104 p47_IIGP_like p47 (47- 62.2 6.4 0.00014 28.0 2.1 14 34-47 51-64 (197)
261 COG2721 UxaA Altronate dehydra 62.1 6.8 0.00015 33.3 2.5 32 33-65 269-300 (381)
262 PTZ00258 GTP-binding protein; 62.1 8.8 0.00019 31.9 3.1 44 1-44 36-94 (390)
263 COG0825 AccA Acetyl-CoA carbox 61.8 5.3 0.00011 33.2 1.7 12 34-45 151-162 (317)
264 PF00025 Arf: ADP-ribosylation 61.7 13 0.00028 26.0 3.5 47 20-68 45-94 (175)
265 cd01882 BMS1 Bms1. Bms1 is an 60.8 10 0.00023 27.9 3.0 14 33-46 81-94 (225)
266 KOG0813 Glyoxylase [General fu 60.8 8.5 0.00018 30.9 2.7 32 14-47 87-119 (265)
267 cd01900 YchF YchF subfamily. 57.6 12 0.00025 29.5 3.0 43 2-44 14-71 (274)
268 COG5257 GCD11 Translation init 56.8 5.1 0.00011 34.3 0.9 29 35-65 86-119 (415)
269 PRK12289 GTPase RsgA; Reviewed 55.5 9.4 0.0002 31.0 2.2 14 37-50 226-239 (352)
270 KOG1532 GTPase XAB1, interacts 54.4 2.4 5.1E-05 35.7 -1.4 36 14-49 86-131 (366)
271 COG2989 Uncharacterized protei 54.1 6.6 0.00014 34.8 1.2 32 23-57 439-470 (561)
272 PRK13796 GTPase YqeH; Provisio 53.8 13 0.00027 29.9 2.6 27 14-45 194-220 (365)
273 PF00448 SRP54: SRP54-type pro 51.5 7.8 0.00017 28.5 1.0 16 34-49 83-98 (196)
274 PRK09602 translation-associate 50.5 18 0.00039 29.7 3.1 43 2-44 17-81 (396)
275 KOG0092 GTPase Rab5/YPT51 and 50.5 20 0.00044 28.1 3.2 44 20-63 35-82 (200)
276 PRK15467 ethanolamine utilizat 50.1 8.9 0.00019 26.4 1.1 32 39-70 41-79 (158)
277 PRK09601 GTP-binding protein Y 41.5 34 0.00074 28.3 3.4 43 2-44 18-75 (364)
278 KOG0098 GTPase Rab2, small G p 41.3 26 0.00056 27.9 2.6 30 21-50 41-70 (216)
279 cd01873 RhoBTB RhoBTB subfamil 40.7 23 0.00051 25.4 2.1 15 33-47 64-78 (195)
280 KOG0090 Signal recognition par 39.6 21 0.00046 28.7 1.9 38 34-71 81-128 (238)
281 PF04295 GD_AH_C: D-galactarat 39.3 23 0.00049 29.9 2.1 32 33-65 281-312 (396)
282 PRK10594 murein L,D-transpepti 39.1 22 0.00047 31.7 2.1 27 23-50 486-512 (608)
283 TIGR03248 galactar-dH20 galact 38.8 27 0.00059 30.5 2.5 32 33-65 390-421 (507)
284 cd03115 SRP The signal recogni 38.4 21 0.00045 24.5 1.5 16 33-48 81-96 (173)
285 cd06562 GH20_HexA_HexB-like Be 38.2 11 0.00024 30.0 0.2 12 36-47 86-97 (348)
286 COG1084 Predicted GTPase [Gene 37.2 42 0.00091 28.3 3.3 12 34-45 214-225 (346)
287 KOG1423 Ras-like GTPase ERA [C 36.4 30 0.00066 29.5 2.4 12 33-44 118-129 (379)
288 TIGR00064 ftsY signal recognit 35.2 25 0.00055 27.2 1.7 16 33-48 153-168 (272)
289 cd02742 GH20_hexosaminidase Be 34.3 12 0.00025 29.1 -0.3 13 36-48 88-100 (303)
290 PF10662 PduV-EutP: Ethanolami 34.0 17 0.00038 26.4 0.6 7 39-45 40-46 (143)
291 CHL00198 accA acetyl-CoA carbo 33.8 27 0.00059 28.7 1.7 13 34-46 155-167 (322)
292 cd06570 GH20_chitobiase-like_1 33.6 16 0.00035 29.0 0.4 12 37-48 85-96 (311)
293 PRK05724 acetyl-CoA carboxylas 33.5 28 0.00061 28.5 1.7 52 33-84 151-225 (319)
294 cd06564 GH20_DspB_LnbB-like Gl 33.1 13 0.00027 29.2 -0.3 12 37-48 99-110 (326)
295 cd06563 GH20_chitobiase-like T 32.9 15 0.00032 29.3 0.1 13 36-48 102-114 (357)
296 COG3025 Uncharacterized conser 32.9 22 0.00048 30.7 1.1 27 36-69 37-63 (432)
297 PF00728 Glyco_hydro_20: Glyco 32.3 21 0.00046 27.2 0.8 13 36-48 89-101 (351)
298 KOG0466 Translation initiation 32.0 22 0.00049 30.7 1.0 13 36-48 126-138 (466)
299 PRK13849 putative crown gall t 31.8 31 0.00068 25.9 1.6 14 34-47 83-96 (231)
300 KOG0095 GTPase Rab30, small G 31.0 36 0.00078 26.8 1.9 49 28-76 49-101 (213)
301 COG0370 FeoB Fe2+ transport sy 30.2 74 0.0016 28.8 3.9 18 33-50 48-65 (653)
302 TIGR03499 FlhF flagellar biosy 29.9 34 0.00073 26.4 1.6 11 34-44 272-282 (282)
303 PRK13768 GTPase; Provisional 29.9 39 0.00085 25.5 1.9 15 34-48 96-110 (253)
304 PF04597 Ribophorin_I: Ribopho 29.7 67 0.0015 26.7 3.4 25 34-71 368-392 (432)
305 PF01740 STAS: STAS domain; I 29.6 17 0.00037 23.3 -0.1 42 20-65 45-87 (117)
306 TIGR00513 accA acetyl-CoA carb 29.4 36 0.00078 27.9 1.7 13 34-46 152-164 (316)
307 PHA02518 ParA-like protein; Pr 29.0 47 0.001 22.9 2.0 14 33-46 75-88 (211)
308 PRK10416 signal recognition pa 28.8 36 0.00079 27.1 1.6 17 33-49 195-211 (318)
309 COG0491 GloB Zn-dependent hydr 28.7 35 0.00077 23.2 1.4 14 34-47 137-150 (252)
310 cd06568 GH20_SpHex_like A subg 28.2 18 0.00038 28.8 -0.2 12 36-47 91-102 (329)
311 PRK12319 acetyl-CoA carboxylas 28.1 40 0.00087 26.5 1.7 14 33-46 98-111 (256)
312 PLN02469 hydroxyacylglutathion 27.9 36 0.00079 26.0 1.4 13 35-47 102-114 (258)
313 cd06569 GH20_Sm-chitobiase-lik 27.6 19 0.00042 30.1 -0.1 11 37-47 114-124 (445)
314 PRK09841 cryptic autophosphory 27.6 70 0.0015 28.0 3.3 15 34-48 640-654 (726)
315 PLN03230 acetyl-coenzyme A car 27.1 41 0.00089 29.0 1.7 53 33-85 221-296 (431)
316 PLN02398 hydroxyacylglutathion 26.7 40 0.00087 27.3 1.6 14 34-47 176-189 (329)
317 PRK10241 hydroxyacylglutathion 26.4 45 0.00098 25.1 1.7 14 34-47 99-112 (251)
318 PRK06731 flhF flagellar biosyn 25.6 46 0.00099 26.1 1.6 16 34-49 154-169 (270)
319 COG3596 Predicted GTPase [Gene 25.4 35 0.00076 28.2 1.0 15 33-47 85-99 (296)
320 cd06565 GH20_GcnA-like Glycosy 25.3 18 0.00039 28.2 -0.6 13 36-48 76-88 (301)
321 TIGR01425 SRP54_euk signal rec 25.2 45 0.00097 28.2 1.6 15 34-48 182-196 (429)
322 KOG0395 Ras-related GTPase [Ge 25.0 54 0.0012 24.2 1.9 23 28-50 44-66 (196)
323 cd03110 Fer4_NifH_child This p 24.6 62 0.0013 22.2 2.0 14 33-46 91-104 (179)
324 cd01899 Ygr210 Ygr210 subfamil 24.6 1.1E+02 0.0024 24.4 3.7 11 35-45 69-79 (318)
325 cd02036 MinD Bacterial cell di 24.4 59 0.0013 21.7 1.8 11 36-46 64-74 (179)
326 PRK05703 flhF flagellar biosyn 24.0 48 0.001 27.5 1.5 16 34-49 299-314 (424)
327 PRK13231 nitrogenase reductase 23.8 73 0.0016 23.4 2.3 14 33-46 112-125 (264)
328 PLN02962 hydroxyacylglutathion 23.8 71 0.0015 24.6 2.4 14 34-47 114-127 (251)
329 KOG2655 Septin family protein 23.7 44 0.00096 28.1 1.3 30 20-49 62-93 (366)
330 PRK07182 flgB flagellar basal 23.6 34 0.00073 24.5 0.5 8 40-47 33-40 (148)
331 PRK12685 flgB flagellar basal 23.6 33 0.0007 23.7 0.4 11 37-47 30-40 (116)
332 TIGR00750 lao LAO/AO transport 23.3 52 0.0011 25.4 1.6 14 33-46 125-138 (300)
333 KOG0080 GTPase Rab18, small G 23.2 1.5E+02 0.0032 23.6 4.0 41 19-59 44-84 (209)
334 PRK12288 GTPase RsgA; Reviewed 23.1 70 0.0015 25.9 2.3 14 37-50 259-272 (347)
335 COG0616 SppA Periplasmic serin 23.1 49 0.0011 26.3 1.4 38 35-72 100-144 (317)
336 KOG0463 GTP-binding protein GP 22.9 42 0.00091 29.9 1.1 15 34-48 218-232 (641)
337 cd03114 ArgK-like The function 22.8 94 0.002 21.6 2.7 29 34-63 91-119 (148)
338 COG5019 CDC3 Septin family pro 22.5 69 0.0015 27.2 2.2 27 23-49 68-96 (373)
339 PRK14722 flhF flagellar biosyn 22.1 55 0.0012 27.1 1.5 17 33-49 214-230 (374)
340 cd02040 NifH NifH gene encodes 21.8 99 0.0021 22.4 2.7 13 34-46 116-128 (270)
341 PRK12726 flagellar biosynthesi 21.8 57 0.0012 27.9 1.6 15 34-48 285-299 (407)
342 KOG0079 GTP-binding protein H- 21.3 87 0.0019 24.5 2.4 38 27-64 49-88 (198)
343 cd03112 CobW_like The function 21.2 65 0.0014 22.4 1.6 13 34-46 86-98 (158)
344 PF04670 Gtr1_RagA: Gtr1/RagA 21.1 82 0.0018 24.2 2.2 40 10-50 22-63 (232)
345 KOG2499 Beta-N-acetylhexosamin 21.1 38 0.00082 30.2 0.4 10 38-47 268-277 (542)
346 PF03029 ATP_bind_1: Conserved 21.0 44 0.00095 25.4 0.7 13 36-48 92-104 (238)
347 PRK10319 N-acetylmuramoyl-l-al 20.9 68 0.0015 25.5 1.8 13 53-65 94-106 (287)
348 PRK05452 anaerobic nitric oxid 20.8 69 0.0015 26.8 1.9 14 34-47 135-149 (479)
349 PRK11921 metallo-beta-lactamas 20.4 66 0.0014 25.7 1.6 13 34-46 131-144 (394)
No 1
>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=99.94 E-value=1.6e-27 Score=199.90 Aligned_cols=58 Identities=29% Similarity=0.415 Sum_probs=53.6
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcC-CCCeeEEEcCCCcccccCchhhhhcccEe
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMST-GGIKFNFHNCEFYHRTSLFFFVQLRNFVI 61 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~-~~~~itFiDTPGHeAFs~f~~mR~RGa~i 61 (93)
+|||+||+|+|+++||||||||||||+|+++. +.++||||||||||||++ ||+||+.+
T Consensus 20 tLLD~IR~t~Va~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~---mRaRGa~v 78 (509)
T COG0532 20 TLLDKIRKTNVAAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTA---MRARGASV 78 (509)
T ss_pred chhhhHhcCccccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHH---HHhcCCcc
Confidence 69999999999999999999999999999962 468999999999999997 99999854
No 2
>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=99.93 E-value=4.5e-27 Score=201.57 Aligned_cols=57 Identities=39% Similarity=0.545 Sum_probs=54.0
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhcccEe
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFVI 61 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~i 61 (93)
.|||++|+|+||+.|+||||||||||+|+++ ++++|||||||||+||++ ||+|||.|
T Consensus 168 TLLD~lRks~VAA~E~GGITQhIGAF~V~~p-~G~~iTFLDTPGHaAF~a---MRaRGA~v 224 (683)
T KOG1145|consen 168 TLLDALRKSSVAAGEAGGITQHIGAFTVTLP-SGKSITFLDTPGHAAFSA---MRARGANV 224 (683)
T ss_pred hHHHHHhhCceehhhcCCccceeceEEEecC-CCCEEEEecCCcHHHHHH---HHhccCcc
Confidence 4899999999999999999999999999998 889999999999999987 99999853
No 3
>PRK14845 translation initiation factor IF-2; Provisional
Probab=99.76 E-value=2.7e-19 Score=159.27 Aligned_cols=55 Identities=33% Similarity=0.353 Sum_probs=47.2
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCC----------------CCeeEEEcCCCcccccCchhhhhcc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTG----------------GIKFNFHNCEFYHRTSLFFFVQLRN 58 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~----------------~~~itFiDTPGHeAFs~f~~mR~RG 58 (93)
+|||+||+|+|+++||||||||||||+|+.+.. .++++|+|||||++|+. ||.++
T Consensus 476 tLLD~iR~t~v~~~EaGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGhe~F~~---lr~~g 546 (1049)
T PRK14845 476 TLLDKIRKTRVAKKEAGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGHEAFTS---LRKRG 546 (1049)
T ss_pred cHHHHHhCCCcccccCCCceeccceEEEEecccccccccccccccccCCcCcEEEEECCCcHHHHH---HHHhh
Confidence 699999999999999999999999999998621 23599999999999976 55544
No 4
>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]
Probab=99.71 E-value=2.2e-18 Score=152.55 Aligned_cols=56 Identities=25% Similarity=0.208 Sum_probs=49.3
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcC----------------CCCeeEEEcCCCcccccCchhhhhccc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMST----------------GGIKFNFHNCEFYHRTSLFFFVQLRNF 59 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~----------------~~~~itFiDTPGHeAFs~f~~mR~RGa 59 (93)
+|||.||+|||..+|||||||.|||+.+|... +.+.+++|||||||-|++ +|+||.
T Consensus 490 Klld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvIdtpghEsFtn---lRsrgs 561 (1064)
T KOG1144|consen 490 KLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVIDTPGHESFTN---LRSRGS 561 (1064)
T ss_pred HHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEecCCCchhhhh---hhhccc
Confidence 58999999999999999999999999999761 357899999999999998 455554
No 5
>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=99.40 E-value=1.5e-13 Score=115.73 Aligned_cols=56 Identities=30% Similarity=0.432 Sum_probs=49.3
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhcccE
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFV 60 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~ 60 (93)
+|||+||+++++.+|+|||||++|++.+++. +..+++|+|||||++|.. ||.||+.
T Consensus 102 SLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~-~~~~i~~iDTPGhe~F~~---~r~rga~ 157 (587)
T TIGR00487 102 SLLDSIRKTKVAQGEAGGITQHIGAYHVENE-DGKMITFLDTPGHEAFTS---MRARGAK 157 (587)
T ss_pred HHHHHHHhCCcccccCCceeecceEEEEEEC-CCcEEEEEECCCCcchhh---HHHhhhc
Confidence 5899999999999999999999999999985 344899999999999976 7777653
No 6
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=99.35 E-value=5.7e-13 Score=116.11 Aligned_cols=54 Identities=37% Similarity=0.523 Sum_probs=49.4
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhccc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNF 59 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa 59 (93)
+|||+||+++++.+|+|||||++|++.+.+. +..|+|+|||||++|+. ||.||+
T Consensus 305 SLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~--~~~ItfiDTPGhe~F~~---m~~rga 358 (787)
T PRK05306 305 SLLDAIRKTNVAAGEAGGITQHIGAYQVETN--GGKITFLDTPGHEAFTA---MRARGA 358 (787)
T ss_pred HHHHHHHhCCccccccCceeeeccEEEEEEC--CEEEEEEECCCCccchh---HHHhhh
Confidence 5899999999999999999999999999985 67899999999999976 777766
No 7
>PRK04004 translation initiation factor IF-2; Validated
Probab=99.34 E-value=4.6e-13 Score=112.41 Aligned_cols=55 Identities=35% Similarity=0.419 Sum_probs=46.0
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCC----C------------CeeEEEcCCCcccccCchhhhhcc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTG----G------------IKFNFHNCEFYHRTSLFFFVQLRN 58 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~----~------------~~itFiDTPGHeAFs~f~~mR~RG 58 (93)
||||+||+++++++|+|||||||||+.++.+.. + ++++|+|||||++|.. ||.||
T Consensus 21 SLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e~f~~---~~~~~ 91 (586)
T PRK04004 21 TLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHEAFTN---LRKRG 91 (586)
T ss_pred HHHHHHhCcccccCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChHHHHH---HHHHh
Confidence 599999999999999999999999999876410 0 1389999999999976 56665
No 8
>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=99.29 E-value=1.7e-12 Score=109.73 Aligned_cols=55 Identities=31% Similarity=0.342 Sum_probs=45.9
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCC----------------CCeeEEEcCCCcccccCchhhhhcc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTG----------------GIKFNFHNCEFYHRTSLFFFVQLRN 58 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~----------------~~~itFiDTPGHeAFs~f~~mR~RG 58 (93)
+|||+|++++++.+|+|||||+||++.++.+.. ..+++|+|||||++|.. ||.++
T Consensus 19 SLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f~~---l~~~~ 89 (590)
T TIGR00491 19 TLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAFTN---LRKRG 89 (590)
T ss_pred HHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhHHH---HHHHH
Confidence 589999999999999999999999999987411 12499999999999986 45543
No 9
>CHL00189 infB translation initiation factor 2; Provisional
Probab=99.19 E-value=8.8e-12 Score=108.38 Aligned_cols=55 Identities=31% Similarity=0.444 Sum_probs=48.0
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEc--CCCCeeEEEcCCCcccccCchhhhhcc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMS--TGGIKFNFHNCEFYHRTSLFFFVQLRN 58 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~--~~~~~itFiDTPGHeAFs~f~~mR~RG 58 (93)
+|+|+|++++++.+|+|||||++++|++.+. +++.+++|+|||||++|.. ||.||
T Consensus 259 SLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~---mr~rg 315 (742)
T CHL00189 259 TLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSS---MRSRG 315 (742)
T ss_pred HHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHH---HHHHH
Confidence 5899999999999999999999999998875 2457999999999999976 66654
No 10
>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.
Probab=98.56 E-value=8.2e-08 Score=63.50 Aligned_cols=50 Identities=34% Similarity=0.400 Sum_probs=42.1
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEc-CCCCeeEEEcCCCcccccC
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMS-TGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~-~~~~~itFiDTPGHeAFs~ 50 (93)
+|+.+|.+..+...+..++||+++.+.+... .++..++|+|||||+.|..
T Consensus 15 sli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~ 65 (168)
T cd01887 15 TLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTN 65 (168)
T ss_pred HHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHH
Confidence 4778888888888889999999999999874 2467899999999998765
No 11
>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=97.96 E-value=2.4e-06 Score=59.91 Aligned_cols=36 Identities=11% Similarity=0.014 Sum_probs=30.2
Q ss_pred ccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
+..|||++++...+....+...++|||||||+.|..
T Consensus 50 ~~~~~ti~~~~~~~~~~~~~~~i~~iDtPG~~~f~~ 85 (188)
T PF00009_consen 50 RERGITIDLSFISFEKNENNRKITLIDTPGHEDFIK 85 (188)
T ss_dssp HHCTSSSSSEEEEEEBTESSEEEEEEEESSSHHHHH
T ss_pred hhcccccccccccccccccccceeecccccccceee
Confidence 457999999999998222588999999999999864
No 12
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=97.86 E-value=1.2e-05 Score=68.43 Aligned_cols=49 Identities=14% Similarity=0.146 Sum_probs=35.7
Q ss_pred ChhhHHhhcCC--cCcc-cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 1 MISDALRQTSV--VAKE-AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 1 sLLD~IR~t~V--a~~E-aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
+|+++|.+++. ...| ..|||+++|-..+..+ ++..++|+|||||+.|..
T Consensus 15 tLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~-~g~~i~~IDtPGhe~fi~ 66 (614)
T PRK10512 15 TLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQP-DGRVLGFIDVPGHEKFLS 66 (614)
T ss_pred HHHHHHhCCCCccchhcccCCceEEeeeEEEecC-CCcEEEEEECCCHHHHHH
Confidence 47888876443 2223 4799999996666553 467899999999999943
No 13
>TIGR00475 selB selenocysteine-specific elongation factor SelB. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.
Probab=97.74 E-value=2.1e-05 Score=66.26 Aligned_cols=48 Identities=13% Similarity=0.152 Sum_probs=36.8
Q ss_pred ChhhHHhhcCC---cCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 1 MISDALRQTSV---VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 1 sLLD~IR~t~V---a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
+|+.+|.+.+. ......|||++++...++++ +..++|+|||||+.|..
T Consensus 15 TLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~--~~~v~~iDtPGhe~f~~ 65 (581)
T TIGR00475 15 TLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLP--DYRLGFIDVPGHEKFIS 65 (581)
T ss_pred HHHHHHhCccCcCChhHhcCCceEEeEEEEEEeC--CEEEEEEECCCHHHHHH
Confidence 47788876432 22336799999998888875 58899999999999864
No 14
>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=97.69 E-value=7.9e-05 Score=48.59 Aligned_cols=48 Identities=13% Similarity=-0.006 Sum_probs=36.6
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
+|+.+|.+.....++..|+|.+.-...+.++ +..+.|+||||++.|..
T Consensus 11 sl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~liDtpG~~~~~~ 58 (158)
T cd01879 11 TLFNALTGARQKVGNWPGVTVEKKEGRFKLG--GKEIEIVDLPGTYSLSP 58 (158)
T ss_pred HHHHHHhcCcccccCCCCcccccceEEEeeC--CeEEEEEECCCccccCC
Confidence 4677777766566677888888776666664 56899999999998875
No 15
>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=97.67 E-value=5.2e-05 Score=49.57 Aligned_cols=66 Identities=15% Similarity=0.238 Sum_probs=40.4
Q ss_pred ChhhHHhhcC--CcCcc-cCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh---hhcccEeEEeccc
Q 045003 1 MISDALRQTS--VVAKE-AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV---QLRNFVIVLRKNN 67 (93)
Q Consensus 1 sLLD~IR~t~--Va~~E-aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m---R~RGa~iv~~~~~ 67 (93)
+|+.++.+.+ ....| ..++|..++-..+... ++..+.|+|||||+.|...... .+.++.+|++-.+
T Consensus 15 sl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~V~d~~~ 86 (164)
T cd04171 15 TLIKALTGIETDRLPEEKKRGITIDLGFAYLDLP-SGKRLGFIDVPGHEKFIKNMLAGAGGIDLVLLVVAADE 86 (164)
T ss_pred HHHHHHhCcccccchhhhccCceEEeeeEEEEec-CCcEEEEEECCChHHHHHHHHhhhhcCCEEEEEEECCC
Confidence 4677776532 22222 4578998887777663 2678999999999998531111 1334556665443
No 16
>cd01885 EF2 EF2 (for archaea and eukarya). Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco
Probab=97.58 E-value=5.2e-05 Score=56.86 Aligned_cols=36 Identities=17% Similarity=0.040 Sum_probs=28.1
Q ss_pred ccCcceeeecceEEEEcCC--------CCeeEEEcCCCcccccC
Q 045003 15 EAGGITQHVGAFVIGMSTG--------GIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 15 EaGGITQhIGA~~V~~~~~--------~~~itFiDTPGHeAFs~ 50 (93)
...|||.+.....+.+..+ ...++|+|||||+.|..
T Consensus 45 ~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDTPG~~~f~~ 88 (222)
T cd01885 45 QERGITMKSSAISLYFEYEEEDKADGNEYLINLIDSPGHVDFSS 88 (222)
T ss_pred HHhccccccceEEEEEecCcccccCCCceEEEEECCCCccccHH
Confidence 3468998888877776522 66899999999999964
No 17
>cd01884 EF_Tu EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.
Probab=97.57 E-value=3.5e-05 Score=56.21 Aligned_cols=33 Identities=15% Similarity=0.106 Sum_probs=27.2
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
..|||.+.....+.. ++..++|+|||||..|..
T Consensus 48 ~rg~Ti~~~~~~~~~--~~~~i~~iDtPG~~~~~~ 80 (195)
T cd01884 48 ARGITINTAHVEYET--ANRHYAHVDCPGHADYIK 80 (195)
T ss_pred hcCccEEeeeeEecC--CCeEEEEEECcCHHHHHH
Confidence 679999988777654 578999999999998843
No 18
>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional
Probab=97.54 E-value=5.1e-05 Score=62.49 Aligned_cols=32 Identities=19% Similarity=0.079 Sum_probs=27.0
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS 49 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs 49 (93)
..|||.+++...++. ++..++|+|||||+.|.
T Consensus 90 ~rgiTid~~~~~~~~--~~~~i~~iDTPGh~~f~ 121 (474)
T PRK05124 90 EQGITIDVAYRYFST--EKRKFIIADTPGHEQYT 121 (474)
T ss_pred hcCCCeEeeEEEecc--CCcEEEEEECCCcHHHH
Confidence 468999998777765 57899999999999995
No 19
>CHL00071 tufA elongation factor Tu
Probab=97.53 E-value=6.1e-05 Score=60.27 Aligned_cols=32 Identities=16% Similarity=0.126 Sum_probs=26.3
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS 49 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs 49 (93)
..|||-++....+.. ++..++|+|||||+.|.
T Consensus 58 ~rg~T~~~~~~~~~~--~~~~~~~iDtPGh~~~~ 89 (409)
T CHL00071 58 ARGITINTAHVEYET--ENRHYAHVDCPGHADYV 89 (409)
T ss_pred cCCEeEEccEEEEcc--CCeEEEEEECCChHHHH
Confidence 479999987766654 57889999999999884
No 20
>TIGR02034 CysN sulfate adenylyltransferase, large subunit. Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase).
Probab=97.51 E-value=5e-05 Score=60.86 Aligned_cols=32 Identities=19% Similarity=0.079 Sum_probs=27.4
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS 49 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs 49 (93)
..|||.+++...+.. ++.+++|+|||||+.|.
T Consensus 63 ~rgiTid~~~~~~~~--~~~~~~liDtPGh~~f~ 94 (406)
T TIGR02034 63 EQGITIDVAYRYFST--DKRKFIVADTPGHEQYT 94 (406)
T ss_pred cCCcCeEeeeEEEcc--CCeEEEEEeCCCHHHHH
Confidence 468999999877776 47799999999999995
No 21
>PLN00043 elongation factor 1-alpha; Provisional
Probab=97.51 E-value=5e-05 Score=62.25 Aligned_cols=34 Identities=9% Similarity=-0.032 Sum_probs=28.6
Q ss_pred ccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
-..|||.+++.+.+.. ++..++|||||||+.|..
T Consensus 67 r~rGiTi~~~~~~~~~--~~~~i~liDtPGh~df~~ 100 (447)
T PLN00043 67 RERGITIDIALWKFET--TKYYCTVIDAPGHRDFIK 100 (447)
T ss_pred HhcCceEEEEEEEecC--CCEEEEEEECCCHHHHHH
Confidence 3579999998877766 578999999999999953
No 22
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=97.49 E-value=6.5e-05 Score=61.44 Aligned_cols=47 Identities=11% Similarity=0.044 Sum_probs=34.6
Q ss_pred ccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhh-----hcccEeEEec
Q 045003 15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQ-----LRNFVIVLRK 65 (93)
Q Consensus 15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR-----~RGa~iv~~~ 65 (93)
..-|||.++..+.++. ++..++|||||||+.|.. +|. ..++.+|+.-
T Consensus 67 r~rGiTid~~~~~~~~--~~~~i~lIDtPGh~~f~~--~~~~g~~~aD~ailVVda 118 (446)
T PTZ00141 67 RERGITIDIALWKFET--PKYYFTIIDAPGHRDFIK--NMITGTSQADVAILVVAS 118 (446)
T ss_pred HhcCEeEEeeeEEEcc--CCeEEEEEECCChHHHHH--HHHHhhhhcCEEEEEEEc
Confidence 3468999998888776 578999999999999953 232 2345566654
No 23
>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=97.47 E-value=0.00011 Score=49.43 Aligned_cols=35 Identities=14% Similarity=0.036 Sum_probs=26.1
Q ss_pred cCcceeeecceEEEE---cCCCCeeEEEcCCCcccccC
Q 045003 16 AGGITQHVGAFVIGM---STGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 16 aGGITQhIGA~~V~~---~~~~~~itFiDTPGHeAFs~ 50 (93)
..|+|.+.....+.+ ++....+.|+|||||+.|..
T Consensus 45 ~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~ 82 (179)
T cd01890 45 ERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFSY 82 (179)
T ss_pred HCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhHH
Confidence 457887777666655 33456789999999999865
No 24
>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=97.46 E-value=0.00015 Score=47.73 Aligned_cols=50 Identities=6% Similarity=-0.034 Sum_probs=39.7
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
+|+.++.+.+....+.-++|++.....+..++....+.++||||++.|..
T Consensus 15 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~ 64 (161)
T cd01861 15 SIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRS 64 (161)
T ss_pred HHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHH
Confidence 47788888888878888899888888887753334689999999998865
No 25
>PRK12735 elongation factor Tu; Reviewed
Probab=97.46 E-value=6.6e-05 Score=59.86 Aligned_cols=34 Identities=15% Similarity=0.122 Sum_probs=27.2
Q ss_pred ccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
...|||.+++...++. ++..++|+|||||+.|..
T Consensus 57 ~~rGiT~~~~~~~~~~--~~~~i~~iDtPGh~~f~~ 90 (396)
T PRK12735 57 KARGITINTSHVEYET--ANRHYAHVDCPGHADYVK 90 (396)
T ss_pred HhcCceEEEeeeEEcC--CCcEEEEEECCCHHHHHH
Confidence 3689999987666554 577899999999998843
No 26
>PLN03127 Elongation factor Tu; Provisional
Probab=97.45 E-value=7.5e-05 Score=61.31 Aligned_cols=32 Identities=16% Similarity=0.103 Sum_probs=26.7
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS 49 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs 49 (93)
..|||.+++...++. ++..++|+|||||+.|-
T Consensus 107 ~rGiTi~~~~~~~~~--~~~~i~~iDtPGh~~f~ 138 (447)
T PLN03127 107 ARGITIATAHVEYET--AKRHYAHVDCPGHADYV 138 (447)
T ss_pred hcCceeeeeEEEEcC--CCeEEEEEECCCccchH
Confidence 389999987776655 57789999999999984
No 27
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=97.45 E-value=0.00011 Score=58.36 Aligned_cols=33 Identities=12% Similarity=0.096 Sum_probs=28.3
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
..|+|.+++...+.. ++..++|+|||||+.|..
T Consensus 67 ~rG~T~d~~~~~~~~--~~~~i~liDtpG~~~~~~ 99 (425)
T PRK12317 67 ERGVTIDLAHKKFET--DKYYFTIVDCPGHRDFVK 99 (425)
T ss_pred hcCccceeeeEEEec--CCeEEEEEECCCcccchh
Confidence 478999999888876 478999999999999854
No 28
>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=97.44 E-value=0.00012 Score=53.23 Aligned_cols=48 Identities=15% Similarity=0.088 Sum_probs=36.4
Q ss_pred ccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhh-----hcccEeEEecc
Q 045003 15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQ-----LRNFVIVLRKN 66 (93)
Q Consensus 15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR-----~RGa~iv~~~~ 66 (93)
...|||.++..+.+.. ++.+++|+|||||..|.. .+- ..++++|++-.
T Consensus 59 ~~rg~T~d~~~~~~~~--~~~~i~liDtpG~~~~~~--~~~~~~~~~d~~i~VvDa~ 111 (219)
T cd01883 59 RERGVTIDVGLAKFET--EKYRFTILDAPGHRDFVP--NMITGASQADVAVLVVDAR 111 (219)
T ss_pred hhCccCeecceEEEee--CCeEEEEEECCChHHHHH--HHHHHhhhCCEEEEEEECC
Confidence 3578999999999987 488999999999998853 121 44666776654
No 29
>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA. This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.
Probab=97.43 E-value=0.00011 Score=62.47 Aligned_cols=32 Identities=22% Similarity=0.127 Sum_probs=28.3
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS 49 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs 49 (93)
.-|||.......+.+ ++.+|+++|||||+.|.
T Consensus 47 erGiTI~~~~~~v~~--~~~kinlIDTPGh~DF~ 78 (594)
T TIGR01394 47 ERGITILAKNTAIRY--NGTKINIVDTPGHADFG 78 (594)
T ss_pred hCCccEEeeeEEEEE--CCEEEEEEECCCHHHHH
Confidence 358999999888888 47899999999999996
No 30
>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=97.43 E-value=0.00014 Score=50.83 Aligned_cols=34 Identities=15% Similarity=0.191 Sum_probs=26.5
Q ss_pred cCcceeeecceEEEEc------------CCCCeeEEEcCCCccccc
Q 045003 16 AGGITQHVGAFVIGMS------------TGGIKFNFHNCEFYHRTS 49 (93)
Q Consensus 16 aGGITQhIGA~~V~~~------------~~~~~itFiDTPGHeAFs 49 (93)
..|+|.+++...+.+. .+...++|+|||||..|.
T Consensus 37 ~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~~~ 82 (192)
T cd01889 37 ERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHASLI 82 (192)
T ss_pred HcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHHHH
Confidence 4579999998777664 125689999999998873
No 31
>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=97.41 E-value=0.0001 Score=52.86 Aligned_cols=64 Identities=14% Similarity=0.108 Sum_probs=39.1
Q ss_pred hhhHHhhcC---CcCcccCcceeeecceEEEEc-------------------------CCC------CeeEEEcCCCccc
Q 045003 2 ISDALRQTS---VVAKEAGGITQHVGAFVIGMS-------------------------TGG------IKFNFHNCEFYHR 47 (93)
Q Consensus 2 LLD~IR~t~---Va~~EaGGITQhIGA~~V~~~-------------------------~~~------~~itFiDTPGHeA 47 (93)
|+++|..+. -......|+|-..|...+.+. ..+ ..++|+|||||+.
T Consensus 16 L~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDtPG~~~ 95 (203)
T cd01888 16 LVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETKLVRHVSFVDCPGHEI 95 (203)
T ss_pred HHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccccccEEEEEECCChHH
Confidence 667775541 244456788888887666542 002 6899999999998
Q ss_pred ccCchhhhh----cccEeEEecc
Q 045003 48 TSLFFFVQL----RNFVIVLRKN 66 (93)
Q Consensus 48 Fs~f~~mR~----RGa~iv~~~~ 66 (93)
|..- -++. .++.+|+.-.
T Consensus 96 ~~~~-~~~~~~~~D~~llVvd~~ 117 (203)
T cd01888 96 LMAT-MLSGAAVMDGALLLIAAN 117 (203)
T ss_pred HHHH-HHHhhhcCCEEEEEEECC
Confidence 8541 1122 2556666653
No 32
>PRK00049 elongation factor Tu; Reviewed
Probab=97.38 E-value=9.3e-05 Score=59.12 Aligned_cols=33 Identities=15% Similarity=0.119 Sum_probs=26.8
Q ss_pred ccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003 15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS 49 (93)
Q Consensus 15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs 49 (93)
...|||.++....+.. ++..++|+|||||+.|-
T Consensus 57 ~~rg~Ti~~~~~~~~~--~~~~i~~iDtPG~~~f~ 89 (396)
T PRK00049 57 KARGITINTAHVEYET--EKRHYAHVDCPGHADYV 89 (396)
T ss_pred HhcCeEEeeeEEEEcC--CCeEEEEEECCCHHHHH
Confidence 3689999988666544 57789999999999884
No 33
>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]
Probab=97.31 E-value=0.00013 Score=62.77 Aligned_cols=32 Identities=13% Similarity=0.033 Sum_probs=28.1
Q ss_pred CcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
-||.---.+.|+++. +..|++||||||++||.
T Consensus 65 RGISVtsSVMqF~Y~--~~~iNLLDTPGHeDFSE 96 (528)
T COG4108 65 RGISVTSSVMQFDYA--DCLVNLLDTPGHEDFSE 96 (528)
T ss_pred cCceEEeeEEEeccC--CeEEeccCCCCccccch
Confidence 477777788899984 89999999999999997
No 34
>PRK12736 elongation factor Tu; Reviewed
Probab=97.30 E-value=0.00014 Score=57.93 Aligned_cols=33 Identities=12% Similarity=0.062 Sum_probs=26.7
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
..|||.++....++. ++..++|+|||||+.|..
T Consensus 58 ~rg~T~~~~~~~~~~--~~~~i~~iDtPGh~~f~~ 90 (394)
T PRK12736 58 ERGITINTAHVEYET--EKRHYAHVDCPGHADYVK 90 (394)
T ss_pred hcCccEEEEeeEecC--CCcEEEEEECCCHHHHHH
Confidence 689999997655543 578999999999999853
No 35
>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=97.30 E-value=0.00025 Score=49.72 Aligned_cols=33 Identities=15% Similarity=-0.012 Sum_probs=26.9
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
..|+|.+.....+.. +..++.|+|||||+.|..
T Consensus 48 ~~g~t~~~~~~~~~~--~~~~~~l~DtpG~~~~~~ 80 (194)
T cd01891 48 ERGITILAKNTAVTY--KDTKINIVDTPGHADFGG 80 (194)
T ss_pred hcccccccceeEEEE--CCEEEEEEECCCcHHHHH
Confidence 368888887777776 477899999999999865
No 36
>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=97.28 E-value=0.00017 Score=51.87 Aligned_cols=32 Identities=19% Similarity=0.048 Sum_probs=27.3
Q ss_pred CcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
.|+|-+.....+.. ++.+++|+|||||+.|..
T Consensus 61 rg~T~~~~~~~~~~--~~~~~~liDTpG~~~~~~ 92 (208)
T cd04166 61 QGITIDVAYRYFST--PKRKFIIADTPGHEQYTR 92 (208)
T ss_pred CCcCeecceeEEec--CCceEEEEECCcHHHHHH
Confidence 68999998888776 478999999999999853
No 37
>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]
Probab=97.24 E-value=0.00034 Score=61.30 Aligned_cols=48 Identities=17% Similarity=0.106 Sum_probs=38.0
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch---hhh-hcccEeEEec
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF---FVQ-LRNFVIVLRK 65 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~---~mR-~RGa~iv~~~ 65 (93)
.-|||-+..|..+.+.+ +..|++||||||-+|+. . .|| .-||++|+.-
T Consensus 58 eRGITI~saa~s~~~~~-~~~iNlIDTPGHVDFt~-EV~rslrvlDgavvVvda 109 (697)
T COG0480 58 ERGITITSAATTLFWKG-DYRINLIDTPGHVDFTI-EVERSLRVLDGAVVVVDA 109 (697)
T ss_pred hcCCEEeeeeeEEEEcC-ceEEEEeCCCCccccHH-HHHHHHHhhcceEEEEEC
Confidence 35899999999999952 48999999999999985 2 344 3577777764
No 38
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=97.24 E-value=0.00016 Score=60.85 Aligned_cols=33 Identities=18% Similarity=0.039 Sum_probs=27.8
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
..|||.+++...+.. ++.+++|+|||||+.|..
T Consensus 87 ~rg~Tid~~~~~~~~--~~~~~~liDtPG~~~f~~ 119 (632)
T PRK05506 87 EQGITIDVAYRYFAT--PKRKFIVADTPGHEQYTR 119 (632)
T ss_pred hCCcCceeeeeEEcc--CCceEEEEECCChHHHHH
Confidence 468999999777776 578999999999999853
No 39
>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=97.22 E-value=0.00015 Score=57.55 Aligned_cols=33 Identities=18% Similarity=0.166 Sum_probs=25.7
Q ss_pred ccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003 15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS 49 (93)
Q Consensus 15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs 49 (93)
...|||.++....++ .++..++|+|||||+.|.
T Consensus 57 ~~rG~Ti~~~~~~~~--~~~~~~~liDtpGh~~f~ 89 (394)
T TIGR00485 57 KARGITINTAHVEYE--TENRHYAHVDCPGHADYV 89 (394)
T ss_pred HhcCcceeeEEEEEc--CCCEEEEEEECCchHHHH
Confidence 348999997655443 357789999999999985
No 40
>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=97.20 E-value=0.00061 Score=42.58 Aligned_cols=52 Identities=15% Similarity=0.087 Sum_probs=36.5
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF 52 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~ 52 (93)
+|+.++..........-++|.++....+...+....+.++|||||+.|..+.
T Consensus 16 tl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~ 67 (161)
T TIGR00231 16 TLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIR 67 (161)
T ss_pred HHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHH
Confidence 3666776666444455688888888777774222678999999999986543
No 41
>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=97.10 E-value=0.0011 Score=42.91 Aligned_cols=47 Identities=13% Similarity=0.075 Sum_probs=32.9
Q ss_pred ChhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003 1 MISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS 49 (93)
Q Consensus 1 sLLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs 49 (93)
+|+.+|-+.+.. ..+.-++|+..-...+.. ++..+.++|||||..+.
T Consensus 12 sl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~i~DtpG~~~~~ 59 (157)
T cd01894 12 TLFNRLTGRRDAIVEDTPGVTRDRIYGEAEW--GGREFILIDTGGIEPDD 59 (157)
T ss_pred HHHHHHhCCcEEeecCCCCceeCceeEEEEE--CCeEEEEEECCCCCCch
Confidence 366677665432 234457888777667766 36789999999999864
No 42
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=97.05 E-value=0.00021 Score=59.40 Aligned_cols=63 Identities=13% Similarity=0.116 Sum_probs=38.3
Q ss_pred hhhHHhhcCC---cCcccCcceeeecceEEE---------------EcCC----------------CCeeEEEcCCCccc
Q 045003 2 ISDALRQTSV---VAKEAGGITQHVGAFVIG---------------MSTG----------------GIKFNFHNCEFYHR 47 (93)
Q Consensus 2 LLD~IR~t~V---a~~EaGGITQhIGA~~V~---------------~~~~----------------~~~itFiDTPGHeA 47 (93)
|+++|.+.+. ..+..-|||+++|--... ++.+ ...++|+|||||+.
T Consensus 50 Lv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~IDtPGH~~ 129 (460)
T PTZ00327 50 VVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGCGHKMTLKRHVSFVDCPGHDI 129 (460)
T ss_pred HHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCcccccccccccccccccceEeeeeCCCHHH
Confidence 6667765433 344567999999865331 1100 23799999999999
Q ss_pred ccCchhhhh-----cccEeEEecc
Q 045003 48 TSLFFFVQL-----RNFVIVLRKN 66 (93)
Q Consensus 48 Fs~f~~mR~-----RGa~iv~~~~ 66 (93)
|.. +|-. -++.+|+.-.
T Consensus 130 fi~--~m~~g~~~~D~alLVVda~ 151 (460)
T PTZ00327 130 LMA--TMLNGAAVMDAALLLIAAN 151 (460)
T ss_pred HHH--HHHHHHhhCCEEEEEEECC
Confidence 953 3322 3455555554
No 43
>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=97.02 E-value=0.00092 Score=44.28 Aligned_cols=50 Identities=10% Similarity=0.096 Sum_probs=34.9
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
+|+.++.+..........++.......+..++....+.+.|||||+.|..
T Consensus 15 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~ 64 (161)
T cd04113 15 CLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRS 64 (161)
T ss_pred HHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHH
Confidence 46777776666555555666666666677653345789999999998865
No 44
>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=97.02 E-value=0.00045 Score=55.11 Aligned_cols=32 Identities=13% Similarity=0.163 Sum_probs=27.6
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS 49 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs 49 (93)
..|+|.+++...+.. +...++|+|||||+.|.
T Consensus 68 ~rg~Tid~~~~~~~~--~~~~i~iiDtpGh~~f~ 99 (426)
T TIGR00483 68 ERGVTIDVAHWKFET--DKYEVTIVDCPGHRDFI 99 (426)
T ss_pred hcCceEEEEEEEEcc--CCeEEEEEECCCHHHHH
Confidence 459999999988876 47799999999999985
No 45
>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=96.97 E-value=0.0011 Score=43.27 Aligned_cols=51 Identities=14% Similarity=0.060 Sum_probs=32.2
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f 51 (93)
+|+.++.+........--++.+.+...+...+....+.++||||++.|..+
T Consensus 15 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~ 65 (168)
T cd04119 15 CIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEV 65 (168)
T ss_pred HHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHH
Confidence 366666665544444444444455555655444568899999999988753
No 46
>cd01886 EF-G Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta
Probab=96.96 E-value=0.00077 Score=51.72 Aligned_cols=34 Identities=15% Similarity=0.011 Sum_probs=28.9
Q ss_pred ccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
...|||-+.....+.+ ++.+++|+|||||..|..
T Consensus 46 ~~rgiti~~~~~~~~~--~~~~i~liDTPG~~df~~ 79 (270)
T cd01886 46 RERGITIQSAATTCFW--KDHRINIIDTPGHVDFTI 79 (270)
T ss_pred cCCCcCeeccEEEEEE--CCEEEEEEECCCcHHHHH
Confidence 4568999999888888 478999999999998863
No 47
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=96.95 E-value=0.0011 Score=43.46 Aligned_cols=51 Identities=8% Similarity=0.025 Sum_probs=36.3
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f 51 (93)
+|+.++.+.+....+.-.++-......+...+....+.++||||++.|..+
T Consensus 15 tli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~ 65 (164)
T smart00175 15 SLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSI 65 (164)
T ss_pred HHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHH
Confidence 367777777776666666666666677777533357889999999988753
No 48
>PLN03126 Elongation factor Tu; Provisional
Probab=96.91 E-value=0.00064 Score=56.61 Aligned_cols=34 Identities=15% Similarity=0.148 Sum_probs=28.4
Q ss_pred cccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003 14 KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS 49 (93)
Q Consensus 14 ~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs 49 (93)
....|||.+.+...++. ++..++|||||||+.|-
T Consensus 125 Er~rGiTi~~~~~~~~~--~~~~i~liDtPGh~~f~ 158 (478)
T PLN03126 125 ERARGITINTATVEYET--ENRHYAHVDCPGHADYV 158 (478)
T ss_pred HHhCCeeEEEEEEEEec--CCcEEEEEECCCHHHHH
Confidence 44579999998777766 57899999999999994
No 49
>PRK07560 elongation factor EF-2; Reviewed
Probab=96.90 E-value=0.00056 Score=58.86 Aligned_cols=49 Identities=10% Similarity=-0.024 Sum_probs=33.1
Q ss_pred CcceeeecceEEEE--cCCCCeeEEEcCCCcccccCch--hhhh-cccEeEEec
Q 045003 17 GGITQHVGAFVIGM--STGGIKFNFHNCEFYHRTSLFF--FVQL-RNFVIVLRK 65 (93)
Q Consensus 17 GGITQhIGA~~V~~--~~~~~~itFiDTPGHeAFs~f~--~mR~-RGa~iv~~~ 65 (93)
.|||.+..+..+.+ .+++..|+|||||||+.|..-. .||. -++++|+.-
T Consensus 67 rgiTi~~~~~~~~~~~~~~~~~i~liDtPG~~df~~~~~~~l~~~D~avlVvda 120 (731)
T PRK07560 67 RGITIKAANVSMVHEYEGKEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDA 120 (731)
T ss_pred hhhhhhccceEEEEEecCCcEEEEEEcCCCccChHHHHHHHHHhcCEEEEEEEC
Confidence 57888888776655 3346789999999999995411 2332 256666653
No 50
>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=96.88 E-value=0.0014 Score=44.48 Aligned_cols=50 Identities=12% Similarity=0.020 Sum_probs=33.7
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
+|+.++.+......+..-++.......+...+....+.+.||||++.|..
T Consensus 19 sLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~ 68 (168)
T cd01866 19 CLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRS 68 (168)
T ss_pred HHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHH
Confidence 47777777666555554444555555555543345799999999998876
No 51
>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=96.87 E-value=0.002 Score=43.53 Aligned_cols=51 Identities=6% Similarity=0.002 Sum_probs=28.6
Q ss_pred hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003 2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF 52 (93)
Q Consensus 2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~ 52 (93)
|+..+........+.--+...+....+..++....+.+.||||++.|..+.
T Consensus 16 li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~ 66 (161)
T cd04124 16 LVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMH 66 (161)
T ss_pred HHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhh
Confidence 566555444333322222233434444554334568899999999997643
No 52
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=96.87 E-value=0.00077 Score=58.89 Aligned_cols=48 Identities=15% Similarity=0.070 Sum_probs=37.4
Q ss_pred CcceeeecceEEEEcC---CCCeeEEEcCCCcccccCchhhh----hcccEeEEec
Q 045003 17 GGITQHVGAFVIGMST---GGIKFNFHNCEFYHRTSLFFFVQ----LRNFVIVLRK 65 (93)
Q Consensus 17 GGITQhIGA~~V~~~~---~~~~itFiDTPGHeAFs~f~~mR----~RGa~iv~~~ 65 (93)
-|||-+.-+.++.+.. +...++|||||||-+|+. .=.| +.||..||.-
T Consensus 55 RGITIKaq~v~l~Yk~~~g~~Y~lnlIDTPGHVDFsY-EVSRSLAACEGalLvVDA 109 (603)
T COG0481 55 RGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFSY-EVSRSLAACEGALLVVDA 109 (603)
T ss_pred cCceEEeeEEEEEEEeCCCCEEEEEEcCCCCccceEE-EehhhHhhCCCcEEEEEC
Confidence 5899999999999862 446799999999999984 3333 4677777765
No 53
>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=96.87 E-value=0.00084 Score=50.29 Aligned_cols=48 Identities=15% Similarity=0.036 Sum_probs=33.0
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch--hh-hhcccEeEEec
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF--FV-QLRNFVIVLRK 65 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~--~m-R~RGa~iv~~~ 65 (93)
..|||.......+.. ++.+++|+|||||..|.... .+ ...++.+|++-
T Consensus 47 ~rg~ti~~~~~~~~~--~~~~i~liDTPG~~~f~~~~~~~l~~aD~~IlVvd~ 97 (237)
T cd04168 47 QRGITIFSAVASFQW--EDTKVNLIDTPGHMDFIAEVERSLSVLDGAILVISA 97 (237)
T ss_pred hCCCceeeeeEEEEE--CCEEEEEEeCCCccchHHHHHHHHHHhCeEEEEEeC
Confidence 457787777777776 47899999999999986411 01 12366777764
No 54
>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=96.83 E-value=0.00073 Score=57.48 Aligned_cols=35 Identities=17% Similarity=0.052 Sum_probs=27.6
Q ss_pred cCcceeeecceEEEEc---CCCCeeEEEcCCCcccccC
Q 045003 16 AGGITQHVGAFVIGMS---TGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 16 aGGITQhIGA~~V~~~---~~~~~itFiDTPGHeAFs~ 50 (93)
..|||.+..+..+.+. ++...++|+|||||+.|..
T Consensus 48 erGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~dF~~ 85 (595)
T TIGR01393 48 ERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFSY 85 (595)
T ss_pred hcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHHHHH
Confidence 3589998888888763 2335799999999999964
No 55
>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=96.81 E-value=0.00089 Score=48.08 Aligned_cols=50 Identities=12% Similarity=0.035 Sum_probs=33.3
Q ss_pred cCcceeeecceEEEEcC---CCCeeEEEcCCCcccccCch---hhhhcccEeEEec
Q 045003 16 AGGITQHVGAFVIGMST---GGIKFNFHNCEFYHRTSLFF---FVQLRNFVIVLRK 65 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~---~~~~itFiDTPGHeAFs~f~---~mR~RGa~iv~~~ 65 (93)
.-|||.+.....+.+.+ ....++|+|||||+.|.... -.+..++.+|+.-
T Consensus 49 ~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~~~f~~~~~~~~~~aD~~llVvD~ 104 (213)
T cd04167 49 ERGISIKSSPISLVLPDSKGKSYLFNIIDTPGHVNFMDEVAAALRLSDGVVLVVDV 104 (213)
T ss_pred HcCccccccceeEEEEcCCCCEEEEEEEECCCCcchHHHHHHHHHhCCEEEEEEEC
Confidence 35788888888776642 34679999999999985311 1133456666654
No 56
>PRK05433 GTP-binding protein LepA; Provisional
Probab=96.77 E-value=0.00083 Score=57.20 Aligned_cols=35 Identities=17% Similarity=0.048 Sum_probs=27.8
Q ss_pred cCcceeeecceEEEEc---CCCCeeEEEcCCCcccccC
Q 045003 16 AGGITQHVGAFVIGMS---TGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 16 aGGITQhIGA~~V~~~---~~~~~itFiDTPGHeAFs~ 50 (93)
..|||.+..+..+.+. ++...++|+|||||+.|..
T Consensus 52 erGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~dF~~ 89 (600)
T PRK05433 52 ERGITIKAQAVRLNYKAKDGETYILNLIDTPGHVDFSY 89 (600)
T ss_pred hcCCcccccEEEEEEEccCCCcEEEEEEECCCcHHHHH
Confidence 4689998888887763 2356799999999999964
No 57
>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=96.76 E-value=0.0041 Score=40.01 Aligned_cols=66 Identities=17% Similarity=0.144 Sum_probs=41.2
Q ss_pred hhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc-----------hhhhhcccEeEEeccccc
Q 045003 2 ISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF-----------FFVQLRNFVIVLRKNNCQ 69 (93)
Q Consensus 2 LLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f-----------~~mR~RGa~iv~~~~~~~ 69 (93)
|+.+|.+...+ .++.-|+|+......+.. ++..++++||||+..+... ...+..++.+|++-.+..
T Consensus 17 li~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~d~~~~~ 94 (157)
T cd04164 17 LLNALAGRDRAIVSDIAGTTRDVIEESIDI--GGIPVRLIDTAGIRETEDEIEKIGIERAREAIEEADLVLFVIDASRGL 94 (157)
T ss_pred HHHHHHCCceEeccCCCCCccceEEEEEEe--CCEEEEEEECCCcCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCC
Confidence 45555554432 244558888876666665 3678999999999877531 112566677777665533
No 58
>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=96.74 E-value=0.0026 Score=42.65 Aligned_cols=51 Identities=4% Similarity=-0.089 Sum_probs=28.4
Q ss_pred hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchh
Q 045003 2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFF 53 (93)
Q Consensus 2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~ 53 (93)
|+..+.+.+..+....-+... ....+..++....+.++|||||+.|..+..
T Consensus 16 l~~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~ 66 (174)
T cd04135 16 LLMSYANDAFPEEYVPTVFDH-YAVSVTVGGKQYLLGLYDTAGQEDYDRLRP 66 (174)
T ss_pred HHHHHHhCCCCCCCCCceeee-eEEEEEECCEEEEEEEEeCCCccccccccc
Confidence 556665555444333333222 223454432334578999999999876443
No 59
>TIGR00484 EF-G translation elongation factor EF-G. After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G.
Probab=96.71 E-value=0.0014 Score=55.83 Aligned_cols=33 Identities=18% Similarity=0.102 Sum_probs=28.9
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
..|||.+..+..+.+. +.+++|+|||||..|..
T Consensus 58 ~rgiti~~~~~~~~~~--~~~i~liDTPG~~~~~~ 90 (689)
T TIGR00484 58 ERGITITSAATTVFWK--GHRINIIDTPGHVDFTV 90 (689)
T ss_pred hcCCCEecceEEEEEC--CeEEEEEECCCCcchhH
Confidence 3699999999999884 78999999999998854
No 60
>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]
Probab=96.71 E-value=0.0012 Score=58.70 Aligned_cols=46 Identities=20% Similarity=0.130 Sum_probs=36.3
Q ss_pred CcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhh----hcccEeEEec
Q 045003 17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQ----LRNFVIVLRK 65 (93)
Q Consensus 17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR----~RGa~iv~~~ 65 (93)
-|||-...|..+.+. ...|+.||||||-+|+- .=-| .-||+.||.-
T Consensus 88 rgITiqSAAt~~~w~--~~~iNiIDTPGHvDFT~-EVeRALrVlDGaVlvl~a 137 (721)
T KOG0465|consen 88 RGITIQSAATYFTWR--DYRINIIDTPGHVDFTF-EVERALRVLDGAVLVLDA 137 (721)
T ss_pred cCceeeeceeeeeec--cceeEEecCCCceeEEE-EehhhhhhccCeEEEEEc
Confidence 589999999999995 88999999999999983 3222 2477777643
No 61
>PRK12739 elongation factor G; Reviewed
Probab=96.70 E-value=0.00087 Score=57.25 Aligned_cols=33 Identities=18% Similarity=0.058 Sum_probs=29.2
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
..|||.+....++.+ ++.+++|+|||||..|..
T Consensus 56 ~rgiti~~~~~~~~~--~~~~i~liDTPG~~~f~~ 88 (691)
T PRK12739 56 ERGITITSAATTCFW--KGHRINIIDTPGHVDFTI 88 (691)
T ss_pred hcCCCccceeEEEEE--CCEEEEEEcCCCHHHHHH
Confidence 578999999999998 488999999999998854
No 62
>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=96.70 E-value=0.0019 Score=43.10 Aligned_cols=33 Identities=21% Similarity=0.151 Sum_probs=26.1
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
..|+|.+.....++.. ..++.|+|||||+.|..
T Consensus 45 ~~~~~~~~~~~~~~~~--~~~~~liDtpG~~~~~~ 77 (189)
T cd00881 45 ERGITIKSGVATFEWP--DRRVNFIDTPGHEDFSS 77 (189)
T ss_pred HcCCCeecceEEEeeC--CEEEEEEeCCCcHHHHH
Confidence 4678888777777764 67899999999987754
No 63
>PTZ00416 elongation factor 2; Provisional
Probab=96.65 E-value=0.0013 Score=57.74 Aligned_cols=50 Identities=12% Similarity=-0.002 Sum_probs=33.1
Q ss_pred cCcceeeecceEEEEcC--------CCCeeEEEcCCCcccccCch--hhh-hcccEeEEec
Q 045003 16 AGGITQHVGAFVIGMST--------GGIKFNFHNCEFYHRTSLFF--FVQ-LRNFVIVLRK 65 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~--------~~~~itFiDTPGHeAFs~f~--~mR-~RGa~iv~~~ 65 (93)
.-|||.+.++..+.+.. .+..|+|+|||||..|..-. .+| .-|+++|++-
T Consensus 65 ~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~liDtPG~~~f~~~~~~al~~~D~ailVvda 125 (836)
T PTZ00416 65 ERGITIKSTGISLYYEHDLEDGDDKQPFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDC 125 (836)
T ss_pred hhcceeeccceEEEeecccccccCCCceEEEEEcCCCHHhHHHHHHHHHhcCCeEEEEEEC
Confidence 36889888888777752 14579999999999985411 112 2255666653
No 64
>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=96.59 E-value=0.0038 Score=41.09 Aligned_cols=51 Identities=4% Similarity=-0.082 Sum_probs=29.9
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEc--CCCCeeEEEcCCCcccccCc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMS--TGGIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~--~~~~~itFiDTPGHeAFs~f 51 (93)
+|+.++.+..........++....-..+... +...++.+.||||++.|..+
T Consensus 15 sl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~ 67 (162)
T cd04106 15 SMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAI 67 (162)
T ss_pred HHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHh
Confidence 3566666544444334444444433334443 33457999999999988763
No 65
>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=96.57 E-value=0.0065 Score=37.84 Aligned_cols=48 Identities=13% Similarity=0.004 Sum_probs=35.3
Q ss_pred hhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 2 ISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 2 LLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
|+.+|-+..+. ..+..+.|+....+..... ....+.|+||||+..+..
T Consensus 12 l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Dt~g~~~~~~ 60 (163)
T cd00880 12 LLNALLGQEVAIVSPVPGTTTDPVEYVWELG-PLGPVVLIDTPGIDEAGG 60 (163)
T ss_pred HHHHHhCccccccCCCCCcEECCeEEEEEec-CCCcEEEEECCCCCcccc
Confidence 56666665555 5667778888877777663 367899999999988754
No 66
>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]
Probab=96.54 E-value=0.0019 Score=56.49 Aligned_cols=38 Identities=18% Similarity=0.131 Sum_probs=31.0
Q ss_pred CCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 10 SVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 10 ~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
|=.++| -|||---..+.|.+. +.+|+.+|||||++|.-
T Consensus 46 nDlEkE-RGITILaKnTav~~~--~~~INIvDTPGHADFGG 83 (603)
T COG1217 46 NDLEKE-RGITILAKNTAVNYN--GTRINIVDTPGHADFGG 83 (603)
T ss_pred cchhhh-cCcEEEeccceeecC--CeEEEEecCCCcCCccc
Confidence 333445 479999899999984 89999999999999975
No 67
>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]
Probab=96.47 E-value=0.0024 Score=56.41 Aligned_cols=47 Identities=15% Similarity=-0.026 Sum_probs=34.2
Q ss_pred CcceeeecceEEEEc-CCCCeeEEEcCCCcccccCchhhhh----cccEeEEe
Q 045003 17 GGITQHVGAFVIGMS-TGGIKFNFHNCEFYHRTSLFFFVQL----RNFVIVLR 64 (93)
Q Consensus 17 GGITQhIGA~~V~~~-~~~~~itFiDTPGHeAFs~f~~mR~----RGa~iv~~ 64 (93)
-|||-+--...+-+. +....+++||||||.+|+. +=+|+ -|+..||.
T Consensus 106 RGITIkaQtasify~~~~~ylLNLIDTPGHvDFs~-EVsRslaac~G~lLvVD 157 (650)
T KOG0462|consen 106 RGITIKAQTASIFYKDGQSYLLNLIDTPGHVDFSG-EVSRSLAACDGALLVVD 157 (650)
T ss_pred cCcEEEeeeeEEEEEcCCceEEEeecCCCcccccc-eehehhhhcCceEEEEE
Confidence 589988887777775 2347899999999999987 44443 45555554
No 68
>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=96.47 E-value=0.0043 Score=41.06 Aligned_cols=42 Identities=10% Similarity=0.034 Sum_probs=24.7
Q ss_pred EEEcCCCCeeEEEcCCCcccccCchh--hh-hcccEeEEeccccc
Q 045003 28 IGMSTGGIKFNFHNCEFYHRTSLFFF--VQ-LRNFVIVLRKNNCQ 69 (93)
Q Consensus 28 V~~~~~~~~itFiDTPGHeAFs~f~~--mR-~RGa~iv~~~~~~~ 69 (93)
+..++....+.|+|||||+.|..+.. +| ..++.++..-++.+
T Consensus 42 ~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~ 86 (172)
T cd01862 42 VTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVTNPK 86 (172)
T ss_pred EEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEEECCCHH
Confidence 44432334567999999998876322 11 34556666555544
No 69
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=96.46 E-value=0.0022 Score=53.94 Aligned_cols=33 Identities=12% Similarity=0.001 Sum_probs=26.9
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
..|||......++.+ ++.+++++|||||+.|+.
T Consensus 62 ~rgiSi~~~~~~~~~--~~~~inliDTPG~~df~~ 94 (526)
T PRK00741 62 QRGISVTSSVMQFPY--RDCLINLLDTPGHEDFSE 94 (526)
T ss_pred hhCCceeeeeEEEEE--CCEEEEEEECCCchhhHH
Confidence 357887777777777 478999999999999874
No 70
>PRK10218 GTP-binding protein; Provisional
Probab=96.41 E-value=0.0028 Score=54.55 Aligned_cols=33 Identities=15% Similarity=-0.001 Sum_probs=28.2
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
..|||.......+.+ ++.+++++|||||+.|..
T Consensus 51 erGiTi~~~~~~i~~--~~~~inliDTPG~~df~~ 83 (607)
T PRK10218 51 ERGITILAKNTAIKW--NDYRINIVDTPGHADFGG 83 (607)
T ss_pred cCceEEEEEEEEEec--CCEEEEEEECCCcchhHH
Confidence 368999888888887 478999999999999964
No 71
>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=96.37 E-value=0.0051 Score=40.53 Aligned_cols=28 Identities=11% Similarity=0.150 Sum_probs=19.4
Q ss_pred ceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003 25 AFVIGMSTGGIKFNFHNCEFYHRTSLFF 52 (93)
Q Consensus 25 A~~V~~~~~~~~itFiDTPGHeAFs~f~ 52 (93)
...+..+....++.++|||||+.|..+.
T Consensus 40 ~~~v~~~~~~~~~~i~D~~G~~~~~~~~ 67 (163)
T cd01860 40 TQTVNLDDTTVKFEIWDTAGQERYRSLA 67 (163)
T ss_pred EEEEEECCEEEEEEEEeCCchHHHHHHH
Confidence 3455554345578889999999887643
No 72
>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=96.36 E-value=0.0027 Score=48.52 Aligned_cols=32 Identities=13% Similarity=0.015 Sum_probs=24.8
Q ss_pred CcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
.|||.......+.+ ++.++.++|||||+.|..
T Consensus 55 rg~si~~~~~~~~~--~~~~i~liDTPG~~df~~ 86 (267)
T cd04169 55 RGISVTSSVMQFEY--RDCVINLLDTPGHEDFSE 86 (267)
T ss_pred CCCCeEEEEEEEee--CCEEEEEEECCCchHHHH
Confidence 36666666666666 588999999999998864
No 73
>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=96.35 E-value=0.003 Score=53.20 Aligned_cols=33 Identities=12% Similarity=-0.002 Sum_probs=27.4
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
..|||......++++ ++.+++|+|||||+.|..
T Consensus 63 ~rgisi~~~~~~~~~--~~~~inliDTPG~~df~~ 95 (527)
T TIGR00503 63 QRGISITTSVMQFPY--RDCLVNLLDTPGHEDFSE 95 (527)
T ss_pred hcCCcEEEEEEEEee--CCeEEEEEECCChhhHHH
Confidence 357888888888877 478999999999999864
No 74
>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=96.34 E-value=0.0048 Score=43.67 Aligned_cols=47 Identities=15% Similarity=0.102 Sum_probs=34.3
Q ss_pred ChhhHHhhcCCcCcc--cCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003 1 MISDALRQTSVVAKE--AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS 49 (93)
Q Consensus 1 sLLD~IR~t~Va~~E--aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs 49 (93)
+|+.+|-+..++..+ +.|.|++...+.... ++..+++|||||-..+.
T Consensus 15 sl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~--~~~~i~viDTPG~~d~~ 63 (196)
T cd01852 15 ATGNTILGREVFESKLSASSVTKTCQKESAVW--DGRRVNVIDTPGLFDTS 63 (196)
T ss_pred HHHHHhhCCCccccccCCCCcccccceeeEEE--CCeEEEEEECcCCCCcc
Confidence 356666666665544 458899888777776 47899999999976653
No 75
>PRK00007 elongation factor G; Reviewed
Probab=96.33 E-value=0.0027 Score=54.42 Aligned_cols=33 Identities=15% Similarity=0.005 Sum_probs=28.8
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
..|||.+.....+.+. +.+++|+|||||..|..
T Consensus 58 ~rg~ti~~~~~~~~~~--~~~~~liDTPG~~~f~~ 90 (693)
T PRK00007 58 ERGITITSAATTCFWK--DHRINIIDTPGHVDFTI 90 (693)
T ss_pred hCCCCEeccEEEEEEC--CeEEEEEeCCCcHHHHH
Confidence 5689999998888884 78999999999999864
No 76
>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=96.30 E-value=0.003 Score=47.11 Aligned_cols=18 Identities=11% Similarity=-0.103 Sum_probs=15.5
Q ss_pred CCCeeEEEcCCCcccccC
Q 045003 33 GGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~ 50 (93)
+++.++|+|||||+.|..
T Consensus 82 ~~~~i~liDtpG~~~~~~ 99 (224)
T cd04165 82 SSKLVTFIDLAGHERYLK 99 (224)
T ss_pred CCcEEEEEECCCcHHHHH
Confidence 467899999999999953
No 77
>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=96.30 E-value=0.009 Score=50.84 Aligned_cols=48 Identities=13% Similarity=0.073 Sum_probs=37.7
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
+|+.++.+.+...++.-|+|++.....+..+ +.++.++||||+..|..
T Consensus 9 SL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~--~~~i~lvDtPG~~~~~~ 56 (591)
T TIGR00437 9 TLFNALTGANQTVGNWPGVTVEKKEGKLGFQ--GEDIEIVDLPGIYSLTT 56 (591)
T ss_pred HHHHHHhCCCCeecCCCCeEEEEEEEEEEEC--CeEEEEEECCCccccCc
Confidence 4677787776656667789999877777763 67899999999998875
No 78
>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=96.26 E-value=0.0066 Score=40.64 Aligned_cols=26 Identities=4% Similarity=-0.077 Sum_probs=17.2
Q ss_pred EEEEcCCCCeeEEEcCCCcccccCch
Q 045003 27 VIGMSTGGIKFNFHNCEFYHRTSLFF 52 (93)
Q Consensus 27 ~V~~~~~~~~itFiDTPGHeAFs~f~ 52 (93)
.+..++....+.+.|||||+.|..+.
T Consensus 46 ~~~~~~~~~~l~i~D~~G~~~~~~~~ 71 (170)
T cd04116 46 DLEVDGHFVTLQIWDTAGQERFRSLR 71 (170)
T ss_pred EEEECCeEEEEEEEeCCChHHHHHhH
Confidence 34443334467788999999987643
No 79
>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=96.26 E-value=0.0066 Score=39.38 Aligned_cols=51 Identities=6% Similarity=-0.027 Sum_probs=31.3
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f 51 (93)
+|++++............++-.+..-.+...+....+.+.||||++.|..+
T Consensus 15 tli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~ 65 (162)
T cd04123 15 SLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHAL 65 (162)
T ss_pred HHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHh
Confidence 366777776666554444444444344444322346889999999988763
No 80
>PLN00116 translation elongation factor EF-2 subunit; Provisional
Probab=96.26 E-value=0.0032 Score=55.43 Aligned_cols=50 Identities=12% Similarity=-0.020 Sum_probs=32.9
Q ss_pred cCcceeeecceEEEEc--------------CCCCeeEEEcCCCcccccCc--hhhh-hcccEeEEec
Q 045003 16 AGGITQHVGAFVIGMS--------------TGGIKFNFHNCEFYHRTSLF--FFVQ-LRNFVIVLRK 65 (93)
Q Consensus 16 aGGITQhIGA~~V~~~--------------~~~~~itFiDTPGHeAFs~f--~~mR-~RGa~iv~~~ 65 (93)
.-|||-+..+..+.+. +++..|+|||||||..|..= ..+| .-|+.+|++-
T Consensus 65 ~rgiti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda 131 (843)
T PLN00116 65 ERGITIKSTGISLYYEMTDESLKDFKGERDGNEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDC 131 (843)
T ss_pred HhCCceecceeEEEeecccccccccccccCCCceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEEC
Confidence 3578877777777663 12568999999999999640 0122 2366677763
No 81
>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=96.25 E-value=0.0043 Score=40.68 Aligned_cols=47 Identities=15% Similarity=0.227 Sum_probs=26.3
Q ss_pred ceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh---hhcccEeEEec
Q 045003 19 ITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV---QLRNFVIVLRK 65 (93)
Q Consensus 19 ITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m---R~RGa~iv~~~ 65 (93)
+++.+|........+..++.+.||||++.|..+..+ ...++.+|++-
T Consensus 29 ~~~t~g~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~ 78 (162)
T cd04157 29 IVPTVGFNVESFEKGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDS 78 (162)
T ss_pred ecCccccceEEEEECCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEEeC
Confidence 444455322222224668999999999988653332 23344455443
No 82
>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=96.22 E-value=0.006 Score=40.78 Aligned_cols=33 Identities=9% Similarity=0.051 Sum_probs=20.7
Q ss_pred CeeEEEcCCCcccccCchh--hh-hcccEeEEeccc
Q 045003 35 IKFNFHNCEFYHRTSLFFF--VQ-LRNFVIVLRKNN 67 (93)
Q Consensus 35 ~~itFiDTPGHeAFs~f~~--mR-~RGa~iv~~~~~ 67 (93)
..+.+.|||||+.|..+.. +| ..++.+|+.-.+
T Consensus 52 ~~l~i~D~~G~~~~~~~~~~~~~~~d~~llv~d~~~ 87 (165)
T cd01864 52 VKLQIWDTAGQERFRTITQSYYRSANGAIIAYDITR 87 (165)
T ss_pred EEEEEEECCChHHHHHHHHHHhccCCEEEEEEECcC
Confidence 4789999999998865221 12 345555555544
No 83
>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=96.12 E-value=0.0082 Score=40.04 Aligned_cols=49 Identities=10% Similarity=0.009 Sum_probs=27.2
Q ss_pred hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
|+.++.+.+......-.++...-...+...+....+.++||||++.|..
T Consensus 18 li~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~ 66 (166)
T cd01869 18 LLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRT 66 (166)
T ss_pred HHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHH
Confidence 5555654443333333333333333444432344788999999998865
No 84
>PRK12740 elongation factor G; Reviewed
Probab=96.09 E-value=0.0041 Score=52.37 Aligned_cols=33 Identities=18% Similarity=0.035 Sum_probs=28.1
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
..|||.......+.+ ++..++|+|||||..|..
T Consensus 43 ~rgiTi~~~~~~~~~--~~~~i~liDtPG~~~~~~ 75 (668)
T PRK12740 43 ERGISITSAATTCEW--KGHKINLIDTPGHVDFTG 75 (668)
T ss_pred hcCCCeeeceEEEEE--CCEEEEEEECCCcHHHHH
Confidence 468999998888888 478999999999988754
No 85
>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=96.09 E-value=0.0076 Score=38.26 Aligned_cols=49 Identities=8% Similarity=-0.023 Sum_probs=28.4
Q ss_pred hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
|+.++.+......+.=-++-+.....+..++....+.++||||++.|..
T Consensus 16 l~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~ 64 (159)
T cd00154 16 LLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRS 64 (159)
T ss_pred HHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHH
Confidence 5555655444443222223344445555543356789999999998765
No 86
>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=96.08 E-value=0.0092 Score=39.20 Aligned_cols=18 Identities=6% Similarity=-0.138 Sum_probs=14.7
Q ss_pred CCeeEEEcCCCcccccCc
Q 045003 34 GIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f 51 (93)
...+.++|||||+.|..+
T Consensus 49 ~~~~~i~Dt~G~~~~~~~ 66 (164)
T cd04145 49 WAILDILDTAGQEEFSAM 66 (164)
T ss_pred EEEEEEEECCCCcchhHH
Confidence 346889999999998764
No 87
>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]
Probab=95.99 E-value=0.0041 Score=52.76 Aligned_cols=36 Identities=17% Similarity=0.035 Sum_probs=28.8
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhh
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQ 55 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR 55 (93)
-.|||-++-=-++.+ +..++...||||||-|+. +|-
T Consensus 69 EQGITIDVAYRyFsT--~KRkFIiADTPGHeQYTR--NMa 104 (431)
T COG2895 69 EQGITIDVAYRYFST--EKRKFIIADTPGHEQYTR--NMA 104 (431)
T ss_pred hcCceEEEEeeeccc--ccceEEEecCCcHHHHhh--hhh
Confidence 468999997656665 588999999999999974 553
No 88
>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=95.97 E-value=0.011 Score=40.33 Aligned_cols=33 Identities=6% Similarity=0.019 Sum_probs=21.1
Q ss_pred CCeeEEEcCCCcccccCchhhhhcc---cEeEEecc
Q 045003 34 GIKFNFHNCEFYHRTSLFFFVQLRN---FVIVLRKN 66 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f~~mR~RG---a~iv~~~~ 66 (93)
...+.+.||||++.|..+.....++ +.+|.+-.
T Consensus 48 ~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v~d~~ 83 (187)
T cd04132 48 IIELALWDTAGQEEYDRLRPLSYPDVDVLLICYAVD 83 (187)
T ss_pred EEEEEEEECCCchhHHHHHHHhCCCCCEEEEEEECC
Confidence 3468899999999987754443343 34444443
No 89
>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=95.89 E-value=0.01 Score=36.15 Aligned_cols=50 Identities=12% Similarity=0.023 Sum_probs=29.2
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
+|+.+|.+......+......+....++........++++||||+..+..
T Consensus 11 tl~~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~ 60 (157)
T cd00882 11 SLLNRLLGGEFVPEEYETTIIDFYSKTIEVDGKKVKLQIWDTAGQERFRS 60 (157)
T ss_pred HHHHHHHhCCcCCcccccchhheeeEEEEECCEEEEEEEEecCChHHHHh
Confidence 35666666555333333222344444444333466899999999998765
No 90
>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=95.88 E-value=0.011 Score=42.78 Aligned_cols=50 Identities=16% Similarity=0.231 Sum_probs=32.0
Q ss_pred ceeeecceEEEEcCCCCeeEEEcCCCcccccCch--hhhh--cccEeEEecccc
Q 045003 19 ITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF--FVQL--RNFVIVLRKNNC 68 (93)
Q Consensus 19 ITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~--~mR~--RGa~iv~~~~~~ 68 (93)
++.+++.+.+..+..+..+.++|||||+.|.... .++. +|+++|++-.+-
T Consensus 32 ~~~~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~VvD~~~~ 85 (203)
T cd04105 32 IEPNVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVVDSATF 85 (203)
T ss_pred EeecceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEEECccc
Confidence 4555555555432346789999999999885422 1333 577888776543
No 91
>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=95.88 E-value=0.011 Score=39.26 Aligned_cols=37 Identities=8% Similarity=0.107 Sum_probs=22.5
Q ss_pred EEEcCCCCeeEEEcCCCcccccCchhhhhc---ccEeEEe
Q 045003 28 IGMSTGGIKFNFHNCEFYHRTSLFFFVQLR---NFVIVLR 64 (93)
Q Consensus 28 V~~~~~~~~itFiDTPGHeAFs~f~~mR~R---Ga~iv~~ 64 (93)
+...+....+.+.||||++.|..+..+-.+ ++.+|..
T Consensus 42 ~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d 81 (164)
T cd04175 42 VEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYS 81 (164)
T ss_pred EEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEEEE
Confidence 444323456779999999998875444333 3444444
No 92
>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=95.88 E-value=0.0098 Score=39.43 Aligned_cols=22 Identities=14% Similarity=0.188 Sum_probs=17.4
Q ss_pred EEEEcCCCCeeEEEcCCCcccccC
Q 045003 27 VIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 27 ~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
.+.+ ++..+.++|||||+.|..
T Consensus 44 ~~~~--~~~~~~l~Dt~G~~~~~~ 65 (167)
T cd04160 44 TIEV--GNARLKFWDLGGQESLRS 65 (167)
T ss_pred EEEE--CCEEEEEEECCCChhhHH
Confidence 4454 367899999999998865
No 93
>PRK13351 elongation factor G; Reviewed
Probab=95.83 E-value=0.0059 Score=51.83 Aligned_cols=48 Identities=17% Similarity=0.063 Sum_probs=33.7
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch--hhh-hcccEeEEec
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF--FVQ-LRNFVIVLRK 65 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~--~mR-~RGa~iv~~~ 65 (93)
..|||.......+.+ ++.+++|+|||||..|.... .+| ..++.+|++-
T Consensus 56 ~r~~ti~~~~~~~~~--~~~~i~liDtPG~~df~~~~~~~l~~aD~~ilVvd~ 106 (687)
T PRK13351 56 ERGITIESAATSCDW--DNHRINLIDTPGHIDFTGEVERSLRVLDGAVVVFDA 106 (687)
T ss_pred hcCCCcccceEEEEE--CCEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEEeC
Confidence 368888888888887 47899999999999986411 112 2355566654
No 94
>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=95.82 E-value=0.011 Score=39.25 Aligned_cols=45 Identities=4% Similarity=-0.110 Sum_probs=28.9
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCccc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHR 47 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeA 47 (93)
+|+.++-+.+....+..+.|+.+..-.+.. ++.+++|+||||+..
T Consensus 15 sli~~l~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~i~Dt~G~~~ 59 (168)
T cd01897 15 SLVNKLTRAKPEVAPYPFTTKSLFVGHFDY--KYLRWQVIDTPGLLD 59 (168)
T ss_pred HHHHHHhcCCCccCCCCCcccceeEEEEcc--CceEEEEEECCCcCC
Confidence 366677666554444556666654444443 357899999999953
No 95
>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=95.75 E-value=0.018 Score=37.98 Aligned_cols=49 Identities=8% Similarity=0.001 Sum_probs=25.5
Q ss_pred hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
|+.++.+......+..-++-......+...+....+.++||||++.|..
T Consensus 16 li~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~ 64 (161)
T cd01863 16 LLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRT 64 (161)
T ss_pred HHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhh
Confidence 5666665444332222221111122233332345789999999998865
No 96
>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=95.72 E-value=0.012 Score=38.85 Aligned_cols=63 Identities=11% Similarity=-0.030 Sum_probs=31.9
Q ss_pred hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh--h-hcccEeEEec
Q 045003 2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV--Q-LRNFVIVLRK 65 (93)
Q Consensus 2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m--R-~RGa~iv~~~ 65 (93)
|+.++.+..........+ .+.-...+..++....+.++||||++.|..+... + ..++.+|..-
T Consensus 16 li~~~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~ 81 (164)
T smart00173 16 LTIQFVQGHFVDDYDPTI-EDSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSI 81 (164)
T ss_pred HHHHHHhCcCCcccCCch-hhhEEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEEEC
Confidence 555565544333222222 2222223333323346788999999998764322 2 3355555554
No 97
>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=95.70 E-value=0.014 Score=38.26 Aligned_cols=19 Identities=0% Similarity=-0.146 Sum_probs=14.9
Q ss_pred CCeeEEEcCCCcccccCch
Q 045003 34 GIKFNFHNCEFYHRTSLFF 52 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f~ 52 (93)
...+.+.||||++.|..+.
T Consensus 48 ~~~l~i~Dt~G~~~~~~~~ 66 (163)
T cd04136 48 QCMLEILDTAGTEQFTAMR 66 (163)
T ss_pred EEEEEEEECCCccccchHH
Confidence 3467889999999987643
No 98
>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=95.67 E-value=0.017 Score=38.22 Aligned_cols=28 Identities=4% Similarity=-0.102 Sum_probs=18.9
Q ss_pred EEEEcCCCCeeEEEcCCCcccccCchhh
Q 045003 27 VIGMSTGGIKFNFHNCEFYHRTSLFFFV 54 (93)
Q Consensus 27 ~V~~~~~~~~itFiDTPGHeAFs~f~~m 54 (93)
.+..++....+.+.||||++.|..+..+
T Consensus 41 ~~~~~~~~~~l~i~Dt~G~~~~~~~~~~ 68 (163)
T cd04176 41 EIEVDSSPSVLEILDTAGTEQFASMRDL 68 (163)
T ss_pred EEEECCEEEEEEEEECCCcccccchHHH
Confidence 3444323346788999999999875544
No 99
>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=95.66 E-value=0.025 Score=37.38 Aligned_cols=64 Identities=3% Similarity=0.007 Sum_probs=33.6
Q ss_pred hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh---hhcccEeEEecc
Q 045003 2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV---QLRNFVIVLRKN 66 (93)
Q Consensus 2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m---R~RGa~iv~~~~ 66 (93)
|+.++.+.........-+..... ..+..++....+.|+|||||+.|..+..+ ++.++.+|..-.
T Consensus 16 li~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~ 82 (171)
T cd00157 16 LLISYTTGKFPTEYVPTVFDNYS-ATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICFSVD 82 (171)
T ss_pred HHHHHHhCCCCCCCCCceeeeeE-EEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEEECC
Confidence 55666655543222222222222 22333334557999999999987654333 244555555543
No 100
>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=95.65 E-value=0.011 Score=44.14 Aligned_cols=30 Identities=13% Similarity=0.100 Sum_probs=20.3
Q ss_pred cceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003 18 GITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS 49 (93)
Q Consensus 18 GITQhIGA~~V~~~~~~~~itFiDTPGHeAFs 49 (93)
|+|-+.....+.+ ++.+++++|||||..|.
T Consensus 49 ~~ti~~~~~~~~~--~~~~i~liDtPG~~~f~ 78 (268)
T cd04170 49 KMSISTSVAPLEW--KGHKINLIDTPGYADFV 78 (268)
T ss_pred cccccceeEEEEE--CCEEEEEEECcCHHHHH
Confidence 4444433344444 46789999999999875
No 101
>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=95.63 E-value=0.02 Score=38.00 Aligned_cols=49 Identities=10% Similarity=0.023 Sum_probs=26.6
Q ss_pred hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
|+.++....+...+.-.++...-..++...+....+.|.|||||+.|..
T Consensus 23 li~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~ 71 (169)
T cd04114 23 LVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRS 71 (169)
T ss_pred HHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHH
Confidence 5566654444333322233333233344432334678899999998765
No 102
>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=95.63 E-value=0.0081 Score=51.88 Aligned_cols=49 Identities=10% Similarity=-0.027 Sum_probs=31.3
Q ss_pred CcceeeecceEEE--EcCCCCeeEEEcCCCcccccCch--hhhhc-ccEeEEec
Q 045003 17 GGITQHVGAFVIG--MSTGGIKFNFHNCEFYHRTSLFF--FVQLR-NFVIVLRK 65 (93)
Q Consensus 17 GGITQhIGA~~V~--~~~~~~~itFiDTPGHeAFs~f~--~mR~R-Ga~iv~~~ 65 (93)
-|||-+....... .+.++..++|+|||||..|.... .+|.- ++.+|++-
T Consensus 66 rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~~~f~~~~~~al~~aD~~llVvda 119 (720)
T TIGR00490 66 RGITINAANVSMVHEYEGNEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCA 119 (720)
T ss_pred hcchhhcccceeEEeecCCceEEEEEeCCCccccHHHHHHHHHhcCEEEEEEec
Confidence 6888877765532 33457789999999999986311 12322 55566653
No 103
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=95.59 E-value=0.0072 Score=48.84 Aligned_cols=16 Identities=6% Similarity=-0.052 Sum_probs=14.1
Q ss_pred CeeEEEcCCCcccccC
Q 045003 35 IKFNFHNCEFYHRTSL 50 (93)
Q Consensus 35 ~~itFiDTPGHeAFs~ 50 (93)
..++|+|||||+.|..
T Consensus 85 ~~i~liDtPG~~~f~~ 100 (411)
T PRK04000 85 RRVSFVDAPGHETLMA 100 (411)
T ss_pred cEEEEEECCCHHHHHH
Confidence 5799999999999954
No 104
>PTZ00369 Ras-like protein; Provisional
Probab=95.57 E-value=0.018 Score=40.18 Aligned_cols=19 Identities=5% Similarity=-0.136 Sum_probs=15.2
Q ss_pred CCeeEEEcCCCcccccCch
Q 045003 34 GIKFNFHNCEFYHRTSLFF 52 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f~ 52 (93)
...+.+.||||++.|..+.
T Consensus 52 ~~~l~i~Dt~G~~~~~~l~ 70 (189)
T PTZ00369 52 TCLLDILDTAGQEEYSAMR 70 (189)
T ss_pred EEEEEEEeCCCCccchhhH
Confidence 4467889999999997643
No 105
>COG2229 Predicted GTPase [General function prediction only]
Probab=95.57 E-value=0.011 Score=45.55 Aligned_cols=42 Identities=7% Similarity=0.169 Sum_probs=30.0
Q ss_pred eeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhccc---EeEEe
Q 045003 20 TQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNF---VIVLR 64 (93)
Q Consensus 20 TQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa---~iv~~ 64 (93)
-|++|...+. ++.++.+.|||||+.|.-|.+.-.||+ +|+|.
T Consensus 56 a~D~g~~~~~---~~~~v~LfgtPGq~RF~fm~~~l~~ga~gaivlVD 100 (187)
T COG2229 56 AMDFGSIELD---EDTGVHLFGTPGQERFKFMWEILSRGAVGAIVLVD 100 (187)
T ss_pred eecccceEEc---CcceEEEecCCCcHHHHHHHHHHhCCcceEEEEEe
Confidence 3666666654 468999999999999986556666654 45554
No 106
>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=95.54 E-value=0.017 Score=38.51 Aligned_cols=34 Identities=9% Similarity=0.219 Sum_probs=21.9
Q ss_pred CCCeeEEEcCCCcccccCch---hhhhcccEeEEecc
Q 045003 33 GGIKFNFHNCEFYHRTSLFF---FVQLRNFVIVLRKN 66 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~f~---~mR~RGa~iv~~~~ 66 (93)
.+..+.|+||||++.|..+. -.+..++.+|++..
T Consensus 41 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~ 77 (158)
T cd04151 41 KNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDST 77 (158)
T ss_pred CCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEECC
Confidence 46789999999999875421 12344555555543
No 107
>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=95.54 E-value=0.021 Score=37.81 Aligned_cols=45 Identities=11% Similarity=0.013 Sum_probs=29.3
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH 46 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe 46 (93)
+|+.+|.+.++...+.-+.|+......+... ++.++.|+||||+.
T Consensus 11 tll~~l~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~i~DtpG~~ 55 (176)
T cd01881 11 TLLNALTNAKPKVANYPFTTLEPNLGVVEVP-DGARIQVADIPGLI 55 (176)
T ss_pred HHHHHHhcCCccccCCCceeecCcceEEEcC-CCCeEEEEeccccc
Confidence 4677777666544555667766544444442 27789999999983
No 108
>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=95.51 E-value=0.03 Score=37.49 Aligned_cols=53 Identities=0% Similarity=-0.078 Sum_probs=28.2
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV 54 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m 54 (93)
+|+..+.+..........+.... ...+..++....+.+.||||++.|..+..+
T Consensus 13 sli~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~ 65 (174)
T smart00174 13 CLLISYTTNAFPEDYVPTVFENY-SADVEVDGKPVELGLWDTAGQEDYDRLRPL 65 (174)
T ss_pred HHHHHHHhCCCCCCCCCcEEeee-eEEEEECCEEEEEEEEECCCCcccchhchh
Confidence 35666655444332222222222 123444323346889999999998764443
No 109
>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]
Probab=95.47 E-value=0.0087 Score=51.00 Aligned_cols=38 Identities=13% Similarity=0.016 Sum_probs=31.2
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhc
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLR 57 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~R 57 (93)
.-|||-+||-|..+.+ +..++|||.|||+.|- .+|=.-
T Consensus 33 KRG~TiDlg~~y~~~~--d~~~~fIDvpgh~~~i--~~miag 70 (447)
T COG3276 33 KRGITIDLGFYYRKLE--DGVMGFIDVPGHPDFI--SNLLAG 70 (447)
T ss_pred hcCceEeeeeEeccCC--CCceEEeeCCCcHHHH--HHHHhh
Confidence 4699999999999885 6699999999999994 355443
No 110
>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=95.46 E-value=0.015 Score=41.02 Aligned_cols=17 Identities=0% Similarity=-0.052 Sum_probs=14.4
Q ss_pred CeeEEEcCCCcccccCc
Q 045003 35 IKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 35 ~~itFiDTPGHeAFs~f 51 (93)
.++.|+|||||+.|..+
T Consensus 47 ~~l~i~D~~G~~~~~~~ 63 (198)
T cd04147 47 LTLDILDTSGSYSFPAM 63 (198)
T ss_pred EEEEEEECCCchhhhHH
Confidence 47889999999998763
No 111
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=95.45 E-value=0.011 Score=50.13 Aligned_cols=45 Identities=16% Similarity=0.075 Sum_probs=34.1
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh-----hhcccEeEEe
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV-----QLRNFVIVLR 64 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m-----R~RGa~iv~~ 64 (93)
.-|+|-.++-.+++.+ ...+|.+|||||..|-. +| ++--|+.|+.
T Consensus 68 erGvTi~~~~~~fet~--k~~~tIiDaPGHrdFvk--nmItGasqAD~aVLVV~ 117 (428)
T COG5256 68 ERGVTIDVAHSKFETD--KYNFTIIDAPGHRDFVK--NMITGASQADVAVLVVD 117 (428)
T ss_pred hcceEEEEEEEEeecC--CceEEEeeCCchHHHHH--HhhcchhhccEEEEEEE
Confidence 4689999998888874 77899999999999953 44 3444555554
No 112
>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]
Probab=95.39 E-value=0.011 Score=52.10 Aligned_cols=60 Identities=20% Similarity=0.189 Sum_probs=42.9
Q ss_pred CcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhh----hcccEeEEec-ccccceeeeecccc
Q 045003 17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQ----LRNFVIVLRK-NNCQGTYLFPWSYS 79 (93)
Q Consensus 17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR----~RGa~iv~~~-~~~~~~~~~~~~~~ 79 (93)
-|||-.-.|..+.+ ++..|++||||||-+|.. .--| .-|++.|... ..-+..-|--|.-+
T Consensus 86 rgitiqsaav~fdw--kg~rinlidtpghvdf~l-everclrvldgavav~dasagve~qtltvwrqa 150 (753)
T KOG0464|consen 86 RGITIQSAAVNFDW--KGHRINLIDTPGHVDFRL-EVERCLRVLDGAVAVFDASAGVEAQTLTVWRQA 150 (753)
T ss_pred cCceeeeeeeeccc--ccceEeeecCCCcceEEE-EHHHHHHHhcCeEEEEeccCCcccceeeeehhc
Confidence 58998888888888 589999999999999974 2222 3588888875 23334455566543
No 113
>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=95.37 E-value=0.037 Score=38.95 Aligned_cols=38 Identities=16% Similarity=0.090 Sum_probs=22.7
Q ss_pred EEEEc-CCCCeeEEEcCCCcccccCchhhh---hcccEeEEe
Q 045003 27 VIGMS-TGGIKFNFHNCEFYHRTSLFFFVQ---LRNFVIVLR 64 (93)
Q Consensus 27 ~V~~~-~~~~~itFiDTPGHeAFs~f~~mR---~RGa~iv~~ 64 (93)
.+..+ +....+.+.||||++.|..+...- ..|+++|..
T Consensus 41 ~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv~D 82 (201)
T cd04107 41 VIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIVFD 82 (201)
T ss_pred EEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEEEE
Confidence 34443 234568899999999987643322 234444544
No 114
>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=95.34 E-value=0.024 Score=36.73 Aligned_cols=18 Identities=6% Similarity=-0.084 Sum_probs=14.1
Q ss_pred CCeeEEEcCCCcccccCc
Q 045003 34 GIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f 51 (93)
...+.+.||||++.|..+
T Consensus 48 ~~~~~i~Dt~G~~~~~~l 65 (162)
T cd04138 48 TCLLDILDTAGQEEYSAM 65 (162)
T ss_pred EEEEEEEECCCCcchHHH
Confidence 345778999999988763
No 115
>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=95.30 E-value=0.025 Score=38.70 Aligned_cols=33 Identities=6% Similarity=0.063 Sum_probs=22.2
Q ss_pred eeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003 20 TQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF 52 (93)
Q Consensus 20 TQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~ 52 (93)
.+.+|...+..+.+..++.+.||||++.|..+.
T Consensus 29 ~pt~g~~~~~i~~~~~~l~i~Dt~G~~~~~~~~ 61 (164)
T cd04162 29 VPTTGFNSVAIPTQDAIMELLEIGGSQNLRKYW 61 (164)
T ss_pred cccCCcceEEEeeCCeEEEEEECCCCcchhHHH
Confidence 344454444444456789999999999987643
No 116
>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=95.30 E-value=0.029 Score=37.85 Aligned_cols=22 Identities=0% Similarity=-0.155 Sum_probs=16.5
Q ss_pred CCeeEEEcCCCcccccCchhhh
Q 045003 34 GIKFNFHNCEFYHRTSLFFFVQ 55 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f~~mR 55 (93)
...+.++|||||+.|..+....
T Consensus 48 ~~~~~i~Dt~G~~~~~~~~~~~ 69 (168)
T cd04177 48 QCDLEILDTAGTEQFTAMRELY 69 (168)
T ss_pred EEEEEEEeCCCcccchhhhHHH
Confidence 3467889999999998754443
No 117
>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=95.26 E-value=0.024 Score=38.16 Aligned_cols=25 Identities=16% Similarity=0.113 Sum_probs=17.3
Q ss_pred EEEcCCCCeeEEEcCCCcccccCch
Q 045003 28 IGMSTGGIKFNFHNCEFYHRTSLFF 52 (93)
Q Consensus 28 V~~~~~~~~itFiDTPGHeAFs~f~ 52 (93)
+...+....+.+.||||++.|..+.
T Consensus 45 ~~~~~~~~~l~l~D~~g~~~~~~~~ 69 (167)
T cd01867 45 IELDGKKIKLQIWDTAGQERFRTIT 69 (167)
T ss_pred EEECCEEEEEEEEeCCchHHHHHHH
Confidence 3343233578999999999987643
No 118
>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=95.24 E-value=0.02 Score=44.85 Aligned_cols=44 Identities=14% Similarity=0.095 Sum_probs=31.2
Q ss_pred ChhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003 1 MISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH 46 (93)
Q Consensus 1 sLLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe 46 (93)
+|+.+|-+...+ ..+..|+|++.-...+.. ++..+.++||||+.
T Consensus 14 tL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~--~~~~~~liDTpG~~ 58 (429)
T TIGR03594 14 TLFNRLTGKRDAIVSDTPGVTRDRKYGDAEW--GGREFILIDTGGIE 58 (429)
T ss_pred HHHHHHhCCCcceecCCCCcccCceEEEEEE--CCeEEEEEECCCCC
Confidence 356666655432 345568898877777777 47789999999984
No 119
>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=95.11 E-value=0.023 Score=39.30 Aligned_cols=40 Identities=20% Similarity=0.284 Sum_probs=27.2
Q ss_pred ChhhHHhhcC-Cc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003 1 MISDALRQTS-VV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY 45 (93)
Q Consensus 1 sLLD~IR~t~-Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH 45 (93)
+|+.+|.+.+ +. ..+.-|.||++-.+.++ ..+.|+||||+
T Consensus 33 tlin~l~~~~~~~~~~~~~~~t~~~~~~~~~-----~~~~liDtpG~ 74 (179)
T TIGR03598 33 SLINALTNRKKLARTSKTPGRTQLINFFEVN-----DGFRLVDLPGY 74 (179)
T ss_pred HHHHHHhCCCCcccccCCCCcceEEEEEEeC-----CcEEEEeCCCC
Confidence 3667777664 22 24566788888765542 37999999996
No 120
>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=95.10 E-value=0.031 Score=37.48 Aligned_cols=23 Identities=17% Similarity=0.131 Sum_probs=16.2
Q ss_pred EEEcCCCCeeEEEcCCCcccccC
Q 045003 28 IGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 28 V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
+...+...++.+.||||++.|..
T Consensus 44 ~~~~~~~~~l~i~Dt~G~~~~~~ 66 (166)
T cd04122 44 IEVNGQKIKLQIWDTAGQERFRA 66 (166)
T ss_pred EEECCEEEEEEEEECCCcHHHHH
Confidence 33432344788999999998865
No 121
>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=95.07 E-value=0.033 Score=36.97 Aligned_cols=51 Identities=10% Similarity=0.026 Sum_probs=26.8
Q ss_pred hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003 2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF 52 (93)
Q Consensus 2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~ 52 (93)
|+.++.+.+......-.++=......+..++....+.++||||++.|..+.
T Consensus 19 li~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~ 69 (165)
T cd01868 19 LLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAIT 69 (165)
T ss_pred HHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHH
Confidence 555555444332222222212233344443233468899999999887643
No 122
>PLN03118 Rab family protein; Provisional
Probab=95.04 E-value=0.038 Score=39.28 Aligned_cols=18 Identities=11% Similarity=0.111 Sum_probs=14.9
Q ss_pred CCeeEEEcCCCcccccCc
Q 045003 34 GIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f 51 (93)
...+.++||||++.|..+
T Consensus 61 ~~~l~l~Dt~G~~~~~~~ 78 (211)
T PLN03118 61 RLKLTIWDTAGQERFRTL 78 (211)
T ss_pred EEEEEEEECCCchhhHHH
Confidence 457899999999998763
No 123
>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=95.02 E-value=0.036 Score=37.29 Aligned_cols=27 Identities=11% Similarity=0.053 Sum_probs=18.2
Q ss_pred CCeeEEEcCCCcccccCchhhhhcccE
Q 045003 34 GIKFNFHNCEFYHRTSLFFFVQLRNFV 60 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f~~mR~RGa~ 60 (93)
...+.+.||||++.|..+...-.|++.
T Consensus 49 ~~~~~l~Dt~g~~~~~~~~~~~~~~~~ 75 (165)
T cd01865 49 RVKLQIWDTAGQERYRTITTAYYRGAM 75 (165)
T ss_pred EEEEEEEECCChHHHHHHHHHHccCCc
Confidence 357899999999988764333334443
No 124
>PRK00093 GTP-binding protein Der; Reviewed
Probab=94.98 E-value=0.028 Score=44.37 Aligned_cols=44 Identities=11% Similarity=0.006 Sum_probs=32.3
Q ss_pred hhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCccc
Q 045003 2 ISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHR 47 (93)
Q Consensus 2 LLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeA 47 (93)
|+.+|.+...+ ..+.-|+|++.-...+... +..+.++||||++.
T Consensus 17 L~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~--~~~~~liDT~G~~~ 61 (435)
T PRK00093 17 LFNRLTGKRDAIVADTPGVTRDRIYGEAEWL--GREFILIDTGGIEP 61 (435)
T ss_pred HHHHHhCCCceeeCCCCCCcccceEEEEEEC--CcEEEEEECCCCCC
Confidence 56666655532 3456678988777777774 68999999999987
No 125
>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=94.91 E-value=0.039 Score=36.95 Aligned_cols=24 Identities=4% Similarity=0.039 Sum_probs=16.6
Q ss_pred EEEcCCCCeeEEEcCCCcccccCc
Q 045003 28 IGMSTGGIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 28 V~~~~~~~~itFiDTPGHeAFs~f 51 (93)
+..++....+.+.||||++.+..+
T Consensus 42 ~~~~~~~~~l~i~Dt~G~~~~~~~ 65 (175)
T cd01870 42 IEVDGKQVELALWDTAGQEDYDRL 65 (175)
T ss_pred EEECCEEEEEEEEeCCCchhhhhc
Confidence 334323346889999999988764
No 126
>PRK00093 GTP-binding protein Der; Reviewed
Probab=94.82 E-value=0.046 Score=43.15 Aligned_cols=44 Identities=16% Similarity=0.177 Sum_probs=30.0
Q ss_pred ChhhHHhhcC-CcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003 1 MISDALRQTS-VVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH 46 (93)
Q Consensus 1 sLLD~IR~t~-Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe 46 (93)
+|+.+|-+.+ +...+..|+|.+.-...+.. ++..+.++||||+.
T Consensus 188 tlin~ll~~~~~~~~~~~gtt~~~~~~~~~~--~~~~~~lvDT~G~~ 232 (435)
T PRK00093 188 SLINALLGEERVIVSDIAGTTRDSIDTPFER--DGQKYTLIDTAGIR 232 (435)
T ss_pred HHHHHHhCCCceeecCCCCceEEEEEEEEEE--CCeeEEEEECCCCC
Confidence 3667766543 44456677888765555554 47789999999974
No 127
>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=94.77 E-value=0.013 Score=47.10 Aligned_cols=31 Identities=10% Similarity=-0.021 Sum_probs=20.8
Q ss_pred CCeeEEEcCCCcccccCchhhh-h----cccEeEEecc
Q 045003 34 GIKFNFHNCEFYHRTSLFFFVQ-L----RNFVIVLRKN 66 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f~~mR-~----RGa~iv~~~~ 66 (93)
...++|+|||||+.|.. .|. . .++.+|+.-.
T Consensus 79 ~~~i~liDtPGh~~f~~--~~~~g~~~aD~aIlVVDa~ 114 (406)
T TIGR03680 79 LRRVSFVDAPGHETLMA--TMLSGAALMDGALLVIAAN 114 (406)
T ss_pred ccEEEEEECCCHHHHHH--HHHHHHHHCCEEEEEEECC
Confidence 46799999999999954 221 1 2456666653
No 128
>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=94.77 E-value=0.046 Score=38.63 Aligned_cols=34 Identities=12% Similarity=0.104 Sum_probs=21.2
Q ss_pred CCeeEEEcCCCcccccCchhhh---hcccEeEEeccc
Q 045003 34 GIKFNFHNCEFYHRTSLFFFVQ---LRNFVIVLRKNN 67 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f~~mR---~RGa~iv~~~~~ 67 (93)
...+.+.||||++.|..+...- ..++.+|+.-.+
T Consensus 54 ~~~l~l~D~~G~~~~~~~~~~~~~~a~~iilv~D~~~ 90 (199)
T cd04110 54 RVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTN 90 (199)
T ss_pred EEEEEEEeCCCchhHHHHHHHHhCCCcEEEEEEECCC
Confidence 3467899999999987633222 334555655433
No 129
>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=94.75 E-value=0.072 Score=36.40 Aligned_cols=32 Identities=13% Similarity=-0.014 Sum_probs=21.2
Q ss_pred CCeeEEEcCCCcccccCchhhh---hcccEeEEec
Q 045003 34 GIKFNFHNCEFYHRTSLFFFVQ---LRNFVIVLRK 65 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f~~mR---~RGa~iv~~~ 65 (93)
...+.+.||||++.|..+...- ..++++|++-
T Consensus 48 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~ 82 (166)
T cd00877 48 KIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMFDV 82 (166)
T ss_pred EEEEEEEECCCChhhccccHHHhcCCCEEEEEEEC
Confidence 4578899999999987643222 4455566554
No 130
>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=94.74 E-value=0.04 Score=38.47 Aligned_cols=29 Identities=24% Similarity=0.257 Sum_probs=19.9
Q ss_pred eeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 20 TQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 20 TQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
|++.-...+.. ++.++.++||||++.|..
T Consensus 48 t~~~~~~~~~~--~~~~~~~~D~~G~~~~~~ 76 (184)
T smart00178 48 TQHPTSEELAI--GNIKFTTFDLGGHQQARR 76 (184)
T ss_pred ccccceEEEEE--CCEEEEEEECCCCHHHHH
Confidence 44444444544 367899999999988754
No 131
>cd01898 Obg Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.
Probab=94.73 E-value=0.044 Score=36.27 Aligned_cols=43 Identities=12% Similarity=0.086 Sum_probs=24.4
Q ss_pred ChhhHHhhcCCcCcccCcce--eeecceEEEEcCCCCeeEEEcCCCcc
Q 045003 1 MISDALRQTSVVAKEAGGIT--QHVGAFVIGMSTGGIKFNFHNCEFYH 46 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGIT--QhIGA~~V~~~~~~~~itFiDTPGHe 46 (93)
+|+.+|.+......+..+.| +.+|.+.+ . +..++.|+||||+.
T Consensus 15 tl~~~l~~~~~~v~~~~~~t~~~~~~~~~~--~-~~~~~~l~DtpG~~ 59 (170)
T cd01898 15 TLLSAISNAKPKIADYPFTTLVPNLGVVRV--D-DGRSFVVADIPGLI 59 (170)
T ss_pred HHHHHHhcCCccccCCCccccCCcceEEEc--C-CCCeEEEEecCccc
Confidence 36677765543323333334 44555433 2 23489999999974
No 132
>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]
Probab=94.60 E-value=0.038 Score=48.70 Aligned_cols=35 Identities=9% Similarity=-0.060 Sum_probs=30.6
Q ss_pred cccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 14 KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 14 ~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
.-.-|+|=.++..+++. +.+.+|+||+|||..|..
T Consensus 236 ERerGvTm~v~~~~fes--~~~~~tliDaPGhkdFi~ 270 (603)
T KOG0458|consen 236 ERERGVTMDVKTTWFES--KSKIVTLIDAPGHKDFIP 270 (603)
T ss_pred hhhcceeEEeeeEEEec--CceeEEEecCCCccccch
Confidence 34679999999999985 588999999999999975
No 133
>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=94.58 E-value=0.036 Score=38.67 Aligned_cols=17 Identities=0% Similarity=-0.103 Sum_probs=13.9
Q ss_pred CeeEEEcCCCcccccCc
Q 045003 35 IKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 35 ~~itFiDTPGHeAFs~f 51 (93)
..+.|+||||++.|..+
T Consensus 47 ~~l~i~Dt~G~~~~~~~ 63 (190)
T cd04144 47 CMLEVLDTAGQEEYTAL 63 (190)
T ss_pred EEEEEEECCCchhhHHH
Confidence 45889999999988763
No 134
>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=94.57 E-value=0.057 Score=35.52 Aligned_cols=46 Identities=7% Similarity=0.050 Sum_probs=26.9
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
+|+.++.+...+... -|+.+....+... ....+.+.||||++.|..
T Consensus 14 sl~~~~~~~~~~~~~---~t~~~~~~~~~~~-~~~~l~i~D~~G~~~~~~ 59 (160)
T cd04156 14 TLLYKLKHAELVTTI---PTVGFNVEMLQLE-KHLSLTVWDVGGQEKMRT 59 (160)
T ss_pred HHHHHHhcCCccccc---CccCcceEEEEeC-CceEEEEEECCCCHhHHH
Confidence 356667665554322 1332332334432 456899999999988754
No 135
>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=94.46 E-value=0.047 Score=35.57 Aligned_cols=18 Identities=6% Similarity=0.067 Sum_probs=14.6
Q ss_pred CCeeEEEcCCCcccccCc
Q 045003 34 GIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f 51 (93)
...+.++|||||+.|..+
T Consensus 47 ~~~~~i~D~~g~~~~~~~ 64 (164)
T cd04139 47 DVQLNILDTAGQEDYAAI 64 (164)
T ss_pred EEEEEEEECCChhhhhHH
Confidence 457899999999988653
No 136
>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=94.43 E-value=0.042 Score=37.60 Aligned_cols=30 Identities=7% Similarity=-0.165 Sum_probs=19.8
Q ss_pred eeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 21 QHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 21 QhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
..+|........+..++.+.|||||+.|..
T Consensus 29 ~t~g~~~~~~~~~~~~~~i~D~~G~~~~~~ 58 (167)
T cd04161 29 PTVGFTPTKLRLDKYEVCIFDLGGGANFRG 58 (167)
T ss_pred CcccceEEEEEECCEEEEEEECCCcHHHHH
Confidence 344444333333467899999999998764
No 137
>PTZ00099 rab6; Provisional
Probab=94.31 E-value=0.033 Score=39.61 Aligned_cols=33 Identities=9% Similarity=0.159 Sum_probs=21.7
Q ss_pred EEEcCCCCeeEEEcCCCcccccCchhhhhcccE
Q 045003 28 IGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFV 60 (93)
Q Consensus 28 V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~ 60 (93)
+..+++..++.|.||||++.|..+...--|++.
T Consensus 22 ~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad 54 (176)
T PTZ00099 22 LYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSA 54 (176)
T ss_pred EEECCEEEEEEEEECCChHHhhhccHHHhCCCc
Confidence 444444568899999999999765433334443
No 138
>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=94.28 E-value=0.064 Score=34.76 Aligned_cols=44 Identities=16% Similarity=0.215 Sum_probs=27.6
Q ss_pred hhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCccc
Q 045003 2 ISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHR 47 (93)
Q Consensus 2 LLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeA 47 (93)
|+++|-+... ...+..+.|+......+.. ++..++++||||+..
T Consensus 18 li~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~iiDtpG~~~ 62 (174)
T cd01895 18 LVNALLGEERVIVSDIAGTTRDSIDVPFEY--DGKKYTLIDTAGIRR 62 (174)
T ss_pred HHHHHhCccceeccCCCCCccCceeeEEEE--CCeeEEEEECCCCcc
Confidence 5666655442 2344556666665555555 366799999999743
No 139
>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=94.25 E-value=0.07 Score=35.99 Aligned_cols=18 Identities=11% Similarity=0.071 Sum_probs=14.5
Q ss_pred CeeEEEcCCCcccccCch
Q 045003 35 IKFNFHNCEFYHRTSLFF 52 (93)
Q Consensus 35 ~~itFiDTPGHeAFs~f~ 52 (93)
..+.+.||||++.|..+.
T Consensus 63 ~~~~i~Dt~G~~~~~~~~ 80 (180)
T cd04127 63 IHLQLWDTAGQERFRSLT 80 (180)
T ss_pred EEEEEEeCCChHHHHHHH
Confidence 468899999999986643
No 140
>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]
Probab=94.23 E-value=0.03 Score=51.14 Aligned_cols=55 Identities=15% Similarity=0.045 Sum_probs=38.2
Q ss_pred ccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchh---hhhcccEeEEec--ccccce
Q 045003 15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFF---VQLRNFVIVLRK--NNCQGT 71 (93)
Q Consensus 15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~---mR~RGa~iv~~~--~~~~~~ 71 (93)
-.-|||-+-+|...-. ++..++|||+|||-+|+.--+ .=+-||.+.+.- .-|.-|
T Consensus 54 q~rgitmkss~is~~~--~~~~~nlidspghvdf~sevssas~l~d~alvlvdvvegv~~qt 113 (887)
T KOG0467|consen 54 QTRGITMKSSAISLLH--KDYLINLIDSPGHVDFSSEVSSASRLSDGALVLVDVVEGVCSQT 113 (887)
T ss_pred hhhceeeecccccccc--CceEEEEecCCCccchhhhhhhhhhhcCCcEEEEeeccccchhH
Confidence 4679999999988443 588999999999999987322 223466655543 445444
No 141
>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=94.23 E-value=0.08 Score=36.52 Aligned_cols=25 Identities=8% Similarity=-0.011 Sum_probs=17.7
Q ss_pred CCeeEEEcCCCcccccCchhhhhcc
Q 045003 34 GIKFNFHNCEFYHRTSLFFFVQLRN 58 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f~~mR~RG 58 (93)
...+.+.||||.+.|..+...--|+
T Consensus 48 ~~~l~i~Dt~G~~~~~~~~~~~~~~ 72 (170)
T cd04108 48 PFSLQLWDTAGQERFKCIASTYYRG 72 (170)
T ss_pred EEEEEEEeCCChHHHHhhHHHHhcC
Confidence 4579999999999987644333334
No 142
>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=94.16 E-value=0.046 Score=35.34 Aligned_cols=18 Identities=6% Similarity=-0.042 Sum_probs=14.3
Q ss_pred CCeeEEEcCCCcccccCc
Q 045003 34 GIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f 51 (93)
...+.++|||||+.+..+
T Consensus 46 ~~~~~l~D~~g~~~~~~~ 63 (160)
T cd00876 46 TYTLDILDTAGQEEFSAM 63 (160)
T ss_pred EEEEEEEECCChHHHHHH
Confidence 346889999999987653
No 143
>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=94.11 E-value=0.057 Score=34.74 Aligned_cols=42 Identities=14% Similarity=0.044 Sum_probs=26.8
Q ss_pred hhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003 2 ISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY 45 (93)
Q Consensus 2 LLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH 45 (93)
|+-+|-+.+. ..++.-+.|++.-...+.. ++..+.|+||||=
T Consensus 15 lin~l~~~~~~~~~~~~~~T~~~~~~~~~~--~~~~~~~vDtpG~ 57 (116)
T PF01926_consen 15 LINALTGKKLAKVSNIPGTTRDPVYGQFEY--NNKKFILVDTPGI 57 (116)
T ss_dssp HHHHHHTSTSSEESSSTTSSSSEEEEEEEE--TTEEEEEEESSSC
T ss_pred HHHHHhccccccccccccceeeeeeeeeee--ceeeEEEEeCCCC
Confidence 4555655432 2334457888884445555 4778899999994
No 144
>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=94.10 E-value=0.066 Score=40.17 Aligned_cols=45 Identities=13% Similarity=0.150 Sum_probs=27.5
Q ss_pred ChhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCccc
Q 045003 1 MISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHR 47 (93)
Q Consensus 1 sLLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeA 47 (93)
+|+.+|-+.+++ ....-+.|++.- ..+... ++.++.|+||||+..
T Consensus 15 TLln~L~~~~~~~vs~~~~TTr~~i-~~i~~~-~~~qii~vDTPG~~~ 60 (270)
T TIGR00436 15 TLLNQLHGQKISITSPKAQTTRNRI-SGIHTT-GASQIIFIDTPGFHE 60 (270)
T ss_pred HHHHHHhCCcEeecCCCCCcccCcE-EEEEEc-CCcEEEEEECcCCCC
Confidence 467777776654 244456787631 122222 456799999999753
No 145
>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=94.08 E-value=0.055 Score=34.42 Aligned_cols=46 Identities=7% Similarity=0.005 Sum_probs=25.1
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
+|+.+|.+........- |..+.-..+.. +...+.++||||++.|..
T Consensus 14 sl~~~l~~~~~~~~~~~--t~~~~~~~~~~--~~~~~~~~D~~g~~~~~~ 59 (159)
T cd04159 14 TLVNVIAGGQFSEDTIP--TVGFNMRKVTK--GNVTLKVWDLGGQPRFRS 59 (159)
T ss_pred HHHHHHccCCCCcCccC--CCCcceEEEEE--CCEEEEEEECCCCHhHHH
Confidence 35666665544333221 22222233333 346799999999988754
No 146
>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=93.99 E-value=0.14 Score=40.11 Aligned_cols=47 Identities=17% Similarity=0.212 Sum_probs=31.2
Q ss_pred ChhhHHhhcC-CcCcccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003 1 MISDALRQTS-VVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS 49 (93)
Q Consensus 1 sLLD~IR~t~-Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs 49 (93)
+|+.+|-+.+ ....+..|+|.+.-...+.. ++..++++||||+..+.
T Consensus 187 sLin~l~~~~~~~~~~~~gtt~~~~~~~~~~--~~~~~~liDT~G~~~~~ 234 (429)
T TIGR03594 187 TLVNALLGEERVIVSDIAGTTRDSIDIPFER--NGKKYLLIDTAGIRRKG 234 (429)
T ss_pred HHHHHHHCCCeeecCCCCCceECcEeEEEEE--CCcEEEEEECCCccccc
Confidence 3566665443 33456678888765555555 46789999999985543
No 147
>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=93.98 E-value=0.099 Score=34.50 Aligned_cols=26 Identities=4% Similarity=-0.083 Sum_probs=18.2
Q ss_pred eEEEEc-CCCCeeEEEcCCCcccccCc
Q 045003 26 FVIGMS-TGGIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 26 ~~V~~~-~~~~~itFiDTPGHeAFs~f 51 (93)
..++.. +....+.+.||||++.|..+
T Consensus 42 ~~~~~~~~~~~~l~i~Dt~G~~~~~~~ 68 (164)
T cd04101 42 KEVPVDTDNTVELFIFDSAGQELYSDM 68 (164)
T ss_pred EEEEeCCCCEEEEEEEECCCHHHHHHH
Confidence 344443 23468999999999988653
No 148
>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=93.93 E-value=0.08 Score=36.96 Aligned_cols=39 Identities=5% Similarity=0.045 Sum_probs=22.8
Q ss_pred EEEcCCCCeeEEEcCCCcccccCchhhh---hcccEeEEecc
Q 045003 28 IGMSTGGIKFNFHNCEFYHRTSLFFFVQ---LRNFVIVLRKN 66 (93)
Q Consensus 28 V~~~~~~~~itFiDTPGHeAFs~f~~mR---~RGa~iv~~~~ 66 (93)
+...+....+.+.||||++.|..+...- ..++++|+.-+
T Consensus 43 ~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~ 84 (191)
T cd04112 43 VTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDIT 84 (191)
T ss_pred EEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEEEECC
Confidence 3343234578899999999886522111 33556666543
No 149
>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=93.91 E-value=0.094 Score=40.11 Aligned_cols=46 Identities=13% Similarity=0.029 Sum_probs=30.6
Q ss_pred ChhhHHhhcCCcCc-ccCcceeeecceEEEEcCCCCeeEEEcCCCcccc
Q 045003 1 MISDALRQTSVVAK-EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRT 48 (93)
Q Consensus 1 sLLD~IR~t~Va~~-EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAF 48 (93)
||+-+|.+..++.. ...+-|+.+..+.... ++.+++||||||-...
T Consensus 46 SliNaLlg~~~~~v~~~~~~T~~~~~~~~~~--~g~~i~vIDTPGl~~~ 92 (249)
T cd01853 46 STINSIFGERKAATSAFQSETLRVREVSGTV--DGFKLNIIDTPGLLES 92 (249)
T ss_pred HHHHHHhCCCCcccCCCCCceEEEEEEEEEE--CCeEEEEEECCCcCcc
Confidence 35566666655432 2335677776666654 4788999999997755
No 150
>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=93.89 E-value=0.089 Score=38.46 Aligned_cols=25 Identities=8% Similarity=0.118 Sum_probs=18.2
Q ss_pred EEEEcCCCCeeEEEcCCCcccccCc
Q 045003 27 VIGMSTGGIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 27 ~V~~~~~~~~itFiDTPGHeAFs~f 51 (93)
.+..++...++.+.||||++.|..+
T Consensus 41 ~i~~~~~~v~l~iwDtaGqe~~~~l 65 (202)
T cd04120 41 TVELRGKKIRLQIWDTAGQERFNSI 65 (202)
T ss_pred EEEECCEEEEEEEEeCCCchhhHHH
Confidence 4555433467899999999998764
No 151
>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=93.76 E-value=0.063 Score=36.34 Aligned_cols=48 Identities=8% Similarity=0.032 Sum_probs=25.9
Q ss_pred hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
|+..+.+.+........+.+.. ...+...+....+.++|||||+.|..
T Consensus 17 l~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~ 64 (180)
T cd04137 17 LTVQFVEGHFVESYYPTIENTF-SKIIRYKGQDYHLEIVDTAGQDEYSI 64 (180)
T ss_pred HHHHHHhCCCccccCcchhhhE-EEEEEECCEEEEEEEEECCChHhhHH
Confidence 5666665555443333332211 12233322244678999999988764
No 152
>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=93.64 E-value=0.14 Score=32.54 Aligned_cols=16 Identities=13% Similarity=0.173 Sum_probs=12.8
Q ss_pred CCCeeEEEcCCCcccc
Q 045003 33 GGIKFNFHNCEFYHRT 48 (93)
Q Consensus 33 ~~~~itFiDTPGHeAF 48 (93)
++..+.++||||....
T Consensus 49 ~~~~~~liDtpG~~~~ 64 (168)
T cd04163 49 DDAQIIFVDTPGIHKP 64 (168)
T ss_pred CCeEEEEEECCCCCcc
Confidence 4568999999998654
No 153
>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=93.63 E-value=0.074 Score=36.50 Aligned_cols=18 Identities=11% Similarity=0.017 Sum_probs=15.2
Q ss_pred CCCeeEEEcCCCcccccC
Q 045003 33 GGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~ 50 (93)
+...+.++||||++.|..
T Consensus 57 ~~~~~~l~D~~G~~~~~~ 74 (174)
T cd04153 57 KNIRFLMWDIGGQESLRS 74 (174)
T ss_pred CCeEEEEEECCCCHHHHH
Confidence 467899999999998865
No 154
>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=93.54 E-value=0.14 Score=34.73 Aligned_cols=40 Identities=15% Similarity=0.145 Sum_probs=23.6
Q ss_pred EEEcCCCCeeEEEcCCCcccccC-chhh---hhcccEeEEeccc
Q 045003 28 IGMSTGGIKFNFHNCEFYHRTSL-FFFV---QLRNFVIVLRKNN 67 (93)
Q Consensus 28 V~~~~~~~~itFiDTPGHeAFs~-f~~m---R~RGa~iv~~~~~ 67 (93)
+..++....+.++||||++.|.. +... ...++++|++-.+
T Consensus 44 ~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~v~d~~~ 87 (170)
T cd04115 44 VEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTN 87 (170)
T ss_pred EEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEEEEECCC
Confidence 44433345789999999998852 2111 2345566665543
No 155
>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=93.51 E-value=0.13 Score=35.75 Aligned_cols=27 Identities=0% Similarity=-0.112 Sum_probs=19.2
Q ss_pred CCCeeEEEcCCCcccccCchhhhhccc
Q 045003 33 GGIKFNFHNCEFYHRTSLFFFVQLRNF 59 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~f~~mR~RGa 59 (93)
....+.+.||||++.|..+..+.-+++
T Consensus 47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~ 73 (174)
T cd01871 47 KPVNLGLWDTAGQEDYDRLRPLSYPQT 73 (174)
T ss_pred EEEEEEEEECCCchhhhhhhhhhcCCC
Confidence 345788999999999977544444444
No 156
>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=93.47 E-value=0.078 Score=36.00 Aligned_cols=18 Identities=17% Similarity=0.102 Sum_probs=14.7
Q ss_pred CCCeeEEEcCCCcccccC
Q 045003 33 GGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~ 50 (93)
+...+.++||||++.|..
T Consensus 56 ~~~~l~l~D~~G~~~~~~ 73 (173)
T cd04154 56 EGYKLNIWDVGGQKTLRP 73 (173)
T ss_pred CCEEEEEEECCCCHHHHH
Confidence 356789999999998754
No 157
>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=93.45 E-value=0.16 Score=34.51 Aligned_cols=35 Identities=0% Similarity=-0.075 Sum_probs=21.5
Q ss_pred EEEcCCCCeeEEEcCCCcccccCchhhhhcccEeE
Q 045003 28 IGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFVIV 62 (93)
Q Consensus 28 V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~iv 62 (93)
+..++...++.+.||||++.|..+.++-.+++.++
T Consensus 41 ~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~ 75 (173)
T cd04130 41 VLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVF 75 (173)
T ss_pred EEECCEEEEEEEEECCCChhhccccccccCCCcEE
Confidence 33433345788999999999876443333344433
No 158
>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=93.39 E-value=0.17 Score=34.83 Aligned_cols=24 Identities=4% Similarity=0.016 Sum_probs=16.0
Q ss_pred EEEcCCCCeeEEEcCCCcccccCc
Q 045003 28 IGMSTGGIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 28 V~~~~~~~~itFiDTPGHeAFs~f 51 (93)
+..++....+.|.||||.+.|..+
T Consensus 43 ~~~~~~~~~l~i~D~~G~~~~~~~ 66 (193)
T cd04118 43 MVVGERVVTLGIWDTAGSERYEAM 66 (193)
T ss_pred EEECCEEEEEEEEECCCchhhhhh
Confidence 344323345679999999988653
No 159
>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=93.38 E-value=0.087 Score=39.73 Aligned_cols=51 Identities=6% Similarity=-0.037 Sum_probs=27.0
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF 52 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~ 52 (93)
+|+..+.+.........-| .+.-...+...+....+.+.||||++.|..+.
T Consensus 15 SLi~r~~~~~f~~~y~pTi-~d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~ 65 (247)
T cd04143 15 AIVSRFLGGRFEEQYTPTI-EDFHRKLYSIRGEVYQLDILDTSGNHPFPAMR 65 (247)
T ss_pred HHHHHHHcCCCCCCCCCCh-hHhEEEEEEECCEEEEEEEEECCCChhhhHHH
Confidence 3566665433333222222 12222233343234578899999999987643
No 160
>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=93.37 E-value=0.13 Score=34.62 Aligned_cols=18 Identities=6% Similarity=-0.025 Sum_probs=14.7
Q ss_pred CCeeEEEcCCCcccccCc
Q 045003 34 GIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f 51 (93)
...+.+.||||++.|..+
T Consensus 48 ~~~l~i~Dt~G~~~~~~~ 65 (165)
T cd04140 48 ICTLQITDTTGSHQFPAM 65 (165)
T ss_pred EEEEEEEECCCCCcchHH
Confidence 457889999999988753
No 161
>PLN03071 GTP-binding nuclear protein Ran; Provisional
Probab=93.31 E-value=0.18 Score=36.80 Aligned_cols=20 Identities=15% Similarity=0.114 Sum_probs=16.0
Q ss_pred CCCeeEEEcCCCcccccCch
Q 045003 33 GGIKFNFHNCEFYHRTSLFF 52 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~f~ 52 (93)
...++.+.||||++.|..+.
T Consensus 60 ~~~~l~i~Dt~G~~~~~~~~ 79 (219)
T PLN03071 60 GKIRFYCWDTAGQEKFGGLR 79 (219)
T ss_pred eEEEEEEEECCCchhhhhhh
Confidence 34588999999999997643
No 162
>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=93.27 E-value=0.16 Score=35.47 Aligned_cols=26 Identities=4% Similarity=-0.036 Sum_probs=18.8
Q ss_pred CCeeEEEcCCCcccccCchhhhhccc
Q 045003 34 GIKFNFHNCEFYHRTSLFFFVQLRNF 59 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f~~mR~RGa 59 (93)
...+.+.||||++.|..+..+--+++
T Consensus 47 ~~~l~i~Dt~G~~~~~~l~~~~~~~a 72 (189)
T cd04134 47 HIELSLWDTAGQEEFDRLRSLSYADT 72 (189)
T ss_pred EEEEEEEECCCChhccccccccccCC
Confidence 35789999999999977544444443
No 163
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=93.27 E-value=0.13 Score=39.49 Aligned_cols=41 Identities=12% Similarity=0.144 Sum_probs=29.3
Q ss_pred ChhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003 1 MISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH 46 (93)
Q Consensus 1 sLLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe 46 (93)
+|+.+|++.++ ..++.-|+|+++. .+.. +.++.++||||=-
T Consensus 136 sliN~l~~~~~~~~~~~~g~T~~~~--~~~~---~~~~~l~DtPGi~ 177 (287)
T PRK09563 136 TLINRLAGKKIAKTGNRPGVTKAQQ--WIKL---GKGLELLDTPGIL 177 (287)
T ss_pred HHHHHHhcCCccccCCCCCeEEEEE--EEEe---CCcEEEEECCCcC
Confidence 46777877654 5566778999975 3333 3579999999974
No 164
>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=93.21 E-value=0.16 Score=36.65 Aligned_cols=17 Identities=18% Similarity=0.110 Sum_probs=14.1
Q ss_pred CCeeEEEcCCCcccccC
Q 045003 34 GIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~ 50 (93)
..++.+.||||++.|..
T Consensus 51 ~~~l~i~Dt~G~~~~~~ 67 (211)
T cd04111 51 RIKLQLWDTAGQERFRS 67 (211)
T ss_pred EEEEEEEeCCcchhHHH
Confidence 34788999999998865
No 165
>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=93.21 E-value=0.17 Score=36.32 Aligned_cols=18 Identities=0% Similarity=-0.086 Sum_probs=14.2
Q ss_pred CCeeEEEcCCCcccccCc
Q 045003 34 GIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f 51 (93)
...+.+.||||++.|..+
T Consensus 49 ~~~~~i~Dt~G~~~~~~l 66 (215)
T cd04109 49 NVTLQVWDIGGQSIGGKM 66 (215)
T ss_pred EEEEEEEECCCcHHHHHH
Confidence 347889999999987653
No 166
>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=93.13 E-value=0.15 Score=33.54 Aligned_cols=18 Identities=6% Similarity=0.073 Sum_probs=15.0
Q ss_pred CCCeeEEEcCCCcccccC
Q 045003 33 GGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~ 50 (93)
+...+.+.|||||+.|..
T Consensus 41 ~~~~~~i~D~~G~~~~~~ 58 (158)
T cd00878 41 KNVSFTVWDVGGQDKIRP 58 (158)
T ss_pred CCEEEEEEECCCChhhHH
Confidence 356899999999998765
No 167
>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=93.13 E-value=0.14 Score=35.06 Aligned_cols=39 Identities=21% Similarity=0.195 Sum_probs=24.7
Q ss_pred ChhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCC
Q 045003 1 MISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEF 44 (93)
Q Consensus 1 sLLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPG 44 (93)
+|+.+|++.+. ..++.-|.|.+.. .++. ..++.++||||
T Consensus 117 tliN~l~~~~~~~~~~~~g~T~~~~--~~~~---~~~~~liDtPG 156 (157)
T cd01858 117 SIINTLRSKKVCKVAPIPGETKVWQ--YITL---MKRIYLIDCPG 156 (157)
T ss_pred HHHHHHhcCCceeeCCCCCeeEeEE--EEEc---CCCEEEEECcC
Confidence 46777776433 3445556777653 3333 34699999999
No 168
>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=93.08 E-value=0.17 Score=36.89 Aligned_cols=19 Identities=21% Similarity=0.273 Sum_probs=15.8
Q ss_pred CCCeeEEEcCCCcccccCc
Q 045003 33 GGIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~f 51 (93)
...++.+.||||++.|..+
T Consensus 42 ~~~~l~iwDt~G~e~~~~l 60 (200)
T smart00176 42 GPIRFNVWDTAGQEKFGGL 60 (200)
T ss_pred EEEEEEEEECCCchhhhhh
Confidence 3568999999999999764
No 169
>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=92.96 E-value=0.15 Score=35.53 Aligned_cols=18 Identities=22% Similarity=0.331 Sum_probs=14.6
Q ss_pred CCCeeEEEcCCCcccccC
Q 045003 33 GGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~ 50 (93)
...++.+.||||++.|..
T Consensus 50 ~~~~l~l~Dt~G~~~~~~ 67 (183)
T cd04152 50 KGITFHFWDVGGQEKLRP 67 (183)
T ss_pred CceEEEEEECCCcHhHHH
Confidence 345799999999998754
No 170
>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=92.95 E-value=0.13 Score=35.15 Aligned_cols=29 Identities=21% Similarity=0.183 Sum_probs=19.7
Q ss_pred eeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 20 TQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 20 TQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
|+..-...+.. ++..+.++|||||+.|..
T Consensus 50 T~~~~~~~i~~--~~~~~~l~D~~G~~~~~~ 78 (190)
T cd00879 50 TLHPTSEELTI--GNIKFKTFDLGGHEQARR 78 (190)
T ss_pred ccCcceEEEEE--CCEEEEEEECCCCHHHHH
Confidence 44443345555 356889999999998754
No 171
>PRK15494 era GTPase Era; Provisional
Probab=92.94 E-value=0.16 Score=40.13 Aligned_cols=47 Identities=4% Similarity=-0.038 Sum_probs=27.4
Q ss_pred ChhhHHhhcCCcC-cccCcceeeecceEEEEcCCCCeeEEEcCCCc-cccc
Q 045003 1 MISDALRQTSVVA-KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY-HRTS 49 (93)
Q Consensus 1 sLLD~IR~t~Va~-~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH-eAFs 49 (93)
+|+.+|.+.+++. ...-+.|++.--..+.. ++.++.|+||||. +.+.
T Consensus 67 TLin~l~~~k~~ivs~k~~tTr~~~~~~~~~--~~~qi~~~DTpG~~~~~~ 115 (339)
T PRK15494 67 TLLNRIIGEKLSIVTPKVQTTRSIITGIITL--KDTQVILYDTPGIFEPKG 115 (339)
T ss_pred HHHHHHhCCceeeccCCCCCccCcEEEEEEe--CCeEEEEEECCCcCCCcc
Confidence 4677777666542 12234565532223333 4678999999997 4443
No 172
>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....
Probab=92.91 E-value=0.1 Score=38.05 Aligned_cols=41 Identities=12% Similarity=0.130 Sum_probs=23.0
Q ss_pred hhHHhhcCCcCcc--cCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003 3 SDALRQTSVVAKE--AGGITQHVGAFVIGMSTGGIKFNFHNCEFY 45 (93)
Q Consensus 3 LD~IR~t~Va~~E--aGGITQhIGA~~V~~~~~~~~itFiDTPGH 45 (93)
...|-+.++.... +-..||..-.+.... ++..|+++||||=
T Consensus 17 ~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~--~g~~v~VIDTPGl 59 (212)
T PF04548_consen 17 GNSILGKEVFKSGSSAKSVTQECQKYSGEV--DGRQVTVIDTPGL 59 (212)
T ss_dssp HHHHHTSS-SS--TTTSS--SS-EEEEEEE--TTEEEEEEE--SS
T ss_pred HHHHhcccceeeccccCCcccccceeeeee--cceEEEEEeCCCC
Confidence 3455555554443 346788888877766 4899999999993
No 173
>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]
Probab=92.87 E-value=0.081 Score=45.23 Aligned_cols=48 Identities=19% Similarity=0.244 Sum_probs=37.0
Q ss_pred cccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh-----hhcccEeEEec
Q 045003 14 KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV-----QLRNFVIVLRK 65 (93)
Q Consensus 14 ~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m-----R~RGa~iv~~~ 65 (93)
.-|-||| |.+..|.+++...----.|+|||++|- .+| +--|+.+||.-
T Consensus 98 EkaRGIT--In~aHveYeTa~RhYaH~DCPGHADYI--KNMItGaaqMDGaILVVaa 150 (449)
T KOG0460|consen 98 EKARGIT--INAAHVEYETAKRHYAHTDCPGHADYI--KNMITGAAQMDGAILVVAA 150 (449)
T ss_pred hhhccce--EeeeeeeeeccccccccCCCCchHHHH--HHhhcCccccCceEEEEEc
Confidence 3478998 667888888777777889999999984 355 45688888865
No 174
>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=92.76 E-value=0.23 Score=34.50 Aligned_cols=18 Identities=0% Similarity=-0.083 Sum_probs=14.8
Q ss_pred CCeeEEEcCCCcccccCc
Q 045003 34 GIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f 51 (93)
...+.+.||||++.|..+
T Consensus 48 ~~~l~i~Dt~G~~~~~~~ 65 (175)
T cd01874 48 PYTLGLFDTAGQEDYDRL 65 (175)
T ss_pred EEEEEEEECCCccchhhh
Confidence 357889999999998764
No 175
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=92.64 E-value=0.22 Score=40.83 Aligned_cols=47 Identities=19% Similarity=0.201 Sum_probs=33.0
Q ss_pred ChhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003 1 MISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS 49 (93)
Q Consensus 1 sLLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs 49 (93)
||+.+|-+.+.+ ..+.-|.|+++-...+.. ++.++.++||||++.+.
T Consensus 230 SLln~L~~~~~a~v~~~~gtT~d~~~~~i~~--~g~~i~l~DT~G~~~~~ 277 (449)
T PRK05291 230 SLLNALLGEERAIVTDIAGTTRDVIEEHINL--DGIPLRLIDTAGIRETD 277 (449)
T ss_pred HHHHHHhCCCCcccCCCCCcccccEEEEEEE--CCeEEEEEeCCCCCCCc
Confidence 466777665542 345567888876666666 46789999999997654
No 176
>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=92.56 E-value=0.18 Score=35.18 Aligned_cols=44 Identities=14% Similarity=0.068 Sum_probs=24.7
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY 45 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH 45 (93)
+|+.+|-+..+...+..+-|.......+.++ +...++|+||||+
T Consensus 56 tLl~~l~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~i~Dt~G~ 99 (204)
T cd01878 56 TLFNALTGADVYAEDQLFATLDPTTRRLRLP-DGREVLLTDTVGF 99 (204)
T ss_pred HHHHHHhcchhccCCccceeccceeEEEEec-CCceEEEeCCCcc
Confidence 3566666655433333344443333334443 3348999999998
No 177
>PRK03003 GTP-binding protein Der; Reviewed
Probab=92.48 E-value=0.12 Score=42.16 Aligned_cols=43 Identities=19% Similarity=0.254 Sum_probs=28.6
Q ss_pred ChhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003 1 MISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY 45 (93)
Q Consensus 1 sLLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH 45 (93)
+|+.+|-+... ...+.-|+|.+.-...+.. ++..+.|+||||.
T Consensus 226 SLin~l~~~~~~~~s~~~gtT~d~~~~~~~~--~~~~~~l~DTaG~ 269 (472)
T PRK03003 226 SLLNKLAGEERSVVDDVAGTTVDPVDSLIEL--GGKTWRFVDTAGL 269 (472)
T ss_pred HHHHHHhCCCcccccCCCCccCCcceEEEEE--CCEEEEEEECCCc
Confidence 36666665543 3445667887665555655 4678999999993
No 178
>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=92.42 E-value=0.25 Score=34.84 Aligned_cols=33 Identities=3% Similarity=-0.138 Sum_probs=22.0
Q ss_pred EEEcCCCCeeEEEcCCCcccccCchhhhhcccE
Q 045003 28 IGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFV 60 (93)
Q Consensus 28 V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~ 60 (93)
+..+++.-++.+.||||++.|..+..+.-|++.
T Consensus 42 ~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~ 74 (178)
T cd04131 42 FEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSD 74 (178)
T ss_pred EEECCEEEEEEEEECCCchhhhhcchhhcCCCC
Confidence 344334457889999999999876555444443
No 179
>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=92.38 E-value=0.099 Score=38.05 Aligned_cols=42 Identities=10% Similarity=0.004 Sum_probs=31.2
Q ss_pred hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003 2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY 45 (93)
Q Consensus 2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH 45 (93)
|+-+|-+.+..-+..-|.|....-..+.+. +..+.|+||||-
T Consensus 16 LfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~--~~~~~lvDlPG~ 57 (156)
T PF02421_consen 16 LFNALTGAKQKVGNWPGTTVEKKEGIFKLG--DQQVELVDLPGI 57 (156)
T ss_dssp HHHHHHTTSEEEEESTTSSSEEEEEEEEET--TEEEEEEE----
T ss_pred HHHHHHCCCceecCCCCCCeeeeeEEEEec--CceEEEEECCCc
Confidence 566777777777888999999877777774 689999999994
No 180
>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=92.32 E-value=0.19 Score=33.50 Aligned_cols=18 Identities=17% Similarity=0.119 Sum_probs=14.9
Q ss_pred CCCeeEEEcCCCcccccC
Q 045003 33 GGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~ 50 (93)
++..+.++||||+..|..
T Consensus 56 ~~~~~~~~D~~G~~~~~~ 73 (173)
T cd04155 56 DGFKLNVWDIGGQRAIRP 73 (173)
T ss_pred CCEEEEEEECCCCHHHHH
Confidence 367899999999988754
No 181
>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=92.31 E-value=0.16 Score=36.69 Aligned_cols=39 Identities=10% Similarity=0.191 Sum_probs=26.7
Q ss_pred ChhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCC
Q 045003 1 MISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEF 44 (93)
Q Consensus 1 sLLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPG 44 (93)
+|+.+|.+.++ ..+..-|.|++.-.+.+ +..+.++||||
T Consensus 132 slin~l~~~~~~~~~~~pg~T~~~~~~~~-----~~~~~l~DtPG 171 (172)
T cd04178 132 SLINSLKRSRACNVGATPGVTKSMQEVHL-----DKKVKLLDSPG 171 (172)
T ss_pred HHHHHHhCcccceecCCCCeEcceEEEEe-----CCCEEEEECcC
Confidence 46677776544 44566789998654443 34699999999
No 182
>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=92.28 E-value=0.26 Score=34.00 Aligned_cols=17 Identities=18% Similarity=0.040 Sum_probs=13.8
Q ss_pred CCeeEEEcCCCcccccC
Q 045003 34 GIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~ 50 (93)
...+.+.||||++.|..
T Consensus 48 ~~~~~i~Dt~g~~~~~~ 64 (188)
T cd04125 48 IIKLQIWDTNGQERFRS 64 (188)
T ss_pred EEEEEEEECCCcHHHHh
Confidence 44678999999998864
No 183
>PLN03110 Rab GTPase; Provisional
Probab=92.21 E-value=0.22 Score=36.00 Aligned_cols=26 Identities=8% Similarity=0.010 Sum_probs=17.9
Q ss_pred EEEEcCCCCeeEEEcCCCcccccCch
Q 045003 27 VIGMSTGGIKFNFHNCEFYHRTSLFF 52 (93)
Q Consensus 27 ~V~~~~~~~~itFiDTPGHeAFs~f~ 52 (93)
.+..++...++.+.||||++.|..+.
T Consensus 53 ~v~~~~~~~~l~l~Dt~G~~~~~~~~ 78 (216)
T PLN03110 53 TLQVEGKTVKAQIWDTAGQERYRAIT 78 (216)
T ss_pred EEEECCEEEEEEEEECCCcHHHHHHH
Confidence 44443334578899999999886643
No 184
>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=92.17 E-value=0.16 Score=40.63 Aligned_cols=44 Identities=14% Similarity=0.049 Sum_probs=31.5
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY 45 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH 45 (93)
||+.+|-+.++...+.-+.|.+.-.-.+.++ ++..+.|+||||.
T Consensus 204 SLln~L~~~~~~v~~~~~tT~d~~~~~i~~~-~~~~i~l~DT~G~ 247 (351)
T TIGR03156 204 TLFNALTGADVYAADQLFATLDPTTRRLDLP-DGGEVLLTDTVGF 247 (351)
T ss_pred HHHHHHhCCceeeccCCccccCCEEEEEEeC-CCceEEEEecCcc
Confidence 4777777766555566677777655566664 4678999999997
No 185
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=92.03 E-value=0.25 Score=43.82 Aligned_cols=47 Identities=6% Similarity=-0.075 Sum_probs=31.3
Q ss_pred hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
|+.+|.+.+..-+..-|.|.+.---.+.. ++.++.++||||+..|+.
T Consensus 19 LfN~Ltg~~~~vgn~pGvTve~k~g~~~~--~~~~i~lvDtPG~ysl~~ 65 (772)
T PRK09554 19 LFNQLTGARQRVGNWAGVTVERKEGQFST--TDHQVTLVDLPGTYSLTT 65 (772)
T ss_pred HHHHHhCCCCccCCCCCceEeeEEEEEEc--CceEEEEEECCCcccccc
Confidence 56667665544455567776544333443 477899999999998853
No 186
>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=92.02 E-value=0.34 Score=34.45 Aligned_cols=29 Identities=3% Similarity=0.021 Sum_probs=20.1
Q ss_pred EcCCCCeeEEEcCCCcccccCchhhhhcc
Q 045003 30 MSTGGIKFNFHNCEFYHRTSLFFFVQLRN 58 (93)
Q Consensus 30 ~~~~~~~itFiDTPGHeAFs~f~~mR~RG 58 (93)
.++..-++.+.||||++.|..+..+--|+
T Consensus 44 ~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~ 72 (176)
T cd04133 44 VDGNTVNLGLWDTAGQEDYNRLRPLSYRG 72 (176)
T ss_pred ECCEEEEEEEEECCCCccccccchhhcCC
Confidence 33334678999999999998755443343
No 187
>PRK04213 GTP-binding protein; Provisional
Probab=91.99 E-value=0.19 Score=34.94 Aligned_cols=40 Identities=13% Similarity=0.112 Sum_probs=25.9
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH 46 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe 46 (93)
+|+.+|.+.....+..-|.|++.- .+.. ..++++||||+.
T Consensus 24 sLin~l~~~~~~~~~~~~~t~~~~--~~~~----~~~~l~Dt~G~~ 63 (201)
T PRK04213 24 TLVRELTGKKVRVGKRPGVTRKPN--HYDW----GDFILTDLPGFG 63 (201)
T ss_pred HHHHHHhCCCCccCCCCceeeCce--EEee----cceEEEeCCccc
Confidence 467778776654444447787753 2322 269999999964
No 188
>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=91.99 E-value=0.18 Score=34.03 Aligned_cols=40 Identities=18% Similarity=0.194 Sum_probs=24.4
Q ss_pred hhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003 2 ISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH 46 (93)
Q Consensus 2 LLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe 46 (93)
|+-+|.+... ...+.-|.|+|.- .+.. +.++.++||||-.
T Consensus 99 lin~l~~~~~~~~~~~~~~~~~~~--~~~~---~~~~~i~DtpG~~ 139 (141)
T cd01857 99 LINALVGKKKVSVSATPGKTKHFQ--TIFL---TPTITLCDCPGLV 139 (141)
T ss_pred HHHHHhCCCceeeCCCCCcccceE--EEEe---CCCEEEEECCCcC
Confidence 4455554332 4445566888864 3444 2379999999953
No 189
>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=91.97 E-value=0.17 Score=34.56 Aligned_cols=38 Identities=13% Similarity=0.062 Sum_probs=24.7
Q ss_pred hhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCC
Q 045003 2 ISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEF 44 (93)
Q Consensus 2 LLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPG 44 (93)
|+.+|.+... ..++--|.|.+.-.+. . +..+.++||||
T Consensus 116 lin~l~~~~~~~~~~~~~~t~~~~~~~--~---~~~~~liDtPG 154 (155)
T cd01849 116 VINALLNKLKLKVGNVPGTTTSQQEVK--L---DNKIKLLDTPG 154 (155)
T ss_pred HHHHHHccccccccCCCCcccceEEEE--e---cCCEEEEECCC
Confidence 5666666543 2333458888875443 3 35799999999
No 190
>PRK03003 GTP-binding protein Der; Reviewed
Probab=91.95 E-value=0.21 Score=40.77 Aligned_cols=44 Identities=9% Similarity=0.194 Sum_probs=30.3
Q ss_pred ChhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003 1 MISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH 46 (93)
Q Consensus 1 sLLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe 46 (93)
+|+.+|-+...+ ....-|+|++.-...+.. ++..+.++||||++
T Consensus 53 SL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~--~~~~~~l~DT~G~~ 97 (472)
T PRK03003 53 TLVNRILGRREAVVEDVPGVTRDRVSYDAEW--NGRRFTVVDTGGWE 97 (472)
T ss_pred HHHHHHhCcCcccccCCCCCCEeeEEEEEEE--CCcEEEEEeCCCcC
Confidence 356666554432 244557998877677766 46789999999986
No 191
>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=91.81 E-value=0.22 Score=37.91 Aligned_cols=40 Identities=10% Similarity=0.056 Sum_probs=27.3
Q ss_pred ChhhHHhhcC-CcCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003 1 MISDALRQTS-VVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY 45 (93)
Q Consensus 1 sLLD~IR~t~-Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH 45 (93)
+|+.+|.+.+ ...++.-|.|++..- +.. +.++.++||||=
T Consensus 133 slin~l~~~~~~~~~~~~g~T~~~~~--~~~---~~~~~l~DtPG~ 173 (276)
T TIGR03596 133 TLINRLAGKKVAKVGNRPGVTKGQQW--IKL---SDGLELLDTPGI 173 (276)
T ss_pred HHHHHHhCCCccccCCCCCeecceEE--EEe---CCCEEEEECCCc
Confidence 4667777654 344566788998753 333 347999999997
No 192
>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=91.54 E-value=0.37 Score=32.53 Aligned_cols=27 Identities=7% Similarity=-0.021 Sum_probs=18.1
Q ss_pred cceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 24 GAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 24 GA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
....+...+....+.+.||||.+.|..
T Consensus 38 ~~~~~~~~~~~~~l~i~D~~g~~~~~~ 64 (161)
T cd04117 38 KMKTIEVDGIKVRIQIWDTAGQERYQT 64 (161)
T ss_pred EEEEEEECCEEEEEEEEeCCCcHhHHh
Confidence 334455542345678999999998875
No 193
>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=91.45 E-value=0.31 Score=35.13 Aligned_cols=25 Identities=12% Similarity=0.081 Sum_probs=17.7
Q ss_pred EEEEcCCCCeeEEEcCCCcccccCc
Q 045003 27 VIGMSTGGIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 27 ~V~~~~~~~~itFiDTPGHeAFs~f 51 (93)
.+..++..-++.+.||||++.|..+
T Consensus 47 ~i~~~~~~~~l~iwDt~G~~~~~~l 71 (189)
T cd04121 47 TILLDGRRVKLQLWDTSGQGRFCTI 71 (189)
T ss_pred EEEECCEEEEEEEEeCCCcHHHHHH
Confidence 3444333457889999999998763
No 194
>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=91.33 E-value=0.35 Score=34.83 Aligned_cols=15 Identities=7% Similarity=0.111 Sum_probs=12.1
Q ss_pred CeeEEEcCCCccccc
Q 045003 35 IKFNFHNCEFYHRTS 49 (93)
Q Consensus 35 ~~itFiDTPGHeAFs 49 (93)
..+.++||||++.|.
T Consensus 49 ~~l~i~Dt~G~~~~~ 63 (198)
T cd04142 49 YDLHILDVPNMQRYP 63 (198)
T ss_pred EEEEEEeCCCcccCC
Confidence 468899999987663
No 195
>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]
Probab=91.33 E-value=0.22 Score=42.03 Aligned_cols=54 Identities=17% Similarity=0.180 Sum_probs=38.7
Q ss_pred cccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh-----hhcccEeEEec--ccccce
Q 045003 14 KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV-----QLRNFVIVLRK--NNCQGT 71 (93)
Q Consensus 14 ~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m-----R~RGa~iv~~~--~~~~~~ 71 (93)
.-+-|||-+. -.|.++.+..-.-++|+|||+++- .+| +.-||.+|+.. .-|-.|
T Consensus 56 Ek~rGITInt--ahveyet~~rhyahVDcPGHaDYv--KNMItgAaqmDgAILVVsA~dGpmPqT 116 (394)
T COG0050 56 EKARGITINT--AHVEYETANRHYAHVDCPGHADYV--KNMITGAAQMDGAILVVAATDGPMPQT 116 (394)
T ss_pred HhhcCceecc--ceeEEecCCceEEeccCCChHHHH--HHHhhhHHhcCccEEEEEcCCCCCCcc
Confidence 3467898665 455565568889999999999984 355 45688888876 456555
No 196
>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=91.20 E-value=0.28 Score=32.73 Aligned_cols=13 Identities=0% Similarity=0.071 Sum_probs=10.9
Q ss_pred CeeEEEcCCCccc
Q 045003 35 IKFNFHNCEFYHR 47 (93)
Q Consensus 35 ~~itFiDTPGHeA 47 (93)
-++.++||||++.
T Consensus 47 ~~~~i~D~~g~~~ 59 (165)
T cd04146 47 VSLEILDTAGQQQ 59 (165)
T ss_pred EEEEEEECCCCcc
Confidence 3578999999995
No 197
>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.
Probab=91.15 E-value=0.11 Score=38.88 Aligned_cols=34 Identities=12% Similarity=0.205 Sum_probs=23.2
Q ss_pred CCCeeEEEcCCCcccccC-ch-----hhhhcccEeEEecc
Q 045003 33 GGIKFNFHNCEFYHRTSL-FF-----FVQLRNFVIVLRKN 66 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~-f~-----~mR~RGa~iv~~~~ 66 (93)
..+++.++|+|||+.... +. .-..+|++.|++-.
T Consensus 47 ~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~IIfvvDSs 86 (181)
T PF09439_consen 47 KGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGIIFVVDSS 86 (181)
T ss_dssp CGTCECEEEETT-HCCCHHHHHHHHHHGGEEEEEEEEETT
T ss_pred CCCEEEEEECCCcHHHHHHHHHhhhchhhCCEEEEEEeCc
Confidence 577899999999997532 10 12348888888863
No 198
>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=91.11 E-value=0.35 Score=33.39 Aligned_cols=24 Identities=0% Similarity=-0.083 Sum_probs=16.7
Q ss_pred EEEcCCCCeeEEEcCCCcccccCc
Q 045003 28 IGMSTGGIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 28 V~~~~~~~~itFiDTPGHeAFs~f 51 (93)
+..++....+.++||||.+.|..+
T Consensus 43 ~~~~~~~~~l~i~Dt~G~~~~~~l 66 (172)
T cd04141 43 ARIDNEPALLDILDTAGQAEFTAM 66 (172)
T ss_pred EEECCEEEEEEEEeCCCchhhHHH
Confidence 344333456889999999988653
No 199
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=90.91 E-value=0.25 Score=42.64 Aligned_cols=43 Identities=14% Similarity=0.199 Sum_probs=29.5
Q ss_pred ChhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003 1 MISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY 45 (93)
Q Consensus 1 sLLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH 45 (93)
+|+.+|-+.+. ...+..|+|.+.-...+.. ++..+.|+||||.
T Consensus 465 SLin~l~~~~~~~v~~~~gtT~d~~~~~~~~--~~~~~~liDTaG~ 508 (712)
T PRK09518 465 SLLNQLTHEERAVVNDLAGTTRDPVDEIVEI--DGEDWLFIDTAGI 508 (712)
T ss_pred HHHHHHhCccccccCCCCCCCcCcceeEEEE--CCCEEEEEECCCc
Confidence 46677766653 2345667887765555666 4778999999995
No 200
>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=90.78 E-value=0.18 Score=35.34 Aligned_cols=39 Identities=13% Similarity=0.060 Sum_probs=23.6
Q ss_pred ChhhHHhhcCC---------cCcccCcceeeecceEEEEcCCCCeeEEEcCCC
Q 045003 1 MISDALRQTSV---------VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEF 44 (93)
Q Consensus 1 sLLD~IR~t~V---------a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPG 44 (93)
+|+.+|.+..+ .....-|.|.+.--+.+. ..+.++||||
T Consensus 142 tliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~-----~~~~~~DtPG 189 (190)
T cd01855 142 TLINALLKKDNGKKKLKDLLTTSPIPGTTLDLIKIPLG-----NGKKLYDTPG 189 (190)
T ss_pred HHHHHHHHhcccccccccccccCCCCCeeeeeEEEecC-----CCCEEEeCcC
Confidence 35667766432 233444688876433332 2689999999
No 201
>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=90.75 E-value=0.4 Score=32.60 Aligned_cols=18 Identities=17% Similarity=0.224 Sum_probs=15.0
Q ss_pred CCCeeEEEcCCCcccccC
Q 045003 33 GGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~ 50 (93)
+..++.+.||||++.|..
T Consensus 41 ~~~~i~l~Dt~G~~~~~~ 58 (169)
T cd04158 41 KNLKFTIWDVGGKHKLRP 58 (169)
T ss_pred CCEEEEEEECCCChhcch
Confidence 467899999999988764
No 202
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=90.62 E-value=0.34 Score=33.08 Aligned_cols=40 Identities=20% Similarity=0.268 Sum_probs=23.6
Q ss_pred ChhhHHhhcC-CcC-cccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003 1 MISDALRQTS-VVA-KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY 45 (93)
Q Consensus 1 sLLD~IR~t~-Va~-~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH 45 (93)
+|+.+|.+.. ++. ...-|.|+.+..+.+ ..++.++||||+
T Consensus 39 sli~~l~~~~~~~~~~~~~~~t~~~~~~~~-----~~~l~l~DtpG~ 80 (196)
T PRK00454 39 SLINALTNRKNLARTSKTPGRTQLINFFEV-----NDKLRLVDLPGY 80 (196)
T ss_pred HHHHHHhCCCCcccccCCCCceeEEEEEec-----CCeEEEeCCCCC
Confidence 3566666532 221 122356776654443 367999999996
No 203
>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=90.56 E-value=0.3 Score=33.71 Aligned_cols=18 Identities=11% Similarity=0.089 Sum_probs=15.1
Q ss_pred CCCeeEEEcCCCcccccC
Q 045003 33 GGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~ 50 (93)
+...+.+.||||++.|..
T Consensus 55 ~~~~l~l~D~~G~~~~~~ 72 (175)
T smart00177 55 KNISFTVWDVGGQDKIRP 72 (175)
T ss_pred CCEEEEEEECCCChhhHH
Confidence 456899999999998865
No 204
>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=90.50 E-value=0.56 Score=38.77 Aligned_cols=47 Identities=15% Similarity=0.169 Sum_probs=32.2
Q ss_pred ChhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003 1 MISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS 49 (93)
Q Consensus 1 sLLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs 49 (93)
||+.+|-+... ...+.-|.|+++--..+.+ ++..+.++||||...+.
T Consensus 218 SLiN~L~~~~~aivs~~pgtTrd~~~~~i~~--~g~~v~l~DTaG~~~~~ 265 (442)
T TIGR00450 218 SLLNALLKQDRAIVSDIKGTTRDVVEGDFEL--NGILIKLLDTAGIREHA 265 (442)
T ss_pred HHHHHHhCCCCcccCCCCCcEEEEEEEEEEE--CCEEEEEeeCCCcccch
Confidence 45666665432 2345678898876666666 46789999999986554
No 205
>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=90.42 E-value=0.51 Score=32.80 Aligned_cols=25 Identities=0% Similarity=-0.061 Sum_probs=16.8
Q ss_pred CCeeEEEcCCCcccccCchhhhhcc
Q 045003 34 GIKFNFHNCEFYHRTSLFFFVQLRN 58 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f~~mR~RG 58 (93)
...+.++||||++.|..+..+..+.
T Consensus 48 ~~~l~i~Dt~g~~~~~~~~~~~~~~ 72 (187)
T cd04129 48 PVQLALWDTAGQEEYERLRPLSYSK 72 (187)
T ss_pred EEEEEEEECCCChhccccchhhcCC
Confidence 3467899999999887643333333
No 206
>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=90.14 E-value=0.24 Score=34.88 Aligned_cols=19 Identities=5% Similarity=0.001 Sum_probs=15.4
Q ss_pred CCeeEEEcCCCcccccCch
Q 045003 34 GIKFNFHNCEFYHRTSLFF 52 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f~ 52 (93)
.-.+.+.||||++.|..+.
T Consensus 50 ~~~l~i~Dt~G~e~~~~l~ 68 (191)
T cd01875 50 TVSLNLWDTAGQEEYDRLR 68 (191)
T ss_pred EEEEEEEECCCchhhhhhh
Confidence 4568899999999997643
No 207
>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=89.89 E-value=0.39 Score=33.42 Aligned_cols=39 Identities=15% Similarity=0.138 Sum_probs=24.4
Q ss_pred hhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003 2 ISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY 45 (93)
Q Consensus 2 LLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH 45 (93)
|+.+|.+.+. .....-|.|.+..-+.++ .++.++||||-
T Consensus 131 lin~l~~~~~~~~~~~~~~T~~~~~~~~~-----~~~~~iDtpG~ 170 (171)
T cd01856 131 LINRLRGKKVAKVGNKPGVTKGIQWIKIS-----PGIYLLDTPGI 170 (171)
T ss_pred HHHHHhCCCceeecCCCCEEeeeEEEEec-----CCEEEEECCCC
Confidence 5666666543 233344677776544432 56999999994
No 208
>PLN03108 Rab family protein; Provisional
Probab=89.88 E-value=0.46 Score=34.12 Aligned_cols=33 Identities=12% Similarity=0.010 Sum_probs=20.2
Q ss_pred CCeeEEEcCCCcccccCchhhhhc---ccEeEEecc
Q 045003 34 GIKFNFHNCEFYHRTSLFFFVQLR---NFVIVLRKN 66 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f~~mR~R---Ga~iv~~~~ 66 (93)
...+.+.||||++.|..+...-.+ ++++|..-.
T Consensus 54 ~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~vlv~D~~ 89 (210)
T PLN03108 54 PIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDIT 89 (210)
T ss_pred EEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECC
Confidence 346889999999988653222222 445555543
No 209
>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=89.67 E-value=0.38 Score=31.65 Aligned_cols=27 Identities=4% Similarity=-0.002 Sum_probs=18.6
Q ss_pred eEEEEcCCCCeeEEEcCCCcccccCch
Q 045003 26 FVIGMSTGGIKFNFHNCEFYHRTSLFF 52 (93)
Q Consensus 26 ~~V~~~~~~~~itFiDTPGHeAFs~f~ 52 (93)
.++..++..-.+.+.|||||+.|..+.
T Consensus 39 ~~~~~~~~~~~l~i~D~~g~~~~~~~~ 65 (162)
T PF00071_consen 39 KEVSIDGKPVNLEIWDTSGQERFDSLR 65 (162)
T ss_dssp EEEEETTEEEEEEEEEETTSGGGHHHH
T ss_pred ccccccccccccccccccccccccccc
Confidence 344443334569999999999987543
No 210
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=89.66 E-value=0.53 Score=32.79 Aligned_cols=62 Identities=13% Similarity=-0.067 Sum_probs=36.4
Q ss_pred hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhcccEeEE
Q 045003 2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFVIVL 63 (93)
Q Consensus 2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~iv~ 63 (93)
|+-++.+........-.|+..+.+..+.......++..+||+|.+.|..+..+.-+|+..++
T Consensus 21 l~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l 82 (219)
T COG1100 21 LLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGIL 82 (219)
T ss_pred HHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEE
Confidence 33444444444444445555555555554322456778899999999876666655554443
No 211
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=89.49 E-value=0.28 Score=34.37 Aligned_cols=18 Identities=11% Similarity=0.139 Sum_probs=15.0
Q ss_pred CCCeeEEEcCCCcccccC
Q 045003 33 GGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~ 50 (93)
+...+.+.||||++.|..
T Consensus 59 ~~~~~~l~D~~G~~~~~~ 76 (182)
T PTZ00133 59 KNLKFTMWDVGGQDKLRP 76 (182)
T ss_pred CCEEEEEEECCCCHhHHH
Confidence 467899999999988764
No 212
>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=89.21 E-value=0.65 Score=34.63 Aligned_cols=26 Identities=4% Similarity=-0.182 Sum_probs=18.5
Q ss_pred CCeeEEEcCCCcccccCchhhhhccc
Q 045003 34 GIKFNFHNCEFYHRTSLFFFVQLRNF 59 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f~~mR~RGa 59 (93)
...+.+.||||++.|..+..+--|++
T Consensus 43 ~~~l~iwDt~G~e~~~~l~~~~~~~a 68 (220)
T cd04126 43 PYNISIWDTAGREQFHGLGSMYCRGA 68 (220)
T ss_pred EEEEEEEeCCCcccchhhHHHHhccC
Confidence 45689999999999987544333433
No 213
>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]
Probab=88.34 E-value=0.62 Score=42.95 Aligned_cols=49 Identities=12% Similarity=-0.016 Sum_probs=30.5
Q ss_pred CcceeeecceEEEEc---CCCCeeEEEcCCCcccccCc--hhhh-hcccEeEEec
Q 045003 17 GGITQHVGAFVIGMS---TGGIKFNFHNCEFYHRTSLF--FFVQ-LRNFVIVLRK 65 (93)
Q Consensus 17 GGITQhIGA~~V~~~---~~~~~itFiDTPGHeAFs~f--~~mR-~RGa~iv~~~ 65 (93)
-|++-|.--.++-.. ++..-++++|||||-.|+.= ..|| +-|+++|+.-
T Consensus 176 Rg~sIK~~p~Tl~l~D~~~KS~l~nilDTPGHVnF~DE~ta~l~~sDgvVlvvDv 230 (971)
T KOG0468|consen 176 RGCSIKSTPVTLVLSDSKGKSYLMNILDTPGHVNFSDETTASLRLSDGVVLVVDV 230 (971)
T ss_pred cCceEeecceEEEEecCcCceeeeeeecCCCcccchHHHHHHhhhcceEEEEEEc
Confidence 355666555555554 23456999999999999740 1334 3466666653
No 214
>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=88.29 E-value=0.49 Score=32.07 Aligned_cols=18 Identities=11% Similarity=0.089 Sum_probs=14.8
Q ss_pred CCCeeEEEcCCCcccccC
Q 045003 33 GGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~ 50 (93)
+..++.+.||||++.|..
T Consensus 42 ~~~~~~l~D~~G~~~~~~ 59 (159)
T cd04150 42 KNISFTVWDVGGQDKIRP 59 (159)
T ss_pred CCEEEEEEECCCCHhHHH
Confidence 467899999999988754
No 215
>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=87.71 E-value=1.1 Score=30.25 Aligned_cols=17 Identities=0% Similarity=-0.085 Sum_probs=13.4
Q ss_pred CCCeeEEEcCCCccccc
Q 045003 33 GGIKFNFHNCEFYHRTS 49 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs 49 (93)
....+.++||||++.+.
T Consensus 45 ~~~~~~i~Dt~G~~~~~ 61 (166)
T cd01893 45 ERVPTTIVDTSSRPQDR 61 (166)
T ss_pred CeEEEEEEeCCCchhhh
Confidence 44578899999998764
No 216
>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=87.48 E-value=0.87 Score=29.07 Aligned_cols=13 Identities=23% Similarity=0.163 Sum_probs=10.8
Q ss_pred CeeEEEcCCCccc
Q 045003 35 IKFNFHNCEFYHR 47 (93)
Q Consensus 35 ~~itFiDTPGHeA 47 (93)
..++|+|||||..
T Consensus 45 ~~~~~~D~~g~~~ 57 (170)
T cd01876 45 DKFRLVDLPGYGY 57 (170)
T ss_pred CeEEEecCCCccc
Confidence 3899999999743
No 217
>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=87.48 E-value=1.1 Score=31.60 Aligned_cols=33 Identities=12% Similarity=0.054 Sum_probs=21.8
Q ss_pred EEEcCCCCeeEEEcCCCcccccCchhhhhcccE
Q 045003 28 IGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFV 60 (93)
Q Consensus 28 V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~ 60 (93)
+..++....+.+.||+|++.|..+..+-.+++.
T Consensus 42 i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~ 74 (182)
T cd04128 42 ISIRGTEITFSIWDLGGQREFINMLPLVCNDAV 74 (182)
T ss_pred EEECCEEEEEEEEeCCCchhHHHhhHHHCcCCC
Confidence 444323356889999999999875555455443
No 218
>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=87.16 E-value=0.53 Score=32.36 Aligned_cols=33 Identities=12% Similarity=0.321 Sum_probs=21.6
Q ss_pred CCCeeEEEcCCCcccccCch---hhhhcccEeEEec
Q 045003 33 GGIKFNFHNCEFYHRTSLFF---FVQLRNFVIVLRK 65 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~f~---~mR~RGa~iv~~~ 65 (93)
+..++.+.||||++.|..+. --.++++++|++-
T Consensus 51 ~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~v~D~ 86 (168)
T cd04149 51 KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDS 86 (168)
T ss_pred CCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeC
Confidence 46789999999999876421 1234555555554
No 219
>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]
Probab=86.86 E-value=0.57 Score=40.59 Aligned_cols=34 Identities=21% Similarity=0.331 Sum_probs=25.1
Q ss_pred CcccCcceeeecceEEEEc-------CCCCeeEEEcCCCccc
Q 045003 13 AKEAGGITQHVGAFVIGMS-------TGGIKFNFHNCEFYHR 47 (93)
Q Consensus 13 ~~EaGGITQhIGA~~V~~~-------~~~~~itFiDTPGHeA 47 (93)
+.| -|||=+.|-.....+ ++.-.++|+|+|||+-
T Consensus 42 S~e-RgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGHas 82 (522)
T KOG0461|consen 42 STE-RGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGHAS 82 (522)
T ss_pred ccc-cceeEeecceeeecccccccCccccceeEEEeCCCcHH
Confidence 344 799999997665543 2334689999999985
No 220
>PRK00089 era GTPase Era; Reviewed
Probab=86.86 E-value=0.92 Score=33.97 Aligned_cols=15 Identities=13% Similarity=0.182 Sum_probs=12.0
Q ss_pred CCCeeEEEcCCCccc
Q 045003 33 GGIKFNFHNCEFYHR 47 (93)
Q Consensus 33 ~~~~itFiDTPGHeA 47 (93)
++..++|+||||...
T Consensus 51 ~~~qi~~iDTPG~~~ 65 (292)
T PRK00089 51 DDAQIIFVDTPGIHK 65 (292)
T ss_pred CCceEEEEECCCCCC
Confidence 357899999999643
No 221
>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=85.89 E-value=1.1 Score=34.53 Aligned_cols=47 Identities=11% Similarity=0.193 Sum_probs=24.6
Q ss_pred hhhHHhhcCCcCcccC------cceee--ecceEEEEcCCC--CeeEEEcCCCcccc
Q 045003 2 ISDALRQTSVVAKEAG------GITQH--VGAFVIGMSTGG--IKFNFHNCEFYHRT 48 (93)
Q Consensus 2 LLD~IR~t~Va~~EaG------GITQh--IGA~~V~~~~~~--~~itFiDTPGHeAF 48 (93)
|+..|.++.+...... -+++. +..+......++ -+++++||||-..+
T Consensus 20 liN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~ 76 (276)
T cd01850 20 FINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDN 76 (276)
T ss_pred HHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCcccc
Confidence 5666766665544210 12222 233333332223 47999999996554
No 222
>PLN00223 ADP-ribosylation factor; Provisional
Probab=85.67 E-value=0.84 Score=32.01 Aligned_cols=18 Identities=11% Similarity=0.089 Sum_probs=15.2
Q ss_pred CCCeeEEEcCCCcccccC
Q 045003 33 GGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~ 50 (93)
+...+.+.||||++.|..
T Consensus 59 ~~~~~~i~D~~Gq~~~~~ 76 (181)
T PLN00223 59 KNISFTVWDVGGQDKIRP 76 (181)
T ss_pred CCEEEEEEECCCCHHHHH
Confidence 467899999999998865
No 223
>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=85.57 E-value=0.8 Score=30.93 Aligned_cols=38 Identities=16% Similarity=0.131 Sum_probs=22.0
Q ss_pred hhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCC
Q 045003 2 ISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEF 44 (93)
Q Consensus 2 LLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPG 44 (93)
|+..+.+... ...+.-|.|.++.- +.. +.++.++||||
T Consensus 117 l~~~l~~~~~~~~~~~~~~t~~~~~--~~~---~~~~~~~DtpG 155 (156)
T cd01859 117 IINALKGRHSASTSPSPGYTKGEQL--VKI---TSKIYLLDTPG 155 (156)
T ss_pred HHHHHhCCCccccCCCCCeeeeeEE--EEc---CCCEEEEECcC
Confidence 5566664332 23445566766431 222 34799999999
No 224
>TIGR03134 malonate_gamma malonate decarboxylase, gamma subunit. Members of this protein family are the gamma subunit of malonate decarboxylase. Malonate decarboxylase may be a soluble enzyme, or linked to membrane subunits and active as a sodium pump. In the malonate decarboxylase complex, the beta subunit appears to act as a malonyl-CoA decarboxylase, while the gamma subunit appears either to mediate subunit interaction or to act as a co-decarboxylase with the beta subunit. The beta and gamma subunits exhibit some local sequence similarity.
Probab=85.51 E-value=0.71 Score=35.87 Aligned_cols=52 Identities=6% Similarity=0.007 Sum_probs=35.8
Q ss_pred CCeeEEEcCCCcc------------ccc----Cchhhhhcc---cEeEEec--------ccccceeeeeccccccchhh
Q 045003 34 GIKFNFHNCEFYH------------RTS----LFFFVQLRN---FVIVLRK--------NNCQGTYLFPWSYSELGLSS 85 (93)
Q Consensus 34 ~~~itFiDTPGHe------------AFs----~f~~mR~RG---a~iv~~~--------~~~~~~~~~~~~~~~~~~~~ 85 (93)
.+-|+|+||||-. +.. .+..+|.+| +.||++| +-++.+++|-|..++++.-+
T Consensus 67 ~PIv~lvDtpG~~~g~~aE~~G~~~a~A~l~~a~a~a~~~~vP~IsvI~g~a~ggg~lamg~~ad~v~Alp~A~i~vm~ 145 (238)
T TIGR03134 67 RPIVVLVDTPSQAYGRREELLGINQALAHLAKALALARLAGHPVIGLIYGKAISGAFLAHGLQADRIIALPGAMVHVMD 145 (238)
T ss_pred CCEEEEEeCCCCCCCHHHHHHHHHHHHHHHHHHHHHhhcCCCCEEEEEeCCccHHHHHHHccCcCeEEEcCCcEEEecC
Confidence 4669999999964 222 234566444 5677888 55677899999988876543
No 225
>KOG0469 consensus Elongation factor 2 [Translation, ribosomal structure and biogenesis]
Probab=85.34 E-value=0.61 Score=42.15 Aligned_cols=49 Identities=16% Similarity=0.074 Sum_probs=33.5
Q ss_pred CcceeeecceEEEEc--------------CCCCeeEEEcCCCcccccCch--hhh-hcccEeEEec
Q 045003 17 GGITQHVGAFVIGMS--------------TGGIKFNFHNCEFYHRTSLFF--FVQ-LRNFVIVLRK 65 (93)
Q Consensus 17 GGITQhIGA~~V~~~--------------~~~~~itFiDTPGHeAFs~f~--~mR-~RGa~iv~~~ 65 (93)
-|||-+--|..+-++ +++--|++||.|||-+||+=- -+| .-||-+||.-
T Consensus 66 R~iTIKStAISl~~e~~~~dl~~~k~~~d~~~FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDc 131 (842)
T KOG0469|consen 66 RGITIKSTAISLFFEMSDDDLKFIKQEGDGNGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDC 131 (842)
T ss_pred cceEeeeeeeeehhhhhHhHHHHhcCCCCCcceeEEeccCCCcccchhhhhheeEeccCcEEEEEc
Confidence 478988888766543 134579999999999998611 122 2477777763
No 226
>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]
Probab=85.24 E-value=1 Score=37.55 Aligned_cols=42 Identities=17% Similarity=0.169 Sum_probs=28.0
Q ss_pred ChhhHHhh-----cCCc-CcccCcceeeecc-eEEEEcCCCCeeEEEcCCCc
Q 045003 1 MISDALRQ-----TSVV-AKEAGGITQHVGA-FVIGMSTGGIKFNFHNCEFY 45 (93)
Q Consensus 1 sLLD~IR~-----t~Va-~~EaGGITQhIGA-~~V~~~~~~~~itFiDTPGH 45 (93)
||++++|. ++.| .+---|+||.|+. +.+. +.+.+..|||||=
T Consensus 158 sLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~iri~---~rp~vy~iDTPGi 206 (335)
T KOG2485|consen 158 SLINALRNVHLRKKKAARVGAEPGVTRRVSERIRIS---HRPPVYLIDTPGI 206 (335)
T ss_pred HHHHHHHHHHhhhccceeccCCCCceeeehhheEec---cCCceEEecCCCc
Confidence 46677663 2222 2233479999998 6665 4677999999993
No 227
>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=83.84 E-value=1.7 Score=32.88 Aligned_cols=33 Identities=0% Similarity=-0.193 Sum_probs=20.6
Q ss_pred EEcCCCCeeEEEcCCCcccccCchhhhhcccEe
Q 045003 29 GMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFVI 61 (93)
Q Consensus 29 ~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~i 61 (93)
..++....+.+.||||.+.|..+..+--+++.+
T Consensus 55 ~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~ 87 (232)
T cd04174 55 ETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDA 87 (232)
T ss_pred EECCEEEEEEEEeCCCchhhHHHHHHHcCCCcE
Confidence 333345578899999999987644332244433
No 228
>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=83.18 E-value=1.9 Score=34.24 Aligned_cols=64 Identities=9% Similarity=0.131 Sum_probs=34.2
Q ss_pred ChhhHHhhcC--CcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC--------chhh--hhcccEeEEeccc
Q 045003 1 MISDALRQTS--VVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL--------FFFV--QLRNFVIVLRKNN 67 (93)
Q Consensus 1 sLLD~IR~t~--Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~--------f~~m--R~RGa~iv~~~~~ 67 (93)
+||-+|.+.+ |+..+.=-+..++|..+ +. +...+++.||||...... |++- |++.+..|+.-.+
T Consensus 172 TLl~~lt~~~~~va~y~fTT~~p~ig~v~--~~-~~~~~~i~D~PGli~~a~~~~gLg~~flrhierad~ll~VvD~s~ 247 (329)
T TIGR02729 172 TLISAVSAAKPKIADYPFTTLVPNLGVVR--VD-DGRSFVIADIPGLIEGASEGAGLGHRFLKHIERTRVLLHLIDISP 247 (329)
T ss_pred HHHHHHhcCCccccCCCCCccCCEEEEEE--eC-CceEEEEEeCCCcccCCcccccHHHHHHHHHHhhCEEEEEEcCcc
Confidence 3666776543 33333222334555543 32 347899999999742211 1111 4667777777543
No 229
>PRK12298 obgE GTPase CgtA; Reviewed
Probab=82.90 E-value=1.7 Score=35.45 Aligned_cols=44 Identities=9% Similarity=-0.093 Sum_probs=26.7
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY 45 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH 45 (93)
+||-+|-+.++.-...=+.|.+.--..+... +...++|+||||.
T Consensus 174 TLln~Lt~~k~~vs~~p~TT~~p~~Giv~~~-~~~~i~~vDtPGi 217 (390)
T PRK12298 174 TFIRAVSAAKPKVADYPFTTLVPNLGVVRVD-DERSFVVADIPGL 217 (390)
T ss_pred HHHHHHhCCcccccCCCCCccCcEEEEEEeC-CCcEEEEEeCCCc
Confidence 3666666544332333356666555555553 3467999999995
No 230
>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=82.22 E-value=3.1 Score=28.49 Aligned_cols=25 Identities=4% Similarity=-0.087 Sum_probs=16.4
Q ss_pred EEEEcCCCCeeEEEcCCCcccccCc
Q 045003 27 VIGMSTGGIKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 27 ~V~~~~~~~~itFiDTPGHeAFs~f 51 (93)
.+..++....+.+.||+|.+.|..+
T Consensus 46 ~~~~~~~~~~l~~~d~~g~~~~~~~ 70 (169)
T cd01892 46 TVEVYGQEKYLILREVGEDEVAILL 70 (169)
T ss_pred EEEECCeEEEEEEEecCCccccccc
Confidence 3444433356778899999887653
No 231
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=82.07 E-value=1.6 Score=37.80 Aligned_cols=43 Identities=14% Similarity=0.256 Sum_probs=27.3
Q ss_pred ChhhHHhhcC--CcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003 1 MISDALRQTS--VVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH 46 (93)
Q Consensus 1 sLLD~IR~t~--Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe 46 (93)
+|+.+|-+.. ++.. .-|+|++.-...+.. ++..+.++||||.+
T Consensus 290 SL~n~l~~~~~~iv~~-~pGvT~d~~~~~~~~--~~~~~~liDT~G~~ 334 (712)
T PRK09518 290 TLVNRILGRREAVVED-TPGVTRDRVSYDAEW--AGTDFKLVDTGGWE 334 (712)
T ss_pred HHHHHHhCCCceeecC-CCCeeEEEEEEEEEE--CCEEEEEEeCCCcC
Confidence 3566665543 2333 457888764444444 36789999999976
No 232
>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=81.92 E-value=2 Score=32.16 Aligned_cols=24 Identities=8% Similarity=-0.033 Sum_probs=17.1
Q ss_pred EEcCCCCeeEEEcCCCcccccCch
Q 045003 29 GMSTGGIKFNFHNCEFYHRTSLFF 52 (93)
Q Consensus 29 ~~~~~~~~itFiDTPGHeAFs~f~ 52 (93)
..++....+.+.||||.+.|..+.
T Consensus 43 ~~~~~~v~L~iwDt~G~e~~~~l~ 66 (222)
T cd04173 43 EIDKRRIELNMWDTSGSSYYDNVR 66 (222)
T ss_pred EECCEEEEEEEEeCCCcHHHHHHh
Confidence 333344578889999999987643
No 233
>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=81.73 E-value=2.2 Score=31.78 Aligned_cols=45 Identities=13% Similarity=-0.034 Sum_probs=25.8
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCccc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHR 47 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeA 47 (93)
+|+.+|.+........-+-|...-.-.+.+ ++..+.++||||+..
T Consensus 15 tLl~~Ltg~~~~v~~~~~tT~~~~~g~~~~--~~~~i~l~DtpG~~~ 59 (233)
T cd01896 15 TLLSKLTNTKSEVAAYEFTTLTCVPGVLEY--KGAKIQLLDLPGIIE 59 (233)
T ss_pred HHHHHHHCCCccccCCCCccccceEEEEEE--CCeEEEEEECCCccc
Confidence 366777665433333334443332233344 367899999999853
No 234
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=81.36 E-value=3.2 Score=29.44 Aligned_cols=18 Identities=22% Similarity=0.150 Sum_probs=14.7
Q ss_pred CCCeeEEEcCCCcccccC
Q 045003 33 GGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~ 50 (93)
+...+.+.||||++.|..
T Consensus 56 ~~i~i~~~Dt~g~~~~~~ 73 (215)
T PTZ00132 56 GPICFNVWDTAGQEKFGG 73 (215)
T ss_pred eEEEEEEEECCCchhhhh
Confidence 345788999999998865
No 235
>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=81.14 E-value=2.7 Score=30.64 Aligned_cols=21 Identities=0% Similarity=-0.178 Sum_probs=14.9
Q ss_pred EEEEcCCCCeeEEEcCCCccc
Q 045003 27 VIGMSTGGIKFNFHNCEFYHR 47 (93)
Q Consensus 27 ~V~~~~~~~~itFiDTPGHeA 47 (93)
++..++....+.|+||||++.
T Consensus 42 ~i~~~~~~~~l~i~Dt~G~~~ 62 (221)
T cd04148 42 TVSVDGEESTLVVIDHWEQEM 62 (221)
T ss_pred EEEECCEEEEEEEEeCCCcch
Confidence 344433456799999999983
No 236
>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=80.45 E-value=1.2 Score=29.78 Aligned_cols=15 Identities=0% Similarity=-0.239 Sum_probs=12.3
Q ss_pred CCCeeEEEcCCCccc
Q 045003 33 GGIKFNFHNCEFYHR 47 (93)
Q Consensus 33 ~~~~itFiDTPGHeA 47 (93)
....++|+||||=..
T Consensus 99 ~~~~~~lvDtPG~~~ 113 (168)
T PF00350_consen 99 LLRNLTLVDTPGLNS 113 (168)
T ss_dssp TSCSEEEEEEEEBHS
T ss_pred cccceEEEeCCcccc
Confidence 467899999999854
No 237
>PRK09866 hypothetical protein; Provisional
Probab=79.64 E-value=1.5 Score=39.88 Aligned_cols=25 Identities=4% Similarity=-0.025 Sum_probs=18.8
Q ss_pred eeecceEEEEcC------CCCeeEEEcCCCc
Q 045003 21 QHVGAFVIGMST------GGIKFNFHNCEFY 45 (93)
Q Consensus 21 QhIGA~~V~~~~------~~~~itFiDTPGH 45 (93)
|||-..+|++-. ....++|+||||=
T Consensus 210 ~~~p~iev~f~hl~g~l~~~~QIIFVDTPGI 240 (741)
T PRK09866 210 EHIPVIEVEFVHLAGLESYPGQLTLLDTPGP 240 (741)
T ss_pred hcCceeeeeeeeccccccccCCEEEEECCCC
Confidence 677777777641 2478999999995
No 238
>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=79.19 E-value=1.6 Score=31.05 Aligned_cols=34 Identities=6% Similarity=-0.091 Sum_probs=22.3
Q ss_pred EEEcCCCCeeEEEcCCCcccccCchhhhhcccEe
Q 045003 28 IGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFVI 61 (93)
Q Consensus 28 V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~i 61 (93)
+..++..-++.+.||+|-+.|..+..+--|++.+
T Consensus 46 ~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~ 79 (182)
T cd04172 46 FEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDA 79 (182)
T ss_pred EEECCEEEEEEEEECCCchhhHhhhhhhcCCCCE
Confidence 3343334578999999999998755544445443
No 239
>COG1159 Era GTPase [General function prediction only]
Probab=78.69 E-value=1.3 Score=36.25 Aligned_cols=13 Identities=8% Similarity=-0.005 Sum_probs=11.3
Q ss_pred CCCeeEEEcCCCc
Q 045003 33 GGIKFNFHNCEFY 45 (93)
Q Consensus 33 ~~~~itFiDTPGH 45 (93)
+...|+|+||||=
T Consensus 52 ~~~QiIfvDTPGi 64 (298)
T COG1159 52 DNAQIIFVDTPGI 64 (298)
T ss_pred CCceEEEEeCCCC
Confidence 5789999999993
No 240
>PRK12299 obgE GTPase CgtA; Reviewed
Probab=77.95 E-value=3.9 Score=32.70 Aligned_cols=66 Identities=11% Similarity=0.044 Sum_probs=33.8
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCccc----cc----Cch-hh-hhcccEeEEeccc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHR----TS----LFF-FV-QLRNFVIVLRKNN 67 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeA----Fs----~f~-~m-R~RGa~iv~~~~~ 67 (93)
+||.+|.+.+..-...-+.|-+.---.+.+. +...+++.||||.-. .. .|+ .+ |++.+..|+.-.+
T Consensus 173 TLln~ls~a~~~va~ypfTT~~p~~G~v~~~-~~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a~vlI~ViD~s~ 248 (335)
T PRK12299 173 TLISAVSAAKPKIADYPFTTLHPNLGVVRVD-DYKSFVIADIPGLIEGASEGAGLGHRFLKHIERTRLLLHLVDIEA 248 (335)
T ss_pred HHHHHHHcCCCccCCCCCceeCceEEEEEeC-CCcEEEEEeCCCccCCCCccccHHHHHHHHhhhcCEEEEEEcCCC
Confidence 4677776543322222234444333334442 467899999999521 00 011 11 4567777777544
No 241
>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=75.68 E-value=5.2 Score=29.43 Aligned_cols=17 Identities=0% Similarity=-0.189 Sum_probs=14.1
Q ss_pred CeeEEEcCCCcccccCc
Q 045003 35 IKFNFHNCEFYHRTSLF 51 (93)
Q Consensus 35 ~~itFiDTPGHeAFs~f 51 (93)
-.+.+.||+|++.|..+
T Consensus 54 ~~l~IwDtaG~e~~~~l 70 (202)
T cd04102 54 FFVELWDVGGSESVKST 70 (202)
T ss_pred EEEEEEecCCchhHHHH
Confidence 36889999999998763
No 242
>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=75.48 E-value=1.6 Score=27.46 Aligned_cols=63 Identities=14% Similarity=0.103 Sum_probs=34.5
Q ss_pred ChhhHHhhcCCc----CcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc---hhhhhcccEeEEec
Q 045003 1 MISDALRQTSVV----AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF---FFVQLRNFVIVLRK 65 (93)
Q Consensus 1 sLLD~IR~t~Va----~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f---~~mR~RGa~iv~~~ 65 (93)
+|+.++.+.... ..+.-+.+-.+....+.. +...+.|.|+||.+.|... .-.+..++.+|.+-
T Consensus 14 sLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv~D~ 83 (119)
T PF08477_consen 14 SLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDG--DRQSLQFWDFGGQEEFYSQHQFFLKKADAVILVYDL 83 (119)
T ss_dssp HHHHHHHHSS--------SSTTSCEEEEEEEETT--EEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEEEEC
T ss_pred HHHHHHhcCCCcccccccccCCCcEEEEEEEecC--CceEEEEEecCccceecccccchhhcCcEEEEEEcC
Confidence 366666655544 344455555444333322 3445899999999987652 13455566666643
No 243
>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=75.08 E-value=3.2 Score=33.10 Aligned_cols=42 Identities=10% Similarity=0.042 Sum_probs=25.2
Q ss_pred hhhHHhhcC------CcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccc
Q 045003 2 ISDALRQTS------VVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRT 48 (93)
Q Consensus 2 LLD~IR~t~------Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAF 48 (93)
|+.+|.+.. +..+..-|.|+++- .++. +..+.++||||-...
T Consensus 170 liN~l~~~~~~~~~~~~~s~~pgtT~~~~--~~~~---~~~~~l~DtPG~~~~ 217 (360)
T TIGR03597 170 LINKLLKQNNGDKDVITTSPFPGTTLDLI--EIPL---DDGHSLYDTPGIINS 217 (360)
T ss_pred HHHHHHhhccCCcceeeecCCCCeEeeEE--EEEe---CCCCEEEECCCCCCh
Confidence 555565432 23344467888765 4444 345789999996543
No 244
>COG1161 Predicted GTPases [General function prediction only]
Probab=75.03 E-value=2.4 Score=33.59 Aligned_cols=42 Identities=10% Similarity=0.045 Sum_probs=26.4
Q ss_pred ChhhHHhhcCC--cCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccc
Q 045003 1 MISDALRQTSV--VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRT 48 (93)
Q Consensus 1 sLLD~IR~t~V--a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAF 48 (93)
||+-+|++.++ ++.-+ |.|.++-=+.+. ..+.++||||----
T Consensus 147 slIN~L~~k~~~~~s~~P-G~Tk~~q~i~~~-----~~i~LlDtPGii~~ 190 (322)
T COG1161 147 TLINRLLGKKVAKTSNRP-GTTKGIQWIKLD-----DGIYLLDTPGIIPP 190 (322)
T ss_pred HHHHHHhcccceeeCCCC-ceecceEEEEcC-----CCeEEecCCCcCCC
Confidence 35666666544 22333 888877644443 45999999996543
No 245
>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=73.03 E-value=3.7 Score=31.70 Aligned_cols=31 Identities=6% Similarity=-0.020 Sum_probs=20.3
Q ss_pred cCcceeeecceEEEEcCCCCeeEEEcCCCccc
Q 045003 16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHR 47 (93)
Q Consensus 16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeA 47 (93)
..+++.++=..+|.-+ +.+.++++||||-..
T Consensus 107 ~~~~s~~~i~l~i~~p-~~~~ltLIDlPGl~~ 137 (240)
T smart00053 107 NKGISPVPINLRVYSP-HVLNLTLIDLPGITK 137 (240)
T ss_pred CCcccCcceEEEEeCC-CCCceEEEeCCCccc
Confidence 3455555434444433 568999999999964
No 246
>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase).
Probab=73.01 E-value=4.5 Score=32.96 Aligned_cols=16 Identities=13% Similarity=0.125 Sum_probs=13.3
Q ss_pred CCCeeEEEcCCCcccc
Q 045003 33 GGIKFNFHNCEFYHRT 48 (93)
Q Consensus 33 ~~~~itFiDTPGHeAF 48 (93)
++.++++|||||-...
T Consensus 84 ~G~~l~VIDTPGL~d~ 99 (313)
T TIGR00991 84 AGFTLNIIDTPGLIEG 99 (313)
T ss_pred CCeEEEEEECCCCCch
Confidence 5789999999996654
No 247
>PRK12296 obgE GTPase CgtA; Reviewed
Probab=71.16 E-value=4.7 Score=34.60 Aligned_cols=42 Identities=14% Similarity=0.028 Sum_probs=26.0
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCC
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEF 44 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPG 44 (93)
+||-+|-+.+..-...-+.|...---.|.. ++..++|.||||
T Consensus 174 TLln~Ls~akpkIadypfTTl~P~lGvv~~--~~~~f~laDtPG 215 (500)
T PRK12296 174 SLISALSAAKPKIADYPFTTLVPNLGVVQA--GDTRFTVADVPG 215 (500)
T ss_pred HHHHHHhcCCccccccCcccccceEEEEEE--CCeEEEEEECCC
Confidence 466666554433334456676554444555 356899999999
No 248
>PRK12297 obgE GTPase CgtA; Reviewed
Probab=70.92 E-value=6.8 Score=32.67 Aligned_cols=65 Identities=12% Similarity=0.041 Sum_probs=35.5
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCccccc--------Cch--hhhhcccEeEEecc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS--------LFF--FVQLRNFVIVLRKN 66 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs--------~f~--~mR~RGa~iv~~~~ 66 (93)
|||-+|-+.+..-...-+.|.+.--..|.+. ++..++|.||||.-... .|+ --|++.+..|+.-.
T Consensus 173 TLLn~Lt~ak~kIa~ypfTTl~PnlG~v~~~-~~~~~~laD~PGliega~~~~gLg~~fLrhier~~llI~VID~s 247 (424)
T PRK12297 173 TLLSVVSNAKPKIANYHFTTLVPNLGVVETD-DGRSFVMADIPGLIEGASEGVGLGHQFLRHIERTRVIVHVIDMS 247 (424)
T ss_pred HHHHHHHcCCCccccCCcceeceEEEEEEEe-CCceEEEEECCCCcccccccchHHHHHHHHHhhCCEEEEEEeCC
Confidence 4667776543221223345666544455553 36789999999952110 011 11467777777754
No 249
>PRK11058 GTPase HflX; Provisional
Probab=70.35 E-value=5.5 Score=32.93 Aligned_cols=44 Identities=9% Similarity=-0.066 Sum_probs=26.5
Q ss_pred ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003 1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY 45 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH 45 (93)
||+.+|-+.+++..+.=|.|=+.-.-.+... +...++++||||.
T Consensus 212 SLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~-~~~~~~l~DTaG~ 255 (426)
T PRK11058 212 TLFNRITEARVYAADQLFATLDPTLRRIDVA-DVGETVLADTVGF 255 (426)
T ss_pred HHHHHHhCCceeeccCCCCCcCCceEEEEeC-CCCeEEEEecCcc
Confidence 4777777766654443344433333344443 3448899999997
No 250
>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]
Probab=70.28 E-value=3.7 Score=34.21 Aligned_cols=14 Identities=7% Similarity=0.140 Sum_probs=12.3
Q ss_pred CeeEEEcCCCcccc
Q 045003 35 IKFNFHNCEFYHRT 48 (93)
Q Consensus 35 ~~itFiDTPGHeAF 48 (93)
-+++.|||||.-++
T Consensus 104 lkltviDTPGfGDq 117 (336)
T KOG1547|consen 104 LKLTVIDTPGFGDQ 117 (336)
T ss_pred EEEEEecCCCcccc
Confidence 37999999998886
No 251
>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain. Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein
Probab=69.74 E-value=4.5 Score=30.10 Aligned_cols=31 Identities=6% Similarity=-0.068 Sum_probs=21.5
Q ss_pred CcceeeecceEEEEc-CCCCeeEEEcCCCccc
Q 045003 17 GGITQHVGAFVIGMS-TGGIKFNFHNCEFYHR 47 (93)
Q Consensus 17 GGITQhIGA~~V~~~-~~~~~itFiDTPGHeA 47 (93)
..-|+.|-.+..+.. +++..++|+||||=..
T Consensus 41 ~~~T~gi~~~~~~~~~~~~~~v~~lDteG~~~ 72 (224)
T cd01851 41 QQTTKGIWMWSVPFKLGKEHAVLLLDTEGTDG 72 (224)
T ss_pred CCCccceEEEeccccCCCcceEEEEecCCcCc
Confidence 456676666666553 2457899999999654
No 252
>PLN00023 GTP-binding protein; Provisional
Probab=69.50 E-value=9.9 Score=31.35 Aligned_cols=19 Identities=5% Similarity=-0.204 Sum_probs=15.3
Q ss_pred eeEEEcCCCcccccCchhh
Q 045003 36 KFNFHNCEFYHRTSLFFFV 54 (93)
Q Consensus 36 ~itFiDTPGHeAFs~f~~m 54 (93)
.+.+.||+|++.|..+..+
T Consensus 84 ~LqIWDTAGqErfrsL~~~ 102 (334)
T PLN00023 84 FVELWDVSGHERYKDCRSL 102 (334)
T ss_pred EEEEEECCCChhhhhhhHH
Confidence 5889999999999875433
No 253
>KOG0459 consensus Polypeptide release factor 3 [Translation, ribosomal structure and biogenesis]
Probab=69.23 E-value=4.8 Score=35.21 Aligned_cols=35 Identities=14% Similarity=0.135 Sum_probs=23.0
Q ss_pred CcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 13 AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 13 ~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
..|.|- |-.+|--.+.+ ..+.++.||+|||.-|--
T Consensus 138 eR~kgK-tvEvGrA~FEt--e~~~ftiLDApGHk~fv~ 172 (501)
T KOG0459|consen 138 ERDKGK-TVEVGRAYFET--ENKRFTILDAPGHKSFVP 172 (501)
T ss_pred hhhccc-eeeeeeEEEEe--cceeEEeeccCcccccch
Confidence 334444 33444444444 478999999999999853
No 254
>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains. The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.
Probab=69.11 E-value=7 Score=35.80 Aligned_cols=44 Identities=11% Similarity=0.039 Sum_probs=25.8
Q ss_pred hhhHHhhcCCcCccc--CcceeeecceEEEEcCCCCeeEEEcCCCcccc
Q 045003 2 ISDALRQTSVVAKEA--GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRT 48 (93)
Q Consensus 2 LLD~IR~t~Va~~Ea--GGITQhIGA~~V~~~~~~~~itFiDTPGHeAF 48 (93)
++.+|-+.+++...+ .+.|+..- +.... ++..+.+|||||-...
T Consensus 134 LINSILGekvf~vss~~~~TTr~~e-i~~~i--dG~~L~VIDTPGL~dt 179 (763)
T TIGR00993 134 TINSIFGEVKFSTDAFGMGTTSVQE-IEGLV--QGVKIRVIDTPGLKSS 179 (763)
T ss_pred HHHHHhccccccccCCCCCceEEEE-EEEEE--CCceEEEEECCCCCcc
Confidence 455666655444332 34554322 22222 4788999999998865
No 255
>COG0218 Predicted GTPase [General function prediction only]
Probab=68.93 E-value=5.9 Score=30.67 Aligned_cols=41 Identities=17% Similarity=0.219 Sum_probs=30.3
Q ss_pred ChhhHHhhcC--CcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003 1 MISDALRQTS--VVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH 46 (93)
Q Consensus 1 sLLD~IR~t~--Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe 46 (93)
||+-+|-+.+ +..+-.=|-||.|.-|.+.- ++.|+|-||.-
T Consensus 39 SlIN~l~~~k~LArtSktPGrTq~iNff~~~~-----~~~lVDlPGYG 81 (200)
T COG0218 39 SLINALTNQKNLARTSKTPGRTQLINFFEVDD-----ELRLVDLPGYG 81 (200)
T ss_pred HHHHHHhCCcceeecCCCCCccceeEEEEecC-----cEEEEeCCCcc
Confidence 4667776654 44455567899999888863 38999999975
No 256
>COG1160 Predicted GTPases [General function prediction only]
Probab=68.85 E-value=6.7 Score=33.69 Aligned_cols=38 Identities=21% Similarity=0.282 Sum_probs=24.3
Q ss_pred CCcCcccCcceeeecceEEEEcCCCCeeEEEcCCC----------cccccC
Q 045003 10 SVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEF----------YHRTSL 50 (93)
Q Consensus 10 ~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPG----------HeAFs~ 50 (93)
-+++.++| +|-+ +..++++-++++++|+||-| +|.||.
T Consensus 204 ~Iv~~~aG-TTRD--~I~~~~e~~~~~~~liDTAGiRrk~ki~e~~E~~Sv 251 (444)
T COG1160 204 VIVSDIAG-TTRD--SIDIEFERDGRKYVLIDTAGIRRKGKITESVEKYSV 251 (444)
T ss_pred EEecCCCC-cccc--ceeeeEEECCeEEEEEECCCCCcccccccceEEEee
Confidence 34444554 4543 44444444689999999976 677776
No 257
>KOG0052 consensus Translation elongation factor EF-1 alpha/Tu [Translation, ribosomal structure and biogenesis]
Probab=67.20 E-value=4.3 Score=34.42 Aligned_cols=36 Identities=11% Similarity=0.060 Sum_probs=26.3
Q ss_pred cCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 12 VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 12 a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
+..|-| ||-.+..-..+. ....++.||-|||..|..
T Consensus 62 ae~~r~-i~I~~~l~~~~t--~k~~i~iid~pgh~d~~k 97 (391)
T KOG0052|consen 62 AERERG-ITIDIALWKFET--SKYYVTIIDAPGHRDFIK 97 (391)
T ss_pred hccccc-eEEEEEeecccc--eeEEEEEecCCCCCceee
Confidence 456677 885555544443 467899999999999975
No 258
>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []. Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.
Probab=66.47 E-value=5.5 Score=31.09 Aligned_cols=47 Identities=4% Similarity=0.186 Sum_probs=21.2
Q ss_pred hhhHHhhcCCcCcc------cCc--ceeeecceEEEEcCC--CCeeEEEcCCCcccc
Q 045003 2 ISDALRQTSVVAKE------AGG--ITQHVGAFVIGMSTG--GIKFNFHNCEFYHRT 48 (93)
Q Consensus 2 LLD~IR~t~Va~~E------aGG--ITQhIGA~~V~~~~~--~~~itFiDTPGHeAF 48 (93)
+++.|-++.+...+ ... -|..|-...+....+ .-+++|+||||.-+.
T Consensus 20 FIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfGd~ 76 (281)
T PF00735_consen 20 FINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFGDN 76 (281)
T ss_dssp HHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CSSS
T ss_pred HHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCcccc
Confidence 45566665554443 011 122344444444322 347999999997654
No 259
>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=65.00 E-value=2.4 Score=27.51 Aligned_cols=8 Identities=0% Similarity=-0.446 Sum_probs=7.2
Q ss_pred EEEcCCCc
Q 045003 38 NFHNCEFY 45 (93)
Q Consensus 38 tFiDTPGH 45 (93)
.++||||.
T Consensus 38 ~~iDt~G~ 45 (142)
T TIGR02528 38 GAIDTPGE 45 (142)
T ss_pred eeecCchh
Confidence 68999998
No 260
>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=62.24 E-value=6.4 Score=28.02 Aligned_cols=14 Identities=0% Similarity=-0.294 Sum_probs=11.4
Q ss_pred CCeeEEEcCCCccc
Q 045003 34 GIKFNFHNCEFYHR 47 (93)
Q Consensus 34 ~~~itFiDTPGHeA 47 (93)
...++++||||...
T Consensus 51 ~~~l~l~DtpG~~~ 64 (197)
T cd04104 51 FPNVTLWDLPGIGS 64 (197)
T ss_pred CCCceEEeCCCCCc
Confidence 46899999999753
No 261
>COG2721 UxaA Altronate dehydratase [Carbohydrate transport and metabolism]
Probab=62.15 E-value=6.8 Score=33.26 Aligned_cols=32 Identities=13% Similarity=-0.024 Sum_probs=24.4
Q ss_pred CCCeeEEEcCCCcccccCchhhhhcccEeEEec
Q 045003 33 GGIKFNFHNCEFYHRTSLFFFVQLRNFVIVLRK 65 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~f~~mR~RGa~iv~~~ 65 (93)
..+.++|+||||..+=+. --|-+-|+.|+|=-
T Consensus 269 ~~~GL~fm~tPg~D~va~-T~~~A~Ga~~~~FT 300 (381)
T COG2721 269 TRKGLNFMDTPGNDAVAV-TAQVAAGANVVLFT 300 (381)
T ss_pred CCCCeEEecCCCccHHHH-HHHHhcCceEEEEe
Confidence 467899999999876443 45778899888743
No 262
>PTZ00258 GTP-binding protein; Provisional
Probab=62.09 E-value=8.8 Score=31.89 Aligned_cols=44 Identities=11% Similarity=-0.038 Sum_probs=27.8
Q ss_pred ChhhHHhhcCCcCcccCccee--eecceEEEEcC-------------CCCeeEEEcCCC
Q 045003 1 MISDALRQTSVVAKEAGGITQ--HVGAFVIGMST-------------GGIKFNFHNCEF 44 (93)
Q Consensus 1 sLLD~IR~t~Va~~EaGGITQ--hIGA~~V~~~~-------------~~~~itFiDTPG 44 (93)
+|+.+|.++++.....-+.|. ++|...++-.. -...+.|+||||
T Consensus 36 TLfnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpG 94 (390)
T PTZ00258 36 TTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAG 94 (390)
T ss_pred HHHHHHhcCcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCC
Confidence 367788777776666677774 45554444110 023699999999
No 263
>COG0825 AccA Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]
Probab=61.77 E-value=5.3 Score=33.24 Aligned_cols=12 Identities=8% Similarity=-0.247 Sum_probs=10.2
Q ss_pred CCeeEEEcCCCc
Q 045003 34 GIKFNFHNCEFY 45 (93)
Q Consensus 34 ~~~itFiDTPGH 45 (93)
-+-||||||||-
T Consensus 151 lPiitfIDT~GA 162 (317)
T COG0825 151 LPIITFIDTPGA 162 (317)
T ss_pred CCEEEEecCCCC
Confidence 468999999984
No 264
>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=61.72 E-value=13 Score=25.96 Aligned_cols=47 Identities=9% Similarity=0.023 Sum_probs=30.6
Q ss_pred eeeecceEEEEcCCCCeeEEEcCCCcccccCchhh---hhcccEeEEecccc
Q 045003 20 TQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV---QLRNFVIVLRKNNC 68 (93)
Q Consensus 20 TQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m---R~RGa~iv~~~~~~ 68 (93)
|......++.+ ++..++|.|.+|+..|..+.+. ...|++-|++-.+.
T Consensus 45 T~g~~~~~i~~--~~~~~~~~d~gG~~~~~~~w~~y~~~~~~iIfVvDssd~ 94 (175)
T PF00025_consen 45 TIGFNIEEIKY--KGYSLTIWDLGGQESFRPLWKSYFQNADGIIFVVDSSDP 94 (175)
T ss_dssp ESSEEEEEEEE--TTEEEEEEEESSSGGGGGGGGGGHTTESEEEEEEETTGG
T ss_pred ccccccceeee--CcEEEEEEeccccccccccceeeccccceeEEEEecccc
Confidence 33444455555 4778999999999887553222 34677777776544
No 265
>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=60.81 E-value=10 Score=27.94 Aligned_cols=14 Identities=14% Similarity=0.221 Sum_probs=12.2
Q ss_pred CCCeeEEEcCCCcc
Q 045003 33 GGIKFNFHNCEFYH 46 (93)
Q Consensus 33 ~~~~itFiDTPGHe 46 (93)
.+.+++|+||||+-
T Consensus 81 ~~~~i~~vDtPg~~ 94 (225)
T cd01882 81 KKRRLTFIECPNDI 94 (225)
T ss_pred CCceEEEEeCCchH
Confidence 57899999999974
No 266
>KOG0813 consensus Glyoxylase [General function prediction only]
Probab=60.78 E-value=8.5 Score=30.93 Aligned_cols=32 Identities=16% Similarity=0.196 Sum_probs=22.5
Q ss_pred cccCcceeeecc-eEEEEcCCCCeeEEEcCCCccc
Q 045003 14 KEAGGITQHVGA-FVIGMSTGGIKFNFHNCEFYHR 47 (93)
Q Consensus 14 ~EaGGITQhIGA-~~V~~~~~~~~itFiDTPGHeA 47 (93)
.+++|||-.+-- -++.. .+..|.-|+||||.+
T Consensus 87 ~r~~~i~~~~~~~e~~~~--~g~~v~~l~TPgHT~ 119 (265)
T KOG0813|consen 87 DRIPGITRGLKDGETVTV--GGLEVRCLHTPGHTA 119 (265)
T ss_pred hcCccccccCCCCcEEEE--CCEEEEEEeCCCccC
Confidence 377777766443 23444 377899999999986
No 267
>cd01900 YchF YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.
Probab=57.62 E-value=12 Score=29.48 Aligned_cols=43 Identities=16% Similarity=0.086 Sum_probs=27.3
Q ss_pred hhhHHhhcCCcCcccCcce--eeecceEEEEcC--------C-----CCeeEEEcCCC
Q 045003 2 ISDALRQTSVVAKEAGGIT--QHVGAFVIGMST--------G-----GIKFNFHNCEF 44 (93)
Q Consensus 2 LLD~IR~t~Va~~EaGGIT--QhIGA~~V~~~~--------~-----~~~itFiDTPG 44 (93)
|+.+|-++++......+.| -.+|...++-.. + ...+.|+||||
T Consensus 14 Lfn~Lt~~~~~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pG 71 (274)
T cd01900 14 LFNALTKAGAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAG 71 (274)
T ss_pred HHHHHhCCCCccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCC
Confidence 6677777777666667777 445555554210 0 12599999999
No 268
>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=56.84 E-value=5.1 Score=34.31 Aligned_cols=29 Identities=7% Similarity=0.032 Sum_probs=19.1
Q ss_pred CeeEEEcCCCcccccCchhhhh-----cccEeEEec
Q 045003 35 IKFNFHNCEFYHRTSLFFFVQL-----RNFVIVLRK 65 (93)
Q Consensus 35 ~~itFiDTPGHeAFs~f~~mR~-----RGa~iv~~~ 65 (93)
..+-|+|.||||.- |..|=+ -||..|+--
T Consensus 86 R~VSfVDaPGHe~L--MATMLsGAAlMDgAlLvIaA 119 (415)
T COG5257 86 RRVSFVDAPGHETL--MATMLSGAALMDGALLVIAA 119 (415)
T ss_pred EEEEEeeCCchHHH--HHHHhcchhhhcceEEEEec
Confidence 37899999999985 335543 345555544
No 269
>PRK12289 GTPase RsgA; Reviewed
Probab=55.45 E-value=9.4 Score=30.98 Aligned_cols=14 Identities=7% Similarity=0.036 Sum_probs=10.9
Q ss_pred eEEEcCCCcccccC
Q 045003 37 FNFHNCEFYHRTSL 50 (93)
Q Consensus 37 itFiDTPGHeAFs~ 50 (93)
..++||||=..|..
T Consensus 226 ~~liDTPG~~~~~l 239 (352)
T PRK12289 226 GLLADTPGFNQPDL 239 (352)
T ss_pred cEEEeCCCcccccc
Confidence 38999999776653
No 270
>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]
Probab=54.43 E-value=2.4 Score=35.75 Aligned_cols=36 Identities=11% Similarity=0.189 Sum_probs=26.0
Q ss_pred cccCcceeeecceEEEEc---------CCCCeeEEEcCCCc-cccc
Q 045003 14 KEAGGITQHVGAFVIGMS---------TGGIKFNFHNCEFY-HRTS 49 (93)
Q Consensus 14 ~EaGGITQhIGA~~V~~~---------~~~~~itFiDTPGH-eAFs 49 (93)
+-.|||+-.+.-|...++ .+.-+..+|||||. |+|+
T Consensus 86 GPNGgI~TsLNLF~tk~dqv~~~iek~~~~~~~~liDTPGQIE~Ft 131 (366)
T KOG1532|consen 86 GPNGGIVTSLNLFATKFDQVIELIEKRAEEFDYVLIDTPGQIEAFT 131 (366)
T ss_pred CCCcchhhhHHHHHHHHHHHHHHHHHhhcccCEEEEcCCCceEEEE
Confidence 456888888777765544 23457899999997 6775
No 271
>COG2989 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=54.08 E-value=6.6 Score=34.84 Aligned_cols=32 Identities=6% Similarity=0.082 Sum_probs=25.0
Q ss_pred ecceEEEEcCCCCeeEEEcCCCcccccCchhhhhc
Q 045003 23 VGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLR 57 (93)
Q Consensus 23 IGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~R 57 (93)
.|-+++.++ +...|.+.|||-|..|.. .||.-
T Consensus 439 LG~~Kinfp-n~~aIYmHDTP~kslF~r--~mRal 470 (561)
T COG2989 439 LGSYKFNFP-NSHAIYLHDTPSKSLFNR--DMRAL 470 (561)
T ss_pred hhheeccCC-CCcceeeecCcchhhhhh--HHHHh
Confidence 556777775 667899999999999997 46653
No 272
>PRK13796 GTPase YqeH; Provisional
Probab=53.79 E-value=13 Score=29.89 Aligned_cols=27 Identities=11% Similarity=-0.105 Sum_probs=17.1
Q ss_pred cccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003 14 KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY 45 (93)
Q Consensus 14 ~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH 45 (93)
+..-|.|.++ ..++++ .+..++||||=
T Consensus 194 s~~pGTT~~~--~~~~l~---~~~~l~DTPGi 220 (365)
T PRK13796 194 SRFPGTTLDK--IEIPLD---DGSFLYDTPGI 220 (365)
T ss_pred cCCCCcccee--EEEEcC---CCcEEEECCCc
Confidence 3445577653 455552 34689999996
No 273
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=51.49 E-value=7.8 Score=28.53 Aligned_cols=16 Identities=6% Similarity=0.000 Sum_probs=11.6
Q ss_pred CCeeEEEcCCCccccc
Q 045003 34 GIKFNFHNCEFYHRTS 49 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs 49 (93)
+..++||||||+....
T Consensus 83 ~~D~vlIDT~Gr~~~d 98 (196)
T PF00448_consen 83 GYDLVLIDTAGRSPRD 98 (196)
T ss_dssp TSSEEEEEE-SSSSTH
T ss_pred CCCEEEEecCCcchhh
Confidence 4569999999977654
No 274
>PRK09602 translation-associated GTPase; Reviewed
Probab=50.50 E-value=18 Score=29.70 Aligned_cols=43 Identities=16% Similarity=0.034 Sum_probs=27.0
Q ss_pred hhhHHhhcCCcCcccCcce--eeecceEEEEc--------------------CCCCeeEEEcCCC
Q 045003 2 ISDALRQTSVVAKEAGGIT--QHVGAFVIGMS--------------------TGGIKFNFHNCEF 44 (93)
Q Consensus 2 LLD~IR~t~Va~~EaGGIT--QhIGA~~V~~~--------------------~~~~~itFiDTPG 44 (93)
|+-+|.+.+....+..+-| ..+|...++.+ .....+.|+||||
T Consensus 17 lfn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aG 81 (396)
T PRK09602 17 FFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAG 81 (396)
T ss_pred HHHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCC
Confidence 5667776665544555554 77887776321 0124588999999
No 275
>KOG0092 consensus GTPase Rab5/YPT51 and related small G protein superfamily GTPases [Intracellular trafficking, secretion, and vesicular transport]
Probab=50.48 E-value=20 Score=28.06 Aligned_cols=44 Identities=16% Similarity=0.168 Sum_probs=31.5
Q ss_pred eeeecceEEE----EcCCCCeeEEEcCCCcccccCchhhhhcccEeEE
Q 045003 20 TQHVGAFVIG----MSTGGIKFNFHNCEFYHRTSLFFFVQLRNFVIVL 63 (93)
Q Consensus 20 TQhIGA~~V~----~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~iv~ 63 (93)
-..|||-.+. .....-++-.=||-|.|.|.+|-.|=-|||..+|
T Consensus 35 e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAi 82 (200)
T KOG0092|consen 35 EPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAI 82 (200)
T ss_pred ccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEE
Confidence 4466765443 2223346668899999999999999889887654
No 276
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=50.15 E-value=8.9 Score=26.40 Aligned_cols=32 Identities=6% Similarity=-0.054 Sum_probs=16.5
Q ss_pred EEcCCCc-----ccccCch-hh-hhcccEeEEecccccc
Q 045003 39 FHNCEFY-----HRTSLFF-FV-QLRNFVIVLRKNNCQG 70 (93)
Q Consensus 39 FiDTPGH-----eAFs~f~-~m-R~RGa~iv~~~~~~~~ 70 (93)
.+||||. +.+.++. .+ .+.++.+|+.-.+..+
T Consensus 41 ~iDtpG~~~~~~~~~~~~~~~~~~ad~il~v~d~~~~~s 79 (158)
T PRK15467 41 DIDTPGEYFSHPRWYHALITTLQDVDMLIYVHGANDPES 79 (158)
T ss_pred cccCCccccCCHHHHHHHHHHHhcCCEEEEEEeCCCccc
Confidence 5999996 2221110 11 3455566666655543
No 277
>PRK09601 GTP-binding protein YchF; Reviewed
Probab=41.51 E-value=34 Score=28.32 Aligned_cols=43 Identities=16% Similarity=0.091 Sum_probs=26.9
Q ss_pred hhhHHhhcCCcCcccCcce--eeecceEEEEcC---------C----CCeeEEEcCCC
Q 045003 2 ISDALRQTSVVAKEAGGIT--QHVGAFVIGMST---------G----GIKFNFHNCEF 44 (93)
Q Consensus 2 LLD~IR~t~Va~~EaGGIT--QhIGA~~V~~~~---------~----~~~itFiDTPG 44 (93)
|+.+|-+.++.....-+.| -++|...++-.. + ...+.|+||||
T Consensus 18 LfnaLt~~~~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pG 75 (364)
T PRK09601 18 LFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAG 75 (364)
T ss_pred HHHHHhCCCCeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCC
Confidence 5677777665445556666 356666665320 0 12599999999
No 278
>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=41.29 E-value=26 Score=27.88 Aligned_cols=30 Identities=13% Similarity=0.100 Sum_probs=25.0
Q ss_pred eeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 21 QHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 21 QhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
-.-||-.|..++...|+-.-||-|||.|-+
T Consensus 41 vefg~r~~~id~k~IKlqiwDtaGqe~frs 70 (216)
T KOG0098|consen 41 VEFGARMVTIDGKQIKLQIWDTAGQESFRS 70 (216)
T ss_pred eeeceeEEEEcCceEEEEEEecCCcHHHHH
Confidence 366888888876777999999999999854
No 279
>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=40.74 E-value=23 Score=25.44 Aligned_cols=15 Identities=7% Similarity=-0.013 Sum_probs=11.9
Q ss_pred CCCeeEEEcCCCccc
Q 045003 33 GGIKFNFHNCEFYHR 47 (93)
Q Consensus 33 ~~~~itFiDTPGHeA 47 (93)
..-.+.+.||||.+.
T Consensus 64 ~~v~l~iwDTaG~~~ 78 (195)
T cd01873 64 VSVSLRLWDTFGDHD 78 (195)
T ss_pred EEEEEEEEeCCCChh
Confidence 345788999999974
No 280
>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]
Probab=39.58 E-value=21 Score=28.71 Aligned_cols=38 Identities=11% Similarity=0.098 Sum_probs=24.7
Q ss_pred CCeeEEEcCCCcccc----cCchh--hhhcccEeEEec----ccccce
Q 045003 34 GIKFNFHNCEFYHRT----SLFFF--VQLRNFVIVLRK----NNCQGT 71 (93)
Q Consensus 34 ~~~itFiDTPGHeAF----s~f~~--mR~RGa~iv~~~----~~~~~~ 71 (93)
....+++|-|||..- ...++ -+..+++-||+. .||+..
T Consensus 81 s~~~~LVD~PGH~rlR~kl~e~~~~~~~akaiVFVVDSa~f~k~vrdv 128 (238)
T KOG0090|consen 81 SENVTLVDLPGHSRLRRKLLEYLKHNYSAKAIVFVVDSATFLKNVRDV 128 (238)
T ss_pred CcceEEEeCCCcHHHHHHHHHHccccccceeEEEEEeccccchhhHHH
Confidence 345899999999752 11111 256678888886 566655
No 281
>PF04295 GD_AH_C: D-galactarate dehydratase / Altronate hydrolase, C terminus; InterPro: IPR007392 This domain is found at the C terminus of D-galactarate dehydratase (4.2.1.42 from EC) which is thought to catalyse the reaction D-galactarate = 5-keto-4-deoxy-D-glucarate + H2O, [] and altronate hydrolase (altronic acid hydratase, 4.2.1.7 from EC), which catalyses D-altronate = 2-keto-2-deoxygluconate + H2O []. As purified, both enzymes are catalytically inactive in the absence of added Fe2+, Mn2+, and beta-mercaptoethanol. Synergistic activation of altronate hydrolase activity is seen in the presence of both iron and manganese ions, suggesting that the enzyme may have two ion binding sites. Mn2+ appears to be part of the enzyme active centre, but the function of the single bound Fe2+ ion is unknown. The hydratase has no Fe-S core []. The N-terminal is represented by IPR007389 from INTERPRO.; GO: 0016836 hydro-lyase activity
Probab=39.34 E-value=23 Score=29.94 Aligned_cols=32 Identities=9% Similarity=-0.075 Sum_probs=25.9
Q ss_pred CCCeeEEEcCCCcccccCchhhhhcccEeEEec
Q 045003 33 GGIKFNFHNCEFYHRTSLFFFVQLRNFVIVLRK 65 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~f~~mR~RGa~iv~~~ 65 (93)
..+.+.|+||||+..=+ ..-|-+.|+.||+=-
T Consensus 281 ~~~Gl~~mdtPg~D~~s-~tg~~A~Ga~lilFT 312 (396)
T PF04295_consen 281 TKPGLYFMDTPGNDPES-VTGLAAAGAQLILFT 312 (396)
T ss_pred CCCCEEEEeCCCCCHHH-HHHHHhcCCcEEEEe
Confidence 47899999999997643 356899999999854
No 282
>PRK10594 murein L,D-transpeptidase; Provisional
Probab=39.10 E-value=22 Score=31.72 Aligned_cols=27 Identities=11% Similarity=0.154 Sum_probs=20.8
Q ss_pred ecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 23 VGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 23 IGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
.|-+.+.++ +...|.+.|||-+..|+.
T Consensus 486 LG~vKF~fP-N~~~IYLHDTP~k~LF~r 512 (608)
T PRK10594 486 LGRYKFNMP-SSDAIYLHDTPNHNLFQK 512 (608)
T ss_pred CeeeEEecC-CCCceeecCCCChHHhCc
Confidence 444555554 677899999999999986
No 283
>TIGR03248 galactar-dH20 galactarate dehydratase. Galactarate dehydratase converts D-galactarate to 5-dehydro-4-deoxyglucarate which is subsequently acted on by GarL, tartronate semialdehyde reductase and glycerate kinase (, GenProp0714).
Probab=38.82 E-value=27 Score=30.53 Aligned_cols=32 Identities=3% Similarity=-0.176 Sum_probs=24.9
Q ss_pred CCCeeEEEcCCCcccccCchhhhhcccEeEEec
Q 045003 33 GGIKFNFHNCEFYHRTSLFFFVQLRNFVIVLRK 65 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~f~~mR~RGa~iv~~~ 65 (93)
..+.+.|+||||.-.=+ ..-|-+.|+.||+=-
T Consensus 390 ~~~Gl~lmdtPg~D~~s-~T~~~A~Ga~li~FT 421 (507)
T TIGR03248 390 TAKGLIFAATPASDFVC-GTLQLASGMNLHVFT 421 (507)
T ss_pred CCCCEEEEeCCCCCHHH-HHHHHhcCCeEEEec
Confidence 47789999999975533 346889999999854
No 284
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=38.43 E-value=21 Score=24.46 Aligned_cols=16 Identities=0% Similarity=-0.170 Sum_probs=12.3
Q ss_pred CCCeeEEEcCCCcccc
Q 045003 33 GGIKFNFHNCEFYHRT 48 (93)
Q Consensus 33 ~~~~itFiDTPGHeAF 48 (93)
.+..++++||||...+
T Consensus 81 ~~~d~viiDt~g~~~~ 96 (173)
T cd03115 81 ENFDVVIVDTAGRLQI 96 (173)
T ss_pred CCCCEEEEECcccchh
Confidence 3567899999999643
No 285
>cd06562 GH20_HexA_HexB-like Beta-N-acetylhexosaminidases catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides. The hexA and hexB genes encode the alpha- and beta-subunits of the two major beta-N-acetylhexosaminidase isoenzymes, N-acetyl-beta-D-hexosaminidase A (HexA) and beta-N-acetylhexosaminidase B (HexB). Both the alpha and the beta catalytic subunits have a TIM-barrel fold and belong to the glycosyl hydrolase family 20 (GH20). The HexA enzyme is a heterodimer containing one alpha and one beta subunit while the HexB enzyme is a homodimer containing two beta-subunits. Hexosaminidase mutations cause an inability to properly hydrolyze certain sphingolipids which accumulate in lysosomes within the brain, resulting in the lipid storage disorders Tay-Sachs and Sandhoff. Mutations in the alpha subunit cause in a deficiency in the HexA enzyme and result in
Probab=38.21 E-value=11 Score=29.98 Aligned_cols=12 Identities=0% Similarity=-0.418 Sum_probs=9.4
Q ss_pred eeEEEcCCCccc
Q 045003 36 KFNFHNCEFYHR 47 (93)
Q Consensus 36 ~itFiDTPGHeA 47 (93)
-|--||+|||..
T Consensus 86 vIPEID~PGH~~ 97 (348)
T cd06562 86 VIPEIDTPGHTG 97 (348)
T ss_pred EEEeccCchhhH
Confidence 355689999984
No 286
>COG1084 Predicted GTPase [General function prediction only]
Probab=37.23 E-value=42 Score=28.28 Aligned_cols=12 Identities=0% Similarity=-0.078 Sum_probs=9.6
Q ss_pred CCeeEEEcCCCc
Q 045003 34 GIKFNFHNCEFY 45 (93)
Q Consensus 34 ~~~itFiDTPGH 45 (93)
...+=+|||||=
T Consensus 214 ~~R~QvIDTPGl 225 (346)
T COG1084 214 YLRIQVIDTPGL 225 (346)
T ss_pred CceEEEecCCcc
Confidence 557889999994
No 287
>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]
Probab=36.36 E-value=30 Score=29.50 Aligned_cols=12 Identities=17% Similarity=0.204 Sum_probs=10.5
Q ss_pred CCCeeEEEcCCC
Q 045003 33 GGIKFNFHNCEF 44 (93)
Q Consensus 33 ~~~~itFiDTPG 44 (93)
+...+.|.||||
T Consensus 118 ~eTQlvf~DTPG 129 (379)
T KOG1423|consen 118 GETQLVFYDTPG 129 (379)
T ss_pred CceEEEEecCCc
Confidence 467899999999
No 288
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=35.17 E-value=25 Score=27.17 Aligned_cols=16 Identities=6% Similarity=-0.072 Sum_probs=12.9
Q ss_pred CCCeeEEEcCCCcccc
Q 045003 33 GGIKFNFHNCEFYHRT 48 (93)
Q Consensus 33 ~~~~itFiDTPGHeAF 48 (93)
.+..+++|||||....
T Consensus 153 ~~~D~ViIDT~G~~~~ 168 (272)
T TIGR00064 153 RNIDVVLIDTAGRLQN 168 (272)
T ss_pred CCCCEEEEeCCCCCcc
Confidence 4568999999998754
No 289
>cd02742 GH20_hexosaminidase Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides. These enzymes are broadly distributed in microorganisms, plants and animals, and play roles in various key physiological and pathological processes. These processes include cell structural integrity, energy storage, cellular signaling, fertilization, pathogen defense, viral penetration, the development of carcinomas, inflammatory events and lysosomal storage disorders. The GH20 enzymes include the eukaryotic beta-N-acetylhexosaminidases A and B, the bacterial chitobiases, dispersin B, and lacto-N-biosidase. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by the solvent or the enzyme, but by the substrate itself.
Probab=34.34 E-value=12 Score=29.10 Aligned_cols=13 Identities=0% Similarity=-0.358 Sum_probs=9.9
Q ss_pred eeEEEcCCCcccc
Q 045003 36 KFNFHNCEFYHRT 48 (93)
Q Consensus 36 ~itFiDTPGHeAF 48 (93)
-|=-||+|||...
T Consensus 88 viPEiD~PGH~~a 100 (303)
T cd02742 88 VIPEIDMPGHSTA 100 (303)
T ss_pred EEEeccchHHHHH
Confidence 3456899999963
No 290
>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=33.97 E-value=17 Score=26.39 Aligned_cols=7 Identities=0% Similarity=-0.524 Sum_probs=6.0
Q ss_pred EEcCCCc
Q 045003 39 FHNCEFY 45 (93)
Q Consensus 39 FiDTPGH 45 (93)
+|||||-
T Consensus 40 ~IDTPGE 46 (143)
T PF10662_consen 40 TIDTPGE 46 (143)
T ss_pred EEECChh
Confidence 5999995
No 291
>CHL00198 accA acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional
Probab=33.81 E-value=27 Score=28.72 Aligned_cols=13 Identities=8% Similarity=-0.222 Sum_probs=10.6
Q ss_pred CCeeEEEcCCCcc
Q 045003 34 GIKFNFHNCEFYH 46 (93)
Q Consensus 34 ~~~itFiDTPGHe 46 (93)
-+-|+|+||||-.
T Consensus 155 lPIItlvDTpGA~ 167 (322)
T CHL00198 155 LPILTFIDTPGAW 167 (322)
T ss_pred CCEEEEEeCCCcC
Confidence 4579999999953
No 292
>cd06570 GH20_chitobiase-like_1 A functionally uncharacterized subgroup of the Glycosyl hydrolase family 20 (GH20) catalytic domain found in proteins similar to the chitobiase of Serratia marcescens, a beta-N-1,4-acetylhexosaminidase that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a chitinase hydrolyzes the chitin to oligosaccharides and disaccharides such as di-N-acetyl-D-glucosamine and chitobiose, ii) chitobiase then further degrades these oligomers into monomers. This subgroup lacks the C-terminal PKD (polycystic kidney disease I)-like domain found in the chitobiases. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by solvent or the enzyme, but by the substrate itself.
Probab=33.64 E-value=16 Score=29.00 Aligned_cols=12 Identities=0% Similarity=-0.357 Sum_probs=9.3
Q ss_pred eEEEcCCCcccc
Q 045003 37 FNFHNCEFYHRT 48 (93)
Q Consensus 37 itFiDTPGHeAF 48 (93)
|==||+|||..-
T Consensus 85 IPEId~PGH~~a 96 (311)
T cd06570 85 VPEIDVPGHASA 96 (311)
T ss_pred EEeecCccchHH
Confidence 455899999963
No 293
>PRK05724 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated
Probab=33.47 E-value=28 Score=28.54 Aligned_cols=52 Identities=12% Similarity=0.020 Sum_probs=29.3
Q ss_pred CCCeeEEEcCCCcc------------cccC-chhhhhcc---cEeEEecc-------cccceeeeeccccccchh
Q 045003 33 GGIKFNFHNCEFYH------------RTSL-FFFVQLRN---FVIVLRKN-------NCQGTYLFPWSYSELGLS 84 (93)
Q Consensus 33 ~~~~itFiDTPGHe------------AFs~-f~~mR~RG---a~iv~~~~-------~~~~~~~~~~~~~~~~~~ 84 (93)
+-+-|+|+||||.. ++.. +..|-.-. +.||+.+. -+-+++++-|..++++.-
T Consensus 151 ~lPIVtlvDTpGa~~G~~aE~~G~~~aia~~l~~~a~~~VP~IsVIiGeg~sGGAla~~~aD~v~m~~~A~~svi 225 (319)
T PRK05724 151 GLPIITFIDTPGAYPGIGAEERGQSEAIARNLREMARLKVPIICTVIGEGGSGGALAIGVGDRVLMLEYSTYSVI 225 (319)
T ss_pred CCCEEEEEeCCCCCCCHHHHhccHHHHHHHHHHHHhCCCCCEEEEEeCCccHHHHHHHhccCeeeeecCceEeec
Confidence 34679999999954 2211 11111111 24566762 123558888988877543
No 294
>cd06564 GH20_DspB_LnbB-like Glycosyl hydrolase family 20 (GH20) catalytic domain of dispersin B (DspB), lacto-N-biosidase (LnbB) and related proteins. Dispersin B is a soluble beta-N-acetylglucosamidase found in bacteria that hydrolyzes the beta-1,6-linkages of PGA (poly-beta-(1,6)-N-acetylglucosamine), a major component of the extracellular polysaccharide matrix. Lacto-N-biosidase hydrolyzes lacto-N-biose (LNB) type I oligosaccharides at the nonreducing terminus to produce lacto-N-biose as part of the GNB/LNB (galacto-N-biose/lacto-N-biose I) degradation pathway. The lacto-N-biosidase from Bifidobacterium bifidum has this GH20 domain, a carbohydrate binding module 32, and a bacterial immunoglobulin-like domain 2, as well as a YSIRK signal peptide and a G5 membrane anchor at the N and C termini, respectively. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by solvent or the enzyme, but by the substrate itself.
Probab=33.09 E-value=13 Score=29.16 Aligned_cols=12 Identities=0% Similarity=-0.369 Sum_probs=9.3
Q ss_pred eEEEcCCCcccc
Q 045003 37 FNFHNCEFYHRT 48 (93)
Q Consensus 37 itFiDTPGHeAF 48 (93)
|--||+|||...
T Consensus 99 IPEID~PGH~~a 110 (326)
T cd06564 99 IPEIDSPGHSLA 110 (326)
T ss_pred eccCCCcHHHHH
Confidence 456899999864
No 295
>cd06563 GH20_chitobiase-like The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a chitinase hydrolyzes the chitin to oligosaccharides and disaccharides such as di-N-acetyl-D-glucosamine and chitobiose, ii) chitobiase then further degrades these oligomers into monomers. This GH20 domain family includes an N-acetylglucosamidase (GlcNAcase A) from Pseudoalteromonas piscicida and an N-acetylhexosaminidase (SpHex) from Streptomyces plicatus. SpHex lacks the C-terminal PKD (polycystic kidney disease I)-like domain found in the chitobiases. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by solvent or the enzyme, but by the substrate itself.
Probab=32.89 E-value=15 Score=29.26 Aligned_cols=13 Identities=0% Similarity=-0.424 Sum_probs=10.2
Q ss_pred eeEEEcCCCcccc
Q 045003 36 KFNFHNCEFYHRT 48 (93)
Q Consensus 36 ~itFiDTPGHeAF 48 (93)
-|--||+|||...
T Consensus 102 VIPEID~PGH~~a 114 (357)
T cd06563 102 VIPEIDMPGHALA 114 (357)
T ss_pred EEEecCCchhHHH
Confidence 4567999999964
No 296
>COG3025 Uncharacterized conserved protein [Function unknown]
Probab=32.88 E-value=22 Score=30.66 Aligned_cols=27 Identities=7% Similarity=0.080 Sum_probs=22.1
Q ss_pred eeEEEcCCCcccccCchhhhhcccEeEEeccccc
Q 045003 36 KFNFHNCEFYHRTSLFFFVQLRNFVIVLRKNNCQ 69 (93)
Q Consensus 36 ~itFiDTPGHeAFs~f~~mR~RGa~iv~~~~~~~ 69 (93)
.-++.|||+|. +|+++...-+|+.|=+
T Consensus 37 ~n~YyDTpd~~-------L~~~~~gLRIR~~~~~ 63 (432)
T COG3025 37 ANIYYDTPDNW-------LRRHDMGLRIRREGGQ 63 (432)
T ss_pred hhhhcCCchHH-------HHhCCceEEEeccCCe
Confidence 45889999998 5888888888887655
No 297
>PF00728 Glyco_hydro_20: Glycosyl hydrolase family 20, catalytic domain; InterPro: IPR015883 Glycoside hydrolase family 20 GH20 from CAZY comprises enzymes with several known activities; beta-hexosaminidase (3.2.1.52 from EC); lacto-N-biosidase (3.2.1.140 from EC). Carbonyl oxygen of the C-2 acetamido group of the substrate acts as the catalytic nucleophile/base in this family of enzymes. In the brain and other tissues, beta-hexosaminidase A degrades GM2 gangliosides; specifically, the enzyme hydrolyses terminal non-reducing N-acetyl-D-hexosamine residues in N-acetyl-beta-D-hexosaminides. There are 3 forms of beta-hexosaminidase: hexosaminidase A is a trimer, with one alpha, one beta-A and one beta-B chain; hexosaminidase B is a tetramer of two beta-A and two beta-B chains; and hexosaminidase S is a homodimer of alpha chains. The two beta chains are derived from the cleavage of a precursor. Mutations in the beta-chain lead to Sandhoff disease, a lysosomal storage disorder characterised by accumulation of GM2 ganglioside [].; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds; PDB: 3RPM_A 1C7T_A 1QBA_A 1QBB_A 1C7S_A 3RCN_A 2YL8_A 2YL6_A 2YLL_A 2YL5_C ....
Probab=32.33 E-value=21 Score=27.18 Aligned_cols=13 Identities=0% Similarity=-0.348 Sum_probs=9.6
Q ss_pred eeEEEcCCCcccc
Q 045003 36 KFNFHNCEFYHRT 48 (93)
Q Consensus 36 ~itFiDTPGHeAF 48 (93)
-|--||||||...
T Consensus 89 VIPeid~PGH~~~ 101 (351)
T PF00728_consen 89 VIPEIDTPGHAEA 101 (351)
T ss_dssp EEEEEEESSS-HH
T ss_pred eeeeccCchHHHH
Confidence 4567999999976
No 298
>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=31.95 E-value=22 Score=30.68 Aligned_cols=13 Identities=15% Similarity=0.235 Sum_probs=11.2
Q ss_pred eeEEEcCCCcccc
Q 045003 36 KFNFHNCEFYHRT 48 (93)
Q Consensus 36 ~itFiDTPGHeAF 48 (93)
-+-|.|+|||...
T Consensus 126 HVSfVDCPGHDiL 138 (466)
T KOG0466|consen 126 HVSFVDCPGHDIL 138 (466)
T ss_pred EEEeccCCchHHH
Confidence 5789999999875
No 299
>PRK13849 putative crown gall tumor protein VirC1; Provisional
Probab=31.79 E-value=31 Score=25.91 Aligned_cols=14 Identities=7% Similarity=0.159 Sum_probs=11.9
Q ss_pred CCeeEEEcCCCccc
Q 045003 34 GIKFNFHNCEFYHR 47 (93)
Q Consensus 34 ~~~itFiDTPGHeA 47 (93)
...++||||||+..
T Consensus 83 ~yD~iiID~pp~~~ 96 (231)
T PRK13849 83 GFDYALADTHGGSS 96 (231)
T ss_pred CCCEEEEeCCCCcc
Confidence 46899999999764
No 300
>KOG0095 consensus GTPase Rab30, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.00 E-value=36 Score=26.76 Aligned_cols=49 Identities=16% Similarity=0.284 Sum_probs=36.9
Q ss_pred EEEcCCCCeeEEEcCCCcccccCch--hhhhcccEeEEecccccce--eeeec
Q 045003 28 IGMSTGGIKFNFHNCEFYHRTSLFF--FVQLRNFVIVLRKNNCQGT--YLFPW 76 (93)
Q Consensus 28 V~~~~~~~~itFiDTPGHeAFs~f~--~mR~RGa~iv~~~~~~~~~--~~~~~ 76 (93)
|+..++..|+-+-||.|.|.|-++. --|+.-|.|.+-.-.||.+ -|-.|
T Consensus 49 vev~gekiklqiwdtagqerfrsitqsyyrsahalilvydiscqpsfdclpew 101 (213)
T KOG0095|consen 49 VEVNGEKIKLQIWDTAGQERFRSITQSYYRSAHALILVYDISCQPSFDCLPEW 101 (213)
T ss_pred EEECCeEEEEEEeeccchHHHHHHHHHHhhhcceEEEEEecccCcchhhhHHH
Confidence 3444566788999999999996532 2488899999999999987 34445
No 301
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=30.17 E-value=74 Score=28.79 Aligned_cols=18 Identities=6% Similarity=-0.088 Sum_probs=14.8
Q ss_pred CCCeeEEEcCCCcccccC
Q 045003 33 GGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs~ 50 (93)
++..+.++|.||-=.++.
T Consensus 48 ~~~~i~ivDLPG~YSL~~ 65 (653)
T COG0370 48 KGHEIEIVDLPGTYSLTA 65 (653)
T ss_pred cCceEEEEeCCCcCCCCC
Confidence 467799999999877665
No 302
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=29.93 E-value=34 Score=26.38 Aligned_cols=11 Identities=0% Similarity=-0.179 Sum_probs=9.7
Q ss_pred CCeeEEEcCCC
Q 045003 34 GIKFNFHNCEF 44 (93)
Q Consensus 34 ~~~itFiDTPG 44 (93)
...+++|||||
T Consensus 272 ~~d~vliDt~G 282 (282)
T TIGR03499 272 DKDLILIDTAG 282 (282)
T ss_pred CCCEEEEeCCC
Confidence 46899999998
No 303
>PRK13768 GTPase; Provisional
Probab=29.86 E-value=39 Score=25.54 Aligned_cols=15 Identities=0% Similarity=-0.113 Sum_probs=11.7
Q ss_pred CCeeEEEcCCCcccc
Q 045003 34 GIKFNFHNCEFYHRT 48 (93)
Q Consensus 34 ~~~itFiDTPGHeAF 48 (93)
+..+.++||||...+
T Consensus 96 ~~~~~~~d~~g~~~~ 110 (253)
T PRK13768 96 DADYVLVDTPGQMEL 110 (253)
T ss_pred CCCEEEEeCCcHHHH
Confidence 347999999997553
No 304
>PF04597 Ribophorin_I: Ribophorin I; InterPro: IPR007676 Ribophorin I is an essential subunit of oligosaccharyltransferase (OST), which is also known as dolichyl-diphosphooligosaccharide--protein glycosyltransferase, (2.4.1.119 from EC). OST catalyses the transfer of an oligosaccharide from dolichol pyrophosphate to selected asparagine residues of nascent polypeptides as they are translocated into the lumen of the rough endoplasmic reticulum. Ribophorin I and OST48 are thought to be responsible for OST catalytic activity []. Both yeast and mammalian proteins are glycosylated but the sites are not conserved. Glycosylation may contribute towards general solubility but is unlikely to be involved in a specific biochemical function []. Most family members are predicted to have a transmembrane helix at the C terminus of this region.; GO: 0004579 dolichyl-diphosphooligosaccharide-protein glycotransferase activity, 0006486 protein glycosylation, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=29.74 E-value=67 Score=26.72 Aligned_cols=25 Identities=20% Similarity=0.181 Sum_probs=19.9
Q ss_pred CCeeEEEcCCCcccccCchhhhhcccEeEEecccccce
Q 045003 34 GIKFNFHNCEFYHRTSLFFFVQLRNFVIVLRKNNCQGT 71 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f~~mR~RGa~iv~~~~~~~~~ 71 (93)
....++|||=||- +|++.|.||-..
T Consensus 368 ~~~~tyLDt~GR~-------------vv~l~~~nlvd~ 392 (432)
T PF04597_consen 368 STHKTYLDTTGRP-------------VVVLEKKNLVDE 392 (432)
T ss_pred cceeeeeeccCce-------------EEEEEeccCCHh
Confidence 4688999999997 478888888543
No 305
>PF01740 STAS: STAS domain; InterPro: IPR002645 The STAS (Sulphate Transporter and AntiSigma factor antagonist) domain is found in the C-terminal region of sulphate transporters and bacterial anti-sigma factor antagonists. It has been suggested that this domain may have a general NTP binding function. The establishment of differential gene expression in sporulating Bacillus subtilis involves four protein components one of which is SpoIIAA (P10727 from SWISSPROT). The four components regulate the sporulation sigma factor F. Early in sporulation, SpoIIAA is in the phosphorylated state (SpoIIAA-P), as a result of the activity of the ATP-dependent protein kinase SpoIIAB (P10728 from SWISSPROT). The site at which this protein is a conserved serine. SpoIIAB is an anti-sigma factor that in its free form inhibits F by binding to it. Competition by SpoIIAA (the anti-anti-sigma factor) for binding to SpoIIAB releases Sigma F activity []. The STAS domain is found in the anti-sigma factor antagonist SpoIIAA.; PDB: 3T6O_B 3LKL_B 1H4Z_A 1H4Y_B 1H4X_B 3NY7_A 3OIZ_A 1T6R_A 1VC1_B 1SBO_A ....
Probab=29.57 E-value=17 Score=23.31 Aligned_cols=42 Identities=14% Similarity=0.146 Sum_probs=31.5
Q ss_pred eeeecceEEEEcCCCCeeEEEcCCCcccccCch-hhhhcccEeEEec
Q 045003 20 TQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF-FVQLRNFVIVLRK 65 (93)
Q Consensus 20 TQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~-~mR~RGa~iv~~~ 65 (93)
.|.+...-+.+ ..+.+||+.|=.++..+. .++.+|..+++--
T Consensus 45 ~~~~~~vIlD~----s~v~~iDssgi~~L~~~~~~~~~~g~~~~l~~ 87 (117)
T PF01740_consen 45 RQTIKNVILDM----SGVSFIDSSGIQALVDIIKELRRRGVQLVLVG 87 (117)
T ss_dssp SSSSSEEEEEE----TTESEESHHHHHHHHHHHHHHHHTTCEEEEES
T ss_pred cccceEEEEEE----EeCCcCCHHHHHHHHHHHHHHHHCCCEEEEEE
Confidence 44566666665 478999999998887644 6788999988753
No 306
>TIGR00513 accA acetyl-CoA carboxylase, carboxyl transferase, alpha subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the alpha chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=29.37 E-value=36 Score=27.88 Aligned_cols=13 Identities=8% Similarity=-0.261 Sum_probs=10.8
Q ss_pred CCeeEEEcCCCcc
Q 045003 34 GIKFNFHNCEFYH 46 (93)
Q Consensus 34 ~~~itFiDTPGHe 46 (93)
-+-|+|+||||-.
T Consensus 152 iPvVtlvDTpGa~ 164 (316)
T TIGR00513 152 MPIITFIDTPGAY 164 (316)
T ss_pred CCEEEEEECCCCC
Confidence 4579999999964
No 307
>PHA02518 ParA-like protein; Provisional
Probab=29.05 E-value=47 Score=22.94 Aligned_cols=14 Identities=7% Similarity=0.071 Sum_probs=11.1
Q ss_pred CCCeeEEEcCCCcc
Q 045003 33 GGIKFNFHNCEFYH 46 (93)
Q Consensus 33 ~~~~itFiDTPGHe 46 (93)
+...+++|||||..
T Consensus 75 ~~~d~viiD~p~~~ 88 (211)
T PHA02518 75 SGYDYVVVDGAPQD 88 (211)
T ss_pred ccCCEEEEeCCCCc
Confidence 34679999999874
No 308
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=28.80 E-value=36 Score=27.08 Aligned_cols=17 Identities=12% Similarity=0.003 Sum_probs=13.2
Q ss_pred CCCeeEEEcCCCccccc
Q 045003 33 GGIKFNFHNCEFYHRTS 49 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs 49 (93)
.+..+++|||||...+.
T Consensus 195 ~~~D~ViIDTaGr~~~~ 211 (318)
T PRK10416 195 RGIDVLIIDTAGRLHNK 211 (318)
T ss_pred CCCCEEEEeCCCCCcCC
Confidence 45689999999986543
No 309
>COG0491 GloB Zn-dependent hydrolases, including glyoxylases [General function prediction only]
Probab=28.73 E-value=35 Score=23.23 Aligned_cols=14 Identities=7% Similarity=0.081 Sum_probs=11.5
Q ss_pred CCeeEEEcCCCccc
Q 045003 34 GIKFNFHNCEFYHR 47 (93)
Q Consensus 34 ~~~itFiDTPGHeA 47 (93)
+..+..+.||||..
T Consensus 137 ~~~~~~i~tpGHT~ 150 (252)
T COG0491 137 GLELEVLHTPGHTP 150 (252)
T ss_pred CeEEEEEECCCCCC
Confidence 35789999999985
No 310
>cd06568 GH20_SpHex_like A subgroup of the Glycosyl hydrolase family 20 (GH20) catalytic domain found in proteins similar to the N-acetylhexosaminidase from Streptomyces plicatus (SpHex). SpHex catalyzes the hydrolysis of N-acetyl-beta-hexosaminides. An Asp residue within the active site plays a critical role in substrate-assisted catalysis by orienting the 2-acetamido group and stabilizing the transition state. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by solvent or the enzyme, but by the substrate itself. Proteins belonging to this subgroup lack the C-terminal PKD (polycystic kidney disease I)-like domain found in the chitobiases.
Probab=28.18 E-value=18 Score=28.84 Aligned_cols=12 Identities=0% Similarity=-0.419 Sum_probs=9.4
Q ss_pred eeEEEcCCCccc
Q 045003 36 KFNFHNCEFYHR 47 (93)
Q Consensus 36 ~itFiDTPGHeA 47 (93)
-|=-||+|||..
T Consensus 91 vIPEiD~PGH~~ 102 (329)
T cd06568 91 VVPEIDMPGHTN 102 (329)
T ss_pred EEEecCCcHHHH
Confidence 345689999986
No 311
>PRK12319 acetyl-CoA carboxylase subunit alpha; Provisional
Probab=28.10 E-value=40 Score=26.52 Aligned_cols=14 Identities=21% Similarity=0.012 Sum_probs=11.3
Q ss_pred CCCeeEEEcCCCcc
Q 045003 33 GGIKFNFHNCEFYH 46 (93)
Q Consensus 33 ~~~~itFiDTPGHe 46 (93)
+-+-|+|+||||-.
T Consensus 98 ~lPvV~lvDtpGa~ 111 (256)
T PRK12319 98 GRPVVTFINTAGAY 111 (256)
T ss_pred CCCEEEEEECCCcC
Confidence 34679999999964
No 312
>PLN02469 hydroxyacylglutathione hydrolase
Probab=27.88 E-value=36 Score=26.05 Aligned_cols=13 Identities=0% Similarity=-0.067 Sum_probs=11.0
Q ss_pred CeeEEEcCCCccc
Q 045003 35 IKFNFHNCEFYHR 47 (93)
Q Consensus 35 ~~itFiDTPGHeA 47 (93)
..+.++.||||..
T Consensus 102 ~~~~vi~tPGHT~ 114 (258)
T PLN02469 102 VNILALHTPCHTK 114 (258)
T ss_pred eEEEEEECCCCCC
Confidence 3688999999985
No 313
>cd06569 GH20_Sm-chitobiase-like The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a chitinase hydrolyzes the chitin to oligosaccharides and disaccharides such as di-N-acetyl-D-glucosamine and chitobiose, ii) chitobiase then further degrades these oligomers into monomers. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by solvent or the enzyme, but by the substrate itself.
Probab=27.58 E-value=19 Score=30.06 Aligned_cols=11 Identities=9% Similarity=-0.260 Sum_probs=8.7
Q ss_pred eEEEcCCCccc
Q 045003 37 FNFHNCEFYHR 47 (93)
Q Consensus 37 itFiDTPGHeA 47 (93)
|-=||+|||..
T Consensus 114 IPEID~PGH~~ 124 (445)
T cd06569 114 IPEIDMPGHAR 124 (445)
T ss_pred EEccCCchhHH
Confidence 44589999976
No 314
>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional
Probab=27.56 E-value=70 Score=28.00 Aligned_cols=15 Identities=0% Similarity=-0.177 Sum_probs=11.0
Q ss_pred CCeeEEEcCCCcccc
Q 045003 34 GIKFNFHNCEFYHRT 48 (93)
Q Consensus 34 ~~~itFiDTPGHeAF 48 (93)
...+.+||||---+.
T Consensus 640 ~yD~IIIDtPP~~~~ 654 (726)
T PRK09841 640 HYDLVIVDTPPMLAV 654 (726)
T ss_pred cCCEEEEeCCCcccc
Confidence 357899999965554
No 315
>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional
Probab=27.10 E-value=41 Score=29.04 Aligned_cols=53 Identities=9% Similarity=-0.103 Sum_probs=29.0
Q ss_pred CCCeeEEEcCCCccc------------cc-Cchhhhhc---ccEeEEecc-------cccceeeeeccccccchhh
Q 045003 33 GGIKFNFHNCEFYHR------------TS-LFFFVQLR---NFVIVLRKN-------NCQGTYLFPWSYSELGLSS 85 (93)
Q Consensus 33 ~~~~itFiDTPGHeA------------Fs-~f~~mR~R---Ga~iv~~~~-------~~~~~~~~~~~~~~~~~~~ 85 (93)
+.+-|+|+||||-.. +. ++..|-.- =+.||+.+. -+-+++++-|..+.+++.|
T Consensus 221 ~lPIVtLVDTpGA~pG~~AEe~Gqa~aIAr~l~ams~l~VPiISVViGeGgSGGAlalg~aD~VlMle~A~ysVis 296 (431)
T PLN03230 221 GFPILTFVDTPGAYAGIKAEELGQGEAIAFNLREMFGLRVPIIATVIGEGGSGGALAIGCGNRMLMMENAVYYVAS 296 (431)
T ss_pred CCCEEEEEeCCCcCCCHHHHHHhHHHHHHHHHHHHhcCCCCEEEEEeCCCCcHHHHHhhcCCEEEEecCCEEEecC
Confidence 346799999999531 11 11111111 124466652 1234688889887765543
No 316
>PLN02398 hydroxyacylglutathione hydrolase
Probab=26.74 E-value=40 Score=27.34 Aligned_cols=14 Identities=14% Similarity=-0.036 Sum_probs=11.5
Q ss_pred CCeeEEEcCCCccc
Q 045003 34 GIKFNFHNCEFYHR 47 (93)
Q Consensus 34 ~~~itFiDTPGHeA 47 (93)
+..+.++.||||..
T Consensus 176 g~~l~vi~tPGHT~ 189 (329)
T PLN02398 176 GHEVLVMETPGHTR 189 (329)
T ss_pred CeEEEEEeCCCcCC
Confidence 45788999999984
No 317
>PRK10241 hydroxyacylglutathione hydrolase; Provisional
Probab=26.39 E-value=45 Score=25.11 Aligned_cols=14 Identities=14% Similarity=0.057 Sum_probs=11.6
Q ss_pred CCeeEEEcCCCccc
Q 045003 34 GIKFNFHNCEFYHR 47 (93)
Q Consensus 34 ~~~itFiDTPGHeA 47 (93)
+..+.++.||||..
T Consensus 99 ~~~~~vi~tPGHT~ 112 (251)
T PRK10241 99 GHEFSVFATPGHTL 112 (251)
T ss_pred CcEEEEEEcCCCCc
Confidence 45789999999965
No 318
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=25.58 E-value=46 Score=26.13 Aligned_cols=16 Identities=0% Similarity=-0.010 Sum_probs=13.0
Q ss_pred CCeeEEEcCCCccccc
Q 045003 34 GIKFNFHNCEFYHRTS 49 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs 49 (93)
+..+++|||||+.-..
T Consensus 154 ~~D~ViIDt~Gr~~~~ 169 (270)
T PRK06731 154 RVDYILIDTAGKNYRA 169 (270)
T ss_pred CCCEEEEECCCCCcCC
Confidence 4689999999998543
No 319
>COG3596 Predicted GTPase [General function prediction only]
Probab=25.41 E-value=35 Score=28.19 Aligned_cols=15 Identities=7% Similarity=0.005 Sum_probs=13.0
Q ss_pred CCCeeEEEcCCCccc
Q 045003 33 GGIKFNFHNCEFYHR 47 (93)
Q Consensus 33 ~~~~itFiDTPGHeA 47 (93)
++..+++.||||-+.
T Consensus 85 ~~~~l~lwDtPG~gd 99 (296)
T COG3596 85 DGENLVLWDTPGLGD 99 (296)
T ss_pred cccceEEecCCCccc
Confidence 468899999999876
No 320
>cd06565 GH20_GcnA-like Glycosyl hydrolase family 20 (GH20) catalytic domain of N-acetyl-beta-D-glucosaminidase (GcnA, also known as BhsA) and related proteins. GcnA is an exoglucosidase which cleaves N-acetyl-beta-D-galactosamine (NAG) and N-acetyl-beta-D-galactosamine residues from 4-methylumbelliferylated (4MU) substrates, as well as cleaving NAG from chito-oligosaccharides (i.e. NAG polymers). In contrast, sulfated forms of the substrate are unable to be cleaved and act instead as mild competitive inhibitors. Additionally, the enzyme is known to be poisoned by several first-row transition metals as well as by mercury. GcnA forms a homodimer with subunits comprised of three domains, an N-terminal zincin-like domain, this central catalytic GH20 domain, and a C-terminal alpha helical domain. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by solvent or the enzyme, but by the substrate itself.
Probab=25.25 E-value=18 Score=28.25 Aligned_cols=13 Identities=0% Similarity=-0.394 Sum_probs=10.1
Q ss_pred eeEEEcCCCcccc
Q 045003 36 KFNFHNCEFYHRT 48 (93)
Q Consensus 36 ~itFiDTPGHeAF 48 (93)
-|=-||||||..+
T Consensus 76 vIPeid~pGH~~~ 88 (301)
T cd06565 76 VIPLIQTLGHLEF 88 (301)
T ss_pred EEecCCCHHHHHH
Confidence 3556899999865
No 321
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=25.21 E-value=45 Score=28.23 Aligned_cols=15 Identities=7% Similarity=0.062 Sum_probs=12.4
Q ss_pred CCeeEEEcCCCcccc
Q 045003 34 GIKFNFHNCEFYHRT 48 (93)
Q Consensus 34 ~~~itFiDTPGHeAF 48 (93)
+..++||||||....
T Consensus 182 ~~DvViIDTaGr~~~ 196 (429)
T TIGR01425 182 NFDIIIVDTSGRHKQ 196 (429)
T ss_pred CCCEEEEECCCCCcc
Confidence 568999999998754
No 322
>KOG0395 consensus Ras-related GTPase [General function prediction only]
Probab=25.04 E-value=54 Score=24.15 Aligned_cols=23 Identities=4% Similarity=-0.106 Sum_probs=16.6
Q ss_pred EEEcCCCCeeEEEcCCCcccccC
Q 045003 28 IGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 28 V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
+..+++...+-++||+|-+.|++
T Consensus 44 ~~v~~~~~~l~ilDt~g~~~~~~ 66 (196)
T KOG0395|consen 44 LTVDGEVCMLEILDTAGQEEFSA 66 (196)
T ss_pred EEECCEEEEEEEEcCCCcccChH
Confidence 33333455677999999888887
No 323
>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=24.64 E-value=62 Score=22.16 Aligned_cols=14 Identities=7% Similarity=-0.142 Sum_probs=11.0
Q ss_pred CCCeeEEEcCCCcc
Q 045003 33 GGIKFNFHNCEFYH 46 (93)
Q Consensus 33 ~~~~itFiDTPGHe 46 (93)
+...++++|||+..
T Consensus 91 ~~~d~viiDtpp~~ 104 (179)
T cd03110 91 EGAELIIIDGPPGI 104 (179)
T ss_pred cCCCEEEEECcCCC
Confidence 45689999999653
No 324
>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=24.61 E-value=1.1e+02 Score=24.37 Aligned_cols=11 Identities=0% Similarity=0.011 Sum_probs=9.5
Q ss_pred CeeEEEcCCCc
Q 045003 35 IKFNFHNCEFY 45 (93)
Q Consensus 35 ~~itFiDTPGH 45 (93)
..+.++||||=
T Consensus 69 v~i~l~D~aGl 79 (318)
T cd01899 69 VPVELIDVAGL 79 (318)
T ss_pred ceEEEEECCCC
Confidence 46999999995
No 325
>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=24.38 E-value=59 Score=21.67 Aligned_cols=11 Identities=0% Similarity=-0.121 Sum_probs=9.2
Q ss_pred eeEEEcCCCcc
Q 045003 36 KFNFHNCEFYH 46 (93)
Q Consensus 36 ~itFiDTPGHe 46 (93)
.++++|||+..
T Consensus 64 d~viiD~p~~~ 74 (179)
T cd02036 64 DYILIDSPAGI 74 (179)
T ss_pred CEEEEECCCCC
Confidence 79999999753
No 326
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=23.99 E-value=48 Score=27.46 Aligned_cols=16 Identities=0% Similarity=-0.145 Sum_probs=13.0
Q ss_pred CCeeEEEcCCCccccc
Q 045003 34 GIKFNFHNCEFYHRTS 49 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs 49 (93)
...+++|||||+..+.
T Consensus 299 ~~DlVlIDt~G~~~~d 314 (424)
T PRK05703 299 DCDVILIDTAGRSQRD 314 (424)
T ss_pred CCCEEEEeCCCCCCCC
Confidence 4689999999996553
No 327
>PRK13231 nitrogenase reductase-like protein; Reviewed
Probab=23.78 E-value=73 Score=23.45 Aligned_cols=14 Identities=7% Similarity=-0.237 Sum_probs=11.3
Q ss_pred CCCeeEEEcCCCcc
Q 045003 33 GGIKFNFHNCEFYH 46 (93)
Q Consensus 33 ~~~~itFiDTPGHe 46 (93)
+...+++|||||+.
T Consensus 112 ~~yD~ViIDt~~~~ 125 (264)
T PRK13231 112 EDIDVVIYDVLGDV 125 (264)
T ss_pred CCCCEEEEecCCCc
Confidence 34679999999965
No 328
>PLN02962 hydroxyacylglutathione hydrolase
Probab=23.75 E-value=71 Score=24.58 Aligned_cols=14 Identities=0% Similarity=-0.121 Sum_probs=11.4
Q ss_pred CCeeEEEcCCCccc
Q 045003 34 GIKFNFHNCEFYHR 47 (93)
Q Consensus 34 ~~~itFiDTPGHeA 47 (93)
+..+.++.||||..
T Consensus 114 ~~~l~vi~tPGHT~ 127 (251)
T PLN02962 114 DLYLEVRATPGHTA 127 (251)
T ss_pred CEEEEEEECCCCCc
Confidence 45788899999975
No 329
>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]
Probab=23.69 E-value=44 Score=28.10 Aligned_cols=30 Identities=7% Similarity=0.178 Sum_probs=20.5
Q ss_pred eeeecceEEEEcCCC--CeeEEEcCCCccccc
Q 045003 20 TQHVGAFVIGMSTGG--IKFNFHNCEFYHRTS 49 (93)
Q Consensus 20 TQhIGA~~V~~~~~~--~~itFiDTPGHeAFs 49 (93)
|=.|-++.+....++ -.+|.+||||--.+-
T Consensus 62 t~~i~~~~~~iee~g~~l~LtvidtPGfGD~v 93 (366)
T KOG2655|consen 62 TVEIESTKVEIEENGVKLNLTVIDTPGFGDAV 93 (366)
T ss_pred cceeeeeeeeecCCCeEEeeEEeccCCCcccc
Confidence 446666666665332 378999999987663
No 330
>PRK07182 flgB flagellar basal body rod protein FlgB; Reviewed
Probab=23.62 E-value=34 Score=24.49 Aligned_cols=8 Identities=13% Similarity=0.144 Sum_probs=7.0
Q ss_pred EcCCCccc
Q 045003 40 HNCEFYHR 47 (93)
Q Consensus 40 iDTPGHeA 47 (93)
.||||+.+
T Consensus 33 adTPGYka 40 (148)
T PRK07182 33 VNTPNFQA 40 (148)
T ss_pred cCCCCCCC
Confidence 69999986
No 331
>PRK12685 flgB flagellar basal body rod protein FlgB; Reviewed
Probab=23.56 E-value=33 Score=23.68 Aligned_cols=11 Identities=9% Similarity=0.012 Sum_probs=8.4
Q ss_pred eEEEcCCCccc
Q 045003 37 FNFHNCEFYHR 47 (93)
Q Consensus 37 itFiDTPGHeA 47 (93)
|-=.||||+.+
T Consensus 30 IANadTPgYk~ 40 (116)
T PRK12685 30 LANAETPGYKA 40 (116)
T ss_pred hhccCCCCcCc
Confidence 34479999986
No 332
>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=23.33 E-value=52 Score=25.37 Aligned_cols=14 Identities=7% Similarity=-0.140 Sum_probs=11.5
Q ss_pred CCCeeEEEcCCCcc
Q 045003 33 GGIKFNFHNCEFYH 46 (93)
Q Consensus 33 ~~~~itFiDTPGHe 46 (93)
.+..++|+||||..
T Consensus 125 ~g~D~viidT~G~~ 138 (300)
T TIGR00750 125 AGYDVIIVETVGVG 138 (300)
T ss_pred CCCCEEEEeCCCCc
Confidence 46799999999854
No 333
>KOG0080 consensus GTPase Rab18, small G protein superfamily [General function prediction only]
Probab=23.18 E-value=1.5e+02 Score=23.56 Aligned_cols=41 Identities=12% Similarity=0.015 Sum_probs=26.6
Q ss_pred ceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhccc
Q 045003 19 ITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNF 59 (93)
Q Consensus 19 ITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa 59 (93)
|--+...-++..+++.-|+.+-||.|.|.|-.+..-==|||
T Consensus 44 IGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRga 84 (209)
T KOG0080|consen 44 IGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGA 84 (209)
T ss_pred eeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccC
Confidence 33343444444556677999999999999976544334444
No 334
>PRK12288 GTPase RsgA; Reviewed
Probab=23.14 E-value=70 Score=25.86 Aligned_cols=14 Identities=7% Similarity=-0.104 Sum_probs=11.6
Q ss_pred eEEEcCCCcccccC
Q 045003 37 FNFHNCEFYHRTSL 50 (93)
Q Consensus 37 itFiDTPGHeAFs~ 50 (93)
..+|||||=..|..
T Consensus 259 ~~liDTPGir~~~l 272 (347)
T PRK12288 259 GDLIDSPGVREFGL 272 (347)
T ss_pred CEEEECCCCCcccC
Confidence 46999999888864
No 335
>COG0616 SppA Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=23.07 E-value=49 Score=26.29 Aligned_cols=38 Identities=11% Similarity=-0.007 Sum_probs=26.8
Q ss_pred CeeEEEcCCCcccccC------chhhhhcc-cEeEEeccccccee
Q 045003 35 IKFNFHNCEFYHRTSL------FFFVQLRN-FVIVLRKNNCQGTY 72 (93)
Q Consensus 35 ~~itFiDTPGHeAFs~------f~~mR~RG-a~iv~~~~~~~~~~ 72 (93)
.-++-|||||=.++.+ +..+|+++ ++|.++..-|.+-|
T Consensus 100 ~vvL~inSPGG~v~as~~i~~~l~~l~~~~PV~v~v~~~AASGGY 144 (317)
T COG0616 100 AVVLRINSPGGSVVASELIARALKRLRAKKPVVVSVGGYAASGGY 144 (317)
T ss_pred eEEEEEECcCCchhHHHHHHHHHHHHhhcCCEEEEECCeecchhh
Confidence 3578899999877654 44677887 77777776555544
No 336
>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]
Probab=22.90 E-value=42 Score=29.90 Aligned_cols=15 Identities=7% Similarity=-0.053 Sum_probs=12.9
Q ss_pred CCeeEEEcCCCcccc
Q 045003 34 GIKFNFHNCEFYHRT 48 (93)
Q Consensus 34 ~~~itFiDTPGHeAF 48 (93)
.+-|||||..|||.+
T Consensus 218 aKviTFIDLAGHEkY 232 (641)
T KOG0463|consen 218 AKVITFIDLAGHEKY 232 (641)
T ss_pred ceeEEEEeccchhhh
Confidence 457999999999975
No 337
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=22.79 E-value=94 Score=21.62 Aligned_cols=29 Identities=7% Similarity=0.069 Sum_probs=17.8
Q ss_pred CCeeEEEcCCCcccccCchhhhhcccEeEE
Q 045003 34 GIKFNFHNCEFYHRTSLFFFVQLRNFVIVL 63 (93)
Q Consensus 34 ~~~itFiDTPGHeAFs~f~~mR~RGa~iv~ 63 (93)
+..+.||||||-..-. +..++..--.||+
T Consensus 91 ~~D~iiIDtaG~~~~~-~~~~~~Ad~~ivv 119 (148)
T cd03114 91 GFDVIIVETVGVGQSE-VDIASMADTTVVV 119 (148)
T ss_pred CCCEEEEECCccChhh-hhHHHhCCEEEEE
Confidence 5689999999976433 2344544433333
No 338
>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]
Probab=22.54 E-value=69 Score=27.22 Aligned_cols=27 Identities=0% Similarity=-0.038 Sum_probs=17.2
Q ss_pred ecceEEEEcCC--CCeeEEEcCCCccccc
Q 045003 23 VGAFVIGMSTG--GIKFNFHNCEFYHRTS 49 (93)
Q Consensus 23 IGA~~V~~~~~--~~~itFiDTPGHeAFs 49 (93)
|--+.+....+ .-.++.|||||--.|-
T Consensus 68 i~~~~~~l~e~~~~~~l~vIDtpGfGD~i 96 (373)
T COG5019 68 IKITKAELEEDGFHLNLTVIDTPGFGDFI 96 (373)
T ss_pred EEeeeeeeecCCeEEEEEEeccCCccccc
Confidence 44444444323 3479999999988774
No 339
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=22.10 E-value=55 Score=27.13 Aligned_cols=17 Identities=0% Similarity=-0.148 Sum_probs=13.3
Q ss_pred CCCeeEEEcCCCccccc
Q 045003 33 GGIKFNFHNCEFYHRTS 49 (93)
Q Consensus 33 ~~~~itFiDTPGHeAFs 49 (93)
.++.+++|||||..-..
T Consensus 214 ~~~DlVLIDTaG~~~~d 230 (374)
T PRK14722 214 RNKHMVLIDTIGMSQRD 230 (374)
T ss_pred cCCCEEEEcCCCCCccc
Confidence 35689999999987543
No 340
>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.
Probab=21.83 E-value=99 Score=22.41 Aligned_cols=13 Identities=8% Similarity=-0.090 Sum_probs=10.9
Q ss_pred CCeeEEEcCCCcc
Q 045003 34 GIKFNFHNCEFYH 46 (93)
Q Consensus 34 ~~~itFiDTPGHe 46 (93)
...+++|||||+.
T Consensus 116 ~yD~viID~~g~~ 128 (270)
T cd02040 116 DLDFVIYDVLGDV 128 (270)
T ss_pred CCCEEEEecccCc
Confidence 4678999999975
No 341
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=21.83 E-value=57 Score=27.87 Aligned_cols=15 Identities=0% Similarity=-0.232 Sum_probs=12.2
Q ss_pred CCeeEEEcCCCcccc
Q 045003 34 GIKFNFHNCEFYHRT 48 (93)
Q Consensus 34 ~~~itFiDTPGHeAF 48 (93)
+..+++|||||+...
T Consensus 285 ~~D~VLIDTAGr~~~ 299 (407)
T PRK12726 285 CVDHILIDTVGRNYL 299 (407)
T ss_pred CCCEEEEECCCCCcc
Confidence 468999999999543
No 342
>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]
Probab=21.29 E-value=87 Score=24.55 Aligned_cols=38 Identities=13% Similarity=0.087 Sum_probs=25.1
Q ss_pred EEEEcCCCCeeEEEcCCCcccccCchhh--hhcccEeEEe
Q 045003 27 VIGMSTGGIKFNFHNCEFYHRTSLFFFV--QLRNFVIVLR 64 (93)
Q Consensus 27 ~V~~~~~~~~itFiDTPGHeAFs~f~~m--R~RGa~iv~~ 64 (93)
+|+.+++.-++-+-||.|.|.|+.+.+- |..-.+|||-
T Consensus 49 Tv~i~G~~VkLqIwDtAGqErFrtitstyyrgthgv~vVY 88 (198)
T KOG0079|consen 49 TVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHGVIVVY 88 (198)
T ss_pred EeecCCcEEEEEEeecccHHHHHHHHHHHccCCceEEEEE
Confidence 4455556668899999999999864432 3344455553
No 343
>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=21.16 E-value=65 Score=22.41 Aligned_cols=13 Identities=0% Similarity=-0.299 Sum_probs=10.8
Q ss_pred CCeeEEEcCCCcc
Q 045003 34 GIKFNFHNCEFYH 46 (93)
Q Consensus 34 ~~~itFiDTPGHe 46 (93)
.+...||||||=.
T Consensus 86 ~~d~I~IEt~G~~ 98 (158)
T cd03112 86 AFDRIVIETTGLA 98 (158)
T ss_pred CCCEEEEECCCcC
Confidence 5678999999964
No 344
>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=21.08 E-value=82 Score=24.22 Aligned_cols=40 Identities=10% Similarity=0.002 Sum_probs=23.1
Q ss_pred CCcCcccC--cceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003 10 SVVAKEAG--GITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL 50 (93)
Q Consensus 10 ~Va~~EaG--GITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~ 50 (93)
+..+.|.. |-|+++---.+... +.-.+.+.|.||+.+|-.
T Consensus 22 ~~~p~dT~~L~~T~~ve~~~v~~~-~~~~l~iwD~pGq~~~~~ 63 (232)
T PF04670_consen 22 KYSPRDTLRLEPTIDVEKSHVRFL-SFLPLNIWDCPGQDDFME 63 (232)
T ss_dssp ---GGGGGG-----SEEEEEEECT-TSCEEEEEEE-SSCSTTH
T ss_pred CCCchhccccCCcCCceEEEEecC-CCcEEEEEEcCCcccccc
Confidence 55566666 56777776666543 456899999999998743
No 345
>KOG2499 consensus Beta-N-acetylhexosaminidase [Carbohydrate transport and metabolism]
Probab=21.07 E-value=38 Score=30.16 Aligned_cols=10 Identities=0% Similarity=-0.410 Sum_probs=7.6
Q ss_pred EEEcCCCccc
Q 045003 38 NFHNCEFYHR 47 (93)
Q Consensus 38 tFiDTPGHeA 47 (93)
-=+|||||.-
T Consensus 268 pEfD~PgHt~ 277 (542)
T KOG2499|consen 268 PEFDTPGHTG 277 (542)
T ss_pred ecccCCcccc
Confidence 3479999973
No 346
>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=20.99 E-value=44 Score=25.36 Aligned_cols=13 Identities=0% Similarity=-0.108 Sum_probs=9.2
Q ss_pred eeEEEcCCCcccc
Q 045003 36 KFNFHNCEFYHRT 48 (93)
Q Consensus 36 ~itFiDTPGHeAF 48 (93)
...++||||..-|
T Consensus 92 ~y~l~DtPGQiEl 104 (238)
T PF03029_consen 92 DYLLFDTPGQIEL 104 (238)
T ss_dssp SEEEEE--SSHHH
T ss_pred cEEEEeCCCCEEE
Confidence 7899999998765
No 347
>PRK10319 N-acetylmuramoyl-l-alanine amidase I; Provisional
Probab=20.89 E-value=68 Score=25.52 Aligned_cols=13 Identities=8% Similarity=0.107 Sum_probs=8.7
Q ss_pred hhhhcccEeEEec
Q 045003 53 FVQLRNFVIVLRK 65 (93)
Q Consensus 53 ~mR~RGa~iv~~~ 65 (93)
.++++|+.|++-.
T Consensus 94 ~L~~~G~~V~lTR 106 (287)
T PRK10319 94 ILRNHGIDARLTR 106 (287)
T ss_pred HHHHCCCEEEEeC
Confidence 3566788877755
No 348
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=20.77 E-value=69 Score=26.84 Aligned_cols=14 Identities=14% Similarity=0.188 Sum_probs=11.3
Q ss_pred CCeeEEEcCCC-ccc
Q 045003 34 GIKFNFHNCEF-YHR 47 (93)
Q Consensus 34 ~~~itFiDTPG-HeA 47 (93)
+..+.|++||| |-.
T Consensus 135 ~~~l~~i~tP~~H~p 149 (479)
T PRK05452 135 GKQLIFVETPMLHWP 149 (479)
T ss_pred CcEEEEEECCCCCCC
Confidence 46799999997 864
No 349
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=20.42 E-value=66 Score=25.73 Aligned_cols=13 Identities=8% Similarity=0.061 Sum_probs=10.9
Q ss_pred CCeeEEEcCCC-cc
Q 045003 34 GIKFNFHNCEF-YH 46 (93)
Q Consensus 34 ~~~itFiDTPG-He 46 (93)
+.++.|+.||| |.
T Consensus 131 ~~~l~~i~tP~~H~ 144 (394)
T PRK11921 131 SNELIFIEAPMLHW 144 (394)
T ss_pred CeEEEEEeCCCCCC
Confidence 56899999998 83
Done!