Query psy3587
Match_columns 195
No_of_seqs 136 out of 1196
Neff 6.9
Searched_HMMs 46136
Date Fri Aug 16 20:25:34 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3587.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3587hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1424|consensus 100.0 1E-44 2.2E-49 326.1 11.3 163 22-185 316-487 (562)
2 KOG2484|consensus 100.0 9.4E-40 2E-44 287.0 8.7 152 22-176 254-407 (435)
3 KOG2423|consensus 100.0 1.2E-39 2.5E-44 286.5 8.1 165 11-178 295-464 (572)
4 PRK09563 rbgA GTPase YlqF; Rev 100.0 4.7E-35 1E-39 252.0 13.8 149 22-173 123-279 (287)
5 TIGR03596 GTPase_YlqF ribosome 100.0 1.2E-33 2.7E-38 241.8 13.4 148 22-172 120-275 (276)
6 COG1161 Predicted GTPases [Gen 100.0 3.3E-34 7.1E-39 250.7 9.8 156 21-177 133-300 (322)
7 KOG2485|consensus 99.9 3.1E-22 6.6E-27 172.3 8.7 154 16-170 139-318 (335)
8 cd04178 Nucleostemin_like Nucl 99.6 1.1E-16 2.5E-21 128.6 3.0 52 22-73 119-172 (172)
9 cd01857 HSR1_MMR1 HSR1/MMR1. 99.6 7.8E-16 1.7E-20 119.0 3.7 55 22-76 85-141 (141)
10 cd01858 NGP_1 NGP-1. Autoanti 99.6 7.3E-16 1.6E-20 120.9 2.9 52 22-73 104-157 (157)
11 cd01849 YlqF_related_GTPase Yl 99.4 1.9E-13 4.1E-18 107.1 3.0 54 20-73 100-155 (155)
12 cd01855 YqeH YqeH. YqeH is an 99.3 5.3E-13 1.2E-17 107.6 2.3 53 21-73 128-190 (190)
13 PRK13796 GTPase YqeH; Provisio 99.3 1.1E-12 2.5E-17 116.7 2.8 58 20-77 160-224 (365)
14 PF02421 FeoB_N: Ferrous iron 99.2 2.9E-12 6.2E-17 101.7 1.4 59 22-81 2-65 (156)
15 cd01856 YlqF YlqF. Proteins o 99.2 8.8E-12 1.9E-16 99.2 2.8 53 22-74 117-171 (171)
16 TIGR03597 GTPase_YqeH ribosome 99.1 1.4E-11 3.1E-16 109.4 2.4 57 21-77 155-218 (360)
17 cd01859 MJ1464 MJ1464. This f 99.1 2.2E-11 4.7E-16 95.0 3.2 53 21-73 102-156 (156)
18 PF01926 MMR_HSR1: 50S ribosom 99.1 2.3E-11 5E-16 90.3 2.7 56 22-77 1-61 (116)
19 COG0218 Predicted GTPase [Gene 99.1 2.7E-11 5.8E-16 99.3 2.9 59 22-80 26-87 (200)
20 PRK12289 GTPase RsgA; Reviewed 99.1 3.8E-11 8.3E-16 106.5 3.5 59 20-78 172-239 (352)
21 COG1159 Era GTPase [General fu 99.1 4.2E-11 9.2E-16 103.1 3.1 57 22-78 8-69 (298)
22 KOG1424|consensus 99.1 4.7E-11 1E-15 108.9 2.4 50 1-50 339-388 (562)
23 TIGR00157 ribosome small subun 99.1 3.6E-11 7.9E-16 101.6 1.3 76 3-80 102-188 (245)
24 PRK12288 GTPase RsgA; Reviewed 99.0 1.9E-10 4.2E-15 101.9 3.0 59 20-78 205-272 (347)
25 COG1160 Predicted GTPases [Gen 99.0 2E-10 4.4E-15 103.7 2.3 57 21-77 4-65 (444)
26 KOG1423|consensus 99.0 3.9E-10 8.5E-15 97.8 3.8 58 22-79 74-136 (379)
27 PRK12298 obgE GTPase CgtA; Rev 98.9 7.4E-10 1.6E-14 99.6 5.0 70 7-78 145-222 (390)
28 TIGR00436 era GTP-binding prot 98.9 1.3E-09 2.9E-14 92.8 3.3 56 22-77 2-62 (270)
29 cd01852 AIG1 AIG1 (avrRpt2-ind 98.8 2.3E-09 4.9E-14 86.9 3.8 57 22-78 2-64 (196)
30 COG1084 Predicted GTPase [Gene 98.8 2.1E-09 4.6E-14 93.8 2.8 67 12-79 159-231 (346)
31 KOG2423|consensus 98.8 4.4E-10 9.6E-15 100.3 -1.4 92 1-110 332-427 (572)
32 PRK00098 GTPase RsgA; Reviewed 98.8 2E-09 4.4E-14 93.3 1.5 72 3-75 146-228 (298)
33 PRK09601 GTP-binding protein Y 98.8 4.1E-09 8.9E-14 93.9 2.9 55 21-76 3-79 (364)
34 cd01900 YchF YchF subfamily. 98.7 3.7E-09 8.1E-14 90.9 2.3 54 23-77 1-76 (274)
35 PRK00454 engB GTP-binding prot 98.7 6E-09 1.3E-13 83.2 2.8 56 22-77 26-84 (196)
36 COG0486 ThdF Predicted GTPase 98.7 5.2E-09 1.1E-13 94.9 2.7 54 22-75 219-277 (454)
37 PRK12299 obgE GTPase CgtA; Rev 98.7 1E-08 2.2E-13 90.5 4.5 69 7-76 144-219 (335)
38 PTZ00258 GTP-binding protein; 98.7 6.9E-09 1.5E-13 93.3 3.2 55 22-77 23-99 (390)
39 TIGR03598 GTPase_YsxC ribosome 98.7 8.2E-09 1.8E-13 82.2 3.2 56 22-77 20-78 (179)
40 TIGR03594 GTPase_EngA ribosome 98.7 7.9E-09 1.7E-13 92.9 3.0 54 22-75 1-59 (429)
41 PRK12297 obgE GTPase CgtA; Rev 98.7 1.6E-08 3.4E-13 92.0 4.4 67 7-75 144-218 (424)
42 PRK12296 obgE GTPase CgtA; Rev 98.6 3.7E-08 8.1E-13 91.0 4.4 69 7-76 145-219 (500)
43 cd01853 Toc34_like Toc34-like 98.6 2.8E-08 6E-13 84.4 2.8 60 18-77 29-93 (249)
44 PRK00089 era GTPase Era; Revie 98.6 3.2E-08 6.9E-13 84.9 3.2 56 22-77 7-67 (292)
45 PRK04213 GTP-binding protein; 98.6 3E-08 6.5E-13 79.9 2.8 51 21-73 10-62 (201)
46 PRK15494 era GTPase Era; Provi 98.6 4.7E-08 1E-12 86.3 3.7 55 22-76 54-113 (339)
47 TIGR02729 Obg_CgtA Obg family 98.5 7.5E-08 1.6E-12 84.8 4.6 69 7-76 143-218 (329)
48 COG1160 Predicted GTPases [Gen 98.5 5.8E-08 1.3E-12 88.0 3.5 56 22-77 180-240 (444)
49 KOG1191|consensus 98.5 3.1E-08 6.8E-13 90.4 1.2 61 15-75 263-328 (531)
50 PRK03003 GTP-binding protein D 98.5 7E-08 1.5E-12 88.6 3.0 54 21-74 39-97 (472)
51 cd01854 YjeQ_engC YjeQ/EngC. 98.5 6.3E-08 1.4E-12 83.6 2.5 58 20-77 161-227 (287)
52 PRK00093 GTP-binding protein D 98.5 7.1E-08 1.5E-12 87.1 2.8 55 21-75 2-61 (435)
53 cd01898 Obg Obg subfamily. Th 98.4 9.3E-08 2E-12 74.3 2.3 52 22-74 2-59 (170)
54 PRK05291 trmE tRNA modificatio 98.4 1.1E-07 2.4E-12 86.9 2.8 55 21-75 216-275 (449)
55 PRK09518 bifunctional cytidyla 98.4 1.1E-07 2.5E-12 91.3 2.3 54 22-75 277-335 (712)
56 TIGR00450 mnmE_trmE_thdF tRNA 98.4 1.5E-07 3.3E-12 85.9 2.8 56 20-75 203-263 (442)
57 COG0370 FeoB Fe2+ transport sy 98.4 2.6E-07 5.6E-12 87.2 4.0 56 21-77 4-64 (653)
58 TIGR03156 GTP_HflX GTP-binding 98.4 1.8E-07 4E-12 83.0 2.8 53 21-74 190-248 (351)
59 TIGR00991 3a0901s02IAP34 GTP-b 98.4 2.1E-07 4.5E-12 81.4 3.1 56 22-77 40-100 (313)
60 PRK11058 GTPase HflX; Provisio 98.4 1.8E-07 3.8E-12 85.2 2.7 52 22-74 199-256 (426)
61 PRK00093 GTP-binding protein D 98.4 1.9E-07 4.1E-12 84.3 2.9 57 21-77 174-235 (435)
62 cd01897 NOG NOG1 is a nucleola 98.4 2.4E-07 5.1E-12 71.9 2.9 52 22-74 2-58 (168)
63 PRK09554 feoB ferrous iron tra 98.4 1.9E-07 4.1E-12 90.5 2.8 54 21-75 4-62 (772)
64 cd01879 FeoB Ferrous iron tran 98.3 1.6E-07 3.6E-12 71.7 1.3 50 25-75 1-55 (158)
65 cd04164 trmE TrmE (MnmE, ThdF, 98.3 3E-07 6.6E-12 69.8 2.6 54 22-75 3-61 (157)
66 cd04163 Era Era subfamily. Er 98.3 4.6E-07 9.9E-12 68.8 3.2 56 22-77 5-65 (168)
67 TIGR00993 3a0901s04IAP86 chlor 98.3 4.7E-07 1E-11 85.9 3.7 58 22-79 120-182 (763)
68 cd01876 YihA_EngB The YihA (En 98.3 4.1E-07 8.8E-12 69.4 2.8 55 22-76 1-58 (170)
69 cd01894 EngA1 EngA1 subfamily. 98.3 2.8E-07 6E-12 70.1 1.3 52 24-75 1-57 (157)
70 PRK03003 GTP-binding protein D 98.3 3.7E-07 8E-12 83.9 2.4 54 21-74 212-270 (472)
71 PRK09602 translation-associate 98.3 4.7E-07 1E-11 81.7 2.5 54 22-76 3-85 (396)
72 cd01881 Obg_like The Obg-like 98.2 4.1E-07 8.8E-12 70.8 1.2 49 25-74 1-55 (176)
73 TIGR03594 GTPase_EngA ribosome 98.2 7.2E-07 1.6E-11 80.2 2.5 55 22-76 174-233 (429)
74 PRK09518 bifunctional cytidyla 98.2 8.8E-07 1.9E-11 85.2 2.8 54 21-74 451-509 (712)
75 PF03193 DUF258: Protein of un 98.2 3.8E-07 8.3E-12 72.8 0.2 60 20-79 35-103 (161)
76 cd01895 EngA2 EngA2 subfamily. 98.1 1.4E-06 3.1E-11 66.9 2.5 55 22-76 4-63 (174)
77 cd01896 DRG The developmentall 98.1 1.5E-06 3.3E-11 72.8 2.7 53 22-75 2-59 (233)
78 cd01899 Ygr210 Ygr210 subfamil 98.1 1.6E-06 3.5E-11 76.1 2.1 53 23-76 1-82 (318)
79 TIGR00231 small_GTP small GTP- 98.0 3.3E-06 7.1E-11 63.1 2.9 52 21-73 2-60 (161)
80 PRK01889 GTPase RsgA; Reviewed 98.0 6.1E-07 1.3E-11 79.8 -1.4 61 20-80 195-264 (356)
81 PLN03118 Rab family protein; P 98.0 2.1E-06 4.5E-11 70.1 1.8 60 15-74 9-73 (211)
82 KOG1490|consensus 98.0 4.4E-06 9.5E-11 76.9 2.6 60 22-81 170-233 (620)
83 cd04171 SelB SelB subfamily. 97.9 4.4E-06 9.4E-11 64.0 2.2 52 22-73 2-61 (164)
84 PF04548 AIG1: AIG1 family; I 97.9 2.8E-06 6.1E-11 70.0 0.9 59 22-80 2-66 (212)
85 cd00154 Rab Rab family. Rab G 97.9 4.8E-06 1E-10 62.7 2.0 53 22-74 2-60 (159)
86 TIGR00437 feoB ferrous iron tr 97.9 4E-06 8.6E-11 79.3 1.9 48 27-75 1-53 (591)
87 cd01863 Rab18 Rab18 subfamily. 97.9 9.1E-06 2E-10 62.5 2.6 52 22-73 2-59 (161)
88 cd01887 IF2_eIF5B IF2/eIF5B (i 97.9 6.2E-06 1.3E-10 63.7 1.7 52 22-74 2-61 (168)
89 cd01851 GBP Guanylate-binding 97.8 1.2E-05 2.7E-10 67.0 3.2 59 22-80 9-77 (224)
90 TIGR00092 GTP-binding protein 97.8 1.4E-05 2.9E-10 71.6 3.1 56 21-76 3-80 (368)
91 cd01860 Rab5_related Rab5-rela 97.8 1.2E-05 2.7E-10 61.8 2.4 52 22-73 3-60 (163)
92 cd00880 Era_like Era (E. coli 97.8 1.1E-05 2.3E-10 60.2 1.9 54 25-78 1-60 (163)
93 COG1163 DRG Predicted GTPase [ 97.8 9.4E-06 2E-10 71.2 1.7 50 22-77 65-124 (365)
94 KOG1489|consensus 97.8 2.1E-05 4.5E-10 69.0 3.8 56 22-78 198-259 (366)
95 cd01866 Rab2 Rab2 subfamily. 97.8 1.4E-05 3.1E-10 62.5 2.5 53 21-73 5-63 (168)
96 cd01878 HflX HflX subfamily. 97.8 1.3E-05 2.9E-10 64.6 2.1 54 21-75 42-101 (204)
97 cd04156 ARLTS1 ARLTS1 subfamil 97.8 1.5E-05 3.3E-10 61.2 2.3 51 22-74 1-55 (160)
98 cd01868 Rab11_like Rab11-like. 97.7 1.7E-05 3.7E-10 61.3 2.5 54 21-74 4-63 (165)
99 KOG2484|consensus 97.7 1.2E-05 2.5E-10 72.2 1.6 48 1-48 277-328 (435)
100 cd01861 Rab6 Rab6 subfamily. 97.7 1.7E-05 3.8E-10 60.8 2.4 51 22-73 2-59 (161)
101 COG0536 Obg Predicted GTPase [ 97.7 2.8E-05 6.1E-10 68.6 3.8 156 7-164 145-337 (369)
102 PRK15467 ethanolamine utilizat 97.7 1.9E-05 4.1E-10 62.0 2.1 48 21-77 2-51 (158)
103 cd01867 Rab8_Rab10_Rab13_like 97.7 2.3E-05 5E-10 61.1 2.5 54 21-74 4-63 (167)
104 cd00878 Arf_Arl Arf (ADP-ribos 97.7 2.5E-05 5.4E-10 60.0 2.5 51 22-74 1-54 (158)
105 cd04157 Arl6 Arl6 subfamily. 97.7 2.5E-05 5.3E-10 59.9 2.4 51 22-74 1-56 (162)
106 cd00881 GTP_translation_factor 97.6 1.5E-05 3.2E-10 62.5 0.8 53 22-74 1-73 (189)
107 cd04119 RJL RJL (RabJ-Like) su 97.6 3.2E-05 7E-10 59.3 2.3 52 22-73 2-59 (168)
108 cd04166 CysN_ATPS CysN_ATPS su 97.6 1.3E-05 2.8E-10 65.6 0.0 52 22-73 1-87 (208)
109 smart00175 RAB Rab subfamily o 97.6 3.3E-05 7.2E-10 59.2 2.3 52 22-73 2-59 (164)
110 cd04154 Arl2 Arl2 subfamily. 97.6 3.6E-05 7.9E-10 60.4 2.4 52 21-74 15-69 (173)
111 cd04145 M_R_Ras_like M-Ras/R-R 97.6 4.4E-05 9.5E-10 58.6 2.5 51 22-74 4-61 (164)
112 cd04153 Arl5_Arl8 Arl5/Arl8 su 97.6 4.7E-05 1E-09 60.1 2.5 52 21-74 16-70 (174)
113 COG3596 Predicted GTPase [Gene 97.5 2.4E-05 5.3E-10 67.3 0.6 59 22-81 41-105 (296)
114 cd04160 Arfrp1 Arfrp1 subfamil 97.5 5.9E-05 1.3E-09 58.3 2.7 53 22-74 1-61 (167)
115 cd04113 Rab4 Rab4 subfamily. 97.5 5E-05 1.1E-09 58.4 2.2 52 22-73 2-59 (161)
116 cd04104 p47_IIGP_like p47 (47- 97.5 9.3E-05 2E-09 60.0 3.6 57 22-78 3-67 (197)
117 smart00178 SAR Sar1p-like memb 97.5 5E-05 1.1E-09 60.7 2.0 53 20-74 17-72 (184)
118 cd04155 Arl3 Arl3 subfamily. 97.5 5.8E-05 1.3E-09 58.8 2.2 52 20-73 14-68 (173)
119 cd01864 Rab19 Rab19 subfamily. 97.5 6.5E-05 1.4E-09 58.2 2.4 53 21-73 4-62 (165)
120 cd01862 Rab7 Rab7 subfamily. 97.5 6.8E-05 1.5E-09 58.0 2.5 52 22-73 2-59 (172)
121 cd04151 Arl1 Arl1 subfamily. 97.4 9.7E-05 2.1E-09 56.9 2.9 51 22-74 1-54 (158)
122 cd04137 RheB Rheb (Ras Homolog 97.4 4.1E-05 8.9E-10 60.2 0.8 53 21-74 2-60 (180)
123 KOG2486|consensus 97.4 0.0001 2.2E-09 63.7 3.1 56 22-77 138-197 (320)
124 cd04118 Rab24 Rab24 subfamily. 97.4 7.2E-05 1.6E-09 59.7 2.1 53 22-74 2-61 (193)
125 cd04161 Arl2l1_Arl13_like Arl2 97.4 0.00011 2.3E-09 57.7 3.0 50 22-73 1-53 (167)
126 cd01890 LepA LepA subfamily. 97.4 2.9E-05 6.4E-10 60.8 -0.2 54 21-74 1-78 (179)
127 cd04138 H_N_K_Ras_like H-Ras/N 97.4 8.5E-05 1.8E-09 56.6 2.4 51 22-73 3-59 (162)
128 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 97.4 9.3E-05 2E-09 57.3 2.6 52 21-73 3-61 (166)
129 cd04177 RSR1 RSR1 subgroup. R 97.4 0.0001 2.2E-09 57.5 2.4 53 21-74 2-60 (168)
130 COG0012 Predicted GTPase, prob 97.4 4.7E-05 1E-09 67.9 0.4 54 22-76 4-80 (372)
131 cd00876 Ras Ras family. The R 97.4 0.00011 2.4E-09 55.9 2.2 52 22-75 1-59 (160)
132 cd01889 SelB_euk SelB subfamil 97.3 5.2E-05 1.1E-09 60.9 0.4 52 22-73 2-78 (192)
133 cd01865 Rab3 Rab3 subfamily. 97.3 0.00012 2.6E-09 56.9 2.4 53 22-74 3-61 (165)
134 cd04110 Rab35 Rab35 subfamily. 97.3 0.00013 2.9E-09 59.0 2.6 54 21-74 7-66 (199)
135 smart00173 RAS Ras subfamily o 97.3 0.00014 3E-09 56.0 2.3 52 22-74 2-59 (164)
136 cd04122 Rab14 Rab14 subfamily. 97.3 0.00016 3.4E-09 56.2 2.5 53 22-74 4-62 (166)
137 cd04112 Rab26 Rab26 subfamily. 97.3 0.00016 3.6E-09 57.9 2.7 52 22-73 2-60 (191)
138 COG1162 Predicted GTPases [Gen 97.3 0.00018 4E-09 62.6 3.1 59 20-78 164-231 (301)
139 cd04142 RRP22 RRP22 subfamily. 97.3 0.00016 3.5E-09 58.9 2.5 52 22-74 2-60 (198)
140 TIGR02528 EutP ethanolamine ut 97.3 0.00011 2.3E-09 55.6 1.3 42 22-73 2-45 (142)
141 cd04136 Rap_like Rap-like subf 97.2 0.00018 3.9E-09 55.1 2.3 53 21-74 2-60 (163)
142 cd04149 Arf6 Arf6 subfamily. 97.2 0.0002 4.3E-09 56.4 2.6 52 21-74 10-64 (168)
143 cd04125 RabA_like RabA-like su 97.2 0.00017 3.7E-09 57.4 2.3 52 22-73 2-59 (188)
144 cd01891 TypA_BipA TypA (tyrosi 97.2 0.00011 2.4E-09 59.0 1.2 54 21-74 3-76 (194)
145 cd04152 Arl4_Arl7 Arl4/Arl7 su 97.2 0.00022 4.7E-09 56.9 2.7 52 22-73 5-62 (183)
146 cd04139 RalA_RalB RalA/RalB su 97.2 0.0002 4.3E-09 54.7 2.2 52 22-74 2-59 (164)
147 cd04106 Rab23_lke Rab23-like s 97.2 0.00015 3.2E-09 55.6 1.5 52 22-73 2-61 (162)
148 cd00879 Sar1 Sar1 subfamily. 97.2 0.00025 5.3E-09 56.3 2.7 53 20-74 19-74 (190)
149 cd01850 CDC_Septin CDC/Septin. 97.2 0.00021 4.6E-09 61.4 2.4 55 21-75 5-75 (276)
150 cd04144 Ras2 Ras2 subfamily. 97.2 0.00023 5.1E-09 56.9 2.2 51 22-73 1-57 (190)
151 cd04159 Arl10_like Arl10-like 97.2 0.00038 8.2E-09 52.3 3.2 50 23-73 2-54 (159)
152 cd04116 Rab9 Rab9 subfamily. 97.1 0.00026 5.6E-09 55.0 2.2 53 21-73 6-64 (170)
153 cd04135 Tc10 TC10 subfamily. 97.1 0.00031 6.7E-09 54.7 2.6 52 22-74 2-59 (174)
154 cd04123 Rab21 Rab21 subfamily. 97.1 0.00032 6.9E-09 53.4 2.5 52 22-74 2-60 (162)
155 COG1161 Predicted GTPases [Gen 97.1 0.00038 8.2E-09 61.2 3.2 35 1-35 157-191 (322)
156 PLN03110 Rab GTPase; Provision 97.1 0.00025 5.3E-09 58.4 1.8 54 21-74 13-72 (216)
157 cd04114 Rab30 Rab30 subfamily. 97.1 0.00022 4.8E-09 55.2 1.4 55 19-73 6-66 (169)
158 cd04158 ARD1 ARD1 subfamily. 97.1 0.00046 1E-08 54.0 3.2 49 22-74 1-54 (169)
159 PRK12317 elongation factor 1-a 97.1 0.00019 4.2E-09 64.9 1.1 52 22-73 8-94 (425)
160 cd04176 Rap2 Rap2 subgroup. T 97.1 0.00035 7.5E-09 53.8 2.4 51 22-73 3-59 (163)
161 cd00157 Rho Rho (Ras homology) 97.1 0.00035 7.6E-09 53.9 2.4 53 22-75 2-60 (171)
162 CHL00071 tufA elongation facto 97.1 0.00015 3.3E-09 65.5 0.3 53 21-73 13-85 (409)
163 cd04140 ARHI_like ARHI subfami 97.0 0.00041 8.8E-09 53.9 2.4 53 21-74 2-60 (165)
164 smart00174 RHO Rho (Ras homolo 97.0 0.00038 8.1E-09 54.2 2.2 51 23-74 1-57 (174)
165 PTZ00133 ADP-ribosylation fact 97.0 0.00048 1E-08 55.0 2.6 51 21-73 18-71 (182)
166 cd04124 RabL2 RabL2 subfamily. 97.0 0.0005 1.1E-08 53.3 2.5 52 22-73 2-59 (161)
167 cd01893 Miro1 Miro1 subfamily. 97.0 0.00025 5.5E-09 55.2 0.8 53 22-74 2-58 (166)
168 cd04117 Rab15 Rab15 subfamily. 97.0 0.00048 1E-08 53.5 2.3 52 22-73 2-59 (161)
169 cd04115 Rab33B_Rab33A Rab33B/R 96.9 0.00046 1E-08 53.9 2.1 54 21-74 3-62 (170)
170 TIGR00487 IF-2 translation ini 96.9 0.00042 9.2E-09 65.6 2.2 53 21-74 88-146 (587)
171 KOG1491|consensus 96.9 0.00024 5.2E-09 62.9 0.5 54 22-76 22-97 (391)
172 cd04127 Rab27A Rab27a subfamil 96.9 0.00056 1.2E-08 53.6 2.4 53 21-73 5-73 (180)
173 cd04150 Arf1_5_like Arf1-Arf5- 96.9 0.00082 1.8E-08 52.2 3.2 50 22-73 2-54 (159)
174 cd04101 RabL4 RabL4 (Rab-like4 96.9 0.00059 1.3E-08 52.5 2.0 52 22-73 2-62 (164)
175 cd04107 Rab32_Rab38 Rab38/Rab3 96.9 0.00062 1.4E-08 54.9 2.2 52 22-73 2-60 (201)
176 PF05049 IIGP: Interferon-indu 96.8 0.00038 8.3E-09 62.5 0.9 59 22-81 37-104 (376)
177 smart00177 ARF ARF-like small 96.8 0.001 2.3E-08 52.5 3.3 51 21-73 14-67 (175)
178 cd04148 RGK RGK subfamily. Th 96.8 0.00085 1.8E-08 55.5 2.8 53 22-74 2-61 (221)
179 cd01870 RhoA_like RhoA-like su 96.8 0.00099 2.1E-08 51.8 3.0 52 21-73 2-59 (175)
180 cd01886 EF-G Elongation factor 96.8 0.00099 2.2E-08 57.1 2.9 53 22-74 1-75 (270)
181 PLN00223 ADP-ribosylation fact 96.8 0.0012 2.6E-08 52.7 3.1 50 22-73 19-71 (181)
182 cd00877 Ran Ran (Ras-related n 96.8 0.00081 1.7E-08 52.6 2.1 53 22-74 2-60 (166)
183 PTZ00369 Ras-like protein; Pro 96.7 0.00093 2E-08 53.4 2.4 53 21-74 6-64 (189)
184 cd04146 RERG_RasL11_like RERG/ 96.7 0.00088 1.9E-08 51.8 2.0 52 22-75 1-59 (165)
185 cd04108 Rab36_Rab34 Rab34/Rab3 96.7 0.001 2.2E-08 52.5 2.4 53 22-74 2-60 (170)
186 cd04111 Rab39 Rab39 subfamily. 96.7 0.0011 2.4E-08 54.4 2.5 52 21-73 3-62 (211)
187 cd04175 Rap1 Rap1 subgroup. T 96.7 0.00087 1.9E-08 51.7 1.7 52 22-74 3-60 (164)
188 cd00882 Ras_like_GTPase Ras-li 96.7 0.00056 1.2E-08 49.9 0.6 51 25-75 1-57 (157)
189 cd04147 Ras_dva Ras-dva subfam 96.7 0.0011 2.4E-08 53.5 2.4 52 22-74 1-58 (198)
190 cd04132 Rho4_like Rho4-like su 96.7 0.0011 2.4E-08 52.4 2.3 51 22-73 2-59 (187)
191 TIGR00491 aIF-2 translation in 96.7 0.0009 1.9E-08 63.5 2.0 50 22-73 6-79 (590)
192 PLN03108 Rab family protein; P 96.7 0.0012 2.6E-08 54.0 2.5 54 21-74 7-66 (210)
193 cd01884 EF_Tu EF-Tu subfamily. 96.6 0.00071 1.5E-08 55.2 1.0 53 22-74 4-76 (195)
194 PRK05306 infB translation init 96.6 0.00086 1.9E-08 65.5 1.7 53 21-74 291-348 (787)
195 cd04170 EF-G_bact Elongation f 96.6 0.0012 2.6E-08 56.0 2.4 19 22-40 1-21 (268)
196 PLN03071 GTP-binding nuclear p 96.6 0.0016 3.4E-08 53.8 3.0 53 22-74 15-73 (219)
197 cd04109 Rab28 Rab28 subfamily. 96.5 0.0013 2.9E-08 53.8 2.1 51 22-73 2-60 (215)
198 PRK12735 elongation factor Tu; 96.5 0.0012 2.6E-08 59.5 1.5 52 22-73 14-85 (396)
199 CHL00189 infB translation init 96.4 0.0014 3E-08 63.7 1.7 51 22-73 246-305 (742)
200 COG1100 GTPase SAR1 and relate 96.4 0.002 4.3E-08 52.1 2.4 54 21-74 6-65 (219)
201 cd04141 Rit_Rin_Ric Rit/Rin/Ri 96.4 0.0022 4.7E-08 50.6 2.4 52 22-74 4-61 (172)
202 cd04134 Rho3 Rho3 subfamily. 96.4 0.0027 5.9E-08 50.8 2.8 53 21-74 1-59 (189)
203 COG0218 Predicted GTPase [Gene 96.4 0.0037 8E-08 51.5 3.6 34 2-35 51-84 (200)
204 cd04126 Rab20 Rab20 subfamily. 96.3 0.0021 4.5E-08 53.5 1.6 51 22-74 2-55 (220)
205 KOG1486|consensus 96.3 0.0019 4.2E-08 55.5 1.4 51 22-77 64-123 (364)
206 TIGR00475 selB selenocysteine- 96.3 0.002 4.3E-08 61.0 1.7 52 22-73 2-60 (581)
207 cd04105 SR_beta Signal recogni 96.2 0.003 6.4E-08 51.6 2.4 51 22-74 2-59 (203)
208 PRK12739 elongation factor G; 96.2 0.0018 4E-08 62.3 1.3 53 22-74 10-84 (691)
209 cd04162 Arl9_Arfrp2_like Arl9/ 96.1 0.0045 9.7E-08 48.4 2.7 50 23-74 2-55 (164)
210 TIGR00484 EF-G translation elo 96.1 0.0028 6.2E-08 61.0 1.7 54 22-75 12-87 (689)
211 PRK09563 rbgA GTPase YlqF; Rev 96.0 0.0071 1.5E-07 52.1 3.9 35 1-35 146-180 (287)
212 PF08477 Miro: Miro-like prote 96.0 0.0018 3.9E-08 47.3 0.1 53 22-74 1-61 (119)
213 PF00735 Septin: Septin; Inte 96.0 0.002 4.4E-08 55.7 0.3 54 21-74 5-74 (281)
214 PRK00049 elongation factor Tu; 96.0 0.0025 5.4E-08 57.5 0.9 52 22-73 14-85 (396)
215 PLN03127 Elongation factor Tu; 96.0 0.0036 7.7E-08 57.5 1.9 53 22-74 63-135 (447)
216 PRK00007 elongation factor G; 95.9 0.0045 9.8E-08 59.7 2.5 53 22-74 12-86 (693)
217 cd04130 Wrch_1 Wrch-1 subfamil 95.9 0.0055 1.2E-07 47.9 2.4 51 22-74 2-59 (173)
218 PF10662 PduV-EutP: Ethanolami 95.9 0.0045 9.8E-08 48.5 1.8 47 20-76 1-49 (143)
219 cd04168 TetM_like Tet(M)-like 95.8 0.0034 7.4E-08 52.7 1.0 53 22-74 1-75 (237)
220 PRK04004 translation initiatio 95.8 0.0051 1.1E-07 58.4 2.3 51 22-74 8-82 (586)
221 TIGR00485 EF-Tu translation el 95.8 0.0047 1E-07 55.5 1.8 53 22-74 14-86 (394)
222 cd01892 Miro2 Miro2 subfamily. 95.7 0.0087 1.9E-07 47.0 2.8 53 22-74 6-65 (169)
223 TIGR02836 spore_IV_A stage IV 95.6 0.0071 1.5E-07 55.4 2.3 57 22-78 19-106 (492)
224 cd01882 BMS1 Bms1. Bms1 is an 95.5 0.0055 1.2E-07 51.0 1.2 53 20-74 39-94 (225)
225 KOG1547|consensus 95.5 0.007 1.5E-07 51.7 1.6 56 20-75 46-116 (336)
226 cd01874 Cdc42 Cdc42 subfamily. 95.4 0.012 2.5E-07 46.6 2.7 52 22-74 3-60 (175)
227 cd04169 RF3 RF3 subfamily. Pe 95.4 0.0091 2E-07 51.1 2.2 19 21-39 3-23 (267)
228 cd04128 Spg1 Spg1p. Spg1p (se 95.4 0.01 2.3E-07 47.4 2.4 53 22-74 2-60 (182)
229 TIGR03596 GTPase_YlqF ribosome 95.4 0.018 3.8E-07 49.4 3.7 35 1-35 143-177 (276)
230 PF00071 Ras: Ras family; Int 95.3 0.0057 1.2E-07 46.8 0.4 52 22-73 1-58 (162)
231 cd04129 Rho2 Rho2 subfamily. 95.3 0.014 3E-07 46.5 2.7 53 21-74 2-60 (187)
232 PTZ00132 GTP-binding nuclear p 95.2 0.015 3.2E-07 47.3 2.8 53 21-73 10-68 (215)
233 cd04143 Rhes_like Rhes_like su 95.2 0.012 2.6E-07 49.7 2.3 52 22-74 2-59 (247)
234 cd04167 Snu114p Snu114p subfam 95.1 0.0055 1.2E-07 50.1 -0.1 18 22-39 2-21 (213)
235 PRK12736 elongation factor Tu; 95.1 0.0098 2.1E-07 53.6 1.5 52 22-73 14-85 (394)
236 PRK05506 bifunctional sulfate 95.1 0.013 2.8E-07 55.9 2.3 19 22-40 26-46 (632)
237 PRK10512 selenocysteinyl-tRNA- 95.1 0.014 3E-07 55.7 2.5 51 23-73 3-61 (614)
238 cd01871 Rac1_like Rac1-like su 95.0 0.016 3.4E-07 45.8 2.3 51 22-73 3-59 (174)
239 KOG1487|consensus 95.0 0.026 5.7E-07 48.8 3.6 63 13-76 51-119 (358)
240 COG2262 HflX GTPases [General 94.8 0.016 3.4E-07 52.5 2.0 52 22-74 194-251 (411)
241 PLN03126 Elongation factor Tu; 94.8 0.01 2.2E-07 55.0 0.6 52 22-73 83-154 (478)
242 cd04121 Rab40 Rab40 subfamily. 94.7 0.027 5.9E-07 45.5 2.9 54 21-74 7-66 (189)
243 cd04131 Rnd Rnd subfamily. Th 94.5 0.026 5.6E-07 45.0 2.4 51 22-73 3-59 (178)
244 PF00009 GTP_EFTU: Elongation 94.4 0.006 1.3E-07 48.8 -1.5 53 22-74 5-81 (188)
245 COG5019 CDC3 Septin family pro 94.2 0.042 9E-07 49.2 3.2 56 20-75 23-94 (373)
246 cd04120 Rab12 Rab12 subfamily. 94.1 0.039 8.5E-07 45.1 2.7 53 22-74 2-60 (202)
247 cd01883 EF1_alpha Eukaryotic e 94.0 0.033 7.1E-07 45.8 2.0 52 22-73 1-87 (219)
248 PF00025 Arf: ADP-ribosylation 94.0 0.013 2.8E-07 46.5 -0.4 50 22-73 16-68 (175)
249 TIGR01393 lepA GTP-binding pro 93.9 0.025 5.5E-07 53.8 1.2 54 22-75 5-82 (595)
250 cd04102 RabL3 RabL3 (Rab-like3 93.5 0.049 1.1E-06 44.7 2.2 52 22-73 2-64 (202)
251 cd01885 EF2 EF2 (for archaea a 93.2 0.038 8.3E-07 46.1 1.1 18 22-39 2-21 (222)
252 PF00350 Dynamin_N: Dynamin fa 93.0 0.036 7.7E-07 42.9 0.6 39 23-62 1-41 (168)
253 cd04173 Rnd2_Rho7 Rnd2/Rho7 su 93.0 0.078 1.7E-06 44.2 2.6 51 22-73 3-59 (222)
254 cd04133 Rop_like Rop subfamily 92.9 0.1 2.2E-06 41.6 3.1 52 22-74 3-60 (176)
255 PLN00023 GTP-binding protein; 92.7 0.098 2.1E-06 46.5 3.0 52 22-73 23-93 (334)
256 TIGR00483 EF-1_alpha translati 92.4 0.046 9.9E-07 49.6 0.6 52 22-73 9-95 (426)
257 TIGR00503 prfC peptide chain r 92.4 0.074 1.6E-06 49.9 2.0 23 16-38 7-31 (527)
258 PRK10218 GTP-binding protein; 92.3 0.066 1.4E-06 51.1 1.5 53 22-74 7-79 (607)
259 cd01875 RhoG RhoG subfamily. 92.1 0.089 1.9E-06 42.1 1.9 51 22-73 5-61 (191)
260 TIGR03680 eif2g_arch translati 92.1 0.054 1.2E-06 49.0 0.6 19 22-40 6-26 (406)
261 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 91.8 0.14 3.1E-06 41.0 2.7 51 22-73 7-63 (182)
262 PRK05124 cysN sulfate adenylyl 91.7 0.082 1.8E-06 48.9 1.3 19 21-39 28-48 (474)
263 KOG2655|consensus 91.6 0.1 2.3E-06 46.7 1.9 56 20-75 21-91 (366)
264 PRK00741 prfC peptide chain re 91.5 0.11 2.3E-06 48.8 2.0 23 16-38 6-30 (526)
265 PF04670 Gtr1_RagA: Gtr1/RagA 91.5 0.062 1.4E-06 45.3 0.3 55 22-76 1-61 (232)
266 PTZ00416 elongation factor 2; 91.2 0.094 2E-06 51.8 1.3 33 22-54 21-55 (836)
267 cd04103 Centaurin_gamma Centau 91.0 0.18 3.8E-06 39.2 2.4 51 22-74 2-58 (158)
268 TIGR02034 CysN sulfate adenyly 90.9 0.11 2.4E-06 47.0 1.4 17 22-38 2-20 (406)
269 PRK13351 elongation factor G; 90.8 0.14 3.1E-06 49.3 2.0 54 21-74 9-84 (687)
270 TIGR01425 SRP54_euk signal rec 90.2 0.19 4E-06 46.2 2.2 14 22-35 102-115 (429)
271 cd04174 Rnd1_Rho6 Rnd1/Rho6 su 89.9 0.27 5.8E-06 41.3 2.8 52 21-73 14-71 (232)
272 smart00176 RAN Ran (Ras-relate 89.9 0.21 4.6E-06 40.7 2.1 49 26-74 1-55 (200)
273 TIGR01526 nadR_NMN_Atrans nico 89.8 0.024 5.2E-07 49.9 -3.8 40 2-41 135-185 (325)
274 TIGR00490 aEF-2 translation el 89.7 0.082 1.8E-06 51.4 -0.6 55 21-75 20-98 (720)
275 TIGR03597 GTPase_YqeH ribosome 89.7 0.51 1.1E-05 42.1 4.5 34 2-35 185-218 (360)
276 PRK05433 GTP-binding protein L 89.6 0.12 2.6E-06 49.2 0.5 55 21-75 8-86 (600)
277 PRK08118 topology modulation p 89.1 0.15 3.3E-06 40.4 0.6 15 21-35 2-16 (167)
278 TIGR01394 TypA_BipA GTP-bindin 88.5 0.22 4.8E-06 47.4 1.4 54 21-74 2-75 (594)
279 PF13207 AAA_17: AAA domain; P 88.4 0.16 3.5E-06 37.1 0.3 19 23-41 2-22 (121)
280 cd04165 GTPBP1_like GTPBP1-lik 88.4 0.14 3E-06 42.6 -0.0 14 22-35 1-14 (224)
281 KOG0395|consensus 88.3 0.9 2E-05 37.1 4.7 51 21-72 4-60 (196)
282 PRK00625 shikimate kinase; Pro 88.2 0.17 3.8E-06 40.5 0.4 14 22-35 2-15 (173)
283 PRK07261 topology modulation p 87.9 0.2 4.3E-06 39.8 0.6 17 22-38 2-20 (171)
284 PLN00116 translation elongatio 87.9 0.27 5.8E-06 48.7 1.6 18 22-39 21-40 (843)
285 PRK09866 hypothetical protein; 87.3 0.34 7.3E-06 46.9 1.8 38 22-60 71-110 (741)
286 PF13238 AAA_18: AAA domain; P 86.9 0.22 4.8E-06 36.2 0.3 19 23-41 1-21 (129)
287 PRK03839 putative kinase; Prov 86.9 0.23 4.9E-06 39.3 0.4 14 22-35 2-15 (180)
288 COG0563 Adk Adenylate kinase a 86.7 0.27 5.9E-06 39.6 0.8 14 22-35 2-15 (178)
289 PRK13796 GTPase YqeH; Provisio 86.2 1.4 3E-05 39.4 5.1 34 2-35 191-224 (365)
290 KOG0410|consensus 86.1 0.19 4.1E-06 44.8 -0.4 53 22-74 180-237 (410)
291 PF13671 AAA_33: AAA domain; P 86.1 0.26 5.6E-06 36.9 0.3 13 23-35 2-14 (143)
292 COG0466 Lon ATP-dependent Lon 85.9 0.27 5.8E-06 47.7 0.4 48 22-69 352-424 (782)
293 PRK13949 shikimate kinase; Pro 85.7 0.32 7E-06 38.6 0.7 15 21-35 2-16 (169)
294 cd01873 RhoBTB RhoBTB subfamil 85.2 1.3 2.8E-05 35.8 4.0 14 22-35 4-17 (195)
295 cd01888 eIF2_gamma eIF2-gamma 84.9 0.55 1.2E-05 38.0 1.7 14 22-35 2-15 (203)
296 PRK12740 elongation factor G; 84.8 0.42 9.2E-06 45.8 1.2 49 26-74 1-71 (668)
297 PRK13947 shikimate kinase; Pro 84.1 0.42 9.2E-06 37.1 0.7 15 21-35 2-16 (171)
298 cd01983 Fer4_NifH The Fer4_Nif 82.9 0.52 1.1E-05 32.0 0.7 45 23-77 2-48 (99)
299 KOG1249|consensus 82.6 0.75 1.6E-05 43.3 1.8 57 22-78 311-376 (572)
300 KOG3347|consensus 82.4 0.71 1.5E-05 36.9 1.4 17 19-35 6-22 (176)
301 PRK14530 adenylate kinase; Pro 82.4 0.52 1.1E-05 38.5 0.6 15 21-35 4-18 (215)
302 TIGR01359 UMP_CMP_kin_fam UMP- 82.3 0.51 1.1E-05 37.1 0.6 13 23-35 2-14 (183)
303 PRK07560 elongation factor EF- 81.3 0.66 1.4E-05 45.2 1.0 17 22-38 22-40 (731)
304 PTZ00141 elongation factor 1- 80.9 0.46 1E-05 43.6 -0.2 52 22-73 9-95 (446)
305 COG0703 AroK Shikimate kinase 80.8 0.76 1.6E-05 37.1 1.0 15 21-35 3-17 (172)
306 PRK06217 hypothetical protein; 80.4 0.63 1.4E-05 37.0 0.4 19 21-39 2-22 (183)
307 COG2019 AdkA Archaeal adenylat 80.2 0.79 1.7E-05 37.3 0.9 16 20-35 4-19 (189)
308 COG1936 Predicted nucleotide k 79.7 0.81 1.8E-05 37.2 0.9 14 22-35 2-15 (180)
309 TIGR03574 selen_PSTK L-seryl-t 79.2 0.73 1.6E-05 38.5 0.4 13 23-35 2-14 (249)
310 cd02021 GntK Gluconate kinase 78.1 0.84 1.8E-05 34.7 0.5 18 23-40 2-21 (150)
311 KOG0092|consensus 78.0 3.6 7.9E-05 33.9 4.2 54 21-74 6-65 (200)
312 TIGR03348 VI_IcmF type VI secr 77.5 2.6 5.6E-05 43.4 3.9 55 22-77 113-175 (1169)
313 cd01428 ADK Adenylate kinase ( 76.9 1 2.2E-05 35.6 0.6 14 22-35 1-14 (194)
314 KOG2004|consensus 76.7 1.4 3.1E-05 43.1 1.6 51 20-70 438-513 (906)
315 PRK14532 adenylate kinase; Pro 76.7 0.99 2.2E-05 35.8 0.5 14 22-35 2-15 (188)
316 PRK05541 adenylylsulfate kinas 76.4 0.8 1.7E-05 36.0 -0.1 21 15-35 2-22 (176)
317 cd00464 SK Shikimate kinase (S 76.0 1.1 2.4E-05 33.9 0.6 14 22-35 1-14 (154)
318 PRK12339 2-phosphoglycerate ki 75.7 1.1 2.3E-05 36.7 0.5 14 22-35 5-18 (197)
319 PRK14531 adenylate kinase; Pro 75.3 1.2 2.5E-05 35.5 0.6 15 21-35 3-17 (183)
320 PRK04040 adenylate kinase; Pro 75.1 1.1 2.4E-05 36.2 0.4 18 21-38 3-22 (188)
321 PRK03731 aroL shikimate kinase 74.5 1.3 2.8E-05 34.5 0.7 15 21-35 3-17 (171)
322 PRK06762 hypothetical protein; 73.7 1.3 2.8E-05 34.3 0.5 18 22-39 4-23 (166)
323 PRK13948 shikimate kinase; Pro 73.6 1.3 2.8E-05 35.9 0.4 14 22-35 12-25 (182)
324 cd02019 NK Nucleoside/nucleoti 73.3 1.4 3E-05 29.5 0.5 17 23-39 2-20 (69)
325 TIGR01351 adk adenylate kinase 73.2 1.4 3.1E-05 35.7 0.7 14 22-35 1-14 (210)
326 TIGR01360 aden_kin_iso1 adenyl 73.1 1.4 3.1E-05 34.4 0.6 18 22-39 5-24 (188)
327 PRK13946 shikimate kinase; Pro 72.4 1.5 3.4E-05 34.9 0.7 15 21-35 11-25 (184)
328 PF09439 SRPRB: Signal recogni 72.1 1 2.2E-05 36.7 -0.5 53 21-74 4-60 (181)
329 PRK05057 aroK shikimate kinase 71.7 1.6 3.6E-05 34.5 0.7 15 21-35 5-19 (172)
330 TIGR03598 GTPase_YsxC ribosome 71.5 5.7 0.00012 31.0 3.8 33 3-35 46-78 (179)
331 PRK00131 aroK shikimate kinase 71.3 1.7 3.8E-05 33.3 0.7 15 21-35 5-19 (175)
332 PRK04000 translation initiatio 70.9 1.4 3E-05 40.0 0.1 20 21-40 10-31 (411)
333 cd00227 CPT Chloramphenicol (C 70.4 1.7 3.7E-05 34.2 0.5 18 22-39 4-23 (175)
334 PRK00454 engB GTP-binding prot 70.4 5.9 0.00013 30.9 3.6 33 2-34 51-83 (196)
335 PRK01184 hypothetical protein; 70.1 1.8 3.9E-05 34.1 0.6 15 21-35 2-16 (184)
336 PF02263 GBP: Guanylate-bindin 69.7 2.3 4.9E-05 36.2 1.1 55 23-77 24-88 (260)
337 PTZ00088 adenylate kinase 1; P 69.7 1.8 3.9E-05 36.2 0.5 15 21-35 7-21 (229)
338 KOG0478|consensus 69.2 3.3 7.1E-05 40.3 2.2 50 20-69 462-526 (804)
339 TIGR03263 guanyl_kin guanylate 69.1 1.6 3.4E-05 34.2 0.0 21 21-41 2-24 (180)
340 PRK00889 adenylylsulfate kinas 69.1 1.9 4.1E-05 33.8 0.5 14 22-35 6-19 (175)
341 smart00382 AAA ATPases associa 68.7 1.9 4.1E-05 30.6 0.4 15 21-35 3-17 (148)
342 COG1618 Predicted nucleotide k 68.7 1.9 4.1E-05 34.9 0.4 16 20-35 5-20 (179)
343 cd02027 APSK Adenosine 5'-phos 67.7 2.1 4.6E-05 33.0 0.5 13 23-35 2-14 (149)
344 COG1703 ArgK Putative periplas 67.1 2.2 4.9E-05 37.6 0.6 23 127-150 241-263 (323)
345 PRK14738 gmk guanylate kinase; 66.7 1.9 4.1E-05 35.2 0.0 20 22-41 15-36 (206)
346 cd02020 CMPK Cytidine monophos 66.5 2.4 5.2E-05 31.6 0.6 13 23-35 2-14 (147)
347 PF13521 AAA_28: AAA domain; P 66.4 1.8 3.8E-05 33.5 -0.2 20 22-41 1-22 (163)
348 KOG0087|consensus 66.4 5.2 0.00011 33.5 2.6 54 21-74 15-74 (222)
349 PLN02200 adenylate kinase fami 66.2 2.4 5.2E-05 35.5 0.6 14 22-35 45-58 (234)
350 PRK08233 hypothetical protein; 66.0 2.4 5.2E-05 32.9 0.5 19 22-40 5-25 (182)
351 cd02023 UMPK Uridine monophosp 65.8 1.6 3.4E-05 34.9 -0.6 17 23-39 2-20 (198)
352 PRK00279 adk adenylate kinase; 65.4 2.5 5.4E-05 34.4 0.5 14 22-35 2-15 (215)
353 KOG0080|consensus 65.3 4.6 0.0001 32.8 2.0 55 19-73 10-70 (209)
354 KOG0781|consensus 64.9 3.3 7.2E-05 38.8 1.3 15 22-36 380-394 (587)
355 COG3523 IcmF Type VI protein s 64.8 5.9 0.00013 40.9 3.1 54 22-77 127-188 (1188)
356 cd01673 dNK Deoxyribonucleosid 64.8 1.5 3.2E-05 34.8 -0.9 29 23-51 2-32 (193)
357 TIGR01313 therm_gnt_kin carboh 64.4 2.4 5.2E-05 32.7 0.2 19 23-41 1-21 (163)
358 PRK14529 adenylate kinase; Pro 64.2 2.7 5.8E-05 35.2 0.5 14 22-35 2-15 (223)
359 PRK13975 thymidylate kinase; P 64.2 2.7 5.9E-05 33.3 0.5 14 22-35 4-17 (196)
360 PF08433 KTI12: Chromatin asso 63.4 2.5 5.5E-05 36.3 0.2 13 23-35 4-16 (270)
361 PRK02496 adk adenylate kinase; 63.4 2.9 6.2E-05 33.0 0.5 15 21-35 2-16 (184)
362 cd02042 ParA ParA and ParB of 63.3 5.2 0.00011 28.3 1.8 42 23-75 2-52 (104)
363 COG4917 EutP Ethanolamine util 63.2 3.1 6.8E-05 32.3 0.7 49 20-77 1-51 (148)
364 PRK14528 adenylate kinase; Pro 63.1 3 6.5E-05 33.4 0.6 15 21-35 2-16 (186)
365 TIGR02322 phosphon_PhnN phosph 62.8 3 6.4E-05 32.7 0.5 19 22-40 3-23 (179)
366 KOG2486|consensus 62.3 8 0.00017 33.9 3.0 32 4-35 166-197 (320)
367 KOG1145|consensus 61.3 6.8 0.00015 37.4 2.6 52 22-74 155-212 (683)
368 PHA00729 NTP-binding motif con 61.0 3.2 7E-05 34.9 0.4 14 22-35 19-32 (226)
369 smart00804 TAP_C C-terminal do 60.1 19 0.00041 24.2 4.0 25 145-169 35-59 (63)
370 PF00005 ABC_tran: ABC transpo 59.5 2.9 6.2E-05 31.0 -0.1 25 18-42 9-35 (137)
371 PRK08356 hypothetical protein; 58.9 3.8 8.3E-05 32.9 0.5 17 22-38 7-25 (195)
372 cd03220 ABC_KpsT_Wzt ABC_KpsT_ 58.4 4.3 9.3E-05 33.3 0.7 38 4-41 28-71 (224)
373 PRK09435 membrane ATPase/prote 58.1 4 8.6E-05 36.3 0.5 14 22-35 58-71 (332)
374 cd02022 DPCK Dephospho-coenzym 57.9 4 8.8E-05 32.3 0.5 17 23-39 2-20 (179)
375 PF03943 TAP_C: TAP C-terminal 57.7 4.2 9E-05 26.1 0.4 24 146-169 24-47 (51)
376 TIGR00041 DTMP_kinase thymidyl 57.6 4.2 9.2E-05 32.1 0.6 18 22-39 5-24 (195)
377 PF07728 AAA_5: AAA domain (dy 57.1 3.8 8.3E-05 30.6 0.2 32 22-53 1-37 (139)
378 PF03205 MobB: Molybdopterin g 57.1 3.9 8.5E-05 31.5 0.2 14 22-35 2-15 (140)
379 PRK04182 cytidylate kinase; Pr 56.7 4.4 9.6E-05 31.3 0.5 14 22-35 2-15 (180)
380 PRK14526 adenylate kinase; Pro 56.2 4.4 9.6E-05 33.4 0.4 14 22-35 2-15 (211)
381 COG1072 CoaA Panthothenate kin 56.1 4.7 0.0001 35.1 0.6 14 22-35 84-97 (283)
382 COG0532 InfB Translation initi 55.9 15 0.00033 34.5 4.0 51 23-74 8-66 (509)
383 PHA02530 pseT polynucleotide k 55.9 4.5 9.8E-05 34.4 0.5 14 22-35 4-17 (300)
384 PRK14527 adenylate kinase; Pro 55.7 4.8 0.0001 32.1 0.6 15 21-35 7-21 (191)
385 PF05729 NACHT: NACHT domain 55.6 5.2 0.00011 30.0 0.7 13 23-35 3-15 (166)
386 PRK08154 anaerobic benzoate ca 55.5 4.7 0.0001 35.1 0.5 19 17-35 130-148 (309)
387 COG2229 Predicted GTPase [Gene 54.4 14 0.0003 30.3 3.0 53 22-74 12-79 (187)
388 PF00931 NB-ARC: NB-ARC domain 54.4 4.7 0.0001 33.7 0.3 14 22-35 21-34 (287)
389 PF03308 ArgK: ArgK protein; 54.3 4.3 9.4E-05 35.0 0.1 30 127-157 217-246 (266)
390 PRK05439 pantothenate kinase; 54.2 4.9 0.00011 35.4 0.4 14 22-35 88-101 (311)
391 cd01672 TMPK Thymidine monopho 53.8 5.4 0.00012 31.1 0.6 16 23-38 3-20 (200)
392 PRK06851 hypothetical protein; 53.7 12 0.00026 33.8 2.8 59 20-81 214-285 (367)
393 KOG0057|consensus 53.4 4.4 9.6E-05 38.4 0.0 24 16-39 374-399 (591)
394 PRK14021 bifunctional shikimat 53.3 5.5 0.00012 37.6 0.6 15 21-35 7-21 (542)
395 PRK14737 gmk guanylate kinase; 53.2 4.8 0.0001 32.4 0.2 34 22-55 6-41 (186)
396 PRK05480 uridine/cytidine kina 53.0 5.5 0.00012 32.1 0.5 19 22-40 8-28 (209)
397 PF13191 AAA_16: AAA ATPase do 53.0 4.8 0.0001 31.0 0.1 19 21-39 25-45 (185)
398 PF00004 AAA: ATPase family as 53.0 5.3 0.00011 28.9 0.4 13 23-35 1-13 (132)
399 PF03266 NTPase_1: NTPase; In 52.9 4.8 0.0001 32.0 0.2 14 22-35 1-14 (168)
400 cd03116 MobB Molybdenum is an 52.9 5.5 0.00012 31.4 0.5 18 22-39 3-22 (159)
401 PLN02674 adenylate kinase 52.9 5.7 0.00012 33.7 0.6 16 20-35 31-46 (244)
402 PLN02199 shikimate kinase 52.9 5.7 0.00012 34.9 0.6 16 20-35 102-117 (303)
403 COG1116 TauB ABC-type nitrate/ 52.7 3.8 8.2E-05 35.0 -0.5 36 5-40 10-51 (248)
404 cd03115 SRP The signal recogni 52.0 6 0.00013 30.8 0.6 13 23-35 3-15 (173)
405 PHA02575 1 deoxynucleoside mon 51.9 5.8 0.00013 33.4 0.5 13 23-35 3-15 (227)
406 PF00485 PRK: Phosphoribulokin 51.8 5.5 0.00012 31.8 0.3 13 23-35 2-14 (194)
407 COG5256 TEF1 Translation elong 51.5 14 0.00031 33.9 2.9 51 22-72 9-94 (428)
408 cd01876 YihA_EngB The YihA (En 50.9 21 0.00045 26.3 3.4 33 3-35 27-59 (170)
409 PRK07667 uridine kinase; Provi 50.9 6.2 0.00013 31.7 0.5 14 22-35 19-32 (193)
410 COG0488 Uup ATPase components 50.6 4.7 0.0001 38.1 -0.3 36 9-44 14-55 (530)
411 KOG0066|consensus 50.4 4.3 9.4E-05 38.0 -0.5 26 16-41 609-636 (807)
412 COG0237 CoaE Dephospho-CoA kin 50.0 6.5 0.00014 32.4 0.5 18 22-39 4-23 (201)
413 cd00009 AAA The AAA+ (ATPases 49.9 7.3 0.00016 27.9 0.7 15 21-35 20-34 (151)
414 PRK06547 hypothetical protein; 49.8 6.6 0.00014 31.3 0.5 18 22-39 17-36 (172)
415 COG3638 ABC-type phosphate/pho 49.7 13 0.00029 31.8 2.3 29 7-35 13-45 (258)
416 PRK03846 adenylylsulfate kinas 49.4 6.8 0.00015 31.5 0.5 15 21-35 25-39 (198)
417 cd02028 UMPK_like Uridine mono 49.2 6.8 0.00015 31.2 0.5 17 23-39 2-20 (179)
418 COG1134 TagH ABC-type polysacc 49.0 8.9 0.00019 32.8 1.2 20 21-40 54-75 (249)
419 COG4088 Predicted nucleotide k 49.0 4.4 9.5E-05 34.3 -0.7 17 23-39 4-22 (261)
420 cd02024 NRK1 Nicotinamide ribo 49.0 6.8 0.00015 31.8 0.5 18 23-40 2-21 (187)
421 PF01443 Viral_helicase1: Vira 48.9 6.2 0.00014 31.9 0.2 13 23-35 1-13 (234)
422 PRK10078 ribose 1,5-bisphospho 48.8 7 0.00015 31.0 0.5 20 21-40 3-24 (186)
423 TIGR00750 lao LAO/AO transport 48.7 7.1 0.00015 33.7 0.6 16 20-35 34-49 (300)
424 PF01926 MMR_HSR1: 50S ribosom 48.6 30 0.00064 24.7 3.8 34 2-35 25-61 (116)
425 KOG2485|consensus 48.4 18 0.00039 32.2 3.0 35 1-35 173-210 (335)
426 KOG1533|consensus 48.2 9.4 0.0002 32.9 1.2 24 23-46 5-36 (290)
427 PF07726 AAA_3: ATPase family 47.9 4 8.6E-05 31.6 -1.0 14 22-35 1-14 (131)
428 TIGR00554 panK_bact pantothena 47.7 7.2 0.00016 33.9 0.5 14 22-35 64-77 (290)
429 smart00053 DYNc Dynamin, GTPas 47.2 11 0.00023 31.9 1.4 39 22-61 28-68 (240)
430 TIGR00235 udk uridine kinase. 46.8 7.8 0.00017 31.3 0.5 18 22-39 8-27 (207)
431 KOG0075|consensus 46.4 22 0.00047 28.5 2.9 48 22-73 22-75 (186)
432 KOG0090|consensus 46.3 34 0.00074 28.9 4.2 50 21-74 39-93 (238)
433 PRK12338 hypothetical protein; 46.2 8.2 0.00018 34.2 0.6 37 128-166 170-206 (319)
434 cd00071 GMPK Guanosine monopho 46.1 6.1 0.00013 30.1 -0.3 19 23-41 2-22 (137)
435 COG1122 CbiO ABC-type cobalt t 45.9 10 0.00022 32.0 1.1 25 11-35 17-45 (235)
436 cd02025 PanK Pantothenate kina 45.6 8 0.00017 31.9 0.4 17 23-39 2-20 (220)
437 PF13401 AAA_22: AAA domain; P 45.5 7.5 0.00016 28.3 0.2 18 22-39 6-25 (131)
438 cd01120 RecA-like_NTPases RecA 45.4 8.6 0.00019 28.5 0.5 13 23-35 2-14 (165)
439 KOG0073|consensus 45.4 29 0.00064 28.2 3.5 49 22-74 18-71 (185)
440 TIGR01618 phage_P_loop phage n 45.2 9.1 0.0002 32.0 0.7 21 15-35 6-27 (220)
441 PRK13808 adenylate kinase; Pro 45.2 8.5 0.00018 34.2 0.5 14 22-35 2-15 (333)
442 PTZ00301 uridine kinase; Provi 45.1 8.5 0.00018 31.8 0.5 17 22-38 5-23 (210)
443 PRK14974 cell division protein 45.1 8.9 0.00019 34.1 0.6 15 21-35 141-155 (336)
444 KOG0079|consensus 44.9 13 0.00028 29.8 1.5 14 22-35 10-23 (198)
445 TIGR02173 cyt_kin_arch cytidyl 44.4 9.1 0.0002 29.3 0.5 17 23-39 3-21 (171)
446 TIGR00073 hypB hydrogenase acc 43.7 9 0.0002 31.0 0.4 17 22-38 24-42 (207)
447 PRK06696 uridine kinase; Valid 43.5 9.6 0.00021 31.2 0.6 18 22-39 24-43 (223)
448 PF02421 FeoB_N: Ferrous iron 43.2 17 0.00037 28.7 1.9 29 3-31 26-57 (156)
449 PF11776 DUF3315: Domain of un 42.9 22 0.00048 22.8 2.1 22 53-74 27-49 (52)
450 PF03029 ATP_bind_1: Conserved 42.6 7.3 0.00016 32.7 -0.3 11 25-35 1-11 (238)
451 COG3911 Predicted ATPase [Gene 42.6 5.4 0.00012 32.0 -1.0 26 21-46 10-37 (183)
452 PLN02459 probable adenylate ki 42.0 10 0.00022 32.6 0.5 14 22-35 31-44 (261)
453 PRK13695 putative NTPase; Prov 42.0 10 0.00022 29.6 0.4 14 22-35 2-15 (174)
454 TIGR00152 dephospho-CoA kinase 41.8 10 0.00023 30.0 0.5 17 23-39 2-20 (188)
455 KOG3859|consensus 41.7 12 0.00025 33.2 0.8 53 22-74 44-106 (406)
456 TIGR01166 cbiO cobalt transpor 41.5 10 0.00022 30.0 0.3 32 9-40 3-40 (190)
457 TIGR00455 apsK adenylylsulfate 41.4 11 0.00023 29.7 0.5 20 21-40 19-40 (184)
458 TIGR00064 ftsY signal recognit 41.0 11 0.00023 32.4 0.5 15 21-35 73-87 (272)
459 PRK14730 coaE dephospho-CoA ki 41.0 11 0.00023 30.5 0.5 18 22-39 3-22 (195)
460 PRK13951 bifunctional shikimat 40.7 11 0.00023 35.2 0.5 14 22-35 2-15 (488)
461 PRK10463 hydrogenase nickel in 40.6 10 0.00022 33.1 0.2 13 23-35 107-119 (290)
462 COG5405 HslV ATP-dependent pro 40.3 37 0.00079 27.4 3.3 35 127-166 56-90 (178)
463 COG0411 LivG ABC-type branched 40.2 16 0.00035 31.3 1.4 48 22-69 32-98 (250)
464 TIGR00176 mobB molybdopterin-g 40.1 12 0.00025 29.3 0.5 13 23-35 2-14 (155)
465 PRK10751 molybdopterin-guanine 39.6 11 0.00024 30.3 0.3 14 22-35 8-21 (173)
466 PF13270 DUF4061: Domain of un 39.5 18 0.0004 26.1 1.4 22 151-172 7-28 (90)
467 TIGR01663 PNK-3'Pase polynucle 39.0 13 0.00028 35.2 0.7 14 22-35 371-384 (526)
468 PRK13540 cytochrome c biogenes 38.8 8.8 0.00019 30.7 -0.4 30 12-41 15-50 (200)
469 PRK12337 2-phosphoglycerate ki 38.6 12 0.00026 34.9 0.5 36 127-164 426-461 (475)
470 TIGR00101 ureG urease accessor 38.5 12 0.00026 30.4 0.4 14 22-35 3-16 (199)
471 PF00910 RNA_helicase: RNA hel 38.3 12 0.00025 27.1 0.3 13 23-35 1-13 (107)
472 PRK06851 hypothetical protein; 38.0 22 0.00047 32.1 2.0 57 21-80 31-100 (367)
473 PRK00698 tmk thymidylate kinas 37.9 13 0.00029 29.3 0.6 18 22-39 5-24 (205)
474 PRK10416 signal recognition pa 37.8 13 0.00028 32.7 0.5 15 21-35 115-129 (318)
475 COG0410 LivF ABC-type branched 37.8 16 0.00035 31.0 1.0 39 3-41 8-52 (237)
476 TIGR03608 L_ocin_972_ABC putat 37.3 11 0.00024 30.0 0.0 29 13-41 13-47 (206)
477 PRK08099 bifunctional DNA-bind 37.0 9.1 0.0002 34.7 -0.6 30 12-41 205-242 (399)
478 PF06414 Zeta_toxin: Zeta toxi 36.7 15 0.00031 29.5 0.6 13 23-35 18-30 (199)
479 cd03261 ABC_Org_Solvent_Resist 36.5 11 0.00025 30.8 -0.1 29 12-40 14-48 (235)
480 PF13479 AAA_24: AAA domain 36.5 15 0.00033 29.9 0.7 14 22-35 5-18 (213)
481 cd03237 ABC_RNaseL_inhibitor_d 36.4 11 0.00024 31.5 -0.1 34 8-41 4-48 (246)
482 KOG0078|consensus 36.3 38 0.00083 28.2 3.0 36 128-164 136-175 (207)
483 PRK15056 manganese/iron transp 36.2 17 0.00037 30.6 1.0 31 11-41 20-56 (272)
484 TIGR01650 PD_CobS cobaltochela 36.1 15 0.00032 32.7 0.6 17 19-35 63-79 (327)
485 COG0714 MoxR-like ATPases [Gen 35.9 14 0.0003 32.2 0.4 35 19-53 42-81 (329)
486 COG4108 PrfC Peptide chain rel 35.8 12 0.00027 34.8 0.1 21 15-35 7-27 (528)
487 PRK00300 gmk guanylate kinase; 35.4 16 0.00034 29.1 0.6 20 21-40 6-27 (205)
488 cd03260 ABC_PstB_phosphate_tra 34.5 12 0.00025 30.5 -0.3 30 12-41 14-49 (227)
489 PF13555 AAA_29: P-loop contai 34.4 27 0.00058 23.4 1.5 21 15-35 15-38 (62)
490 smart00763 AAA_PrkA PrkA AAA d 34.4 16 0.00036 32.8 0.6 17 23-39 81-99 (361)
491 cd01918 HprK_C HprK/P, the bif 34.2 16 0.00035 28.7 0.5 21 21-41 15-37 (149)
492 cd03216 ABC_Carb_Monos_I This 34.1 14 0.0003 28.7 0.1 29 13-41 15-49 (163)
493 cd03114 ArgK-like The function 34.1 16 0.00035 28.2 0.4 13 23-35 2-14 (148)
494 cd03301 ABC_MalK_N The N-termi 34.0 13 0.00028 29.9 -0.1 29 12-40 14-48 (213)
495 TIGR02673 FtsE cell division A 33.8 13 0.00029 29.8 -0.0 30 12-41 16-51 (214)
496 PRK13541 cytochrome c biogenes 33.7 16 0.00034 29.1 0.3 20 22-41 28-49 (195)
497 PF00406 ADK: Adenylate kinase 33.5 13 0.00029 28.1 -0.1 11 25-35 1-11 (151)
498 PRK12289 GTPase RsgA; Reviewed 33.5 42 0.00092 30.0 3.1 31 2-32 198-235 (352)
499 PRK13543 cytochrome c biogenes 33.4 15 0.00033 29.7 0.2 30 12-41 25-60 (214)
500 TIGR00960 3a0501s02 Type II (G 33.3 15 0.00032 29.6 0.1 29 13-41 18-52 (216)
No 1
>KOG1424|consensus
Probab=100.00 E-value=1e-44 Score=326.10 Aligned_cols=163 Identities=40% Similarity=0.632 Sum_probs=149.9
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCCCCC-hhhhhhhCCCCCccccCH
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVP-KPLQVLMGSFPIAQLREP 98 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~-~~~l~l~g~~~~~~i~d~ 98 (195)
.||+|||||||||| |+|+|+|.|+|+++||+|||+|+|.|++.+.||||||++||++.. ...|+|.|++|+|+++|+
T Consensus 316 tVG~VGYPNVGKSSTINaLvG~KkVsVS~TPGkTKHFQTi~ls~~v~LCDCPGLVfPSf~~~r~emvl~GiLPIDQmrd~ 395 (562)
T KOG1424|consen 316 TVGFVGYPNVGKSSTINALVGRKKVSVSSTPGKTKHFQTIFLSPSVCLCDCPGLVFPSFSPTRAEMVLNGILPIDQLRDH 395 (562)
T ss_pred EEEeecCCCCchhHHHHHHhcCceeeeecCCCCcceeEEEEcCCCceecCCCCccccCCCchHHHHHHhcCccHHHhhcc
Confidence 59999999999999 999999999999999999999999999999999999999999987 567999999999999999
Q ss_pred HHHHHHHHHHcCHHHHhhcCC------CCCCCcCCHHHHHHHHHHHcCcccccCCcccHHHHHHHHHHHHHcCCcceEeC
Q psy3587 99 YSTVQYLAERMDLIKLLHIKH------PDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGRICLCLM 172 (195)
Q Consensus 99 ~~~~~~l~~~~~~~~l~~~~~------~~~~~~~~~~e~L~~iA~k~g~l~~kgG~~D~~rAa~~~L~d~~~Gkl~~~~~ 172 (195)
..++.+|++++|++.|..+|. +++..+++..++|.++|.+|||++ .+|.+|..|||+.||+||.+|||.|+.+
T Consensus 396 ~~~~~llaerIP~~~Le~~Y~~k~~e~~~~~~pp~A~ell~a~a~~RGfmt-s~~~~D~~RAAr~ILKDyv~GKL~~~~~ 474 (562)
T KOG1424|consen 396 YGAVGLLAERIPRHVLERLYGHKPREDPEDSRPPSAAELLNAYAYKRGFMT-SKGLPDEYRAARYILKDYVSGKLLYCFP 474 (562)
T ss_pred cchHHHHHHhcCHHHHHHHhCCCcccccCCCCCchHHHHHHHHHHhcchhh-hccCCcchHHHHHHHHHHhCCeeeeeeC
Confidence 999999999999888877773 333456789999999999999995 5566699999999999999999999999
Q ss_pred CCCCCCccccccc
Q psy3587 173 PPQYLSKQGVSKH 185 (195)
Q Consensus 173 Pp~~~~~~~~~~~ 185 (195)
||++++.+++|..
T Consensus 475 PPg~~~~~~~~~~ 487 (562)
T KOG1424|consen 475 PPGYEPQKFTWEE 487 (562)
T ss_pred CCCCCccccchhh
Confidence 9999988877663
No 2
>KOG2484|consensus
Probab=100.00 E-value=9.4e-40 Score=287.02 Aligned_cols=152 Identities=25% Similarity=0.338 Sum_probs=143.4
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCCCCChhhhhhhCCCCCccccCHH
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREPY 99 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~~~~l~l~g~~~~~~i~d~~ 99 (195)
++|||||||||||| |+|..+++|.||+.||+||.+||++||++|.|+||||+++++.++.++++|.+++++..+.||+
T Consensus 254 rvGViG~PNVGKSSvINsL~~~k~C~vg~~pGvT~smqeV~Ldk~i~llDsPgiv~~~~~~~~~~~Lrn~~~i~~~~dp~ 333 (435)
T KOG2484|consen 254 RVGIIGYPNVGKSSVINSLKRRKACNVGNVPGVTRSMQEVKLDKKIRLLDSPGIVPPSIDEKDALALRNCIPIGKVADPV 333 (435)
T ss_pred EeeeecCCCCChhHHHHHHHHhccccCCCCccchhhhhheeccCCceeccCCceeecCCCccchhhhhcccccccccCcc
Confidence 79999999999999 9999999999999999999999999999999999999999999887789999999999999999
Q ss_pred HHHHHHHHHcCHHHHhhcCCCCCCCcCCHHHHHHHHHHHcCcccccCCcccHHHHHHHHHHHHHcCCcceEeCCCCC
Q psy3587 100 STVQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGRICLCLMPPQY 176 (195)
Q Consensus 100 ~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~e~L~~iA~k~g~l~~kgG~~D~~rAa~~~L~d~~~Gkl~~~~~Pp~~ 176 (195)
.++..++.++..+.+..+|..+.++ ...+||+++|+++|++ .+||.||.+.||+.||+||+.|||.||++||..
T Consensus 334 ~~v~~iL~~~~~e~~~~~Y~~~~~~--~~~~Fl~~~ar~~G~~-~kGG~pd~~~AA~~vl~Dw~~Gki~y~~~pp~~ 407 (435)
T KOG2484|consen 334 TPVSCILKRCSKESRSVLYNIPSIR--ATDDFLEKFARRRGLL-LKGGIPDVNAAAFAVLNDWRTGKIGYYTLPPTS 407 (435)
T ss_pred chHHHHHHHhhHHHHHHHhcCCCcc--hHHHHHHHHHHHHhhh-hcCCCCcHHHHHHHHHHhhccCceeeeeCCChh
Confidence 9999999999988887788766543 6889999999999999 799999999999999999999999999999873
No 3
>KOG2423|consensus
Probab=100.00 E-value=1.2e-39 Score=286.54 Aligned_cols=165 Identities=24% Similarity=0.314 Sum_probs=153.4
Q ss_pred cceeEEEEecC---ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCCCCChhhhh
Q psy3587 11 TKHFQTIFLTD---NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQV 85 (195)
Q Consensus 11 tk~~q~~~l~~---~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~~~~l~ 85 (195)
-|+|..+|.|+ .|++|||||||||| |.|+.+++|+|++.||-||-+|+|.|.+.|+|+|||||++|...+....+
T Consensus 295 lRQf~kLh~dkkqISVGfiGYPNvGKSSiINTLR~KkVCkvAPIpGETKVWQYItLmkrIfLIDcPGvVyps~dset~iv 374 (572)
T KOG2423|consen 295 LRQFAKLHSDKKQISVGFIGYPNVGKSSIINTLRKKKVCKVAPIPGETKVWQYITLMKRIFLIDCPGVVYPSSDSETDIV 374 (572)
T ss_pred HHHHHhhccCccceeeeeecCCCCchHHHHHHHhhcccccccCCCCcchHHHHHHHHhceeEecCCCccCCCCCchHHHH
Confidence 36777888888 79999999999999 99999999999999999999999999999999999999999987777789
Q ss_pred hhCCCCCccccCHHHHHHHHHHHcCHHHHhhcCCCCCCCcCCHHHHHHHHHHHcCcccccCCcccHHHHHHHHHHHHHcC
Q psy3587 86 LMGSFPIAQLREPYSTVQYLAERMDLIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEG 165 (195)
Q Consensus 86 l~g~~~~~~i~d~~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~e~L~~iA~k~g~l~~kgG~~D~~rAa~~~L~d~~~G 165 (195)
|.|++.++.+.+|...+..+++|+..+.|.+.|+++.+ .+..+||+.+|++.|.| .|||+||+.-.|+++|+||+.|
T Consensus 375 LkGvVRVenv~~pe~yi~~vl~R~k~ehl~rtYkI~~w--~d~~dfle~La~k~GkL-lKGGEPd~~~vsKmvLnDwqRG 451 (572)
T KOG2423|consen 375 LKGVVRVENVKNPEDYIDGVLERCKPEHLSRTYKISGW--NDSTDFLEKLAIKQGKL-LKGGEPDLVVVSKMVLNDWQRG 451 (572)
T ss_pred hhceeeeeecCCHHHHHHHHHHhhhHHHHHhhhCCCcc--ccHHHHHHHHHHHhCcc-ccCCCCchhHHHHHHhhHhhcC
Confidence 99999999999999999999999998899899988764 37999999999999999 6999999999999999999999
Q ss_pred CcceEeCCCCCCC
Q psy3587 166 RICLCLMPPQYLS 178 (195)
Q Consensus 166 kl~~~~~Pp~~~~ 178 (195)
||+||.+||+.+.
T Consensus 452 kiP~FVpPp~~e~ 464 (572)
T KOG2423|consen 452 KIPFFVPPPGLEE 464 (572)
T ss_pred CCceecCCCcccc
Confidence 9999999986553
No 4
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=100.00 E-value=4.7e-35 Score=251.97 Aligned_cols=149 Identities=19% Similarity=0.218 Sum_probs=128.0
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCCCCChh---hhhhhCCCCCcccc
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKP---LQVLMGSFPIAQLR 96 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~~~---~l~l~g~~~~~~i~ 96 (195)
+++++|+||||||| |+|.+++.+.|++.||+||++|++.++..++|+|||||++|++.+.+ .++++|+++.+ +.
T Consensus 123 ~~~~~G~pnvGKSsliN~l~~~~~~~~~~~~g~T~~~~~~~~~~~~~l~DtPGi~~~~~~~~~~~~~l~~~~~i~~~-~~ 201 (287)
T PRK09563 123 RAMIIGIPNVGKSTLINRLAGKKIAKTGNRPGVTKAQQWIKLGKGLELLDTPGILWPKLEDQEVGLKLALTGAIKDE-AL 201 (287)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCccccCCCCCeEEEEEEEEeCCcEEEEECCCcCCCCCCcHHHHHHHHHhCCcchh-hc
Confidence 69999999999999 99999999999999999999999999999999999999999987764 47899998865 43
Q ss_pred CHHHHHHHHHHHcC---HHHHhhcCCCCCCCcCCHHHHHHHHHHHcCcccccCCcccHHHHHHHHHHHHHcCCcceEeCC
Q psy3587 97 EPYSTVQYLAERMD---LIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGRICLCLMP 173 (195)
Q Consensus 97 d~~~~~~~l~~~~~---~~~l~~~~~~~~~~~~~~~e~L~~iA~k~g~l~~kgG~~D~~rAa~~~L~d~~~Gkl~~~~~P 173 (195)
++...+.++++++. .+.+..+|+++.+. .+.++||+++|+++|++ .|||+||+++||+.||+||++|||+++++.
T Consensus 202 ~~~~~~~~ll~~l~~~~~~~l~~~y~~~~~~-~~~~~~l~~~a~~~g~~-~k~g~~D~~~aa~~~l~d~~~Gklg~~~ld 279 (287)
T PRK09563 202 DLEEVAIFALEYLSKHYPERLKERYKLDELP-EDILELLEAIARKRGAL-RKGGEIDYERASELLLNEFRNGKLGKITLE 279 (287)
T ss_pred ChHHHHHHHHHHHHhhCHHHHHHHhCCCCCC-CCHHHHHHHHHHHhCcc-ccCCccCHHHHHHHHHHHHHcCCCCcEEcc
Confidence 55556666666554 34567777765432 38999999999999999 699999999999999999999999999843
No 5
>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=100.00 E-value=1.2e-33 Score=241.81 Aligned_cols=148 Identities=23% Similarity=0.246 Sum_probs=127.1
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCCCCChh---hhhhhCCCCCcccc
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKP---LQVLMGSFPIAQLR 96 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~~~---~l~l~g~~~~~~i~ 96 (195)
+++++|+||||||| |+|.+++.+.|++.||+|++.|++.++.+++|+||||+++|.+.+.+ .++++|+++.+.+
T Consensus 120 ~~~~vG~~nvGKSslin~l~~~~~~~~~~~~g~T~~~~~~~~~~~~~l~DtPG~~~~~~~~~~~~~~l~~~g~i~~~~~- 198 (276)
T TIGR03596 120 RAMIVGIPNVGKSTLINRLAGKKVAKVGNRPGVTKGQQWIKLSDGLELLDTPGILWPKFEDQEVGLKLAATGAIKDEAL- 198 (276)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCccccCCCCCeecceEEEEeCCCEEEEECCCcccCCCCchHHHHHHHHhCCcccccC-
Confidence 69999999999999 99999999999999999999999999999999999999999988764 4789999987755
Q ss_pred CHHHHHHHHHHHcC---HHHHhhcCCCCCCCcCCHHHHHHHHHHHcCcccccCCcccHHHHHHHHHHHHHcCCcceEeC
Q psy3587 97 EPYSTVQYLAERMD---LIKLLHIKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGRICLCLM 172 (195)
Q Consensus 97 d~~~~~~~l~~~~~---~~~l~~~~~~~~~~~~~~~e~L~~iA~k~g~l~~kgG~~D~~rAa~~~L~d~~~Gkl~~~~~ 172 (195)
++...+.++++.+. .+.+.+.|+.+.+ ..+.++||+++|+++|++ .|||+||+++||+.||+||++|||+++++
T Consensus 199 ~~~~~~~~~~~~l~~~~~~~l~~~y~i~~~-~~~~~~~l~~~a~~~g~~-~k~g~~D~~~aa~~~l~d~~~Gklg~~~l 275 (276)
T TIGR03596 199 DLEDVALFLLEYLLEHYPERLKERYKLDEL-PEDIVELLEAIAKKRGCL-LKGGELDLDRAAEILLNDFRKGKLGRITL 275 (276)
T ss_pred ChHHHHHHHHHHHHhhCHHHHHHHhCcCCC-CCCHHHHHHHHHHHhCcc-ccCCccCHHHHHHHHHHHHHcCCCCceec
Confidence 44555555554443 2566677776532 238999999999999999 79999999999999999999999999975
No 6
>COG1161 Predicted GTPases [General function prediction only]
Probab=100.00 E-value=3.3e-34 Score=250.66 Aligned_cols=156 Identities=22% Similarity=0.222 Sum_probs=127.5
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCCCCChhhhhhhCCCCCccccCH
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVLMGSFPIAQLREP 98 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~~~~l~l~g~~~~~~i~d~ 98 (195)
.+++|||+||||||| |+|++++.|.||+.||+||++|||++++.++|+|||||+||++.+. .+++.+..+.+.++++
T Consensus 133 ~~v~vvG~PNVGKSslIN~L~~k~~~~~s~~PG~Tk~~q~i~~~~~i~LlDtPGii~~~~~~~-~~v~~~l~~~~~Ik~~ 211 (322)
T COG1161 133 IRVGVVGYPNVGKSTLINRLLGKKVAKTSNRPGTTKGIQWIKLDDGIYLLDTPGIIPPKFDDD-ELVLLKLAPKGEIKDP 211 (322)
T ss_pred eEEEEEcCCCCcHHHHHHHHhcccceeeCCCCceecceEEEEcCCCeEEecCCCcCCCCccch-HHHhhccccccccCcc
Confidence 369999999999999 9999999999999999999999999999999999999999999884 3677788888888888
Q ss_pred HHHHHHHHHHcCH----HHHh-h-----cCCCCCCCcCCHHHHHHHHHHHcCcccccCCcccHHHHHHHHHHHHHcCCcc
Q psy3587 99 YSTVQYLAERMDL----IKLL-H-----IKHPDDDEYWCAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGRIC 168 (195)
Q Consensus 99 ~~~~~~l~~~~~~----~~l~-~-----~~~~~~~~~~~~~e~L~~iA~k~g~l~~kgG~~D~~rAa~~~L~d~~~Gkl~ 168 (195)
...+..+..++.. ++.+ . .|...+....+.+++++.+|.++|+++.+||++|+++||..+++||+.|+|+
T Consensus 212 ~~~~~~v~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~~~l~~~a~~rg~~l~~~g~~d~~~~~~~~~~d~~~gklg 291 (322)
T COG1161 212 VLPADEVAERLLGGLLIDEHYGEKLNITRYESNPIHRTDPEEFLELIAKKRGWLLLKGGEPDLERAAETILKDIRNGKLG 291 (322)
T ss_pred ccChHHHHHHHHhhhhhhhhhhHhhCCcccccccccccCHHHHHHHHHHHhhhhhcCCCCccHHHHHHHHHHHHHhCCcc
Confidence 7666655554431 1111 1 1222112234788999999999995547899999999999999999999999
Q ss_pred eEeCCCCCC
Q psy3587 169 LCLMPPQYL 177 (195)
Q Consensus 169 ~~~~Pp~~~ 177 (195)
|+++|+..+
T Consensus 292 ~~~~~~~~~ 300 (322)
T COG1161 292 WFSLEEPED 300 (322)
T ss_pred eeecCCccc
Confidence 999887643
No 7
>KOG2485|consensus
Probab=99.87 E-value=3.1e-22 Score=172.26 Aligned_cols=154 Identities=19% Similarity=0.141 Sum_probs=118.2
Q ss_pred EEEecCceEeecCCCCccCC--CC-----CCCCcccccCCCCCCccceeE-EEe--cCCeEEecCCCCCCCCCCChh---
Q psy3587 16 TIFLTDNIRLCDCPGLVFPS--KV-----PKPLQVVSVSRTPGHTKHFQT-IFL--TDNIRLCDCPGLVFPSKVPKP--- 82 (195)
Q Consensus 16 ~~~l~~~v~vvG~PNVGKSs--N~-----L~~kk~v~vg~~PGvTk~~Q~-i~l--~~~i~LlDtPGIv~p~~~~~~--- 82 (195)
|...+.+|||+|+||||||| |+ |..+|+++||+.||+|+.++. |++ ++.+|++|||||+.|++.+.+
T Consensus 139 t~~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~iri~~rp~vy~iDTPGil~P~I~~~e~~l 218 (335)
T KOG2485|consen 139 TLNSEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVSERIRISHRPPVYLIDTPGILVPSIVDVEDGL 218 (335)
T ss_pred ccCCceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeehhheEeccCCceEEecCCCcCCCCCCCHHHhh
Confidence 34556789999999999999 75 567899999999999999999 666 578999999999999998876
Q ss_pred hhhhhCCCCCccccCHHHHHHHHHHHcCHHH--H-hhcCCCCCCCcCCHHHHHHHHHHHcCccc---ccCCc-------c
Q psy3587 83 LQVLMGSFPIAQLREPYSTVQYLAERMDLIK--L-LHIKHPDDDEYWCAMDICDGWAQKRSYMT---AKTGR-------Y 149 (195)
Q Consensus 83 ~l~l~g~~~~~~i~d~~~~~~~l~~~~~~~~--l-~~~~~~~~~~~~~~~e~L~~iA~k~g~l~---~kgG~-------~ 149 (195)
.|+|+|+++.. +.+++..++|++..++... . .+.+++......+++.-|.-+|.++.+.. .-.|. +
T Consensus 219 KLAL~g~Vkd~-~V~~~~~adylL~~lN~~~~~~y~~~l~~~~~~~dd~~~nl~~l~v~~~~~~k~s~fdg~~~~ei~~~ 297 (335)
T KOG2485|consen 219 KLALCGLVKDH-LVGEETIADYLLYLLNSHSDFSYVKDLKPGSTPADDIEQNLAVLAVRRTKNEKVSAFDGNNKLEIEQP 297 (335)
T ss_pred hhhhccccccc-ccCHHHHHHHHHHHHhccCcchhHHHhccCCCccccHHHHHHHHHHHHHhcceeeEecCCceeEEech
Confidence 58999999855 5577888999988877432 1 12223332223478888899999876541 11222 2
Q ss_pred cHHHHHHHHHHHHHcCCcceE
Q psy3587 150 DSYRAANELLRMATEGRICLC 170 (195)
Q Consensus 150 D~~rAa~~~L~d~~~Gkl~~~ 170 (195)
.+-++|+.+++-|++|.++-+
T Consensus 298 ~~ln~~e~~l~~~rsg~l~~~ 318 (335)
T KOG2485|consen 298 NLLNLARFFLATFRSGLLGPE 318 (335)
T ss_pred HHHHHHHHHHHHHHhccccce
Confidence 467899999999999998765
No 8
>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=99.63 E-value=1.1e-16 Score=128.55 Aligned_cols=52 Identities=29% Similarity=0.486 Sum_probs=50.8
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGI 73 (195)
+++++|+||||||| |+|.+++.+.|++.||+|+++||+.++.+++|+|||||
T Consensus 119 ~~~~vG~pnvGKSslin~l~~~~~~~~~~~pg~T~~~~~~~~~~~~~l~DtPGi 172 (172)
T cd04178 119 TVGVVGFPNVGKSSLINSLKRSRACNVGATPGVTKSMQEVHLDKKVKLLDSPGI 172 (172)
T ss_pred EEEEEcCCCCCHHHHHHHHhCcccceecCCCCeEcceEEEEeCCCEEEEECcCC
Confidence 79999999999999 99999999999999999999999999999999999997
No 9
>cd01857 HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.
Probab=99.59 E-value=7.8e-16 Score=118.97 Aligned_cols=55 Identities=58% Similarity=0.889 Sum_probs=53.3
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFP 76 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p 76 (195)
+++++|.||||||| |+|.+++.+.++..||.|++.|++.++++++|+||||+++|
T Consensus 85 ~~~~~G~~~vGKstlin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~p 141 (141)
T cd01857 85 TIGLVGYPNVGKSSLINALVGKKKVSVSATPGKTKHFQTIFLTPTITLCDCPGLVFP 141 (141)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCceeeCCCCCcccceEEEEeCCCEEEEECCCcCCC
Confidence 79999999999999 99999999999999999999999999999999999999998
No 10
>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=99.58 E-value=7.3e-16 Score=120.92 Aligned_cols=52 Identities=33% Similarity=0.531 Sum_probs=50.4
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGI 73 (195)
+++++|.||||||| |+|.+.+.+.|++.||.|++.|++.+++.++|+|||||
T Consensus 104 ~v~~~G~~nvGKStliN~l~~~~~~~~~~~~g~T~~~~~~~~~~~~~liDtPGi 157 (157)
T cd01858 104 SVGFIGYPNVGKSSIINTLRSKKVCKVAPIPGETKVWQYITLMKRIYLIDCPGV 157 (157)
T ss_pred EEEEEeCCCCChHHHHHHHhcCCceeeCCCCCeeEeEEEEEcCCCEEEEECcCC
Confidence 68999999999999 99999999999999999999999999989999999997
No 11
>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=99.38 E-value=1.9e-13 Score=107.09 Aligned_cols=54 Identities=24% Similarity=0.348 Sum_probs=51.2
Q ss_pred cCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCC
Q psy3587 20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGL 73 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGI 73 (195)
..+++++|.||||||| |.|.+.+.+++++.||.|++.|++.++..++|+||||+
T Consensus 100 ~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~liDtPG~ 155 (155)
T cd01849 100 SITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTTTSQQEVKLDNKIKLLDTPGI 155 (155)
T ss_pred CcEEEEEccCCCCHHHHHHHHHccccccccCCCCcccceEEEEecCCEEEEECCCC
Confidence 3479999999999999 99999999999999999999999999999999999997
No 12
>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=99.32 E-value=5.3e-13 Score=107.60 Aligned_cols=53 Identities=19% Similarity=0.316 Sum_probs=48.0
Q ss_pred CceEeecCCCCccCC--CCCCCC--------cccccCCCCCCccceeEEEecCCeEEecCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPL--------QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGL 73 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~k--------k~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGI 73 (195)
.++++||.||||||| |+|.+. ..+.++..||.|++.|++.++.+++|+||||+
T Consensus 128 ~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~~~~~~DtPG~ 190 (190)
T cd01855 128 GDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTTLDLIKIPLGNGKKLYDTPGI 190 (190)
T ss_pred CcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCeeeeeEEEecCCCCEEEeCcCC
Confidence 579999999999999 998764 34789999999999999999889999999997
No 13
>PRK13796 GTPase YqeH; Provisional
Probab=99.29 E-value=1.1e-12 Score=116.67 Aligned_cols=58 Identities=22% Similarity=0.267 Sum_probs=51.1
Q ss_pred cCceEeecCCCCccCC--CCCCCC-----cccccCCCCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587 20 TDNIRLCDCPGLVFPS--KVPKPL-----QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS 77 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs--N~L~~k-----k~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~ 77 (195)
..++++||+||||||| |+|.++ +.+.+|+.||+|++.+++.++++.+|+||||++.+.
T Consensus 160 ~~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~~~l~~~~~l~DTPGi~~~~ 224 (365)
T PRK13796 160 GRDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIEIPLDDGSFLYDTPGIIHRH 224 (365)
T ss_pred CCeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccceeEEEEcCCCcEEEECCCccccc
Confidence 3479999999999999 998743 467799999999999999999999999999998553
No 14
>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=99.22 E-value=2.9e-12 Score=101.70 Aligned_cols=59 Identities=22% Similarity=0.241 Sum_probs=45.2
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Ee-cCCeEEecCCCCCCCCCCCh
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FL-TDNIRLCDCPGLVFPSKVPK 81 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l-~~~i~LlDtPGIv~p~~~~~ 81 (195)
+|.++|.||||||| |+|.|++ ++||+.||+|.....- .+ +..+.|+|+||+.-..-.+.
T Consensus 2 ~ialvG~PNvGKStLfN~Ltg~~-~~v~n~pG~Tv~~~~g~~~~~~~~~~lvDlPG~ysl~~~s~ 65 (156)
T PF02421_consen 2 RIALVGNPNVGKSTLFNALTGAK-QKVGNWPGTTVEKKEGIFKLGDQQVELVDLPGIYSLSSKSE 65 (156)
T ss_dssp EEEEEESTTSSHHHHHHHHHTTS-EEEEESTTSSSEEEEEEEEETTEEEEEEE----SSSSSSSH
T ss_pred EEEEECCCCCCHHHHHHHHHCCC-ceecCCCCCCeeeeeEEEEecCceEEEEECCCcccCCCCCc
Confidence 58999999999999 9999999 8899999999887653 33 46899999999965444443
No 15
>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=99.19 E-value=8.8e-12 Score=99.19 Aligned_cols=53 Identities=26% Similarity=0.364 Sum_probs=50.4
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv 74 (195)
+++++|.||||||| |.|.+.+.+.+++.||+|++.|++.++..++++||||++
T Consensus 117 ~~~~~G~~~vGKstlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~~~~iDtpG~~ 171 (171)
T cd01856 117 RAMVVGIPNVGKSTLINRLRGKKVAKVGNKPGVTKGIQWIKISPGIYLLDTPGIL 171 (171)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCceeecCCCCEEeeeEEEEecCCEEEEECCCCC
Confidence 69999999999999 999998888999999999999999998899999999985
No 16
>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=99.15 E-value=1.4e-11 Score=109.44 Aligned_cols=57 Identities=23% Similarity=0.301 Sum_probs=51.3
Q ss_pred CceEeecCCCCccCC--CCCCCC-----cccccCCCCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPL-----QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS 77 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~k-----k~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~ 77 (195)
.++++||+||||||| |+|.++ +.+.+++.||.|++++.+.++.+++|+||||+..+.
T Consensus 155 ~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~~~~~~~~~l~DtPG~~~~~ 218 (360)
T TIGR03597 155 KDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIEIPLDDGHSLYDTPGIINSH 218 (360)
T ss_pred CeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEEEEeCCCCEEEECCCCCChh
Confidence 479999999999999 998763 468999999999999999998899999999999764
No 17
>cd01859 MJ1464 MJ1464. This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.
Probab=99.15 E-value=2.2e-11 Score=95.02 Aligned_cols=53 Identities=30% Similarity=0.370 Sum_probs=50.1
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGL 73 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGI 73 (195)
.+++++|.||||||| |.|.+.+.+.+++++|.|++.|.+.++..++|+|||||
T Consensus 102 ~~~~~ig~~~~Gkssl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~DtpGi 156 (156)
T cd01859 102 GKVGVVGYPNVGKSSIINALKGRHSASTSPSPGYTKGEQLVKITSKIYLLDTPGV 156 (156)
T ss_pred cEEEEECCCCCCHHHHHHHHhCCCccccCCCCCeeeeeEEEEcCCCEEEEECcCC
Confidence 478999999999999 99999889999999999999999999889999999997
No 18
>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=99.13 E-value=2.3e-11 Score=90.29 Aligned_cols=56 Identities=18% Similarity=0.229 Sum_probs=48.3
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEec-CCeEEecCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLT-DNIRLCDCPGLVFPS 77 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~-~~i~LlDtPGIv~p~ 77 (195)
+|+|+|.||+|||| |+|.+.+.+.++..||.|++.+. +.++ ..+.|+||||+..+.
T Consensus 1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~~~~~~~vDtpG~~~~~ 61 (116)
T PF01926_consen 1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEYNNKKFILVDTPGINDGE 61 (116)
T ss_dssp EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEETTEEEEEEESSSCSSSS
T ss_pred CEEEECCCCCCHHHHHHHHhccccccccccccceeeeeeeeeeeceeeEEEEeCCCCcccc
Confidence 58999999999999 99999889999999999999955 3343 467999999988654
No 19
>COG0218 Predicted GTPase [General function prediction only]
Probab=99.13 E-value=2.7e-11 Score=99.26 Aligned_cols=59 Identities=22% Similarity=0.329 Sum_probs=54.3
Q ss_pred ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecCCeEEecCCCCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVP 80 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~ 80 (195)
-|.++|..|||||| |+|.++| .|+||++||.|+.+-.+.+++.+.|+|-||-=+-+...
T Consensus 26 EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~~~lVDlPGYGyAkv~k 87 (200)
T COG0218 26 EIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDELRLVDLPGYGYAKVPK 87 (200)
T ss_pred EEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCcEEEEeCCCcccccCCH
Confidence 69999999999999 9999955 69999999999999999999999999999998877654
No 20
>PRK12289 GTPase RsgA; Reviewed
Probab=99.11 E-value=3.8e-11 Score=106.53 Aligned_cols=59 Identities=22% Similarity=0.250 Sum_probs=55.0
Q ss_pred cCceEeecCCCCccCC--CCCCCCcccccCCCCC-------CccceeEEEecCCeEEecCCCCCCCCC
Q psy3587 20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPG-------HTKHFQTIFLTDNIRLCDCPGLVFPSK 78 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PG-------vTk~~Q~i~l~~~i~LlDtPGIv~p~~ 78 (195)
++.++|+|.||||||| |+|.+...+.||..|| .|++.|++.++.+.+|+||||+..+.+
T Consensus 172 ~ki~v~iG~SgVGKSSLIN~L~~~~~~~t~~vs~~~~rGrHTT~~~~l~~l~~g~~liDTPG~~~~~l 239 (352)
T PRK12289 172 NKITVVAGPSGVGKSSLINRLIPDVELRVGKVSGKLGRGRHTTRHVELFELPNGGLLADTPGFNQPDL 239 (352)
T ss_pred cceEEEEeCCCCCHHHHHHHHcCccccccccccCCCCCCCCcCceeEEEECCCCcEEEeCCCcccccc
Confidence 4468999999999999 9999999999999999 899999999987789999999999887
No 21
>COG1159 Era GTPase [General function prediction only]
Probab=99.10 E-value=4.2e-11 Score=103.13 Aligned_cols=57 Identities=19% Similarity=0.294 Sum_probs=50.7
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccc-eeEEEe--cCCeEEecCCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKH-FQTIFL--TDNIRLCDCPGLVFPSK 78 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~-~Q~i~l--~~~i~LlDtPGIv~p~~ 78 (195)
-|+|||-||||||| |+|.|.|.+=||++|..||+ ++.|.. +.+|.++||||+..|+-
T Consensus 8 fVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t~~~~QiIfvDTPGih~pk~ 69 (298)
T COG1159 8 FVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTTDNAQIIFVDTPGIHKPKH 69 (298)
T ss_pred EEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhhhheeEEEEcCCceEEEEeCCCCCCcch
Confidence 48999999999999 99999999999999999986 566655 45899999999999964
No 22
>KOG1424|consensus
Probab=99.07 E-value=4.7e-11 Score=108.93 Aligned_cols=50 Identities=60% Similarity=0.974 Sum_probs=39.8
Q ss_pred CccccCCCCccceeEEEEecCceEeecCCCCccCCCCCCCCcccccCCCC
Q psy3587 1 VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPKPLQVVSVSRTP 50 (195)
Q Consensus 1 ~~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSsN~L~~kk~v~vg~~P 50 (195)
+||||+|||||||||||+|+..+|+|||||.++.|-+..+.-.+-.|-.|
T Consensus 339 kVsVS~TPGkTKHFQTi~ls~~v~LCDCPGLVfPSf~~~r~emvl~GiLP 388 (562)
T KOG1424|consen 339 KVSVSSTPGKTKHFQTIFLSPSVCLCDCPGLVFPSFSPTRAEMVLNGILP 388 (562)
T ss_pred eeeeecCCCCcceeEEEEcCCCceecCCCCccccCCCchHHHHHHhcCcc
Confidence 58999999999999999999999999999999998544333333333333
No 23
>TIGR00157 ribosome small subunit-dependent GTPase A. The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).
Probab=99.07 E-value=3.6e-11 Score=101.57 Aligned_cols=76 Identities=13% Similarity=0.086 Sum_probs=60.0
Q ss_pred cccCCCCc--cceeEEEEecCceEeecCCCCccCC--CCCCCCcccccCCCCC-------CccceeEEEecCCeEEecCC
Q psy3587 3 SVSRTPGH--TKHFQTIFLTDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPG-------HTKHFQTIFLTDNIRLCDCP 71 (195)
Q Consensus 3 ~v~~~~g~--tk~~q~~~l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PG-------vTk~~Q~i~l~~~i~LlDtP 71 (195)
.+|+..|. ..-++.+. .+.++++|.||||||| |.|.+....+||..++ .|++.+++.+ .+-+|+|||
T Consensus 102 ~~SAktg~gi~eLf~~l~-~~~~~~~G~sgvGKStLiN~L~~~~~~~t~~i~~~~~~G~hTT~~~~l~~l-~~~~liDtP 179 (245)
T TIGR00157 102 MTSSKNQDGLKELIEALQ-NRISVFAGQSGVGKSSLINALDPSVKQQVNDISSKLGLGKHTTTHVELFHF-HGGLIADTP 179 (245)
T ss_pred EEecCCchhHHHHHhhhc-CCEEEEECCCCCCHHHHHHHHhhhhhccccceeccCCCCCCcCCceEEEEc-CCcEEEeCC
Confidence 45666553 33344332 5689999999999999 9999988888887775 8999999999 467999999
Q ss_pred CCCCCCCCC
Q psy3587 72 GLVFPSKVP 80 (195)
Q Consensus 72 GIv~p~~~~ 80 (195)
|+..+.+..
T Consensus 180 G~~~~~l~~ 188 (245)
T TIGR00157 180 GFNEFGLWH 188 (245)
T ss_pred CccccCCCC
Confidence 999888754
No 24
>PRK12288 GTPase RsgA; Reviewed
Probab=98.99 E-value=1.9e-10 Score=101.88 Aligned_cols=59 Identities=15% Similarity=0.055 Sum_probs=53.1
Q ss_pred cCceEeecCCCCccCC--CCCCCCcccccCCCCC-------CccceeEEEecCCeEEecCCCCCCCCC
Q psy3587 20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPG-------HTKHFQTIFLTDNIRLCDCPGLVFPSK 78 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PG-------vTk~~Q~i~l~~~i~LlDtPGIv~p~~ 78 (195)
.+.++++|.||||||| |+|.++..++||..++ +|++.+++.++.+.+|+||||+---.+
T Consensus 205 ~ki~~~vG~sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~l~~l~~~~~liDTPGir~~~l 272 (347)
T PRK12288 205 GRISIFVGQSGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTAARLYHFPHGGDLIDSPGVREFGL 272 (347)
T ss_pred hCCEEEECCCCCCHHHHHHHhccccceeeccccCcCCCCcCceeeEEEEEecCCCEEEECCCCCcccC
Confidence 4468999999999999 9999999999999998 589999999988889999999986544
No 25
>COG1160 Predicted GTPases [General function prediction only]
Probab=98.97 E-value=2e-10 Score=103.72 Aligned_cols=57 Identities=19% Similarity=0.098 Sum_probs=50.2
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Ee-cCCeEEecCCCCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FL-TDNIRLCDCPGLVFPS 77 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l-~~~i~LlDtPGIv~p~ 77 (195)
..|.|||-||||||| |.|.+++.|=|+.+||+||.-..- .+ +..+.|+||+|+..-+
T Consensus 4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~~~~~f~lIDTgGl~~~~ 65 (444)
T COG1160 4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLGREFILIDTGGLDDGD 65 (444)
T ss_pred CEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCCccceeEEcCceEEEEECCCCCcCC
Confidence 469999999999999 999999999999999999987663 33 5679999999999654
No 26
>KOG1423|consensus
Probab=98.97 E-value=3.9e-10 Score=97.78 Aligned_cols=58 Identities=21% Similarity=0.215 Sum_probs=50.3
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVFPSKV 79 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~~~ 79 (195)
+|+|||.||||||| |.+.|.|++.|+.++-.||+--.=.+ +-.+.++||||++-++..
T Consensus 74 ~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi~ts~eTQlvf~DTPGlvs~~~~ 136 (379)
T KOG1423|consen 74 YVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGIITSGETQLVFYDTPGLVSKKMH 136 (379)
T ss_pred EEEEEcCCCcchhhhhhHhhCCccccccccccceeeeeeEEEecCceEEEEecCCcccccchh
Confidence 79999999999999 99999999999999999987655333 237999999999998754
No 27
>PRK12298 obgE GTPase CgtA; Reviewed
Probab=98.95 E-value=7.4e-10 Score=99.56 Aligned_cols=70 Identities=19% Similarity=0.199 Sum_probs=54.2
Q ss_pred CCCccceeEEEEe--cCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe--c--CCeEEecCCCCCCCCC
Q psy3587 7 TPGHTKHFQTIFL--TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL--T--DNIRLCDCPGLVFPSK 78 (195)
Q Consensus 7 ~~g~tk~~q~~~l--~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l--~--~~i~LlDtPGIv~p~~ 78 (195)
.||+.+ +-.+.| --.|+|||.||||||| |+|.+.+. +|++.|+.|+....-.+ + ..+.++||||+..+..
T Consensus 145 ~~g~~~-~~~lelk~iadValVG~PNaGKSTLln~Lt~~k~-~vs~~p~TT~~p~~Giv~~~~~~~i~~vDtPGi~~~a~ 222 (390)
T PRK12298 145 TPGEER-ELKLELKLLADVGLLGLPNAGKSTFIRAVSAAKP-KVADYPFTTLVPNLGVVRVDDERSFVVADIPGLIEGAS 222 (390)
T ss_pred CCCceE-EEEEeeeccccEEEEcCCCCCHHHHHHHHhCCcc-cccCCCCCccCcEEEEEEeCCCcEEEEEeCCCcccccc
Confidence 466666 333333 2389999999999999 99998774 99999999988777444 3 2599999999987653
No 28
>TIGR00436 era GTP-binding protein Era. Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.
Probab=98.86 E-value=1.3e-09 Score=92.78 Aligned_cols=56 Identities=14% Similarity=0.129 Sum_probs=46.9
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCcccee-EEEe--cCCeEEecCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQ-TIFL--TDNIRLCDCPGLVFPS 77 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q-~i~l--~~~i~LlDtPGIv~p~ 77 (195)
+|+++|.||||||| |+|.+.+.+.|++.|+.|++.. .+.. +..+.++||||+..+.
T Consensus 2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~~i~~i~~~~~~qii~vDTPG~~~~~ 62 (270)
T TIGR00436 2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNRISGIHTTGASQIIFIDTPGFHEKK 62 (270)
T ss_pred EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccCcEEEEEEcCCcEEEEEECcCCCCCc
Confidence 48999999999999 9999999999999999998743 3333 2358999999998663
No 29
>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1). This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).
Probab=98.84 E-value=2.3e-09 Score=86.88 Aligned_cols=57 Identities=19% Similarity=0.114 Sum_probs=48.4
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCC-CCCCccceeEEEe---cCCeEEecCCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSR-TPGHTKHFQTIFL---TDNIRLCDCPGLVFPSK 78 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~-~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~~ 78 (195)
+|+++|-||+|||| |+|.+++.+.++. .+|+|+..|.... +..+.++||||+..+..
T Consensus 2 ~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~~~~i~viDTPG~~d~~~ 64 (196)
T cd01852 2 RLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVWDGRRVNVIDTPGLFDTSV 64 (196)
T ss_pred EEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEECCeEEEEEECcCCCCccC
Confidence 68999999999999 9999998877764 6799999887643 45799999999998764
No 30
>COG1084 Predicted GTPase [General function prediction only]
Probab=98.81 E-value=2.1e-09 Score=93.84 Aligned_cols=67 Identities=21% Similarity=0.164 Sum_probs=55.1
Q ss_pred ceeEEEEecC-ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec---CCeEEecCCCCCCCCCC
Q psy3587 12 KHFQTIFLTD-NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT---DNIRLCDCPGLVFPSKV 79 (195)
Q Consensus 12 k~~q~~~l~~-~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~---~~i~LlDtPGIv~p~~~ 79 (195)
|.+..|.++- .+.|+|+||||||| +++.+.+ ..|++.|=.||+++.=+.+ ..+.++||||++.-.++
T Consensus 159 ~~LP~Idp~~pTivVaG~PNVGKSSlv~~lT~Ak-pEvA~YPFTTK~i~vGhfe~~~~R~QvIDTPGlLDRPl~ 231 (346)
T COG1084 159 KKLPAIDPDLPTIVVAGYPNVGKSSLVRKLTTAK-PEVAPYPFTTKGIHVGHFERGYLRIQVIDTPGLLDRPLE 231 (346)
T ss_pred hcCCCCCCCCCeEEEecCCCCcHHHHHHHHhcCC-CccCCCCccccceeEeeeecCCceEEEecCCcccCCChH
Confidence 4455666554 89999999999999 8888776 8999999999999885553 36999999999987664
No 31
>KOG2423|consensus
Probab=98.81 E-value=4.4e-10 Score=100.28 Aligned_cols=92 Identities=27% Similarity=0.351 Sum_probs=63.7
Q ss_pred CccccCCCCccceeEEEEecCceEeecCCCCccCC--C--CCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCC
Q psy3587 1 VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS--K--VPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFP 76 (195)
Q Consensus 1 ~~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs--N--~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p 76 (195)
||.|+++||+||+||+|.|+++|.+|+||||...| + .+..+.+|+|.+.-.---+++.+ +-
T Consensus 332 VCkvAPIpGETKVWQYItLmkrIfLIDcPGvVyps~dset~ivLkGvVRVenv~~pe~yi~~v--------------l~- 396 (572)
T KOG2423|consen 332 VCKVAPIPGETKVWQYITLMKRIFLIDCPGVVYPSSDSETDIVLKGVVRVENVKNPEDYIDGV--------------LE- 396 (572)
T ss_pred cccccCCCCcchHHHHHHHHhceeEecCCCccCCCCCchHHHHhhceeeeeecCCHHHHHHHH--------------HH-
Confidence 89999999999999999999999999999999998 3 47778888887743222222111 10
Q ss_pred CCCChhhhhhhCCCCCccccCHHHHHHHHHHHcC
Q psy3587 77 SKVPKPLQVLMGSFPIAQLREPYSTVQYLAERMD 110 (195)
Q Consensus 77 ~~~~~~~l~l~g~~~~~~i~d~~~~~~~l~~~~~ 110 (195)
... .-.|.-.+.++.+.|...+++.|+.+-.
T Consensus 397 R~k---~ehl~rtYkI~~w~d~~dfle~La~k~G 427 (572)
T KOG2423|consen 397 RCK---PEHLSRTYKISGWNDSTDFLEKLAIKQG 427 (572)
T ss_pred hhh---HHHHHhhhCCCccccHHHHHHHHHHHhC
Confidence 000 0234455666667777667776666543
No 32
>PRK00098 GTPase RsgA; Reviewed
Probab=98.77 E-value=2e-09 Score=93.31 Aligned_cols=72 Identities=17% Similarity=0.128 Sum_probs=58.0
Q ss_pred cccCCCCc--cceeEEEEecCceEeecCCCCccCC--CCCCCCcccccCCCCC-------CccceeEEEecCCeEEecCC
Q psy3587 3 SVSRTPGH--TKHFQTIFLTDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPG-------HTKHFQTIFLTDNIRLCDCP 71 (195)
Q Consensus 3 ~v~~~~g~--tk~~q~~~l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PG-------vTk~~Q~i~l~~~i~LlDtP 71 (195)
.+|+..|. ..-++.+. .+.++++|.||||||| |+|.+.....+|..++ .|++.+++.++...+|+|||
T Consensus 146 ~vSA~~g~gi~~L~~~l~-gk~~~~~G~sgvGKStlin~l~~~~~~~~g~v~~~~~~G~htT~~~~~~~~~~~~~~~Dtp 224 (298)
T PRK00098 146 ELSAKEGEGLDELKPLLA-GKVTVLAGQSGVGKSTLLNALAPDLELKTGEISEALGRGKHTTTHVELYDLPGGGLLIDTP 224 (298)
T ss_pred EEeCCCCccHHHHHhhcc-CceEEEECCCCCCHHHHHHHHhCCcCCCCcceeccCCCCCcccccEEEEEcCCCcEEEECC
Confidence 45555543 22333333 6689999999999999 9999998899998887 78999999998889999999
Q ss_pred CCCC
Q psy3587 72 GLVF 75 (195)
Q Consensus 72 GIv~ 75 (195)
|+-.
T Consensus 225 G~~~ 228 (298)
T PRK00098 225 GFSS 228 (298)
T ss_pred CcCc
Confidence 9974
No 33
>PRK09601 GTP-binding protein YchF; Reviewed
Probab=98.75 E-value=4.1e-09 Score=93.87 Aligned_cols=55 Identities=16% Similarity=0.133 Sum_probs=45.9
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEecC------------------CeEEecCCCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLTD------------------NIRLCDCPGLVFP 76 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~~------------------~i~LlDtPGIv~p 76 (195)
-+++|||.||||||| |+|.+.+ +.+++.||.|+.... +.+.. .+.|+|+||++..
T Consensus 3 ~~vgIVG~PNvGKSTLfnaLt~~~-~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~ 79 (364)
T PRK09601 3 LKCGIVGLPNVGKSTLFNALTKAG-AEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKG 79 (364)
T ss_pred cEEEEECCCCCCHHHHHHHHhCCC-CeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCC
Confidence 369999999999999 9999988 799999999977653 33322 4999999999954
No 34
>cd01900 YchF YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.
Probab=98.75 E-value=3.7e-09 Score=90.93 Aligned_cols=54 Identities=19% Similarity=0.193 Sum_probs=44.8
Q ss_pred eEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEecC------------------CeEEecCCCCCCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLTD------------------NIRLCDCPGLVFPS 77 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~~------------------~i~LlDtPGIv~p~ 77 (195)
++|||.||||||| |+|.+.+. .+++.|+.|+.... +.+.. .+.++|+||++...
T Consensus 1 igivG~PN~GKSTLfn~Lt~~~~-~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a 76 (274)
T cd01900 1 IGIVGLPNVGKSTLFNALTKAGA-EAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGA 76 (274)
T ss_pred CeEeCCCCCcHHHHHHHHhCCCC-ccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCC
Confidence 5899999999999 99999987 99999999977665 23322 39999999999543
No 35
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=98.73 E-value=6e-09 Score=83.22 Aligned_cols=56 Identities=23% Similarity=0.370 Sum_probs=50.3
Q ss_pred ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS 77 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~ 77 (195)
+|+++|-+|+|||| |+|.+++ .+.+++.||.|+.+++..++.++.|+||||+....
T Consensus 26 ~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~~l~l~DtpG~~~~~ 84 (196)
T PRK00454 26 EIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEVNDKLRLVDLPGYGYAK 84 (196)
T ss_pred EEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEecCCeEEEeCCCCCCCcC
Confidence 79999999999999 9998875 88999999999999998888899999999976543
No 36
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=98.73 E-value=5.2e-09 Score=94.89 Aligned_cols=54 Identities=17% Similarity=0.142 Sum_probs=49.1
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe--c-CCeEEecCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL--T-DNIRLCDCPGLVF 75 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l--~-~~i~LlDtPGIv~ 75 (195)
++.|+|.||||||| |+|.++..|=|...||.||.+=...+ + -.+.|+||-||=.
T Consensus 219 kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i~G~pv~l~DTAGiRe 277 (454)
T COG0486 219 KVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINLNGIPVRLVDTAGIRE 277 (454)
T ss_pred eEEEECCCCCcHHHHHHHHhcCCceEecCCCCCccceEEEEEEECCEEEEEEecCCccc
Confidence 89999999999999 99999999999999999999887554 3 4799999999984
No 37
>PRK12299 obgE GTPase CgtA; Reviewed
Probab=98.72 E-value=1e-08 Score=90.48 Aligned_cols=69 Identities=17% Similarity=0.250 Sum_probs=53.6
Q ss_pred CCCccceeE-EEEecCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Ee-c-CCeEEecCCCCCCC
Q psy3587 7 TPGHTKHFQ-TIFLTDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FL-T-DNIRLCDCPGLVFP 76 (195)
Q Consensus 7 ~~g~tk~~q-~~~l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l-~-~~i~LlDtPGIv~p 76 (195)
+||+.+.+. ++.+--.|+|||+||+|||| |+|.+.+ .++++.|+.|+..+.- .+ + ..+.+.|+||++..
T Consensus 144 ~~g~~~~~~lelk~~adVglVG~PNaGKSTLln~ls~a~-~~va~ypfTT~~p~~G~v~~~~~~~~~i~D~PGli~g 219 (335)
T PRK12299 144 EPGEERWLRLELKLLADVGLVGLPNAGKSTLISAVSAAK-PKIADYPFTTLHPNLGVVRVDDYKSFVIADIPGLIEG 219 (335)
T ss_pred CCCcEEEEEEEEcccCCEEEEcCCCCCHHHHHHHHHcCC-CccCCCCCceeCceEEEEEeCCCcEEEEEeCCCccCC
Confidence 577777433 33344489999999999999 9998866 5699999999988774 34 2 36999999999853
No 38
>PTZ00258 GTP-binding protein; Provisional
Probab=98.72 E-value=6.9e-09 Score=93.28 Aligned_cols=55 Identities=18% Similarity=0.159 Sum_probs=45.1
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Eec------------------CCeEEecCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FLT------------------DNIRLCDCPGLVFPS 77 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l~------------------~~i~LlDtPGIv~p~ 77 (195)
+++|||.||||||| |+|.+.+ +.+++.||.|+....- .+. -.+.++||||++...
T Consensus 23 kvgIVG~PNvGKSTLfnaLt~~~-~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~ga 99 (390)
T PTZ00258 23 KMGIVGLPNVGKSTTFNALCKQQ-VPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKGA 99 (390)
T ss_pred EEEEECCCCCChHHHHHHHhcCc-ccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCcCC
Confidence 79999999999999 9997776 6999999999775552 222 248999999999654
No 39
>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=98.71 E-value=8.2e-09 Score=82.18 Aligned_cols=56 Identities=23% Similarity=0.357 Sum_probs=49.7
Q ss_pred ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS 77 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~ 77 (195)
+|+|+|.+|+|||| |.|.+.+ ...+++.||.|++.++...++++.++||||+-...
T Consensus 20 ~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~liDtpG~~~~~ 78 (179)
T TIGR03598 20 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVNDGFRLVDLPGYGYAK 78 (179)
T ss_pred EEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCCcEEEEeCCCCcccc
Confidence 89999999999999 9998875 78899999999999988777889999999975543
No 40
>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.
Probab=98.70 E-value=7.9e-09 Score=92.94 Aligned_cols=54 Identities=19% Similarity=0.094 Sum_probs=47.0
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVF 75 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~ 75 (195)
+|+++|-||||||| |.|.+++.+.+++.||+|+..+...+ +..+.|+||||+..
T Consensus 1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~~~~~~liDTpG~~~ 59 (429)
T TIGR03594 1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGGREFILIDTGGIEE 59 (429)
T ss_pred CEEEECCCCCCHHHHHHHHhCCCcceecCCCCcccCceEEEEEECCeEEEEEECCCCCC
Confidence 48999999999999 99999998999999999998776543 45799999999853
No 41
>PRK12297 obgE GTPase CgtA; Reviewed
Probab=98.68 E-value=1.6e-08 Score=91.95 Aligned_cols=67 Identities=16% Similarity=0.198 Sum_probs=52.3
Q ss_pred CCCccceeEEEEe--cCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe----cCCeEEecCCCCCC
Q psy3587 7 TPGHTKHFQTIFL--TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL----TDNIRLCDCPGLVF 75 (195)
Q Consensus 7 ~~g~tk~~q~~~l--~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l----~~~i~LlDtPGIv~ 75 (195)
+||+++. -.+.| --.|++||.||||||| |+|.+.+ .++++.|+.|...+.-.+ +..+.|.|+||+..
T Consensus 144 ~~ge~~~-~~lelk~~adVglVG~pNaGKSTLLn~Lt~ak-~kIa~ypfTTl~PnlG~v~~~~~~~~~laD~PGlie 218 (424)
T PRK12297 144 EPGEERE-LRLELKLLADVGLVGFPNVGKSTLLSVVSNAK-PKIANYHFTTLVPNLGVVETDDGRSFVMADIPGLIE 218 (424)
T ss_pred CCCeEeE-EEEeecccCcEEEEcCCCCCHHHHHHHHHcCC-CccccCCcceeceEEEEEEEeCCceEEEEECCCCcc
Confidence 5677773 33333 3389999999999999 9998876 578999999998876433 35799999999975
No 42
>PRK12296 obgE GTPase CgtA; Reviewed
Probab=98.60 E-value=3.7e-08 Score=91.03 Aligned_cols=69 Identities=16% Similarity=0.176 Sum_probs=51.9
Q ss_pred CCCccceeE-EEEecCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Ee-cCCeEEecCCCCCCC
Q psy3587 7 TPGHTKHFQ-TIFLTDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FL-TDNIRLCDCPGLVFP 76 (195)
Q Consensus 7 ~~g~tk~~q-~~~l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l-~~~i~LlDtPGIv~p 76 (195)
.||+++.+. ++++--.|+|||+||+|||| |+|.+.+ .++++.|+.|+....- .+ +..+.+.|+||++..
T Consensus 145 ~~Ge~~~~~leLk~~adV~LVG~PNAGKSTLln~Ls~ak-pkIadypfTTl~P~lGvv~~~~~~f~laDtPGlieg 219 (500)
T PRK12296 145 EPGEERDLVLELKSVADVGLVGFPSAGKSSLISALSAAK-PKIADYPFTTLVPNLGVVQAGDTRFTVADVPGLIPG 219 (500)
T ss_pred CCCceEEEEEEecccceEEEEEcCCCCHHHHHHHHhcCC-ccccccCcccccceEEEEEECCeEEEEEECCCCccc
Confidence 577777321 23333489999999999999 9998865 4689999999876553 33 347999999999853
No 43
>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts). This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.
Probab=98.58 E-value=2.8e-08 Score=84.40 Aligned_cols=60 Identities=15% Similarity=0.047 Sum_probs=51.3
Q ss_pred EecCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCCCC
Q psy3587 18 FLTDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVFPS 77 (195)
Q Consensus 18 ~l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~ 77 (195)
.-..+|+|+|-+|||||| |+|.+...+.++..++.|+..+.... +..+.++||||+....
T Consensus 29 ~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~~~~~~~~~~~g~~i~vIDTPGl~~~~ 93 (249)
T cd01853 29 DFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETLRVREVSGTVDGFKLNIIDTPGLLESV 93 (249)
T ss_pred cCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECCeEEEEEECCCcCcch
Confidence 334589999999999999 99999999999999999998887654 3479999999988664
No 44
>PRK00089 era GTPase Era; Reviewed
Probab=98.58 E-value=3.2e-08 Score=84.87 Aligned_cols=56 Identities=21% Similarity=0.288 Sum_probs=47.3
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE-EEe-c-CCeEEecCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT-IFL-T-DNIRLCDCPGLVFPS 77 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~-i~l-~-~~i~LlDtPGIv~p~ 77 (195)
.|+|+|-||+|||| |+|.+.+.+.+++.|+.|+.... +.. + .++.++||||+..+.
T Consensus 7 ~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~~~i~~i~~~~~~qi~~iDTPG~~~~~ 67 (292)
T PRK00089 7 FVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRHRIRGIVTEDDAQIIFVDTPGIHKPK 67 (292)
T ss_pred EEEEECCCCCCHHHHHHHHhCCceeecCCCCCcccccEEEEEEcCCceEEEEECCCCCCch
Confidence 48999999999999 99999999999999999987543 322 2 379999999997665
No 45
>PRK04213 GTP-binding protein; Provisional
Probab=98.57 E-value=3e-08 Score=79.92 Aligned_cols=51 Identities=20% Similarity=0.245 Sum_probs=45.1
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGL 73 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGI 73 (195)
.+|+++|.||||||| |+|.+.+ ..++..||+|+....+.+. ++.++||||+
T Consensus 10 ~~i~i~G~~~~GKSsLin~l~~~~-~~~~~~~~~t~~~~~~~~~-~~~l~Dt~G~ 62 (201)
T PRK04213 10 PEIVFVGRSNVGKSTLVRELTGKK-VRVGKRPGVTRKPNHYDWG-DFILTDLPGF 62 (201)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCC-CccCCCCceeeCceEEeec-ceEEEeCCcc
Confidence 379999999999999 9998876 6799999999988777665 7999999997
No 46
>PRK15494 era GTPase Era; Provisional
Probab=98.55 E-value=4.7e-08 Score=86.30 Aligned_cols=55 Identities=18% Similarity=0.169 Sum_probs=47.1
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Ee-cCCeEEecCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FL-TDNIRLCDCPGLVFP 76 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l-~~~i~LlDtPGIv~p 76 (195)
+|.++|.||||||| |.|.+.+.+-++++|+.|++...- .. +..+.++||||+..+
T Consensus 54 kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr~~~~~~~~~~~~qi~~~DTpG~~~~ 113 (339)
T PRK15494 54 SVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITLKDTQVILYDTPGIFEP 113 (339)
T ss_pred EEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCccCcEEEEEEeCCeEEEEEECCCcCCC
Confidence 89999999999999 999999998999999999876542 33 347999999999754
No 47
>TIGR02729 Obg_CgtA Obg family GTPase CgtA. This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal.
Probab=98.54 E-value=7.5e-08 Score=84.78 Aligned_cols=69 Identities=16% Similarity=0.229 Sum_probs=51.7
Q ss_pred CCCcccee-EEEEecCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEec--CCeEEecCCCCCCC
Q psy3587 7 TPGHTKHF-QTIFLTDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLT--DNIRLCDCPGLVFP 76 (195)
Q Consensus 7 ~~g~tk~~-q~~~l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~--~~i~LlDtPGIv~p 76 (195)
+||+++.+ -++.+--.|++||.||+|||| |+|.+.+ .++++.|+.|...+. +.++ ..+.|+|+||++..
T Consensus 143 ~~g~~~~~~lelk~~adV~lvG~pnaGKSTLl~~lt~~~-~~va~y~fTT~~p~ig~v~~~~~~~~~i~D~PGli~~ 218 (329)
T TIGR02729 143 EPGEERWLRLELKLLADVGLVGLPNAGKSTLISAVSAAK-PKIADYPFTTLVPNLGVVRVDDGRSFVIADIPGLIEG 218 (329)
T ss_pred CCCcEEEEEEEeeccccEEEEcCCCCCHHHHHHHHhcCC-ccccCCCCCccCCEEEEEEeCCceEEEEEeCCCcccC
Confidence 56777632 222333389999999999999 9998765 469999999987665 3443 47999999999743
No 48
>COG1160 Predicted GTPases [General function prediction only]
Probab=98.52 E-value=5.8e-08 Score=87.95 Aligned_cols=56 Identities=21% Similarity=0.151 Sum_probs=49.7
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVFPS 77 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~ 77 (195)
+++|||-||||||| |+|.+...+=|++.||.||..=.+.+ +..+.|+||=|+=-..
T Consensus 180 kiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~~~~~liDTAGiRrk~ 240 (444)
T COG1160 180 KIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDGRKYVLIDTAGIRRKG 240 (444)
T ss_pred EEEEEeCCCCCchHHHHHhccCceEEecCCCCccccceeeeEEECCeEEEEEECCCCCccc
Confidence 79999999999999 99999999999999999998766654 4689999999987543
No 49
>KOG1191|consensus
Probab=98.50 E-value=3.1e-08 Score=90.36 Aligned_cols=61 Identities=21% Similarity=0.183 Sum_probs=53.1
Q ss_pred EEEEecCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec---CCeEEecCCCCCC
Q psy3587 15 QTIFLTDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT---DNIRLCDCPGLVF 75 (195)
Q Consensus 15 q~~~l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~---~~i~LlDtPGIv~ 75 (195)
+.++..-++.|+|-||||||| |+|.+.-.+=|++.||.||.-=...++ -.++|+||-||-.
T Consensus 263 e~lq~gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GTTRDaiea~v~~~G~~v~L~DTAGiRe 328 (531)
T KOG1191|consen 263 ERLQSGLQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGTTRDAIEAQVTVNGVPVRLSDTAGIRE 328 (531)
T ss_pred HHhhcCCeEEEEcCCCCCHHHHHHHHhcCCceEeCCCCCcchhhheeEeecCCeEEEEEecccccc
Confidence 344555689999999999999 999999999999999999988776553 4799999999998
No 50
>PRK03003 GTP-binding protein Der; Reviewed
Probab=98.49 E-value=7e-08 Score=88.60 Aligned_cols=54 Identities=13% Similarity=0.083 Sum_probs=46.7
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv 74 (195)
.+|+|||.||||||| |+|.+++.+.++..||+|+......+ +..+.|+||||.-
T Consensus 39 ~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~~~~~l~DT~G~~ 97 (472)
T PRK03003 39 PVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNGRRFTVVDTGGWE 97 (472)
T ss_pred CEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECCcEEEEEeCCCcC
Confidence 369999999999999 99999888899999999988766543 3468999999976
No 51
>cd01854 YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.
Probab=98.48 E-value=6.3e-08 Score=83.60 Aligned_cols=58 Identities=17% Similarity=0.084 Sum_probs=48.3
Q ss_pred cCceEeecCCCCccCC--CCCCCCcccccCCCC-------CCccceeEEEecCCeEEecCCCCCCCC
Q psy3587 20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTP-------GHTKHFQTIFLTDNIRLCDCPGLVFPS 77 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~P-------GvTk~~Q~i~l~~~i~LlDtPGIv~p~ 77 (195)
.+.++++|.+|||||| |.|.+.....+|..+ ++|++.+++.++...+|+||||+-...
T Consensus 161 ~k~~~~~G~sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~~~~~~~~~liDtPG~~~~~ 227 (287)
T cd01854 161 GKTSVLVGQSGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHRELFPLPGGGLLIDTPGFREFG 227 (287)
T ss_pred cceEEEECCCCCCHHHHHHHHhchhhccccceeccCCCCCcccceEEEEEcCCCCEEEECCCCCccC
Confidence 4689999999999999 999887666665443 489999999998788999999996544
No 52
>PRK00093 GTP-binding protein Der; Reviewed
Probab=98.48 E-value=7.1e-08 Score=87.06 Aligned_cols=55 Identities=16% Similarity=0.065 Sum_probs=47.8
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVF 75 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~ 75 (195)
.+|+++|.||||||| |.|.+++.+.++..||+|+..+.-.+ +..+.|+||||+..
T Consensus 2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~~~~~~liDT~G~~~ 61 (435)
T PRK00093 2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLGREFILIDTGGIEP 61 (435)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEECCcEEEEEECCCCCC
Confidence 368999999999999 99999998899999999998776433 45799999999985
No 53
>cd01898 Obg Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.
Probab=98.44 E-value=9.3e-08 Score=74.25 Aligned_cols=52 Identities=15% Similarity=0.155 Sum_probs=41.7
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Ee-cC-CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FL-TD-NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l-~~-~i~LlDtPGIv 74 (195)
+|+++|.||+|||| |+|.+... .|+..||.|+..+.- .+ +. .+.|+||||+.
T Consensus 2 ~v~ivG~~~~GKStl~~~l~~~~~-~v~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~ 59 (170)
T cd01898 2 DVGLVGLPNAGKSTLLSAISNAKP-KIADYPFTTLVPNLGVVRVDDGRSFVVADIPGLI 59 (170)
T ss_pred CeEEECCCCCCHHHHHHHHhcCCc-cccCCCccccCCcceEEEcCCCCeEEEEecCccc
Confidence 58999999999999 99987654 788899988765543 22 33 78999999985
No 54
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=98.43 E-value=1.1e-07 Score=86.91 Aligned_cols=55 Identities=18% Similarity=0.131 Sum_probs=46.9
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Eec-CCeEEecCCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FLT-DNIRLCDCPGLVF 75 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l~-~~i~LlDtPGIv~ 75 (195)
.+|.++|.||||||| |+|.+.+.+-+++.||.|+..... .++ ..+.|+||||+-.
T Consensus 216 ~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g~~i~l~DT~G~~~ 275 (449)
T PRK05291 216 LKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDGIPLRLIDTAGIRE 275 (449)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEECCeEEEEEeCCCCCC
Confidence 379999999999999 999998888899999999987654 333 4699999999864
No 55
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=98.40 E-value=1.1e-07 Score=91.31 Aligned_cols=54 Identities=17% Similarity=0.139 Sum_probs=47.3
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVF 75 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~ 75 (195)
+|+|+|.||||||| |.|.+++.+.|+..||+|+....... +..+.|+||||+..
T Consensus 277 ~V~IvG~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~~~~~liDT~G~~~ 335 (712)
T PRK09518 277 VVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAGTDFKLVDTGGWEA 335 (712)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEECCEEEEEEeCCCcCC
Confidence 69999999999999 99999998999999999998776543 34799999999764
No 56
>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE, also called MnmE and previously designated ThdF (thiophene and furan oxidation protein), is a GTPase involved in tRNA modification to create 5-methylaminomethyl-2-thiouridine in the wobble position of some tRNAs. This protein and GidA form an alpha2/beta2 heterotetramer.
Probab=98.39 E-value=1.5e-07 Score=85.91 Aligned_cols=56 Identities=20% Similarity=0.113 Sum_probs=47.2
Q ss_pred cCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Eec-CCeEEecCCCCCC
Q psy3587 20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FLT-DNIRLCDCPGLVF 75 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l~-~~i~LlDtPGIv~ 75 (195)
..++.++|.||||||| |+|.+...+.|++.||.|+..... .++ ..+.++||||+-.
T Consensus 203 g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~g~~v~l~DTaG~~~ 263 (442)
T TIGR00450 203 GFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELNGILIKLLDTAGIRE 263 (442)
T ss_pred CCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEECCEEEEEeeCCCccc
Confidence 3489999999999999 999998888899999999987654 343 3689999999853
No 57
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=98.38 E-value=2.6e-07 Score=87.21 Aligned_cols=56 Identities=20% Similarity=0.171 Sum_probs=47.1
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVFPS 77 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~ 77 (195)
++++++|-||||||| |+|.|.+ .+|||-||||-....=++ +..+.++|.||+---.
T Consensus 4 ~~valvGNPNvGKTtlFN~LTG~~-q~VgNwpGvTVEkkeg~~~~~~~~i~ivDLPG~YSL~ 64 (653)
T COG0370 4 LTVALVGNPNVGKTTLFNALTGAN-QKVGNWPGVTVEKKEGKLKYKGHEIEIVDLPGTYSLT 64 (653)
T ss_pred ceEEEecCCCccHHHHHHHHhccC-ceecCCCCeeEEEEEEEEEecCceEEEEeCCCcCCCC
Confidence 359999999999999 9999987 899999999976666444 4579999999997443
No 58
>TIGR03156 GTP_HflX GTP-binding protein HflX. This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).
Probab=98.38 E-value=1.8e-07 Score=83.03 Aligned_cols=53 Identities=15% Similarity=0.083 Sum_probs=44.5
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEec--CCeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLT--DNIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~--~~i~LlDtPGIv 74 (195)
.+|.++|+||||||| |+|.+.+ +.+.+.||.|+.... +.++ ..+.|+||||++
T Consensus 190 ~~ValvG~~NvGKSSLln~L~~~~-~~v~~~~~tT~d~~~~~i~~~~~~~i~l~DT~G~~ 248 (351)
T TIGR03156 190 PTVALVGYTNAGKSTLFNALTGAD-VYAADQLFATLDPTTRRLDLPDGGEVLLTDTVGFI 248 (351)
T ss_pred cEEEEECCCCCCHHHHHHHHhCCc-eeeccCCccccCCEEEEEEeCCCceEEEEecCccc
Confidence 379999999999999 9999987 678899999987765 3442 479999999985
No 59
>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase).
Probab=98.38 E-value=2.1e-07 Score=81.44 Aligned_cols=56 Identities=16% Similarity=0.084 Sum_probs=46.6
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVFPS 77 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~ 77 (195)
+|+++|-+|||||| |+|.+++++.++..++.|...+.+.. +..+.++||||+....
T Consensus 40 rIllvGktGVGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~~G~~l~VIDTPGL~d~~ 100 (313)
T TIGR00991 40 TILVMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTRAGFTLNIIDTPGLIEGG 100 (313)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEECCeEEEEEECCCCCchH
Confidence 79999999999999 99999999999998887766554322 3479999999998654
No 60
>PRK11058 GTPase HflX; Provisional
Probab=98.38 E-value=1.8e-07 Score=85.17 Aligned_cols=52 Identities=13% Similarity=0.049 Sum_probs=43.5
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEec--CCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLT--DNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~--~~i~LlDtPGIv 74 (195)
+|++||+||+|||| |+|.+.+.. +++.||.|..... +.++ ..+.|+||||.+
T Consensus 199 ~ValVG~~NaGKSSLlN~Lt~~~~~-v~~~~~tTld~~~~~i~l~~~~~~~l~DTaG~~ 256 (426)
T PRK11058 199 TVSLVGYTNAGKSTLFNRITEARVY-AADQLFATLDPTLRRIDVADVGETVLADTVGFI 256 (426)
T ss_pred EEEEECCCCCCHHHHHHHHhCCcee-eccCCCCCcCCceEEEEeCCCCeEEEEecCccc
Confidence 69999999999999 999988765 8999999987765 3343 268899999984
No 61
>PRK00093 GTP-binding protein Der; Reviewed
Probab=98.37 E-value=1.9e-07 Score=84.29 Aligned_cols=57 Identities=19% Similarity=0.120 Sum_probs=48.7
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVFPS 77 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~ 77 (195)
.+++|+|.||+|||| |+|.+...+.++..||.|+......+ +..+.|+||||+-...
T Consensus 174 ~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~lvDT~G~~~~~ 235 (435)
T PRK00093 174 IKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERDGQKYTLIDTAGIRRKG 235 (435)
T ss_pred eEEEEECCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEECCeeEEEEECCCCCCCc
Confidence 379999999999999 99999999999999999998765443 4579999999986544
No 62
>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.
Probab=98.36 E-value=2.4e-07 Score=71.95 Aligned_cols=52 Identities=19% Similarity=0.205 Sum_probs=42.4
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec---CCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT---DNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~---~~i~LlDtPGIv 74 (195)
+|+++|.||||||| |+|.+.+. .++..|+.|+..+.-... -.+.++||||..
T Consensus 2 ~i~~~G~~~~GKssli~~l~~~~~-~~~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~ 58 (168)
T cd01897 2 TLVIAGYPNVGKSSLVNKLTRAKP-EVAPYPFTTKSLFVGHFDYKYLRWQVIDTPGLL 58 (168)
T ss_pred eEEEEcCCCCCHHHHHHHHhcCCC-ccCCCCCcccceeEEEEccCceEEEEEECCCcC
Confidence 68999999999999 99988664 567789989887764432 479999999985
No 63
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=98.36 E-value=1.9e-07 Score=90.53 Aligned_cols=54 Identities=19% Similarity=0.099 Sum_probs=45.1
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVF 75 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~ 75 (195)
.+|.++|.||||||| |+|.+.+. +||+.||+|.......+ +..+.++||||+.-
T Consensus 4 ~~IaLvG~pNvGKSTLfN~Ltg~~~-~vgn~pGvTve~k~g~~~~~~~~i~lvDtPG~ys 62 (772)
T PRK09554 4 LTIGLIGNPNSGKTTLFNQLTGARQ-RVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYS 62 (772)
T ss_pred eEEEEECCCCCCHHHHHHHHhCCCC-ccCCCCCceEeeEEEEEEcCceEEEEEECCCccc
Confidence 369999999999999 99998764 89999999987665443 34799999999863
No 64
>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.
Probab=98.34 E-value=1.6e-07 Score=71.74 Aligned_cols=50 Identities=22% Similarity=0.209 Sum_probs=41.3
Q ss_pred eecCCCCccCC--CCCCCCcccccCCCCCCccceeEE--Eec-CCeEEecCCCCCC
Q psy3587 25 LCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTI--FLT-DNIRLCDCPGLVF 75 (195)
Q Consensus 25 vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i--~l~-~~i~LlDtPGIv~ 75 (195)
|+|.+|||||| |++.+.. ..++..||.|+..+.. .++ .++.++||||...
T Consensus 1 l~G~~~~GKssl~~~~~~~~-~~~~~~~~~t~~~~~~~~~~~~~~~~liDtpG~~~ 55 (158)
T cd01879 1 LVGNPNVGKTTLFNALTGAR-QKVGNWPGVTVEKKEGRFKLGGKEIEIVDLPGTYS 55 (158)
T ss_pred CCCCCCCCHHHHHHHHhcCc-ccccCCCCcccccceEEEeeCCeEEEEEECCCccc
Confidence 58999999999 9998876 7889999999987653 343 4789999999853
No 65
>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.
Probab=98.32 E-value=3e-07 Score=69.78 Aligned_cols=54 Identities=19% Similarity=0.154 Sum_probs=45.9
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe--c-CCeEEecCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL--T-DNIRLCDCPGLVF 75 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l--~-~~i~LlDtPGIv~ 75 (195)
+++++|-||+|||| |++.++..+.+++.||.|+....... + ..+.++||||...
T Consensus 3 ~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~ 61 (157)
T cd04164 3 KVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIGGIPVRLIDTAGIRE 61 (157)
T ss_pred EEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeCCEEEEEEECCCcCC
Confidence 58999999999999 99999988899999999988765433 3 3689999999753
No 66
>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=98.30 E-value=4.6e-07 Score=68.85 Aligned_cols=56 Identities=18% Similarity=0.222 Sum_probs=46.1
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe-c--CCeEEecCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL-T--DNIRLCDCPGLVFPS 77 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l-~--~~i~LlDtPGIv~p~ 77 (195)
+|+++|-||+|||| |.+.+++.+.+++.++.|+....... . ..+.++||||+..+.
T Consensus 5 ~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~ 65 (168)
T cd04163 5 FVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIYTDDDAQIIFVDTPGIHKPK 65 (168)
T ss_pred EEEEECCCCCCHHHHHHHHhCCceEeccCCCCceeceEEEEEEcCCeEEEEEECCCCCcch
Confidence 68999999999999 99999998888888888887655433 2 358899999987554
No 67
>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains. The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.
Probab=98.30 E-value=4.7e-07 Score=85.95 Aligned_cols=58 Identities=21% Similarity=0.076 Sum_probs=46.0
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCC-CCCccceeEEE-e-cCCeEEecCCCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRT-PGHTKHFQTIF-L-TDNIRLCDCPGLVFPSKV 79 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~-PGvTk~~Q~i~-l-~~~i~LlDtPGIv~p~~~ 79 (195)
+|+|+|-||||||| |+|.+++++.++.. |+.|+..+... + +..+.++||||+..+...
T Consensus 120 rIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr~~ei~~~idG~~L~VIDTPGL~dt~~d 182 (763)
T TIGR00993 120 NILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTSVQEIEGLVQGVKIRVIDTPGLKSSASD 182 (763)
T ss_pred EEEEECCCCCCHHHHHHHHhccccccccCCCCCceEEEEEEEEECCceEEEEECCCCCccccc
Confidence 79999999999999 99999998888876 66665433322 2 457999999999987543
No 68
>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=98.30 E-value=4.1e-07 Score=69.41 Aligned_cols=55 Identities=24% Similarity=0.370 Sum_probs=48.6
Q ss_pred ceEeecCCCCccCC--CCCC-CCcccccCCCCCCccceeEEEecCCeEEecCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPK-PLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFP 76 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~-~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p 76 (195)
.|+++|-+|+|||| |.|. +.....++.++|.|+....+.++..+.++||||+-..
T Consensus 1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~D~~g~~~~ 58 (170)
T cd01876 1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVNDKFRLVDLPGYGYA 58 (170)
T ss_pred CEEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccCeEEEecCCCcccc
Confidence 37899999999999 9988 4667789999999999988888889999999997654
No 69
>cd01894 EngA1 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=98.27 E-value=2.8e-07 Score=70.14 Aligned_cols=52 Identities=17% Similarity=0.061 Sum_probs=43.6
Q ss_pred EeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCC
Q psy3587 24 RLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVF 75 (195)
Q Consensus 24 ~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~ 75 (195)
.++|-||||||| |+|.+.+...++..|+.|+..+.... +..+.++||||.-.
T Consensus 1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~DtpG~~~ 57 (157)
T cd01894 1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPGVTRDRIYGEAEWGGREFILIDTGGIEP 57 (157)
T ss_pred CccCCCCCCHHHHHHHHhCCcEEeecCCCCceeCceeEEEEECCeEEEEEECCCCCC
Confidence 378999999999 99999888888999999987766543 34689999999864
No 70
>PRK03003 GTP-binding protein Der; Reviewed
Probab=98.27 E-value=3.7e-07 Score=83.85 Aligned_cols=54 Identities=22% Similarity=0.171 Sum_probs=45.3
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEe-cCCeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFL-TDNIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l-~~~i~LlDtPGIv 74 (195)
.+|+++|.||||||| |+|.+...+.+++.||.|+.... +.+ +..+.|+||||+-
T Consensus 212 ~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~~~~l~DTaG~~ 270 (472)
T PRK03003 212 RRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGKTWRFVDTAGLR 270 (472)
T ss_pred eEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECCEEEEEEECCCcc
Confidence 389999999999999 99999888889999999987543 333 3468899999984
No 71
>PRK09602 translation-associated GTPase; Reviewed
Probab=98.25 E-value=4.7e-07 Score=81.70 Aligned_cols=54 Identities=20% Similarity=0.210 Sum_probs=41.7
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEe-------------------------cCCeEEecCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFL-------------------------TDNIRLCDCPG 72 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l-------------------------~~~i~LlDtPG 72 (195)
+|+|||.||||||| |+|.+.+ +.+++.|+.|..... +.+ .-.+.++|+||
T Consensus 3 kigivG~pnvGKSTlfn~Lt~~~-~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aG 81 (396)
T PRK09602 3 TIGLVGKPNVGKSTFFNAATLAD-VEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAG 81 (396)
T ss_pred EEEEECCCCCCHHHHHHHHhCCc-ccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCC
Confidence 68999999999999 9999876 478999999864433 111 12378999999
Q ss_pred CCCC
Q psy3587 73 LVFP 76 (195)
Q Consensus 73 Iv~p 76 (195)
++.-
T Consensus 82 l~~g 85 (396)
T PRK09602 82 LVPG 85 (396)
T ss_pred cCCC
Confidence 9853
No 72
>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1. Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to
Probab=98.22 E-value=4.1e-07 Score=70.77 Aligned_cols=49 Identities=20% Similarity=0.261 Sum_probs=40.2
Q ss_pred eecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEe--cCCeEEecCCCCC
Q psy3587 25 LCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFL--TDNIRLCDCPGLV 74 (195)
Q Consensus 25 vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l--~~~i~LlDtPGIv 74 (195)
++|.||||||| |+|.+.+. .+++.|+.|+..+. +.. +..+.++||||+.
T Consensus 1 iiG~~~~GKStll~~l~~~~~-~~~~~~~~t~~~~~~~~~~~~~~~~~i~DtpG~~ 55 (176)
T cd01881 1 LVGLPNVGKSTLLNALTNAKP-KVANYPFTTLEPNLGVVEVPDGARIQVADIPGLI 55 (176)
T ss_pred CCCCCCCcHHHHHHHHhcCCc-cccCCCceeecCcceEEEcCCCCeEEEEeccccc
Confidence 58999999999 99998876 78899999976654 333 3578999999985
No 73
>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.
Probab=98.20 E-value=7.2e-07 Score=80.24 Aligned_cols=55 Identities=20% Similarity=0.154 Sum_probs=47.1
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVFP 76 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p 76 (195)
+++++|.||||||| |+|.+...+.++..||.|+......+ +..+.|+||||+--.
T Consensus 174 ~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~liDT~G~~~~ 233 (429)
T TIGR03594 174 KIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFERNGKKYLLIDTAGIRRK 233 (429)
T ss_pred EEEEECCCCCCHHHHHHHHHCCCeeecCCCCCceECcEeEEEEECCcEEEEEECCCcccc
Confidence 79999999999999 99999888899999999987665443 347999999998643
No 74
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=98.18 E-value=8.8e-07 Score=85.24 Aligned_cols=54 Identities=15% Similarity=0.161 Sum_probs=46.1
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEE--e-cCCeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIF--L-TDNIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~--l-~~~i~LlDtPGIv 74 (195)
.+|+++|.||||||| |+|.+.+.+-++..||.|+...... + +..+.|+||||+.
T Consensus 451 ~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~~~~~liDTaG~~ 509 (712)
T PRK09518 451 RRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDGEDWLFIDTAGIK 509 (712)
T ss_pred cEEEEECCCCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEECCCEEEEEECCCcc
Confidence 489999999999999 9999998888899999998875432 3 4578899999985
No 75
>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis. RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.
Probab=98.17 E-value=3.8e-07 Score=72.77 Aligned_cols=60 Identities=18% Similarity=0.067 Sum_probs=40.7
Q ss_pred cCceEeecCCCCccCC--CCCCCCcccccCC-------CCCCccceeEEEecCCeEEecCCCCCCCCCC
Q psy3587 20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSR-------TPGHTKHFQTIFLTDNIRLCDCPGLVFPSKV 79 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~-------~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~ 79 (195)
.+.+.++|-.|||||| |+|.+....+++. -=..|++-+.+.++.+.+|+||||+=-..+.
T Consensus 35 ~k~~vl~G~SGvGKSSLiN~L~~~~~~~t~~is~~~~rGkHTTt~~~l~~l~~g~~iIDTPGf~~~~l~ 103 (161)
T PF03193_consen 35 GKTSVLLGQSGVGKSSLINALLPEAKQKTGEISEKTGRGKHTTTHRELFPLPDGGYIIDTPGFRSFGLW 103 (161)
T ss_dssp TSEEEEECSTTSSHHHHHHHHHTSS----S--------------SEEEEEETTSEEEECSHHHHT--GC
T ss_pred CCEEEEECCCCCCHHHHHHHHHhhcchhhhhhhcccCCCcccCCCeeEEecCCCcEEEECCCCCccccc
Confidence 4678999999999999 9887764444322 2245788999999999999999999765554
No 76
>cd01895 EngA2 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=98.12 E-value=1.4e-06 Score=66.89 Aligned_cols=55 Identities=20% Similarity=0.149 Sum_probs=45.4
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEE--e-cCCeEEecCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIF--L-TDNIRLCDCPGLVFP 76 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~--l-~~~i~LlDtPGIv~p 76 (195)
+|+++|-||+|||| |+|.+.....++..||.|+...... . +.++.++||||..-.
T Consensus 4 ~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiDtpG~~~~ 63 (174)
T cd01895 4 RIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDGKKYTLIDTAGIRRK 63 (174)
T ss_pred EEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEECCeeEEEEECCCCccc
Confidence 68999999999999 9999888788888999998775433 3 356899999998744
No 77
>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins. GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.
Probab=98.12 E-value=1.5e-06 Score=72.81 Aligned_cols=53 Identities=17% Similarity=0.162 Sum_probs=41.8
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEe-cCCeEEecCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFL-TDNIRLCDCPGLVF 75 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l-~~~i~LlDtPGIv~ 75 (195)
+++++|.||+|||| |.|.+.+ ..+++.|+.|...+. +.. +-.+.++||||+..
T Consensus 2 ~v~lvG~~~~GKStLl~~Ltg~~-~~v~~~~~tT~~~~~g~~~~~~~~i~l~DtpG~~~ 59 (233)
T cd01896 2 RVALVGFPSVGKSTLLSKLTNTK-SEVAAYEFTTLTCVPGVLEYKGAKIQLLDLPGIIE 59 (233)
T ss_pred EEEEECCCCCCHHHHHHHHHCCC-ccccCCCCccccceEEEEEECCeEEEEEECCCccc
Confidence 57899999999999 9998866 568889999965543 223 34689999999864
No 78
>cd01899 Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg-like family and present in archaea and fungi. They are characterized by a distinct glycine-rich motif immediately following the Walker B motif. The Ygr210 and YyaF/YchF subfamilies appear to form one major branch of the Obg-like family. Among eukaryotes, the Ygr210 subfamily is represented only in fungi. These fungal proteins form a tight cluster with their archaeal orthologs, which suggests the possibility of horizontal transfer from archaea to fungi.
Probab=98.07 E-value=1.6e-06 Score=76.14 Aligned_cols=53 Identities=21% Similarity=0.189 Sum_probs=40.8
Q ss_pred eEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEe---------------------c----CCeEEecCCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFL---------------------T----DNIRLCDCPGL 73 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l---------------------~----~~i~LlDtPGI 73 (195)
+++||.||||||| |+|.+.+ +.+++.|+.|..... ..+ + -.+.|+||||+
T Consensus 1 i~ivG~pnvGKStLfn~lt~~~-~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGl 79 (318)
T cd01899 1 IGLVGKPNAGKSTFFNAATLAD-VEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGL 79 (318)
T ss_pred CEEECCCCCCHHHHHHHHhCCC-CcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCC
Confidence 5899999999999 9999876 589999998855432 111 1 14899999999
Q ss_pred CCC
Q psy3587 74 VFP 76 (195)
Q Consensus 74 v~p 76 (195)
+..
T Consensus 80 v~g 82 (318)
T cd01899 80 VPG 82 (318)
T ss_pred CCC
Confidence 743
No 79
>TIGR00231 small_GTP small GTP-binding protein domain. This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.
Probab=98.03 E-value=3.3e-06 Score=63.06 Aligned_cols=52 Identities=19% Similarity=0.193 Sum_probs=42.5
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEecC---CeEEecCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLTD---NIRLCDCPGL 73 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~~---~i~LlDtPGI 73 (195)
.+|+++|.||+|||| |.+.+.. ...+..|++|+.... +..+. .+.++||||.
T Consensus 2 ~ki~~~G~~~~GKstl~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~ 60 (161)
T TIGR00231 2 IKIVIVGDPNVGKSTLLNRLLGNK-FITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQ 60 (161)
T ss_pred eEEEEECCCCCCHHHHHHHHhCCC-CcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCc
Confidence 479999999999999 9888887 888888999988766 34442 4788999993
No 80
>PRK01889 GTPase RsgA; Reviewed
Probab=98.03 E-value=6.1e-07 Score=79.83 Aligned_cols=61 Identities=16% Similarity=0.062 Sum_probs=49.3
Q ss_pred cCceEeecCCCCccCC--CCCCCCcccccCCCC-------CCccceeEEEecCCeEEecCCCCCCCCCCC
Q psy3587 20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTP-------GHTKHFQTIFLTDNIRLCDCPGLVFPSKVP 80 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~P-------GvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~ 80 (195)
...++++|.||||||| |.|.+.....+|..+ ..|++.+++.+..+.+|+||||+..+.+.+
T Consensus 195 g~~~~lvG~sgvGKStLin~L~g~~~~~~G~i~~~~~~g~~tt~~~~l~~l~~~~~l~DtpG~~~~~l~~ 264 (356)
T PRK01889 195 GKTVALLGSSGVGKSTLVNALLGEEVQKTGAVREDDSKGRHTTTHRELHPLPSGGLLIDTPGMRELQLWD 264 (356)
T ss_pred CCEEEEECCCCccHHHHHHHHHHhcccceeeEEECCCCCcchhhhccEEEecCCCeecCCCchhhhcccC
Confidence 4589999999999999 988876666666544 367788889998888999999997776654
No 81
>PLN03118 Rab family protein; Provisional
Probab=98.03 E-value=2.1e-06 Score=70.13 Aligned_cols=60 Identities=17% Similarity=0.083 Sum_probs=47.2
Q ss_pred EEEEecCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 15 QTIFLTDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 15 q~~~l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
|.+.+..+++|+|.||||||| |+|.+.......++.|.+.....+.++. .+.|+||||.-
T Consensus 9 ~~~~~~~kv~ivG~~~vGKTsli~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~ 73 (211)
T PLN03118 9 SGYDLSFKILLIGDSGVGKSSLLVSFISSSVEDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQE 73 (211)
T ss_pred cccCcceEEEEECcCCCCHHHHHHHHHhCCCCCcCCCceeEEEEEEEEECCEEEEEEEEECCCch
Confidence 344566789999999999999 8888777667777888776666666654 57899999953
No 82
>KOG1490|consensus
Probab=97.95 E-value=4.4e-06 Score=76.86 Aligned_cols=60 Identities=17% Similarity=0.139 Sum_probs=47.2
Q ss_pred ceEeecCCCCccCC-CCCCCCcccccCCCCCCccceeEEEecC---CeEEecCCCCCCCCCCCh
Q psy3587 22 NIRLCDCPGLVFPS-KVPKPLQVVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLVFPSKVPK 81 (195)
Q Consensus 22 ~v~vvG~PNVGKSs-N~L~~kk~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv~p~~~~~ 81 (195)
.++||||||||||| +.-.-+.-+.|-+.|=.||++--=+++- ....+|||||+-+.+++.
T Consensus 170 TlllcG~PNVGKSSf~~~vtradvevqpYaFTTksL~vGH~dykYlrwQViDTPGILD~plEdr 233 (620)
T KOG1490|consen 170 TLLVCGYPNVGKSSFNNKVTRADDEVQPYAFTTKLLLVGHLDYKYLRWQVIDTPGILDRPEEDR 233 (620)
T ss_pred eEEEecCCCCCcHhhcccccccccccCCcccccchhhhhhhhhheeeeeecCCccccCcchhhh
Confidence 78999999999999 4444556688999998898875545543 366789999999988764
No 83
>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=97.95 E-value=4.4e-06 Score=64.05 Aligned_cols=52 Identities=15% Similarity=0.126 Sum_probs=37.1
Q ss_pred ceEeecCCCCccCC--CCCCCCccccc--CCCCCCccceeE--EEe--cCCeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSV--SRTPGHTKHFQT--IFL--TDNIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~v--g~~PGvTk~~Q~--i~l--~~~i~LlDtPGI 73 (195)
.|.++|.||||||| |+|.+...... ...||.|..... +.+ +..+.++||||.
T Consensus 2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~ 61 (164)
T cd04171 2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPSGKRLGFIDVPGH 61 (164)
T ss_pred EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecCCcEEEEEECCCh
Confidence 47899999999999 99987543322 345677765543 333 346899999996
No 84
>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=97.93 E-value=2.8e-06 Score=70.04 Aligned_cols=59 Identities=19% Similarity=0.083 Sum_probs=41.1
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccC-CCCCCccceeEEEe---cCCeEEecCCCCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVS-RTPGHTKHFQTIFL---TDNIRLCDCPGLVFPSKVP 80 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg-~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~p~~~~ 80 (195)
+|.|+|-.|+|||| |.|.|+....++ ....+|+..+...- +..+.++||||+..+...+
T Consensus 2 ~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g~~v~VIDTPGl~d~~~~~ 66 (212)
T PF04548_consen 2 RILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDGRQVTVIDTPGLFDSDGSD 66 (212)
T ss_dssp EEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETTEEEEEEE--SSEETTEEH
T ss_pred EEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecceEEEEEeCCCCCCCcccH
Confidence 68999999999999 999999988877 35577887777543 4589999999997766543
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=97.93 E-value=4.8e-06 Score=62.74 Aligned_cols=53 Identities=19% Similarity=0.062 Sum_probs=41.6
Q ss_pred ceEeecCCCCccCC--CCCCCCccccc-CCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSV-SRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~v-g~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
+|+++|.||+|||| |.+.+.+.... .++.|.+.....+..+. .+.++|+||..
T Consensus 2 ~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~ 60 (159)
T cd00154 2 KIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQE 60 (159)
T ss_pred eEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChH
Confidence 68999999999999 88887776665 66777777766666533 57899999973
No 86
>TIGR00437 feoB ferrous iron transporter FeoB. FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum.
Probab=97.92 E-value=4e-06 Score=79.27 Aligned_cols=48 Identities=21% Similarity=0.249 Sum_probs=40.0
Q ss_pred cCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCCC
Q psy3587 27 DCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVF 75 (195)
Q Consensus 27 G~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~ 75 (195)
|.||||||| |+|.+.+ ..+++.||+|...+...+ +..+.++||||..-
T Consensus 1 G~pNvGKSSL~N~Ltg~~-~~v~n~pG~Tv~~~~~~i~~~~~~i~lvDtPG~~~ 53 (591)
T TIGR00437 1 GNPNVGKSTLFNALTGAN-QTVGNWPGVTVEKKEGKLGFQGEDIEIVDLPGIYS 53 (591)
T ss_pred CCCCCCHHHHHHHHhCCC-CeecCCCCeEEEEEEEEEEECCeEEEEEECCCccc
Confidence 789999999 9999876 589999999988765433 34689999999863
No 87
>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=97.86 E-value=9.1e-06 Score=62.52 Aligned_cols=52 Identities=17% Similarity=0.121 Sum_probs=41.3
Q ss_pred ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
+++++|-||+|||| |+|.+.+. ....+++|.+.....+.++. .+.++||||.
T Consensus 2 ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~ 59 (161)
T cd01863 2 KILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQ 59 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCc
Confidence 68999999999999 88876554 45788888887766666643 4789999995
No 88
>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=97.86 E-value=6.2e-06 Score=63.67 Aligned_cols=52 Identities=15% Similarity=0.164 Sum_probs=38.5
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe------cCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL------TDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l------~~~i~LlDtPGIv 74 (195)
.++|+|.||+|||| |+|.+.... ....+|.|.......+ +.++.++||||..
T Consensus 2 ~i~iiG~~~~GKtsli~~l~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~ 61 (168)
T cd01887 2 VVTVMGHVDHGKTTLLDKIRKTNVA-AGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHE 61 (168)
T ss_pred EEEEEecCCCCHHHHHHHHHhcccc-cccCCCeEEeeccEEEecccCCcceEEEEeCCCcH
Confidence 38999999999999 998876543 3456778876653333 2378999999963
No 89
>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=97.84 E-value=1.2e-05 Score=66.99 Aligned_cols=59 Identities=10% Similarity=-0.114 Sum_probs=44.6
Q ss_pred ceEeecCCCCccCC--CCCCCC-cccccC-CCCCCccceeEEE--e----cCCeEEecCCCCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPL-QVVSVS-RTPGHTKHFQTIF--L----TDNIRLCDCPGLVFPSKVP 80 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~k-k~v~vg-~~PGvTk~~Q~i~--l----~~~i~LlDtPGIv~p~~~~ 80 (195)
-|.|+|.||+|||+ |.|.+. ...+++ ..+..||++..-. . +..+.++||||+.-+....
T Consensus 9 vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~~~~~~~v~~lDteG~~~~~~~~ 77 (224)
T cd01851 9 VVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFKLGKEHAVLLLDTEGTDGRERGE 77 (224)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccccCCCcceEEEEecCCcCccccCc
Confidence 48899999999999 999887 244444 4478889876432 2 3579999999999876533
No 90
>TIGR00092 GTP-binding protein YchF. This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.
Probab=97.80 E-value=1.4e-05 Score=71.59 Aligned_cols=56 Identities=16% Similarity=0.081 Sum_probs=44.7
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEecC------------------CeEEecCCCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLTD------------------NIRLCDCPGLVFP 76 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~~------------------~i~LlDtPGIv~p 76 (195)
.+++|||+||||||| |+|.+.+.+.+++.|-.|-.... +.+.+ .+.+.|.||++.-
T Consensus 3 lk~GivGlPn~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~g 80 (368)
T TIGR00092 3 LSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGG 80 (368)
T ss_pred ceEEEECCCCCChHHHHHHHhCCCccccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccc
Confidence 468999999999999 99999987689998888765444 33322 4899999999963
No 91
>cd01860 Rab5_related Rab5-related subfamily. This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo
Probab=97.80 E-value=1.2e-05 Score=61.79 Aligned_cols=52 Identities=19% Similarity=0.080 Sum_probs=40.2
Q ss_pred ceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
+++++|-||+|||| |+|.+.+... ..+++|.+.....+.++. .+.|+||||-
T Consensus 3 ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~ 60 (163)
T cd01860 3 KLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQ 60 (163)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCch
Confidence 68999999999999 9888777554 777778655555555543 4778999994
No 92
>cd00880 Era_like Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se
Probab=97.79 E-value=1.1e-05 Score=60.22 Aligned_cols=54 Identities=22% Similarity=0.150 Sum_probs=45.9
Q ss_pred eecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe----cCCeEEecCCCCCCCCC
Q psy3587 25 LCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL----TDNIRLCDCPGLVFPSK 78 (195)
Q Consensus 25 vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l----~~~i~LlDtPGIv~p~~ 78 (195)
|+|.+|+|||| |+|.+......+..++.|...+.... ...+.++||||+.....
T Consensus 1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~g~~~~~~ 60 (163)
T cd00880 1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELGPLGPVVLIDTPGIDEAGG 60 (163)
T ss_pred CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEecCCCcEEEEECCCCCcccc
Confidence 58999999999 99999888889999999988877655 34899999999886554
No 93
>COG1163 DRG Predicted GTPase [General function prediction only]
Probab=97.78 E-value=9.4e-06 Score=71.25 Aligned_cols=50 Identities=20% Similarity=0.306 Sum_probs=37.4
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCC--------CCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSR--------TPGHTKHFQTIFLTDNIRLCDCPGLVFPS 77 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~--------~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~ 77 (195)
+|.+||+||||||| |.|.+.++ .++. .||+-.. =+-.|.|+|.|||+.--
T Consensus 65 ~v~lVGfPsvGKStLL~~LTnt~s-eva~y~FTTl~~VPG~l~Y-----~ga~IQild~Pgii~ga 124 (365)
T COG1163 65 TVALVGFPSVGKSTLLNKLTNTKS-EVADYPFTTLEPVPGMLEY-----KGAQIQLLDLPGIIEGA 124 (365)
T ss_pred EEEEEcCCCccHHHHHHHHhCCCc-cccccCceecccccceEee-----cCceEEEEcCcccccCc
Confidence 79999999999999 99988663 3444 4554321 14479999999999654
No 94
>KOG1489|consensus
Probab=97.78 E-value=2.1e-05 Score=68.96 Aligned_cols=56 Identities=18% Similarity=0.205 Sum_probs=43.2
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccce--eEEEecC--CeEEecCCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHF--QTIFLTD--NIRLCDCPGLVFPSK 78 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~--Q~i~l~~--~i~LlDtPGIv~p~~ 78 (195)
.|++||+||.|||| |+|...|. +|+..|=.|=.- -.+..++ .|.+-|-|||+.-.-
T Consensus 198 dvGLVG~PNAGKSTLL~als~AKp-kVa~YaFTTL~P~iG~v~yddf~q~tVADiPGiI~GAh 259 (366)
T KOG1489|consen 198 DVGLVGFPNAGKSTLLNALSRAKP-KVAHYAFTTLRPHIGTVNYDDFSQITVADIPGIIEGAH 259 (366)
T ss_pred ccceecCCCCcHHHHHHHhhccCC-cccccceeeeccccceeeccccceeEeccCcccccccc
Confidence 89999999999999 99998887 888887666333 2344433 488999999996443
No 95
>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=97.78 E-value=1.4e-05 Score=62.46 Aligned_cols=53 Identities=13% Similarity=0.038 Sum_probs=38.7
Q ss_pred CceEeecCCCCccCC--CCCCCCccccc-CCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSV-SRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~v-g~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
.++++||.||||||| |.+.+.+.... ..+.|.+.....+.++. .+.++||||.
T Consensus 5 ~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~ 63 (168)
T cd01866 5 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQ 63 (168)
T ss_pred eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCc
Confidence 479999999999999 88876654333 34557665555555543 5889999994
No 96
>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=97.76 E-value=1.3e-05 Score=64.65 Aligned_cols=54 Identities=15% Similarity=0.064 Sum_probs=39.4
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEec-C-CeEEecCCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLT-D-NIRLCDCPGLVF 75 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~-~-~i~LlDtPGIv~ 75 (195)
.+|+|+|-||||||| |.+.+.. +.++..++.|..... +.++ . .+.++||||...
T Consensus 42 ~~I~iiG~~g~GKStLl~~l~~~~-~~~~~~~~~t~~~~~~~~~~~~~~~~~i~Dt~G~~~ 101 (204)
T cd01878 42 PTVALVGYTNAGKSTLFNALTGAD-VYAEDQLFATLDPTTRRLRLPDGREVLLTDTVGFIR 101 (204)
T ss_pred CeEEEECCCCCCHHHHHHHHhcch-hccCCccceeccceeEEEEecCCceEEEeCCCcccc
Confidence 389999999999999 9988865 345555666654433 3332 2 789999999864
No 97
>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=97.75 E-value=1.5e-05 Score=61.18 Aligned_cols=51 Identities=16% Similarity=0.098 Sum_probs=39.0
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec--CCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT--DNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~--~~i~LlDtPGIv 74 (195)
+|+++|-||||||| |.+.++..+...++.|.+. ..+..+ -.+.++||||.-
T Consensus 1 ~i~i~G~~~~GKTsl~~~~~~~~~~~~~~t~~~~~--~~~~~~~~~~l~i~D~~G~~ 55 (160)
T cd04156 1 QVLLLGLDSAGKSTLLYKLKHAELVTTIPTVGFNV--EMLQLEKHLSLTVWDVGGQE 55 (160)
T ss_pred CEEEEcCCCCCHHHHHHHHhcCCcccccCccCcce--EEEEeCCceEEEEEECCCCH
Confidence 58899999999999 9998888777777777653 334443 258999999963
No 98
>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=97.74 E-value=1.7e-05 Score=61.30 Aligned_cols=54 Identities=15% Similarity=0.073 Sum_probs=37.5
Q ss_pred CceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
.+++++|.||||||| |++.+.+. ....++.|.+-....+.++. .+.++||||.-
T Consensus 4 ~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~ 63 (165)
T cd01868 4 FKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQE 63 (165)
T ss_pred eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChH
Confidence 479999999999999 88876653 34445555443344444443 47899999964
No 99
>KOG2484|consensus
Probab=97.74 E-value=1.2e-05 Score=72.17 Aligned_cols=48 Identities=33% Similarity=0.539 Sum_probs=42.1
Q ss_pred CccccCCCCccceeEEEEecCceEeecCCCCccCC---CC-CCCCcccccCC
Q psy3587 1 VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS---KV-PKPLQVVSVSR 48 (195)
Q Consensus 1 ~~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs---N~-L~~kk~v~vg~ 48 (195)
+|+|+++||.||-||+++||++|-++|+||+...+ +. +..+++..++.
T Consensus 277 ~C~vg~~pGvT~smqeV~Ldk~i~llDsPgiv~~~~~~~~~~~Lrn~~~i~~ 328 (435)
T KOG2484|consen 277 ACNVGNVPGVTRSMQEVKLDKKIRLLDSPGIVPPSIDEKDALALRNCIPIGK 328 (435)
T ss_pred cccCCCCccchhhhhheeccCCceeccCCceeecCCCccchhhhhccccccc
Confidence 69999999999999999999999999999998887 44 66777776664
No 100
>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=97.74 E-value=1.7e-05 Score=60.81 Aligned_cols=51 Identities=16% Similarity=0.116 Sum_probs=35.8
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccce--eEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHF--QTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~--Q~i~l~~---~i~LlDtPGI 73 (195)
+++++|.||||||| |++.+.+... +..|+.|... ..+.++. .+.++||||-
T Consensus 2 ki~liG~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~ 59 (161)
T cd01861 2 KLVFLGDQSVGKTSIITRFMYDTFDN-QYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQ 59 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCCCc-cCCCceeeeEEEEEEEECCEEEEEEEEECCCc
Confidence 68999999999999 8887766432 4556555433 3343432 3789999994
No 101
>COG0536 Obg Predicted GTPase [General function prediction only]
Probab=97.72 E-value=2.8e-05 Score=68.64 Aligned_cols=156 Identities=17% Similarity=0.206 Sum_probs=83.8
Q ss_pred CCCccceeE-EEEecCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEe--cCCeEEecCCCCCCCCCC
Q psy3587 7 TPGHTKHFQ-TIFLTDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFL--TDNIRLCDCPGLVFPSKV 79 (195)
Q Consensus 7 ~~g~tk~~q-~~~l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l--~~~i~LlDtPGIv~p~~~ 79 (195)
.||+-|.++ ++++--.|++||+||+|||| |.+...| -++++.|=.|-+-.. +++ .+.+.+-|-||++.=-.+
T Consensus 145 ~~Ge~r~v~LELKllADVGLVG~PNaGKSTlls~vS~Ak-PKIadYpFTTL~PnLGvV~~~~~~sfv~ADIPGLIEGAs~ 223 (369)
T COG0536 145 EPGEERDLRLELKLLADVGLVGLPNAGKSTLLSAVSAAK-PKIADYPFTTLVPNLGVVRVDGGESFVVADIPGLIEGASE 223 (369)
T ss_pred CCCceEEEEEEEeeecccccccCCCCcHHHHHHHHhhcC-CcccCCccccccCcccEEEecCCCcEEEecCccccccccc
Confidence 345555322 33333379999999999999 7665544 678888876654433 554 456999999999964432
Q ss_pred Ch----------h-hhhhhCCCCCcc--ccCHHHHHHHHHH---HcCHHHHhh------cCCCCC-CCcCCHHHHHHHHH
Q psy3587 80 PK----------P-LQVLMGSFPIAQ--LREPYSTVQYLAE---RMDLIKLLH------IKHPDD-DEYWCAMDICDGWA 136 (195)
Q Consensus 80 ~~----------~-~l~l~g~~~~~~--i~d~~~~~~~l~~---~~~~~~l~~------~~~~~~-~~~~~~~e~L~~iA 136 (195)
.. | .-+|.-.+..+. -+||...+..|.. .|+ ..|+. +.+.+. ......+++-..++
T Consensus 224 G~GLG~~FLrHIERt~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~-~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~ 302 (369)
T COG0536 224 GVGLGLRFLRHIERTRVLLHVIDLSPIDGRDPIEDYQTIRNELEKYS-PKLAEKPRIVVLNKIDLPLDEEELEELKKALA 302 (369)
T ss_pred CCCccHHHHHHHHhhheeEEEEecCcccCCCHHHHHHHHHHHHHHhh-HHhccCceEEEEeccCCCcCHHHHHHHHHHHH
Confidence 11 1 112333333332 2566655554432 333 12221 122331 11112444555555
Q ss_pred HHcCcc----c---ccCCcccHHHHHHHHHHHHHc
Q psy3587 137 QKRSYM----T---AKTGRYDSYRAANELLRMATE 164 (195)
Q Consensus 137 ~k~g~l----~---~kgG~~D~~rAa~~~L~d~~~ 164 (195)
...++. . ...|.-++-++...+|.....
T Consensus 303 ~~~~~~~~~~ISa~t~~g~~~L~~~~~~~l~~~~~ 337 (369)
T COG0536 303 EALGWEVFYLISALTREGLDELLRALAELLEETKA 337 (369)
T ss_pred HhcCCCcceeeehhcccCHHHHHHHHHHHHHHhhh
Confidence 555532 0 124555677777777777764
No 102
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=97.70 E-value=1.9e-05 Score=61.98 Aligned_cols=48 Identities=17% Similarity=0.202 Sum_probs=32.4
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS 77 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~ 77 (195)
++|+++|.||||||| |.|.+.... ++..+.+..... -++||||.....
T Consensus 2 ~~i~~iG~~~~GKstl~~~l~~~~~~--------~~~~~~v~~~~~-~~iDtpG~~~~~ 51 (158)
T PRK15467 2 KRIAFVGAVGAGKTTLFNALQGNYTL--------ARKTQAVEFNDK-GDIDTPGEYFSH 51 (158)
T ss_pred cEEEEECCCCCCHHHHHHHHcCCCcc--------CccceEEEECCC-CcccCCccccCC
Confidence 479999999999999 998876532 122233333222 269999986544
No 103
>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=97.69 E-value=2.3e-05 Score=61.09 Aligned_cols=54 Identities=19% Similarity=0.071 Sum_probs=38.8
Q ss_pred CceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
-+|+++|.||||||| |.+.+.+. ....++.|++.....+.++. .+.|.||||.-
T Consensus 4 ~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~ 63 (167)
T cd01867 4 FKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQE 63 (167)
T ss_pred eEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchH
Confidence 479999999999999 88776553 33355556655555565544 47899999954
No 104
>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=97.68 E-value=2.5e-05 Score=59.98 Aligned_cols=51 Identities=20% Similarity=0.081 Sum_probs=39.2
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe-cCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL-TDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l-~~~i~LlDtPGIv 74 (195)
+++++|.||||||| |++.+.+.....++.|.+.. .+.. +-.+.++||||-.
T Consensus 1 ki~iiG~~~~GKssli~~~~~~~~~~~~~t~~~~~~--~~~~~~~~~~i~D~~G~~ 54 (158)
T cd00878 1 RILILGLDGAGKTTILYKLKLGEVVTTIPTIGFNVE--TVEYKNVSFTVWDVGGQD 54 (158)
T ss_pred CEEEEcCCCCCHHHHHHHHhcCCCCCCCCCcCcceE--EEEECCEEEEEEECCCCh
Confidence 58999999999999 99988876667777776643 2333 3479999999964
No 105
>cd04157 Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A
Probab=97.68 E-value=2.5e-05 Score=59.93 Aligned_cols=51 Identities=16% Similarity=0.015 Sum_probs=36.6
Q ss_pred ceEeecCCCCccCC--CCCCCCc--ccccCCCCCCccceeEEEe-cCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQ--VVSVSRTPGHTKHFQTIFL-TDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk--~v~vg~~PGvTk~~Q~i~l-~~~i~LlDtPGIv 74 (195)
+|.++|.||||||| |.+.+.. .....++.|.+... +.. +-.+.++||||..
T Consensus 1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~~~--~~~~~~~~~l~Dt~G~~ 56 (162)
T cd04157 1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNVES--FEKGNLSFTAFDMSGQG 56 (162)
T ss_pred CEEEECCCCCCHHHHHHHHcccCCCcceecCccccceEE--EEECCEEEEEEECCCCH
Confidence 58899999999999 8888753 44567777765322 222 2358899999964
No 106
>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=97.65 E-value=1.5e-05 Score=62.45 Aligned_cols=53 Identities=13% Similarity=0.043 Sum_probs=37.0
Q ss_pred ceEeecCCCCccCC--CCCCCCccccc---------------CCCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSV---------------SRTPGHTKHFQTIFL---TDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~v---------------g~~PGvTk~~Q~i~l---~~~i~LlDtPGIv 74 (195)
+|+|+|.||+|||| |+|.+...... ....|+|.......+ ...+.++||||..
T Consensus 1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~ 73 (189)
T cd00881 1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWPDRRVNFIDTPGHE 73 (189)
T ss_pred CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeCCEEEEEEeCCCcH
Confidence 58999999999999 88865443322 224566666555443 3468999999964
No 107
>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=97.62 E-value=3.2e-05 Score=59.28 Aligned_cols=52 Identities=12% Similarity=0.010 Sum_probs=35.7
Q ss_pred ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEec---CCeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLT---DNIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~---~~i~LlDtPGI 73 (195)
+|.++|.||||||| |++.+++. ....++.|.......+.++ -.+.++||||.
T Consensus 2 ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~ 59 (168)
T cd04119 2 KVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGH 59 (168)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCcc
Confidence 58999999999999 88877653 3344444444333344443 25789999996
No 108
>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=97.62 E-value=1.3e-05 Score=65.64 Aligned_cols=52 Identities=13% Similarity=0.078 Sum_probs=37.1
Q ss_pred ceEeecCCCCccCC--CCCCCCcccc------------------------------cCCCCCCccceeEEEe---cCCeE
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVS------------------------------VSRTPGHTKHFQTIFL---TDNIR 66 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~------------------------------vg~~PGvTk~~Q~i~l---~~~i~ 66 (195)
+|+|||-||+|||| |+|.....+- ....+|+|+......+ +..+.
T Consensus 1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~ 80 (208)
T cd04166 1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTPKRKFI 80 (208)
T ss_pred CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecCCceEE
Confidence 68999999999999 7764322111 1223788887766554 44799
Q ss_pred EecCCCC
Q psy3587 67 LCDCPGL 73 (195)
Q Consensus 67 LlDtPGI 73 (195)
|+||||.
T Consensus 81 liDTpG~ 87 (208)
T cd04166 81 IADTPGH 87 (208)
T ss_pred EEECCcH
Confidence 9999996
No 109
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=97.61 E-value=3.3e-05 Score=59.19 Aligned_cols=52 Identities=19% Similarity=0.111 Sum_probs=36.1
Q ss_pred ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
+|+++|-||+|||| |++.+.+. .....+.|.+...+.+.++. .+.++||||.
T Consensus 2 kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~ 59 (164)
T smart00175 2 KIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQ 59 (164)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCh
Confidence 68999999999999 88876653 23334444444444555543 5779999994
No 110
>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=97.60 E-value=3.6e-05 Score=60.40 Aligned_cols=52 Identities=15% Similarity=0.059 Sum_probs=38.9
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec-CCeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT-DNIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~-~~i~LlDtPGIv 74 (195)
.++.++|-||||||| |.+.++....+.++.|... ..+.++ -.+.++||||.-
T Consensus 15 ~kv~ivG~~~~GKTsL~~~l~~~~~~~~~~t~g~~~--~~~~~~~~~l~l~D~~G~~ 69 (173)
T cd04154 15 MRILILGLDNAGKTTILKKLLGEDIDTISPTLGFQI--KTLEYEGYKLNIWDVGGQK 69 (173)
T ss_pred cEEEEECCCCCCHHHHHHHHccCCCCCcCCccccce--EEEEECCEEEEEEECCCCH
Confidence 379999999999999 8888877666777777543 233343 357899999963
No 111
>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=97.57 E-value=4.4e-05 Score=58.64 Aligned_cols=51 Identities=8% Similarity=-0.036 Sum_probs=33.0
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCcc--ceeEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTK--HFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk--~~Q~i~l~~---~i~LlDtPGIv 74 (195)
+++++|.||||||| |++.+...+ ...++.+. ....+.++. .+.++||||..
T Consensus 4 ki~i~G~~~~GKtsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~ 61 (164)
T cd04145 4 KLVVVGGGGVGKSALTIQFIQSYFV--TDYDPTIEDSYTKQCEIDGQWAILDILDTAGQE 61 (164)
T ss_pred EEEEECCCCCcHHHHHHHHHhCCCC--cccCCCccceEEEEEEECCEEEEEEEEECCCCc
Confidence 79999999999999 877665432 23233222 122334443 47789999954
No 112
>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.
Probab=97.55 E-value=4.7e-05 Score=60.11 Aligned_cols=52 Identities=15% Similarity=0.003 Sum_probs=39.7
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec-CCeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT-DNIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~-~~i~LlDtPGIv 74 (195)
.++.++|.||||||| |.+...+.....++.|.+. ..+..+ -.+.|+||||.-
T Consensus 16 ~kv~~~G~~~~GKTsl~~~l~~~~~~~~~~t~~~~~--~~~~~~~~~~~l~D~~G~~ 70 (174)
T cd04153 16 YKVIIVGLDNAGKTTILYQFLLGEVVHTSPTIGSNV--EEIVYKNIRFLMWDIGGQE 70 (174)
T ss_pred cEEEEECCCCCCHHHHHHHHccCCCCCcCCccccce--EEEEECCeEEEEEECCCCH
Confidence 479999999999999 8887766666777777654 344443 368999999963
No 113
>COG3596 Predicted GTPase [General function prediction only]
Probab=97.53 E-value=2.4e-05 Score=67.31 Aligned_cols=59 Identities=24% Similarity=0.106 Sum_probs=45.7
Q ss_pred ceEeecCCCCccCC--CCCCC---CcccccC-CCCCCccceeEEEecCCeEEecCCCCCCCCCCCh
Q psy3587 22 NIRLCDCPGLVFPS--KVPKP---LQVVSVS-RTPGHTKHFQTIFLTDNIRLCDCPGLVFPSKVPK 81 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~---kk~v~vg-~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~~~~~ 81 (195)
++.+.|--|+|||| |+|.. +.+.+|+ -++=.|+..+.+.. +.+.|.||||+=.-+-.|.
T Consensus 41 nvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~~~~~-~~l~lwDtPG~gdg~~~D~ 105 (296)
T COG3596 41 NVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSYDG-ENLVLWDTPGLGDGKDKDA 105 (296)
T ss_pred eEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHHhhccc-cceEEecCCCcccchhhhH
Confidence 78899999999999 99984 5555555 33445677777766 8999999999987665553
No 114
>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=97.53 E-value=5.9e-05 Score=58.27 Aligned_cols=53 Identities=13% Similarity=0.003 Sum_probs=33.1
Q ss_pred ceEeecCCCCccCC--CCCCCCccc---ccCCCCCCccc--eeEEEec-CCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVV---SVSRTPGHTKH--FQTIFLT-DNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v---~vg~~PGvTk~--~Q~i~l~-~~i~LlDtPGIv 74 (195)
+|+++|.||+|||| |.|.+.... .....+..|.+ ...+..+ ..+.++||||.-
T Consensus 1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~ 61 (167)
T cd04160 1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIGTIEVGNARLKFWDLGGQE 61 (167)
T ss_pred CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceEEEEECCEEEEEEECCCCh
Confidence 58999999999999 887654321 11111222322 2334443 468999999974
No 115
>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=97.52 E-value=5e-05 Score=58.44 Aligned_cols=52 Identities=12% Similarity=0.031 Sum_probs=35.6
Q ss_pred ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
+++++|.||||||| |.|.+.+ .....++.|..-....+.++. .+.|+||||.
T Consensus 2 ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~ 59 (161)
T cd04113 2 KFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQ 59 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcch
Confidence 68999999999999 8877655 334444555433333444433 4789999996
No 116
>cd04104 p47_IIGP_like p47 (47-kDa) family. The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei
Probab=97.50 E-value=9.3e-05 Score=60.04 Aligned_cols=57 Identities=19% Similarity=0.113 Sum_probs=38.2
Q ss_pred ceEeecCCCCccCC--CCCCCCcccc-cCCCCC---CccceeEEEe--cCCeEEecCCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPG---HTKHFQTIFL--TDNIRLCDCPGLVFPSK 78 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PG---vTk~~Q~i~l--~~~i~LlDtPGIv~p~~ 78 (195)
+++++|-+|+|||| |+|.+..... .....| +|+..+.+.. ..++.++||||+-....
T Consensus 3 kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~l~l~DtpG~~~~~~ 67 (197)
T cd04104 3 NIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHPKFPNVTLWDLPGIGSTAF 67 (197)
T ss_pred EEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeecCCCCCceEEeCCCCCcccC
Confidence 68999999999999 9988744322 222223 3554444433 24799999999875443
No 117
>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=97.50 E-value=5e-05 Score=60.70 Aligned_cols=53 Identities=11% Similarity=0.005 Sum_probs=39.1
Q ss_pred cCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec-CCeEEecCCCCC
Q psy3587 20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT-DNIRLCDCPGLV 74 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~-~~i~LlDtPGIv 74 (195)
..++.++|.||||||| |.+.+.+...+.++.|.|. ..+..+ -.+.++||||.-
T Consensus 17 ~~~i~ivG~~~~GKTsli~~l~~~~~~~~~~t~~~~~--~~~~~~~~~~~~~D~~G~~ 72 (184)
T smart00178 17 HAKILFLGLDNAGKTTLLHMLKNDRLAQHQPTQHPTS--EELAIGNIKFTTFDLGGHQ 72 (184)
T ss_pred cCEEEEECCCCCCHHHHHHHHhcCCCcccCCccccce--EEEEECCEEEEEEECCCCH
Confidence 4589999999999999 9998877666655555543 333333 368899999964
No 118
>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=97.49 E-value=5.8e-05 Score=58.77 Aligned_cols=52 Identities=13% Similarity=0.083 Sum_probs=39.1
Q ss_pred cCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe-cCCeEEecCCCC
Q psy3587 20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL-TDNIRLCDCPGL 73 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l-~~~i~LlDtPGI 73 (195)
..+++++|-||+|||| |.+.+.......++.|.+.. .+.. +..+.++||||.
T Consensus 14 ~~~v~i~G~~g~GKStLl~~l~~~~~~~~~~t~g~~~~--~i~~~~~~~~~~D~~G~ 68 (173)
T cd04155 14 EPRILILGLDNAGKTTILKQLASEDISHITPTQGFNIK--TVQSDGFKLNVWDIGGQ 68 (173)
T ss_pred ccEEEEEccCCCCHHHHHHHHhcCCCcccCCCCCcceE--EEEECCEEEEEEECCCC
Confidence 3479999999999999 88888766666677776542 3333 346889999995
No 119
>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=97.48 E-value=6.5e-05 Score=58.23 Aligned_cols=53 Identities=15% Similarity=0.077 Sum_probs=36.1
Q ss_pred CceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
.+++++|.||+|||| |++...+... -..+.|..-....+.++. .+.|+||||-
T Consensus 4 ~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~ 62 (165)
T cd01864 4 FKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQ 62 (165)
T ss_pred eEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCCh
Confidence 479999999999999 8876544332 234444433444555544 5789999994
No 120
>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=97.48 E-value=6.8e-05 Score=58.01 Aligned_cols=52 Identities=13% Similarity=0.118 Sum_probs=33.8
Q ss_pred ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
+|+++|.||||||| |++...... ....+.|.+-....+.++. .+.++||||.
T Consensus 2 ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~ 59 (172)
T cd01862 2 KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQ 59 (172)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCCh
Confidence 68999999999999 888765532 2233444433333344433 2568999995
No 121
>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=97.44 E-value=9.7e-05 Score=56.93 Aligned_cols=51 Identities=16% Similarity=0.059 Sum_probs=34.8
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe-cCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL-TDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l-~~~i~LlDtPGIv 74 (195)
+|.++|.||||||| |+|.....+...++-|.+. ..+.. +-.+.++||||..
T Consensus 1 kv~lvG~~~~GKTsl~~~l~~~~~~~~~~t~~~~~--~~~~~~~~~~~i~Dt~G~~ 54 (158)
T cd04151 1 RILILGLDNAGKTTILYRLQLGEVVTTIPTIGFNV--ETVTYKNLKFQVWDLGGQT 54 (158)
T ss_pred CEEEECCCCCCHHHHHHHHccCCCcCcCCccCcCe--EEEEECCEEEEEEECCCCH
Confidence 58899999999999 8887666554444334332 22322 2368899999974
No 122
>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=97.44 E-value=4.1e-05 Score=60.22 Aligned_cols=53 Identities=15% Similarity=0.028 Sum_probs=32.8
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccc-eeEEEec---CCeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKH-FQTIFLT---DNIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~-~Q~i~l~---~~i~LlDtPGIv 74 (195)
.+|+++|.||||||| |.+.+.+.. ....|..... ...+.++ -.+.|+||||.-
T Consensus 2 ~kv~l~G~~g~GKTtl~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~~ 60 (180)
T cd04137 2 RKIAVLGSRSVGKSSLTVQFVEGHFV-ESYYPTIENTFSKIIRYKGQDYHLEIVDTAGQD 60 (180)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCCc-cccCcchhhhEEEEEEECCEEEEEEEEECCChH
Confidence 579999999999999 887765432 2233322111 1222332 247899999963
No 123
>KOG2486|consensus
Probab=97.43 E-value=0.0001 Score=63.69 Aligned_cols=56 Identities=13% Similarity=0.124 Sum_probs=45.7
Q ss_pred ceEeecCCCCccCC--CCCCC-CcccccCC-CCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKP-LQVVSVSR-TPGHTKHFQTIFLTDNIRLCDCPGLVFPS 77 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~-kk~v~vg~-~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~ 77 (195)
++.+.|-.|||||| |.+.. +..+.++. +||.|+.++-.++.+..+++|.||.=+-.
T Consensus 138 e~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~v~~~~~~vDlPG~~~a~ 197 (320)
T KOG2486|consen 138 ELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFHVGKSWYEVDLPGYGRAG 197 (320)
T ss_pred eeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeeeccceEEEEecCCccccc
Confidence 56677777999999 77665 44556666 99999999999999999999999955443
No 124
>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=97.43 E-value=7.2e-05 Score=59.65 Aligned_cols=53 Identities=9% Similarity=0.063 Sum_probs=37.3
Q ss_pred ceEeecCCCCccCC--CCCCCCccc--ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVV--SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v--~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
+|.++|-||||||| |++...+.. ...++.|.+-....+.++. .+.++||||.-
T Consensus 2 ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~ 61 (193)
T cd04118 2 KVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSE 61 (193)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCch
Confidence 58999999999999 888765543 3555556554444555543 35689999963
No 125
>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=97.43 E-value=0.00011 Score=57.73 Aligned_cols=50 Identities=14% Similarity=0.043 Sum_probs=38.6
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecC-CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTD-NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~-~i~LlDtPGI 73 (195)
+|.++|.+|||||| |.+.++......++.|.++ ..+..++ .+.++||||-
T Consensus 1 ~i~~~G~~~~GKTsl~~~l~~~~~~~~~~t~g~~~--~~~~~~~~~~~i~D~~G~ 53 (167)
T cd04161 1 TLLTVGLDNAGKTTLVSALQGEIPKKVAPTVGFTP--TKLRLDKYEVCIFDLGGG 53 (167)
T ss_pred CEEEECCCCCCHHHHHHHHhCCCCccccCcccceE--EEEEECCEEEEEEECCCc
Confidence 47899999999999 8888776666777778764 3444433 6889999995
No 126
>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=97.43 E-value=2.9e-05 Score=60.79 Aligned_cols=54 Identities=24% Similarity=0.175 Sum_probs=36.1
Q ss_pred CceEeecCCCCccCC--CCCCCCccc--------------ccCCCCCCccceeEEEe--------cCCeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVV--------------SVSRTPGHTKHFQTIFL--------TDNIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v--------------~vg~~PGvTk~~Q~i~l--------~~~i~LlDtPGIv 74 (195)
.+|++||-+|||||| |+|.+...+ .+....|+|...+.+.+ +-.+.|+||||.-
T Consensus 1 rni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~ 78 (179)
T cd01890 1 RNFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHV 78 (179)
T ss_pred CcEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCCh
Confidence 379999999999999 877643211 12234577766555443 1247799999985
No 127
>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=97.42 E-value=8.5e-05 Score=56.58 Aligned_cols=51 Identities=10% Similarity=0.079 Sum_probs=32.1
Q ss_pred ceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
+|+++|.||||||| |++.+.+... ..++.|.+- ...+.++. .+.++||||-
T Consensus 3 ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~ 59 (162)
T cd04138 3 KLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQ 59 (162)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheE-EEEEEECCEEEEEEEEECCCC
Confidence 68999999999999 8887665332 222222211 22233443 2668999995
No 128
>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=97.42 E-value=9.3e-05 Score=57.30 Aligned_cols=52 Identities=15% Similarity=0.029 Sum_probs=34.0
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCc--cceeEEEecC---CeEEecCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHT--KHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvT--k~~Q~i~l~~---~i~LlDtPGI 73 (195)
.+++++|.||||||| |.+...+... ...|..+ -....+.++. .+.++||||.
T Consensus 3 ~ki~i~G~~~vGKSsli~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~ 61 (166)
T cd01869 3 FKLLLIGDSGVGKSCLLLRFADDTYTE-SYISTIGVDFKIRTIELDGKTIKLQIWDTAGQ 61 (166)
T ss_pred EEEEEECCCCCCHHHHHHHHhcCCCCC-CCCCccceeEEEEEEEECCEEEEEEEEECCCc
Confidence 468999999999999 8887654322 3334333 2333344432 4789999994
No 129
>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=97.39 E-value=0.0001 Score=57.50 Aligned_cols=53 Identities=11% Similarity=0.037 Sum_probs=33.7
Q ss_pred CceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
-++.++|.||+|||| |++.+.... ...++.+. .-...+.++. .+.|+||||..
T Consensus 2 ~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~~~i~Dt~G~~ 60 (168)
T cd04177 2 YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIED-SYRKQVEIDGRQCDLEILDTAGTE 60 (168)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchh-eEEEEEEECCEEEEEEEEeCCCcc
Confidence 368999999999999 887655432 22333331 1123344443 56899999964
No 130
>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]
Probab=97.37 E-value=4.7e-05 Score=67.88 Aligned_cols=54 Identities=15% Similarity=0.158 Sum_probs=40.3
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCcccee----EE-----------------EecCCeEEecCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQ----TI-----------------FLTDNIRLCDCPGLVFP 76 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q----~i-----------------~l~~~i~LlDtPGIv~p 76 (195)
+++|||.||||||| |+|.+.. +..+|.|=.|=.-- .+ .+.-.+.++|-.|++.=
T Consensus 4 ~~GIVGlPNVGKSTlFnAlT~~~-a~~aNYPF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~G 80 (372)
T COG0012 4 KIGIVGLPNVGKSTLFNALTKAG-AEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKG 80 (372)
T ss_pred eeEEecCCCCcHHHHHHHHHcCC-ccccCCCcccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCCC
Confidence 68999999999999 9999988 99999995552211 11 00124889999999953
No 131
>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=97.35 E-value=0.00011 Score=55.86 Aligned_cols=52 Identities=10% Similarity=-0.014 Sum_probs=34.8
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeE--EEecC---CeEEecCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQT--IFLTD---NIRLCDCPGLVF 75 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~--i~l~~---~i~LlDtPGIv~ 75 (195)
+|+++|.||+|||| |++.+.+ .++..+..|...+. +..+. .+.++|+||...
T Consensus 1 ki~i~G~~~~GKTsli~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~ 59 (160)
T cd00876 1 KVVVLGAGGVGKSAITIQFVKGT--FVEEYDPTIEDSYRKTIVVDGETYTLDILDTAGQEE 59 (160)
T ss_pred CEEEECCCCCCHHHHHHHHHhCC--CCcCcCCChhHeEEEEEEECCEEEEEEEEECCChHH
Confidence 58999999999999 8877655 33444444443333 23332 477899999654
No 132
>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=97.35 E-value=5.2e-05 Score=60.85 Aligned_cols=52 Identities=23% Similarity=0.217 Sum_probs=37.0
Q ss_pred ceEeecCCCCccCC--CCCCCC------cccccCCCCCCccceeEEE--e---------------cCCeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPL------QVVSVSRTPGHTKHFQTIF--L---------------TDNIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~k------k~v~vg~~PGvTk~~Q~i~--l---------------~~~i~LlDtPGI 73 (195)
+|+++|-+|+|||| |+|..+ .....+..+|.|....... + ...+.++||||.
T Consensus 2 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~ 78 (192)
T cd01889 2 NVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGH 78 (192)
T ss_pred eEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCc
Confidence 68999999999999 887653 1223345678877665432 2 236899999997
No 133
>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=97.35 E-value=0.00012 Score=56.90 Aligned_cols=53 Identities=17% Similarity=0.139 Sum_probs=35.1
Q ss_pred ceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
+++++|-||||||| |.+.+.+-.. .-++-|++-....+..+. .+.|+||||.-
T Consensus 3 ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~ 61 (165)
T cd01865 3 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQE 61 (165)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChH
Confidence 68999999999999 8887766432 223334333333443332 48899999964
No 134
>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=97.33 E-value=0.00013 Score=58.95 Aligned_cols=54 Identities=15% Similarity=0.066 Sum_probs=37.8
Q ss_pred CceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
.+|+++|-+|||||| |.+.+.... ...++.|+.-....+.++. .+.|+||||--
T Consensus 7 ~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~ 66 (199)
T cd04110 7 FKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQE 66 (199)
T ss_pred eEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCch
Confidence 379999999999999 888766532 4455566544444454443 47799999953
No 135
>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=97.30 E-value=0.00014 Score=55.99 Aligned_cols=52 Identities=12% Similarity=0.033 Sum_probs=32.5
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccc-eeEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKH-FQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~-~Q~i~l~~---~i~LlDtPGIv 74 (195)
+|+|+|-||||||| |++.+.+.... ..|..+.. ...+.++. .+.++||||.-
T Consensus 2 ki~v~G~~~~GKTsli~~~~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~ 59 (164)
T smart00173 2 KLVVLGSGGVGKSALTIQFVQGHFVDD-YDPTIEDSYRKQIEIDGEVCLLDILDTAGQE 59 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHhCcCCcc-cCCchhhhEEEEEEECCEEEEEEEEECCCcc
Confidence 68999999999999 88876554321 22222211 12233333 46789999964
No 136
>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=97.29 E-value=0.00016 Score=56.18 Aligned_cols=53 Identities=11% Similarity=0.063 Sum_probs=35.6
Q ss_pred ceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
++.++|.+|||||| |.+..++-.. ...+.|..-....+.++. .+.|+||||..
T Consensus 4 ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~ 62 (166)
T cd04122 4 KYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQE 62 (166)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcH
Confidence 68999999999999 8877654332 233444444344455543 47899999953
No 137
>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=97.29 E-value=0.00016 Score=57.88 Aligned_cols=52 Identities=13% Similarity=0.098 Sum_probs=33.5
Q ss_pred ceEeecCCCCccCC--CCCCCCcccc--cCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVS--VSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~--vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
++.|+|-||||||| |.+...+... ..++-|.+-....+.++. .+.|+||||-
T Consensus 2 Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~ 60 (191)
T cd04112 2 KVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQ 60 (191)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCc
Confidence 58999999999999 8777655432 222333332223344443 5789999994
No 138
>COG1162 Predicted GTPases [General function prediction only]
Probab=97.29 E-value=0.00018 Score=62.64 Aligned_cols=59 Identities=15% Similarity=0.067 Sum_probs=45.5
Q ss_pred cCceEeecCCCCccCC--CCCCCCcccccCCCC-------CCccceeEEEecCCeEEecCCCCCCCCC
Q psy3587 20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTP-------GHTKHFQTIFLTDNIRLCDCPGLVFPSK 78 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~P-------GvTk~~Q~i~l~~~i~LlDtPGIv~p~~ 78 (195)
++...++|-.|||||| |+|.+....+|+..- -.|++-+.+.++.+=+|+||||+=-..+
T Consensus 164 ~~~svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~gG~iiDTPGf~~~~l 231 (301)
T COG1162 164 GKITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGGGWIIDTPGFRSLGL 231 (301)
T ss_pred CCeEEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcCCCCEEEeCCCCCccCc
Confidence 3456788999999999 999875555555443 3567777788888889999999986665
No 139
>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=97.28 E-value=0.00016 Score=58.86 Aligned_cols=52 Identities=12% Similarity=0.298 Sum_probs=35.0
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccce--eEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHF--QTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~--Q~i~l~~---~i~LlDtPGIv 74 (195)
+|.|+|-||||||| |.+.+..-... ..|..+... ..+.++. .+.|+||||.-
T Consensus 2 kI~ivG~~~vGKTsLi~~~~~~~f~~~-~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~ 60 (198)
T cd04142 2 RVAVLGAPGVGKTAIVRQFLAQEFPEE-YIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQ 60 (198)
T ss_pred EEEEECCCCCcHHHHHHHHHcCCCCcc-cCCccccccceeEEEECCEEEEEEEEeCCCcc
Confidence 58999999999999 88776554332 355554332 2344444 36799999974
No 140
>TIGR02528 EutP ethanolamine utilization protein, EutP. This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.
Probab=97.27 E-value=0.00011 Score=55.60 Aligned_cols=42 Identities=17% Similarity=0.196 Sum_probs=29.5
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGI 73 (195)
+|.++|-||||||| |++.+.... .. .|.+..+ .. .++||||.
T Consensus 2 kv~liG~~~vGKSsL~~~l~~~~~~---~~--~t~~~~~---~~--~~iDt~G~ 45 (142)
T TIGR02528 2 RIMFIGSVGCGKTTLTQALQGEEIL---YK--KTQAVEY---ND--GAIDTPGE 45 (142)
T ss_pred eEEEECCCCCCHHHHHHHHcCCccc---cc--cceeEEE---cC--eeecCchh
Confidence 68999999999999 998876542 11 1333332 22 67899997
No 141
>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=97.25 E-value=0.00018 Score=55.14 Aligned_cols=53 Identities=11% Similarity=-0.021 Sum_probs=32.3
Q ss_pred CceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
.+++++|.||||||| |.+....... ..++-+- .....+.++. .+.|+||||.-
T Consensus 2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~G~~ 60 (163)
T cd04136 2 YKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIED-SYRKQIEVDGQQCMLEILDTAGTE 60 (163)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCCCcccCCchhh-hEEEEEEECCEEEEEEEEECCCcc
Confidence 368999999999999 8776554332 1122111 1123344443 36679999963
No 142
>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=97.25 E-value=0.0002 Score=56.39 Aligned_cols=52 Identities=17% Similarity=0.035 Sum_probs=35.8
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec-CCeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT-DNIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~-~~i~LlDtPGIv 74 (195)
.+|.++|.||||||| |+|.........++-|.+ ...+..+ -.+.|.||||.-
T Consensus 10 ~kv~i~G~~~~GKTsli~~l~~~~~~~~~~t~g~~--~~~~~~~~~~~~l~Dt~G~~ 64 (168)
T cd04149 10 MRILMLGLDAAGKTTILYKLKLGQSVTTIPTVGFN--VETVTYKNVKFNVWDVGGQD 64 (168)
T ss_pred cEEEEECcCCCCHHHHHHHHccCCCccccCCcccc--eEEEEECCEEEEEEECCCCH
Confidence 379999999999999 888765544443333433 3334333 358999999974
No 143
>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=97.24 E-value=0.00017 Score=57.40 Aligned_cols=52 Identities=15% Similarity=0.199 Sum_probs=38.1
Q ss_pred ceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
+|+++|.+|||||| |.+.+..... ..++.|.+-....+.++. .+.++||||.
T Consensus 2 ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~ 59 (188)
T cd04125 2 KVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQ 59 (188)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCc
Confidence 58999999999999 8887665432 556666655555566643 3678999995
No 144
>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=97.24 E-value=0.00011 Score=59.04 Aligned_cols=54 Identities=17% Similarity=0.116 Sum_probs=37.0
Q ss_pred CceEeecCCCCccCC--CCCCCCc-c-ccc-------------CCCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQ-V-VSV-------------SRTPGHTKHFQTIFL---TDNIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk-~-v~v-------------g~~PGvTk~~Q~i~l---~~~i~LlDtPGIv 74 (195)
.+|+++|-+|||||| |+|.... . ... ....|+|...+.+.+ ...+.++||||.-
T Consensus 3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~ 76 (194)
T cd01891 3 RNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHA 76 (194)
T ss_pred cEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcH
Confidence 379999999999999 8776421 1 111 234677766665544 2368899999974
No 145
>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=97.22 E-value=0.00022 Score=56.85 Aligned_cols=52 Identities=15% Similarity=0.039 Sum_probs=34.8
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec----CCeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT----DNIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~----~~i~LlDtPGI 73 (195)
+|.++|.||||||| |++........-++.|.+.....+... -.+.++||||.
T Consensus 5 kv~~vG~~~~GKTsli~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~ 62 (183)
T cd04152 5 HIVMLGLDSAGKTTVLYRLKFNEFVNTVPTKGFNTEKIKVSLGNSKGITFHFWDVGGQ 62 (183)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCcCCcCCccccceeEEEeeccCCCceEEEEEECCCc
Confidence 58899999999999 888766554443444544333233221 14889999996
No 146
>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=97.21 E-value=0.0002 Score=54.74 Aligned_cols=52 Identities=12% Similarity=0.184 Sum_probs=31.7
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccce-eEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHF-QTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~-Q~i~l~~---~i~LlDtPGIv 74 (195)
+++++|.||||||| |.+.....++ ...|...... ..+.++. .+.++||||..
T Consensus 2 ki~~~G~~~~GKTsl~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~ 59 (164)
T cd04139 2 KVIVVGAGGVGKSALTLQFMYDEFVE-DYEPTKADSYRKKVVLDGEDVQLNILDTAGQE 59 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCcc-ccCCcchhhEEEEEEECCEEEEEEEEECCChh
Confidence 68999999999999 8776544332 1122222111 1223332 48889999954
No 147
>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=97.21 E-value=0.00015 Score=55.64 Aligned_cols=52 Identities=17% Similarity=0.068 Sum_probs=33.1
Q ss_pred ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEec-----CCeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLT-----DNIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~-----~~i~LlDtPGI 73 (195)
+|+++|.||||||| |.+.+.... ...++.|..-....+.+. -.+.|+||||.
T Consensus 2 kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~ 61 (162)
T cd04106 2 KVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQ 61 (162)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCch
Confidence 58999999999999 887765432 223333332222334443 14889999994
No 148
>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=97.20 E-value=0.00025 Score=56.32 Aligned_cols=53 Identities=11% Similarity=0.003 Sum_probs=37.8
Q ss_pred cCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec-CCeEEecCCCCC
Q psy3587 20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT-DNIRLCDCPGLV 74 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~-~~i~LlDtPGIv 74 (195)
..+++++|-+|+|||| |.+.+.+.....++.|.+. ..+.++ -.+.++|+||-.
T Consensus 19 ~~ki~ilG~~~~GKStLi~~l~~~~~~~~~~T~~~~~--~~i~~~~~~~~l~D~~G~~ 74 (190)
T cd00879 19 EAKILFLGLDNAGKTTLLHMLKDDRLAQHVPTLHPTS--EELTIGNIKFKTFDLGGHE 74 (190)
T ss_pred CCEEEEECCCCCCHHHHHHHHhcCCCcccCCccCcce--EEEEECCEEEEEEECCCCH
Confidence 3479999999999999 8888766555555555442 334443 368899999953
No 149
>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=97.19 E-value=0.00021 Score=61.43 Aligned_cols=55 Identities=16% Similarity=0.198 Sum_probs=36.8
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCC-------CCccceeEE--Ee--cC---CeEEecCCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTP-------GHTKHFQTI--FL--TD---NIRLCDCPGLVF 75 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~P-------GvTk~~Q~i--~l--~~---~i~LlDtPGIv~ 75 (195)
.+|||+|-+|+|||| |+|.+......+..+ .-|-.++.. .+ +. .+.++||||.-.
T Consensus 5 f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd 75 (276)
T cd01850 5 FNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGD 75 (276)
T ss_pred EEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccc
Confidence 379999999999999 999887766554321 122223222 22 22 489999999963
No 150
>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=97.16 E-value=0.00023 Score=56.95 Aligned_cols=51 Identities=10% Similarity=0.039 Sum_probs=31.2
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCc-cceeEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHT-KHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvT-k~~Q~i~l~~---~i~LlDtPGI 73 (195)
+|+++|.||||||| |.+...+-... ..|-+. .....+.++. .+.|+||||.
T Consensus 1 ki~ivG~~~vGKTsli~~l~~~~f~~~-~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~ 57 (190)
T cd04144 1 KLVVLGDGGVGKTALTIQLCLNHFVET-YDPTIEDSYRKQVVVDGQPCMLEVLDTAGQ 57 (190)
T ss_pred CEEEECCCCCCHHHHHHHHHhCCCCcc-CCCchHhhEEEEEEECCEEEEEEEEECCCc
Confidence 48899999999999 88765443221 112111 1122334443 3788999995
No 151
>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=97.15 E-value=0.00038 Score=52.32 Aligned_cols=50 Identities=14% Similarity=0.049 Sum_probs=32.4
Q ss_pred eEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec-CCeEEecCCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT-DNIRLCDCPGL 73 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~-~~i~LlDtPGI 73 (195)
|+++|-||+|||| |.|.+.... ..-.|.+.-....+..+ -.+.+.|+||.
T Consensus 2 i~i~G~~~~GKssl~~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~D~~g~ 54 (159)
T cd04159 2 ITLVGLQNSGKTTLVNVIAGGQFS-EDTIPTVGFNMRKVTKGNVTLKVWDLGGQ 54 (159)
T ss_pred EEEEcCCCCCHHHHHHHHccCCCC-cCccCCCCcceEEEEECCEEEEEEECCCC
Confidence 7899999999999 888876432 22234333222222222 25889999995
No 152
>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=97.13 E-value=0.00026 Score=54.99 Aligned_cols=53 Identities=13% Similarity=0.034 Sum_probs=33.7
Q ss_pred CceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
.+++++|.||||||| |.+...+... ...+.|+.-....+.++. .+.|+||||-
T Consensus 6 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~ 64 (170)
T cd04116 6 LKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQ 64 (170)
T ss_pred EEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCCh
Confidence 369999999999999 8776544322 233444432223344433 4678899995
No 153
>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=97.12 E-value=0.00031 Score=54.68 Aligned_cols=52 Identities=10% Similarity=-0.045 Sum_probs=31.5
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccc-eeEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKH-FQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~-~Q~i~l~~---~i~LlDtPGIv 74 (195)
+++++|.||+|||| |.+...+-.... .|-..-. ...+.++. .+.++||||--
T Consensus 2 ki~i~G~~~~GKTsl~~~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~ 59 (174)
T cd04135 2 KCVVVGDGAVGKTCLLMSYANDAFPEEY-VPTVFDHYAVSVTVGGKQYLLGLYDTAGQE 59 (174)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCCCCC-CCceeeeeEEEEEECCEEEEEEEEeCCCcc
Confidence 58999999999999 877665543221 1211111 11234443 26789999964
No 154
>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=97.11 E-value=0.00032 Score=53.36 Aligned_cols=52 Identities=12% Similarity=0.061 Sum_probs=33.3
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccce--eEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHF--QTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~--Q~i~l~~---~i~LlDtPGIv 74 (195)
+++++|.+|||||| |++...+... ...|..+... +.+.+.. .+.++||||--
T Consensus 2 ki~i~G~~~~GKStli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~ 60 (162)
T cd04123 2 KVVLLGEGRVGKTSLVLRYVENKFNE-KHESTTQASFFQKTVNIGGKRIDLAIWDTAGQE 60 (162)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCCC-CcCCccceeEEEEEEEECCEEEEEEEEECCchH
Confidence 68999999999999 8887655433 2223332222 2233322 47899999953
No 155
>COG1161 Predicted GTPases [General function prediction only]
Probab=97.11 E-value=0.00038 Score=61.24 Aligned_cols=35 Identities=46% Similarity=0.638 Sum_probs=33.3
Q ss_pred CccccCCCCccceeEEEEecCceEeecCCCCccCC
Q psy3587 1 VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS 35 (195)
Q Consensus 1 ~~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs 35 (195)
+|.||+.||.||.+|.|.+++.++++|+||+....
T Consensus 157 ~~~~s~~PG~Tk~~q~i~~~~~i~LlDtPGii~~~ 191 (322)
T COG1161 157 VAKTSNRPGTTKGIQWIKLDDGIYLLDTPGIIPPK 191 (322)
T ss_pred ceeeCCCCceecceEEEEcCCCeEEecCCCcCCCC
Confidence 37899999999999999999999999999999887
No 156
>PLN03110 Rab GTPase; Provisional
Probab=97.09 E-value=0.00025 Score=58.36 Aligned_cols=54 Identities=15% Similarity=0.063 Sum_probs=40.0
Q ss_pred CceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
.++++||-+|||||| +.|.+... .....+.|+......+.++. .+.|+||||-.
T Consensus 13 ~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~ 72 (216)
T PLN03110 13 FKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQE 72 (216)
T ss_pred eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcH
Confidence 489999999999999 77766553 34556667665556666654 68889999953
No 157
>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=97.09 E-value=0.00022 Score=55.15 Aligned_cols=55 Identities=15% Similarity=0.086 Sum_probs=32.9
Q ss_pred ecCceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 19 LTDNIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 19 l~~~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
..-+++++|-||||||| |.+...... ..+.+.|..-....+.++. .+.++||||.
T Consensus 6 ~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~ 66 (169)
T cd04114 6 FLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQ 66 (169)
T ss_pred ceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCc
Confidence 34579999999999999 877654322 1222222211122234433 3678899996
No 158
>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=97.08 E-value=0.00046 Score=54.05 Aligned_cols=49 Identities=14% Similarity=0.022 Sum_probs=33.4
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe--c-CCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL--T-DNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l--~-~~i~LlDtPGIv 74 (195)
+|.++|.+|||||| |++.+..... +..|.+.+...+ + -.+.++||||.-
T Consensus 1 ~vvlvG~~~~GKTsl~~~l~~~~~~~----~~~T~~~~~~~~~~~~~~i~l~Dt~G~~ 54 (169)
T cd04158 1 RVVTLGLDGAGKTTILFKLKQDEFMQ----PIPTIGFNVETVEYKNLKFTIWDVGGKH 54 (169)
T ss_pred CEEEECCCCCCHHHHHHHHhcCCCCC----cCCcCceeEEEEEECCEEEEEEECCCCh
Confidence 58899999999999 8887764322 223444433322 2 258899999974
No 159
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=97.08 E-value=0.00019 Score=64.94 Aligned_cols=52 Identities=15% Similarity=0.093 Sum_probs=38.9
Q ss_pred ceEeecCCCCccCC--CCCCCCccc------------------------------ccCCCCCCccceeEEEe---cCCeE
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVV------------------------------SVSRTPGHTKHFQTIFL---TDNIR 66 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v------------------------------~vg~~PGvTk~~Q~i~l---~~~i~ 66 (195)
+|.++|-||+|||| |.|.....+ .-...+|+|+......+ +..+.
T Consensus 8 ~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~~~~~i~ 87 (425)
T PRK12317 8 NLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFETDKYYFT 87 (425)
T ss_pred EEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEecCCeEEE
Confidence 69999999999999 776522111 11227999999988766 34799
Q ss_pred EecCCCC
Q psy3587 67 LCDCPGL 73 (195)
Q Consensus 67 LlDtPGI 73 (195)
|+||||.
T Consensus 88 liDtpG~ 94 (425)
T PRK12317 88 IVDCPGH 94 (425)
T ss_pred EEECCCc
Confidence 9999995
No 160
>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=97.07 E-value=0.00035 Score=53.81 Aligned_cols=51 Identities=10% Similarity=-0.004 Sum_probs=30.9
Q ss_pred ceEeecCCCCccCC--CCCCCCccccc-CCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSV-SRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~v-g~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
+++++|.||||||| |.+...+.... .++-+ ......+.++. .+.|+||||.
T Consensus 3 ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~ 59 (163)
T cd04176 3 KVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGT 59 (163)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEECCEEEEEEEEECCCc
Confidence 68999999999999 66654433221 12111 11123344433 4778999995
No 161
>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=97.07 E-value=0.00035 Score=53.90 Aligned_cols=53 Identities=13% Similarity=0.047 Sum_probs=33.0
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccce-eEEEec---CCeEEecCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHF-QTIFLT---DNIRLCDCPGLVF 75 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~-Q~i~l~---~~i~LlDtPGIv~ 75 (195)
+++++|.||+|||| |+|.+.+.. .+..|...... ..+..+ -.+.++||||...
T Consensus 2 ki~i~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~g~~~ 60 (171)
T cd00157 2 KIVVVGDGAVGKTCLLISYTTGKFP-TEYVPTVFDNYSATVTVDGKQVNLGLWDTAGQEE 60 (171)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCC-CCCCCceeeeeEEEEEECCEEEEEEEEeCCCccc
Confidence 58999999999999 888776642 22223222111 111222 1488999999763
No 162
>CHL00071 tufA elongation factor Tu
Probab=97.05 E-value=0.00015 Score=65.50 Aligned_cols=53 Identities=15% Similarity=0.078 Sum_probs=38.2
Q ss_pred CceEeecCCCCccCC--CCCCCCc-------ccc--------cCCCCCCccceeEEEe---cCCeEEecCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQ-------VVS--------VSRTPGHTKHFQTIFL---TDNIRLCDCPGL 73 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk-------~v~--------vg~~PGvTk~~Q~i~l---~~~i~LlDtPGI 73 (195)
-+++++|-||+|||| |+|.+.. ... ....+|+|.....+.. +..+.|+||||.
T Consensus 13 ~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~~iDtPGh 85 (409)
T CHL00071 13 VNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYETENRHYAHVDCPGH 85 (409)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEccCCeEEEEEECCCh
Confidence 379999999999999 8776431 111 2233899988766655 246899999994
No 163
>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=97.03 E-value=0.00041 Score=53.89 Aligned_cols=53 Identities=15% Similarity=-0.034 Sum_probs=32.0
Q ss_pred CceEeecCCCCccCC--CCCCCCccccc-CCCCCCccceeEEEec---CCeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSV-SRTPGHTKHFQTIFLT---DNIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~v-g~~PGvTk~~Q~i~l~---~~i~LlDtPGIv 74 (195)
.+|.++|.||||||| |.+.+.+-... -++-+.+ ..+.+..+ -.+.++||||.-
T Consensus 2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~-~~~~~~~~~~~~~l~i~Dt~G~~ 60 (165)
T cd04140 2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDT-YRQVISCSKNICTLQITDTTGSH 60 (165)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchhe-EEEEEEECCEEEEEEEEECCCCC
Confidence 468999999999999 88776543211 1111211 12223332 247899999974
No 164
>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=97.02 E-value=0.00038 Score=54.19 Aligned_cols=51 Identities=8% Similarity=-0.033 Sum_probs=31.9
Q ss_pred eEeecCCCCccCC--CCCCCCcccccCCCCCCcc-ceeEEEecC---CeEEecCCCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTK-HFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk-~~Q~i~l~~---~i~LlDtPGIv 74 (195)
++|+|-||||||| |.+.+.+... .-.|.+.. ....+.++. .+.++||||.-
T Consensus 1 i~i~G~~~vGKTsli~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~ 57 (174)
T smart00174 1 LVVVGDGAVGKTCLLISYTTNAFPE-DYVPTVFENYSADVEVDGKPVELGLWDTAGQE 57 (174)
T ss_pred CEEECCCCCCHHHHHHHHHhCCCCC-CCCCcEEeeeeEEEEECCEEEEEEEEECCCCc
Confidence 5799999999999 8777655422 12232222 222344433 47899999964
No 165
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=97.00 E-value=0.00048 Score=55.03 Aligned_cols=51 Identities=18% Similarity=0.055 Sum_probs=35.0
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec-CCeEEecCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT-DNIRLCDCPGL 73 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~-~~i~LlDtPGI 73 (195)
.+|.++|-+|||||| +.+.........++.|... ..+..+ -.+.|+||||.
T Consensus 18 ~kv~lvG~~~vGKTsli~~~~~~~~~~~~~T~~~~~--~~~~~~~~~~~l~D~~G~ 71 (182)
T PTZ00133 18 VRILMVGLDAAGKTTILYKLKLGEVVTTIPTIGFNV--ETVEYKNLKFTMWDVGGQ 71 (182)
T ss_pred cEEEEEcCCCCCHHHHHHHHhcCCccccCCccccce--EEEEECCEEEEEEECCCC
Confidence 479999999999999 7775544444444445432 233333 25889999997
No 166
>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=96.98 E-value=0.0005 Score=53.34 Aligned_cols=52 Identities=12% Similarity=-0.122 Sum_probs=31.7
Q ss_pred ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
+|+++|.||||||| |.+...+.. ...++.|.+-....+.++. .+.++||||-
T Consensus 2 ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~ 59 (161)
T cd04124 2 KIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQ 59 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCc
Confidence 58999999999999 766543322 2222333332222233432 4779999995
No 167
>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=96.97 E-value=0.00025 Score=55.19 Aligned_cols=53 Identities=13% Similarity=-0.090 Sum_probs=31.9
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccC--CCCCCccceeEEEecCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVS--RTPGHTKHFQTIFLTDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg--~~PGvTk~~Q~i~l~~~i~LlDtPGIv 74 (195)
+++++|-+|||||| |.+...+....- ..+.+|.....-...-.+.++||||.-
T Consensus 2 kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~ 58 (166)
T cd01893 2 RIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLPEITIPADVTPERVPTTIVDTSSRP 58 (166)
T ss_pred EEEEECCCCCCHHHHHHHHHhCcCCccCCCcccceEeeeeecCCeEEEEEEeCCCch
Confidence 68999999999999 887765543221 112223222110011247899999974
No 168
>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=96.96 E-value=0.00048 Score=53.52 Aligned_cols=52 Identities=19% Similarity=0.101 Sum_probs=34.4
Q ss_pred ceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
+++++|-||||||| +.+..+.... -.++.|.......+.++. .+.+.||||-
T Consensus 2 ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~ 59 (161)
T cd04117 2 RLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQ 59 (161)
T ss_pred EEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCc
Confidence 58999999999999 7776554432 234444333334455543 4778999995
No 169
>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=96.94 E-value=0.00046 Score=53.93 Aligned_cols=54 Identities=13% Similarity=-0.034 Sum_probs=34.9
Q ss_pred CceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
.+|+++|-||||||| |.+.... .....++.|..-....+.++. .+.++||||..
T Consensus 3 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~ 62 (170)
T cd04115 3 FKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQE 62 (170)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChH
Confidence 368999999999999 7765433 223334444333333344543 58899999954
No 170
>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=96.94 E-value=0.00042 Score=65.62 Aligned_cols=53 Identities=17% Similarity=0.169 Sum_probs=41.9
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cC-CeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TD-NIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~-~i~LlDtPGIv 74 (195)
..|+++|-+|+|||| |+|++.+.+ .+..+|+|.++....+ +. .+.++||||-.
T Consensus 88 p~V~I~Ghvd~GKTSLl~~l~~~~v~-~~e~~GIT~~ig~~~v~~~~~~~i~~iDTPGhe 146 (587)
T TIGR00487 88 PVVTIMGHVDHGKTSLLDSIRKTKVA-QGEAGGITQHIGAYHVENEDGKMITFLDTPGHE 146 (587)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCcc-cccCCceeecceEEEEEECCCcEEEEEECCCCc
Confidence 379999999999999 988876544 4567899988766543 23 79999999964
No 171
>KOG1491|consensus
Probab=96.94 E-value=0.00024 Score=62.86 Aligned_cols=54 Identities=15% Similarity=0.089 Sum_probs=41.9
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe--------------------cCCeEEecCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL--------------------TDNIRLCDCPGLVFP 76 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l--------------------~~~i~LlDtPGIv~p 76 (195)
.++|||+||||||| |+|.+.++. ++|.|=.|-.-..-++ .-.|.++|.-|++.=
T Consensus 22 kiGIVGlPNvGKST~fnalT~~~a~-~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvkG 97 (391)
T KOG1491|consen 22 KIGIVGLPNVGKSTFFNALTKSKAG-AANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVKG 97 (391)
T ss_pred eeeEeeCCCCchHHHHHHHhcCCCC-ccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecccccC
Confidence 69999999999999 999988866 9999977744332111 124899999999854
No 172
>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=96.93 E-value=0.00056 Score=53.58 Aligned_cols=53 Identities=13% Similarity=-0.001 Sum_probs=32.1
Q ss_pred CceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEec-------------CCeEEecCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLT-------------DNIRLCDCPGL 73 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~-------------~~i~LlDtPGI 73 (195)
-+++++|-||||||| |.+...+.. +..++.|+.-....+.+. -.+.|+||||.
T Consensus 5 ~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~ 73 (180)
T cd04127 5 IKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQ 73 (180)
T ss_pred EEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCCh
Confidence 368999999999999 777654321 223333332222222221 14789999994
No 173
>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=96.90 E-value=0.00082 Score=52.24 Aligned_cols=50 Identities=14% Similarity=0.096 Sum_probs=33.1
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecC-CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTD-NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~-~i~LlDtPGI 73 (195)
+|.++|.+|||||| +.+........ .|.+.-....+...+ .+.|.||||.
T Consensus 2 kv~~~G~~~~GKTsli~~l~~~~~~~~--~pt~g~~~~~~~~~~~~~~l~D~~G~ 54 (159)
T cd04150 2 RILMVGLDAAGKTTILYKLKLGEIVTT--IPTIGFNVETVEYKNISFTVWDVGGQ 54 (159)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCccc--CCCCCcceEEEEECCEEEEEEECCCC
Confidence 58899999999999 88754444333 443222233344432 5899999997
No 174
>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=96.86 E-value=0.00059 Score=52.45 Aligned_cols=52 Identities=10% Similarity=0.050 Sum_probs=31.7
Q ss_pred ceEeecCCCCccCC--CCCCCCcc---cccCCCCCCccceeEEEec----CCeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQV---VSVSRTPGHTKHFQTIFLT----DNIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~---v~vg~~PGvTk~~Q~i~l~----~~i~LlDtPGI 73 (195)
+++++|.||||||| |++..... -...++.|..-....+.++ -.+.++||||.
T Consensus 2 ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~ 62 (164)
T cd04101 2 RCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQ 62 (164)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCH
Confidence 58999999999999 77764321 1222223333222223332 15889999995
No 175
>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=96.85 E-value=0.00062 Score=54.94 Aligned_cols=52 Identities=17% Similarity=0.063 Sum_probs=34.7
Q ss_pred ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEec-C---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLT-D---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~-~---~i~LlDtPGI 73 (195)
+|.++|-||||||| |.+.+.... ...++.|..-....+.++ . .+.|+||||.
T Consensus 2 KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~ 60 (201)
T cd04107 2 KVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQ 60 (201)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCc
Confidence 58899999999999 877765432 233433433334445554 2 4789999997
No 176
>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence. IIGP is predominantly associated with the Golgi apparatus and also localizes to the endoplasmic reticulum and exerts a distinct role in IFN-induced intracellular membrane trafficking or processing [].; GO: 0005525 GTP binding, 0016817 hydrolase activity, acting on acid anhydrides, 0016020 membrane; PDB: 1TPZ_A 1TQD_A 1TQ6_A 1TQ2_B 1TQ4_A.
Probab=96.83 E-value=0.00038 Score=62.50 Aligned_cols=59 Identities=20% Similarity=0.147 Sum_probs=38.4
Q ss_pred ceEeecCCCCccCC--CCCCC-----CcccccCCCCCCccceeEEEe--cCCeEEecCCCCCCCCCCCh
Q psy3587 22 NIRLCDCPGLVFPS--KVPKP-----LQVVSVSRTPGHTKHFQTIFL--TDNIRLCDCPGLVFPSKVPK 81 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~-----kk~v~vg~~PGvTk~~Q~i~l--~~~i~LlDtPGIv~p~~~~~ 81 (195)
+|+|+|=+|.|||| |+|+| ..+|.||..- .|....-..- -+++.|.|-||+--|++...
T Consensus 37 ~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~e-tT~~~~~Y~~p~~pnv~lWDlPG~gt~~f~~~ 104 (376)
T PF05049_consen 37 NIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVE-TTMEPTPYPHPKFPNVTLWDLPGIGTPNFPPE 104 (376)
T ss_dssp EEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHS-CCTS-EEEE-SS-TTEEEEEE--GGGSS--HH
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCc-CCCCCeeCCCCCCCCCeEEeCCCCCCCCCCHH
Confidence 79999999999999 99987 5567777653 3333333322 26899999999988887543
No 177
>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=96.83 E-value=0.001 Score=52.51 Aligned_cols=51 Identities=14% Similarity=0.020 Sum_probs=34.0
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec-CCeEEecCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT-DNIRLCDCPGL 73 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~-~~i~LlDtPGI 73 (195)
.++.++|-+|||||| +.+...+.... .|.+......+... -.+.++||||.
T Consensus 14 ~ki~l~G~~~~GKTsL~~~~~~~~~~~~--~~t~~~~~~~~~~~~~~l~l~D~~G~ 67 (175)
T smart00177 14 MRILMVGLDAAGKTTILYKLKLGESVTT--IPTIGFNVETVTYKNISFTVWDVGGQ 67 (175)
T ss_pred cEEEEEcCCCCCHHHHHHHHhcCCCCCc--CCccccceEEEEECCEEEEEEECCCC
Confidence 479999999999999 88754443333 34333333344433 25889999996
No 178
>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=96.83 E-value=0.00085 Score=55.46 Aligned_cols=53 Identities=11% Similarity=0.040 Sum_probs=34.8
Q ss_pred ceEeecCCCCccCC--CCCCCCccc-ccCCCCC-CccceeEEEec---CCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPG-HTKHFQTIFLT---DNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PG-vTk~~Q~i~l~---~~i~LlDtPGIv 74 (195)
+|.++|-||||||| |.+...... .....++ ..-....+.++ ..+.++||||.-
T Consensus 2 KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~ 61 (221)
T cd04148 2 RVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQE 61 (221)
T ss_pred EEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcc
Confidence 68999999999999 887654432 2222222 23334445542 358899999986
No 179
>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=96.82 E-value=0.00099 Score=51.84 Aligned_cols=52 Identities=13% Similarity=-0.032 Sum_probs=32.5
Q ss_pred CceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
++++++|-+|||||| +.+.+..-. ...++.+..- ...+.++. .+.++||||.
T Consensus 2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~ 59 (175)
T cd01870 2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQ 59 (175)
T ss_pred cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccce-EEEEEECCEEEEEEEEeCCCc
Confidence 579999999999999 777654422 2222222221 12234432 4789999996
No 180
>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=96.76 E-value=0.00099 Score=57.14 Aligned_cols=53 Identities=21% Similarity=0.150 Sum_probs=36.6
Q ss_pred ceEeecCCCCccCC--CCCC---C--CcccccC------------CCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPK---P--LQVVSVS------------RTPGHTKHFQTIFL---TDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~---~--kk~v~vg------------~~PGvTk~~Q~i~l---~~~i~LlDtPGIv 74 (195)
||+++|-||+|||| |+|. | ++..+|. ...|+|.......+ +..+.|+||||..
T Consensus 1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~ 75 (270)
T cd01886 1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKDHRINIIDTPGHV 75 (270)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECCEEEEEEECCCcH
Confidence 68999999999999 7763 2 1211222 35588876655544 3478999999975
No 181
>PLN00223 ADP-ribosylation factor; Provisional
Probab=96.75 E-value=0.0012 Score=52.74 Aligned_cols=50 Identities=16% Similarity=0.081 Sum_probs=35.9
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec-CCeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT-DNIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~-~~i~LlDtPGI 73 (195)
+|.++|-+|||||| +.+.........++.|.+ ...+... -.+.|+||||-
T Consensus 19 ki~ivG~~~~GKTsl~~~l~~~~~~~~~pt~g~~--~~~~~~~~~~~~i~D~~Gq 71 (181)
T PLN00223 19 RILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFN--VETVEYKNISFTVWDVGGQ 71 (181)
T ss_pred EEEEECCCCCCHHHHHHHHccCCCccccCCccee--EEEEEECCEEEEEEECCCC
Confidence 79999999999999 887755555555555543 3334433 25889999995
No 182
>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=96.75 E-value=0.00081 Score=52.65 Aligned_cols=53 Identities=15% Similarity=0.004 Sum_probs=34.7
Q ss_pred ceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEec---CCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLT---DNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~---~~i~LlDtPGIv 74 (195)
+++++|-+|||||| |++.... ..+..++.|.......+..+ -.+.++||||.-
T Consensus 2 ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~ 60 (166)
T cd00877 2 KLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQE 60 (166)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCCh
Confidence 68999999999999 8765433 33455555554332222222 257899999974
No 183
>PTZ00369 Ras-like protein; Provisional
Probab=96.74 E-value=0.00093 Score=53.41 Aligned_cols=53 Identities=8% Similarity=0.008 Sum_probs=33.9
Q ss_pred CceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
.+++++|.||||||| |.+...+.. ...++.|.+. ...+.++. .+.++||||.-
T Consensus 6 ~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~ 64 (189)
T PTZ00369 6 YKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETCLLDILDTAGQE 64 (189)
T ss_pred eEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEECCEEEEEEEEeCCCCc
Confidence 379999999999999 777655432 3334334332 22334443 36689999964
No 184
>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=96.72 E-value=0.00088 Score=51.82 Aligned_cols=52 Identities=8% Similarity=0.050 Sum_probs=32.9
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCc--cceeEEEecC---CeEEecCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHT--KHFQTIFLTD---NIRLCDCPGLVF 75 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvT--k~~Q~i~l~~---~i~LlDtPGIv~ 75 (195)
++++||-||||||| +++..++. ++..+..+ .....+.++. .+.++||||.-.
T Consensus 1 ki~vvG~~~~GKtsli~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~g~~~ 59 (165)
T cd04146 1 KIAVLGASGVGKSALVVRFLTKRF--IGEYDPNLESLYSRQVTIDGEQVSLEILDTAGQQQ 59 (165)
T ss_pred CEEEECCCCCcHHHHHHHHHhCcc--ccccCCChHHhceEEEEECCEEEEEEEEECCCCcc
Confidence 48899999999999 77654433 22333332 2222334443 377999999873
No 185
>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=96.72 E-value=0.001 Score=52.47 Aligned_cols=53 Identities=9% Similarity=-0.026 Sum_probs=33.7
Q ss_pred ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
+|++||-+|||||| |.+..++-. ...++-|..-....+.++. .+.++||||.-
T Consensus 2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~ 60 (170)
T cd04108 2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQE 60 (170)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChH
Confidence 58899999999999 877765432 2333333332222333332 58899999964
No 186
>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=96.69 E-value=0.0011 Score=54.36 Aligned_cols=52 Identities=19% Similarity=0.130 Sum_probs=33.9
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccce--eEEEecC----CeEEecCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHF--QTIFLTD----NIRLCDCPGL 73 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~--Q~i~l~~----~i~LlDtPGI 73 (195)
.+|+++|-+|||||| |.+.+.+..... .|.++... ..+.+.+ .+.++||||.
T Consensus 3 ~KIvvvG~~~vGKTsLi~~l~~~~~~~~~-~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~ 62 (211)
T cd04111 3 FRLIVIGDSTVGKSSLLKRFTEGRFAEVS-DPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQ 62 (211)
T ss_pred eEEEEECCCCCCHHHHHHHHHcCCCCCCC-CceeceEEEEEEEEECCCCEEEEEEEeCCcc
Confidence 469999999999999 888776654432 23332222 2233321 4789999995
No 187
>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=96.68 E-value=0.00087 Score=51.71 Aligned_cols=52 Identities=10% Similarity=-0.003 Sum_probs=32.3
Q ss_pred ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
++.++|-||||||| |.+...... ...++.|.+- ...+.++. .+.++||||.-
T Consensus 3 ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~ 60 (164)
T cd04175 3 KLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQCMLEILDTAGTE 60 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEEECCCcc
Confidence 68999999999999 877644332 2223333221 12344443 35689999974
No 188
>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=96.68 E-value=0.00056 Score=49.92 Aligned_cols=51 Identities=16% Similarity=-0.026 Sum_probs=31.3
Q ss_pred eecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEe---cCCeEEecCCCCCC
Q psy3587 25 LCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFL---TDNIRLCDCPGLVF 75 (195)
Q Consensus 25 vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv~ 75 (195)
|+|-||+|||| |++.+.... ......+.....-.+.. ...+.++|+||...
T Consensus 1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~~~ 57 (157)
T cd00882 1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTIIDFYSKTIEVDGKKVKLQIWDTAGQER 57 (157)
T ss_pred CCCcCCCcHHHHHHHHHhCCcCCcccccchhheeeEEEEECCEEEEEEEEecCChHH
Confidence 58999999999 888876652 22222221111111222 34689999999764
No 189
>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=96.67 E-value=0.0011 Score=53.46 Aligned_cols=52 Identities=12% Similarity=0.047 Sum_probs=31.2
Q ss_pred ceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
+|++||.+|||||| |.+...+... ..++-+-. ....+.+.. .+.|+||||..
T Consensus 1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~l~i~D~~G~~ 58 (198)
T cd04147 1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVEEM-HRKEYEVGGVSLTLDILDTSGSY 58 (198)
T ss_pred CEEEECCCCCCHHHHHHHHHhCCCCccCCCchhhh-eeEEEEECCEEEEEEEEECCCch
Confidence 58999999999999 7776544322 11211111 111233333 57899999964
No 190
>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=96.66 E-value=0.0011 Score=52.40 Aligned_cols=51 Identities=16% Similarity=0.060 Sum_probs=31.8
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccc-eeEEEec-C---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKH-FQTIFLT-D---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~-~Q~i~l~-~---~i~LlDtPGI 73 (195)
+|+|+|-+|||||| |.+.+..... .-.|.+... ...+..+ . .+.++||||.
T Consensus 2 ki~vvG~~~vGKTsli~~l~~~~~~~-~~~~t~~~~~~~~i~~~~~~~~~l~i~Dt~G~ 59 (187)
T cd04132 2 KIVVVGDGGCGKTCLLIVYSQGKFPE-EYVPTVFENYVTNIQGPNGKIIELALWDTAGQ 59 (187)
T ss_pred eEEEECCCCCCHHHHHHHHHhCcCCC-CCCCeeeeeeEEEEEecCCcEEEEEEEECCCc
Confidence 68999999999999 8877655321 122322222 2223332 1 4788999994
No 191
>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=96.66 E-value=0.0009 Score=63.47 Aligned_cols=50 Identities=16% Similarity=0.170 Sum_probs=35.9
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCC-CCccceeEEEec---------------------CCeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTP-GHTKHFQTIFLT---------------------DNIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~P-GvTk~~Q~i~l~---------------------~~i~LlDtPGI 73 (195)
-|+++|-||+|||| |+|.+.+.+. ..| |+|+++....++ +.+.++||||.
T Consensus 6 iV~IiG~~d~GKTSLln~l~~~~v~~--~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~ 79 (590)
T TIGR00491 6 IVSVLGHVDHGKTTLLDKIRGSAVAK--REAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGH 79 (590)
T ss_pred EEEEECCCCCCHHHHHHHHhcccccc--ccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCc
Confidence 58999999999999 9998875433 444 477764433221 23889999995
No 192
>PLN03108 Rab family protein; Provisional
Probab=96.66 E-value=0.0012 Score=53.98 Aligned_cols=54 Identities=11% Similarity=0.006 Sum_probs=36.5
Q ss_pred CceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
.+++|+|-||||||| |.+.+.+... -.++.|++.....+.++. .+.|+||||..
T Consensus 7 ~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~ 66 (210)
T PLN03108 7 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQE 66 (210)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcH
Confidence 479999999999999 8877654332 233445554444455543 47799999964
No 193
>cd01884 EF_Tu EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.
Probab=96.63 E-value=0.00071 Score=55.22 Aligned_cols=53 Identities=13% Similarity=0.132 Sum_probs=37.7
Q ss_pred ceEeecCCCCccCC--CCCCCC------ccc---------ccCCCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPL------QVV---------SVSRTPGHTKHFQTIFL---TDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~k------k~v---------~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv 74 (195)
+|+++|-+|.|||| |+|... ... ......|+|.....+.+ +..+.++||||..
T Consensus 4 ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~ 76 (195)
T cd01884 4 NVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYETANRHYAHVDCPGHA 76 (195)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecCCCeEEEEEECcCHH
Confidence 68999999999999 776432 110 12236788877766655 3468999999974
No 194
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=96.62 E-value=0.00086 Score=65.48 Aligned_cols=53 Identities=17% Similarity=0.184 Sum_probs=42.5
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv 74 (195)
..|+|+|-+|+|||| |+|.+.+. ..+..+|+|.++....+ +..|.|+||||.-
T Consensus 291 pvV~ImGhvd~GKTSLl~~Lr~~~v-~~~e~~GIT~~iga~~v~~~~~~ItfiDTPGhe 348 (787)
T PRK05306 291 PVVTIMGHVDHGKTSLLDAIRKTNV-AAGEAGGITQHIGAYQVETNGGKITFLDTPGHE 348 (787)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCc-cccccCceeeeccEEEEEECCEEEEEEECCCCc
Confidence 389999999999999 88877554 35677899988876544 3579999999964
No 195
>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=96.62 E-value=0.0012 Score=55.98 Aligned_cols=19 Identities=21% Similarity=0.067 Sum_probs=16.4
Q ss_pred ceEeecCCCCccCC--CCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKP 40 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~ 40 (195)
+|+++|-+|+|||| |+|..
T Consensus 1 ni~ivG~~gsGKStL~~~Ll~ 21 (268)
T cd04170 1 NIALVGHSGSGKTTLAEALLY 21 (268)
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 68999999999999 77653
No 196
>PLN03071 GTP-binding nuclear protein Ran; Provisional
Probab=96.62 E-value=0.0016 Score=53.79 Aligned_cols=53 Identities=15% Similarity=-0.013 Sum_probs=38.1
Q ss_pred ceEeecCCCCccCC--CCCC-CCcccccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPK-PLQVVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~-~kk~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
+|++||.+|||||| +.+. ++-.....++.|++.....+..+. .+.++||||.-
T Consensus 15 Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~ 73 (219)
T PLN03071 15 KLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQE 73 (219)
T ss_pred EEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCch
Confidence 79999999999999 7654 444455677777765544443332 68899999964
No 197
>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=96.54 E-value=0.0013 Score=53.76 Aligned_cols=51 Identities=12% Similarity=-0.037 Sum_probs=31.7
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccc--eeEEEecC----CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKH--FQTIFLTD----NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~--~Q~i~l~~----~i~LlDtPGI 73 (195)
++.++|.||||||| |.+.+.... ..-.|-++-. ...+.++. .+.|+||||-
T Consensus 2 Ki~ivG~~~vGKSsLi~~l~~~~~~-~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~ 60 (215)
T cd04109 2 KIVVLGDGAVGKTSLCRRFAKEGFG-KSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQ 60 (215)
T ss_pred EEEEECcCCCCHHHHHHHHhcCCCC-CCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCc
Confidence 58999999999999 888765421 1222322111 22344432 4789999995
No 198
>PRK12735 elongation factor Tu; Reviewed
Probab=96.47 E-value=0.0012 Score=59.52 Aligned_cols=52 Identities=13% Similarity=0.089 Sum_probs=38.3
Q ss_pred ceEeecCCCCccCC--CCCCC------Ccccc---------cCCCCCCccceeEEEe---cCCeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKP------LQVVS---------VSRTPGHTKHFQTIFL---TDNIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~------kk~v~---------vg~~PGvTk~~Q~i~l---~~~i~LlDtPGI 73 (195)
+++++|-+|.|||| |+|.+ +..+. -....|+|.....+.. +..+.|+||||.
T Consensus 14 ~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~~~~~~i~~iDtPGh 85 (396)
T PRK12735 14 NVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYETANRHYAHVDCPGH 85 (396)
T ss_pred EEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEcCCCcEEEEEECCCH
Confidence 69999999999999 87753 22211 1236799988776665 346899999996
No 199
>CHL00189 infB translation initiation factor 2; Provisional
Probab=96.43 E-value=0.0014 Score=63.70 Aligned_cols=51 Identities=14% Similarity=0.137 Sum_probs=38.9
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEE--e-----cCCeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIF--L-----TDNIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~--l-----~~~i~LlDtPGI 73 (195)
.|+|+|.+|+|||| |+|.+...+ .+..+|+|.++.... + +..+.|+||||.
T Consensus 246 ~V~IvGhvdvGKTSLld~L~~~~~~-~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGh 305 (742)
T CHL00189 246 IVTILGHVDHGKTTLLDKIRKTQIA-QKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGH 305 (742)
T ss_pred EEEEECCCCCCHHHHHHHHHhccCc-cccCCccccccceEEEEEEecCCceEEEEEECCcH
Confidence 89999999999999 888765543 355688987765432 2 246999999995
No 200
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=96.43 E-value=0.002 Score=52.13 Aligned_cols=54 Identities=9% Similarity=-0.121 Sum_probs=37.5
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCC----eEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDN----IRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~----i~LlDtPGIv 74 (195)
.++.++|.+|||||| |++.+...........++........... +.++||+|..
T Consensus 6 ~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~ 65 (219)
T COG1100 6 FKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQE 65 (219)
T ss_pred EEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHH
Confidence 579999999999999 88887766654443333343444444332 8888999975
No 201
>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=96.39 E-value=0.0022 Score=50.60 Aligned_cols=52 Identities=12% Similarity=0.005 Sum_probs=32.1
Q ss_pred ceEeecCCCCccCC--CCCCCCcccc-cCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVS-VSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~-vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
++.++|-+|||||| +.+...+... ..++-|. .....+.++. .+.|+||||..
T Consensus 4 ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~G~~ 61 (172)
T cd04141 4 KIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIED-AYKQQARIDNEPALLDILDTAGQA 61 (172)
T ss_pred EEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccc-eEEEEEEECCEEEEEEEEeCCCch
Confidence 68999999999999 7766544321 1222221 1112344433 47889999964
No 202
>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=96.37 E-value=0.0027 Score=50.76 Aligned_cols=53 Identities=17% Similarity=0.059 Sum_probs=33.1
Q ss_pred CceEeecCCCCccCC--CCCCCCccccc-CCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSV-SRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~v-g~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
++|.++|-+|||||| +.+....-... .++.|.. ....+.++. .+.|+||||.-
T Consensus 1 ~kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~-~~~~i~~~~~~~~l~i~Dt~G~~ 59 (189)
T cd04134 1 RKVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFEN-YVHDIFVDGLHIELSLWDTAGQE 59 (189)
T ss_pred CEEEEECCCCCCHHHHHHHHhcCCCCCccCCcceee-eEEEEEECCEEEEEEEEECCCCh
Confidence 368999999999999 77766543322 2222221 222344432 57899999963
No 203
>COG0218 Predicted GTPase [General function prediction only]
Probab=96.35 E-value=0.0037 Score=51.55 Aligned_cols=34 Identities=32% Similarity=0.582 Sum_probs=32.1
Q ss_pred ccccCCCCccceeEEEEecCceEeecCCCCccCC
Q psy3587 2 VSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS 35 (195)
Q Consensus 2 ~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs 35 (195)
+.||.|||+|+...+..++....+||+||-|+..
T Consensus 51 ArtSktPGrTq~iNff~~~~~~~lVDlPGYGyAk 84 (200)
T COG0218 51 ARTSKTPGRTQLINFFEVDDELRLVDLPGYGYAK 84 (200)
T ss_pred eecCCCCCccceeEEEEecCcEEEEeCCCccccc
Confidence 5799999999999999999999999999999876
No 204
>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=96.26 E-value=0.0021 Score=53.53 Aligned_cols=51 Identities=18% Similarity=0.043 Sum_probs=32.7
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe-cCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL-TDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l-~~~i~LlDtPGIv 74 (195)
+|.++|.||||||| |.+...+.....++-|.. .....+ .-++.|+||||--
T Consensus 2 KIvivG~~~vGKTSLi~r~~~~~f~~~~~Tig~~--~~~~~~~~~~l~iwDt~G~e 55 (220)
T cd04126 2 KVVLLGDMNVGKTSLLHRYMERRFKDTVSTVGGA--FYLKQWGPYNISIWDTAGRE 55 (220)
T ss_pred EEEEECCCCCcHHHHHHHHhcCCCCCCCCccceE--EEEEEeeEEEEEEEeCCCcc
Confidence 58899999999999 887766654433333321 111112 2258899999963
No 205
>KOG1486|consensus
Probab=96.25 E-value=0.0019 Score=55.46 Aligned_cols=51 Identities=20% Similarity=0.319 Sum_probs=35.1
Q ss_pred ceEeecCCCCccCC--CCCCCCcccc-------cCCCCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVS-------VSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS 77 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~-------vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~ 77 (195)
+|.+||+|-||||| -.+...++.. ....||+-. .-+-+|.|+|-|||+.-.
T Consensus 64 RValIGfPSVGKStlLs~iT~T~SeaA~yeFTTLtcIpGvi~-----y~ga~IQllDLPGIieGA 123 (364)
T KOG1486|consen 64 RVALIGFPSVGKSTLLSKITSTHSEAASYEFTTLTCIPGVIH-----YNGANIQLLDLPGIIEGA 123 (364)
T ss_pred EEEEecCCCccHHHHHHHhhcchhhhhceeeeEEEeecceEE-----ecCceEEEecCccccccc
Confidence 89999999999999 4455433222 234566532 115589999999999654
No 206
>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=96.25 E-value=0.002 Score=60.99 Aligned_cols=52 Identities=15% Similarity=0.133 Sum_probs=38.2
Q ss_pred ceEeecCCCCccCC--CCCCCCccc--ccCCCCCCccceeEEE--ec-CCeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVV--SVSRTPGHTKHFQTIF--LT-DNIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v--~vg~~PGvTk~~Q~i~--l~-~~i~LlDtPGI 73 (195)
+|+++|-+|+|||| |+|.+...- .....+|+|....... ++ ..+.++||||-
T Consensus 2 ~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~~~v~~iDtPGh 60 (581)
T TIGR00475 2 IIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPDYRLGFIDVPGH 60 (581)
T ss_pred EEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCCEEEEEEECCCH
Confidence 58999999999999 999875422 2334678887766533 33 36889999994
No 207
>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=96.23 E-value=0.003 Score=51.60 Aligned_cols=51 Identities=18% Similarity=0.124 Sum_probs=33.8
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe-----cCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL-----TDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l-----~~~i~LlDtPGIv 74 (195)
+|.++|-+|+||++ |.|...+...+ .+..+.....+.+ +..+.|+||||-.
T Consensus 2 ~vll~G~~~sGKTsL~~~l~~~~~~~t--~~s~~~~~~~~~~~~~~~~~~~~l~D~pG~~ 59 (203)
T cd04105 2 TVLLLGPSDSGKTALFTKLTTGKYRST--VTSIEPNVATFILNSEGKGKKFRLVDVPGHP 59 (203)
T ss_pred eEEEEcCCCCCHHHHHHHHhcCCCCCc--cCcEeecceEEEeecCCCCceEEEEECCCCH
Confidence 58999999999999 88876554332 1222333333333 3468999999964
No 208
>PRK12739 elongation factor G; Reviewed
Probab=96.22 E-value=0.0018 Score=62.32 Aligned_cols=53 Identities=19% Similarity=0.105 Sum_probs=39.2
Q ss_pred ceEeecCCCCccCC--CCCCC-----CcccccC------------CCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKP-----LQVVSVS------------RTPGHTKHFQTIFL---TDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~-----kk~v~vg------------~~PGvTk~~Q~i~l---~~~i~LlDtPGIv 74 (195)
+|+|+|-+|+|||| |+|.. ++..++. ...|+|.....+.+ +..+.|+||||..
T Consensus 10 ni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~ 84 (691)
T PRK12739 10 NIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKGHRINIIDTPGHV 84 (691)
T ss_pred EEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECCEEEEEEcCCCHH
Confidence 79999999999999 87642 1222333 37789987776655 4479999999974
No 209
>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=96.10 E-value=0.0045 Score=48.36 Aligned_cols=50 Identities=20% Similarity=0.097 Sum_probs=32.6
Q ss_pred eEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEe-cCCeEEecCCCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFL-TDNIRLCDCPGLV 74 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l-~~~i~LlDtPGIv 74 (195)
|.++|-+|||||| |.+.+.+ .....++.|... ..+.. +-.+.++||||--
T Consensus 2 i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~--~~i~~~~~~l~i~Dt~G~~ 55 (164)
T cd04162 2 ILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNS--VAIPTQDAIMELLEIGGSQ 55 (164)
T ss_pred EEEECCCCCCHHHHHHHHhcCCCcccccccCCcce--EEEeeCCeEEEEEECCCCc
Confidence 7899999999999 7777543 233445555431 12222 2358899999964
No 210
>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=96.06 E-value=0.0028 Score=60.98 Aligned_cols=54 Identities=19% Similarity=0.099 Sum_probs=37.7
Q ss_pred ceEeecCCCCccCC--CCCCCC-----cccccCC------------CCCCccceeEEEe---cCCeEEecCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPL-----QVVSVSR------------TPGHTKHFQTIFL---TDNIRLCDCPGLVF 75 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~k-----k~v~vg~------------~PGvTk~~Q~i~l---~~~i~LlDtPGIv~ 75 (195)
||+|+|-||+|||| |+|... +..++.+ ..|+|.......+ +..+.|+||||...
T Consensus 12 ni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~~~i~liDTPG~~~ 87 (689)
T TIGR00484 12 NIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKGHRINIIDTPGHVD 87 (689)
T ss_pred EEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECCeEEEEEECCCCcc
Confidence 89999999999999 877421 1112222 4678876555544 45799999999963
No 211
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=96.04 E-value=0.0071 Score=52.14 Aligned_cols=35 Identities=34% Similarity=0.591 Sum_probs=32.1
Q ss_pred CccccCCCCccceeEEEEecCceEeecCCCCccCC
Q psy3587 1 VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS 35 (195)
Q Consensus 1 ~~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs 35 (195)
+|.||++||.||++|.+.++..+.++|+||+-.+.
T Consensus 146 ~~~~~~~~g~T~~~~~~~~~~~~~l~DtPGi~~~~ 180 (287)
T PRK09563 146 IAKTGNRPGVTKAQQWIKLGKGLELLDTPGILWPK 180 (287)
T ss_pred ccccCCCCCeEEEEEEEEeCCcEEEEECCCcCCCC
Confidence 46899999999999999999999999999997665
No 212
>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=96.01 E-value=0.0018 Score=47.28 Aligned_cols=53 Identities=15% Similarity=0.066 Sum_probs=33.8
Q ss_pred ceEeecCCCCccCC--CCCCCCccc---ccCCCCCCccceeEEEec---CCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVV---SVSRTPGHTKHFQTIFLT---DNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v---~vg~~PGvTk~~Q~i~l~---~~i~LlDtPGIv 74 (195)
+|.|+|-+|||||| ++|.+.... ......+.|-......+. ..+.+.|++|--
T Consensus 1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~ 61 (119)
T PF08477_consen 1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQE 61 (119)
T ss_dssp EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSH
T ss_pred CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccc
Confidence 58999999999999 888766655 233344555444444332 247788999884
No 213
>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=95.99 E-value=0.002 Score=55.67 Aligned_cols=54 Identities=20% Similarity=0.302 Sum_probs=29.1
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccC-CCC----CCccc--eeE--EEec-C----CeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVS-RTP----GHTKH--FQT--IFLT-D----NIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg-~~P----GvTk~--~Q~--i~l~-~----~i~LlDtPGIv 74 (195)
.++||+|-.|+|||| |+|.+....... ..+ ...+. ++. +.+. . ++.++||||.-
T Consensus 5 fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfG 74 (281)
T PF00735_consen 5 FNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFG 74 (281)
T ss_dssp EEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CS
T ss_pred EEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCcc
Confidence 369999999999999 887665444432 111 11111 222 2221 1 58899999974
No 214
>PRK00049 elongation factor Tu; Reviewed
Probab=95.98 E-value=0.0025 Score=57.48 Aligned_cols=52 Identities=13% Similarity=0.141 Sum_probs=38.9
Q ss_pred ceEeecCCCCccCC--CCCCCC------ccccc---------CCCCCCccceeEEEe---cCCeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPL------QVVSV---------SRTPGHTKHFQTIFL---TDNIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~k------k~v~v---------g~~PGvTk~~Q~i~l---~~~i~LlDtPGI 73 (195)
+++++|=+|.|||| ++|.+. ..+.. ....|+|.....+.+ +..+.++||||.
T Consensus 14 ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~ 85 (396)
T PRK00049 14 NVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYETEKRHYAHVDCPGH 85 (396)
T ss_pred EEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEcCCCeEEEEEECCCH
Confidence 79999999999999 776541 12122 227899988887776 346899999997
No 215
>PLN03127 Elongation factor Tu; Provisional
Probab=95.98 E-value=0.0036 Score=57.50 Aligned_cols=53 Identities=13% Similarity=0.092 Sum_probs=39.2
Q ss_pred ceEeecCCCCccCC--CCCCC------Cccc---------ccCCCCCCccceeEEEec---CCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKP------LQVV---------SVSRTPGHTKHFQTIFLT---DNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~------kk~v---------~vg~~PGvTk~~Q~i~l~---~~i~LlDtPGIv 74 (195)
+|+++|=+|.|||| |+|.+ +... .....+|+|...-.+.+. ..+.++||||.-
T Consensus 63 ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~~iDtPGh~ 135 (447)
T PLN03127 63 NVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYETAKRHYAHVDCPGHA 135 (447)
T ss_pred EEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEEcCCCeEEEEEECCCcc
Confidence 79999999999999 87752 2111 123448999888777663 368999999973
No 216
>PRK00007 elongation factor G; Reviewed
Probab=95.94 E-value=0.0045 Score=59.69 Aligned_cols=53 Identities=19% Similarity=0.145 Sum_probs=38.4
Q ss_pred ceEeecCCCCccCC--CCCC---CC--cccccC------------CCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPK---PL--QVVSVS------------RTPGHTKHFQTIFL---TDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~---~k--k~v~vg------------~~PGvTk~~Q~i~l---~~~i~LlDtPGIv 74 (195)
||+|+|-||+|||| |+|. +. +.-++. ...|+|.....+.+ +..+.|+||||..
T Consensus 12 ni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~~~~~liDTPG~~ 86 (693)
T PRK00007 12 NIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKDHRINIIDTPGHV 86 (693)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECCeEEEEEeCCCcH
Confidence 89999999999999 8764 21 111233 36788876655544 4579999999975
No 217
>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=95.88 E-value=0.0055 Score=47.89 Aligned_cols=51 Identities=12% Similarity=0.039 Sum_probs=29.5
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccce--eEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHF--QTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~--Q~i~l~~---~i~LlDtPGIv 74 (195)
+++++|-||||||| +++....-. ...+..+... ..+.++. .+.++||||.-
T Consensus 2 k~~i~G~~~~GKtsl~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~ 59 (173)
T cd04130 2 KCVLVGDGAVGKTSLIVSYTTNGYP--TEYVPTAFDNFSVVVLVDGKPVRLQLCDTAGQD 59 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCC--CCCCCceeeeeeEEEEECCEEEEEEEEECCCCh
Confidence 57899999999999 665433221 1122111111 1233332 47889999973
No 218
>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=95.87 E-value=0.0045 Score=48.51 Aligned_cols=47 Identities=21% Similarity=0.169 Sum_probs=32.5
Q ss_pred cCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCC
Q psy3587 20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFP 76 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p 76 (195)
.|++|+||-.++||+| ++|.+... ....|. .+...+++ +||||=..-
T Consensus 1 MkrimliG~~g~GKTTL~q~L~~~~~-----~~~KTq---~i~~~~~~--IDTPGEyiE 49 (143)
T PF10662_consen 1 MKRIMLIGPSGSGKTTLAQALNGEEI-----RYKKTQ---AIEYYDNT--IDTPGEYIE 49 (143)
T ss_pred CceEEEECCCCCCHHHHHHHHcCCCC-----CcCccc---eeEecccE--EECChhhee
Confidence 4789999999999999 88887442 233343 34333344 899997653
No 219
>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=95.84 E-value=0.0034 Score=52.74 Aligned_cols=53 Identities=17% Similarity=0.145 Sum_probs=32.2
Q ss_pred ceEeecCCCCccCC--CCCCCCc--ccccC---------------CCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQ--VVSVS---------------RTPGHTKHFQTIFL---TDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk--~v~vg---------------~~PGvTk~~Q~i~l---~~~i~LlDtPGIv 74 (195)
||+++|-+|+|||| |+|..+. ..+.| ..-|+|-......+ +..+.++||||..
T Consensus 1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~~~i~liDTPG~~ 75 (237)
T cd04168 1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWEDTKVNLIDTPGHM 75 (237)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECCEEEEEEeCCCcc
Confidence 68999999999999 7664321 11111 12233433333322 3479999999985
No 220
>PRK04004 translation initiation factor IF-2; Validated
Probab=95.83 E-value=0.0051 Score=58.35 Aligned_cols=51 Identities=14% Similarity=0.130 Sum_probs=34.2
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCC-CCccceeEEEe---------------------cCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTP-GHTKHFQTIFL---------------------TDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~P-GvTk~~Q~i~l---------------------~~~i~LlDtPGIv 74 (195)
.|.++|-+|+|||| |+|.+...+ ...| |+|+++..-.. -+.+.++||||.-
T Consensus 8 ~V~i~Gh~~~GKTSLl~~l~~~~v~--~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e 82 (586)
T PRK04004 8 IVVVLGHVDHGKTTLLDKIRGTAVA--AKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHE 82 (586)
T ss_pred EEEEECCCCCCHHHHHHHHhCcccc--cCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChH
Confidence 68999999999999 999766433 3333 45655422111 0137899999974
No 221
>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=95.80 E-value=0.0047 Score=55.53 Aligned_cols=53 Identities=15% Similarity=0.120 Sum_probs=39.1
Q ss_pred ceEeecCCCCccCC--CCCCC------Cccccc---------CCCCCCccceeEEEec---CCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKP------LQVVSV---------SRTPGHTKHFQTIFLT---DNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~------kk~v~v---------g~~PGvTk~~Q~i~l~---~~i~LlDtPGIv 74 (195)
+|+++|-+|.|||| ++|.+ +..... ....|+|.....+.+. ..+.|+||||.-
T Consensus 14 ~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~~~~~~~~~~liDtpGh~ 86 (394)
T TIGR00485 14 NIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEYETENRHYAHVDCPGHA 86 (394)
T ss_pred EEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEEEcCCCEEEEEEECCchH
Confidence 79999999999999 77752 222221 2248999888777773 358999999973
No 222
>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=95.68 E-value=0.0087 Score=46.95 Aligned_cols=53 Identities=9% Similarity=-0.133 Sum_probs=33.5
Q ss_pred ceEeecCCCCccCC--CCCCCCccc--ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVV--SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v--~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
++.++|-+|||||| |.+.+..-. ...++-|..-....+.++. .+.+.|++|--
T Consensus 6 kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~ 65 (169)
T cd01892 6 LCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDE 65 (169)
T ss_pred EEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcc
Confidence 68999999999999 887765532 2222223322234455543 46678999854
No 223
>TIGR02836 spore_IV_A stage IV sporulation protein A. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.
Probab=95.61 E-value=0.0071 Score=55.38 Aligned_cols=57 Identities=19% Similarity=0.164 Sum_probs=44.9
Q ss_pred ceEeecCCCCccCC--CCCCCC----ccc-----------ccCCCCC---CccceeE-------EEec----CCeEEecC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPL----QVV-----------SVSRTPG---HTKHFQT-------IFLT----DNIRLCDC 70 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~k----k~v-----------~vg~~PG---vTk~~Q~-------i~l~----~~i~LlDt 70 (195)
.++|+|-=|+|||| |++.+. +.+ =+++.|| .|..-.. +.+. -.+.|+||
T Consensus 19 yIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~VrlIDc 98 (492)
T TIGR02836 19 YIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKVRLVDC 98 (492)
T ss_pred EEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccEEEEEC
Confidence 69999999999999 887766 666 6889999 6655544 3333 57999999
Q ss_pred CCCCCCCC
Q psy3587 71 PGLVFPSK 78 (195)
Q Consensus 71 PGIv~p~~ 78 (195)
+|...+..
T Consensus 99 vG~~v~Ga 106 (492)
T TIGR02836 99 VGYTVKGA 106 (492)
T ss_pred CCcccCCC
Confidence 99997753
No 224
>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=95.53 E-value=0.0055 Score=50.95 Aligned_cols=53 Identities=13% Similarity=0.153 Sum_probs=34.5
Q ss_pred cCceEeecCCCCccCC--CCCCCC-cccccCCCCCCccceeEEEecCCeEEecCCCCC
Q psy3587 20 TDNIRLCDCPGLVFPS--KVPKPL-QVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLV 74 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs--N~L~~k-k~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv 74 (195)
...|+|+|.||+|||| |.|.+. ....++...|.. .+ +..-+..+.++||||-+
T Consensus 39 ~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g~i-~i-~~~~~~~i~~vDtPg~~ 94 (225)
T cd01882 39 PLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGPI-TV-VTGKKRRLTFIECPNDI 94 (225)
T ss_pred CCEEEEECCCCCCHHHHHHHHHhhcccCccccccccE-EE-EecCCceEEEEeCCchH
Confidence 3459999999999999 777654 333444555631 01 11124578999999854
No 225
>KOG1547|consensus
Probab=95.49 E-value=0.007 Score=51.74 Aligned_cols=56 Identities=18% Similarity=0.133 Sum_probs=37.0
Q ss_pred cCceEeecCCCCccCC--CCCCCCcccccCCCCCCc----cceeEE----Ee-----cCCeEEecCCCCCC
Q psy3587 20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHT----KHFQTI----FL-----TDNIRLCDCPGLVF 75 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvT----k~~Q~i----~l-----~~~i~LlDtPGIv~ 75 (195)
+.+|||||-.|.|||| |.|...+..+-++.|+-. |..+.- .+ .-++.++||||.=.
T Consensus 46 ~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGD 116 (336)
T KOG1547|consen 46 DFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGD 116 (336)
T ss_pred ceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCccc
Confidence 4489999999999999 988766655545444322 222221 11 12588999999763
No 226
>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=95.44 E-value=0.012 Score=46.63 Aligned_cols=52 Identities=10% Similarity=-0.038 Sum_probs=32.1
Q ss_pred ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
++.++|-+|||||| +.+...+- ....++-|.... ..+.++. .+.|+||||--
T Consensus 3 ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~l~i~Dt~G~~ 60 (175)
T cd01874 3 KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYA-VTVMIGGEPYTLGLFDTAGQE 60 (175)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeE-EEEEECCEEEEEEEEECCCcc
Confidence 58999999999999 77665443 222233222221 1233433 47799999974
No 227
>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=95.43 E-value=0.0091 Score=51.11 Aligned_cols=19 Identities=5% Similarity=-0.031 Sum_probs=16.9
Q ss_pred CceEeecCCCCccCC--CCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~ 39 (195)
.+|+|+|-+|+|||| |+|.
T Consensus 3 Rni~ivGh~~~GKTTL~e~ll 23 (267)
T cd04169 3 RTFAIISHPDAGKTTLTEKLL 23 (267)
T ss_pred cEEEEEcCCCCCHHHHHHHHH
Confidence 579999999999999 7765
No 228
>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=95.41 E-value=0.01 Score=47.37 Aligned_cols=53 Identities=17% Similarity=-0.008 Sum_probs=34.5
Q ss_pred ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
+++++|.+|||||| +.+...+-. ...++-|..-....+.++. .+.+.||+|--
T Consensus 2 Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~ 60 (182)
T cd04128 2 KIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQR 60 (182)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCch
Confidence 58999999999999 776654432 2334444333333455543 47899999963
No 229
>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF. Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.
Probab=95.35 E-value=0.018 Score=49.38 Aligned_cols=35 Identities=43% Similarity=0.685 Sum_probs=32.0
Q ss_pred CccccCCCCccceeEEEEecCceEeecCCCCccCC
Q psy3587 1 VVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS 35 (195)
Q Consensus 1 ~~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs 35 (195)
+|.||++||.||.+|.+.++.++.++|+||+..+.
T Consensus 143 ~~~~~~~~g~T~~~~~~~~~~~~~l~DtPG~~~~~ 177 (276)
T TIGR03596 143 VAKVGNRPGVTKGQQWIKLSDGLELLDTPGILWPK 177 (276)
T ss_pred ccccCCCCCeecceEEEEeCCCEEEEECCCcccCC
Confidence 47899999999999999999999999999997665
No 230
>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=95.27 E-value=0.0057 Score=46.80 Aligned_cols=52 Identities=15% Similarity=0.095 Sum_probs=34.5
Q ss_pred ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
+|++||-++||||| +.+.+..- -...++.|.......+..+. .+.|.|++|-
T Consensus 1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~ 58 (162)
T PF00071_consen 1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQ 58 (162)
T ss_dssp EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTS
T ss_pred CEEEECCCCCCHHHHHHHHHhhcccccccccccccccccccccccccccccccccccc
Confidence 58999999999999 66654432 22333445554444455533 5899999995
No 231
>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=95.26 E-value=0.014 Score=46.46 Aligned_cols=53 Identities=11% Similarity=0.011 Sum_probs=31.0
Q ss_pred CceEeecCCCCccCC--CCCCCCcccccCCCCCCccc-eeEEEecC---CeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKH-FQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~-~Q~i~l~~---~i~LlDtPGIv 74 (195)
.+++|+|-+|+|||| |.+....... ...|.+... ...+.++. .+.++||||.-
T Consensus 2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~ 60 (187)
T cd04129 2 RKLVIVGDGACGKTSLLSVFTLGEFPE-EYHPTVFENYVTDCRVDGKPVQLALWDTAGQE 60 (187)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCCCc-ccCCcccceEEEEEEECCEEEEEEEEECCCCh
Confidence 479999999999999 7775333221 112211111 11233332 47789999964
No 232
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=95.25 E-value=0.015 Score=47.35 Aligned_cols=53 Identities=15% Similarity=0.001 Sum_probs=33.9
Q ss_pred CceEeecCCCCccCC--CC-CCCCcccccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KV-PKPLQVVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~-L~~kk~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
-+++++|-+|||||| |. +.+.-.-...++.|+....-.+..+. .+.+.||||-
T Consensus 10 ~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~ 68 (215)
T PTZ00132 10 FKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQ 68 (215)
T ss_pred ceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCc
Confidence 379999999999999 54 44433334445555544333333332 5788999995
No 233
>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=95.23 E-value=0.012 Score=49.74 Aligned_cols=52 Identities=10% Similarity=-0.009 Sum_probs=31.9
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCc-cceeEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHT-KHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvT-k~~Q~i~l~~---~i~LlDtPGIv 74 (195)
+|.++|-+|||||| |.+....-.. ...|.+. -....+.++. .+.|+||+|.-
T Consensus 2 KVvvlG~~gvGKTSLi~r~~~~~f~~-~y~pTi~d~~~k~~~i~~~~~~l~I~Dt~G~~ 59 (247)
T cd04143 2 RMVVLGASKVGKTAIVSRFLGGRFEE-QYTPTIEDFHRKLYSIRGEVYQLDILDTSGNH 59 (247)
T ss_pred EEEEECcCCCCHHHHHHHHHcCCCCC-CCCCChhHhEEEEEEECCEEEEEEEEECCCCh
Confidence 58999999999999 8776543322 2223221 1122344443 47799999963
No 234
>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=95.14 E-value=0.0055 Score=50.11 Aligned_cols=18 Identities=11% Similarity=-0.068 Sum_probs=15.5
Q ss_pred ceEeecCCCCccCC--CCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~ 39 (195)
+|+|+|-+|+|||| ++|.
T Consensus 2 nv~iiG~~~~GKTtL~~~l~ 21 (213)
T cd04167 2 NVAIAGHLHHGKTSLLDMLI 21 (213)
T ss_pred cEEEEcCCCCCHHHHHHHHH
Confidence 68999999999999 6554
No 235
>PRK12736 elongation factor Tu; Reviewed
Probab=95.13 E-value=0.0098 Score=53.56 Aligned_cols=52 Identities=15% Similarity=0.118 Sum_probs=38.1
Q ss_pred ceEeecCCCCccCC--CCCCCC------cccccC---------CCCCCccceeEEEe---cCCeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPL------QVVSVS---------RTPGHTKHFQTIFL---TDNIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~k------k~v~vg---------~~PGvTk~~Q~i~l---~~~i~LlDtPGI 73 (195)
+++++|=+|.|||| ++|.+. ...... ...|+|.....+.+ +..+.|+||||.
T Consensus 14 ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~~~~~~i~~iDtPGh 85 (394)
T PRK12736 14 NIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYETEKRHYAHVDCPGH 85 (394)
T ss_pred EEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEecCCCcEEEEEECCCH
Confidence 79999999999999 776531 111112 27799988877666 346899999994
No 236
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=95.09 E-value=0.013 Score=55.88 Aligned_cols=19 Identities=5% Similarity=-0.202 Sum_probs=16.6
Q ss_pred ceEeecCCCCccCC--CCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKP 40 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~ 40 (195)
+|.+||=||+|||| |.|..
T Consensus 26 ~i~iiGh~~~GKSTL~~~Ll~ 46 (632)
T PRK05506 26 RFITCGSVDDGKSTLIGRLLY 46 (632)
T ss_pred EEEEECCCCCChHHHHHHHHH
Confidence 68999999999999 87654
No 237
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=95.08 E-value=0.014 Score=55.73 Aligned_cols=51 Identities=12% Similarity=0.104 Sum_probs=38.1
Q ss_pred eEeecCCCCccCC--CCCCCCccc--ccCCCCCCccceeEEEe----cCCeEEecCCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPKPLQVV--SVSRTPGHTKHFQTIFL----TDNIRLCDCPGL 73 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~~kk~v--~vg~~PGvTk~~Q~i~l----~~~i~LlDtPGI 73 (195)
|+++|-+|+|||| |+|.+.... ......|+|-.+....+ +..+.++||||.
T Consensus 3 i~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g~~i~~IDtPGh 61 (614)
T PRK10512 3 IATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDGRVLGFIDVPGH 61 (614)
T ss_pred EEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCCCcEEEEEECCCH
Confidence 7899999999999 999875433 33455799977765443 235789999996
No 238
>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=95.05 E-value=0.016 Score=45.84 Aligned_cols=51 Identities=10% Similarity=-0.052 Sum_probs=28.9
Q ss_pred ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
+++++|-+|||||| ..+....- -.-.++.+.+... .+.++. .+.++||||-
T Consensus 3 ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~~~~~-~~~~~~~~~~l~i~Dt~G~ 59 (174)
T cd01871 3 KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSA-NVMVDGKPVNLGLWDTAGQ 59 (174)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCCcCCCcceeeeEE-EEEECCEEEEEEEEECCCc
Confidence 58999999999999 54443221 1112222222111 123332 4789999995
No 239
>KOG1487|consensus
Probab=95.00 E-value=0.026 Score=48.81 Aligned_cols=63 Identities=17% Similarity=0.142 Sum_probs=41.3
Q ss_pred eeEEEEecC-ceEeecCCCCccCC--CCCCCCcccccCCCCCCc-cceeE-EEe-cCCeEEecCCCCCCC
Q psy3587 13 HFQTIFLTD-NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHT-KHFQT-IFL-TDNIRLCDCPGLVFP 76 (195)
Q Consensus 13 ~~q~~~l~~-~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvT-k~~Q~-i~l-~~~i~LlDtPGIv~p 76 (195)
-|--++..+ +++++|+|-||||| +.|.+.- ..|.+.-|.| -.+|. ++. ...|.|+|-|||+.-
T Consensus 51 gfDV~ktg~a~vg~vgFPSvGksTl~~~l~g~~-s~vasyefttl~~vpG~~~y~gaKiqlldlpgiieg 119 (358)
T KOG1487|consen 51 GFDVAKTGDARVGFVGFPSVGKSTLLSKLTGTF-SEVAAYEFTTLTTVPGVIRYKGAKIQLLDLPGIIEG 119 (358)
T ss_pred CccceeecceeeeEEecCccchhhhhhhhcCCC-CccccccceeEEEecceEeccccceeeecCcchhcc
Confidence 455566666 89999999999999 5666533 3334433333 12222 222 568999999999964
No 240
>COG2262 HflX GTPases [General function prediction only]
Probab=94.83 E-value=0.016 Score=52.51 Aligned_cols=52 Identities=12% Similarity=0.067 Sum_probs=36.1
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCC----CCCCccceeEEEecCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSR----TPGHTKHFQTIFLTDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~----~PGvTk~~Q~i~l~~~i~LlDtPGIv 74 (195)
.|.++||-|.|||| |+|.+..+..--. .=..||.+.+-. +..+.|-||=|.+
T Consensus 194 ~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LFATLdpttR~~~l~~-g~~vlLtDTVGFI 251 (411)
T COG2262 194 LVALVGYTNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGD-GRKVLLTDTVGFI 251 (411)
T ss_pred eEEEEeeccccHHHHHHHHhccCeeccccccccccCceeEEEeCC-CceEEEecCccCc
Confidence 59999999999999 9998655432111 113455443332 3579999999998
No 241
>PLN03126 Elongation factor Tu; Provisional
Probab=94.75 E-value=0.01 Score=54.99 Aligned_cols=52 Identities=19% Similarity=0.144 Sum_probs=36.5
Q ss_pred ceEeecCCCCccCC--CCCCCCcc---------------cccCCCCCCccceeEEEe---cCCeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQV---------------VSVSRTPGHTKHFQTIFL---TDNIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~---------------v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGI 73 (195)
+++++|=+|+|||| |+|..... ..-....|+|.......+ +..+.|+||||.
T Consensus 83 ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liDtPGh 154 (478)
T PLN03126 83 NIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETENRHYAHVDCPGH 154 (478)
T ss_pred EEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCCcEEEEEECCCH
Confidence 69999999999999 77653111 122445688766555444 457999999995
No 242
>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=94.69 E-value=0.027 Score=45.51 Aligned_cols=54 Identities=15% Similarity=0.042 Sum_probs=33.9
Q ss_pred CceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
.+|+++|-+|||||| +.+...+- -....++|..-....+.++. .+.|+||||--
T Consensus 7 ~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~ 66 (189)
T cd04121 7 LKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQG 66 (189)
T ss_pred eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcH
Confidence 479999999999999 66654332 22223444432223344443 47789999974
No 243
>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=94.51 E-value=0.026 Score=44.95 Aligned_cols=51 Identities=12% Similarity=-0.033 Sum_probs=30.8
Q ss_pred ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
+|.++|-+|||||| +.+.+..-. ...++-|.... ..+.++. .+.|.||+|-
T Consensus 3 Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~iwDt~G~ 59 (178)
T cd04131 3 KIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENYT-ASFEIDEQRIELSLWDTSGS 59 (178)
T ss_pred EEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEEE-EEEEECCEEEEEEEEECCCc
Confidence 68999999999999 776554321 12222222211 1234433 4789999995
No 244
>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=94.42 E-value=0.006 Score=48.76 Aligned_cols=53 Identities=21% Similarity=0.108 Sum_probs=37.3
Q ss_pred ceEeecCCCCccCC--CCCCCCcc-----------------cccCCCCCCccceeEEEec-----CCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQV-----------------VSVSRTPGHTKHFQTIFLT-----DNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~-----------------v~vg~~PGvTk~~Q~i~l~-----~~i~LlDtPGIv 74 (195)
+|+++|-.+.|||| ++|..+.. .......|.|-...+..+. ..+.++||||-.
T Consensus 5 ~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~~~~~i~~iDtPG~~ 81 (188)
T PF00009_consen 5 NIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNENNRKITLIDTPGHE 81 (188)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTESSEEEEEEEESSSH
T ss_pred EEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccccccceeeccccccc
Confidence 68999999999999 65542211 1223345888777776654 479999999953
No 245
>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]
Probab=94.23 E-value=0.042 Score=49.23 Aligned_cols=56 Identities=18% Similarity=0.135 Sum_probs=36.8
Q ss_pred cCceEeecCCCCccCC--CCCCCCccccc----CCCCCCccc-ee----EEEecC-----CeEEecCCCCCC
Q psy3587 20 TDNIRLCDCPGLVFPS--KVPKPLQVVSV----SRTPGHTKH-FQ----TIFLTD-----NIRLCDCPGLVF 75 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~v----g~~PGvTk~-~Q----~i~l~~-----~i~LlDtPGIv~ 75 (195)
+.+||+||=-|.|||| |+|.++..+.. +..|..++. +. ...|.. ++.++||||.-.
T Consensus 23 ~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD 94 (373)
T COG5019 23 DFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGD 94 (373)
T ss_pred ceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCccc
Confidence 3479999999999999 99887754443 233432222 22 222322 488999999874
No 246
>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=94.14 E-value=0.039 Score=45.13 Aligned_cols=53 Identities=13% Similarity=0.134 Sum_probs=34.2
Q ss_pred ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
.|.++|-+|||||| +.+....-. ...++.|..-....+.++. .+.+.||+|--
T Consensus 2 ~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe 60 (202)
T cd04120 2 QVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQE 60 (202)
T ss_pred EEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCch
Confidence 47899999999999 666543322 2234445443344455543 47899999963
No 247
>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=94.01 E-value=0.033 Score=45.83 Aligned_cols=52 Identities=13% Similarity=0.050 Sum_probs=36.7
Q ss_pred ceEeecCCCCccCC--CCCC---C---C-c-----------------------ccccCCCCCCccceeEEEe---cCCeE
Q psy3587 22 NIRLCDCPGLVFPS--KVPK---P---L-Q-----------------------VVSVSRTPGHTKHFQTIFL---TDNIR 66 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~---~---k-k-----------------------~v~vg~~PGvTk~~Q~i~l---~~~i~ 66 (195)
+|+++|-++.|||| .+|. + + . ...-....|+|+......+ +..+.
T Consensus 1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~~~~i~ 80 (219)
T cd01883 1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFETEKYRFT 80 (219)
T ss_pred CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEeeCCeEEE
Confidence 68999999999999 5442 1 1 0 1122335699988877665 45799
Q ss_pred EecCCCC
Q psy3587 67 LCDCPGL 73 (195)
Q Consensus 67 LlDtPGI 73 (195)
++||||.
T Consensus 81 liDtpG~ 87 (219)
T cd01883 81 ILDAPGH 87 (219)
T ss_pred EEECCCh
Confidence 9999996
No 248
>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=93.95 E-value=0.013 Score=46.48 Aligned_cols=50 Identities=16% Similarity=0.131 Sum_probs=37.3
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecC-CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTD-NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~-~i~LlDtPGI 73 (195)
+|.++|.+|+||+| |.|...+...+.++-|.. +..+...+ .+.+.|.+|=
T Consensus 16 ~ililGl~~sGKTtll~~l~~~~~~~~~pT~g~~--~~~i~~~~~~~~~~d~gG~ 68 (175)
T PF00025_consen 16 KILILGLDGSGKTTLLNRLKNGEISETIPTIGFN--IEEIKYKGYSLTIWDLGGQ 68 (175)
T ss_dssp EEEEEESTTSSHHHHHHHHHSSSEEEEEEESSEE--EEEEEETTEEEEEEEESSS
T ss_pred EEEEECCCccchHHHHHHhhhccccccCcccccc--cceeeeCcEEEEEEecccc
Confidence 79999999999999 888776666655544433 34455544 7999999986
No 249
>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=93.86 E-value=0.025 Score=53.77 Aligned_cols=54 Identities=22% Similarity=0.135 Sum_probs=36.8
Q ss_pred ceEeecCCCCccCC--CCCCCCc-c-------ccc------CCCCCCccceeEEEe-----c---CCeEEecCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQ-V-------VSV------SRTPGHTKHFQTIFL-----T---DNIRLCDCPGLVF 75 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk-~-------v~v------g~~PGvTk~~Q~i~l-----~---~~i~LlDtPGIv~ 75 (195)
|++|+|=+|+|||| ++|.... . ..+ ...-|+|-..+.+.+ + -.+.|+||||...
T Consensus 5 Ni~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~d 82 (595)
T TIGR01393 5 NFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVD 82 (595)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHH
Confidence 79999999999999 6654321 1 111 234588877666544 2 2578999999974
No 250
>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=93.52 E-value=0.049 Score=44.67 Aligned_cols=52 Identities=19% Similarity=0.126 Sum_probs=33.7
Q ss_pred ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEec------C--CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLT------D--NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~------~--~i~LlDtPGI 73 (195)
+|.++|-++||||| |.+....-. ...++-|.+-....+.++ . .+.|.||+|-
T Consensus 2 KIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~ 64 (202)
T cd04102 2 RVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGS 64 (202)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCc
Confidence 58899999999999 777654432 233444543333334432 1 3789999996
No 251
>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=93.22 E-value=0.038 Score=46.08 Aligned_cols=18 Identities=11% Similarity=-0.141 Sum_probs=15.6
Q ss_pred ceEeecCCCCccCC--CCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~ 39 (195)
+|+|||=++.|||| +.|.
T Consensus 2 NvaiiGhvd~GKTTL~d~Ll 21 (222)
T cd01885 2 NICIIAHVDHGKTTLSDSLL 21 (222)
T ss_pred eEEEECCCCCCHHHHHHHHH
Confidence 79999999999999 6553
No 252
>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=93.02 E-value=0.036 Score=42.89 Aligned_cols=39 Identities=8% Similarity=-0.101 Sum_probs=32.1
Q ss_pred eEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEec
Q psy3587 23 IRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLT 62 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~ 62 (195)
|+|+|--+.|||| |+|.|.....++..|. |....+++.+
T Consensus 1 V~v~G~~ssGKSTliNaLlG~~ilp~~~~~~-T~~~~~i~~~ 41 (168)
T PF00350_consen 1 VAVVGQFSSGKSTLINALLGRPILPSGVGPC-TAVPTEISYG 41 (168)
T ss_dssp EEEEEBTTSSHHHHHHHHHTSS-SSSSSSST-TSSEEEEEEE
T ss_pred CEEEcCCCCCHHHHHHHHHhcccCccccccc-ccceeEEEec
Confidence 6899999999999 9999999888888864 7777777654
No 253
>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=92.97 E-value=0.078 Score=44.16 Aligned_cols=51 Identities=12% Similarity=-0.018 Sum_probs=30.9
Q ss_pred ceEeecCCCCccCC--CCCCCCccc-ccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVV-SVSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v-~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
+|+|||-+||||+| +.+....-. .-.++-|..-. ..+.++. .+.|.||+|-
T Consensus 3 KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~-~~~~~~~~~v~L~iwDt~G~ 59 (222)
T cd04173 3 KIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENYT-ASFEIDKRRIELNMWDTSGS 59 (222)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCCCCccCCccccceE-EEEEECCEEEEEEEEeCCCc
Confidence 68999999999999 766654322 12222222221 1234433 4778999996
No 254
>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=92.85 E-value=0.1 Score=41.62 Aligned_cols=52 Identities=10% Similarity=-0.063 Sum_probs=31.8
Q ss_pred ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
++.++|-++||||| +.+...+- -.-.++-|.+-. ..+.++. ++.++||+|--
T Consensus 3 kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~-~~~~~~~~~v~l~i~Dt~G~~ 60 (176)
T cd04133 3 KCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS-ANVSVDGNTVNLGLWDTAGQE 60 (176)
T ss_pred EEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeeeE-EEEEECCEEEEEEEEECCCCc
Confidence 58999999999999 55554332 223333343321 2234432 47899999964
No 255
>PLN00023 GTP-binding protein; Provisional
Probab=92.68 E-value=0.098 Score=46.45 Aligned_cols=52 Identities=17% Similarity=0.113 Sum_probs=36.9
Q ss_pred ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC----------------CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD----------------NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~----------------~i~LlDtPGI 73 (195)
+|.++|-.|||||| +.+.+..- -...++-|.+-....+.++. .+.|.||.|-
T Consensus 23 KIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGq 93 (334)
T PLN00023 23 RVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGH 93 (334)
T ss_pred EEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCC
Confidence 69999999999999 77765443 23455666665555555532 2889999995
No 256
>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=92.44 E-value=0.046 Score=49.59 Aligned_cols=52 Identities=15% Similarity=0.114 Sum_probs=36.5
Q ss_pred ceEeecCCCCccCC--CCCCCCc-c-------------c----------------ccCCCCCCccceeEEEec---CCeE
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQ-V-------------V----------------SVSRTPGHTKHFQTIFLT---DNIR 66 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk-~-------------v----------------~vg~~PGvTk~~Q~i~l~---~~i~ 66 (195)
+|.++|=+|.|||| +.|.... . . ......|+|.......+. ..+.
T Consensus 9 ~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~~~~~i~ 88 (426)
T TIGR00483 9 NVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFETDKYEVT 88 (426)
T ss_pred EEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEccCCeEEE
Confidence 79999999999999 6553210 0 0 122356999888776653 3689
Q ss_pred EecCCCC
Q psy3587 67 LCDCPGL 73 (195)
Q Consensus 67 LlDtPGI 73 (195)
|+||||-
T Consensus 89 iiDtpGh 95 (426)
T TIGR00483 89 IVDCPGH 95 (426)
T ss_pred EEECCCH
Confidence 9999994
No 257
>TIGR00503 prfC peptide chain release factor 3. This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus.
Probab=92.40 E-value=0.074 Score=49.92 Aligned_cols=23 Identities=4% Similarity=-0.042 Sum_probs=18.5
Q ss_pred EEEecCceEeecCCCCccCC--CCC
Q psy3587 16 TIFLTDNIRLCDCPGLVFPS--KVP 38 (195)
Q Consensus 16 ~~~l~~~v~vvG~PNVGKSs--N~L 38 (195)
++.-..+++|||-+|.|||| ++|
T Consensus 7 ~~~~~RniaiiGh~~aGKTTL~e~L 31 (527)
T TIGR00503 7 EVDKRRTFAIISHPDAGKTTITEKV 31 (527)
T ss_pred hhccCCEEEEEcCCCCCHHHHHHHH
Confidence 44445699999999999999 654
No 258
>PRK10218 GTP-binding protein; Provisional
Probab=92.30 E-value=0.066 Score=51.13 Aligned_cols=53 Identities=15% Similarity=0.125 Sum_probs=36.3
Q ss_pred ceEeecCCCCccCC--CCCCCCc-c----c----------ccCCCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQ-V----V----------SVSRTPGHTKHFQTIFL---TDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk-~----v----------~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv 74 (195)
+|+|+|-+++|||| ++|.... . . ......|+|-......+ +-.+.|+||||.-
T Consensus 7 nIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~ 79 (607)
T PRK10218 7 NIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHA 79 (607)
T ss_pred EEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcc
Confidence 79999999999999 6665311 1 1 12345677766555544 2368999999975
No 259
>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=92.11 E-value=0.089 Score=42.09 Aligned_cols=51 Identities=8% Similarity=-0.084 Sum_probs=31.0
Q ss_pred ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
++.++|-+|||||| +.+...+- -...++-|..-. ..+.++. .+.++||||-
T Consensus 5 ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~ 61 (191)
T cd01875 5 KCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYS-AQTAVDGRTVSLNLWDTAGQ 61 (191)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeeeE-EEEEECCEEEEEEEEECCCc
Confidence 69999999999999 55443321 222333333221 1233443 4789999996
No 260
>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=92.08 E-value=0.054 Score=48.98 Aligned_cols=19 Identities=16% Similarity=-0.010 Sum_probs=16.6
Q ss_pred ceEeecCCCCccCC--CCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKP 40 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~ 40 (195)
+|.++|-+|+|||| ++|.+
T Consensus 6 ~i~iiG~~~~GKSTL~~~Lt~ 26 (406)
T TIGR03680 6 NIGMVGHVDHGKTTLTKALTG 26 (406)
T ss_pred EEEEEccCCCCHHHHHHHHhC
Confidence 79999999999999 77754
No 261
>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=91.76 E-value=0.14 Score=40.95 Aligned_cols=51 Identities=12% Similarity=-0.039 Sum_probs=32.4
Q ss_pred ceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
+|.++|-+|||||| +.+....- -...++-|..-. ..+.++. .+.|.||+|-
T Consensus 7 KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~~-~~~~~~~~~~~l~iwDtaG~ 63 (182)
T cd04172 7 KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELSLWDTSGS 63 (182)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeeeE-EEEEECCEEEEEEEEECCCc
Confidence 69999999999999 66654332 222333333221 2344544 4889999996
No 262
>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional
Probab=91.65 E-value=0.082 Score=48.93 Aligned_cols=19 Identities=5% Similarity=-0.214 Sum_probs=16.1
Q ss_pred CceEeecCCCCccCC--CCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~ 39 (195)
-++.+||=+|.|||| +.|.
T Consensus 28 ~~i~iiGhvdaGKSTL~~~LL 48 (474)
T PRK05124 28 LRFLTCGSVDDGKSTLIGRLL 48 (474)
T ss_pred eEEEEECCCCCChHHHHHHHH
Confidence 389999999999999 6543
No 263
>KOG2655|consensus
Probab=91.58 E-value=0.1 Score=46.75 Aligned_cols=56 Identities=14% Similarity=0.144 Sum_probs=34.8
Q ss_pred cCceEeecCCCCccCC--CCCCCCcccc------cCCCCCCccceeE--EEecC-----CeEEecCCCCCC
Q psy3587 20 TDNIRLCDCPGLVFPS--KVPKPLQVVS------VSRTPGHTKHFQT--IFLTD-----NIRLCDCPGLVF 75 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~------vg~~PGvTk~~Q~--i~l~~-----~i~LlDtPGIv~ 75 (195)
+.++|+||=-|.|||| |+|..+.... ....|--|..+.. +.+.+ ++.++||||.-.
T Consensus 21 ~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD 91 (366)
T KOG2655|consen 21 DFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGD 91 (366)
T ss_pred ceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcc
Confidence 3479999999999999 9876653222 2222322333333 22333 488899999763
No 264
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=91.51 E-value=0.11 Score=48.83 Aligned_cols=23 Identities=4% Similarity=-0.018 Sum_probs=18.5
Q ss_pred EEEecCceEeecCCCCccCC--CCC
Q psy3587 16 TIFLTDNIRLCDCPGLVFPS--KVP 38 (195)
Q Consensus 16 ~~~l~~~v~vvG~PNVGKSs--N~L 38 (195)
++.-..+|+|+|-+|+|||| ++|
T Consensus 6 ~~~~~Rni~IiGh~daGKTTL~e~L 30 (526)
T PRK00741 6 EVAKRRTFAIISHPDAGKTTLTEKL 30 (526)
T ss_pred hhhcCCEEEEECCCCCCHHHHHHHH
Confidence 34445699999999999999 665
No 265
>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=91.49 E-value=0.062 Score=45.29 Aligned_cols=55 Identities=16% Similarity=-0.014 Sum_probs=30.2
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cC-CeEEecCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TD-NIRLCDCPGLVFP 76 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~-~i~LlDtPGIv~p 76 (195)
+|.++|-.+.|||| +.+-.+-..+--..=|.|..++..++ +. .+.|.||||-.-.
T Consensus 1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve~~~v~~~~~~~l~iwD~pGq~~~ 61 (232)
T PF04670_consen 1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTIDVEKSHVRFLSFLPLNIWDCPGQDDF 61 (232)
T ss_dssp EEEEEESTTSSHHHHHHHHHS---GGGGGG-----SEEEEEEECTTSCEEEEEEE-SSCST
T ss_pred CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCCceEEEEecCCCcEEEEEEcCCcccc
Confidence 58899999999999 33333322222223344555555444 23 6899999998643
No 266
>PTZ00416 elongation factor 2; Provisional
Probab=91.19 E-value=0.094 Score=51.83 Aligned_cols=33 Identities=9% Similarity=0.003 Sum_probs=21.8
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCcc
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTK 54 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk 54 (195)
||+|+|=++.|||| ++|.....+-.....|.|+
T Consensus 21 ni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~ 55 (836)
T PTZ00416 21 NMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDAR 55 (836)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcCCcccccCCcee
Confidence 89999999999999 7665433222223444444
No 267
>cd04103 Centaurin_gamma Centaurin gamma. The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.
Probab=90.99 E-value=0.18 Score=39.23 Aligned_cols=51 Identities=10% Similarity=0.006 Sum_probs=30.5
Q ss_pred ceEeecCCCCccCC--CCCCCCccccc-CCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSV-SRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~v-g~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
+|.++|-+|||||| +.+....-... .++-|. ....+.++. .+.+.||+|--
T Consensus 2 ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~~~~--~~~~i~~~~~~~~l~i~D~~g~~ 58 (158)
T cd04103 2 KLGIVGNLQSGKSALVHRYLTGSYVQLESPEGGR--FKKEVLVDGQSHLLLIRDEGGAP 58 (158)
T ss_pred EEEEECCCCCcHHHHHHHHHhCCCCCCCCCCccc--eEEEEEECCEEEEEEEEECCCCC
Confidence 58999999999999 55443322211 111121 123455543 37789999984
No 268
>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=90.92 E-value=0.11 Score=46.96 Aligned_cols=17 Identities=6% Similarity=-0.121 Sum_probs=15.0
Q ss_pred ceEeecCCCCccCC--CCC
Q psy3587 22 NIRLCDCPGLVFPS--KVP 38 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L 38 (195)
++.++|-+|.|||| +.|
T Consensus 2 ~~~~vGhvd~GKSTL~~~l 20 (406)
T TIGR02034 2 RFLTCGSVDDGKSTLIGRL 20 (406)
T ss_pred eEEEECCCCCCchhhhHHH
Confidence 68999999999999 655
No 269
>PRK13351 elongation factor G; Reviewed
Probab=90.77 E-value=0.14 Score=49.31 Aligned_cols=54 Identities=17% Similarity=0.102 Sum_probs=32.8
Q ss_pred CceEeecCCCCccCC--CCCCCCc--ccccC-----C----------CCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQ--VVSVS-----R----------TPGHTKHFQTIFL---TDNIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk--~v~vg-----~----------~PGvTk~~Q~i~l---~~~i~LlDtPGIv 74 (195)
.+|+|+|-+|+|||| +.|.... ..+.+ . .-|.|-......+ +..+.|+||||..
T Consensus 9 rni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~ 84 (687)
T PRK13351 9 RNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWDNHRINLIDTPGHI 84 (687)
T ss_pred cEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEECCEEEEEEECCCcH
Confidence 589999999999999 6654211 11111 1 1344433222222 3479999999985
No 270
>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=90.23 E-value=0.19 Score=46.16 Aligned_cols=14 Identities=14% Similarity=0.002 Sum_probs=13.3
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
-|+++|.|||||+|
T Consensus 102 vi~lvG~~GvGKTT 115 (429)
T TIGR01425 102 VIMFVGLQGSGKTT 115 (429)
T ss_pred EEEEECCCCCCHHH
Confidence 58999999999998
No 271
>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=89.91 E-value=0.27 Score=41.28 Aligned_cols=52 Identities=12% Similarity=-0.083 Sum_probs=30.3
Q ss_pred CceEeecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
.+|.+||-+|||||| +.+....- ....++-|..-.. .+.++. .+.|.||+|-
T Consensus 14 ~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~~-~i~~~~~~v~l~iwDTaG~ 71 (232)
T cd04174 14 CKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTA-GLETEEQRVELSLWDTSGS 71 (232)
T ss_pred EEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeEE-EEEECCEEEEEEEEeCCCc
Confidence 368999999999999 66554321 1122222222111 133332 4889999995
No 272
>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=89.88 E-value=0.21 Score=40.75 Aligned_cols=49 Identities=14% Similarity=0.004 Sum_probs=31.0
Q ss_pred ecCCCCccCC--CCCCCCcc-cccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 26 CDCPGLVFPS--KVPKPLQV-VSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 26 vG~PNVGKSs--N~L~~kk~-v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
||-+|||||| +.+....- -...++-|.+-....+.++. .+.|+||||--
T Consensus 1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e 55 (200)
T smart00176 1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQE 55 (200)
T ss_pred CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCch
Confidence 6899999999 76654332 23445555544333344432 58899999963
No 273
>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type. E. coli NadR has also been found to regulate the import of its substrate, nicotinamide ribonucleotide, but it is not known if the other members of this model share that activity.
Probab=89.83 E-value=0.024 Score=49.92 Aligned_cols=40 Identities=18% Similarity=0.220 Sum_probs=29.5
Q ss_pred ccccCCCCcc---ceeEEE------EecCceEeecCCCCccCC--CCCCCC
Q psy3587 2 VSVSRTPGHT---KHFQTI------FLTDNIRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 2 ~~v~~~~g~t---k~~q~~------~l~~~v~vvG~PNVGKSs--N~L~~k 41 (195)
..||+|-++- .+|+.| .+.++++|+|.|++|||| |.|...
T Consensus 135 ~~ISat~ir~~p~~~w~~i~~~~~~~~~~~~~~~G~~~~gkstl~~~l~~~ 185 (325)
T TIGR01526 135 FSVSATQIRENPFQHWKHIPREVRPFFVKTVAILGGESTGKSTLVNKLAAV 185 (325)
T ss_pred CCCCHHHHHHCHHHHHHhCCHHHHhhcCcEEEEECCCCCCHHHHHHHHHHh
Confidence 4577777774 556665 235689999999999999 766653
No 274
>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=89.74 E-value=0.082 Score=51.36 Aligned_cols=55 Identities=20% Similarity=0.109 Sum_probs=33.5
Q ss_pred CceEeecCCCCccCC--CCCCC-----------Ccc-c---ccCCCCCCccceeEEE----e---cCCeEEecCCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKP-----------LQV-V---SVSRTPGHTKHFQTIF----L---TDNIRLCDCPGLVF 75 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~-----------kk~-v---~vg~~PGvTk~~Q~i~----l---~~~i~LlDtPGIv~ 75 (195)
.+|+++|-.++|||| +.|.. +.. . .-....|.|-....+. . +-.+.|+||||..-
T Consensus 20 rnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~~~ 98 (720)
T TIGR00490 20 RNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPGHVD 98 (720)
T ss_pred cEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCCccc
Confidence 489999999999999 55431 110 0 1111256665433221 2 23689999999963
No 275
>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=89.66 E-value=0.51 Score=42.06 Aligned_cols=34 Identities=32% Similarity=0.493 Sum_probs=31.4
Q ss_pred ccccCCCCccceeEEEEecCceEeecCCCCccCC
Q psy3587 2 VSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS 35 (195)
Q Consensus 2 ~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs 35 (195)
+.||+.||-|+.++.+.++..+.++|.||+..+.
T Consensus 185 ~~~s~~pgtT~~~~~~~~~~~~~l~DtPG~~~~~ 218 (360)
T TIGR03597 185 ITTSPFPGTTLDLIEIPLDDGHSLYDTPGIINSH 218 (360)
T ss_pred eeecCCCCeEeeEEEEEeCCCCEEEECCCCCChh
Confidence 5799999999999999998889999999999775
No 276
>PRK05433 GTP-binding protein LepA; Provisional
Probab=89.60 E-value=0.12 Score=49.22 Aligned_cols=55 Identities=24% Similarity=0.164 Sum_probs=36.3
Q ss_pred CceEeecCCCCccCC--CCCCCC-cc-------c------ccCCCCCCccceeEEEe--------cCCeEEecCCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPL-QV-------V------SVSRTPGHTKHFQTIFL--------TDNIRLCDCPGLVF 75 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~k-k~-------v------~vg~~PGvTk~~Q~i~l--------~~~i~LlDtPGIv~ 75 (195)
.|++|||=.++|||| ++|... .. . .....-|+|-..+.+.+ +-.+.|+||||...
T Consensus 8 RNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~d 86 (600)
T PRK05433 8 RNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHVD 86 (600)
T ss_pred CEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcHH
Confidence 389999999999999 554321 11 0 11234588876666544 12488999999974
No 277
>PRK08118 topology modulation protein; Reviewed
Probab=89.11 E-value=0.15 Score=40.41 Aligned_cols=15 Identities=20% Similarity=0.096 Sum_probs=14.1
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
++|+|+|+||+||||
T Consensus 2 ~rI~I~G~~GsGKST 16 (167)
T PRK08118 2 KKIILIGSGGSGKST 16 (167)
T ss_pred cEEEEECCCCCCHHH
Confidence 579999999999999
No 278
>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=88.52 E-value=0.22 Score=47.45 Aligned_cols=54 Identities=19% Similarity=0.149 Sum_probs=33.8
Q ss_pred CceEeecCCCCccCC--CCCCCC-cc----ccc----------CCCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPL-QV----VSV----------SRTPGHTKHFQTIFL---TDNIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~k-k~----v~v----------g~~PGvTk~~Q~i~l---~~~i~LlDtPGIv 74 (195)
.||+|||-.++|||| ++|... .. -.+ ...-|+|-......+ +..|.|+||||..
T Consensus 2 RNIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh~ 75 (594)
T TIGR01394 2 RNIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHA 75 (594)
T ss_pred cEEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCHH
Confidence 379999999999999 665421 11 111 223466654433322 3479999999973
No 279
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=88.37 E-value=0.16 Score=37.07 Aligned_cols=19 Identities=21% Similarity=0.086 Sum_probs=15.7
Q ss_pred eEeecCCCCccCC--CCCCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~~k 41 (195)
|+|+|.|++|||| +.|..+
T Consensus 2 I~I~G~~gsGKST~a~~La~~ 22 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAKELAER 22 (121)
T ss_dssp EEEEESTTSSHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 7899999999999 666543
No 280
>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=88.35 E-value=0.14 Score=42.64 Aligned_cols=14 Identities=0% Similarity=-0.109 Sum_probs=12.8
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
++.++|-+++||||
T Consensus 1 ~v~~~G~~~~GKtt 14 (224)
T cd04165 1 RVAVVGNVDAGKST 14 (224)
T ss_pred CEEEECCCCCCHHH
Confidence 57899999999999
No 281
>KOG0395|consensus
Probab=88.32 E-value=0.9 Score=37.10 Aligned_cols=51 Identities=10% Similarity=0.009 Sum_probs=30.7
Q ss_pred CceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPG 72 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPG 72 (195)
.++.++|-+|||||+ ....... .-.--++.. +..-+.+.++. .+.++||.|
T Consensus 4 ~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptie-d~y~k~~~v~~~~~~l~ilDt~g 60 (196)
T KOG0395|consen 4 YKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIE-DSYRKELTVDGEVCMLEILDTAG 60 (196)
T ss_pred eEEEEECCCCCCcchheeeecccccccccCCCcc-ccceEEEEECCEEEEEEEEcCCC
Confidence 478999999999998 3222222 112233333 33344455543 477999999
No 282
>PRK00625 shikimate kinase; Provisional
Probab=88.18 E-value=0.17 Score=40.50 Aligned_cols=14 Identities=36% Similarity=0.467 Sum_probs=13.3
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
+|.++|+||+||||
T Consensus 2 ~I~LiG~pGsGKTT 15 (173)
T PRK00625 2 QIFLCGLPTVGKTS 15 (173)
T ss_pred EEEEECCCCCCHHH
Confidence 68999999999999
No 283
>PRK07261 topology modulation protein; Provisional
Probab=87.89 E-value=0.2 Score=39.77 Aligned_cols=17 Identities=12% Similarity=0.089 Sum_probs=14.8
Q ss_pred ceEeecCCCCccCC--CCC
Q psy3587 22 NIRLCDCPGLVFPS--KVP 38 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L 38 (195)
+|+|+|+||+|||| ..|
T Consensus 2 ri~i~G~~GsGKSTla~~l 20 (171)
T PRK07261 2 KIAIIGYSGSGKSTLARKL 20 (171)
T ss_pred EEEEEcCCCCCHHHHHHHH
Confidence 68999999999999 444
No 284
>PLN00116 translation elongation factor EF-2 subunit; Provisional
Probab=87.89 E-value=0.27 Score=48.70 Aligned_cols=18 Identities=6% Similarity=-0.138 Sum_probs=15.8
Q ss_pred ceEeecCCCCccCC--CCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~ 39 (195)
||+|+|=++.|||| ++|.
T Consensus 21 ni~iiGhvd~GKTTL~~~Ll 40 (843)
T PLN00116 21 NMSVIAHVDHGKSTLTDSLV 40 (843)
T ss_pred EEEEEcCCCCCHHHHHHHHH
Confidence 89999999999999 5553
No 285
>PRK09866 hypothetical protein; Provisional
Probab=87.31 E-value=0.34 Score=46.87 Aligned_cols=38 Identities=8% Similarity=-0.088 Sum_probs=30.8
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEE
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIF 60 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~ 60 (195)
.+.|+|..|.|||| |+|.|..+..+++.|=.|- ..+++
T Consensus 71 ~valvG~sgaGKSTLiNaL~G~~Vlpt~~~~~t~l-pT~i~ 110 (741)
T PRK09866 71 VLAIVGTMKAGKSTTINAIVGTEVLPNRNRPMTAL-PTLIR 110 (741)
T ss_pred EEEEECCCCCCHHHHHHHHhCCccccCCCcccccc-cEEEE
Confidence 47999999999999 9999999999987775554 33444
No 286
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=86.93 E-value=0.22 Score=36.24 Aligned_cols=19 Identities=21% Similarity=0.141 Sum_probs=15.5
Q ss_pred eEeecCCCCccCC--CCCCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~~k 41 (195)
|+|.|.||+|||| +.|..+
T Consensus 1 I~i~G~~GsGKtTia~~L~~~ 21 (129)
T PF13238_consen 1 IGISGIPGSGKTTIAKELAER 21 (129)
T ss_dssp EEEEESTTSSHHHHHHHHHHH
T ss_pred CEEECCCCCCHHHHHHHHHHH
Confidence 6899999999999 555544
No 287
>PRK03839 putative kinase; Provisional
Probab=86.89 E-value=0.23 Score=39.27 Aligned_cols=14 Identities=21% Similarity=0.323 Sum_probs=13.1
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
+|.|+|+||+||||
T Consensus 2 ~I~l~G~pGsGKsT 15 (180)
T PRK03839 2 IIAITGTPGVGKTT 15 (180)
T ss_pred EEEEECCCCCCHHH
Confidence 58999999999999
No 288
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=86.74 E-value=0.27 Score=39.61 Aligned_cols=14 Identities=21% Similarity=0.209 Sum_probs=13.4
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
+|+|+|.||.||||
T Consensus 2 riiilG~pGaGK~T 15 (178)
T COG0563 2 RILILGPPGAGKST 15 (178)
T ss_pred eEEEECCCCCCHHH
Confidence 68999999999999
No 289
>PRK13796 GTPase YqeH; Provisional
Probab=86.18 E-value=1.4 Score=39.40 Aligned_cols=34 Identities=35% Similarity=0.487 Sum_probs=30.5
Q ss_pred ccccCCCCccceeEEEEecCceEeecCCCCccCC
Q psy3587 2 VSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS 35 (195)
Q Consensus 2 ~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs 35 (195)
+.||+.||-|+.++.+.++....++|.||+-...
T Consensus 191 ~~~s~~pGTT~~~~~~~l~~~~~l~DTPGi~~~~ 224 (365)
T PRK13796 191 ITTSRFPGTTLDKIEIPLDDGSFLYDTPGIIHRH 224 (365)
T ss_pred EEecCCCCccceeEEEEcCCCcEEEECCCccccc
Confidence 4589999999999999999988999999997554
No 290
>KOG0410|consensus
Probab=86.15 E-value=0.19 Score=44.78 Aligned_cols=53 Identities=15% Similarity=0.071 Sum_probs=38.0
Q ss_pred ceEeecCCCCccCC--CCCCCCccc---ccCCCCCCccceeEEEecCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVV---SVSRTPGHTKHFQTIFLTDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v---~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv 74 (195)
-|.||||-|.|||| |+|.+...- +.=++=..|.|.-.+.-.+.+.|.||=|.+
T Consensus 180 viavVGYTNaGKsTLikaLT~Aal~p~drLFATLDpT~h~a~Lpsg~~vlltDTvGFi 237 (410)
T KOG0410|consen 180 VIAVVGYTNAGKSTLIKALTKAALYPNDRLFATLDPTLHSAHLPSGNFVLLTDTVGFI 237 (410)
T ss_pred eEEEEeecCccHHHHHHHHHhhhcCccchhheeccchhhhccCCCCcEEEEeechhhh
Confidence 58999999999999 888732211 222344667666555556779999999987
No 291
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=86.09 E-value=0.26 Score=36.91 Aligned_cols=13 Identities=38% Similarity=0.552 Sum_probs=12.2
Q ss_pred eEeecCCCCccCC
Q psy3587 23 IRLCDCPGLVFPS 35 (195)
Q Consensus 23 v~vvG~PNVGKSs 35 (195)
|+++|.||+||||
T Consensus 2 ii~~G~pgsGKSt 14 (143)
T PF13671_consen 2 IILCGPPGSGKST 14 (143)
T ss_dssp EEEEESTTSSHHH
T ss_pred EEEECCCCCCHHH
Confidence 6799999999999
No 292
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=85.95 E-value=0.27 Score=47.74 Aligned_cols=48 Identities=19% Similarity=0.217 Sum_probs=35.6
Q ss_pred ceEeecCCCCccCC--CC----------------------CCCCcccccCCCCCCc-cceeEEEecCCeEEec
Q psy3587 22 NIRLCDCPGLVFPS--KV----------------------PKPLQVVSVSRTPGHT-KHFQTIFLTDNIRLCD 69 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~----------------------L~~kk~v~vg~~PGvT-k~~Q~i~l~~~i~LlD 69 (195)
-+++||=|||||.| .+ ++|....=+|++||.- .++......+.++|+|
T Consensus 352 ILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGHRRTYIGamPGrIiQ~mkka~~~NPv~LLD 424 (782)
T COG0466 352 ILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGHRRTYIGAMPGKIIQGMKKAGVKNPVFLLD 424 (782)
T ss_pred EEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhccccccccccCChHHHHHHHHhCCcCCeEEee
Confidence 58999999999998 32 3567778899999843 3333345567788888
No 293
>PRK13949 shikimate kinase; Provisional
Probab=85.65 E-value=0.32 Score=38.60 Aligned_cols=15 Identities=20% Similarity=0.056 Sum_probs=14.0
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
++|.|||+||+||||
T Consensus 2 ~~I~liG~~GsGKst 16 (169)
T PRK13949 2 ARIFLVGYMGAGKTT 16 (169)
T ss_pred cEEEEECCCCCCHHH
Confidence 479999999999999
No 294
>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=85.20 E-value=1.3 Score=35.83 Aligned_cols=14 Identities=0% Similarity=-0.209 Sum_probs=13.3
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
+|.++|-+||||||
T Consensus 4 Kiv~vG~~~vGKTs 17 (195)
T cd01873 4 KCVVVGDNAVGKTR 17 (195)
T ss_pred EEEEECCCCcCHHH
Confidence 68999999999999
No 295
>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=84.88 E-value=0.55 Score=38.01 Aligned_cols=14 Identities=14% Similarity=-0.109 Sum_probs=13.2
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
+|+++|-.+.||+|
T Consensus 2 ~i~~~g~~~~GKtt 15 (203)
T cd01888 2 NIGTIGHVAHGKST 15 (203)
T ss_pred EEEEECCCCCCHHH
Confidence 68999999999999
No 296
>PRK12740 elongation factor G; Reviewed
Probab=84.82 E-value=0.42 Score=45.83 Aligned_cols=49 Identities=18% Similarity=0.125 Sum_probs=30.1
Q ss_pred ecCCCCccCC--CCCCCCcc--cccC---------------CCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587 26 CDCPGLVFPS--KVPKPLQV--VSVS---------------RTPGHTKHFQTIFL---TDNIRLCDCPGLV 74 (195)
Q Consensus 26 vG~PNVGKSs--N~L~~kk~--v~vg---------------~~PGvTk~~Q~i~l---~~~i~LlDtPGIv 74 (195)
||=+|+|||| |+|..... .+.+ ...|+|-......+ +-.+.|+||||..
T Consensus 1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~~~~i~liDtPG~~ 71 (668)
T PRK12740 1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKGHKINLIDTPGHV 71 (668)
T ss_pred CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEECCEEEEEEECCCcH
Confidence 5889999999 77632111 1111 13566654443333 3479999999985
No 297
>PRK13947 shikimate kinase; Provisional
Probab=84.09 E-value=0.42 Score=37.14 Aligned_cols=15 Identities=27% Similarity=0.144 Sum_probs=13.9
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
++|.++|+||+|||+
T Consensus 2 ~~I~l~G~~GsGKst 16 (171)
T PRK13947 2 KNIVLIGFMGTGKTT 16 (171)
T ss_pred CeEEEEcCCCCCHHH
Confidence 479999999999999
No 298
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=82.86 E-value=0.52 Score=32.05 Aligned_cols=45 Identities=11% Similarity=0.019 Sum_probs=26.7
Q ss_pred eEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS 77 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~ 77 (195)
+.+.|.+|+|||+ +.|...- ++ .+.+...++ ++.++|+||-+...
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l-~~--------~g~~v~~~~-d~iivD~~~~~~~~ 48 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAAL-AK--------RGKRVLLID-DYVLIDTPPGLGLL 48 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHH-HH--------CCCeEEEEC-CEEEEeCCCCccch
Confidence 5788999999999 3221100 00 112223333 88999999887544
No 299
>KOG1249|consensus
Probab=82.58 E-value=0.75 Score=43.28 Aligned_cols=57 Identities=16% Similarity=0.158 Sum_probs=42.5
Q ss_pred ceEeecCCCCccCC--CCCCCCc-----ccccCCCCCCccceeEEE--ecCCeEEecCCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQ-----VVSVSRTPGHTKHFQTIF--LTDNIRLCDCPGLVFPSK 78 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk-----~v~vg~~PGvTk~~Q~i~--l~~~i~LlDtPGIv~p~~ 78 (195)
.+..||--|-|+++ |.+...- .-.-++.||.|=+...+. +...=.++||||++-|+.
T Consensus 311 ~v~~vg~t~a~~e~~~~~~~~~~~a~~~~~~e~~vPgtTLg~~ri~~i~~~~~w~YDTPG~~~~~q 376 (572)
T KOG1249|consen 311 PVAAVGRTFAGSEELINAMAKELHADVEALAEEPVPGTTLGIRRIEGIFKRGAWLYDTPGVLNPNQ 376 (572)
T ss_pred chHHhhhhhhccchhhhhhhhhhccchhccccCCCCcccccceeeeccccccceeecCCCccChhh
Confidence 47778888899888 7765322 224688999987666665 566778999999999875
No 300
>KOG3347|consensus
Probab=82.43 E-value=0.71 Score=36.94 Aligned_cols=17 Identities=24% Similarity=0.218 Sum_probs=15.2
Q ss_pred ecCceEeecCCCCccCC
Q psy3587 19 LTDNIRLCDCPGLVFPS 35 (195)
Q Consensus 19 l~~~v~vvG~PNVGKSs 35 (195)
...||.|.|-||+||||
T Consensus 6 ~~PNILvtGTPG~GKst 22 (176)
T KOG3347|consen 6 ERPNILVTGTPGTGKST 22 (176)
T ss_pred cCCCEEEeCCCCCCchh
Confidence 34589999999999999
No 301
>PRK14530 adenylate kinase; Provisional
Probab=82.37 E-value=0.52 Score=38.51 Aligned_cols=15 Identities=27% Similarity=0.242 Sum_probs=14.0
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
++|+|+|.||+||||
T Consensus 4 ~~I~i~G~pGsGKsT 18 (215)
T PRK14530 4 PRILLLGAPGAGKGT 18 (215)
T ss_pred CEEEEECCCCCCHHH
Confidence 479999999999999
No 302
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=82.34 E-value=0.51 Score=37.08 Aligned_cols=13 Identities=15% Similarity=0.097 Sum_probs=12.3
Q ss_pred eEeecCCCCccCC
Q psy3587 23 IRLCDCPGLVFPS 35 (195)
Q Consensus 23 v~vvG~PNVGKSs 35 (195)
|+++|.||+||||
T Consensus 2 i~i~G~pGsGKst 14 (183)
T TIGR01359 2 VFVLGGPGSGKGT 14 (183)
T ss_pred EEEECCCCCCHHH
Confidence 6899999999999
No 303
>PRK07560 elongation factor EF-2; Reviewed
Probab=81.27 E-value=0.66 Score=45.20 Aligned_cols=17 Identities=12% Similarity=-0.124 Sum_probs=15.1
Q ss_pred ceEeecCCCCccCC--CCC
Q psy3587 22 NIRLCDCPGLVFPS--KVP 38 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L 38 (195)
+|+|+|=++.|||| .+|
T Consensus 22 ni~iigh~d~GKTTL~e~l 40 (731)
T PRK07560 22 NIGIIAHIDHGKTTLSDNL 40 (731)
T ss_pred EEEEEEeCCCCHHHHHHHH
Confidence 89999999999999 544
No 304
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=80.93 E-value=0.46 Score=43.65 Aligned_cols=52 Identities=13% Similarity=0.029 Sum_probs=34.0
Q ss_pred ceEeecCCCCccCC--CCCC---C------------------Cccc---------ccCCCCCCccceeEEEe---cCCeE
Q psy3587 22 NIRLCDCPGLVFPS--KVPK---P------------------LQVV---------SVSRTPGHTKHFQTIFL---TDNIR 66 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~---~------------------kk~v---------~vg~~PGvTk~~Q~i~l---~~~i~ 66 (195)
+++++|-.+.|||| ..|. + +... ......|+|-......+ +..+.
T Consensus 9 nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~~~~~~i~ 88 (446)
T PTZ00141 9 NLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFETPKYYFT 88 (446)
T ss_pred EEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEccCCeEEE
Confidence 79999999999999 3221 1 1111 11234588877666555 23689
Q ss_pred EecCCCC
Q psy3587 67 LCDCPGL 73 (195)
Q Consensus 67 LlDtPGI 73 (195)
|+||||-
T Consensus 89 lIDtPGh 95 (446)
T PTZ00141 89 IIDAPGH 95 (446)
T ss_pred EEECCCh
Confidence 9999993
No 305
>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]
Probab=80.78 E-value=0.76 Score=37.14 Aligned_cols=15 Identities=27% Similarity=0.076 Sum_probs=13.7
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
.+|.+||+||+||||
T Consensus 3 ~~IvLiG~mGaGKST 17 (172)
T COG0703 3 MNIVLIGFMGAGKST 17 (172)
T ss_pred ccEEEEcCCCCCHhH
Confidence 468999999999999
No 306
>PRK06217 hypothetical protein; Validated
Probab=80.45 E-value=0.63 Score=37.03 Aligned_cols=19 Identities=11% Similarity=0.052 Sum_probs=15.7
Q ss_pred CceEeecCCCCccCC--CCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~ 39 (195)
.+|+|+|.||.|||| ..|.
T Consensus 2 ~~I~i~G~~GsGKSTla~~L~ 22 (183)
T PRK06217 2 MRIHITGASGSGTTTLGAALA 22 (183)
T ss_pred eEEEEECCCCCCHHHHHHHHH
Confidence 469999999999999 4444
No 307
>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]
Probab=80.17 E-value=0.79 Score=37.25 Aligned_cols=16 Identities=13% Similarity=0.264 Sum_probs=14.1
Q ss_pred cCceEeecCCCCccCC
Q psy3587 20 TDNIRLCDCPGLVFPS 35 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs 35 (195)
.+.+.++|.|||||+|
T Consensus 4 ~kvvvitGVpGvGKTT 19 (189)
T COG2019 4 RKVVVITGVPGVGKTT 19 (189)
T ss_pred ceEEEEEcCCCCChHH
Confidence 3568899999999999
No 308
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=79.73 E-value=0.81 Score=37.16 Aligned_cols=14 Identities=21% Similarity=0.318 Sum_probs=13.2
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
+|+|.|-|||||+|
T Consensus 2 ~I~ITGTPGvGKTT 15 (180)
T COG1936 2 LIAITGTPGVGKTT 15 (180)
T ss_pred eEEEeCCCCCchHH
Confidence 58999999999999
No 309
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=79.17 E-value=0.73 Score=38.51 Aligned_cols=13 Identities=31% Similarity=0.386 Sum_probs=12.2
Q ss_pred eEeecCCCCccCC
Q psy3587 23 IRLCDCPGLVFPS 35 (195)
Q Consensus 23 v~vvG~PNVGKSs 35 (195)
|.++|+||+||||
T Consensus 2 Ivl~G~pGSGKST 14 (249)
T TIGR03574 2 IILTGLPGVGKST 14 (249)
T ss_pred EEEEcCCCCCHHH
Confidence 6789999999999
No 310
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=78.09 E-value=0.84 Score=34.70 Aligned_cols=18 Identities=17% Similarity=0.063 Sum_probs=14.2
Q ss_pred eEeecCCCCccCC--CCCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPKP 40 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~~ 40 (195)
+.++|.||+|||| ..|..
T Consensus 2 i~l~G~~GsGKST~a~~l~~ 21 (150)
T cd02021 2 IVVMGVSGSGKSTVGKALAE 21 (150)
T ss_pred EEEEcCCCCCHHHHHHHHHh
Confidence 5789999999999 44433
No 311
>KOG0092|consensus
Probab=77.99 E-value=3.6 Score=33.92 Aligned_cols=54 Identities=19% Similarity=0.073 Sum_probs=36.1
Q ss_pred CceEeecCCCCccCC--CCCCCCc-ccccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQ-VVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk-~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
.++.++|--|||||| -.....+ .-.-.++=|..=--|.+.+++ .+.+.||-|-=
T Consensus 6 ~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQE 65 (200)
T KOG0092|consen 6 FKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQE 65 (200)
T ss_pred EEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCcc
Confidence 468899999999999 3332222 222455556555556667655 46799999875
No 312
>TIGR03348 VI_IcmF type VI secretion protein IcmF. Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.
Probab=77.51 E-value=2.6 Score=43.36 Aligned_cols=55 Identities=22% Similarity=0.111 Sum_probs=36.5
Q ss_pred ceEeecCCCCccCC---CC-CCCCccc----ccCCCCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS---KV-PKPLQVV----SVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS 77 (195)
Q Consensus 22 ~v~vvG~PNVGKSs---N~-L~~kk~v----~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~ 77 (195)
+-+|||-||.|||| |+ |.---.- ..-...|-|++..|-. .++-.|+||+|...-.
T Consensus 113 WYlviG~~gsGKtt~l~~sgl~~pl~~~~~~~~~~~~~~t~~c~wwf-~~~avliDtaG~y~~~ 175 (1169)
T TIGR03348 113 WYLVIGPPGSGKTTLLQNSGLKFPLAERLGAAALRGVGGTRNCDWWF-TDEAVLIDTAGRYTTQ 175 (1169)
T ss_pred CEEEECCCCCchhHHHHhCCCCCcCchhhccccccCCCCCcccceEe-cCCEEEEcCCCccccC
Confidence 78999999999999 54 2210000 1112246689888875 4566799999977644
No 313
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=76.95 E-value=1 Score=35.56 Aligned_cols=14 Identities=29% Similarity=0.168 Sum_probs=13.1
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
+|.|+|.||+||||
T Consensus 1 ~I~i~G~pGsGKst 14 (194)
T cd01428 1 RILLLGPPGSGKGT 14 (194)
T ss_pred CEEEECCCCCCHHH
Confidence 58999999999999
No 314
>KOG2004|consensus
Probab=76.72 E-value=1.4 Score=43.11 Aligned_cols=51 Identities=18% Similarity=0.176 Sum_probs=37.2
Q ss_pred cCceEeecCCCCccCC---------CC---------------CCCCcccccCCCCCCc-cceeEEEecCCeEEecC
Q psy3587 20 TDNIRLCDCPGLVFPS---------KV---------------PKPLQVVSVSRTPGHT-KHFQTIFLTDNIRLCDC 70 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs---------N~---------------L~~kk~v~vg~~PGvT-k~~Q~i~l~~~i~LlDt 70 (195)
.+-++++|=|||||-| |. ++|....=||++||.- ..+..+...+.+.|+|=
T Consensus 438 GkIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfSvGG~tDvAeIkGHRRTYVGAMPGkiIq~LK~v~t~NPliLiDE 513 (906)
T KOG2004|consen 438 GKILCFVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTDVAEIKGHRRTYVGAMPGKIIQCLKKVKTENPLILIDE 513 (906)
T ss_pred CcEEEEeCCCCCCcccHHHHHHHHhCCceEEEeccccccHHhhcccceeeeccCChHHHHHHHhhCCCCceEEeeh
Confidence 3468999999999988 21 3567777899999853 34444566778888883
No 315
>PRK14532 adenylate kinase; Provisional
Probab=76.66 E-value=0.99 Score=35.76 Aligned_cols=14 Identities=21% Similarity=0.112 Sum_probs=13.1
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
+|.++|.||+||||
T Consensus 2 ~i~~~G~pGsGKsT 15 (188)
T PRK14532 2 NLILFGPPAAGKGT 15 (188)
T ss_pred EEEEECCCCCCHHH
Confidence 58899999999999
No 316
>PRK05541 adenylylsulfate kinase; Provisional
Probab=76.39 E-value=0.8 Score=35.98 Aligned_cols=21 Identities=14% Similarity=-0.152 Sum_probs=16.6
Q ss_pred EEEEecCceEeecCCCCccCC
Q psy3587 15 QTIFLTDNIRLCDCPGLVFPS 35 (195)
Q Consensus 15 q~~~l~~~v~vvG~PNVGKSs 35 (195)
|..+-..-|.++|+||+||||
T Consensus 2 ~~~~~~~~I~i~G~~GsGKst 22 (176)
T PRK05541 2 QMKPNGYVIWITGLAGSGKTT 22 (176)
T ss_pred CCCCCCCEEEEEcCCCCCHHH
Confidence 334445578999999999999
No 317
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=76.03 E-value=1.1 Score=33.85 Aligned_cols=14 Identities=29% Similarity=0.142 Sum_probs=13.1
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
+|+++|.||.|||+
T Consensus 1 ~i~l~G~~GsGKst 14 (154)
T cd00464 1 NIVLIGMMGAGKTT 14 (154)
T ss_pred CEEEEcCCCCCHHH
Confidence 58999999999999
No 318
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=75.74 E-value=1.1 Score=36.72 Aligned_cols=14 Identities=21% Similarity=0.081 Sum_probs=12.9
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
-+.++|.||+||||
T Consensus 5 ~i~i~G~~G~GKst 18 (197)
T PRK12339 5 IHFIGGIPGVGKTS 18 (197)
T ss_pred EEEEECCCCCCHHH
Confidence 47899999999999
No 319
>PRK14531 adenylate kinase; Provisional
Probab=75.29 E-value=1.2 Score=35.50 Aligned_cols=15 Identities=13% Similarity=0.126 Sum_probs=13.9
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
.+|.++|.||.||||
T Consensus 3 ~~i~i~G~pGsGKsT 17 (183)
T PRK14531 3 QRLLFLGPPGAGKGT 17 (183)
T ss_pred cEEEEECCCCCCHHH
Confidence 479999999999999
No 320
>PRK04040 adenylate kinase; Provisional
Probab=75.12 E-value=1.1 Score=36.22 Aligned_cols=18 Identities=11% Similarity=0.209 Sum_probs=15.2
Q ss_pred CceEeecCCCCccCC--CCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVP 38 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L 38 (195)
+.|+|.|.||+|||| +.|
T Consensus 3 ~~i~v~G~pG~GKtt~~~~l 22 (188)
T PRK04040 3 KVVVVTGVPGVGKTTVLNKA 22 (188)
T ss_pred eEEEEEeCCCCCHHHHHHHH
Confidence 468999999999999 544
No 321
>PRK03731 aroL shikimate kinase II; Reviewed
Probab=74.49 E-value=1.3 Score=34.47 Aligned_cols=15 Identities=13% Similarity=0.078 Sum_probs=13.8
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
+++.++|+||+||||
T Consensus 3 ~~i~~~G~~GsGKst 17 (171)
T PRK03731 3 QPLFLVGARGCGKTT 17 (171)
T ss_pred CeEEEECCCCCCHHH
Confidence 468999999999999
No 322
>PRK06762 hypothetical protein; Provisional
Probab=73.66 E-value=1.3 Score=34.28 Aligned_cols=18 Identities=17% Similarity=-0.029 Sum_probs=14.4
Q ss_pred ceEeecCCCCccCC--CCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~ 39 (195)
-+.++|.||+|||| ..|.
T Consensus 4 li~i~G~~GsGKST~A~~L~ 23 (166)
T PRK06762 4 LIIIRGNSGSGKTTIAKQLQ 23 (166)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 37889999999999 4443
No 323
>PRK13948 shikimate kinase; Provisional
Probab=73.61 E-value=1.3 Score=35.85 Aligned_cols=14 Identities=14% Similarity=-0.016 Sum_probs=13.4
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
+|.++|+||+||||
T Consensus 12 ~I~LiG~~GsGKST 25 (182)
T PRK13948 12 WVALAGFMGTGKSR 25 (182)
T ss_pred EEEEECCCCCCHHH
Confidence 79999999999999
No 324
>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.
Probab=73.27 E-value=1.4 Score=29.53 Aligned_cols=17 Identities=18% Similarity=0.057 Sum_probs=14.3
Q ss_pred eEeecCCCCccCC--CCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~ 39 (195)
++++|.|++|||+ +.|.
T Consensus 2 i~i~G~~gsGKst~~~~l~ 20 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLA 20 (69)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 6889999999999 6554
No 325
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=73.19 E-value=1.4 Score=35.74 Aligned_cols=14 Identities=21% Similarity=0.145 Sum_probs=13.1
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
+|.|+|.||+||||
T Consensus 1 rI~i~G~pGsGKsT 14 (210)
T TIGR01351 1 RLVLLGPPGSGKGT 14 (210)
T ss_pred CEEEECCCCCCHHH
Confidence 58999999999999
No 326
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=73.09 E-value=1.4 Score=34.42 Aligned_cols=18 Identities=17% Similarity=-0.007 Sum_probs=15.0
Q ss_pred ceEeecCCCCccCC--CCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~ 39 (195)
-+.|+|.||+|||| +.|.
T Consensus 5 ii~i~G~~GsGKsTl~~~l~ 24 (188)
T TIGR01360 5 IIFIVGGPGSGKGTQCEKIV 24 (188)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 57899999999999 5554
No 327
>PRK13946 shikimate kinase; Provisional
Probab=72.40 E-value=1.5 Score=34.87 Aligned_cols=15 Identities=13% Similarity=0.051 Sum_probs=14.0
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
+.|.++|+||+||||
T Consensus 11 ~~I~l~G~~GsGKst 25 (184)
T PRK13946 11 RTVVLVGLMGAGKST 25 (184)
T ss_pred CeEEEECCCCCCHHH
Confidence 479999999999999
No 328
>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=72.08 E-value=1 Score=36.65 Aligned_cols=53 Identities=17% Similarity=0.077 Sum_probs=27.2
Q ss_pred CceEeecCCCCccCC--CCCCCCcccc--cCCCCCCccceeEEEecCCeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVS--VSRTPGHTKHFQTIFLTDNIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~--vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv 74 (195)
..|+++|.+|.||-+ +.|...+... +|-.|-++-.. .-.-.+.+.|+|+||--
T Consensus 4 ~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~e~n~~~~~-~~~~~~~~~lvD~PGH~ 60 (181)
T PF09439_consen 4 PTVLLVGPSGSGKTALFSQLVNGKTVPTVTSMENNIAYNV-NNSKGKKLRLVDIPGHP 60 (181)
T ss_dssp -EEEEE-STTSSHHHHHHHHHHSS---B---SSEEEECCG-SSTCGTCECEEEETT-H
T ss_pred ceEEEEcCCCCCHHHHHHHHhcCCcCCeeccccCCceEEe-ecCCCCEEEEEECCCcH
Confidence 468999999999998 5554332211 11122211111 00114578999999974
No 329
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=71.74 E-value=1.6 Score=34.51 Aligned_cols=15 Identities=27% Similarity=0.082 Sum_probs=13.9
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
++|.++|.||+||||
T Consensus 5 ~~I~liG~~GaGKSt 19 (172)
T PRK05057 5 RNIFLVGPMGAGKST 19 (172)
T ss_pred CEEEEECCCCcCHHH
Confidence 479999999999999
No 330
>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=71.53 E-value=5.7 Score=31.02 Aligned_cols=33 Identities=33% Similarity=0.580 Sum_probs=27.5
Q ss_pred cccCCCCccceeEEEEecCceEeecCCCCccCC
Q psy3587 3 SVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS 35 (195)
Q Consensus 3 ~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs 35 (195)
.+|.++|.|+..+....+..+.++|.||.+.+.
T Consensus 46 ~~~~~~~~t~~~~~~~~~~~~~liDtpG~~~~~ 78 (179)
T TIGR03598 46 RTSKTPGRTQLINFFEVNDGFRLVDLPGYGYAK 78 (179)
T ss_pred cccCCCCcceEEEEEEeCCcEEEEeCCCCcccc
Confidence 468899999987777667789999999998764
No 331
>PRK00131 aroK shikimate kinase; Reviewed
Probab=71.27 E-value=1.7 Score=33.32 Aligned_cols=15 Identities=27% Similarity=0.127 Sum_probs=13.7
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
..|.++|.||+|||+
T Consensus 5 ~~i~l~G~~GsGKst 19 (175)
T PRK00131 5 PNIVLIGFMGAGKST 19 (175)
T ss_pred CeEEEEcCCCCCHHH
Confidence 368999999999999
No 332
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=70.85 E-value=1.4 Score=39.98 Aligned_cols=20 Identities=10% Similarity=-0.085 Sum_probs=16.6
Q ss_pred CceEeecCCCCccCC--CCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKP 40 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~ 40 (195)
-+|+++|=-++|||| .+|.+
T Consensus 10 ~ni~v~Gh~d~GKSTL~~~L~~ 31 (411)
T PRK04000 10 VNIGMVGHVDHGKTTLVQALTG 31 (411)
T ss_pred EEEEEEccCCCCHHHHHHHhhC
Confidence 379999999999999 56643
No 333
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=70.40 E-value=1.7 Score=34.19 Aligned_cols=18 Identities=17% Similarity=-0.058 Sum_probs=14.9
Q ss_pred ceEeecCCCCccCC--CCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~ 39 (195)
-|.++|+|++|||| +.|.
T Consensus 4 ~i~l~G~~gsGKst~a~~l~ 23 (175)
T cd00227 4 IIILNGGSSAGKSSIARALQ 23 (175)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 47899999999999 5554
No 334
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=70.35 E-value=5.9 Score=30.93 Aligned_cols=33 Identities=33% Similarity=0.602 Sum_probs=28.2
Q ss_pred ccccCCCCccceeEEEEecCceEeecCCCCccC
Q psy3587 2 VSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFP 34 (195)
Q Consensus 2 ~~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKS 34 (195)
+.++.++|.|+..+...++.++.++|.||.+.+
T Consensus 51 ~~~~~~~~~t~~~~~~~~~~~l~l~DtpG~~~~ 83 (196)
T PRK00454 51 ARTSKTPGRTQLINFFEVNDKLRLVDLPGYGYA 83 (196)
T ss_pred ccccCCCCceeEEEEEecCCeEEEeCCCCCCCc
Confidence 457889999999988888889999999997754
No 335
>PRK01184 hypothetical protein; Provisional
Probab=70.10 E-value=1.8 Score=34.14 Aligned_cols=15 Identities=20% Similarity=0.131 Sum_probs=13.5
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
+.|+++|.||.||||
T Consensus 2 ~~i~l~G~~GsGKsT 16 (184)
T PRK01184 2 KIIGVVGMPGSGKGE 16 (184)
T ss_pred cEEEEECCCCCCHHH
Confidence 358999999999999
No 336
>PF02263 GBP: Guanylate-binding protein, N-terminal domain; InterPro: IPR015894 Guanylate-binding protein is a GTPase that is induced by interferon (IFN)-gamma. GTPases induced by IFN-gamma are key to the protective immunity against microbial and viral pathogens. These GTPases are classified into three groups: the small 47-kd GTPases, the Mx proteins, and the large 65- to 67-kd GTPases. Guanylate-binding proteins (GBP) fall into the last class. In humans, there are seven GBPs (hGBP1-7) []. Structurally, hGBP1 consists of two domains: a compact globular N-terminal domain harbouring the GTPase function, and an alpha-helical finger-like C-terminal domain (IPR003191 from INTERPRO). Human GBP1 is secreted from cells without the need of a leader peptide, and has been shown to exhibit antiviral activity against Vesicular stomatitis virus and Encephalomyocarditis virus, as well as being able to regulate the inhibition of proliferation and invasion of endothelial cells in response to IFN-gamma [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3QOF_A 3Q5E_C 3QNU_A 3Q5D_A 1DG3_A 2D4H_A 2B8W_B 2B92_A 2BC9_A 1F5N_A.
Probab=69.71 E-value=2.3 Score=36.16 Aligned_cols=55 Identities=16% Similarity=-0.165 Sum_probs=38.5
Q ss_pred eEeecCCCCccCC--CCCCCCc-ccccCCCC-CCcccee-EEEe-c----CCeEEecCCCCCCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPKPLQ-VVSVSRTP-GHTKHFQ-TIFL-T----DNIRLCDCPGLVFPS 77 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~~kk-~v~vg~~P-GvTk~~Q-~i~l-~----~~i~LlDtPGIv~p~ 77 (195)
|.|+|-...|||. |.|.+.. .-++|+.. ..|+++- |..- . -.+.|+||.|+....
T Consensus 24 vsi~G~~rtGKSfLln~l~~~~~gF~~~~~~~~~T~Giw~w~~~~~~~~~~~v~llDteG~~~~~ 88 (260)
T PF02263_consen 24 VSIVGPYRTGKSFLLNQLLGPQSGFSWGPTVEPCTKGIWMWSEPLPDGEKVAVVLLDTEGLGDVE 88 (260)
T ss_dssp EEEEEETTSSHHHHHHHHCCBSSSSESSSCSSST-SCEEEECCE-TTSTCEEEEEEEEECBTTTT
T ss_pred EEeecCCccchHHHHHHHhcccccccccCCCCCCCcceeeeecccccccceeEEEecchhccccc
Confidence 7888999999999 9888753 34666654 6788753 3321 1 149999999999843
No 337
>PTZ00088 adenylate kinase 1; Provisional
Probab=69.71 E-value=1.8 Score=36.23 Aligned_cols=15 Identities=27% Similarity=0.266 Sum_probs=13.7
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
.+|.|+|.||+||+|
T Consensus 7 mrIvl~G~PGsGK~T 21 (229)
T PTZ00088 7 LKIVLFGAPGVGKGT 21 (229)
T ss_pred ceEEEECCCCCCHHH
Confidence 369999999999999
No 338
>KOG0478|consensus
Probab=69.22 E-value=3.3 Score=40.32 Aligned_cols=50 Identities=24% Similarity=0.181 Sum_probs=37.0
Q ss_pred cCceEeecCCCCccCC------CC------CCCCcccccCCCCCCccc---eeEEEecCCeEEec
Q psy3587 20 TDNIRLCDCPGLVFPS------KV------PKPLQVVSVSRTPGHTKH---FQTIFLTDNIRLCD 69 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs------N~------L~~kk~v~vg~~PGvTk~---~Q~i~l~~~i~LlD 69 (195)
+-||.+||=||.|||- +. -.||....||-+.+|||. .||+--..-+.|-|
T Consensus 462 ~INILL~GDPGtsKSqlLqyv~~l~pRg~yTSGkGsSavGLTayVtrd~dtkqlVLesGALVLSD 526 (804)
T KOG0478|consen 462 DINILLVGDPGTSKSQLLQYCHRLLPRGVYTSGKGSSAVGLTAYVTKDPDTRQLVLESGALVLSD 526 (804)
T ss_pred cceEEEecCCCcCHHHHHHHHHHhCCcceeecCCccchhcceeeEEecCccceeeeecCcEEEcC
Confidence 4589999999999995 22 248999999999999994 45554344455544
No 339
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=69.13 E-value=1.6 Score=34.18 Aligned_cols=21 Identities=14% Similarity=-0.083 Sum_probs=16.6
Q ss_pred CceEeecCCCCccCC--CCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~k 41 (195)
+-+.|+|-+|+|||| +.|.+.
T Consensus 2 ~ii~l~G~~GsGKsTl~~~L~~~ 24 (180)
T TIGR03263 2 LLIVISGPSGVGKSTLVKALLEE 24 (180)
T ss_pred cEEEEECCCCCCHHHHHHHHHcc
Confidence 347899999999999 666543
No 340
>PRK00889 adenylylsulfate kinase; Provisional
Probab=69.10 E-value=1.9 Score=33.77 Aligned_cols=14 Identities=7% Similarity=0.071 Sum_probs=13.0
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
-+.++|.||+||||
T Consensus 6 ~i~~~G~~GsGKST 19 (175)
T PRK00889 6 TVWFTGLSGAGKTT 19 (175)
T ss_pred EEEEECCCCCCHHH
Confidence 58899999999999
No 341
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=68.72 E-value=1.9 Score=30.63 Aligned_cols=15 Identities=20% Similarity=0.206 Sum_probs=13.7
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
..++++|-||+|||+
T Consensus 3 ~~~~l~G~~G~GKTt 17 (148)
T smart00382 3 EVILIVGPPGSGKTT 17 (148)
T ss_pred CEEEEECCCCCcHHH
Confidence 468999999999999
No 342
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=68.70 E-value=1.9 Score=34.89 Aligned_cols=16 Identities=19% Similarity=0.218 Sum_probs=14.3
Q ss_pred cCceEeecCCCCccCC
Q psy3587 20 TDNIRLCDCPGLVFPS 35 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs 35 (195)
..+|+|-|.|||||||
T Consensus 5 ~mki~ITG~PGvGKtT 20 (179)
T COG1618 5 AMKIFITGRPGVGKTT 20 (179)
T ss_pred ceEEEEeCCCCccHHH
Confidence 4478999999999999
No 343
>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.
Probab=67.68 E-value=2.1 Score=33.02 Aligned_cols=13 Identities=23% Similarity=0.123 Sum_probs=12.2
Q ss_pred eEeecCCCCccCC
Q psy3587 23 IRLCDCPGLVFPS 35 (195)
Q Consensus 23 v~vvG~PNVGKSs 35 (195)
++++|.||.||||
T Consensus 2 i~i~G~~GsGKST 14 (149)
T cd02027 2 IWLTGLSGSGKST 14 (149)
T ss_pred EEEEcCCCCCHHH
Confidence 6889999999999
No 344
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=67.06 E-value=2.2 Score=37.56 Aligned_cols=23 Identities=13% Similarity=0.423 Sum_probs=17.1
Q ss_pred CHHHHHHHHHHHcCcccccCCccc
Q psy3587 127 CAMDICDGWAQKRSYMTAKTGRYD 150 (195)
Q Consensus 127 ~~~e~L~~iA~k~g~l~~kgG~~D 150 (195)
-..++.+++...+.|+ ...|..+
T Consensus 241 Gi~~L~~ai~~h~~~~-~~sg~~~ 263 (323)
T COG1703 241 GIDELWDAIEDHRKFL-TESGLFT 263 (323)
T ss_pred CHHHHHHHHHHHHHHH-Hhccccc
Confidence 3778888888888888 4667553
No 345
>PRK14738 gmk guanylate kinase; Provisional
Probab=66.71 E-value=1.9 Score=35.15 Aligned_cols=20 Identities=5% Similarity=-0.067 Sum_probs=16.3
Q ss_pred ceEeecCCCCccCC--CCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~k 41 (195)
-+.|+|-+|+|||| +.|...
T Consensus 15 ~ivi~GpsG~GK~tl~~~L~~~ 36 (206)
T PRK14738 15 LVVISGPSGVGKDAVLARMRER 36 (206)
T ss_pred EEEEECcCCCCHHHHHHHHHhc
Confidence 57789999999999 776543
No 346
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=66.47 E-value=2.4 Score=31.58 Aligned_cols=13 Identities=15% Similarity=0.005 Sum_probs=12.3
Q ss_pred eEeecCCCCccCC
Q psy3587 23 IRLCDCPGLVFPS 35 (195)
Q Consensus 23 v~vvG~PNVGKSs 35 (195)
|.|+|.||+||||
T Consensus 2 I~i~G~~GsGKst 14 (147)
T cd02020 2 IAIDGPAGSGKST 14 (147)
T ss_pred EEEECCCCCCHHH
Confidence 6899999999999
No 347
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=66.41 E-value=1.8 Score=33.54 Aligned_cols=20 Identities=10% Similarity=0.021 Sum_probs=14.2
Q ss_pred ceEeecCCCCccCC--CCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~k 41 (195)
+|.|+|.|++|||| +.|...
T Consensus 1 rI~i~G~~stGKTTL~~~L~~~ 22 (163)
T PF13521_consen 1 RIVITGGPSTGKTTLIEALAAR 22 (163)
T ss_dssp -EEEE--TTSHHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHc
Confidence 58999999999999 777644
No 348
>KOG0087|consensus
Probab=66.37 E-value=5.2 Score=33.51 Aligned_cols=54 Identities=13% Similarity=0.032 Sum_probs=36.1
Q ss_pred CceEeecCCCCccCCC---CCCCCcccccCCCCCCccceeEEEecC---CeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPSK---VPKPLQVVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSsN---~L~~kk~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGIv 74 (195)
.+|-+||=|+||||.+ ..+.-=....-++=||.-.-+.+.++. +..+.||-|.-
T Consensus 15 FKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQE 74 (222)
T KOG0087|consen 15 FKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQE 74 (222)
T ss_pred EEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchh
Confidence 4689999999999972 122222333445667777677777765 35788988864
No 349
>PLN02200 adenylate kinase family protein
Probab=66.18 E-value=2.4 Score=35.49 Aligned_cols=14 Identities=14% Similarity=-0.064 Sum_probs=13.2
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
.+.|+|.||+||||
T Consensus 45 ii~I~G~PGSGKsT 58 (234)
T PLN02200 45 ITFVLGGPGSGKGT 58 (234)
T ss_pred EEEEECCCCCCHHH
Confidence 58999999999999
No 350
>PRK08233 hypothetical protein; Provisional
Probab=66.01 E-value=2.4 Score=32.94 Aligned_cols=19 Identities=11% Similarity=-0.041 Sum_probs=15.3
Q ss_pred ceEeecCCCCccCC--CCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKP 40 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~ 40 (195)
-|+|.|.||+|||| +.|..
T Consensus 5 iI~I~G~~GsGKtTla~~L~~ 25 (182)
T PRK08233 5 IITIAAVSGGGKTTLTERLTH 25 (182)
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 47889999999999 55543
No 351
>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.
Probab=65.82 E-value=1.6 Score=34.95 Aligned_cols=17 Identities=12% Similarity=-0.019 Sum_probs=14.5
Q ss_pred eEeecCCCCccCC--CCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~ 39 (195)
|+|+|.+|+|||| +.|.
T Consensus 2 igi~G~~GsGKSTl~~~l~ 20 (198)
T cd02023 2 IGIAGGSGSGKTTVAEEII 20 (198)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 7899999999999 6553
No 352
>PRK00279 adk adenylate kinase; Reviewed
Probab=65.38 E-value=2.5 Score=34.44 Aligned_cols=14 Identities=21% Similarity=0.157 Sum_probs=13.2
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
+|.|+|.||+||||
T Consensus 2 ~I~v~G~pGsGKsT 15 (215)
T PRK00279 2 RLILLGPPGAGKGT 15 (215)
T ss_pred EEEEECCCCCCHHH
Confidence 58999999999999
No 353
>KOG0080|consensus
Probab=65.28 E-value=4.6 Score=32.78 Aligned_cols=55 Identities=16% Similarity=0.062 Sum_probs=32.9
Q ss_pred ecCceEeecCCCCccCC--CCCCCCcccccCC-CCCCccceeEEEecC---CeEEecCCCC
Q psy3587 19 LTDNIRLCDCPGLVFPS--KVPKPLQVVSVSR-TPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 19 l~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~-~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
+..+|.+||=.|||||| -+......-...+ +-||-=....+.++. ++-|.||-|-
T Consensus 10 ~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGq 70 (209)
T KOG0080|consen 10 TTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQ 70 (209)
T ss_pred eeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccch
Confidence 34579999999999999 2222222112222 245554444555543 5788999885
No 354
>KOG0781|consensus
Probab=64.87 E-value=3.3 Score=38.79 Aligned_cols=15 Identities=13% Similarity=0.164 Sum_probs=14.0
Q ss_pred ceEeecCCCCccCCC
Q psy3587 22 NIRLCDCPGLVFPSK 36 (195)
Q Consensus 22 ~v~vvG~PNVGKSsN 36 (195)
-|.+||..|||||||
T Consensus 380 Vi~fvGVNGVGKSTN 394 (587)
T KOG0781|consen 380 VISFVGVNGVGKSTN 394 (587)
T ss_pred EEEEEeecCccccch
Confidence 589999999999997
No 355
>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]
Probab=64.76 E-value=5.9 Score=40.90 Aligned_cols=54 Identities=20% Similarity=0.120 Sum_probs=35.2
Q ss_pred ceEeecCCCCccCC---CCCC-----CCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587 22 NIRLCDCPGLVFPS---KVPK-----PLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS 77 (195)
Q Consensus 22 ~v~vvG~PNVGKSs---N~L~-----~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~ 77 (195)
+-||||.||.||+| |+=. ..--+.--..+| |++--|.. .+.-.|+||-|-..-.
T Consensus 127 Wy~viG~pgsGKTtal~~sgl~Fpl~~~~~~~~~~~~g-T~~cdwwf-~deaVlIDtaGry~~q 188 (1188)
T COG3523 127 WYMVIGPPGSGKTTALLNSGLQFPLAEQMGALGLAGPG-TRNCDWWF-TDEAVLIDTAGRYITQ 188 (1188)
T ss_pred ceEEecCCCCCcchHHhcccccCcchhhhccccccCCC-CcccCccc-ccceEEEcCCcceecc
Confidence 67999999999999 5411 111111112344 89888865 5567889999876443
No 356
>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.
Probab=64.75 E-value=1.5 Score=34.84 Aligned_cols=29 Identities=17% Similarity=-0.074 Sum_probs=19.8
Q ss_pred eEeecCCCCccCC--CCCCCCcccccCCCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPKPLQVVSVSRTPG 51 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~~kk~v~vg~~PG 51 (195)
|.|-|++|+|||| +.|.....+.+-..|+
T Consensus 2 I~ieG~~GsGKSTl~~~L~~~~~~~~~~Ep~ 32 (193)
T cd01673 2 IVVEGNIGAGKSTLAKELAEHLGYEVVPEPV 32 (193)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCccccccc
Confidence 6789999999999 7666543333444443
No 357
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=64.36 E-value=2.4 Score=32.67 Aligned_cols=19 Identities=11% Similarity=-0.059 Sum_probs=14.6
Q ss_pred eEeecCCCCccCC--CCCCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~~k 41 (195)
+.++|.||+|||| +.|.+.
T Consensus 1 i~l~G~~GsGKSTla~~l~~~ 21 (163)
T TIGR01313 1 FVLMGVAGSGKSTIASALAHR 21 (163)
T ss_pred CEEECCCCCCHHHHHHHHHHh
Confidence 4688999999999 555443
No 358
>PRK14529 adenylate kinase; Provisional
Probab=64.18 E-value=2.7 Score=35.19 Aligned_cols=14 Identities=21% Similarity=0.038 Sum_probs=13.0
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
+|.++|.||+||+|
T Consensus 2 ~I~l~G~PGsGK~T 15 (223)
T PRK14529 2 NILIFGPNGSGKGT 15 (223)
T ss_pred EEEEECCCCCCHHH
Confidence 58899999999999
No 359
>PRK13975 thymidylate kinase; Provisional
Probab=64.16 E-value=2.7 Score=33.28 Aligned_cols=14 Identities=14% Similarity=-0.099 Sum_probs=12.9
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
-|.+.|+||+||||
T Consensus 4 ~I~ieG~~GsGKtT 17 (196)
T PRK13975 4 FIVFEGIDGSGKTT 17 (196)
T ss_pred EEEEECCCCCCHHH
Confidence 47899999999999
No 360
>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []. The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.
Probab=63.43 E-value=2.5 Score=36.31 Aligned_cols=13 Identities=31% Similarity=0.365 Sum_probs=10.3
Q ss_pred eEeecCCCCccCC
Q psy3587 23 IRLCDCPGLVFPS 35 (195)
Q Consensus 23 v~vvG~PNVGKSs 35 (195)
|.++|+|++|||+
T Consensus 4 iil~G~P~SGKTt 16 (270)
T PF08433_consen 4 IILCGLPCSGKTT 16 (270)
T ss_dssp EEEE--TTSSHHH
T ss_pred EEEEcCCCCcHHH
Confidence 6899999999999
No 361
>PRK02496 adk adenylate kinase; Provisional
Probab=63.42 E-value=2.9 Score=33.02 Aligned_cols=15 Identities=13% Similarity=0.102 Sum_probs=13.7
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
+++.|+|-||+||||
T Consensus 2 ~~i~i~G~pGsGKst 16 (184)
T PRK02496 2 TRLIFLGPPGAGKGT 16 (184)
T ss_pred eEEEEECCCCCCHHH
Confidence 468999999999999
No 362
>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.
Probab=63.32 E-value=5.2 Score=28.28 Aligned_cols=42 Identities=14% Similarity=0.173 Sum_probs=24.9
Q ss_pred eEeec-CCCCccCC---CC---C--CCCcccccCCCCCCccceeEEEecCCeEEecCCCCCC
Q psy3587 23 IRLCD-CPGLVFPS---KV---P--KPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVF 75 (195)
Q Consensus 23 v~vvG-~PNVGKSs---N~---L--~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~ 75 (195)
++++| -.|+|||+ |. + .+++++-+..-|. -++.++|||+-.-
T Consensus 2 i~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~d~~-----------~d~viiD~p~~~~ 52 (104)
T cd02042 2 IAVANQKGGVGKTTTAVNLAAALARRGKRVLLIDLDPQ-----------YDYIIIDTPPSLG 52 (104)
T ss_pred EEEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeCCCC-----------CCEEEEeCcCCCC
Confidence 45556 67999999 31 2 2333333322222 4688999998663
No 363
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=63.16 E-value=3.1 Score=32.34 Aligned_cols=49 Identities=16% Similarity=0.080 Sum_probs=32.0
Q ss_pred cCceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEecCCeEEecCCCCCCCC
Q psy3587 20 TDNIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS 77 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l~~~i~LlDtPGIv~p~ 77 (195)
.|++|+||--+.||-| |+|.|.-. .+-.| |-|... +=..+||||-.+..
T Consensus 1 MKri~~vG~~gcGKTtL~q~L~G~~~-----lykKT---QAve~~-d~~~IDTPGEy~~~ 51 (148)
T COG4917 1 MKRIAFVGQVGCGKTTLFQSLYGNDT-----LYKKT---QAVEFN-DKGDIDTPGEYFEH 51 (148)
T ss_pred CceeEEecccccCchhHHHHhhcchh-----hhccc---ceeecc-CccccCCchhhhhh
Confidence 3789999999999999 88876432 11123 444332 12357999988754
No 364
>PRK14528 adenylate kinase; Provisional
Probab=63.14 E-value=3 Score=33.40 Aligned_cols=15 Identities=27% Similarity=0.230 Sum_probs=13.9
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
+++.|.|-||+||||
T Consensus 2 ~~i~i~G~pGsGKtt 16 (186)
T PRK14528 2 KNIIFMGPPGAGKGT 16 (186)
T ss_pred cEEEEECCCCCCHHH
Confidence 578999999999999
No 365
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=62.85 E-value=3 Score=32.65 Aligned_cols=19 Identities=11% Similarity=0.015 Sum_probs=15.4
Q ss_pred ceEeecCCCCccCC--CCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKP 40 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~ 40 (195)
.+.|+|.||+|||| +.|..
T Consensus 3 ~~~i~G~sGsGKttl~~~l~~ 23 (179)
T TIGR02322 3 LIYVVGPSGAGKDTLLDYARA 23 (179)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 47899999999999 66543
No 366
>KOG2486|consensus
Probab=62.30 E-value=8 Score=33.93 Aligned_cols=32 Identities=16% Similarity=0.190 Sum_probs=28.4
Q ss_pred ccCCCCccceeEEEEecCceEeecCCCCccCC
Q psy3587 4 VSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS 35 (195)
Q Consensus 4 v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs 35 (195)
++++||+|+-+|--+..++-.+|++||-|...
T Consensus 166 ~k~K~g~Tq~in~f~v~~~~~~vDlPG~~~a~ 197 (320)
T KOG2486|consen 166 SKSKNGKTQAINHFHVGKSWYEVDLPGYGRAG 197 (320)
T ss_pred cCCCCccceeeeeeeccceEEEEecCCccccc
Confidence 45699999999999999999999999966655
No 367
>KOG1145|consensus
Probab=61.34 E-value=6.8 Score=37.41 Aligned_cols=52 Identities=15% Similarity=0.204 Sum_probs=40.0
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe----cCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL----TDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l----~~~i~LlDtPGIv 74 (195)
-|.|+|-=-=||-| -+|++..+| .+-.-|+|.|+--+.+ .+.|.++||||-.
T Consensus 155 VVTiMGHVDHGKTTLLD~lRks~VA-A~E~GGITQhIGAF~V~~p~G~~iTFLDTPGHa 212 (683)
T KOG1145|consen 155 VVTIMGHVDHGKTTLLDALRKSSVA-AGEAGGITQHIGAFTVTLPSGKSITFLDTPGHA 212 (683)
T ss_pred eEEEeecccCChhhHHHHHhhCcee-hhhcCCccceeceEEEecCCCCEEEEecCCcHH
Confidence 37777887889988 566665544 4556799999998766 3689999999976
No 368
>PHA00729 NTP-binding motif containing protein
Probab=60.96 E-value=3.2 Score=34.89 Aligned_cols=14 Identities=7% Similarity=-0.076 Sum_probs=13.4
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
++.|.|-||||||+
T Consensus 19 nIlItG~pGvGKT~ 32 (226)
T PHA00729 19 SAVIFGKQGSGKTT 32 (226)
T ss_pred EEEEECCCCCCHHH
Confidence 79999999999999
No 369
>smart00804 TAP_C C-terminal domain of vertebrate Tap protein. The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for the nuclear export of mRNA. Its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate shuttling. This domain forms a compact four-helix fold related to that of a UBA domain.
Probab=60.09 E-value=19 Score=24.18 Aligned_cols=25 Identities=24% Similarity=0.365 Sum_probs=21.6
Q ss_pred cCCcccHHHHHHHHHHHHHcCCcce
Q psy3587 145 KTGRYDSYRAANELLRMATEGRICL 169 (195)
Q Consensus 145 kgG~~D~~rAa~~~L~d~~~Gkl~~ 169 (195)
.+...|+++|.+.|..-...|+|+.
T Consensus 35 e~~~Wd~~~Al~~F~~lk~~~~IP~ 59 (63)
T smart00804 35 EDNNWDYERALKNFTELKSEGSIPP 59 (63)
T ss_pred HHcCCCHHHHHHHHHHHHhcCCCCh
Confidence 4678899999999999998898864
No 370
>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....
Probab=59.46 E-value=2.9 Score=31.00 Aligned_cols=25 Identities=12% Similarity=-0.053 Sum_probs=20.0
Q ss_pred EecCceEeecCCCCccCC--CCCCCCc
Q psy3587 18 FLTDNIRLCDCPGLVFPS--KVPKPLQ 42 (195)
Q Consensus 18 ~l~~~v~vvG~PNVGKSs--N~L~~kk 42 (195)
.-...++|+|-+|.|||| +.|.+..
T Consensus 9 ~~g~~~~i~G~nGsGKStLl~~l~g~~ 35 (137)
T PF00005_consen 9 KPGEIVAIVGPNGSGKSTLLKALAGLL 35 (137)
T ss_dssp ETTSEEEEEESTTSSHHHHHHHHTTSS
T ss_pred cCCCEEEEEccCCCccccceeeecccc
Confidence 334589999999999999 7777654
No 371
>PRK08356 hypothetical protein; Provisional
Probab=58.90 E-value=3.8 Score=32.85 Aligned_cols=17 Identities=6% Similarity=-0.201 Sum_probs=14.5
Q ss_pred ceEeecCCCCccCC--CCC
Q psy3587 22 NIRLCDCPGLVFPS--KVP 38 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L 38 (195)
.++++|-||+|||| ..|
T Consensus 7 ~i~~~G~~gsGK~t~a~~l 25 (195)
T PRK08356 7 IVGVVGKIAAGKTTVAKFF 25 (195)
T ss_pred EEEEECCCCCCHHHHHHHH
Confidence 47899999999999 555
No 372
>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.
Probab=58.39 E-value=4.3 Score=33.31 Aligned_cols=38 Identities=11% Similarity=0.099 Sum_probs=27.4
Q ss_pred ccCCCCccceeEEEEec----CceEeecCCCCccCC--CCCCCC
Q psy3587 4 VSRTPGHTKHFQTIFLT----DNIRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 4 v~~~~g~tk~~q~~~l~----~~v~vvG~PNVGKSs--N~L~~k 41 (195)
.+..-|....++.+.++ ..++|+|-.|.|||| +.|.|-
T Consensus 28 ~~~~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~ 71 (224)
T cd03220 28 RKGEVGEFWALKDVSFEVPRGERIGLIGRNGAGKSTLLRLLAGI 71 (224)
T ss_pred hhhhcCCeEEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence 33344556677776664 379999999999999 777653
No 373
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=58.09 E-value=4 Score=36.25 Aligned_cols=14 Identities=21% Similarity=0.406 Sum_probs=13.4
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
.|+|.|.||+||||
T Consensus 58 ~igi~G~~GaGKST 71 (332)
T PRK09435 58 RIGITGVPGVGKST 71 (332)
T ss_pred EEEEECCCCCCHHH
Confidence 69999999999999
No 374
>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.
Probab=57.87 E-value=4 Score=32.28 Aligned_cols=17 Identities=29% Similarity=0.153 Sum_probs=14.3
Q ss_pred eEeecCCCCccCC--CCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~ 39 (195)
|+|.|.||+|||| +.|.
T Consensus 2 i~itG~~gsGKst~~~~l~ 20 (179)
T cd02022 2 IGLTGGIGSGKSTVAKLLK 20 (179)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 7899999999999 5443
No 375
>PF03943 TAP_C: TAP C-terminal domain; InterPro: IPR005637 This entry contains the NXF family of shuttling transport receptors for nuclear export of mRNA, which include: vertebrate mRNA export factor TAP or nuclear RNA export factor 1 (NXF1). Caenorhabditis elegans nuclear RNA export factor 1 (nxf-1). yeast mRNA export factor MEX67. Members of the NXF family have a modular structure. A nuclear localization sequence and a noncanonical RNA recognition motif (RRM) (see PDOC00030 from PROSITEDOC) followed by four LRR repeats are located in its N-terminal half. The C-terminal half contains a NTF2 domain (see PDOC50177 from PROSITEDOC) followed by a second domain, TAP-C. The TAP-C domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate nuclear shuttling [,]. The Tap-C domain is made of four alpha helices packed against each other. The arrangement of helices 1, 2 and 3 is similar to that seen in a UBA fold. and is joined to the next module by flexible 12-residue Pro-rich linker [, ].; GO: 0051028 mRNA transport, 0005634 nucleus; PDB: 1OAI_A 1GO5_A 2KHH_A 2JP7_A.
Probab=57.71 E-value=4.2 Score=26.10 Aligned_cols=24 Identities=21% Similarity=0.342 Sum_probs=18.2
Q ss_pred CCcccHHHHHHHHHHHHHcCCcce
Q psy3587 146 TGRYDSYRAANELLRMATEGRICL 169 (195)
Q Consensus 146 gG~~D~~rAa~~~L~d~~~Gkl~~ 169 (195)
....|+++|...|......|+|+.
T Consensus 24 ~n~Wd~~~A~~~F~~l~~~~~IP~ 47 (51)
T PF03943_consen 24 ENNWDYERALQNFEELKAQGKIPP 47 (51)
T ss_dssp HTTT-CCHHHHHHHHCCCTT-S-C
T ss_pred HcCCCHHHHHHHHHHHHHcCCCCh
Confidence 567899999999999998898864
No 376
>TIGR00041 DTMP_kinase thymidylate kinase. Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.
Probab=57.60 E-value=4.2 Score=32.11 Aligned_cols=18 Identities=17% Similarity=0.019 Sum_probs=14.8
Q ss_pred ceEeecCCCCccCC--CCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~ 39 (195)
-|.|.|+||+|||| +.|.
T Consensus 5 ~IvieG~~GsGKsT~~~~L~ 24 (195)
T TIGR00041 5 FIVIEGIDGAGKTTQANLLK 24 (195)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 48899999999999 5543
No 377
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=57.08 E-value=3.8 Score=30.56 Aligned_cols=32 Identities=16% Similarity=0.164 Sum_probs=20.5
Q ss_pred ceEeecCCCCccCC--C---CCCCCcccccCCCCCCc
Q psy3587 22 NIRLCDCPGLVFPS--K---VPKPLQVVSVSRTPGHT 53 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N---~L~~kk~v~vg~~PGvT 53 (195)
.|+++|=||+|||+ - .+.+.+...+.-.++.|
T Consensus 1 ~vlL~G~~G~GKt~l~~~la~~~~~~~~~i~~~~~~~ 37 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLARELAALLGRPVIRINCSSDTT 37 (139)
T ss_dssp EEEEEESSSSSHHHHHHHHHHHHTCEEEEEE-TTTST
T ss_pred CEEEECCCCCCHHHHHHHHHHHhhcceEEEEeccccc
Confidence 47999999999998 2 23355554554444444
No 378
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=57.08 E-value=3.9 Score=31.47 Aligned_cols=14 Identities=0% Similarity=-0.142 Sum_probs=13.2
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
.|+|||..|+||+|
T Consensus 2 vv~VvG~~~sGKTT 15 (140)
T PF03205_consen 2 VVQVVGPKNSGKTT 15 (140)
T ss_dssp EEEEEESTTSSHHH
T ss_pred EEEEECCCCCCHHH
Confidence 58999999999999
No 379
>PRK04182 cytidylate kinase; Provisional
Probab=56.67 E-value=4.4 Score=31.28 Aligned_cols=14 Identities=21% Similarity=0.192 Sum_probs=12.9
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
.|+|+|.||.||||
T Consensus 2 ~I~i~G~~GsGKst 15 (180)
T PRK04182 2 IITISGPPGSGKTT 15 (180)
T ss_pred EEEEECCCCCCHHH
Confidence 48899999999999
No 380
>PRK14526 adenylate kinase; Provisional
Probab=56.18 E-value=4.4 Score=33.41 Aligned_cols=14 Identities=14% Similarity=0.109 Sum_probs=13.0
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
++.|+|.||+||||
T Consensus 2 ~i~l~G~pGsGKsT 15 (211)
T PRK14526 2 KLVFLGPPGSGKGT 15 (211)
T ss_pred EEEEECCCCCCHHH
Confidence 58899999999999
No 381
>COG1072 CoaA Panthothenate kinase [Coenzyme metabolism]
Probab=56.06 E-value=4.7 Score=35.06 Aligned_cols=14 Identities=7% Similarity=-0.009 Sum_probs=13.2
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
-|++.|-|+|||||
T Consensus 84 IIgiaGsvavGKST 97 (283)
T COG1072 84 IIGIAGSVAVGKST 97 (283)
T ss_pred EEEeccCccccHHH
Confidence 59999999999999
No 382
>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=55.95 E-value=15 Score=34.50 Aligned_cols=51 Identities=16% Similarity=0.176 Sum_probs=36.6
Q ss_pred eEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe--c----CCeEEecCCCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL--T----DNIRLCDCPGLV 74 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l--~----~~i~LlDtPGIv 74 (195)
|.++|==--||.| -.+++. .+..+---|+|.|+--.++ + +.|.++||||--
T Consensus 8 VtimGHVDHGKTtLLD~IR~t-~Va~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHe 66 (509)
T COG0532 8 VTIMGHVDHGKTTLLDKIRKT-NVAAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHE 66 (509)
T ss_pred EEEeCcccCCccchhhhHhcC-ccccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHH
Confidence 5666766778888 344444 4555556799999988755 3 579999999864
No 383
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=55.88 E-value=4.5 Score=34.36 Aligned_cols=14 Identities=21% Similarity=0.126 Sum_probs=12.4
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
-+.++|.||+||||
T Consensus 4 liil~G~pGSGKST 17 (300)
T PHA02530 4 IILTVGVPGSGKST 17 (300)
T ss_pred EEEEEcCCCCCHHH
Confidence 36788999999999
No 384
>PRK14527 adenylate kinase; Provisional
Probab=55.68 E-value=4.8 Score=32.06 Aligned_cols=15 Identities=13% Similarity=0.064 Sum_probs=13.6
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
+.+.++|.||.||||
T Consensus 7 ~~i~i~G~pGsGKsT 21 (191)
T PRK14527 7 KVVIFLGPPGAGKGT 21 (191)
T ss_pred cEEEEECCCCCCHHH
Confidence 468999999999999
No 385
>PF05729 NACHT: NACHT domain
Probab=55.64 E-value=5.2 Score=30.03 Aligned_cols=13 Identities=15% Similarity=0.222 Sum_probs=12.0
Q ss_pred eEeecCCCCccCC
Q psy3587 23 IRLCDCPGLVFPS 35 (195)
Q Consensus 23 v~vvG~PNVGKSs 35 (195)
+.|.|-||+|||+
T Consensus 3 l~I~G~~G~GKSt 15 (166)
T PF05729_consen 3 LWISGEPGSGKST 15 (166)
T ss_pred EEEECCCCCChHH
Confidence 6789999999999
No 386
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=55.49 E-value=4.7 Score=35.07 Aligned_cols=19 Identities=16% Similarity=-0.011 Sum_probs=15.9
Q ss_pred EEecCceEeecCCCCccCC
Q psy3587 17 IFLTDNIRLCDCPGLVFPS 35 (195)
Q Consensus 17 ~~l~~~v~vvG~PNVGKSs 35 (195)
++...+|.++|+||.||||
T Consensus 130 ~~~~~~I~l~G~~GsGKSt 148 (309)
T PRK08154 130 AARRRRIALIGLRGAGKST 148 (309)
T ss_pred ccCCCEEEEECCCCCCHHH
Confidence 3445589999999999999
No 387
>COG2229 Predicted GTPase [General function prediction only]
Probab=54.37 E-value=14 Score=30.26 Aligned_cols=53 Identities=21% Similarity=0.181 Sum_probs=31.8
Q ss_pred ceEeecCCCCccCC--CCCCCCccccc-----CCCC-C---CccceeE--EEec--CCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSV-----SRTP-G---HTKHFQT--IFLT--DNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~v-----g~~P-G---vTk~~Q~--i~l~--~~i~LlDtPGIv 74 (195)
+|.|+|-=++||.| -.+.-+..+.| +..+ | .|-.+.. +.++ ..++|+||||-.
T Consensus 12 KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~~~~~~v~LfgtPGq~ 79 (187)
T COG2229 12 KIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDEDTGVHLFGTPGQE 79 (187)
T ss_pred eEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEEcCcceEEEecCCCcH
Confidence 68999999999999 44544443322 1111 1 2222222 2333 479999999975
No 388
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=54.36 E-value=4.7 Score=33.69 Aligned_cols=14 Identities=7% Similarity=0.123 Sum_probs=13.1
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
.|+|.|++|+||++
T Consensus 21 ~v~I~G~~G~GKT~ 34 (287)
T PF00931_consen 21 VVAIVGMGGIGKTT 34 (287)
T ss_dssp EEEEEESTTSSHHH
T ss_pred EEEEEcCCcCCcce
Confidence 58999999999998
No 389
>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components. In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.
Probab=54.33 E-value=4.3 Score=34.99 Aligned_cols=30 Identities=13% Similarity=0.369 Sum_probs=23.3
Q ss_pred CHHHHHHHHHHHcCcccccCCcccHHHHHHH
Q psy3587 127 CAMDICDGWAQKRSYMTAKTGRYDSYRAANE 157 (195)
Q Consensus 127 ~~~e~L~~iA~k~g~l~~kgG~~D~~rAa~~ 157 (195)
-..++.+++.+.+.++ ...|.....|..+.
T Consensus 217 Gi~eL~~~i~~~~~~l-~~sg~~~~rr~~q~ 246 (266)
T PF03308_consen 217 GIDELWEAIDEHRDYL-KESGELEERRREQA 246 (266)
T ss_dssp SHHHHHHHHHHHHHHH-HHTTHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHH-HHcchHHHHHHHHH
Confidence 4889999999988888 57788877766443
No 390
>PRK05439 pantothenate kinase; Provisional
Probab=54.21 E-value=4.9 Score=35.35 Aligned_cols=14 Identities=7% Similarity=-0.009 Sum_probs=13.2
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
-|+|.|.|++||||
T Consensus 88 iIgIaG~~gsGKST 101 (311)
T PRK05439 88 IIGIAGSVAVGKST 101 (311)
T ss_pred EEEEECCCCCCHHH
Confidence 58999999999999
No 391
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=53.79 E-value=5.4 Score=31.11 Aligned_cols=16 Identities=13% Similarity=0.011 Sum_probs=13.7
Q ss_pred eEeecCCCCccCC--CCC
Q psy3587 23 IRLCDCPGLVFPS--KVP 38 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L 38 (195)
|.|.|.+|+|||| +.|
T Consensus 3 I~ieG~~GsGKtT~~~~L 20 (200)
T cd01672 3 IVFEGIDGAGKTTLIELL 20 (200)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 6889999999999 544
No 392
>PRK06851 hypothetical protein; Provisional
Probab=53.71 E-value=12 Score=33.79 Aligned_cols=59 Identities=20% Similarity=0.279 Sum_probs=36.8
Q ss_pred cCceEeecCCCCccCC--CC----CC-CCcccc---cCCCCCCccceeEEEecC-CeEEec--CCCCCCCCCCCh
Q psy3587 20 TDNIRLCDCPGLVFPS--KV----PK-PLQVVS---VSRTPGHTKHFQTIFLTD-NIRLCD--CPGLVFPSKVPK 81 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs--N~----L~-~kk~v~---vg~~PGvTk~~Q~i~l~~-~i~LlD--tPGIv~p~~~~~ 81 (195)
++.++|-|-||+|||| .. +. +.-.+. -+.-| -++--|.+.. ++-++| +|=++.|+....
T Consensus 214 ~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~~dP---dslD~viIPel~~ai~d~t~ph~~~P~~~g~ 285 (367)
T PRK06851 214 KNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCGFDP---DSLDMVIIPELNFAIFDSTAPHEYFPSREGD 285 (367)
T ss_pred ceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCC---CCcceEEeccCCEEEEeCCCCcccCCCCCcc
Confidence 4579999999999999 22 21 111111 12333 3455566644 788998 588888876554
No 393
>KOG0057|consensus
Probab=53.43 E-value=4.4 Score=38.44 Aligned_cols=24 Identities=13% Similarity=0.106 Sum_probs=19.2
Q ss_pred EEEecCceEeecCCCCccCC--CCCC
Q psy3587 16 TIFLTDNIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 16 ~~~l~~~v~vvG~PNVGKSs--N~L~ 39 (195)
+|+-.++|+|+|-+|.|||| |.|.
T Consensus 374 ~I~kGekVaIvG~nGsGKSTilr~Ll 399 (591)
T KOG0057|consen 374 TIPKGEKVAIVGSNGSGKSTILRLLL 399 (591)
T ss_pred EecCCCEEEEECCCCCCHHHHHHHHH
Confidence 34446699999999999999 7653
No 394
>PRK14021 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional
Probab=53.31 E-value=5.5 Score=37.56 Aligned_cols=15 Identities=7% Similarity=-0.122 Sum_probs=13.9
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
.+|.+||+||+||||
T Consensus 7 ~~i~LiG~~GaGKtt 21 (542)
T PRK14021 7 PQAVIIGMMGAGKTR 21 (542)
T ss_pred ccEEEECCCCCCHHH
Confidence 479999999999999
No 395
>PRK14737 gmk guanylate kinase; Provisional
Probab=53.21 E-value=4.8 Score=32.44 Aligned_cols=34 Identities=6% Similarity=-0.143 Sum_probs=21.0
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccc
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKH 55 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~ 55 (195)
-+.|+|-+|+||+| +.|..+..--....+-.||.
T Consensus 6 ~ivl~GpsG~GK~tl~~~l~~~~~~~~~~v~~TTR~ 41 (186)
T PRK14737 6 LFIISSVAGGGKSTIIQALLEEHPDFLFSISCTTRA 41 (186)
T ss_pred EEEEECCCCCCHHHHHHHHHhcCCccccccCccCCC
Confidence 37789999999999 66654321122334444543
No 396
>PRK05480 uridine/cytidine kinase; Provisional
Probab=53.05 E-value=5.5 Score=32.12 Aligned_cols=19 Identities=11% Similarity=-0.060 Sum_probs=15.7
Q ss_pred ceEeecCCCCccCC--CCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKP 40 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~ 40 (195)
.|+|+|.+|+|||| +.|.+
T Consensus 8 iI~I~G~sGsGKTTl~~~l~~ 28 (209)
T PRK05480 8 IIGIAGGSGSGKTTVASTIYE 28 (209)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 58999999999999 55543
No 397
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=53.04 E-value=4.8 Score=31.05 Aligned_cols=19 Identities=21% Similarity=0.067 Sum_probs=12.8
Q ss_pred CceEeecCCCCccCC--CCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~ 39 (195)
..+.|.|-||+|||+ +.+.
T Consensus 25 ~~~ll~G~~G~GKT~ll~~~~ 45 (185)
T PF13191_consen 25 RNLLLTGESGSGKTSLLRALL 45 (185)
T ss_dssp --EEE-B-TTSSHHHHHHHHH
T ss_pred cEEEEECCCCCCHHHHHHHHH
Confidence 468999999999999 6544
No 398
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=53.04 E-value=5.3 Score=28.88 Aligned_cols=13 Identities=31% Similarity=0.243 Sum_probs=12.0
Q ss_pred eEeecCCCCccCC
Q psy3587 23 IRLCDCPGLVFPS 35 (195)
Q Consensus 23 v~vvG~PNVGKSs 35 (195)
|++.|-||+||++
T Consensus 1 ill~G~~G~GKT~ 13 (132)
T PF00004_consen 1 ILLHGPPGTGKTT 13 (132)
T ss_dssp EEEESSTTSSHHH
T ss_pred CEEECcCCCCeeH
Confidence 5789999999998
No 399
>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []. It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.
Probab=52.94 E-value=4.8 Score=31.98 Aligned_cols=14 Identities=21% Similarity=0.294 Sum_probs=11.8
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
++.|-|-||+||||
T Consensus 1 ~i~iTG~pG~GKTT 14 (168)
T PF03266_consen 1 HIFITGPPGVGKTT 14 (168)
T ss_dssp EEEEES-TTSSHHH
T ss_pred CEEEECcCCCCHHH
Confidence 47889999999999
No 400
>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.
Probab=52.94 E-value=5.5 Score=31.41 Aligned_cols=18 Identities=11% Similarity=-0.045 Sum_probs=14.9
Q ss_pred ceEeecCCCCccCC--CCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~ 39 (195)
-++|+|.+|+||+| +.|.
T Consensus 3 vi~i~G~~gsGKTTli~~L~ 22 (159)
T cd03116 3 VIGFVGYSGSGKTTLLEKLI 22 (159)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 48899999999999 5443
No 401
>PLN02674 adenylate kinase
Probab=52.90 E-value=5.7 Score=33.70 Aligned_cols=16 Identities=19% Similarity=0.137 Sum_probs=14.5
Q ss_pred cCceEeecCCCCccCC
Q psy3587 20 TDNIRLCDCPGLVFPS 35 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs 35 (195)
..+|.|+|-||+||+|
T Consensus 31 ~~~i~l~G~PGsGKgT 46 (244)
T PLN02674 31 DKRLILIGPPGSGKGT 46 (244)
T ss_pred CceEEEECCCCCCHHH
Confidence 3579999999999999
No 402
>PLN02199 shikimate kinase
Probab=52.86 E-value=5.7 Score=34.92 Aligned_cols=16 Identities=13% Similarity=0.013 Sum_probs=14.5
Q ss_pred cCceEeecCCCCccCC
Q psy3587 20 TDNIRLCDCPGLVFPS 35 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs 35 (195)
..+|.++|+||.||||
T Consensus 102 ~~~I~LIG~~GSGKST 117 (303)
T PLN02199 102 GRSMYLVGMMGSGKTT 117 (303)
T ss_pred CCEEEEECCCCCCHHH
Confidence 3489999999999999
No 403
>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=52.71 E-value=3.8 Score=35.02 Aligned_cols=36 Identities=14% Similarity=0.119 Sum_probs=26.5
Q ss_pred cCCCCccceeEEEEecC----ceEeecCCCCccCC--CCCCC
Q psy3587 5 SRTPGHTKHFQTIFLTD----NIRLCDCPGLVFPS--KVPKP 40 (195)
Q Consensus 5 ~~~~g~tk~~q~~~l~~----~v~vvG~PNVGKSs--N~L~~ 40 (195)
+-.-|.+++++.+.|+- -++|+|=.|+|||| |.+.|
T Consensus 10 ~~~f~~~~vl~~i~L~v~~GEfvsilGpSGcGKSTLLriiAG 51 (248)
T COG1116 10 SKSFGGVEVLEDINLSVEKGEFVAILGPSGCGKSTLLRLIAG 51 (248)
T ss_pred EEEeCceEEeccceeEECCCCEEEEECCCCCCHHHHHHHHhC
Confidence 33344577777777744 69999999999999 76554
No 404
>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=51.96 E-value=6 Score=30.75 Aligned_cols=13 Identities=23% Similarity=0.197 Sum_probs=12.0
Q ss_pred eEeecCCCCccCC
Q psy3587 23 IRLCDCPGLVFPS 35 (195)
Q Consensus 23 v~vvG~PNVGKSs 35 (195)
++++|.||+|||+
T Consensus 3 ~~~~G~~G~GKTt 15 (173)
T cd03115 3 ILLVGLQGVGKTT 15 (173)
T ss_pred EEEECCCCCCHHH
Confidence 6789999999999
No 405
>PHA02575 1 deoxynucleoside monophosphate kinase; Provisional
Probab=51.94 E-value=5.8 Score=33.45 Aligned_cols=13 Identities=8% Similarity=-0.148 Sum_probs=12.5
Q ss_pred eEeecCCCCccCC
Q psy3587 23 IRLCDCPGLVFPS 35 (195)
Q Consensus 23 v~vvG~PNVGKSs 35 (195)
|+|+|+|+.|||+
T Consensus 3 I~i~G~~gsGKst 15 (227)
T PHA02575 3 IAISGKKRSGKDT 15 (227)
T ss_pred EEEeCCCCCCHHH
Confidence 7899999999999
No 406
>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....
Probab=51.85 E-value=5.5 Score=31.85 Aligned_cols=13 Identities=15% Similarity=0.084 Sum_probs=12.5
Q ss_pred eEeecCCCCccCC
Q psy3587 23 IRLCDCPGLVFPS 35 (195)
Q Consensus 23 v~vvG~PNVGKSs 35 (195)
|+|.|.|++||||
T Consensus 2 IgI~G~sgSGKTT 14 (194)
T PF00485_consen 2 IGIAGPSGSGKTT 14 (194)
T ss_dssp EEEEESTTSSHHH
T ss_pred EEEECCCCCCHHH
Confidence 7999999999999
No 407
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=51.47 E-value=14 Score=33.89 Aligned_cols=51 Identities=16% Similarity=0.154 Sum_probs=35.3
Q ss_pred ceEeecCCCCccCC---CCC--------------------CCCc---------ccccCCCCCCccceeEEEe--cC-CeE
Q psy3587 22 NIRLCDCPGLVFPS---KVP--------------------KPLQ---------VVSVSRTPGHTKHFQTIFL--TD-NIR 66 (195)
Q Consensus 22 ~v~vvG~PNVGKSs---N~L--------------------~~kk---------~v~vg~~PGvTk~~Q~i~l--~~-~i~ 66 (195)
++.++|=++.|||| +.| .+|. ..+....=|+|-.+-..+. ++ .+.
T Consensus 9 nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet~k~~~t 88 (428)
T COG5256 9 NLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFETDKYNFT 88 (428)
T ss_pred EEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeecCCceEE
Confidence 68999999999999 322 1222 1244555688877766655 33 589
Q ss_pred EecCCC
Q psy3587 67 LCDCPG 72 (195)
Q Consensus 67 LlDtPG 72 (195)
++||||
T Consensus 89 IiDaPG 94 (428)
T COG5256 89 IIDAPG 94 (428)
T ss_pred EeeCCc
Confidence 999999
No 408
>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=50.92 E-value=21 Score=26.32 Aligned_cols=33 Identities=33% Similarity=0.592 Sum_probs=28.6
Q ss_pred cccCCCCccceeEEEEecCceEeecCCCCccCC
Q psy3587 3 SVSRTPGHTKHFQTIFLTDNIRLCDCPGLVFPS 35 (195)
Q Consensus 3 ~v~~~~g~tk~~q~~~l~~~v~vvG~PNVGKSs 35 (195)
.+++++|.|+....+..+....++++||.|.+.
T Consensus 27 ~~~~~~~~t~~~~~~~~~~~~~~~D~~g~~~~~ 59 (170)
T cd01876 27 RTSKTPGKTQLINFFNVNDKFRLVDLPGYGYAK 59 (170)
T ss_pred eecCCCCcceeEEEEEccCeEEEecCCCccccc
Confidence 468899999998888888899999999988763
No 409
>PRK07667 uridine kinase; Provisional
Probab=50.91 E-value=6.2 Score=31.70 Aligned_cols=14 Identities=0% Similarity=-0.247 Sum_probs=13.1
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
-|+|.|.||.||||
T Consensus 19 iIgI~G~~gsGKSt 32 (193)
T PRK07667 19 ILGIDGLSRSGKTT 32 (193)
T ss_pred EEEEECCCCCCHHH
Confidence 48999999999999
No 410
>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]
Probab=50.61 E-value=4.7 Score=38.06 Aligned_cols=36 Identities=17% Similarity=0.125 Sum_probs=25.3
Q ss_pred CccceeEEEEe----cCceEeecCCCCccCC--CCCCCCccc
Q psy3587 9 GHTKHFQTIFL----TDNIRLCDCPGLVFPS--KVPKPLQVV 44 (195)
Q Consensus 9 g~tk~~q~~~l----~~~v~vvG~PNVGKSs--N~L~~kk~v 44 (195)
|-...|..+.+ ..++++||..|.|||| +.|.|.-..
T Consensus 14 g~~~l~~~~~l~~~~G~riGLvG~NGaGKSTLLkilaG~~~~ 55 (530)
T COG0488 14 GDRPLLENVSLTLNPGERIGLVGRNGAGKSTLLKILAGELEP 55 (530)
T ss_pred CCceeecCCcceeCCCCEEEEECCCCCCHHHHHHHHcCCCcC
Confidence 33444444444 3499999999999999 777776533
No 411
>KOG0066|consensus
Probab=50.39 E-value=4.3 Score=38.04 Aligned_cols=26 Identities=15% Similarity=0.065 Sum_probs=20.6
Q ss_pred EEEecCceEeecCCCCccCC--CCCCCC
Q psy3587 16 TIFLTDNIRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 16 ~~~l~~~v~vvG~PNVGKSs--N~L~~k 41 (195)
.|.++.+|+|||-.|||||| -.|.|+
T Consensus 609 GiDmdSRiaIVGPNGVGKSTlLkLL~Gk 636 (807)
T KOG0066|consen 609 GIDMDSRIAIVGPNGVGKSTLLKLLIGK 636 (807)
T ss_pred cccccceeEEECCCCccHHHHHHHHhcC
Confidence 46678899999999999999 344443
No 412
>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]
Probab=49.99 E-value=6.5 Score=32.37 Aligned_cols=18 Identities=22% Similarity=0.051 Sum_probs=14.9
Q ss_pred ceEeecCCCCccCC--CCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~ 39 (195)
-|+|.|.|++|||| +.+.
T Consensus 4 iIglTG~igsGKStva~~~~ 23 (201)
T COG0237 4 IIGLTGGIGSGKSTVAKILA 23 (201)
T ss_pred EEEEecCCCCCHHHHHHHHH
Confidence 48999999999999 5443
No 413
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=49.92 E-value=7.3 Score=27.91 Aligned_cols=15 Identities=27% Similarity=0.297 Sum_probs=13.8
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
..++|.|-||+||++
T Consensus 20 ~~v~i~G~~G~GKT~ 34 (151)
T cd00009 20 KNLLLYGPPGTGKTT 34 (151)
T ss_pred CeEEEECCCCCCHHH
Confidence 469999999999998
No 414
>PRK06547 hypothetical protein; Provisional
Probab=49.77 E-value=6.6 Score=31.27 Aligned_cols=18 Identities=6% Similarity=-0.088 Sum_probs=14.9
Q ss_pred ceEeecCCCCccCC--CCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~ 39 (195)
.|+|.|.+|+|||| +.|.
T Consensus 17 ~i~i~G~~GsGKTt~a~~l~ 36 (172)
T PRK06547 17 TVLIDGRSGSGKTTLAGALA 36 (172)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 58888999999999 5554
No 415
>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=49.72 E-value=13 Score=31.77 Aligned_cols=29 Identities=14% Similarity=0.174 Sum_probs=25.7
Q ss_pred CCCccceeEEEEecC----ceEeecCCCCccCC
Q psy3587 7 TPGHTKHFQTIFLTD----NIRLCDCPGLVFPS 35 (195)
Q Consensus 7 ~~g~tk~~q~~~l~~----~v~vvG~PNVGKSs 35 (195)
-||.++.+..|.+.- -|.|||-.|.||||
T Consensus 13 yp~~~~aL~~Vnl~I~~GE~VaiIG~SGaGKST 45 (258)
T COG3638 13 YPGGHQALKDVNLEINQGEMVAIIGPSGAGKST 45 (258)
T ss_pred cCCCceeeeeEeEEeCCCcEEEEECCCCCcHHH
Confidence 468899999988865 69999999999999
No 416
>PRK03846 adenylylsulfate kinase; Provisional
Probab=49.37 E-value=6.8 Score=31.47 Aligned_cols=15 Identities=7% Similarity=-0.077 Sum_probs=13.5
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
.-+.++|.||+||||
T Consensus 25 ~~i~i~G~~GsGKST 39 (198)
T PRK03846 25 VVLWFTGLSGSGKST 39 (198)
T ss_pred EEEEEECCCCCCHHH
Confidence 368999999999999
No 417
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=49.21 E-value=6.8 Score=31.19 Aligned_cols=17 Identities=12% Similarity=0.034 Sum_probs=14.2
Q ss_pred eEeecCCCCccCC--CCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~ 39 (195)
|+|.|.||+|||| +.|.
T Consensus 2 i~i~G~sgsGKttla~~l~ 20 (179)
T cd02028 2 VGIAGPSGSGKTTFAKKLS 20 (179)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 7899999999999 5443
No 418
>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=49.03 E-value=8.9 Score=32.76 Aligned_cols=20 Identities=10% Similarity=0.099 Sum_probs=16.3
Q ss_pred CceEeecCCCCccCC--CCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKP 40 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~ 40 (195)
.++++||.+|.|||| +-|.|
T Consensus 54 e~vGiiG~NGaGKSTLlkliaG 75 (249)
T COG1134 54 ERVGIIGHNGAGKSTLLKLIAG 75 (249)
T ss_pred CEEEEECCCCCcHHHHHHHHhC
Confidence 389999999999999 44443
No 419
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=49.00 E-value=4.4 Score=34.28 Aligned_cols=17 Identities=29% Similarity=0.206 Sum_probs=13.7
Q ss_pred eEeecCCCCccCC--CCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~ 39 (195)
|.+-|+|++||++ +.|+
T Consensus 4 iIlTGyPgsGKTtfakeLa 22 (261)
T COG4088 4 IILTGYPGSGKTTFAKELA 22 (261)
T ss_pred EEEecCCCCCchHHHHHHH
Confidence 5677999999999 5554
No 420
>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+). This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.
Probab=48.95 E-value=6.8 Score=31.80 Aligned_cols=18 Identities=6% Similarity=0.036 Sum_probs=14.6
Q ss_pred eEeecCCCCccCC--CCCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPKP 40 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~~ 40 (195)
|+|.|.||.|||| +.|..
T Consensus 2 i~i~G~sgsGKTtla~~l~~ 21 (187)
T cd02024 2 VGISGVTNSGKTTLAKLLQR 21 (187)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 7899999999999 54443
No 421
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=48.92 E-value=6.2 Score=31.88 Aligned_cols=13 Identities=23% Similarity=0.258 Sum_probs=11.6
Q ss_pred eEeecCCCCccCC
Q psy3587 23 IRLCDCPGLVFPS 35 (195)
Q Consensus 23 v~vvG~PNVGKSs 35 (195)
+.|.|.||.|||+
T Consensus 1 ~vv~G~pGsGKSt 13 (234)
T PF01443_consen 1 IVVHGVPGSGKST 13 (234)
T ss_pred CEEEcCCCCCHHH
Confidence 4688999999999
No 422
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=48.76 E-value=7 Score=31.00 Aligned_cols=20 Identities=20% Similarity=-0.002 Sum_probs=16.3
Q ss_pred CceEeecCCCCccCC--CCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKP 40 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~ 40 (195)
..+.|+|.+|+|||| +.|.+
T Consensus 3 ~~i~l~G~sGsGKsTl~~~l~~ 24 (186)
T PRK10078 3 KLIWLMGPSGSGKDSLLAALRQ 24 (186)
T ss_pred cEEEEECCCCCCHHHHHHHHhc
Confidence 358899999999999 66643
No 423
>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=48.73 E-value=7.1 Score=33.71 Aligned_cols=16 Identities=13% Similarity=0.285 Sum_probs=14.1
Q ss_pred cCceEeecCCCCccCC
Q psy3587 20 TDNIRLCDCPGLVFPS 35 (195)
Q Consensus 20 ~~~v~vvG~PNVGKSs 35 (195)
...++|+|.||+||||
T Consensus 34 ~~~i~i~G~~G~GKtt 49 (300)
T TIGR00750 34 AHRVGITGTPGAGKST 49 (300)
T ss_pred ceEEEEECCCCCCHHH
Confidence 3478999999999999
No 424
>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=48.56 E-value=30 Score=24.73 Aligned_cols=34 Identities=26% Similarity=0.336 Sum_probs=25.9
Q ss_pred ccccCCCCccceeEE--EEecC-ceEeecCCCCccCC
Q psy3587 2 VSVSRTPGHTKHFQT--IFLTD-NIRLCDCPGLVFPS 35 (195)
Q Consensus 2 ~~v~~~~g~tk~~q~--~~l~~-~v~vvG~PNVGKSs 35 (195)
+.+|..||.|+..++ +.+.. .+.++|.||.....
T Consensus 25 ~~~~~~~~~T~~~~~~~~~~~~~~~~~vDtpG~~~~~ 61 (116)
T PF01926_consen 25 AKVSNIPGTTRDPVYGQFEYNNKKFILVDTPGINDGE 61 (116)
T ss_dssp SEESSSTTSSSSEEEEEEEETTEEEEEEESSSCSSSS
T ss_pred ccccccccceeeeeeeeeeeceeeEEEEeCCCCcccc
Confidence 468899999998844 34544 67899999988654
No 425
>KOG2485|consensus
Probab=48.40 E-value=18 Score=32.16 Aligned_cols=35 Identities=31% Similarity=0.600 Sum_probs=28.9
Q ss_pred CccccCCCCccceeEE-EEecC--ceEeecCCCCccCC
Q psy3587 1 VVSVSRTPGHTKHFQT-IFLTD--NIRLCDCPGLVFPS 35 (195)
Q Consensus 1 ~~~v~~~~g~tk~~q~-~~l~~--~v~vvG~PNVGKSs 35 (195)
++.|++-||.|+..++ +.+.. -|.+++-|||+-.+
T Consensus 173 ~a~vG~~pGVT~~V~~~iri~~rp~vy~iDTPGil~P~ 210 (335)
T KOG2485|consen 173 AARVGAEPGVTRRVSERIRISHRPPVYLIDTPGILVPS 210 (335)
T ss_pred ceeccCCCCceeeehhheEeccCCceEEecCCCcCCCC
Confidence 3679999999999999 55533 79999999999665
No 426
>KOG1533|consensus
Probab=48.18 E-value=9.4 Score=32.85 Aligned_cols=24 Identities=17% Similarity=-0.014 Sum_probs=17.4
Q ss_pred eEeecCCCCccCC--CC------CCCCccccc
Q psy3587 23 IRLCDCPGLVFPS--KV------PKPLQVVSV 46 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~------L~~kk~v~v 46 (195)
-.|||=||.|||| |. ..||++.-|
T Consensus 5 qvVIGPPgSGKsTYc~g~~~fls~~gr~~~vV 36 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMSQFLSAIGRPVAVV 36 (290)
T ss_pred eEEEcCCCCCccchhhhHHHHHHHhCCceEEE
Confidence 4689999999999 53 356655543
No 427
>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model. AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.
Probab=47.89 E-value=4 Score=31.56 Aligned_cols=14 Identities=21% Similarity=0.339 Sum_probs=9.3
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
++++.|.|||||++
T Consensus 1 HvLleg~PG~GKT~ 14 (131)
T PF07726_consen 1 HVLLEGVPGVGKTT 14 (131)
T ss_dssp -EEEES---HHHHH
T ss_pred CEeeECCCccHHHH
Confidence 47899999999998
No 428
>TIGR00554 panK_bact pantothenate kinase, bacterial type. Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.
Probab=47.72 E-value=7.2 Score=33.93 Aligned_cols=14 Identities=7% Similarity=0.010 Sum_probs=13.3
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
-|+|.|.+|+||||
T Consensus 64 IIGIaG~~GSGKST 77 (290)
T TIGR00554 64 IISIAGSVAVGKST 77 (290)
T ss_pred EEEEECCCCCCHHH
Confidence 58999999999999
No 429
>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=47.19 E-value=11 Score=31.93 Aligned_cols=39 Identities=10% Similarity=-0.112 Sum_probs=25.7
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL 61 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l 61 (195)
.+.|||-.|+|||| |+|.+.....++.- -+||.--.+.+
T Consensus 28 ~i~vvG~~~~GKSt~l~~i~g~~~~~~~~g-~~t~~p~~i~l 68 (240)
T smart00053 28 QIAVVGGQSAGKSSVLENFVGRDFLPRGSG-IVTRRPLILQL 68 (240)
T ss_pred eEEEEcCCCccHHHHHHHHhCCCccccCCC-cccccceEEEc
Confidence 69999999999999 88887653333321 24554444443
No 430
>TIGR00235 udk uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below
Probab=46.81 E-value=7.8 Score=31.30 Aligned_cols=18 Identities=11% Similarity=-0.084 Sum_probs=15.2
Q ss_pred ceEeecCCCCccCC--CCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~ 39 (195)
-++|+|.+|.|||| +.|.
T Consensus 8 vi~I~G~sGsGKSTl~~~l~ 27 (207)
T TIGR00235 8 IIGIGGGSGSGKTTVARKIY 27 (207)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 48999999999999 5554
No 431
>KOG0075|consensus
Probab=46.39 E-value=22 Score=28.55 Aligned_cols=48 Identities=21% Similarity=0.181 Sum_probs=32.0
Q ss_pred ceEeecCCCCccCC--CCCCC-CcccccCCCCCCccceeEEEecC---CeEEecCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKP-LQVVSVSRTPGHTKHFQTIFLTD---NIRLCDCPGL 73 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~-kk~v~vg~~PGvTk~~Q~i~l~~---~i~LlDtPGI 73 (195)
.+.++|.-|.||+| |.+.. .-.--++++-| ..--++.+ .|.+.|-||-
T Consensus 22 el~lvGLq~sGKtt~Vn~ia~g~~~edmiptvG----fnmrk~tkgnvtiklwD~gGq 75 (186)
T KOG0075|consen 22 ELSLVGLQNSGKTTLVNVIARGQYLEDMIPTVG----FNMRKVTKGNVTIKLWDLGGQ 75 (186)
T ss_pred eEEEEeeccCCcceEEEEEeeccchhhhccccc----ceeEEeccCceEEEEEecCCC
Confidence 57899999999999 87653 44444555433 33333332 4778899995
No 432
>KOG0090|consensus
Probab=46.31 E-value=34 Score=28.93 Aligned_cols=50 Identities=22% Similarity=0.150 Sum_probs=30.7
Q ss_pred CceEeecCCCCccCC--CCCCCC--cccccCCCCCCccceeEEEe-cCCeEEecCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPL--QVVSVSRTPGHTKHFQTIFL-TDNIRLCDCPGLV 74 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~k--k~v~vg~~PGvTk~~Q~i~l-~~~i~LlDtPGIv 74 (195)
+.|.++|.-|.||.+ ..|.-+ +..-++-.|- .-..++ +....|+|-||-.
T Consensus 39 ~~Vll~Gl~dSGKT~LF~qL~~gs~~~TvtSiepn----~a~~r~gs~~~~LVD~PGH~ 93 (238)
T KOG0090|consen 39 NAVLLVGLSDSGKTSLFTQLITGSHRGTVTSIEPN----EATYRLGSENVTLVDLPGHS 93 (238)
T ss_pred CcEEEEecCCCCceeeeeehhcCCccCeeeeeccc----eeeEeecCcceEEEeCCCcH
Confidence 479999999999999 445422 1222333331 112334 3457999999964
No 433
>PRK12338 hypothetical protein; Provisional
Probab=46.23 E-value=8.2 Score=34.16 Aligned_cols=37 Identities=14% Similarity=-0.038 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHcCcccccCCcccHHHHHHHHHHHHHcCC
Q psy3587 128 AMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGR 166 (195)
Q Consensus 128 ~~e~L~~iA~k~g~l~~kgG~~D~~rAa~~~L~d~~~Gk 166 (195)
.++.|...|++++... =...|++++...++..+++=.
T Consensus 170 Iq~~l~~~A~e~~Vpv--I~N~did~Tv~~ile~I~e~s 206 (319)
T PRK12338 170 IHDHLVEQAREHNVPV--IKNDDIDCTVKKMLSYIREVC 206 (319)
T ss_pred HHHHHHHhHhhCCCce--eCCCcHHHHHHHHHHHHHhhe
Confidence 5566666677777652 234588888888888887754
No 434
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=46.07 E-value=6.1 Score=30.05 Aligned_cols=19 Identities=21% Similarity=0.015 Sum_probs=15.6
Q ss_pred eEeecCCCCccCC--CCCCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~~k 41 (195)
+.|+|-+|+|||| +.|.+.
T Consensus 2 i~i~GpsGsGKstl~~~L~~~ 22 (137)
T cd00071 2 IVLSGPSGVGKSTLLKRLLEE 22 (137)
T ss_pred EEEECCCCCCHHHHHHHHHhc
Confidence 5789999999999 766553
No 435
>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=45.92 E-value=10 Score=31.96 Aligned_cols=25 Identities=12% Similarity=0.113 Sum_probs=19.3
Q ss_pred cceeEEEEe----cCceEeecCCCCccCC
Q psy3587 11 TKHFQTIFL----TDNIRLCDCPGLVFPS 35 (195)
Q Consensus 11 tk~~q~~~l----~~~v~vvG~PNVGKSs 35 (195)
+..+..+.+ ...++++|-+|.||||
T Consensus 17 ~~~l~~v~~~i~~Ge~~~i~G~nGsGKST 45 (235)
T COG1122 17 KAALKDVSLEIEKGERVLLIGPNGSGKST 45 (235)
T ss_pred ceeeeeeEEEECCCCEEEEECCCCCCHHH
Confidence 555555555 3389999999999999
No 436
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=45.63 E-value=8 Score=31.95 Aligned_cols=17 Identities=12% Similarity=0.151 Sum_probs=14.4
Q ss_pred eEeecCCCCccCC--CCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~ 39 (195)
++|.|.+|.|||| +.|.
T Consensus 2 igI~G~sGSGKTTla~~L~ 20 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQ 20 (220)
T ss_pred EEeeCCCCCCHHHHHHHHH
Confidence 7899999999999 5544
No 437
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=45.52 E-value=7.5 Score=28.25 Aligned_cols=18 Identities=17% Similarity=0.067 Sum_probs=13.2
Q ss_pred ceEeecCCCCccCC--CCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~ 39 (195)
.+.|.|-||+|||+ +.+.
T Consensus 6 ~~~i~G~~G~GKT~~~~~~~ 25 (131)
T PF13401_consen 6 ILVISGPPGSGKTTLIKRLA 25 (131)
T ss_dssp -EEEEE-TTSSHHHHHHHHH
T ss_pred ccEEEcCCCCCHHHHHHHHH
Confidence 57899999999999 5443
No 438
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=45.44 E-value=8.6 Score=28.49 Aligned_cols=13 Identities=15% Similarity=-0.013 Sum_probs=12.2
Q ss_pred eEeecCCCCccCC
Q psy3587 23 IRLCDCPGLVFPS 35 (195)
Q Consensus 23 v~vvG~PNVGKSs 35 (195)
++|+|-||+|||+
T Consensus 2 ~~i~G~~G~GKT~ 14 (165)
T cd01120 2 ILVFGPTGSGKTT 14 (165)
T ss_pred eeEeCCCCCCHHH
Confidence 6899999999999
No 439
>KOG0073|consensus
Probab=45.41 E-value=29 Score=28.16 Aligned_cols=49 Identities=18% Similarity=0.049 Sum_probs=36.2
Q ss_pred ceEeecCCCCccCC--CCCCCCcccccCCCCCCccceeEEEe---cCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPLQVVSVSRTPGHTKHFQTIFL---TDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~kk~v~vg~~PGvTk~~Q~i~l---~~~i~LlDtPGIv 74 (195)
+|.++|.-|.||.+ +.+.+.-.-.+++ |.+.|.-.+ +-.+.+.|-=|-.
T Consensus 18 riLiLGLdNsGKTti~~kl~~~~~~~i~p----t~gf~Iktl~~~~~~L~iwDvGGq~ 71 (185)
T KOG0073|consen 18 RILILGLDNSGKTTIVKKLLGEDTDTISP----TLGFQIKTLEYKGYTLNIWDVGGQK 71 (185)
T ss_pred EEEEEecCCCCchhHHHHhcCCCccccCC----ccceeeEEEEecceEEEEEEcCCcc
Confidence 79999999999999 8888888777777 444554333 2357788877654
No 440
>TIGR01618 phage_P_loop phage nucleotide-binding protein. This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.
Probab=45.20 E-value=9.1 Score=31.97 Aligned_cols=21 Identities=19% Similarity=0.056 Sum_probs=16.4
Q ss_pred EEEEe-cCceEeecCCCCccCC
Q psy3587 15 QTIFL-TDNIRLCDCPGLVFPS 35 (195)
Q Consensus 15 q~~~l-~~~v~vvG~PNVGKSs 35 (195)
.+|.- ...++++|-||+||||
T Consensus 6 ~~~~~~~~~~liyG~~G~GKtt 27 (220)
T TIGR01618 6 GNIKRIPNMYLIYGKPGTGKTS 27 (220)
T ss_pred cccCCCCcEEEEECCCCCCHHH
Confidence 34443 3479999999999999
No 441
>PRK13808 adenylate kinase; Provisional
Probab=45.16 E-value=8.5 Score=34.24 Aligned_cols=14 Identities=21% Similarity=0.157 Sum_probs=13.1
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
+|.|+|.||+||+|
T Consensus 2 rIiv~GpPGSGK~T 15 (333)
T PRK13808 2 RLILLGPPGAGKGT 15 (333)
T ss_pred EEEEECCCCCCHHH
Confidence 58999999999998
No 442
>PTZ00301 uridine kinase; Provisional
Probab=45.09 E-value=8.5 Score=31.76 Aligned_cols=17 Identities=18% Similarity=0.012 Sum_probs=14.4
Q ss_pred ceEeecCCCCccCC--CCC
Q psy3587 22 NIRLCDCPGLVFPS--KVP 38 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L 38 (195)
=|+|.|.||.|||| +.|
T Consensus 5 iIgIaG~SgSGKTTla~~l 23 (210)
T PTZ00301 5 VIGISGASGSGKSSLSTNI 23 (210)
T ss_pred EEEEECCCcCCHHHHHHHH
Confidence 38999999999999 544
No 443
>PRK14974 cell division protein FtsY; Provisional
Probab=45.05 E-value=8.9 Score=34.09 Aligned_cols=15 Identities=13% Similarity=-0.033 Sum_probs=13.7
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
.-++++|.||+||+|
T Consensus 141 ~vi~~~G~~GvGKTT 155 (336)
T PRK14974 141 VVIVFVGVNGTGKTT 155 (336)
T ss_pred eEEEEEcCCCCCHHH
Confidence 369999999999998
No 444
>KOG0079|consensus
Probab=44.94 E-value=13 Score=29.80 Aligned_cols=14 Identities=14% Similarity=0.116 Sum_probs=12.4
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
..+|+|=|+|||||
T Consensus 10 kllIigDsgVGKss 23 (198)
T KOG0079|consen 10 KLLIIGDSGVGKSS 23 (198)
T ss_pred HHHeecCCcccHHH
Confidence 46788999999998
No 445
>TIGR02173 cyt_kin_arch cytidylate kinase, putative. Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.
Probab=44.37 E-value=9.1 Score=29.28 Aligned_cols=17 Identities=24% Similarity=0.284 Sum_probs=14.4
Q ss_pred eEeecCCCCccCC--CCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~ 39 (195)
|+|.|.||+|||+ +.|.
T Consensus 3 I~i~G~~GSGKstia~~la 21 (171)
T TIGR02173 3 ITISGPPGSGKTTVAKILA 21 (171)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 7899999999999 5553
No 446
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=43.72 E-value=9 Score=30.96 Aligned_cols=17 Identities=12% Similarity=0.137 Sum_probs=14.9
Q ss_pred ceEeecCCCCccCC--CCC
Q psy3587 22 NIRLCDCPGLVFPS--KVP 38 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L 38 (195)
.+.++|++|+||+| |.+
T Consensus 24 ~i~~~G~~gsGKTTli~~l 42 (207)
T TIGR00073 24 VLNFMSSPGSGKTTLIEKL 42 (207)
T ss_pred EEEEECCCCCCHHHHHHHH
Confidence 68999999999999 554
No 447
>PRK06696 uridine kinase; Validated
Probab=43.51 E-value=9.6 Score=31.22 Aligned_cols=18 Identities=0% Similarity=-0.167 Sum_probs=15.1
Q ss_pred ceEeecCCCCccCC--CCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~ 39 (195)
-|+|.|.|+.|||| +.|.
T Consensus 24 iI~I~G~sgsGKSTlA~~L~ 43 (223)
T PRK06696 24 RVAIDGITASGKTTFADELA 43 (223)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 59999999999999 5443
No 448
>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=43.20 E-value=17 Score=28.70 Aligned_cols=29 Identities=28% Similarity=0.481 Sum_probs=20.0
Q ss_pred cccCCCCccceeEEEEec---CceEeecCCCC
Q psy3587 3 SVSRTPGHTKHFQTIFLT---DNIRLCDCPGL 31 (195)
Q Consensus 3 ~v~~~~g~tk~~q~~~l~---~~v~vvG~PNV 31 (195)
.||..||.|.-...-.+. ..+.+||.||+
T Consensus 26 ~v~n~pG~Tv~~~~g~~~~~~~~~~lvDlPG~ 57 (156)
T PF02421_consen 26 KVGNWPGTTVEKKEGIFKLGDQQVELVDLPGI 57 (156)
T ss_dssp EEEESTTSSSEEEEEEEEETTEEEEEEE----
T ss_pred eecCCCCCCeeeeeEEEEecCceEEEEECCCc
Confidence 588999999987764444 48999999997
No 449
>PF11776 DUF3315: Domain of unknown function (DUF3315); InterPro: IPR024572 This is a bacterial family of uncharacterised proteins, which include YohN from Escherichia coli K12.; PDB: 2L1S_A.
Probab=42.90 E-value=22 Score=22.80 Aligned_cols=22 Identities=9% Similarity=0.323 Sum_probs=16.3
Q ss_pred ccceeEEEecCCeEEec-CCCCC
Q psy3587 53 TKHFQTIFLTDNIRLCD-CPGLV 74 (195)
Q Consensus 53 Tk~~Q~i~l~~~i~LlD-tPGIv 74 (195)
-++-+|++++.++.|+| +=|++
T Consensus 27 p~G~~Wvrv~~dyvLv~~~tG~I 49 (52)
T PF11776_consen 27 PRGYHWVRVGGDYVLVAIATGII 49 (52)
T ss_dssp -TTEEEEE-SSEEEEEETTT-BE
T ss_pred CCCCEeEEECCeEEEEEcCCCeE
Confidence 47789999999999999 56665
No 450
>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=42.64 E-value=7.3 Score=32.71 Aligned_cols=11 Identities=9% Similarity=-0.073 Sum_probs=9.7
Q ss_pred eecCCCCccCC
Q psy3587 25 LCDCPGLVFPS 35 (195)
Q Consensus 25 vvG~PNVGKSs 35 (195)
|+|.||+||||
T Consensus 1 ViGpaGSGKTT 11 (238)
T PF03029_consen 1 VIGPAGSGKTT 11 (238)
T ss_dssp -EESTTSSHHH
T ss_pred CCCCCCCCHHH
Confidence 68999999999
No 451
>COG3911 Predicted ATPase [General function prediction only]
Probab=42.59 E-value=5.4 Score=32.04 Aligned_cols=26 Identities=15% Similarity=0.105 Sum_probs=20.3
Q ss_pred CceEeecCCCCccCC--CCCCCCccccc
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPLQVVSV 46 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~kk~v~v 46 (195)
|.+.+-|+||.||++ |+|..+.-+-+
T Consensus 10 ~~fIltGgpGaGKTtLL~aLa~~Gfatv 37 (183)
T COG3911 10 KRFILTGGPGAGKTTLLAALARAGFATV 37 (183)
T ss_pred eEEEEeCCCCCcHHHHHHHHHHcCceee
Confidence 467788999999999 88876664433
No 452
>PLN02459 probable adenylate kinase
Probab=41.99 E-value=10 Score=32.56 Aligned_cols=14 Identities=29% Similarity=0.510 Sum_probs=12.8
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
++.|+|-||+||+|
T Consensus 31 ~ii~~G~PGsGK~T 44 (261)
T PLN02459 31 NWVFLGCPGVGKGT 44 (261)
T ss_pred EEEEECCCCCCHHH
Confidence 57889999999999
No 453
>PRK13695 putative NTPase; Provisional
Probab=41.99 E-value=10 Score=29.64 Aligned_cols=14 Identities=21% Similarity=0.337 Sum_probs=13.0
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
+++|+|-||+||||
T Consensus 2 ~i~ltG~~G~GKTT 15 (174)
T PRK13695 2 KIGITGPPGVGKTT 15 (174)
T ss_pred EEEEECCCCCCHHH
Confidence 57899999999999
No 454
>TIGR00152 dephospho-CoA kinase. This model produces scores in the range of 0-25 bits against adenylate, guanylate, uridine, and thymidylate kinases.
Probab=41.76 E-value=10 Score=30.01 Aligned_cols=17 Identities=18% Similarity=-0.021 Sum_probs=14.4
Q ss_pred eEeecCCCCccCC--CCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~ 39 (195)
|+|.|-|+.|||| +.|.
T Consensus 2 i~itG~~gsGKst~~~~l~ 20 (188)
T TIGR00152 2 IGLTGGIGSGKSTVANYLA 20 (188)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 7899999999999 5443
No 455
>KOG3859|consensus
Probab=41.67 E-value=12 Score=33.16 Aligned_cols=53 Identities=19% Similarity=0.096 Sum_probs=33.8
Q ss_pred ceEeecCCCCccCC--CCCCCC---cccccCCCCCC-----ccceeEEEecCCeEEecCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPL---QVVSVSRTPGH-----TKHFQTIFLTDNIRLCDCPGLV 74 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~k---k~v~vg~~PGv-----Tk~~Q~i~l~~~i~LlDtPGIv 74 (195)
+|+.||=.|.|||| +.|.+- .--+....|+| |..+|.-.+.=.+.++||-|.-
T Consensus 44 NilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvGfG 106 (406)
T KOG3859|consen 44 NILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVGFG 106 (406)
T ss_pred EEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecccc
Confidence 79999999999999 444321 11233444544 5555553333458899998865
No 456
>TIGR01166 cbiO cobalt transport protein ATP-binding subunit. This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.
Probab=41.45 E-value=10 Score=30.03 Aligned_cols=32 Identities=9% Similarity=0.081 Sum_probs=22.7
Q ss_pred CccceeEEEEec----CceEeecCCCCccCC--CCCCC
Q psy3587 9 GHTKHFQTIFLT----DNIRLCDCPGLVFPS--KVPKP 40 (195)
Q Consensus 9 g~tk~~q~~~l~----~~v~vvG~PNVGKSs--N~L~~ 40 (195)
|....++.+.++ ..++|+|-.|.|||| +.|.|
T Consensus 3 ~~~~il~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~i~G 40 (190)
T TIGR01166 3 GGPEVLKGLNFAAERGEVLALLGANGAGKSTLLLHLNG 40 (190)
T ss_pred CccceecceeEEEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence 344455555543 379999999999999 66554
No 457
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=41.43 E-value=11 Score=29.74 Aligned_cols=20 Identities=15% Similarity=-0.017 Sum_probs=15.7
Q ss_pred CceEeecCCCCccCC--CCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKP 40 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~ 40 (195)
.-+.++|.||.|||| +.|.+
T Consensus 19 ~~i~i~G~~GsGKstla~~l~~ 40 (184)
T TIGR00455 19 VVIWLTGLSGSGKSTIANALEK 40 (184)
T ss_pred eEEEEECCCCCCHHHHHHHHHH
Confidence 358899999999999 54443
No 458
>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=41.04 E-value=11 Score=32.38 Aligned_cols=15 Identities=13% Similarity=0.144 Sum_probs=13.6
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
+.++++|-||+||+|
T Consensus 73 ~vi~l~G~~G~GKTT 87 (272)
T TIGR00064 73 NVILFVGVNGVGKTT 87 (272)
T ss_pred eEEEEECCCCCcHHH
Confidence 368999999999998
No 459
>PRK14730 coaE dephospho-CoA kinase; Provisional
Probab=41.03 E-value=11 Score=30.52 Aligned_cols=18 Identities=11% Similarity=-0.127 Sum_probs=15.1
Q ss_pred ceEeecCCCCccCC--CCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~ 39 (195)
.|+|+|-||.|||+ +.|.
T Consensus 3 ~i~itG~~gsGKst~~~~l~ 22 (195)
T PRK14730 3 RIGLTGGIASGKSTVGNYLA 22 (195)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 58999999999999 5444
No 460
>PRK13951 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional
Probab=40.73 E-value=11 Score=35.22 Aligned_cols=14 Identities=21% Similarity=0.043 Sum_probs=13.1
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
+|.++|+|++||||
T Consensus 2 ~I~l~G~~GsGKST 15 (488)
T PRK13951 2 RIFLVGMMGSGKST 15 (488)
T ss_pred eEEEECCCCCCHHH
Confidence 58999999999999
No 461
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=40.56 E-value=10 Score=33.15 Aligned_cols=13 Identities=23% Similarity=0.381 Sum_probs=12.5
Q ss_pred eEeecCCCCccCC
Q psy3587 23 IRLCDCPGLVFPS 35 (195)
Q Consensus 23 v~vvG~PNVGKSs 35 (195)
+.|+|.||.||+|
T Consensus 107 v~l~G~pGsGKTT 119 (290)
T PRK10463 107 LNLVSSPGSGKTT 119 (290)
T ss_pred EEEECCCCCCHHH
Confidence 8899999999999
No 462
>COG5405 HslV ATP-dependent protease HslVU (ClpYQ), peptidase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=40.30 E-value=37 Score=27.39 Aligned_cols=35 Identities=26% Similarity=0.338 Sum_probs=28.4
Q ss_pred CHHHHHHHHHHHcCcccccCCcccHHHHHHHHHHHHHcCC
Q psy3587 127 CAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATEGR 166 (195)
Q Consensus 127 ~~~e~L~~iA~k~g~l~~kgG~~D~~rAa~~~L~d~~~Gk 166 (195)
|...+|+.+..+.... + | |+.|||-.+.+|||.-|
T Consensus 56 DaftLfe~fe~kle~~--~-g--~L~raavelaKdwr~Dk 90 (178)
T COG5405 56 DAFTLFERFEAKLEQY--Q-G--DLFRAAVELAKDWRTDK 90 (178)
T ss_pred hHHHHHHHHHHHHHHc--c-C--cHHHHHHHHHHhhhhhh
Confidence 6777888888887643 2 3 89999999999999876
No 463
>COG0411 LivG ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]
Probab=40.15 E-value=16 Score=31.27 Aligned_cols=48 Identities=13% Similarity=0.129 Sum_probs=32.9
Q ss_pred ceEeecCCCCccCC--CCCCC-------------CcccccC----CCCCCccceeEEEecCCeEEec
Q psy3587 22 NIRLCDCPGLVFPS--KVPKP-------------LQVVSVS----RTPGHTKHFQTIFLTDNIRLCD 69 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~-------------kk~v~vg----~~PGvTk~~Q~i~l~~~i~LlD 69 (195)
-+++||=.|.|||| |.+.| +...... ++-|+.|..|.+++=+++..+|
T Consensus 32 i~~LIGPNGAGKTTlfNlitG~~~P~~G~v~~~G~~it~l~p~~iar~Gi~RTFQ~~rlF~~lTVlE 98 (250)
T COG0411 32 IVGLIGPNGAGKTTLFNLITGFYKPSSGTVIFRGRDITGLPPHRIARLGIARTFQITRLFPGLTVLE 98 (250)
T ss_pred EEEEECCCCCCceeeeeeecccccCCCceEEECCcccCCCCHHHHHhccceeecccccccCCCcHHH
Confidence 68999999999999 87642 2111111 2449999999998755555544
No 464
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=40.11 E-value=12 Score=29.30 Aligned_cols=13 Identities=0% Similarity=-0.079 Sum_probs=12.1
Q ss_pred eEeecCCCCccCC
Q psy3587 23 IRLCDCPGLVFPS 35 (195)
Q Consensus 23 v~vvG~PNVGKSs 35 (195)
+.|+|.+|+||+|
T Consensus 2 i~i~G~~gsGKTt 14 (155)
T TIGR00176 2 LQIVGPKNSGKTT 14 (155)
T ss_pred EEEECCCCCCHHH
Confidence 6799999999999
No 465
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=39.58 E-value=11 Score=30.28 Aligned_cols=14 Identities=7% Similarity=0.047 Sum_probs=13.0
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
-++|+|.+|.||+|
T Consensus 8 ii~ivG~sgsGKTT 21 (173)
T PRK10751 8 LLAIAAWSGTGKTT 21 (173)
T ss_pred EEEEECCCCChHHH
Confidence 47899999999999
No 466
>PF13270 DUF4061: Domain of unknown function (DUF4061)
Probab=39.51 E-value=18 Score=26.05 Aligned_cols=22 Identities=14% Similarity=0.025 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHcCCcceEeC
Q psy3587 151 SYRAANELLRMATEGRICLCLM 172 (195)
Q Consensus 151 ~~rAa~~~L~d~~~Gkl~~~~~ 172 (195)
++++--.+|.||++||+.+|-.
T Consensus 7 mE~~Ll~Ll~dF~sGkl~aFG~ 28 (90)
T PF13270_consen 7 MEKGLLQLLEDFHSGKLQAFGK 28 (90)
T ss_pred HHHHHHHHHHHHhhhHHHHcCC
Confidence 3567778999999999988843
No 467
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=38.98 E-value=13 Score=35.19 Aligned_cols=14 Identities=14% Similarity=0.078 Sum_probs=12.8
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
=|.++|+||.||||
T Consensus 371 LVil~G~pGSGKST 384 (526)
T TIGR01663 371 MVIAVGFPGAGKSH 384 (526)
T ss_pred EEEEECCCCCCHHH
Confidence 47889999999999
No 468
>PRK13540 cytochrome c biogenesis protein CcmA; Provisional
Probab=38.77 E-value=8.8 Score=30.72 Aligned_cols=30 Identities=20% Similarity=0.123 Sum_probs=23.0
Q ss_pred ceeEEEEec----CceEeecCCCCccCC--CCCCCC
Q psy3587 12 KHFQTIFLT----DNIRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 12 k~~q~~~l~----~~v~vvG~PNVGKSs--N~L~~k 41 (195)
..++.+.++ ..++|+|-.|.|||| +.|.|-
T Consensus 15 ~il~~~s~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~ 50 (200)
T PRK13540 15 PLLQQISFHLPAGGLLHLKGSNGAGKTTLLKLIAGL 50 (200)
T ss_pred eEEeeeeEEECCCCEEEEECCCCCCHHHHHHHHhcC
Confidence 467766664 389999999999999 666553
No 469
>PRK12337 2-phosphoglycerate kinase; Provisional
Probab=38.58 E-value=12 Score=34.88 Aligned_cols=36 Identities=11% Similarity=-0.050 Sum_probs=24.3
Q ss_pred CHHHHHHHHHHHcCcccccCCcccHHHHHHHHHHHHHc
Q psy3587 127 CAMDICDGWAQKRSYMTAKTGRYDSYRAANELLRMATE 164 (195)
Q Consensus 127 ~~~e~L~~iA~k~g~l~~kgG~~D~~rAa~~~L~d~~~ 164 (195)
.++++|..-|+++|.- .=...|++++-..++.++.+
T Consensus 426 ~IQdyLv~~A~~~~ip--vI~n~nid~tv~~~l~~i~~ 461 (475)
T PRK12337 426 LIQDHLLRLARQEGVP--VLPGEDLDESIDKALEVVLR 461 (475)
T ss_pred HHHHHHHHHHHHcCCC--eecCccHHHHHHHHHHHHHH
Confidence 4667777778777754 33556777777777776654
No 470
>TIGR00101 ureG urease accessory protein UreG. This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.
Probab=38.48 E-value=12 Score=30.35 Aligned_cols=14 Identities=14% Similarity=0.012 Sum_probs=13.2
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
.++|+|.+|.||||
T Consensus 3 ~i~i~G~~GsGKTT 16 (199)
T TIGR00101 3 KIGVAGPVGSGKTA 16 (199)
T ss_pred EEEEECCCCCCHHH
Confidence 68999999999999
No 471
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=38.32 E-value=12 Score=27.08 Aligned_cols=13 Identities=23% Similarity=0.360 Sum_probs=11.6
Q ss_pred eEeecCCCCccCC
Q psy3587 23 IRLCDCPGLVFPS 35 (195)
Q Consensus 23 v~vvG~PNVGKSs 35 (195)
|.|.|-||+|||+
T Consensus 1 I~i~G~~G~GKS~ 13 (107)
T PF00910_consen 1 IWIYGPPGIGKST 13 (107)
T ss_pred CEEECCCCCCHHH
Confidence 4688999999998
No 472
>PRK06851 hypothetical protein; Provisional
Probab=38.00 E-value=22 Score=32.11 Aligned_cols=57 Identities=19% Similarity=0.170 Sum_probs=36.6
Q ss_pred CceEeecCCCCccCC--CC----CCCCc-cc---ccCCCCCCccceeEEEecC-CeEEec-C-CCCCCCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KV----PKPLQ-VV---SVSRTPGHTKHFQTIFLTD-NIRLCD-C-PGLVFPSKVP 80 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~----L~~kk-~v---~vg~~PGvTk~~Q~i~l~~-~i~LlD-t-PGIv~p~~~~ 80 (195)
+-+.|-|-||+|||| .. +..+. .+ -.+.-| -++..|.+.. ++-++| | |-++.|+...
T Consensus 31 ~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~~~~~d~---~slDgviip~l~~aivDgtaph~~~P~~pg 100 (367)
T PRK06851 31 RIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFLHCSSDN---DSLDGVIIPELKIAILDGTAPHVVDPKAPG 100 (367)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEcCCCC---CceeeEEecCCCEEEEcCCCcCcCCCCCCC
Confidence 347888999999999 33 32211 11 122223 4567777754 899999 3 8888887654
No 473
>PRK00698 tmk thymidylate kinase; Validated
Probab=37.92 E-value=13 Score=29.30 Aligned_cols=18 Identities=17% Similarity=0.065 Sum_probs=15.0
Q ss_pred ceEeecCCCCccCC--CCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~ 39 (195)
-|.|.|++|+|||| +.|.
T Consensus 5 ~I~ieG~~gsGKsT~~~~L~ 24 (205)
T PRK00698 5 FITIEGIDGAGKSTQIELLK 24 (205)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 48899999999999 5554
No 474
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=37.84 E-value=13 Score=32.70 Aligned_cols=15 Identities=13% Similarity=-0.009 Sum_probs=13.7
Q ss_pred CceEeecCCCCccCC
Q psy3587 21 DNIRLCDCPGLVFPS 35 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs 35 (195)
.-++++|-||+||||
T Consensus 115 ~vi~lvGpnGsGKTT 129 (318)
T PRK10416 115 FVILVVGVNGVGKTT 129 (318)
T ss_pred eEEEEECCCCCcHHH
Confidence 368999999999998
No 475
>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]
Probab=37.76 E-value=16 Score=31.00 Aligned_cols=39 Identities=18% Similarity=0.107 Sum_probs=28.9
Q ss_pred cccCCCCccceeEEEEecC----ceEeecCCCCccCC--CCCCCC
Q psy3587 3 SVSRTPGHTKHFQTIFLTD----NIRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 3 ~v~~~~g~tk~~q~~~l~~----~v~vvG~PNVGKSs--N~L~~k 41 (195)
++++-=|+......+.++- -+.++|-.|+|||| +++.|-
T Consensus 8 ~l~~~YG~~~~L~gvsl~v~~Geiv~llG~NGaGKTTlLkti~Gl 52 (237)
T COG0410 8 NLSAGYGKIQALRGVSLEVERGEIVALLGRNGAGKTTLLKTIMGL 52 (237)
T ss_pred eEeecccceeEEeeeeeEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence 4555567777777776643 79999999999999 776553
No 476
>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group. A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.
Probab=37.30 E-value=11 Score=29.97 Aligned_cols=29 Identities=14% Similarity=0.058 Sum_probs=21.3
Q ss_pred eeEEEEec----CceEeecCCCCccCC--CCCCCC
Q psy3587 13 HFQTIFLT----DNIRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 13 ~~q~~~l~----~~v~vvG~PNVGKSs--N~L~~k 41 (195)
.+..+.++ ..++|+|-.|.|||| +.|.|-
T Consensus 13 ~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~ 47 (206)
T TIGR03608 13 ILDDLNLTIEKGKMYAIIGESGSGKSTLLNIIGLL 47 (206)
T ss_pred EEeceEEEEeCCcEEEEECCCCCCHHHHHHHHhcC
Confidence 45554443 489999999999999 666653
No 477
>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional
Probab=37.01 E-value=9.1 Score=34.74 Aligned_cols=30 Identities=3% Similarity=-0.002 Sum_probs=22.6
Q ss_pred ceeEEEE------ecCceEeecCCCCccCC--CCCCCC
Q psy3587 12 KHFQTIF------LTDNIRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 12 k~~q~~~------l~~~v~vvG~PNVGKSs--N~L~~k 41 (195)
++|++|. ..++|.|+|-++.|||| +.|...
T Consensus 205 ~~w~~i~~~vr~~~~~~IvI~G~~gsGKTTL~~~La~~ 242 (399)
T PRK08099 205 RYWEYIPTEVRPFFVRTVAILGGESSGKSTLVNKLANI 242 (399)
T ss_pred HHHHhcCHHHhhCCCcEEEEEcCCCCCHHHHHHHHHHH
Confidence 4566665 34589999999999999 776543
No 478
>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []. It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.
Probab=36.70 E-value=15 Score=29.54 Aligned_cols=13 Identities=23% Similarity=0.258 Sum_probs=10.9
Q ss_pred eEeecCCCCccCC
Q psy3587 23 IRLCDCPGLVFPS 35 (195)
Q Consensus 23 v~vvG~PNVGKSs 35 (195)
+++.|-||.|||+
T Consensus 18 ~i~aG~~GsGKSt 30 (199)
T PF06414_consen 18 IIIAGQPGSGKST 30 (199)
T ss_dssp EEEES-TTSTTHH
T ss_pred EEEeCCCCCCHHH
Confidence 6778999999999
No 479
>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=36.55 E-value=11 Score=30.78 Aligned_cols=29 Identities=7% Similarity=0.033 Sum_probs=21.3
Q ss_pred ceeEEEEec----CceEeecCCCCccCC--CCCCC
Q psy3587 12 KHFQTIFLT----DNIRLCDCPGLVFPS--KVPKP 40 (195)
Q Consensus 12 k~~q~~~l~----~~v~vvG~PNVGKSs--N~L~~ 40 (195)
..+..+.++ ..++|+|-.|.|||| +.|.|
T Consensus 14 ~~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G 48 (235)
T cd03261 14 TVLKGVDLDVRRGEILAIIGPSGSGKSTLLRLIVG 48 (235)
T ss_pred EEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence 345555443 379999999999999 76655
No 480
>PF13479 AAA_24: AAA domain
Probab=36.53 E-value=15 Score=29.90 Aligned_cols=14 Identities=21% Similarity=0.216 Sum_probs=13.2
Q ss_pred ceEeecCCCCccCC
Q psy3587 22 NIRLCDCPGLVFPS 35 (195)
Q Consensus 22 ~v~vvG~PNVGKSs 35 (195)
+++|.|-||+||+|
T Consensus 5 ~~lIyG~~G~GKTt 18 (213)
T PF13479_consen 5 KILIYGPPGSGKTT 18 (213)
T ss_pred EEEEECCCCCCHHH
Confidence 68999999999998
No 481
>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor. The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=36.38 E-value=11 Score=31.51 Aligned_cols=34 Identities=18% Similarity=0.137 Sum_probs=23.4
Q ss_pred CCccceeEEEEecC---------ceEeecCCCCccCC--CCCCCC
Q psy3587 8 PGHTKHFQTIFLTD---------NIRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 8 ~g~tk~~q~~~l~~---------~v~vvG~PNVGKSs--N~L~~k 41 (195)
|+.+|.+..+.|+- .++|+|-.|.|||| +.|.|-
T Consensus 4 ~~~~~~~~~~~l~~~~~~i~~Ge~~~i~G~NGsGKSTLlk~L~G~ 48 (246)
T cd03237 4 PTMKKTLGEFTLEVEGGSISESEVIGILGPNGIGKTTFIKMLAGV 48 (246)
T ss_pred cccccccCcEEEEEecCCcCCCCEEEEECCCCCCHHHHHHHHhCC
Confidence 44455555554433 58999999999999 666553
No 482
>KOG0078|consensus
Probab=36.27 E-value=38 Score=28.17 Aligned_cols=36 Identities=19% Similarity=0.122 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHcCccc----ccCCcccHHHHHHHHHHHHHc
Q psy3587 128 AMDICDGWAQKRSYMT----AKTGRYDSYRAANELLRMATE 164 (195)
Q Consensus 128 ~~e~L~~iA~k~g~l~----~kgG~~D~~rAa~~~L~d~~~ 164 (195)
..+.-+++|+..|+.- +|. ..+++.|...+-++...
T Consensus 136 ~~e~ge~lA~e~G~~F~EtSAk~-~~NI~eaF~~La~~i~~ 175 (207)
T KOG0078|consen 136 SKERGEALAREYGIKFFETSAKT-NFNIEEAFLSLARDILQ 175 (207)
T ss_pred cHHHHHHHHHHhCCeEEEccccC-CCCHHHHHHHHHHHHHh
Confidence 4567889999998752 443 35788887777777765
No 483
>PRK15056 manganese/iron transporter ATP-binding protein; Provisional
Probab=36.17 E-value=17 Score=30.64 Aligned_cols=31 Identities=13% Similarity=-0.005 Sum_probs=22.9
Q ss_pred cceeEEEEecC----ceEeecCCCCccCC--CCCCCC
Q psy3587 11 TKHFQTIFLTD----NIRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 11 tk~~q~~~l~~----~v~vvG~PNVGKSs--N~L~~k 41 (195)
...++.+.++- .++|+|-.|.|||| +.|.|-
T Consensus 20 ~~il~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl 56 (272)
T PRK15056 20 HTALRDASFTVPGGSIAALVGVNGSGKSTLFKALMGF 56 (272)
T ss_pred cEEEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence 34566665543 79999999999999 666653
No 484
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=36.12 E-value=15 Score=32.69 Aligned_cols=17 Identities=6% Similarity=0.001 Sum_probs=15.2
Q ss_pred ecCceEeecCCCCccCC
Q psy3587 19 LTDNIRLCDCPGLVFPS 35 (195)
Q Consensus 19 l~~~v~vvG~PNVGKSs 35 (195)
..++|++.|.||+||++
T Consensus 63 ~~~~ilL~G~pGtGKTt 79 (327)
T TIGR01650 63 YDRRVMVQGYHGTGKST 79 (327)
T ss_pred cCCcEEEEeCCCChHHH
Confidence 35689999999999998
No 485
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=35.94 E-value=14 Score=32.22 Aligned_cols=35 Identities=20% Similarity=0.171 Sum_probs=23.8
Q ss_pred ecCceEeecCCCCccCC--C---CCCCCcccccCCCCCCc
Q psy3587 19 LTDNIRLCDCPGLVFPS--K---VPKPLQVVSVSRTPGHT 53 (195)
Q Consensus 19 l~~~v~vvG~PNVGKSs--N---~L~~kk~v~vg~~PGvT 53 (195)
...++++.|.|||||+. . ...+.+...+.-+|+.+
T Consensus 42 ~~~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~~l~ 81 (329)
T COG0714 42 AGGHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLL 81 (329)
T ss_pred cCCCEEEECCCCccHHHHHHHHHHHhCCCeEEEecCCCCC
Confidence 35589999999999998 2 23345555555555544
No 486
>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]
Probab=35.81 E-value=12 Score=34.77 Aligned_cols=21 Identities=10% Similarity=0.066 Sum_probs=17.8
Q ss_pred EEEEecCceEeecCCCCccCC
Q psy3587 15 QTIFLTDNIRLCDCPGLVFPS 35 (195)
Q Consensus 15 q~~~l~~~v~vvG~PNVGKSs 35 (195)
|++..+....||-=|-.||.|
T Consensus 7 ~Ev~rRRTFAIISHPDAGKTT 27 (528)
T COG4108 7 QEVARRRTFAIISHPDAGKTT 27 (528)
T ss_pred HHHhhhcceeEEecCCCCccc
Confidence 455667789999999999999
No 487
>PRK00300 gmk guanylate kinase; Provisional
Probab=35.43 E-value=16 Score=29.12 Aligned_cols=20 Identities=20% Similarity=-0.071 Sum_probs=15.8
Q ss_pred CceEeecCCCCccCC--CCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKP 40 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~ 40 (195)
.-+.|+|-+|+|||| +.|.+
T Consensus 6 ~~i~i~G~sGsGKstl~~~l~~ 27 (205)
T PRK00300 6 LLIVLSGPSGAGKSTLVKALLE 27 (205)
T ss_pred CEEEEECCCCCCHHHHHHHHHh
Confidence 358999999999999 54443
No 488
>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).
Probab=34.54 E-value=12 Score=30.50 Aligned_cols=30 Identities=17% Similarity=0.158 Sum_probs=22.2
Q ss_pred ceeEEEEec----CceEeecCCCCccCC--CCCCCC
Q psy3587 12 KHFQTIFLT----DNIRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 12 k~~q~~~l~----~~v~vvG~PNVGKSs--N~L~~k 41 (195)
..++.+.++ ..++|+|-.|.|||| +.|.|-
T Consensus 14 ~~l~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~i~G~ 49 (227)
T cd03260 14 HALKDISLDIPKGEITALIGPSGCGKSTLLRLLNRL 49 (227)
T ss_pred eeeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHhh
Confidence 356655553 379999999999999 666553
No 489
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=34.39 E-value=27 Score=23.35 Aligned_cols=21 Identities=19% Similarity=0.059 Sum_probs=16.7
Q ss_pred EEEEec---CceEeecCCCCccCC
Q psy3587 15 QTIFLT---DNIRLCDCPGLVFPS 35 (195)
Q Consensus 15 q~~~l~---~~v~vvG~PNVGKSs 35 (195)
+++.++ +...|.|=.++||||
T Consensus 15 ~~~~~~~~g~~tli~G~nGsGKST 38 (62)
T PF13555_consen 15 ETIDFDPRGDVTLITGPNGSGKST 38 (62)
T ss_pred eEEeecCCCcEEEEECCCCCCHHH
Confidence 455555 358999999999999
No 490
>smart00763 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.
Probab=34.39 E-value=16 Score=32.84 Aligned_cols=17 Identities=24% Similarity=-0.017 Sum_probs=14.7
Q ss_pred eEeecCCCCccCC--CCCC
Q psy3587 23 IRLCDCPGLVFPS--KVPK 39 (195)
Q Consensus 23 v~vvG~PNVGKSs--N~L~ 39 (195)
++++|-||+|||| ++|+
T Consensus 81 l~L~GPPGsGKStla~~La 99 (361)
T smart00763 81 LYLLGPVGGGKSSLVECLK 99 (361)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 6999999999999 5554
No 491
>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.
Probab=34.16 E-value=16 Score=28.65 Aligned_cols=21 Identities=5% Similarity=-0.165 Sum_probs=16.3
Q ss_pred CceEeecCCCCccCC--CCCCCC
Q psy3587 21 DNIRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 21 ~~v~vvG~PNVGKSs--N~L~~k 41 (195)
.-++++|-+|+|||| -.|..+
T Consensus 15 ~gvLi~G~sG~GKStlal~L~~~ 37 (149)
T cd01918 15 IGVLITGPSGIGKSELALELIKR 37 (149)
T ss_pred EEEEEEcCCCCCHHHHHHHHHHc
Confidence 479999999999999 344443
No 492
>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.
Probab=34.13 E-value=14 Score=28.68 Aligned_cols=29 Identities=17% Similarity=0.122 Sum_probs=21.3
Q ss_pred eeEEEEec----CceEeecCCCCccCC--CCCCCC
Q psy3587 13 HFQTIFLT----DNIRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 13 ~~q~~~l~----~~v~vvG~PNVGKSs--N~L~~k 41 (195)
.++.+.+. ..++|+|-.|.|||| +.|.|-
T Consensus 15 vl~~i~~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~ 49 (163)
T cd03216 15 ALDGVSLSVRRGEVHALLGENGAGKSTLMKILSGL 49 (163)
T ss_pred EEeeeEEEEeCCCEEEEECCCCCCHHHHHHHHhCC
Confidence 45554443 389999999999999 666553
No 493
>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=34.06 E-value=16 Score=28.20 Aligned_cols=13 Identities=23% Similarity=0.353 Sum_probs=12.3
Q ss_pred eEeecCCCCccCC
Q psy3587 23 IRLCDCPGLVFPS 35 (195)
Q Consensus 23 v~vvG~PNVGKSs 35 (195)
++++|-+|+||||
T Consensus 2 i~~~G~~GsGKTt 14 (148)
T cd03114 2 IGITGVPGAGKST 14 (148)
T ss_pred EEEECCCCCcHHH
Confidence 7899999999999
No 494
>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.
Probab=33.99 E-value=13 Score=29.87 Aligned_cols=29 Identities=10% Similarity=0.075 Sum_probs=21.1
Q ss_pred ceeEEEEec----CceEeecCCCCccCC--CCCCC
Q psy3587 12 KHFQTIFLT----DNIRLCDCPGLVFPS--KVPKP 40 (195)
Q Consensus 12 k~~q~~~l~----~~v~vvG~PNVGKSs--N~L~~ 40 (195)
..++.+.++ ..++|+|-.|.|||| +.|.|
T Consensus 14 ~~l~~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~G 48 (213)
T cd03301 14 TALDDLNLDIADGEFVVLLGPSGCGKTTTLRMIAG 48 (213)
T ss_pred eeeeceEEEEcCCcEEEEECCCCCCHHHHHHHHhC
Confidence 345555543 379999999999999 65554
No 495
>TIGR02673 FtsE cell division ATP-binding protein FtsE. This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.
Probab=33.82 E-value=13 Score=29.76 Aligned_cols=30 Identities=13% Similarity=0.041 Sum_probs=21.4
Q ss_pred ceeEEEEe----cCceEeecCCCCccCC--CCCCCC
Q psy3587 12 KHFQTIFL----TDNIRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 12 k~~q~~~l----~~~v~vvG~PNVGKSs--N~L~~k 41 (195)
..++.+.+ ...++|+|-.|.|||| +.|.|-
T Consensus 16 ~il~~is~~i~~G~~~~l~G~nGsGKSTLl~~i~Gl 51 (214)
T TIGR02673 16 AALHDVSLHIRKGEFLFLTGPSGAGKTTLLKLLYGA 51 (214)
T ss_pred eeecceeEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence 34554444 3379999999999999 666553
No 496
>PRK13541 cytochrome c biogenesis protein CcmA; Provisional
Probab=33.65 E-value=16 Score=29.09 Aligned_cols=20 Identities=10% Similarity=-0.029 Sum_probs=17.2
Q ss_pred ceEeecCCCCccCC--CCCCCC
Q psy3587 22 NIRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 22 ~v~vvG~PNVGKSs--N~L~~k 41 (195)
.++|+|-+|.|||| +.|.|-
T Consensus 28 ~~~l~G~nGsGKSTLl~~l~G~ 49 (195)
T PRK13541 28 ITYIKGANGCGKSSLLRMIAGI 49 (195)
T ss_pred EEEEECCCCCCHHHHHHHHhcC
Confidence 79999999999999 666654
No 497
>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....
Probab=33.54 E-value=13 Score=28.15 Aligned_cols=11 Identities=18% Similarity=0.114 Sum_probs=10.2
Q ss_pred eecCCCCccCC
Q psy3587 25 LCDCPGLVFPS 35 (195)
Q Consensus 25 vvG~PNVGKSs 35 (195)
|+|-||.||+|
T Consensus 1 i~G~PgsGK~t 11 (151)
T PF00406_consen 1 ILGPPGSGKGT 11 (151)
T ss_dssp EEESTTSSHHH
T ss_pred CcCCCCCChHH
Confidence 68999999999
No 498
>PRK12289 GTPase RsgA; Reviewed
Probab=33.49 E-value=42 Score=29.96 Aligned_cols=31 Identities=29% Similarity=0.499 Sum_probs=25.0
Q ss_pred ccccCCCC-------ccceeEEEEecCceEeecCCCCc
Q psy3587 2 VSVSRTPG-------HTKHFQTIFLTDNIRLCDCPGLV 32 (195)
Q Consensus 2 ~~v~~~~g-------~tk~~q~~~l~~~v~vvG~PNVG 32 (195)
..|+++|| -|++.|-+.+.....|+|.||+-
T Consensus 198 ~~t~~vs~~~~rGrHTT~~~~l~~l~~g~~liDTPG~~ 235 (352)
T PRK12289 198 LRVGKVSGKLGRGRHTTRHVELFELPNGGLLADTPGFN 235 (352)
T ss_pred cccccccCCCCCCCCcCceeEEEECCCCcEEEeCCCcc
Confidence 34677788 48999999898778899999885
No 499
>PRK13543 cytochrome c biogenesis protein CcmA; Provisional
Probab=33.40 E-value=15 Score=29.67 Aligned_cols=30 Identities=13% Similarity=0.092 Sum_probs=21.9
Q ss_pred ceeEEEEec----CceEeecCCCCccCC--CCCCCC
Q psy3587 12 KHFQTIFLT----DNIRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 12 k~~q~~~l~----~~v~vvG~PNVGKSs--N~L~~k 41 (195)
..++.+.+. ..++|+|-.|.|||| +.|.|-
T Consensus 25 ~il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~ 60 (214)
T PRK13543 25 PVFGPLDFHVDAGEALLVQGDNGAGKTTLLRVLAGL 60 (214)
T ss_pred eeeecceEEECCCCEEEEEcCCCCCHHHHHHHHhCC
Confidence 355555442 379999999999999 766654
No 500
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein.
Probab=33.31 E-value=15 Score=29.64 Aligned_cols=29 Identities=10% Similarity=0.115 Sum_probs=21.8
Q ss_pred eeEEEEec----CceEeecCCCCccCC--CCCCCC
Q psy3587 13 HFQTIFLT----DNIRLCDCPGLVFPS--KVPKPL 41 (195)
Q Consensus 13 ~~q~~~l~----~~v~vvG~PNVGKSs--N~L~~k 41 (195)
.+..+.++ ..++|+|-.|.|||| +.|.|-
T Consensus 18 il~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl 52 (216)
T TIGR00960 18 ALDNLNFHITKGEMVFLVGHSGAGKSTFLKLILGI 52 (216)
T ss_pred EEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence 56655553 379999999999999 666653
Done!