Query psy8958
Match_columns 294
No_of_seqs 215 out of 854
Neff 5.4
Searched_HMMs 46136
Date Fri Aug 16 23:54:41 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8958.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8958hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0447|consensus 100.0 1.2E-47 2.5E-52 379.9 17.8 223 1-294 342-564 (980)
2 KOG0446|consensus 100.0 2.9E-45 6.2E-50 375.8 8.3 205 1-285 62-273 (657)
3 smart00053 DYNc Dynamin, GTPas 100.0 1.8E-38 4E-43 291.5 16.3 177 1-257 59-235 (240)
4 PF00350 Dynamin_N: Dynamin fa 99.5 4.3E-13 9.3E-18 113.3 10.9 137 1-148 31-168 (168)
5 PF01031 Dynamin_M: Dynamin ce 99.0 6.1E-11 1.3E-15 111.3 1.3 57 231-292 1-60 (295)
6 COG0699 Predicted GTPases (dyn 97.5 3.5E-05 7.6E-10 76.3 1.9 112 31-149 13-124 (546)
7 cd00880 Era_like Era (E. coli 97.1 0.0038 8.2E-08 49.6 8.9 89 55-151 29-117 (163)
8 TIGR03598 GTPase_YsxC ribosome 97.1 0.0013 2.8E-08 56.6 6.2 75 72-150 65-141 (179)
9 COG0218 Predicted GTPase [Gene 97.0 0.0026 5.7E-08 57.7 7.6 112 30-151 32-148 (200)
10 cd01876 YihA_EngB The YihA (En 96.7 0.0051 1.1E-07 50.1 6.5 75 72-150 46-122 (170)
11 PF02421 FeoB_N: Ferrous iron 96.4 0.0049 1.1E-07 53.7 5.0 71 71-151 47-118 (156)
12 cd01852 AIG1 AIG1 (avrRpt2-ind 96.4 0.0083 1.8E-07 52.6 6.3 76 71-150 49-128 (196)
13 cd01894 EngA1 EngA1 subfamily. 96.2 0.034 7.4E-07 45.2 8.5 72 71-151 45-118 (157)
14 cd04163 Era Era subfamily. Er 96.0 0.0078 1.7E-07 48.7 3.9 74 70-150 50-123 (168)
15 PRK00454 engB GTP-binding prot 95.9 0.017 3.7E-07 49.5 5.9 76 71-150 70-147 (196)
16 TIGR03594 GTPase_EngA ribosome 95.8 0.037 8E-07 54.1 8.3 88 54-151 31-120 (429)
17 cd04104 p47_IIGP_like p47 (47- 95.7 0.047 1E-06 48.1 8.0 72 66-151 47-120 (197)
18 TIGR00436 era GTP-binding prot 95.6 0.094 2E-06 48.5 9.7 72 71-151 48-120 (270)
19 TIGR03156 GTP_HflX GTP-binding 95.4 0.073 1.6E-06 51.8 8.7 86 59-150 225-313 (351)
20 PF01926 MMR_HSR1: 50S ribosom 95.4 0.05 1.1E-06 43.3 6.3 72 69-147 45-116 (116)
21 cd04165 GTPBP1_like GTPBP1-lik 95.4 0.037 8.1E-07 50.3 6.2 73 64-150 77-150 (224)
22 PRK00089 era GTPase Era; Revie 95.4 0.059 1.3E-06 50.1 7.6 73 70-151 52-126 (292)
23 cd01879 FeoB Ferrous iron tran 95.3 0.068 1.5E-06 43.6 6.9 69 71-150 43-113 (158)
24 cd01887 IF2_eIF5B IF2/eIF5B (i 95.1 0.052 1.1E-06 44.9 5.9 65 69-150 48-114 (168)
25 cd01853 Toc34_like Toc34-like 95.1 0.04 8.8E-07 51.2 5.6 79 70-151 78-162 (249)
26 cd01890 LepA LepA subfamily. 95.0 0.073 1.6E-06 44.8 6.6 79 57-150 51-131 (179)
27 cd04164 trmE TrmE (MnmE, ThdF, 95.0 0.2 4.4E-06 40.4 8.9 73 70-151 48-120 (157)
28 PRK00093 GTP-binding protein D 94.9 0.15 3.3E-06 50.1 9.4 71 71-150 49-121 (435)
29 PF04548 AIG1: AIG1 family; I 94.9 0.034 7.4E-07 49.8 4.5 76 71-150 49-128 (212)
30 PRK03003 GTP-binding protein D 94.9 0.1 2.3E-06 52.4 8.3 89 54-150 70-158 (472)
31 PRK04213 GTP-binding protein; 94.9 0.11 2.4E-06 45.1 7.4 86 55-150 41-142 (201)
32 cd01878 HflX HflX subfamily. 94.7 0.23 5E-06 43.2 8.9 86 60-151 78-166 (204)
33 TIGR03594 GTPase_EngA ribosome 94.7 0.14 3E-06 50.1 8.3 76 72-151 221-296 (429)
34 TIGR00991 3a0901s02IAP34 GTP-b 94.6 0.082 1.8E-06 51.1 6.5 76 69-151 84-166 (313)
35 PF00009 GTP_EFTU: Elongation 94.6 0.15 3.4E-06 44.1 7.7 80 55-151 53-135 (188)
36 PRK00093 GTP-binding protein D 94.5 0.12 2.7E-06 50.7 7.5 79 69-151 219-297 (435)
37 PRK12298 obgE GTPase CgtA; Rev 94.5 0.21 4.5E-06 49.4 9.1 87 57-150 193-287 (390)
38 cd01895 EngA2 EngA2 subfamily. 94.3 0.35 7.6E-06 39.5 8.7 76 71-150 50-125 (174)
39 PRK11058 GTPase HflX; Provisio 94.2 0.27 5.9E-06 49.2 9.2 87 59-151 233-322 (426)
40 PF10662 PduV-EutP: Ethanolami 94.1 0.043 9.3E-07 47.4 3.1 39 108-150 63-101 (143)
41 cd01891 TypA_BipA TypA (tyrosi 94.1 0.11 2.5E-06 45.0 5.8 64 70-150 64-129 (194)
42 cd04171 SelB SelB subfamily. 94.0 0.32 6.8E-06 39.8 8.0 65 70-150 50-116 (164)
43 PRK12299 obgE GTPase CgtA; Rev 93.8 0.24 5.2E-06 48.0 7.8 85 59-150 194-283 (335)
44 cd01850 CDC_Septin CDC/Septin. 93.7 0.24 5.2E-06 46.5 7.5 79 71-151 63-156 (276)
45 PRK09518 bifunctional cytidyla 93.3 0.28 6.1E-06 51.9 8.0 91 53-151 306-396 (712)
46 cd04152 Arl4_Arl7 Arl4/Arl7 su 93.3 0.25 5.4E-06 42.6 6.4 81 56-150 37-121 (183)
47 cd04166 CysN_ATPS CysN_ATPS su 93.1 0.29 6.2E-06 43.4 6.7 80 54-150 61-142 (208)
48 cd01885 EF2 EF2 (for archaea a 93.0 0.22 4.9E-06 45.4 5.9 67 70-151 72-138 (222)
49 PLN03127 Elongation factor Tu; 92.9 0.23 5.1E-06 49.9 6.4 80 54-151 108-190 (447)
50 PF00448 SRP54: SRP54-type pro 92.9 0.19 4.2E-06 44.9 5.2 68 71-150 84-152 (196)
51 PRK09554 feoB ferrous iron tra 92.8 0.37 8.1E-06 51.8 8.1 90 54-151 34-125 (772)
52 cd01886 EF-G Elongation factor 92.8 0.2 4.4E-06 46.9 5.4 79 54-150 48-128 (270)
53 cd00881 GTP_translation_factor 92.6 0.27 6E-06 41.1 5.6 65 70-151 61-127 (189)
54 cd01898 Obg Obg subfamily. Th 92.5 0.5 1.1E-05 39.1 7.0 73 71-150 48-126 (170)
55 PRK09866 hypothetical protein; 92.5 0.38 8.2E-06 51.1 7.4 72 70-151 229-302 (741)
56 TIGR00450 mnmE_trmE_thdF tRNA 92.5 0.59 1.3E-05 47.0 8.6 70 72-150 252-322 (442)
57 cd04101 RabL4 RabL4 (Rab-like4 92.4 0.54 1.2E-05 38.8 7.0 74 63-150 44-119 (164)
58 cd01889 SelB_euk SelB subfamil 92.1 0.47 1E-05 41.1 6.5 64 70-150 67-132 (192)
59 cd04157 Arl6 Arl6 subfamily. 92.0 0.43 9.3E-06 39.1 5.9 68 70-150 44-116 (162)
60 PRK03003 GTP-binding protein D 91.8 0.64 1.4E-05 46.8 8.0 74 72-150 260-334 (472)
61 cd01883 EF1_alpha Eukaryotic e 91.8 0.52 1.1E-05 42.2 6.6 80 54-150 61-149 (219)
62 COG1160 Predicted GTPases [Gen 91.7 0.78 1.7E-05 46.4 8.4 92 51-151 32-125 (444)
63 cd04160 Arfrp1 Arfrp1 subfamil 91.7 0.45 9.7E-06 39.4 5.7 68 70-150 49-119 (167)
64 cd04145 M_R_Ras_like M-Ras/R-R 91.7 0.35 7.6E-06 39.7 5.0 67 71-150 50-119 (164)
65 cd00882 Ras_like_GTPase Ras-li 91.6 0.26 5.7E-06 38.1 4.0 67 70-150 44-114 (157)
66 PRK15494 era GTPase Era; Provi 91.5 0.93 2E-05 43.8 8.5 80 61-150 91-172 (339)
67 cd01897 NOG NOG1 is a nucleola 91.5 0.68 1.5E-05 38.3 6.7 74 70-150 46-125 (168)
68 cd00154 Rab Rab family. Rab G 91.5 0.36 7.8E-06 38.6 4.8 68 70-150 48-117 (159)
69 PRK12297 obgE GTPase CgtA; Rev 91.5 0.72 1.6E-05 46.3 7.9 76 68-150 203-286 (424)
70 cd01888 eIF2_gamma eIF2-gamma 91.4 0.57 1.2E-05 41.4 6.4 64 71-150 83-149 (203)
71 PRK09518 bifunctional cytidyla 91.2 0.87 1.9E-05 48.3 8.6 76 71-151 498-574 (712)
72 TIGR01425 SRP54_euk signal rec 91.1 0.55 1.2E-05 47.3 6.6 70 70-150 182-251 (429)
73 COG1159 Era GTPase [General fu 90.9 0.94 2E-05 43.6 7.7 73 70-151 53-127 (298)
74 PF01031 Dynamin_M: Dynamin ce 90.7 0.15 3.2E-06 48.0 2.1 79 170-248 13-102 (295)
75 PRK10416 signal recognition pa 90.7 0.51 1.1E-05 45.5 5.8 74 69-150 195-271 (318)
76 cd04151 Arl1 Arl1 subfamily. 90.5 0.65 1.4E-05 38.4 5.6 67 71-150 43-112 (158)
77 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 90.5 0.8 1.7E-05 38.0 6.1 67 71-150 51-119 (166)
78 cd04168 TetM_like Tet(M)-like 90.4 6.8 0.00015 35.9 12.7 63 71-150 64-128 (237)
79 TIGR02729 Obg_CgtA Obg family 90.3 0.88 1.9E-05 43.9 7.1 76 68-150 202-285 (329)
80 cd01884 EF_Tu EF-Tu subfamily. 90.2 1.1 2.4E-05 39.8 7.1 79 54-150 49-130 (195)
81 cd04167 Snu114p Snu114p subfam 90.0 0.77 1.7E-05 40.7 6.0 81 56-151 54-136 (213)
82 cd01864 Rab19 Rab19 subfamily. 89.9 1.1 2.4E-05 37.2 6.5 67 71-150 52-120 (165)
83 TIGR00064 ftsY signal recognit 89.8 0.58 1.2E-05 44.0 5.2 73 70-150 154-229 (272)
84 COG3596 Predicted GTPase [Gene 89.7 0.5 1.1E-05 45.3 4.7 78 67-152 83-162 (296)
85 cd01868 Rab11_like Rab11-like. 89.6 1.6 3.5E-05 36.0 7.3 67 71-150 52-120 (165)
86 PRK14974 cell division protein 89.6 0.83 1.8E-05 44.5 6.3 69 71-150 223-291 (336)
87 cd04112 Rab26 Rab26 subfamily. 89.3 1.1 2.3E-05 38.8 6.2 67 71-150 50-118 (191)
88 PRK10512 selenocysteinyl-tRNA- 89.3 1.2 2.7E-05 46.6 7.7 71 65-151 45-117 (614)
89 cd00878 Arf_Arl Arf (ADP-ribos 89.2 0.89 1.9E-05 37.3 5.4 68 70-150 42-112 (158)
90 cd01893 Miro1 Miro1 subfamily. 89.2 1.1 2.4E-05 37.4 6.1 74 61-150 38-115 (166)
91 TIGR01393 lepA GTP-binding pro 89.0 0.93 2E-05 47.3 6.5 79 55-150 52-134 (595)
92 PRK12317 elongation factor 1-a 89.0 1.1 2.3E-05 44.4 6.6 81 54-151 68-152 (425)
93 TIGR00437 feoB ferrous iron tr 88.9 1.2 2.5E-05 46.6 7.1 69 72-151 42-112 (591)
94 cd04154 Arl2 Arl2 subfamily. 88.8 1.1 2.3E-05 37.9 5.7 68 70-150 57-127 (173)
95 cd04156 ARLTS1 ARLTS1 subfamil 88.6 1.6 3.4E-05 35.8 6.5 68 69-150 42-113 (160)
96 cd04123 Rab21 Rab21 subfamily. 88.5 1.4 3E-05 35.8 6.0 67 71-150 49-117 (162)
97 TIGR00475 selB selenocysteine- 88.4 1.6 3.5E-05 45.3 7.8 69 65-151 45-116 (581)
98 cd01881 Obg_like The Obg-like 88.4 1.1 2.4E-05 37.1 5.4 75 70-150 43-132 (176)
99 smart00175 RAB Rab subfamily o 88.4 1.7 3.6E-05 35.6 6.5 75 61-150 40-117 (164)
100 PRK05291 trmE tRNA modificatio 88.4 2.7 5.8E-05 42.3 9.1 71 71-151 263-334 (449)
101 cd01867 Rab8_Rab10_Rab13_like 88.1 1.6 3.5E-05 36.5 6.3 68 70-150 51-120 (167)
102 TIGR00483 EF-1_alpha translati 88.1 2 4.4E-05 42.5 8.0 81 54-151 69-154 (426)
103 CHL00189 infB translation init 88.1 0.77 1.7E-05 49.3 5.3 66 69-151 293-360 (742)
104 PRK05124 cysN sulfate adenylyl 88.1 1.8 3.9E-05 43.9 7.7 81 54-151 91-173 (474)
105 cd04122 Rab14 Rab14 subfamily. 87.9 1.7 3.7E-05 36.2 6.3 74 63-150 44-119 (166)
106 cd01861 Rab6 Rab6 subfamily. 87.9 1.7 3.7E-05 35.6 6.2 67 71-150 49-117 (161)
107 cd01866 Rab2 Rab2 subfamily. 87.8 1.7 3.6E-05 36.5 6.2 76 60-150 43-121 (168)
108 cd04119 RJL RJL (RabJ-Like) su 87.7 2 4.3E-05 35.1 6.5 76 61-150 40-122 (168)
109 cd04138 H_N_K_Ras_like H-Ras/N 87.6 1.3 2.8E-05 35.9 5.3 67 71-150 49-118 (162)
110 PRK00771 signal recognition pa 87.5 1.1 2.3E-05 45.3 5.6 68 72-150 177-244 (437)
111 cd04159 Arl10_like Arl10-like 87.4 1.7 3.6E-05 34.8 5.8 66 71-150 44-113 (159)
112 smart00178 SAR Sar1p-like memb 87.4 1.9 4.1E-05 37.1 6.5 67 71-150 61-130 (184)
113 TIGR00487 IF-2 translation ini 87.3 1.3 2.9E-05 46.2 6.4 63 71-150 135-199 (587)
114 cd01882 BMS1 Bms1. Bms1 is an 87.2 2 4.4E-05 38.8 6.8 67 65-150 77-145 (225)
115 cd04113 Rab4 Rab4 subfamily. 87.2 2.1 4.6E-05 35.2 6.5 75 62-150 41-117 (161)
116 PRK13768 GTPase; Provisional 87.1 0.9 1.9E-05 42.0 4.6 74 71-151 97-175 (253)
117 TIGR00993 3a0901s04IAP86 chlor 87.1 1.4 2.9E-05 47.2 6.3 80 70-153 165-251 (763)
118 TIGR00484 EF-G translation elo 87.0 1.2 2.5E-05 47.2 5.8 79 55-151 60-140 (689)
119 PRK12735 elongation factor Tu; 86.9 1.5 3.2E-05 43.2 6.2 80 54-151 59-141 (396)
120 cd04106 Rab23_lke Rab23-like s 86.8 1.4 3.1E-05 36.1 5.2 68 70-151 50-119 (162)
121 TIGR01394 TypA_BipA GTP-bindin 86.8 1.9 4.2E-05 45.0 7.2 75 56-150 52-128 (594)
122 COG1084 Predicted GTPase [Gene 86.8 2.3 5.1E-05 41.7 7.3 90 55-151 199-293 (346)
123 cd04169 RF3 RF3 subfamily. Pe 86.7 1.2 2.6E-05 41.7 5.2 75 56-150 59-135 (267)
124 TIGR02034 CysN sulfate adenyly 86.4 2.7 5.8E-05 41.6 7.7 81 54-151 64-146 (406)
125 cd01860 Rab5_related Rab5-rela 86.4 2.5 5.4E-05 34.6 6.4 67 71-150 50-118 (163)
126 COG0370 FeoB Fe2+ transport sy 86.4 2 4.3E-05 45.5 7.0 86 53-151 35-121 (653)
127 PRK05433 GTP-binding protein L 86.2 2.4 5.2E-05 44.3 7.6 79 55-150 56-138 (600)
128 PRK14845 translation initiatio 86.2 1.3 2.8E-05 49.3 5.9 66 69-151 524-591 (1049)
129 cd04114 Rab30 Rab30 subfamily. 86.1 2.4 5.2E-05 35.0 6.2 67 71-150 56-124 (169)
130 PRK10867 signal recognition pa 86.0 1.9 4.2E-05 43.4 6.6 70 70-150 183-252 (433)
131 PRK00049 elongation factor Tu; 86.0 2.8 6.1E-05 41.3 7.6 80 54-151 59-141 (396)
132 cd01865 Rab3 Rab3 subfamily. 85.9 2.7 5.8E-05 35.0 6.4 67 71-150 50-118 (165)
133 PRK12739 elongation factor G; 85.8 1.2 2.5E-05 47.2 5.1 81 55-151 58-138 (691)
134 TIGR00491 aIF-2 translation in 85.7 1.9 4.2E-05 45.1 6.6 64 71-151 69-134 (590)
135 PRK12724 flagellar biosynthesi 85.6 2.1 4.5E-05 43.3 6.5 73 69-149 298-370 (432)
136 cd00879 Sar1 Sar1 subfamily. 85.6 1.9 4.2E-05 36.7 5.6 67 71-150 63-132 (190)
137 cd04141 Rit_Rin_Ric Rit/Rin/Ri 85.6 2.6 5.6E-05 35.9 6.3 74 63-150 43-119 (172)
138 TIGR00959 ffh signal recogniti 85.4 2 4.3E-05 43.3 6.3 71 69-150 181-251 (428)
139 cd04161 Arl2l1_Arl13_like Arl2 85.4 2.1 4.5E-05 36.1 5.6 68 70-150 42-112 (167)
140 cd04139 RalA_RalB RalA/RalB su 85.1 2.7 6E-05 34.2 6.1 68 70-150 47-117 (164)
141 cd04124 RabL2 RabL2 subfamily. 84.9 2.4 5.2E-05 35.3 5.7 67 70-150 48-116 (161)
142 TIGR00485 EF-Tu translation el 84.7 2.8 6.1E-05 41.1 6.9 80 54-151 59-141 (394)
143 cd01862 Rab7 Rab7 subfamily. 84.4 3.1 6.7E-05 34.3 6.1 67 71-150 49-121 (172)
144 cd04176 Rap2 Rap2 subgroup. T 84.2 1.6 3.5E-05 36.0 4.3 67 71-150 49-118 (163)
145 cd04155 Arl3 Arl3 subfamily. 84.0 2.5 5.5E-05 35.1 5.5 67 71-150 58-127 (173)
146 cd04170 EF-G_bact Elongation f 84.0 1.5 3.3E-05 40.3 4.5 64 71-151 64-129 (268)
147 PRK12736 elongation factor Tu; 83.7 3.8 8.3E-05 40.3 7.4 80 54-151 59-141 (394)
148 CHL00071 tufA elongation facto 83.7 4 8.7E-05 40.3 7.6 80 54-151 59-141 (409)
149 PRK15467 ethanolamine utilizat 83.6 2.8 6E-05 35.5 5.6 63 75-150 41-103 (158)
150 PRK06731 flhF flagellar biosyn 83.5 2.9 6.3E-05 39.5 6.2 70 70-150 154-223 (270)
151 PRK04004 translation initiatio 83.5 2.9 6.3E-05 43.6 6.7 64 71-151 71-136 (586)
152 PRK11889 flhF flagellar biosyn 83.3 2.7 5.9E-05 42.5 6.1 69 71-150 321-389 (436)
153 cd04116 Rab9 Rab9 subfamily. 83.3 3.3 7.2E-05 34.4 5.9 69 69-150 52-126 (170)
154 PRK10218 GTP-binding protein; 83.2 2.8 6.1E-05 44.0 6.5 78 55-150 53-132 (607)
155 PRK00007 elongation factor G; 83.2 2.7 5.8E-05 44.6 6.4 81 55-151 60-140 (693)
156 PRK05306 infB translation init 83.0 2.4 5.2E-05 45.9 6.0 63 71-150 337-401 (787)
157 PRK12296 obgE GTPase CgtA; Rev 83.0 3.1 6.8E-05 42.7 6.6 73 71-150 206-296 (500)
158 cd04105 SR_beta Signal recogni 83.0 3 6.5E-05 36.9 5.8 68 71-151 48-122 (203)
159 PLN03118 Rab family protein; P 82.9 3 6.5E-05 36.7 5.7 76 61-150 53-132 (211)
160 PTZ00141 elongation factor 1- 82.9 3.4 7.4E-05 41.5 6.8 79 54-150 69-157 (446)
161 cd03115 SRP The signal recogni 82.9 3.7 7.9E-05 34.9 6.1 70 70-150 82-151 (173)
162 PRK05703 flhF flagellar biosyn 82.7 3.3 7.1E-05 41.5 6.5 70 71-150 300-369 (424)
163 PRK12726 flagellar biosynthesi 82.4 2.6 5.6E-05 42.3 5.6 69 71-150 286-354 (407)
164 PLN03108 Rab family protein; P 82.3 3.7 7.9E-05 36.3 6.1 75 62-150 47-123 (210)
165 cd04130 Wrch_1 Wrch-1 subfamil 82.2 2.8 6E-05 35.3 5.1 75 62-151 40-117 (173)
166 cd04153 Arl5_Arl8 Arl5/Arl8 su 82.2 3.6 7.8E-05 34.8 5.8 67 71-150 59-128 (174)
167 cd04136 Rap_like Rap-like subf 82.2 3.3 7.1E-05 33.8 5.4 68 70-150 48-118 (163)
168 cd04118 Rab24 Rab24 subfamily. 82.1 3.3 7.2E-05 35.4 5.6 64 71-150 50-117 (193)
169 PTZ00327 eukaryotic translatio 81.9 3.5 7.6E-05 41.8 6.5 64 72-151 118-184 (460)
170 PRK13351 elongation factor G; 81.8 1.9 4.2E-05 45.4 4.7 65 70-151 72-138 (687)
171 cd04110 Rab35 Rab35 subfamily. 81.7 4 8.7E-05 35.6 6.0 66 71-150 55-122 (199)
172 PRK12740 elongation factor G; 81.6 1.9 4.1E-05 45.2 4.6 66 71-151 60-125 (668)
173 PRK04000 translation initiatio 81.5 1.8 4E-05 42.9 4.2 62 71-151 85-152 (411)
174 PRK05506 bifunctional sulfate 81.3 5.5 0.00012 41.7 7.8 80 55-151 89-170 (632)
175 cd00876 Ras Ras family. The R 81.3 3.9 8.4E-05 33.0 5.5 68 70-150 46-116 (160)
176 KOG2486|consensus 81.1 1.5 3.2E-05 42.3 3.2 75 71-151 183-261 (320)
177 cd04149 Arf6 Arf6 subfamily. 81.0 3.2 6.9E-05 35.2 5.0 67 71-150 53-122 (168)
178 cd04127 Rab27A Rab27a subfamil 81.0 5.9 0.00013 33.2 6.6 68 70-151 62-133 (180)
179 cd04144 Ras2 Ras2 subfamily. 80.8 3.8 8.2E-05 35.3 5.5 67 71-150 47-118 (190)
180 TIGR03680 eif2g_arch translati 80.8 2.5 5.5E-05 41.7 4.9 66 70-151 79-147 (406)
181 PF05049 IIGP: Interferon-indu 79.8 1.9 4E-05 42.9 3.6 79 64-155 79-158 (376)
182 PLN03110 Rab GTPase; Provision 79.4 6.1 0.00013 35.1 6.5 68 70-150 60-129 (216)
183 COG4917 EutP Ethanolamine util 79.3 1 2.2E-05 38.8 1.4 38 110-151 66-103 (148)
184 cd01863 Rab18 Rab18 subfamily. 79.3 5.6 0.00012 32.5 5.8 75 61-150 40-118 (161)
185 TIGR00503 prfC peptide chain r 79.3 5 0.00011 41.3 6.7 63 71-150 80-144 (527)
186 PRK14722 flhF flagellar biosyn 79.1 4.9 0.00011 39.9 6.2 72 71-150 216-293 (374)
187 smart00177 ARF ARF-like small 79.0 4.1 8.9E-05 34.7 5.1 68 70-150 56-126 (175)
188 cd04158 ARD1 ARD1 subfamily. 78.9 3.5 7.5E-05 34.7 4.6 68 70-150 42-112 (169)
189 cd00157 Rho Rho (Ras homology) 78.7 3.2 6.9E-05 34.2 4.2 67 71-151 48-117 (171)
190 PRK00741 prfC peptide chain re 78.4 5.1 0.00011 41.3 6.4 75 56-150 67-143 (526)
191 COG0486 ThdF Predicted GTPase 78.4 8.2 0.00018 39.3 7.7 87 55-151 250-337 (454)
192 PTZ00369 Ras-like protein; Pro 78.2 4 8.7E-05 35.1 4.8 67 71-150 53-122 (189)
193 COG0541 Ffh Signal recognition 77.9 6.4 0.00014 40.0 6.7 71 69-150 181-251 (451)
194 PLN03126 Elongation factor Tu; 77.8 7.5 0.00016 39.6 7.4 80 54-151 128-210 (478)
195 cd04150 Arf1_5_like Arf1-Arf5- 77.7 6 0.00013 33.0 5.6 68 70-150 43-113 (159)
196 PRK07560 elongation factor EF- 77.4 3.1 6.6E-05 44.4 4.6 64 71-151 87-152 (731)
197 cd04128 Spg1 Spg1p. Spg1p (se 77.4 6.4 0.00014 34.0 5.9 74 63-151 42-117 (182)
198 PTZ00099 rab6; Provisional 77.3 6.9 0.00015 33.9 6.0 74 63-150 22-97 (176)
199 PLN00223 ADP-ribosylation fact 77.2 4.9 0.00011 34.7 5.1 66 71-150 61-130 (181)
200 smart00173 RAS Ras subfamily o 77.2 4.7 0.0001 33.1 4.8 68 70-150 47-117 (164)
201 cd04142 RRP22 RRP22 subfamily. 77.2 9 0.00019 33.8 6.9 75 71-150 49-128 (198)
202 TIGR02528 EutP ethanolamine ut 76.9 6 0.00013 31.8 5.3 63 74-150 38-100 (142)
203 PRK12723 flagellar biosynthesi 76.7 6.1 0.00013 39.3 6.2 70 70-149 254-323 (388)
204 cd04125 RabA_like RabA-like su 76.4 8.1 0.00018 33.0 6.2 68 70-150 48-117 (188)
205 cd04115 Rab33B_Rab33A Rab33B/R 76.4 5.2 0.00011 33.5 4.9 68 71-150 51-121 (170)
206 PTZ00133 ADP-ribosylation fact 76.0 7.3 0.00016 33.6 5.8 68 70-150 60-130 (182)
207 cd04148 RGK RGK subfamily. Th 75.6 6.9 0.00015 35.0 5.7 72 63-150 43-118 (221)
208 cd04137 RheB Rheb (Ras Homolog 75.6 8.4 0.00018 32.3 6.0 67 70-150 48-118 (180)
209 cd04146 RERG_RasL11_like RERG/ 75.1 6.9 0.00015 32.4 5.3 67 71-150 47-118 (165)
210 smart00176 RAN Ran (Ras-relate 73.6 9 0.00019 34.1 5.9 75 61-150 35-111 (200)
211 cd04175 Rap1 Rap1 subgroup. T 73.6 7.4 0.00016 32.1 5.1 76 62-151 41-119 (164)
212 PLN00043 elongation factor 1-a 73.4 8.7 0.00019 38.7 6.4 80 54-151 69-158 (447)
213 cd04162 Arl9_Arfrp2_like Arl9/ 73.0 6.8 0.00015 33.0 4.8 72 64-150 38-111 (164)
214 PRK12727 flagellar biosynthesi 72.7 6.9 0.00015 40.9 5.6 69 70-150 428-496 (559)
215 TIGR00490 aEF-2 translation el 72.3 5 0.00011 42.7 4.6 65 70-151 85-151 (720)
216 PRK14723 flhF flagellar biosyn 72.1 9.9 0.00021 41.2 6.7 69 72-150 265-335 (767)
217 cd04132 Rho4_like Rho4-like su 71.9 14 0.00031 31.2 6.6 69 68-150 46-117 (187)
218 PTZ00416 elongation factor 2; 71.9 5.4 0.00012 43.3 4.8 65 72-151 93-157 (836)
219 cd04109 Rab28 Rab28 subfamily. 71.6 13 0.00029 32.7 6.5 75 63-150 42-121 (215)
220 TIGR00231 small_GTP small GTP- 69.8 9.9 0.00021 29.7 4.8 14 138-151 108-121 (161)
221 smart00174 RHO Rho (Ras homolo 69.4 8.7 0.00019 31.9 4.6 67 71-151 46-115 (174)
222 PRK14721 flhF flagellar biosyn 69.0 9.4 0.0002 38.5 5.5 70 70-150 269-338 (420)
223 cd04120 Rab12 Rab12 subfamily. 68.9 12 0.00027 33.2 5.8 74 63-150 42-117 (202)
224 cd04147 Ras_dva Ras-dva subfam 68.1 13 0.00027 32.3 5.5 66 71-150 47-116 (198)
225 cd01370 KISc_KIP3_like Kinesin 67.9 45 0.00098 32.1 9.8 78 57-134 211-335 (338)
226 COG1100 GTPase SAR1 and relate 67.9 24 0.00052 30.5 7.3 69 70-151 53-124 (219)
227 cd04111 Rab39 Rab39 subfamily. 67.9 18 0.00038 32.1 6.5 68 71-151 52-122 (211)
228 COG1160 Predicted GTPases [Gen 67.7 8.2 0.00018 39.2 4.7 90 54-151 210-302 (444)
229 cd04107 Rab32_Rab38 Rab38/Rab3 67.6 14 0.00031 32.0 5.8 68 70-150 49-122 (201)
230 cd04135 Tc10 TC10 subfamily. 67.1 8.6 0.00019 31.9 4.1 66 71-150 48-116 (174)
231 COG0552 FtsY Signal recognitio 67.0 7.9 0.00017 38.0 4.4 74 70-149 221-295 (340)
232 cd04134 Rho3 Rho3 subfamily. 66.5 8.8 0.00019 33.0 4.2 67 71-151 48-117 (189)
233 cd04177 RSR1 RSR1 subgroup. R 66.3 11 0.00023 31.4 4.6 67 71-150 49-118 (168)
234 KOG0462|consensus 66.2 17 0.00037 38.2 6.8 81 55-150 109-189 (650)
235 cd01874 Cdc42 Cdc42 subfamily. 66.1 12 0.00025 32.0 4.8 66 71-150 49-117 (175)
236 cd04108 Rab36_Rab34 Rab34/Rab3 65.7 18 0.00039 30.6 5.9 74 62-150 41-118 (170)
237 cd04140 ARHI_like ARHI subfami 65.3 18 0.0004 29.9 5.8 69 69-150 47-120 (165)
238 cd04131 Rnd Rnd subfamily. Th 64.7 17 0.00036 31.4 5.6 75 62-151 41-118 (178)
239 PLN03071 GTP-binding nuclear p 64.7 17 0.00038 32.4 5.9 67 70-150 61-129 (219)
240 cd01871 Rac1_like Rac1-like su 62.7 19 0.00042 30.6 5.6 66 71-150 49-117 (174)
241 cd01855 YqeH YqeH. YqeH is an 62.3 7 0.00015 33.8 2.8 22 56-81 169-190 (190)
242 cd01859 MJ1464 MJ1464. This f 62.2 11 0.00024 31.4 3.8 51 98-150 3-53 (156)
243 COG0532 InfB Translation initi 61.1 64 0.0014 33.5 9.7 83 51-150 33-119 (509)
244 cd04174 Rnd1_Rho6 Rnd1/Rho6 su 60.7 21 0.00045 32.8 5.7 74 62-150 53-129 (232)
245 COG0481 LepA Membrane GTPase L 57.8 18 0.00039 37.6 5.1 83 53-150 56-140 (603)
246 cd01374 KISc_CENP_E Kinesin mo 57.1 60 0.0013 30.8 8.4 31 57-87 196-236 (321)
247 KOG0780|consensus 56.4 21 0.00046 36.2 5.3 94 68-172 181-274 (483)
248 cd04117 Rab15 Rab15 subfamily. 56.4 36 0.00079 28.2 6.1 75 62-150 41-117 (161)
249 PF00735 Septin: Septin; Inte 56.0 16 0.00035 34.6 4.2 79 71-151 63-155 (281)
250 cd01900 YchF YchF subfamily. 55.8 13 0.00029 35.2 3.6 41 72-119 63-103 (274)
251 cd03110 Fer4_NifH_child This p 55.6 30 0.00065 29.4 5.6 64 69-150 91-155 (179)
252 cd01855 YqeH YqeH. YqeH is an 55.3 20 0.00044 30.9 4.5 54 94-151 21-74 (190)
253 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 54.9 36 0.00077 29.6 6.0 75 62-151 45-122 (182)
254 cd01870 RhoA_like RhoA-like su 54.6 25 0.00055 29.1 4.8 74 62-150 41-117 (175)
255 cd01875 RhoG RhoG subfamily. 54.3 32 0.0007 29.7 5.6 73 63-150 44-119 (191)
256 cd00106 KISc Kinesin motor dom 53.3 80 0.0017 29.8 8.5 56 29-86 174-243 (328)
257 cd01849 YlqF_related_GTPase Yl 52.1 23 0.00049 29.6 4.1 22 56-81 134-155 (155)
258 cd04143 Rhes_like Rhes_like su 51.6 36 0.00078 31.3 5.7 69 70-151 47-126 (247)
259 KOG1489|consensus 50.0 17 0.00037 35.9 3.4 80 64-150 237-324 (366)
260 PLN00116 translation elongatio 50.0 35 0.00076 37.2 6.2 66 71-151 98-163 (843)
261 cd04133 Rop_like Rop subfamily 49.8 22 0.00047 30.8 3.8 75 62-151 41-118 (176)
262 cd03111 CpaE_like This protein 49.2 42 0.0009 26.6 5.1 61 72-147 44-106 (106)
263 cd04126 Rab20 Rab20 subfamily. 49.2 32 0.00069 31.2 4.9 68 71-151 44-113 (220)
264 cd01369 KISc_KHC_KIF5 Kinesin 48.2 1.3E+02 0.0028 28.6 9.1 30 57-86 203-239 (325)
265 KOG0447|consensus 48.0 2.9 6.2E-05 43.9 -2.3 50 136-185 432-485 (980)
266 cd01372 KISc_KIF4 Kinesin moto 46.7 1.2E+02 0.0027 28.9 8.8 30 57-86 206-252 (341)
267 cd01856 YlqF YlqF. Proteins o 45.8 30 0.00066 29.4 4.0 50 97-150 9-58 (171)
268 cd01896 DRG The developmentall 45.8 42 0.00091 30.5 5.2 42 71-119 47-88 (233)
269 cd01364 KISc_BimC_Eg5 Kinesin 43.7 2.3E+02 0.005 27.2 10.2 34 101-134 304-340 (352)
270 cd01367 KISc_KIF2_like Kinesin 43.3 1.5E+02 0.0033 28.2 8.8 29 57-85 205-237 (322)
271 cd04173 Rnd2_Rho7 Rnd2/Rho7 su 43.2 61 0.0013 29.4 5.8 75 62-151 41-118 (222)
272 cd01857 HSR1_MMR1 HSR1/MMR1. 42.9 39 0.00084 27.8 4.2 49 101-151 5-55 (141)
273 cd01857 HSR1_MMR1 HSR1/MMR1. 42.6 32 0.00069 28.3 3.6 11 72-82 129-139 (141)
274 cd01858 NGP_1 NGP-1. Autoanti 42.5 34 0.00074 28.5 3.8 40 111-151 11-52 (157)
275 COG3276 SelB Selenocysteine-sp 42.4 1E+02 0.0022 31.5 7.6 64 72-151 51-116 (447)
276 KOG1145|consensus 42.2 1E+02 0.0023 32.7 7.8 81 53-150 183-265 (683)
277 cd01849 YlqF_related_GTPase Yl 42.1 24 0.00053 29.4 2.8 40 111-151 2-42 (155)
278 KOG1423|consensus 41.9 51 0.0011 32.6 5.2 85 63-151 112-198 (379)
279 PRK09601 GTP-binding protein Y 41.9 29 0.00063 34.4 3.7 43 72-121 67-109 (364)
280 PRK06995 flhF flagellar biosyn 41.5 67 0.0014 33.1 6.3 69 71-150 335-403 (484)
281 KOG1954|consensus 41.5 12 0.00027 37.7 1.0 85 62-151 138-224 (532)
282 cd04121 Rab40 Rab40 subfamily. 41.4 48 0.001 29.0 4.7 74 63-151 48-123 (189)
283 COG5256 TEF1 Translation elong 40.8 97 0.0021 31.5 7.1 81 54-151 69-158 (428)
284 PRK12289 GTPase RsgA; Reviewed 40.4 26 0.00057 34.3 3.1 52 99-151 81-133 (352)
285 cd01892 Miro2 Miro2 subfamily. 40.2 44 0.00096 28.1 4.1 65 71-150 54-120 (169)
286 PTZ00258 GTP-binding protein; 40.1 87 0.0019 31.3 6.7 41 72-119 86-126 (390)
287 TIGR00750 lao LAO/AO transport 39.9 42 0.00091 31.7 4.3 14 69-82 125-138 (300)
288 cd03276 ABC_SMC6_euk Eukaryoti 39.8 41 0.00089 29.7 4.0 66 69-140 130-197 (198)
289 cd03114 ArgK-like The function 39.8 32 0.0007 29.1 3.2 13 70-82 91-103 (148)
290 COG1419 FlhF Flagellar GTP-bin 39.6 63 0.0014 32.7 5.6 67 71-149 282-349 (407)
291 TIGR03596 GTPase_YlqF ribosome 39.4 42 0.00092 31.2 4.3 16 72-87 164-179 (276)
292 cd01899 Ygr210 Ygr210 subfamil 39.1 34 0.00073 33.0 3.6 42 71-119 69-110 (318)
293 PRK09435 membrane ATPase/prote 38.7 43 0.00093 32.7 4.3 14 70-83 148-161 (332)
294 COG0050 TufB GTPases - transla 38.5 63 0.0014 31.9 5.2 82 54-151 59-141 (394)
295 cd04178 Nucleostemin_like Nucl 37.8 42 0.00092 29.2 3.7 11 71-81 162-172 (172)
296 cd01371 KISc_KIF3 Kinesin moto 37.7 1.2E+02 0.0027 28.9 7.3 57 29-87 177-248 (333)
297 cd00877 Ran Ran (Ras-related n 36.8 78 0.0017 26.4 5.1 66 70-150 48-116 (166)
298 TIGR01007 eps_fam capsular exo 36.4 87 0.0019 27.2 5.5 65 70-150 127-192 (204)
299 COG2262 HflX GTPases [General 36.4 1.9E+02 0.0041 29.3 8.4 83 63-151 232-317 (411)
300 cd01373 KISc_KLP2_like Kinesin 36.1 1.6E+02 0.0036 28.2 7.8 104 29-134 179-334 (337)
301 PRK13796 GTPase YqeH; Provisio 35.4 50 0.0011 32.3 4.2 48 101-151 62-109 (365)
302 cd01366 KISc_C_terminal Kinesi 35.1 4E+02 0.0086 25.2 10.2 31 57-87 205-242 (329)
303 PRK09563 rbgA GTPase YlqF; Rev 34.7 56 0.0012 30.6 4.2 14 72-85 167-180 (287)
304 TIGR03597 GTPase_YqeH ribosome 34.4 66 0.0014 31.3 4.9 53 95-151 51-103 (360)
305 smart00129 KISc Kinesin motor, 33.7 62 0.0013 30.8 4.4 31 57-87 203-242 (335)
306 cd01365 KISc_KIF1A_KIF1B Kines 33.5 1E+02 0.0023 29.7 6.0 57 29-87 185-257 (356)
307 cd01368 KISc_KIF23_like Kinesi 32.1 1.5E+02 0.0032 28.7 6.8 16 71-86 241-256 (345)
308 PF10609 ParA: ParA/MinD ATPas 31.7 1.2E+02 0.0027 23.7 5.1 38 109-148 26-63 (81)
309 PF03029 ATP_bind_1: Conserved 31.2 38 0.00083 31.1 2.5 73 72-151 92-169 (238)
310 PRK09602 translation-associate 31.1 39 0.00085 33.6 2.7 41 71-117 72-112 (396)
311 COG0480 FusA Translation elong 31.0 1.1E+02 0.0024 32.9 6.2 80 53-151 60-141 (697)
312 TIGR03596 GTPase_YlqF ribosome 30.9 72 0.0016 29.7 4.3 49 99-151 13-61 (276)
313 PF10035 DUF2179: Uncharacteri 30.8 47 0.001 23.3 2.4 31 104-137 12-42 (55)
314 KOG0090|consensus 30.7 1.3E+02 0.0028 28.2 5.8 49 56-120 70-121 (238)
315 KOG0458|consensus 30.1 95 0.0021 32.9 5.3 82 53-151 238-328 (603)
316 cd01873 RhoBTB RhoBTB subfamil 29.8 1.2E+02 0.0027 26.5 5.4 66 70-151 65-133 (195)
317 PF00225 Kinesin: Kinesin moto 29.5 3.5E+02 0.0076 25.5 8.8 60 29-88 176-249 (335)
318 PHA02518 ParA-like protein; Pr 29.0 1.3E+02 0.0029 25.7 5.4 41 69-124 75-115 (211)
319 TIGR00157 ribosome small subun 29.0 50 0.0011 30.3 2.9 58 94-151 23-80 (245)
320 KOG1191|consensus 28.9 1.6E+02 0.0035 30.7 6.6 95 53-153 299-404 (531)
321 PRK01889 GTPase RsgA; Reviewed 27.8 55 0.0012 31.9 3.1 73 68-151 69-155 (356)
322 KOG1486|consensus 26.9 32 0.0007 33.2 1.2 53 58-120 99-151 (364)
323 PF09439 SRPRB: Signal recogni 25.8 44 0.00095 29.9 1.8 72 66-150 44-124 (181)
324 TIGR00157 ribosome small subun 25.4 2E+02 0.0043 26.4 6.1 26 74-99 174-200 (245)
325 KOG4146|consensus 25.3 3E+02 0.0066 22.5 6.3 43 88-149 33-75 (101)
326 PF00071 Ras: Ras family; Int 24.9 1.1E+02 0.0023 24.8 3.9 71 68-151 45-117 (162)
327 KOG2655|consensus 24.9 65 0.0014 32.1 3.0 79 71-151 79-171 (366)
328 TIGR03134 malonate_gamma malon 24.5 61 0.0013 30.2 2.6 38 68-106 65-102 (238)
329 cd02038 FleN-like FleN is a me 24.0 1.8E+02 0.0039 23.9 5.1 63 71-149 45-108 (139)
330 TIGR03597 GTPase_YqeH ribosome 23.5 1.7E+02 0.0036 28.5 5.5 14 71-84 204-217 (360)
331 cd01376 KISc_KID_like Kinesin 23.5 2.5E+02 0.0055 26.7 6.6 29 56-84 201-234 (319)
332 cd01375 KISc_KIF9_like Kinesin 22.9 1.9E+02 0.0041 27.7 5.7 30 57-86 212-250 (334)
333 TIGR01757 Malate-DH_plant mala 22.7 68 0.0015 32.0 2.7 41 107-151 161-201 (387)
334 COG5019 CDC3 Septin family pro 22.5 63 0.0014 32.3 2.3 79 71-151 82-175 (373)
335 PF00025 Arf: ADP-ribosylation 21.9 79 0.0017 27.0 2.6 67 70-150 57-127 (175)
336 COG0825 AccA Acetyl-CoA carbox 21.7 85 0.0018 30.6 3.0 33 70-102 151-186 (317)
337 cd04102 RabL3 RabL3 (Rab-like3 21.3 2.8E+02 0.0061 24.6 6.1 36 71-119 54-89 (202)
338 PRK09563 rbgA GTPase YlqF; Rev 21.0 1.4E+02 0.003 27.9 4.3 47 99-151 16-64 (287)
339 PF10139 Virul_Fac: Putative b 21.0 1.1E+02 0.0024 33.9 4.0 89 61-153 309-430 (854)
340 TIGR01759 MalateDH-SF1 malate 20.9 61 0.0013 31.3 1.9 40 108-151 121-160 (323)
341 cd04129 Rho2 Rho2 subfamily. 20.7 1.6E+02 0.0034 25.1 4.3 66 71-150 49-117 (187)
342 COG3963 Phospholipid N-methylt 20.2 85 0.0019 28.5 2.5 56 99-161 14-76 (194)
No 1
>KOG0447|consensus
Probab=100.00 E-value=1.2e-47 Score=379.90 Aligned_cols=223 Identities=69% Similarity=1.017 Sum_probs=215.6
Q ss_pred CCcCceEEEEEeCCCccccccccccccCCCCCCcHHHHHHHHHHHHhcccCCCccccccceEEEEeCCCCCCceEEeCCC
Q psy8958 1 MTRSPVKVTLSEGPYHVAQFKDSSREFDLTKESDLVELRKEVERRMMNSVRKGKTVSNEVISMSVKGPGLQRMVLVDLPG 80 (294)
Q Consensus 1 vTRrPl~L~L~~~p~~~~~f~~~~~ef~~~~~~d~~~i~~ei~~~m~~~~g~~~~~S~~~I~leI~gP~~p~LTLVDLPG 80 (294)
+||.|+.++|..+|.|.+.|.+..++|++++++|+.+++.|++-+|..+...|+.+|+++|.+.+.||+++.|+||||||
T Consensus 342 MTRaPVKVTLsEGPyHVAqFrDSsREfDLTKE~DLq~LR~e~E~RMr~sVr~GkTVSnEvIsltVKGPgLqRMVLVDLPG 421 (980)
T KOG0447|consen 342 MTRSPVKVTLSEGPHHVALFKDSSREFDLTKEEDLAALRHEIELRMRKNVKEGCTVSPETISLNVKGPGLQRMVLVDLPG 421 (980)
T ss_pred eccCCeEEEeccCcchhhhhccccccccccchhHHHHHHHHHHHHHHhcccCCcccccceEEEeecCCCcceeEEecCCc
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchhhhhhhhcccc
Q psy8958 81 IISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQQLIRIEKDGS 160 (294)
Q Consensus 81 i~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~~~~~~~~~~~ 160 (294)
+|.+.+.|...+.++.|..|.+.||+|||+||||+.++++|.+.|.+..++..+||.|.|||.||||.
T Consensus 422 vIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDGSVDAERSnVTDLVsq~DP~GrRTIfVLTKV------------ 489 (980)
T KOG0447|consen 422 VINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGSVDAERSIVTDLVSQMDPHGRRTIFVLTKV------------ 489 (980)
T ss_pred hhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccCCcchhhhhHHHHHHhcCCCCCeeEEEEeec------------
Confidence 99999999999999999999999999999999999999999999999999999999999999999995
Q ss_pred ccccccccccCCccccccCCcchhhhhhhhhhhccCCCCCCCccchhhhHHHHHHHHHhhhhhcCCChHHHHHHHcCCcc
Q psy8958 161 VDAERSNVTDLGSVMDLQGKHTIFVLTKVSQQVSMSPPLSPSGQKHRLIKSFIVCLQVDLAEENHSDPQRIKKILAGKLF 240 (294)
Q Consensus 161 v~~~r~~~~~LG~~~d~~~~~t~~~r~~~E~~fF~~~pW~~~~~~~r~~~a~~~~~~~d~~~~~~~~~~~~~~il~~~~~ 240 (294)
|++++++.+|+++++||+|++|
T Consensus 490 ----------------------------------------------------------DlAEknlA~PdRI~kIleGKLF 511 (980)
T KOG0447|consen 490 ----------------------------------------------------------DLAEKNVASPSRIQQIIEGKLF 511 (980)
T ss_pred ----------------------------------------------------------chhhhccCCHHHHHHHHhcCcc
Confidence 5677777889999999999999
Q ss_pred cCCCCCeEEEEeCCCCCCCccHHHHHHHHHHHhccChhhhhhhhcCCCCCcCCC
Q psy8958 241 PMKALGYFAVVTGRGGKKDESIQDIKEYEENFFKKSKLFSTKVRQGNQGSSGRL 294 (294)
Q Consensus 241 ~L~~lG~~~v~~~~~~~~~~~~~~~~~~e~~~f~~~~~~~~~~~~~~~~~~~~~ 294 (294)
|+|+||||+||++||. ...||+.+|+|||+||+++++|.+.|.+.+|..|.||
T Consensus 512 PMKALGYfaVVTGrGn-ssdSIdaIR~YEE~FF~nSkLl~~~vlkphQvTtRNl 564 (980)
T KOG0447|consen 512 PMKALGYFAVVTGKGN-SSESIEAIREYEEEFFQNSKLLKTSMLKAHQVTTRNL 564 (980)
T ss_pred chhhcceeEEEecCCC-cchhHHHHHHHHHHHhhhhHHHHhhccchhhhcccch
Confidence 9999999999999977 7889999999999999999999999999999999986
No 2
>KOG0446|consensus
Probab=100.00 E-value=2.9e-45 Score=375.83 Aligned_cols=205 Identities=25% Similarity=0.381 Sum_probs=189.8
Q ss_pred CCcCceEEEEEeCCC---cccccc-ccccccCCCCCCcHHHHHHHHHHHHhcccCCCccccccceEEEEeCCCCCCceEE
Q psy8958 1 MTRSPVKVTLSEGPY---HVAQFK-DSSREFDLTKESDLVELRKEVERRMMNSVRKGKTVSNEVISMSVKGPGLQRMVLV 76 (294)
Q Consensus 1 vTRrPl~L~L~~~p~---~~~~f~-~~~~ef~~~~~~d~~~i~~ei~~~m~~~~g~~~~~S~~~I~leI~gP~~p~LTLV 76 (294)
|||||++|||.+... .|++|. |... ..+.||.++++||+.+|++.+|.++++|+.||.|+|++|++++||||
T Consensus 62 vTRrPlvlqL~~~~~~~~e~~~f~~h~~~----~~~~D~~~vrkeI~~et~~~~g~~kgiS~~pI~L~i~s~~v~~lTLv 137 (657)
T KOG0446|consen 62 VTRRPLILQLSIVAGGDEEEASFLTHDKK----KRFTDFEEVRKEIRSETDRITGSNKGISPVPITLKIFSALVANLTLV 137 (657)
T ss_pred eecccceeecccccCCcccchhccccccc----cccCCHHHHHHHHHhhHHHhcCCCCCcCCCCceeeecCCCCchhhhc
Confidence 899999999999753 789888 6543 46789999999999999999999999999999999999999999999
Q ss_pred eCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchhhhhhhh
Q psy8958 77 DLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQQLIRIE 156 (294)
Q Consensus 77 DLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~~~~~~~ 156 (294)
||||++++++++||+++..+|++|+++|+++|+||||+|+|||+|++|++++++|+++||.|.|||||+||+|
T Consensus 138 DlPG~tkvpv~dqp~di~~qI~~mi~~yi~~~~~iILav~~an~d~ats~alkiarevDp~g~RTigvitK~D------- 210 (657)
T KOG0446|consen 138 DLPGLTKVPVADQPDDIEEEIKSMIEEYIEKPNRIILAVTPANSDIATSPALVVAREVDPGGSRTLEVITKFD------- 210 (657)
T ss_pred CCCCCcccccCCCCccHHHHHHHHHHHhccccchhhhhccchhhhhhcCHHHHHHHhhCCCccchhHHhhhHH-------
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999965
Q ss_pred ccccccccccccccCCccccccCCcchhhhhhhhhhhccCCCCCCCccchhhhHHHHHHHHHhhhhhcCCChHHHHHHHc
Q psy8958 157 KDGSVDAERSNVTDLGSVMDLQGKHTIFVLTKVSQQVSMSPPLSPSGQKHRLIKSFIVCLQVDLAEENHSDPQRIKKILA 236 (294)
Q Consensus 157 ~~~~v~~~r~~~~~LG~~~d~~~~~t~~~r~~~E~~fF~~~pW~~~~~~~r~~~a~~~~~~~d~~~~~~~~~~~~~~il~ 236 (294)
+||+| +++..+|.
T Consensus 211 ---------------------------------------------------------------lmdkG----t~~~~~L~ 223 (657)
T KOG0446|consen 211 ---------------------------------------------------------------FMDKG----TNAVTRLV 223 (657)
T ss_pred ---------------------------------------------------------------hhhcC----Ccceeeec
Confidence 56776 78888899
Q ss_pred CCcccCCCCCeEEEEeCCCCC---CCccHHHHHHHHHHHhccChhhhhhhhc
Q psy8958 237 GKLFPMKALGYFAVVTGRGGK---KDESIQDIKEYEENFFKKSKLFSTKVRQ 285 (294)
Q Consensus 237 ~~~~~L~~lG~~~v~~~~~~~---~~~~~~~~~~~e~~~f~~~~~~~~~~~~ 285 (294)
|+.+||+ +||++||| |+|+ .+.++.+|+..|+.||.+||.|++.+-.
T Consensus 224 g~~~~l~-~g~v~vvn-R~q~di~~~k~~~~al~~e~~~f~~~p~y~~~~~~ 273 (657)
T KOG0446|consen 224 GRPITLK-VGYVGVVN-RSQSIIDFKKSILEALNDEVPSFESVPSYPILLTI 273 (657)
T ss_pred CCccccc-cceeeeec-cchhhhhhhhhHHHHHHhhhhhhhccccccccccc
Confidence 9999999 99999999 6664 5668999999999999999999987655
No 3
>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=100.00 E-value=1.8e-38 Score=291.45 Aligned_cols=177 Identities=32% Similarity=0.518 Sum_probs=159.8
Q ss_pred CCcCceEEEEEeCCCccccccccccccCCCCCCcHHHHHHHHHHHHhcccCCCccccccceEEEEeCCCCCCceEEeCCC
Q psy8958 1 MTRSPVKVTLSEGPYHVAQFKDSSREFDLTKESDLVELRKEVERRMMNSVRKGKTVSNEVISMSVKGPGLQRMVLVDLPG 80 (294)
Q Consensus 1 vTRrPl~L~L~~~p~~~~~f~~~~~ef~~~~~~d~~~i~~ei~~~m~~~~g~~~~~S~~~I~leI~gP~~p~LTLVDLPG 80 (294)
|||||++|+|++.+.+|+.|.+... ..+.+++++.++|+++|+...+.+++||+++|+|+|+||++|+|+||||||
T Consensus 59 ~t~~p~~i~l~~~~~~~~~~~~~~~----~~~~~~~~v~~~i~~~~~~~~~~~~~~s~~~i~l~i~~p~~~~ltLIDlPG 134 (240)
T smart00053 59 VTRRPLILQLINSSTEYAEFLHCKG----KKFTDFDEVRNEIEAETDRVTGTNKGISPVPINLRVYSPHVLNLTLIDLPG 134 (240)
T ss_pred ccccceEEEccCCCCcceEEEecCC----cccCCHHHHHHHHHHHHHHhcCCCCcccCcceEEEEeCCCCCceEEEeCCC
Confidence 7999999999999888888776542 355678888888888888888888999999999999999999999999999
Q ss_pred CcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchhhhhhhhcccc
Q psy8958 81 IISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQQLIRIEKDGS 160 (294)
Q Consensus 81 i~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~~~~~~~~~~~ 160 (294)
++..+..+|+.++..+|++|++.||+++++|||+|++|+.|+++++++++|+.+||.|.|||||+||+|..
T Consensus 135 l~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld~~~~rti~ViTK~D~~--------- 205 (240)
T smart00053 135 ITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVDPQGERTIGVITKLDLM--------- 205 (240)
T ss_pred ccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHHHcCCcEEEEEECCCCC---------
Confidence 99988888888999999999999999999999999999999999999999999999999999999999842
Q ss_pred ccccccccccCCccccccCCcchhhhhhhhhhhccCCCCCCCccchhhhHHHHHHHHHhhhhhcCCChHHHHHHHcCCcc
Q psy8958 161 VDAERSNVTDLGSVMDLQGKHTIFVLTKVSQQVSMSPPLSPSGQKHRLIKSFIVCLQVDLAEENHSDPQRIKKILAGKLF 240 (294)
Q Consensus 161 v~~~r~~~~~LG~~~d~~~~~t~~~r~~~E~~fF~~~pW~~~~~~~r~~~a~~~~~~~d~~~~~~~~~~~~~~il~~~~~ 240 (294)
+++ +++.++|.|+.+
T Consensus 206 -------------------------------------------------------------~~~----~~~~~~~~~~~~ 220 (240)
T smart00053 206 -------------------------------------------------------------DEG----TDARDILENKLL 220 (240)
T ss_pred -------------------------------------------------------------Ccc----HHHHHHHhCCcc
Confidence 122 459999999999
Q ss_pred cCCCCCeEEEEeCCCCC
Q psy8958 241 PMKALGYFAVVTGRGGK 257 (294)
Q Consensus 241 ~L~~lG~~~v~~~~~~~ 257 (294)
||+ |||++|+| |+|+
T Consensus 221 ~l~-~g~~~v~n-r~~~ 235 (240)
T smart00053 221 PLR-RGYIGVVN-RSQK 235 (240)
T ss_pred ccC-CCEEEEEC-CChH
Confidence 999 99999999 6664
No 4
>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=99.46 E-value=4.3e-13 Score=113.31 Aligned_cols=137 Identities=26% Similarity=0.406 Sum_probs=106.1
Q ss_pred CCcCceEEEEEeCCCcccccccc-ccccCCCCCCcHHHHHHHHHHHHhcccCCCccccccceEEEEeCCCCCCceEEeCC
Q psy8958 1 MTRSPVKVTLSEGPYHVAQFKDS-SREFDLTKESDLVELRKEVERRMMNSVRKGKTVSNEVISMSVKGPGLQRMVLVDLP 79 (294)
Q Consensus 1 vTRrPl~L~L~~~p~~~~~f~~~-~~ef~~~~~~d~~~i~~ei~~~m~~~~g~~~~~S~~~I~leI~gP~~p~LTLVDLP 79 (294)
||++|+.++..+.+.....+... ... ....+.++.++.+.+........+....++..++.+....+...+++|||+|
T Consensus 31 ~T~~~~~i~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvDtP 109 (168)
T PF00350_consen 31 CTAVPTEISYGDEPEIEHEEAIIEFKD-GSEEFEELNELREQIDEEFDSIEGKLEQISSKVIVISISSPLLRNLTLVDTP 109 (168)
T ss_dssp TTSSEEEEEEEESSSCCTSEEEECEEE-ETEEBCCHHHHHHHHHHHHHHHHTSSS-S-SSEEEEEEEETTSCSEEEEEEE
T ss_pred cccceeEEEecccCccccccccccccc-cccchhhHHHHHHhhhcccccccccccccccceeEEeeccccccceEEEeCC
Confidence 79999999999887532111000 000 0245677888888887776655555678899999999999999999999999
Q ss_pred CCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 80 GIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 80 Gi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~ 148 (294)
|+.......+ +++.+|+ +...++|+|++++.++.+++...+.+..++...|+|+|+||.
T Consensus 110 G~~~~~~~~~---------~~~~~~~-~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~~~~~i~V~nk~ 168 (168)
T PF00350_consen 110 GLNSTNSEHT---------EITEEYL-PKADVVIFVVDANQDLTESDMEFLKQMLDPDKSRTIFVLNKA 168 (168)
T ss_dssp EBHSSHTTTS---------HHHHHHH-STTEEEEEEEETTSTGGGHHHHHHHHHHTTTCSSEEEEEE-G
T ss_pred ccccchhhhH---------HHHHHhh-ccCCEEEEEeccCcccchHHHHHHHHHhcCCCCeEEEEEcCC
Confidence 9976433222 8999999 777899999999999999999999999999999999999994
No 5
>PF01031 Dynamin_M: Dynamin central region; InterPro: IPR000375 Dynamin is a microtubule-associated force-producing protein of 100 Kd which is involved in the production of microtubule bundles. At the N terminus of dynamin is a GTPase domain (see IPR001401 from INTERPRO), and at the C terminus is a PH domain (see IPR001849 from INTERPRO). Between these two domains lies a central region of unknown function, which this entry represents.; GO: 0005525 GTP binding; PDB: 3ZVR_A 2AKA_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D 1JWY_B 1JX2_B 3SZR_A ....
Probab=99.03 E-value=6.1e-11 Score=111.25 Aligned_cols=57 Identities=28% Similarity=0.566 Sum_probs=42.9
Q ss_pred HHHHHcCCcccCCCCCeEEEEeCCCCC---CCccHHHHHHHHHHHhccChhhhhhhhcCCCCCcC
Q psy8958 231 IKKILAGKLFPMKALGYFAVVTGRGGK---KDESIQDIKEYEENFFKKSKLFSTKVRQGNQGSSG 292 (294)
Q Consensus 231 ~~~il~~~~~~L~~lG~~~v~~~~~~~---~~~~~~~~~~~e~~~f~~~~~~~~~~~~~~~~~~~ 292 (294)
+.+||+|+.+||+ |||++|+| |||+ ++.|+.++++.|++||++||+|+. ..++.||.
T Consensus 1 ~~~iL~n~~~pLk-lGy~~V~n-rsq~di~~~~s~~~a~~~E~~fF~~~~~~~~---~~~~~G~~ 60 (295)
T PF01031_consen 1 AMDILRNKVIPLK-LGYVGVKN-RSQQDINDGKSIEEARQKEKEFFSNHPWYSS---PADRCGTP 60 (295)
T ss_dssp SHHHHTTSSS--T-T-EEEE---S-HHHHHTTEEHHHHHHHHHHHHHHSTTTGG---GGGGSSHH
T ss_pred ChHHhCCCeeccC-CCeEEEec-CCccccccCCCHHHHHHHHHHHHhcccccCC---cccccchH
Confidence 3589999999999 99999999 6664 788999999999999999999998 23455553
No 6
>COG0699 Predicted GTPases (dynamin-related) [General function prediction only]
Probab=97.53 E-value=3.5e-05 Score=76.32 Aligned_cols=112 Identities=20% Similarity=0.269 Sum_probs=103.1
Q ss_pred CCCcHHHHHHHHHHHHhcccCCCccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCc
Q psy8958 31 KESDLVELRKEVERRMMNSVRKGKTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNA 110 (294)
Q Consensus 31 ~~~d~~~i~~ei~~~m~~~~g~~~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~s 110 (294)
.+.++..+..+....+....+...++...++.+.+.-+....++.+|+||+...+...+++++......+...|+..+++
T Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (546)
T COG0699 13 RFLDFSRVRSEKEKETLKDDGRNSGITEVIIELKIAAERLLQLTDVDLPGLRKVPLSLEPEDIAQEDELLDLGKIEIENA 92 (546)
T ss_pred hhhhHHHHHHHHHHHHhhcccccCCCccccchhhhhhhHHHHhhccccCCccccccccCchhhHHHHHHHHhhHHHHHHH
Confidence 45778889999988888877788999999999999999999999999999999999999999888888999999999999
Q ss_pred eEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 111 IILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 111 IILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D 149 (294)
+|...++++.+.++..+...++..++ +.||.+
T Consensus 93 li~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~ 124 (546)
T COG0699 93 LILLGIAPNADEEAELSIEVIREADR-------VPTKIN 124 (546)
T ss_pred HHhcchhhhhhhccchhhHhhhhhcc-------hhHHHH
Confidence 99999999999999999999999998 777743
No 7
>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=97.11 E-value=0.0038 Score=49.64 Aligned_cols=89 Identities=17% Similarity=0.273 Sum_probs=54.7
Q ss_pred cccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhc
Q psy8958 55 TVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQM 134 (294)
Q Consensus 55 ~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~ 134 (294)
+.+.......+......+++++|+||+.......+ ....+...++...+.+++++-+...+...... +....
T Consensus 29 ~~~~~~~~~~~~~~~~~~~~~~Dt~g~~~~~~~~~------~~~~~~~~~~~~~d~il~v~~~~~~~~~~~~~--~~~~~ 100 (163)
T cd00880 29 GTTTDPVEYVWELGPLGPVVLIDTPGIDEAGGLGR------EREELARRVLERADLILFVVDADLRADEEEEK--LLELL 100 (163)
T ss_pred CcEECCeEEEEEecCCCcEEEEECCCCCccccchh------hHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHH--HHHHH
Confidence 34455555566655578999999999887554321 11345566777788666655554433222222 33333
Q ss_pred CCCCCeEEEEeccchhh
Q psy8958 135 DPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 135 DP~G~RTIGVlTK~D~~ 151 (294)
...+...+.|+||.|+.
T Consensus 101 ~~~~~~~ivv~nK~D~~ 117 (163)
T cd00880 101 RERGKPVLLVLNKIDLL 117 (163)
T ss_pred HhcCCeEEEEEEccccC
Confidence 33467899999999964
No 8
>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB. Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.
Probab=97.07 E-value=0.0013 Score=56.56 Aligned_cols=75 Identities=16% Similarity=0.306 Sum_probs=51.7
Q ss_pred CceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCC--ceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 72 RMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPN--AIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 72 ~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~--sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D 149 (294)
.+.++|+||+.... ++.........++..|++... ..++.|++++..+..+.. ++.+.++..+...|.|+||+|
T Consensus 65 ~~~liDtpG~~~~~---~~~~~~~~~~~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~-~~~~~~~~~~~pviiv~nK~D 140 (179)
T TIGR03598 65 GFRLVDLPGYGYAK---VSKEEKEKWQKLIEEYLEKRENLKGVVLLMDIRHPLKELDL-EMLEWLRERGIPVLIVLTKAD 140 (179)
T ss_pred cEEEEeCCCCcccc---CChhHHHHHHHHHHHHHHhChhhcEEEEEecCCCCCCHHHH-HHHHHHHHcCCCEEEEEECcc
Confidence 79999999976543 234455677788888887532 345666777765554444 344555556788999999999
Q ss_pred h
Q psy8958 150 Q 150 (294)
Q Consensus 150 ~ 150 (294)
+
T Consensus 141 ~ 141 (179)
T TIGR03598 141 K 141 (179)
T ss_pred c
Confidence 5
No 9
>COG0218 Predicted GTPase [General function prediction only]
Probab=97.00 E-value=0.0026 Score=57.69 Aligned_cols=112 Identities=14% Similarity=0.196 Sum_probs=73.1
Q ss_pred CCCCcHHHHHHHHHHHHh-cccCCCccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCC
Q psy8958 30 TKESDLVELRKEVERRMM-NSVRKGKTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNP 108 (294)
Q Consensus 30 ~~~~d~~~i~~ei~~~m~-~~~g~~~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p 108 (294)
.+-..=+.+++.+...-. ..++...|.+-.+-..++..- +-||||||+=...+ |.+..+...+|+..|++..
T Consensus 32 RSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~----~~lVDlPGYGyAkv---~k~~~e~w~~~i~~YL~~R 104 (200)
T COG0218 32 RSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDE----LRLVDLPGYGYAKV---PKEVKEKWKKLIEEYLEKR 104 (200)
T ss_pred cCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCc----EEEEeCCCcccccC---CHHHHHHHHHHHHHHHhhc
Confidence 344444666555432110 112334566666666666554 89999999877665 5688999999999999997
Q ss_pred CceEEEe--ccCCCcchh--cHHHHhhhhcCCCCCeEEEEeccchhh
Q psy8958 109 NAIILCI--QDGSVDAER--SNVTDLVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 109 ~sIILaV--~~a~~D~an--s~al~lar~~DP~G~RTIGVlTK~D~~ 151 (294)
.+|-++| +++...+.. .+.++.+++ .|-.++-|+||+|+.
T Consensus 105 ~~L~~vvlliD~r~~~~~~D~em~~~l~~---~~i~~~vv~tK~DKi 148 (200)
T COG0218 105 ANLKGVVLLIDARHPPKDLDREMIEFLLE---LGIPVIVVLTKADKL 148 (200)
T ss_pred hhheEEEEEEECCCCCcHHHHHHHHHHHH---cCCCeEEEEEccccC
Confidence 7766554 455544433 344455544 467899999999964
No 10
>cd01876 YihA_EngB The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.
Probab=96.69 E-value=0.0051 Score=50.06 Aligned_cols=75 Identities=17% Similarity=0.320 Sum_probs=50.9
Q ss_pred CceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCce--EEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 72 RMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAI--ILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 72 ~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sI--ILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D 149 (294)
.++++|+||+..... +.+..+....++..|++..+.+ ++.|+++.... +..-.++.+.++..+...+.|+||+|
T Consensus 46 ~~~~~D~~g~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~-~~~~~~~~~~l~~~~~~vi~v~nK~D 121 (170)
T cd01876 46 KFRLVDLPGYGYAKV---SKEVKEKWGKLIEEYLENRENLKGVVLLIDSRHGP-TEIDLEMLDWLEELGIPFLVVLTKAD 121 (170)
T ss_pred eEEEecCCCcccccc---CHHHHHHHHHHHHHHHHhChhhhEEEEEEEcCcCC-CHhHHHHHHHHHHcCCCEEEEEEchh
Confidence 899999999866544 4556677888889999876543 45566655432 22223444555555677899999999
Q ss_pred h
Q psy8958 150 Q 150 (294)
Q Consensus 150 ~ 150 (294)
+
T Consensus 122 ~ 122 (170)
T cd01876 122 K 122 (170)
T ss_pred c
Confidence 5
No 11
>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....
Probab=96.44 E-value=0.0049 Score=53.73 Aligned_cols=71 Identities=25% Similarity=0.388 Sum_probs=45.3
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcC-CCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMS-NPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~-~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D 149 (294)
..+.||||||+...... +.+ + .+..+|+. .+-.+|+.|++|+. + ..-+.++.++-..|...|-|+||.|
T Consensus 47 ~~~~lvDlPG~ysl~~~--s~e-e----~v~~~~l~~~~~D~ii~VvDa~~-l--~r~l~l~~ql~e~g~P~vvvlN~~D 116 (156)
T PF02421_consen 47 QQVELVDLPGIYSLSSK--SEE-E----RVARDYLLSEKPDLIIVVVDATN-L--ERNLYLTLQLLELGIPVVVVLNKMD 116 (156)
T ss_dssp EEEEEEE----SSSSSS--SHH-H----HHHHHHHHHTSSSEEEEEEEGGG-H--HHHHHHHHHHHHTTSSEEEEEETHH
T ss_pred ceEEEEECCCcccCCCC--CcH-H----HHHHHHHhhcCCCEEEEECCCCC-H--HHHHHHHHHHHHcCCCEEEEEeCHH
Confidence 77999999999775432 221 2 34455552 33347778888875 4 3446677777777999999999999
Q ss_pred hh
Q psy8958 150 QQ 151 (294)
Q Consensus 150 ~~ 151 (294)
.+
T Consensus 117 ~a 118 (156)
T PF02421_consen 117 EA 118 (156)
T ss_dssp HH
T ss_pred HH
Confidence 65
No 12
>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1). This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).
Probab=96.40 E-value=0.0083 Score=52.55 Aligned_cols=76 Identities=16% Similarity=0.257 Sum_probs=46.3
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchh--cHHHHhhhhc-CCC-CCeEEEEec
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAER--SNVTDLVSQM-DPQ-GKRTIFVLT 146 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~an--s~al~lar~~-DP~-G~RTIGVlT 146 (294)
..+++||+||+..... ..+++...+...+......++ +||.|+++.. +.. ..+++..+++ .+. ...+|.|+|
T Consensus 49 ~~i~viDTPG~~d~~~--~~~~~~~~i~~~~~~~~~g~~-~illVi~~~~-~t~~d~~~l~~l~~~fg~~~~~~~ivv~T 124 (196)
T cd01852 49 RRVNVIDTPGLFDTSV--SPEQLSKEIVRCLSLSAPGPH-AFLLVVPLGR-FTEEEEQAVETLQELFGEKVLDHTIVLFT 124 (196)
T ss_pred eEEEEEECcCCCCccC--ChHHHHHHHHHHHHhcCCCCE-EEEEEEECCC-cCHHHHHHHHHHHHHhChHhHhcEEEEEE
Confidence 4699999999997643 233444444444444445566 5566667765 443 3345444443 322 258999999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|.|.
T Consensus 125 ~~d~ 128 (196)
T cd01852 125 RGDD 128 (196)
T ss_pred Cccc
Confidence 9984
No 13
>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=96.18 E-value=0.034 Score=45.16 Aligned_cols=72 Identities=19% Similarity=0.376 Sum_probs=44.2
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc--chhcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD--AERSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D--~ans~al~lar~~DP~G~RTIGVlTK~ 148 (294)
..+.++|+||+..... .....+.+....++...+.+|++ +++... ..+....+++++ .+...|.|+||.
T Consensus 45 ~~~~i~DtpG~~~~~~-----~~~~~~~~~~~~~~~~~d~ii~v-~d~~~~~~~~~~~~~~~~~~---~~~piiiv~nK~ 115 (157)
T cd01894 45 REFILIDTGGIEPDDE-----GISKEIREQAELAIEEADVILFV-VDGREGLTPADEEIAKYLRK---SKKPVILVVNKV 115 (157)
T ss_pred eEEEEEECCCCCCchh-----HHHHHHHHHHHHHHHhCCEEEEE-EeccccCCccHHHHHHHHHh---cCCCEEEEEECc
Confidence 5699999999875332 23344444555666666655554 555432 223334455554 358899999999
Q ss_pred hhh
Q psy8958 149 SQQ 151 (294)
Q Consensus 149 D~~ 151 (294)
|+.
T Consensus 116 D~~ 118 (157)
T cd01894 116 DNI 118 (157)
T ss_pred ccC
Confidence 953
No 14
>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=96.00 E-value=0.0078 Score=48.74 Aligned_cols=74 Identities=12% Similarity=0.250 Sum_probs=46.1
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D 149 (294)
..++.++|+||+...... ..+.+..+...++...+.+++++-..+. .++....+.+.+...+...+.|+||.|
T Consensus 50 ~~~~~liDtpG~~~~~~~-----~~~~~~~~~~~~~~~~d~i~~v~d~~~~--~~~~~~~~~~~~~~~~~~~iiv~nK~D 122 (168)
T cd04163 50 DAQIIFVDTPGIHKPKKK-----LGERMVKAAWSALKDVDLVLFVVDASEP--IGEGDEFILELLKKSKTPVILVLNKID 122 (168)
T ss_pred CeEEEEEECCCCCcchHH-----HHHHHHHHHHHHHHhCCEEEEEEECCCc--cCchHHHHHHHHHHhCCCEEEEEEchh
Confidence 457999999998754321 1223556677788888877666555443 122222333333333677899999999
Q ss_pred h
Q psy8958 150 Q 150 (294)
Q Consensus 150 ~ 150 (294)
+
T Consensus 123 l 123 (168)
T cd04163 123 L 123 (168)
T ss_pred c
Confidence 5
No 15
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=95.95 E-value=0.017 Score=49.52 Aligned_cols=76 Identities=16% Similarity=0.316 Sum_probs=47.6
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCc--eEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNA--IILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~s--IILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~ 148 (294)
..|+|+|+||+.... .+....+....++..|++.... .++.|++++....... ..+.+.+...+...+.|+||+
T Consensus 70 ~~l~l~DtpG~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~-~~i~~~l~~~~~~~iiv~nK~ 145 (196)
T PRK00454 70 DKLRLVDLPGYGYAK---VSKEEKEKWQKLIEEYLRTRENLKGVVLLIDSRHPLKELD-LQMIEWLKEYGIPVLIVLTKA 145 (196)
T ss_pred CeEEEeCCCCCCCcC---CCchHHHHHHHHHHHHHHhCccceEEEEEEecCCCCCHHH-HHHHHHHHHcCCcEEEEEECc
Confidence 679999999976432 2444566677888889887643 3444555554322211 222333344567789999999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|+
T Consensus 146 Dl 147 (196)
T PRK00454 146 DK 147 (196)
T ss_pred cc
Confidence 95
No 16
>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.
Probab=95.80 E-value=0.037 Score=54.10 Aligned_cols=88 Identities=19% Similarity=0.302 Sum_probs=57.3
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhc--HHHHhh
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERS--NVTDLV 131 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans--~al~la 131 (294)
.+.+.+.....+...+. .++|+|+||+.. ....+.+.+.+++..+++.... ||.|+++...+... ...+..
T Consensus 31 ~g~t~d~~~~~~~~~~~-~~~liDTpG~~~-----~~~~~~~~~~~~~~~~~~~ad~-vl~vvD~~~~~~~~d~~i~~~l 103 (429)
T TIGR03594 31 PGVTRDRKYGDAEWGGR-EFILIDTGGIEE-----DDDGLDKQIREQAEIAIEEADV-ILFVVDGREGLTPEDEEIAKWL 103 (429)
T ss_pred CCcccCceEEEEEECCe-EEEEEECCCCCC-----cchhHHHHHHHHHHHHHhhCCE-EEEEEeCCCCCCHHHHHHHHHH
Confidence 34555555555544333 599999999852 2345668888899999999884 55555666433322 234444
Q ss_pred hhcCCCCCeEEEEeccchhh
Q psy8958 132 SQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 132 r~~DP~G~RTIGVlTK~D~~ 151 (294)
++ .+...|.|++|+|+.
T Consensus 104 ~~---~~~piilVvNK~D~~ 120 (429)
T TIGR03594 104 RK---SGKPVILVANKIDGK 120 (429)
T ss_pred HH---hCCCEEEEEECccCC
Confidence 44 467799999999964
No 17
>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=95.75 E-value=0.047 Score=48.06 Aligned_cols=72 Identities=29% Similarity=0.452 Sum_probs=40.3
Q ss_pred eCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcH--HHHhhhhcCCCCCeEEE
Q psy8958 66 KGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSN--VTDLVSQMDPQGKRTIF 143 (294)
Q Consensus 66 ~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~--al~lar~~DP~G~RTIG 143 (294)
..++.++++++|+||+-..... ..+.++.+. +..-. ++|.|.+. ++...+ .++..++. |.+.+.
T Consensus 47 ~~~~~~~l~l~DtpG~~~~~~~-----~~~~l~~~~---~~~~d-~~l~v~~~--~~~~~d~~~~~~l~~~---~~~~il 112 (197)
T cd04104 47 PHPKFPNVTLWDLPGIGSTAFP-----PDDYLEEMK---FSEYD-FFIIISST--RFSSNDVKLAKAIQCM---GKKFYF 112 (197)
T ss_pred ecCCCCCceEEeCCCCCcccCC-----HHHHHHHhC---ccCcC-EEEEEeCC--CCCHHHHHHHHHHHHh---CCCEEE
Confidence 3355789999999998753221 112222221 22333 44444433 343332 34455554 789999
Q ss_pred Eeccchhh
Q psy8958 144 VLTKVSQQ 151 (294)
Q Consensus 144 VlTK~D~~ 151 (294)
|+||+|+.
T Consensus 113 V~nK~D~~ 120 (197)
T cd04104 113 VRTKVDRD 120 (197)
T ss_pred EEecccch
Confidence 99999964
No 18
>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=95.58 E-value=0.094 Score=48.55 Aligned_cols=72 Identities=11% Similarity=0.247 Sum_probs=44.3
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchh-cHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAER-SNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~an-s~al~lar~~DP~G~RTIGVlTK~D 149 (294)
..++|+|+||+.... ..+...+.+.+.+++...+.++ .|++++..... ..++...+. .+...|.|+||.|
T Consensus 48 ~qii~vDTPG~~~~~-----~~l~~~~~~~~~~~l~~aDvvl-~VvD~~~~~~~~~~i~~~l~~---~~~p~ilV~NK~D 118 (270)
T TIGR00436 48 SQIIFIDTPGFHEKK-----HSLNRLMMKEARSAIGGVDLIL-FVVDSDQWNGDGEFVLTKLQN---LKRPVVLTRNKLD 118 (270)
T ss_pred cEEEEEECcCCCCCc-----chHHHHHHHHHHHHHhhCCEEE-EEEECCCCCchHHHHHHHHHh---cCCCEEEEEECee
Confidence 459999999997642 1233334445667788777554 45566542222 233333333 4577999999999
Q ss_pred hh
Q psy8958 150 QQ 151 (294)
Q Consensus 150 ~~ 151 (294)
+.
T Consensus 119 l~ 120 (270)
T TIGR00436 119 NK 120 (270)
T ss_pred CC
Confidence 74
No 19
>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=95.42 E-value=0.073 Score=51.82 Aligned_cols=86 Identities=14% Similarity=0.276 Sum_probs=54.6
Q ss_pred cceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcH---HHHhhhhcC
Q psy8958 59 EVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSN---VTDLVSQMD 135 (294)
Q Consensus 59 ~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~---al~lar~~D 135 (294)
++..-.+.-|+...+.|+|+||+++. -|.+..+.++... .++.+.+ +||.|++++....... ..++.+++.
T Consensus 225 d~~~~~i~~~~~~~i~l~DT~G~~~~----l~~~lie~f~~tl-e~~~~AD-lil~VvD~s~~~~~~~~~~~~~~L~~l~ 298 (351)
T TIGR03156 225 DPTTRRLDLPDGGEVLLTDTVGFIRD----LPHELVAAFRATL-EEVREAD-LLLHVVDASDPDREEQIEAVEKVLEELG 298 (351)
T ss_pred CCEEEEEEeCCCceEEEEecCccccc----CCHHHHHHHHHHH-HHHHhCC-EEEEEEECCCCchHHHHHHHHHHHHHhc
Confidence 45555666666668999999999753 2455666666654 3566666 5566666653221111 234555555
Q ss_pred CCCCeEEEEeccchh
Q psy8958 136 PQGKRTIFVLTKVSQ 150 (294)
Q Consensus 136 P~G~RTIGVlTK~D~ 150 (294)
-.+...|-|++|+|+
T Consensus 299 ~~~~piIlV~NK~Dl 313 (351)
T TIGR03156 299 AEDIPQLLVYNKIDL 313 (351)
T ss_pred cCCCCEEEEEEeecC
Confidence 445678999999995
No 20
>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....
Probab=95.41 E-value=0.05 Score=43.27 Aligned_cols=72 Identities=26% Similarity=0.438 Sum_probs=42.7
Q ss_pred CCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEecc
Q psy8958 69 GLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 69 ~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK 147 (294)
+-..+.|+|+||+......+ .....+.+ +.+++..-+. |+.|++++. ..+....++.+.+. .+...|-|+||
T Consensus 45 ~~~~~~~vDtpG~~~~~~~~---~~~~~~~~-~~~~~~~~d~-ii~vv~~~~-~~~~~~~~~~~~l~-~~~~~i~v~NK 116 (116)
T PF01926_consen 45 NNKKFILVDTPGINDGESQD---NDGKEIRK-FLEQISKSDL-IIYVVDASN-PITEDDKNILRELK-NKKPIILVLNK 116 (116)
T ss_dssp TTEEEEEEESSSCSSSSHHH---HHHHHHHH-HHHHHCTESE-EEEEEETTS-HSHHHHHHHHHHHH-TTSEEEEEEES
T ss_pred ceeeEEEEeCCCCcccchhh---HHHHHHHH-HHHHHHHCCE-EEEEEECCC-CCCHHHHHHHHHHh-cCCCEEEEEcC
Confidence 33445899999987543211 11123334 4444455554 555555665 33444455666665 78999999998
No 21
>cd04165 GTPBP1_like GTPBP1-like. Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and
Probab=95.40 E-value=0.037 Score=50.35 Aligned_cols=73 Identities=10% Similarity=0.115 Sum_probs=44.1
Q ss_pred EEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcC-CCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEE
Q psy8958 64 SVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMS-NPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTI 142 (294)
Q Consensus 64 eI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~-~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTI 142 (294)
++....-..++|||+||.. ..++.++..... .++ +++.|++|...+..+ ..+++..+...|...|
T Consensus 77 ~~~~~~~~~i~liDtpG~~------------~~~~~~~~~~~~~~~D-~~llVvda~~g~~~~-d~~~l~~l~~~~ip~i 142 (224)
T cd04165 77 EICEKSSKLVTFIDLAGHE------------RYLKTTLFGLTGYAPD-YAMLVVAANAGIIGM-TKEHLGLALALNIPVF 142 (224)
T ss_pred eeeeeCCcEEEEEECCCcH------------HHHHHHHHhhcccCCC-EEEEEEECCCCCcHH-HHHHHHHHHHcCCCEE
Confidence 3444455689999999953 223444444332 355 455666777655433 2333333444567789
Q ss_pred EEeccchh
Q psy8958 143 FVLTKVSQ 150 (294)
Q Consensus 143 GVlTK~D~ 150 (294)
.|+||+|+
T Consensus 143 vvvNK~D~ 150 (224)
T cd04165 143 VVVTKIDL 150 (224)
T ss_pred EEEECccc
Confidence 99999995
No 22
>PRK00089 era GTPase Era; Reviewed
Probab=95.37 E-value=0.059 Score=50.10 Aligned_cols=73 Identities=14% Similarity=0.254 Sum_probs=46.4
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchh--cHHHHhhhhcCCCCCeEEEEecc
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAER--SNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~an--s~al~lar~~DP~G~RTIGVlTK 147 (294)
-..++++|+||+.... ..+.+.+...+..++...+.|+++ ++++..+.. ...++..+ ..+...|.|+||
T Consensus 52 ~~qi~~iDTPG~~~~~-----~~l~~~~~~~~~~~~~~~D~il~v-vd~~~~~~~~~~~i~~~l~---~~~~pvilVlNK 122 (292)
T PRK00089 52 DAQIIFVDTPGIHKPK-----RALNRAMNKAAWSSLKDVDLVLFV-VDADEKIGPGDEFILEKLK---KVKTPVILVLNK 122 (292)
T ss_pred CceEEEEECCCCCCch-----hHHHHHHHHHHHHHHhcCCEEEEE-EeCCCCCChhHHHHHHHHh---hcCCCEEEEEEC
Confidence 3689999999987533 223344555667778888866554 555543322 22333333 335789999999
Q ss_pred chhh
Q psy8958 148 VSQQ 151 (294)
Q Consensus 148 ~D~~ 151 (294)
.|+.
T Consensus 123 iDl~ 126 (292)
T PRK00089 123 IDLV 126 (292)
T ss_pred CcCC
Confidence 9964
No 23
>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=95.28 E-value=0.068 Score=43.63 Aligned_cols=69 Identities=25% Similarity=0.390 Sum_probs=40.3
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcC--CCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMS--NPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~--~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~ 148 (294)
.++.|+|+||+....... .+ ..|...|+. ..+.+|+ |+++.. ..+ .......+...+...|.|+||.
T Consensus 43 ~~~~liDtpG~~~~~~~~--~~-----~~~~~~~~~~~~~d~vi~-v~d~~~-~~~--~~~~~~~~~~~~~~~iiv~NK~ 111 (158)
T cd01879 43 KEIEIVDLPGTYSLSPYS--ED-----EKVARDFLLGEKPDLIVN-VVDATN-LER--NLYLTLQLLELGLPVVVALNMI 111 (158)
T ss_pred eEEEEEECCCccccCCCC--hh-----HHHHHHHhcCCCCcEEEE-EeeCCc-chh--HHHHHHHHHHcCCCEEEEEehh
Confidence 479999999986544321 11 245556665 5665554 555553 222 1222323333467899999999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|+
T Consensus 112 Dl 113 (158)
T cd01879 112 DE 113 (158)
T ss_pred hh
Confidence 96
No 24
>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=95.15 E-value=0.052 Score=44.90 Aligned_cols=65 Identities=15% Similarity=0.228 Sum_probs=40.3
Q ss_pred CCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc--chhcHHHHhhhhcCCCCCeEEEEec
Q psy8958 69 GLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD--AERSNVTDLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 69 ~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D--~ans~al~lar~~DP~G~RTIGVlT 146 (294)
...+++++|+||... ...+...++...+.++ .|++++.. ..+...+.+++. .+...+.|+|
T Consensus 48 ~~~~~~iiDtpG~~~-------------~~~~~~~~~~~~d~il-~v~d~~~~~~~~~~~~~~~~~~---~~~p~ivv~N 110 (168)
T cd01887 48 KIPGITFIDTPGHEA-------------FTNMRARGASLTDIAI-LVVAADDGVMPQTIEAIKLAKA---ANVPFIVALN 110 (168)
T ss_pred CcceEEEEeCCCcHH-------------HHHHHHHHHhhcCEEE-EEEECCCCccHHHHHHHHHHHH---cCCCEEEEEE
Confidence 467899999999521 2345556666666554 45555432 122334455554 4567999999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|.|+
T Consensus 111 K~Dl 114 (168)
T cd01887 111 KIDK 114 (168)
T ss_pred ceec
Confidence 9995
No 25
>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=95.10 E-value=0.04 Score=51.15 Aligned_cols=79 Identities=14% Similarity=0.271 Sum_probs=48.7
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCC-CCceEEEeccCCC---cchhcHHHHhhhh-cCCC-CCeEEE
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSN-PNAIILCIQDGSV---DAERSNVTDLVSQ-MDPQ-GKRTIF 143 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~-p~sIILaV~~a~~---D~ans~al~lar~-~DP~-G~RTIG 143 (294)
...+++||+||+......+ ...+.+.+.+++|+++ +-.+||.|...+. +.....+++..++ +.+. ..++|.
T Consensus 78 g~~i~vIDTPGl~~~~~~~---~~~~~~~~~I~~~l~~~~idvIL~V~rlD~~r~~~~d~~llk~I~e~fG~~i~~~~iv 154 (249)
T cd01853 78 GFKLNIIDTPGLLESVMDQ---RVNRKILSSIKRYLKKKTPDVVLYVDRLDMYRRDYLDLPLLRAITDSFGPSIWRNAIV 154 (249)
T ss_pred CeEEEEEECCCcCcchhhH---HHHHHHHHHHHHHHhccCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhChhhHhCEEE
Confidence 4679999999998654321 2345566777888874 2235666654442 2333345554443 3321 357999
Q ss_pred Eeccchhh
Q psy8958 144 VLTKVSQQ 151 (294)
Q Consensus 144 VlTK~D~~ 151 (294)
|+||+|..
T Consensus 155 V~T~~d~~ 162 (249)
T cd01853 155 VLTHAASS 162 (249)
T ss_pred EEeCCccC
Confidence 99999964
No 26
>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=95.04 E-value=0.073 Score=44.82 Aligned_cols=79 Identities=14% Similarity=0.174 Sum_probs=45.7
Q ss_pred cccceEEEEeC--CCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhc
Q psy8958 57 SNEVISMSVKG--PGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQM 134 (294)
Q Consensus 57 S~~~I~leI~g--P~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~ 134 (294)
....+.+...+ ..-..+.|+|+||... ...++..|+...+++|+++ +++.....+ .+......
T Consensus 51 ~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~-------------~~~~~~~~~~~ad~~i~v~-D~~~~~~~~-~~~~~~~~ 115 (179)
T cd01890 51 KAQTVRLNYKAKDGQEYLLNLIDTPGHVD-------------FSYEVSRSLAACEGALLLV-DATQGVEAQ-TLANFYLA 115 (179)
T ss_pred ecceEEEEEecCCCCcEEEEEEECCCChh-------------hHHHHHHHHHhcCeEEEEE-ECCCCccHh-hHHHHHHH
Confidence 33444454432 2335688999999753 2346677888888777655 444332211 11211222
Q ss_pred CCCCCeEEEEeccchh
Q psy8958 135 DPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 135 DP~G~RTIGVlTK~D~ 150 (294)
...+...|.|+||.|+
T Consensus 116 ~~~~~~iiiv~NK~Dl 131 (179)
T cd01890 116 LENNLEIIPVINKIDL 131 (179)
T ss_pred HHcCCCEEEEEECCCC
Confidence 2245679999999995
No 27
>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=95.01 E-value=0.2 Score=40.43 Aligned_cols=73 Identities=19% Similarity=0.260 Sum_probs=41.8
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D 149 (294)
...++++|+||+...... ....--..+..++.+.+. ++.|++++.-... .-.++.+. ..+...|.|+||.|
T Consensus 48 ~~~~~i~DtpG~~~~~~~-----~~~~~~~~~~~~~~~~~~-~v~v~d~~~~~~~-~~~~~~~~--~~~~~vi~v~nK~D 118 (157)
T cd04164 48 GIPVRLIDTAGIRETEDE-----IEKIGIERAREAIEEADL-VLFVIDASRGLDE-EDLEILEL--PADKPIIVVLNKSD 118 (157)
T ss_pred CEEEEEEECCCcCCCcch-----HHHHHHHHHHHHHhhCCE-EEEEEECCCCCCH-HHHHHHHh--hcCCCEEEEEEchh
Confidence 357899999998654321 111112234455566664 4556666642222 22333333 34688999999999
Q ss_pred hh
Q psy8958 150 QQ 151 (294)
Q Consensus 150 ~~ 151 (294)
+.
T Consensus 119 ~~ 120 (157)
T cd04164 119 LL 120 (157)
T ss_pred cC
Confidence 53
No 28
>PRK00093 GTP-binding protein Der; Reviewed
Probab=94.95 E-value=0.15 Score=50.09 Aligned_cols=71 Identities=20% Similarity=0.419 Sum_probs=49.3
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcc--hhcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDA--ERSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~--ans~al~lar~~DP~G~RTIGVlTK~ 148 (294)
..+.|+|+||+... ..+....++..+..++.....||++| ++...+ ......+..++. +...|.|++|+
T Consensus 49 ~~~~liDT~G~~~~-----~~~~~~~~~~~~~~~~~~ad~il~vv-d~~~~~~~~~~~~~~~l~~~---~~piilv~NK~ 119 (435)
T PRK00093 49 REFILIDTGGIEPD-----DDGFEKQIREQAELAIEEADVILFVV-DGRAGLTPADEEIAKILRKS---NKPVILVVNKV 119 (435)
T ss_pred cEEEEEECCCCCCc-----chhHHHHHHHHHHHHHHhCCEEEEEE-ECCCCCCHHHHHHHHHHHHc---CCcEEEEEECc
Confidence 67999999999762 12366777888888999888665555 444322 223344555554 68899999999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|.
T Consensus 120 D~ 121 (435)
T PRK00093 120 DG 121 (435)
T ss_pred cC
Confidence 95
No 29
>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=94.95 E-value=0.034 Score=49.80 Aligned_cols=76 Identities=18% Similarity=0.306 Sum_probs=45.0
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch--hcHHHHhhh-hcCCC-CCeEEEEec
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE--RSNVTDLVS-QMDPQ-GKRTIFVLT 146 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a--ns~al~lar-~~DP~-G~RTIGVlT 146 (294)
..+++||+||+..... .++++...|.+.+......+++|+|+ +++. .+. ...+++..+ -+.+. ..+||-|+|
T Consensus 49 ~~v~VIDTPGl~d~~~--~~~~~~~~i~~~l~~~~~g~ha~llV-i~~~-r~t~~~~~~l~~l~~~FG~~~~k~~ivvfT 124 (212)
T PF04548_consen 49 RQVTVIDTPGLFDSDG--SDEEIIREIKRCLSLCSPGPHAFLLV-IPLG-RFTEEDREVLELLQEIFGEEIWKHTIVVFT 124 (212)
T ss_dssp EEEEEEE--SSEETTE--EHHHHHHHHHHHHHHTTT-ESEEEEE-EETT-B-SHHHHHHHHHHHHHHCGGGGGGEEEEEE
T ss_pred eEEEEEeCCCCCCCcc--cHHHHHHHHHHHHHhccCCCeEEEEE-EecC-cchHHHHHHHHHHHHHccHHHHhHhhHHhh
Confidence 5689999999976554 23445555555444445568876655 5555 444 444554444 44432 468999999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
..|.
T Consensus 125 ~~d~ 128 (212)
T PF04548_consen 125 HADE 128 (212)
T ss_dssp EGGG
T ss_pred hccc
Confidence 9884
No 30
>PRK03003 GTP-binding protein Der; Reviewed
Probab=94.91 E-value=0.1 Score=52.37 Aligned_cols=89 Identities=21% Similarity=0.310 Sum_probs=55.5
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhh
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQ 133 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~ 133 (294)
.+++.+.+...+.-.+. .+.|+|+||+... ...+...+...+..|++..+.| |.|+++..-... .-..+++.
T Consensus 70 ~gvT~d~~~~~~~~~~~-~~~l~DT~G~~~~-----~~~~~~~~~~~~~~~~~~aD~i-l~VvD~~~~~s~-~~~~i~~~ 141 (472)
T PRK03003 70 PGVTRDRVSYDAEWNGR-RFTVVDTGGWEPD-----AKGLQASVAEQAEVAMRTADAV-LFVVDATVGATA-TDEAVARV 141 (472)
T ss_pred CCCCEeeEEEEEEECCc-EEEEEeCCCcCCc-----chhHHHHHHHHHHHHHHhCCEE-EEEEECCCCCCH-HHHHHHHH
Confidence 34555555555544333 4899999997632 2345677888888899988855 555555532221 11223333
Q ss_pred cCCCCCeEEEEeccchh
Q psy8958 134 MDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 134 ~DP~G~RTIGVlTK~D~ 150 (294)
+...+.-.|.|++|+|+
T Consensus 142 l~~~~~piilV~NK~Dl 158 (472)
T PRK03003 142 LRRSGKPVILAANKVDD 158 (472)
T ss_pred HHHcCCCEEEEEECccC
Confidence 33457889999999996
No 31
>PRK04213 GTP-binding protein; Provisional
Probab=94.87 E-value=0.11 Score=45.05 Aligned_cols=86 Identities=17% Similarity=0.270 Sum_probs=50.1
Q ss_pred cccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCC-CC--ceEEEeccCCCcchh-------
Q psy8958 55 TVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSN-PN--AIILCIQDGSVDAER------- 124 (294)
Q Consensus 55 ~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~-p~--sIILaV~~a~~D~an------- 124 (294)
+.+-++..+.+. +++++|+||+-... +-++...+.++.+...|+.. -. -+++.|++++.....
T Consensus 41 ~~t~~~~~~~~~-----~~~l~Dt~G~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~ 113 (201)
T PRK04213 41 GVTRKPNHYDWG-----DFILTDLPGFGFMS--GVPKEVQEKIKDEIVRYIEDNADRILAAVLVVDGKSFIEIIERWEGR 113 (201)
T ss_pred ceeeCceEEeec-----ceEEEeCCcccccc--ccCHHHHHHHHHHHHHHHHhhhhhheEEEEEEeCccccccccccccC
Confidence 344444444433 69999999974322 22334457778888888763 22 255566666532111
Q ss_pred ------cHHHHhhhhcCCCCCeEEEEeccchh
Q psy8958 125 ------SNVTDLVSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 125 ------s~al~lar~~DP~G~RTIGVlTK~D~ 150 (294)
...++.++. .+...|.|+||.|+
T Consensus 114 ~~~~~~~~l~~~~~~---~~~p~iiv~NK~Dl 142 (201)
T PRK04213 114 GEIPIDVEMFDFLRE---LGIPPIVAVNKMDK 142 (201)
T ss_pred CCcHHHHHHHHHHHH---cCCCeEEEEECccc
Confidence 112333333 46788999999995
No 32
>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=94.66 E-value=0.23 Score=43.19 Aligned_cols=86 Identities=16% Similarity=0.266 Sum_probs=49.0
Q ss_pred ceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchh---cHHHHhhhhcCC
Q psy8958 60 VISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAER---SNVTDLVSQMDP 136 (294)
Q Consensus 60 ~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~an---s~al~lar~~DP 136 (294)
+....+.-++...++++|+||+.... +.........+.. ++.+.+. ++.|++++..... +...++.+.+..
T Consensus 78 ~~~~~~~~~~~~~~~i~Dt~G~~~~~----~~~~~~~~~~~~~-~~~~~d~-ii~v~D~~~~~~~~~~~~~~~~l~~~~~ 151 (204)
T cd01878 78 PTTRRLRLPDGREVLLTDTVGFIRDL----PHQLVEAFRSTLE-EVAEADL-LLHVVDASDPDYEEQIETVEKVLKELGA 151 (204)
T ss_pred ceeEEEEecCCceEEEeCCCccccCC----CHHHHHHHHHHHH-HHhcCCe-EEEEEECCCCChhhHHHHHHHHHHHcCc
Confidence 33334444444479999999986432 2333344455443 3444554 4455555532221 223455566665
Q ss_pred CCCeEEEEeccchhh
Q psy8958 137 QGKRTIFVLTKVSQQ 151 (294)
Q Consensus 137 ~G~RTIGVlTK~D~~ 151 (294)
.+...|.|+||.|+.
T Consensus 152 ~~~~viiV~NK~Dl~ 166 (204)
T cd01878 152 EDIPMILVLNKIDLL 166 (204)
T ss_pred CCCCEEEEEEccccC
Confidence 567899999999953
No 33
>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=94.65 E-value=0.14 Score=50.11 Aligned_cols=76 Identities=14% Similarity=0.238 Sum_probs=46.2
Q ss_pred CceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchhh
Q psy8958 72 RMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 72 ~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~~ 151 (294)
.++|+|+||+.+..... +.+..........+++..+.+|+ |+++...+..++ .++++.+...|..-|.|++|+|+.
T Consensus 221 ~~~liDT~G~~~~~~~~--~~~e~~~~~~~~~~~~~ad~~il-V~D~~~~~~~~~-~~~~~~~~~~~~~iiiv~NK~Dl~ 296 (429)
T TIGR03594 221 KYLLIDTAGIRRKGKVT--EGVEKYSVLRTLKAIERADVVLL-VLDATEGITEQD-LRIAGLILEAGKALVIVVNKWDLV 296 (429)
T ss_pred EEEEEECCCccccccch--hhHHHHHHHHHHHHHHhCCEEEE-EEECCCCccHHH-HHHHHHHHHcCCcEEEEEECcccC
Confidence 79999999997654321 11211111223457777775555 555554444333 345555555678999999999964
No 34
>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase).
Probab=94.63 E-value=0.082 Score=51.12 Aligned_cols=76 Identities=16% Similarity=0.260 Sum_probs=48.2
Q ss_pred CCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCC--CCceEEEeccCC---CcchhcHHHHhhhhc--CCCCCeE
Q psy8958 69 GLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSN--PNAIILCIQDGS---VDAERSNVTDLVSQM--DPQGKRT 141 (294)
Q Consensus 69 ~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~--p~sIILaV~~a~---~D~ans~al~lar~~--DP~G~RT 141 (294)
+...+++||+||+... ....+++.+.++.|+.. +. +||.|...+ .+-....+++..+++ +.-..+|
T Consensus 84 ~G~~l~VIDTPGL~d~------~~~~e~~~~~ik~~l~~~g~D-vVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~~iw~~~ 156 (313)
T TIGR00991 84 AGFTLNIIDTPGLIEG------GYINDQAVNIIKRFLLGKTID-VLLYVDRLDAYRVDTLDGQVIRAITDSFGKDIWRKS 156 (313)
T ss_pred CCeEEEEEECCCCCch------HHHHHHHHHHHHHHhhcCCCC-EEEEEeccCcccCCHHHHHHHHHHHHHhhhhhhccE
Confidence 4467999999999864 23445566777888764 44 455554322 232334556655554 2334789
Q ss_pred EEEeccchhh
Q psy8958 142 IFVLTKVSQQ 151 (294)
Q Consensus 142 IGVlTK~D~~ 151 (294)
|.|+|+.|..
T Consensus 157 IVVfTh~d~~ 166 (313)
T TIGR00991 157 LVVLTHAQFS 166 (313)
T ss_pred EEEEECCccC
Confidence 9999999853
No 35
>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=94.61 E-value=0.15 Score=44.13 Aligned_cols=80 Identities=19% Similarity=0.355 Sum_probs=49.0
Q ss_pred cccccceEEEEe-CCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC--cchhcHHHHhh
Q psy8958 55 TVSNEVISMSVK-GPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV--DAERSNVTDLV 131 (294)
Q Consensus 55 ~~S~~~I~leI~-gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~--D~ans~al~la 131 (294)
+++-+.=..... ......++|+|+||.. +.+.++. .-+...+.+|| |++|+. ...+.+.++++
T Consensus 53 ~~ti~~~~~~~~~~~~~~~i~~iDtPG~~------------~f~~~~~-~~~~~~D~ail-vVda~~g~~~~~~~~l~~~ 118 (188)
T PF00009_consen 53 GITIDLSFISFEKNENNRKITLIDTPGHE------------DFIKEMI-RGLRQADIAIL-VVDANDGIQPQTEEHLKIL 118 (188)
T ss_dssp TSSSSSEEEEEEBTESSEEEEEEEESSSH------------HHHHHHH-HHHTTSSEEEE-EEETTTBSTHHHHHHHHHH
T ss_pred ccccccccccccccccccceeeccccccc------------ceeeccc-ceeccccccee-eeecccccccccccccccc
Confidence 344444444444 6677889999999942 1222333 33677776555 455553 34455567777
Q ss_pred hhcCCCCCeEEEEeccchhh
Q psy8958 132 SQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 132 r~~DP~G~RTIGVlTK~D~~ 151 (294)
+... ...|.||||+|+.
T Consensus 119 ~~~~---~p~ivvlNK~D~~ 135 (188)
T PF00009_consen 119 RELG---IPIIVVLNKMDLI 135 (188)
T ss_dssp HHTT----SEEEEEETCTSS
T ss_pred cccc---cceEEeeeeccch
Confidence 7764 4499999999953
No 36
>PRK00093 GTP-binding protein Der; Reviewed
Probab=94.48 E-value=0.12 Score=50.67 Aligned_cols=79 Identities=14% Similarity=0.182 Sum_probs=46.9
Q ss_pred CCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 69 GLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 69 ~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~ 148 (294)
+-..++|+|+||+.+...... .+......-..+++...+ ++|.|+++...+..++ .++++.+.-.|...|.|++|+
T Consensus 219 ~~~~~~lvDT~G~~~~~~~~~--~~e~~~~~~~~~~~~~ad-~~ilViD~~~~~~~~~-~~i~~~~~~~~~~~ivv~NK~ 294 (435)
T PRK00093 219 DGQKYTLIDTAGIRRKGKVTE--GVEKYSVIRTLKAIERAD-VVLLVIDATEGITEQD-LRIAGLALEAGRALVIVVNKW 294 (435)
T ss_pred CCeeEEEEECCCCCCCcchhh--HHHHHHHHHHHHHHHHCC-EEEEEEeCCCCCCHHH-HHHHHHHHHcCCcEEEEEECc
Confidence 345689999999876443221 111111111235666666 4555666665554443 345555555678899999999
Q ss_pred hhh
Q psy8958 149 SQQ 151 (294)
Q Consensus 149 D~~ 151 (294)
|+.
T Consensus 295 Dl~ 297 (435)
T PRK00093 295 DLV 297 (435)
T ss_pred cCC
Confidence 964
No 37
>PRK12298 obgE GTPase CgtA; Reviewed
Probab=94.47 E-value=0.21 Score=49.45 Aligned_cols=87 Identities=17% Similarity=0.243 Sum_probs=50.9
Q ss_pred cccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCC----Ccchh--cHHHHh
Q psy8958 57 SNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGS----VDAER--SNVTDL 130 (294)
Q Consensus 57 S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~----~D~an--s~al~l 130 (294)
+-.|+.-.+..++...++|+|+||++..+..+ ...-..++ ++++.-.. ||.|++++ .+... +..++.
T Consensus 193 T~~p~~Giv~~~~~~~i~~vDtPGi~~~a~~~-----~~Lg~~~l-~~i~radv-lL~VVD~s~~~~~d~~e~~~~l~~e 265 (390)
T PRK12298 193 TLVPNLGVVRVDDERSFVVADIPGLIEGASEG-----AGLGIRFL-KHLERCRV-LLHLIDIAPIDGSDPVENARIIINE 265 (390)
T ss_pred ccCcEEEEEEeCCCcEEEEEeCCCccccccch-----hhHHHHHH-HHHHhCCE-EEEEeccCcccccChHHHHHHHHHH
Confidence 34555555655666679999999998765432 12233444 36666664 45555554 22221 233344
Q ss_pred hhhcCC--CCCeEEEEeccchh
Q psy8958 131 VSQMDP--QGKRTIFVLTKVSQ 150 (294)
Q Consensus 131 ar~~DP--~G~RTIGVlTK~D~ 150 (294)
...+.+ .....|-|+||+|+
T Consensus 266 L~~~~~~L~~kP~IlVlNKiDl 287 (390)
T PRK12298 266 LEKYSPKLAEKPRWLVFNKIDL 287 (390)
T ss_pred HHhhhhhhcCCCEEEEEeCCcc
Confidence 444443 24678999999996
No 38
>cd01895 EngA2 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=94.26 E-value=0.35 Score=39.52 Aligned_cols=76 Identities=14% Similarity=0.239 Sum_probs=41.3
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchh
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~ 150 (294)
.+++++|+||+....... .........-...++...+.+|+ |++++.... .....+.+.+...+..-|.|+||+|+
T Consensus 50 ~~~~iiDtpG~~~~~~~~--~~~e~~~~~~~~~~~~~~d~vi~-v~d~~~~~~-~~~~~~~~~~~~~~~~~iiv~nK~Dl 125 (174)
T cd01895 50 KKYTLIDTAGIRRKGKVE--EGIEKYSVLRTLKAIERADVVLL-VIDATEGIT-EQDLRIAGLILEEGKALVIVVNKWDL 125 (174)
T ss_pred eeEEEEECCCCccccchh--ccHHHHHHHHHHHHHhhcCeEEE-EEeCCCCcc-hhHHHHHHHHHhcCCCEEEEEecccc
Confidence 358999999987653211 11111111112244555665544 445554433 33344444444456788999999995
No 39
>PRK11058 GTPase HflX; Provisional
Probab=94.16 E-value=0.27 Score=49.18 Aligned_cols=87 Identities=15% Similarity=0.265 Sum_probs=52.6
Q ss_pred cceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC-cchhcH--HHHhhhhcC
Q psy8958 59 EVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV-DAERSN--VTDLVSQMD 135 (294)
Q Consensus 59 ~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~-D~ans~--al~lar~~D 135 (294)
++..-.+.-++.-...|+|+||+++. .|.+..+.+... ..++...+ +||.|++++. +...+. ..++.+++.
T Consensus 233 d~~~~~i~l~~~~~~~l~DTaG~~r~----lp~~lve~f~~t-l~~~~~AD-lIL~VvDaS~~~~~e~l~~v~~iL~el~ 306 (426)
T PRK11058 233 DPTLRRIDVADVGETVLADTVGFIRH----LPHDLVAAFKAT-LQETRQAT-LLLHVVDAADVRVQENIEAVNTVLEEID 306 (426)
T ss_pred CCceEEEEeCCCCeEEEEecCccccc----CCHHHHHHHHHH-HHHhhcCC-EEEEEEeCCCccHHHHHHHHHHHHHHhc
Confidence 44443444444446789999999653 245566666665 45566666 4556666653 222211 234555565
Q ss_pred CCCCeEEEEeccchhh
Q psy8958 136 PQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 136 P~G~RTIGVlTK~D~~ 151 (294)
..+...|.|+||+|+.
T Consensus 307 ~~~~pvIiV~NKiDL~ 322 (426)
T PRK11058 307 AHEIPTLLVMNKIDML 322 (426)
T ss_pred cCCCCEEEEEEcccCC
Confidence 5567899999999963
No 40
>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=94.14 E-value=0.043 Score=47.35 Aligned_cols=39 Identities=23% Similarity=0.282 Sum_probs=26.4
Q ss_pred CCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchh
Q psy8958 108 PNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 108 p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~ 150 (294)
.-.+|+.|.+|+. -.+.---.+|+-+ ....||||||.|+
T Consensus 63 dad~V~ll~dat~-~~~~~pP~fa~~f---~~pvIGVITK~Dl 101 (143)
T PF10662_consen 63 DADVVLLLQDATE-PRSVFPPGFASMF---NKPVIGVITKIDL 101 (143)
T ss_pred hCCEEEEEecCCC-CCccCCchhhccc---CCCEEEEEECccC
Confidence 3457888888874 2333334566666 3689999999995
No 41
>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=94.11 E-value=0.11 Score=45.01 Aligned_cols=64 Identities=20% Similarity=0.288 Sum_probs=42.2
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhc--HHHHhhhhcCCCCCeEEEEecc
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERS--NVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans--~al~lar~~DP~G~RTIGVlTK 147 (294)
...+.|+|+||... ...++..|++..+++|+++ ++......+ ..++.+. ..+...|.|+||
T Consensus 64 ~~~~~l~DtpG~~~-------------~~~~~~~~~~~~d~~ilV~-d~~~~~~~~~~~~~~~~~---~~~~p~iiv~NK 126 (194)
T cd01891 64 DTKINIVDTPGHAD-------------FGGEVERVLSMVDGVLLLV-DASEGPMPQTRFVLKKAL---ELGLKPIVVINK 126 (194)
T ss_pred CEEEEEEECCCcHH-------------HHHHHHHHHHhcCEEEEEE-ECCCCccHHHHHHHHHHH---HcCCCEEEEEEC
Confidence 35799999999532 3457788999998776654 444333221 2233333 346789999999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 127 ~Dl 129 (194)
T cd01891 127 IDR 129 (194)
T ss_pred CCC
Confidence 995
No 42
>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=94.03 E-value=0.32 Score=39.79 Aligned_cols=65 Identities=15% Similarity=0.201 Sum_probs=38.4
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch--hcHHHHhhhhcCCCCCeEEEEecc
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE--RSNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a--ns~al~lar~~DP~G~RTIGVlTK 147 (294)
...++++|+||.- .....+..|+...+.+| .|++++.++. ..+.+.+++... ....|.|+||
T Consensus 50 ~~~~~~~DtpG~~-------------~~~~~~~~~~~~ad~ii-~V~d~~~~~~~~~~~~~~~~~~~~--~~~~ilv~NK 113 (164)
T cd04171 50 GKRLGFIDVPGHE-------------KFIKNMLAGAGGIDLVL-LVVAADEGIMPQTREHLEILELLG--IKRGLVVLTK 113 (164)
T ss_pred CcEEEEEECCChH-------------HHHHHHHhhhhcCCEEE-EEEECCCCccHhHHHHHHHHHHhC--CCcEEEEEEC
Confidence 3479999999952 11234446677777555 4556554332 223334444332 1368999999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 114 ~Dl 116 (164)
T cd04171 114 ADL 116 (164)
T ss_pred ccc
Confidence 995
No 43
>PRK12299 obgE GTPase CgtA; Reviewed
Probab=93.79 E-value=0.24 Score=48.00 Aligned_cols=85 Identities=20% Similarity=0.357 Sum_probs=49.4
Q ss_pred cceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC-c-chhc-HHHHhhhhcC
Q psy8958 59 EVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV-D-AERS-NVTDLVSQMD 135 (294)
Q Consensus 59 ~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~-D-~ans-~al~lar~~D 135 (294)
.|..=.+.-++...++++|+||++..+..+. . +.....+|++..+ +++.|++++. + +.+- .+....+.++
T Consensus 194 ~p~~G~v~~~~~~~~~i~D~PGli~ga~~~~--g----Lg~~flrhie~a~-vlI~ViD~s~~~s~e~~~~~~~EL~~~~ 266 (335)
T PRK12299 194 HPNLGVVRVDDYKSFVIADIPGLIEGASEGA--G----LGHRFLKHIERTR-LLLHLVDIEAVDPVEDYKTIRNELEKYS 266 (335)
T ss_pred CceEEEEEeCCCcEEEEEeCCCccCCCCccc--c----HHHHHHHHhhhcC-EEEEEEcCCCCCCHHHHHHHHHHHHHhh
Confidence 3333334444667799999999997664331 1 2223344666666 5555666553 3 2222 2334455666
Q ss_pred C--CCCeEEEEeccchh
Q psy8958 136 P--QGKRTIFVLTKVSQ 150 (294)
Q Consensus 136 P--~G~RTIGVlTK~D~ 150 (294)
+ .....|-|+||+|+
T Consensus 267 ~~L~~kp~IIV~NKiDL 283 (335)
T PRK12299 267 PELADKPRILVLNKIDL 283 (335)
T ss_pred hhcccCCeEEEEECccc
Confidence 6 34678999999995
No 44
>cd01850 CDC_Septin CDC/Septin. Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.
Probab=93.71 E-value=0.24 Score=46.54 Aligned_cols=79 Identities=13% Similarity=0.199 Sum_probs=43.2
Q ss_pred CCceEEeCCCCcccCCCC-CChhHHHHHHHHhhhhc------------CC--CCceEEEeccCCCcchhcHHHHhhhhcC
Q psy8958 71 QRMVLVDLPGIISTSTQD-MASDTRDLIRQMTQTHM------------SN--PNAIILCIQDGSVDAERSNVTDLVSQMD 135 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~-q~~~~~~~i~~Lv~~Yi------------~~--p~sIILaV~~a~~D~ans~al~lar~~D 135 (294)
..|++||+||+-...... +-+.+.+-|++--..|+ .. ..+++..+.+....+...+ +++.+.+.
T Consensus 63 ~~l~iiDTpGfgd~~~~~~~~~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~~l~~~D-~~~lk~l~ 141 (276)
T cd01850 63 LKLTVIDTPGFGDNINNSDCWKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGHGLKPLD-IEFMKRLS 141 (276)
T ss_pred EEEEEEecCCccccccchhhHHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCCCCCHHH-HHHHHHHh
Confidence 479999999986554321 12233333333333333 22 2234444444444554433 44455454
Q ss_pred CCCCeEEEEeccchhh
Q psy8958 136 PQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 136 P~G~RTIGVlTK~D~~ 151 (294)
. +.-.|.|+||+|+.
T Consensus 142 ~-~v~vi~VinK~D~l 156 (276)
T cd01850 142 K-RVNIIPVIAKADTL 156 (276)
T ss_pred c-cCCEEEEEECCCcC
Confidence 3 57789999999974
No 45
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=93.31 E-value=0.28 Score=51.93 Aligned_cols=91 Identities=21% Similarity=0.330 Sum_probs=58.0
Q ss_pred CccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhh
Q psy8958 53 GKTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVS 132 (294)
Q Consensus 53 ~~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar 132 (294)
..+++.+.+...+.-.+ .++.|+|+||+... .+.+...+.+.+..|+...+. ||.|+++...+...+ ..+++
T Consensus 306 ~pGvT~d~~~~~~~~~~-~~~~liDT~G~~~~-----~~~~~~~~~~~~~~~~~~aD~-iL~VvDa~~~~~~~d-~~i~~ 377 (712)
T PRK09518 306 TPGVTRDRVSYDAEWAG-TDFKLVDTGGWEAD-----VEGIDSAIASQAQIAVSLADA-VVFVVDGQVGLTSTD-ERIVR 377 (712)
T ss_pred CCCeeEEEEEEEEEECC-EEEEEEeCCCcCCC-----CccHHHHHHHHHHHHHHhCCE-EEEEEECCCCCCHHH-HHHHH
Confidence 34555566655554333 36999999997642 123566777788888888885 555666664333222 13344
Q ss_pred hcCCCCCeEEEEeccchhh
Q psy8958 133 QMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 133 ~~DP~G~RTIGVlTK~D~~ 151 (294)
.+...+.-.|.|++|.|+.
T Consensus 378 ~Lr~~~~pvIlV~NK~D~~ 396 (712)
T PRK09518 378 MLRRAGKPVVLAVNKIDDQ 396 (712)
T ss_pred HHHhcCCCEEEEEECcccc
Confidence 4445678999999999963
No 46
>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=93.30 E-value=0.25 Score=42.56 Aligned_cols=81 Identities=15% Similarity=0.237 Sum_probs=47.1
Q ss_pred ccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC-c-chhc--HHHHhh
Q psy8958 56 VSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV-D-AERS--NVTDLV 131 (294)
Q Consensus 56 ~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~-D-~ans--~al~la 131 (294)
+....+.+.+.......|.++|+||. +..+.+...|+++.+.+|+++ +++. + +... ...++.
T Consensus 37 ~~~~~~~~~~~~~~~~~l~l~Dt~G~-------------~~~~~~~~~~~~~~d~ii~v~-D~~~~~~~~~~~~~~~~i~ 102 (183)
T cd04152 37 FNTEKIKVSLGNSKGITFHFWDVGGQ-------------EKLRPLWKSYTRCTDGIVFVV-DSVDVERMEEAKTELHKIT 102 (183)
T ss_pred cceeEEEeeccCCCceEEEEEECCCc-------------HhHHHHHHHHhccCCEEEEEE-ECCCHHHHHHHHHHHHHHH
Confidence 34444445443335567999999993 223456778888877666555 4442 1 1111 111233
Q ss_pred hhcCCCCCeEEEEeccchh
Q psy8958 132 SQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 132 r~~DP~G~RTIGVlTK~D~ 150 (294)
+.....+.-.|.|+||.|+
T Consensus 103 ~~~~~~~~p~iiv~NK~D~ 121 (183)
T cd04152 103 RFSENQGVPVLVLANKQDL 121 (183)
T ss_pred hhhhcCCCcEEEEEECcCc
Confidence 3333456789999999995
No 47
>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=93.13 E-value=0.29 Score=43.43 Aligned_cols=80 Identities=15% Similarity=0.220 Sum_probs=46.3
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhc--HHHHhh
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERS--NVTDLV 131 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans--~al~la 131 (294)
.+++-+.....+.. +-..+.|+|+||.. +...++ ..++...+.+| .|+++...+..+ ....++
T Consensus 61 rg~T~~~~~~~~~~-~~~~~~liDTpG~~------------~~~~~~-~~~~~~ad~~l-lVvD~~~~~~~~~~~~~~~~ 125 (208)
T cd04166 61 QGITIDVAYRYFST-PKRKFIIADTPGHE------------QYTRNM-VTGASTADLAI-LLVDARKGVLEQTRRHSYIL 125 (208)
T ss_pred CCcCeecceeEEec-CCceEEEEECCcHH------------HHHHHH-HHhhhhCCEEE-EEEECCCCccHhHHHHHHHH
Confidence 55666666666554 34578999999952 112223 34566667554 455565443322 234455
Q ss_pred hhcCCCCCeEEEEeccchh
Q psy8958 132 SQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 132 r~~DP~G~RTIGVlTK~D~ 150 (294)
+... -.+.|.|+||.|+
T Consensus 126 ~~~~--~~~iIvviNK~D~ 142 (208)
T cd04166 126 SLLG--IRHVVVAVNKMDL 142 (208)
T ss_pred HHcC--CCcEEEEEEchhc
Confidence 5442 1347889999995
No 48
>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=93.02 E-value=0.22 Score=45.40 Aligned_cols=67 Identities=12% Similarity=0.206 Sum_probs=42.9
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D 149 (294)
-..+.|+|+||... ....+..++....++|| |+++...+..+ ...+.+.....|...|.|++|+|
T Consensus 72 ~~~i~iiDTPG~~~-------------f~~~~~~~l~~aD~~il-VvD~~~g~~~~-t~~~l~~~~~~~~p~ilviNKiD 136 (222)
T cd01885 72 EYLINLIDSPGHVD-------------FSSEVTAALRLCDGALV-VVDAVEGVCVQ-TETVLRQALKERVKPVLVINKID 136 (222)
T ss_pred ceEEEEECCCCccc-------------cHHHHHHHHHhcCeeEE-EEECCCCCCHH-HHHHHHHHHHcCCCEEEEEECCC
Confidence 35689999999753 22356777888887766 44555433222 23333334345678999999999
Q ss_pred hh
Q psy8958 150 QQ 151 (294)
Q Consensus 150 ~~ 151 (294)
+.
T Consensus 137 ~~ 138 (222)
T cd01885 137 RL 138 (222)
T ss_pred cc
Confidence 63
No 49
>PLN03127 Elongation factor Tu; Provisional
Probab=92.91 E-value=0.23 Score=49.91 Aligned_cols=80 Identities=15% Similarity=0.170 Sum_probs=50.2
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhc--HHHHhh
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERS--NVTDLV 131 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans--~al~la 131 (294)
.+++-+...+....++ ..++|||+||+. +.+.+|+..-. ... ++|.|++|+..+..| +.+.++
T Consensus 108 rGiTi~~~~~~~~~~~-~~i~~iDtPGh~------------~f~~~~~~g~~-~aD-~allVVda~~g~~~qt~e~l~~~ 172 (447)
T PLN03127 108 RGITIATAHVEYETAK-RHYAHVDCPGHA------------DYVKNMITGAA-QMD-GGILVVSAPDGPMPQTKEHILLA 172 (447)
T ss_pred cCceeeeeEEEEcCCC-eEEEEEECCCcc------------chHHHHHHHHh-hCC-EEEEEEECCCCCchhHHHHHHHH
Confidence 5677777777766544 478999999973 13444544332 355 455577777555433 445555
Q ss_pred hhcCCCCCe-EEEEeccchhh
Q psy8958 132 SQMDPQGKR-TIFVLTKVSQQ 151 (294)
Q Consensus 132 r~~DP~G~R-TIGVlTK~D~~ 151 (294)
+.. |.. -|.|+||+|+.
T Consensus 173 ~~~---gip~iIvviNKiDlv 190 (447)
T PLN03127 173 RQV---GVPSLVVFLNKVDVV 190 (447)
T ss_pred HHc---CCCeEEEEEEeeccC
Confidence 554 555 47899999964
No 50
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=92.88 E-value=0.19 Score=44.92 Aligned_cols=68 Identities=16% Similarity=0.365 Sum_probs=36.0
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchh-cHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAER-SNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~an-s~al~lar~~DP~G~RTIGVlTK~D 149 (294)
.++.|||+||..... .+..+.++++...- +|.. ++.|++|+..... ..+.+..+.+.++| .|+||.|
T Consensus 84 ~D~vlIDT~Gr~~~d-----~~~~~el~~~~~~~--~~~~-~~LVlsa~~~~~~~~~~~~~~~~~~~~~----lIlTKlD 151 (196)
T PF00448_consen 84 YDLVLIDTAGRSPRD-----EELLEELKKLLEAL--NPDE-VHLVLSATMGQEDLEQALAFYEAFGIDG----LILTKLD 151 (196)
T ss_dssp SSEEEEEE-SSSSTH-----HHHHHHHHHHHHHH--SSSE-EEEEEEGGGGGHHHHHHHHHHHHSSTCE----EEEESTT
T ss_pred CCEEEEecCCcchhh-----HHHHHHHHHHhhhc--CCcc-ceEEEecccChHHHHHHHHHhhcccCce----EEEEeec
Confidence 579999999976422 23444444444433 3443 4455555543322 23344444444443 4799998
Q ss_pred h
Q psy8958 150 Q 150 (294)
Q Consensus 150 ~ 150 (294)
-
T Consensus 152 e 152 (196)
T PF00448_consen 152 E 152 (196)
T ss_dssp S
T ss_pred C
Confidence 3
No 51
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=92.84 E-value=0.37 Score=51.78 Aligned_cols=90 Identities=21% Similarity=0.235 Sum_probs=51.8
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcC--CCCceEEEeccCCCcchhcHHHHhh
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMS--NPNAIILCIQDGSVDAERSNVTDLV 131 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~--~p~sIILaV~~a~~D~ans~al~la 131 (294)
.+.+-+..+-.+..++ -.+.+|||||+........+....+. +...|+. .+. +++.|++|+. +.. .+.+.
T Consensus 34 pGvTve~k~g~~~~~~-~~i~lvDtPG~ysl~~~~~~~s~~E~---i~~~~l~~~~aD-~vI~VvDat~-ler--~l~l~ 105 (772)
T PRK09554 34 AGVTVERKEGQFSTTD-HQVTLVDLPGTYSLTTISSQTSLDEQ---IACHYILSGDAD-LLINVVDASN-LER--NLYLT 105 (772)
T ss_pred CCceEeeEEEEEEcCc-eEEEEEECCCccccccccccccHHHH---HHHHHHhccCCC-EEEEEecCCc-chh--hHHHH
Confidence 3344444444454443 46899999999765432221122233 3445544 455 4566777764 322 23344
Q ss_pred hhcCCCCCeEEEEeccchhh
Q psy8958 132 SQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 132 r~~DP~G~RTIGVlTK~D~~ 151 (294)
.++...|..+|.|++|.|..
T Consensus 106 ~ql~e~giPvIvVlNK~Dl~ 125 (772)
T PRK09554 106 LQLLELGIPCIVALNMLDIA 125 (772)
T ss_pred HHHHHcCCCEEEEEEchhhh
Confidence 45555688999999999964
No 52
>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=92.79 E-value=0.2 Score=46.91 Aligned_cols=79 Identities=11% Similarity=0.191 Sum_probs=47.7
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch--hcHHHHhh
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE--RSNVTDLV 131 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a--ns~al~la 131 (294)
.++|-+.-...+...+ ..++|||+||... ...-+..++..-.++|+ |++|...+. +...++++
T Consensus 48 rgiti~~~~~~~~~~~-~~i~liDTPG~~d-------------f~~~~~~~l~~aD~ail-VVDa~~g~~~~t~~~~~~~ 112 (270)
T cd01886 48 RGITIQSAATTCFWKD-HRINIIDTPGHVD-------------FTIEVERSLRVLDGAVA-VFDAVAGVEPQTETVWRQA 112 (270)
T ss_pred CCcCeeccEEEEEECC-EEEEEEECCCcHH-------------HHHHHHHHHHHcCEEEE-EEECCCCCCHHHHHHHHHH
Confidence 3455444444444433 4689999999653 11225567777776655 556655443 23444555
Q ss_pred hhcCCCCCeEEEEeccchh
Q psy8958 132 SQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 132 r~~DP~G~RTIGVlTK~D~ 150 (294)
++ .|...|.|++|.|+
T Consensus 113 ~~---~~~p~ivviNK~D~ 128 (270)
T cd01886 113 DR---YNVPRIAFVNKMDR 128 (270)
T ss_pred HH---cCCCEEEEEECCCC
Confidence 44 46778999999996
No 53
>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=92.61 E-value=0.27 Score=41.14 Aligned_cols=65 Identities=17% Similarity=0.262 Sum_probs=41.4
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcc--hhcHHHHhhhhcCCCCCeEEEEecc
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDA--ERSNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~--ans~al~lar~~DP~G~RTIGVlTK 147 (294)
-..++|+|+||... ...+...|+...+.+|++ +++.... .....+..++. .+.-.+.|+||
T Consensus 61 ~~~~~liDtpG~~~-------------~~~~~~~~~~~~d~~i~v-~d~~~~~~~~~~~~~~~~~~---~~~~i~iv~nK 123 (189)
T cd00881 61 DRRVNFIDTPGHED-------------FSSEVIRGLSVSDGAILV-VDANEGVQPQTREHLRIARE---GGLPIIVAINK 123 (189)
T ss_pred CEEEEEEeCCCcHH-------------HHHHHHHHHHhcCEEEEE-EECCCCCcHHHHHHHHHHHH---CCCCeEEEEEC
Confidence 45799999999642 234566777778877765 4444321 22233444444 46778999999
Q ss_pred chhh
Q psy8958 148 VSQQ 151 (294)
Q Consensus 148 ~D~~ 151 (294)
.|+.
T Consensus 124 ~D~~ 127 (189)
T cd00881 124 IDRV 127 (189)
T ss_pred CCCc
Confidence 9953
No 54
>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=92.52 E-value=0.5 Score=39.15 Aligned_cols=73 Identities=25% Similarity=0.443 Sum_probs=38.1
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc--c-hh-cHHHHhhhhcCC--CCCeEEEE
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD--A-ER-SNVTDLVSQMDP--QGKRTIFV 144 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D--~-an-s~al~lar~~DP--~G~RTIGV 144 (294)
..+.|+|+||+.......+ ....... ++++.-+ +++.|++++.- . .+ ....+..++..+ .+...|.|
T Consensus 48 ~~~~l~DtpG~~~~~~~~~-----~~~~~~~-~~~~~~d-~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv 120 (170)
T cd01898 48 RSFVVADIPGLIEGASEGK-----GLGHRFL-RHIERTR-LLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVV 120 (170)
T ss_pred CeEEEEecCcccCcccccC-----CchHHHH-HHHHhCC-EEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEE
Confidence 5899999999864332211 1112222 2334455 44555555531 1 11 122233344433 35778999
Q ss_pred eccchh
Q psy8958 145 LTKVSQ 150 (294)
Q Consensus 145 lTK~D~ 150 (294)
+||.|+
T Consensus 121 ~NK~Dl 126 (170)
T cd01898 121 LNKIDL 126 (170)
T ss_pred EEchhc
Confidence 999995
No 55
>PRK09866 hypothetical protein; Provisional
Probab=92.51 E-value=0.38 Score=51.08 Aligned_cols=72 Identities=15% Similarity=0.278 Sum_probs=45.4
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC--cchhcHHHHhhhhcCCCCCeEEEEecc
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV--DAERSNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~--D~ans~al~lar~~DP~G~RTIGVlTK 147 (294)
...++|||+||+..... .....++.+.+..-. +||.|++++. ......+++..++... ....|.|++|
T Consensus 229 ~~QIIFVDTPGIhk~~~--------~~L~k~M~eqL~eAD-vVLFVVDat~~~s~~DeeIlk~Lkk~~K-~~PVILVVNK 298 (741)
T PRK09866 229 PGQLTLLDTPGPNEAGQ--------PHLQKMLNQQLARAS-AVLAVLDYTQLKSISDEEVREAILAVGQ-SVPLYVLVNK 298 (741)
T ss_pred cCCEEEEECCCCCCccc--------hHHHHHHHHHHhhCC-EEEEEEeCCCCCChhHHHHHHHHHhcCC-CCCEEEEEEc
Confidence 37899999999975322 112333334666666 7888888875 3344445555555432 1368999999
Q ss_pred chhh
Q psy8958 148 VSQQ 151 (294)
Q Consensus 148 ~D~~ 151 (294)
+|+.
T Consensus 299 IDl~ 302 (741)
T PRK09866 299 FDQQ 302 (741)
T ss_pred ccCC
Confidence 9963
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=92.48 E-value=0.59 Score=46.96 Aligned_cols=70 Identities=20% Similarity=0.335 Sum_probs=40.5
Q ss_pred CceEEeCCCCcccCCCCCChhHHHHHH-HHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchh
Q psy8958 72 RMVLVDLPGIISTSTQDMASDTRDLIR-QMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 72 ~LTLVDLPGi~~~~~~~q~~~~~~~i~-~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~ 150 (294)
.+.++|+||+.... +..+... .+...|+++.+.+|+ |++++........ +...+...+...|.|+||.|+
T Consensus 252 ~v~l~DTaG~~~~~------~~ie~~gi~~~~~~~~~aD~il~-V~D~s~~~s~~~~--~l~~~~~~~~piIlV~NK~Dl 322 (442)
T TIGR00450 252 LIKLLDTAGIREHA------DFVERLGIEKSFKAIKQADLVIY-VLDASQPLTKDDF--LIIDLNKSKKPFILVLNKIDL 322 (442)
T ss_pred EEEEeeCCCcccch------hHHHHHHHHHHHHHHhhCCEEEE-EEECCCCCChhHH--HHHHHhhCCCCEEEEEECccC
Confidence 47999999986421 2222221 345678888886655 4555432221221 233333345678999999996
No 57
>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=92.35 E-value=0.54 Score=38.77 Aligned_cols=74 Identities=16% Similarity=0.195 Sum_probs=46.0
Q ss_pred EEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchh--cHHHHhhhhcCCCCCe
Q psy8958 63 MSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAER--SNVTDLVSQMDPQGKR 140 (294)
Q Consensus 63 leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~an--s~al~lar~~DP~G~R 140 (294)
+.+.+.....+.+.|+||. +....|+..|+...+++|+++-..+.+--+ ...+...+...+ +.-
T Consensus 44 ~~~~~~~~~~l~i~Dt~G~-------------~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~-~~p 109 (164)
T cd04101 44 VPVDTDNTVELFIFDSAGQ-------------ELYSDMVSNYWESPSVFILVYDVSNKASFENCSRWVNKVRTASK-HMP 109 (164)
T ss_pred EEeCCCCEEEEEEEECCCH-------------HHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCC-CCC
Confidence 3333445578999999992 344578888999888777666432221111 123344444443 477
Q ss_pred EEEEeccchh
Q psy8958 141 TIFVLTKVSQ 150 (294)
Q Consensus 141 TIGVlTK~D~ 150 (294)
.|.|.||.|+
T Consensus 110 ~ilv~nK~Dl 119 (164)
T cd04101 110 GVLVGNKMDL 119 (164)
T ss_pred EEEEEECccc
Confidence 8999999995
No 58
>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=92.10 E-value=0.47 Score=41.06 Aligned_cols=64 Identities=23% Similarity=0.307 Sum_probs=36.3
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhc--HHHHhhhhcCCCCCeEEEEecc
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERS--NVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans--~al~lar~~DP~G~RTIGVlTK 147 (294)
-..++++|+||.. ..++.+. ..+.....+ +.|+++......+ +.+.+++.. +..-|.|+||
T Consensus 67 ~~~~~i~DtpG~~------------~~~~~~~-~~~~~~d~v-i~VvD~~~~~~~~~~~~~~~~~~~---~~~~iiv~NK 129 (192)
T cd01889 67 NLQITLVDCPGHA------------SLIRTII-GGAQIIDLM-LLVVDATKGIQTQTAECLVIGEIL---CKKLIVVLNK 129 (192)
T ss_pred CceEEEEECCCcH------------HHHHHHH-HHHhhCCEE-EEEEECCCCccHHHHHHHHHHHHc---CCCEEEEEEC
Confidence 4679999999962 1122222 223334444 4566665433222 234444443 5678899999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 130 ~Dl 132 (192)
T cd01889 130 IDL 132 (192)
T ss_pred ccc
Confidence 995
No 59
>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=92.05 E-value=0.43 Score=39.12 Aligned_cols=68 Identities=15% Similarity=0.144 Sum_probs=41.4
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh-cHHHHhhhh---cCCCCCeEEEE
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER-SNVTDLVSQ---MDPQGKRTIFV 144 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an-s~al~lar~---~DP~G~RTIGV 144 (294)
-..+.++|+||.. ..+.+...|++..+.+|+++-..+.+ +.. ...+....+ +...+...+.|
T Consensus 44 ~~~~~l~Dt~G~~-------------~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv 110 (162)
T cd04157 44 NLSFTAFDMSGQG-------------KYRGLWEHYYKNIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFF 110 (162)
T ss_pred CEEEEEEECCCCH-------------hhHHHHHHHHccCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEE
Confidence 4568999999943 23456778888888777655443321 111 112222222 22346789999
Q ss_pred eccchh
Q psy8958 145 LTKVSQ 150 (294)
Q Consensus 145 lTK~D~ 150 (294)
+||.|+
T Consensus 111 ~NK~Dl 116 (162)
T cd04157 111 ANKMDL 116 (162)
T ss_pred EeCccc
Confidence 999995
No 60
>PRK03003 GTP-binding protein Der; Reviewed
Probab=91.81 E-value=0.64 Score=46.75 Aligned_cols=74 Identities=14% Similarity=0.243 Sum_probs=43.9
Q ss_pred CceEEeCCCCcccCCCCCChhHHHHHHHH-hhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchh
Q psy8958 72 RMVLVDLPGIISTSTQDMASDTRDLIRQM-TQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 72 ~LTLVDLPGi~~~~~~~q~~~~~~~i~~L-v~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~ 150 (294)
.+.|+|+||+.+....... .+....+ ...+++..+.+|| |++++.....++ ++++..+-..|.-.|.|++|+|+
T Consensus 260 ~~~l~DTaG~~~~~~~~~~---~e~~~~~~~~~~i~~ad~vil-V~Da~~~~s~~~-~~~~~~~~~~~~piIiV~NK~Dl 334 (472)
T PRK03003 260 TWRFVDTAGLRRRVKQASG---HEYYASLRTHAAIEAAEVAVV-LIDASEPISEQD-QRVLSMVIEAGRALVLAFNKWDL 334 (472)
T ss_pred EEEEEECCCccccccccch---HHHHHHHHHHHHHhcCCEEEE-EEeCCCCCCHHH-HHHHHHHHHcCCCEEEEEECccc
Confidence 4689999998754432211 2233333 2346777775554 555554443333 34455554567889999999996
No 61
>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=91.76 E-value=0.52 Score=42.20 Aligned_cols=80 Identities=19% Similarity=0.267 Sum_probs=45.4
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC-------cch--h
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV-------DAE--R 124 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~-------D~a--n 124 (294)
.++|-+.....+... -..++++|+||... .+..+ ..++...+.+|+ |++|.. ... .
T Consensus 61 rg~T~d~~~~~~~~~-~~~i~liDtpG~~~------------~~~~~-~~~~~~~d~~i~-VvDa~~~~~~~~~~~~~~~ 125 (219)
T cd01883 61 RGVTIDVGLAKFETE-KYRFTILDAPGHRD------------FVPNM-ITGASQADVAVL-VVDARKGEFEAGFEKGGQT 125 (219)
T ss_pred CccCeecceEEEeeC-CeEEEEEECCChHH------------HHHHH-HHHhhhCCEEEE-EEECCCCccccccccccch
Confidence 456666666665543 35799999999532 11222 245566665555 555553 221 2
Q ss_pred cHHHHhhhhcCCCCCeEEEEeccchh
Q psy8958 125 SNVTDLVSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 125 s~al~lar~~DP~G~RTIGVlTK~D~ 150 (294)
...+.+++... ..+-|.|++|.|+
T Consensus 126 ~~~~~~~~~~~--~~~iiivvNK~Dl 149 (219)
T cd01883 126 REHALLARTLG--VKQLIVAVNKMDD 149 (219)
T ss_pred HHHHHHHHHcC--CCeEEEEEEcccc
Confidence 22334444332 2567889999995
No 62
>COG1160 Predicted GTPases [General function prediction only]
Probab=91.75 E-value=0.78 Score=46.42 Aligned_cols=92 Identities=18% Similarity=0.334 Sum_probs=67.2
Q ss_pred CCCccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC--cchhcHHH
Q psy8958 51 RKGKTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV--DAERSNVT 128 (294)
Q Consensus 51 g~~~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~--D~ans~al 128 (294)
.+-.|++.|.++=...--+.+ ..+||++|+..... +.+..+++.-+..-|....+ ||.|+++.. ..+-..+.
T Consensus 32 ~D~pGvTRDr~y~~~~~~~~~-f~lIDTgGl~~~~~----~~l~~~i~~Qa~~Ai~eADv-ilfvVD~~~Git~~D~~ia 105 (444)
T COG1160 32 SDTPGVTRDRIYGDAEWLGRE-FILIDTGGLDDGDE----DELQELIREQALIAIEEADV-ILFVVDGREGITPADEEIA 105 (444)
T ss_pred ecCCCCccCCccceeEEcCce-EEEEECCCCCcCCc----hHHHHHHHHHHHHHHHhCCE-EEEEEeCCCCCCHHHHHHH
Confidence 456788889888777666666 99999999986442 45778888888888888885 556666665 33344455
Q ss_pred HhhhhcCCCCCeEEEEeccchhh
Q psy8958 129 DLVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 129 ~lar~~DP~G~RTIGVlTK~D~~ 151 (294)
++-| +.+.-+|.|+.|+|..
T Consensus 106 ~~Lr---~~~kpviLvvNK~D~~ 125 (444)
T COG1160 106 KILR---RSKKPVILVVNKIDNL 125 (444)
T ss_pred HHHH---hcCCCEEEEEEcccCc
Confidence 5555 5668899999999964
No 63
>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=91.70 E-value=0.45 Score=39.39 Aligned_cols=68 Identities=19% Similarity=0.238 Sum_probs=41.7
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-ch--hcHHHHhhhhcCCCCCeEEEEec
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AE--RSNVTDLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~a--ns~al~lar~~DP~G~RTIGVlT 146 (294)
...+.++|+||.. ....+...|++..+.+|++|-+.+.+ +. .....++.+.....+...|.|++
T Consensus 49 ~~~~~l~Dt~G~~-------------~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~N 115 (167)
T cd04160 49 NARLKFWDLGGQE-------------SLRSLWDKYYAECHAIIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILAN 115 (167)
T ss_pred CEEEEEEECCCCh-------------hhHHHHHHHhCCCCEEEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEE
Confidence 4679999999953 23456778888888766655433221 11 11112233333335678999999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|+|+
T Consensus 116 K~D~ 119 (167)
T cd04160 116 KQDL 119 (167)
T ss_pred cccc
Confidence 9995
No 64
>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=91.68 E-value=0.35 Score=39.72 Aligned_cols=67 Identities=16% Similarity=0.150 Sum_probs=41.4
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh-cH-HHHhhhhcCCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER-SN-VTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an-s~-al~lar~~DP~G~RTIGVlTK 147 (294)
..+.++|+||.. ....|...|++..+++|+++-..+.. +.. +. ...+.+..+..+.-.|.|.||
T Consensus 50 ~~~~i~Dt~G~~-------------~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK 116 (164)
T cd04145 50 AILDILDTAGQE-------------EFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNK 116 (164)
T ss_pred EEEEEEECCCCc-------------chhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeC
Confidence 568899999943 22457778888888877776543321 000 11 112333334445678999999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
+|+
T Consensus 117 ~Dl 119 (164)
T cd04145 117 ADL 119 (164)
T ss_pred ccc
Confidence 995
No 65
>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=91.65 E-value=0.26 Score=38.13 Aligned_cols=67 Identities=16% Similarity=0.165 Sum_probs=41.9
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHH----HhhhhcCCCCCeEEEEe
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVT----DLVSQMDPQGKRTIFVL 145 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al----~lar~~DP~G~RTIGVl 145 (294)
...++++|+||...... ....++...+.+|+++ +++......... .........+.-.|.|+
T Consensus 44 ~~~~~l~D~~g~~~~~~-------------~~~~~~~~~~~~i~v~-d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~ 109 (157)
T cd00882 44 KVKLQIWDTAGQERFRS-------------LRRLYYRGADGIILVY-DVTDRESFENVKEWLLLILINKEGENIPIILVG 109 (157)
T ss_pred EEEEEEEecCChHHHHh-------------HHHHHhcCCCEEEEEE-ECcCHHHHHHHHHHHHHHHHhhccCCCcEEEEE
Confidence 46799999999664321 2266777777665555 445433333222 23344455578999999
Q ss_pred ccchh
Q psy8958 146 TKVSQ 150 (294)
Q Consensus 146 TK~D~ 150 (294)
||.|+
T Consensus 110 nk~D~ 114 (157)
T cd00882 110 NKIDL 114 (157)
T ss_pred ecccc
Confidence 99985
No 66
>PRK15494 era GTPase Era; Provisional
Probab=91.55 E-value=0.93 Score=43.76 Aligned_cols=80 Identities=19% Similarity=0.317 Sum_probs=44.2
Q ss_pred eEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhc--HHHHhhhhcCCCC
Q psy8958 61 ISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERS--NVTDLVSQMDPQG 138 (294)
Q Consensus 61 I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans--~al~lar~~DP~G 138 (294)
+.-.+..++. .+.|+|+||+..... .+..........++..-..+|+ |+++...+... ..++..+.. +
T Consensus 91 ~~~~~~~~~~-qi~~~DTpG~~~~~~-----~l~~~~~r~~~~~l~~aDvil~-VvD~~~s~~~~~~~il~~l~~~---~ 160 (339)
T PRK15494 91 ITGIITLKDT-QVILYDTPGIFEPKG-----SLEKAMVRCAWSSLHSADLVLL-IIDSLKSFDDITHNILDKLRSL---N 160 (339)
T ss_pred EEEEEEeCCe-EEEEEECCCcCCCcc-----cHHHHHHHHHHHHhhhCCEEEE-EEECCCCCCHHHHHHHHHHHhc---C
Confidence 3333333443 689999999864221 1222233334455677776655 45555433332 234444433 4
Q ss_pred CeEEEEeccchh
Q psy8958 139 KRTIFVLTKVSQ 150 (294)
Q Consensus 139 ~RTIGVlTK~D~ 150 (294)
...|.|+||.|+
T Consensus 161 ~p~IlViNKiDl 172 (339)
T PRK15494 161 IVPIFLLNKIDI 172 (339)
T ss_pred CCEEEEEEhhcC
Confidence 567899999996
No 67
>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=91.54 E-value=0.68 Score=38.34 Aligned_cols=74 Identities=20% Similarity=0.336 Sum_probs=36.8
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHH-hhhhcCCCCceEEEeccCCCcc----hh-cHHHHhhhhcCCCCCeEEE
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQM-TQTHMSNPNAIILCIQDGSVDA----ER-SNVTDLVSQMDPQGKRTIF 143 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~L-v~~Yi~~p~sIILaV~~a~~D~----an-s~al~lar~~DP~G~RTIG 143 (294)
...++|+|+||+...+.... ..+... .+ ...|+ ..+ +|.|++++... +. ...++..+... .+...|.
T Consensus 46 ~~~~~i~Dt~G~~~~~~~~~-~~~~~~--~~~~~~~~--~d~-~l~v~d~~~~~~~~~~~~~~~~~~l~~~~-~~~pvil 118 (168)
T cd01897 46 YLRWQVIDTPGLLDRPLEER-NTIEMQ--AITALAHL--RAA-VLFLFDPSETCGYSLEEQLSLFEEIKPLF-KNKPVIV 118 (168)
T ss_pred ceEEEEEECCCcCCccccCC-chHHHH--HHHHHHhc--cCc-EEEEEeCCcccccchHHHHHHHHHHHhhc-CcCCeEE
Confidence 35799999999854322111 111111 11 11222 344 45555555321 11 12333333332 2578999
Q ss_pred Eeccchh
Q psy8958 144 VLTKVSQ 150 (294)
Q Consensus 144 VlTK~D~ 150 (294)
|+||.|+
T Consensus 119 v~NK~Dl 125 (168)
T cd01897 119 VLNKIDL 125 (168)
T ss_pred EEEcccc
Confidence 9999995
No 68
>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=91.51 E-value=0.36 Score=38.60 Aligned_cols=68 Identities=16% Similarity=0.186 Sum_probs=42.1
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh-cHHHHhhhhcCCCCCeEEEEecc
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER-SNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an-s~al~lar~~DP~G~RTIGVlTK 147 (294)
..+++++|+||.. ....+...++++...+|+++-....+ +.. ...+......-..+.-.+.|+||
T Consensus 48 ~~~~~l~D~~g~~-------------~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK 114 (159)
T cd00154 48 TVKLQIWDTAGQE-------------RFRSITPSYYRGAHGAILVYDITNRESFENLDKWLKELKEYAPENIPIILVGNK 114 (159)
T ss_pred EEEEEEEecCChH-------------HHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEc
Confidence 3678999999962 23347788888888766655543321 111 12233444433345778999999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 115 ~D~ 117 (159)
T cd00154 115 IDL 117 (159)
T ss_pred ccc
Confidence 995
No 69
>PRK12297 obgE GTPase CgtA; Reviewed
Probab=91.49 E-value=0.72 Score=46.31 Aligned_cols=76 Identities=21% Similarity=0.351 Sum_probs=43.0
Q ss_pred CCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC----cchh--cHHHHhhhhcCC--CCC
Q psy8958 68 PGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV----DAER--SNVTDLVSQMDP--QGK 139 (294)
Q Consensus 68 P~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~----D~an--s~al~lar~~DP--~G~ 139 (294)
++-..++|+|+||++..+..+. ..... ..++++.-+ +++.|++++. |... ..+.+..+.+++ .+.
T Consensus 203 ~~~~~~~laD~PGliega~~~~-----gLg~~-fLrhier~~-llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~k 275 (424)
T PRK12297 203 DDGRSFVMADIPGLIEGASEGV-----GLGHQ-FLRHIERTR-VIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLER 275 (424)
T ss_pred eCCceEEEEECCCCcccccccc-----hHHHH-HHHHHhhCC-EEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCC
Confidence 3356799999999987554321 11111 223344455 4555555542 2211 123344555666 367
Q ss_pred eEEEEeccchh
Q psy8958 140 RTIFVLTKVSQ 150 (294)
Q Consensus 140 RTIGVlTK~D~ 150 (294)
..|.|+||+|+
T Consensus 276 P~IVV~NK~DL 286 (424)
T PRK12297 276 PQIVVANKMDL 286 (424)
T ss_pred cEEEEEeCCCC
Confidence 88999999995
No 70
>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=91.44 E-value=0.57 Score=41.38 Aligned_cols=64 Identities=19% Similarity=0.211 Sum_probs=35.5
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC-c--chhcHHHHhhhhcCCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV-D--AERSNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~-D--~ans~al~lar~~DP~G~RTIGVlTK 147 (294)
..++|+|+||. + ..+. -+..++.+-+.++| |+++.. . ..+...+..++... ....|.|+||
T Consensus 83 ~~i~~iDtPG~---------~---~~~~-~~~~~~~~~D~~ll-Vvd~~~~~~~~~t~~~l~~~~~~~--~~~iiivvNK 146 (203)
T cd01888 83 RHVSFVDCPGH---------E---ILMA-TMLSGAAVMDGALL-LIAANEPCPQPQTSEHLAALEIMG--LKHIIIVQNK 146 (203)
T ss_pred cEEEEEECCCh---------H---HHHH-HHHHhhhcCCEEEE-EEECCCCCCCcchHHHHHHHHHcC--CCcEEEEEEc
Confidence 56899999992 1 1222 23344455565544 444443 2 22334455554332 2357889999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 147 ~Dl 149 (203)
T cd01888 147 IDL 149 (203)
T ss_pred hhc
Confidence 995
No 71
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=91.21 E-value=0.87 Score=48.30 Aligned_cols=76 Identities=14% Similarity=0.230 Sum_probs=45.7
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHH-hhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQM-TQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~L-v~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D 149 (294)
..++|+|+||+.+...... ..+....+ ...+++..+.+| .|++++.....++ +++++.+...|.-.|.|+||+|
T Consensus 498 ~~~~liDTaG~~~~~~~~~---~~e~~~~~r~~~~i~~advvi-lViDat~~~s~~~-~~i~~~~~~~~~piIiV~NK~D 572 (712)
T PRK09518 498 EDWLFIDTAGIKRRQHKLT---GAEYYSSLRTQAAIERSELAL-FLFDASQPISEQD-LKVMSMAVDAGRALVLVFNKWD 572 (712)
T ss_pred CEEEEEECCCcccCcccch---hHHHHHHHHHHHHhhcCCEEE-EEEECCCCCCHHH-HHHHHHHHHcCCCEEEEEEchh
Confidence 3578999999875433211 11222222 245667777554 5667765544443 3455555556788999999999
Q ss_pred hh
Q psy8958 150 QQ 151 (294)
Q Consensus 150 ~~ 151 (294)
+.
T Consensus 573 L~ 574 (712)
T PRK09518 573 LM 574 (712)
T ss_pred cC
Confidence 63
No 72
>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=91.13 E-value=0.55 Score=47.30 Aligned_cols=70 Identities=16% Similarity=0.247 Sum_probs=43.4
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D 149 (294)
-.++.|||+||..+. .+........+.. ..+|..+ +.|++|.. .|++...|+.+.....-|-.|+||.|
T Consensus 182 ~~DvViIDTaGr~~~-----d~~lm~El~~i~~--~~~p~e~-lLVlda~~---Gq~a~~~a~~F~~~~~~~g~IlTKlD 250 (429)
T TIGR01425 182 NFDIIIVDTSGRHKQ-----EDSLFEEMLQVAE--AIQPDNI-IFVMDGSI---GQAAEAQAKAFKDSVDVGSVIITKLD 250 (429)
T ss_pred CCCEEEEECCCCCcc-----hHHHHHHHHHHhh--hcCCcEE-EEEecccc---ChhHHHHHHHHHhccCCcEEEEECcc
Confidence 468999999995431 2334444444432 2356655 45555543 36667777777644456778999999
Q ss_pred h
Q psy8958 150 Q 150 (294)
Q Consensus 150 ~ 150 (294)
-
T Consensus 251 ~ 251 (429)
T TIGR01425 251 G 251 (429)
T ss_pred C
Confidence 4
No 73
>COG1159 Era GTPase [General function prediction only]
Probab=90.93 E-value=0.94 Score=43.62 Aligned_cols=73 Identities=16% Similarity=0.343 Sum_probs=49.3
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchh--cHHHHhhhhcCCCCCeEEEEecc
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAER--SNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~an--s~al~lar~~DP~G~RTIGVlTK 147 (294)
-...++||+||+.+... .+.+..-+.+.+-++.-. +||.|++|+..+.. ..+++..+. .....|.+++|
T Consensus 53 ~~QiIfvDTPGih~pk~-----~l~~~m~~~a~~sl~dvD-lilfvvd~~~~~~~~d~~il~~lk~---~~~pvil~iNK 123 (298)
T COG1159 53 NAQIIFVDTPGIHKPKH-----ALGELMNKAARSALKDVD-LILFVVDADEGWGPGDEFILEQLKK---TKTPVILVVNK 123 (298)
T ss_pred CceEEEEeCCCCCCcch-----HHHHHHHHHHHHHhccCc-EEEEEEeccccCCccHHHHHHHHhh---cCCCeEEEEEc
Confidence 56799999999997632 334444445555556555 77888888865543 344455554 45789999999
Q ss_pred chhh
Q psy8958 148 VSQQ 151 (294)
Q Consensus 148 ~D~~ 151 (294)
.|+.
T Consensus 124 ID~~ 127 (298)
T COG1159 124 IDKV 127 (298)
T ss_pred cccC
Confidence 9964
No 74
>PF01031 Dynamin_M: Dynamin central region; InterPro: IPR000375 Dynamin is a microtubule-associated force-producing protein of 100 Kd which is involved in the production of microtubule bundles. At the N terminus of dynamin is a GTPase domain (see IPR001401 from INTERPRO), and at the C terminus is a PH domain (see IPR001849 from INTERPRO). Between these two domains lies a central region of unknown function, which this entry represents.; GO: 0005525 GTP binding; PDB: 3ZVR_A 2AKA_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D 1JWY_B 1JX2_B 3SZR_A ....
Probab=90.74 E-value=0.15 Score=47.96 Aligned_cols=79 Identities=20% Similarity=0.077 Sum_probs=58.0
Q ss_pred cCCcccc-------ccCCcchhhhhhhhhhhccCCCCCCCccchhhhHHHHHHHHHhhhhh---cC-CChHHHHHHHcCC
Q psy8958 170 DLGSVMD-------LQGKHTIFVLTKVSQQVSMSPPLSPSGQKHRLIKSFIVCLQVDLAEE---NH-SDPQRIKKILAGK 238 (294)
Q Consensus 170 ~LG~~~d-------~~~~~t~~~r~~~E~~fF~~~pW~~~~~~~r~~~a~~~~~~~d~~~~---~~-~~~~~~~~il~~~ 238 (294)
+|||+.. ...+.+..++.+.|+.||++.||-..+..+.++.+|...|+-=|++. .+ ....++.+.|...
T Consensus 13 klGy~~V~nrsq~di~~~~s~~~a~~~E~~fF~~~~~~~~~~~~~G~~~L~~~L~~~L~~~I~~~LP~l~~~I~~~l~~~ 92 (295)
T PF01031_consen 13 KLGYVGVKNRSQQDINDGKSIEEARQKEKEFFSNHPWYSSPADRCGTPALRKRLSELLVEHIRKSLPSLKSEIQKKLQEA 92 (295)
T ss_dssp TT-EEEE--S-HHHHHTTEEHHHHHHHHHHHHHHSTTTGGGGGGSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCeEEEecCCccccccCCCHHHHHHHHHHHHhcccccCCcccccchHHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence 8898853 24567889999999999987654444889999999997777666553 11 1346778888888
Q ss_pred cccCCCCCeE
Q psy8958 239 LFPMKALGYF 248 (294)
Q Consensus 239 ~~~L~~lG~~ 248 (294)
...|++||-.
T Consensus 93 ~~eL~~lG~~ 102 (295)
T PF01031_consen 93 EKELKRLGPP 102 (295)
T ss_dssp HHHHHTHHHC
T ss_pred HHHHHHhCCC
Confidence 8899887775
No 75
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=90.73 E-value=0.51 Score=45.46 Aligned_cols=74 Identities=14% Similarity=0.187 Sum_probs=43.0
Q ss_pred CCCCceEEeCCCCcccCCCCCChhHHHHHHH---HhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEe
Q psy8958 69 GLQRMVLVDLPGIISTSTQDMASDTRDLIRQ---MTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVL 145 (294)
Q Consensus 69 ~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~---Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVl 145 (294)
.-.++.|||+||...... ...+..+. ++...+.....-++.|++|+. .+.++..|+.+...-.=+-.|+
T Consensus 195 ~~~D~ViIDTaGr~~~~~-----~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~---g~~~~~~a~~f~~~~~~~giIl 266 (318)
T PRK10416 195 RGIDVLIIDTAGRLHNKT-----NLMEELKKIKRVIKKADPDAPHEVLLVLDATT---GQNALSQAKAFHEAVGLTGIIL 266 (318)
T ss_pred CCCCEEEEeCCCCCcCCH-----HHHHHHHHHHHHHhhhcCCCCceEEEEEECCC---ChHHHHHHHHHHhhCCCCEEEE
Confidence 345899999999865432 22333333 333433333334566777663 3555555666543334456799
Q ss_pred ccchh
Q psy8958 146 TKVSQ 150 (294)
Q Consensus 146 TK~D~ 150 (294)
||.|.
T Consensus 267 TKlD~ 271 (318)
T PRK10416 267 TKLDG 271 (318)
T ss_pred ECCCC
Confidence 99984
No 76
>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=90.49 E-value=0.65 Score=38.42 Aligned_cols=67 Identities=21% Similarity=0.292 Sum_probs=41.5
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-ch--hcHHHHhhhhcCCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AE--RSNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~a--ns~al~lar~~DP~G~RTIGVlTK 147 (294)
..+.|+|+||... .+.+...|++..+.+|+++-..+.+ +. ......+.+.....+.-.|.|+||
T Consensus 43 ~~~~i~Dt~G~~~-------------~~~~~~~~~~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK 109 (158)
T cd04151 43 LKFQVWDLGGQTS-------------IRPYWRCYYSNTDAIIYVVDSTDRDRLGTAKEELHAMLEEEELKGAVLLVFANK 109 (158)
T ss_pred EEEEEEECCCCHH-------------HHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeC
Confidence 4689999999632 3457778899888777666433211 11 122223333333345678999999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 110 ~Dl 112 (158)
T cd04151 110 QDM 112 (158)
T ss_pred CCC
Confidence 995
No 77
>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=90.47 E-value=0.8 Score=38.01 Aligned_cols=67 Identities=12% Similarity=0.181 Sum_probs=42.5
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-ch-hcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AE-RSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~a-ns~al~lar~~DP~G~RTIGVlTK~ 148 (294)
..+.|+|+||. +....+...|+++.+++|+++-..+.+ +. -...+...+++...+.--|.|.||.
T Consensus 51 ~~~~i~D~~G~-------------~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~ 117 (166)
T cd01869 51 IKLQIWDTAGQ-------------ERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKC 117 (166)
T ss_pred EEEEEEECCCc-------------HhHHHHHHHHhCcCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECh
Confidence 46889999992 223557778888888888776554322 11 1123334444444456778999999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|+
T Consensus 118 Dl 119 (166)
T cd01869 118 DL 119 (166)
T ss_pred hc
Confidence 95
No 78
>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=90.43 E-value=6.8 Score=35.86 Aligned_cols=63 Identities=19% Similarity=0.279 Sum_probs=41.1
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch--hcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE--RSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a--ns~al~lar~~DP~G~RTIGVlTK~ 148 (294)
..+.|+|+||.... ...+..|++.-+.+|++| ++...+. ...+++++++ .|...|.|++|.
T Consensus 64 ~~i~liDTPG~~~f-------------~~~~~~~l~~aD~~IlVv-d~~~g~~~~~~~~~~~~~~---~~~P~iivvNK~ 126 (237)
T cd04168 64 TKVNLIDTPGHMDF-------------IAEVERSLSVLDGAILVI-SAVEGVQAQTRILWRLLRK---LNIPTIIFVNKI 126 (237)
T ss_pred EEEEEEeCCCccch-------------HHHHHHHHHHhCeEEEEE-eCCCCCCHHHHHHHHHHHH---cCCCEEEEEECc
Confidence 46899999997531 223556777777666655 4444433 2344555554 467889999999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|+
T Consensus 127 D~ 128 (237)
T cd04168 127 DR 128 (237)
T ss_pred cc
Confidence 95
No 79
>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=90.34 E-value=0.88 Score=43.93 Aligned_cols=76 Identities=20% Similarity=0.332 Sum_probs=42.7
Q ss_pred CCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc----ch-h-cHHHHhhhhcCC--CCC
Q psy8958 68 PGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD----AE-R-SNVTDLVSQMDP--QGK 139 (294)
Q Consensus 68 P~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D----~a-n-s~al~lar~~DP--~G~ 139 (294)
.+...++|+|+||++..+..+. . +.....++++.-+ ++|.|++++.. .. + +...+....+++ ...
T Consensus 202 ~~~~~~~i~D~PGli~~a~~~~--g----Lg~~flrhierad-~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~k 274 (329)
T TIGR02729 202 DDGRSFVIADIPGLIEGASEGA--G----LGHRFLKHIERTR-VLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEK 274 (329)
T ss_pred CCceEEEEEeCCCcccCCcccc--c----HHHHHHHHHHhhC-EEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccC
Confidence 3446799999999987654321 1 1222334455555 55666666531 11 1 112223344544 346
Q ss_pred eEEEEeccchh
Q psy8958 140 RTIFVLTKVSQ 150 (294)
Q Consensus 140 RTIGVlTK~D~ 150 (294)
..|-|+||+|+
T Consensus 275 p~IIV~NK~DL 285 (329)
T TIGR02729 275 PRIVVLNKIDL 285 (329)
T ss_pred CEEEEEeCccC
Confidence 78999999995
No 80
>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=90.17 E-value=1.1 Score=39.77 Aligned_cols=79 Identities=16% Similarity=0.216 Sum_probs=44.5
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhc--HHHHhh
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERS--NVTDLV 131 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans--~al~la 131 (294)
.++|-+...+.... +-..++|||+||.. +.+..+.. -+...+++| .|++|...+..+ ..+.++
T Consensus 49 rg~Ti~~~~~~~~~-~~~~i~~iDtPG~~------------~~~~~~~~-~~~~~D~~i-lVvda~~g~~~~~~~~~~~~ 113 (195)
T cd01884 49 RGITINTAHVEYET-ANRHYAHVDCPGHA------------DYIKNMIT-GAAQMDGAI-LVVSATDGPMPQTREHLLLA 113 (195)
T ss_pred cCccEEeeeeEecC-CCeEEEEEECcCHH------------HHHHHHHH-HhhhCCEEE-EEEECCCCCcHHHHHHHHHH
Confidence 34454444444433 34578999999974 22333322 233455444 466666554433 345555
Q ss_pred hhcCCCCC-eEEEEeccchh
Q psy8958 132 SQMDPQGK-RTIFVLTKVSQ 150 (294)
Q Consensus 132 r~~DP~G~-RTIGVlTK~D~ 150 (294)
.+. |. +-|.|+||.|+
T Consensus 114 ~~~---~~~~iIvviNK~D~ 130 (195)
T cd01884 114 RQV---GVPYIVVFLNKADM 130 (195)
T ss_pred HHc---CCCcEEEEEeCCCC
Confidence 554 54 46799999995
No 81
>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=90.04 E-value=0.77 Score=40.69 Aligned_cols=81 Identities=14% Similarity=0.252 Sum_probs=47.5
Q ss_pred ccccceEEEEeC--CCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhh
Q psy8958 56 VSNEVISMSVKG--PGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQ 133 (294)
Q Consensus 56 ~S~~~I~leI~g--P~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~ 133 (294)
+....+.+...+ .....++++|+||.... ...+..|+...+++|++|- +...... ...+..+.
T Consensus 54 i~~~~~~~~~~~~~~~~~~i~iiDtpG~~~f-------------~~~~~~~~~~aD~~llVvD-~~~~~~~-~~~~~~~~ 118 (213)
T cd04167 54 IKSSPISLVLPDSKGKSYLFNIIDTPGHVNF-------------MDEVAAALRLSDGVVLVVD-VVEGVTS-NTERLIRH 118 (213)
T ss_pred ccccceeEEEEcCCCCEEEEEEEECCCCcch-------------HHHHHHHHHhCCEEEEEEE-CCCCCCH-HHHHHHHH
Confidence 334455555543 22357999999996531 2446677788887766664 4332221 12222233
Q ss_pred cCCCCCeEEEEeccchhh
Q psy8958 134 MDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 134 ~DP~G~RTIGVlTK~D~~ 151 (294)
....+.-.|.|+||.|+.
T Consensus 119 ~~~~~~p~iiviNK~D~~ 136 (213)
T cd04167 119 AILEGLPIVLVINKIDRL 136 (213)
T ss_pred HHHcCCCEEEEEECcccC
Confidence 333456789999999953
No 82
>cd01864 Rab19 Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=89.88 E-value=1.1 Score=37.19 Aligned_cols=67 Identities=15% Similarity=0.181 Sum_probs=42.9
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh-cHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER-SNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an-s~al~lar~~DP~G~RTIGVlTK~ 148 (294)
..|.|+|+||- +....+...|++..+.+++++-..+.. +.. ...+...+...+.+.--|.|.||.
T Consensus 52 ~~l~i~D~~G~-------------~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~ 118 (165)
T cd01864 52 VKLQIWDTAGQ-------------ERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKC 118 (165)
T ss_pred EEEEEEECCCh-------------HHHHHHHHHHhccCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECc
Confidence 47899999992 224567788888888777765544321 111 223444444444455679999999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|+
T Consensus 119 Dl 120 (165)
T cd01864 119 DL 120 (165)
T ss_pred cc
Confidence 95
No 83
>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=89.82 E-value=0.58 Score=44.01 Aligned_cols=73 Identities=16% Similarity=0.213 Sum_probs=40.4
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHH---HhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEec
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQ---MTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~---Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlT 146 (294)
-.++.|||+||.... .....+.++. ++.+.+.....-++.|++|+. .++++..++.+-..-.-+=.|+|
T Consensus 154 ~~D~ViIDT~G~~~~-----d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~---~~~~~~~~~~f~~~~~~~g~IlT 225 (272)
T TIGR00064 154 NIDVVLIDTAGRLQN-----KVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATT---GQNALEQAKVFNEAVGLTGIILT 225 (272)
T ss_pred CCCEEEEeCCCCCcc-----hHHHHHHHHHHHHHHhcccCCCCceEEEEEECCC---CHHHHHHHHHHHhhCCCCEEEEE
Confidence 368999999998652 1233333333 444444443334455666653 34444444444322234567999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|+|.
T Consensus 226 KlDe 229 (272)
T TIGR00064 226 KLDG 229 (272)
T ss_pred ccCC
Confidence 9984
No 84
>COG3596 Predicted GTPase [General function prediction only]
Probab=89.70 E-value=0.5 Score=45.27 Aligned_cols=78 Identities=21% Similarity=0.302 Sum_probs=52.5
Q ss_pred CCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCC--CCeEEEE
Q psy8958 67 GPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQ--GKRTIFV 144 (294)
Q Consensus 67 gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~--G~RTIGV 144 (294)
.-+.-+|+|.|+||+=.....| ..-+.++..|+.+-. ++|.+.+|. |-+-+.-.++++.+=-. +.|+|.|
T Consensus 83 ~~~~~~l~lwDtPG~gdg~~~D------~~~r~~~~d~l~~~D-LvL~l~~~~-draL~~d~~f~~dVi~~~~~~~~i~~ 154 (296)
T COG3596 83 SYDGENLVLWDTPGLGDGKDKD------AEHRQLYRDYLPKLD-LVLWLIKAD-DRALGTDEDFLRDVIILGLDKRVLFV 154 (296)
T ss_pred hccccceEEecCCCcccchhhh------HHHHHHHHHHhhhcc-EEEEeccCC-CccccCCHHHHHHHHHhccCceeEEE
Confidence 3345899999999987655443 334567777777766 889999987 33333333444433211 2899999
Q ss_pred eccchhhh
Q psy8958 145 LTKVSQQL 152 (294)
Q Consensus 145 lTK~D~~~ 152 (294)
+|.+|+..
T Consensus 155 VtQ~D~a~ 162 (296)
T COG3596 155 VTQADRAE 162 (296)
T ss_pred Eehhhhhc
Confidence 99999763
No 85
>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=89.57 E-value=1.6 Score=36.00 Aligned_cols=67 Identities=10% Similarity=-0.002 Sum_probs=43.2
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch--hcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE--RSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a--ns~al~lar~~DP~G~RTIGVlTK~ 148 (294)
..+.++|+||.. ....+...|+.....+|+++-..+.+-. -...++..++..+.+.-.+.|.||.
T Consensus 52 ~~~~l~D~~g~~-------------~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~ 118 (165)
T cd01868 52 IKAQIWDTAGQE-------------RYRAITSAYYRGAVGALLVYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKS 118 (165)
T ss_pred EEEEEEeCCChH-------------HHHHHHHHHHCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECc
Confidence 579999999942 2445677888877777666554432111 1123445556666667788999999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|+
T Consensus 119 Dl 120 (165)
T cd01868 119 DL 120 (165)
T ss_pred cc
Confidence 95
No 86
>PRK14974 cell division protein FtsY; Provisional
Probab=89.57 E-value=0.83 Score=44.49 Aligned_cols=69 Identities=19% Similarity=0.357 Sum_probs=44.8
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchh
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~ 150 (294)
.++.|||+||..+.. .+..+..+.+++ ..+|..++ .|++|.. .++++..|+.+...-.=+-.|+||.|.
T Consensus 223 ~DvVLIDTaGr~~~~-----~~lm~eL~~i~~--~~~pd~~i-LVl~a~~---g~d~~~~a~~f~~~~~~~giIlTKlD~ 291 (336)
T PRK14974 223 IDVVLIDTAGRMHTD-----ANLMDELKKIVR--VTKPDLVI-FVGDALA---GNDAVEQAREFNEAVGIDGVILTKVDA 291 (336)
T ss_pred CCEEEEECCCccCCc-----HHHHHHHHHHHH--hhCCceEE-Eeecccc---chhHHHHHHHHHhcCCCCEEEEeeecC
Confidence 479999999987632 345555655543 23566555 4556643 467777777765432336679999984
No 87
>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=89.33 E-value=1.1 Score=38.78 Aligned_cols=67 Identities=10% Similarity=0.136 Sum_probs=43.4
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-ch-hcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AE-RSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~a-ns~al~lar~~DP~G~RTIGVlTK~ 148 (294)
..+.|+|+||- +....+...|++..+.+|+++-..+.+ +. -...+...++..+.+.-.|.|.+|.
T Consensus 50 ~~~~i~Dt~G~-------------~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~ 116 (191)
T cd04112 50 VKLQIWDTAGQ-------------ERFRSVTHAYYRDAHALLLLYDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKA 116 (191)
T ss_pred EEEEEEeCCCc-------------HHHHHhhHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcc
Confidence 46889999992 233456677888888766655433321 11 1223456666777777788999999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|+
T Consensus 117 Dl 118 (191)
T cd04112 117 DM 118 (191)
T ss_pred cc
Confidence 96
No 88
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=89.26 E-value=1.2 Score=46.60 Aligned_cols=71 Identities=13% Similarity=0.182 Sum_probs=43.0
Q ss_pred EeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchh--cHHHHhhhhcCCCCCeEE
Q psy8958 65 VKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAER--SNVTDLVSQMDPQGKRTI 142 (294)
Q Consensus 65 I~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~an--s~al~lar~~DP~G~RTI 142 (294)
+.-|+-..++|||+||. ...+++|+ .++..-+.++| |++|+..+.. .+.+.+++... ...-|
T Consensus 45 ~~~~~g~~i~~IDtPGh------------e~fi~~m~-~g~~~~D~~lL-VVda~eg~~~qT~ehl~il~~lg--i~~iI 108 (614)
T PRK10512 45 WPQPDGRVLGFIDVPGH------------EKFLSNML-AGVGGIDHALL-VVACDDGVMAQTREHLAILQLTG--NPMLT 108 (614)
T ss_pred EecCCCcEEEEEECCCH------------HHHHHHHH-HHhhcCCEEEE-EEECCCCCcHHHHHHHHHHHHcC--CCeEE
Confidence 33444556899999995 23445554 44566665555 5566654433 34455665553 23447
Q ss_pred EEeccchhh
Q psy8958 143 FVLTKVSQQ 151 (294)
Q Consensus 143 GVlTK~D~~ 151 (294)
-|+||+|+.
T Consensus 109 VVlNKiDlv 117 (614)
T PRK10512 109 VALTKADRV 117 (614)
T ss_pred EEEECCccC
Confidence 899999963
No 89
>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=89.22 E-value=0.89 Score=37.33 Aligned_cols=68 Identities=18% Similarity=0.279 Sum_probs=42.4
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-ch--hcHHHHhhhhcCCCCCeEEEEec
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AE--RSNVTDLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~a--ns~al~lar~~DP~G~RTIGVlT 146 (294)
...+.++|+||... .+.+...|++...++|+++-..+.+ +. .+....+.+.....+...+.|.|
T Consensus 42 ~~~~~i~D~~G~~~-------------~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~n 108 (158)
T cd00878 42 NVSFTVWDVGGQDK-------------IRPLWKHYYENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFAN 108 (158)
T ss_pred CEEEEEEECCCChh-------------hHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEee
Confidence 46799999999432 1446667888888777654444321 11 11222333444456788999999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|+|+
T Consensus 109 K~D~ 112 (158)
T cd00878 109 KQDL 112 (158)
T ss_pred ccCC
Confidence 9995
No 90
>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=89.21 E-value=1.1 Score=37.44 Aligned_cols=74 Identities=19% Similarity=0.139 Sum_probs=44.0
Q ss_pred eEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc--chh--cHHHHhhhhcCC
Q psy8958 61 ISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD--AER--SNVTDLVSQMDP 136 (294)
Q Consensus 61 I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D--~an--s~al~lar~~DP 136 (294)
+.+.+.+.. ..+.++|+||... -+.+...|++..+.+||++ +++.. +.+ .......++..+
T Consensus 38 ~~~~~~~~~-~~~~i~Dt~G~~~-------------~~~~~~~~~~~ad~~ilv~-d~~~~~s~~~~~~~~~~~i~~~~~ 102 (166)
T cd01893 38 IPADVTPER-VPTTIVDTSSRPQ-------------DRANLAAEIRKANVICLVY-SVDRPSTLERIRTKWLPLIRRLGV 102 (166)
T ss_pred eeeeecCCe-EEEEEEeCCCchh-------------hhHHHhhhcccCCEEEEEE-ECCCHHHHHHHHHHHHHHHHHhCC
Confidence 334444444 4789999999532 1234556777778766655 44431 222 123345555544
Q ss_pred CCCeEEEEeccchh
Q psy8958 137 QGKRTIFVLTKVSQ 150 (294)
Q Consensus 137 ~G~RTIGVlTK~D~ 150 (294)
+.-.|.|.||+|+
T Consensus 103 -~~pviiv~nK~Dl 115 (166)
T cd01893 103 -KVPIILVGNKSDL 115 (166)
T ss_pred -CCCEEEEEEchhc
Confidence 5778999999995
No 91
>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=89.00 E-value=0.93 Score=47.31 Aligned_cols=79 Identities=16% Similarity=0.249 Sum_probs=49.5
Q ss_pred cccccceEEEEe--CCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcH--HHHh
Q psy8958 55 TVSNEVISMSVK--GPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSN--VTDL 130 (294)
Q Consensus 55 ~~S~~~I~leI~--gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~--al~l 130 (294)
++....+.+... +.....|.|+|+||... ...++..|++.-+.+|| |++++.....+. .+..
T Consensus 52 Ti~~~~v~~~~~~~~g~~~~l~liDTPG~~d-------------F~~~v~~~l~~aD~aIL-VvDat~g~~~qt~~~~~~ 117 (595)
T TIGR01393 52 TIKAQAVRLNYKAKDGETYVLNLIDTPGHVD-------------FSYEVSRSLAACEGALL-LVDAAQGIEAQTLANVYL 117 (595)
T ss_pred CeeeeEEEEEEEcCCCCEEEEEEEECCCcHH-------------HHHHHHHHHHhCCEEEE-EecCCCCCCHhHHHHHHH
Confidence 344455555554 23346799999999753 23456778888886665 556665443333 3334
Q ss_pred hhhcCCCCCeEEEEeccchh
Q psy8958 131 VSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 131 ar~~DP~G~RTIGVlTK~D~ 150 (294)
+.+ .+...|.|+||.|+
T Consensus 118 ~~~---~~ipiIiViNKiDl 134 (595)
T TIGR01393 118 ALE---NDLEIIPVINKIDL 134 (595)
T ss_pred HHH---cCCCEEEEEECcCC
Confidence 443 34668999999996
No 92
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=88.97 E-value=1.1 Score=44.39 Aligned_cols=81 Identities=15% Similarity=0.205 Sum_probs=47.9
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC--cchhc--HHHH
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV--DAERS--NVTD 129 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~--D~ans--~al~ 129 (294)
.+++-+.....+...+ ..++|+|+||... ..++|+ ..+...+.+ |.|++++. .+..+ ..+.
T Consensus 68 rG~T~d~~~~~~~~~~-~~i~liDtpG~~~------------~~~~~~-~~~~~aD~~-ilVvDa~~~~~~~~~~~~~~~ 132 (425)
T PRK12317 68 RGVTIDLAHKKFETDK-YYFTIVDCPGHRD------------FVKNMI-TGASQADAA-VLVVAADDAGGVMPQTREHVF 132 (425)
T ss_pred cCccceeeeEEEecCC-eEEEEEECCCccc------------chhhHh-hchhcCCEE-EEEEEcccCCCCCcchHHHHH
Confidence 5667777666666544 4799999999521 122232 234556655 45666664 44333 3445
Q ss_pred hhhhcCCCCCeEEEEeccchhh
Q psy8958 130 LVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 130 lar~~DP~G~RTIGVlTK~D~~ 151 (294)
+++.... .+-|.|+||.|+.
T Consensus 133 ~~~~~~~--~~iivviNK~Dl~ 152 (425)
T PRK12317 133 LARTLGI--NQLIVAINKMDAV 152 (425)
T ss_pred HHHHcCC--CeEEEEEEccccc
Confidence 5554421 3578899999964
No 93
>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=88.94 E-value=1.2 Score=46.56 Aligned_cols=69 Identities=26% Similarity=0.371 Sum_probs=43.1
Q ss_pred CceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcC--CCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 72 RMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMS--NPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 72 ~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~--~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D 149 (294)
++.++|+||....... +. . +.+.+.|+. ... +++.|++++. +. ..+.+..++...+...|-|+||.|
T Consensus 42 ~i~lvDtPG~~~~~~~--s~--~---e~v~~~~l~~~~aD-vvI~VvDat~-le--r~l~l~~ql~~~~~PiIIVlNK~D 110 (591)
T TIGR00437 42 DIEIVDLPGIYSLTTF--SL--E---EEVARDYLLNEKPD-LVVNVVDASN-LE--RNLYLTLQLLELGIPMILALNLVD 110 (591)
T ss_pred EEEEEECCCccccCcc--ch--H---HHHHHHHHhhcCCC-EEEEEecCCc-ch--hhHHHHHHHHhcCCCEEEEEehhH
Confidence 5899999998764332 11 1 133444544 344 5666777664 32 234555555556789999999999
Q ss_pred hh
Q psy8958 150 QQ 151 (294)
Q Consensus 150 ~~ 151 (294)
+.
T Consensus 111 l~ 112 (591)
T TIGR00437 111 EA 112 (591)
T ss_pred HH
Confidence 64
No 94
>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=88.79 E-value=1.1 Score=37.89 Aligned_cols=68 Identities=12% Similarity=0.197 Sum_probs=41.7
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc--HHHHhhhhcCCCCCeEEEEec
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS--NVTDLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans--~al~lar~~DP~G~RTIGVlT 146 (294)
...|.++|+||.. ..+.+...|+...+++|+++-..+.+ +.+. ....+.+.....+...|.|+|
T Consensus 57 ~~~l~l~D~~G~~-------------~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~n 123 (173)
T cd04154 57 GYKLNIWDVGGQK-------------TLRPYWRNYFESTDALIWVVDSSDRLRLDDCKRELKELLQEERLAGATLLILAN 123 (173)
T ss_pred CEEEEEEECCCCH-------------HHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEE
Confidence 3578999999942 24567788899888777765544331 1111 111222222224578899999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|.|+
T Consensus 124 K~Dl 127 (173)
T cd04154 124 KQDL 127 (173)
T ss_pred Cccc
Confidence 9995
No 95
>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=88.59 E-value=1.6 Score=35.80 Aligned_cols=68 Identities=13% Similarity=0.231 Sum_probs=40.5
Q ss_pred CCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHH----HhhhhcCCCCCeEEEE
Q psy8958 69 GLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVT----DLVSQMDPQGKRTIFV 144 (294)
Q Consensus 69 ~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al----~lar~~DP~G~RTIGV 144 (294)
....|.+.|+||.. ..+.+...|++..+.||+++ ++.....-..+. ++.+.....+.-.+.|
T Consensus 42 ~~~~l~i~D~~G~~-------------~~~~~~~~~~~~~~~iv~v~-D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv 107 (160)
T cd04156 42 KHLSLTVWDVGGQE-------------KMRTVWKCYLENTDGLVYVV-DSSDEARLDESQKELKHILKNEHIKGVPVVLL 107 (160)
T ss_pred CceEEEEEECCCCH-------------hHHHHHHHHhccCCEEEEEE-ECCcHHHHHHHHHHHHHHHhchhhcCCCEEEE
Confidence 44679999999953 23456667888888766554 444321111111 1222212245778999
Q ss_pred eccchh
Q psy8958 145 LTKVSQ 150 (294)
Q Consensus 145 lTK~D~ 150 (294)
+||.|+
T Consensus 108 ~nK~Dl 113 (160)
T cd04156 108 ANKQDL 113 (160)
T ss_pred EECccc
Confidence 999995
No 96
>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=88.45 E-value=1.4 Score=35.77 Aligned_cols=67 Identities=13% Similarity=0.116 Sum_probs=40.3
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchh--cHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAER--SNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~an--s~al~lar~~DP~G~RTIGVlTK~ 148 (294)
..+.++|+||-. ....+...|+++.+.+|+++-..+.+... ...++..+...+...-.|.|+||.
T Consensus 49 ~~~~~~D~~g~~-------------~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~ 115 (162)
T cd04123 49 IDLAIWDTAGQE-------------RYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKI 115 (162)
T ss_pred EEEEEEECCchH-------------HHHHhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECc
Confidence 468999999921 23355666777777666665443322111 112233344555567799999999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|+
T Consensus 116 D~ 117 (162)
T cd04123 116 DL 117 (162)
T ss_pred cc
Confidence 95
No 97
>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=88.43 E-value=1.6 Score=45.33 Aligned_cols=69 Identities=22% Similarity=0.344 Sum_probs=42.7
Q ss_pred EeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcc--hhcHHHHhhhhcCCCCCe-E
Q psy8958 65 VKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDA--ERSNVTDLVSQMDPQGKR-T 141 (294)
Q Consensus 65 I~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~--ans~al~lar~~DP~G~R-T 141 (294)
+.-++ ..++|+|+||. ...+++| ..++.+.+.+|| |++|+..+ .+.+.+.+++.. |.. -
T Consensus 45 ~~~~~-~~v~~iDtPGh------------e~f~~~~-~~g~~~aD~aIL-VVDa~~G~~~qT~ehl~il~~l---gi~~i 106 (581)
T TIGR00475 45 FPLPD-YRLGFIDVPGH------------EKFISNA-IAGGGGIDAALL-VVDADEGVMTQTGEHLAVLDLL---GIPHT 106 (581)
T ss_pred EEeCC-EEEEEEECCCH------------HHHHHHH-HhhhccCCEEEE-EEECCCCCcHHHHHHHHHHHHc---CCCeE
Confidence 33344 67999999993 1233444 456667775555 66666433 334445555554 444 9
Q ss_pred EEEeccchhh
Q psy8958 142 IFVLTKVSQQ 151 (294)
Q Consensus 142 IGVlTK~D~~ 151 (294)
|.|+||+|+.
T Consensus 107 IVVlNK~Dlv 116 (581)
T TIGR00475 107 IVVITKADRV 116 (581)
T ss_pred EEEEECCCCC
Confidence 9999999963
No 98
>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=88.41 E-value=1.1 Score=37.11 Aligned_cols=75 Identities=23% Similarity=0.377 Sum_probs=38.4
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-------chhcHH-HHhhhhcCC-----
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-------AERSNV-TDLVSQMDP----- 136 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-------~ans~a-l~lar~~DP----- 136 (294)
...+.|+|+||+.......+ .+. .. ...|++..+.+++++-..+.+ +..... ........+
T Consensus 43 ~~~~~i~DtpG~~~~~~~~~--~~~---~~-~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 116 (176)
T cd01881 43 GARIQVADIPGLIEGASEGR--GLG---NQ-FLAHIRRADAILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILG 116 (176)
T ss_pred CCeEEEEeccccchhhhcCC--Ccc---HH-HHHHHhccCEEEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHH
Confidence 56789999999864333221 111 11 234556666555544433331 111111 112222222
Q ss_pred --CCCeEEEEeccchh
Q psy8958 137 --QGKRTIFVLTKVSQ 150 (294)
Q Consensus 137 --~G~RTIGVlTK~D~ 150 (294)
.+...+-|+||+|+
T Consensus 117 ~~~~~p~ivv~NK~Dl 132 (176)
T cd01881 117 LLTAKPVIYVLNKIDL 132 (176)
T ss_pred HHhhCCeEEEEEchhc
Confidence 25789999999995
No 99
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=88.39 E-value=1.7 Score=35.57 Aligned_cols=75 Identities=13% Similarity=0.166 Sum_probs=45.3
Q ss_pred eEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHH---HHhhhhcCCC
Q psy8958 61 ISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNV---TDLVSQMDPQ 137 (294)
Q Consensus 61 I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~a---l~lar~~DP~ 137 (294)
..+.+.+.. ..+.++|+||. .....+...|+++.+.+|+++-..+.+ +-+.+ +......-..
T Consensus 40 ~~~~~~~~~-~~~~l~D~~G~-------------~~~~~~~~~~~~~~d~~ilv~d~~~~~-s~~~~~~~l~~~~~~~~~ 104 (164)
T smart00175 40 KTIEVDGKR-VKLQIWDTAGQ-------------ERFRSITSSYYRGAVGALLVYDITNRE-SFENLKNWLKELREYADP 104 (164)
T ss_pred EEEEECCEE-EEEEEEECCCh-------------HHHHHHHHHHhCCCCEEEEEEECCCHH-HHHHHHHHHHHHHHhCCC
Confidence 344443322 37899999992 223357788888888887777554321 11222 2233333324
Q ss_pred CCeEEEEeccchh
Q psy8958 138 GKRTIFVLTKVSQ 150 (294)
Q Consensus 138 G~RTIGVlTK~D~ 150 (294)
+.-.+.|.||.|+
T Consensus 105 ~~pivvv~nK~D~ 117 (164)
T smart00175 105 NVVIMLVGNKSDL 117 (164)
T ss_pred CCeEEEEEEchhc
Confidence 6889999999995
No 100
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=88.35 E-value=2.7 Score=42.28 Aligned_cols=71 Identities=20% Similarity=0.303 Sum_probs=41.1
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHH-HHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLI-RQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i-~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D 149 (294)
..++|+|+||+.. +.+..+.. -.....|+.+.+.+ +.|++++..... +-.++... ..+...|.|+||.|
T Consensus 263 ~~i~l~DT~G~~~------~~~~ie~~gi~~~~~~~~~aD~i-l~VvD~s~~~s~-~~~~~l~~--~~~~piiiV~NK~D 332 (449)
T PRK05291 263 IPLRLIDTAGIRE------TDDEVEKIGIERSREAIEEADLV-LLVLDASEPLTE-EDDEILEE--LKDKPVIVVLNKAD 332 (449)
T ss_pred eEEEEEeCCCCCC------CccHHHHHHHHHHHHHHHhCCEE-EEEecCCCCCCh-hHHHHHHh--cCCCCcEEEEEhhh
Confidence 4589999999853 22222221 12244677877755 555666533222 22333333 34578899999999
Q ss_pred hh
Q psy8958 150 QQ 151 (294)
Q Consensus 150 ~~ 151 (294)
+.
T Consensus 333 L~ 334 (449)
T PRK05291 333 LT 334 (449)
T ss_pred cc
Confidence 64
No 101
>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=88.14 E-value=1.6 Score=36.47 Aligned_cols=68 Identities=16% Similarity=0.166 Sum_probs=43.0
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcc-h-hcHHHHhhhhcCCCCCeEEEEecc
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDA-E-RSNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~-a-ns~al~lar~~DP~G~RTIGVlTK 147 (294)
...|.|.|+||. +....+...|+++..++|++.-..+.+- . -...+...+...+.+.-.|-|.||
T Consensus 51 ~~~l~l~D~~g~-------------~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK 117 (167)
T cd01867 51 KIKLQIWDTAGQ-------------ERFRTITTAYYRGAMGIILVYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNK 117 (167)
T ss_pred EEEEEEEeCCch-------------HHHHHHHHHHhCCCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEC
Confidence 357899999993 2234556778888887776654332211 1 122334455555667788999999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 118 ~Dl 120 (167)
T cd01867 118 CDM 120 (167)
T ss_pred ccc
Confidence 995
No 102
>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=88.10 E-value=2 Score=42.45 Aligned_cols=81 Identities=19% Similarity=0.264 Sum_probs=48.3
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc---ch--hcHHH
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD---AE--RSNVT 128 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D---~a--ns~al 128 (294)
.+++-+.....+...+ ..++|+|+||.. +.++.|.. ++...+.+||+| +++.. .. +...+
T Consensus 69 rg~Tid~~~~~~~~~~-~~i~iiDtpGh~------------~f~~~~~~-~~~~aD~~ilVv-Da~~~~~~~~~~t~~~~ 133 (426)
T TIGR00483 69 RGVTIDVAHWKFETDK-YEVTIVDCPGHR------------DFIKNMIT-GASQADAAVLVV-AVGDGEFEVQPQTREHA 133 (426)
T ss_pred cCceEEEEEEEEccCC-eEEEEEECCCHH------------HHHHHHHh-hhhhCCEEEEEE-ECCCCCcccCCchHHHH
Confidence 4566666666666655 479999999932 22334433 556777666654 44432 22 22223
Q ss_pred HhhhhcCCCCCeEEEEeccchhh
Q psy8958 129 DLVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 129 ~lar~~DP~G~RTIGVlTK~D~~ 151 (294)
.+++... -.+.|.|+||.|+.
T Consensus 134 ~~~~~~~--~~~iIVviNK~Dl~ 154 (426)
T TIGR00483 134 FLARTLG--INQLIVAINKMDSV 154 (426)
T ss_pred HHHHHcC--CCeEEEEEEChhcc
Confidence 4555543 14688899999963
No 103
>CHL00189 infB translation initiation factor 2; Provisional
Probab=88.09 E-value=0.77 Score=49.28 Aligned_cols=66 Identities=17% Similarity=0.293 Sum_probs=45.1
Q ss_pred CCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc--chhcHHHHhhhhcCCCCCeEEEEec
Q psy8958 69 GLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD--AERSNVTDLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 69 ~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D--~ans~al~lar~~DP~G~RTIGVlT 146 (294)
.-..++|+|+||. +....|...|+.....+||+| +|... ..+.++++.++. .+...|.|+|
T Consensus 293 ~~~kItfiDTPGh-------------e~F~~mr~rg~~~aDiaILVV-DA~dGv~~QT~E~I~~~k~---~~iPiIVViN 355 (742)
T CHL00189 293 ENQKIVFLDTPGH-------------EAFSSMRSRGANVTDIAILII-AADDGVKPQTIEAINYIQA---ANVPIIVAIN 355 (742)
T ss_pred CceEEEEEECCcH-------------HHHHHHHHHHHHHCCEEEEEE-ECcCCCChhhHHHHHHHHh---cCceEEEEEE
Confidence 3467999999994 234467778888888777766 55433 233445555543 4678999999
Q ss_pred cchhh
Q psy8958 147 KVSQQ 151 (294)
Q Consensus 147 K~D~~ 151 (294)
|+|+.
T Consensus 356 KiDl~ 360 (742)
T CHL00189 356 KIDKA 360 (742)
T ss_pred CCCcc
Confidence 99963
No 104
>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional
Probab=88.08 E-value=1.8 Score=43.90 Aligned_cols=81 Identities=12% Similarity=0.196 Sum_probs=47.5
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhc--HHHHhh
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERS--NVTDLV 131 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans--~al~la 131 (294)
.++|-++-....... -..++|||+||.. +.+++|+.. +...+ ++|.|++|+..+..| +.+.++
T Consensus 91 rgiTid~~~~~~~~~-~~~i~~iDTPGh~------------~f~~~~~~~-l~~aD-~allVVDa~~G~~~qt~~~~~l~ 155 (474)
T PRK05124 91 QGITIDVAYRYFSTE-KRKFIIADTPGHE------------QYTRNMATG-ASTCD-LAILLIDARKGVLDQTRRHSFIA 155 (474)
T ss_pred cCCCeEeeEEEeccC-CcEEEEEECCCcH------------HHHHHHHHH-HhhCC-EEEEEEECCCCccccchHHHHHH
Confidence 345545443334333 4479999999931 234455555 35555 455666676554433 445566
Q ss_pred hhcCCCCCeEEEEeccchhh
Q psy8958 132 SQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 132 r~~DP~G~RTIGVlTK~D~~ 151 (294)
....- ...|-|+||+|+.
T Consensus 156 ~~lg~--~~iIvvvNKiD~~ 173 (474)
T PRK05124 156 TLLGI--KHLVVAVNKMDLV 173 (474)
T ss_pred HHhCC--CceEEEEEeeccc
Confidence 65541 3568899999963
No 105
>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=87.95 E-value=1.7 Score=36.19 Aligned_cols=74 Identities=11% Similarity=0.133 Sum_probs=46.7
Q ss_pred EEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-ch-hcHHHHhhhhcCCCCCe
Q psy8958 63 MSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AE-RSNVTDLVSQMDPQGKR 140 (294)
Q Consensus 63 leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~a-ns~al~lar~~DP~G~R 140 (294)
+.+.+.. ..|.|.|+||. +..+.+...|+++.+++||++-..+.+ +. -...+..++.......-
T Consensus 44 ~~~~~~~-~~l~i~Dt~G~-------------~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~ 109 (166)
T cd04122 44 IEVNGQK-IKLQIWDTAGQ-------------ERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTV 109 (166)
T ss_pred EEECCEE-EEEEEEECCCc-------------HHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCe
Confidence 4444433 47899999993 234567788999999888877665422 11 11233444444434466
Q ss_pred EEEEeccchh
Q psy8958 141 TIFVLTKVSQ 150 (294)
Q Consensus 141 TIGVlTK~D~ 150 (294)
-|-|.||.|+
T Consensus 110 iiiv~nK~Dl 119 (166)
T cd04122 110 IFLIGNKADL 119 (166)
T ss_pred EEEEEECccc
Confidence 8899999995
No 106
>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=87.94 E-value=1.7 Score=35.58 Aligned_cols=67 Identities=13% Similarity=0.152 Sum_probs=40.4
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC-cchhc-HHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV-DAERS-NVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~-D~ans-~al~lar~~DP~G~RTIGVlTK~ 148 (294)
..|.++|+||. ...+.++..|++....+|+++-..+. .+... ..+...+..-+.+...|.|+||.
T Consensus 49 ~~l~~~D~~G~-------------~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~ 115 (161)
T cd01861 49 VRLQLWDTAGQ-------------ERFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKT 115 (161)
T ss_pred EEEEEEECCCc-------------HHHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEECh
Confidence 36899999992 22356788888888866655543221 12221 12222222223358899999999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|+
T Consensus 116 D~ 117 (161)
T cd01861 116 DL 117 (161)
T ss_pred hc
Confidence 95
No 107
>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=87.76 E-value=1.7 Score=36.48 Aligned_cols=76 Identities=13% Similarity=0.185 Sum_probs=45.1
Q ss_pred ceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHH---hhhhcCC
Q psy8958 60 VISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTD---LVSQMDP 136 (294)
Q Consensus 60 ~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~---lar~~DP 136 (294)
...+++.+-. -.++|+|+||. +....+...|.++..++|+++ +++..-.-+.+.+ ..++.-.
T Consensus 43 ~~~~~~~~~~-~~~~i~Dt~G~-------------~~~~~~~~~~~~~~d~il~v~-d~~~~~s~~~~~~~~~~~~~~~~ 107 (168)
T cd01866 43 ARMITIDGKQ-IKLQIWDTAGQ-------------ESFRSITRSYYRGAAGALLVY-DITRRETFNHLTSWLEDARQHSN 107 (168)
T ss_pred EEEEEECCEE-EEEEEEECCCc-------------HHHHHHHHHHhccCCEEEEEE-ECCCHHHHHHHHHHHHHHHHhCC
Confidence 4445555433 37999999992 234567788999888877655 4442111112222 2233322
Q ss_pred CCCeEEEEeccchh
Q psy8958 137 QGKRTIFVLTKVSQ 150 (294)
Q Consensus 137 ~G~RTIGVlTK~D~ 150 (294)
.+..-|.|.||.|+
T Consensus 108 ~~~pvivv~nK~Dl 121 (168)
T cd01866 108 SNMTIMLIGNKCDL 121 (168)
T ss_pred CCCcEEEEEECccc
Confidence 34667999999985
No 108
>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=87.71 E-value=2 Score=35.07 Aligned_cols=76 Identities=14% Similarity=0.172 Sum_probs=44.8
Q ss_pred eEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcc-h-hcHHHHhhhh-cCC-
Q psy8958 61 ISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDA-E-RSNVTDLVSQ-MDP- 136 (294)
Q Consensus 61 I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~-a-ns~al~lar~-~DP- 136 (294)
-.+.+.+ ....|.|+|+||.- ....+...|.+....+|+++-..+.+- . -...+....+ ..+
T Consensus 40 ~~~~~~~-~~~~l~i~Dt~G~~-------------~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~ 105 (168)
T cd04119 40 KKVSVRN-KEVRVNFFDLSGHP-------------EYLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPH 105 (168)
T ss_pred EEEEECC-eEEEEEEEECCccH-------------HHHHHHHHHhccCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccc
Confidence 3455544 34589999999952 223566778888887777654332210 0 1122223332 332
Q ss_pred ---CCCeEEEEeccchh
Q psy8958 137 ---QGKRTIFVLTKVSQ 150 (294)
Q Consensus 137 ---~G~RTIGVlTK~D~ 150 (294)
.+..-|.|.||.|+
T Consensus 106 ~~~~~~piilv~nK~Dl 122 (168)
T cd04119 106 GNMENIVVVVCANKIDL 122 (168)
T ss_pred ccCCCceEEEEEEchhc
Confidence 46789999999995
No 109
>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=87.60 E-value=1.3 Score=35.94 Aligned_cols=67 Identities=13% Similarity=0.087 Sum_probs=42.1
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC-cchhcH-H-HHhhhhcCCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV-DAERSN-V-TDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~-D~ans~-a-l~lar~~DP~G~RTIGVlTK 147 (294)
..+.++|+||.- ..+.|...|++..+++++++...+. .+.+.. . ..+.+..+..+...|.|.||
T Consensus 49 ~~~~i~Dt~G~~-------------~~~~l~~~~~~~~~~~i~v~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK 115 (162)
T cd04138 49 CLLDILDTAGQE-------------EYSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNK 115 (162)
T ss_pred EEEEEEECCCCc-------------chHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEC
Confidence 457889999932 2356778899988887777654332 122211 1 22333334556778999999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 116 ~Dl 118 (162)
T cd04138 116 CDL 118 (162)
T ss_pred ccc
Confidence 995
No 110
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=87.47 E-value=1.1 Score=45.27 Aligned_cols=68 Identities=13% Similarity=0.316 Sum_probs=44.5
Q ss_pred CceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchh
Q psy8958 72 RMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 72 ~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~ 150 (294)
++.|||+||..+. .++..+.++.+.. .+ .|..++| |++|+. .+++...|+.+...-.-+=.|+||.|-
T Consensus 177 DvVIIDTAGr~~~-----d~~lm~El~~l~~-~~-~pdevlL-Vvda~~---gq~av~~a~~F~~~l~i~gvIlTKlD~ 244 (437)
T PRK00771 177 DVIIVDTAGRHAL-----EEDLIEEMKEIKE-AV-KPDEVLL-VIDATI---GQQAKNQAKAFHEAVGIGGIIITKLDG 244 (437)
T ss_pred CEEEEECCCcccc-----hHHHHHHHHHHHH-Hh-cccceeE-EEeccc---cHHHHHHHHHHHhcCCCCEEEEecccC
Confidence 8999999997643 2344455555433 22 4554544 555654 378888888887654556679999994
No 111
>cd04159 Arl10_like Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.
Probab=87.45 E-value=1.7 Score=34.77 Aligned_cols=66 Identities=20% Similarity=0.209 Sum_probs=39.7
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcH----HHHhhhhcCCCCCeEEEEec
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSN----VTDLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~----al~lar~~DP~G~RTIGVlT 146 (294)
..+.++|+||.. ..+.+...|++..+.+++++ +++..-.-.. ..++.+.....+...+.|+|
T Consensus 44 ~~~~~~D~~g~~-------------~~~~~~~~~~~~~d~ii~v~-d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~n 109 (159)
T cd04159 44 VTLKVWDLGGQP-------------RFRSMWERYCRGVNAIVYVV-DAADRTALEAAKNELHDLLEKPSLEGIPLLVLGN 109 (159)
T ss_pred EEEEEEECCCCH-------------hHHHHHHHHHhcCCEEEEEE-ECCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEe
Confidence 579999999942 24467778888888766654 4443111111 11222222223567899999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|.|+
T Consensus 110 K~D~ 113 (159)
T cd04159 110 KNDL 113 (159)
T ss_pred Cccc
Confidence 9984
No 112
>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=87.41 E-value=1.9 Score=37.14 Aligned_cols=67 Identities=15% Similarity=0.198 Sum_probs=42.2
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc--HHHHhhhhcCCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS--NVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans--~al~lar~~DP~G~RTIGVlTK 147 (294)
..+.++|+||... .+.+...|+.+-+.+|++|-..+.+ ++.. ...++.+...-.+...|.|+||
T Consensus 61 ~~~~~~D~~G~~~-------------~~~~~~~~~~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK 127 (184)
T smart00178 61 IKFTTFDLGGHQQ-------------ARRLWKDYFPEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVPFLILGNK 127 (184)
T ss_pred EEEEEEECCCCHH-------------HHHHHHHHhCCCCEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeC
Confidence 5789999999632 2456678999988887776544322 2111 1122333222246789999999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 128 ~Dl 130 (184)
T smart00178 128 IDA 130 (184)
T ss_pred ccc
Confidence 995
No 113
>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=87.32 E-value=1.3 Score=46.19 Aligned_cols=63 Identities=11% Similarity=0.239 Sum_probs=41.6
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc--chhcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD--AERSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D--~ans~al~lar~~DP~G~RTIGVlTK~ 148 (294)
-.++|+|+||.-. ...|..++......+||+| +++.. ..+.++++.++. .+.-.|.++||+
T Consensus 135 ~~i~~iDTPGhe~-------------F~~~r~rga~~aDiaILVV-da~dgv~~qT~e~i~~~~~---~~vPiIVviNKi 197 (587)
T TIGR00487 135 KMITFLDTPGHEA-------------FTSMRARGAKVTDIVVLVV-AADDGVMPQTIEAISHAKA---ANVPIIVAINKI 197 (587)
T ss_pred cEEEEEECCCCcc-------------hhhHHHhhhccCCEEEEEE-ECCCCCCHhHHHHHHHHHH---cCCCEEEEEECc
Confidence 3799999999432 2245567777777777766 55532 233444555544 456799999999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|+
T Consensus 198 Dl 199 (587)
T TIGR00487 198 DK 199 (587)
T ss_pred cc
Confidence 96
No 114
>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=87.23 E-value=2 Score=38.83 Aligned_cols=67 Identities=19% Similarity=0.246 Sum_probs=40.0
Q ss_pred EeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhc--HHHHhhhhcCCCCCeEE
Q psy8958 65 VKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERS--NVTDLVSQMDPQGKRTI 142 (294)
Q Consensus 65 I~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans--~al~lar~~DP~G~RTI 142 (294)
+..+.--.++++|.||.. ...+.. ++.- -++|.|++++..+..+ .++.+++... ..+.|
T Consensus 77 i~~~~~~~i~~vDtPg~~-----------~~~l~~-----ak~a-DvVllviDa~~~~~~~~~~i~~~l~~~g--~p~vi 137 (225)
T cd01882 77 VVTGKKRRLTFIECPNDI-----------NAMIDI-----AKVA-DLVLLLIDASFGFEMETFEFLNILQVHG--FPRVM 137 (225)
T ss_pred EEecCCceEEEEeCCchH-----------HHHHHH-----HHhc-CEEEEEEecCcCCCHHHHHHHHHHHHcC--CCeEE
Confidence 344567789999999843 111111 2223 3667778877655433 3445555432 34678
Q ss_pred EEeccchh
Q psy8958 143 FVLTKVSQ 150 (294)
Q Consensus 143 GVlTK~D~ 150 (294)
+|+||.|+
T Consensus 138 ~VvnK~D~ 145 (225)
T cd01882 138 GVLTHLDL 145 (225)
T ss_pred EEEecccc
Confidence 89999995
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=87.22 E-value=2.1 Score=35.16 Aligned_cols=75 Identities=13% Similarity=0.112 Sum_probs=44.9
Q ss_pred EEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch-h-cHHHHhhhhcCCCCC
Q psy8958 62 SMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE-R-SNVTDLVSQMDPQGK 139 (294)
Q Consensus 62 ~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a-n-s~al~lar~~DP~G~ 139 (294)
.+.+.+ ....|.|+|+||. +....+...|+++...+|+++-..+.+-. + ...+...+.+-..+.
T Consensus 41 ~~~~~~-~~~~l~l~D~~G~-------------~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~ 106 (161)
T cd04113 41 IIRVGG-KRVKLQIWDTAGQ-------------ERFRSVTRSYYRGAAGALLVYDITNRTSFEALPTWLSDARALASPNI 106 (161)
T ss_pred EEEECC-EEEEEEEEECcch-------------HHHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCC
Confidence 344443 3467899999994 22345777888888877776655442111 1 122233333333346
Q ss_pred eEEEEeccchh
Q psy8958 140 RTIFVLTKVSQ 150 (294)
Q Consensus 140 RTIGVlTK~D~ 150 (294)
-.+.|.||.|+
T Consensus 107 ~iivv~nK~D~ 117 (161)
T cd04113 107 VVILVGNKSDL 117 (161)
T ss_pred eEEEEEEchhc
Confidence 68889999995
No 116
>PRK13768 GTPase; Provisional
Probab=87.14 E-value=0.9 Score=42.04 Aligned_cols=74 Identities=23% Similarity=0.278 Sum_probs=42.5
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC-----cchhcHHHHhhhhcCCCCCeEEEEe
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV-----DAERSNVTDLVSQMDPQGKRTIFVL 145 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~-----D~ans~al~lar~~DP~G~RTIGVl 145 (294)
.+..++|+||....... ....+.+++.+......+|+.|+++.. |+.....+.+..+.. .+...|-|+
T Consensus 97 ~~~~~~d~~g~~~~~~~------~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~-~~~~~i~v~ 169 (253)
T PRK13768 97 ADYVLVDTPGQMELFAF------RESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLR-LGLPQIPVL 169 (253)
T ss_pred CCEEEEeCCcHHHHHhh------hHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHHH-cCCCEEEEE
Confidence 48999999998764432 112222332222222668888888842 233333333333332 368899999
Q ss_pred ccchhh
Q psy8958 146 TKVSQQ 151 (294)
Q Consensus 146 TK~D~~ 151 (294)
||.|+.
T Consensus 170 nK~D~~ 175 (253)
T PRK13768 170 NKADLL 175 (253)
T ss_pred EhHhhc
Confidence 999963
No 117
>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=87.14 E-value=1.4 Score=47.18 Aligned_cols=80 Identities=16% Similarity=0.304 Sum_probs=52.6
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCC--CCceEEEeccCC---CcchhcHHHHhhhh-cCCC-CCeEE
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSN--PNAIILCIQDGS---VDAERSNVTDLVSQ-MDPQ-GKRTI 142 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~--p~sIILaV~~a~---~D~ans~al~lar~-~DP~-G~RTI 142 (294)
-..+.+||+||+...... +...+.+.+.+..||+. ++ ++|.|.... .|.....+++..++ +.+. ..+||
T Consensus 165 G~~L~VIDTPGL~dt~~d---q~~neeILk~Ik~~Lsk~gpD-VVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tI 240 (763)
T TIGR00993 165 GVKIRVIDTPGLKSSASD---QSKNEKILSSVKKFIKKNPPD-IVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAI 240 (763)
T ss_pred CceEEEEECCCCCccccc---hHHHHHHHHHHHHHHhcCCCC-EEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEE
Confidence 357999999999986432 23455666777778774 54 677776643 34455556665543 3322 57999
Q ss_pred EEeccchhhhh
Q psy8958 143 FVLTKVSQQLI 153 (294)
Q Consensus 143 GVlTK~D~~~~ 153 (294)
-|+|..|....
T Consensus 241 VVFThgD~lpp 251 (763)
T TIGR00993 241 VTLTHAASAPP 251 (763)
T ss_pred EEEeCCccCCC
Confidence 99999997643
No 118
>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=87.00 E-value=1.2 Score=47.16 Aligned_cols=79 Identities=13% Similarity=0.174 Sum_probs=46.7
Q ss_pred cccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhc--HHHHhhh
Q psy8958 55 TVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERS--NVTDLVS 132 (294)
Q Consensus 55 ~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans--~al~lar 132 (294)
+++-+.....+.-.+ ..++|+|+||..... ..+..+++.-+.+|| |++|......+ .++++++
T Consensus 60 giti~~~~~~~~~~~-~~i~liDTPG~~~~~-------------~~~~~~l~~~D~~il-Vvda~~g~~~~~~~~~~~~~ 124 (689)
T TIGR00484 60 GITITSAATTVFWKG-HRINIIDTPGHVDFT-------------VEVERSLRVLDGAVA-VLDAVGGVQPQSETVWRQAN 124 (689)
T ss_pred CCCEecceEEEEECC-eEEEEEECCCCcchh-------------HHHHHHHHHhCEEEE-EEeCCCCCChhHHHHHHHHH
Confidence 344444344444433 479999999985411 124566666665554 55666544332 3444444
Q ss_pred hcCCCCCeEEEEeccchhh
Q psy8958 133 QMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 133 ~~DP~G~RTIGVlTK~D~~ 151 (294)
..+...|.|++|+|+.
T Consensus 125 ---~~~~p~ivviNK~D~~ 140 (689)
T TIGR00484 125 ---RYEVPRIAFVNKMDKT 140 (689)
T ss_pred ---HcCCCEEEEEECCCCC
Confidence 4467889999999964
No 119
>PRK12735 elongation factor Tu; Reviewed
Probab=86.91 E-value=1.5 Score=43.20 Aligned_cols=80 Identities=14% Similarity=0.174 Sum_probs=44.8
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhc--HHHHhh
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERS--NVTDLV 131 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans--~al~la 131 (294)
.+++-+...+.... +-..++|+|+||.. +.+.+|+.. +...+. +|.|++|...+..| +.+.++
T Consensus 59 rGiT~~~~~~~~~~-~~~~i~~iDtPGh~------------~f~~~~~~~-~~~aD~-~llVvda~~g~~~qt~e~l~~~ 123 (396)
T PRK12735 59 RGITINTSHVEYET-ANRHYAHVDCPGHA------------DYVKNMITG-AAQMDG-AILVVSAADGPMPQTREHILLA 123 (396)
T ss_pred cCceEEEeeeEEcC-CCcEEEEEECCCHH------------HHHHHHHhh-hccCCE-EEEEEECCCCCchhHHHHHHHH
Confidence 34444444444332 33468999999952 334455433 334554 45566666545444 344454
Q ss_pred hhcCCCCCeEE-EEeccchhh
Q psy8958 132 SQMDPQGKRTI-FVLTKVSQQ 151 (294)
Q Consensus 132 r~~DP~G~RTI-GVlTK~D~~ 151 (294)
+ ..|...| .|+||+|+.
T Consensus 124 ~---~~gi~~iivvvNK~Dl~ 141 (396)
T PRK12735 124 R---QVGVPYIVVFLNKCDMV 141 (396)
T ss_pred H---HcCCCeEEEEEEecCCc
Confidence 4 4456655 579999964
No 120
>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=86.85 E-value=1.4 Score=36.10 Aligned_cols=68 Identities=19% Similarity=0.170 Sum_probs=41.1
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc-HHHHhhhhcCCCCCeEEEEecc
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS-NVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans-~al~lar~~DP~G~RTIGVlTK 147 (294)
...+.|+|+||. +....+...|++..+.++++....+.+ +.+. ..++..+...+ +.-.|.|.||
T Consensus 50 ~~~~~i~D~~G~-------------~~~~~~~~~~~~~~~~~v~v~d~~~~~s~~~l~~~~~~~~~~~~-~~p~iiv~nK 115 (162)
T cd04106 50 DVRLMLWDTAGQ-------------EEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAECG-DIPMVLVQTK 115 (162)
T ss_pred EEEEEEeeCCch-------------HHHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC-CCCEEEEEEC
Confidence 357999999992 234567788998888777666443322 1111 11222222222 4678999999
Q ss_pred chhh
Q psy8958 148 VSQQ 151 (294)
Q Consensus 148 ~D~~ 151 (294)
.|+.
T Consensus 116 ~Dl~ 119 (162)
T cd04106 116 IDLL 119 (162)
T ss_pred hhcc
Confidence 9963
No 121
>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=86.79 E-value=1.9 Score=45.01 Aligned_cols=75 Identities=16% Similarity=0.276 Sum_probs=48.1
Q ss_pred ccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch--hcHHHHhhhh
Q psy8958 56 VSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE--RSNVTDLVSQ 133 (294)
Q Consensus 56 ~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a--ns~al~lar~ 133 (294)
+......++-. -..++|||+||... ....+..|++..+.+||+| +|..... +..+++.+++
T Consensus 52 I~~~~~~v~~~---~~kinlIDTPGh~D-------------F~~ev~~~l~~aD~alLVV-Da~~G~~~qT~~~l~~a~~ 114 (594)
T TIGR01394 52 ILAKNTAIRYN---GTKINIVDTPGHAD-------------FGGEVERVLGMVDGVLLLV-DASEGPMPQTRFVLKKALE 114 (594)
T ss_pred EEeeeEEEEEC---CEEEEEEECCCHHH-------------HHHHHHHHHHhCCEEEEEE-eCCCCCcHHHHHHHHHHHH
Confidence 33344444433 25799999999521 2245677888888777655 5554433 3455666666
Q ss_pred cCCCCCeEEEEeccchh
Q psy8958 134 MDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 134 ~DP~G~RTIGVlTK~D~ 150 (294)
. |...|.|+||.|+
T Consensus 115 ~---~ip~IVviNKiD~ 128 (594)
T TIGR01394 115 L---GLKPIVVINKIDR 128 (594)
T ss_pred C---CCCEEEEEECCCC
Confidence 4 5678999999995
No 122
>COG1084 Predicted GTPase [General function prediction only]
Probab=86.75 E-value=2.3 Score=41.66 Aligned_cols=90 Identities=17% Similarity=0.266 Sum_probs=62.4
Q ss_pred cccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC----cchhcHHHHh
Q psy8958 55 TVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV----DAERSNVTDL 130 (294)
Q Consensus 55 ~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~----D~ans~al~l 130 (294)
.|+..-|.|=-..-+.....+||+|||-.-|. +-...|+...--=+++=..+||.+++++- .++.|..|
T Consensus 199 PFTTK~i~vGhfe~~~~R~QvIDTPGlLDRPl-----~ErN~IE~qAi~AL~hl~~~IlF~~D~Se~cgy~lE~Q~~L-- 271 (346)
T COG1084 199 PFTTKGIHVGHFERGYLRIQVIDTPGLLDRPL-----EERNEIERQAILALRHLAGVILFLFDPSETCGYSLEEQISL-- 271 (346)
T ss_pred CccccceeEeeeecCCceEEEecCCcccCCCh-----HHhcHHHHHHHHHHHHhcCeEEEEEcCccccCCCHHHHHHH--
Confidence 36666677777777778899999999996554 44566666555556666779999988774 45555543
Q ss_pred hhhcCCCC-CeEEEEeccchhh
Q psy8958 131 VSQMDPQG-KRTIFVLTKVSQQ 151 (294)
Q Consensus 131 ar~~DP~G-~RTIGVlTK~D~~ 151 (294)
-+++-+.. ..++-|+||.|..
T Consensus 272 ~~eIk~~f~~p~v~V~nK~D~~ 293 (346)
T COG1084 272 LEEIKELFKAPIVVVINKIDIA 293 (346)
T ss_pred HHHHHHhcCCCeEEEEeccccc
Confidence 33333333 4799999999953
No 123
>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=86.74 E-value=1.2 Score=41.65 Aligned_cols=75 Identities=17% Similarity=0.310 Sum_probs=45.0
Q ss_pred ccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch--hcHHHHhhhh
Q psy8958 56 VSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE--RSNVTDLVSQ 133 (294)
Q Consensus 56 ~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a--ns~al~lar~ 133 (294)
++.....++..+ ..+.|+|+||.... ...+..+++...++|+++ ++...+. ...++++++.
T Consensus 59 i~~~~~~~~~~~---~~i~liDTPG~~df-------------~~~~~~~l~~aD~~IlVv-da~~g~~~~~~~i~~~~~~ 121 (267)
T cd04169 59 VTSSVMQFEYRD---CVINLLDTPGHEDF-------------SEDTYRTLTAVDSAVMVI-DAAKGVEPQTRKLFEVCRL 121 (267)
T ss_pred eEEEEEEEeeCC---EEEEEEECCCchHH-------------HHHHHHHHHHCCEEEEEE-ECCCCccHHHHHHHHHHHh
Confidence 334444444432 56899999996421 123455667778776654 5544333 2344444443
Q ss_pred cCCCCCeEEEEeccchh
Q psy8958 134 MDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 134 ~DP~G~RTIGVlTK~D~ 150 (294)
.+...|.|++|.|+
T Consensus 122 ---~~~P~iivvNK~D~ 135 (267)
T cd04169 122 ---RGIPIITFINKLDR 135 (267)
T ss_pred ---cCCCEEEEEECCcc
Confidence 46678999999995
No 124
>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=86.41 E-value=2.7 Score=41.59 Aligned_cols=81 Identities=12% Similarity=0.191 Sum_probs=50.1
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhc--HHHHhh
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERS--NVTDLV 131 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans--~al~la 131 (294)
.++|-+.-...+..++. .++|+|+||.. +.+.+|... +...+. +|.|++|+..+..| +.+.++
T Consensus 64 rgiTid~~~~~~~~~~~-~~~liDtPGh~------------~f~~~~~~~-~~~aD~-allVVda~~G~~~qt~~~~~~~ 128 (406)
T TIGR02034 64 QGITIDVAYRYFSTDKR-KFIVADTPGHE------------QYTRNMATG-ASTADL-AVLLVDARKGVLEQTRRHSYIA 128 (406)
T ss_pred CCcCeEeeeEEEccCCe-EEEEEeCCCHH------------HHHHHHHHH-HhhCCE-EEEEEECCCCCccccHHHHHHH
Confidence 45666666666655444 79999999932 234444433 345554 45566777655443 446677
Q ss_pred hhcCCCCCeEEEEeccchhh
Q psy8958 132 SQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 132 r~~DP~G~RTIGVlTK~D~~ 151 (294)
+... ..+-|-|+||.|+.
T Consensus 129 ~~~~--~~~iivviNK~D~~ 146 (406)
T TIGR02034 129 SLLG--IRHVVLAVNKMDLV 146 (406)
T ss_pred HHcC--CCcEEEEEEecccc
Confidence 6664 23567799999963
No 125
>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=86.36 E-value=2.5 Score=34.65 Aligned_cols=67 Identities=13% Similarity=0.101 Sum_probs=40.5
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh-cHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER-SNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an-s~al~lar~~DP~G~RTIGVlTK~ 148 (294)
-.+.|+|+||- +....+...|++..+++|+++-+.+.+ +.. ...+...+.....+.--|.|+||.
T Consensus 50 ~~~~i~D~~G~-------------~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~ 116 (163)
T cd01860 50 VKFEIWDTAGQ-------------ERYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQRNASPNIIIALVGNKA 116 (163)
T ss_pred EEEEEEeCCch-------------HHHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECc
Confidence 45889999992 223455667888888888877554432 221 122233333333345568889999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|+
T Consensus 117 D~ 118 (163)
T cd01860 117 DL 118 (163)
T ss_pred cc
Confidence 85
No 126
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=86.36 E-value=2 Score=45.46 Aligned_cols=86 Identities=23% Similarity=0.341 Sum_probs=52.7
Q ss_pred CccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCC-ceEEEeccCCCcchhcHHHHhh
Q psy8958 53 GKTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPN-AIILCIQDGSVDAERSNVTDLV 131 (294)
Q Consensus 53 ~~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~-sIILaV~~a~~D~ans~al~la 131 (294)
|.++-...=.++..|-. .++|||||+..-.... .++ ..+++|+.+.+ .+|+.|++|.+ ++. .+.+.
T Consensus 35 GvTVEkkeg~~~~~~~~---i~ivDLPG~YSL~~~S---~DE----~Var~~ll~~~~D~ivnVvDAtn-LeR--nLylt 101 (653)
T COG0370 35 GVTVEKKEGKLKYKGHE---IEIVDLPGTYSLTAYS---EDE----KVARDFLLEGKPDLIVNVVDATN-LER--NLYLT 101 (653)
T ss_pred CeeEEEEEEEEEecCce---EEEEeCCCcCCCCCCC---chH----HHHHHHHhcCCCCEEEEEcccch-HHH--HHHHH
Confidence 34444455555555543 8999999998866542 223 34455655433 57888888774 332 33333
Q ss_pred hhcCCCCCeEEEEeccchhh
Q psy8958 132 SQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 132 r~~DP~G~RTIGVlTK~D~~ 151 (294)
-+.=--|.=+|.++++.|..
T Consensus 102 lQLlE~g~p~ilaLNm~D~A 121 (653)
T COG0370 102 LQLLELGIPMILALNMIDEA 121 (653)
T ss_pred HHHHHcCCCeEEEeccHhhH
Confidence 33333456699999999965
No 127
>PRK05433 GTP-binding protein LepA; Provisional
Probab=86.25 E-value=2.4 Score=44.34 Aligned_cols=79 Identities=19% Similarity=0.258 Sum_probs=48.5
Q ss_pred cccccceEEEEeCCC--CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcH--HHHh
Q psy8958 55 TVSNEVISMSVKGPG--LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSN--VTDL 130 (294)
Q Consensus 55 ~~S~~~I~leI~gP~--~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~--al~l 130 (294)
++....+.+....++ ...++|+|+||.... ...+.+|++.-..+|| |++++..+..+. .+.+
T Consensus 56 Ti~~~~v~~~~~~~dg~~~~lnLiDTPGh~dF-------------~~~v~~sl~~aD~aIL-VVDas~gv~~qt~~~~~~ 121 (600)
T PRK05433 56 TIKAQAVRLNYKAKDGETYILNLIDTPGHVDF-------------SYEVSRSLAACEGALL-VVDASQGVEAQTLANVYL 121 (600)
T ss_pred cccccEEEEEEEccCCCcEEEEEEECCCcHHH-------------HHHHHHHHHHCCEEEE-EEECCCCCCHHHHHHHHH
Confidence 344455665554222 356899999997531 2346677777776655 556655444333 3444
Q ss_pred hhhcCCCCCeEEEEeccchh
Q psy8958 131 VSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 131 ar~~DP~G~RTIGVlTK~D~ 150 (294)
+.. .+...|.|+||.|+
T Consensus 122 ~~~---~~lpiIvViNKiDl 138 (600)
T PRK05433 122 ALE---NDLEIIPVLNKIDL 138 (600)
T ss_pred HHH---CCCCEEEEEECCCC
Confidence 443 35678999999995
No 128
>PRK14845 translation initiation factor IF-2; Provisional
Probab=86.16 E-value=1.3 Score=49.27 Aligned_cols=66 Identities=11% Similarity=0.158 Sum_probs=42.4
Q ss_pred CCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch--hcHHHHhhhhcCCCCCeEEEEec
Q psy8958 69 GLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE--RSNVTDLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 69 ~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a--ns~al~lar~~DP~G~RTIGVlT 146 (294)
..|.++|+|+||.- ....|...+....+.+ +.|++++..+. +.+++++++.. +...|.|+|
T Consensus 524 ~~p~i~fiDTPGhe-------------~F~~lr~~g~~~aDiv-lLVVDa~~Gi~~qT~e~I~~lk~~---~iPiIVViN 586 (1049)
T PRK14845 524 KIPGLLFIDTPGHE-------------AFTSLRKRGGSLADLA-VLVVDINEGFKPQTIEAINILRQY---KTPFVVAAN 586 (1049)
T ss_pred CcCcEEEEECCCcH-------------HHHHHHHhhcccCCEE-EEEEECcccCCHhHHHHHHHHHHc---CCCEEEEEE
Confidence 45789999999921 1234445566666655 45556664433 33455666665 457999999
Q ss_pred cchhh
Q psy8958 147 KVSQQ 151 (294)
Q Consensus 147 K~D~~ 151 (294)
|+|+.
T Consensus 587 KiDL~ 591 (1049)
T PRK14845 587 KIDLI 591 (1049)
T ss_pred CCCCc
Confidence 99964
No 129
>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=86.09 E-value=2.4 Score=35.05 Aligned_cols=67 Identities=21% Similarity=0.180 Sum_probs=41.9
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-ch-hcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AE-RSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~a-ns~al~lar~~DP~G~RTIGVlTK~ 148 (294)
..+.++|+||.. ....+...|++..+++|+++-..+.+ +. -...+...+.....+...|-|.||.
T Consensus 56 ~~~~~~D~~g~~-------------~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~ 122 (169)
T cd04114 56 IKLQIWDTAGQE-------------RFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKI 122 (169)
T ss_pred EEEEEEECCCcH-------------HHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECc
Confidence 468899999932 13345567888888777766543221 10 1123333455555567789999999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|+
T Consensus 123 D~ 124 (169)
T cd04114 123 DL 124 (169)
T ss_pred cc
Confidence 95
No 130
>PRK10867 signal recognition particle protein; Provisional
Probab=86.04 E-value=1.9 Score=43.41 Aligned_cols=70 Identities=20% Similarity=0.288 Sum_probs=45.8
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D 149 (294)
-.++.|||+||..+. .+.....+..+.. .+ .|.-+ +.|++|. ..+++.+.|+.+...-.-|=.|+||+|
T Consensus 183 ~~DvVIIDTaGrl~~-----d~~lm~eL~~i~~-~v-~p~ev-llVlda~---~gq~av~~a~~F~~~~~i~giIlTKlD 251 (433)
T PRK10867 183 GYDVVIVDTAGRLHI-----DEELMDELKAIKA-AV-NPDEI-LLVVDAM---TGQDAVNTAKAFNEALGLTGVILTKLD 251 (433)
T ss_pred CCCEEEEeCCCCccc-----CHHHHHHHHHHHH-hh-CCCeE-EEEEecc---cHHHHHHHHHHHHhhCCCCEEEEeCcc
Confidence 478999999997642 2333444444332 33 45555 5566654 358888888888765556778999999
Q ss_pred h
Q psy8958 150 Q 150 (294)
Q Consensus 150 ~ 150 (294)
-
T Consensus 252 ~ 252 (433)
T PRK10867 252 G 252 (433)
T ss_pred C
Confidence 4
No 131
>PRK00049 elongation factor Tu; Reviewed
Probab=85.98 E-value=2.8 Score=41.28 Aligned_cols=80 Identities=18% Similarity=0.230 Sum_probs=46.6
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch--hcHHHHhh
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE--RSNVTDLV 131 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a--ns~al~la 131 (294)
.+++-+...+.... +-..++|||+||.. +.+.++... +...+.++| |++|...+. +.+.+.++
T Consensus 59 rg~Ti~~~~~~~~~-~~~~i~~iDtPG~~------------~f~~~~~~~-~~~aD~~ll-VVDa~~g~~~qt~~~~~~~ 123 (396)
T PRK00049 59 RGITINTAHVEYET-EKRHYAHVDCPGHA------------DYVKNMITG-AAQMDGAIL-VVSAADGPMPQTREHILLA 123 (396)
T ss_pred cCeEEeeeEEEEcC-CCeEEEEEECCCHH------------HHHHHHHhh-hccCCEEEE-EEECCCCCchHHHHHHHHH
Confidence 34555554444432 33468999999963 344455433 455665544 666665433 33456666
Q ss_pred hhcCCCCCeEE-EEeccchhh
Q psy8958 132 SQMDPQGKRTI-FVLTKVSQQ 151 (294)
Q Consensus 132 r~~DP~G~RTI-GVlTK~D~~ 151 (294)
+.. |...| .|+||.|+.
T Consensus 124 ~~~---g~p~iiVvvNK~D~~ 141 (396)
T PRK00049 124 RQV---GVPYIVVFLNKCDMV 141 (396)
T ss_pred HHc---CCCEEEEEEeecCCc
Confidence 665 45554 689999963
No 132
>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=85.88 E-value=2.7 Score=35.03 Aligned_cols=67 Identities=13% Similarity=0.127 Sum_probs=43.4
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcc--hhcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDA--ERSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~--ans~al~lar~~DP~G~RTIGVlTK~ 148 (294)
..+.|+|+||.. ....+...|+++.+++++++-..+.+- +-...++..++..+....-+.|.||+
T Consensus 50 ~~~~l~Dt~g~~-------------~~~~~~~~~~~~~~~~l~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~ 116 (165)
T cd01865 50 VKLQIWDTAGQE-------------RYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKC 116 (165)
T ss_pred EEEEEEECCChH-------------HHHHHHHHHccCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECc
Confidence 578999999932 234567888888887777655433210 11223344555555567789999999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|+
T Consensus 117 Dl 118 (165)
T cd01865 117 DM 118 (165)
T ss_pred cc
Confidence 95
No 133
>PRK12739 elongation factor G; Reviewed
Probab=85.78 E-value=1.2 Score=47.19 Aligned_cols=81 Identities=15% Similarity=0.179 Sum_probs=47.2
Q ss_pred cccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhc
Q psy8958 55 TVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQM 134 (294)
Q Consensus 55 ~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~ 134 (294)
++|-+.-.+.+.- +-..++|||+||... .. ..+..++..-+. ++.|++|...+..++ ..+.+.+
T Consensus 58 giti~~~~~~~~~-~~~~i~liDTPG~~~--------f~-----~e~~~al~~~D~-~ilVvDa~~g~~~qt-~~i~~~~ 121 (691)
T PRK12739 58 GITITSAATTCFW-KGHRINIIDTPGHVD--------FT-----IEVERSLRVLDG-AVAVFDAVSGVEPQS-ETVWRQA 121 (691)
T ss_pred CCCccceeEEEEE-CCEEEEEEcCCCHHH--------HH-----HHHHHHHHHhCe-EEEEEeCCCCCCHHH-HHHHHHH
Confidence 3444433333333 234689999999743 11 125555555564 555666765554432 2344444
Q ss_pred CCCCCeEEEEeccchhh
Q psy8958 135 DPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 135 DP~G~RTIGVlTK~D~~ 151 (294)
...|...|.+++|.|+.
T Consensus 122 ~~~~~p~iv~iNK~D~~ 138 (691)
T PRK12739 122 DKYGVPRIVFVNKMDRI 138 (691)
T ss_pred HHcCCCEEEEEECCCCC
Confidence 44577889999999964
No 134
>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=85.73 E-value=1.9 Score=45.07 Aligned_cols=64 Identities=13% Similarity=0.215 Sum_probs=42.3
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc--chhcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD--AERSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D--~ans~al~lar~~DP~G~RTIGVlTK~ 148 (294)
+.++|+|+||.- ....|...|....+.+|| |++++.. ..+.+++++++.. +...|-|+||+
T Consensus 69 ~~l~~iDTpG~e-------------~f~~l~~~~~~~aD~~Il-VvD~~~g~~~qt~e~i~~l~~~---~vpiIVv~NK~ 131 (590)
T TIGR00491 69 PGLLFIDTPGHE-------------AFTNLRKRGGALADLAIL-IVDINEGFKPQTQEALNILRMY---KTPFVVAANKI 131 (590)
T ss_pred CcEEEEECCCcH-------------hHHHHHHHHHhhCCEEEE-EEECCcCCCHhHHHHHHHHHHc---CCCEEEEEECC
Confidence 569999999942 233566678887776665 5555543 2334455555543 56799999999
Q ss_pred hhh
Q psy8958 149 SQQ 151 (294)
Q Consensus 149 D~~ 151 (294)
|+.
T Consensus 132 Dl~ 134 (590)
T TIGR00491 132 DRI 134 (590)
T ss_pred Ccc
Confidence 964
No 135
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=85.61 E-value=2.1 Score=43.30 Aligned_cols=73 Identities=10% Similarity=0.147 Sum_probs=38.1
Q ss_pred CCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 69 GLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 69 ~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~ 148 (294)
+-.++.|||+||...... ...+.+.++....-.....-.+.|++|+... .++.+.++.+..-|- +=.|+||+
T Consensus 298 ~~~D~VLIDTaGr~~rd~-----~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~--~~~~~~~~~f~~~~~-~glIlTKL 369 (432)
T PRK12724 298 DGSELILIDTAGYSHRNL-----EQLERMQSFYSCFGEKDSVENLLVLSSTSSY--HHTLTVLKAYESLNY-RRILLTKL 369 (432)
T ss_pred CCCCEEEEeCCCCCccCH-----HHHHHHHHHHHhhcCCCCCeEEEEEeCCCCH--HHHHHHHHHhcCCCC-CEEEEEcc
Confidence 356899999999764322 2233334443222111222344566666432 334445555544332 33599999
Q ss_pred h
Q psy8958 149 S 149 (294)
Q Consensus 149 D 149 (294)
|
T Consensus 370 D 370 (432)
T PRK12724 370 D 370 (432)
T ss_pred c
Confidence 8
No 136
>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=85.58 E-value=1.9 Score=36.68 Aligned_cols=67 Identities=12% Similarity=0.215 Sum_probs=40.7
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-ch--hcHHHHhhhhcCCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AE--RSNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~a--ns~al~lar~~DP~G~RTIGVlTK 147 (294)
..+.++|+||.. ..+.+...|+...+.+|+++-..+.+ +. ......+.+..+-.+...|.|.||
T Consensus 63 ~~~~l~D~~G~~-------------~~~~~~~~~~~~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK 129 (190)
T cd00879 63 IKFKTFDLGGHE-------------QARRLWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLSDEELANVPFLILGNK 129 (190)
T ss_pred EEEEEEECCCCH-------------HHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeC
Confidence 468899999932 22456678888888777666544321 11 111122223333345788999999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 130 ~Dl 132 (190)
T cd00879 130 IDL 132 (190)
T ss_pred CCC
Confidence 995
No 137
>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=85.55 E-value=2.6 Score=35.89 Aligned_cols=74 Identities=14% Similarity=0.201 Sum_probs=45.8
Q ss_pred EEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc-HHHHhhhhc-CCCCC
Q psy8958 63 MSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS-NVTDLVSQM-DPQGK 139 (294)
Q Consensus 63 leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans-~al~lar~~-DP~G~ 139 (294)
+.+.|. -..|.|.|+||.. ..+.|...|+...+++|+++...+.+ +.+- ...+..++. ...+.
T Consensus 43 ~~~~~~-~~~l~i~Dt~G~~-------------~~~~l~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~ 108 (172)
T cd04141 43 ARIDNE-PALLDILDTAGQA-------------EFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRLTEDI 108 (172)
T ss_pred EEECCE-EEEEEEEeCCCch-------------hhHHHhHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcCCCCC
Confidence 444443 3468999999943 23567888999988888876654432 1111 112223332 33457
Q ss_pred eEEEEeccchh
Q psy8958 140 RTIFVLTKVSQ 150 (294)
Q Consensus 140 RTIGVlTK~D~ 150 (294)
..|.|.||.|+
T Consensus 109 piilvgNK~Dl 119 (172)
T cd04141 109 PLVLVGNKVDL 119 (172)
T ss_pred CEEEEEEChhh
Confidence 89999999995
No 138
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=85.45 E-value=2 Score=43.29 Aligned_cols=71 Identities=20% Similarity=0.296 Sum_probs=46.5
Q ss_pred CCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 69 GLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 69 ~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~ 148 (294)
.-.++.|||+||.... .+.....+..+.. +-+|.-++| |++|+ ..+++.+.|+.+...-.-|=.|+||+
T Consensus 181 ~~~DvVIIDTaGr~~~-----d~~l~~eL~~i~~--~~~p~e~lL-Vvda~---tgq~~~~~a~~f~~~v~i~giIlTKl 249 (428)
T TIGR00959 181 NGFDVVIVDTAGRLQI-----DEELMEELAAIKE--ILNPDEILL-VVDAM---TGQDAVNTAKTFNERLGLTGVVLTKL 249 (428)
T ss_pred cCCCEEEEeCCCcccc-----CHHHHHHHHHHHH--hhCCceEEE-EEecc---chHHHHHHHHHHHhhCCCCEEEEeCc
Confidence 3468999999997642 2344555555543 234665544 45554 35788888888875445677789999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|-
T Consensus 250 D~ 251 (428)
T TIGR00959 250 DG 251 (428)
T ss_pred cC
Confidence 94
No 139
>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=85.38 E-value=2.1 Score=36.14 Aligned_cols=68 Identities=13% Similarity=0.244 Sum_probs=42.3
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh-cHHHH-hhhhcCCCCCeEEEEec
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER-SNVTD-LVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an-s~al~-lar~~DP~G~RTIGVlT 146 (294)
...+.++|+||-. ..+.|...|+++.+.+|+++-..+.+ +.+ ...+. +.+.....+.--+.|.+
T Consensus 42 ~~~~~i~D~~G~~-------------~~~~~~~~~~~~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~N 108 (167)
T cd04161 42 KYEVCIFDLGGGA-------------NFRGIWVNYYAEAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKPILVLAN 108 (167)
T ss_pred CEEEEEEECCCcH-------------HHHHHHHHHHcCCCEEEEEEECCchhHHHHHHHHHHHHHcCccccCCcEEEEEe
Confidence 3678999999932 34567789999999877766443322 111 11122 22222334567899999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|.|+
T Consensus 109 K~Dl 112 (167)
T cd04161 109 KQDK 112 (167)
T ss_pred CCCC
Confidence 9985
No 140
>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=85.13 E-value=2.7 Score=34.15 Aligned_cols=68 Identities=9% Similarity=0.089 Sum_probs=42.0
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-c--hhcHHHHhhhhcCCCCCeEEEEec
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-A--ERSNVTDLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~--ans~al~lar~~DP~G~RTIGVlT 146 (294)
...+.++|+||... ...+...|++..+++|+++...+.+ + .......+.+..++....-|.|+|
T Consensus 47 ~~~~~i~D~~g~~~-------------~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~N 113 (164)
T cd04139 47 DVQLNILDTAGQED-------------YAAIRDNYHRSGEGFLLVFSITDMESFTATAEFREQILRVKDDDNVPLLLVGN 113 (164)
T ss_pred EEEEEEEECCChhh-------------hhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEE
Confidence 35689999999432 2356667888888887776543221 1 111222333333455678899999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|.|+
T Consensus 114 K~D~ 117 (164)
T cd04139 114 KCDL 117 (164)
T ss_pred cccc
Confidence 9995
No 141
>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=84.95 E-value=2.4 Score=35.35 Aligned_cols=67 Identities=16% Similarity=0.107 Sum_probs=43.0
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh-cHHHHhhhhcCCCCCeEEEEecc
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER-SNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an-s~al~lar~~DP~G~RTIGVlTK 147 (294)
...+.|.|+||-. ....+...|+++.+.+|+++-..+.+ +.+ ...+...++..+ ....|.|.||
T Consensus 48 ~~~~~i~Dt~G~~-------------~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~p~ivv~nK 113 (161)
T cd04124 48 TILVDFWDTAGQE-------------RFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREYRP-EIPCIVVANK 113 (161)
T ss_pred EEEEEEEeCCCch-------------hhhhhhHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEEC
Confidence 3578899999932 23467888999998777766443321 111 233444555544 3678999999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 114 ~Dl 116 (161)
T cd04124 114 IDL 116 (161)
T ss_pred ccC
Confidence 995
No 142
>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=84.72 E-value=2.8 Score=41.12 Aligned_cols=80 Identities=18% Similarity=0.228 Sum_probs=46.7
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch--hcHHHHhh
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE--RSNVTDLV 131 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a--ns~al~la 131 (294)
.+++-+...+..... -..++|+|+||.. +.+.+|+. -+...+.+|| |++|...+. +.+.+.++
T Consensus 59 rG~Ti~~~~~~~~~~-~~~~~liDtpGh~------------~f~~~~~~-~~~~~D~~il-Vvda~~g~~~qt~e~l~~~ 123 (394)
T TIGR00485 59 RGITINTAHVEYETE-NRHYAHVDCPGHA------------DYVKNMIT-GAAQMDGAIL-VVSATDGPMPQTREHILLA 123 (394)
T ss_pred cCcceeeEEEEEcCC-CEEEEEEECCchH------------HHHHHHHH-HHhhCCEEEE-EEECCCCCcHHHHHHHHHH
Confidence 456666666666543 3468999999953 12334433 2345565555 666664333 33445555
Q ss_pred hhcCCCCCeEE-EEeccchhh
Q psy8958 132 SQMDPQGKRTI-FVLTKVSQQ 151 (294)
Q Consensus 132 r~~DP~G~RTI-GVlTK~D~~ 151 (294)
+.. |...| .|+||.|+.
T Consensus 124 ~~~---gi~~iIvvvNK~Dl~ 141 (394)
T TIGR00485 124 RQV---GVPYIVVFLNKCDMV 141 (394)
T ss_pred HHc---CCCEEEEEEEecccC
Confidence 544 55555 689999964
No 143
>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=84.42 E-value=3.1 Score=34.32 Aligned_cols=67 Identities=10% Similarity=0.127 Sum_probs=40.1
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC-cchhcHHH--HhhhhcC---CCCCeEEEE
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV-DAERSNVT--DLVSQMD---PQGKRTIFV 144 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~-D~ans~al--~lar~~D---P~G~RTIGV 144 (294)
..|.++|+||.. ....+...|++..+++|+++-..+. .+.+...+ .+.+... +.+.-.+.|
T Consensus 49 ~~~~~~D~~g~~-------------~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv 115 (172)
T cd01862 49 VTLQIWDTAGQE-------------RFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVL 115 (172)
T ss_pred EEEEEEeCCChH-------------HHHhHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEE
Confidence 458899999942 1235667888888877777644322 11211111 1223333 446678999
Q ss_pred eccchh
Q psy8958 145 LTKVSQ 150 (294)
Q Consensus 145 lTK~D~ 150 (294)
+||.|+
T Consensus 116 ~nK~Dl 121 (172)
T cd01862 116 GNKIDL 121 (172)
T ss_pred EECccc
Confidence 999995
No 144
>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=84.15 E-value=1.6 Score=35.97 Aligned_cols=67 Identities=16% Similarity=0.148 Sum_probs=40.6
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh-cHHHH-hhhhcCCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER-SNVTD-LVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an-s~al~-lar~~DP~G~RTIGVlTK 147 (294)
..|.|.|+||.- ....|...|+.+...+|++.-..+.. +.+ ...+. +.+.....+...+.|.||
T Consensus 49 ~~l~i~Dt~G~~-------------~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK 115 (163)
T cd04176 49 SVLEILDTAGTE-------------QFASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNK 115 (163)
T ss_pred EEEEEEECCCcc-------------cccchHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEC
Confidence 368899999942 22346667888888877766443321 111 11112 222234456778999999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 116 ~Dl 118 (163)
T cd04176 116 VDL 118 (163)
T ss_pred ccc
Confidence 995
No 145
>cd04155 Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.
Probab=83.99 E-value=2.5 Score=35.12 Aligned_cols=67 Identities=16% Similarity=0.256 Sum_probs=39.6
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh-c-HHHHhhhhcCCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER-S-NVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an-s-~al~lar~~DP~G~RTIGVlTK 147 (294)
.++.++|+||.. ....++..|+++.+.+|+++-..+.. +.. . ....+.+.....+.-.+.|++|
T Consensus 58 ~~~~~~D~~G~~-------------~~~~~~~~~~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK 124 (173)
T cd04155 58 FKLNVWDIGGQR-------------AIRPYWRNYFENTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANK 124 (173)
T ss_pred EEEEEEECCCCH-------------HHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEEC
Confidence 568999999942 24466778888888776655433311 111 1 1112223323345678899999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 125 ~D~ 127 (173)
T cd04155 125 QDL 127 (173)
T ss_pred CCC
Confidence 995
No 146
>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=83.96 E-value=1.5 Score=40.31 Aligned_cols=64 Identities=14% Similarity=0.318 Sum_probs=38.8
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcc--hhcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDA--ERSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~--ans~al~lar~~DP~G~RTIGVlTK~ 148 (294)
..++|+|+||.... ...+..++..-+.+|+ |++++... .+...++.++ -.|...+.|+||.
T Consensus 64 ~~i~liDtPG~~~f-------------~~~~~~~l~~aD~~i~-Vvd~~~g~~~~~~~~~~~~~---~~~~p~iivvNK~ 126 (268)
T cd04170 64 HKINLIDTPGYADF-------------VGETRAALRAADAALV-VVSAQSGVEVGTEKLWEFAD---EAGIPRIIFINKM 126 (268)
T ss_pred EEEEEEECcCHHHH-------------HHHHHHHHHHCCEEEE-EEeCCCCCCHHHHHHHHHHH---HcCCCEEEEEECC
Confidence 46899999996421 1234455666665555 44555432 2334444444 3467788999999
Q ss_pred hhh
Q psy8958 149 SQQ 151 (294)
Q Consensus 149 D~~ 151 (294)
|+.
T Consensus 127 D~~ 129 (268)
T cd04170 127 DRE 129 (268)
T ss_pred ccC
Confidence 963
No 147
>PRK12736 elongation factor Tu; Reviewed
Probab=83.74 E-value=3.8 Score=40.28 Aligned_cols=80 Identities=15% Similarity=0.211 Sum_probs=46.8
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch--hcHHHHhh
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE--RSNVTDLV 131 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a--ns~al~la 131 (294)
.++|-+...+.... +-..++|||+||.. +.+.+|+... ...+.+ |.|++|...+. +.+.+.++
T Consensus 59 rg~T~~~~~~~~~~-~~~~i~~iDtPGh~------------~f~~~~~~~~-~~~d~~-llVvd~~~g~~~~t~~~~~~~ 123 (394)
T PRK12736 59 RGITINTAHVEYET-EKRHYAHVDCPGHA------------DYVKNMITGA-AQMDGA-ILVVAATDGPMPQTREHILLA 123 (394)
T ss_pred cCccEEEEeeEecC-CCcEEEEEECCCHH------------HHHHHHHHHH-hhCCEE-EEEEECCCCCchhHHHHHHHH
Confidence 34555555555443 34578999999942 3344444433 345544 45666765443 33455666
Q ss_pred hhcCCCCCe-EEEEeccchhh
Q psy8958 132 SQMDPQGKR-TIFVLTKVSQQ 151 (294)
Q Consensus 132 r~~DP~G~R-TIGVlTK~D~~ 151 (294)
+.. |.. -|-|+||.|+.
T Consensus 124 ~~~---g~~~~IvviNK~D~~ 141 (394)
T PRK12736 124 RQV---GVPYLVVFLNKVDLV 141 (394)
T ss_pred HHc---CCCEEEEEEEecCCc
Confidence 655 555 56889999963
No 148
>CHL00071 tufA elongation factor Tu
Probab=83.72 E-value=4 Score=40.34 Aligned_cols=80 Identities=15% Similarity=0.187 Sum_probs=46.3
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhc--HHHHhh
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERS--NVTDLV 131 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans--~al~la 131 (294)
.+++-+........ +-..++|||+||.- +.+..|+... ...+ +++.|++|...+..+ +.+.++
T Consensus 59 rg~T~~~~~~~~~~-~~~~~~~iDtPGh~------------~~~~~~~~~~-~~~D-~~ilVvda~~g~~~qt~~~~~~~ 123 (409)
T CHL00071 59 RGITINTAHVEYET-ENRHYAHVDCPGHA------------DYVKNMITGA-AQMD-GAILVVSAADGPMPQTKEHILLA 123 (409)
T ss_pred CCEeEEccEEEEcc-CCeEEEEEECCChH------------HHHHHHHHHH-HhCC-EEEEEEECCCCCcHHHHHHHHHH
Confidence 44554444444332 33568999999942 3455554443 3455 445566676555433 445555
Q ss_pred hhcCCCCCe-EEEEeccchhh
Q psy8958 132 SQMDPQGKR-TIFVLTKVSQQ 151 (294)
Q Consensus 132 r~~DP~G~R-TIGVlTK~D~~ 151 (294)
+.. |.. -|.|+||.|+.
T Consensus 124 ~~~---g~~~iIvvvNK~D~~ 141 (409)
T CHL00071 124 KQV---GVPNIVVFLNKEDQV 141 (409)
T ss_pred HHc---CCCEEEEEEEccCCC
Confidence 544 554 67899999964
No 149
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=83.55 E-value=2.8 Score=35.55 Aligned_cols=63 Identities=19% Similarity=0.317 Sum_probs=33.5
Q ss_pred EEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchh
Q psy8958 75 LVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 75 LVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~ 150 (294)
++|+||..... + ...+.|+ .+++..+.+|+ |++++....... ..+. ++.+ +.-.|+|++|.|+
T Consensus 41 ~iDtpG~~~~~----~----~~~~~~~-~~~~~ad~il~-v~d~~~~~s~~~-~~~~-~~~~-~~~ii~v~nK~Dl 103 (158)
T PRK15467 41 DIDTPGEYFSH----P----RWYHALI-TTLQDVDMLIY-VHGANDPESRLP-AGLL-DIGV-SKRQIAVISKTDM 103 (158)
T ss_pred cccCCccccCC----H----HHHHHHH-HHHhcCCEEEE-EEeCCCcccccC-HHHH-hccC-CCCeEEEEEcccc
Confidence 69999975322 1 2234443 34667776655 455543211111 1122 2222 4558999999995
No 150
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=83.48 E-value=2.9 Score=39.52 Aligned_cols=70 Identities=16% Similarity=0.223 Sum_probs=40.0
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D 149 (294)
-.++.|||+||-.+.. ....+...+++. ..+|.- ++.|++|+. ..+++.+.++.+.+-+- +=-|+||.|
T Consensus 154 ~~D~ViIDt~Gr~~~~-----~~~l~el~~~~~--~~~~~~-~~LVl~a~~--~~~d~~~~~~~f~~~~~-~~~I~TKlD 222 (270)
T PRK06731 154 RVDYILIDTAGKNYRA-----SETVEEMIETMG--QVEPDY-ICLTLSASM--KSKDMIEIITNFKDIHI-DGIVFTKFD 222 (270)
T ss_pred CCCEEEEECCCCCcCC-----HHHHHHHHHHHh--hhCCCe-EEEEEcCcc--CHHHHHHHHHHhCCCCC-CEEEEEeec
Confidence 3689999999975422 223333333333 224543 455555553 23556667777766433 345899998
Q ss_pred h
Q psy8958 150 Q 150 (294)
Q Consensus 150 ~ 150 (294)
-
T Consensus 223 e 223 (270)
T PRK06731 223 E 223 (270)
T ss_pred C
Confidence 4
No 151
>PRK04004 translation initiation factor IF-2; Validated
Probab=83.47 E-value=2.9 Score=43.62 Aligned_cols=64 Identities=11% Similarity=0.215 Sum_probs=41.0
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcc--hhcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDA--ERSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~--ans~al~lar~~DP~G~RTIGVlTK~ 148 (294)
|.++|+|+||.- ....|...++...+.+|| |++++..+ .+-+++++++. .+...|-|+||+
T Consensus 71 ~~i~~iDTPG~e-------------~f~~~~~~~~~~aD~~Il-VvDa~~g~~~qt~e~i~~~~~---~~vpiIvviNK~ 133 (586)
T PRK04004 71 PGLLFIDTPGHE-------------AFTNLRKRGGALADIAIL-VVDINEGFQPQTIEAINILKR---RKTPFVVAANKI 133 (586)
T ss_pred CCEEEEECCChH-------------HHHHHHHHhHhhCCEEEE-EEECCCCCCHhHHHHHHHHHH---cCCCEEEEEECc
Confidence 458999999953 123455567777775555 55565433 23344555554 456799999999
Q ss_pred hhh
Q psy8958 149 SQQ 151 (294)
Q Consensus 149 D~~ 151 (294)
|+.
T Consensus 134 D~~ 136 (586)
T PRK04004 134 DRI 136 (586)
T ss_pred CCc
Confidence 963
No 152
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=83.28 E-value=2.7 Score=42.48 Aligned_cols=69 Identities=19% Similarity=0.264 Sum_probs=41.7
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchh
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~ 150 (294)
.++.|||+||-... .......+..++.. ..|..++|+ ++|+ ...+++...++.+..-+ =+=.|+||.|-
T Consensus 321 ~DvVLIDTaGRs~k-----d~~lm~EL~~~lk~--~~PdevlLV-LsAT--tk~~d~~~i~~~F~~~~-idglI~TKLDE 389 (436)
T PRK11889 321 VDYILIDTAGKNYR-----ASETVEEMIETMGQ--VEPDYICLT-LSAS--MKSKDMIEIITNFKDIH-IDGIVFTKFDE 389 (436)
T ss_pred CCEEEEeCccccCc-----CHHHHHHHHHHHhh--cCCCeEEEE-ECCc--cChHHHHHHHHHhcCCC-CCEEEEEcccC
Confidence 58999999997542 23334444444443 235555555 5654 23456667777777643 34459999983
No 153
>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=83.27 E-value=3.3 Score=34.40 Aligned_cols=69 Identities=9% Similarity=0.106 Sum_probs=41.4
Q ss_pred CCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhcH-H----HHhhhhcCCCCCeEE
Q psy8958 69 GLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERSN-V----TDLVSQMDPQGKRTI 142 (294)
Q Consensus 69 ~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans~-a----l~lar~~DP~G~RTI 142 (294)
....|.|+|+||- +..+.|...|++..+++|++....+.+ +.+-. . ++.+....+.+--.|
T Consensus 52 ~~~~l~i~D~~G~-------------~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~pii 118 (170)
T cd04116 52 HFVTLQIWDTAGQ-------------ERFRSLRTPFYRGSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFV 118 (170)
T ss_pred eEEEEEEEeCCCh-------------HHHHHhHHHHhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEE
Confidence 3457889999992 234567888999888877665433322 22111 1 111212224556678
Q ss_pred EEeccchh
Q psy8958 143 FVLTKVSQ 150 (294)
Q Consensus 143 GVlTK~D~ 150 (294)
-|.||.|+
T Consensus 119 lv~nK~Dl 126 (170)
T cd04116 119 VLGNKNDI 126 (170)
T ss_pred EEEECccc
Confidence 99999995
No 154
>PRK10218 GTP-binding protein; Provisional
Probab=83.24 E-value=2.8 Score=44.00 Aligned_cols=78 Identities=22% Similarity=0.225 Sum_probs=48.5
Q ss_pred cccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch--hcHHHHhhh
Q psy8958 55 TVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE--RSNVTDLVS 132 (294)
Q Consensus 55 ~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a--ns~al~lar 132 (294)
+++-..-...+... -..+.|+|+||.... ...+..|++..+.+||+| +|..... +..+++.+.
T Consensus 53 GiTi~~~~~~i~~~-~~~inliDTPG~~df-------------~~~v~~~l~~aDg~ILVV-Da~~G~~~qt~~~l~~a~ 117 (607)
T PRK10218 53 GITILAKNTAIKWN-DYRINIVDTPGHADF-------------GGEVERVMSMVDSVLLVV-DAFDGPMPQTRFVTKKAF 117 (607)
T ss_pred ceEEEEEEEEEecC-CEEEEEEECCCcchh-------------HHHHHHHHHhCCEEEEEE-ecccCccHHHHHHHHHHH
Confidence 34433333333333 357999999995421 235677888888777655 4444333 344555555
Q ss_pred hcCCCCCeEEEEeccchh
Q psy8958 133 QMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 133 ~~DP~G~RTIGVlTK~D~ 150 (294)
+ .|...|.|++|.|+
T Consensus 118 ~---~gip~IVviNKiD~ 132 (607)
T PRK10218 118 A---YGLKPIVVINKVDR 132 (607)
T ss_pred H---cCCCEEEEEECcCC
Confidence 5 46778999999995
No 155
>PRK00007 elongation factor G; Reviewed
Probab=83.20 E-value=2.7 Score=44.57 Aligned_cols=81 Identities=14% Similarity=0.144 Sum_probs=46.6
Q ss_pred cccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhc
Q psy8958 55 TVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQM 134 (294)
Q Consensus 55 ~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~ 134 (294)
++|-+...+.+... -..++|||+||... ...+. ..-+..-+ .++.|++|...+..++ ..+++.+
T Consensus 60 g~ti~~~~~~~~~~-~~~~~liDTPG~~~--------f~~ev-----~~al~~~D-~~vlVvda~~g~~~qt-~~~~~~~ 123 (693)
T PRK00007 60 GITITSAATTCFWK-DHRINIIDTPGHVD--------FTIEV-----ERSLRVLD-GAVAVFDAVGGVEPQS-ETVWRQA 123 (693)
T ss_pred CCCEeccEEEEEEC-CeEEEEEeCCCcHH--------HHHHH-----HHHHHHcC-EEEEEEECCCCcchhh-HHHHHHH
Confidence 44444444444333 34799999999643 12222 22222234 4555667776654443 3444455
Q ss_pred CCCCCeEEEEeccchhh
Q psy8958 135 DPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 135 DP~G~RTIGVlTK~D~~ 151 (294)
...|...|-+++|+|+.
T Consensus 124 ~~~~~p~iv~vNK~D~~ 140 (693)
T PRK00007 124 DKYKVPRIAFVNKMDRT 140 (693)
T ss_pred HHcCCCEEEEEECCCCC
Confidence 55678889999999964
No 156
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=83.04 E-value=2.4 Score=45.90 Aligned_cols=63 Identities=13% Similarity=0.289 Sum_probs=42.3
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc--chhcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD--AERSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D--~ans~al~lar~~DP~G~RTIGVlTK~ 148 (294)
..++|+|+||... ...|...+....+.+||+| +|+.. ..+.++++.++. .+...|.|+||+
T Consensus 337 ~~ItfiDTPGhe~-------------F~~m~~rga~~aDiaILVV-dAddGv~~qT~e~i~~a~~---~~vPiIVviNKi 399 (787)
T PRK05306 337 GKITFLDTPGHEA-------------FTAMRARGAQVTDIVVLVV-AADDGVMPQTIEAINHAKA---AGVPIIVAINKI 399 (787)
T ss_pred EEEEEEECCCCcc-------------chhHHHhhhhhCCEEEEEE-ECCCCCCHhHHHHHHHHHh---cCCcEEEEEECc
Confidence 4699999999532 1346667777777676655 55532 234455555554 456799999999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|+
T Consensus 400 Dl 401 (787)
T PRK05306 400 DK 401 (787)
T ss_pred cc
Confidence 96
No 157
>PRK12296 obgE GTPase CgtA; Reviewed
Probab=83.03 E-value=3.1 Score=42.74 Aligned_cols=73 Identities=16% Similarity=0.319 Sum_probs=39.5
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC-----cch-hcHH-HHhhhhcC--------
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV-----DAE-RSNV-TDLVSQMD-------- 135 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~-----D~a-ns~a-l~lar~~D-------- 135 (294)
..++|+|+||++..+..+ ...-.. ..+|+++.. +|+.|++++. |.- ..+. .+....+.
T Consensus 206 ~~f~laDtPGliegas~g-----~gLg~~-fLrhierad-vLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~ 278 (500)
T PRK12296 206 TRFTVADVPGLIPGASEG-----KGLGLD-FLRHIERCA-VLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLG 278 (500)
T ss_pred eEEEEEECCCCccccchh-----hHHHHH-HHHHHHhcC-EEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccch
Confidence 369999999998655322 111112 234555555 5556666642 211 1111 11222232
Q ss_pred ---CCCCeEEEEeccchh
Q psy8958 136 ---PQGKRTIFVLTKVSQ 150 (294)
Q Consensus 136 ---P~G~RTIGVlTK~D~ 150 (294)
..+.-.|-|++|.|+
T Consensus 279 ~~~l~~kP~IVVlNKiDL 296 (500)
T PRK12296 279 LGDLAERPRLVVLNKIDV 296 (500)
T ss_pred hhhhcCCCEEEEEECccc
Confidence 235678999999995
No 158
>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=83.00 E-value=3 Score=36.93 Aligned_cols=68 Identities=16% Similarity=0.305 Sum_probs=41.2
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCC-CceEEEeccCCCcchhcHHH----Hhh--hhcCCCCCeEEE
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNP-NAIILCIQDGSVDAERSNVT----DLV--SQMDPQGKRTIF 143 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p-~sIILaV~~a~~D~ans~al----~la--r~~DP~G~RTIG 143 (294)
..+.|+|+||..+ .+.+...|++.. .+||++|-+.+..-.-.++. .+- ...-+.+...|.
T Consensus 48 ~~~~l~D~pG~~~-------------~~~~~~~~~~~~~~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvli 114 (203)
T cd04105 48 KKFRLVDVPGHPK-------------LRDKLLETLKNSAKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLI 114 (203)
T ss_pred ceEEEEECCCCHH-------------HHHHHHHHHhccCCEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCCCCEEE
Confidence 4699999999432 356667788887 77776665555310111111 111 112235789999
Q ss_pred Eeccchhh
Q psy8958 144 VLTKVSQQ 151 (294)
Q Consensus 144 VlTK~D~~ 151 (294)
|.+|.|+.
T Consensus 115 v~NK~Dl~ 122 (203)
T cd04105 115 ACNKQDLF 122 (203)
T ss_pred Eecchhhc
Confidence 99999964
No 159
>PLN03118 Rab family protein; Provisional
Probab=82.95 E-value=3 Score=36.65 Aligned_cols=76 Identities=20% Similarity=0.204 Sum_probs=43.8
Q ss_pred eEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhcH--HHHhhhhcCC-
Q psy8958 61 ISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERSN--VTDLVSQMDP- 136 (294)
Q Consensus 61 I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans~--al~lar~~DP- 136 (294)
..+.+.+. ...|.|+|+||... ...|...|++.-+++||++-..+.+ +.+-. .......+.+
T Consensus 53 ~~~~~~~~-~~~l~l~Dt~G~~~-------------~~~~~~~~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~ 118 (211)
T PLN03118 53 KQLTVGGK-RLKLTIWDTAGQER-------------FRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTN 118 (211)
T ss_pred EEEEECCE-EEEEEEEECCCchh-------------hHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCC
Confidence 34444332 34689999999322 2456678888888877776544321 11111 1122333332
Q ss_pred CCCeEEEEeccchh
Q psy8958 137 QGKRTIFVLTKVSQ 150 (294)
Q Consensus 137 ~G~RTIGVlTK~D~ 150 (294)
.+.-.|.|.||.|+
T Consensus 119 ~~~~~ilv~NK~Dl 132 (211)
T PLN03118 119 QDCVKMLVGNKVDR 132 (211)
T ss_pred CCCCEEEEEECccc
Confidence 34567899999995
No 160
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=82.94 E-value=3.4 Score=41.55 Aligned_cols=79 Identities=16% Similarity=0.308 Sum_probs=46.9
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcc---------hh
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDA---------ER 124 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~---------an 124 (294)
.++|-+.-...... +--.++|||+||.. +.+.+|+.. +...+..|| |++|...+ .+
T Consensus 69 rGiTid~~~~~~~~-~~~~i~lIDtPGh~------------~f~~~~~~g-~~~aD~ail-VVda~~G~~e~~~~~~~qT 133 (446)
T PTZ00141 69 RGITIDIALWKFET-PKYYFTIIDAPGHR------------DFIKNMITG-TSQADVAIL-VVASTAGEFEAGISKDGQT 133 (446)
T ss_pred cCEeEEeeeEEEcc-CCeEEEEEECCChH------------HHHHHHHHh-hhhcCEEEE-EEEcCCCceecccCCCccH
Confidence 34555544444433 34578999999932 334455443 355665555 56665443 34
Q ss_pred cHHHHhhhhcCCCCCe-EEEEeccchh
Q psy8958 125 SNVTDLVSQMDPQGKR-TIFVLTKVSQ 150 (294)
Q Consensus 125 s~al~lar~~DP~G~R-TIGVlTK~D~ 150 (294)
.+.+.+|+.+ |-+ -|-+|||.|.
T Consensus 134 ~eh~~~~~~~---gi~~iiv~vNKmD~ 157 (446)
T PTZ00141 134 REHALLAFTL---GVKQMIVCINKMDD 157 (446)
T ss_pred HHHHHHHHHc---CCCeEEEEEEcccc
Confidence 4556666655 655 5689999994
No 161
>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=82.93 E-value=3.7 Score=34.93 Aligned_cols=70 Identities=16% Similarity=0.264 Sum_probs=39.6
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D 149 (294)
-.++.++|+||.... ..+....+..+.. . ..+..++|+ +++.. ..++++.++++-....-+-.|+||+|
T Consensus 82 ~~d~viiDt~g~~~~-----~~~~l~~l~~l~~-~-~~~~~~~lV-v~~~~---~~~~~~~~~~~~~~~~~~~viltk~D 150 (173)
T cd03115 82 NFDVVIVDTAGRLQI-----DENLMEELKKIKR-V-VKPDEVLLV-VDAMT---GQDAVNQAKAFNEALGITGVILTKLD 150 (173)
T ss_pred CCCEEEEECcccchh-----hHHHHHHHHHHHh-h-cCCCeEEEE-EECCC---ChHHHHHHHHHHhhCCCCEEEEECCc
Confidence 457899999997643 1234444444432 2 235555554 44442 23444555555322225788999998
Q ss_pred h
Q psy8958 150 Q 150 (294)
Q Consensus 150 ~ 150 (294)
.
T Consensus 151 ~ 151 (173)
T cd03115 151 G 151 (173)
T ss_pred C
Confidence 4
No 162
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=82.74 E-value=3.3 Score=41.51 Aligned_cols=70 Identities=10% Similarity=0.228 Sum_probs=41.3
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchh
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~ 150 (294)
.++.|||+||.... .....+.+..++.. ...+-. +..|++|+. ...+..+.++.+...+. +=.|+||+|-
T Consensus 300 ~DlVlIDt~G~~~~-----d~~~~~~L~~ll~~-~~~~~~-~~LVl~a~~--~~~~l~~~~~~f~~~~~-~~vI~TKlDe 369 (424)
T PRK05703 300 CDVILIDTAGRSQR-----DKRLIEELKALIEF-SGEPID-VYLVLSATT--KYEDLKDIYKHFSRLPL-DGLIFTKLDE 369 (424)
T ss_pred CCEEEEeCCCCCCC-----CHHHHHHHHHHHhc-cCCCCe-EEEEEECCC--CHHHHHHHHHHhCCCCC-CEEEEecccc
Confidence 69999999998532 23345556666662 223433 345566654 23344455566665543 3468999984
No 163
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=82.38 E-value=2.6 Score=42.31 Aligned_cols=69 Identities=14% Similarity=0.248 Sum_probs=38.8
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchh
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~ 150 (294)
.++.|||+||..+.. .+..+.+..+... + +|.-+ +.|.+++. ..+++.+.++.+..-+- +=.|+||.|-
T Consensus 286 ~D~VLIDTAGr~~~d-----~~~l~EL~~l~~~-~-~p~~~-~LVLsag~--~~~d~~~i~~~f~~l~i-~glI~TKLDE 354 (407)
T PRK12726 286 VDHILIDTVGRNYLA-----EESVSEISAYTDV-V-HPDLT-CFTFSSGM--KSADVMTILPKLAEIPI-DGFIITKMDE 354 (407)
T ss_pred CCEEEEECCCCCccC-----HHHHHHHHHHhhc-c-CCceE-EEECCCcc--cHHHHHHHHHhcCcCCC-CEEEEEcccC
Confidence 589999999976521 2333333333321 2 44433 44666643 33455566666665433 3447999983
No 164
>PLN03108 Rab family protein; Provisional
Probab=82.26 E-value=3.7 Score=36.34 Aligned_cols=75 Identities=9% Similarity=0.129 Sum_probs=43.9
Q ss_pred EEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcc-hhc-HHHHhhhhcCCCCC
Q psy8958 62 SMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDA-ERS-NVTDLVSQMDPQGK 139 (294)
Q Consensus 62 ~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~-ans-~al~lar~~DP~G~ 139 (294)
.+.+.+..+ .|.|+|+||.. ....+...|+.....+|+++-..+.+. .+. ..+...+.......
T Consensus 47 ~i~~~~~~i-~l~l~Dt~G~~-------------~~~~~~~~~~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~ 112 (210)
T PLN03108 47 MITIDNKPI-KLQIWDTAGQE-------------SFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANM 112 (210)
T ss_pred EEEECCEEE-EEEEEeCCCcH-------------HHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHHhcCCCC
Confidence 344544433 68999999932 233466778887777776665443221 111 12223333333456
Q ss_pred eEEEEeccchh
Q psy8958 140 RTIFVLTKVSQ 150 (294)
Q Consensus 140 RTIGVlTK~D~ 150 (294)
..|.|.+|.|+
T Consensus 113 piiiv~nK~Dl 123 (210)
T PLN03108 113 TIMLIGNKCDL 123 (210)
T ss_pred cEEEEEECccC
Confidence 78999999995
No 165
>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=82.24 E-value=2.8 Score=35.29 Aligned_cols=75 Identities=16% Similarity=0.228 Sum_probs=45.0
Q ss_pred EEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc--HHHHhhhhcCCCC
Q psy8958 62 SMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS--NVTDLVSQMDPQG 138 (294)
Q Consensus 62 ~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans--~al~lar~~DP~G 138 (294)
.+.+.+ ....+.|+|+||.-. ...+-..|+++.+++|++.-..+.+ +.+. ..+...+...+ +
T Consensus 40 ~~~~~~-~~~~~~i~Dt~G~~~-------------~~~~~~~~~~~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~-~ 104 (173)
T cd04130 40 VVLVDG-KPVRLQLCDTAGQDE-------------FDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHNP-K 104 (173)
T ss_pred EEEECC-EEEEEEEEECCCChh-------------hccccccccCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCC-C
Confidence 444544 235789999999622 2234456888888887776443321 3222 23444444333 4
Q ss_pred CeEEEEeccchhh
Q psy8958 139 KRTIFVLTKVSQQ 151 (294)
Q Consensus 139 ~RTIGVlTK~D~~ 151 (294)
.-.|.|.||.|+.
T Consensus 105 ~piilv~nK~Dl~ 117 (173)
T cd04130 105 APIILVGTQADLR 117 (173)
T ss_pred CCEEEEeeChhhc
Confidence 6789999999963
No 166
>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=82.20 E-value=3.6 Score=34.85 Aligned_cols=67 Identities=18% Similarity=0.244 Sum_probs=39.5
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh--cHHHHhhhhcCCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER--SNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an--s~al~lar~~DP~G~RTIGVlTK 147 (294)
..+.|+|+||.. ..+.+...|++..+.+|+++-..+.+ +.. ....++.+..+-...-.+.|+||
T Consensus 59 ~~~~l~D~~G~~-------------~~~~~~~~~~~~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK 125 (174)
T cd04153 59 IRFLMWDIGGQE-------------SLRSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANK 125 (174)
T ss_pred eEEEEEECCCCH-------------HHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEEC
Confidence 569999999952 23455667888888777665443321 111 11222222222234567999999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 126 ~Dl 128 (174)
T cd04153 126 QDL 128 (174)
T ss_pred CCC
Confidence 995
No 167
>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=82.18 E-value=3.3 Score=33.82 Aligned_cols=68 Identities=13% Similarity=0.172 Sum_probs=40.8
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc-HHHHhhhhc-CCCCCeEEEEec
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS-NVTDLVSQM-DPQGKRTIFVLT 146 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans-~al~lar~~-DP~G~RTIGVlT 146 (294)
...|.|+|+||..+ .+.|...|++..+.++|++...+.+ +.+. ..++...+. ...+.--|.|.|
T Consensus 48 ~~~l~i~Dt~G~~~-------------~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~n 114 (163)
T cd04136 48 QCMLEILDTAGTEQ-------------FTAMRDLYIKNGQGFVLVYSITSQSSFNDLQDLREQILRVKDTENVPMVLVGN 114 (163)
T ss_pred EEEEEEEECCCccc-------------cchHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEE
Confidence 35688999999532 2356677888888887776543321 1111 112223322 334566788999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|.|+
T Consensus 115 K~Dl 118 (163)
T cd04136 115 KCDL 118 (163)
T ss_pred Cccc
Confidence 9995
No 168
>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=82.14 E-value=3.3 Score=35.37 Aligned_cols=64 Identities=16% Similarity=0.157 Sum_probs=39.5
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhc----HHHHhhhhcCCCCCeEEEEec
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERS----NVTDLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans----~al~lar~~DP~G~RTIGVlT 146 (294)
..|.++|+||..+ .+.+...|+.+.+.+|+++ +.+ |...- ..++..+...+ +...|.|.|
T Consensus 50 ~~l~i~D~~G~~~-------------~~~~~~~~~~~~d~iilv~-d~~-~~~s~~~~~~~~~~i~~~~~-~~piilv~n 113 (193)
T cd04118 50 VTLGIWDTAGSER-------------YEAMSRIYYRGAKAAIVCY-DLT-DSSSFERAKFWVKELQNLEE-HCKIYLCGT 113 (193)
T ss_pred EEEEEEECCCchh-------------hhhhhHhhcCCCCEEEEEE-ECC-CHHHHHHHHHHHHHHHhcCC-CCCEEEEEE
Confidence 4578999999422 2355667887777666555 333 22211 23344455544 467899999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|.|+
T Consensus 114 K~Dl 117 (193)
T cd04118 114 KSDL 117 (193)
T ss_pred cccc
Confidence 9995
No 169
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=81.93 E-value=3.5 Score=41.85 Aligned_cols=64 Identities=22% Similarity=0.262 Sum_probs=38.2
Q ss_pred CceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-ch--hcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 72 RMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AE--RSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 72 ~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~a--ns~al~lar~~DP~G~RTIGVlTK~ 148 (294)
.++|||+||. .+.+++|+..- .....++| |++|+.. .. +-+.+.++....- .+-|-||||.
T Consensus 118 ~i~~IDtPGH------------~~fi~~m~~g~-~~~D~alL-VVda~~g~~~~qT~ehl~i~~~lgi--~~iIVvlNKi 181 (460)
T PTZ00327 118 HVSFVDCPGH------------DILMATMLNGA-AVMDAALL-LIAANESCPQPQTSEHLAAVEIMKL--KHIIILQNKI 181 (460)
T ss_pred eEeeeeCCCH------------HHHHHHHHHHH-hhCCEEEE-EEECCCCccchhhHHHHHHHHHcCC--CcEEEEEecc
Confidence 6899999993 24455655543 34554544 6666542 23 3344555554432 3568899999
Q ss_pred hhh
Q psy8958 149 SQQ 151 (294)
Q Consensus 149 D~~ 151 (294)
|+.
T Consensus 182 Dlv 184 (460)
T PTZ00327 182 DLV 184 (460)
T ss_pred ccc
Confidence 964
No 170
>PRK13351 elongation factor G; Reviewed
Probab=81.78 E-value=1.9 Score=45.36 Aligned_cols=65 Identities=17% Similarity=0.296 Sum_probs=42.5
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcc--hhcHHHHhhhhcCCCCCeEEEEecc
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDA--ERSNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~--ans~al~lar~~DP~G~RTIGVlTK 147 (294)
-..+.|+|+||... ...++..|++.-+.+|| |++++... .+...++.+ +..+...|.|+||
T Consensus 72 ~~~i~liDtPG~~d-------------f~~~~~~~l~~aD~~il-Vvd~~~~~~~~~~~~~~~~---~~~~~p~iiviNK 134 (687)
T PRK13351 72 NHRINLIDTPGHID-------------FTGEVERSLRVLDGAVV-VFDAVTGVQPQTETVWRQA---DRYGIPRLIFINK 134 (687)
T ss_pred CEEEEEEECCCcHH-------------HHHHHHHHHHhCCEEEE-EEeCCCCCCHHHHHHHHHH---HhcCCCEEEEEEC
Confidence 35799999999642 22456778887787666 44555433 233344444 4446788999999
Q ss_pred chhh
Q psy8958 148 VSQQ 151 (294)
Q Consensus 148 ~D~~ 151 (294)
.|+.
T Consensus 135 ~D~~ 138 (687)
T PRK13351 135 MDRV 138 (687)
T ss_pred CCCC
Confidence 9964
No 171
>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=81.69 E-value=4 Score=35.56 Aligned_cols=66 Identities=14% Similarity=0.123 Sum_probs=39.9
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh-cHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER-SNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an-s~al~lar~~DP~G~RTIGVlTK~ 148 (294)
..|.|+|+||- +....+...|+.+.+.||+++-..+.+ +.. ...+...+...+ ...-+.|.||.
T Consensus 55 ~~l~l~D~~G~-------------~~~~~~~~~~~~~a~~iilv~D~~~~~s~~~~~~~~~~i~~~~~-~~piivVgNK~ 120 (199)
T cd04110 55 VKLQIWDTAGQ-------------ERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNCD-DVCKVLVGNKN 120 (199)
T ss_pred EEEEEEeCCCc-------------hhHHHHHHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCC-CCCEEEEEECc
Confidence 46899999993 223467788999888777665443321 110 112233333333 35568899999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|+
T Consensus 121 Dl 122 (199)
T cd04110 121 DD 122 (199)
T ss_pred cc
Confidence 95
No 172
>PRK12740 elongation factor G; Reviewed
Probab=81.63 E-value=1.9 Score=45.19 Aligned_cols=66 Identities=14% Similarity=0.241 Sum_probs=40.4
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchh
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~ 150 (294)
..++|||+||... ....+..++.....+|++ ++++.+...+ ...+.+.+...|...|.|+||.|+
T Consensus 60 ~~i~liDtPG~~~-------------~~~~~~~~l~~aD~vllv-vd~~~~~~~~-~~~~~~~~~~~~~p~iiv~NK~D~ 124 (668)
T PRK12740 60 HKINLIDTPGHVD-------------FTGEVERALRVLDGAVVV-VCAVGGVEPQ-TETVWRQAEKYGVPRIIFVNKMDR 124 (668)
T ss_pred EEEEEEECCCcHH-------------HHHHHHHHHHHhCeEEEE-EeCCCCcCHH-HHHHHHHHHHcCCCEEEEEECCCC
Confidence 5799999999642 122345566677755555 4555444322 223333333457889999999996
Q ss_pred h
Q psy8958 151 Q 151 (294)
Q Consensus 151 ~ 151 (294)
.
T Consensus 125 ~ 125 (668)
T PRK12740 125 A 125 (668)
T ss_pred C
Confidence 4
No 173
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=81.54 E-value=1.8 Score=42.88 Aligned_cols=62 Identities=16% Similarity=0.196 Sum_probs=34.9
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCC---CCceEEEeccCCCcc---hhcHHHHhhhhcCCCCCeEEEE
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSN---PNAIILCIQDGSVDA---ERSNVTDLVSQMDPQGKRTIFV 144 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~---p~sIILaV~~a~~D~---ans~al~lar~~DP~G~RTIGV 144 (294)
..++|+|+||-. +++..|+.. .. .++.|++|.... .+.+.+.+++... ....|-|
T Consensus 85 ~~i~liDtPG~~----------------~f~~~~~~~~~~~D-~~llVVDa~~~~~~~~t~~~l~~l~~~~--i~~iiVV 145 (411)
T PRK04000 85 RRVSFVDAPGHE----------------TLMATMLSGAALMD-GAILVIAANEPCPQPQTKEHLMALDIIG--IKNIVIV 145 (411)
T ss_pred cEEEEEECCCHH----------------HHHHHHHHHHhhCC-EEEEEEECCCCCCChhHHHHHHHHHHcC--CCcEEEE
Confidence 468999999921 233333333 34 445566666432 2233444554332 1347899
Q ss_pred eccchhh
Q psy8958 145 LTKVSQQ 151 (294)
Q Consensus 145 lTK~D~~ 151 (294)
+||.|+.
T Consensus 146 lNK~Dl~ 152 (411)
T PRK04000 146 QNKIDLV 152 (411)
T ss_pred EEeeccc
Confidence 9999963
No 174
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=81.34 E-value=5.5 Score=41.65 Aligned_cols=80 Identities=14% Similarity=0.231 Sum_probs=45.6
Q ss_pred cccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchh--cHHHHhhh
Q psy8958 55 TVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAER--SNVTDLVS 132 (294)
Q Consensus 55 ~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~an--s~al~lar 132 (294)
+++-+.-......+ -..++|||+||.. +.+.+|+.. +.....+ |.|++|+..+.. .+.+.+++
T Consensus 89 g~Tid~~~~~~~~~-~~~~~liDtPG~~------------~f~~~~~~~-~~~aD~~-llVvda~~g~~~~t~e~~~~~~ 153 (632)
T PRK05506 89 GITIDVAYRYFATP-KRKFIVADTPGHE------------QYTRNMVTG-ASTADLA-IILVDARKGVLTQTRRHSFIAS 153 (632)
T ss_pred CcCceeeeeEEccC-CceEEEEECCChH------------HHHHHHHHH-HHhCCEE-EEEEECCCCccccCHHHHHHHH
Confidence 44444433333333 3468999999942 234445443 4555544 556677654433 34566666
Q ss_pred hcCCCCCeEEEEeccchhh
Q psy8958 133 QMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 133 ~~DP~G~RTIGVlTK~D~~ 151 (294)
.... ..-|-|+||+|+.
T Consensus 154 ~~~~--~~iivvvNK~D~~ 170 (632)
T PRK05506 154 LLGI--RHVVLAVNKMDLV 170 (632)
T ss_pred HhCC--CeEEEEEEecccc
Confidence 6521 3456789999963
No 175
>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=81.32 E-value=3.9 Score=33.02 Aligned_cols=68 Identities=10% Similarity=0.110 Sum_probs=41.5
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch--hcHHHHhhhhcCC-CCCeEEEEec
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE--RSNVTDLVSQMDP-QGKRTIFVLT 146 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a--ns~al~lar~~DP-~G~RTIGVlT 146 (294)
...+.++|+||... ...+...+++.-+.+|+++-..+.+.. ............+ .+.-.+.|+|
T Consensus 46 ~~~~~l~D~~g~~~-------------~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~n 112 (160)
T cd00876 46 TYTLDILDTAGQEE-------------FSAMRDLYIRQGDGFILVYSITDRESFEEIKGYREQILRVKDDEDIPIVLVGN 112 (160)
T ss_pred EEEEEEEECCChHH-------------HHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEE
Confidence 35688999999432 445666777877877776654443211 1112222333322 5688999999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|.|+
T Consensus 113 K~D~ 116 (160)
T cd00876 113 KCDL 116 (160)
T ss_pred CCcc
Confidence 9995
No 176
>KOG2486|consensus
Probab=81.07 E-value=1.5 Score=42.32 Aligned_cols=75 Identities=17% Similarity=0.188 Sum_probs=43.9
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEE--eccCCCcchhcHH--HHhhhhcCCCCCeEEEEec
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILC--IQDGSVDAERSNV--TDLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILa--V~~a~~D~ans~a--l~lar~~DP~G~RTIGVlT 146 (294)
-.+++|||||+-....+. +..+.-.+|++.|..+..+.+-+ .++|.+-+.+.+. .+++-+ .+-=-.-|+|
T Consensus 183 ~~~~~vDlPG~~~a~y~~---~~~~d~~~~t~~Y~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~ge---~~VP~t~vfT 256 (320)
T KOG2486|consen 183 KSWYEVDLPGYGRAGYGF---ELPADWDKFTKSYLLERENLVRVFLLVDASVPIQPTDNPEIAWLGE---NNVPMTSVFT 256 (320)
T ss_pred ceEEEEecCCcccccCCc---cCcchHhHhHHHHHHhhhhhheeeeeeeccCCCCCCChHHHHHHhh---cCCCeEEeee
Confidence 468999999966554432 23344567888888876554322 3344443333332 233333 3344567999
Q ss_pred cchhh
Q psy8958 147 KVSQQ 151 (294)
Q Consensus 147 K~D~~ 151 (294)
|||..
T Consensus 257 K~DK~ 261 (320)
T KOG2486|consen 257 KCDKQ 261 (320)
T ss_pred hhhhh
Confidence 99964
No 177
>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=81.05 E-value=3.2 Score=35.19 Aligned_cols=67 Identities=10% Similarity=0.214 Sum_probs=40.7
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc--HHHHhhhhcCCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS--NVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans--~al~lar~~DP~G~RTIGVlTK 147 (294)
..+.|.|+||.. ..+.+...|++..+.+|+++-..+.+ +.+. ...++.+.....+..-+-|.+|
T Consensus 53 ~~~~l~Dt~G~~-------------~~~~~~~~~~~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK 119 (168)
T cd04149 53 VKFNVWDVGGQD-------------KIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANK 119 (168)
T ss_pred EEEEEEECCCCH-------------HHHHHHHHHhccCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEEC
Confidence 569999999952 23456677889888777766554421 2111 1112222222234678999999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 120 ~Dl 122 (168)
T cd04149 120 QDL 122 (168)
T ss_pred cCC
Confidence 995
No 178
>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=80.95 E-value=5.9 Score=33.17 Aligned_cols=68 Identities=12% Similarity=0.125 Sum_probs=40.3
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhc---HHHHhhhhcC-CCCCeEEEEe
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERS---NVTDLVSQMD-PQGKRTIFVL 145 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans---~al~lar~~D-P~G~RTIGVl 145 (294)
...+.|+|+|| .+..+.+...|+++.+.+|+++-..+. -.-. ..+...+... ..+.-.|.|.
T Consensus 62 ~~~~~i~Dt~G-------------~~~~~~~~~~~~~~~~~~i~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~~piiiv~ 127 (180)
T cd04127 62 RIHLQLWDTAG-------------QERFRSLTTAFFRDAMGFLLIFDLTNE-QSFLNVRNWMSQLQTHAYCENPDIVLCG 127 (180)
T ss_pred EEEEEEEeCCC-------------hHHHHHHHHHHhCCCCEEEEEEECCCH-HHHHHHHHHHHHHHHhcCCCCCcEEEEE
Confidence 35688999999 133567788899988876665544321 1111 1122222221 2245678999
Q ss_pred ccchhh
Q psy8958 146 TKVSQQ 151 (294)
Q Consensus 146 TK~D~~ 151 (294)
||.|+.
T Consensus 128 nK~Dl~ 133 (180)
T cd04127 128 NKADLE 133 (180)
T ss_pred eCccch
Confidence 999963
No 179
>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=80.84 E-value=3.8 Score=35.33 Aligned_cols=67 Identities=13% Similarity=0.160 Sum_probs=40.4
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh-cHHHHhhhhcC---CCCCeEEEEe
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER-SNVTDLVSQMD---PQGKRTIFVL 145 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an-s~al~lar~~D---P~G~RTIGVl 145 (294)
..|.|+|+||.. ..+.+...|++..+.+|+++...+.+ +.. ...+...+.+. +...-.|.|.
T Consensus 47 ~~l~i~Dt~G~~-------------~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvg 113 (190)
T cd04144 47 CMLEVLDTAGQE-------------EYTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVG 113 (190)
T ss_pred EEEEEEECCCch-------------hhHHHHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEE
Confidence 468999999932 23346667888888777766443321 111 12233333332 3456688899
Q ss_pred ccchh
Q psy8958 146 TKVSQ 150 (294)
Q Consensus 146 TK~D~ 150 (294)
||.|+
T Consensus 114 NK~Dl 118 (190)
T cd04144 114 NKCDK 118 (190)
T ss_pred EChhc
Confidence 99995
No 180
>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=80.82 E-value=2.5 Score=41.72 Aligned_cols=66 Identities=17% Similarity=0.215 Sum_probs=38.3
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcc---hhcHHHHhhhhcCCCCCeEEEEec
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDA---ERSNVTDLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~---ans~al~lar~~DP~G~RTIGVlT 146 (294)
...++|+|+||.- +.+.+| ..++...+.+| .|++|+... .+.+.+.+++... ..+-|-|+|
T Consensus 79 ~~~i~liDtPGh~------------~f~~~~-~~g~~~aD~aI-lVVDa~~g~~~~qt~e~l~~l~~~g--i~~iIVvvN 142 (406)
T TIGR03680 79 LRRVSFVDAPGHE------------TLMATM-LSGAALMDGAL-LVIAANEPCPQPQTKEHLMALEIIG--IKNIVIVQN 142 (406)
T ss_pred ccEEEEEECCCHH------------HHHHHH-HHHHHHCCEEE-EEEECCCCccccchHHHHHHHHHcC--CCeEEEEEE
Confidence 3568999999941 223344 34445566554 455666422 2334455554432 245789999
Q ss_pred cchhh
Q psy8958 147 KVSQQ 151 (294)
Q Consensus 147 K~D~~ 151 (294)
|.|+.
T Consensus 143 K~Dl~ 147 (406)
T TIGR03680 143 KIDLV 147 (406)
T ss_pred ccccC
Confidence 99964
No 181
>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=79.76 E-value=1.9 Score=42.89 Aligned_cols=79 Identities=24% Similarity=0.324 Sum_probs=39.6
Q ss_pred EEeCCCCCCceEEeCCCCcccCCCCCChh-HHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEE
Q psy8958 64 SVKGPGLQRMVLVDLPGIISTSTQDMASD-TRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTI 142 (294)
Q Consensus 64 eI~gP~~p~LTLVDLPGi~~~~~~~q~~~-~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTI 142 (294)
....|+.||.+|.||||+-.. ..+.+ -.+++ ... .=..+|+ |.+.. +. ..-..+|+++-..|..-.
T Consensus 79 ~Y~~p~~pnv~lWDlPG~gt~---~f~~~~Yl~~~--~~~----~yD~fii-i~s~r--f~-~ndv~La~~i~~~gK~fy 145 (376)
T PF05049_consen 79 PYPHPKFPNVTLWDLPGIGTP---NFPPEEYLKEV--KFY----RYDFFII-ISSER--FT-ENDVQLAKEIQRMGKKFY 145 (376)
T ss_dssp EEE-SS-TTEEEEEE--GGGS---S--HHHHHHHT--TGG----G-SEEEE-EESSS-----HHHHHHHHHHHHTT-EEE
T ss_pred eCCCCCCCCCeEEeCCCCCCC---CCCHHHHHHHc--ccc----ccCEEEE-EeCCC--Cc-hhhHHHHHHHHHcCCcEE
Confidence 345699999999999998432 22221 11111 122 2244443 44322 22 334567788888899999
Q ss_pred EEeccchhhhhhh
Q psy8958 143 FVLTKVSQQLIRI 155 (294)
Q Consensus 143 GVlTK~D~~~~~~ 155 (294)
.|-||.|..+...
T Consensus 146 fVRTKvD~Dl~~~ 158 (376)
T PF05049_consen 146 FVRTKVDSDLYNE 158 (376)
T ss_dssp EEE--HHHHHHHH
T ss_pred EEEecccccHhhh
Confidence 9999999754433
No 182
>PLN03110 Rab GTPase; Provisional
Probab=79.43 E-value=6.1 Score=35.15 Aligned_cols=68 Identities=9% Similarity=0.026 Sum_probs=43.6
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh-cHHHHhhhhcCCCCCeEEEEecc
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER-SNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an-s~al~lar~~DP~G~RTIGVlTK 147 (294)
...+.|.|+||- +....+...|++....+|+++-..+.+ +.+ ...+...+...+.+.--|.|.||
T Consensus 60 ~~~l~l~Dt~G~-------------~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK 126 (216)
T PLN03110 60 TVKAQIWDTAGQ-------------ERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNK 126 (216)
T ss_pred EEEEEEEECCCc-------------HHHHHHHHHHhCCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEC
Confidence 457899999992 224567788888877665554433221 111 23455666666656677999999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 127 ~Dl 129 (216)
T PLN03110 127 SDL 129 (216)
T ss_pred hhc
Confidence 996
No 183
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=79.34 E-value=1 Score=38.80 Aligned_cols=38 Identities=21% Similarity=0.205 Sum_probs=21.8
Q ss_pred ceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchhh
Q psy8958 110 AIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 110 sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~~ 151 (294)
.+|.-|-+||.-...-. +.-.|+--.-+|||+||.|+.
T Consensus 66 dvi~~v~~and~~s~f~----p~f~~~~~k~vIgvVTK~DLa 103 (148)
T COG4917 66 DVIIYVHAANDPESRFP----PGFLDIGVKKVIGVVTKADLA 103 (148)
T ss_pred ceeeeeecccCccccCC----cccccccccceEEEEeccccc
Confidence 46666777764222211 222333334499999999974
No 184
>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=79.32 E-value=5.6 Score=32.53 Aligned_cols=75 Identities=13% Similarity=0.188 Sum_probs=42.6
Q ss_pred eEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHH---HHhh-hhcCC
Q psy8958 61 ISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNV---TDLV-SQMDP 136 (294)
Q Consensus 61 I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~a---l~la-r~~DP 136 (294)
..+++ +.....|.|+|+||... ...+...+++..+.+|+++-. +.--.-+.+ ++.. +..+.
T Consensus 40 ~~~~~-~~~~~~~~l~D~~g~~~-------------~~~~~~~~~~~~d~~i~v~d~-~~~~s~~~~~~~~~~i~~~~~~ 104 (161)
T cd01863 40 KTLTV-DGKKVKLAIWDTAGQER-------------FRTLTSSYYRGAQGVILVYDV-TRRDTFTNLETWLNELETYSTN 104 (161)
T ss_pred EEEEE-CCEEEEEEEEECCCchh-------------hhhhhHHHhCCCCEEEEEEEC-CCHHHHHhHHHHHHHHHHhCCC
Confidence 33444 33445799999999421 234456677777766665543 321111112 2222 33345
Q ss_pred CCCeEEEEeccchh
Q psy8958 137 QGKRTIFVLTKVSQ 150 (294)
Q Consensus 137 ~G~RTIGVlTK~D~ 150 (294)
.+...+.|.||.|+
T Consensus 105 ~~~~~~iv~nK~D~ 118 (161)
T cd01863 105 NDIVKMLVGNKIDK 118 (161)
T ss_pred CCCcEEEEEECCcc
Confidence 56778999999995
No 185
>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=79.28 E-value=5 Score=41.35 Aligned_cols=63 Identities=13% Similarity=0.240 Sum_probs=41.0
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcc--hhcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDA--ERSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~--ans~al~lar~~DP~G~RTIGVlTK~ 148 (294)
..+.|+|+||... ....+.+++...+++|++| ++...+ .+...+++++. .+.-.|.|++|.
T Consensus 80 ~~inliDTPG~~d-------------f~~~~~~~l~~aD~aIlVv-Da~~gv~~~t~~l~~~~~~---~~~PiivviNKi 142 (527)
T TIGR00503 80 CLVNLLDTPGHED-------------FSEDTYRTLTAVDNCLMVI-DAAKGVETRTRKLMEVTRL---RDTPIFTFMNKL 142 (527)
T ss_pred eEEEEEECCChhh-------------HHHHHHHHHHhCCEEEEEE-ECCCCCCHHHHHHHHHHHh---cCCCEEEEEECc
Confidence 5789999999731 1123455677788776655 444333 33455666665 356689999999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|+
T Consensus 143 D~ 144 (527)
T TIGR00503 143 DR 144 (527)
T ss_pred cc
Confidence 95
No 186
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=79.10 E-value=4.9 Score=39.87 Aligned_cols=72 Identities=19% Similarity=0.308 Sum_probs=35.5
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchh-cHHHHhhhhcC--CC---CCeEEEE
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAER-SNVTDLVSQMD--PQ---GKRTIFV 144 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~an-s~al~lar~~D--P~---G~RTIGV 144 (294)
.++.|||+||..... ..+.+++..|.. ...+... +.|++|+..... .++.+.-+... |. ..-+=.|
T Consensus 216 ~DlVLIDTaG~~~~d-----~~l~e~La~L~~--~~~~~~~-lLVLsAts~~~~l~evi~~f~~~~~~p~~~~~~~~~~I 287 (374)
T PRK14722 216 KHMVLIDTIGMSQRD-----RTVSDQIAMLHG--ADTPVQR-LLLLNATSHGDTLNEVVQAYRSAAGQPKAALPDLAGCI 287 (374)
T ss_pred CCEEEEcCCCCCccc-----HHHHHHHHHHhc--cCCCCeE-EEEecCccChHHHHHHHHHHHHhhcccccccCCCCEEE
Confidence 589999999976422 234445544421 2233333 446666543332 22222222221 11 0124468
Q ss_pred eccchh
Q psy8958 145 LTKVSQ 150 (294)
Q Consensus 145 lTK~D~ 150 (294)
+||+|-
T Consensus 288 ~TKlDE 293 (374)
T PRK14722 288 LTKLDE 293 (374)
T ss_pred Eecccc
Confidence 999983
No 187
>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=78.95 E-value=4.1 Score=34.68 Aligned_cols=68 Identities=12% Similarity=0.180 Sum_probs=40.8
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc-HHH-HhhhhcCCCCCeEEEEec
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS-NVT-DLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans-~al-~lar~~DP~G~RTIGVlT 146 (294)
...+.|.|+||.. ..+.+...|+++.+++|+++-..+.+ ++.. ..+ ++.+.....+.--+-|.|
T Consensus 56 ~~~l~l~D~~G~~-------------~~~~~~~~~~~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~N 122 (175)
T smart00177 56 NISFTVWDVGGQD-------------KIRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFAN 122 (175)
T ss_pred CEEEEEEECCCCh-------------hhHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEe
Confidence 3578999999942 23567788999999887766544432 2111 111 121221122345789999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|.|+
T Consensus 123 K~Dl 126 (175)
T smart00177 123 KQDL 126 (175)
T ss_pred CcCc
Confidence 9995
No 188
>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=78.91 E-value=3.5 Score=34.71 Aligned_cols=68 Identities=13% Similarity=0.244 Sum_probs=41.2
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh--cHHHHhhhhcCCCCCeEEEEec
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER--SNVTDLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an--s~al~lar~~DP~G~RTIGVlT 146 (294)
-..+.++|+||... .+.+...|+..-+++|+++-..+.+ +.+ ....++.+.....+...|-|.+
T Consensus 42 ~~~i~l~Dt~G~~~-------------~~~~~~~~~~~ad~ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~N 108 (169)
T cd04158 42 NLKFTIWDVGGKHK-------------LRPLWKHYYLNTQAVVFVVDSSHRDRVSEAHSELAKLLTEKELRDALLLIFAN 108 (169)
T ss_pred CEEEEEEECCCChh-------------cchHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEe
Confidence 45789999999532 2346677888888887776654421 211 1112232222223467889999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|.|+
T Consensus 109 K~Dl 112 (169)
T cd04158 109 KQDV 112 (169)
T ss_pred CcCc
Confidence 9985
No 189
>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=78.66 E-value=3.2 Score=34.20 Aligned_cols=67 Identities=16% Similarity=0.213 Sum_probs=37.6
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchh---cHHHHhhhhcCCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAER---SNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~an---s~al~lar~~DP~G~RTIGVlTK 147 (294)
..|.++|+||.... ..+...+.+..+++++++-..+..-.. ...+......-+ +...|.|.||
T Consensus 48 ~~l~~~D~~g~~~~-------------~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~p~ivv~nK 113 (171)
T cd00157 48 VNLGLWDTAGQEEY-------------DRLRPLSYPNTDVFLICFSVDSPSSFENVKTKWIPEIRHYCP-NVPIILVGTK 113 (171)
T ss_pred EEEEEEeCCCcccc-------------cccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEEcc
Confidence 46899999996532 123334556667665555443311111 112233333333 5788999999
Q ss_pred chhh
Q psy8958 148 VSQQ 151 (294)
Q Consensus 148 ~D~~ 151 (294)
.|+.
T Consensus 114 ~Dl~ 117 (171)
T cd00157 114 IDLR 117 (171)
T ss_pred HHhh
Confidence 9964
No 190
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=78.44 E-value=5.1 Score=41.30 Aligned_cols=75 Identities=15% Similarity=0.263 Sum_probs=46.3
Q ss_pred ccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchh--cHHHHhhhh
Q psy8958 56 VSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAER--SNVTDLVSQ 133 (294)
Q Consensus 56 ~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~an--s~al~lar~ 133 (294)
++...+.++.. -..++|+|+||.... ...+..++...+++|++| ++...+.. ..++++++.
T Consensus 67 i~~~~~~~~~~---~~~inliDTPG~~df-------------~~~~~~~l~~aD~aIlVv-Da~~gv~~~t~~l~~~~~~ 129 (526)
T PRK00741 67 VTSSVMQFPYR---DCLINLLDTPGHEDF-------------SEDTYRTLTAVDSALMVI-DAAKGVEPQTRKLMEVCRL 129 (526)
T ss_pred eeeeeEEEEEC---CEEEEEEECCCchhh-------------HHHHHHHHHHCCEEEEEE-ecCCCCCHHHHHHHHHHHh
Confidence 34444444443 245899999996321 133566677778776655 55544443 344555544
Q ss_pred cCCCCCeEEEEeccchh
Q psy8958 134 MDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 134 ~DP~G~RTIGVlTK~D~ 150 (294)
.+...|.+++|+|+
T Consensus 130 ---~~iPiiv~iNK~D~ 143 (526)
T PRK00741 130 ---RDTPIFTFINKLDR 143 (526)
T ss_pred ---cCCCEEEEEECCcc
Confidence 46789999999995
No 191
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=78.39 E-value=8.2 Score=39.32 Aligned_cols=87 Identities=23% Similarity=0.366 Sum_probs=54.4
Q ss_pred cccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHH-HHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhh
Q psy8958 55 TVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIR-QMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQ 133 (294)
Q Consensus 55 ~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~-~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~ 133 (294)
|-+.|+|.-.+.=.++ ++-|+|+-||..+ ++.++.+- +-.++-|+..+ +||.|++++..+...+-.-+.
T Consensus 250 GTTRDviee~i~i~G~-pv~l~DTAGiRet------~d~VE~iGIeRs~~~i~~AD-lvL~v~D~~~~~~~~d~~~~~-- 319 (454)
T COG0486 250 GTTRDVIEEDINLNGI-PVRLVDTAGIRET------DDVVERIGIERAKKAIEEAD-LVLFVLDASQPLDKEDLALIE-- 319 (454)
T ss_pred CCccceEEEEEEECCE-EEEEEecCCcccC------ccHHHHHHHHHHHHHHHhCC-EEEEEEeCCCCCchhhHHHHH--
Confidence 4566777766655444 4999999999832 22233221 22444455555 888999988743333322222
Q ss_pred cCCCCCeEEEEeccchhh
Q psy8958 134 MDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 134 ~DP~G~RTIGVlTK~D~~ 151 (294)
.=|.+...|.|+||.|+.
T Consensus 320 ~~~~~~~~i~v~NK~DL~ 337 (454)
T COG0486 320 LLPKKKPIIVVLNKADLV 337 (454)
T ss_pred hcccCCCEEEEEechhcc
Confidence 345678999999999964
No 192
>PTZ00369 Ras-like protein; Provisional
Probab=78.22 E-value=4 Score=35.13 Aligned_cols=67 Identities=15% Similarity=0.151 Sum_probs=39.7
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcc-hh-cHHHHhhhhc-CCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDA-ER-SNVTDLVSQM-DPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~-an-s~al~lar~~-DP~G~RTIGVlTK 147 (294)
..|.|+|+||.-. ...|...|++.-..+|+++-..+.+- .+ ........+. ...+..-|.|.||
T Consensus 53 ~~l~i~Dt~G~~~-------------~~~l~~~~~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK 119 (189)
T PTZ00369 53 CLLDILDTAGQEE-------------YSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNK 119 (189)
T ss_pred EEEEEEeCCCCcc-------------chhhHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEC
Confidence 4588999999422 23466778888887777665544321 11 1112222222 2335677899999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 120 ~Dl 122 (189)
T PTZ00369 120 CDL 122 (189)
T ss_pred ccc
Confidence 995
No 193
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=77.86 E-value=6.4 Score=40.00 Aligned_cols=71 Identities=17% Similarity=0.252 Sum_probs=51.3
Q ss_pred CCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 69 GLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 69 ~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~ 148 (294)
...++.|||+-|-.+. .+++.+.++++ +-+-+|+-++|+|=++. .|+|...|+.++-.-.=|=-||||.
T Consensus 181 ~~~DvvIvDTAGRl~i-----de~Lm~El~~I--k~~~~P~E~llVvDam~----GQdA~~~A~aF~e~l~itGvIlTKl 249 (451)
T COG0541 181 EGYDVVIVDTAGRLHI-----DEELMDELKEI--KEVINPDETLLVVDAMI----GQDAVNTAKAFNEALGITGVILTKL 249 (451)
T ss_pred cCCCEEEEeCCCcccc-----cHHHHHHHHHH--HhhcCCCeEEEEEeccc----chHHHHHHHHHhhhcCCceEEEEcc
Confidence 4468999999996653 34555555554 23446776766655544 5999999999998888888899999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|-
T Consensus 250 DG 251 (451)
T COG0541 250 DG 251 (451)
T ss_pred cC
Confidence 83
No 194
>PLN03126 Elongation factor Tu; Provisional
Probab=77.85 E-value=7.5 Score=39.61 Aligned_cols=80 Identities=19% Similarity=0.270 Sum_probs=46.1
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhc--HHHHhh
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERS--NVTDLV 131 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans--~al~la 131 (294)
.+++-+......... -..++|||+||.. +.+.+|+... ......|| |++|...+..| +.+.++
T Consensus 128 rGiTi~~~~~~~~~~-~~~i~liDtPGh~------------~f~~~~~~g~-~~aD~ail-VVda~~G~~~qt~e~~~~~ 192 (478)
T PLN03126 128 RGITINTATVEYETE-NRHYAHVDCPGHA------------DYVKNMITGA-AQMDGAIL-VVSGADGPMPQTKEHILLA 192 (478)
T ss_pred CCeeEEEEEEEEecC-CcEEEEEECCCHH------------HHHHHHHHHH-hhCCEEEE-EEECCCCCcHHHHHHHHHH
Confidence 344444444444433 3478999999953 2344443333 34554444 66666554433 455555
Q ss_pred hhcCCCCCe-EEEEeccchhh
Q psy8958 132 SQMDPQGKR-TIFVLTKVSQQ 151 (294)
Q Consensus 132 r~~DP~G~R-TIGVlTK~D~~ 151 (294)
+.. |.. -|.|+||.|+.
T Consensus 193 ~~~---gi~~iIvvvNK~Dl~ 210 (478)
T PLN03126 193 KQV---GVPNMVVFLNKQDQV 210 (478)
T ss_pred HHc---CCCeEEEEEeccccc
Confidence 555 554 67899999964
No 195
>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=77.66 E-value=6 Score=33.03 Aligned_cols=68 Identities=10% Similarity=0.173 Sum_probs=40.0
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh--cHHHHhhhhcCCCCCeEEEEec
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER--SNVTDLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an--s~al~lar~~DP~G~RTIGVlT 146 (294)
...+.|.|+||.. ..+.+...|++..+++|+++-..+.+ +.. ....++.+.-.....--+-|.|
T Consensus 43 ~~~~~l~D~~G~~-------------~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~N 109 (159)
T cd04150 43 NISFTVWDVGGQD-------------KIRPLWRHYFQNTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFAN 109 (159)
T ss_pred CEEEEEEECCCCH-------------hHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEE
Confidence 4568999999952 24556778999999887776554422 111 1111222211112345678899
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|.|+
T Consensus 110 K~Dl 113 (159)
T cd04150 110 KQDL 113 (159)
T ss_pred CCCC
Confidence 9985
No 196
>PRK07560 elongation factor EF-2; Reviewed
Probab=77.38 E-value=3.1 Score=44.40 Aligned_cols=64 Identities=16% Similarity=0.217 Sum_probs=39.7
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch--hcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE--RSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a--ns~al~lar~~DP~G~RTIGVlTK~ 148 (294)
..++|||+||..... ..+...+..-++.|| |++|...+. +...+++|.+. |...|.+++|.
T Consensus 87 ~~i~liDtPG~~df~-------------~~~~~~l~~~D~avl-Vvda~~g~~~~t~~~~~~~~~~---~~~~iv~iNK~ 149 (731)
T PRK07560 87 YLINLIDTPGHVDFG-------------GDVTRAMRAVDGAIV-VVDAVEGVMPQTETVLRQALRE---RVKPVLFINKV 149 (731)
T ss_pred EEEEEEcCCCccChH-------------HHHHHHHHhcCEEEE-EEECCCCCCccHHHHHHHHHHc---CCCeEEEEECc
Confidence 458999999986521 233444455565555 555554443 33455555444 45679999999
Q ss_pred hhh
Q psy8958 149 SQQ 151 (294)
Q Consensus 149 D~~ 151 (294)
|+.
T Consensus 150 D~~ 152 (731)
T PRK07560 150 DRL 152 (731)
T ss_pred hhh
Confidence 964
No 197
>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=77.38 E-value=6.4 Score=34.04 Aligned_cols=74 Identities=16% Similarity=0.117 Sum_probs=44.6
Q ss_pred EEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcc-hh-cHHHHhhhhcCCCCCe
Q psy8958 63 MSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDA-ER-SNVTDLVSQMDPQGKR 140 (294)
Q Consensus 63 leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~-an-s~al~lar~~DP~G~R 140 (294)
+.+.+ ....|.+.|++|-- ..+.|...|+++.+.+++++-..+.+- .+ ...+..+++..+.. -
T Consensus 42 i~~~~-~~~~l~iwDt~G~~-------------~~~~~~~~~~~~a~~iilv~D~t~~~s~~~i~~~~~~~~~~~~~~-~ 106 (182)
T cd04128 42 ISIRG-TEITFSIWDLGGQR-------------EFINMLPLVCNDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKTA-I 106 (182)
T ss_pred EEECC-EEEEEEEEeCCCch-------------hHHHhhHHHCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCC-C
Confidence 34433 23578999999832 224577789988887766665443211 11 13345555555543 3
Q ss_pred EEEEeccchhh
Q psy8958 141 TIFVLTKVSQQ 151 (294)
Q Consensus 141 TIGVlTK~D~~ 151 (294)
.|.|.||.|+.
T Consensus 107 pilVgnK~Dl~ 117 (182)
T cd04128 107 PILVGTKYDLF 117 (182)
T ss_pred EEEEEEchhcc
Confidence 48899999963
No 198
>PTZ00099 rab6; Provisional
Probab=77.26 E-value=6.9 Score=33.94 Aligned_cols=74 Identities=15% Similarity=0.115 Sum_probs=43.2
Q ss_pred EEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC-cchhc-HHHHhhhhcCCCCCe
Q psy8958 63 MSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV-DAERS-NVTDLVSQMDPQGKR 140 (294)
Q Consensus 63 leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~-D~ans-~al~lar~~DP~G~R 140 (294)
+.+.+ +-..|.|.|+||.. ..+.+...|++.-+.+||++-..+. .+... ..+...........-
T Consensus 22 ~~~~~-~~v~l~iwDt~G~e-------------~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~~~~~p 87 (176)
T PTZ00099 22 LYLDE-GPVRLQLWDTAGQE-------------RFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVI 87 (176)
T ss_pred EEECC-EEEEEEEEECCChH-------------HhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCe
Confidence 34444 34679999999943 2345778899888766665543332 12222 223333333322345
Q ss_pred EEEEeccchh
Q psy8958 141 TIFVLTKVSQ 150 (294)
Q Consensus 141 TIGVlTK~D~ 150 (294)
.|.|.+|.|+
T Consensus 88 iilVgNK~DL 97 (176)
T PTZ00099 88 IALVGNKTDL 97 (176)
T ss_pred EEEEEECccc
Confidence 6889999995
No 199
>PLN00223 ADP-ribosylation factor; Provisional
Probab=77.25 E-value=4.9 Score=34.66 Aligned_cols=66 Identities=14% Similarity=0.228 Sum_probs=41.3
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHH----HhhhhcCCCCCeEEEEec
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVT----DLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al----~lar~~DP~G~RTIGVlT 146 (294)
..+.|+|+||- +..+.|-..|+++.+++|+++-..+.+ .-..+. ++...........+-|.+
T Consensus 61 ~~~~i~D~~Gq-------------~~~~~~~~~~~~~a~~iI~V~D~s~~~-s~~~~~~~l~~~l~~~~~~~~piilv~N 126 (181)
T PLN00223 61 ISFTVWDVGGQ-------------DKIRPLWRHYFQNTQGLIFVVDSNDRD-RVVEARDELHRMLNEDELRDAVLLVFAN 126 (181)
T ss_pred EEEEEEECCCC-------------HHHHHHHHHHhccCCEEEEEEeCCcHH-HHHHHHHHHHHHhcCHhhCCCCEEEEEE
Confidence 56999999992 235678888999999887766544322 111222 222221223467888999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|.|+
T Consensus 127 K~Dl 130 (181)
T PLN00223 127 KQDL 130 (181)
T ss_pred CCCC
Confidence 9985
No 200
>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=77.24 E-value=4.7 Score=33.07 Aligned_cols=68 Identities=13% Similarity=0.142 Sum_probs=38.1
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc-HHH-HhhhhcCCCCCeEEEEec
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS-NVT-DLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans-~al-~lar~~DP~G~RTIGVlT 146 (294)
...|.++|+||..+ ...+...|++.-+.+|++....+.+ +.+. ... .+.+.......-.|.|.|
T Consensus 47 ~~~l~i~Dt~g~~~-------------~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~n 113 (164)
T smart00173 47 VCLLDILDTAGQEE-------------FSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGN 113 (164)
T ss_pred EEEEEEEECCCccc-------------chHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEE
Confidence 45788999999432 2346667888777766665443211 1111 111 122222333455788999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|.|+
T Consensus 114 K~Dl 117 (164)
T smart00173 114 KCDL 117 (164)
T ss_pred Cccc
Confidence 9995
No 201
>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=77.21 E-value=9 Score=33.76 Aligned_cols=75 Identities=15% Similarity=0.104 Sum_probs=41.6
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc-HHHHhhhhc---CCCCCeEEEEe
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS-NVTDLVSQM---DPQGKRTIFVL 145 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans-~al~lar~~---DP~G~RTIGVl 145 (294)
..|.|+|+||+...+... . ....++...+++..+.+|+++-..+.+ +..- ...+...+. .+.+...|-|.
T Consensus 49 ~~l~i~Dt~G~~~~~~~~-~----~e~~~~~~~~~~~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivg 123 (198)
T cd04142 49 YDLHILDVPNMQRYPGTA-G----QEWMDPRFRGLRNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVG 123 (198)
T ss_pred EEEEEEeCCCcccCCccc-h----hHHHHHHHhhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEE
Confidence 568899999986533111 1 111234556778888776665544321 1111 111112221 34568899999
Q ss_pred ccchh
Q psy8958 146 TKVSQ 150 (294)
Q Consensus 146 TK~D~ 150 (294)
||.|+
T Consensus 124 NK~Dl 128 (198)
T cd04142 124 NKRDQ 128 (198)
T ss_pred ECccc
Confidence 99996
No 202
>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=76.94 E-value=6 Score=31.84 Aligned_cols=63 Identities=21% Similarity=0.248 Sum_probs=34.4
Q ss_pred eEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchh
Q psy8958 74 VLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 74 TLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~ 150 (294)
.++|+||... ......+.+.. ++++.+.+|+++ +++....... ..+.... +.-.|.|+||.|+
T Consensus 38 ~~iDt~G~~~--------~~~~~~~~~~~-~~~~ad~vilv~-d~~~~~s~~~-~~~~~~~---~~p~ilv~NK~Dl 100 (142)
T TIGR02528 38 GAIDTPGEYV--------ENRRLYSALIV-TAADADVIALVQ-SATDPESRFP-PGFASIF---VKPVIGLVTKIDL 100 (142)
T ss_pred eeecCchhhh--------hhHHHHHHHHH-HhhcCCEEEEEe-cCCCCCcCCC-hhHHHhc---cCCeEEEEEeecc
Confidence 6899999631 11233455544 567777655554 5543222211 1222222 2367889999995
No 203
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=76.66 E-value=6.1 Score=39.29 Aligned_cols=70 Identities=17% Similarity=0.181 Sum_probs=36.9
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D 149 (294)
-.++.|||+||.... .......+..++.... +..-++.|++|+.. ..++.+..+++.+-| =+=.|+||.|
T Consensus 254 ~~DlVLIDTaGr~~~-----~~~~l~el~~~l~~~~--~~~e~~LVlsat~~--~~~~~~~~~~~~~~~-~~~~I~TKlD 323 (388)
T PRK12723 254 DFDLVLVDTIGKSPK-----DFMKLAEMKELLNACG--RDAEFHLAVSSTTK--TSDVKEIFHQFSPFS-YKTVIFTKLD 323 (388)
T ss_pred CCCEEEEcCCCCCcc-----CHHHHHHHHHHHHhcC--CCCeEEEEEcCCCC--HHHHHHHHHHhcCCC-CCEEEEEecc
Confidence 368999999997642 1112333344444322 23234566666654 222334445544322 1234999998
No 204
>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=76.40 E-value=8.1 Score=32.96 Aligned_cols=68 Identities=10% Similarity=0.154 Sum_probs=42.4
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcc-hh-cHHHHhhhhcCCCCCeEEEEecc
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDA-ER-SNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~-an-s~al~lar~~DP~G~RTIGVlTK 147 (294)
...+.++|+||.. ....+...|+++.+.+|+++-..+.+- .+ ...+...+...+...-.|.|.||
T Consensus 48 ~~~~~i~Dt~g~~-------------~~~~~~~~~~~~~d~iilv~d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK 114 (188)
T cd04125 48 IIKLQIWDTNGQE-------------RFRSLNNSYYRGAHGYLLVYDVTDQESFENLKFWINEINRYARENVIKVIVANK 114 (188)
T ss_pred EEEEEEEECCCcH-------------HHHhhHHHHccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEC
Confidence 4568899999932 234577888888887777765433221 11 11233444444544667999999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 115 ~Dl 117 (188)
T cd04125 115 SDL 117 (188)
T ss_pred CCC
Confidence 995
No 205
>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=76.36 E-value=5.2 Score=33.50 Aligned_cols=68 Identities=18% Similarity=0.183 Sum_probs=41.7
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh-cHHHHhhhhcC-CCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER-SNVTDLVSQMD-PQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an-s~al~lar~~D-P~G~RTIGVlTK 147 (294)
..+.++|+||.-. .-..+...|.++.+++|+++-..+.+ +.+ ...+..++... ....-.|.|.||
T Consensus 51 ~~~~i~Dt~G~~~------------~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK 118 (170)
T cd04115 51 IKVQLWDTAGQER------------FRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNK 118 (170)
T ss_pred EEEEEEeCCChHH------------HHHhhHHHhhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEEC
Confidence 5789999999321 11246788899999888766554321 111 12223333322 234678999999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 119 ~Dl 121 (170)
T cd04115 119 CDL 121 (170)
T ss_pred ccc
Confidence 995
No 206
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=76.01 E-value=7.3 Score=33.56 Aligned_cols=68 Identities=12% Similarity=0.196 Sum_probs=40.4
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh--cHHHHhhhhcCCCCCeEEEEec
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER--SNVTDLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an--s~al~lar~~DP~G~RTIGVlT 146 (294)
...+.|+|+||.. ..+.+...|+...+++|+++-..+.+ +.. ....++.+.-.-.....|-|.+
T Consensus 60 ~~~~~l~D~~G~~-------------~~~~~~~~~~~~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~N 126 (182)
T PTZ00133 60 NLKFTMWDVGGQD-------------KLRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFAN 126 (182)
T ss_pred CEEEEEEECCCCH-------------hHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEe
Confidence 3579999999942 24567788999999887776554422 111 1111221211112346788999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|.|+
T Consensus 127 K~Dl 130 (182)
T PTZ00133 127 KQDL 130 (182)
T ss_pred CCCC
Confidence 9985
No 207
>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=75.59 E-value=6.9 Score=35.05 Aligned_cols=72 Identities=15% Similarity=0.087 Sum_probs=38.6
Q ss_pred EEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc--ch-hcHHHHhhhhcC-CCC
Q psy8958 63 MSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD--AE-RSNVTDLVSQMD-PQG 138 (294)
Q Consensus 63 leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D--~a-ns~al~lar~~D-P~G 138 (294)
+.+.+ ....|.++|+||.. ..+......| ..+.+|+++ +++.. +. -...+...++.. ..+
T Consensus 43 i~~~~-~~~~l~i~Dt~G~~------------~~~~~~~~~~--~ad~iilV~-d~td~~S~~~~~~~~~~l~~~~~~~~ 106 (221)
T cd04148 43 VSVDG-EESTLVVIDHWEQE------------MWTEDSCMQY--QGDAFVVVY-SVTDRSSFERASELRIQLRRNRQLED 106 (221)
T ss_pred EEECC-EEEEEEEEeCCCcc------------hHHHhHHhhc--CCCEEEEEE-ECCCHHHHHHHHHHHHHHHHhcCCCC
Confidence 44444 34579999999954 1222332333 666665554 44421 11 012233333333 245
Q ss_pred CeEEEEeccchh
Q psy8958 139 KRTIFVLTKVSQ 150 (294)
Q Consensus 139 ~RTIGVlTK~D~ 150 (294)
.-.|.|.||.|+
T Consensus 107 ~piilV~NK~Dl 118 (221)
T cd04148 107 RPIILVGNKSDL 118 (221)
T ss_pred CCEEEEEEChhc
Confidence 678999999995
No 208
>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=75.58 E-value=8.4 Score=32.31 Aligned_cols=67 Identities=15% Similarity=0.088 Sum_probs=39.2
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHH----HHhhhhcCCCCCeEEEEe
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNV----TDLVSQMDPQGKRTIFVL 145 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~a----l~lar~~DP~G~RTIGVl 145 (294)
...+.|+|+||.-. ..-+-..|...-+.+|+++...+.+ .-+.+ ..+.+.....+...|.|.
T Consensus 48 ~~~~~l~D~~g~~~-------------~~~~~~~~~~~~~~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~~p~ilv~ 113 (180)
T cd04137 48 DYHLEIVDTAGQDE-------------YSILPQKYSIGIHGYILVYSVTSRK-SFEVVKVIYDKILDMLGKESVPIVLVG 113 (180)
T ss_pred EEEEEEEECCChHh-------------hHHHHHHHHhhCCEEEEEEECCCHH-HHHHHHHHHHHHHHhcCCCCCCEEEEE
Confidence 35688999999432 1233445666667666666444321 11111 234444444567899999
Q ss_pred ccchh
Q psy8958 146 TKVSQ 150 (294)
Q Consensus 146 TK~D~ 150 (294)
||.|+
T Consensus 114 NK~Dl 118 (180)
T cd04137 114 NKSDL 118 (180)
T ss_pred Echhh
Confidence 99995
No 209
>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=75.14 E-value=6.9 Score=32.36 Aligned_cols=67 Identities=10% Similarity=0.172 Sum_probs=37.4
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcH---HHHhhhhcC--CCCCeEEEEe
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSN---VTDLVSQMD--PQGKRTIFVL 145 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~---al~lar~~D--P~G~RTIGVl 145 (294)
..+.|+|+||..... ..+...|++..+++|+++ +++..-.-.. .+...++.- ......|.|.
T Consensus 47 ~~~~i~D~~g~~~~~------------~~~~~~~~~~~d~~i~v~-d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~ 113 (165)
T cd04146 47 VSLEILDTAGQQQAD------------TEQLERSIRWADGFVLVY-SITDRSSFDEISQLKQLIREIKKRDREIPVILVG 113 (165)
T ss_pred EEEEEEECCCCcccc------------cchHHHHHHhCCEEEEEE-ECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEE
Confidence 357899999976411 122345677778766655 4432111111 123333332 2246689999
Q ss_pred ccchh
Q psy8958 146 TKVSQ 150 (294)
Q Consensus 146 TK~D~ 150 (294)
||.|+
T Consensus 114 nK~Dl 118 (165)
T cd04146 114 NKADL 118 (165)
T ss_pred ECCch
Confidence 99995
No 210
>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=73.62 E-value=9 Score=34.08 Aligned_cols=75 Identities=11% Similarity=0.037 Sum_probs=46.4
Q ss_pred eEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc-HHHHhhhhcCCCC
Q psy8958 61 ISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS-NVTDLVSQMDPQG 138 (294)
Q Consensus 61 I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans-~al~lar~~DP~G 138 (294)
+.+.+.+ ....|.|.|+||-- ..+.|...|.++.+.+||++-..+.+ +.+. ..++.++++.+ +
T Consensus 35 ~~~~~~~-~~~~l~iwDt~G~e-------------~~~~l~~~~~~~ad~~ilV~D~t~~~S~~~i~~w~~~i~~~~~-~ 99 (200)
T smart00176 35 LVFHTNR-GPIRFNVWDTAGQE-------------KFGGLRDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVCE-N 99 (200)
T ss_pred EEEEECC-EEEEEEEEECCCch-------------hhhhhhHHHhcCCCEEEEEEECCChHHHHHHHHHHHHHHHhCC-C
Confidence 3444444 34689999999942 24567778999998877765333321 1111 22333445444 5
Q ss_pred CeEEEEeccchh
Q psy8958 139 KRTIFVLTKVSQ 150 (294)
Q Consensus 139 ~RTIGVlTK~D~ 150 (294)
.--|.|.||.|+
T Consensus 100 ~piilvgNK~Dl 111 (200)
T smart00176 100 IPIVLCGNKVDV 111 (200)
T ss_pred CCEEEEEECccc
Confidence 678899999996
No 211
>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=73.62 E-value=7.4 Score=32.07 Aligned_cols=76 Identities=16% Similarity=0.201 Sum_probs=44.8
Q ss_pred EEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh-cHHHHhh-hhcCCCC
Q psy8958 62 SMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER-SNVTDLV-SQMDPQG 138 (294)
Q Consensus 62 ~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an-s~al~la-r~~DP~G 138 (294)
.+++.+ ....|.|+|+||.. ..+.|...|++.-+++|+++...+.. +.. ...+... +.....+
T Consensus 41 ~~~~~~-~~~~l~i~Dt~G~~-------------~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~ 106 (164)
T cd04175 41 QVEVDG-QQCMLEILDTAGTE-------------QFTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTED 106 (164)
T ss_pred EEEECC-EEEEEEEEECCCcc-------------cchhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCC
Confidence 444543 34678899999942 23356677888889888876543211 111 1122222 2223344
Q ss_pred CeEEEEeccchhh
Q psy8958 139 KRTIFVLTKVSQQ 151 (294)
Q Consensus 139 ~RTIGVlTK~D~~ 151 (294)
.--|-|.||.|+.
T Consensus 107 ~piilv~nK~Dl~ 119 (164)
T cd04175 107 VPMILVGNKCDLE 119 (164)
T ss_pred CCEEEEEECCcch
Confidence 5679999999963
No 212
>PLN00043 elongation factor 1-alpha; Provisional
Probab=73.43 E-value=8.7 Score=38.72 Aligned_cols=80 Identities=20% Similarity=0.310 Sum_probs=45.9
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-c--------hh
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-A--------ER 124 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~--------an 124 (294)
+++|-+.-...... .-..++|||+||- .+-+.+| ..++...++.|| |++|+.. + .+
T Consensus 69 rGiTi~~~~~~~~~-~~~~i~liDtPGh------------~df~~~~-~~g~~~aD~aIl-VVda~~G~~e~g~~~~~qT 133 (447)
T PLN00043 69 RGITIDIALWKFET-TKYYCTVIDAPGH------------RDFIKNM-ITGTSQADCAVL-IIDSTTGGFEAGISKDGQT 133 (447)
T ss_pred cCceEEEEEEEecC-CCEEEEEEECCCH------------HHHHHHH-HhhhhhccEEEE-EEEcccCceecccCCCchH
Confidence 44554443333333 3457999999993 2344444 344567777766 4445543 2 23
Q ss_pred cHHHHhhhhcCCCCCe-EEEEeccchhh
Q psy8958 125 SNVTDLVSQMDPQGKR-TIFVLTKVSQQ 151 (294)
Q Consensus 125 s~al~lar~~DP~G~R-TIGVlTK~D~~ 151 (294)
.+.+.+|+.. |-+ -|-++||+|+.
T Consensus 134 ~eh~~~~~~~---gi~~iIV~vNKmD~~ 158 (447)
T PLN00043 134 REHALLAFTL---GVKQMICCCNKMDAT 158 (447)
T ss_pred HHHHHHHHHc---CCCcEEEEEEcccCC
Confidence 3444555544 564 47789999953
No 213
>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=72.95 E-value=6.8 Score=32.96 Aligned_cols=72 Identities=11% Similarity=0.174 Sum_probs=42.3
Q ss_pred EEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhcH-HHHhhhhcCCCCCeE
Q psy8958 64 SVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERSN-VTDLVSQMDPQGKRT 141 (294)
Q Consensus 64 eI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans~-al~lar~~DP~G~RT 141 (294)
.+.+.+ ..|.+.|+||--. .+.+...|+++-+.+|+++-..+.. +.+.. .+.-..... .+..-
T Consensus 38 ~i~~~~-~~l~i~Dt~G~~~-------------~~~~~~~~~~~ad~ii~V~D~t~~~s~~~~~~~l~~~~~~~-~~~pi 102 (164)
T cd04162 38 AIPTQD-AIMELLEIGGSQN-------------LRKYWKRYLSGSQGLIFVVDSADSERLPLARQELHQLLQHP-PDLPL 102 (164)
T ss_pred EEeeCC-eEEEEEECCCCcc-------------hhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHhCC-CCCcE
Confidence 344433 5699999999432 2355668899999887666443321 11111 111111112 46788
Q ss_pred EEEeccchh
Q psy8958 142 IFVLTKVSQ 150 (294)
Q Consensus 142 IGVlTK~D~ 150 (294)
|.|.+|.|+
T Consensus 103 ilv~NK~Dl 111 (164)
T cd04162 103 VVLANKQDL 111 (164)
T ss_pred EEEEeCcCC
Confidence 999999995
No 214
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=72.70 E-value=6.9 Score=40.86 Aligned_cols=69 Identities=17% Similarity=0.226 Sum_probs=35.0
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D 149 (294)
-.+|.|||+||+.... ....+++..| .... .. -.+.|++++.. .++..+.++.+... .-+-.|+||.|
T Consensus 428 ~~DLVLIDTaG~s~~D-----~~l~eeL~~L-~aa~-~~--a~lLVLpAtss--~~Dl~eii~~f~~~-~~~gvILTKlD 495 (559)
T PRK12727 428 DYKLVLIDTAGMGQRD-----RALAAQLNWL-RAAR-QV--TSLLVLPANAH--FSDLDEVVRRFAHA-KPQGVVLTKLD 495 (559)
T ss_pred cCCEEEecCCCcchhh-----HHHHHHHHHH-HHhh-cC--CcEEEEECCCC--hhHHHHHHHHHHhh-CCeEEEEecCc
Confidence 3689999999986421 2223333333 2222 22 23445555542 22233334444332 23457999998
Q ss_pred h
Q psy8958 150 Q 150 (294)
Q Consensus 150 ~ 150 (294)
.
T Consensus 496 E 496 (559)
T PRK12727 496 E 496 (559)
T ss_pred C
Confidence 4
No 215
>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=72.27 E-value=5 Score=42.74 Aligned_cols=65 Identities=14% Similarity=0.193 Sum_probs=41.3
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch--hcHHHHhhhhcCCCCCeEEEEecc
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE--RSNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a--ns~al~lar~~DP~G~RTIGVlTK 147 (294)
-..+.|+|+||..... ..+..++..-.++||+| ++...+. +...++.+.+ .+...|.|++|
T Consensus 85 ~~~i~liDTPG~~~f~-------------~~~~~al~~aD~~llVv-da~~g~~~~t~~~~~~~~~---~~~p~ivviNK 147 (720)
T TIGR00490 85 EYLINLIDTPGHVDFG-------------GDVTRAMRAVDGAIVVV-CAVEGVMPQTETVLRQALK---ENVKPVLFINK 147 (720)
T ss_pred ceEEEEEeCCCccccH-------------HHHHHHHHhcCEEEEEE-ecCCCCCccHHHHHHHHHH---cCCCEEEEEEC
Confidence 3579999999986421 23566777778776655 5544332 3334444443 34566899999
Q ss_pred chhh
Q psy8958 148 VSQQ 151 (294)
Q Consensus 148 ~D~~ 151 (294)
.|+.
T Consensus 148 iD~~ 151 (720)
T TIGR00490 148 VDRL 151 (720)
T ss_pred hhcc
Confidence 9964
No 216
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=72.07 E-value=9.9 Score=41.18 Aligned_cols=69 Identities=14% Similarity=0.282 Sum_probs=38.2
Q ss_pred CceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCC--CeEEEEeccch
Q psy8958 72 RMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQG--KRTIFVLTKVS 149 (294)
Q Consensus 72 ~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G--~RTIGVlTK~D 149 (294)
+++|||+||..+.. ..+.+++..+.. ..+|.-+ +.|++|+. ...+..+.++.+.... .=+=.|+||+|
T Consensus 265 D~VLIDTAGRs~~d-----~~l~eel~~l~~--~~~p~e~-~LVLsAt~--~~~~l~~i~~~f~~~~~~~i~glIlTKLD 334 (767)
T PRK14723 265 HLVLIDTVGMSQRD-----RNVSEQIAMLCG--VGRPVRR-LLLLNAAS--HGDTLNEVVHAYRHGAGEDVDGCIITKLD 334 (767)
T ss_pred CEEEEeCCCCCccC-----HHHHHHHHHHhc--cCCCCeE-EEEECCCC--cHHHHHHHHHHHhhcccCCCCEEEEeccC
Confidence 79999999977532 235555555544 2345544 45555553 2233334555553210 12345899999
Q ss_pred h
Q psy8958 150 Q 150 (294)
Q Consensus 150 ~ 150 (294)
-
T Consensus 335 E 335 (767)
T PRK14723 335 E 335 (767)
T ss_pred C
Confidence 4
No 217
>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=71.94 E-value=14 Score=31.18 Aligned_cols=69 Identities=13% Similarity=0.194 Sum_probs=40.4
Q ss_pred CCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc--HHHHhhhhcCCCCCeEEEE
Q psy8958 68 PGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS--NVTDLVSQMDPQGKRTIFV 144 (294)
Q Consensus 68 P~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans--~al~lar~~DP~G~RTIGV 144 (294)
.....|.|.|+||.- ....+...|++.-+.||+++-..+.+ +.+. ..+...+...+ ..--|.|
T Consensus 46 ~~~~~l~i~Dt~G~~-------------~~~~~~~~~~~~ad~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~piilv 111 (187)
T cd04132 46 GKIIELALWDTAGQE-------------EYDRLRPLSYPDVDVLLICYAVDNPTSLDNVEDKWFPEVNHFCP-GTPIMLV 111 (187)
T ss_pred CcEEEEEEEECCCch-------------hHHHHHHHhCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEE
Confidence 345679999999921 22345566888888776665443321 2221 12233344444 3557899
Q ss_pred eccchh
Q psy8958 145 LTKVSQ 150 (294)
Q Consensus 145 lTK~D~ 150 (294)
.||.|+
T Consensus 112 ~nK~Dl 117 (187)
T cd04132 112 GLKTDL 117 (187)
T ss_pred EeChhh
Confidence 999995
No 218
>PTZ00416 elongation factor 2; Provisional
Probab=71.87 E-value=5.4 Score=43.32 Aligned_cols=65 Identities=15% Similarity=0.266 Sum_probs=40.0
Q ss_pred CceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchhh
Q psy8958 72 RMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 72 ~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~~ 151 (294)
.++|+|+||... .+.++ ..-+..-... +.|++|...+.-+. ..+.+.+...+...|.|++|+|+.
T Consensus 93 ~i~liDtPG~~~------------f~~~~-~~al~~~D~a-ilVvda~~g~~~~t-~~~~~~~~~~~~p~iv~iNK~D~~ 157 (836)
T PTZ00416 93 LINLIDSPGHVD------------FSSEV-TAALRVTDGA-LVVVDCVEGVCVQT-ETVLRQALQERIRPVLFINKVDRA 157 (836)
T ss_pred EEEEEcCCCHHh------------HHHHH-HHHHhcCCeE-EEEEECCCCcCccH-HHHHHHHHHcCCCEEEEEEChhhh
Confidence 489999999753 11222 2223445544 44666666555443 244455555567889999999975
No 219
>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=71.57 E-value=13 Score=32.75 Aligned_cols=75 Identities=13% Similarity=0.127 Sum_probs=43.3
Q ss_pred EEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc-HHHHhhhhcCC---C
Q psy8958 63 MSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS-NVTDLVSQMDP---Q 137 (294)
Q Consensus 63 leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans-~al~lar~~DP---~ 137 (294)
+.+.+-....+.|.|+||. +.-..+...|+...++||+++-..+.+ +.+. ..+...++.-+ .
T Consensus 42 i~~~~~~~~~~~i~Dt~G~-------------~~~~~l~~~~~~~ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~ 108 (215)
T cd04109 42 VTLPGNLNVTLQVWDIGGQ-------------SIGGKMLDKYIYGAHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSET 108 (215)
T ss_pred EEeCCCCEEEEEEEECCCc-------------HHHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCC
Confidence 3333333467889999992 223467888999999877765543321 1111 12233333322 2
Q ss_pred CCeEEEEeccchh
Q psy8958 138 GKRTIFVLTKVSQ 150 (294)
Q Consensus 138 G~RTIGVlTK~D~ 150 (294)
..-.|.|.+|.|+
T Consensus 109 ~~piilVgNK~DL 121 (215)
T cd04109 109 QPLVVLVGNKTDL 121 (215)
T ss_pred CceEEEEEECccc
Confidence 2346789999996
No 220
>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=69.78 E-value=9.9 Score=29.72 Aligned_cols=14 Identities=21% Similarity=0.226 Sum_probs=11.6
Q ss_pred CCeEEEEeccchhh
Q psy8958 138 GKRTIFVLTKVSQQ 151 (294)
Q Consensus 138 G~RTIGVlTK~D~~ 151 (294)
+...+-|+||.|+.
T Consensus 108 ~~p~ivv~nK~D~~ 121 (161)
T TIGR00231 108 NVPIILVGNKIDLR 121 (161)
T ss_pred CCcEEEEEEcccCC
Confidence 56789999999963
No 221
>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=69.38 E-value=8.7 Score=31.88 Aligned_cols=67 Identities=18% Similarity=0.229 Sum_probs=40.3
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC-cchhc--HHHHhhhhcCCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV-DAERS--NVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~-D~ans--~al~lar~~DP~G~RTIGVlTK 147 (294)
..|.++|+||... ...+...|++..+++||++-..+. .+.+. ..+...++..| +.-.|.|.||
T Consensus 46 ~~~~i~Dt~G~~~-------------~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~-~~piilv~nK 111 (174)
T smart00174 46 VELGLWDTAGQED-------------YDRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFCP-NTPIILVGTK 111 (174)
T ss_pred EEEEEEECCCCcc-------------cchhchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCC-CCCEEEEecC
Confidence 4799999999432 123455677777777666544332 12221 12333444444 5789999999
Q ss_pred chhh
Q psy8958 148 VSQQ 151 (294)
Q Consensus 148 ~D~~ 151 (294)
.|+.
T Consensus 112 ~Dl~ 115 (174)
T smart00174 112 LDLR 115 (174)
T ss_pred hhhh
Confidence 9963
No 222
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=69.01 E-value=9.4 Score=38.46 Aligned_cols=70 Identities=17% Similarity=0.270 Sum_probs=39.2
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D 149 (294)
-.++.|||++|..+.. ....+++..|.. ...+.-++ .|++|+. ..+++.+.++.+...+- +=.|+||+|
T Consensus 269 ~~d~VLIDTaGrsqrd-----~~~~~~l~~l~~--~~~~~~~~-LVl~at~--~~~~~~~~~~~f~~~~~-~~~I~TKlD 337 (420)
T PRK14721 269 GKHMVLIDTVGMSQRD-----QMLAEQIAMLSQ--CGTQVKHL-LLLNATS--SGDTLDEVISAYQGHGI-HGCIITKVD 337 (420)
T ss_pred CCCEEEecCCCCCcch-----HHHHHHHHHHhc--cCCCceEE-EEEcCCC--CHHHHHHHHHHhcCCCC-CEEEEEeee
Confidence 4578999999987532 234455555422 12343344 4555553 23344455566555432 345999998
Q ss_pred h
Q psy8958 150 Q 150 (294)
Q Consensus 150 ~ 150 (294)
-
T Consensus 338 E 338 (420)
T PRK14721 338 E 338 (420)
T ss_pred C
Confidence 3
No 223
>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=68.85 E-value=12 Score=33.22 Aligned_cols=74 Identities=14% Similarity=0.240 Sum_probs=48.1
Q ss_pred EEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh-cHHHHhhhhcCCCCCe
Q psy8958 63 MSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER-SNVTDLVSQMDPQGKR 140 (294)
Q Consensus 63 leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an-s~al~lar~~DP~G~R 140 (294)
+++.| ....|.|.|++|- +..+.|...|+++-+++||++-..+.+ +.+ ...+...++..+.+.-
T Consensus 42 i~~~~-~~v~l~iwDtaGq-------------e~~~~l~~~y~~~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~~~p 107 (202)
T cd04120 42 VELRG-KKIRLQIWDTAGQ-------------ERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAE 107 (202)
T ss_pred EEECC-EEEEEEEEeCCCc-------------hhhHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCc
Confidence 34433 3478899999993 234577889999999888865443321 111 1223455555556677
Q ss_pred EEEEeccchh
Q psy8958 141 TIFVLTKVSQ 150 (294)
Q Consensus 141 TIGVlTK~D~ 150 (294)
.|-|.+|.|+
T Consensus 108 iilVgNK~DL 117 (202)
T cd04120 108 LLLVGNKLDC 117 (202)
T ss_pred EEEEEECccc
Confidence 8999999996
No 224
>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=68.07 E-value=13 Score=32.32 Aligned_cols=66 Identities=15% Similarity=0.135 Sum_probs=38.8
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHH---HHhhhh-cCCCCCeEEEEec
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNV---TDLVSQ-MDPQGKRTIFVLT 146 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~a---l~lar~-~DP~G~RTIGVlT 146 (294)
..+.|+|+||.... ..|-..|+..-..+|+++- ++..-.-..+ +....+ ....+.-.|-|+|
T Consensus 47 ~~l~i~D~~G~~~~-------------~~~~~~~~~~ad~vilv~d-~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~N 112 (198)
T cd04147 47 LTLDILDTSGSYSF-------------PAMRKLSIQNSDAFALVYA-VDDPESFEEVERLREEILEVKEDKFVPIVVVGN 112 (198)
T ss_pred EEEEEEECCCchhh-------------hHHHHHHhhcCCEEEEEEE-CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEE
Confidence 57899999995421 2345568888887776654 4321111111 122222 2334677899999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|.|+
T Consensus 113 K~Dl 116 (198)
T cd04147 113 KADS 116 (198)
T ss_pred cccc
Confidence 9995
No 225
>cd01370 KISc_KIP3_like Kinesin motor domain, KIP3-like subgroup. The yeast kinesin KIP3 plays a role in positioning the mitotic spindle. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a sec
Probab=67.91 E-value=45 Score=32.12 Aligned_cols=78 Identities=18% Similarity=0.269 Sum_probs=43.1
Q ss_pred cccceEEEEeCCCC----------CCceEEeCCCCcccCCCCCC--------------hhHHHHHHHHhh----------
Q psy8958 57 SNEVISMSVKGPGL----------QRMVLVDLPGIISTSTQDMA--------------SDTRDLIRQMTQ---------- 102 (294)
Q Consensus 57 S~~~I~leI~gP~~----------p~LTLVDLPGi~~~~~~~q~--------------~~~~~~i~~Lv~---------- 102 (294)
|.-++.|.|...+. -.|+||||.|--+....+.. ..+...|..|..
T Consensus 211 SH~i~~i~i~~~~~~~~~~~~~~~s~l~~VDLAGsEr~~~~~~~g~~~~E~~~IN~SL~~L~~vi~~L~~~~~~~~~ipy 290 (338)
T cd01370 211 SHAVLQITVRQKDRTASINQQVRIGKLSLIDLAGSERASATNNRGQRLKEGANINRSLLALGNCINALVDGKKKNKHIPY 290 (338)
T ss_pred ceEEEEEEEEEEecCCCCCCcEEEEEEEEEECCCCccccccCCCCccccccchhhHHHHHHHHHHHHHHhccCCCCcCCC
Confidence 44567777765443 34999999997554332110 023344444433
Q ss_pred ----------hhcCC--CCceEEEeccCCCcch-hcHHHHhhhhc
Q psy8958 103 ----------THMSN--PNAIILCIQDGSVDAE-RSNVTDLVSQM 134 (294)
Q Consensus 103 ----------~Yi~~--p~sIILaV~~a~~D~a-ns~al~lar~~ 134 (294)
.++.. .-++|.+|.|+..+++ +-..|++|.++
T Consensus 291 R~SkLT~lL~d~Lggn~~t~~I~~vsp~~~~~~eTl~TL~fa~ra 335 (338)
T cd01370 291 RDSKLTRLLKDSLGGNCKTVMIANISPSSSHYEETHNTLKYANRA 335 (338)
T ss_pred cCCHHHHHHHHhcCCCCeEEEEEEeCCchhhHHHHHHHHHHHHHh
Confidence 23332 2346667777766664 55667776654
No 226
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=67.90 E-value=24 Score=30.53 Aligned_cols=69 Identities=14% Similarity=0.194 Sum_probs=52.8
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC---cchhcHHHHhhhhcCCCCCeEEEEec
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV---DAERSNVTDLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~---D~ans~al~lar~~DP~G~RTIGVlT 146 (294)
.-.+.++|++|. +.++.+...|...++.+++++..... +-.........+...+....-|-|.+
T Consensus 53 ~~~~~~~Dt~gq-------------~~~~~~~~~y~~~~~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~n 119 (219)
T COG1100 53 NIKLQLWDTAGQ-------------EEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGN 119 (219)
T ss_pred EEEEEeecCCCH-------------HHHHHHHHHHhcCCCEEEEEEecccchhhhHHHHHHHHHHHHhCCCCceEEEEec
Confidence 555888999983 45668999999999999998877762 33344555666777777788999999
Q ss_pred cchhh
Q psy8958 147 KVSQQ 151 (294)
Q Consensus 147 K~D~~ 151 (294)
|.|+.
T Consensus 120 K~Dl~ 124 (219)
T COG1100 120 KIDLF 124 (219)
T ss_pred ccccc
Confidence 99963
No 227
>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=67.87 E-value=18 Score=32.09 Aligned_cols=68 Identities=18% Similarity=0.250 Sum_probs=39.5
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh-cHHHHhhh-hcCCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER-SNVTDLVS-QMDPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an-s~al~lar-~~DP~G~RTIGVlTK 147 (294)
..|.++|+||. +....+...|+++...+|+++-..+.+ +.+ ...++.+. ...+...--|-|.||
T Consensus 52 ~~l~i~Dt~G~-------------~~~~~~~~~~~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK 118 (211)
T cd04111 52 IKLQLWDTAGQ-------------ERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHK 118 (211)
T ss_pred EEEEEEeCCcc-------------hhHHHHHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEc
Confidence 47899999993 223456778888888776665543321 111 11223232 334444445678899
Q ss_pred chhh
Q psy8958 148 VSQQ 151 (294)
Q Consensus 148 ~D~~ 151 (294)
.|+.
T Consensus 119 ~Dl~ 122 (211)
T cd04111 119 CDLE 122 (211)
T ss_pred cccc
Confidence 9963
No 228
>COG1160 Predicted GTPases [General function prediction only]
Probab=67.70 E-value=8.2 Score=39.24 Aligned_cols=90 Identities=12% Similarity=0.286 Sum_probs=60.7
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChh---HHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHh
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASD---TRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDL 130 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~---~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~l 130 (294)
.|-+.|.|...+. -+.-..+|||+-|+.+-..-....+ .....+.+ .. -.++|.|++|...+.-|+. ++
T Consensus 210 aGTTRD~I~~~~e-~~~~~~~liDTAGiRrk~ki~e~~E~~Sv~rt~~aI-----~~-a~vvllviDa~~~~~~qD~-~i 281 (444)
T COG1160 210 AGTTRDSIDIEFE-RDGRKYVLIDTAGIRRKGKITESVEKYSVARTLKAI-----ER-ADVVLLVIDATEGISEQDL-RI 281 (444)
T ss_pred CCccccceeeeEE-ECCeEEEEEECCCCCcccccccceEEEeehhhHhHH-----hh-cCEEEEEEECCCCchHHHH-HH
Confidence 4667788888888 3445689999999988665432211 22222222 22 3488999999988887775 45
Q ss_pred hhhcCCCCCeEEEEeccchhh
Q psy8958 131 VSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 131 ar~~DP~G~RTIGVlTK~D~~ 151 (294)
|.-+--.|.=.|-|+.|+|+.
T Consensus 282 a~~i~~~g~~~vIvvNKWDl~ 302 (444)
T COG1160 282 AGLIEEAGRGIVIVVNKWDLV 302 (444)
T ss_pred HHHHHHcCCCeEEEEEccccC
Confidence 555555688899999999964
No 229
>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=67.60 E-value=14 Score=31.96 Aligned_cols=68 Identities=16% Similarity=0.171 Sum_probs=40.1
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhcHH-HH-hhhh--c-CCCCCeEEE
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERSNV-TD-LVSQ--M-DPQGKRTIF 143 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans~a-l~-lar~--~-DP~G~RTIG 143 (294)
...|.|.|+||. +..+.|...|+++-.++|+++-..+.+ +.+... +. +.+. . +....-.|.
T Consensus 49 ~~~l~l~Dt~G~-------------~~~~~~~~~~~~~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piil 115 (201)
T cd04107 49 VVRLQLWDIAGQ-------------ERFGGMTRVYYRGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLL 115 (201)
T ss_pred EEEEEEEECCCc-------------hhhhhhHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEE
Confidence 457899999994 234567788999999887776543321 111110 11 1111 1 123345799
Q ss_pred Eeccchh
Q psy8958 144 VLTKVSQ 150 (294)
Q Consensus 144 VlTK~D~ 150 (294)
|.||.|+
T Consensus 116 v~NK~Dl 122 (201)
T cd04107 116 LANKCDL 122 (201)
T ss_pred EEECCCc
Confidence 9999995
No 230
>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=67.08 E-value=8.6 Score=31.91 Aligned_cols=66 Identities=9% Similarity=0.103 Sum_probs=36.8
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc--HHHHhhhhcCCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS--NVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans--~al~lar~~DP~G~RTIGVlTK 147 (294)
..+.++|+||--.. ..+-..|...-..+||++...+.+ +.+- ......+.. ..+.--|.|.||
T Consensus 48 ~~~~i~Dt~G~~~~-------------~~~~~~~~~~~~~~ilv~~~~~~~s~~~~~~~~~~~l~~~-~~~~piivv~nK 113 (174)
T cd04135 48 YLLGLYDTAGQEDY-------------DRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY-APNVPYLLVGTQ 113 (174)
T ss_pred EEEEEEeCCCcccc-------------cccccccCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEeEc
Confidence 45889999994332 123334566667666665433221 1111 123344444 345677899999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 114 ~Dl 116 (174)
T cd04135 114 IDL 116 (174)
T ss_pred hhh
Confidence 995
No 231
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=66.98 E-value=7.9 Score=38.02 Aligned_cols=74 Identities=19% Similarity=0.225 Sum_probs=49.8
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCC-CCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSN-PNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~-p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~ 148 (294)
-.+..|||+-|--++-.+= .+--+.|.+.+++.+.. |+-+ |.|.+|.. .|.++..||.++-.-.=|=-|+||+
T Consensus 221 ~~DvvliDTAGRLhnk~nL--M~EL~KI~rV~~k~~~~ap~e~-llvlDAtt---Gqnal~QAk~F~eav~l~GiIlTKl 294 (340)
T COG0552 221 GIDVVLIDTAGRLHNKKNL--MDELKKIVRVIKKDDPDAPHEI-LLVLDATT---GQNALSQAKIFNEAVGLDGIILTKL 294 (340)
T ss_pred CCCEEEEeCcccccCchhH--HHHHHHHHHHhccccCCCCceE-EEEEEccc---ChhHHHHHHHHHHhcCCceEEEEec
Confidence 3578999999977765431 12234455556666553 5555 55555543 5888888888877666677799999
Q ss_pred h
Q psy8958 149 S 149 (294)
Q Consensus 149 D 149 (294)
|
T Consensus 295 D 295 (340)
T COG0552 295 D 295 (340)
T ss_pred c
Confidence 8
No 232
>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=66.54 E-value=8.8 Score=33.04 Aligned_cols=67 Identities=18% Similarity=0.287 Sum_probs=43.5
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC-cchhc--HHHHhhhhcCCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV-DAERS--NVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~-D~ans--~al~lar~~DP~G~RTIGVlTK 147 (294)
..|.|.|+||--. .+.+...|....+.+||+..-.+. .+.+. ..+...+...+ +.-.|-|.||
T Consensus 48 ~~l~i~Dt~G~~~-------------~~~l~~~~~~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~~~~-~~piilvgNK 113 (189)
T cd04134 48 IELSLWDTAGQEE-------------FDRLRSLSYADTDVIMLCFSVDSPDSLENVESKWLGEIREHCP-GVKLVLVALK 113 (189)
T ss_pred EEEEEEECCCChh-------------ccccccccccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEC
Confidence 5789999999422 234556688888888877544333 34333 23455555544 4668999999
Q ss_pred chhh
Q psy8958 148 VSQQ 151 (294)
Q Consensus 148 ~D~~ 151 (294)
.|+.
T Consensus 114 ~Dl~ 117 (189)
T cd04134 114 CDLR 117 (189)
T ss_pred hhhc
Confidence 9963
No 233
>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=66.35 E-value=11 Score=31.44 Aligned_cols=67 Identities=13% Similarity=0.163 Sum_probs=39.2
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc-HHHHhhhh-cCCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS-NVTDLVSQ-MDPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans-~al~lar~-~DP~G~RTIGVlTK 147 (294)
..+.++|+||.-+ ...|...|++.-..+||++...+.+ +.+. .......+ .+..+.-.|.|.||
T Consensus 49 ~~~~i~Dt~G~~~-------------~~~~~~~~~~~~~~~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK 115 (168)
T cd04177 49 CDLEILDTAGTEQ-------------FTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNK 115 (168)
T ss_pred EEEEEEeCCCccc-------------chhhhHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEC
Confidence 5789999999432 2357777778777777665443321 1111 11222222 33445556789999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 116 ~D~ 118 (168)
T cd04177 116 ADL 118 (168)
T ss_pred hhc
Confidence 985
No 234
>KOG0462|consensus
Probab=66.19 E-value=17 Score=38.18 Aligned_cols=81 Identities=21% Similarity=0.222 Sum_probs=51.9
Q ss_pred cccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhc
Q psy8958 55 TVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQM 134 (294)
Q Consensus 55 ~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~ 134 (294)
++....-++.-..-...-|.|||+||-...... ....-.+|. =+|.|++|+.-+..|....+...+
T Consensus 109 TIkaQtasify~~~~~ylLNLIDTPGHvDFs~E------VsRslaac~--------G~lLvVDA~qGvqAQT~anf~lAf 174 (650)
T KOG0462|consen 109 TIKAQTASIFYKDGQSYLLNLIDTPGHVDFSGE------VSRSLAACD--------GALLVVDASQGVQAQTVANFYLAF 174 (650)
T ss_pred EEEeeeeEEEEEcCCceEEEeecCCCcccccce------ehehhhhcC--------ceEEEEEcCcCchHHHHHHHHHHH
Confidence 345555555555544456889999997755431 112223333 246677888878777776555544
Q ss_pred CCCCCeEEEEeccchh
Q psy8958 135 DPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 135 DP~G~RTIGVlTK~D~ 150 (294)
-- |.+-|-||.|.|+
T Consensus 175 e~-~L~iIpVlNKIDl 189 (650)
T KOG0462|consen 175 EA-GLAIIPVLNKIDL 189 (650)
T ss_pred Hc-CCeEEEeeeccCC
Confidence 43 6999999999995
No 235
>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=66.13 E-value=12 Score=32.02 Aligned_cols=66 Identities=14% Similarity=0.181 Sum_probs=43.1
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc--HHHHhhhhcCCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS--NVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans--~al~lar~~DP~G~RTIGVlTK 147 (294)
..|.|.|+||--+ ...+-..|+++-+++||+....+.+ +.+. ..+...+...| ..-.|-|.||
T Consensus 49 ~~l~i~Dt~G~~~-------------~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~~~-~~piilvgnK 114 (175)
T cd01874 49 YTLGLFDTAGQED-------------YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP-KTPFLLVGTQ 114 (175)
T ss_pred EEEEEEECCCccc-------------hhhhhhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEEEC
Confidence 5789999999532 2245566888888888887554432 3322 23444555444 3677899999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 115 ~Dl 117 (175)
T cd01874 115 IDL 117 (175)
T ss_pred Hhh
Confidence 995
No 236
>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=65.74 E-value=18 Score=30.63 Aligned_cols=74 Identities=20% Similarity=0.183 Sum_probs=43.0
Q ss_pred EEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC--cchhc-HHHHhh-hhcCCC
Q psy8958 62 SMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV--DAERS-NVTDLV-SQMDPQ 137 (294)
Q Consensus 62 ~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~--D~ans-~al~la-r~~DP~ 137 (294)
.+++.|- ...|.|.|+||.. .-..|...|++....+||+. +++. .+.+. ..++.. +...|.
T Consensus 41 ~~~~~~~-~~~l~i~Dt~G~~-------------~~~~~~~~~~~~ad~~ilv~-d~~~~~s~~~~~~~~~~~~~~~~~~ 105 (170)
T cd04108 41 RFEILGV-PFSLQLWDTAGQE-------------RFKCIASTYYRGAQAIIIVF-DLTDVASLEHTRQWLEDALKENDPS 105 (170)
T ss_pred EEEECCE-EEEEEEEeCCChH-------------HHHhhHHHHhcCCCEEEEEE-ECcCHHHHHHHHHHHHHHHHhcCCC
Confidence 4444442 3579999999953 23456678888888666555 4442 12221 122222 334454
Q ss_pred CCeEEEEeccchh
Q psy8958 138 GKRTIFVLTKVSQ 150 (294)
Q Consensus 138 G~RTIGVlTK~D~ 150 (294)
-.-.|.|.||.|+
T Consensus 106 ~~~iilVgnK~Dl 118 (170)
T cd04108 106 SVLLFLVGTKKDL 118 (170)
T ss_pred CCeEEEEEEChhc
Confidence 3346899999995
No 237
>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=65.30 E-value=18 Score=29.93 Aligned_cols=69 Identities=17% Similarity=0.237 Sum_probs=39.3
Q ss_pred CCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh-cHHHHhhhhc---CCCCCeEEE
Q psy8958 69 GLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER-SNVTDLVSQM---DPQGKRTIF 143 (294)
Q Consensus 69 ~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an-s~al~lar~~---DP~G~RTIG 143 (294)
....|.++|+||..+. ..|...|+...+.+||+....+.. +.+ ...+...+++ ++...-.|-
T Consensus 47 ~~~~l~i~Dt~G~~~~-------------~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piil 113 (165)
T cd04140 47 NICTLQITDTTGSHQF-------------PAMQRLSISKGHAFILVYSVTSKQSLEELKPIYELICEIKGNNIEKIPIML 113 (165)
T ss_pred EEEEEEEEECCCCCcc-------------hHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEE
Confidence 3467899999995432 245566777777766654433321 111 1122223332 223456889
Q ss_pred Eeccchh
Q psy8958 144 VLTKVSQ 150 (294)
Q Consensus 144 VlTK~D~ 150 (294)
|.||.|+
T Consensus 114 v~nK~Dl 120 (165)
T cd04140 114 VGNKCDE 120 (165)
T ss_pred EEECccc
Confidence 9999995
No 238
>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=64.74 E-value=17 Score=31.38 Aligned_cols=75 Identities=12% Similarity=0.236 Sum_probs=46.6
Q ss_pred EEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh--cHHHHhhhhcCCCC
Q psy8958 62 SMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER--SNVTDLVSQMDPQG 138 (294)
Q Consensus 62 ~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an--s~al~lar~~DP~G 138 (294)
.+++.+ ....|.|.|+||--. -+.|...|.++.+.+||+.--.+.+ +.+ .......+++.|.
T Consensus 41 ~~~~~~-~~~~l~iwDt~G~~~-------------~~~~~~~~~~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~~~~~- 105 (178)
T cd04131 41 SFEIDE-QRIELSLWDTSGSPY-------------YDNVRPLCYPDSDAVLICFDISRPETLDSVLKKWRGEIQEFCPN- 105 (178)
T ss_pred EEEECC-EEEEEEEEECCCchh-------------hhhcchhhcCCCCEEEEEEECCChhhHHHHHHHHHHHHHHHCCC-
Confidence 345544 446899999999321 2345567888888777665443321 222 2344456666663
Q ss_pred CeEEEEeccchhh
Q psy8958 139 KRTIFVLTKVSQQ 151 (294)
Q Consensus 139 ~RTIGVlTK~D~~ 151 (294)
...|-|-||+|+.
T Consensus 106 ~~iilVgnK~DL~ 118 (178)
T cd04131 106 TKVLLVGCKTDLR 118 (178)
T ss_pred CCEEEEEEChhhh
Confidence 6788899999963
No 239
>PLN03071 GTP-binding nuclear protein Ran; Provisional
Probab=64.73 E-value=17 Score=32.39 Aligned_cols=67 Identities=9% Similarity=-0.013 Sum_probs=42.3
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh-cHHHHhhhhcCCCCCeEEEEecc
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER-SNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an-s~al~lar~~DP~G~RTIGVlTK 147 (294)
...|.|.|+||.-. ...|...|.+..+++|+++-..+.+ +.+ ...++..++..+ +.--|-|.||
T Consensus 61 ~~~l~i~Dt~G~~~-------------~~~~~~~~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~~~-~~piilvgNK 126 (219)
T PLN03071 61 KIRFYCWDTAGQEK-------------FGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVCE-NIPIVLCGNK 126 (219)
T ss_pred EEEEEEEECCCchh-------------hhhhhHHHcccccEEEEEEeCCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEEc
Confidence 36899999999432 2356677888888877765544421 111 122333444444 4778999999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 127 ~Dl 129 (219)
T PLN03071 127 VDV 129 (219)
T ss_pred hhh
Confidence 996
No 240
>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=62.68 E-value=19 Score=30.57 Aligned_cols=66 Identities=18% Similarity=0.151 Sum_probs=42.5
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc--HHHHhhhhcCCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS--NVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans--~al~lar~~DP~G~RTIGVlTK 147 (294)
..|.|.|+||-- ....+...|+++-+++||+.-..+.+ +.+- ..++..+...+ ..-.|-|.||
T Consensus 49 ~~l~i~Dt~G~~-------------~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~-~~piilvgnK 114 (174)
T cd01871 49 VNLGLWDTAGQE-------------DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP-NTPIILVGTK 114 (174)
T ss_pred EEEEEEECCCch-------------hhhhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCEEEEeeC
Confidence 578899999932 22345667888888888877665432 2221 13344454444 4678889999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 115 ~Dl 117 (174)
T cd01871 115 LDL 117 (174)
T ss_pred hhh
Confidence 996
No 241
>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=62.26 E-value=7 Score=33.79 Aligned_cols=22 Identities=27% Similarity=0.478 Sum_probs=15.4
Q ss_pred ccccceEEEEeCCCCCCceEEeCCCC
Q psy8958 56 VSNEVISMSVKGPGLQRMVLVDLPGI 81 (294)
Q Consensus 56 ~S~~~I~leI~gP~~p~LTLVDLPGi 81 (294)
.+.++..+.+.. ++.|||+||+
T Consensus 169 tT~~~~~~~~~~----~~~~~DtPG~ 190 (190)
T cd01855 169 TTLDLIKIPLGN----GKKLYDTPGI 190 (190)
T ss_pred eeeeeEEEecCC----CCEEEeCcCC
Confidence 344556666633 6899999996
No 242
>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=62.20 E-value=11 Score=31.36 Aligned_cols=51 Identities=16% Similarity=0.270 Sum_probs=31.1
Q ss_pred HHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchh
Q psy8958 98 RQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 98 ~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~ 150 (294)
++|++.++++-+ ++|.|++++.-..... ..+.+.....+...|.|+||.|+
T Consensus 3 ~~~~~~i~~~aD-~vl~V~D~~~~~~~~~-~~l~~~~~~~~~p~iiv~NK~Dl 53 (156)
T cd01859 3 KRLVRRIIKESD-VVLEVLDARDPELTRS-RKLERYVLELGKKLLIVLNKADL 53 (156)
T ss_pred HHHHHHHHhhCC-EEEEEeeCCCCcccCC-HHHHHHHHhCCCcEEEEEEhHHh
Confidence 467777777666 5566677754222222 23333333346788999999995
No 243
>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=61.06 E-value=64 Score=33.53 Aligned_cols=83 Identities=11% Similarity=0.197 Sum_probs=52.2
Q ss_pred CCCccccccceEEEEeCC--CCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcc--hhcH
Q psy8958 51 RKGKTVSNEVISMSVKGP--GLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDA--ERSN 126 (294)
Q Consensus 51 g~~~~~S~~~I~leI~gP--~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~--ans~ 126 (294)
+...+++-..=...+.-+ +.|-|||+|+||--... +|=.+=-+--+ |...|++++.-+ -+-+
T Consensus 33 ~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt-------------~mRaRGa~vtD-IaILVVa~dDGv~pQTiE 98 (509)
T COG0532 33 GEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFT-------------AMRARGASVTD-IAILVVAADDGVMPQTIE 98 (509)
T ss_pred ccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHH-------------HHHhcCCcccc-EEEEEEEccCCcchhHHH
Confidence 334455555555555544 67999999999943322 12111111122 566667777544 4667
Q ss_pred HHHhhhhcCCCCCeEEEEeccchh
Q psy8958 127 VTDLVSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 127 al~lar~~DP~G~RTIGVlTK~D~ 150 (294)
|.+.||.+ |.=.|-.++|.|+
T Consensus 99 AI~hak~a---~vP~iVAiNKiDk 119 (509)
T COG0532 99 AINHAKAA---GVPIVVAINKIDK 119 (509)
T ss_pred HHHHHHHC---CCCEEEEEecccC
Confidence 88899988 5678999999995
No 244
>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=60.70 E-value=21 Score=32.76 Aligned_cols=74 Identities=14% Similarity=0.241 Sum_probs=46.5
Q ss_pred EEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh--cHHHHhhhhcCCCC
Q psy8958 62 SMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER--SNVTDLVSQMDPQG 138 (294)
Q Consensus 62 ~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an--s~al~lar~~DP~G 138 (294)
.+++.+ ....|.|.|++|- +..+.|...|+++-+.+||+.--.+.+ +.+ ...+..+++..| +
T Consensus 53 ~i~~~~-~~v~l~iwDTaG~-------------e~~~~~~~~~~~~ad~vIlVyDit~~~Sf~~~~~~w~~~i~~~~~-~ 117 (232)
T cd04174 53 GLETEE-QRVELSLWDTSGS-------------PYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWKAEIMDYCP-S 117 (232)
T ss_pred EEEECC-EEEEEEEEeCCCc-------------hhhHHHHHHHcCCCcEEEEEEECCChHHHHHHHHHHHHHHHHhCC-C
Confidence 344444 3457999999983 223456667999888777665444322 221 233455666655 3
Q ss_pred CeEEEEeccchh
Q psy8958 139 KRTIFVLTKVSQ 150 (294)
Q Consensus 139 ~RTIGVlTK~D~ 150 (294)
.-.|.|.||.|+
T Consensus 118 ~piilVgNK~DL 129 (232)
T cd04174 118 TRILLIGCKTDL 129 (232)
T ss_pred CCEEEEEECccc
Confidence 568999999996
No 245
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=57.82 E-value=18 Score=37.59 Aligned_cols=83 Identities=22% Similarity=0.338 Sum_probs=56.3
Q ss_pred CccccccceEEEEeCC--CCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHh
Q psy8958 53 GKTVSNEVISMSVKGP--GLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDL 130 (294)
Q Consensus 53 ~~~~S~~~I~leI~gP--~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~l 130 (294)
|=++-...++|..... ....|-|||+||-....- +.-|+| -.-..+ |.|++|++-++.|.....
T Consensus 56 GITIKaq~v~l~Yk~~~g~~Y~lnlIDTPGHVDFsY--------EVSRSL----AACEGa--lLvVDAsQGveAQTlAN~ 121 (603)
T COG0481 56 GITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFSY--------EVSRSL----AACEGA--LLVVDASQGVEAQTLANV 121 (603)
T ss_pred CceEEeeEEEEEEEeCCCCEEEEEEcCCCCccceEE--------EehhhH----hhCCCc--EEEEECccchHHHHHHHH
Confidence 4445567777777765 557899999999776543 122222 222333 567888888888887765
Q ss_pred hhhcCCCCCeEEEEeccchh
Q psy8958 131 VSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 131 ar~~DP~G~RTIGVlTK~D~ 150 (294)
=..+|-+ .--|-||.|.|+
T Consensus 122 YlAle~~-LeIiPViNKIDL 140 (603)
T COG0481 122 YLALENN-LEIIPVLNKIDL 140 (603)
T ss_pred HHHHHcC-cEEEEeeecccC
Confidence 5555543 779999999996
No 246
>cd01374 KISc_CENP_E Kinesin motor domain, CENP-E/KIP2-like subgroup, involved in chromosome movement and/or spindle elongation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to
Probab=57.09 E-value=60 Score=30.85 Aligned_cols=31 Identities=19% Similarity=0.355 Sum_probs=21.8
Q ss_pred cccceEEEEeCCCCC----------CceEEeCCCCcccCCC
Q psy8958 57 SNEVISMSVKGPGLQ----------RMVLVDLPGIISTSTQ 87 (294)
Q Consensus 57 S~~~I~leI~gP~~p----------~LTLVDLPGi~~~~~~ 87 (294)
|.-++.|.|...... .|+||||+|--+....
T Consensus 196 SH~i~~i~v~~~~~~~~~~~~~~~s~l~~vDLAGsE~~~~~ 236 (321)
T cd01374 196 SHTIFQLTIESRERGDSESGTVRVSTLNLIDLAGSERASQT 236 (321)
T ss_pred ccEEEEEEEEEEecCCCCCCcEEEEEEEEEECCCCCccccC
Confidence 455677777766543 4999999997665444
No 247
>KOG0780|consensus
Probab=56.43 E-value=21 Score=36.17 Aligned_cols=94 Identities=16% Similarity=0.198 Sum_probs=54.1
Q ss_pred CCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEecc
Q psy8958 68 PGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 68 P~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK 147 (294)
.+-.++.|||+-|-.+ |.+++-+...+ |.+.++ |+.| +.|++|+. .|.|...|+.+.-.-.=+=-+|||
T Consensus 181 ke~fdvIIvDTSGRh~-----qe~sLfeEM~~-v~~ai~-Pd~v-i~VmDasi---GQaae~Qa~aFk~~vdvg~vIlTK 249 (483)
T KOG0780|consen 181 KENFDVIIVDTSGRHK-----QEASLFEEMKQ-VSKAIK-PDEI-IFVMDASI---GQAAEAQARAFKETVDVGAVILTK 249 (483)
T ss_pred hcCCcEEEEeCCCchh-----hhHHHHHHHHH-HHhhcC-CCeE-EEEEeccc---cHhHHHHHHHHHHhhccceEEEEe
Confidence 3457899999999654 44443333332 334444 5544 45666664 466677777665544455568999
Q ss_pred chhhhhhhhccccccccccccccCC
Q psy8958 148 VSQQLIRIEKDGSVDAERSNVTDLG 172 (294)
Q Consensus 148 ~D~~~~~~~~~~~v~~~r~~~~~LG 172 (294)
.|=--..+.--..|.+-.+++.-+|
T Consensus 250 lDGhakGGgAlSaVaaTksPIiFIG 274 (483)
T KOG0780|consen 250 LDGHAKGGGALSAVAATKSPIIFIG 274 (483)
T ss_pred cccCCCCCceeeehhhhCCCEEEEe
Confidence 9843222222333555556666444
No 248
>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=56.43 E-value=36 Score=28.17 Aligned_cols=75 Identities=19% Similarity=0.239 Sum_probs=43.5
Q ss_pred EEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh-cHHHHhhhhcCCCCC
Q psy8958 62 SMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER-SNVTDLVSQMDPQGK 139 (294)
Q Consensus 62 ~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an-s~al~lar~~DP~G~ 139 (294)
.+++.+ ....|.+.|+||-. .-..+...|....+.+++++-..+.+ +.. ...+...+..-+...
T Consensus 41 ~~~~~~-~~~~l~i~D~~g~~-------------~~~~~~~~~~~~~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~ 106 (161)
T cd04117 41 TIEVDG-IKVRIQIWDTAGQE-------------RYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGV 106 (161)
T ss_pred EEEECC-EEEEEEEEeCCCcH-------------hHHhhHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCC
Confidence 344443 23578899999932 23356778889888777665433321 111 111222334444456
Q ss_pred eEEEEeccchh
Q psy8958 140 RTIFVLTKVSQ 150 (294)
Q Consensus 140 RTIGVlTK~D~ 150 (294)
--+.|-||.|+
T Consensus 107 ~iilvgnK~Dl 117 (161)
T cd04117 107 QKILIGNKADE 117 (161)
T ss_pred eEEEEEECccc
Confidence 67999999985
No 249
>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=55.96 E-value=16 Score=34.58 Aligned_cols=79 Identities=13% Similarity=0.218 Sum_probs=42.0
Q ss_pred CCceEEeCCCCcccCCCC-CChhHHHHHHHHhhhhcCCC-------------CceEEEeccCCCcchhcHHHHhhhhcCC
Q psy8958 71 QRMVLVDLPGIISTSTQD-MASDTRDLIRQMTQTHMSNP-------------NAIILCIQDGSVDAERSNVTDLVSQMDP 136 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~-q~~~~~~~i~~Lv~~Yi~~p-------------~sIILaV~~a~~D~ans~al~lar~~DP 136 (294)
.+|++||+||+-...... ....+..-|.+--..|+... ++.+-.+.|...-+...++ +.-+++..
T Consensus 63 l~LtiiDTpGfGd~i~n~~~~~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~L~~~Di-~~mk~Ls~ 141 (281)
T PF00735_consen 63 LNLTIIDTPGFGDNIDNSDCWEPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHGLKPLDI-EFMKRLSK 141 (281)
T ss_dssp EEEEEEEEC-CSSSSTHCHHHHHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSSS-HHHH-HHHHHHTT
T ss_pred eEEEEEeCCCccccccchhhhHHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCccchHHHH-HHHHHhcc
Confidence 489999999985433221 11334444444444555422 2334445554444444444 34455544
Q ss_pred CCCeEEEEeccchhh
Q psy8958 137 QGKRTIFVLTKVSQQ 151 (294)
Q Consensus 137 ~G~RTIGVlTK~D~~ 151 (294)
. .--|-||.|.|+.
T Consensus 142 ~-vNvIPvIaKaD~l 155 (281)
T PF00735_consen 142 R-VNVIPVIAKADTL 155 (281)
T ss_dssp T-SEEEEEESTGGGS
T ss_pred c-ccEEeEEeccccc
Confidence 3 5679999999974
No 250
>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=55.77 E-value=13 Score=35.15 Aligned_cols=41 Identities=15% Similarity=0.280 Sum_probs=24.5
Q ss_pred CceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCC
Q psy8958 72 RMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGS 119 (294)
Q Consensus 72 ~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~ 119 (294)
.++|||+||++..+..+ +.+. +-....|++...| +.|+.+.
T Consensus 63 ~i~lvD~pGl~~~a~~~--~glg----~~fL~~i~~~D~l-i~VV~~f 103 (274)
T cd01900 63 TIEFVDIAGLVKGASKG--EGLG----NKFLSHIREVDAI-AHVVRCF 103 (274)
T ss_pred EEEEEECCCcCCCCchh--hHHH----HHHHHHHHhCCEE-EEEEeCc
Confidence 48999999999765433 1222 2233456667755 5555553
No 251
>cd03110 Fer4_NifH_child This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.
Probab=55.61 E-value=30 Score=29.35 Aligned_cols=64 Identities=16% Similarity=0.221 Sum_probs=37.3
Q ss_pred CCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchh-cHHHHhhhhcCCCCCeEEEEecc
Q psy8958 69 GLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAER-SNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 69 ~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~an-s~al~lar~~DP~G~RTIGVlTK 147 (294)
+-.++++||+||.... .+...+..-+.+|+.+.+...++.. ..+++++++. +.....|+||
T Consensus 91 ~~~d~viiDtpp~~~~---------------~~~~~l~~aD~vliv~~~~~~~~~~~~~~~~~l~~~---~~~~~vV~N~ 152 (179)
T cd03110 91 EGAELIIIDGPPGIGC---------------PVIASLTGADAALLVTEPTPSGLHDLERAVELVRHF---GIPVGVVINK 152 (179)
T ss_pred cCCCEEEEECcCCCcH---------------HHHHHHHcCCEEEEEecCCcccHHHHHHHHHHHHHc---CCCEEEEEeC
Confidence 4678999999965421 1122334456666666665544332 3444555554 4456778899
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|.
T Consensus 153 ~~~ 155 (179)
T cd03110 153 YDL 155 (179)
T ss_pred CCC
Confidence 873
No 252
>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=55.29 E-value=20 Score=30.89 Aligned_cols=54 Identities=15% Similarity=0.102 Sum_probs=33.4
Q ss_pred HHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchhh
Q psy8958 94 RDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 94 ~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~~ 151 (294)
...+++++..|++... +||.|+++.. ...+....+... . .+...|.|+||.|+.
T Consensus 21 ~~~~~~~l~~~~~~ad-~il~VvD~~~-~~~~~~~~l~~~-~-~~~~~ilV~NK~Dl~ 74 (190)
T cd01855 21 EDFILNLLSSISPKKA-LVVHVVDIFD-FPGSLIPRLRLF-G-GNNPVILVGNKIDLL 74 (190)
T ss_pred HHHHHHHHHhcccCCc-EEEEEEECcc-CCCccchhHHHh-c-CCCcEEEEEEchhcC
Confidence 3448899999988877 5566666652 222211222112 1 357889999999963
No 253
>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=54.89 E-value=36 Score=29.55 Aligned_cols=75 Identities=12% Similarity=0.238 Sum_probs=47.6
Q ss_pred EEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC-cchh--cHHHHhhhhcCCCC
Q psy8958 62 SMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV-DAER--SNVTDLVSQMDPQG 138 (294)
Q Consensus 62 ~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~-D~an--s~al~lar~~DP~G 138 (294)
.+.+.+ ....|.|.|++|- +.-+.|...|++..+.+||+.--.+. .+.+ ....+.+++..|.
T Consensus 45 ~~~~~~-~~~~l~iwDtaG~-------------e~~~~~~~~~~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~~~~- 109 (182)
T cd04172 45 SFEIDT-QRIELSLWDTSGS-------------PYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPN- 109 (182)
T ss_pred EEEECC-EEEEEEEEECCCc-------------hhhHhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCC-
Confidence 344433 3467999999983 12345667789999887776654432 2232 2344566666664
Q ss_pred CeEEEEeccchhh
Q psy8958 139 KRTIFVLTKVSQQ 151 (294)
Q Consensus 139 ~RTIGVlTK~D~~ 151 (294)
.--|-|-||.|+.
T Consensus 110 ~piilVgNK~DL~ 122 (182)
T cd04172 110 TKMLLVGCKSDLR 122 (182)
T ss_pred CCEEEEeEChhhh
Confidence 6778899999963
No 254
>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=54.64 E-value=25 Score=29.10 Aligned_cols=74 Identities=20% Similarity=0.263 Sum_probs=40.8
Q ss_pred EEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC-cchhc--HHHHhhhhcCCCC
Q psy8958 62 SMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV-DAERS--NVTDLVSQMDPQG 138 (294)
Q Consensus 62 ~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~-D~ans--~al~lar~~DP~G 138 (294)
.+.+.+ ....|.|+|+||.-. ...+...|+..-+.++++..-.+. ++.+- ..+...+...+ +
T Consensus 41 ~~~~~~-~~~~l~i~Dt~G~~~-------------~~~~~~~~~~~~d~~i~v~~~~~~~s~~~~~~~~~~~~~~~~~-~ 105 (175)
T cd01870 41 DIEVDG-KQVELALWDTAGQED-------------YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP-N 105 (175)
T ss_pred EEEECC-EEEEEEEEeCCCchh-------------hhhccccccCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCC-C
Confidence 344444 335789999999521 122334566777766655433222 22222 12334444444 3
Q ss_pred CeEEEEeccchh
Q psy8958 139 KRTIFVLTKVSQ 150 (294)
Q Consensus 139 ~RTIGVlTK~D~ 150 (294)
.--+.|.||.|+
T Consensus 106 ~piilv~nK~Dl 117 (175)
T cd01870 106 VPIILVGNKKDL 117 (175)
T ss_pred CCEEEEeeChhc
Confidence 567899999995
No 255
>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=54.28 E-value=32 Score=29.68 Aligned_cols=73 Identities=21% Similarity=0.224 Sum_probs=44.5
Q ss_pred EEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc--HHHHhhhhcCCCCC
Q psy8958 63 MSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS--NVTDLVSQMDPQGK 139 (294)
Q Consensus 63 leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans--~al~lar~~DP~G~ 139 (294)
+.+.+ ....|.|.|+||- +..+.|...|..+.+.+|++..-.+.+ +.+. ......+...+ +.
T Consensus 44 ~~~~~-~~~~l~i~Dt~G~-------------e~~~~l~~~~~~~a~~~ilvydit~~~Sf~~~~~~w~~~i~~~~~-~~ 108 (191)
T cd01875 44 TAVDG-RTVSLNLWDTAGQ-------------EEYDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHCP-NV 108 (191)
T ss_pred EEECC-EEEEEEEEECCCc-------------hhhhhhhhhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCC-CC
Confidence 34433 4468999999983 233467778999999888776443322 2222 12233333334 35
Q ss_pred eEEEEeccchh
Q psy8958 140 RTIFVLTKVSQ 150 (294)
Q Consensus 140 RTIGVlTK~D~ 150 (294)
=-|-|-||.|+
T Consensus 109 piilvgNK~DL 119 (191)
T cd01875 109 PILLVGTKKDL 119 (191)
T ss_pred CEEEEEeChhh
Confidence 56889999996
No 256
>cd00106 KISc Kinesin motor domain. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), in some its is found in the middle (M-type), or C-terminal (C-type). N-type and M-type kinesins are (+) end-directed motors, while C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coil
Probab=53.34 E-value=80 Score=29.81 Aligned_cols=56 Identities=16% Similarity=0.260 Sum_probs=31.7
Q ss_pred CCCCCcHHHHHHHHHHHHhcccC---CC--ccccccceEEEEeCCCC---------CCceEEeCCCCcccCC
Q psy8958 29 LTKESDLVELRKEVERRMMNSVR---KG--KTVSNEVISMSVKGPGL---------QRMVLVDLPGIISTST 86 (294)
Q Consensus 29 ~~~~~d~~~i~~ei~~~m~~~~g---~~--~~~S~~~I~leI~gP~~---------p~LTLVDLPGi~~~~~ 86 (294)
+.+..++-++++.+... +..+ .+ ..=|.-.+.|.|..... -.|+||||.|--....
T Consensus 174 v~s~~e~~~~l~~~~~~--R~~~~t~~n~~ssRSH~i~~i~v~~~~~~~~~~~~~~s~l~~VDLaGse~~~~ 243 (328)
T cd00106 174 VGSAEDALSLLQKGLKN--RTTASTAMNERSSRSHAIFTIHVEQRNTTNDGRSIKSSKLNLVDLAGSERAKK 243 (328)
T ss_pred eCCHHHHHHHHHHHHhh--cCcccCcCCCCcCcCcEEEEEEEEEEecCCCCccEEEEEEEEEECCCCCcccc
Confidence 45555666666555332 2111 11 12245566777665443 3699999999877654
No 257
>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=52.07 E-value=23 Score=29.64 Aligned_cols=22 Identities=23% Similarity=0.525 Sum_probs=14.3
Q ss_pred ccccceEEEEeCCCCCCceEEeCCCC
Q psy8958 56 VSNEVISMSVKGPGLQRMVLVDLPGI 81 (294)
Q Consensus 56 ~S~~~I~leI~gP~~p~LTLVDLPGi 81 (294)
.+.+...+.+. ....|||+||+
T Consensus 134 ~t~~~~~~~~~----~~~~liDtPG~ 155 (155)
T cd01849 134 TTTSQQEVKLD----NKIKLLDTPGI 155 (155)
T ss_pred cccceEEEEec----CCEEEEECCCC
Confidence 34444544432 56899999996
No 258
>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=51.57 E-value=36 Score=31.29 Aligned_cols=69 Identities=10% Similarity=0.162 Sum_probs=38.3
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc-HHHHhhhhc---------CCCC
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS-NVTDLVSQM---------DPQG 138 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans-~al~lar~~---------DP~G 138 (294)
...|.|.|+||... ...|-..|+...+.+||+....+.+ +.+. ..++...+. ....
T Consensus 47 ~~~l~I~Dt~G~~~-------------~~~~~~~~~~~ad~iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~ 113 (247)
T cd04143 47 VYQLDILDTSGNHP-------------FPAMRRLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVK 113 (247)
T ss_pred EEEEEEEECCCChh-------------hhHHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCC
Confidence 35788999999532 1234555777788777654433321 1111 111111111 2234
Q ss_pred CeEEEEeccchhh
Q psy8958 139 KRTIFVLTKVSQQ 151 (294)
Q Consensus 139 ~RTIGVlTK~D~~ 151 (294)
.-.|-|.||.|+.
T Consensus 114 ~piIivgNK~Dl~ 126 (247)
T cd04143 114 IPMVICGNKADRD 126 (247)
T ss_pred CcEEEEEECccch
Confidence 6789999999963
No 259
>KOG1489|consensus
Probab=50.01 E-value=17 Score=35.87 Aligned_cols=80 Identities=18% Similarity=0.271 Sum_probs=46.1
Q ss_pred EEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc---chhcHHHHhhhhcC----C
Q psy8958 64 SVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD---AERSNVTDLVSQMD----P 136 (294)
Q Consensus 64 eI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D---~ans~al~lar~~D----P 136 (294)
.+..-+...+|+-|+||||+.+..+- -+-... .++|+.- .+.+.|++++.- -.++..-.|..++. -
T Consensus 237 ~v~yddf~q~tVADiPGiI~GAh~nk--GlG~~F----LrHiER~-~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~ 309 (366)
T KOG1489|consen 237 TVNYDDFSQITVADIPGIIEGAHMNK--GLGYKF----LRHIERC-KGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKG 309 (366)
T ss_pred eeeccccceeEeccCccccccccccC--cccHHH----HHHHHhh-ceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhh
Confidence 34444555699999999999886532 111111 1222222 366778887754 33444444444443 1
Q ss_pred CCCe-EEEEeccchh
Q psy8958 137 QGKR-TIFVLTKVSQ 150 (294)
Q Consensus 137 ~G~R-TIGVlTK~D~ 150 (294)
-..| .+-|..|.|+
T Consensus 310 L~~rp~liVaNKiD~ 324 (366)
T KOG1489|consen 310 LADRPALIVANKIDL 324 (366)
T ss_pred hccCceEEEEeccCc
Confidence 2345 7899999984
No 260
>PLN00116 translation elongation factor EF-2 subunit; Provisional
Probab=49.97 E-value=35 Score=37.20 Aligned_cols=66 Identities=14% Similarity=0.198 Sum_probs=37.3
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchh
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~ 150 (294)
..++|||+||... ...+.+..+ +...+. +.|++|...+..+. ..+.+.+...+.-.|-+++|+|+
T Consensus 98 ~~inliDtPGh~d--------F~~e~~~al-----~~~D~a-ilVvda~~Gv~~~t-~~~~~~~~~~~~p~i~~iNK~D~ 162 (843)
T PLN00116 98 YLINLIDSPGHVD--------FSSEVTAAL-----RITDGA-LVVVDCIEGVCVQT-ETVLRQALGERIRPVLTVNKMDR 162 (843)
T ss_pred eEEEEECCCCHHH--------HHHHHHHHH-----hhcCEE-EEEEECCCCCcccH-HHHHHHHHHCCCCEEEEEECCcc
Confidence 3468999999632 222222222 334444 44555555554332 22334444456778999999997
Q ss_pred h
Q psy8958 151 Q 151 (294)
Q Consensus 151 ~ 151 (294)
.
T Consensus 163 ~ 163 (843)
T PLN00116 163 C 163 (843)
T ss_pred c
Confidence 6
No 261
>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=49.78 E-value=22 Score=30.80 Aligned_cols=75 Identities=17% Similarity=0.166 Sum_probs=48.0
Q ss_pred EEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC-cchhc--HHHHhhhhcCCCC
Q psy8958 62 SMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV-DAERS--NVTDLVSQMDPQG 138 (294)
Q Consensus 62 ~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~-D~ans--~al~lar~~DP~G 138 (294)
.+.+.| ....|.|.|++|-- ..+.|...|+++-+++||+.--.+. -+.+. ..+...+++.+ .
T Consensus 41 ~~~~~~-~~v~l~i~Dt~G~~-------------~~~~~~~~~~~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~~-~ 105 (176)
T cd04133 41 NVSVDG-NTVNLGLWDTAGQE-------------DYNRLRPLSYRGADVFVLAFSLISRASYENVLKKWVPELRHYAP-N 105 (176)
T ss_pred EEEECC-EEEEEEEEECCCCc-------------cccccchhhcCCCcEEEEEEEcCCHHHHHHHHHHHHHHHHHhCC-C
Confidence 345544 34689999999942 2345667799988888877544332 23332 24455555554 4
Q ss_pred CeEEEEeccchhh
Q psy8958 139 KRTIFVLTKVSQQ 151 (294)
Q Consensus 139 ~RTIGVlTK~D~~ 151 (294)
.-.|-|-||.|+.
T Consensus 106 ~piilvgnK~Dl~ 118 (176)
T cd04133 106 VPIVLVGTKLDLR 118 (176)
T ss_pred CCEEEEEeChhhc
Confidence 6778899999963
No 262
>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.
Probab=49.22 E-value=42 Score=26.55 Aligned_cols=61 Identities=16% Similarity=0.261 Sum_probs=34.0
Q ss_pred CceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch-hcHHHHhhhhcCCC-CCeEEEEecc
Q psy8958 72 RMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE-RSNVTDLVSQMDPQ-GKRTIFVLTK 147 (294)
Q Consensus 72 ~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a-ns~al~lar~~DP~-G~RTIGVlTK 147 (294)
+..+||+|+.... .... .+..-..+|+.+.+...++. ....+++.++.... ..|...|+++
T Consensus 44 D~IIiDtpp~~~~-----------~~~~----~l~~aD~vlvvv~~~~~s~~~~~~~~~~l~~~~~~~~~~~~lVvNr 106 (106)
T cd03111 44 DYVVVDLGRSLDE-----------VSLA----ALDQADRVFLVTQQDLPSIRNAKRLLELLRVLDYSLPAKIELVLNR 106 (106)
T ss_pred CEEEEeCCCCcCH-----------HHHH----HHHHcCeEEEEecCChHHHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence 8999999886521 1111 22233445555555444444 33445666676654 5677677654
No 263
>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=49.20 E-value=32 Score=31.15 Aligned_cols=68 Identities=13% Similarity=0.048 Sum_probs=39.2
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhcH-HHHhhhhcCCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERSN-VTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans~-al~lar~~DP~G~RTIGVlTK~ 148 (294)
.+|.|+|+||--. .+.|...|++.-+.+|+++-..+.+ +.+.. .+....+......-.|.|.||.
T Consensus 44 ~~l~iwDt~G~e~-------------~~~l~~~~~~~ad~~IlV~Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~ 110 (220)
T cd04126 44 YNISIWDTAGREQ-------------FHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKL 110 (220)
T ss_pred EEEEEEeCCCccc-------------chhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECc
Confidence 5689999999432 2346677888888766654432211 22211 1122223333345678999999
Q ss_pred hhh
Q psy8958 149 SQQ 151 (294)
Q Consensus 149 D~~ 151 (294)
|+.
T Consensus 111 DL~ 113 (220)
T cd04126 111 DLT 113 (220)
T ss_pred ccc
Confidence 963
No 264
>cd01369 KISc_KHC_KIF5 Kinesin motor domain, kinesin heavy chain (KHC) or KIF5-like subgroup. Members of this group have been associated with organelle transport. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-c
Probab=48.25 E-value=1.3e+02 Score=28.63 Aligned_cols=30 Identities=27% Similarity=0.410 Sum_probs=20.6
Q ss_pred cccceEEEEeCCC-------CCCceEEeCCCCcccCC
Q psy8958 57 SNEVISMSVKGPG-------LQRMVLVDLPGIISTST 86 (294)
Q Consensus 57 S~~~I~leI~gP~-------~p~LTLVDLPGi~~~~~ 86 (294)
|.-++.|+|...+ .-.|+||||.|--+...
T Consensus 203 SH~i~~i~v~~~~~~~~~~~~s~l~~VDLAGsE~~~~ 239 (325)
T cd01369 203 SHSIFLITLKQENVETGSKKRGKLFLVDLAGSEKVSK 239 (325)
T ss_pred ccEEEEEEEEEEecCCCCEEEEEEEEEECCCCCcccc
Confidence 4456777776543 24699999999876543
No 265
>KOG0447|consensus
Probab=47.96 E-value=2.9 Score=43.94 Aligned_cols=50 Identities=56% Similarity=0.725 Sum_probs=39.1
Q ss_pred CCCCeEEEEeccchh----hhhhhhccccccccccccccCCccccccCCcchhh
Q psy8958 136 PQGKRTIFVLTKVSQ----QLIRIEKDGSVDAERSNVTDLGSVMDLQGKHTIFV 185 (294)
Q Consensus 136 P~G~RTIGVlTK~D~----~~~~~~~~~~v~~~r~~~~~LG~~~d~~~~~t~~~ 185 (294)
|+-.-||.-+||..+ +++.|.++|+||+.|+++++|.+.+|+.|.+|+++
T Consensus 432 ~dTKd~I~~msKayM~NPNAIILCIQDGSVDAERSnVTDLVsq~DP~GrRTIfV 485 (980)
T KOG0447|consen 432 PDTKETIFSISKAYMQNPNAIILCIQDGSVDAERSIVTDLVSQMDPHGRRTIFV 485 (980)
T ss_pred ccchHHHHHHHHHHhcCCCeEEEEeccCCcchhhhhHHHHHHhcCCCCCeeEEE
Confidence 333445555555544 57788999999999999999999999999888774
No 266
>cd01372 KISc_KIF4 Kinesin motor domain, KIF4-like subfamily. Members of this group seem to perform a variety of functions, and have been implicated in neuronal organelle transport and chromosome segregation during mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain,
Probab=46.73 E-value=1.2e+02 Score=28.88 Aligned_cols=30 Identities=17% Similarity=0.331 Sum_probs=20.5
Q ss_pred cccceEEEEeCCCC-----------------CCceEEeCCCCcccCC
Q psy8958 57 SNEVISMSVKGPGL-----------------QRMVLVDLPGIISTST 86 (294)
Q Consensus 57 S~~~I~leI~gP~~-----------------p~LTLVDLPGi~~~~~ 86 (294)
|.-++.|+|..... -.|+||||.|--+...
T Consensus 206 sH~i~~i~v~~~~~~~~~~~~~~~~~~~~~~s~l~~VDLAGsE~~~~ 252 (341)
T cd01372 206 SHAIFTITLEQTRKNGPIAPMSGDDKNSTLTSKFHFVDLAGSERLKK 252 (341)
T ss_pred CcEEEEEEEEEEecCCccccccccCCCceeeEEEEEEECCCCccccc
Confidence 44567777755433 4689999999776543
No 267
>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=45.77 E-value=30 Score=29.41 Aligned_cols=50 Identities=14% Similarity=0.196 Sum_probs=30.3
Q ss_pred HHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchh
Q psy8958 97 IRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 97 i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~ 150 (294)
+-+.+...+++-. +||.|+++..-+... ...+.... .+...|.|+||.|+
T Consensus 9 ~~~~~~~~i~~aD-~il~v~D~~~~~~~~-~~~i~~~~--~~k~~ilVlNK~Dl 58 (171)
T cd01856 9 ALRQIKEKLKLVD-LVIEVRDARIPLSSR-NPLLEKIL--GNKPRIIVLNKADL 58 (171)
T ss_pred HHHHHHHHHhhCC-EEEEEeeccCccCcC-ChhhHhHh--cCCCEEEEEehhhc
Confidence 3444577888888 777788776322221 11222222 23679999999996
No 268
>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=45.76 E-value=42 Score=30.46 Aligned_cols=42 Identities=26% Similarity=0.403 Sum_probs=24.8
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCC
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGS 119 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~ 119 (294)
-.+.++|+||+........ ...+ .+..++++... +|.|++++
T Consensus 47 ~~i~l~DtpG~~~~~~~~~-----~~~~-~~l~~~~~ad~-il~V~D~t 88 (233)
T cd01896 47 AKIQLLDLPGIIEGAADGK-----GRGR-QVIAVARTADL-ILMVLDAT 88 (233)
T ss_pred eEEEEEECCCcccccccch-----hHHH-HHHHhhccCCE-EEEEecCC
Confidence 3689999999887553221 1122 22456777775 45555554
No 269
>cd01364 KISc_BimC_Eg5 Kinesin motor domain, BimC/Eg5 spindle pole proteins, participate in spindle assembly and chromosome segregation during cell division. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type), N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil d
Probab=43.70 E-value=2.3e+02 Score=27.23 Aligned_cols=34 Identities=18% Similarity=0.263 Sum_probs=20.2
Q ss_pred hhhhcCC--CCceEEEeccCCCcch-hcHHHHhhhhc
Q psy8958 101 TQTHMSN--PNAIILCIQDGSVDAE-RSNVTDLVSQM 134 (294)
Q Consensus 101 v~~Yi~~--p~sIILaV~~a~~D~a-ns~al~lar~~ 134 (294)
.+.++.. .-++|.+|.|+..++. +...|++|.++
T Consensus 304 L~~~Lgg~s~t~~I~~vsp~~~~~~eTl~TL~~a~~~ 340 (352)
T cd01364 304 LQDSLGGRTKTSIIATISPASINLEETLSTLEYAHRA 340 (352)
T ss_pred HHHhcCCCceEEEEEEeCCCcccHHHHHHHHHHHHHH
Confidence 3445543 2356777777776654 55667777665
No 270
>cd01367 KISc_KIF2_like Kinesin motor domain, KIF2-like group. KIF2 is a protein expressed in neurons, which has been associated with axonal transport and neuron development; alternative splice forms have been implicated in lysosomal translocation. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found in the middle (M-type) of the protein chain. M-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second (KIF2 may be slower). To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and lo
Probab=43.31 E-value=1.5e+02 Score=28.20 Aligned_cols=29 Identities=21% Similarity=0.431 Sum_probs=21.0
Q ss_pred cccceEEEEeCCC----CCCceEEeCCCCcccC
Q psy8958 57 SNEVISMSVKGPG----LQRMVLVDLPGIISTS 85 (294)
Q Consensus 57 S~~~I~leI~gP~----~p~LTLVDLPGi~~~~ 85 (294)
|.-++.|.|.... .-.|+||||+|--+..
T Consensus 205 SH~i~~i~v~~~~~~~~~s~l~~vDLAGsE~~~ 237 (322)
T cd01367 205 SHAILQIILKNKKLNKLLGKLSFIDLAGSERGA 237 (322)
T ss_pred ceEEEEEEEEEecCCeeEEEEEEeecCCccccc
Confidence 4557778877644 3569999999977654
No 271
>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=43.16 E-value=61 Score=29.39 Aligned_cols=75 Identities=11% Similarity=0.228 Sum_probs=46.1
Q ss_pred EEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc--HHHHhhhhcCCCC
Q psy8958 62 SMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS--NVTDLVSQMDPQG 138 (294)
Q Consensus 62 ~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans--~al~lar~~DP~G 138 (294)
.+.+.+ ....|.|.|++|-. ....+...|+..-+.+||+.-..+.+ +.+- ......+...| +
T Consensus 41 ~~~~~~-~~v~L~iwDt~G~e-------------~~~~l~~~~~~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~~~-~ 105 (222)
T cd04173 41 SFEIDK-RRIELNMWDTSGSS-------------YYDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFCP-N 105 (222)
T ss_pred EEEECC-EEEEEEEEeCCCcH-------------HHHHHhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCC-C
Confidence 344444 34679999999832 22345566888888877776554432 2221 12234455555 4
Q ss_pred CeEEEEeccchhh
Q psy8958 139 KRTIFVLTKVSQQ 151 (294)
Q Consensus 139 ~RTIGVlTK~D~~ 151 (294)
..-|-|.||.|+.
T Consensus 106 ~piiLVgnK~DL~ 118 (222)
T cd04173 106 AKVVLVGCKLDMR 118 (222)
T ss_pred CCEEEEEECcccc
Confidence 7789999999974
No 272
>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=42.95 E-value=39 Score=27.77 Aligned_cols=49 Identities=18% Similarity=0.243 Sum_probs=31.2
Q ss_pred hhhhcCCCCceEEEeccCCCcchhc--HHHHhhhhcCCCCCeEEEEeccchhh
Q psy8958 101 TQTHMSNPNAIILCIQDGSVDAERS--NVTDLVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 101 v~~Yi~~p~sIILaV~~a~~D~ans--~al~lar~~DP~G~RTIGVlTK~D~~ 151 (294)
+.+.++.-+ +||.|+++..-.... ...++.++.. .+...|-|+||.|+.
T Consensus 5 ~~~~i~~aD-~vl~ViD~~~p~~~~~~~l~~~l~~~~-~~k~~iivlNK~DL~ 55 (141)
T cd01857 5 LWRVVERSD-IVVQIVDARNPLLFRPPDLERYVKEVD-PRKKNILLLNKADLL 55 (141)
T ss_pred HHHHHhhCC-EEEEEEEccCCcccCCHHHHHHHHhcc-CCCcEEEEEechhcC
Confidence 445566666 666777776544433 4455555543 357889999999963
No 273
>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=42.58 E-value=32 Score=28.29 Aligned_cols=11 Identities=36% Similarity=0.896 Sum_probs=10.0
Q ss_pred CceEEeCCCCc
Q psy8958 72 RMVLVDLPGII 82 (294)
Q Consensus 72 ~LTLVDLPGi~ 82 (294)
.+.|+|+||+.
T Consensus 129 ~~~i~DtpG~~ 139 (141)
T cd01857 129 TITLCDCPGLV 139 (141)
T ss_pred CEEEEECCCcC
Confidence 68999999986
No 274
>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=42.52 E-value=34 Score=28.52 Aligned_cols=40 Identities=20% Similarity=0.287 Sum_probs=27.7
Q ss_pred eEEEeccCCCcch--hcHHHHhhhhcCCCCCeEEEEeccchhh
Q psy8958 111 IILCIQDGSVDAE--RSNVTDLVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 111 IILaV~~a~~D~a--ns~al~lar~~DP~G~RTIGVlTK~D~~ 151 (294)
+||.|+++..-+. .....+..+.. ..+...|-|++|.|+.
T Consensus 11 ~il~VvD~~~p~~~~~~~i~~~l~~~-~~~~p~ilVlNKiDl~ 52 (157)
T cd01858 11 VVIQVLDARDPMGTRCKHVEEYLKKE-KPHKHLIFVLNKCDLV 52 (157)
T ss_pred EEEEEEECCCCccccCHHHHHHHHhc-cCCCCEEEEEEchhcC
Confidence 7888888875432 44555666554 3357899999999963
No 275
>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]
Probab=42.45 E-value=1e+02 Score=31.53 Aligned_cols=64 Identities=22% Similarity=0.251 Sum_probs=41.1
Q ss_pred CceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCC--CcchhcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 72 RMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGS--VDAERSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 72 ~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~--~D~ans~al~lar~~DP~G~RTIGVlTK~D 149 (294)
.++|||.||.- +.|++|+..----+ --|.|++|+ .+..+-+-+...+-+.- .+-|-||||.|
T Consensus 51 ~~~fIDvpgh~------------~~i~~miag~~~~d--~alLvV~~deGl~~qtgEhL~iLdllgi--~~giivltk~D 114 (447)
T COG3276 51 VMGFIDVPGHP------------DFISNLLAGLGGID--YALLVVAADEGLMAQTGEHLLILDLLGI--KNGIIVLTKAD 114 (447)
T ss_pred ceEEeeCCCcH------------HHHHHHHhhhcCCc--eEEEEEeCccCcchhhHHHHHHHHhcCC--CceEEEEeccc
Confidence 79999999953 56667766532222 345677776 45555555655555532 45599999999
Q ss_pred hh
Q psy8958 150 QQ 151 (294)
Q Consensus 150 ~~ 151 (294)
..
T Consensus 115 ~~ 116 (447)
T COG3276 115 RV 116 (447)
T ss_pred cc
Confidence 53
No 276
>KOG1145|consensus
Probab=42.20 E-value=1e+02 Score=32.72 Aligned_cols=81 Identities=11% Similarity=0.220 Sum_probs=53.4
Q ss_pred CccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcc--hhcHHHHh
Q psy8958 53 GKTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDA--ERSNVTDL 130 (294)
Q Consensus 53 ~~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~--ans~al~l 130 (294)
..|++-..=...|.-|+.-..||.|+||--.. ..|=.+=. +-.-|++.|++|..-+ -+-+|.+.
T Consensus 183 ~GGITQhIGAF~V~~p~G~~iTFLDTPGHaAF-------------~aMRaRGA-~vtDIvVLVVAadDGVmpQT~EaIkh 248 (683)
T KOG1145|consen 183 AGGITQHIGAFTVTLPSGKSITFLDTPGHAAF-------------SAMRARGA-NVTDIVVLVVAADDGVMPQTLEAIKH 248 (683)
T ss_pred cCCccceeceEEEecCCCCEEEEecCCcHHHH-------------HHHHhccC-ccccEEEEEEEccCCccHhHHHHHHH
Confidence 34555555555666677788999999994332 22222221 2233888888888654 46678889
Q ss_pred hhhcCCCCCeEEEEeccchh
Q psy8958 131 VSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 131 ar~~DP~G~RTIGVlTK~D~ 150 (294)
|+..+ ---|--|||+|.
T Consensus 249 Ak~A~---VpiVvAinKiDk 265 (683)
T KOG1145|consen 249 AKSAN---VPIVVAINKIDK 265 (683)
T ss_pred HHhcC---CCEEEEEeccCC
Confidence 99885 457888999995
No 277
>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=42.13 E-value=24 Score=29.43 Aligned_cols=40 Identities=25% Similarity=0.357 Sum_probs=24.6
Q ss_pred eEEEeccCCCcchhcHHHHhh-hhcCCCCCeEEEEeccchhh
Q psy8958 111 IILCIQDGSVDAERSNVTDLV-SQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 111 IILaV~~a~~D~ans~al~la-r~~DP~G~RTIGVlTK~D~~ 151 (294)
++|.|+++..-.. +....+. ..+-..+...|.|++|+|+.
T Consensus 2 vvl~VvD~~~p~~-~~~~~i~~~~~~~~~~p~IiVlNK~Dl~ 42 (155)
T cd01849 2 VILEVLDARDPLG-TRSPDIERVLIKEKGKKLILVLNKADLV 42 (155)
T ss_pred EEEEEEeccCCcc-ccCHHHHHHHHhcCCCCEEEEEechhcC
Confidence 5777888764222 2222233 33334568899999999963
No 278
>KOG1423|consensus
Probab=41.93 E-value=51 Score=32.61 Aligned_cols=85 Identities=16% Similarity=0.314 Sum_probs=50.9
Q ss_pred EEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCC--CcchhcHHHHhhhhcCCCCCe
Q psy8958 63 MSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGS--VDAERSNVTDLVSQMDPQGKR 140 (294)
Q Consensus 63 leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~--~D~ans~al~lar~~DP~G~R 140 (294)
+-|...+.-.|.|+|+||++.....-+...+.. +..=...-+++..++ ++|++|. .-.-+-.+|.+.+++--. -
T Consensus 112 lgi~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s-~lq~~~~a~q~AD~v-vVv~Das~tr~~l~p~vl~~l~~ys~i--p 187 (379)
T KOG1423|consen 112 LGIITSGETQLVFYDTPGLVSKKMHRRHHLMMS-VLQNPRDAAQNADCV-VVVVDASATRTPLHPRVLHMLEEYSKI--P 187 (379)
T ss_pred eEEEecCceEEEEecCCcccccchhhhHHHHHH-hhhCHHHHHhhCCEE-EEEEeccCCcCccChHHHHHHHHHhcC--C
Confidence 345566677899999999997654332222211 111233445556644 4455555 344456677888887543 3
Q ss_pred EEEEeccchhh
Q psy8958 141 TIFVLTKVSQQ 151 (294)
Q Consensus 141 TIGVlTK~D~~ 151 (294)
.|-|+.|.|..
T Consensus 188 s~lvmnkid~~ 198 (379)
T KOG1423|consen 188 SILVMNKIDKL 198 (379)
T ss_pred ceeeccchhcc
Confidence 57799998864
No 279
>PRK09601 GTP-binding protein YchF; Reviewed
Probab=41.90 E-value=29 Score=34.37 Aligned_cols=43 Identities=12% Similarity=0.247 Sum_probs=24.8
Q ss_pred CceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc
Q psy8958 72 RMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD 121 (294)
Q Consensus 72 ~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D 121 (294)
.+.|||+||++..+..+ +.+ -+-....|++.. +|+-|+.+..|
T Consensus 67 ~i~lvD~pGL~~~a~~g--~gl----g~~fL~~i~~aD-~li~VVd~f~d 109 (364)
T PRK09601 67 TIEFVDIAGLVKGASKG--EGL----GNQFLANIREVD-AIVHVVRCFED 109 (364)
T ss_pred eEEEEECCCCCCCCChH--HHH----HHHHHHHHHhCC-EEEEEEeCCcc
Confidence 48999999999755432 111 122333455566 45556666543
No 280
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=41.50 E-value=67 Score=33.08 Aligned_cols=69 Identities=19% Similarity=0.294 Sum_probs=39.5
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchh
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQ 150 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~ 150 (294)
.+..+||++|..+.. ....+++. ++..... |.- .+.|++|+... ....+.++.+...+ .+=.|+||+|-
T Consensus 335 ~d~VLIDTaGr~~~d-----~~~~e~~~-~l~~~~~-p~e-~~LVLdAt~~~--~~l~~i~~~f~~~~-~~g~IlTKlDe 403 (484)
T PRK06995 335 KHIVLIDTIGMSQRD-----RMVSEQIA-MLHGAGA-PVK-RLLLLNATSHG--DTLNEVVQAYRGPG-LAGCILTKLDE 403 (484)
T ss_pred CCeEEeCCCCcChhh-----HHHHHHHH-HHhccCC-CCe-eEEEEeCCCcH--HHHHHHHHHhccCC-CCEEEEeCCCC
Confidence 478999999976422 11222222 3333222 333 34566666433 44556777777654 56679999983
No 281
>KOG1954|consensus
Probab=41.49 E-value=12 Score=37.72 Aligned_cols=85 Identities=21% Similarity=0.267 Sum_probs=55.5
Q ss_pred EEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch--hcHHHHhhhhcCCCCC
Q psy8958 62 SMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE--RSNVTDLVSQMDPQGK 139 (294)
Q Consensus 62 ~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a--ns~al~lar~~DP~G~ 139 (294)
+..+-.|-+-..|+||+|||-......-+ -..-.-..+.=|+..-.-|||.--++.-|+. .+.++..-|..+ .
T Consensus 138 csqmp~~vLe~vtiVdtPGILsgeKQris--R~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG~E---d 212 (532)
T KOG1954|consen 138 CSQLPNQVLESVTIVDTPGILSGEKQRIS--RGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKGHE---D 212 (532)
T ss_pred HhcCChhhhhheeeeccCcccccchhccc--ccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhCCc---c
Confidence 33444555667899999999876643111 1111224455667777778888888888875 556666655554 4
Q ss_pred eEEEEeccchhh
Q psy8958 140 RTIFVLTKVSQQ 151 (294)
Q Consensus 140 RTIGVlTK~D~~ 151 (294)
.+=-||.|.|++
T Consensus 213 kiRVVLNKADqV 224 (532)
T KOG1954|consen 213 KIRVVLNKADQV 224 (532)
T ss_pred eeEEEecccccc
Confidence 566799999975
No 282
>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=41.44 E-value=48 Score=29.05 Aligned_cols=74 Identities=15% Similarity=0.157 Sum_probs=45.1
Q ss_pred EEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC-cchhc-HHHHhhhhcCCCCCe
Q psy8958 63 MSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV-DAERS-NVTDLVSQMDPQGKR 140 (294)
Q Consensus 63 leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~-D~ans-~al~lar~~DP~G~R 140 (294)
+.+.+ ....|.|.|+||.- .-+.|...|.+..+++||+.-..+. .+.+. ..++..++.-| +.-
T Consensus 48 i~~~~-~~~~l~iwDt~G~~-------------~~~~l~~~~~~~ad~illVfD~t~~~Sf~~~~~w~~~i~~~~~-~~p 112 (189)
T cd04121 48 ILLDG-RRVKLQLWDTSGQG-------------RFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHAP-GVP 112 (189)
T ss_pred EEECC-EEEEEEEEeCCCcH-------------HHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCC-CCC
Confidence 44433 34678999999942 2346778899988877776654432 11111 12333444444 466
Q ss_pred EEEEeccchhh
Q psy8958 141 TIFVLTKVSQQ 151 (294)
Q Consensus 141 TIGVlTK~D~~ 151 (294)
-|-|-||.|+.
T Consensus 113 iilVGNK~DL~ 123 (189)
T cd04121 113 KILVGNRLHLA 123 (189)
T ss_pred EEEEEECccch
Confidence 78899999963
No 283
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=40.75 E-value=97 Score=31.51 Aligned_cols=81 Identities=17% Similarity=0.256 Sum_probs=50.1
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-------chh--
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-------AER-- 124 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-------~an-- 124 (294)
.+++-+.=.....-+ -+++||+|.|| . .+-|.+|+...-+.. +=|| |++|+.+ ...
T Consensus 69 rGvTi~~~~~~fet~-k~~~tIiDaPG-H-----------rdFvknmItGasqAD-~aVL-VV~a~~~efE~g~~~~gQt 133 (428)
T COG5256 69 RGVTIDVAHSKFETD-KYNFTIIDAPG-H-----------RDFVKNMITGASQAD-VAVL-VVDARDGEFEAGFGVGGQT 133 (428)
T ss_pred cceEEEEEEEEeecC-CceEEEeeCCc-h-----------HHHHHHhhcchhhcc-EEEE-EEECCCCccccccccCCch
Confidence 455555544444444 45899999999 3 256777877665544 3444 4555544 333
Q ss_pred cHHHHhhhhcCCCCCeEEEEeccchhh
Q psy8958 125 SNVTDLVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 125 s~al~lar~~DP~G~RTIGVlTK~D~~ 151 (294)
-+-.-||+-.- =..-|-.++|.|..
T Consensus 134 rEH~~La~tlG--i~~lIVavNKMD~v 158 (428)
T COG5256 134 REHAFLARTLG--IKQLIVAVNKMDLV 158 (428)
T ss_pred hHHHHHHHhcC--CceEEEEEEccccc
Confidence 24455666664 35778889999953
No 284
>PRK12289 GTPase RsgA; Reviewed
Probab=40.37 E-value=26 Score=34.33 Aligned_cols=52 Identities=12% Similarity=0.239 Sum_probs=31.0
Q ss_pred HHhhhhcCCCCceEEEeccCC-CcchhcHHHHhhhhcCCCCCeEEEEeccchhh
Q psy8958 99 QMTQTHMSNPNAIILCIQDGS-VDAERSNVTDLVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 99 ~Lv~~Yi~~p~sIILaV~~a~-~D~ans~al~lar~~DP~G~RTIGVlTK~D~~ 151 (294)
.|.+.++.+-..| |.|+++. .++.....-++...+-..|...|-|+||+|+.
T Consensus 81 ~L~R~~~aNvD~v-LlV~d~~~p~~~~~~LdR~L~~a~~~~ip~ILVlNK~DLv 133 (352)
T PRK12289 81 ELDRPPVANADQI-LLVFALAEPPLDPWQLSRFLVKAESTGLEIVLCLNKADLV 133 (352)
T ss_pred ceechhhhcCCEE-EEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEEchhcC
Confidence 4566678887744 4555554 44443332333223334578899999999974
No 285
>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=40.15 E-value=44 Score=28.09 Aligned_cols=65 Identities=11% Similarity=0.096 Sum_probs=37.2
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhc-HHHHhhhhc-CCCCCeEEEEeccc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERS-NVTDLVSQM-DPQGKRTIFVLTKV 148 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans-~al~lar~~-DP~G~RTIGVlTK~ 148 (294)
..|.+.|++|-... ..|...|+..-+.+|++ .+++. ..+- .+..+.+.+ ...+.-.|.|+||.
T Consensus 54 ~~l~~~d~~g~~~~-------------~~~~~~~~~~~d~~llv-~d~~~-~~s~~~~~~~~~~~~~~~~~p~iiv~NK~ 118 (169)
T cd01892 54 KYLILREVGEDEVA-------------ILLNDAELAACDVACLV-YDSSD-PKSFSYCAEVYKKYFMLGEIPCLFVAAKA 118 (169)
T ss_pred EEEEEEecCCcccc-------------cccchhhhhcCCEEEEE-EeCCC-HHHHHHHHHHHHHhccCCCCeEEEEEEcc
Confidence 46788898874321 24555677777766555 45443 2221 222333333 22346789999999
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|+
T Consensus 119 Dl 120 (169)
T cd01892 119 DL 120 (169)
T ss_pred cc
Confidence 95
No 286
>PTZ00258 GTP-binding protein; Provisional
Probab=40.09 E-value=87 Score=31.33 Aligned_cols=41 Identities=10% Similarity=0.292 Sum_probs=24.2
Q ss_pred CceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCC
Q psy8958 72 RMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGS 119 (294)
Q Consensus 72 ~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~ 119 (294)
.+.|||+||++..+..+ +.+.. -....|++.+.| |.|+.+.
T Consensus 86 qi~lvDtpGLv~ga~~g--~gLg~----~fL~~Ir~aD~i-l~VVd~f 126 (390)
T PTZ00258 86 QLDITDIAGLVKGASEG--EGLGN----AFLSHIRAVDGI-YHVVRAF 126 (390)
T ss_pred CeEEEECCCcCcCCcch--hHHHH----HHHHHHHHCCEE-EEEEeCC
Confidence 48999999999766543 22222 223345566654 5555553
No 287
>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=39.87 E-value=42 Score=31.67 Aligned_cols=14 Identities=14% Similarity=0.235 Sum_probs=11.6
Q ss_pred CCCCceEEeCCCCc
Q psy8958 69 GLQRMVLVDLPGII 82 (294)
Q Consensus 69 ~~p~LTLVDLPGi~ 82 (294)
..+++.|||+||+-
T Consensus 125 ~g~D~viidT~G~~ 138 (300)
T TIGR00750 125 AGYDVIIVETVGVG 138 (300)
T ss_pred CCCCEEEEeCCCCc
Confidence 45789999999964
No 288
>cd03276 ABC_SMC6_euk Eukaryotic SMC6 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (for
Probab=39.80 E-value=41 Score=29.73 Aligned_cols=66 Identities=14% Similarity=0.099 Sum_probs=36.7
Q ss_pred CCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCC--CCceEEEeccCCCcchhcHHHHhhhhcCCCCCe
Q psy8958 69 GLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSN--PNAIILCIQDGSVDAERSNVTDLVSQMDPQGKR 140 (294)
Q Consensus 69 ~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~--p~sIILaV~~a~~D~ans~al~lar~~DP~G~R 140 (294)
.-|++.|+|=| ..+........+.+++.++.+. ..+.|+.+..-..++...+-...-|..||.|.|
T Consensus 130 ~~p~illlDEP------~~glD~~~~~~~~~~l~~~~~~~~~~~~iii~th~~~~i~~~d~v~~~~~~~~~~~~ 197 (198)
T cd03276 130 MESPFRCLDEF------DVFMDMVNRKISTDLLVKEAKKQPGRQFIFITPQDISGLASSDDVKVFRMKDPRGPR 197 (198)
T ss_pred cCCCEEEecCc------ccccCHHHHHHHHHHHHHHHhcCCCcEEEEEECCcccccccccceeEEEecCCCCCC
Confidence 45677777754 2334455566677777777554 233455554433344444444455667777665
No 289
>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=39.77 E-value=32 Score=29.10 Aligned_cols=13 Identities=15% Similarity=0.217 Sum_probs=10.9
Q ss_pred CCCceEEeCCCCc
Q psy8958 70 LQRMVLVDLPGII 82 (294)
Q Consensus 70 ~p~LTLVDLPGi~ 82 (294)
-.++.|||+||+.
T Consensus 91 ~~D~iiIDtaG~~ 103 (148)
T cd03114 91 GFDVIIVETVGVG 103 (148)
T ss_pred CCCEEEEECCccC
Confidence 5789999999965
No 290
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=39.63 E-value=63 Score=32.67 Aligned_cols=67 Identities=15% Similarity=0.230 Sum_probs=35.9
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch-hcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE-RSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a-ns~al~lar~~DP~G~RTIGVlTK~D 149 (294)
-++.|||+-|..+ .+...+..|..-.-...+-....|++|+.-.. -.++.+--+.+...| .++||.|
T Consensus 282 ~d~ILVDTaGrs~--------~D~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~f~~~~i~~----~I~TKlD 349 (407)
T COG1419 282 CDVILVDTAGRSQ--------YDKEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQFSLFPIDG----LIFTKLD 349 (407)
T ss_pred CCEEEEeCCCCCc--------cCHHHHHHHHHHHhccccceEEEEEecCcchHHHHHHHHHhccCCcce----eEEEccc
Confidence 3899999999654 33445555433222223444455666664111 123334444444444 3999998
No 291
>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=39.44 E-value=42 Score=31.20 Aligned_cols=16 Identities=31% Similarity=0.553 Sum_probs=12.7
Q ss_pred CceEEeCCCCcccCCC
Q psy8958 72 RMVLVDLPGIISTSTQ 87 (294)
Q Consensus 72 ~LTLVDLPGi~~~~~~ 87 (294)
.+.|||+||+......
T Consensus 164 ~~~l~DtPG~~~~~~~ 179 (276)
T TIGR03596 164 GLELLDTPGILWPKFE 179 (276)
T ss_pred CEEEEECCCcccCCCC
Confidence 6899999999765543
No 292
>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=39.07 E-value=34 Score=33.04 Aligned_cols=42 Identities=17% Similarity=0.355 Sum_probs=27.4
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCC
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGS 119 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~ 119 (294)
..+.|+|+||++..+..+ .-+.+....++++-..||++| ++.
T Consensus 69 v~i~l~D~aGlv~ga~~~------~glg~~fL~~ir~aD~ii~Vv-d~~ 110 (318)
T cd01899 69 VPVELIDVAGLVPGAHEG------KGLGNKFLDDLRDADALIHVV-DAS 110 (318)
T ss_pred ceEEEEECCCCCCCccch------hhHHHHHHHHHHHCCEEEEEE-eCC
Confidence 459999999998765432 223344456788888776655 443
No 293
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=38.67 E-value=43 Score=32.67 Aligned_cols=14 Identities=21% Similarity=0.256 Sum_probs=11.8
Q ss_pred CCCceEEeCCCCcc
Q psy8958 70 LQRMVLVDLPGIIS 83 (294)
Q Consensus 70 ~p~LTLVDLPGi~~ 83 (294)
-.+++|||++|+-+
T Consensus 148 g~d~viieT~Gv~q 161 (332)
T PRK09435 148 GYDVILVETVGVGQ 161 (332)
T ss_pred CCCEEEEECCCCcc
Confidence 46889999999873
No 294
>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]
Probab=38.48 E-value=63 Score=31.94 Aligned_cols=82 Identities=16% Similarity=0.203 Sum_probs=57.0
Q ss_pred ccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC-cchhcHHHHhhh
Q psy8958 54 KTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV-DAERSNVTDLVS 132 (294)
Q Consensus 54 ~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~-D~ans~al~lar 132 (294)
.+++-++-+++....+ -+...||.||- .+-|++|+..-.+-..+|+ +|.++.- =..+-+-+-+||
T Consensus 59 rGITIntahveyet~~-rhyahVDcPGH------------aDYvKNMItgAaqmDgAIL-VVsA~dGpmPqTrEHiLlar 124 (394)
T COG0050 59 RGITINTAHVEYETAN-RHYAHVDCPGH------------ADYVKNMITGAAQMDGAIL-VVAATDGPMPQTREHILLAR 124 (394)
T ss_pred cCceeccceeEEecCC-ceEEeccCCCh------------HHHHHHHhhhHHhcCccEE-EEEcCCCCCCcchhhhhhhh
Confidence 4566666666666554 47889999993 3668899888887777654 4444332 234566677899
Q ss_pred hcCCCCCeEEEEeccchhh
Q psy8958 133 QMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 133 ~~DP~G~RTIGVlTK~D~~ 151 (294)
++-- .+-+-++.|+|++
T Consensus 125 qvGv--p~ivvflnK~Dmv 141 (394)
T COG0050 125 QVGV--PYIVVFLNKVDMV 141 (394)
T ss_pred hcCC--cEEEEEEeccccc
Confidence 8842 3889999999985
No 295
>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=37.82 E-value=42 Score=29.20 Aligned_cols=11 Identities=45% Similarity=0.930 Sum_probs=9.4
Q ss_pred CCceEEeCCCC
Q psy8958 71 QRMVLVDLPGI 81 (294)
Q Consensus 71 p~LTLVDLPGi 81 (294)
.++.|+|+||+
T Consensus 162 ~~~~l~DtPGi 172 (172)
T cd04178 162 KKVKLLDSPGI 172 (172)
T ss_pred CCEEEEECcCC
Confidence 46899999996
No 296
>cd01371 KISc_KIF3 Kinesin motor domain, kinesins II or KIF3_like proteins. Subgroup of kinesins, which form heterotrimers composed of 2 kinesins and one non-motor accessory subunit. Kinesins II play important roles in ciliary transport, and have been implicated in neuronal transport, melanosome transport, the secretory pathway, and mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this group the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain
Probab=37.67 E-value=1.2e+02 Score=28.93 Aligned_cols=57 Identities=18% Similarity=0.272 Sum_probs=31.6
Q ss_pred CCCCCcHHHHHHHHHHHHhcccC---CC--ccccccceEEEEeCCCCC----------CceEEeCCCCcccCCC
Q psy8958 29 LTKESDLVELRKEVERRMMNSVR---KG--KTVSNEVISMSVKGPGLQ----------RMVLVDLPGIISTSTQ 87 (294)
Q Consensus 29 ~~~~~d~~~i~~ei~~~m~~~~g---~~--~~~S~~~I~leI~gP~~p----------~LTLVDLPGi~~~~~~ 87 (294)
..+..++..+++.+... +... .+ ..=|.-.+.|.|...+.. .|+||||+|--+....
T Consensus 177 v~s~~~~~~~l~~g~~~--R~~~~t~~n~~ssRSH~i~~i~v~~~~~~~~~~~~~~~s~L~~VDLAGsEr~~~~ 248 (333)
T cd01371 177 VKNAEEMDKLMTLGNKN--RSVGATNMNEDSSRSHSIFTITIECSEKGEDGENHIRVGKLNLVDLAGSERQSKT 248 (333)
T ss_pred eCCHHHHHHHHHHHHhh--CccccccccCCCCCCcEEEEEEEEEEeccCCCCCcEEEEEEEEEECCCCCccccc
Confidence 45555666666554322 2111 11 122445677777654432 5999999997765443
No 297
>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=36.79 E-value=78 Score=26.43 Aligned_cols=66 Identities=11% Similarity=0.004 Sum_probs=38.7
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhc---HHHHhhhhcCCCCCeEEEEec
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERS---NVTDLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans---~al~lar~~DP~G~RTIGVlT 146 (294)
...|.+.|+||.-.. ..+...|+...+++|+++- .+..-.-+ ..++..++..+ ..--|.|.|
T Consensus 48 ~~~l~i~Dt~G~~~~-------------~~~~~~~~~~~d~~i~v~d-~~~~~s~~~~~~~~~~i~~~~~-~~piiiv~n 112 (166)
T cd00877 48 KIRFNVWDTAGQEKF-------------GGLRDGYYIGGQCAIIMFD-VTSRVTYKNVPNWHRDLVRVCG-NIPIVLCGN 112 (166)
T ss_pred EEEEEEEECCCChhh-------------ccccHHHhcCCCEEEEEEE-CCCHHHHHHHHHHHHHHHHhCC-CCcEEEEEE
Confidence 467899999995321 2344557777777766554 33211111 22334444443 466788999
Q ss_pred cchh
Q psy8958 147 KVSQ 150 (294)
Q Consensus 147 K~D~ 150 (294)
|.|+
T Consensus 113 K~Dl 116 (166)
T cd00877 113 KVDI 116 (166)
T ss_pred chhc
Confidence 9995
No 298
>TIGR01007 eps_fam capsular exopolysaccharide family. This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes.
Probab=36.41 E-value=87 Score=27.21 Aligned_cols=65 Identities=23% Similarity=0.366 Sum_probs=34.6
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEE-Eeccc
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIF-VLTKV 148 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIG-VlTK~ 148 (294)
-.+++|||+|.+...+ + . .++.+ .-..+|+.+.+... ....+.+..+.+...|..-+| |++|.
T Consensus 127 ~yD~ViiD~pp~~~~~------~-~----~~~~~---~~D~vilV~~~~~~--~~~~~~~~~~~l~~~~~~~~gvVlN~~ 190 (204)
T TIGR01007 127 YFDYIIIDTPPIGTVT------D-A----AIIAR---ACDASILVTDAGEI--KKRDVQKAKEQLEQTGSNFLGVVLNKV 190 (204)
T ss_pred cCCEEEEeCCCccccc------h-H----HHHHH---hCCeEEEEEECCCC--CHHHHHHHHHHHHhCCCCEEEEEEeCc
Confidence 3688999999743211 1 1 11222 23456666655433 334444455555555666666 78887
Q ss_pred hh
Q psy8958 149 SQ 150 (294)
Q Consensus 149 D~ 150 (294)
|.
T Consensus 191 ~~ 192 (204)
T TIGR01007 191 DI 192 (204)
T ss_pred cc
Confidence 63
No 299
>COG2262 HflX GTPases [General function prediction only]
Probab=36.37 E-value=1.9e+02 Score=29.35 Aligned_cols=83 Identities=17% Similarity=0.267 Sum_probs=56.7
Q ss_pred EEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-ch--hcHHHHhhhhcCCCCC
Q psy8958 63 MSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AE--RSNVTDLVSQMDPQGK 139 (294)
Q Consensus 63 leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~a--ns~al~lar~~DP~G~ 139 (294)
=.+.-++.-...|.|+-|+++ +-|..+.+-.++=.++- .... ++|.|++|+.. +. -..+.+.-++++-...
T Consensus 232 R~~~l~~g~~vlLtDTVGFI~----~LP~~LV~AFksTLEE~-~~aD-lllhVVDaSdp~~~~~~~~v~~vL~el~~~~~ 305 (411)
T COG2262 232 RRIELGDGRKVLLTDTVGFIR----DLPHPLVEAFKSTLEEV-KEAD-LLLHVVDASDPEILEKLEAVEDVLAEIGADEI 305 (411)
T ss_pred eEEEeCCCceEEEecCccCcc----cCChHHHHHHHHHHHHh-hcCC-EEEEEeecCChhHHHHHHHHHHHHHHcCCCCC
Confidence 344445566789999999997 44666776666654443 2333 77888888754 22 1234567788877779
Q ss_pred eEEEEeccchhh
Q psy8958 140 RTIFVLTKVSQQ 151 (294)
Q Consensus 140 RTIGVlTK~D~~ 151 (294)
.+|-|+.|.|+.
T Consensus 306 p~i~v~NKiD~~ 317 (411)
T COG2262 306 PIILVLNKIDLL 317 (411)
T ss_pred CEEEEEeccccc
Confidence 999999999964
No 300
>cd01373 KISc_KLP2_like Kinesin motor domain, KLP2-like subgroup. Members of this subgroup seem to play a role in mitosis and meiosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second
Probab=36.14 E-value=1.6e+02 Score=28.25 Aligned_cols=104 Identities=14% Similarity=0.165 Sum_probs=55.2
Q ss_pred CCCCCcHHHHHHHHHHHHhcccCC---C--ccccccceEEEEeCCC---------CCCceEEeCCCCcccCCCCCC----
Q psy8958 29 LTKESDLVELRKEVERRMMNSVRK---G--KTVSNEVISMSVKGPG---------LQRMVLVDLPGIISTSTQDMA---- 90 (294)
Q Consensus 29 ~~~~~d~~~i~~ei~~~m~~~~g~---~--~~~S~~~I~leI~gP~---------~p~LTLVDLPGi~~~~~~~q~---- 90 (294)
..+..++-++++.+... +..+. + ..=|.-++.|.|.... .-.|+||||.|--+....+..
T Consensus 179 v~s~~e~~~ll~~g~~~--R~~~~t~~n~~SSRSH~i~~i~v~~~~~~~~~~~~~~s~l~~VDLAGSEr~~~~~~~g~~~ 256 (337)
T cd01373 179 VSSYEDVYQVLLKGLSN--RKVAATSMNSESSRSHAVFTCTIESWEKKASSTNIRTSRLNLVDLAGSERQKDDGAEGVRL 256 (337)
T ss_pred eCCHHHHHHHHHHHHhc--cCcccCcCCCCCCCccEEEEEEEEEeecCCCCCcEEEEEEEEEECCCCCcccccCCccHhh
Confidence 34555666665554321 22111 1 1234566777776432 246999999997665543211
Q ss_pred ----------hhHHHHHHHHh---------------------hhhcCC--CCceEEEeccCCCcch-hcHHHHhhhhc
Q psy8958 91 ----------SDTRDLIRQMT---------------------QTHMSN--PNAIILCIQDGSVDAE-RSNVTDLVSQM 134 (294)
Q Consensus 91 ----------~~~~~~i~~Lv---------------------~~Yi~~--p~sIILaV~~a~~D~a-ns~al~lar~~ 134 (294)
..+...|..|. +.++.. .-++|.+|.|+..++. +-..|++|.++
T Consensus 257 ~E~~~IN~SL~~L~~vi~aL~~~~~~~~~~ipyR~SkLT~lL~dsLggns~t~~I~~vsP~~~~~~eTl~TL~fa~ra 334 (337)
T cd01373 257 KEAKNINKSLSTLGHVIMALVDVAHGKQRHVPYRDSKLTFLLRDSLGGNAKTTIIANVSPSSKCFGETLSTLKFAQRA 334 (337)
T ss_pred hhhccccHHHHHHHHHHHHHHhhccCCCCccCCcccHHHHHHHHhcCCCceEEEEEEECCCcccHHHHHHHHHHHHHh
Confidence 02344455543 233332 2356667777776654 55567777654
No 301
>PRK13796 GTPase YqeH; Provisional
Probab=35.41 E-value=50 Score=32.29 Aligned_cols=48 Identities=15% Similarity=0.149 Sum_probs=32.3
Q ss_pred hhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchhh
Q psy8958 101 TQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 101 v~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~~ 151 (294)
+.+.|....++|+.|+++. |+..+-.-.+. ++.. +...|.|+||.|+.
T Consensus 62 ~l~~i~~~~~lIv~VVD~~-D~~~s~~~~L~-~~~~-~kpviLViNK~DLl 109 (365)
T PRK13796 62 LLNGIGDSDALVVNVVDIF-DFNGSWIPGLH-RFVG-NNPVLLVGNKADLL 109 (365)
T ss_pred HHHhhcccCcEEEEEEECc-cCCCchhHHHH-HHhC-CCCEEEEEEchhhC
Confidence 3455666778999999986 55544333333 3322 46789999999974
No 302
>cd01366 KISc_C_terminal Kinesin motor domain, KIFC2/KIFC3/ncd-like carboxy-terminal kinesins. Ncd is a spindle motor protein necessary for chromosome segregation in meiosis. KIFC2/KIFC3-like kinesins have been implicated in motility of the Golgi apparatus as well as dentritic and axonal transport in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In this subgroup the motor domain is found at the C-terminus (C-type). C-type kinesins are (-) end-directed motors, i.e. they transport cargo towards the (-) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for mi
Probab=35.12 E-value=4e+02 Score=25.25 Aligned_cols=31 Identities=29% Similarity=0.512 Sum_probs=21.9
Q ss_pred cccceEEEEeCCCC-------CCceEEeCCCCcccCCC
Q psy8958 57 SNEVISMSVKGPGL-------QRMVLVDLPGIISTSTQ 87 (294)
Q Consensus 57 S~~~I~leI~gP~~-------p~LTLVDLPGi~~~~~~ 87 (294)
|.-++.|.|.+.+. -.|+||||+|--+....
T Consensus 205 sH~i~~i~v~~~~~~~~~~~~s~l~~VDLaGsE~~~~~ 242 (329)
T cd01366 205 SHAVFQLKIRGTNLQTGEQTRGKLNLVDLAGSERLKKS 242 (329)
T ss_pred ccEEEEEEEEEEcCCCCcEEEEEEEEEECCCCcccccc
Confidence 44577777765432 47999999998776643
No 303
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=34.67 E-value=56 Score=30.65 Aligned_cols=14 Identities=36% Similarity=0.643 Sum_probs=11.6
Q ss_pred CceEEeCCCCcccC
Q psy8958 72 RMVLVDLPGIISTS 85 (294)
Q Consensus 72 ~LTLVDLPGi~~~~ 85 (294)
.+.|||+||+....
T Consensus 167 ~~~l~DtPGi~~~~ 180 (287)
T PRK09563 167 GLELLDTPGILWPK 180 (287)
T ss_pred cEEEEECCCcCCCC
Confidence 58999999997644
No 304
>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=34.39 E-value=66 Score=31.34 Aligned_cols=53 Identities=21% Similarity=0.217 Sum_probs=35.0
Q ss_pred HHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchhh
Q psy8958 95 DLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 95 ~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~~ 151 (294)
+..++|+..|.... .+|+.|+++. |+..+-.-.+.+.+. ....|.|+||.|+.
T Consensus 51 e~f~~~l~~~~~~~-~~Il~VvD~~-d~~~s~~~~l~~~~~--~~piilV~NK~DLl 103 (360)
T TIGR03597 51 DDFLNLLNSLGDSN-ALIVYVVDIF-DFEGSLIPELKRFVG--GNPVLLVGNKIDLL 103 (360)
T ss_pred HHHHHHHhhcccCC-cEEEEEEECc-CCCCCccHHHHHHhC--CCCEEEEEEchhhC
Confidence 45677888886655 5778888874 555444334444332 45789999999974
No 305
>smart00129 KISc Kinesin motor, catalytic domain. ATPase. Microtubule-dependent molecular motors that play important roles in intracellular transport of organelles and in cell division.
Probab=33.65 E-value=62 Score=30.76 Aligned_cols=31 Identities=29% Similarity=0.432 Sum_probs=22.4
Q ss_pred cccceEEEEeCC---------CCCCceEEeCCCCcccCCC
Q psy8958 57 SNEVISMSVKGP---------GLQRMVLVDLPGIISTSTQ 87 (294)
Q Consensus 57 S~~~I~leI~gP---------~~p~LTLVDLPGi~~~~~~ 87 (294)
|.-++.|.|... ..-.|+||||+|--+....
T Consensus 203 sH~i~~l~v~~~~~~~~~~~~~~s~l~~VDLaGse~~~~~ 242 (335)
T smart00129 203 SHAVFTITVESKIKNSSSGSGKASKLNLVDLAGSERASKT 242 (335)
T ss_pred ceEEEEEEEEEEecCCCCCCEEEEEEEEEECCCCCccccc
Confidence 456777777743 3568999999998766544
No 306
>cd01365 KISc_KIF1A_KIF1B Kinesin motor domain, KIF1_like proteins. KIF1A (Unc104) transports synaptic vesicles to the nerve terminal, KIF1B has been implicated in transport of mitochondria. Both proteins are expressed in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. In contrast to the majority of dimeric kinesins, most KIF1A/Unc104 kinesins are monomeric motors. A lysine-rich loop in KIF1A binds to the negatively charged C-terminus of tubulin and compensates for the lack of a second motor domain, allowing KIF1A to move processively.
Probab=33.46 E-value=1e+02 Score=29.74 Aligned_cols=57 Identities=23% Similarity=0.331 Sum_probs=32.5
Q ss_pred CCCCCcHHHHHHHHHHHHhcccC---CC--ccccccceEEEEeCCCC-----------CCceEEeCCCCcccCCC
Q psy8958 29 LTKESDLVELRKEVERRMMNSVR---KG--KTVSNEVISMSVKGPGL-----------QRMVLVDLPGIISTSTQ 87 (294)
Q Consensus 29 ~~~~~d~~~i~~ei~~~m~~~~g---~~--~~~S~~~I~leI~gP~~-----------p~LTLVDLPGi~~~~~~ 87 (294)
+++..++-++++++... +..+ .+ ..=|.-++.|.|..... -.|+||||.|--+....
T Consensus 185 v~s~~e~~~~l~~g~~~--R~~~~t~~n~~SSRSH~i~~l~v~~~~~~~~~~~~~~~~s~l~~VDLAGsEr~~~~ 257 (356)
T cd01365 185 VTSYEDIQNLLEEGNKS--RTTASTNMNDTSSRSHAVFTIVLTQKKLDKETDLTTEKVSKISLVDLAGSERASST 257 (356)
T ss_pred eCCHHHHHHHHHHHHhc--ccccCCCCCCCcCCceEEEEEEEEEEecccCCCCCceEEEEEEeeecccccccccc
Confidence 45555666666555322 1111 11 12355677888775432 36999999997766544
No 307
>cd01368 KISc_KIF23_like Kinesin motor domain, KIF23-like subgroup. Members of this group may play a role in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, a
Probab=32.12 E-value=1.5e+02 Score=28.67 Aligned_cols=16 Identities=44% Similarity=0.549 Sum_probs=12.0
Q ss_pred CCceEEeCCCCcccCC
Q psy8958 71 QRMVLVDLPGIISTST 86 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~ 86 (294)
..|+||||.|--+...
T Consensus 241 s~l~~VDLAGsEr~~~ 256 (345)
T cd01368 241 SQLSLVDLAGSERTSR 256 (345)
T ss_pred EEEEEEeccccccccc
Confidence 3599999999765543
No 308
>PF10609 ParA: ParA/MinD ATPase like; InterPro: IPR019591 This entry represents ATPases involved in plasmid partitioning []. It also contains cytosolic Fe-S cluster assembling factors, NBP35 and CFD1 which are required for biogenesis and export of both ribosomal subunits probably through assembling the ISCs in RLI1, a protein which performs rRNA processing and ribosome export [, , ].; PDB: 2PH1_A 3KB1_B.
Probab=31.66 E-value=1.2e+02 Score=23.70 Aligned_cols=38 Identities=8% Similarity=0.118 Sum_probs=22.9
Q ss_pred CceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccc
Q psy8958 109 NAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKV 148 (294)
Q Consensus 109 ~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~ 148 (294)
...|+..+| .+++.+++.+.+.-+-..+-.-+||+--.
T Consensus 26 ~g~ivVTTP--q~la~~dv~r~~~~~~~~~vpilGvVENM 63 (81)
T PF10609_consen 26 DGAIVVTTP--QELALADVRRAIDMFRKLNVPILGVVENM 63 (81)
T ss_dssp SEEEEEE-C--CC--HHHHHHHHHHHHCTT-EEEEEEECT
T ss_pred CeEEEEeCC--HHHHHHHHHHHHHHHHhcCCCcEEEEECC
Confidence 334444444 46777788777766666789999998764
No 309
>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=31.20 E-value=38 Score=31.13 Aligned_cols=73 Identities=23% Similarity=0.252 Sum_probs=32.6
Q ss_pred CceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCC--Cc---chhcHHHHhhhhcCCCCCeEEEEec
Q psy8958 72 RMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGS--VD---AERSNVTDLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 72 ~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~--~D---~ans~al~lar~~DP~G~RTIGVlT 146 (294)
+..|+|+||=+..-. .......+++..-+.-+.+++-++++. .| +-..-.+.++-.+- .+.-.|-|+|
T Consensus 92 ~y~l~DtPGQiElf~------~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~-~~lP~vnvls 164 (238)
T PF03029_consen 92 DYLLFDTPGQIELFT------HSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLR-LELPHVNVLS 164 (238)
T ss_dssp SEEEEE--SSHHHHH------HSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHH-HTSEEEEEE-
T ss_pred cEEEEeCCCCEEEEE------echhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHhh-CCCCEEEeee
Confidence 789999999443221 123334444444445555666666655 23 11111122221221 3578899999
Q ss_pred cchhh
Q psy8958 147 KVSQQ 151 (294)
Q Consensus 147 K~D~~ 151 (294)
|+|+.
T Consensus 165 K~Dl~ 169 (238)
T PF03029_consen 165 KIDLL 169 (238)
T ss_dssp -GGGS
T ss_pred ccCcc
Confidence 99974
No 310
>PRK09602 translation-associated GTPase; Reviewed
Probab=31.06 E-value=39 Score=33.60 Aligned_cols=41 Identities=12% Similarity=0.315 Sum_probs=24.0
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQD 117 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~ 117 (294)
..++|+|+||++..+..+. . +.+-....|++-..|+++|-.
T Consensus 72 ~~i~i~D~aGl~~ga~~g~--g----lg~~fL~~ir~ad~ll~Vvd~ 112 (396)
T PRK09602 72 IPVELIDVAGLVPGAHEGR--G----LGNQFLDDLRQADALIHVVDA 112 (396)
T ss_pred eeEEEEEcCCcCCCccchh--h----HHHHHHHHHHHCCEEEEEEeC
Confidence 4589999999997654331 1 112222337777766554443
No 311
>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]
Probab=31.04 E-value=1.1e+02 Score=32.95 Aligned_cols=80 Identities=20% Similarity=0.311 Sum_probs=49.9
Q ss_pred CccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcch--hcHHHHh
Q psy8958 53 GKTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAE--RSNVTDL 130 (294)
Q Consensus 53 ~~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~a--ns~al~l 130 (294)
|=++....+++.-.+ --.+.|||+||-+.... +..+.|-- -.. .++|++|...+. +..+++.
T Consensus 60 GITI~saa~s~~~~~--~~~iNlIDTPGHVDFt~--------EV~rslrv----lDg--avvVvdaveGV~~QTEtv~rq 123 (697)
T COG0480 60 GITITSAATTLFWKG--DYRINLIDTPGHVDFTI--------EVERSLRV----LDG--AVVVVDAVEGVEPQTETVWRQ 123 (697)
T ss_pred CCEEeeeeeEEEEcC--ceEEEEeCCCCccccHH--------HHHHHHHh----hcc--eEEEEECCCCeeecHHHHHHH
Confidence 345667778887777 45688999999875432 33333311 122 245555554444 4444555
Q ss_pred hhhcCCCCCeEEEEeccchhh
Q psy8958 131 VSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 131 ar~~DP~G~RTIGVlTK~D~~ 151 (294)
|.+ .+-+.|.+++|.|..
T Consensus 124 a~~---~~vp~i~fiNKmDR~ 141 (697)
T COG0480 124 ADK---YGVPRILFVNKMDRL 141 (697)
T ss_pred Hhh---cCCCeEEEEECcccc
Confidence 554 478999999999964
No 312
>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=30.95 E-value=72 Score=29.67 Aligned_cols=49 Identities=12% Similarity=0.167 Sum_probs=29.3
Q ss_pred HHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchhh
Q psy8958 99 QMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 99 ~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~~ 151 (294)
+-+.+.++.-. +||.|++|..-+. +....+.+.+ .+...|.|+||.|+.
T Consensus 13 ~~~~~~l~~aD-vVl~V~Dar~p~~-~~~~~i~~~l--~~kp~IiVlNK~DL~ 61 (276)
T TIGR03596 13 REIKEKLKLVD-VVIEVLDARIPLS-SRNPMIDEIR--GNKPRLIVLNKADLA 61 (276)
T ss_pred HHHHHHHhhCC-EEEEEEeCCCCCC-CCChhHHHHH--CCCCEEEEEEccccC
Confidence 33456666666 7777888864222 2222223323 246789999999974
No 313
>PF10035 DUF2179: Uncharacterized protein conserved in bacteria (DUF2179); InterPro: IPR019264 This entry, found mostly in hypothetical bacterial proteins, has no known function. ; PDB: 3HLU_B.
Probab=30.81 E-value=47 Score=23.26 Aligned_cols=31 Identities=10% Similarity=0.362 Sum_probs=21.7
Q ss_pred hcCCCCceEEEeccCCCcchhcHHHHhhhhcCCC
Q psy8958 104 HMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQ 137 (294)
Q Consensus 104 Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~ 137 (294)
|-..+..+|++|++- ..-+.+.++++++||+
T Consensus 12 ys~~~~~~l~~v~~r---~e~~~l~~~I~~~Dp~ 42 (55)
T PF10035_consen 12 YSGEEKTVLYTVVSR---RELPKLKKIIKEIDPK 42 (55)
T ss_dssp SSSS--EEEEEEEEC---CHHHHHHHHHHCC-TT
T ss_pred ecCCCeEEEEEEEeH---HHHHHHHHHHHHhCCC
Confidence 455677788888884 3457788999999998
No 314
>KOG0090|consensus
Probab=30.75 E-value=1.3e+02 Score=28.24 Aligned_cols=49 Identities=18% Similarity=0.367 Sum_probs=26.4
Q ss_pred ccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcC---CCCceEEEeccCCC
Q psy8958 56 VSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMS---NPNAIILCIQDGSV 120 (294)
Q Consensus 56 ~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~---~p~sIILaV~~a~~ 120 (294)
+.++....++.+-. .+|||+||-. ..+.-+..|.+ +--.|+-+|-++..
T Consensus 70 iepn~a~~r~gs~~---~~LVD~PGH~-------------rlR~kl~e~~~~~~~akaiVFVVDSa~f 121 (238)
T KOG0090|consen 70 IEPNEATYRLGSEN---VTLVDLPGHS-------------RLRRKLLEYLKHNYSAKAIVFVVDSATF 121 (238)
T ss_pred eccceeeEeecCcc---eEEEeCCCcH-------------HHHHHHHHHccccccceeEEEEEecccc
Confidence 33444554444433 8999999943 23333344444 44556555555543
No 315
>KOG0458|consensus
Probab=30.15 E-value=95 Score=32.87 Aligned_cols=82 Identities=18% Similarity=0.235 Sum_probs=47.4
Q ss_pred CccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-ch--------
Q psy8958 53 GKTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AE-------- 123 (294)
Q Consensus 53 ~~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~a-------- 123 (294)
..||+-++=...+. ++--.+||+|.||.- +-|-+|+..--+.. .-+.|++|+.+ |+
T Consensus 238 erGvTm~v~~~~fe-s~~~~~tliDaPGhk------------dFi~nmi~g~sqaD--~avLvvd~s~~~FE~gfd~~gQ 302 (603)
T KOG0458|consen 238 ERGVTMDVKTTWFE-SKSKIVTLIDAPGHK------------DFIPNMISGASQAD--VAVLVVDASTGEFESGFDPGGQ 302 (603)
T ss_pred hcceeEEeeeEEEe-cCceeEEEecCCCcc------------ccchhhhccccccc--eEEEEEECCcchhhhccCCCCc
Confidence 35677776666666 677899999999922 22334444444444 23344555532 22
Q ss_pred hcHHHHhhhhcCCCCCeEEEEeccchhh
Q psy8958 124 RSNVTDLVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 124 ns~al~lar~~DP~G~RTIGVlTK~D~~ 151 (294)
+-+...++|.+. =.--|..|+|.|++
T Consensus 303 trEha~llr~Lg--i~qlivaiNKmD~V 328 (603)
T KOG0458|consen 303 TREHALLLRSLG--ISQLIVAINKMDLV 328 (603)
T ss_pred hHHHHHHHHHcC--cceEEEEeeccccc
Confidence 223344555554 24567789999964
No 316
>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=29.83 E-value=1.2e+02 Score=26.51 Aligned_cols=66 Identities=15% Similarity=0.132 Sum_probs=40.5
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chhc--HHHHhhhhcCCCCCeEEEEec
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AERS--NVTDLVSQMDPQGKRTIFVLT 146 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~ans--~al~lar~~DP~G~RTIGVlT 146 (294)
...|.|.|++|.-. .+-..|+++.+.+||+.--.+.+ +.+. ..++..+...+ ..-.|-|.|
T Consensus 65 ~v~l~iwDTaG~~~---------------~~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~-~~piilvgN 128 (195)
T cd01873 65 SVSLRLWDTFGDHD---------------KDRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCP-RVPVILVGC 128 (195)
T ss_pred EEEEEEEeCCCChh---------------hhhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCC-CCCEEEEEE
Confidence 35789999999532 12234888888777765543322 3322 13444555444 356789999
Q ss_pred cchhh
Q psy8958 147 KVSQQ 151 (294)
Q Consensus 147 K~D~~ 151 (294)
|.|+.
T Consensus 129 K~DL~ 133 (195)
T cd01873 129 KLDLR 133 (195)
T ss_pred chhcc
Confidence 99963
No 317
>PF00225 Kinesin: Kinesin motor domain; InterPro: IPR001752 Kinesin [, , ] is a microtubule-associated force-producing protein that may play a role in organelle transport. The kinesin motor activity is directed toward the microtubule's plus end. Kinesin is an oligomeric complex composed of two heavy chains and two light chains. The maintenance of the quaternary structure does not require interchain disulphide bonds. The heavy chain is composed of three structural domains: a large globular N-terminal domain which is responsible for the motor activity of kinesin (it is known to hydrolyse ATP, to bind and move on microtubules), a central alpha-helical coiled coil domain that mediates the heavy chain dimerisation; and a small globular C-terminal domain which interacts with other proteins (such as the kinesin light chains), vesicles and membranous organelles. A number of proteins have been recently found that contain a domain similar to that of the kinesin 'motor' domain [, ]: Drosophila melanogaster claret segregational protein (ncd). Ncd is required for normal chromosomal segregation in meiosis, in females, and in early mitotic divisions of the embryo. The ncd motor activity is directed toward the microtubule's minus end. Homo sapiens CENP-E []. CENP-E is a protein that associates with kinetochores during chromosome congression, relocates to the spindle midzone at anaphase, and is quantitatively discarded at the end of the cell division. CENP-E is probably an important motor molecule in chromosome movement and/or spindle elongation. H. sapiens mitotic kinesin-like protein-1 (MKLP-1), a motor protein whose activity is directed toward the microtubule's plus end. Saccharomyces cerevisiae KAR3 protein, which is essential for nuclear fusion during mating. KAR3 may mediate microtubule sliding during nuclear fusion and possibly mitosis. S. cerevisiae CIN8 and KIP1 proteins which are required for the assembly of the mitotic spindle. Both proteins seem to interact with spindle microtubules to produce an outwardly directed force acting upon the poles. Emericella nidulans (Aspergillus nidulans) bimC, which plays an important role in nuclear division. A. nidulans klpA. Caenorhabditis elegans unc-104, which may be required for the transport of substances needed for neuronal cell differentiation. C. elegans osm-3. Xenopus laevis Eg5, which may be involved in mitosis. Arabidopsis thaliana KatA, KatB and katC. Chlamydomonas reinhardtii FLA10/KHP1 and KLP1. Both proteins seem to play a role in the rotation or twisting of the microtubules of the flagella. C. elegans hypothetical protein T09A5.2. The kinesin motor domain is located in the N-terminal part of most of the above proteins, with the exception of KAR3, klpA, and ncd where it is located in the C-terminal section. The kinesin motor domain contains about 330 amino acids. An ATP-binding motif of type A is found near position 80 to 90, the C-terminal half of the domain is involved in microtubule-binding.; GO: 0003777 microtubule motor activity, 0005524 ATP binding, 0007018 microtubule-based movement; PDB: 3NWN_A 2Y5W_A 2Y65_C 3BFN_A 2WBE_C 2ZFL_A 2ZFI_A 1I6I_A 2ZFM_A 1IA0_K ....
Probab=29.46 E-value=3.5e+02 Score=25.51 Aligned_cols=60 Identities=15% Similarity=0.278 Sum_probs=33.0
Q ss_pred CCCCCcHHHHHHHHHHHHhcc-cCCC--ccccccceEEEEeCCCC-----------CCceEEeCCCCcccCCCC
Q psy8958 29 LTKESDLVELRKEVERRMMNS-VRKG--KTVSNEVISMSVKGPGL-----------QRMVLVDLPGIISTSTQD 88 (294)
Q Consensus 29 ~~~~~d~~~i~~ei~~~m~~~-~g~~--~~~S~~~I~leI~gP~~-----------p~LTLVDLPGi~~~~~~~ 88 (294)
+.+..++..++..+...-... +..+ ..-|.-++.|.|..... .-|+||||+|.-+....+
T Consensus 176 v~s~~~~~~~l~~~~~~R~~~~t~~n~~sSRSH~i~~i~v~~~~~~~~~~~~~~~~s~l~~vDLaGsE~~~~~~ 249 (335)
T PF00225_consen 176 VKSAEEALQLLKKGQKNRRTASTKMNARSSRSHAIFTIHVEQKDRDPSDDEESVKHSRLTFVDLAGSERLKKSG 249 (335)
T ss_dssp ESSHHHHHHHHHHHHHHHTCTSSSCTHHGGGSEEEEEEEEEEEETTTTTEEEEEEEEEEEEEEEEESTGGCGCS
T ss_pred ccccccccccccchhhccccccccccccccccccccccccccccccccccccceeecceeeeeccccccccccc
Confidence 345555666655554332111 1111 12345677777776543 259999999988755443
No 318
>PHA02518 ParA-like protein; Provisional
Probab=29.02 E-value=1.3e+02 Score=25.72 Aligned_cols=41 Identities=15% Similarity=0.136 Sum_probs=24.9
Q ss_pred CCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchh
Q psy8958 69 GLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAER 124 (294)
Q Consensus 69 ~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~an 124 (294)
...+++|||+||-.. .+...-+...+.||+.+.|...|+..
T Consensus 75 ~~~d~viiD~p~~~~---------------~~~~~~l~~aD~viip~~ps~~~~~~ 115 (211)
T PHA02518 75 SGYDYVVVDGAPQDS---------------ELARAALRIADMVLIPVQPSPFDIWA 115 (211)
T ss_pred ccCCEEEEeCCCCcc---------------HHHHHHHHHCCEEEEEeCCChhhHHH
Confidence 346899999998431 23334444556566666666556653
No 319
>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=28.96 E-value=50 Score=30.34 Aligned_cols=58 Identities=14% Similarity=0.205 Sum_probs=33.5
Q ss_pred HHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchhh
Q psy8958 94 RDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 94 ~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~~ 151 (294)
.+.-..|.+.|+++-..++++....+.+..-...-+....+...+...|-|+||.|+.
T Consensus 23 ~eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~~~i~~vIV~NK~DL~ 80 (245)
T TIGR00157 23 AERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEAQNIEPIIVLNKIDLL 80 (245)
T ss_pred ecccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCCEEEEEECcccC
Confidence 3444567778999988766655433233222222222222222567889999999974
No 320
>KOG1191|consensus
Probab=28.92 E-value=1.6e+02 Score=30.72 Aligned_cols=95 Identities=20% Similarity=0.181 Sum_probs=54.2
Q ss_pred CccccccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC-cchhcHH--HH
Q psy8958 53 GKTVSNEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV-DAERSNV--TD 129 (294)
Q Consensus 53 ~~~~S~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~-D~ans~a--l~ 129 (294)
..|-+.|.|...+. ++.....|+|+-|+.+... +.++. .==+-.++-++... +|++|++|+- |++...- -.
T Consensus 299 v~GTTRDaiea~v~-~~G~~v~L~DTAGiRe~~~-~~iE~---~gI~rA~k~~~~ad-vi~~vvda~~~~t~sd~~i~~~ 372 (531)
T KOG1191|consen 299 VPGTTRDAIEAQVT-VNGVPVRLSDTAGIREESN-DGIEA---LGIERARKRIERAD-VILLVVDAEESDTESDLKIARI 372 (531)
T ss_pred CCCcchhhheeEee-cCCeEEEEEeccccccccC-ChhHH---HhHHHHHHHHhhcC-EEEEEecccccccccchHHHHH
Confidence 34667788999998 8888899999999998222 21221 11122333444444 7888888853 2221111 11
Q ss_pred hhhh------cCC--CCCeEEEEeccchhhhh
Q psy8958 130 LVSQ------MDP--QGKRTIFVLTKVSQQLI 153 (294)
Q Consensus 130 lar~------~DP--~G~RTIGVlTK~D~~~~ 153 (294)
++.. +++ +-.|-|-|..|.|++..
T Consensus 373 l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~ 404 (531)
T KOG1191|consen 373 LETEGVGLVVIVNKMEKQRIILVANKSDLVSK 404 (531)
T ss_pred HHHhccceEEEeccccccceEEEechhhccCc
Confidence 2221 111 12577888888887543
No 321
>PRK01889 GTPase RsgA; Reviewed
Probab=27.79 E-value=55 Score=31.92 Aligned_cols=73 Identities=16% Similarity=0.214 Sum_probs=43.6
Q ss_pred CCCCCceEEeC--CCCccc--CCCCCChhHHHHHHHHhhhh----------cCCCCceEEEeccCCCcchhcHHHHhhhh
Q psy8958 68 PGLQRMVLVDL--PGIIST--STQDMASDTRDLIRQMTQTH----------MSNPNAIILCIQDGSVDAERSNVTDLVSQ 133 (294)
Q Consensus 68 P~~p~LTLVDL--PGi~~~--~~~~q~~~~~~~i~~Lv~~Y----------i~~p~sIILaV~~a~~D~ans~al~lar~ 133 (294)
|-+-|.+++|. ||++.. +... .|++.- +.|-. .++.|++++.|+.....-++.-.
T Consensus 69 ~~vGD~V~~~~~~~g~I~~i~pR~~----------~L~R~~~~~~~~~q~iaANvD-~vliV~s~~p~~~~~~ldr~L~~ 137 (356)
T PRK01889 69 PAVGDWVLLDNEKKARIVRLLPRRS----------LFSRKAAGTRSEEQLIAANVD-TVFIVCSLNHDFNLRRIERYLAL 137 (356)
T ss_pred CccCcEEEEecCCceEEEEEECCCc----------eEEcCCCCCCccceeEEEeCC-EEEEEEecCCCCChhHHHHHHHH
Confidence 56778888886 787752 2211 222222 23333 36667777777776555444333
Q ss_pred cCCCCCeEEEEeccchhh
Q psy8958 134 MDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 134 ~DP~G~RTIGVlTK~D~~ 151 (294)
+--.|..-|-||||.|+.
T Consensus 138 a~~~~i~piIVLNK~DL~ 155 (356)
T PRK01889 138 AWESGAEPVIVLTKADLC 155 (356)
T ss_pred HHHcCCCEEEEEEChhcC
Confidence 333466778899999974
No 322
>KOG1486|consensus
Probab=26.92 E-value=32 Score=33.22 Aligned_cols=53 Identities=23% Similarity=0.340 Sum_probs=30.4
Q ss_pred ccceEEEEeCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCC
Q psy8958 58 NEVISMSVKGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSV 120 (294)
Q Consensus 58 ~~~I~leI~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~ 120 (294)
..|=.|+..| .+..++|||||+..+..+--. ..|+- -+...--+||.|.+|..
T Consensus 99 cIpGvi~y~g---a~IQllDLPGIieGAsqgkGR--GRQvi-----avArtaDlilMvLDatk 151 (364)
T KOG1486|consen 99 CIPGVIHYNG---ANIQLLDLPGIIEGASQGKGR--GRQVI-----AVARTADLILMVLDATK 151 (364)
T ss_pred eecceEEecC---ceEEEecCcccccccccCCCC--CceEE-----EEeecccEEEEEecCCc
Confidence 3444455544 467899999999988764311 01110 01223347788888775
No 323
>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=25.77 E-value=44 Score=29.86 Aligned_cols=72 Identities=17% Similarity=0.323 Sum_probs=40.6
Q ss_pred eCCCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhh--hcCCCCceEEEeccCCCcchh-cHHHH------hhhhcCC
Q psy8958 66 KGPGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQT--HMSNPNAIILCIQDGSVDAER-SNVTD------LVSQMDP 136 (294)
Q Consensus 66 ~gP~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~--Yi~~p~sIILaV~~a~~D~an-s~al~------lar~~DP 136 (294)
..+.-..+.|||+||-.+.-. .+... |+.+..+||.+|=++. +..+ .++.+ .....=+
T Consensus 44 ~~~~~~~~~lvD~PGH~rlr~------------~~~~~~~~~~~~k~IIfvvDSs~-~~~~~~~~Ae~Ly~iL~~~~~~~ 110 (181)
T PF09439_consen 44 NNSKGKKLRLVDIPGHPRLRS------------KLLDELKYLSNAKGIIFVVDSST-DQKELRDVAEYLYDILSDTEVQK 110 (181)
T ss_dssp SSTCGTCECEEEETT-HCCCH------------HHHHHHHHHGGEEEEEEEEETTT-HHHHHHHHHHHHHHHHHHHHCCT
T ss_pred ecCCCCEEEEEECCCcHHHHH------------HHHHhhhchhhCCEEEEEEeCcc-chhhHHHHHHHHHHHHHhhhhcc
Confidence 556777899999999765331 23333 7888888876665543 2221 11110 1122336
Q ss_pred CCCeEEEEeccchh
Q psy8958 137 QGKRTIFVLTKVSQ 150 (294)
Q Consensus 137 ~G~RTIGVlTK~D~ 150 (294)
.+.+-+-+-+|.|+
T Consensus 111 ~~~piLIacNK~Dl 124 (181)
T PF09439_consen 111 NKPPILIACNKQDL 124 (181)
T ss_dssp T--EEEEEEE-TTS
T ss_pred CCCCEEEEEeCccc
Confidence 77888889999885
No 324
>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=25.39 E-value=2e+02 Score=26.37 Aligned_cols=26 Identities=12% Similarity=0.193 Sum_probs=17.9
Q ss_pred eEEeCCCCcccCCCCCC-hhHHHHHHH
Q psy8958 74 VLVDLPGIISTSTQDMA-SDTRDLIRQ 99 (294)
Q Consensus 74 TLVDLPGi~~~~~~~q~-~~~~~~i~~ 99 (294)
.|+|+||+......+.. +++.....+
T Consensus 174 ~liDtPG~~~~~l~~~~~~~~~~~f~e 200 (245)
T TIGR00157 174 LIADTPGFNEFGLWHLEPEQLTQGFVE 200 (245)
T ss_pred EEEeCCCccccCCCCCCHHHHHHhCHH
Confidence 79999999988776544 444444444
No 325
>KOG4146|consensus
Probab=25.35 E-value=3e+02 Score=22.49 Aligned_cols=43 Identities=19% Similarity=0.339 Sum_probs=30.6
Q ss_pred CCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 88 DMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 88 ~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D 149 (294)
..|..+.+.++-|..+|+++|+. |.+...++ ..=+|.+|.+.|
T Consensus 33 e~~~tvgdll~yi~~~~ie~r~~--lFi~~gsv-----------------rpGii~lINd~D 75 (101)
T KOG4146|consen 33 ESPATVGDLLDYIFGKYIETRDS--LFIHHGSV-----------------RPGIIVLINDMD 75 (101)
T ss_pred CCcccHHHHHHHHHHHHhcCCcc--eEeeCCcC-----------------cCcEEEEEeccc
Confidence 44677889999999999999998 44443332 234777777765
No 326
>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=24.91 E-value=1.1e+02 Score=24.81 Aligned_cols=71 Identities=15% Similarity=0.154 Sum_probs=43.4
Q ss_pred CCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-ch-hcHHHHhhhhcCCCCCeEEEEe
Q psy8958 68 PGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AE-RSNVTDLVSQMDPQGKRTIFVL 145 (294)
Q Consensus 68 P~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~a-ns~al~lar~~DP~G~RTIGVl 145 (294)
.....|.|.|+||-- ....+...++++.+.+|++....+.+ +. -...+...+..-+...--+-|-
T Consensus 45 ~~~~~l~i~D~~g~~-------------~~~~~~~~~~~~~~~~ii~fd~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg 111 (162)
T PF00071_consen 45 GKPVNLEIWDTSGQE-------------RFDSLRDIFYRNSDAIIIVFDVTDEESFENLKKWLEEIQKYKPEDIPIIVVG 111 (162)
T ss_dssp TEEEEEEEEEETTSG-------------GGHHHHHHHHTTESEEEEEEETTBHHHHHTHHHHHHHHHHHSTTTSEEEEEE
T ss_pred ccccccccccccccc-------------cccccccccccccccccccccccccccccccccccccccccccccccceeee
Confidence 344579999999832 11245567788888877775433211 11 1133455566666556777888
Q ss_pred ccchhh
Q psy8958 146 TKVSQQ 151 (294)
Q Consensus 146 TK~D~~ 151 (294)
||.|+.
T Consensus 112 ~K~D~~ 117 (162)
T PF00071_consen 112 NKSDLS 117 (162)
T ss_dssp ETTTGG
T ss_pred cccccc
Confidence 999953
No 327
>KOG2655|consensus
Probab=24.90 E-value=65 Score=32.09 Aligned_cols=79 Identities=10% Similarity=0.117 Sum_probs=45.4
Q ss_pred CCceEEeCCCCcccCCCCCC-hhHHHHHHHHhhhhcCCC-------------CceEEEeccCCCcchhcHHHHhhhhcCC
Q psy8958 71 QRMVLVDLPGIISTSTQDMA-SDTRDLIRQMTQTHMSNP-------------NAIILCIQDGSVDAERSNVTDLVSQMDP 136 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~-~~~~~~i~~Lv~~Yi~~p-------------~sIILaV~~a~~D~ans~al~lar~~DP 136 (294)
.+||+||+||+-..-..... .-+.+-|.+.-..|+..+ +|-+-.+.|-.--+.--++--|-+-..
T Consensus 79 l~LtvidtPGfGD~vdns~~w~pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~ghgL~p~Di~~Mk~l~~- 157 (366)
T KOG2655|consen 79 LNLTVIDTPGFGDAVDNSNCWRPIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGHGLKPLDIEFMKKLSK- 157 (366)
T ss_pred EeeEEeccCCCcccccccccchhhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCCCCcHhhHHHHHHHhc-
Confidence 57999999998776554321 235566666666666542 233334455443333333332322221
Q ss_pred CCCeEEEEeccchhh
Q psy8958 137 QGKRTIFVLTKVSQQ 151 (294)
Q Consensus 137 ~G~RTIGVlTK~D~~ 151 (294)
.-=.|.||.|.|..
T Consensus 158 -~vNiIPVI~KaD~l 171 (366)
T KOG2655|consen 158 -KVNLIPVIAKADTL 171 (366)
T ss_pred -cccccceeeccccC
Confidence 24589999999975
No 328
>TIGR03134 malonate_gamma malonate decarboxylase, gamma subunit. Members of this protein family are the gamma subunit of malonate decarboxylase. Malonate decarboxylase may be a soluble enzyme, or linked to membrane subunits and active as a sodium pump. In the malonate decarboxylase complex, the beta subunit appears to act as a malonyl-CoA decarboxylase, while the gamma subunit appears either to mediate subunit interaction or to act as a co-decarboxylase with the beta subunit. The beta and gamma subunits exhibit some local sequence similarity.
Probab=24.55 E-value=61 Score=30.20 Aligned_cols=38 Identities=13% Similarity=0.100 Sum_probs=23.9
Q ss_pred CCCCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcC
Q psy8958 68 PGLQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMS 106 (294)
Q Consensus 68 P~~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~ 106 (294)
++.|=++|||+||..-.... +-.-+...+-.|+..|..
T Consensus 65 f~~PIv~lvDtpG~~~g~~a-E~~G~~~a~A~l~~a~a~ 102 (238)
T TIGR03134 65 DKRPIVVLVDTPSQAYGRRE-ELLGINQALAHLAKALAL 102 (238)
T ss_pred CCCCEEEEEeCCCCCCCHHH-HHHHHHHHHHHHHHHHHH
Confidence 67899999999997754421 112244555556666653
No 329
>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.
Probab=23.97 E-value=1.8e+02 Score=23.87 Aligned_cols=63 Identities=8% Similarity=0.094 Sum_probs=34.2
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchh-cHHHHhhhhcCCCCCeEEEEeccch
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAER-SNVTDLVSQMDPQGKRTIFVLTKVS 149 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~an-s~al~lar~~DP~G~RTIGVlTK~D 149 (294)
.+.++||+|+... ... ...+..-+.+++.+.+...++.. ...++..++.- ...+...|+++.+
T Consensus 45 yd~VIiD~p~~~~-------~~~--------~~~l~~aD~vviv~~~~~~s~~~~~~~l~~l~~~~-~~~~~~lVvN~~~ 108 (139)
T cd02038 45 YDYIIIDTGAGIS-------DNV--------LDFFLAADEVIVVTTPEPTSITDAYALIKKLAKQL-RVLNFRVVVNRAE 108 (139)
T ss_pred CCEEEEECCCCCC-------HHH--------HHHHHhCCeEEEEcCCChhHHHHHHHHHHHHHHhc-CCCCEEEEEeCCC
Confidence 5999999987431 111 12233445565555554444432 33344443322 3467788999964
No 330
>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=23.53 E-value=1.7e+02 Score=28.55 Aligned_cols=14 Identities=43% Similarity=0.679 Sum_probs=11.2
Q ss_pred CCceEEeCCCCccc
Q psy8958 71 QRMVLVDLPGIIST 84 (294)
Q Consensus 71 p~LTLVDLPGi~~~ 84 (294)
.+..|+|+||+...
T Consensus 204 ~~~~l~DtPG~~~~ 217 (360)
T TIGR03597 204 DGHSLYDTPGIINS 217 (360)
T ss_pred CCCEEEECCCCCCh
Confidence 35789999999853
No 331
>cd01376 KISc_KID_like Kinesin motor domain, KIF22/Kid-like subgroup. Members of this group might play a role in regulating chromosomal movement along microtubules in mitosis. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through
Probab=23.45 E-value=2.5e+02 Score=26.66 Aligned_cols=29 Identities=28% Similarity=0.461 Sum_probs=21.1
Q ss_pred ccccceEEEEeCCCC-----CCceEEeCCCCccc
Q psy8958 56 VSNEVISMSVKGPGL-----QRMVLVDLPGIIST 84 (294)
Q Consensus 56 ~S~~~I~leI~gP~~-----p~LTLVDLPGi~~~ 84 (294)
-|.-++.|.|...+. -.|+||||.|--+.
T Consensus 201 RSH~i~~i~v~~~~~~~~~~s~l~~VDLAGsE~~ 234 (319)
T cd01376 201 RSHAVLRIKVTQPASNIQLEGKLNLIDLAGSEDN 234 (319)
T ss_pred CCeEEEEEEEEEECCCceEEEEEEEEECCCCCcc
Confidence 355677777776644 37999999997754
No 332
>cd01375 KISc_KIF9_like Kinesin motor domain, KIF9-like subgroup; might play a role in cell shape remodeling. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. Kinesin motor domains hydrolyze ATP at a rate of about 80 per second, and move along the microtubule at a speed of about 6400 Angstroms per second. To achieve that, kinesin head groups work in pairs. Upon replacing ADP with ATP, a kinesin motor domain increases its affinity for microtubule binding and locks in place. Also, the neck linker binds to the motor domain, which repositions the other head domain through the coiled-coil domain close to a second tubulin dimer, about 80
Probab=22.90 E-value=1.9e+02 Score=27.71 Aligned_cols=30 Identities=27% Similarity=0.422 Sum_probs=19.8
Q ss_pred cccceEEEEeCC---------CCCCceEEeCCCCcccCC
Q psy8958 57 SNEVISMSVKGP---------GLQRMVLVDLPGIISTST 86 (294)
Q Consensus 57 S~~~I~leI~gP---------~~p~LTLVDLPGi~~~~~ 86 (294)
|.-++.|+|... ....|+||||.|--+...
T Consensus 212 SH~i~~l~v~~~~~~~~~~~~~~s~l~~VDLAGsEr~~~ 250 (334)
T cd01375 212 SHCIFTIHLESRSREAGSEVVRLSKLNLVDLAGSERVSK 250 (334)
T ss_pred CeEEEEEEEEEEecCCCCCceEEEEEEEEECCCCCcccc
Confidence 445666666632 124699999999866544
No 333
>TIGR01757 Malate-DH_plant malate dehydrogenase, NADP-dependent. This model represents the NADP-dependent malate dehydrogenase found in plants, mosses and green algae and localized to the chloroplast. Malate dehydrogenase converts oxaloacetate into malate, a critical step in the C4 cycle which allows circumvention of the effects of photorespiration. Malate is subsequenctly transported from the chloroplast to the cytoplasm (and then to the bundle sheath cells in C4 plants). The plant and moss enzymes are light regulated via cysteine disulfide bonds. The enzyme from Sorghum has been crystallized.
Probab=22.74 E-value=68 Score=32.03 Aligned_cols=41 Identities=12% Similarity=0.260 Sum_probs=29.0
Q ss_pred CCCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchhh
Q psy8958 107 NPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 107 ~p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~~ 151 (294)
+|++|||.|.. .+|+-+.-+.+.+ -..| .|-||-.|-+|..
T Consensus 161 ~~~~iviVVsN-PvDv~t~v~~k~s-g~~~--~rviG~gT~LDsa 201 (387)
T TIGR01757 161 SKNCKVLVVGN-PCNTNALIAMKNA-PNIP--RKNFHALTRLDEN 201 (387)
T ss_pred CCCeEEEEcCC-cHHHHHHHHHHHc-CCCc--ccEEEecchhHHH
Confidence 48888877773 4566666666555 2333 8999999999974
No 334
>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]
Probab=22.46 E-value=63 Score=32.27 Aligned_cols=79 Identities=13% Similarity=0.197 Sum_probs=47.7
Q ss_pred CCceEEeCCCCcccCCCCCC-hhHHHHHHHHhhhhcCC----C----------CceEEEeccCCCcchhcHHHHhhhhcC
Q psy8958 71 QRMVLVDLPGIISTSTQDMA-SDTRDLIRQMTQTHMSN----P----------NAIILCIQDGSVDAERSNVTDLVSQMD 135 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~-~~~~~~i~~Lv~~Yi~~----p----------~sIILaV~~a~~D~ans~al~lar~~D 135 (294)
.+||+||+||+-..-..... +-+.+-|++.-..|+.+ . +|.+-.+-|-.--+.-.++.-| +++.
T Consensus 82 ~~l~vIDtpGfGD~idNs~~we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptgh~l~~~DIe~M-k~ls 160 (373)
T COG5019 82 LNLTVIDTPGFGDFIDNSKCWEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTGHGLKPLDIEAM-KRLS 160 (373)
T ss_pred EEEEEeccCCccccccccccHHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCCCCCCHHHHHHH-HHHh
Confidence 68999999999876655332 34666666666666653 2 2334445555544444444322 3333
Q ss_pred CCCCeEEEEeccchhh
Q psy8958 136 PQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 136 P~G~RTIGVlTK~D~~ 151 (294)
.. .=-|-||.|.|+.
T Consensus 161 ~~-vNlIPVI~KaD~l 175 (373)
T COG5019 161 KR-VNLIPVIAKADTL 175 (373)
T ss_pred cc-cCeeeeeeccccC
Confidence 22 4479999999974
No 335
>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=21.87 E-value=79 Score=26.97 Aligned_cols=67 Identities=13% Similarity=0.228 Sum_probs=41.0
Q ss_pred CCCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCcchhcHHH----HhhhhcCCCCCeEEEEe
Q psy8958 70 LQRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVDAERSNVT----DLVSQMDPQGKRTIFVL 145 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D~ans~al----~lar~~DP~G~RTIGVl 145 (294)
-..+++.|++|=. .++.+-+.|.++.+.||.+|=+++.+ .-+++. ++.....-.+..-+-++
T Consensus 57 ~~~~~~~d~gG~~-------------~~~~~w~~y~~~~~~iIfVvDssd~~-~l~e~~~~L~~ll~~~~~~~~piLIl~ 122 (175)
T PF00025_consen 57 GYSLTIWDLGGQE-------------SFRPLWKSYFQNADGIIFVVDSSDPE-RLQEAKEELKELLNDPELKDIPILILA 122 (175)
T ss_dssp TEEEEEEEESSSG-------------GGGGGGGGGHTTESEEEEEEETTGGG-GHHHHHHHHHHHHTSGGGTTSEEEEEE
T ss_pred cEEEEEEeccccc-------------cccccceeeccccceeEEEEecccce-eecccccchhhhcchhhcccceEEEEe
Confidence 3568999999832 23467788999888777666444332 122222 22222223457788888
Q ss_pred ccchh
Q psy8958 146 TKVSQ 150 (294)
Q Consensus 146 TK~D~ 150 (294)
+|.|.
T Consensus 123 NK~D~ 127 (175)
T PF00025_consen 123 NKQDL 127 (175)
T ss_dssp ESTTS
T ss_pred ccccc
Confidence 99884
No 336
>COG0825 AccA Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]
Probab=21.70 E-value=85 Score=30.59 Aligned_cols=33 Identities=18% Similarity=0.347 Sum_probs=23.6
Q ss_pred CCCceEEeCCCCcccCC---CCCChhHHHHHHHHhh
Q psy8958 70 LQRMVLVDLPGIISTST---QDMASDTRDLIRQMTQ 102 (294)
Q Consensus 70 ~p~LTLVDLPGi~~~~~---~~q~~~~~~~i~~Lv~ 102 (294)
+|=+||||+||-.-... .||.+.|..-..+|+.
T Consensus 151 lPiitfIDT~GAypG~~AEErGQ~eAIA~nL~em~~ 186 (317)
T COG0825 151 LPIITFIDTPGAYPGIGAEERGQSEAIARNLREMAR 186 (317)
T ss_pred CCEEEEecCCCCCCCcchhhcccHHHHHHHHHHHhC
Confidence 68899999999765433 3677777766666654
No 337
>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=21.26 E-value=2.8e+02 Score=24.61 Aligned_cols=36 Identities=19% Similarity=0.195 Sum_probs=26.1
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCC
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGS 119 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~ 119 (294)
..|.|.|++|- +..+.|...|.++.+++||+.--.+
T Consensus 54 ~~l~IwDtaG~-------------e~~~~l~~~~yr~ad~iIlVyDvtn 89 (202)
T cd04102 54 FFVELWDVGGS-------------ESVKSTRAVFYNQVNGIILVHDLTN 89 (202)
T ss_pred EEEEEEecCCc-------------hhHHHHHHHHhCcCCEEEEEEECcC
Confidence 46889999983 2235677889999998888764433
No 338
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=21.03 E-value=1.4e+02 Score=27.94 Aligned_cols=47 Identities=9% Similarity=0.281 Sum_probs=29.8
Q ss_pred HHhhhhcCCCCceEEEeccCCCcchh--cHHHHhhhhcCCCCCeEEEEeccchhh
Q psy8958 99 QMTQTHMSNPNAIILCIQDGSVDAER--SNVTDLVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 99 ~Lv~~Yi~~p~sIILaV~~a~~D~an--s~al~lar~~DP~G~RTIGVlTK~D~~ 151 (294)
+.+.+.++.-. +||.|++|...+.. ....++.+ +...|.|++|.|+.
T Consensus 16 ~~l~~~l~~aD-vIL~VvDar~p~~~~~~~l~~~~~-----~kp~iiVlNK~DL~ 64 (287)
T PRK09563 16 REIKENLKLVD-VVIEVLDARIPLSSENPMIDKIIG-----NKPRLLILNKSDLA 64 (287)
T ss_pred HHHHHHhhhCC-EEEEEEECCCCCCCCChhHHHHhC-----CCCEEEEEEchhcC
Confidence 34466666666 77888888653332 22333332 56789999999964
No 339
>PF10139 Virul_Fac: Putative bacterial virulence factor; InterPro: IPR017030 This group represents a virulence effector protein, SrfC type.
Probab=20.99 E-value=1.1e+02 Score=33.86 Aligned_cols=89 Identities=19% Similarity=0.344 Sum_probs=50.8
Q ss_pred eEEEEeCC----CCCCceEEeCCCCcccCC-------CCCChh-----HHHHHHHHhhhhcCC--CCceEEEeccCCCcc
Q psy8958 61 ISMSVKGP----GLQRMVLVDLPGIISTST-------QDMASD-----TRDLIRQMTQTHMSN--PNAIILCIQDGSVDA 122 (294)
Q Consensus 61 I~leI~gP----~~p~LTLVDLPGi~~~~~-------~~q~~~-----~~~~i~~Lv~~Yi~~--p~sIILaV~~a~~D~ 122 (294)
|.+-+..| -+-+.-|.|.||...... .+++.- ...++.-|-++|-.+ .+.+++|+-+++.
T Consensus 309 L~~pl~~~p~~~~~e~vDLLDfPg~r~r~~~~~~~~~~~~~~~l~~~llrgKvayLferY~~~qe~~~LlvC~a~~~~-- 386 (854)
T PF10139_consen 309 LVFPLESPPREPFFEQVDLLDFPGYRSRLKIPELEAPDEPPDPLAQLLLRGKVAYLFERYTDNQEINLLLVCTAASQQ-- 386 (854)
T ss_pred eeeecCCCcccccccccccccCCCCCccccccccccccCCcchHHHHHHHHHHHHHHHHHHHhcCCCEEEEeCCCcch--
Confidence 44445553 344667889999643311 122222 456677799999986 6666666666654
Q ss_pred hhcHHHHhhhhcC---------------CCCCeEEEEeccchhhhh
Q psy8958 123 ERSNVTDLVSQMD---------------PQGKRTIFVLTKVSQQLI 153 (294)
Q Consensus 123 ans~al~lar~~D---------------P~G~RTIGVlTK~D~~~~ 153 (294)
+++-.+.+-++ ....--|-||||.|+++.
T Consensus 387 --~ev~~~~~~l~~Wv~~tqG~tp~~R~~r~pgL~walT~fD~r~~ 430 (854)
T PF10139_consen 387 --SEVKDVGRALDYWVKQTQGETPQVRARRKPGLFWALTPFDQRFT 430 (854)
T ss_pred --hhHHHHHHHHHHHHHHhcCCChHHhccCCCCeEEEeccchHHhh
Confidence 22222222211 111236889999998754
No 340
>TIGR01759 MalateDH-SF1 malate dehydrogenase. This model represents a family of malate dehydrogenases in bacteria and eukaryotes which utilize either NAD or NADP depending on the species and context. MDH interconverts malate and oxaloacetate and is a part of the citric acid cycle as well as the C4 cycle in certain photosynthetic organisms.
Probab=20.95 E-value=61 Score=31.35 Aligned_cols=40 Identities=10% Similarity=0.218 Sum_probs=31.5
Q ss_pred CCceEEEeccCCCcchhcHHHHhhhhcCCCCCeEEEEeccchhh
Q psy8958 108 PNAIILCIQDGSVDAERSNVTDLVSQMDPQGKRTIFVLTKVSQQ 151 (294)
Q Consensus 108 p~sIILaV~~a~~D~ans~al~lar~~DP~G~RTIGVlTK~D~~ 151 (294)
|++|||.|. -.+|+-+.-+.+.+..++| .|-||+ |-+|..
T Consensus 121 ~~~iiivvs-NPvDv~t~v~~k~s~g~p~--~rViG~-t~LDs~ 160 (323)
T TIGR01759 121 KDVKVLVVG-NPANTNALIASKNAPDIPP--KNFSAM-TRLDHN 160 (323)
T ss_pred CCeEEEEeC-CcHHHHHHHHHHHcCCCCH--HHEEEe-eHHHHH
Confidence 488887775 4578888888888876665 689998 999964
No 341
>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=20.66 E-value=1.6e+02 Score=25.06 Aligned_cols=66 Identities=18% Similarity=0.194 Sum_probs=35.5
Q ss_pred CCceEEeCCCCcccCCCCCChhHHHHHHHHhhhhcCCCCceEEEeccCCCc-chh--cHHHHhhhhcCCCCCeEEEEecc
Q psy8958 71 QRMVLVDLPGIISTSTQDMASDTRDLIRQMTQTHMSNPNAIILCIQDGSVD-AER--SNVTDLVSQMDPQGKRTIFVLTK 147 (294)
Q Consensus 71 p~LTLVDLPGi~~~~~~~q~~~~~~~i~~Lv~~Yi~~p~sIILaV~~a~~D-~an--s~al~lar~~DP~G~RTIGVlTK 147 (294)
.++++.|+||..... .+...++++-+.++++..-.+.+ +.. +..+..++..-|+ .--|-|.||
T Consensus 49 ~~l~i~Dt~g~~~~~-------------~~~~~~~~~a~~~llv~~i~~~~s~~~~~~~~~~~i~~~~~~-~piilvgnK 114 (187)
T cd04129 49 VQLALWDTAGQEEYE-------------RLRPLSYSKAHVILIGFAVDTPDSLENVRTKWIEEVRRYCPN-VPVILVGLK 114 (187)
T ss_pred EEEEEEECCCChhcc-------------ccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCC-CCEEEEeeC
Confidence 478999999954321 12223556666555443322211 111 1233444444344 667899999
Q ss_pred chh
Q psy8958 148 VSQ 150 (294)
Q Consensus 148 ~D~ 150 (294)
.|+
T Consensus 115 ~Dl 117 (187)
T cd04129 115 KDL 117 (187)
T ss_pred hhh
Confidence 995
No 342
>COG3963 Phospholipid N-methyltransferase [Lipid metabolism]
Probab=20.20 E-value=85 Score=28.49 Aligned_cols=56 Identities=23% Similarity=0.232 Sum_probs=40.9
Q ss_pred HHhhhhcCCCCceEEEeccCCCcchhcHHHHhhhhcCCCCCe-------EEEEeccchhhhhhhhccccc
Q psy8958 99 QMTQTHMSNPNAIILCIQDGSVDAERSNVTDLVSQMDPQGKR-------TIFVLTKVSQQLIRIEKDGSV 161 (294)
Q Consensus 99 ~Lv~~Yi~~p~sIILaV~~a~~D~ans~al~lar~~DP~G~R-------TIGVlTK~D~~~~~~~~~~~v 161 (294)
...+.+|.+|++| =+++|.+. .-|.+|+..+||+-.- --||+||. .+..+..+.++
T Consensus 14 ~F~k~wi~~PrtV-GaI~PsSs----~lA~~M~s~I~pesglpVlElGPGTGV~Tka--IL~~gv~~~~L 76 (194)
T COG3963 14 SFFKGWIDNPRTV-GAILPSSS----ILARKMASVIDPESGLPVLELGPGTGVITKA--ILSRGVRPESL 76 (194)
T ss_pred HHHHHHhcCCcee-eeecCCcH----HHHHHHHhccCcccCCeeEEEcCCccHhHHH--HHhcCCCccce
Confidence 4678999999975 57888765 6778999999998442 34899996 44555555543
Done!