Query psy5599
Match_columns 79
No_of_seqs 102 out of 372
Neff 5.5
Searched_HMMs 46136
Date Fri Aug 16 21:38:36 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5599.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5599hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2655|consensus 99.4 3.7E-13 8E-18 103.2 2.9 48 13-60 1-48 (366)
2 KOG1547|consensus 99.2 4.7E-12 1E-16 94.7 3.0 56 6-61 19-74 (336)
3 COG5019 CDC3 Septin family pro 99.1 2.4E-11 5.2E-16 93.5 3.2 50 12-61 2-51 (373)
4 KOG3859|consensus 99.1 2.9E-11 6.2E-16 92.1 3.1 57 6-62 15-71 (406)
5 cd01850 CDC_Septin CDC/Septin. 98.8 2.1E-10 4.6E-15 83.9 -2.0 51 11-61 223-275 (276)
6 KOG2655|consensus 98.8 5.5E-10 1.2E-14 85.9 -2.4 56 12-67 240-297 (366)
7 KOG3859|consensus 98.7 2.6E-09 5.6E-14 81.5 0.8 56 14-69 258-314 (406)
8 PF00735 Septin: Septin; Inte 98.7 1.1E-09 2.5E-14 80.7 -2.9 49 14-62 227-276 (281)
9 COG5019 CDC3 Septin family pro 98.5 5.2E-09 1.1E-13 80.7 -2.6 55 11-65 243-299 (373)
10 KOG1547|consensus 98.4 1.4E-08 3E-13 76.2 -2.2 51 12-62 266-317 (336)
11 PF00735 Septin: Septin; Inte 98.2 4.7E-07 1E-11 66.9 1.2 33 30-62 1-33 (281)
12 cd01850 CDC_Septin CDC/Septin. 97.5 4.8E-05 1E-09 55.7 2.0 32 30-61 1-32 (276)
13 cd00154 Rab Rab family. Rab G 93.9 0.032 6.8E-07 34.7 1.3 28 34-61 1-28 (159)
14 cd01858 NGP_1 NGP-1. Autoanti 93.6 0.043 9.4E-07 36.1 1.6 28 31-58 100-127 (157)
15 cd04123 Rab21 Rab21 subfamily. 93.5 0.039 8.5E-07 34.9 1.3 27 34-60 1-27 (162)
16 cd01855 YqeH YqeH. YqeH is an 93.1 0.055 1.2E-06 36.6 1.5 25 34-58 128-152 (190)
17 PF08477 Miro: Miro-like prote 92.9 0.061 1.3E-06 33.0 1.4 25 35-59 1-25 (119)
18 cd01853 Toc34_like Toc34-like 92.8 0.095 2.1E-06 38.1 2.6 30 31-60 29-58 (249)
19 cd01866 Rab2 Rab2 subfamily. 92.8 0.069 1.5E-06 34.9 1.7 28 32-59 3-30 (168)
20 PF03193 DUF258: Protein of un 92.8 0.059 1.3E-06 37.3 1.4 24 34-57 36-59 (161)
21 cd00157 Rho Rho (Ras homology) 92.6 0.08 1.7E-06 34.0 1.8 25 34-58 1-25 (171)
22 PLN03071 GTP-binding nuclear p 92.6 0.061 1.3E-06 37.6 1.2 29 31-59 11-39 (219)
23 cd01860 Rab5_related Rab5-rela 92.6 0.071 1.5E-06 34.1 1.4 28 33-60 1-28 (163)
24 cd01867 Rab8_Rab10_Rab13_like 92.5 0.082 1.8E-06 34.5 1.8 29 32-60 2-30 (167)
25 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 92.5 0.084 1.8E-06 34.1 1.8 27 33-59 2-28 (166)
26 cd04138 H_N_K_Ras_like H-Ras/N 92.3 0.086 1.9E-06 33.3 1.6 25 34-58 2-26 (162)
27 cd01864 Rab19 Rab19 subfamily. 92.1 0.1 2.2E-06 33.7 1.8 27 32-58 2-28 (165)
28 smart00175 RAB Rab subfamily o 92.0 0.076 1.6E-06 33.8 1.0 25 34-58 1-25 (164)
29 PF05049 IIGP: Interferon-indu 91.7 0.096 2.1E-06 40.8 1.5 25 31-55 33-57 (376)
30 cd04119 RJL RJL (RabJ-Like) su 91.6 0.095 2.1E-06 33.3 1.2 26 34-59 1-26 (168)
31 cd04113 Rab4 Rab4 subfamily. 91.6 0.12 2.6E-06 33.1 1.7 27 34-60 1-27 (161)
32 PF01926 MMR_HSR1: 50S ribosom 91.5 0.085 1.8E-06 32.7 0.9 24 35-58 1-24 (116)
33 cd04124 RabL2 RabL2 subfamily. 91.0 0.12 2.7E-06 33.6 1.3 26 34-59 1-26 (161)
34 cd04176 Rap2 Rap2 subgroup. T 90.7 0.15 3.3E-06 32.7 1.6 27 34-60 2-28 (163)
35 cd01868 Rab11_like Rab11-like. 90.7 0.2 4.4E-06 32.2 2.1 27 33-59 3-29 (165)
36 cd04137 RheB Rheb (Ras Homolog 90.7 0.15 3.2E-06 33.4 1.5 25 34-58 2-26 (180)
37 cd01865 Rab3 Rab3 subfamily. 90.6 0.16 3.4E-06 33.0 1.5 26 34-59 2-27 (165)
38 cd04114 Rab30 Rab30 subfamily. 90.6 0.19 4E-06 32.4 1.9 29 31-59 5-33 (169)
39 smart00173 RAS Ras subfamily o 90.6 0.18 3.9E-06 32.3 1.8 27 34-60 1-27 (164)
40 cd01862 Rab7 Rab7 subfamily. 90.5 0.13 2.9E-06 33.0 1.1 25 34-58 1-25 (172)
41 TIGR00231 small_GTP small GTP- 90.5 0.15 3.2E-06 31.2 1.2 24 34-57 2-25 (161)
42 cd04140 ARHI_like ARHI subfami 90.4 0.17 3.6E-06 32.9 1.5 26 34-59 2-27 (165)
43 cd04115 Rab33B_Rab33A Rab33B/R 90.4 0.18 4E-06 33.0 1.7 27 33-59 2-28 (170)
44 cd04139 RalA_RalB RalA/RalB su 90.3 0.15 3.4E-06 32.3 1.3 26 34-59 1-26 (164)
45 TIGR00991 3a0901s02IAP34 GTP-b 90.3 0.28 6.1E-06 37.4 2.9 50 10-59 7-64 (313)
46 cd01861 Rab6 Rab6 subfamily. 90.0 0.16 3.5E-06 32.3 1.2 27 34-60 1-27 (161)
47 cd04122 Rab14 Rab14 subfamily. 89.7 0.21 4.6E-06 32.3 1.6 27 33-59 2-28 (166)
48 cd04111 Rab39 Rab39 subfamily. 89.7 0.25 5.4E-06 34.2 2.0 29 33-61 2-30 (211)
49 cd01863 Rab18 Rab18 subfamily. 89.6 0.18 3.9E-06 32.2 1.2 25 34-58 1-25 (161)
50 cd04117 Rab15 Rab15 subfamily. 89.5 0.18 3.9E-06 32.9 1.2 27 34-60 1-27 (161)
51 cd04125 RabA_like RabA-like su 89.3 0.19 4.1E-06 33.5 1.1 27 34-60 1-27 (188)
52 cd04136 Rap_like Rap-like subf 89.1 0.27 5.8E-06 31.3 1.7 25 34-58 2-26 (163)
53 cd04135 Tc10 TC10 subfamily. 89.1 0.27 5.9E-06 31.8 1.8 27 34-60 1-27 (174)
54 cd04160 Arfrp1 Arfrp1 subfamil 88.9 0.23 5E-06 31.9 1.3 22 35-56 1-22 (167)
55 cd01852 AIG1 AIG1 (avrRpt2-ind 88.8 0.22 4.8E-06 33.8 1.2 26 34-59 1-26 (196)
56 cd04110 Rab35 Rab35 subfamily. 88.8 0.27 5.9E-06 33.4 1.7 27 33-59 6-32 (199)
57 cd04145 M_R_Ras_like M-Ras/R-R 88.7 0.42 9E-06 30.4 2.4 25 34-58 3-27 (164)
58 PF00071 Ras: Ras family; Int 88.7 0.25 5.4E-06 31.6 1.3 25 36-60 2-26 (162)
59 cd04127 Rab27A Rab27a subfamil 88.6 0.31 6.6E-06 31.9 1.7 26 33-58 4-29 (180)
60 PF13671 AAA_33: AAA domain; P 88.6 0.28 6E-06 31.0 1.5 20 36-55 2-21 (143)
61 cd01857 HSR1_MMR1 HSR1/MMR1. 88.4 0.25 5.5E-06 32.0 1.2 24 35-58 85-108 (141)
62 TIGR03598 GTPase_YsxC ribosome 88.3 0.25 5.4E-06 32.9 1.2 27 31-57 16-42 (179)
63 cd04163 Era Era subfamily. Er 88.2 0.28 6.2E-06 30.5 1.3 25 34-58 4-28 (168)
64 cd04107 Rab32_Rab38 Rab38/Rab3 88.2 0.26 5.6E-06 33.4 1.2 26 34-59 1-26 (201)
65 cd00876 Ras Ras family. The R 88.2 0.26 5.6E-06 31.0 1.1 23 35-57 1-23 (160)
66 cd04132 Rho4_like Rho4-like su 88.1 0.28 6E-06 32.4 1.3 25 35-59 2-26 (187)
67 cd04177 RSR1 RSR1 subgroup. R 88.0 0.32 6.9E-06 31.7 1.5 27 33-59 1-27 (168)
68 TIGR03596 GTPase_YlqF ribosome 88.0 0.31 6.7E-06 35.4 1.6 27 32-58 117-143 (276)
69 PLN03108 Rab family protein; P 88.0 0.34 7.5E-06 33.4 1.8 29 32-60 5-33 (210)
70 cd04155 Arl3 Arl3 subfamily. 87.8 0.39 8.5E-06 31.1 1.9 30 29-58 10-39 (173)
71 cd00877 Ran Ran (Ras-related n 87.7 0.31 6.6E-06 32.1 1.3 25 34-58 1-25 (166)
72 cd04116 Rab9 Rab9 subfamily. 87.7 0.39 8.4E-06 31.1 1.8 29 32-60 4-32 (170)
73 cd04106 Rab23_lke Rab23-like s 87.3 0.31 6.8E-06 31.0 1.2 24 35-58 2-25 (162)
74 smart00174 RHO Rho (Ras homolo 87.1 0.3 6.6E-06 31.6 1.0 24 36-59 1-24 (174)
75 cd04146 RERG_RasL11_like RERG/ 87.0 0.34 7.3E-06 31.3 1.2 23 36-58 2-24 (165)
76 cd01892 Miro2 Miro2 subfamily. 86.9 0.42 9.1E-06 31.6 1.6 27 33-59 4-30 (169)
77 cd04164 trmE TrmE (MnmE, ThdF, 86.8 0.37 8E-06 30.1 1.3 25 34-58 2-26 (157)
78 PF13191 AAA_16: AAA ATPase do 86.8 0.38 8.3E-06 31.4 1.4 27 33-59 24-50 (185)
79 TIGR00157 ribosome small subun 86.8 0.46 1E-05 34.2 1.9 24 35-58 122-145 (245)
80 COG1162 Predicted GTPases [Gen 86.7 0.34 7.3E-06 36.9 1.2 23 35-57 166-188 (301)
81 cd04118 Rab24 Rab24 subfamily. 86.6 0.36 7.8E-06 32.1 1.2 26 34-59 1-26 (193)
82 cd01859 MJ1464 MJ1464. This f 86.5 0.27 5.9E-06 32.0 0.5 28 31-58 99-126 (156)
83 cd04104 p47_IIGP_like p47 (47- 86.4 0.47 1E-05 32.5 1.7 23 34-56 2-24 (197)
84 PRK00454 engB GTP-binding prot 86.2 0.39 8.5E-06 31.8 1.2 27 31-57 22-48 (196)
85 cd01893 Miro1 Miro1 subfamily. 86.1 0.43 9.3E-06 31.1 1.3 25 35-59 2-26 (166)
86 cd01895 EngA2 EngA2 subfamily. 86.1 0.44 9.6E-06 30.1 1.4 24 34-57 3-26 (174)
87 cd00881 GTP_translation_factor 86.0 0.43 9.3E-06 30.9 1.3 26 35-60 1-26 (189)
88 cd01897 NOG NOG1 is a nucleola 85.9 0.42 9.1E-06 30.7 1.2 24 35-58 2-25 (168)
89 PF04548 AIG1: AIG1 family; I 85.8 0.66 1.4E-05 32.3 2.3 28 34-61 1-28 (212)
90 cd04141 Rit_Rin_Ric Rit/Rin/Ri 85.7 0.69 1.5E-05 30.7 2.2 27 34-60 3-29 (172)
91 cd04156 ARLTS1 ARLTS1 subfamil 85.7 0.38 8.2E-06 30.6 0.9 23 36-58 2-24 (160)
92 PRK12288 GTPase RsgA; Reviewed 85.7 0.4 8.7E-06 36.5 1.2 24 35-58 207-230 (347)
93 PF03205 MobB: Molybdopterin g 85.5 0.61 1.3E-05 31.0 1.9 26 35-60 2-27 (140)
94 PF13401 AAA_22: AAA domain; P 85.5 0.51 1.1E-05 29.3 1.4 23 36-58 7-29 (131)
95 cd04175 Rap1 Rap1 subgroup. T 85.3 0.56 1.2E-05 30.1 1.6 25 34-58 2-26 (164)
96 cd04178 Nucleostemin_like Nucl 85.3 0.49 1.1E-05 32.4 1.3 27 33-59 117-143 (172)
97 PRK12289 GTPase RsgA; Reviewed 85.3 0.43 9.3E-06 36.5 1.2 23 35-57 174-196 (352)
98 cd01856 YlqF YlqF. Proteins o 85.2 0.5 1.1E-05 31.5 1.4 27 32-58 114-140 (171)
99 PLN03110 Rab GTPase; Provision 85.1 0.61 1.3E-05 32.3 1.8 27 32-58 11-37 (216)
100 PTZ00369 Ras-like protein; Pro 85.0 0.57 1.2E-05 31.4 1.5 26 33-58 5-30 (189)
101 cd04128 Spg1 Spg1p. Spg1p (se 84.5 0.54 1.2E-05 31.8 1.3 26 34-59 1-26 (182)
102 PLN03118 Rab family protein; P 84.4 0.73 1.6E-05 31.5 1.9 29 32-60 13-41 (211)
103 PF00350 Dynamin_N: Dynamin fa 84.3 0.61 1.3E-05 30.2 1.4 27 36-62 1-27 (168)
104 cd04154 Arl2 Arl2 subfamily. 84.2 0.65 1.4E-05 30.4 1.5 28 31-58 12-39 (173)
105 PRK04213 GTP-binding protein; 84.2 0.61 1.3E-05 31.2 1.4 28 31-58 7-34 (201)
106 cd04144 Ras2 Ras2 subfamily. 84.2 0.58 1.3E-05 31.4 1.3 25 36-60 2-26 (190)
107 PF07728 AAA_5: AAA domain (dy 83.7 0.75 1.6E-05 29.2 1.6 23 35-57 1-23 (139)
108 PRK09563 rbgA GTPase YlqF; Rev 83.4 0.74 1.6E-05 33.7 1.7 27 32-58 120-146 (287)
109 TIGR02528 EutP ethanolamine ut 83.3 0.71 1.5E-05 29.0 1.4 24 35-58 2-25 (142)
110 cd04108 Rab36_Rab34 Rab34/Rab3 83.3 0.63 1.4E-05 30.8 1.2 24 36-59 3-26 (170)
111 cd04157 Arl6 Arl6 subfamily. 83.0 0.64 1.4E-05 29.5 1.1 22 35-56 1-22 (162)
112 cd01898 Obg Obg subfamily. Th 82.9 0.59 1.3E-05 30.0 0.9 23 35-57 2-24 (170)
113 cd04148 RGK RGK subfamily. Th 82.9 0.64 1.4E-05 32.4 1.2 25 34-58 1-25 (221)
114 cd04109 Rab28 Rab28 subfamily. 82.9 0.65 1.4E-05 32.0 1.1 25 34-58 1-25 (215)
115 TIGR00993 3a0901s04IAP86 chlor 82.8 0.78 1.7E-05 38.9 1.8 31 30-60 115-145 (763)
116 PF10662 PduV-EutP: Ethanolami 82.5 0.65 1.4E-05 31.7 1.0 25 35-59 3-27 (143)
117 COG3596 Predicted GTPase [Gene 82.5 0.73 1.6E-05 35.1 1.4 31 32-62 38-68 (296)
118 cd04101 RabL4 RabL4 (Rab-like4 82.5 0.73 1.6E-05 29.4 1.2 22 34-55 1-22 (164)
119 cd04131 Rnd Rnd subfamily. Th 82.3 0.92 2E-05 30.6 1.7 26 34-59 2-27 (178)
120 cd04121 Rab40 Rab40 subfamily. 82.2 0.91 2E-05 31.2 1.7 27 32-58 5-31 (189)
121 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 82.1 1 2.3E-05 30.6 1.9 30 31-60 3-32 (182)
122 cd01874 Cdc42 Cdc42 subfamily. 82.0 0.92 2E-05 30.2 1.6 25 34-58 2-26 (175)
123 PRK07261 topology modulation p 81.9 0.85 1.8E-05 30.9 1.4 21 35-55 2-22 (171)
124 cd01875 RhoG RhoG subfamily. 81.8 0.99 2.1E-05 30.5 1.7 26 34-59 4-29 (191)
125 cd01870 RhoA_like RhoA-like su 81.7 0.88 1.9E-05 29.4 1.4 26 34-59 2-27 (175)
126 cd04159 Arl10_like Arl10-like 81.6 1 2.2E-05 27.8 1.6 23 36-58 2-24 (159)
127 cd04162 Arl9_Arfrp2_like Arl9/ 81.5 0.79 1.7E-05 30.1 1.1 23 36-58 2-24 (164)
128 cd01887 IF2_eIF5B IF2/eIF5B (i 81.5 0.94 2E-05 28.9 1.5 26 35-60 2-27 (168)
129 cd04112 Rab26 Rab26 subfamily. 81.4 0.82 1.8E-05 30.7 1.2 25 34-58 1-25 (191)
130 PTZ00132 GTP-binding nuclear p 81.3 0.92 2E-05 31.0 1.4 27 32-58 8-34 (215)
131 smart00177 ARF ARF-like small 81.2 0.89 1.9E-05 30.2 1.3 26 33-58 13-38 (175)
132 cd01871 Rac1_like Rac1-like su 80.9 1 2.2E-05 30.0 1.5 26 34-59 2-27 (174)
133 cd01876 YihA_EngB The YihA (En 80.8 0.94 2E-05 28.2 1.2 20 36-55 2-21 (170)
134 cd01849 YlqF_related_GTPase Yl 80.5 0.95 2.1E-05 29.6 1.3 28 31-58 98-125 (155)
135 smart00178 SAR Sar1p-like memb 80.3 0.96 2.1E-05 30.3 1.3 27 33-59 17-43 (184)
136 cd01894 EngA1 EngA1 subfamily. 80.2 0.7 1.5E-05 28.9 0.5 20 38-57 2-21 (157)
137 cd01878 HflX HflX subfamily. 80.2 1.3 2.8E-05 29.8 1.9 27 32-58 40-66 (204)
138 cd04158 ARD1 ARD1 subfamily. 79.9 0.96 2.1E-05 29.6 1.1 24 35-58 1-24 (169)
139 cd04134 Rho3 Rho3 subfamily. 79.6 1.1 2.4E-05 30.0 1.4 26 35-60 2-27 (189)
140 cd04120 Rab12 Rab12 subfamily. 79.5 1 2.3E-05 31.3 1.2 26 35-60 2-27 (202)
141 cd04161 Arl2l1_Arl13_like Arl2 79.4 1 2.2E-05 29.6 1.1 22 35-56 1-22 (167)
142 cd00878 Arf_Arl Arf (ADP-ribos 79.4 0.94 2E-05 28.8 0.9 23 36-58 2-24 (158)
143 cd01890 LepA LepA subfamily. 79.3 1.2 2.6E-05 28.9 1.5 22 35-56 2-23 (179)
144 KOG2485|consensus 78.9 1.7 3.6E-05 33.7 2.3 32 30-61 140-171 (335)
145 cd04149 Arf6 Arf6 subfamily. 78.5 1.3 2.8E-05 29.3 1.4 25 33-57 9-33 (168)
146 cd00879 Sar1 Sar1 subfamily. 78.4 1.2 2.7E-05 29.3 1.3 26 33-58 19-44 (190)
147 cd04126 Rab20 Rab20 subfamily. 78.1 1.1 2.5E-05 31.7 1.1 27 34-60 1-27 (220)
148 PF12775 AAA_7: P-loop contain 78.0 0.94 2E-05 33.2 0.7 37 20-56 18-56 (272)
149 cd04150 Arf1_5_like Arf1-Arf5- 77.8 1.3 2.8E-05 28.9 1.2 23 35-57 2-24 (159)
150 cd04142 RRP22 RRP22 subfamily. 77.8 1.5 3.3E-05 30.1 1.6 27 34-60 1-27 (198)
151 PF13207 AAA_17: AAA domain; P 77.6 1.5 3.3E-05 26.9 1.5 21 36-56 2-22 (121)
152 cd04147 Ras_dva Ras-dva subfam 77.4 1.3 2.8E-05 30.0 1.1 25 36-60 2-26 (198)
153 PRK00098 GTPase RsgA; Reviewed 77.2 1.4 3.1E-05 32.5 1.5 23 35-57 166-188 (298)
154 TIGR03597 GTPase_YqeH ribosome 77.2 1.5 3.2E-05 33.3 1.6 24 34-57 155-178 (360)
155 COG1100 GTPase SAR1 and relate 77.0 1.6 3.5E-05 29.4 1.6 27 34-60 6-32 (219)
156 cd04103 Centaurin_gamma Centau 76.9 1.5 3.2E-05 28.9 1.3 24 35-58 2-25 (158)
157 COG2884 FtsE Predicted ATPase 76.6 1.5 3.3E-05 32.2 1.4 43 36-78 31-74 (223)
158 cd01891 TypA_BipA TypA (tyrosi 76.4 1.8 3.8E-05 29.1 1.6 21 35-55 4-24 (194)
159 cd04153 Arl5_Arl8 Arl5/Arl8 su 76.3 1.6 3.5E-05 28.7 1.4 27 33-59 15-41 (174)
160 cd01879 FeoB Ferrous iron tran 76.0 1.1 2.3E-05 28.2 0.4 20 38-57 1-20 (158)
161 PLN00223 ADP-ribosylation fact 75.9 1.7 3.7E-05 29.2 1.4 26 33-58 17-42 (181)
162 cd04143 Rhes_like Rhes_like su 75.8 1.4 3.1E-05 31.6 1.1 26 34-59 1-26 (247)
163 cd00882 Ras_like_GTPase Ras-li 75.6 1.1 2.5E-05 26.6 0.5 21 38-58 1-21 (157)
164 cd04133 Rop_like Rop subfamily 75.5 1.8 3.9E-05 29.3 1.5 27 34-60 2-28 (176)
165 cd04171 SelB SelB subfamily. 75.5 1.7 3.8E-05 27.3 1.3 22 35-56 2-23 (164)
166 PF13555 AAA_29: P-loop contai 75.5 2 4.4E-05 25.4 1.5 22 35-56 25-46 (62)
167 cd00009 AAA The AAA+ (ATPases 75.4 2.2 4.8E-05 25.6 1.8 24 34-57 20-43 (151)
168 cd04105 SR_beta Signal recogni 75.3 1.6 3.5E-05 30.1 1.2 24 35-58 2-25 (203)
169 PRK13796 GTPase YqeH; Provisio 75.2 1.8 4E-05 32.9 1.6 23 34-56 161-183 (365)
170 cd01854 YjeQ_engC YjeQ/EngC. 75.2 1.9 4.1E-05 31.6 1.7 26 34-59 162-187 (287)
171 PF00004 AAA: ATPase family as 75.2 2.1 4.5E-05 26.2 1.6 21 36-56 1-21 (132)
172 PTZ00133 ADP-ribosylation fact 74.9 1.8 4E-05 29.0 1.4 26 33-58 17-42 (182)
173 cd04102 RabL3 RabL3 (Rab-like3 74.8 1.6 3.5E-05 30.5 1.2 25 35-59 2-26 (202)
174 smart00382 AAA ATPases associa 74.8 2 4.3E-05 25.4 1.4 24 35-58 4-27 (148)
175 PF00910 RNA_helicase: RNA hel 74.5 2.3 5E-05 26.5 1.7 26 36-61 1-26 (107)
176 cd04152 Arl4_Arl7 Arl4/Arl7 su 74.4 2.1 4.5E-05 28.6 1.6 25 34-58 4-28 (183)
177 cd04174 Rnd1_Rho6 Rnd1/Rho6 su 74.0 2.2 4.9E-05 30.6 1.7 28 32-59 12-39 (232)
178 PF00025 Arf: ADP-ribosylation 73.6 2 4.2E-05 28.8 1.3 29 31-59 12-40 (175)
179 TIGR00073 hypB hydrogenase acc 73.2 4.7 0.0001 27.7 3.1 31 26-56 15-45 (207)
180 PRK15467 ethanolamine utilizat 73.2 2.1 4.6E-05 28.2 1.3 22 35-56 3-24 (158)
181 PRK15494 era GTPase Era; Provi 72.9 2.4 5.3E-05 31.8 1.8 27 33-59 52-78 (339)
182 TIGR00436 era GTP-binding prot 72.8 2 4.3E-05 30.9 1.2 24 36-59 3-26 (270)
183 PF05621 TniB: Bacterial TniB 72.7 2 4.4E-05 32.7 1.3 27 32-58 60-86 (302)
184 cd04130 Wrch_1 Wrch-1 subfamil 72.7 2.2 4.8E-05 27.8 1.4 25 34-58 1-25 (173)
185 cd04129 Rho2 Rho2 subfamily. 72.5 2.3 5E-05 28.4 1.4 24 35-58 3-26 (187)
186 cd01889 SelB_euk SelB subfamil 72.5 2.1 4.7E-05 28.6 1.3 22 34-55 1-22 (192)
187 PRK00089 era GTPase Era; Revie 72.4 1.9 4.2E-05 30.9 1.1 25 36-60 8-32 (292)
188 KOG0080|consensus 72.2 3.1 6.7E-05 30.1 2.0 29 32-60 10-38 (209)
189 PF01580 FtsK_SpoIIIE: FtsK/Sp 72.0 1.7 3.7E-05 29.6 0.7 44 14-60 22-65 (205)
190 cd04173 Rnd2_Rho7 Rnd2/Rho7 su 71.5 2.6 5.7E-05 29.9 1.6 26 34-59 2-27 (222)
191 PF13238 AAA_18: AAA domain; P 71.4 2.7 5.9E-05 25.5 1.5 21 36-56 1-21 (129)
192 PF12846 AAA_10: AAA-like doma 71.4 3 6.4E-05 29.0 1.8 28 35-62 3-30 (304)
193 cd04170 EF-G_bact Elongation f 71.1 2.3 5E-05 30.4 1.2 21 35-55 1-21 (268)
194 COG1161 Predicted GTPases [Gen 70.5 2.6 5.7E-05 31.6 1.5 29 32-60 131-159 (322)
195 cd01120 RecA-like_NTPases RecA 70.4 3.6 7.9E-05 25.6 1.9 23 36-58 2-24 (165)
196 cd00880 Era_like Era (E. coli 69.6 1.9 4.1E-05 26.1 0.5 22 38-59 1-22 (163)
197 cd01881 Obg_like The Obg-like 69.5 1.9 4.1E-05 27.6 0.4 21 38-58 1-21 (176)
198 TIGR02836 spore_IV_A stage IV 68.9 6 0.00013 32.2 3.2 36 22-57 5-41 (492)
199 PF00005 ABC_tran: ABC transpo 68.8 2.8 6.1E-05 26.3 1.1 21 36-56 14-34 (137)
200 cd03116 MobB Molybdenum is an 68.0 3.9 8.5E-05 27.8 1.8 22 35-56 3-24 (159)
201 cd04167 Snu114p Snu114p subfam 67.7 3.4 7.3E-05 28.4 1.4 23 35-57 2-24 (213)
202 COG1763 MobB Molybdopterin-gua 67.6 3.8 8.3E-05 28.3 1.7 25 36-60 5-29 (161)
203 PF02421 FeoB_N: Ferrous iron 67.5 3.2 7E-05 28.4 1.3 26 34-59 1-26 (156)
204 PRK08233 hypothetical protein; 66.8 3.9 8.5E-05 26.7 1.6 23 34-56 4-26 (182)
205 PRK00093 GTP-binding protein D 66.1 3 6.6E-05 31.6 1.0 24 34-57 2-25 (435)
206 cd04151 Arl1 Arl1 subfamily. 65.2 3.6 7.7E-05 26.3 1.1 22 36-57 2-23 (158)
207 COG0218 Predicted GTPase [Gene 65.1 3.2 7E-05 29.9 1.0 30 33-62 24-54 (200)
208 PF03266 NTPase_1: NTPase; In 64.8 5 0.00011 27.4 1.8 23 35-57 1-23 (168)
209 PRK05480 uridine/cytidine kina 64.4 4.7 0.0001 27.5 1.6 24 33-56 6-29 (209)
210 cd00464 SK Shikimate kinase (S 63.7 4 8.6E-05 25.9 1.1 20 35-54 1-20 (154)
211 PF13476 AAA_23: AAA domain; P 63.6 4.2 9.2E-05 26.5 1.3 25 36-60 22-46 (202)
212 PRK01889 GTPase RsgA; Reviewed 63.5 4.7 0.0001 30.6 1.6 23 35-57 197-219 (356)
213 COG3829 RocR Transcriptional r 63.4 5 0.00011 33.1 1.9 26 24-49 257-284 (560)
214 PRK14493 putative bifunctional 63.3 4 8.7E-05 30.2 1.2 25 36-60 4-28 (274)
215 PRK08118 topology modulation p 63.3 5.4 0.00012 26.9 1.8 21 35-55 3-23 (167)
216 cd01873 RhoBTB RhoBTB subfamil 63.0 5.1 0.00011 27.5 1.6 22 33-54 2-23 (195)
217 PRK10751 molybdopterin-guanine 62.7 4 8.7E-05 28.4 1.1 22 35-56 8-29 (173)
218 PRK14490 putative bifunctional 62.4 5.7 0.00012 30.1 1.9 24 34-57 6-29 (369)
219 TIGR03015 pepcterm_ATPase puta 61.6 5.7 0.00012 27.7 1.7 21 36-56 46-66 (269)
220 cd02019 NK Nucleoside/nucleoti 61.4 6.1 0.00013 22.7 1.6 21 36-56 2-22 (69)
221 cd02027 APSK Adenosine 5'-phos 60.9 4.9 0.00011 26.4 1.2 21 36-56 2-22 (149)
222 PF09439 SRPRB: Signal recogni 60.8 5.5 0.00012 28.0 1.5 23 35-57 5-27 (181)
223 PRK13900 type IV secretion sys 59.9 5.4 0.00012 30.2 1.4 24 32-55 159-182 (332)
224 PLN00023 GTP-binding protein; 59.2 6 0.00013 30.5 1.6 26 33-58 21-46 (334)
225 TIGR00176 mobB molybdopterin-g 59.1 6.4 0.00014 26.4 1.6 22 36-57 2-23 (155)
226 PF05729 NACHT: NACHT domain 59.0 8 0.00017 24.3 1.9 25 36-60 3-27 (166)
227 PRK06547 hypothetical protein; 59.0 13 0.00027 25.5 3.0 27 30-56 12-38 (172)
228 TIGR03594 GTPase_EngA ribosome 58.8 4.7 0.0001 30.4 0.9 22 36-57 2-23 (429)
229 TIGR03420 DnaA_homol_Hda DnaA 58.0 8.3 0.00018 26.2 2.0 27 31-57 36-62 (226)
230 cd01896 DRG The developmentall 57.9 6.3 0.00014 27.9 1.4 23 35-57 2-24 (233)
231 TIGR01663 PNK-3'Pase polynucle 57.8 6.5 0.00014 31.9 1.6 22 35-56 371-392 (526)
232 COG1136 SalX ABC-type antimicr 57.7 5.3 0.00011 29.1 1.0 19 36-54 34-52 (226)
233 PRK06762 hypothetical protein; 57.7 7.1 0.00015 25.5 1.6 21 36-56 5-25 (166)
234 PRK06217 hypothetical protein; 57.4 6.6 0.00014 26.4 1.4 21 35-55 3-23 (183)
235 cd01130 VirB11-like_ATPase Typ 57.2 7.3 0.00016 26.4 1.6 22 34-55 26-47 (186)
236 PF14532 Sigma54_activ_2: Sigm 56.7 8.3 0.00018 24.7 1.7 25 31-55 19-43 (138)
237 PRK03003 GTP-binding protein D 56.5 6.5 0.00014 30.7 1.4 27 31-57 36-62 (472)
238 TIGR03594 GTPase_EngA ribosome 56.3 7.1 0.00015 29.4 1.5 25 33-57 172-196 (429)
239 COG3910 Predicted ATPase [Gene 56.2 6.5 0.00014 29.1 1.2 22 36-57 40-61 (233)
240 PRK05541 adenylylsulfate kinas 56.0 8.1 0.00017 25.6 1.6 21 35-55 9-29 (176)
241 PF00158 Sigma54_activat: Sigm 55.9 7.8 0.00017 26.4 1.6 24 31-54 20-43 (168)
242 PF01637 Arch_ATPase: Archaeal 55.5 8.6 0.00019 25.5 1.7 25 33-57 20-44 (234)
243 PRK10463 hydrogenase nickel in 55.4 16 0.00034 27.6 3.2 29 28-57 100-128 (290)
244 COG0563 Adk Adenylate kinase a 55.4 6.6 0.00014 27.1 1.1 22 35-56 2-23 (178)
245 TIGR02322 phosphon_PhnN phosph 55.2 7.8 0.00017 25.6 1.4 21 36-56 4-24 (179)
246 PRK00093 GTP-binding protein D 55.1 7.4 0.00016 29.5 1.5 25 33-57 173-197 (435)
247 PHA00729 NTP-binding motif con 55.0 9.2 0.0002 27.9 1.9 29 27-56 12-40 (226)
248 PF00448 SRP54: SRP54-type pro 54.8 5.8 0.00013 27.7 0.8 21 35-55 3-23 (196)
249 PF05272 VirE: Virulence-assoc 54.8 7.4 0.00016 27.4 1.3 25 32-56 51-75 (198)
250 cd02028 UMPK_like Uridine mono 54.7 8 0.00017 26.3 1.4 21 36-56 2-22 (179)
251 PF00437 T2SE: Type II/IV secr 54.6 8.8 0.00019 27.2 1.7 23 33-55 127-149 (270)
252 cd02023 UMPK Uridine monophosp 54.2 8.2 0.00018 26.0 1.5 21 36-56 2-22 (198)
253 PF04665 Pox_A32: Poxvirus A32 54.2 8 0.00017 28.4 1.5 25 31-55 11-35 (241)
254 TIGR03263 guanyl_kin guanylate 53.7 7.7 0.00017 25.5 1.2 20 36-55 4-23 (180)
255 PRK10078 ribose 1,5-bisphospho 53.6 8.4 0.00018 26.0 1.4 21 35-55 4-24 (186)
256 PF13173 AAA_14: AAA domain 53.6 9.7 0.00021 24.1 1.6 23 36-58 5-27 (128)
257 PF13479 AAA_24: AAA domain 53.5 8.5 0.00018 26.8 1.5 20 34-53 4-23 (213)
258 TIGR02782 TrbB_P P-type conjug 53.5 9.4 0.0002 28.4 1.8 23 34-56 133-155 (299)
259 COG4917 EutP Ethanolamine util 53.2 8.7 0.00019 26.6 1.4 25 35-59 3-27 (148)
260 PRK00300 gmk guanylate kinase; 53.0 8.9 0.00019 25.8 1.5 21 36-56 8-28 (205)
261 PRK13851 type IV secretion sys 52.9 8 0.00017 29.6 1.3 25 31-55 160-184 (344)
262 PRK13894 conjugal transfer ATP 52.8 9.5 0.00021 28.8 1.7 25 32-56 147-171 (319)
263 cd03273 ABC_SMC2_euk Eukaryoti 52.5 8.6 0.00019 27.1 1.4 20 36-55 28-47 (251)
264 TIGR01360 aden_kin_iso1 adenyl 52.5 8.5 0.00018 25.2 1.3 19 36-54 6-24 (188)
265 PRK13695 putative NTPase; Prov 52.4 11 0.00023 25.0 1.8 21 35-55 2-22 (174)
266 PRK13833 conjugal transfer pro 52.3 9.6 0.00021 29.0 1.7 25 33-57 144-168 (323)
267 TIGR01359 UMP_CMP_kin_fam UMP- 51.9 10 0.00022 25.0 1.6 20 36-55 2-21 (183)
268 PF00625 Guanylate_kin: Guanyl 51.8 10 0.00022 25.4 1.6 21 36-56 5-25 (183)
269 smart00010 small_GTPase Small 51.4 8.4 0.00018 23.1 1.0 23 35-57 2-24 (124)
270 PTZ00301 uridine kinase; Provi 51.1 13 0.00029 26.2 2.2 24 34-57 4-27 (210)
271 PF02463 SMC_N: RecF/RecN/SMC 51.0 9 0.0002 26.1 1.3 19 36-54 27-45 (220)
272 cd00820 PEPCK_HprK Phosphoenol 50.9 9.3 0.0002 24.7 1.2 19 36-54 18-36 (107)
273 PRK14737 gmk guanylate kinase; 50.9 9.4 0.0002 26.3 1.3 21 36-56 7-27 (186)
274 cd01131 PilT Pilus retraction 50.4 9.1 0.0002 26.3 1.2 21 36-56 4-24 (198)
275 PRK11608 pspF phage shock prot 50.2 7.3 0.00016 29.1 0.7 39 13-51 8-47 (326)
276 cd00227 CPT Chloramphenicol (C 50.2 11 0.00024 25.1 1.5 21 36-56 5-25 (175)
277 PRK14738 gmk guanylate kinase; 49.8 9.9 0.00022 26.3 1.3 21 36-56 16-36 (206)
278 PRK04040 adenylate kinase; Pro 49.7 13 0.00029 25.6 1.9 23 34-56 3-25 (188)
279 TIGR00450 mnmE_trmE_thdF tRNA 49.4 9.9 0.00022 29.8 1.4 26 32-57 202-227 (442)
280 TIGR03608 L_ocin_972_ABC putat 49.3 11 0.00023 25.4 1.4 20 36-55 27-46 (206)
281 TIGR01817 nifA Nif-specific re 49.3 9.3 0.0002 30.2 1.2 43 10-52 195-238 (534)
282 KOG0073|consensus 49.2 18 0.00039 26.0 2.5 28 30-57 13-40 (185)
283 PHA02544 44 clamp loader, smal 49.1 18 0.00038 26.1 2.6 33 24-56 33-66 (316)
284 COG0529 CysC Adenylylsulfate k 49.1 23 0.0005 25.7 3.1 45 12-57 3-47 (197)
285 PRK08099 bifunctional DNA-bind 48.9 13 0.00027 29.0 1.9 30 26-55 212-241 (399)
286 PRK00131 aroK shikimate kinase 48.8 9.7 0.00021 24.4 1.1 21 35-55 6-26 (175)
287 cd00071 GMPK Guanosine monopho 48.8 11 0.00024 24.5 1.4 21 36-56 2-22 (137)
288 KOG0394|consensus 48.3 14 0.00029 27.1 1.8 33 30-62 6-38 (210)
289 PRK08903 DnaA regulatory inact 48.2 17 0.00037 25.0 2.3 23 35-57 44-66 (227)
290 PF04317 DUF463: YcjX-like fam 48.1 13 0.00029 29.9 1.9 27 34-60 1-27 (443)
291 PRK00411 cdc6 cell division co 48.0 12 0.00027 27.7 1.7 23 34-56 56-78 (394)
292 PRK03003 GTP-binding protein D 48.0 11 0.00023 29.5 1.4 26 33-58 211-236 (472)
293 PF01583 APS_kinase: Adenylyls 48.0 11 0.00024 25.8 1.3 21 34-54 3-23 (156)
294 TIGR00101 ureG urease accessor 47.8 15 0.00032 25.6 1.9 23 34-56 2-24 (199)
295 cd03224 ABC_TM1139_LivF_branch 47.7 11 0.00023 25.7 1.2 20 36-55 29-48 (222)
296 cd03112 CobW_like The function 47.6 12 0.00025 24.9 1.4 21 36-56 3-23 (158)
297 PF00009 GTP_EFTU: Elongation 47.4 16 0.00035 24.4 2.0 25 33-57 3-27 (188)
298 cd03293 ABC_NrtD_SsuB_transpor 47.3 12 0.00026 25.6 1.4 20 36-55 33-52 (220)
299 TIGR02315 ABC_phnC phosphonate 47.1 11 0.00024 26.1 1.2 20 36-55 31-50 (243)
300 KOG3347|consensus 47.0 12 0.00026 26.7 1.4 22 33-54 7-28 (176)
301 PRK00625 shikimate kinase; Pro 47.0 12 0.00026 25.6 1.4 19 35-53 2-20 (173)
302 TIGR00235 udk uridine kinase. 46.9 15 0.00033 25.1 1.9 22 34-55 7-28 (207)
303 cd02020 CMPK Cytidine monophos 46.8 12 0.00026 23.4 1.2 20 36-55 2-21 (147)
304 COG4608 AppF ABC-type oligopep 46.7 10 0.00023 28.5 1.1 14 36-49 42-55 (268)
305 TIGR03499 FlhF flagellar biosy 46.7 12 0.00027 27.3 1.5 23 35-57 196-218 (282)
306 cd03264 ABC_drug_resistance_li 46.5 12 0.00025 25.5 1.2 21 35-55 27-47 (211)
307 TIGR01313 therm_gnt_kin carboh 46.4 12 0.00025 24.3 1.2 19 37-55 2-20 (163)
308 PRK09602 translation-associate 46.4 12 0.00026 29.1 1.4 26 34-59 2-27 (396)
309 cd03258 ABC_MetN_methionine_tr 46.3 13 0.00027 25.7 1.4 20 36-55 34-53 (233)
310 PRK06696 uridine kinase; Valid 46.3 16 0.00035 25.4 2.0 25 31-55 20-44 (223)
311 KOG0635|consensus 46.2 36 0.00078 24.5 3.7 50 9-60 8-58 (207)
312 PF10412 TrwB_AAD_bind: Type I 46.1 13 0.00028 28.4 1.6 27 35-61 17-43 (386)
313 PRK10908 cell division protein 46.0 13 0.00028 25.5 1.4 20 36-55 31-50 (222)
314 PF13521 AAA_28: AAA domain; P 45.7 12 0.00025 24.5 1.1 21 36-56 2-22 (163)
315 smart00053 DYNc Dynamin, GTPas 45.6 15 0.00033 26.7 1.8 23 35-57 28-50 (240)
316 TIGR01526 nadR_NMN_Atrans nico 45.5 17 0.00037 27.3 2.1 26 30-55 159-184 (325)
317 TIGR00960 3a0501s02 Type II (G 45.5 12 0.00026 25.5 1.2 20 36-55 32-51 (216)
318 PRK13947 shikimate kinase; Pro 45.4 12 0.00025 24.4 1.1 19 35-53 3-21 (171)
319 PF15114 UPF0640: Uncharacteri 45.1 9.8 0.00021 23.3 0.6 16 44-59 46-61 (69)
320 TIGR02673 FtsE cell division A 45.1 14 0.0003 25.1 1.4 20 36-55 31-50 (214)
321 PRK05291 trmE tRNA modificatio 45.1 11 0.00024 29.5 1.1 24 34-57 216-239 (449)
322 cd03262 ABC_HisP_GlnQ_permease 45.0 14 0.0003 25.0 1.4 20 36-55 29-48 (213)
323 COG1159 Era GTPase [General fu 45.0 13 0.00028 28.5 1.3 28 36-63 9-36 (298)
324 PF06414 Zeta_toxin: Zeta toxi 44.9 16 0.00035 24.9 1.7 24 34-57 16-39 (199)
325 cd03261 ABC_Org_Solvent_Resist 44.8 13 0.00027 25.8 1.2 20 36-55 29-48 (235)
326 cd03255 ABC_MJ0796_Lo1CDE_FtsE 44.8 13 0.00027 25.4 1.2 20 36-55 33-52 (218)
327 TIGR01277 thiQ thiamine ABC tr 44.7 15 0.00031 25.2 1.5 20 36-55 27-46 (213)
328 cd03269 ABC_putative_ATPase Th 44.5 13 0.00028 25.2 1.2 20 36-55 29-48 (210)
329 cd03292 ABC_FtsE_transporter F 44.5 14 0.00031 25.0 1.4 20 36-55 30-49 (214)
330 cd03266 ABC_NatA_sodium_export 44.4 14 0.00031 25.1 1.4 20 36-55 34-53 (218)
331 PRK03839 putative kinase; Prov 44.4 17 0.00036 24.1 1.7 21 35-55 2-22 (180)
332 TIGR03864 PQQ_ABC_ATP ABC tran 44.3 14 0.00031 25.6 1.4 20 36-55 30-49 (236)
333 COG0194 Gmk Guanylate kinase [ 44.3 15 0.00032 26.5 1.5 22 36-57 7-28 (191)
334 PRK09866 hypothetical protein; 44.2 23 0.0005 30.2 2.8 31 31-61 67-97 (741)
335 cd04169 RF3 RF3 subfamily. Pe 44.2 14 0.00031 26.8 1.5 20 35-54 4-23 (267)
336 TIGR03574 selen_PSTK L-seryl-t 44.1 13 0.00028 26.2 1.2 20 36-55 2-21 (249)
337 cd03225 ABC_cobalt_CbiO_domain 44.1 13 0.00029 25.1 1.2 20 36-55 30-49 (211)
338 cd03268 ABC_BcrA_bacitracin_re 44.1 13 0.00029 25.1 1.2 20 36-55 29-48 (208)
339 cd03265 ABC_DrrA DrrA is the A 43.9 13 0.00029 25.4 1.2 20 36-55 29-48 (220)
340 COG0444 DppD ABC-type dipeptid 43.9 12 0.00026 28.8 1.0 19 36-54 34-52 (316)
341 PF06745 KaiC: KaiC; InterPro 43.8 17 0.00037 25.0 1.8 26 35-60 21-46 (226)
342 cd03259 ABC_Carb_Solutes_like 43.7 13 0.00029 25.2 1.2 20 36-55 29-48 (213)
343 COG2204 AtoC Response regulato 43.6 16 0.00035 29.4 1.8 38 12-49 142-180 (464)
344 KOG0092|consensus 43.6 18 0.0004 26.2 1.9 30 31-60 3-32 (200)
345 cd02021 GntK Gluconate kinase 43.3 16 0.00035 23.3 1.5 21 36-56 2-22 (150)
346 PRK13543 cytochrome c biogenes 43.3 15 0.00032 25.2 1.4 20 36-55 40-59 (214)
347 cd03256 ABC_PhnC_transporter A 43.2 14 0.0003 25.5 1.2 20 36-55 30-49 (241)
348 cd03254 ABCC_Glucan_exporter_l 43.2 15 0.00033 25.2 1.4 21 36-56 32-52 (229)
349 cd01428 ADK Adenylate kinase ( 43.2 16 0.00034 24.1 1.5 21 35-55 1-21 (194)
350 cd01673 dNK Deoxyribonucleosid 43.1 16 0.00034 24.4 1.4 21 36-56 2-22 (193)
351 cd03216 ABC_Carb_Monos_I This 43.1 16 0.00034 24.2 1.4 20 36-55 29-48 (163)
352 cd03230 ABC_DR_subfamily_A Thi 43.1 16 0.00034 24.3 1.4 20 36-55 29-48 (173)
353 TIGR01978 sufC FeS assembly AT 43.0 14 0.00031 25.5 1.3 21 36-56 29-49 (243)
354 PF13304 AAA_21: AAA domain; P 43.0 8 0.00017 24.8 0.0 19 36-54 2-20 (303)
355 cd03114 ArgK-like The function 42.9 14 0.0003 24.5 1.1 22 36-57 2-23 (148)
356 cd03221 ABCF_EF-3 ABCF_EF-3 E 42.9 16 0.00034 23.8 1.4 20 36-55 29-48 (144)
357 PRK14495 putative molybdopteri 42.9 15 0.00033 29.6 1.5 23 36-58 4-26 (452)
358 PRK03731 aroL shikimate kinase 42.8 13 0.00029 24.3 1.1 20 35-54 4-23 (171)
359 COG1116 TauB ABC-type nitrate/ 42.8 13 0.00027 27.8 1.0 18 36-53 32-49 (248)
360 PRK14530 adenylate kinase; Pro 42.8 15 0.00033 25.2 1.4 19 35-53 5-23 (215)
361 cd03222 ABC_RNaseL_inhibitor T 42.8 13 0.00028 25.5 1.0 20 36-55 28-47 (177)
362 cd03260 ABC_PstB_phosphate_tra 42.7 14 0.00031 25.3 1.2 21 36-56 29-49 (227)
363 cd03235 ABC_Metallic_Cations A 42.7 14 0.00031 25.1 1.2 20 36-55 28-47 (213)
364 TIGR03743 SXT_TraD conjugative 42.6 16 0.00035 30.2 1.7 30 31-60 174-203 (634)
365 cd01886 EF-G Elongation factor 42.6 14 0.0003 27.0 1.2 20 35-54 1-20 (270)
366 cd03229 ABC_Class3 This class 42.5 16 0.00035 24.3 1.4 20 36-55 29-48 (178)
367 PRK09270 nucleoside triphospha 42.4 19 0.00042 25.1 1.9 26 31-56 31-56 (229)
368 PRK15093 antimicrobial peptide 42.3 15 0.00033 27.3 1.4 20 36-55 36-55 (330)
369 PRK13342 recombination factor 42.2 14 0.00031 28.3 1.2 50 6-55 7-58 (413)
370 TIGR02868 CydC thiol reductant 42.2 14 0.0003 28.8 1.2 19 36-54 364-382 (529)
371 smart00072 GuKc Guanylate kina 42.2 16 0.00035 24.6 1.4 21 36-56 5-25 (184)
372 PRK13540 cytochrome c biogenes 42.2 16 0.00035 24.7 1.4 20 36-55 30-49 (200)
373 PRK10584 putative ABC transpor 42.2 15 0.00032 25.3 1.2 22 35-56 38-59 (228)
374 cd03263 ABC_subfamily_A The AB 42.2 16 0.00035 24.9 1.4 20 36-55 31-50 (220)
375 PRK13721 conjugal transfer ATP 42.1 18 0.00038 30.6 1.9 29 32-60 448-476 (844)
376 TIGR02928 orc1/cdc6 family rep 42.0 17 0.00037 26.6 1.6 23 34-56 41-63 (365)
377 cd04168 TetM_like Tet(M)-like 42.0 14 0.0003 26.3 1.1 22 35-56 1-22 (237)
378 cd01918 HprK_C HprK/P, the bif 41.9 13 0.00028 25.4 0.9 18 34-51 15-32 (149)
379 PRK10575 iron-hydroxamate tran 41.9 15 0.00032 26.2 1.2 20 36-55 40-59 (265)
380 cd03297 ABC_ModC_molybdenum_tr 41.8 15 0.00033 25.0 1.2 20 36-55 26-45 (214)
381 cd01127 TrwB Bacterial conjuga 41.8 15 0.00033 28.2 1.4 27 34-60 43-69 (410)
382 PF00503 G-alpha: G-protein al 41.7 24 0.00052 26.7 2.4 25 31-55 56-80 (389)
383 TIGR02974 phageshock_pspF psp 41.7 8.8 0.00019 28.8 0.1 21 31-51 20-40 (329)
384 TIGR02324 CP_lyasePhnL phospho 41.7 17 0.00036 24.9 1.4 20 36-55 37-56 (224)
385 cd03277 ABC_SMC5_euk Eukaryoti 41.7 16 0.00035 25.6 1.4 20 37-56 27-46 (213)
386 cd03278 ABC_SMC_barmotin Barmo 41.6 15 0.00033 25.3 1.2 19 36-54 25-43 (197)
387 PRK14489 putative bifunctional 41.6 14 0.00031 28.0 1.2 27 33-59 205-231 (366)
388 PRK14239 phosphate transporter 41.6 15 0.00033 25.6 1.2 20 36-55 34-53 (252)
389 cd03279 ABC_sbcCD SbcCD and ot 41.6 15 0.00033 25.3 1.2 19 36-54 31-49 (213)
390 PHA02530 pseT polynucleotide k 41.6 17 0.00037 26.0 1.5 20 36-55 5-24 (300)
391 TIGR02323 CP_lyasePhnK phospho 41.5 15 0.00033 25.7 1.2 20 36-55 32-51 (253)
392 cd03245 ABCC_bacteriocin_expor 41.5 15 0.00033 25.0 1.2 21 36-56 33-53 (220)
393 TIGR02211 LolD_lipo_ex lipopro 41.4 15 0.00033 25.0 1.2 20 36-55 34-53 (221)
394 cd01888 eIF2_gamma eIF2-gamma 41.4 15 0.00033 25.0 1.2 21 34-54 1-21 (203)
395 PRK14531 adenylate kinase; Pro 41.3 20 0.00044 24.0 1.8 22 34-55 3-24 (183)
396 TIGR00750 lao LAO/AO transport 41.3 18 0.00039 26.6 1.6 26 31-56 32-57 (300)
397 TIGR00455 apsK adenylylsulfate 41.3 16 0.00034 24.4 1.2 23 34-56 19-41 (184)
398 cd03301 ABC_MalK_N The N-termi 41.2 17 0.00037 24.6 1.4 20 36-55 29-48 (213)
399 TIGR01425 SRP54_euk signal rec 41.0 15 0.00032 29.2 1.2 22 34-55 101-122 (429)
400 cd01124 KaiC KaiC is a circadi 41.0 24 0.00053 23.0 2.1 24 36-59 2-25 (187)
401 cd03218 ABC_YhbG The ABC trans 40.9 17 0.00037 24.9 1.4 20 36-55 29-48 (232)
402 TIGR01650 PD_CobS cobaltochela 40.8 14 0.00031 28.3 1.0 22 34-55 65-86 (327)
403 PRK09984 phosphonate/organopho 40.8 17 0.00037 25.7 1.4 20 36-55 33-52 (262)
404 cd03226 ABC_cobalt_CbiO_domain 40.8 16 0.00034 24.7 1.2 20 36-55 29-48 (205)
405 COG4107 PhnK ABC-type phosphon 40.6 17 0.00038 26.8 1.4 22 36-57 35-56 (258)
406 cd00046 DEXDc DEAD-like helica 40.6 22 0.00048 20.8 1.7 25 35-59 2-26 (144)
407 cd03214 ABC_Iron-Siderophores_ 40.5 16 0.00036 24.3 1.2 20 36-55 28-47 (180)
408 PRK05057 aroK shikimate kinase 40.5 15 0.00033 24.7 1.1 20 35-54 6-25 (172)
409 cd03231 ABC_CcmA_heme_exporter 40.5 18 0.00039 24.6 1.4 20 36-55 29-48 (201)
410 cd03257 ABC_NikE_OppD_transpor 40.4 16 0.00035 24.9 1.2 20 36-55 34-53 (228)
411 COG3451 VirB4 Type IV secretor 40.3 17 0.00037 30.9 1.6 27 35-61 438-464 (796)
412 PRK09435 membrane ATPase/prote 40.2 19 0.00041 27.5 1.6 27 31-57 54-80 (332)
413 PRK15177 Vi polysaccharide exp 40.2 17 0.00036 25.2 1.2 20 36-55 16-35 (213)
414 cd00267 ABC_ATPase ABC (ATP-bi 40.2 19 0.0004 23.3 1.4 20 36-55 28-47 (157)
415 cd03253 ABCC_ATM1_transporter 40.2 16 0.00035 25.1 1.2 20 36-55 30-49 (236)
416 cd03215 ABC_Carb_Monos_II This 40.2 18 0.0004 24.1 1.4 21 36-56 29-49 (182)
417 PRK10895 lipopolysaccharide AB 40.1 18 0.00039 25.1 1.4 21 36-56 32-52 (241)
418 TIGR00635 ruvB Holliday juncti 40.0 20 0.00043 25.7 1.7 23 34-56 31-53 (305)
419 cd03236 ABC_RNaseL_inhibitor_d 40.0 16 0.00035 26.2 1.2 21 36-56 29-49 (255)
420 PRK13949 shikimate kinase; Pro 40.0 16 0.00035 24.6 1.1 18 35-52 3-20 (169)
421 TIGR02640 gas_vesic_GvpN gas v 40.0 17 0.00037 26.1 1.3 23 33-55 21-43 (262)
422 PRK07667 uridine kinase; Provi 39.9 24 0.00052 24.1 2.0 26 31-56 15-40 (193)
423 PRK03846 adenylylsulfate kinas 39.9 17 0.00036 24.8 1.2 22 34-55 25-46 (198)
424 TIGR03754 conj_TOL_TraD conjug 39.8 19 0.00041 30.1 1.7 30 32-61 179-208 (643)
425 PF00485 PRK: Phosphoribulokin 39.8 19 0.00042 24.3 1.5 20 36-55 2-21 (194)
426 PRK00698 tmk thymidylate kinas 39.8 20 0.00044 23.8 1.6 21 36-56 6-26 (205)
427 cd03296 ABC_CysA_sulfate_impor 39.8 17 0.00036 25.3 1.2 20 36-55 31-50 (239)
428 PRK14267 phosphate ABC transpo 39.7 17 0.00036 25.5 1.2 20 36-55 33-52 (253)
429 PRK11264 putative amino-acid A 39.7 17 0.00036 25.3 1.2 20 36-55 32-51 (250)
430 COG1124 DppF ABC-type dipeptid 39.7 13 0.00027 27.9 0.6 16 36-51 36-51 (252)
431 PRK13539 cytochrome c biogenes 39.7 19 0.0004 24.6 1.4 21 36-56 31-51 (207)
432 PRK14247 phosphate ABC transpo 39.6 17 0.00036 25.4 1.2 20 36-55 32-51 (250)
433 PRK11124 artP arginine transpo 39.5 19 0.0004 25.1 1.4 20 36-55 31-50 (242)
434 TIGR01184 ntrCD nitrate transp 39.5 17 0.00037 25.3 1.2 20 36-55 14-33 (230)
435 PRK14261 phosphate ABC transpo 39.4 18 0.0004 25.3 1.4 20 36-55 35-54 (253)
436 PTZ00258 GTP-binding protein; 39.4 19 0.0004 28.2 1.5 28 31-58 19-46 (390)
437 cd04166 CysN_ATPS CysN_ATPS su 39.4 18 0.0004 24.7 1.4 21 35-55 1-21 (208)
438 PRK11300 livG leucine/isoleuci 39.3 17 0.00037 25.4 1.2 21 36-56 34-54 (255)
439 PF07693 KAP_NTPase: KAP famil 39.2 24 0.00051 25.3 2.0 27 31-57 18-44 (325)
440 PRK14240 phosphate transporter 39.1 19 0.00041 25.1 1.4 20 36-55 32-51 (250)
441 CHL00095 clpC Clp protease ATP 39.0 16 0.00034 30.8 1.1 24 34-57 201-224 (821)
442 PRK11629 lolD lipoprotein tran 38.9 18 0.00038 25.1 1.2 20 36-55 38-57 (233)
443 TIGR03410 urea_trans_UrtE urea 38.9 19 0.00042 24.7 1.4 20 36-55 29-48 (230)
444 cd02024 NRK1 Nicotinamide ribo 38.7 20 0.00044 25.0 1.5 21 36-56 2-22 (187)
445 cd03294 ABC_Pro_Gly_Bertaine T 38.7 18 0.00038 25.9 1.2 20 36-55 53-72 (269)
446 PF07724 AAA_2: AAA domain (Cd 38.7 20 0.00043 24.4 1.4 22 34-55 4-25 (171)
447 COG4172 ABC-type uncharacteriz 38.7 17 0.00037 29.7 1.3 17 36-52 316-332 (534)
448 cd03295 ABC_OpuCA_Osmoprotecti 38.6 20 0.00043 25.0 1.4 20 36-55 30-49 (242)
449 PRK11388 DNA-binding transcrip 38.5 15 0.00032 29.7 0.9 23 31-53 346-368 (638)
450 cd03369 ABCC_NFT1 Domain 2 of 38.5 18 0.00039 24.5 1.2 20 36-55 37-56 (207)
451 KOG1423|consensus 38.4 23 0.00051 27.9 1.9 34 31-64 70-103 (379)
452 cd03247 ABCC_cytochrome_bd The 38.3 20 0.00044 23.8 1.4 21 36-56 31-51 (178)
453 TIGR02329 propionate_PrpR prop 38.3 13 0.00028 30.1 0.5 41 13-53 214-255 (526)
454 cd03246 ABCC_Protease_Secretio 38.2 21 0.00045 23.7 1.4 20 36-55 31-50 (173)
455 PRK00440 rfc replication facto 38.2 36 0.00079 24.1 2.8 32 26-57 31-62 (319)
456 TIGR03783 Bac_Flav_CT_G Bacter 38.2 21 0.00047 30.4 1.8 29 32-60 437-465 (829)
457 cd03252 ABCC_Hemolysin The ABC 38.2 18 0.0004 25.0 1.2 20 36-55 31-50 (237)
458 cd03238 ABC_UvrA The excision 38.2 19 0.0004 24.7 1.2 19 36-54 24-42 (176)
459 PRK11022 dppD dipeptide transp 38.1 19 0.00041 26.9 1.3 20 36-55 36-55 (326)
460 COG0012 Predicted GTPase, prob 37.9 18 0.00039 28.5 1.2 25 33-57 2-26 (372)
461 PRK13873 conjugal transfer ATP 37.9 26 0.00056 29.4 2.2 25 35-59 443-467 (811)
462 PRK14241 phosphate transporter 37.8 20 0.00044 25.2 1.4 20 36-55 33-52 (258)
463 CHL00131 ycf16 sulfate ABC tra 37.8 19 0.0004 25.1 1.2 20 36-55 36-55 (252)
464 TIGR00968 3a0106s01 sulfate AB 37.6 21 0.00045 24.9 1.4 20 36-55 29-48 (237)
465 PRK11308 dppF dipeptide transp 37.4 20 0.00044 26.8 1.4 20 36-55 44-63 (327)
466 COG1132 MdlB ABC-type multidru 37.4 20 0.00043 28.3 1.4 19 36-54 358-376 (567)
467 PRK15424 propionate catabolism 37.3 14 0.0003 30.0 0.6 42 13-54 221-263 (538)
468 PRK09601 GTP-binding protein Y 37.3 20 0.00043 27.9 1.4 24 34-57 3-26 (364)
469 PRK12339 2-phosphoglycerate ki 37.3 22 0.00048 24.8 1.5 22 35-56 5-26 (197)
470 TIGR02203 MsbA_lipidA lipid A 37.3 20 0.00043 28.0 1.4 20 36-55 361-380 (571)
471 COG0541 Ffh Signal recognition 37.2 18 0.00039 29.2 1.1 19 32-50 99-117 (451)
472 PRK13638 cbiO cobalt transport 37.2 21 0.00045 25.5 1.4 20 36-55 30-49 (271)
473 TIGR03878 thermo_KaiC_2 KaiC d 37.1 25 0.00054 25.3 1.8 24 35-58 38-61 (259)
474 COG3840 ThiQ ABC-type thiamine 37.0 20 0.00043 26.5 1.2 18 36-53 28-45 (231)
475 PRK11614 livF leucine/isoleuci 37.0 21 0.00046 24.7 1.4 20 36-55 34-53 (237)
476 PRK14242 phosphate transporter 37.0 20 0.00043 25.1 1.2 20 36-55 35-54 (253)
477 PRK00889 adenylylsulfate kinas 36.9 22 0.00048 23.4 1.4 21 35-55 6-26 (175)
478 cd03219 ABC_Mj1267_LivG_branch 36.8 20 0.00043 24.7 1.2 20 36-55 29-48 (236)
479 cd03217 ABC_FeS_Assembly ABC-t 36.8 22 0.00048 24.2 1.4 21 36-56 29-49 (200)
480 TIGR02788 VirB11 P-type DNA tr 36.8 21 0.00046 26.3 1.4 22 34-55 145-166 (308)
481 PF03029 ATP_bind_1: Conserved 36.7 17 0.00037 26.1 0.9 18 38-55 1-18 (238)
482 PRK15112 antimicrobial peptide 36.6 20 0.00043 25.6 1.2 20 36-55 42-61 (267)
483 TIGR02030 BchI-ChlI magnesium 36.6 21 0.00044 27.2 1.3 19 36-54 28-46 (337)
484 cd03276 ABC_SMC6_euk Eukaryoti 36.5 22 0.00047 24.5 1.4 18 37-54 25-42 (198)
485 COG4639 Predicted kinase [Gene 36.5 17 0.00038 25.7 0.9 19 36-54 5-23 (168)
486 cd03220 ABC_KpsT_Wzt ABC_KpsT_ 36.4 20 0.00044 24.8 1.2 20 36-55 51-70 (224)
487 cd03232 ABC_PDR_domain2 The pl 36.4 21 0.00045 24.1 1.3 20 36-55 36-55 (192)
488 TIGR03881 KaiC_arch_4 KaiC dom 36.4 30 0.00065 23.7 2.1 24 35-58 22-45 (229)
489 KOG0962|consensus 36.4 30 0.00066 31.3 2.5 22 36-57 30-51 (1294)
490 PRK15079 oligopeptide ABC tran 36.4 21 0.00046 26.7 1.4 20 36-55 50-69 (331)
491 TIGR02857 CydD thiol reductant 36.3 21 0.00046 27.8 1.4 20 36-55 351-370 (529)
492 cd03251 ABCC_MsbA MsbA is an e 36.3 22 0.00049 24.4 1.4 20 36-55 31-50 (234)
493 TIGR02173 cyt_kin_arch cytidyl 36.3 25 0.00054 22.6 1.5 21 35-55 2-22 (171)
494 PRK14274 phosphate ABC transpo 36.3 22 0.00048 25.0 1.4 21 36-56 41-61 (259)
495 PRK11174 cysteine/glutathione 36.2 21 0.00046 28.2 1.4 20 36-55 379-398 (588)
496 TIGR00929 VirB4_CagE type IV s 36.2 27 0.00059 28.5 2.1 29 32-60 433-461 (785)
497 cd00984 DnaB_C DnaB helicase C 36.2 28 0.0006 24.0 1.8 25 36-60 16-40 (242)
498 PF02492 cobW: CobW/HypB/UreG, 36.1 20 0.00044 24.0 1.1 20 36-55 3-22 (178)
499 COG0572 Udk Uridine kinase [Nu 36.0 29 0.00062 25.3 2.0 22 34-55 9-30 (218)
500 cd03244 ABCC_MRP_domain2 Domai 36.0 21 0.00045 24.3 1.2 20 36-55 33-52 (221)
No 1
>KOG2655|consensus
Probab=99.35 E-value=3.7e-13 Score=103.24 Aligned_cols=48 Identities=52% Similarity=0.842 Sum_probs=46.0
Q ss_pred ceeeeeCCChHHHHHHhhCceEeeeeecccCccccchhhhhhhhhhcC
Q psy5599 13 YIGFANLPNQVFRKAVKKGFEFTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 13 ~~G~~~lpnq~~~~~~K~g~~fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+||++++|+|+|++.+|+||.|++|+||++|+||+||+|++|...+..
T Consensus 1 ~vg~~~lP~q~~r~~~KkG~~ftlmvvG~sGlGKsTfiNsLf~~~l~~ 48 (366)
T KOG2655|consen 1 YVGFANLPNQVHRKSVKKGFDFTLMVVGESGLGKSTFINSLFLTDLSG 48 (366)
T ss_pred CCccccChHHHHHHHHhcCCceEEEEecCCCccHHHHHHHHHhhhccC
Confidence 699999999999999999999999999999999999999999997765
No 2
>KOG1547|consensus
Probab=99.23 E-value=4.7e-12 Score=94.73 Aligned_cols=56 Identities=23% Similarity=0.447 Sum_probs=50.9
Q ss_pred CCCccCCceeeeeCCChHHHHHHhhCceEeeeeecccCccccchhhhhhhhhhcCC
Q psy5599 6 IPKEVDGYIGFANLPNQVFRKAVKKGFEFTLMVVDLKDVTSNVHYENFRCRKLAGL 61 (79)
Q Consensus 6 ~~~~~~~~~G~~~lpnq~~~~~~K~g~~fn~mvvglsglgkst~~e~~r~~~L~~~ 61 (79)
+....-+||||+++-+|..++.+|.||+||+||||.||+||+|++|++|.+++..-
T Consensus 19 ~~~~~lgyvGidtI~~Qm~~k~mk~GF~FNIMVVgqSglgkstlinTlf~s~v~~~ 74 (336)
T KOG1547|consen 19 INSNLLGYVGIDTIIEQMRKKTMKTGFDFNIMVVGQSGLGKSTLINTLFKSHVSDS 74 (336)
T ss_pred ccCCccccccHHHHHHHHHHHHHhccCceEEEEEecCCCCchhhHHHHHHHHHhhc
Confidence 34444589999999999999999999999999999999999999999999998774
No 3
>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]
Probab=99.14 E-value=2.4e-11 Score=93.46 Aligned_cols=50 Identities=38% Similarity=0.596 Sum_probs=47.0
Q ss_pred CceeeeeCCChHHHHHHhhCceEeeeeecccCccccchhhhhhhhhhcCC
Q psy5599 12 GYIGFANLPNQVFRKAVKKGFEFTLMVVDLKDVTSNVHYENFRCRKLAGL 61 (79)
Q Consensus 12 ~~~G~~~lpnq~~~~~~K~g~~fn~mvvglsglgkst~~e~~r~~~L~~~ 61 (79)
+++|++++|+|+|++..|+|+.||+|+||++|+||+||+|++|++.|..-
T Consensus 2 ~~vgi~~l~~~r~~~~~k~Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~ 51 (373)
T COG5019 2 GYVGISNLPNQRHRKLSKKGIDFTIMVVGESGLGKTTFINTLFGTSLVDE 51 (373)
T ss_pred CcCCcCcchHHHHHHHHhcCCceEEEEecCCCCchhHHHHhhhHhhccCC
Confidence 68999999999999999999999999999999999999999999976654
No 4
>KOG3859|consensus
Probab=99.13 E-value=2.9e-11 Score=92.09 Aligned_cols=57 Identities=23% Similarity=0.433 Sum_probs=52.5
Q ss_pred CCCccCCceeeeeCCChHHHHHHhhCceEeeeeecccCccccchhhhhhhhhhcCCC
Q psy5599 6 IPKEVDGYIGFANLPNQVFRKAVKKGFEFTLMVVDLKDVTSNVHYENFRCRKLAGLG 62 (79)
Q Consensus 6 ~~~~~~~~~G~~~lpnq~~~~~~K~g~~fn~mvvglsglgkst~~e~~r~~~L~~~~ 62 (79)
+..++.|+|||+++|+|..++++..||.||+||+|+.|+||+|+++++|...+..-+
T Consensus 15 R~l~l~GHvGFdsLPdQLV~ksv~~GF~FNilCvGETg~GKsTLmdtLFNt~f~~~p 71 (406)
T KOG3859|consen 15 RTLQLAGHVGFDSLPDQLVNKSVSQGFCFNILCVGETGLGKSTLMDTLFNTKFESEP 71 (406)
T ss_pred eeeeecCccCcccChHHHHHHHHhcCceEEEEEeccCCccHHHHHHHHhccccCCCC
Confidence 445778999999999999999999999999999999999999999999999887644
No 5
>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=98.84 E-value=2.1e-10 Score=83.89 Aligned_cols=51 Identities=35% Similarity=0.505 Sum_probs=47.7
Q ss_pred CCc-eeeeeCCChHHHHHHhh-CceEeeeeecccCccccchhhhhhhhhhcCC
Q psy5599 11 DGY-IGFANLPNQVFRKAVKK-GFEFTLMVVDLKDVTSNVHYENFRCRKLAGL 61 (79)
Q Consensus 11 ~~~-~G~~~lpnq~~~~~~K~-g~~fn~mvvglsglgkst~~e~~r~~~L~~~ 61 (79)
..| ||+++++|+.||||+++ .++|.+||++++..|+..|||+||+++|...
T Consensus 223 R~y~WG~~~v~n~~h~df~~Lr~~l~~~~~~~l~~~t~~~~Ye~yr~~~l~~~ 275 (276)
T cd01850 223 RKYPWGVVEVENEEHCDFVKLRNLLIRTHLQDLKETTHNVHYENYRTEKLSSR 275 (276)
T ss_pred ecCCccEEeecCcccccHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHhcC
Confidence 345 99999999999999999 8999999999999999999999999998764
No 6
>KOG2655|consensus
Probab=98.75 E-value=5.5e-10 Score=85.86 Aligned_cols=56 Identities=34% Similarity=0.446 Sum_probs=51.6
Q ss_pred Cc-eeeeeCCChHHHHHHhh-CceEeeeeecccCccccchhhhhhhhhhcCCCCCCCc
Q psy5599 12 GY-IGFANLPNQVFRKAVKK-GFEFTLMVVDLKDVTSNVHYENFRCRKLAGLGTDGKP 67 (79)
Q Consensus 12 ~~-~G~~~lpnq~~~~~~K~-g~~fn~mvvglsglgkst~~e~~r~~~L~~~~~~~~~ 67 (79)
.| ||+++++|+.||||.++ .++|.+||.++..+|+..|||+||+++|.........
T Consensus 240 ~YpWG~veien~~h~DF~~Lr~~Li~thl~dLk~~T~~~~YEnYR~~~L~~~~~~~~~ 297 (366)
T KOG2655|consen 240 KYPWGTVEIENPEHCDFKKLRNLLIRTHLEDLKDTTNNLLYENYRTEKLEGLLYKGEN 297 (366)
T ss_pred ecCCceeeccCCCcchHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhccccCCc
Confidence 45 99999999999999999 8999999999999999999999999999998755543
No 7
>KOG3859|consensus
Probab=98.73 E-value=2.6e-09 Score=81.55 Aligned_cols=56 Identities=25% Similarity=0.284 Sum_probs=53.0
Q ss_pred eeeeeCCChHHHHHHhh-CceEeeeeecccCccccchhhhhhhhhhcCCCCCCCccc
Q psy5599 14 IGFANLPNQVFRKAVKK-GFEFTLMVVDLKDVTSNVHYENFRCRKLAGLGTDGKPRL 69 (79)
Q Consensus 14 ~G~~~lpnq~~~~~~K~-g~~fn~mvvglsglgkst~~e~~r~~~L~~~~~~~~~~~ 69 (79)
||+++++|..||||+|+ .+++++.|-+++.-||+.|||.||..+|..++..++...
T Consensus 258 wG~v~vENE~HCDFVKLREmLirtNmedlReqTHtrhYElyRr~kL~~Mgf~dv~~~ 314 (406)
T KOG3859|consen 258 WGTVQVENELHCDFVKLREMLIRTNMEDLREQTHTRHYELYRRCKLEEMGFKDVDPD 314 (406)
T ss_pred CCceeecchhhhHHHHHHHHHccccHHHHhhhccccchHHHHHHHHHHcCCccCCCC
Confidence 99999999999999999 899999999999999999999999999999997776654
No 8
>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=98.66 E-value=1.1e-09 Score=80.67 Aligned_cols=49 Identities=35% Similarity=0.459 Sum_probs=45.5
Q ss_pred eeeeeCCChHHHHHHhh-CceEeeeeecccCccccchhhhhhhhhhcCCC
Q psy5599 14 IGFANLPNQVFRKAVKK-GFEFTLMVVDLKDVTSNVHYENFRCRKLAGLG 62 (79)
Q Consensus 14 ~G~~~lpnq~~~~~~K~-g~~fn~mvvglsglgkst~~e~~r~~~L~~~~ 62 (79)
||+++++|+.||||+++ .++|.+|++++++.|++.|||+||.++|....
T Consensus 227 WG~vev~n~~hsDF~~Lr~~Ll~~~l~dL~~~T~~~~YE~yR~~~L~~~~ 276 (281)
T PF00735_consen 227 WGTVEVENPEHSDFLKLRNLLLGTHLQDLKDSTENVHYENYRTEKLSSRK 276 (281)
T ss_dssp TEEEETT-TTTSSHHHHHHHHHCCCHHHHHHHHHHCHHHHHHHHHHHHH-
T ss_pred CccccccccccccHHHHHHHhhcccHHHHHHHHHHHHHHHHHHHHHHhch
Confidence 99999999999999999 89999999999999999999999999998754
No 9
>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]
Probab=98.53 E-value=5.2e-09 Score=80.70 Aligned_cols=55 Identities=29% Similarity=0.492 Sum_probs=50.7
Q ss_pred CCc-eeeeeCCChHHHHHHhh-CceEeeeeecccCccccchhhhhhhhhhcCCCCCC
Q psy5599 11 DGY-IGFANLPNQVFRKAVKK-GFEFTLMVVDLKDVTSNVHYENFRCRKLAGLGTDG 65 (79)
Q Consensus 11 ~~~-~G~~~lpnq~~~~~~K~-g~~fn~mvvglsglgkst~~e~~r~~~L~~~~~~~ 65 (79)
..| ||+++++|+.||||.++ .++|.+|+.++...|+..|||+||++.|.......
T Consensus 243 R~YpWG~v~Idd~~hsDF~~Lr~~Li~thL~~L~~~T~~~~YE~YR~e~L~~~~~~~ 299 (373)
T COG5019 243 RKYPWGVVEIDDEEHSDFKKLRNLLIRTHLQELKETTENLLYENYRTEKLSGLKNSG 299 (373)
T ss_pred eccCCcceecCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccC
Confidence 345 99999999999999999 89999999999999999999999999999877544
No 10
>KOG1547|consensus
Probab=98.44 E-value=1.4e-08 Score=76.24 Aligned_cols=51 Identities=31% Similarity=0.449 Sum_probs=47.8
Q ss_pred CceeeeeCCChHHHHHHhh-CceEeeeeecccCccccchhhhhhhhhhcCCC
Q psy5599 12 GYIGFANLPNQVFRKAVKK-GFEFTLMVVDLKDVTSNVHYENFRCRKLAGLG 62 (79)
Q Consensus 12 ~~~G~~~lpnq~~~~~~K~-g~~fn~mvvglsglgkst~~e~~r~~~L~~~~ 62 (79)
..||+++|+|-.||.|+-+ .|++++|+++++++|+..|||+||...|....
T Consensus 266 trWg~IeVen~nhCeF~~LRdfliRtHlQdlke~Ts~iHyE~yR~krLn~~~ 317 (336)
T KOG1547|consen 266 TRWGIIEVENLNHCEFVLLRDFLIRTHLQDLKETTSNIHYETYRAKRLNELK 317 (336)
T ss_pred cccceEEecccccchhHHHHHHHHHHHHHHHHHHhhhhhHhHHHHHHHhhhc
Confidence 4599999999999999998 89999999999999999999999999988744
No 11
>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=98.21 E-value=4.7e-07 Score=66.85 Aligned_cols=33 Identities=21% Similarity=0.360 Sum_probs=26.7
Q ss_pred hCceEeeeeecccCccccchhhhhhhhhhcCCC
Q psy5599 30 KGFEFTLMVVDLKDVTSNVHYENFRCRKLAGLG 62 (79)
Q Consensus 30 ~g~~fn~mvvglsglgkst~~e~~r~~~L~~~~ 62 (79)
+|+.||+||+|++|+||+||+|+++...+....
T Consensus 1 kg~~fnImVvG~sG~GKTTFIntL~~~~~~~~~ 33 (281)
T PF00735_consen 1 KGFNFNIMVVGESGLGKTTFINTLFNSDIISED 33 (281)
T ss_dssp HEEEEEEEEEECTTSSHHHHHHHHHTSS-----
T ss_pred CCceEEEEEECCCCCCHHHHHHHHHhccccccc
Confidence 489999999999999999999999998776654
No 12
>cd01850 CDC_Septin CDC/Septin. Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.
Probab=97.52 E-value=4.8e-05 Score=55.74 Aligned_cols=32 Identities=28% Similarity=0.409 Sum_probs=29.1
Q ss_pred hCceEeeeeecccCccccchhhhhhhhhhcCC
Q psy5599 30 KGFEFTLMVVDLKDVTSNVHYENFRCRKLAGL 61 (79)
Q Consensus 30 ~g~~fn~mvvglsglgkst~~e~~r~~~L~~~ 61 (79)
+|+.|++|++|.+|+||++|+|+++...+...
T Consensus 1 ~g~~f~I~vvG~sg~GKSTliN~L~~~~~~~~ 32 (276)
T cd01850 1 KGFQFNIMVVGESGLGKSTFINTLFNTKLIPS 32 (276)
T ss_pred CCcEEEEEEEcCCCCCHHHHHHHHHcCCCccc
Confidence 48999999999999999999999999887654
No 13
>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=93.87 E-value=0.032 Score=34.71 Aligned_cols=28 Identities=14% Similarity=0.146 Sum_probs=23.9
Q ss_pred EeeeeecccCccccchhhhhhhhhhcCC
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLAGL 61 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~~~ 61 (79)
++++++|..|.|||++++.|........
T Consensus 1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~ 28 (159)
T cd00154 1 FKIVLIGDSGVGKTSLLLRFVDGKFDEN 28 (159)
T ss_pred CeEEEECCCCCCHHHHHHHHHhCcCCCc
Confidence 4789999999999999999987766554
No 14
>cd01858 NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.
Probab=93.56 E-value=0.043 Score=36.09 Aligned_cols=28 Identities=11% Similarity=0.220 Sum_probs=23.8
Q ss_pred CceEeeeeecccCccccchhhhhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
+..++++++|.+++||++++|.+.....
T Consensus 100 ~~~~~v~~~G~~nvGKStliN~l~~~~~ 127 (157)
T cd01858 100 KKQISVGFIGYPNVGKSSIINTLRSKKV 127 (157)
T ss_pred ccceEEEEEeCCCCChHHHHHHHhcCCc
Confidence 3467899999999999999999986543
No 15
>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=93.50 E-value=0.039 Score=34.88 Aligned_cols=27 Identities=11% Similarity=0.137 Sum_probs=23.4
Q ss_pred EeeeeecccCccccchhhhhhhhhhcC
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+++.++|.+|.|||++++.|+......
T Consensus 1 ~ki~i~G~~~~GKStli~~l~~~~~~~ 27 (162)
T cd04123 1 FKVVLLGEGRVGKTSLVLRYVENKFNE 27 (162)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCCCC
Confidence 468999999999999999999876644
No 16
>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=93.08 E-value=0.055 Score=36.60 Aligned_cols=25 Identities=12% Similarity=0.041 Sum_probs=22.5
Q ss_pred EeeeeecccCccccchhhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L 58 (79)
.+++++|.+|+||++++|.++....
T Consensus 128 ~~~~~~G~~nvGKStliN~l~~~~~ 152 (190)
T cd01855 128 GDVYVVGATNVGKSTLINALLKKDN 152 (190)
T ss_pred CcEEEEcCCCCCHHHHHHHHHHhcc
Confidence 5799999999999999999997654
No 17
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=92.91 E-value=0.061 Score=33.02 Aligned_cols=25 Identities=8% Similarity=0.086 Sum_probs=21.0
Q ss_pred eeeeecccCccccchhhhhhhhhhc
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L~ 59 (79)
.+.|+|.+|.|||++++.|......
T Consensus 1 kI~V~G~~g~GKTsLi~~l~~~~~~ 25 (119)
T PF08477_consen 1 KIVVLGDSGVGKTSLIRRLCGGEFP 25 (119)
T ss_dssp EEEEECSTTSSHHHHHHHHHHSS--
T ss_pred CEEEECcCCCCHHHHHHHHhcCCCc
Confidence 3789999999999999999987765
No 18
>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=92.83 E-value=0.095 Score=38.08 Aligned_cols=30 Identities=17% Similarity=0.264 Sum_probs=26.6
Q ss_pred CceEeeeeecccCccccchhhhhhhhhhcC
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
...++++++|.+|.|||+++|.++.+....
T Consensus 29 ~~~~~IllvG~tGvGKSSliNaLlg~~~~~ 58 (249)
T cd01853 29 DFSLTILVLGKTGVGKSSTINSIFGERKAA 58 (249)
T ss_pred cCCeEEEEECCCCCcHHHHHHHHhCCCCcc
Confidence 688999999999999999999999876543
No 19
>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=92.81 E-value=0.069 Score=34.95 Aligned_cols=28 Identities=11% Similarity=0.293 Sum_probs=24.2
Q ss_pred ceEeeeeecccCccccchhhhhhhhhhc
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
+.|+++++|.+|.|||++++.|......
T Consensus 3 ~~~ki~vvG~~~vGKSsLl~~l~~~~~~ 30 (168)
T cd01866 3 YLFKYIIIGDTGVGKSCLLLQFTDKRFQ 30 (168)
T ss_pred cceEEEEECCCCCCHHHHHHHHHcCCCC
Confidence 4689999999999999999999876543
No 20
>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis. RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.
Probab=92.80 E-value=0.059 Score=37.34 Aligned_cols=24 Identities=8% Similarity=-0.025 Sum_probs=21.1
Q ss_pred EeeeeecccCccccchhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~ 57 (79)
=++.++|.||+||++++|.+....
T Consensus 36 k~~vl~G~SGvGKSSLiN~L~~~~ 59 (161)
T PF03193_consen 36 KTSVLLGQSGVGKSSLINALLPEA 59 (161)
T ss_dssp SEEEEECSTTSSHHHHHHHHHTSS
T ss_pred CEEEEECCCCCCHHHHHHHHHhhc
Confidence 458899999999999999998764
No 21
>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=92.61 E-value=0.08 Score=34.01 Aligned_cols=25 Identities=16% Similarity=0.199 Sum_probs=22.5
Q ss_pred EeeeeecccCccccchhhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L 58 (79)
|+++++|.+|.|||++++.|.....
T Consensus 1 iki~i~G~~~~GKSsli~~l~~~~~ 25 (171)
T cd00157 1 IKIVVVGDGAVGKTCLLISYTTGKF 25 (171)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCC
Confidence 5789999999999999999998765
No 22
>PLN03071 GTP-binding nuclear protein Ran; Provisional
Probab=92.56 E-value=0.061 Score=37.59 Aligned_cols=29 Identities=10% Similarity=0.070 Sum_probs=25.0
Q ss_pred CceEeeeeecccCccccchhhhhhhhhhc
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
...|.++++|.+|+|||++++.|......
T Consensus 11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~ 39 (219)
T PLN03071 11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFE 39 (219)
T ss_pred CCceEEEEECcCCCCHHHHHHHHhhCCCC
Confidence 56789999999999999999998866553
No 23
>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=92.56 E-value=0.071 Score=34.10 Aligned_cols=28 Identities=14% Similarity=0.210 Sum_probs=24.3
Q ss_pred eEeeeeecccCccccchhhhhhhhhhcC
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
.+.++++|.++.|||++++.|....+..
T Consensus 1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~ 28 (163)
T cd01860 1 QFKLVLLGDSSVGKSSLVLRFVKNEFSE 28 (163)
T ss_pred CeEEEEECCCCCCHHHHHHHHHcCCCCC
Confidence 3689999999999999999999877554
No 24
>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=92.55 E-value=0.082 Score=34.47 Aligned_cols=29 Identities=14% Similarity=0.232 Sum_probs=24.7
Q ss_pred ceEeeeeecccCccccchhhhhhhhhhcC
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
..++++++|.+|.|||++++.|.......
T Consensus 2 ~~~ki~vvG~~~~GKSsl~~~~~~~~f~~ 30 (167)
T cd01867 2 YLFKLLLIGDSGVGKSCLLLRFSEDSFNP 30 (167)
T ss_pred cceEEEEECCCCCCHHHHHHHHhhCcCCc
Confidence 45899999999999999999998766443
No 25
>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=92.54 E-value=0.084 Score=34.11 Aligned_cols=27 Identities=15% Similarity=0.185 Sum_probs=23.2
Q ss_pred eEeeeeecccCccccchhhhhhhhhhc
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
.|.++++|.+|+|||++++.|......
T Consensus 2 ~~ki~i~G~~~vGKSsli~~~~~~~~~ 28 (166)
T cd01869 2 LFKLLLIGDSGVGKSCLLLRFADDTYT 28 (166)
T ss_pred eEEEEEECCCCCCHHHHHHHHhcCCCC
Confidence 478999999999999999999866543
No 26
>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=92.27 E-value=0.086 Score=33.29 Aligned_cols=25 Identities=16% Similarity=0.178 Sum_probs=22.2
Q ss_pred EeeeeecccCccccchhhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L 58 (79)
+.+.++|.+|+|||++++.|.....
T Consensus 2 ~ki~iiG~~~vGKTsl~~~~~~~~~ 26 (162)
T cd04138 2 YKLVVVGAGGVGKSALTIQLIQNHF 26 (162)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCC
Confidence 6789999999999999999987654
No 27
>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=92.14 E-value=0.1 Score=33.74 Aligned_cols=27 Identities=15% Similarity=0.404 Sum_probs=23.3
Q ss_pred ceEeeeeecccCccccchhhhhhhhhh
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
..|++.++|..|.|||++++.|.....
T Consensus 2 ~~~kv~vvG~~~~GKTsli~~l~~~~~ 28 (165)
T cd01864 2 FLFKIILIGDSNVGKTCVVQRFKSGTF 28 (165)
T ss_pred ceeEEEEECCCCCCHHHHHHHHhhCCC
Confidence 368999999999999999999976554
No 28
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=91.96 E-value=0.076 Score=33.81 Aligned_cols=25 Identities=16% Similarity=0.299 Sum_probs=22.0
Q ss_pred EeeeeecccCccccchhhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L 58 (79)
|+++++|.+|.|||++++.|.....
T Consensus 1 ~kv~v~G~~~~GKTtli~~l~~~~~ 25 (164)
T smart00175 1 FKIILIGDSGVGKSSLLSRFTDGKF 25 (164)
T ss_pred CEEEEECCCCCCHHHHHHHHhcCCC
Confidence 4789999999999999999987655
No 29
>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=91.74 E-value=0.096 Score=40.80 Aligned_cols=25 Identities=8% Similarity=0.076 Sum_probs=21.9
Q ss_pred CceEeeeeecccCccccchhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~ 55 (79)
...+++-|.|++|.||++|+|.+|.
T Consensus 33 ~~~l~IaV~G~sGsGKSSfINalrG 57 (376)
T PF05049_consen 33 NAPLNIAVTGESGSGKSSFINALRG 57 (376)
T ss_dssp H--EEEEEEESTTSSHHHHHHHHTT
T ss_pred cCceEEEEECCCCCCHHHHHHHHhC
Confidence 6889999999999999999999995
No 30
>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=91.59 E-value=0.095 Score=33.29 Aligned_cols=26 Identities=4% Similarity=0.116 Sum_probs=22.3
Q ss_pred EeeeeecccCccccchhhhhhhhhhc
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
+++.++|.+|+|||++++.|......
T Consensus 1 ~ki~~vG~~~vGKTsli~~l~~~~~~ 26 (168)
T cd04119 1 IKVISMGNSGVGKSCIIKRYCEGRFV 26 (168)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCCC
Confidence 46889999999999999999876643
No 31
>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=91.56 E-value=0.12 Score=33.09 Aligned_cols=27 Identities=11% Similarity=0.261 Sum_probs=22.7
Q ss_pred EeeeeecccCccccchhhhhhhhhhcC
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
++++++|.+|+|||++++.|.......
T Consensus 1 ~ki~v~G~~~vGKTsli~~l~~~~~~~ 27 (161)
T cd04113 1 FKFIIIGSSGTGKSCLLHRFVENKFKE 27 (161)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCCCC
Confidence 478999999999999999998765433
No 32
>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=91.51 E-value=0.085 Score=32.71 Aligned_cols=24 Identities=13% Similarity=0.246 Sum_probs=20.7
Q ss_pred eeeeecccCccccchhhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L 58 (79)
.+.++|..|.||||++|.+.....
T Consensus 1 ~V~iiG~~~~GKSTlin~l~~~~~ 24 (116)
T PF01926_consen 1 RVAIIGRPNVGKSTLINALTGKKL 24 (116)
T ss_dssp EEEEEESTTSSHHHHHHHHHTSTS
T ss_pred CEEEECCCCCCHHHHHHHHhcccc
Confidence 368999999999999999997543
No 33
>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=91.01 E-value=0.12 Score=33.55 Aligned_cols=26 Identities=12% Similarity=0.130 Sum_probs=22.1
Q ss_pred EeeeeecccCccccchhhhhhhhhhc
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
+.+.++|.+|+|||++.+.|......
T Consensus 1 ~ki~vvG~~~vGKTsli~~~~~~~~~ 26 (161)
T cd04124 1 VKIILLGDSAVGKSKLVERFLMDGYE 26 (161)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCCC
Confidence 46889999999999999999876543
No 34
>cd04176 Rap2 Rap2 subgroup. The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl
Probab=90.74 E-value=0.15 Score=32.69 Aligned_cols=27 Identities=11% Similarity=0.172 Sum_probs=23.2
Q ss_pred EeeeeecccCccccchhhhhhhhhhcC
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
|++.++|..|+|||++++.|.......
T Consensus 2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~ 28 (163)
T cd04176 2 YKVVVLGSGGVGKSALTVQFVSGTFIE 28 (163)
T ss_pred eEEEEECCCCCCHHHHHHHHHcCCCCC
Confidence 689999999999999999988766543
No 35
>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=90.72 E-value=0.2 Score=32.19 Aligned_cols=27 Identities=11% Similarity=0.217 Sum_probs=23.3
Q ss_pred eEeeeeecccCccccchhhhhhhhhhc
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
.+.+.++|.++.|||++++.|......
T Consensus 3 ~~ki~vvG~~~~GKSsli~~l~~~~~~ 29 (165)
T cd01868 3 LFKIVLIGDSGVGKSNLLSRFTRNEFN 29 (165)
T ss_pred ceEEEEECCCCCCHHHHHHHHhcCCCC
Confidence 478999999999999999999876544
No 36
>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=90.66 E-value=0.15 Score=33.44 Aligned_cols=25 Identities=12% Similarity=0.086 Sum_probs=22.0
Q ss_pred EeeeeecccCccccchhhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L 58 (79)
.+++++|..|.|||++++.|.....
T Consensus 2 ~kv~l~G~~g~GKTtl~~~~~~~~~ 26 (180)
T cd04137 2 RKIAVLGSRSVGKSSLTVQFVEGHF 26 (180)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCC
Confidence 5789999999999999999986554
No 37
>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=90.64 E-value=0.16 Score=33.05 Aligned_cols=26 Identities=12% Similarity=0.254 Sum_probs=22.9
Q ss_pred EeeeeecccCccccchhhhhhhhhhc
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
|.+.++|..|+|||++++.|......
T Consensus 2 ~ki~i~G~~~~GKSsli~~l~~~~~~ 27 (165)
T cd01865 2 FKLLIIGNSSVGKTSFLFRYADDSFT 27 (165)
T ss_pred eEEEEECCCCCCHHHHHHHHhcCCCC
Confidence 78999999999999999999876653
No 38
>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=90.62 E-value=0.19 Score=32.40 Aligned_cols=29 Identities=14% Similarity=0.251 Sum_probs=24.3
Q ss_pred CceEeeeeecccCccccchhhhhhhhhhc
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
...+.+.++|.+|.|||++++.+......
T Consensus 5 ~~~~~v~v~G~~~~GKSsli~~l~~~~~~ 33 (169)
T cd04114 5 DFLFKIVLIGNAGVGKTCLVRRFTQGLFP 33 (169)
T ss_pred CceeEEEEECCCCCCHHHHHHHHHhCCCC
Confidence 35688999999999999999998765543
No 39
>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=90.58 E-value=0.18 Score=32.32 Aligned_cols=27 Identities=15% Similarity=0.187 Sum_probs=22.6
Q ss_pred EeeeeecccCccccchhhhhhhhhhcC
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
|.+.++|..|+|||++++.|.......
T Consensus 1 ~ki~v~G~~~~GKTsli~~~~~~~~~~ 27 (164)
T smart00173 1 YKLVVLGSGGVGKSALTIQFVQGHFVD 27 (164)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCcCCc
Confidence 468899999999999999998766543
No 40
>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=90.54 E-value=0.13 Score=33.00 Aligned_cols=25 Identities=8% Similarity=0.244 Sum_probs=21.8
Q ss_pred EeeeeecccCccccchhhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L 58 (79)
|++.++|..|.|||++.+.|.....
T Consensus 1 ~ki~viG~~~~GKSsl~~~l~~~~~ 25 (172)
T cd01862 1 LKVIILGDSGVGKTSLMNQYVNKKF 25 (172)
T ss_pred CEEEEECCCCCCHHHHHHHHhcCCC
Confidence 4789999999999999999987654
No 41
>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=90.46 E-value=0.15 Score=31.21 Aligned_cols=24 Identities=13% Similarity=0.191 Sum_probs=21.9
Q ss_pred EeeeeecccCccccchhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~ 57 (79)
+++.++|.+|.|||++.+.+....
T Consensus 2 ~ki~~~G~~~~GKstl~~~l~~~~ 25 (161)
T TIGR00231 2 IKIVIVGDPNVGKSTLLNRLLGNK 25 (161)
T ss_pred eEEEEECCCCCCHHHHHHHHhCCC
Confidence 678999999999999999998766
No 42
>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=90.42 E-value=0.17 Score=32.93 Aligned_cols=26 Identities=12% Similarity=0.120 Sum_probs=22.9
Q ss_pred EeeeeecccCccccchhhhhhhhhhc
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
+.+.++|..|+|||++++.|......
T Consensus 2 ~kv~~vG~~~vGKTsli~~~~~~~f~ 27 (165)
T cd04140 2 YRVVVFGAGGVGKSSLVLRFVKGTFR 27 (165)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCCC
Confidence 67899999999999999999876653
No 43
>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=90.36 E-value=0.18 Score=32.96 Aligned_cols=27 Identities=15% Similarity=0.256 Sum_probs=23.1
Q ss_pred eEeeeeecccCccccchhhhhhhhhhc
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
.+++.++|.+|+|||++++.|......
T Consensus 2 ~~ki~vvG~~~vGKTsli~~~~~~~~~ 28 (170)
T cd04115 2 IFKIIVIGDSNVGKTCLTYRFCAGRFP 28 (170)
T ss_pred ceEEEEECCCCCCHHHHHHHHHhCCCC
Confidence 478999999999999999999866543
No 44
>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=90.33 E-value=0.15 Score=32.26 Aligned_cols=26 Identities=15% Similarity=0.252 Sum_probs=22.0
Q ss_pred EeeeeecccCccccchhhhhhhhhhc
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
|++.++|.+|.|||++++.+......
T Consensus 1 ~ki~~~G~~~~GKTsl~~~l~~~~~~ 26 (164)
T cd04139 1 YKVIVVGAGGVGKSALTLQFMYDEFV 26 (164)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCCc
Confidence 57899999999999999999865543
No 45
>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase).
Probab=90.33 E-value=0.28 Score=37.38 Aligned_cols=50 Identities=16% Similarity=0.213 Sum_probs=36.8
Q ss_pred cCCceeeeeCCChHHHH----HHhh----CceEeeeeecccCccccchhhhhhhhhhc
Q psy5599 10 VDGYIGFANLPNQVFRK----AVKK----GFEFTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 10 ~~~~~G~~~lpnq~~~~----~~K~----g~~fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
...+.|+-+.|--...+ +-++ -..++++++|.+|+|||+++|++..+...
T Consensus 7 ~~~w~g~~~~~~~tq~~l~~~l~~l~~~~~~~~rIllvGktGVGKSSliNsIlG~~v~ 64 (313)
T TIGR00991 7 PREWVGIQQFPPATQTKLLELLGKLKEEDVSSLTILVMGKGGVGKSSTVNSIIGERIA 64 (313)
T ss_pred CcceeccccCCHHHHHHHHHHHHhcccccccceEEEEECCCCCCHHHHHHHHhCCCcc
Confidence 34567999988733222 2222 36789999999999999999999987653
No 46
>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=89.96 E-value=0.16 Score=32.33 Aligned_cols=27 Identities=11% Similarity=0.144 Sum_probs=22.9
Q ss_pred EeeeeecccCccccchhhhhhhhhhcC
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+++.++|..+.|||++++.|.......
T Consensus 1 ~ki~liG~~~~GKSsli~~l~~~~~~~ 27 (161)
T cd01861 1 HKLVFLGDQSVGKTSIITRFMYDTFDN 27 (161)
T ss_pred CEEEEECCCCCCHHHHHHHHHcCCCCc
Confidence 368899999999999999998776543
No 47
>cd04122 Rab14 Rab14 subfamily. Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GT
Probab=89.73 E-value=0.21 Score=32.35 Aligned_cols=27 Identities=15% Similarity=0.266 Sum_probs=23.3
Q ss_pred eEeeeeecccCccccchhhhhhhhhhc
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
.|.+.++|..|+|||++++.|....+.
T Consensus 2 ~~ki~iiG~~~vGKTsli~~~~~~~~~ 28 (166)
T cd04122 2 IFKYIIIGDMGVGKSCLLHQFTEKKFM 28 (166)
T ss_pred ceEEEEECCCCCCHHHHHHHHhcCCCC
Confidence 478999999999999999999876543
No 48
>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=89.71 E-value=0.25 Score=34.23 Aligned_cols=29 Identities=21% Similarity=0.352 Sum_probs=24.8
Q ss_pred eEeeeeecccCccccchhhhhhhhhhcCC
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKLAGL 61 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L~~~ 61 (79)
.|.+.++|.+|+|||++++.|....+...
T Consensus 2 ~~KIvvvG~~~vGKTsLi~~l~~~~~~~~ 30 (211)
T cd04111 2 QFRLIVIGDSTVGKSSLLKRFTEGRFAEV 30 (211)
T ss_pred ceEEEEECCCCCCHHHHHHHHHcCCCCCC
Confidence 47899999999999999999987765443
No 49
>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=89.57 E-value=0.18 Score=32.19 Aligned_cols=25 Identities=8% Similarity=0.165 Sum_probs=21.8
Q ss_pred EeeeeecccCccccchhhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L 58 (79)
|++.++|..+.|||++++.|.....
T Consensus 1 ~ki~v~G~~~~GKSsli~~l~~~~~ 25 (161)
T cd01863 1 LKILLIGDSGVGKSSLLLRFTDDTF 25 (161)
T ss_pred CEEEEECCCCCCHHHHHHHHHcCCC
Confidence 4689999999999999999986654
No 50
>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=89.54 E-value=0.18 Score=32.86 Aligned_cols=27 Identities=15% Similarity=0.246 Sum_probs=22.9
Q ss_pred EeeeeecccCccccchhhhhhhhhhcC
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
|.++++|..|.|||+++..|.......
T Consensus 1 ~ki~vvG~~~~GKTsli~~~~~~~~~~ 27 (161)
T cd04117 1 FRLLLIGDSGVGKTCLLCRFTDNEFHS 27 (161)
T ss_pred CEEEEECcCCCCHHHHHHHHhcCCCCC
Confidence 468999999999999999998766543
No 51
>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=89.32 E-value=0.19 Score=33.50 Aligned_cols=27 Identities=11% Similarity=0.245 Sum_probs=23.1
Q ss_pred EeeeeecccCccccchhhhhhhhhhcC
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+.++++|.+|+|||++++.|.......
T Consensus 1 ~ki~v~G~~~vGKSsli~~~~~~~~~~ 27 (188)
T cd04125 1 FKVVIIGDYGVGKSSLLKRFTEDEFSE 27 (188)
T ss_pred CEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence 468999999999999999998776543
No 52
>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=89.14 E-value=0.27 Score=31.30 Aligned_cols=25 Identities=12% Similarity=0.145 Sum_probs=21.9
Q ss_pred EeeeeecccCccccchhhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L 58 (79)
+.+.++|..|.|||++++.|.....
T Consensus 2 ~ki~i~G~~~vGKTsl~~~~~~~~~ 26 (163)
T cd04136 2 YKVVVLGSGGVGKSALTVQFVQGIF 26 (163)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCCC
Confidence 6789999999999999999886554
No 53
>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=89.13 E-value=0.27 Score=31.83 Aligned_cols=27 Identities=11% Similarity=0.090 Sum_probs=22.6
Q ss_pred EeeeeecccCccccchhhhhhhhhhcC
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
|.++++|..|.|||++++.|.......
T Consensus 1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~ 27 (174)
T cd04135 1 LKCVVVGDGAVGKTCLLMSYANDAFPE 27 (174)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCCCC
Confidence 468999999999999999988766543
No 54
>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=88.93 E-value=0.23 Score=31.88 Aligned_cols=22 Identities=9% Similarity=0.359 Sum_probs=19.2
Q ss_pred eeeeecccCccccchhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~ 56 (79)
|+.++|.+|.|||++++.+...
T Consensus 1 ~i~~vG~~~~GKstLi~~l~~~ 22 (167)
T cd04160 1 SVLILGLDNAGKTTFLEQLKTL 22 (167)
T ss_pred CEEEEecCCCCHHHHHHHHhhh
Confidence 5789999999999999998653
No 55
>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=88.81 E-value=0.22 Score=33.82 Aligned_cols=26 Identities=12% Similarity=0.133 Sum_probs=22.7
Q ss_pred EeeeeecccCccccchhhhhhhhhhc
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
+|+.++|.+|.|||++.|++..+...
T Consensus 1 ~~i~lvG~~g~GKSsl~N~ilg~~~~ 26 (196)
T cd01852 1 LRLVLVGKTGAGKSATGNTILGREVF 26 (196)
T ss_pred CEEEEECCCCCCHHHHHHHhhCCCcc
Confidence 47899999999999999999877654
No 56
>cd04110 Rab35 Rab35 subfamily. Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is
Probab=88.81 E-value=0.27 Score=33.39 Aligned_cols=27 Identities=15% Similarity=0.226 Sum_probs=23.5
Q ss_pred eEeeeeecccCccccchhhhhhhhhhc
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
.|.++++|..|+|||++.+.|......
T Consensus 6 ~~kivvvG~~~vGKTsli~~l~~~~~~ 32 (199)
T cd04110 6 LFKLLIIGDSGVGKSSLLLRFADNTFS 32 (199)
T ss_pred eeEEEEECCCCCCHHHHHHHHhcCCCC
Confidence 588999999999999999999876543
No 57
>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=88.71 E-value=0.42 Score=30.41 Aligned_cols=25 Identities=20% Similarity=0.159 Sum_probs=21.9
Q ss_pred EeeeeecccCccccchhhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L 58 (79)
+.+.++|.+|.|||++.+.|.....
T Consensus 3 ~ki~i~G~~~~GKtsl~~~~~~~~~ 27 (164)
T cd04145 3 YKLVVVGGGGVGKSALTIQFIQSYF 27 (164)
T ss_pred eEEEEECCCCCcHHHHHHHHHhCCC
Confidence 6899999999999999999876554
No 58
>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=88.66 E-value=0.25 Score=31.56 Aligned_cols=25 Identities=12% Similarity=0.102 Sum_probs=21.4
Q ss_pred eeeecccCccccchhhhhhhhhhcC
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
++++|..|+||+++++.|.......
T Consensus 2 i~vvG~~~vGKtsl~~~~~~~~~~~ 26 (162)
T PF00071_consen 2 IVVVGDSGVGKTSLINRLINGEFPE 26 (162)
T ss_dssp EEEEESTTSSHHHHHHHHHHSSTTS
T ss_pred EEEECCCCCCHHHHHHHHHhhcccc
Confidence 6899999999999999998766443
No 59
>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=88.60 E-value=0.31 Score=31.86 Aligned_cols=26 Identities=8% Similarity=0.109 Sum_probs=22.4
Q ss_pred eEeeeeecccCccccchhhhhhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
.+.++++|.+|+|||++++.|.....
T Consensus 4 ~~ki~ivG~~~vGKTsli~~~~~~~~ 29 (180)
T cd04127 4 LIKFLALGDSGVGKTSFLYQYTDNKF 29 (180)
T ss_pred eEEEEEECCCCCCHHHHHHHHhcCCC
Confidence 47899999999999999999876554
No 60
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=88.59 E-value=0.28 Score=31.04 Aligned_cols=20 Identities=0% Similarity=-0.009 Sum_probs=17.7
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
++|+|.+|.||||+...+..
T Consensus 2 ii~~G~pgsGKSt~a~~l~~ 21 (143)
T PF13671_consen 2 IILCGPPGSGKSTLAKRLAK 21 (143)
T ss_dssp EEEEESTTSSHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 68999999999999888763
No 61
>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=88.42 E-value=0.25 Score=31.99 Aligned_cols=24 Identities=17% Similarity=0.152 Sum_probs=21.3
Q ss_pred eeeeecccCccccchhhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L 58 (79)
.++++|.+++||++++|.+.....
T Consensus 85 ~~~~~G~~~vGKstlin~l~~~~~ 108 (141)
T cd01857 85 TIGLVGYPNVGKSSLINALVGKKK 108 (141)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCc
Confidence 789999999999999999986654
No 62
>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=88.34 E-value=0.25 Score=32.90 Aligned_cols=27 Identities=11% Similarity=0.022 Sum_probs=23.3
Q ss_pred CceEeeeeecccCccccchhhhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~ 57 (79)
.-.+++.++|.+|.|||++++.++...
T Consensus 16 ~~~~~i~ivG~~~~GKStlin~l~~~~ 42 (179)
T TIGR03598 16 DDGPEIAFAGRSNVGKSSLINALTNRK 42 (179)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence 345688999999999999999998764
No 63
>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=88.22 E-value=0.28 Score=30.50 Aligned_cols=25 Identities=12% Similarity=0.098 Sum_probs=21.6
Q ss_pred EeeeeecccCccccchhhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L 58 (79)
+.+.++|..|.|||++.|.+.....
T Consensus 4 ~~i~~~G~~g~GKttl~~~l~~~~~ 28 (168)
T cd04163 4 GFVAIVGRPNVGKSTLLNALVGQKI 28 (168)
T ss_pred eEEEEECCCCCCHHHHHHHHhCCce
Confidence 5689999999999999999886554
No 64
>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=88.20 E-value=0.26 Score=33.42 Aligned_cols=26 Identities=8% Similarity=0.125 Sum_probs=22.3
Q ss_pred EeeeeecccCccccchhhhhhhhhhc
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
|.+.++|..|+|||++++.|......
T Consensus 1 ~KivivG~~~vGKTsli~~l~~~~~~ 26 (201)
T cd04107 1 LKVLVIGDLGVGKTSIIKRYVHGIFS 26 (201)
T ss_pred CEEEEECCCCCCHHHHHHHHHcCCCC
Confidence 46889999999999999999876543
No 65
>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=88.15 E-value=0.26 Score=31.01 Aligned_cols=23 Identities=13% Similarity=0.078 Sum_probs=20.2
Q ss_pred eeeeecccCccccchhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~ 57 (79)
++.++|.+|.|||++++.|....
T Consensus 1 ki~i~G~~~~GKTsli~~l~~~~ 23 (160)
T cd00876 1 KVVVLGAGGVGKSAITIQFVKGT 23 (160)
T ss_pred CEEEECCCCCCHHHHHHHHHhCC
Confidence 47899999999999999998655
No 66
>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=88.12 E-value=0.28 Score=32.42 Aligned_cols=25 Identities=12% Similarity=0.084 Sum_probs=22.0
Q ss_pred eeeeecccCccccchhhhhhhhhhc
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L~ 59 (79)
.++++|..|+|||++++.|......
T Consensus 2 ki~vvG~~~vGKTsli~~l~~~~~~ 26 (187)
T cd04132 2 KIVVVGDGGCGKTCLLIVYSQGKFP 26 (187)
T ss_pred eEEEECCCCCCHHHHHHHHHhCcCC
Confidence 5889999999999999999877654
No 67
>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=88.04 E-value=0.32 Score=31.68 Aligned_cols=27 Identities=11% Similarity=0.202 Sum_probs=23.0
Q ss_pred eEeeeeecccCccccchhhhhhhhhhc
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
+|++.++|.+|.|||++.+.|......
T Consensus 1 ~~ki~liG~~~~GKTsli~~~~~~~~~ 27 (168)
T cd04177 1 DYKIVVLGAGGVGKSALTVQFVQNVFI 27 (168)
T ss_pred CeEEEEECCCCCCHHHHHHHHHhCCCC
Confidence 378999999999999999999866543
No 68
>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=87.99 E-value=0.31 Score=35.42 Aligned_cols=27 Identities=15% Similarity=0.251 Sum_probs=23.3
Q ss_pred ceEeeeeecccCccccchhhhhhhhhh
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
-.++++++|.+++|||+++|.+.....
T Consensus 117 ~~~~~~~vG~~nvGKSslin~l~~~~~ 143 (276)
T TIGR03596 117 RPIRAMIVGIPNVGKSTLINRLAGKKV 143 (276)
T ss_pred CCeEEEEECCCCCCHHHHHHHHhCCCc
Confidence 358899999999999999999986543
No 69
>PLN03108 Rab family protein; Provisional
Probab=87.97 E-value=0.34 Score=33.36 Aligned_cols=29 Identities=10% Similarity=0.265 Sum_probs=24.6
Q ss_pred ceEeeeeecccCccccchhhhhhhhhhcC
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
..|.++++|..|.|||++++.|....+..
T Consensus 5 ~~~kivivG~~gvGKStLi~~l~~~~~~~ 33 (210)
T PLN03108 5 YLFKYIIIGDTGVGKSCLLLQFTDKRFQP 33 (210)
T ss_pred cceEEEEECCCCCCHHHHHHHHHhCCCCC
Confidence 46899999999999999999998765443
No 70
>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=87.81 E-value=0.39 Score=31.06 Aligned_cols=30 Identities=10% Similarity=0.237 Sum_probs=24.9
Q ss_pred hhCceEeeeeecccCccccchhhhhhhhhh
Q psy5599 29 KKGFEFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 29 K~g~~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
+..-.+++.++|.+|.|||++++.+.....
T Consensus 10 ~~~~~~~v~i~G~~g~GKStLl~~l~~~~~ 39 (173)
T cd04155 10 KSSEEPRILILGLDNAGKTTILKQLASEDI 39 (173)
T ss_pred ccCCccEEEEEccCCCCHHHHHHHHhcCCC
Confidence 334478999999999999999999987543
No 71
>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=87.71 E-value=0.31 Score=32.07 Aligned_cols=25 Identities=12% Similarity=0.165 Sum_probs=21.3
Q ss_pred EeeeeecccCccccchhhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L 58 (79)
|.+.++|.+|+|||++++.|.....
T Consensus 1 ~ki~vvG~~~vGKTsli~~~~~~~~ 25 (166)
T cd00877 1 FKLVLVGDGGTGKTTFVKRHLTGEF 25 (166)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCC
Confidence 4689999999999999999876543
No 72
>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=87.68 E-value=0.39 Score=31.08 Aligned_cols=29 Identities=7% Similarity=0.090 Sum_probs=24.4
Q ss_pred ceEeeeeecccCccccchhhhhhhhhhcC
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
..+++.++|..+.|||++.+.|.......
T Consensus 4 ~~~ki~vvG~~~~GKTsli~~~~~~~~~~ 32 (170)
T cd04116 4 SLLKVILLGDGGVGKSSLMNRYVTNKFDT 32 (170)
T ss_pred eEEEEEEECCCCCCHHHHHHHHHcCCCCc
Confidence 46889999999999999999998665543
No 73
>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=87.31 E-value=0.31 Score=31.02 Aligned_cols=24 Identities=17% Similarity=0.180 Sum_probs=20.9
Q ss_pred eeeeecccCccccchhhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L 58 (79)
.+.++|.+|.|||++++.|.....
T Consensus 2 kv~~vG~~~~GKTsl~~~~~~~~~ 25 (162)
T cd04106 2 KVIVVGNGNVGKSSMIQRFVKGIF 25 (162)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 578999999999999999987544
No 74
>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=87.07 E-value=0.3 Score=31.62 Aligned_cols=24 Identities=17% Similarity=0.181 Sum_probs=20.6
Q ss_pred eeeecccCccccchhhhhhhhhhc
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L~ 59 (79)
++++|..|+|||++++.|....+.
T Consensus 1 i~i~G~~~vGKTsli~~~~~~~~~ 24 (174)
T smart00174 1 LVVVGDGAVGKTCLLISYTTNAFP 24 (174)
T ss_pred CEEECCCCCCHHHHHHHHHhCCCC
Confidence 478999999999999999876653
No 75
>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=86.96 E-value=0.34 Score=31.31 Aligned_cols=23 Identities=13% Similarity=0.247 Sum_probs=19.6
Q ss_pred eeeecccCccccchhhhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L 58 (79)
+.++|.+|+||+++++.|.....
T Consensus 2 i~vvG~~~~GKtsli~~~~~~~~ 24 (165)
T cd04146 2 IAVLGASGVGKSALVVRFLTKRF 24 (165)
T ss_pred EEEECCCCCcHHHHHHHHHhCcc
Confidence 67999999999999999876443
No 76
>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=86.87 E-value=0.42 Score=31.58 Aligned_cols=27 Identities=19% Similarity=0.239 Sum_probs=24.0
Q ss_pred eEeeeeecccCccccchhhhhhhhhhc
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
.|.+.++|.+|+|||++++.|......
T Consensus 4 ~~kv~~vG~~~vGKTsli~~~~~~~f~ 30 (169)
T cd01892 4 VFLCFVLGAKGSGKSALLRAFLGRSFS 30 (169)
T ss_pred EEEEEEECCCCCcHHHHHHHHhCCCCC
Confidence 578999999999999999999887664
No 77
>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=86.85 E-value=0.37 Score=30.09 Aligned_cols=25 Identities=12% Similarity=0.189 Sum_probs=21.6
Q ss_pred EeeeeecccCccccchhhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L 58 (79)
+++.+.|.+|.||+++++.+.....
T Consensus 2 ~~i~l~G~~~~GKstli~~l~~~~~ 26 (157)
T cd04164 2 IKVVIVGKPNVGKSSLLNALAGRDR 26 (157)
T ss_pred cEEEEECCCCCCHHHHHHHHHCCce
Confidence 4688999999999999999987654
No 78
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=86.84 E-value=0.38 Score=31.35 Aligned_cols=27 Identities=7% Similarity=-0.039 Sum_probs=17.8
Q ss_pred eEeeeeecccCccccchhhhhhhhhhc
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
.=++.+.|++|+|||++.+.+....-.
T Consensus 24 ~~~~ll~G~~G~GKT~ll~~~~~~~~~ 50 (185)
T PF13191_consen 24 PRNLLLTGESGSGKTSLLRALLDRLAE 50 (185)
T ss_dssp ---EEE-B-TTSSHHHHHHHHHHHHHH
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHh
Confidence 345899999999999998877655443
No 79
>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=86.81 E-value=0.46 Score=34.15 Aligned_cols=24 Identities=4% Similarity=-0.099 Sum_probs=21.1
Q ss_pred eeeeecccCccccchhhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L 58 (79)
.++++|.+|+|||+++|.+....-
T Consensus 122 ~~~~~G~sgvGKStLiN~L~~~~~ 145 (245)
T TIGR00157 122 ISVFAGQSGVGKSSLINALDPSVK 145 (245)
T ss_pred EEEEECCCCCCHHHHHHHHhhhhh
Confidence 588999999999999999986543
No 80
>COG1162 Predicted GTPases [General function prediction only]
Probab=86.71 E-value=0.34 Score=36.88 Aligned_cols=23 Identities=4% Similarity=-0.022 Sum_probs=19.9
Q ss_pred eeeeecccCccccchhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~ 57 (79)
.+-++|.||+|||+++|.+-.+.
T Consensus 166 ~svl~GqSGVGKSSLiN~L~p~~ 188 (301)
T COG1162 166 ITVLLGQSGVGKSTLINALLPEL 188 (301)
T ss_pred eEEEECCCCCcHHHHHHhhCchh
Confidence 57789999999999999998643
No 81
>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=86.63 E-value=0.36 Score=32.12 Aligned_cols=26 Identities=8% Similarity=0.199 Sum_probs=22.4
Q ss_pred EeeeeecccCccccchhhhhhhhhhc
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
+.+.++|.+|+|||++++.|......
T Consensus 1 ~ki~vvG~~~vGKSsLi~~~~~~~~~ 26 (193)
T cd04118 1 VKVVMLGKESVGKTSLVERYVHHRFL 26 (193)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCcC
Confidence 36889999999999999999876654
No 82
>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=86.48 E-value=0.27 Score=31.99 Aligned_cols=28 Identities=21% Similarity=0.175 Sum_probs=23.8
Q ss_pred CceEeeeeecccCccccchhhhhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
+..++++++|.+++||+++++.+..+..
T Consensus 99 ~~~~~~~~ig~~~~Gkssl~~~l~~~~~ 126 (156)
T cd01859 99 GKEGKVGVVGYPNVGKSSIINALKGRHS 126 (156)
T ss_pred CCCcEEEEECCCCCCHHHHHHHHhCCCc
Confidence 4567889999999999999999986543
No 83
>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=86.41 E-value=0.47 Score=32.46 Aligned_cols=23 Identities=9% Similarity=0.104 Sum_probs=20.7
Q ss_pred EeeeeecccCccccchhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~ 56 (79)
+++.++|.+|.|||+++|.++..
T Consensus 2 ~kI~i~G~~g~GKSSLin~L~g~ 24 (197)
T cd04104 2 LNIAVTGESGAGKSSFINALRGV 24 (197)
T ss_pred eEEEEECCCCCCHHHHHHHHhcc
Confidence 56889999999999999999864
No 84
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=86.21 E-value=0.39 Score=31.75 Aligned_cols=27 Identities=11% Similarity=0.022 Sum_probs=23.9
Q ss_pred CceEeeeeecccCccccchhhhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~ 57 (79)
+...++.++|.+|.|||++++.+....
T Consensus 22 ~~~~~v~ivG~~~~GKSsli~~l~~~~ 48 (196)
T PRK00454 22 DDGPEIAFAGRSNVGKSSLINALTNRK 48 (196)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence 456789999999999999999999754
No 85
>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=86.11 E-value=0.43 Score=31.06 Aligned_cols=25 Identities=4% Similarity=0.123 Sum_probs=21.8
Q ss_pred eeeeecccCccccchhhhhhhhhhc
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L~ 59 (79)
.+.++|..|.|||++++.|......
T Consensus 2 kv~ivG~~~vGKTsl~~~l~~~~~~ 26 (166)
T cd01893 2 RIVLIGDEGVGKSSLIMSLVSEEFP 26 (166)
T ss_pred EEEEECCCCCCHHHHHHHHHhCcCC
Confidence 5789999999999999999877653
No 86
>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=86.10 E-value=0.44 Score=30.06 Aligned_cols=24 Identities=4% Similarity=0.112 Sum_probs=21.2
Q ss_pred EeeeeecccCccccchhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~ 57 (79)
+++.++|..|.|||++++.+....
T Consensus 3 ~~i~i~G~~~~GKstli~~l~~~~ 26 (174)
T cd01895 3 IRIAIIGRPNVGKSSLVNALLGEE 26 (174)
T ss_pred cEEEEEcCCCCCHHHHHHHHhCcc
Confidence 678999999999999999997654
No 87
>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=86.05 E-value=0.43 Score=30.89 Aligned_cols=26 Identities=8% Similarity=-0.138 Sum_probs=22.4
Q ss_pred eeeeecccCccccchhhhhhhhhhcC
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
|+.++|..|.|||++.|.+.......
T Consensus 1 ~v~v~G~~~~GKStlln~l~~~~~~~ 26 (189)
T cd00881 1 NVGIAGHVDHGKTTLTERLLYVTGDI 26 (189)
T ss_pred CEEEEeCCCCCHHHHHHHHHHhcCCC
Confidence 57899999999999999998876554
No 88
>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=85.88 E-value=0.42 Score=30.67 Aligned_cols=24 Identities=17% Similarity=0.195 Sum_probs=21.3
Q ss_pred eeeeecccCccccchhhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L 58 (79)
++.++|..|.|||++++.|.....
T Consensus 2 ~i~~~G~~~~GKssli~~l~~~~~ 25 (168)
T cd01897 2 TLVIAGYPNVGKSSLVNKLTRAKP 25 (168)
T ss_pred eEEEEcCCCCCHHHHHHHHhcCCC
Confidence 578999999999999999987654
No 89
>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=85.84 E-value=0.66 Score=32.30 Aligned_cols=28 Identities=0% Similarity=0.003 Sum_probs=22.8
Q ss_pred EeeeeecccCccccchhhhhhhhhhcCC
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLAGL 61 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~~~ 61 (79)
++++++|.+|.|||++.|++........
T Consensus 1 l~IlllG~tGsGKSs~~N~ilg~~~f~~ 28 (212)
T PF04548_consen 1 LRILLLGKTGSGKSSLGNSILGKEVFKS 28 (212)
T ss_dssp EEEEEECSTTSSHHHHHHHHHTSS-SS-
T ss_pred CEEEEECCCCCCHHHHHHHHhcccceee
Confidence 5899999999999999999987665443
No 90
>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=85.71 E-value=0.69 Score=30.67 Aligned_cols=27 Identities=7% Similarity=0.210 Sum_probs=23.3
Q ss_pred EeeeeecccCccccchhhhhhhhhhcC
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+.+.++|..|+|||++...|.......
T Consensus 3 ~ki~vvG~~~vGKTsL~~~~~~~~f~~ 29 (172)
T cd04141 3 YKIVMLGAGGVGKSAVTMQFISHSFPD 29 (172)
T ss_pred eEEEEECCCCCcHHHHHHHHHhCCCCC
Confidence 678999999999999999998776543
No 91
>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=85.68 E-value=0.38 Score=30.64 Aligned_cols=23 Identities=9% Similarity=0.255 Sum_probs=20.4
Q ss_pred eeeecccCccccchhhhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L 58 (79)
+.++|.+|.|||++++.|.....
T Consensus 2 i~i~G~~~~GKTsl~~~~~~~~~ 24 (160)
T cd04156 2 VLLLGLDSAGKSTLLYKLKHAEL 24 (160)
T ss_pred EEEEcCCCCCHHHHHHHHhcCCc
Confidence 67899999999999999987654
No 92
>PRK12288 GTPase RsgA; Reviewed
Probab=85.66 E-value=0.4 Score=36.53 Aligned_cols=24 Identities=8% Similarity=-0.050 Sum_probs=20.6
Q ss_pred eeeeecccCccccchhhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L 58 (79)
.++++|.||+||||++|.+.....
T Consensus 207 i~~~vG~sgVGKSTLiN~Ll~~~~ 230 (347)
T PRK12288 207 ISIFVGQSGVGKSSLINALLPEAE 230 (347)
T ss_pred CEEEECCCCCCHHHHHHHhccccc
Confidence 378999999999999999986543
No 93
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=85.50 E-value=0.61 Score=30.98 Aligned_cols=26 Identities=12% Similarity=0.006 Sum_probs=22.2
Q ss_pred eeeeecccCccccchhhhhhhhhhcC
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
.++++|.++.||||+.+.+.......
T Consensus 2 vv~VvG~~~sGKTTl~~~Li~~l~~~ 27 (140)
T PF03205_consen 2 VVQVVGPKNSGKTTLIRKLINELKRR 27 (140)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhHc
Confidence 47899999999999999988776644
No 94
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=85.47 E-value=0.51 Score=29.27 Aligned_cols=23 Identities=4% Similarity=-0.026 Sum_probs=19.1
Q ss_pred eeeecccCccccchhhhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L 58 (79)
+.+.|.+|.|||++.+.|.....
T Consensus 7 ~~i~G~~G~GKT~~~~~~~~~~~ 29 (131)
T PF13401_consen 7 LVISGPPGSGKTTLIKRLARQLN 29 (131)
T ss_dssp EEEEE-TTSSHHHHHHHHHHHHH
T ss_pred cEEEcCCCCCHHHHHHHHHHHhH
Confidence 67899999999999999987653
No 95
>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=85.27 E-value=0.56 Score=30.12 Aligned_cols=25 Identities=16% Similarity=0.174 Sum_probs=21.6
Q ss_pred EeeeeecccCccccchhhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L 58 (79)
+.+.++|..|.|||++.+.|.....
T Consensus 2 ~ki~~~G~~~~GKTsli~~~~~~~~ 26 (164)
T cd04175 2 YKLVVLGSGGVGKSALTVQFVQGIF 26 (164)
T ss_pred cEEEEECCCCCCHHHHHHHHHhCCC
Confidence 5788999999999999999986544
No 96
>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=85.26 E-value=0.49 Score=32.43 Aligned_cols=27 Identities=15% Similarity=0.228 Sum_probs=23.5
Q ss_pred eEeeeeecccCccccchhhhhhhhhhc
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
.++++++|..++|||+++|.+......
T Consensus 117 ~~~~~~vG~pnvGKSslin~l~~~~~~ 143 (172)
T cd04178 117 SITVGVVGFPNVGKSSLINSLKRSRAC 143 (172)
T ss_pred CcEEEEEcCCCCCHHHHHHHHhCcccc
Confidence 478999999999999999999876543
No 97
>PRK12289 GTPase RsgA; Reviewed
Probab=85.26 E-value=0.43 Score=36.54 Aligned_cols=23 Identities=9% Similarity=-0.047 Sum_probs=20.2
Q ss_pred eeeeecccCccccchhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~ 57 (79)
.++++|.||+|||+++|.+....
T Consensus 174 i~v~iG~SgVGKSSLIN~L~~~~ 196 (352)
T PRK12289 174 ITVVAGPSGVGKSSLINRLIPDV 196 (352)
T ss_pred eEEEEeCCCCCHHHHHHHHcCcc
Confidence 38999999999999999998543
No 98
>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=85.24 E-value=0.5 Score=31.53 Aligned_cols=27 Identities=22% Similarity=0.316 Sum_probs=23.3
Q ss_pred ceEeeeeecccCccccchhhhhhhhhh
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
-.+.++++|.+++||+++++.+.....
T Consensus 114 ~~~~~~~~G~~~vGKstlin~l~~~~~ 140 (171)
T cd01856 114 RGIRAMVVGIPNVGKSTLINRLRGKKV 140 (171)
T ss_pred CCeEEEEECCCCCCHHHHHHHHhCCCc
Confidence 347899999999999999999997654
No 99
>PLN03110 Rab GTPase; Provisional
Probab=85.09 E-value=0.61 Score=32.31 Aligned_cols=27 Identities=11% Similarity=0.279 Sum_probs=23.4
Q ss_pred ceEeeeeecccCccccchhhhhhhhhh
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
..+.+.++|.+|+||+++++.|.....
T Consensus 11 ~~~Ki~ivG~~~vGKStLi~~l~~~~~ 37 (216)
T PLN03110 11 YLFKIVLIGDSGVGKSNILSRFTRNEF 37 (216)
T ss_pred ceeEEEEECCCCCCHHHHHHHHhcCCC
Confidence 568999999999999999998876544
No 100
>PTZ00369 Ras-like protein; Provisional
Probab=84.96 E-value=0.57 Score=31.41 Aligned_cols=26 Identities=23% Similarity=0.240 Sum_probs=22.6
Q ss_pred eEeeeeecccCccccchhhhhhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
.|.+.++|..|+|||++.+.|.....
T Consensus 5 ~~Ki~iiG~~~~GKTsLi~~~~~~~~ 30 (189)
T PTZ00369 5 EYKLVVVGGGGVGKSALTIQFIQNHF 30 (189)
T ss_pred ceEEEEECCCCCCHHHHHHHHhcCCC
Confidence 47899999999999999999886654
No 101
>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=84.48 E-value=0.54 Score=31.75 Aligned_cols=26 Identities=0% Similarity=0.028 Sum_probs=22.1
Q ss_pred EeeeeecccCccccchhhhhhhhhhc
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
+.+.++|.+|+|||+++..|......
T Consensus 1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~ 26 (182)
T cd04128 1 LKIGLLGDAQIGKTSLMVKYVEGEFD 26 (182)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCCC
Confidence 46889999999999999999876554
No 102
>PLN03118 Rab family protein; Provisional
Probab=84.41 E-value=0.73 Score=31.46 Aligned_cols=29 Identities=10% Similarity=0.255 Sum_probs=24.5
Q ss_pred ceEeeeeecccCccccchhhhhhhhhhcC
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
..|.+.++|..|+|||++.+.|.......
T Consensus 13 ~~~kv~ivG~~~vGKTsli~~l~~~~~~~ 41 (211)
T PLN03118 13 LSFKILLIGDSGVGKSSLLVSFISSSVED 41 (211)
T ss_pred cceEEEEECcCCCCHHHHHHHHHhCCCCC
Confidence 46889999999999999999998766543
No 103
>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=84.27 E-value=0.61 Score=30.24 Aligned_cols=27 Identities=15% Similarity=0.087 Sum_probs=22.0
Q ss_pred eeeecccCccccchhhhhhhhhhcCCC
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKLAGLG 62 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L~~~~ 62 (79)
+.++|..+.|||+|+|.|....+.+.+
T Consensus 1 V~v~G~~ssGKSTliNaLlG~~ilp~~ 27 (168)
T PF00350_consen 1 VAVVGQFSSGKSTLINALLGRPILPSG 27 (168)
T ss_dssp EEEEEBTTSSHHHHHHHHHTSS-SSSS
T ss_pred CEEEcCCCCCHHHHHHHHHhcccCccc
Confidence 468999999999999999988775533
No 104
>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=84.21 E-value=0.65 Score=30.40 Aligned_cols=28 Identities=7% Similarity=0.230 Sum_probs=23.6
Q ss_pred CceEeeeeecccCccccchhhhhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
.-.+.+.++|.+|.|||++++.|.....
T Consensus 12 ~~~~kv~ivG~~~~GKTsL~~~l~~~~~ 39 (173)
T cd04154 12 EREMRILILGLDNAGKTTILKKLLGEDI 39 (173)
T ss_pred CCccEEEEECCCCCCHHHHHHHHccCCC
Confidence 4557899999999999999999986644
No 105
>PRK04213 GTP-binding protein; Provisional
Probab=84.17 E-value=0.61 Score=31.25 Aligned_cols=28 Identities=11% Similarity=0.138 Sum_probs=23.5
Q ss_pred CceEeeeeecccCccccchhhhhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
+..+++.++|.+++|||++++.|.....
T Consensus 7 ~~~~~i~i~G~~~~GKSsLin~l~~~~~ 34 (201)
T PRK04213 7 DRKPEIVFVGRSNVGKSTLVRELTGKKV 34 (201)
T ss_pred CCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence 3457899999999999999999986553
No 106
>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=84.15 E-value=0.58 Score=31.38 Aligned_cols=25 Identities=12% Similarity=0.050 Sum_probs=21.2
Q ss_pred eeeecccCccccchhhhhhhhhhcC
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+.++|..|+|||++++.|....+..
T Consensus 2 i~ivG~~~vGKTsli~~l~~~~f~~ 26 (190)
T cd04144 2 LVVLGDGGVGKTALTIQLCLNHFVE 26 (190)
T ss_pred EEEECCCCCCHHHHHHHHHhCCCCc
Confidence 6799999999999999998766543
No 107
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=83.71 E-value=0.75 Score=29.24 Aligned_cols=23 Identities=4% Similarity=0.024 Sum_probs=19.4
Q ss_pred eeeeecccCccccchhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~ 57 (79)
+++++|.+|.||+++.+.+....
T Consensus 1 ~vlL~G~~G~GKt~l~~~la~~~ 23 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLARELAALL 23 (139)
T ss_dssp EEEEEESSSSSHHHHHHHHHHHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHh
Confidence 47899999999999988777544
No 108
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=83.42 E-value=0.74 Score=33.67 Aligned_cols=27 Identities=11% Similarity=0.266 Sum_probs=23.6
Q ss_pred ceEeeeeecccCccccchhhhhhhhhh
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
-.++++++|.+++|||+++|.+...+.
T Consensus 120 ~~~~~~~~G~pnvGKSsliN~l~~~~~ 146 (287)
T PRK09563 120 RAIRAMIIGIPNVGKSTLINRLAGKKI 146 (287)
T ss_pred CceEEEEECCCCCCHHHHHHHHhcCCc
Confidence 457899999999999999999987654
No 109
>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=83.27 E-value=0.71 Score=29.02 Aligned_cols=24 Identities=4% Similarity=0.134 Sum_probs=20.7
Q ss_pred eeeeecccCccccchhhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L 58 (79)
.+.++|.+++|||++++.|.....
T Consensus 2 kv~liG~~~vGKSsL~~~l~~~~~ 25 (142)
T TIGR02528 2 RIMFIGSVGCGKTTLTQALQGEEI 25 (142)
T ss_pred eEEEECCCCCCHHHHHHHHcCCcc
Confidence 578999999999999999986654
No 110
>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=83.26 E-value=0.63 Score=30.82 Aligned_cols=24 Identities=17% Similarity=0.124 Sum_probs=21.3
Q ss_pred eeeecccCccccchhhhhhhhhhc
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L~ 59 (79)
+.++|..|+|||++++.|......
T Consensus 3 i~ivG~~~vGKTsli~~~~~~~f~ 26 (170)
T cd04108 3 VIVVGDLSVGKTCLINRFCKDVFD 26 (170)
T ss_pred EEEECCCCCCHHHHHHHHhcCCCC
Confidence 689999999999999999987654
No 111
>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=83.03 E-value=0.64 Score=29.46 Aligned_cols=22 Identities=14% Similarity=0.288 Sum_probs=19.4
Q ss_pred eeeeecccCccccchhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~ 56 (79)
++.++|..+.|||++++.|...
T Consensus 1 ~i~~vG~~~~GKTsl~~~l~~~ 22 (162)
T cd04157 1 NILVVGLDNSGKTTIINQLKPE 22 (162)
T ss_pred CEEEECCCCCCHHHHHHHHccc
Confidence 4689999999999999988865
No 112
>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=82.93 E-value=0.59 Score=29.96 Aligned_cols=23 Identities=13% Similarity=0.130 Sum_probs=20.0
Q ss_pred eeeeecccCccccchhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~ 57 (79)
++.++|..+.|||++++.+....
T Consensus 2 ~v~ivG~~~~GKStl~~~l~~~~ 24 (170)
T cd01898 2 DVGLVGLPNAGKSTLLSAISNAK 24 (170)
T ss_pred CeEEECCCCCCHHHHHHHHhcCC
Confidence 57899999999999999998544
No 113
>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=82.91 E-value=0.64 Score=32.45 Aligned_cols=25 Identities=8% Similarity=0.207 Sum_probs=21.4
Q ss_pred EeeeeecccCccccchhhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L 58 (79)
+.+.++|..|+|||++++.|.....
T Consensus 1 ~KI~lvG~~gvGKTsLi~~~~~~~~ 25 (221)
T cd04148 1 YRVVMLGSPGVGKSSLASQFTSGEY 25 (221)
T ss_pred CEEEEECCCCCcHHHHHHHHhcCCc
Confidence 4689999999999999999975554
No 114
>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=82.87 E-value=0.65 Score=31.97 Aligned_cols=25 Identities=16% Similarity=0.222 Sum_probs=21.4
Q ss_pred EeeeeecccCccccchhhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L 58 (79)
|.+.++|.+|+|||++++.|.....
T Consensus 1 ~Ki~ivG~~~vGKSsLi~~l~~~~~ 25 (215)
T cd04109 1 FKIVVLGDGAVGKTSLCRRFAKEGF 25 (215)
T ss_pred CEEEEECcCCCCHHHHHHHHhcCCC
Confidence 4578999999999999999986554
No 115
>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=82.82 E-value=0.78 Score=38.88 Aligned_cols=31 Identities=10% Similarity=0.125 Sum_probs=26.8
Q ss_pred hCceEeeeeecccCccccchhhhhhhhhhcC
Q psy5599 30 KGFEFTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 30 ~g~~fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+.|.++++++|.+|+||++++|+++.+....
T Consensus 115 LdfslrIvLVGKTGVGKSSLINSILGekvf~ 145 (763)
T TIGR00993 115 LDFSLNILVLGKSGVGKSATINSIFGEVKFS 145 (763)
T ss_pred cCcceEEEEECCCCCCHHHHHHHHhcccccc
Confidence 4677899999999999999999999876443
No 116
>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process
Probab=82.51 E-value=0.65 Score=31.69 Aligned_cols=25 Identities=4% Similarity=0.132 Sum_probs=21.5
Q ss_pred eeeeecccCccccchhhhhhhhhhc
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L~ 59 (79)
++|++|.+|.||+|+.+.+..+.+.
T Consensus 3 rimliG~~g~GKTTL~q~L~~~~~~ 27 (143)
T PF10662_consen 3 RIMLIGPSGSGKTTLAQALNGEEIR 27 (143)
T ss_pred eEEEECCCCCCHHHHHHHHcCCCCC
Confidence 5899999999999999988876553
No 117
>COG3596 Predicted GTPase [General function prediction only]
Probab=82.46 E-value=0.73 Score=35.13 Aligned_cols=31 Identities=0% Similarity=-0.001 Sum_probs=25.5
Q ss_pred ceEeeeeecccCccccchhhhhhhhhhcCCC
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKLAGLG 62 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L~~~~ 62 (79)
--.|+++.|..|.|||.++|.+|...+....
T Consensus 38 ~pvnvLi~G~TG~GKSSliNALF~~~~~~v~ 68 (296)
T COG3596 38 EPVNVLLMGATGAGKSSLINALFQGEVKEVS 68 (296)
T ss_pred CceeEEEecCCCCcHHHHHHHHHhccCceee
Confidence 4578899999999999999999965555543
No 118
>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=82.46 E-value=0.73 Score=29.43 Aligned_cols=22 Identities=18% Similarity=0.163 Sum_probs=19.2
Q ss_pred EeeeeecccCccccchhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~ 55 (79)
+.+.++|.+|.|||++.+.|..
T Consensus 1 ~ki~vvG~~~~GKtsl~~~l~~ 22 (164)
T cd04101 1 LRCAVVGDPAVGKTAFVQMFHS 22 (164)
T ss_pred CEEEEECCCCCCHHHHHHHHhc
Confidence 3688999999999999988864
No 119
>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=82.31 E-value=0.92 Score=30.56 Aligned_cols=26 Identities=12% Similarity=0.051 Sum_probs=22.4
Q ss_pred EeeeeecccCccccchhhhhhhhhhc
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
+.+.++|.+|+|||+++..|......
T Consensus 2 ~Kiv~vG~~~vGKTsli~~~~~~~f~ 27 (178)
T cd04131 2 CKIVVVGDVQCGKTALLQVFAKDCYP 27 (178)
T ss_pred eEEEEECCCCCCHHHHHHHHHhCcCC
Confidence 56899999999999999999876554
No 120
>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=82.19 E-value=0.91 Score=31.18 Aligned_cols=27 Identities=11% Similarity=0.162 Sum_probs=23.5
Q ss_pred ceEeeeeecccCccccchhhhhhhhhh
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
..+.++++|..|+|||+++..|.....
T Consensus 5 ~~~KivviG~~~vGKTsll~~~~~~~~ 31 (189)
T cd04121 5 YLLKFLLVGDSDVGKGEILASLQDGST 31 (189)
T ss_pred ceeEEEEECCCCCCHHHHHHHHHcCCC
Confidence 458899999999999999999987554
No 121
>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=82.11 E-value=1 Score=30.58 Aligned_cols=30 Identities=10% Similarity=0.082 Sum_probs=24.9
Q ss_pred CceEeeeeecccCccccchhhhhhhhhhcC
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
...+.+.++|.+|+|||+++..|.......
T Consensus 3 ~~~~KivvvGd~~vGKTsli~~~~~~~f~~ 32 (182)
T cd04172 3 NVKCKIVVVGDSQCGKTALLHVFAKDCFPE 32 (182)
T ss_pred cceEEEEEECCCCCCHHHHHHHHHhCCCCC
Confidence 356789999999999999999998766543
No 122
>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=81.96 E-value=0.92 Score=30.22 Aligned_cols=25 Identities=16% Similarity=0.159 Sum_probs=22.2
Q ss_pred EeeeeecccCccccchhhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L 58 (79)
+.+.++|..|+|||+++..|.....
T Consensus 2 ~ki~vvG~~~vGKTsl~~~~~~~~f 26 (175)
T cd01874 2 IKCVVVGDGAVGKTCLLISYTTNKF 26 (175)
T ss_pred eEEEEECCCCCCHHHHHHHHHcCCC
Confidence 6789999999999999999987665
No 123
>PRK07261 topology modulation protein; Provisional
Probab=81.90 E-value=0.85 Score=30.86 Aligned_cols=21 Identities=0% Similarity=0.067 Sum_probs=18.1
Q ss_pred eeeeecccCccccchhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~ 55 (79)
+++++|.+|.||||+-..+-.
T Consensus 2 ri~i~G~~GsGKSTla~~l~~ 22 (171)
T PRK07261 2 KIAIIGYSGSGKSTLARKLSQ 22 (171)
T ss_pred EEEEEcCCCCCHHHHHHHHHH
Confidence 578999999999999887653
No 124
>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=81.75 E-value=0.99 Score=30.48 Aligned_cols=26 Identities=12% Similarity=0.077 Sum_probs=22.8
Q ss_pred EeeeeecccCccccchhhhhhhhhhc
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
|.+.++|.+|+|||+++..|......
T Consensus 4 ~ki~~vG~~~vGKTsli~~~~~~~f~ 29 (191)
T cd01875 4 IKCVVVGDGAVGKTCLLICYTTNAFP 29 (191)
T ss_pred EEEEEECCCCCCHHHHHHHHHhCCCC
Confidence 78999999999999999998876653
No 125
>cd01870 RhoA_like RhoA-like subfamily. The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranyl
Probab=81.72 E-value=0.88 Score=29.44 Aligned_cols=26 Identities=12% Similarity=0.051 Sum_probs=22.0
Q ss_pred EeeeeecccCccccchhhhhhhhhhc
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
..+.++|.+|.|||++...|......
T Consensus 2 ~ki~iiG~~~~GKTsl~~~~~~~~~~ 27 (175)
T cd01870 2 KKLVIVGDGACGKTCLLIVFSKDQFP 27 (175)
T ss_pred cEEEEECCCCCCHHHHHHHHhcCCCC
Confidence 36889999999999999999876554
No 126
>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=81.56 E-value=1 Score=27.82 Aligned_cols=23 Identities=9% Similarity=0.151 Sum_probs=19.8
Q ss_pred eeeecccCccccchhhhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L 58 (79)
+.++|.+|.|||++++.+.....
T Consensus 2 i~i~G~~~~GKssl~~~l~~~~~ 24 (159)
T cd04159 2 ITLVGLQNSGKTTLVNVIAGGQF 24 (159)
T ss_pred EEEEcCCCCCHHHHHHHHccCCC
Confidence 56899999999999999987643
No 127
>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=81.50 E-value=0.79 Score=30.10 Aligned_cols=23 Identities=9% Similarity=0.239 Sum_probs=20.0
Q ss_pred eeeecccCccccchhhhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L 58 (79)
+.++|..|+|||++++.|.....
T Consensus 2 i~ivG~~~vGKTsli~~~~~~~~ 24 (164)
T cd04162 2 ILVLGLDGAGKTSLLHSLSSERS 24 (164)
T ss_pred EEEECCCCCCHHHHHHHHhcCCC
Confidence 57899999999999999987643
No 128
>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=81.49 E-value=0.94 Score=28.85 Aligned_cols=26 Identities=15% Similarity=0.190 Sum_probs=21.8
Q ss_pred eeeeecccCccccchhhhhhhhhhcC
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
.+.++|..+.|||++++.|.......
T Consensus 2 ~i~iiG~~~~GKtsli~~l~~~~~~~ 27 (168)
T cd01887 2 VVTVMGHVDHGKTTLLDKIRKTNVAA 27 (168)
T ss_pred EEEEEecCCCCHHHHHHHHHhccccc
Confidence 37899999999999999998766544
No 129
>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=81.40 E-value=0.82 Score=30.68 Aligned_cols=25 Identities=16% Similarity=0.263 Sum_probs=21.0
Q ss_pred EeeeeecccCccccchhhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L 58 (79)
+.+.++|..|+|||++++.|.....
T Consensus 1 ~Ki~vvG~~~vGKTSli~~~~~~~~ 25 (191)
T cd04112 1 FKVMLLGDSGVGKTCLLVRFKDGAF 25 (191)
T ss_pred CEEEEECCCCCCHHHHHHHHhcCCC
Confidence 3578999999999999998876554
No 130
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=81.33 E-value=0.92 Score=30.99 Aligned_cols=27 Identities=19% Similarity=0.203 Sum_probs=22.4
Q ss_pred ceEeeeeecccCccccchhhhhhhhhh
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
-.+.+.++|.+|.|||++.+.|.....
T Consensus 8 ~~~kv~liG~~g~GKTtLi~~~~~~~~ 34 (215)
T PTZ00132 8 PEFKLILVGDGGVGKTTFVKRHLTGEF 34 (215)
T ss_pred CCceEEEECCCCCCHHHHHHHHHhCCC
Confidence 347899999999999999988776554
No 131
>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=81.24 E-value=0.89 Score=30.15 Aligned_cols=26 Identities=12% Similarity=0.216 Sum_probs=22.1
Q ss_pred eEeeeeecccCccccchhhhhhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
.+.+.++|..|+|||++++.|.....
T Consensus 13 ~~ki~l~G~~~~GKTsL~~~~~~~~~ 38 (175)
T smart00177 13 EMRILMVGLDAAGKTTILYKLKLGES 38 (175)
T ss_pred ccEEEEEcCCCCCHHHHHHHHhcCCC
Confidence 57899999999999999999965443
No 132
>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=80.95 E-value=1 Score=30.00 Aligned_cols=26 Identities=12% Similarity=0.111 Sum_probs=21.7
Q ss_pred EeeeeecccCccccchhhhhhhhhhc
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
+.+.++|..|+|||+++..|....+.
T Consensus 2 ~ki~iiG~~~vGKSsli~~~~~~~f~ 27 (174)
T cd01871 2 IKCVVVGDGAVGKTCLLISYTTNAFP 27 (174)
T ss_pred eEEEEECCCCCCHHHHHHHHhcCCCC
Confidence 57899999999999999887765543
No 133
>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=80.77 E-value=0.94 Score=28.25 Aligned_cols=20 Identities=5% Similarity=0.049 Sum_probs=18.0
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.|||++.+.+..
T Consensus 2 i~l~G~~g~GKTtL~~~l~~ 21 (170)
T cd01876 2 IAFAGRSNVGKSSLINALTN 21 (170)
T ss_pred EEEEcCCCCCHHHHHHHHhc
Confidence 56899999999999999984
No 134
>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=80.50 E-value=0.95 Score=29.63 Aligned_cols=28 Identities=11% Similarity=0.032 Sum_probs=23.6
Q ss_pred CceEeeeeecccCccccchhhhhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
.-..+++++|.+++||++++|.+.....
T Consensus 98 ~~~~~~~~~G~~~~GKstlin~l~~~~~ 125 (155)
T cd01849 98 KKSITVGVIGYPNVGKSSVINALLNKLK 125 (155)
T ss_pred ccCcEEEEEccCCCCHHHHHHHHHcccc
Confidence 3457799999999999999999987653
No 135
>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=80.33 E-value=0.96 Score=30.30 Aligned_cols=27 Identities=11% Similarity=0.250 Sum_probs=23.3
Q ss_pred eEeeeeecccCccccchhhhhhhhhhc
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
.+.+.++|..|.|||++++.|....+.
T Consensus 17 ~~~i~ivG~~~~GKTsli~~l~~~~~~ 43 (184)
T smart00178 17 HAKILFLGLDNAGKTTLLHMLKNDRLA 43 (184)
T ss_pred cCEEEEECCCCCCHHHHHHHHhcCCCc
Confidence 478999999999999999999876543
No 136
>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=80.21 E-value=0.7 Score=28.89 Aligned_cols=20 Identities=15% Similarity=0.350 Sum_probs=17.7
Q ss_pred eecccCccccchhhhhhhhh
Q psy5599 38 VVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 38 vvglsglgkst~~e~~r~~~ 57 (79)
++|..|.|||++++.+..+.
T Consensus 2 l~G~~~~GKssl~~~l~~~~ 21 (157)
T cd01894 2 IVGRPNVGKSTLFNRLTGRR 21 (157)
T ss_pred ccCCCCCCHHHHHHHHhCCc
Confidence 68999999999999998664
No 137
>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=80.16 E-value=1.3 Score=29.77 Aligned_cols=27 Identities=7% Similarity=0.062 Sum_probs=23.4
Q ss_pred ceEeeeeecccCccccchhhhhhhhhh
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
-.+++.++|..|.|||++++.+.....
T Consensus 40 ~~~~I~iiG~~g~GKStLl~~l~~~~~ 66 (204)
T cd01878 40 GIPTVALVGYTNAGKSTLFNALTGADV 66 (204)
T ss_pred CCCeEEEECCCCCCHHHHHHHHhcchh
Confidence 358899999999999999999887653
No 138
>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=79.90 E-value=0.96 Score=29.61 Aligned_cols=24 Identities=4% Similarity=0.130 Sum_probs=20.2
Q ss_pred eeeeecccCccccchhhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L 58 (79)
++.++|..|+|||++++.|.....
T Consensus 1 ~vvlvG~~~~GKTsl~~~l~~~~~ 24 (169)
T cd04158 1 RVVTLGLDGAGKTTILFKLKQDEF 24 (169)
T ss_pred CEEEECCCCCCHHHHHHHHhcCCC
Confidence 367999999999999999886543
No 139
>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=79.63 E-value=1.1 Score=30.04 Aligned_cols=26 Identities=8% Similarity=0.022 Sum_probs=21.8
Q ss_pred eeeeecccCccccchhhhhhhhhhcC
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
.+.++|..|+|||++.+.|.......
T Consensus 2 kivivG~~~vGKTsli~~~~~~~~~~ 27 (189)
T cd04134 2 KVVVLGDGACGKTSLLNVFTRGYFPQ 27 (189)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCC
Confidence 47899999999999999998766543
No 140
>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=79.48 E-value=1 Score=31.32 Aligned_cols=26 Identities=8% Similarity=0.218 Sum_probs=22.0
Q ss_pred eeeeecccCccccchhhhhhhhhhcC
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
.+.++|.+|+|||+++..|.......
T Consensus 2 ~vvvlG~~gVGKTSli~r~~~~~f~~ 27 (202)
T cd04120 2 QVIIIGSRGVGKTSLMRRFTDDTFCE 27 (202)
T ss_pred EEEEECcCCCCHHHHHHHHHhCCCCC
Confidence 47899999999999999998766543
No 141
>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=79.43 E-value=1 Score=29.60 Aligned_cols=22 Identities=18% Similarity=0.273 Sum_probs=19.0
Q ss_pred eeeeecccCccccchhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~ 56 (79)
++.++|.+|.|||++++.|...
T Consensus 1 ~i~~~G~~~~GKTsl~~~l~~~ 22 (167)
T cd04161 1 TLLTVGLDNAGKTTLVSALQGE 22 (167)
T ss_pred CEEEECCCCCCHHHHHHHHhCC
Confidence 4689999999999999988654
No 142
>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=79.35 E-value=0.94 Score=28.80 Aligned_cols=23 Identities=4% Similarity=0.232 Sum_probs=20.3
Q ss_pred eeeecccCccccchhhhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L 58 (79)
+.++|..|.|||++++.+.....
T Consensus 2 i~iiG~~~~GKssli~~~~~~~~ 24 (158)
T cd00878 2 ILILGLDGAGKTTILYKLKLGEV 24 (158)
T ss_pred EEEEcCCCCCHHHHHHHHhcCCC
Confidence 57899999999999999987763
No 143
>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=79.34 E-value=1.2 Score=28.86 Aligned_cols=22 Identities=5% Similarity=-0.011 Sum_probs=19.9
Q ss_pred eeeeecccCccccchhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~ 56 (79)
|+.++|..+.|||++.+.|...
T Consensus 2 ni~~vG~~~~GKssL~~~l~~~ 23 (179)
T cd01890 2 NFSIIAHIDHGKSTLADRLLEL 23 (179)
T ss_pred cEEEEeecCCCHHHHHHHHHHH
Confidence 6789999999999999999864
No 144
>KOG2485|consensus
Probab=78.95 E-value=1.7 Score=33.74 Aligned_cols=32 Identities=22% Similarity=0.263 Sum_probs=28.4
Q ss_pred hCceEeeeeecccCccccchhhhhhhhhhcCC
Q psy5599 30 KGFEFTLMVVDLKDVTSNVHYENFRCRKLAGL 61 (79)
Q Consensus 30 ~g~~fn~mvvglsglgkst~~e~~r~~~L~~~ 61 (79)
+....++|++|-.++||+++||..+...|..-
T Consensus 140 ~~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~ 171 (335)
T KOG2485|consen 140 LNSEYNVMVVGVPNVGKSSLINALRNVHLRKK 171 (335)
T ss_pred cCCceeEEEEcCCCCChHHHHHHHHHHHhhhc
Confidence 35889999999999999999999998887663
No 145
>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=78.54 E-value=1.3 Score=29.25 Aligned_cols=25 Identities=8% Similarity=0.235 Sum_probs=21.6
Q ss_pred eEeeeeecccCccccchhhhhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~ 57 (79)
.+++.++|.++.|||++++.|....
T Consensus 9 ~~kv~i~G~~~~GKTsli~~l~~~~ 33 (168)
T cd04149 9 EMRILMLGLDAAGKTTILYKLKLGQ 33 (168)
T ss_pred ccEEEEECcCCCCHHHHHHHHccCC
Confidence 4789999999999999999886543
No 146
>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=78.41 E-value=1.2 Score=29.33 Aligned_cols=26 Identities=12% Similarity=0.252 Sum_probs=22.3
Q ss_pred eEeeeeecccCccccchhhhhhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
.+.+.++|.+|.|||++++.|.....
T Consensus 19 ~~ki~ilG~~~~GKStLi~~l~~~~~ 44 (190)
T cd00879 19 EAKILFLGLDNAGKTTLLHMLKDDRL 44 (190)
T ss_pred CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence 56789999999999999999986544
No 147
>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=78.15 E-value=1.1 Score=31.66 Aligned_cols=27 Identities=7% Similarity=0.202 Sum_probs=22.7
Q ss_pred EeeeeecccCccccchhhhhhhhhhcC
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+.+.++|..|+|||++++.|....+..
T Consensus 1 ~KIvivG~~~vGKTSLi~r~~~~~f~~ 27 (220)
T cd04126 1 LKVVLLGDMNVGKTSLLHRYMERRFKD 27 (220)
T ss_pred CEEEEECCCCCcHHHHHHHHhcCCCCC
Confidence 357899999999999999998776543
No 148
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=77.96 E-value=0.94 Score=33.25 Aligned_cols=37 Identities=8% Similarity=0.051 Sum_probs=27.5
Q ss_pred CChHHHHHHhh--CceEeeeeecccCccccchhhhhhhh
Q psy5599 20 PNQVFRKAVKK--GFEFTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 20 pnq~~~~~~K~--g~~fn~mvvglsglgkst~~e~~r~~ 56 (79)
+..++..+++. ...-.++++|.+|.||+...+++.++
T Consensus 18 dt~r~~~ll~~l~~~~~pvLl~G~~GtGKT~li~~~l~~ 56 (272)
T PF12775_consen 18 DTVRYSYLLDLLLSNGRPVLLVGPSGTGKTSLIQNFLSS 56 (272)
T ss_dssp HHHHHHHHHHHHHHCTEEEEEESSTTSSHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHcCCcEEEECCCCCchhHHHHhhhcc
Confidence 44455555554 45667899999999999999887753
No 149
>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=77.82 E-value=1.3 Score=28.86 Aligned_cols=23 Identities=9% Similarity=0.199 Sum_probs=19.3
Q ss_pred eeeeecccCccccchhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~ 57 (79)
.+.++|..|+|||++++.|....
T Consensus 2 kv~~~G~~~~GKTsli~~l~~~~ 24 (159)
T cd04150 2 RILMVGLDAAGKTTILYKLKLGE 24 (159)
T ss_pred EEEEECCCCCCHHHHHHHHhcCC
Confidence 57889999999999999985443
No 150
>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=77.79 E-value=1.5 Score=30.11 Aligned_cols=27 Identities=11% Similarity=0.186 Sum_probs=22.2
Q ss_pred EeeeeecccCccccchhhhhhhhhhcC
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+.+.++|..++|||++++.|.......
T Consensus 1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~ 27 (198)
T cd04142 1 VRVAVLGAPGVGKTAIVRQFLAQEFPE 27 (198)
T ss_pred CEEEEECCCCCcHHHHHHHHHcCCCCc
Confidence 357899999999999999988765533
No 151
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=77.63 E-value=1.5 Score=26.92 Aligned_cols=21 Identities=5% Similarity=0.077 Sum_probs=18.0
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+.+.|.+|.||||+-+.+...
T Consensus 2 I~I~G~~gsGKST~a~~La~~ 22 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAKELAER 22 (121)
T ss_dssp EEEEESTTSSHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 678999999999998877664
No 152
>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=77.36 E-value=1.3 Score=29.98 Aligned_cols=25 Identities=12% Similarity=0.173 Sum_probs=21.0
Q ss_pred eeeecccCccccchhhhhhhhhhcC
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+.++|..|+|||++++.|.......
T Consensus 2 v~vvG~~~vGKTsll~~~~~~~~~~ 26 (198)
T cd04147 2 LVFMGAAGVGKTALIQRFLYDTFEP 26 (198)
T ss_pred EEEECCCCCCHHHHHHHHHhCCCCc
Confidence 6799999999999999998765443
No 153
>PRK00098 GTPase RsgA; Reviewed
Probab=77.23 E-value=1.4 Score=32.45 Aligned_cols=23 Identities=4% Similarity=-0.015 Sum_probs=20.0
Q ss_pred eeeeecccCccccchhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~ 57 (79)
.+.++|.+|+||||++|.+....
T Consensus 166 ~~~~~G~sgvGKStlin~l~~~~ 188 (298)
T PRK00098 166 VTVLAGQSGVGKSTLLNALAPDL 188 (298)
T ss_pred eEEEECCCCCCHHHHHHHHhCCc
Confidence 57899999999999999997544
No 154
>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=77.18 E-value=1.5 Score=33.29 Aligned_cols=24 Identities=13% Similarity=0.141 Sum_probs=21.5
Q ss_pred EeeeeecccCccccchhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~ 57 (79)
-+++++|.+++|||+++|.+....
T Consensus 155 ~~v~~vG~~nvGKStliN~l~~~~ 178 (360)
T TIGR03597 155 KDVYVVGVTNVGKSSLINKLLKQN 178 (360)
T ss_pred CeEEEECCCCCCHHHHHHHHHhhc
Confidence 479999999999999999998753
No 155
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=77.00 E-value=1.6 Score=29.37 Aligned_cols=27 Identities=11% Similarity=0.180 Sum_probs=23.9
Q ss_pred EeeeeecccCccccchhhhhhhhhhcC
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+.+.++|..|.|||++.+.|.......
T Consensus 6 ~kivv~G~~g~GKTtl~~~l~~~~~~~ 32 (219)
T COG1100 6 FKIVVLGDGGVGKTTLLNRLVGDEFPE 32 (219)
T ss_pred EEEEEEcCCCccHHHHHHHHhcCcCcc
Confidence 789999999999999999999776664
No 156
>cd04103 Centaurin_gamma Centaurin gamma. The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.
Probab=76.90 E-value=1.5 Score=28.89 Aligned_cols=24 Identities=8% Similarity=0.019 Sum_probs=20.3
Q ss_pred eeeeecccCccccchhhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L 58 (79)
.+-++|.+|+|||+++..|.....
T Consensus 2 ki~vvG~~gvGKTsli~~~~~~~f 25 (158)
T cd04103 2 KLGIVGNLQSGKSALVHRYLTGSY 25 (158)
T ss_pred EEEEECCCCCcHHHHHHHHHhCCC
Confidence 578999999999999998876544
No 157
>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]
Probab=76.61 E-value=1.5 Score=32.21 Aligned_cols=43 Identities=9% Similarity=0.030 Sum_probs=30.1
Q ss_pred eeeecccCccccchhhhhhhhhhcCCCCCCCcc-cchhhhhccC
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKLAGLGTDGKPR-LLNKWKRRDV 78 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L~~~~~~~~~~-~~~~~~~~~~ 78 (79)
+.++|-||-|||||...++...-..-+.-...+ .+.+++++++
T Consensus 31 ~fl~GpSGAGKSTllkLi~~~e~pt~G~i~~~~~dl~~l~~~~i 74 (223)
T COG2884 31 VFLTGPSGAGKSTLLKLIYGEERPTRGKILVNGHDLSRLKGREI 74 (223)
T ss_pred EEEECCCCCCHHHHHHHHHhhhcCCCceEEECCeeccccccccc
Confidence 458999999999999988876655555333333 5666666554
No 158
>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=76.39 E-value=1.8 Score=29.10 Aligned_cols=21 Identities=5% Similarity=0.058 Sum_probs=19.5
Q ss_pred eeeeecccCccccchhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~ 55 (79)
++.++|..+.|||++++.|..
T Consensus 4 ~i~ivG~~~~GKTsL~~~l~~ 24 (194)
T cd01891 4 NIAIIAHVDHGKTTLVDALLK 24 (194)
T ss_pred EEEEEecCCCCHHHHHHHHHH
Confidence 688999999999999999986
No 159
>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=76.27 E-value=1.6 Score=28.72 Aligned_cols=27 Identities=15% Similarity=0.337 Sum_probs=22.7
Q ss_pred eEeeeeecccCccccchhhhhhhhhhc
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
.+.+.++|.+|.|||++++.|......
T Consensus 15 ~~kv~~~G~~~~GKTsl~~~l~~~~~~ 41 (174)
T cd04153 15 EYKVIIVGLDNAGKTTILYQFLLGEVV 41 (174)
T ss_pred ccEEEEECCCCCCHHHHHHHHccCCCC
Confidence 478899999999999999999765543
No 160
>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=76.00 E-value=1.1 Score=28.25 Aligned_cols=20 Identities=10% Similarity=0.210 Sum_probs=17.5
Q ss_pred eecccCccccchhhhhhhhh
Q psy5599 38 VVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 38 vvglsglgkst~~e~~r~~~ 57 (79)
++|.+|.|||++++.+....
T Consensus 1 l~G~~~~GKssl~~~~~~~~ 20 (158)
T cd01879 1 LVGNPNVGKTTLFNALTGAR 20 (158)
T ss_pred CCCCCCCCHHHHHHHHhcCc
Confidence 57999999999999998764
No 161
>PLN00223 ADP-ribosylation factor; Provisional
Probab=75.93 E-value=1.7 Score=29.21 Aligned_cols=26 Identities=12% Similarity=0.279 Sum_probs=22.0
Q ss_pred eEeeeeecccCccccchhhhhhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
.+.+.++|.+++|||+++..|.....
T Consensus 17 ~~ki~ivG~~~~GKTsl~~~l~~~~~ 42 (181)
T PLN00223 17 EMRILMVGLDAAGKTTILYKLKLGEI 42 (181)
T ss_pred ccEEEEECCCCCCHHHHHHHHccCCC
Confidence 47899999999999999998875443
No 162
>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=75.76 E-value=1.4 Score=31.57 Aligned_cols=26 Identities=12% Similarity=0.267 Sum_probs=22.1
Q ss_pred EeeeeecccCccccchhhhhhhhhhc
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
+.+.++|..|+|||++++.|......
T Consensus 1 ~KVvvlG~~gvGKTSLi~r~~~~~f~ 26 (247)
T cd04143 1 YRMVVLGASKVGKTAIVSRFLGGRFE 26 (247)
T ss_pred CEEEEECcCCCCHHHHHHHHHcCCCC
Confidence 36789999999999999999866554
No 163
>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=75.56 E-value=1.1 Score=26.57 Aligned_cols=21 Identities=14% Similarity=0.071 Sum_probs=18.2
Q ss_pred eecccCccccchhhhhhhhhh
Q psy5599 38 VVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 38 vvglsglgkst~~e~~r~~~L 58 (79)
++|..|.|||++.+.+.....
T Consensus 1 iiG~~~~GKStl~~~l~~~~~ 21 (157)
T cd00882 1 VVGDSGVGKTSLLNRLLGGEF 21 (157)
T ss_pred CCCcCCCcHHHHHHHHHhCCc
Confidence 579999999999999987655
No 164
>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=75.53 E-value=1.8 Score=29.31 Aligned_cols=27 Identities=11% Similarity=0.078 Sum_probs=23.0
Q ss_pred EeeeeecccCccccchhhhhhhhhhcC
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+.+.++|..|+|||.++..|.......
T Consensus 2 ~kivv~G~~~vGKTsli~~~~~~~f~~ 28 (176)
T cd04133 2 IKCVTVGDGAVGKTCMLICYTSNKFPT 28 (176)
T ss_pred eEEEEECCCCCcHHHHHHHHhcCCCCC
Confidence 568999999999999999998776643
No 165
>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=75.50 E-value=1.7 Score=27.32 Aligned_cols=22 Identities=5% Similarity=-0.106 Sum_probs=19.0
Q ss_pred eeeeecccCccccchhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~ 56 (79)
++-++|.++.|||++++.|...
T Consensus 2 ~i~i~G~~~~GKssl~~~l~~~ 23 (164)
T cd04171 2 IIGTAGHIDHGKTTLIKALTGI 23 (164)
T ss_pred EEEEEecCCCCHHHHHHHHhCc
Confidence 5678999999999999999753
No 166
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=75.50 E-value=2 Score=25.41 Aligned_cols=22 Identities=0% Similarity=0.043 Sum_probs=18.7
Q ss_pred eeeeecccCccccchhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~ 56 (79)
.+.+.|.+|.||||+++.+..-
T Consensus 25 ~tli~G~nGsGKSTllDAi~~~ 46 (62)
T PF13555_consen 25 VTLITGPNGSGKSTLLDAIQTV 46 (62)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 3889999999999999877643
No 167
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=75.41 E-value=2.2 Score=25.63 Aligned_cols=24 Identities=4% Similarity=-0.075 Sum_probs=19.5
Q ss_pred EeeeeecccCccccchhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~ 57 (79)
-.+++.|.+|.||+++.+.+....
T Consensus 20 ~~v~i~G~~G~GKT~l~~~i~~~~ 43 (151)
T cd00009 20 KNLLLYGPPGTGKTTLARAIANEL 43 (151)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHh
Confidence 358899999999999877776544
No 168
>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=75.29 E-value=1.6 Score=30.09 Aligned_cols=24 Identities=13% Similarity=0.270 Sum_probs=20.7
Q ss_pred eeeeecccCccccchhhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L 58 (79)
++.++|.+|.|||++++.|.....
T Consensus 2 ~vll~G~~~sGKTsL~~~l~~~~~ 25 (203)
T cd04105 2 TVLLLGPSDSGKTALFTKLTTGKY 25 (203)
T ss_pred eEEEEcCCCCCHHHHHHHHhcCCC
Confidence 478999999999999999987654
No 169
>PRK13796 GTPase YqeH; Provisional
Probab=75.24 E-value=1.8 Score=32.92 Aligned_cols=23 Identities=13% Similarity=0.111 Sum_probs=20.4
Q ss_pred EeeeeecccCccccchhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~ 56 (79)
-+++++|.+++||||++|.+...
T Consensus 161 ~~v~vvG~~NvGKSTLiN~L~~~ 183 (365)
T PRK13796 161 RDVYVVGVTNVGKSTLINRIIKE 183 (365)
T ss_pred CeEEEEcCCCCcHHHHHHHHHhh
Confidence 36899999999999999999853
No 170
>cd01854 YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.
Probab=75.21 E-value=1.9 Score=31.62 Aligned_cols=26 Identities=12% Similarity=-0.087 Sum_probs=21.9
Q ss_pred EeeeeecccCccccchhhhhhhhhhc
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
-.+.++|.+|.||||++|.+......
T Consensus 162 k~~~~~G~sg~GKSTlin~l~~~~~~ 187 (287)
T cd01854 162 KTSVLVGQSGVGKSTLINALLPDLDL 187 (287)
T ss_pred ceEEEECCCCCCHHHHHHHHhchhhc
Confidence 45899999999999999998865543
No 171
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=75.18 E-value=2.1 Score=26.21 Aligned_cols=21 Identities=0% Similarity=-0.070 Sum_probs=17.9
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+++.|.+|.||+++.+.+...
T Consensus 1 ill~G~~G~GKT~l~~~la~~ 21 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQY 21 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHH
T ss_pred CEEECcCCCCeeHHHHHHHhh
Confidence 578999999999998887765
No 172
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=74.86 E-value=1.8 Score=29.01 Aligned_cols=26 Identities=12% Similarity=0.247 Sum_probs=22.0
Q ss_pred eEeeeeecccCccccchhhhhhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
.+.+.++|..|+|||++++.|.....
T Consensus 17 ~~kv~lvG~~~vGKTsli~~~~~~~~ 42 (182)
T PTZ00133 17 EVRILMVGLDAAGKTTILYKLKLGEV 42 (182)
T ss_pred ccEEEEEcCCCCCHHHHHHHHhcCCc
Confidence 47899999999999999999965433
No 173
>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=74.80 E-value=1.6 Score=30.49 Aligned_cols=25 Identities=12% Similarity=0.037 Sum_probs=21.5
Q ss_pred eeeeecccCccccchhhhhhhhhhc
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L~ 59 (79)
.+.++|.+|+|||++++.|......
T Consensus 2 KIvlvGd~gVGKTSLi~~~~~~~f~ 26 (202)
T cd04102 2 RVLVVGDSGVGKSSLVHLICKNQVL 26 (202)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCCC
Confidence 5789999999999999999876543
No 174
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=74.76 E-value=2 Score=25.40 Aligned_cols=24 Identities=4% Similarity=-0.039 Sum_probs=19.0
Q ss_pred eeeeecccCccccchhhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L 58 (79)
.++++|..|.|||++...+-....
T Consensus 4 ~~~l~G~~G~GKTtl~~~l~~~~~ 27 (148)
T smart00382 4 VILIVGPPGSGKTTLARALARELG 27 (148)
T ss_pred EEEEECCCCCcHHHHHHHHHhccC
Confidence 578999999999999777654433
No 175
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=74.45 E-value=2.3 Score=26.48 Aligned_cols=26 Identities=4% Similarity=0.045 Sum_probs=21.5
Q ss_pred eeeecccCccccchhhhhhhhhhcCC
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKLAGL 61 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L~~~ 61 (79)
+.+.|.+|.|||++.+.+....+...
T Consensus 1 I~i~G~~G~GKS~l~~~l~~~l~~~~ 26 (107)
T PF00910_consen 1 IWIYGPPGIGKSTLAKELAKDLLKHI 26 (107)
T ss_pred CEEECCCCCCHHHHHHHHHHHHHHHh
Confidence 46889999999999999877776554
No 176
>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=74.40 E-value=2.1 Score=28.57 Aligned_cols=25 Identities=4% Similarity=0.231 Sum_probs=21.2
Q ss_pred EeeeeecccCccccchhhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L 58 (79)
+.+.++|..|+|||++++.|.....
T Consensus 4 ~kv~~vG~~~~GKTsli~~~~~~~~ 28 (183)
T cd04152 4 LHIVMLGLDSAGKTTVLYRLKFNEF 28 (183)
T ss_pred eEEEEECCCCCCHHHHHHHHhcCCc
Confidence 5688999999999999999976543
No 177
>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=73.96 E-value=2.2 Score=30.56 Aligned_cols=28 Identities=7% Similarity=0.014 Sum_probs=23.8
Q ss_pred ceEeeeeecccCccccchhhhhhhhhhc
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
+.+.+.++|..|+|||.++..|......
T Consensus 12 ~~~KIvvvGd~~VGKTsLi~r~~~~~F~ 39 (232)
T cd04174 12 MRCKLVLVGDVQCGKTAMLQVLAKDCYP 39 (232)
T ss_pred eeEEEEEECCCCCcHHHHHHHHhcCCCC
Confidence 5678999999999999999998766543
No 178
>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=73.58 E-value=2 Score=28.82 Aligned_cols=29 Identities=7% Similarity=0.235 Sum_probs=25.0
Q ss_pred CceEeeeeecccCccccchhhhhhhhhhc
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
.-.+++.+.|+.|.|||++.+.+....+.
T Consensus 12 ~~~~~ililGl~~sGKTtll~~l~~~~~~ 40 (175)
T PF00025_consen 12 KKEIKILILGLDGSGKTTLLNRLKNGEIS 40 (175)
T ss_dssp TSEEEEEEEESTTSSHHHHHHHHHSSSEE
T ss_pred CcEEEEEEECCCccchHHHHHHhhhcccc
Confidence 67899999999999999999998865443
No 179
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=73.20 E-value=4.7 Score=27.73 Aligned_cols=31 Identities=10% Similarity=-0.049 Sum_probs=24.3
Q ss_pred HHHhhCceEeeeeecccCccccchhhhhhhh
Q psy5599 26 KAVKKGFEFTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 26 ~~~K~g~~fn~mvvglsglgkst~~e~~r~~ 56 (79)
+.+-.+-..++-++|..|.||||+.+.+...
T Consensus 15 ~~~~~~~~~~i~~~G~~gsGKTTli~~l~~~ 45 (207)
T TIGR00073 15 ERLDKHGLVVLNFMSSPGSGKTTLIEKLIDN 45 (207)
T ss_pred HHhhhcCcEEEEEECCCCCCHHHHHHHHHHH
Confidence 3333444667999999999999999998765
No 180
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=73.18 E-value=2.1 Score=28.25 Aligned_cols=22 Identities=5% Similarity=0.122 Sum_probs=19.3
Q ss_pred eeeeecccCccccchhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~ 56 (79)
++.++|..+.|||++++.+...
T Consensus 3 ~i~~iG~~~~GKstl~~~l~~~ 24 (158)
T PRK15467 3 RIAFVGAVGAGKTTLFNALQGN 24 (158)
T ss_pred EEEEECCCCCCHHHHHHHHcCC
Confidence 5889999999999999987754
No 181
>PRK15494 era GTPase Era; Provisional
Probab=72.86 E-value=2.4 Score=31.83 Aligned_cols=27 Identities=7% Similarity=0.145 Sum_probs=23.9
Q ss_pred eEeeeeecccCccccchhhhhhhhhhc
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
.+++.++|..++|||++.|.|..+.+.
T Consensus 52 ~~kV~ivG~~nvGKSTLin~l~~~k~~ 78 (339)
T PRK15494 52 TVSVCIIGRPNSGKSTLLNRIIGEKLS 78 (339)
T ss_pred eeEEEEEcCCCCCHHHHHHHHhCCcee
Confidence 357899999999999999999987765
No 182
>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=72.84 E-value=2 Score=30.86 Aligned_cols=24 Identities=8% Similarity=0.248 Sum_probs=21.3
Q ss_pred eeeecccCccccchhhhhhhhhhc
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L~ 59 (79)
+.++|..+.|||+++|.+..+.+.
T Consensus 3 V~liG~pnvGKSTLln~L~~~~~~ 26 (270)
T TIGR00436 3 VAILGRPNVGKSTLLNQLHGQKIS 26 (270)
T ss_pred EEEECCCCCCHHHHHHHHhCCcEe
Confidence 678999999999999999987754
No 183
>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].
Probab=72.73 E-value=2 Score=32.67 Aligned_cols=27 Identities=19% Similarity=0.110 Sum_probs=23.2
Q ss_pred ceEeeeeecccCccccchhhhhhhhhh
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
-.=+++++|.++.|||+.++.|+...-
T Consensus 60 Rmp~lLivG~snnGKT~Ii~rF~~~hp 86 (302)
T PF05621_consen 60 RMPNLLIVGDSNNGKTMIIERFRRLHP 86 (302)
T ss_pred CCCceEEecCCCCcHHHHHHHHHHHCC
Confidence 345799999999999999999998663
No 184
>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=72.70 E-value=2.2 Score=27.82 Aligned_cols=25 Identities=8% Similarity=0.056 Sum_probs=20.5
Q ss_pred EeeeeecccCccccchhhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L 58 (79)
|.+.++|..|.||+++...|.....
T Consensus 1 ~k~~i~G~~~~GKtsl~~~~~~~~~ 25 (173)
T cd04130 1 LKCVLVGDGAVGKTSLIVSYTTNGY 25 (173)
T ss_pred CEEEEECCCCCCHHHHHHHHHhCCC
Confidence 4578999999999999988876543
No 185
>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=72.48 E-value=2.3 Score=28.35 Aligned_cols=24 Identities=13% Similarity=0.127 Sum_probs=20.1
Q ss_pred eeeeecccCccccchhhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L 58 (79)
.+.++|.+|.|||++.+.|.....
T Consensus 3 Ki~ivG~~g~GKStLl~~l~~~~~ 26 (187)
T cd04129 3 KLVIVGDGACGKTSLLSVFTLGEF 26 (187)
T ss_pred EEEEECCCCCCHHHHHHHHHhCCC
Confidence 578999999999999998874443
No 186
>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=72.46 E-value=2.1 Score=28.65 Aligned_cols=22 Identities=9% Similarity=-0.022 Sum_probs=19.9
Q ss_pred EeeeeecccCccccchhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~ 55 (79)
+|+-++|..+.|||++.+.|..
T Consensus 1 ~~i~i~G~~~~GKstLi~~l~~ 22 (192)
T cd01889 1 VNVGVLGHVDSGKTSLAKALSE 22 (192)
T ss_pred CeEEEEecCCCCHHHHHHHHHh
Confidence 5788999999999999999975
No 187
>PRK00089 era GTPase Era; Reviewed
Probab=72.37 E-value=1.9 Score=30.94 Aligned_cols=25 Identities=12% Similarity=0.151 Sum_probs=21.8
Q ss_pred eeeecccCccccchhhhhhhhhhcC
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+.++|..|.||||+.|.+....+..
T Consensus 8 V~iiG~pn~GKSTLin~L~g~~~~~ 32 (292)
T PRK00089 8 VAIVGRPNVGKSTLLNALVGQKISI 32 (292)
T ss_pred EEEECCCCCCHHHHHHHHhCCceee
Confidence 7899999999999999998776643
No 188
>KOG0080|consensus
Probab=72.15 E-value=3.1 Score=30.07 Aligned_cols=29 Identities=10% Similarity=0.209 Sum_probs=23.6
Q ss_pred ceEeeeeecccCccccchhhhhhhhhhcC
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
..|-+++.|+||+||+.+.-.|-+..+..
T Consensus 10 ~t~KiLlIGeSGVGKSSLllrFv~~~fd~ 38 (209)
T KOG0080|consen 10 TTFKILLIGESGVGKSSLLLRFVSNTFDD 38 (209)
T ss_pred eeEEEEEEccCCccHHHHHHHHHhcccCc
Confidence 34889999999999999887777665544
No 189
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=72.01 E-value=1.7 Score=29.57 Aligned_cols=44 Identities=9% Similarity=0.070 Sum_probs=30.2
Q ss_pred eeeeeCCChHHHHHHhhCceEeeeeecccCccccchhhhhhhhhhcC
Q psy5599 14 IGFANLPNQVFRKAVKKGFEFTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 14 ~G~~~lpnq~~~~~~K~g~~fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+|..+..++.+-++.+.. ++.++|.+|.|||++..++-.+.+..
T Consensus 22 ~g~~~~~~~v~~dl~~~~---h~li~G~tgsGKS~~l~~ll~~l~~~ 65 (205)
T PF01580_consen 22 VGVDQRGDPVVLDLKKNP---HLLIAGATGSGKSTLLRTLLLSLALT 65 (205)
T ss_dssp EEEETTS-EEEEEGGGS----SEEEE--TTSSHHHHHHHHHHHHHTT
T ss_pred ecccCCCCEEEEEcCCCc---eEEEEcCCCCCccHHHHHHHHHHHHH
Confidence 466665555555555555 88999999999999988888777764
No 190
>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=71.47 E-value=2.6 Score=29.90 Aligned_cols=26 Identities=12% Similarity=0.121 Sum_probs=22.0
Q ss_pred EeeeeecccCccccchhhhhhhhhhc
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
+.+.++|..|+|||+++..|......
T Consensus 2 ~KIvvvGd~~vGKTsLi~~~~~~~f~ 27 (222)
T cd04173 2 CKIVVVGDAECGKTALLQVFAKDAYP 27 (222)
T ss_pred eEEEEECCCCCCHHHHHHHHHcCCCC
Confidence 56899999999999999999865543
No 191
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=71.44 E-value=2.7 Score=25.54 Aligned_cols=21 Identities=5% Similarity=0.052 Sum_probs=17.7
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+.+.|.+|+||||+-+.+...
T Consensus 1 I~i~G~~GsGKtTia~~L~~~ 21 (129)
T PF13238_consen 1 IGISGIPGSGKTTIAKELAER 21 (129)
T ss_dssp EEEEESTTSSHHHHHHHHHHH
T ss_pred CEEECCCCCCHHHHHHHHHHH
Confidence 578999999999998777655
No 192
>PF12846 AAA_10: AAA-like domain
Probab=71.41 E-value=3 Score=28.96 Aligned_cols=28 Identities=4% Similarity=-0.029 Sum_probs=22.8
Q ss_pred eeeeecccCccccchhhhhhhhhhcCCC
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKLAGLG 62 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L~~~~ 62 (79)
+++++|.+|.|||++...+..+.+....
T Consensus 3 h~~i~G~tGsGKT~~~~~l~~~~~~~g~ 30 (304)
T PF12846_consen 3 HTLILGKTGSGKTTLLKNLLEQLIRRGP 30 (304)
T ss_pred eEEEECCCCCcHHHHHHHHHHHHHHcCC
Confidence 6889999999999999887766665543
No 193
>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=71.05 E-value=2.3 Score=30.37 Aligned_cols=21 Identities=10% Similarity=0.053 Sum_probs=18.7
Q ss_pred eeeeecccCccccchhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~ 55 (79)
|+.++|.+|.|||++.|.+..
T Consensus 1 ni~ivG~~gsGKStL~~~Ll~ 21 (268)
T cd04170 1 NIALVGHSGSGKTTLAEALLY 21 (268)
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 578999999999999998864
No 194
>COG1161 Predicted GTPases [General function prediction only]
Probab=70.51 E-value=2.6 Score=31.62 Aligned_cols=29 Identities=17% Similarity=0.166 Sum_probs=25.3
Q ss_pred ceEeeeeecccCccccchhhhhhhhhhcC
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
..++++++|...+|||+++|.+.......
T Consensus 131 ~~~~v~vvG~PNVGKSslIN~L~~k~~~~ 159 (322)
T COG1161 131 RKIRVGVVGYPNVGKSTLINRLLGKKVAK 159 (322)
T ss_pred cceEEEEEcCCCCcHHHHHHHHhccccee
Confidence 45789999999999999999999887643
No 195
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=70.36 E-value=3.6 Score=25.61 Aligned_cols=23 Identities=4% Similarity=-0.051 Sum_probs=19.3
Q ss_pred eeeecccCccccchhhhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L 58 (79)
+++.|.+|.|||++...+.....
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~~ 24 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNIA 24 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHHH
Confidence 67899999999999888866554
No 196
>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=69.56 E-value=1.9 Score=26.11 Aligned_cols=22 Identities=5% Similarity=0.071 Sum_probs=18.2
Q ss_pred eecccCccccchhhhhhhhhhc
Q psy5599 38 VVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 38 vvglsglgkst~~e~~r~~~L~ 59 (79)
++|..|.|||++.+.+......
T Consensus 1 i~G~~gsGKstl~~~l~~~~~~ 22 (163)
T cd00880 1 LFGRTNAGKSSLLNALLGQEVA 22 (163)
T ss_pred CcCCCCCCHHHHHHHHhCcccc
Confidence 4799999999999998865444
No 197
>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=69.49 E-value=1.9 Score=27.58 Aligned_cols=21 Identities=19% Similarity=0.211 Sum_probs=17.9
Q ss_pred eecccCccccchhhhhhhhhh
Q psy5599 38 VVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 38 vvglsglgkst~~e~~r~~~L 58 (79)
++|.+|.|||++++.+.....
T Consensus 1 iiG~~~~GKStll~~l~~~~~ 21 (176)
T cd01881 1 LVGLPNVGKSTLLNALTNAKP 21 (176)
T ss_pred CCCCCCCcHHHHHHHHhcCCc
Confidence 479999999999999987653
No 198
>TIGR02836 spore_IV_A stage IV sporulation protein A. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.
Probab=68.93 E-value=6 Score=32.15 Aligned_cols=36 Identities=8% Similarity=0.114 Sum_probs=33.1
Q ss_pred hHHHHHHhh-CceEeeeeecccCccccchhhhhhhhh
Q psy5599 22 QVFRKAVKK-GFEFTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 22 q~~~~~~K~-g~~fn~mvvglsglgkst~~e~~r~~~ 57 (79)
+.++|..++ |-.+.+-++|-.-.|||||++.|-.+.
T Consensus 5 ~iykDIa~RT~G~IyIGvvGpvrtGKSTfIn~fm~q~ 41 (492)
T TIGR02836 5 DIYKDIAERTQGDIYIGVVGPVRTGKSTFIKKFMELL 41 (492)
T ss_pred hHHHHHHHHhCCcEEEEEEcCCCCChHHHHHHHHhhh
Confidence 578999999 999999999999999999999999873
No 199
>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....
Probab=68.77 E-value=2.8 Score=26.28 Aligned_cols=21 Identities=5% Similarity=0.025 Sum_probs=17.8
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+-++|.+|.||||+...+...
T Consensus 14 ~~i~G~nGsGKStLl~~l~g~ 34 (137)
T PF00005_consen 14 VAIVGPNGSGKSTLLKALAGL 34 (137)
T ss_dssp EEEEESTTSSHHHHHHHHTTS
T ss_pred EEEEccCCCccccceeeeccc
Confidence 568999999999999877654
No 200
>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.
Probab=67.97 E-value=3.9 Score=27.76 Aligned_cols=22 Identities=9% Similarity=0.002 Sum_probs=19.6
Q ss_pred eeeeecccCccccchhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~ 56 (79)
.+.++|.+|.||||+.+.+...
T Consensus 3 vi~i~G~~gsGKTTli~~L~~~ 24 (159)
T cd03116 3 VIGFVGYSGSGKTTLLEKLIPA 24 (159)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 5889999999999999988864
No 201
>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=67.70 E-value=3.4 Score=28.41 Aligned_cols=23 Identities=0% Similarity=-0.075 Sum_probs=19.6
Q ss_pred eeeeecccCccccchhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~ 57 (79)
|+.++|..|.|||++.+.|....
T Consensus 2 nv~iiG~~~~GKTtL~~~l~~~~ 24 (213)
T cd04167 2 NVAIAGHLHHGKTSLLDMLIEQT 24 (213)
T ss_pred cEEEEcCCCCCHHHHHHHHHHhc
Confidence 56789999999999999887643
No 202
>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]
Probab=67.57 E-value=3.8 Score=28.31 Aligned_cols=25 Identities=20% Similarity=0.142 Sum_probs=20.3
Q ss_pred eeeecccCccccchhhhhhhhhhcC
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+.++|-|+.||||++|.+....-.+
T Consensus 5 l~ivG~k~SGKTTLie~lv~~L~~~ 29 (161)
T COG1763 5 LGIVGYKNSGKTTLIEKLVRKLKAR 29 (161)
T ss_pred EEEEecCCCChhhHHHHHHHHHHhC
Confidence 6789999999999999987654433
No 203
>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=67.48 E-value=3.2 Score=28.40 Aligned_cols=26 Identities=12% Similarity=0.185 Sum_probs=22.0
Q ss_pred EeeeeecccCccccchhhhhhhhhhc
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
+++.++|...+|||+++|.+-..+..
T Consensus 1 i~ialvG~PNvGKStLfN~Ltg~~~~ 26 (156)
T PF02421_consen 1 IRIALVGNPNVGKSTLFNALTGAKQK 26 (156)
T ss_dssp -EEEEEESTTSSHHHHHHHHHTTSEE
T ss_pred CEEEEECCCCCCHHHHHHHHHCCCce
Confidence 46789999999999999999987743
No 204
>PRK08233 hypothetical protein; Provisional
Probab=66.84 E-value=3.9 Score=26.71 Aligned_cols=23 Identities=4% Similarity=0.042 Sum_probs=18.8
Q ss_pred EeeeeecccCccccchhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~ 56 (79)
+-+.+.|.+|.||||+-+.+-..
T Consensus 4 ~iI~I~G~~GsGKtTla~~L~~~ 26 (182)
T PRK08233 4 KIITIAAVSGGGKTTLTERLTHK 26 (182)
T ss_pred eEEEEECCCCCCHHHHHHHHHhh
Confidence 45788999999999998777643
No 205
>PRK00093 GTP-binding protein Der; Reviewed
Probab=66.08 E-value=3 Score=31.63 Aligned_cols=24 Identities=8% Similarity=0.227 Sum_probs=20.9
Q ss_pred EeeeeecccCccccchhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~ 57 (79)
+.+.++|.+|+|||+++|.|....
T Consensus 2 ~~I~ivG~~~vGKStL~n~l~~~~ 25 (435)
T PRK00093 2 PVVAIVGRPNVGKSTLFNRLTGKR 25 (435)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCC
Confidence 468899999999999999997655
No 206
>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=65.18 E-value=3.6 Score=26.30 Aligned_cols=22 Identities=5% Similarity=0.221 Sum_probs=18.7
Q ss_pred eeeecccCccccchhhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~ 57 (79)
+.++|..+.|||++++.+....
T Consensus 2 v~lvG~~~~GKTsl~~~l~~~~ 23 (158)
T cd04151 2 ILILGLDNAGKTTILYRLQLGE 23 (158)
T ss_pred EEEECCCCCCHHHHHHHHccCC
Confidence 5789999999999999986544
No 207
>COG0218 Predicted GTPase [General function prediction only]
Probab=65.12 E-value=3.2 Score=29.93 Aligned_cols=30 Identities=13% Similarity=0.061 Sum_probs=24.0
Q ss_pred eEeeeeecccCccccchhhhhhhhh-hcCCC
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRK-LAGLG 62 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~-L~~~~ 62 (79)
...+-.+|.|.+|||+++|+++.++ |.+.+
T Consensus 24 ~~EIaF~GRSNVGKSSlIN~l~~~k~LArtS 54 (200)
T COG0218 24 LPEIAFAGRSNVGKSSLINALTNQKNLARTS 54 (200)
T ss_pred CcEEEEEccCcccHHHHHHHHhCCcceeecC
Confidence 3457889999999999999999865 55533
No 208
>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []. It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.
Probab=64.80 E-value=5 Score=27.40 Aligned_cols=23 Identities=4% Similarity=0.010 Sum_probs=18.0
Q ss_pred eeeeecccCccccchhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~ 57 (79)
++.+-|..|+||||+...+....
T Consensus 1 ~i~iTG~pG~GKTTll~k~i~~l 23 (168)
T PF03266_consen 1 HIFITGPPGVGKTTLLKKVIEEL 23 (168)
T ss_dssp EEEEES-TTSSHHHHHHHHHHHH
T ss_pred CEEEECcCCCCHHHHHHHHHHHh
Confidence 46789999999999988877544
No 209
>PRK05480 uridine/cytidine kinase; Provisional
Probab=64.39 E-value=4.7 Score=27.54 Aligned_cols=24 Identities=0% Similarity=-0.137 Sum_probs=19.6
Q ss_pred eEeeeeecccCccccchhhhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~ 56 (79)
.+.+.+.|.+|.||||+-+.+...
T Consensus 6 ~~iI~I~G~sGsGKTTl~~~l~~~ 29 (209)
T PRK05480 6 PIIIGIAGGSGSGKTTVASTIYEE 29 (209)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHH
Confidence 356889999999999998777653
No 210
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=63.69 E-value=4 Score=25.95 Aligned_cols=20 Identities=0% Similarity=0.066 Sum_probs=17.1
Q ss_pred eeeeecccCccccchhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r 54 (79)
|++++|.+|.||+++-..+-
T Consensus 1 ~i~l~G~~GsGKstla~~la 20 (154)
T cd00464 1 NIVLIGMMGAGKTTVGRLLA 20 (154)
T ss_pred CEEEEcCCCCCHHHHHHHHH
Confidence 58899999999999877664
No 211
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=63.60 E-value=4.2 Score=26.50 Aligned_cols=25 Identities=8% Similarity=-0.039 Sum_probs=19.9
Q ss_pred eeeecccCccccchhhhhhhhhhcC
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+.+.|..|.|||++++.++-..-..
T Consensus 22 ~vi~G~Ng~GKStil~ai~~~L~~~ 46 (202)
T PF13476_consen 22 NVIYGPNGSGKSTILEAIRYALGGQ 46 (202)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHSS
T ss_pred EEEECCCCCCHHHHHHHHHHHHcCC
Confidence 5689999999999998886554443
No 212
>PRK01889 GTPase RsgA; Reviewed
Probab=63.47 E-value=4.7 Score=30.64 Aligned_cols=23 Identities=9% Similarity=0.085 Sum_probs=20.1
Q ss_pred eeeeecccCccccchhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~ 57 (79)
.++++|.+|.||+++++.+....
T Consensus 197 ~~~lvG~sgvGKStLin~L~g~~ 219 (356)
T PRK01889 197 TVALLGSSGVGKSTLVNALLGEE 219 (356)
T ss_pred EEEEECCCCccHHHHHHHHHHhc
Confidence 57999999999999999887543
No 213
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=63.42 E-value=5 Score=33.11 Aligned_cols=26 Identities=8% Similarity=0.151 Sum_probs=20.8
Q ss_pred HHHHHhh--CceEeeeeecccCccccch
Q psy5599 24 FRKAVKK--GFEFTLMVVDLKDVTSNVH 49 (79)
Q Consensus 24 ~~~~~K~--g~~fn~mvvglsglgkst~ 49 (79)
....+|+ ..+-++++.|+||+||+.|
T Consensus 257 ~~~~akr~A~tdstVLi~GESGTGKElf 284 (560)
T COG3829 257 VLELAKRIAKTDSTVLILGESGTGKELF 284 (560)
T ss_pred HHHHHHhhcCCCCcEEEecCCCccHHHH
Confidence 3444554 7899999999999999865
No 214
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=63.32 E-value=4 Score=30.19 Aligned_cols=25 Identities=20% Similarity=0.126 Sum_probs=20.8
Q ss_pred eeeecccCccccchhhhhhhhhhcC
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+.++|.+|.||||+.+++-...-..
T Consensus 4 i~i~G~~gSGKTTLi~~Li~~L~~~ 28 (274)
T PRK14493 4 LSIVGYKATGKTTLVERLVDRLSGR 28 (274)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhC
Confidence 6789999999999999988765443
No 215
>PRK08118 topology modulation protein; Reviewed
Probab=63.32 E-value=5.4 Score=26.89 Aligned_cols=21 Identities=0% Similarity=0.022 Sum_probs=17.1
Q ss_pred eeeeecccCccccchhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~ 55 (79)
+++++|.+|.||||+-..+..
T Consensus 3 rI~I~G~~GsGKSTlak~L~~ 23 (167)
T PRK08118 3 KIILIGSGGSGKSTLARQLGE 23 (167)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 589999999999998655543
No 216
>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=62.96 E-value=5.1 Score=27.51 Aligned_cols=22 Identities=14% Similarity=-0.062 Sum_probs=18.1
Q ss_pred eEeeeeecccCccccchhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r 54 (79)
.+.+.++|..|+|||.++..++
T Consensus 2 ~~Kiv~vG~~~vGKTsLi~~~~ 23 (195)
T cd01873 2 TIKCVVVGDNAVGKTRLICARA 23 (195)
T ss_pred ceEEEEECCCCcCHHHHHHHHH
Confidence 3678999999999999986433
No 217
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=62.74 E-value=4 Score=28.42 Aligned_cols=22 Identities=5% Similarity=0.001 Sum_probs=18.9
Q ss_pred eeeeecccCccccchhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~ 56 (79)
-+-++|.+|.||||+.+.+-..
T Consensus 8 ii~ivG~sgsGKTTLi~~li~~ 29 (173)
T PRK10751 8 LLAIAAWSGTGKTTLLKKLIPA 29 (173)
T ss_pred EEEEECCCCChHHHHHHHHHHH
Confidence 4788999999999998887754
No 218
>PRK14490 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional
Probab=62.41 E-value=5.7 Score=30.08 Aligned_cols=24 Identities=8% Similarity=0.076 Sum_probs=20.0
Q ss_pred EeeeeecccCccccchhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~ 57 (79)
+.+-++|.+|.||||+.+.+....
T Consensus 6 ~~i~i~G~~gsGKTTl~~~l~~~l 29 (369)
T PRK14490 6 FEIAFCGYSGSGKTTLITALVRRL 29 (369)
T ss_pred EEEEEEeCCCCCHHHHHHHHHHHH
Confidence 457889999999999999877653
No 219
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=61.58 E-value=5.7 Score=27.73 Aligned_cols=21 Identities=10% Similarity=0.118 Sum_probs=18.0
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+.+.|.+|.|||++...+...
T Consensus 46 ~~l~G~~G~GKTtl~~~l~~~ 66 (269)
T TIGR03015 46 ILITGEVGAGKTTLIRNLLKR 66 (269)
T ss_pred EEEEcCCCCCHHHHHHHHHHh
Confidence 678999999999998877654
No 220
>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.
Probab=61.40 E-value=6.1 Score=22.75 Aligned_cols=21 Identities=0% Similarity=-0.034 Sum_probs=17.6
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+.+.|.+|.||+++-+.+...
T Consensus 2 i~i~G~~gsGKst~~~~l~~~ 22 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQ 22 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 567899999999998877754
No 221
>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.
Probab=60.89 E-value=4.9 Score=26.44 Aligned_cols=21 Identities=5% Similarity=0.075 Sum_probs=16.8
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
++++|.+|.|||++-..+-..
T Consensus 2 i~i~G~~GsGKSTla~~L~~~ 22 (149)
T cd02027 2 IWLTGLSGSGKSTIARALEEK 22 (149)
T ss_pred EEEEcCCCCCHHHHHHHHHHH
Confidence 678999999999987665543
No 222
>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=60.84 E-value=5.5 Score=27.99 Aligned_cols=23 Identities=13% Similarity=0.196 Sum_probs=18.9
Q ss_pred eeeeecccCccccchhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~ 57 (79)
+++++|.+|.|||+++..+....
T Consensus 5 ~vlL~Gps~SGKTaLf~~L~~~~ 27 (181)
T PF09439_consen 5 TVLLVGPSGSGKTALFSQLVNGK 27 (181)
T ss_dssp EEEEE-STTSSHHHHHHHHHHSS
T ss_pred eEEEEcCCCCCHHHHHHHHhcCC
Confidence 47899999999999988888764
No 223
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=59.88 E-value=5.4 Score=30.21 Aligned_cols=24 Identities=0% Similarity=-0.126 Sum_probs=20.2
Q ss_pred ceEeeeeecccCccccchhhhhhh
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~ 55 (79)
-.-|+.++|..|.||||+.+.+..
T Consensus 159 ~~~nili~G~tgSGKTTll~aL~~ 182 (332)
T PRK13900 159 SKKNIIISGGTSTGKTTFTNAALR 182 (332)
T ss_pred cCCcEEEECCCCCCHHHHHHHHHh
Confidence 356799999999999999987654
No 224
>PLN00023 GTP-binding protein; Provisional
Probab=59.18 E-value=6 Score=30.54 Aligned_cols=26 Identities=12% Similarity=-0.008 Sum_probs=22.5
Q ss_pred eEeeeeecccCccccchhhhhhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
.+.+.++|..|+|||+++..|.....
T Consensus 21 ~iKIVLLGdsGVGKTSLI~rf~~g~F 46 (334)
T PLN00023 21 QVRVLVVGDSGVGKSSLVHLIVKGSS 46 (334)
T ss_pred ceEEEEECCCCCcHHHHHHHHhcCCc
Confidence 47899999999999999999886654
No 225
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=59.15 E-value=6.4 Score=26.40 Aligned_cols=22 Identities=18% Similarity=0.108 Sum_probs=18.5
Q ss_pred eeeecccCccccchhhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~ 57 (79)
+.++|.+|.||||+.+.+-...
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l 23 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKAL 23 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 5689999999999988887654
No 226
>PF05729 NACHT: NACHT domain
Probab=59.05 E-value=8 Score=24.34 Aligned_cols=25 Identities=4% Similarity=-0.044 Sum_probs=18.9
Q ss_pred eeeecccCccccchhhhhhhhhhcC
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+.+.|..|.|||++.-.+...-...
T Consensus 3 l~I~G~~G~GKStll~~~~~~~~~~ 27 (166)
T PF05729_consen 3 LWISGEPGSGKSTLLRKLAQQLAEE 27 (166)
T ss_pred EEEECCCCCChHHHHHHHHHHHHhc
Confidence 5789999999999877666544443
No 227
>PRK06547 hypothetical protein; Provisional
Probab=59.04 E-value=13 Score=25.45 Aligned_cols=27 Identities=11% Similarity=0.059 Sum_probs=21.1
Q ss_pred hCceEeeeeecccCccccchhhhhhhh
Q psy5599 30 KGFEFTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 30 ~g~~fn~mvvglsglgkst~~e~~r~~ 56 (79)
.+-.+.+.+.|.+|.||||+-+.+-..
T Consensus 12 ~~~~~~i~i~G~~GsGKTt~a~~l~~~ 38 (172)
T PRK06547 12 GGGMITVLIDGRSGSGKTTLAGALAAR 38 (172)
T ss_pred cCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 344566888999999999998777553
No 228
>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=58.83 E-value=4.7 Score=30.41 Aligned_cols=22 Identities=9% Similarity=0.305 Sum_probs=19.6
Q ss_pred eeeecccCccccchhhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~ 57 (79)
+.++|..++|||+++|.|....
T Consensus 2 i~ivG~~nvGKStL~n~l~~~~ 23 (429)
T TIGR03594 2 VAIVGRPNVGKSTLFNRLTGKR 23 (429)
T ss_pred EEEECCCCCCHHHHHHHHhCCC
Confidence 6789999999999999998655
No 229
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=58.05 E-value=8.3 Score=26.19 Aligned_cols=27 Identities=4% Similarity=-0.208 Sum_probs=20.6
Q ss_pred CceEeeeeecccCccccchhhhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~ 57 (79)
...-.+++.|.+|+|||++-..+....
T Consensus 36 ~~~~~lll~G~~G~GKT~la~~~~~~~ 62 (226)
T TIGR03420 36 KGDRFLYLWGESGSGKSHLLQAACAAA 62 (226)
T ss_pred CCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence 344568999999999998877665444
No 230
>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=57.87 E-value=6.3 Score=27.91 Aligned_cols=23 Identities=13% Similarity=0.198 Sum_probs=19.7
Q ss_pred eeeeecccCccccchhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~ 57 (79)
++.++|..+.|||++++.+-...
T Consensus 2 ~v~lvG~~~~GKStLl~~Ltg~~ 24 (233)
T cd01896 2 RVALVGFPSVGKSTLLSKLTNTK 24 (233)
T ss_pred EEEEECCCCCCHHHHHHHHHCCC
Confidence 46789999999999999987654
No 231
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=57.80 E-value=6.5 Score=31.91 Aligned_cols=22 Identities=9% Similarity=0.134 Sum_probs=19.4
Q ss_pred eeeeecccCccccchhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~ 56 (79)
-+.|+|.+|.||||++..|...
T Consensus 371 LVil~G~pGSGKST~A~~l~~~ 392 (526)
T TIGR01663 371 MVIAVGFPGAGKSHFCKKFFQP 392 (526)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 3789999999999999988864
No 232
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=57.72 E-value=5.3 Score=29.15 Aligned_cols=19 Identities=5% Similarity=0.029 Sum_probs=16.1
Q ss_pred eeeecccCccccchhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r 54 (79)
+.++|.||.||||+.+-+=
T Consensus 34 vaI~GpSGSGKSTLLniig 52 (226)
T COG1136 34 VAIVGPSGSGKSTLLNLLG 52 (226)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 6789999999999987553
No 233
>PRK06762 hypothetical protein; Provisional
Probab=57.66 E-value=7.1 Score=25.46 Aligned_cols=21 Identities=5% Similarity=0.080 Sum_probs=16.9
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+.++|.+|.||||+-..+...
T Consensus 5 i~i~G~~GsGKST~A~~L~~~ 25 (166)
T PRK06762 5 IIIRGNSGSGKTTIAKQLQER 25 (166)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 577899999999987766543
No 234
>PRK06217 hypothetical protein; Validated
Probab=57.45 E-value=6.6 Score=26.39 Aligned_cols=21 Identities=0% Similarity=-0.067 Sum_probs=17.7
Q ss_pred eeeeecccCccccchhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~ 55 (79)
+|++.|.+|.||||+-..+-.
T Consensus 3 ~I~i~G~~GsGKSTla~~L~~ 23 (183)
T PRK06217 3 RIHITGASGSGTTTLGAALAE 23 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 589999999999999776654
No 235
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=57.22 E-value=7.3 Score=26.37 Aligned_cols=22 Identities=0% Similarity=-0.023 Sum_probs=18.6
Q ss_pred EeeeeecccCccccchhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~ 55 (79)
-++.++|..|.||||+.+.+..
T Consensus 26 ~~i~I~G~tGSGKTTll~aL~~ 47 (186)
T cd01130 26 KNILISGGTGSGKTTLLNALLA 47 (186)
T ss_pred CEEEEECCCCCCHHHHHHHHHh
Confidence 3589999999999999887654
No 236
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=56.74 E-value=8.3 Score=24.74 Aligned_cols=25 Identities=0% Similarity=-0.048 Sum_probs=18.7
Q ss_pred CceEeeeeecccCccccchhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~ 55 (79)
.....+++.|+.|+||+.+=..+..
T Consensus 19 ~~~~pvli~GE~GtGK~~~A~~lh~ 43 (138)
T PF14532_consen 19 KSSSPVLITGEPGTGKSLLARALHR 43 (138)
T ss_dssp CSSS-EEEECCTTSSHHHHHHCCHH
T ss_pred CCCCcEEEEcCCCCCHHHHHHHHHh
Confidence 6778899999999999876544443
No 237
>PRK03003 GTP-binding protein Der; Reviewed
Probab=56.50 E-value=6.5 Score=30.70 Aligned_cols=27 Identities=19% Similarity=0.117 Sum_probs=23.0
Q ss_pred CceEeeeeecccCccccchhhhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~ 57 (79)
+-...+.++|..++|||+++|.|....
T Consensus 36 ~~~~~V~IvG~~nvGKSSL~nrl~~~~ 62 (472)
T PRK03003 36 GPLPVVAVVGRPNVGKSTLVNRILGRR 62 (472)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHhCcC
Confidence 345679999999999999999998654
No 238
>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=56.26 E-value=7.1 Score=29.45 Aligned_cols=25 Identities=4% Similarity=0.118 Sum_probs=22.1
Q ss_pred eEeeeeecccCccccchhhhhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~ 57 (79)
.+++.++|..+.|||++.+.|....
T Consensus 172 ~~~v~ivG~~~~GKSsLin~l~~~~ 196 (429)
T TIGR03594 172 PIKIAIIGRPNVGKSTLVNALLGEE 196 (429)
T ss_pred ceEEEEECCCCCCHHHHHHHHHCCC
Confidence 4789999999999999999998654
No 239
>COG3910 Predicted ATPase [General function prediction only]
Probab=56.21 E-value=6.5 Score=29.05 Aligned_cols=22 Identities=5% Similarity=0.009 Sum_probs=18.6
Q ss_pred eeeecccCccccchhhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~ 57 (79)
|-++|+.|+||+|+.|.+-...
T Consensus 40 T~i~GENGsGKSTLLEaiA~~~ 61 (233)
T COG3910 40 TFITGENGSGKSTLLEAIAAGM 61 (233)
T ss_pred EEEEcCCCccHHHHHHHHHhhc
Confidence 6789999999999999876543
No 240
>PRK05541 adenylylsulfate kinase; Provisional
Probab=56.04 E-value=8.1 Score=25.58 Aligned_cols=21 Identities=5% Similarity=0.017 Sum_probs=17.3
Q ss_pred eeeeecccCccccchhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~ 55 (79)
.+.++|.+|.||||+-..+..
T Consensus 9 ~I~i~G~~GsGKst~a~~l~~ 29 (176)
T PRK05541 9 VIWITGLAGSGKTTIAKALYE 29 (176)
T ss_pred EEEEEcCCCCCHHHHHHHHHH
Confidence 578899999999998766553
No 241
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=55.93 E-value=7.8 Score=26.37 Aligned_cols=24 Identities=0% Similarity=0.098 Sum_probs=18.0
Q ss_pred CceEeeeeecccCccccchhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r 54 (79)
.....+++.|++|+||+.+=....
T Consensus 20 ~~~~pVlI~GE~GtGK~~lA~~IH 43 (168)
T PF00158_consen 20 SSDLPVLITGETGTGKELLARAIH 43 (168)
T ss_dssp TSTS-EEEECSTTSSHHHHHHHHH
T ss_pred CCCCCEEEEcCCCCcHHHHHHHHH
Confidence 567889999999999977644443
No 242
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=55.54 E-value=8.6 Score=25.47 Aligned_cols=25 Identities=4% Similarity=0.042 Sum_probs=20.5
Q ss_pred eEeeeeecccCccccchhhhhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~ 57 (79)
.-.+.+.|..|+|||++...+....
T Consensus 20 ~~~~~l~G~rg~GKTsLl~~~~~~~ 44 (234)
T PF01637_consen 20 SQHILLYGPRGSGKTSLLKEFINEL 44 (234)
T ss_dssp SSEEEEEESTTSSHHHHHHHHHHHC
T ss_pred CcEEEEEcCCcCCHHHHHHHHHHHh
Confidence 3457889999999999988877655
No 243
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=55.44 E-value=16 Score=27.63 Aligned_cols=29 Identities=10% Similarity=0.006 Sum_probs=21.8
Q ss_pred HhhCceEeeeeecccCccccchhhhhhhhh
Q psy5599 28 VKKGFEFTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 28 ~K~g~~fn~mvvglsglgkst~~e~~r~~~ 57 (79)
...|. +-+.+.|..|.||||+.+.+....
T Consensus 100 ~~~~~-~~v~l~G~pGsGKTTLl~~l~~~l 128 (290)
T PRK10463 100 AARKQ-LVLNLVSSPGSGKTTLLTETLMRL 128 (290)
T ss_pred HhcCC-eEEEEECCCCCCHHHHHHHHHHHh
Confidence 33444 347889999999999998777653
No 244
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=55.43 E-value=6.6 Score=27.14 Aligned_cols=22 Identities=0% Similarity=0.105 Sum_probs=17.8
Q ss_pred eeeeecccCccccchhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~ 56 (79)
++++.|.+|.||+|+-..+-..
T Consensus 2 riiilG~pGaGK~T~A~~La~~ 23 (178)
T COG0563 2 RILILGPPGAGKSTLAKKLAKK 23 (178)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 5889999999999996655544
No 245
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=55.21 E-value=7.8 Score=25.58 Aligned_cols=21 Identities=19% Similarity=0.251 Sum_probs=17.4
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+.+.|.+|.||||+.+.+...
T Consensus 4 ~~i~G~sGsGKttl~~~l~~~ 24 (179)
T TIGR02322 4 IYVVGPSGAGKDTLLDYARAR 24 (179)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 578999999999998876543
No 246
>PRK00093 GTP-binding protein Der; Reviewed
Probab=55.08 E-value=7.4 Score=29.53 Aligned_cols=25 Identities=4% Similarity=0.110 Sum_probs=22.1
Q ss_pred eEeeeeecccCccccchhhhhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~ 57 (79)
.+++.++|..+.|||++.|.+....
T Consensus 173 ~~~v~ivG~~n~GKStlin~ll~~~ 197 (435)
T PRK00093 173 PIKIAIIGRPNVGKSSLINALLGEE 197 (435)
T ss_pred ceEEEEECCCCCCHHHHHHHHhCCC
Confidence 5899999999999999999987543
No 247
>PHA00729 NTP-binding motif containing protein
Probab=55.04 E-value=9.2 Score=27.87 Aligned_cols=29 Identities=7% Similarity=0.056 Sum_probs=22.5
Q ss_pred HHhhCceEeeeeecccCccccchhhhhhhh
Q psy5599 27 AVKKGFEFTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 27 ~~K~g~~fn~mvvglsglgkst~~e~~r~~ 56 (79)
+...+| .|+.+.|-+|+|||++-..+...
T Consensus 12 l~~~~f-~nIlItG~pGvGKT~LA~aLa~~ 40 (226)
T PHA00729 12 YNNNGF-VSAVIFGKQGSGKTTYALKVARD 40 (226)
T ss_pred HhcCCe-EEEEEECCCCCCHHHHHHHHHHH
Confidence 333467 58999999999999997776554
No 248
>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=54.85 E-value=5.8 Score=27.68 Aligned_cols=21 Identities=10% Similarity=0.159 Sum_probs=16.4
Q ss_pred eeeeecccCccccchhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~ 55 (79)
-++++|.+|+||||-.=.+-.
T Consensus 3 vi~lvGptGvGKTTt~aKLAa 23 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAA 23 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHH
T ss_pred EEEEECCCCCchHhHHHHHHH
Confidence 478999999999987655443
No 249
>PF05272 VirE: Virulence-associated protein E; InterPro: IPR007936 This family contains several bacterial virulence-associated protein E like proteins.
Probab=54.77 E-value=7.4 Score=27.36 Aligned_cols=25 Identities=8% Similarity=0.206 Sum_probs=20.3
Q ss_pred ceEeeeeecccCccccchhhhhhhh
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~ 56 (79)
+++-+-++|..|+|||+|++.+...
T Consensus 51 ~d~~lvl~G~QG~GKStf~~~L~~~ 75 (198)
T PF05272_consen 51 NDTVLVLVGKQGIGKSTFFRKLGPE 75 (198)
T ss_pred CceeeeEecCCcccHHHHHHHHhHH
Confidence 4566778999999999999988433
No 250
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=54.66 E-value=8 Score=26.30 Aligned_cols=21 Identities=0% Similarity=-0.010 Sum_probs=17.7
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+.+.|.+|.||||+-+.+...
T Consensus 2 i~i~G~sgsGKttla~~l~~~ 22 (179)
T cd02028 2 VGIAGPSGSGKTTFAKKLSNQ 22 (179)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 568999999999998877654
No 251
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=54.56 E-value=8.8 Score=27.22 Aligned_cols=23 Identities=0% Similarity=-0.064 Sum_probs=20.0
Q ss_pred eEeeeeecccCccccchhhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~ 55 (79)
--++.++|..|.||||+...+..
T Consensus 127 ~~~ili~G~tGSGKTT~l~all~ 149 (270)
T PF00437_consen 127 RGNILISGPTGSGKTTLLNALLE 149 (270)
T ss_dssp TEEEEEEESTTSSHHHHHHHHHH
T ss_pred ceEEEEECCCccccchHHHHHhh
Confidence 46789999999999999988864
No 252
>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.
Probab=54.24 E-value=8.2 Score=26.03 Aligned_cols=21 Identities=5% Similarity=-0.088 Sum_probs=17.3
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+-+.|.+|.||||+-+.+...
T Consensus 2 igi~G~~GsGKSTl~~~l~~~ 22 (198)
T cd02023 2 IGIAGGSGSGKTTVAEEIIEQ 22 (198)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 468899999999998877553
No 253
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=54.22 E-value=8 Score=28.42 Aligned_cols=25 Identities=4% Similarity=0.093 Sum_probs=20.3
Q ss_pred CceEeeeeecccCccccchhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~ 55 (79)
.-.|++-++|-+|.|||+++=++..
T Consensus 11 ~~~fr~viIG~sGSGKT~li~~lL~ 35 (241)
T PF04665_consen 11 KDPFRMVIIGKSGSGKTTLIKSLLY 35 (241)
T ss_pred CCCceEEEECCCCCCHHHHHHHHHH
Confidence 4568999999999999997665553
No 254
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=53.65 E-value=7.7 Score=25.51 Aligned_cols=20 Identities=5% Similarity=0.044 Sum_probs=17.2
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||+|+.+.+..
T Consensus 4 i~l~G~~GsGKsTl~~~L~~ 23 (180)
T TIGR03263 4 IVISGPSGVGKSTLVKALLE 23 (180)
T ss_pred EEEECCCCCCHHHHHHHHHc
Confidence 67899999999998777765
No 255
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=53.61 E-value=8.4 Score=25.96 Aligned_cols=21 Identities=5% Similarity=0.053 Sum_probs=17.8
Q ss_pred eeeeecccCccccchhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~ 55 (79)
.+.++|.+|.||||+...+..
T Consensus 4 ~i~l~G~sGsGKsTl~~~l~~ 24 (186)
T PRK10078 4 LIWLMGPSGSGKDSLLAALRQ 24 (186)
T ss_pred EEEEECCCCCCHHHHHHHHhc
Confidence 467899999999999888854
No 256
>PF13173 AAA_14: AAA domain
Probab=53.60 E-value=9.7 Score=24.08 Aligned_cols=23 Identities=9% Similarity=0.159 Sum_probs=19.7
Q ss_pred eeeecccCccccchhhhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L 58 (79)
+.+.|.+++||||+...+....+
T Consensus 5 ~~l~G~R~vGKTtll~~~~~~~~ 27 (128)
T PF13173_consen 5 IILTGPRGVGKTTLLKQLAKDLL 27 (128)
T ss_pred EEEECCCCCCHHHHHHHHHHHhc
Confidence 67899999999999888876655
No 257
>PF13479 AAA_24: AAA domain
Probab=53.51 E-value=8.5 Score=26.78 Aligned_cols=20 Identities=0% Similarity=0.057 Sum_probs=17.5
Q ss_pred EeeeeecccCccccchhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENF 53 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~ 53 (79)
+++++.|.+|+|||++--++
T Consensus 4 ~~~lIyG~~G~GKTt~a~~~ 23 (213)
T PF13479_consen 4 IKILIYGPPGSGKTTLAASL 23 (213)
T ss_pred eEEEEECCCCCCHHHHHHhC
Confidence 57899999999999987666
No 258
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=53.48 E-value=9.4 Score=28.37 Aligned_cols=23 Identities=9% Similarity=0.020 Sum_probs=19.7
Q ss_pred EeeeeecccCccccchhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~ 56 (79)
-++.++|..|.||||+.+.+...
T Consensus 133 ~~ilI~G~tGSGKTTll~al~~~ 155 (299)
T TIGR02782 133 KNILVVGGTGSGKTTLANALLAE 155 (299)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH
Confidence 57899999999999998887643
No 259
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=53.18 E-value=8.7 Score=26.63 Aligned_cols=25 Identities=4% Similarity=0.057 Sum_probs=21.6
Q ss_pred eeeeecccCccccchhhhhhhhhhc
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L~ 59 (79)
++|.+|..|-||+++++.++...+.
T Consensus 3 ri~~vG~~gcGKTtL~q~L~G~~~l 27 (148)
T COG4917 3 RIAFVGQVGCGKTTLFQSLYGNDTL 27 (148)
T ss_pred eeEEecccccCchhHHHHhhcchhh
Confidence 5899999999999999999876643
No 260
>PRK00300 gmk guanylate kinase; Provisional
Probab=52.96 E-value=8.9 Score=25.81 Aligned_cols=21 Identities=5% Similarity=0.044 Sum_probs=17.4
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+-++|.+|.||+++...+...
T Consensus 8 i~i~G~sGsGKstl~~~l~~~ 28 (205)
T PRK00300 8 IVLSGPSGAGKSTLVKALLER 28 (205)
T ss_pred EEEECCCCCCHHHHHHHHHhh
Confidence 578999999999997776653
No 261
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=52.92 E-value=8 Score=29.58 Aligned_cols=25 Identities=4% Similarity=-0.018 Sum_probs=21.1
Q ss_pred CceEeeeeecccCccccchhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~ 55 (79)
.-..|+.++|..|.||||+.+.+..
T Consensus 160 ~~~~nilI~G~tGSGKTTll~aLl~ 184 (344)
T PRK13851 160 VGRLTMLLCGPTGSGKTTMSKTLIS 184 (344)
T ss_pred HcCCeEEEECCCCccHHHHHHHHHc
Confidence 3457799999999999999888764
No 262
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=52.77 E-value=9.5 Score=28.77 Aligned_cols=25 Identities=4% Similarity=-0.041 Sum_probs=21.2
Q ss_pred ceEeeeeecccCccccchhhhhhhh
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~ 56 (79)
-.-+++++|..|.||||+.+.+...
T Consensus 147 ~~~~ilI~G~tGSGKTTll~aL~~~ 171 (319)
T PRK13894 147 AHRNILVIGGTGSGKTTLVNAIINE 171 (319)
T ss_pred cCCeEEEECCCCCCHHHHHHHHHHh
Confidence 4467999999999999998887754
No 263
>cd03273 ABC_SMC2_euk Eukaryotic SMC2 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 (fo
Probab=52.52 E-value=8.6 Score=27.15 Aligned_cols=20 Identities=5% Similarity=-0.009 Sum_probs=17.2
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.|||++.+.+.-
T Consensus 28 ~~IvG~NGsGKStll~Ai~~ 47 (251)
T cd03273 28 NAITGLNGSGKSNILDAICF 47 (251)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 56999999999999887763
No 264
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=52.46 E-value=8.5 Score=25.22 Aligned_cols=19 Identities=11% Similarity=0.153 Sum_probs=16.5
Q ss_pred eeeecccCccccchhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r 54 (79)
+.+.|.+|.||||+.+.+.
T Consensus 6 i~i~G~~GsGKsTl~~~l~ 24 (188)
T TIGR01360 6 IFIVGGPGSGKGTQCEKIV 24 (188)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 6789999999999987775
No 265
>PRK13695 putative NTPase; Provisional
Probab=52.35 E-value=11 Score=25.05 Aligned_cols=21 Identities=5% Similarity=-0.075 Sum_probs=17.4
Q ss_pred eeeeecccCccccchhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~ 55 (79)
++.+.|..|.||||+...+..
T Consensus 2 ~i~ltG~~G~GKTTll~~i~~ 22 (174)
T PRK13695 2 KIGITGPPGVGKTTLVLKIAE 22 (174)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 467899999999999887543
No 266
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=52.25 E-value=9.6 Score=28.98 Aligned_cols=25 Identities=0% Similarity=-0.040 Sum_probs=20.9
Q ss_pred eEeeeeecccCccccchhhhhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~ 57 (79)
-.|+.++|..|.||||+.+.+...-
T Consensus 144 ~~nilI~G~tGSGKTTll~aL~~~i 168 (323)
T PRK13833 144 RLNIVISGGTGSGKTTLANAVIAEI 168 (323)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHH
Confidence 3478999999999999998877543
No 267
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=51.93 E-value=10 Score=25.00 Aligned_cols=20 Identities=5% Similarity=-0.002 Sum_probs=16.3
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+++.|..|.||+|+-..+..
T Consensus 2 i~i~G~pGsGKst~a~~la~ 21 (183)
T TIGR01359 2 VFVLGGPGSGKGTQCAKIVE 21 (183)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 67899999999999666543
No 268
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=51.77 E-value=10 Score=25.42 Aligned_cols=21 Identities=5% Similarity=0.026 Sum_probs=18.1
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+-++|.+|.||+++.+.+.++
T Consensus 5 ivl~Gpsg~GK~~l~~~L~~~ 25 (183)
T PF00625_consen 5 IVLVGPSGSGKSTLAKRLIQE 25 (183)
T ss_dssp EEEESSTTSSHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHh
Confidence 457999999999999988765
No 269
>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily. SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily.
Probab=51.44 E-value=8.4 Score=23.07 Aligned_cols=23 Identities=9% Similarity=-0.080 Sum_probs=18.2
Q ss_pred eeeeecccCccccchhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~ 57 (79)
.+.++|.+|+||+.+...|....
T Consensus 2 kvv~~G~~gvGKt~l~~~~~~~~ 24 (124)
T smart00010 2 KVVGIGDSGVGKVGKSARFVQFP 24 (124)
T ss_pred EEEEECCCChhHHHHHHHHhcCC
Confidence 46789999999998887775433
No 270
>PTZ00301 uridine kinase; Provisional
Probab=51.11 E-value=13 Score=26.24 Aligned_cols=24 Identities=4% Similarity=-0.087 Sum_probs=19.6
Q ss_pred EeeeeecccCccccchhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~ 57 (79)
|-+.+.|-||.||||+-+.+..+.
T Consensus 4 ~iIgIaG~SgSGKTTla~~l~~~l 27 (210)
T PTZ00301 4 TVIGISGASGSGKSSLSTNIVSEL 27 (210)
T ss_pred EEEEEECCCcCCHHHHHHHHHHHH
Confidence 568899999999999987775543
No 271
>PF02463 SMC_N: RecF/RecN/SMC N terminal domain; InterPro: IPR003395 This domain is found at the N terminus of structural maintenance of chromosomes (SMC) proteins, which function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression []. The domain is also found in RecF and RecN proteins, which are involved in DNA metabolism and recombination.; PDB: 3HTK_A 1W1W_C 2WD5_A 3L51_A 1XEW_Y 3KTA_B 3NWC_B 1XEX_A 1GXL_C 1GXK_A ....
Probab=51.03 E-value=9 Score=26.13 Aligned_cols=19 Identities=11% Similarity=0.055 Sum_probs=17.3
Q ss_pred eeeecccCccccchhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r 54 (79)
+.++|..|.|||+++|.+.
T Consensus 27 ~~i~G~NGsGKS~ileAi~ 45 (220)
T PF02463_consen 27 NVIVGPNGSGKSNILEAIE 45 (220)
T ss_dssp EEEEESTTSSHHHHHHHHH
T ss_pred EEEEcCCCCCHHHHHHHHH
Confidence 6789999999999999883
No 272
>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural
Probab=50.93 E-value=9.3 Score=24.74 Aligned_cols=19 Identities=0% Similarity=-0.027 Sum_probs=16.4
Q ss_pred eeeecccCccccchhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r 54 (79)
+.+.|.||.||||+...+-
T Consensus 18 v~I~GpSGsGKSTLl~~l~ 36 (107)
T cd00820 18 VLITGDSGIGKTELALELI 36 (107)
T ss_pred EEEEcCCCCCHHHHHHHhh
Confidence 6889999999999977754
No 273
>PRK14737 gmk guanylate kinase; Provisional
Probab=50.89 E-value=9.4 Score=26.29 Aligned_cols=21 Identities=0% Similarity=0.017 Sum_probs=18.7
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+-++|.+|.||+++.+.++..
T Consensus 7 ivl~GpsG~GK~tl~~~l~~~ 27 (186)
T PRK14737 7 FIISSVAGGGKSTIIQALLEE 27 (186)
T ss_pred EEEECCCCCCHHHHHHHHHhc
Confidence 678999999999999988764
No 274
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=50.42 E-value=9.1 Score=26.31 Aligned_cols=21 Identities=5% Similarity=-0.021 Sum_probs=17.0
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
++++|.+|.||||+...+...
T Consensus 4 ilI~GptGSGKTTll~~ll~~ 24 (198)
T cd01131 4 VLVTGPTGSGKSTTLAAMIDY 24 (198)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 678999999999998765433
No 275
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=50.25 E-value=7.3 Score=29.06 Aligned_cols=39 Identities=10% Similarity=0.171 Sum_probs=24.4
Q ss_pred ceeeeeCCChHHHHHHhh-CceEeeeeecccCccccchhh
Q psy5599 13 YIGFANLPNQVFRKAVKK-GFEFTLMVVDLKDVTSNVHYE 51 (79)
Q Consensus 13 ~~G~~~lpnq~~~~~~K~-g~~fn~mvvglsglgkst~~e 51 (79)
.+|-...-.+......+. .....+++.|++|+||+++=.
T Consensus 8 liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~ 47 (326)
T PRK11608 8 LLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIAS 47 (326)
T ss_pred cEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHH
Confidence 345443333333333333 678889999999999976643
No 276
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=50.24 E-value=11 Score=25.09 Aligned_cols=21 Identities=0% Similarity=-0.037 Sum_probs=18.2
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+.+.|.+|.||||+-..+...
T Consensus 5 i~l~G~~gsGKst~a~~l~~~ 25 (175)
T cd00227 5 IILNGGSSAGKSSIARALQSV 25 (175)
T ss_pred EEEECCCCCCHHHHHHHHHHh
Confidence 789999999999998877654
No 277
>PRK14738 gmk guanylate kinase; Provisional
Probab=49.84 E-value=9.9 Score=26.29 Aligned_cols=21 Identities=14% Similarity=0.232 Sum_probs=17.9
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+-++|-+|.||+|+.+.+...
T Consensus 16 ivi~GpsG~GK~tl~~~L~~~ 36 (206)
T PRK14738 16 VVISGPSGVGKDAVLARMRER 36 (206)
T ss_pred EEEECcCCCCHHHHHHHHHhc
Confidence 667999999999999988643
No 278
>PRK04040 adenylate kinase; Provisional
Probab=49.67 E-value=13 Score=25.59 Aligned_cols=23 Identities=9% Similarity=0.041 Sum_probs=19.2
Q ss_pred EeeeeecccCccccchhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~ 56 (79)
..+.+.|.+|.||||+.+.+...
T Consensus 3 ~~i~v~G~pG~GKtt~~~~l~~~ 25 (188)
T PRK04040 3 KVVVVTGVPGVGKTTVLNKALEK 25 (188)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHH
Confidence 35789999999999998877654
No 279
>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=49.43 E-value=9.9 Score=29.84 Aligned_cols=26 Identities=15% Similarity=0.146 Sum_probs=22.1
Q ss_pred ceEeeeeecccCccccchhhhhhhhh
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~ 57 (79)
--+.+.++|.++.|||+++|.|....
T Consensus 202 ~g~kVvIvG~~nvGKSSLiN~L~~~~ 227 (442)
T TIGR00450 202 DGFKLAIVGSPNVGKSSLLNALLKQD 227 (442)
T ss_pred cCCEEEEECCCCCcHHHHHHHHhCCC
Confidence 34678999999999999999998653
No 280
>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group. A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.
Probab=49.33 E-value=11 Score=25.42 Aligned_cols=20 Identities=0% Similarity=-0.054 Sum_probs=17.5
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||||+...+..
T Consensus 27 ~~i~G~nGsGKSTLl~~l~G 46 (206)
T TIGR03608 27 YAIIGESGSGKSTLLNIIGL 46 (206)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 57999999999999888764
No 281
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=49.33 E-value=9.3 Score=30.18 Aligned_cols=43 Identities=19% Similarity=0.112 Sum_probs=28.4
Q ss_pred cCCceeeeeCCChHHHHHHhh-CceEeeeeecccCccccchhhh
Q psy5599 10 VDGYIGFANLPNQVFRKAVKK-GFEFTLMVVDLKDVTSNVHYEN 52 (79)
Q Consensus 10 ~~~~~G~~~lpnq~~~~~~K~-g~~fn~mvvglsglgkst~~e~ 52 (79)
....+|-...-.+......+. .....+++.|++|+||+++=..
T Consensus 195 ~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ 238 (534)
T TIGR01817 195 EDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKA 238 (534)
T ss_pred cCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHH
Confidence 345567655444444444444 6788899999999999766443
No 282
>KOG0073|consensus
Probab=49.18 E-value=18 Score=26.00 Aligned_cols=28 Identities=11% Similarity=0.191 Sum_probs=24.4
Q ss_pred hCceEeeeeecccCccccchhhhhhhhh
Q psy5599 30 KGFEFTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 30 ~g~~fn~mvvglsglgkst~~e~~r~~~ 57 (79)
+...+++.+.|+.+.||+|..+.|-...
T Consensus 13 kerE~riLiLGLdNsGKTti~~kl~~~~ 40 (185)
T KOG0073|consen 13 KEREVRILILGLDNSGKTTIVKKLLGED 40 (185)
T ss_pred hhheeEEEEEecCCCCchhHHHHhcCCC
Confidence 4669999999999999999988887655
No 283
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=49.12 E-value=18 Score=26.09 Aligned_cols=33 Identities=15% Similarity=0.142 Sum_probs=23.4
Q ss_pred HHHHHhhCceEeeee-ecccCccccchhhhhhhh
Q psy5599 24 FRKAVKKGFEFTLMV-VDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 24 ~~~~~K~g~~fn~mv-vglsglgkst~~e~~r~~ 56 (79)
...+++.|-.-+..+ .|.+|+||+++...+..+
T Consensus 33 l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~ 66 (316)
T PHA02544 33 FKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNE 66 (316)
T ss_pred HHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHH
Confidence 344555665555555 899999999988777654
No 284
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=49.05 E-value=23 Score=25.66 Aligned_cols=45 Identities=4% Similarity=-0.144 Sum_probs=29.9
Q ss_pred CceeeeeCCChHHHHHHhhCceEeeeeecccCccccchhhhhhhhh
Q psy5599 12 GYIGFANLPNQVFRKAVKKGFEFTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 12 ~~~G~~~lpnq~~~~~~K~g~~fn~mvvglsglgkst~~e~~r~~~ 57 (79)
..|....+..+......+. --+.+-+-|+||.||||.=+.+....
T Consensus 3 i~w~~~~v~~~~r~~~~~~-~~~viW~TGLSGsGKSTiA~ale~~L 47 (197)
T COG0529 3 IVWHPHSVTKQEREALKGQ-KGAVIWFTGLSGSGKSTIANALEEKL 47 (197)
T ss_pred ccccccccCHHHHHHHhCC-CCeEEEeecCCCCCHHHHHHHHHHHH
Confidence 4576666666655544444 23557899999999999866655433
No 285
>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional
Probab=48.85 E-value=13 Score=28.97 Aligned_cols=30 Identities=10% Similarity=0.062 Sum_probs=24.8
Q ss_pred HHHhhCceEeeeeecccCccccchhhhhhh
Q psy5599 26 KAVKKGFEFTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 26 ~~~K~g~~fn~mvvglsglgkst~~e~~r~ 55 (79)
..++..+..++-++|-.|.||||+.+.+-.
T Consensus 212 ~~vr~~~~~~IvI~G~~gsGKTTL~~~La~ 241 (399)
T PRK08099 212 TEVRPFFVRTVAILGGESSGKSTLVNKLAN 241 (399)
T ss_pred HHHhhCCCcEEEEEcCCCCCHHHHHHHHHH
Confidence 345567888899999999999999887764
No 286
>PRK00131 aroK shikimate kinase; Reviewed
Probab=48.83 E-value=9.7 Score=24.44 Aligned_cols=21 Identities=0% Similarity=0.009 Sum_probs=16.6
Q ss_pred eeeeecccCccccchhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~ 55 (79)
.+.++|.+|.||+++=..+-.
T Consensus 6 ~i~l~G~~GsGKstla~~La~ 26 (175)
T PRK00131 6 NIVLIGFMGAGKSTIGRLLAK 26 (175)
T ss_pred eEEEEcCCCCCHHHHHHHHHH
Confidence 588999999999988555443
No 287
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=48.81 E-value=11 Score=24.48 Aligned_cols=21 Identities=5% Similarity=0.055 Sum_probs=17.4
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+-++|.+|.||+++.+.+...
T Consensus 2 i~i~GpsGsGKstl~~~L~~~ 22 (137)
T cd00071 2 IVLSGPSGVGKSTLLKRLLEE 22 (137)
T ss_pred EEEECCCCCCHHHHHHHHHhc
Confidence 457899999999998887754
No 288
>KOG0394|consensus
Probab=48.32 E-value=14 Score=27.07 Aligned_cols=33 Identities=9% Similarity=0.102 Sum_probs=26.7
Q ss_pred hCceEeeeeecccCccccchhhhhhhhhhcCCC
Q psy5599 30 KGFEFTLMVVDLKDVTSNVHYENFRCRKLAGLG 62 (79)
Q Consensus 30 ~g~~fn~mvvglsglgkst~~e~~r~~~L~~~~ 62 (79)
+..++.+-+.|.+|+||+.+.+.|-..+....-
T Consensus 6 K~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qy 38 (210)
T KOG0394|consen 6 KRTLLKVIILGDSGVGKTSLMNQYVNKKFSQQY 38 (210)
T ss_pred cccceEEEEeCCCCccHHHHHHHHHHHHHHHHh
Confidence 356778899999999999998888877766543
No 289
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=48.24 E-value=17 Score=24.99 Aligned_cols=23 Identities=0% Similarity=-0.117 Sum_probs=18.4
Q ss_pred eeeeecccCccccchhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~ 57 (79)
.+.+.|++|+|||.+-..+..+.
T Consensus 44 ~~~l~G~~G~GKT~La~ai~~~~ 66 (227)
T PRK08903 44 FFYLWGEAGSGRSHLLQALVADA 66 (227)
T ss_pred eEEEECCCCCCHHHHHHHHHHHH
Confidence 58899999999998876665543
No 290
>PF04317 DUF463: YcjX-like family, DUF463; InterPro: IPR007413 Some members of this family are thought to possess an ATP-binding domain towards their N terminus.
Probab=48.12 E-value=13 Score=29.86 Aligned_cols=27 Identities=19% Similarity=0.229 Sum_probs=23.9
Q ss_pred EeeeeecccCccccchhhhhhhhhhcC
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+++-|-|+|+-|||.|+.++-.+.+..
T Consensus 1 lRLaVTGLSrsGKTaFITsLV~qLl~~ 27 (443)
T PF04317_consen 1 LRLAVTGLSRSGKTAFITSLVNQLLHG 27 (443)
T ss_pred CeeeeeccCcCCceehHHHHHHHHhcc
Confidence 367789999999999999999988876
No 291
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=48.04 E-value=12 Score=27.68 Aligned_cols=23 Identities=0% Similarity=0.014 Sum_probs=19.6
Q ss_pred EeeeeecccCccccchhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~ 56 (79)
-++.+.|.+|+|||++...+...
T Consensus 56 ~~~lI~G~~GtGKT~l~~~v~~~ 78 (394)
T PRK00411 56 LNVLIYGPPGTGKTTTVKKVFEE 78 (394)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH
Confidence 46899999999999998887754
No 292
>PRK03003 GTP-binding protein Der; Reviewed
Probab=48.01 E-value=11 Score=29.50 Aligned_cols=26 Identities=8% Similarity=0.040 Sum_probs=22.9
Q ss_pred eEeeeeecccCccccchhhhhhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
.+.+.++|.++.|||++++.|.....
T Consensus 211 ~~kI~iiG~~nvGKSSLin~l~~~~~ 236 (472)
T PRK03003 211 PRRVALVGKPNVGKSSLLNKLAGEER 236 (472)
T ss_pred ceEEEEECCCCCCHHHHHHHHhCCCc
Confidence 47899999999999999999987653
No 293
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=47.96 E-value=11 Score=25.82 Aligned_cols=21 Identities=10% Similarity=0.189 Sum_probs=16.5
Q ss_pred EeeeeecccCccccchhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r 54 (79)
+.+.+.|++|.||+|+=..+.
T Consensus 3 ~vIwltGlsGsGKtTlA~~L~ 23 (156)
T PF01583_consen 3 FVIWLTGLSGSGKTTLARALE 23 (156)
T ss_dssp EEEEEESSTTSSHHHHHHHHH
T ss_pred EEEEEECCCCCCHHHHHHHHH
Confidence 457899999999998754444
No 294
>TIGR00101 ureG urease accessory protein UreG. This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.
Probab=47.82 E-value=15 Score=25.56 Aligned_cols=23 Identities=9% Similarity=-0.006 Sum_probs=19.2
Q ss_pred EeeeeecccCccccchhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~ 56 (79)
+.+-+.|..|.||||+.+.+...
T Consensus 2 ~~i~i~G~~GsGKTTll~~l~~~ 24 (199)
T TIGR00101 2 LKIGVAGPVGSGKTALIEALTRA 24 (199)
T ss_pred eEEEEECCCCCCHHHHHHHHHHh
Confidence 56788999999999999877643
No 295
>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.
Probab=47.71 E-value=11 Score=25.75 Aligned_cols=20 Identities=0% Similarity=0.006 Sum_probs=16.9
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+.+.+..
T Consensus 29 ~~i~G~nGsGKSTLl~~l~G 48 (222)
T cd03224 29 VALLGRNGAGKTTLLKTIMG 48 (222)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 66999999999999887653
No 296
>cd03112 CobW_like The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.
Probab=47.63 E-value=12 Score=24.90 Aligned_cols=21 Identities=0% Similarity=0.014 Sum_probs=17.9
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+.+.|..|.||||+++.+...
T Consensus 3 ~~l~G~~GsGKTtl~~~l~~~ 23 (158)
T cd03112 3 TVLTGFLGAGKTTLLNHILTE 23 (158)
T ss_pred EEEEECCCCCHHHHHHHHHhc
Confidence 458899999999999987755
No 297
>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=47.43 E-value=16 Score=24.36 Aligned_cols=25 Identities=4% Similarity=-0.001 Sum_probs=21.4
Q ss_pred eEeeeeecccCccccchhhhhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~ 57 (79)
..|+-++|..|.||||+.+.+....
T Consensus 3 ~~~I~i~G~~~sGKTTL~~~L~~~~ 27 (188)
T PF00009_consen 3 IRNIAIIGHVDSGKTTLLGALLGKA 27 (188)
T ss_dssp EEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred EEEEEEECCCCCCcEeechhhhhhc
Confidence 3678999999999999999888544
No 298
>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=47.31 E-value=12 Score=25.63 Aligned_cols=20 Identities=5% Similarity=-0.026 Sum_probs=17.2
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 33 ~~i~G~nGsGKSTLl~~l~G 52 (220)
T cd03293 33 VALVGPSGCGKSTLLRIIAG 52 (220)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 56899999999999887764
No 299
>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein. Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.
Probab=47.14 E-value=11 Score=26.11 Aligned_cols=20 Identities=0% Similarity=0.021 Sum_probs=16.9
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 31 ~~l~G~nGsGKSTLl~~l~G 50 (243)
T TIGR02315 31 VAIIGPSGAGKSTLLRCINR 50 (243)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 56999999999999887653
No 300
>KOG3347|consensus
Probab=47.04 E-value=12 Score=26.66 Aligned_cols=22 Identities=9% Similarity=0.086 Sum_probs=18.4
Q ss_pred eEeeeeecccCccccchhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r 54 (79)
.-||.+.|-.|+||+|+-+.+-
T Consensus 7 ~PNILvtGTPG~GKstl~~~la 28 (176)
T KOG3347|consen 7 RPNILVTGTPGTGKSTLAERLA 28 (176)
T ss_pred CCCEEEeCCCCCCchhHHHHHH
Confidence 3478999999999999977655
No 301
>PRK00625 shikimate kinase; Provisional
Probab=46.96 E-value=12 Score=25.59 Aligned_cols=19 Identities=11% Similarity=0.184 Sum_probs=16.5
Q ss_pred eeeeecccCccccchhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENF 53 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~ 53 (79)
|+.++|..|.||||+-..+
T Consensus 2 ~I~LiG~pGsGKTT~~k~L 20 (173)
T PRK00625 2 QIFLCGLPTVGKTSFGKAL 20 (173)
T ss_pred EEEEECCCCCCHHHHHHHH
Confidence 6899999999999986665
No 302
>TIGR00235 udk uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below
Probab=46.88 E-value=15 Score=25.11 Aligned_cols=22 Identities=0% Similarity=-0.192 Sum_probs=18.1
Q ss_pred EeeeeecccCccccchhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~ 55 (79)
+-+-++|.+|.||||+-+.+..
T Consensus 7 ~vi~I~G~sGsGKSTl~~~l~~ 28 (207)
T TIGR00235 7 IIIGIGGGSGSGKTTVARKIYE 28 (207)
T ss_pred EEEEEECCCCCCHHHHHHHHHH
Confidence 3477899999999999877764
No 303
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=46.83 E-value=12 Score=23.37 Aligned_cols=20 Identities=0% Similarity=-0.142 Sum_probs=16.4
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.+.|..|.||+|+-..+-.
T Consensus 2 I~i~G~~GsGKst~a~~la~ 21 (147)
T cd02020 2 IAIDGPAGSGKSTVAKLLAK 21 (147)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 57899999999998666554
No 304
>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]
Probab=46.74 E-value=10 Score=28.46 Aligned_cols=14 Identities=14% Similarity=0.031 Sum_probs=12.5
Q ss_pred eeeecccCccccch
Q psy5599 36 LMVVDLKDVTSNVH 49 (79)
Q Consensus 36 ~mvvglsglgkst~ 49 (79)
+-++|+||.||||+
T Consensus 42 ~glVGESG~GKSTl 55 (268)
T COG4608 42 LGLVGESGCGKSTL 55 (268)
T ss_pred EEEEecCCCCHHHH
Confidence 46899999999987
No 305
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=46.66 E-value=12 Score=27.32 Aligned_cols=23 Identities=13% Similarity=0.176 Sum_probs=18.8
Q ss_pred eeeeecccCccccchhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~ 57 (79)
.++++|-+|+||||....+-...
T Consensus 196 vi~~vGptGvGKTTt~~kLa~~~ 218 (282)
T TIGR03499 196 VIALVGPTGVGKTTTLAKLAARF 218 (282)
T ss_pred EEEEECCCCCCHHHHHHHHHHHH
Confidence 57899999999999988766544
No 306
>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=46.47 E-value=12 Score=25.50 Aligned_cols=21 Identities=0% Similarity=-0.089 Sum_probs=17.8
Q ss_pred eeeeecccCccccchhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~ 55 (79)
.+-++|.+|.||||+...+..
T Consensus 27 ~~~i~G~nGsGKSTLl~~l~G 47 (211)
T cd03264 27 MYGLLGPNGAGKTTLMRILAT 47 (211)
T ss_pred cEEEECCCCCCHHHHHHHHhC
Confidence 367999999999999887764
No 307
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=46.38 E-value=12 Score=24.34 Aligned_cols=19 Identities=0% Similarity=0.022 Sum_probs=15.1
Q ss_pred eeecccCccccchhhhhhh
Q psy5599 37 MVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 37 mvvglsglgkst~~e~~r~ 55 (79)
-++|.+|.||||+-..+..
T Consensus 2 ~l~G~~GsGKSTla~~l~~ 20 (163)
T TIGR01313 2 VLMGVAGSGKSTIASALAH 20 (163)
T ss_pred EEECCCCCCHHHHHHHHHH
Confidence 4789999999998666554
No 308
>PRK09602 translation-associated GTPase; Reviewed
Probab=46.37 E-value=12 Score=29.08 Aligned_cols=26 Identities=12% Similarity=0.184 Sum_probs=21.9
Q ss_pred EeeeeecccCccccchhhhhhhhhhc
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
+.+-++|..++||||++|.+-.....
T Consensus 2 ~kigivG~pnvGKSTlfn~Lt~~~~~ 27 (396)
T PRK09602 2 ITIGLVGKPNVGKSTFFNAATLADVE 27 (396)
T ss_pred cEEEEECCCCCCHHHHHHHHhCCccc
Confidence 46788999999999999999876543
No 309
>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=46.35 E-value=13 Score=25.69 Aligned_cols=20 Identities=0% Similarity=-0.029 Sum_probs=16.8
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+-.
T Consensus 34 ~~l~G~nGsGKSTLl~~l~G 53 (233)
T cd03258 34 FGIIGRSGAGKSTLIRCING 53 (233)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 45899999999999887753
No 310
>PRK06696 uridine kinase; Validated
Probab=46.34 E-value=16 Score=25.37 Aligned_cols=25 Identities=0% Similarity=-0.008 Sum_probs=20.9
Q ss_pred CceEeeeeecccCccccchhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~ 55 (79)
+-.+.+.+.|.+|.||||+-+.+..
T Consensus 20 ~~~~iI~I~G~sgsGKSTlA~~L~~ 44 (223)
T PRK06696 20 TRPLRVAIDGITASGKTTFADELAE 44 (223)
T ss_pred CCceEEEEECCCCCCHHHHHHHHHH
Confidence 4567899999999999999777654
No 311
>KOG0635|consensus
Probab=46.19 E-value=36 Score=24.54 Aligned_cols=50 Identities=10% Similarity=0.030 Sum_probs=37.7
Q ss_pred ccCCceeeeeCCChHHHHHHhh-CceEeeeeecccCccccchhhhhhhhhhcC
Q psy5599 9 EVDGYIGFANLPNQVFRKAVKK-GFEFTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 9 ~~~~~~G~~~lpnq~~~~~~K~-g~~fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
.++-.|.-.++....+.+++++ |+. +-+-|+||.||+|+-=.+-...+.+
T Consensus 8 atNI~wh~~~v~k~eRq~l~~qkGcv--iWiTGLSgSGKStlACaL~q~L~qr 58 (207)
T KOG0635|consen 8 ATNITWHESSVTKEERQKLLKQKGCV--IWITGLSGSGKSTLACALSQALLQR 58 (207)
T ss_pred ccceeeecCCccHHHHHHHhcCCCcE--EEEeccCCCCchhHHHHHHHHHHhc
Confidence 3455688888888889999998 886 4789999999999855554444443
No 312
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=46.14 E-value=13 Score=28.41 Aligned_cols=27 Identities=4% Similarity=-0.016 Sum_probs=20.8
Q ss_pred eeeeecccCccccchhhhhhhhhhcCC
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKLAGL 61 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L~~~ 61 (79)
+++++|..|.|||+.+..+-.+-+...
T Consensus 17 ~~li~G~~GsGKT~~i~~ll~~~~~~g 43 (386)
T PF10412_consen 17 HILIIGATGSGKTQAIRHLLDQIRARG 43 (386)
T ss_dssp -EEEEE-TTSSHHHHHHHHHHHHHHTT
T ss_pred cEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence 588999999999999888877766553
No 313
>PRK10908 cell division protein FtsE; Provisional
Probab=46.03 E-value=13 Score=25.51 Aligned_cols=20 Identities=0% Similarity=-0.102 Sum_probs=17.3
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||||+...+..
T Consensus 31 ~~i~G~nGsGKSTLl~~l~G 50 (222)
T PRK10908 31 AFLTGHSGAGKSTLLKLICG 50 (222)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 57899999999999888764
No 314
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=45.68 E-value=12 Score=24.47 Aligned_cols=21 Identities=10% Similarity=0.159 Sum_probs=16.7
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+.+.|-.+.||||+.+.+...
T Consensus 2 I~i~G~~stGKTTL~~~L~~~ 22 (163)
T PF13521_consen 2 IVITGGPSTGKTTLIEALAAR 22 (163)
T ss_dssp EEEE--TTSHHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHc
Confidence 678899999999999998865
No 315
>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=45.55 E-value=15 Score=26.68 Aligned_cols=23 Identities=26% Similarity=0.280 Sum_probs=20.5
Q ss_pred eeeeecccCccccchhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~ 57 (79)
.+.++|.+|.||+++.|.+....
T Consensus 28 ~i~vvG~~~~GKSt~l~~i~g~~ 50 (240)
T smart00053 28 QIAVVGGQSAGKSSVLENFVGRD 50 (240)
T ss_pred eEEEEcCCCccHHHHHHHHhCCC
Confidence 48899999999999999998765
No 316
>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type. E. coli NadR has also been found to regulate the import of its substrate, nicotinamide ribonucleotide, but it is not known if the other members of this model share that activity.
Probab=45.53 E-value=17 Score=27.27 Aligned_cols=26 Identities=8% Similarity=0.033 Sum_probs=20.6
Q ss_pred hCceEeeeeecccCccccchhhhhhh
Q psy5599 30 KGFEFTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 30 ~g~~fn~mvvglsglgkst~~e~~r~ 55 (79)
..+.-.+.+.|.+|.||||+.+.+-.
T Consensus 159 ~~~~~~~~~~G~~~~gkstl~~~l~~ 184 (325)
T TIGR01526 159 PFFVKTVAILGGESTGKSTLVNKLAA 184 (325)
T ss_pred hhcCcEEEEECCCCCCHHHHHHHHHH
Confidence 33444789999999999999887654
No 317
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein.
Probab=45.47 E-value=12 Score=25.47 Aligned_cols=20 Identities=5% Similarity=0.034 Sum_probs=17.3
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 32 ~~i~G~nGsGKSTLl~~l~G 51 (216)
T TIGR00960 32 VFLVGHSGAGKSTFLKLILG 51 (216)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 57899999999999887765
No 318
>PRK13947 shikimate kinase; Provisional
Probab=45.36 E-value=12 Score=24.44 Aligned_cols=19 Identities=0% Similarity=0.102 Sum_probs=15.8
Q ss_pred eeeeecccCccccchhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENF 53 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~ 53 (79)
|+.++|.+|.||+++=..+
T Consensus 3 ~I~l~G~~GsGKst~a~~L 21 (171)
T PRK13947 3 NIVLIGFMGTGKTTVGKRV 21 (171)
T ss_pred eEEEEcCCCCCHHHHHHHH
Confidence 6889999999998875544
No 319
>PF15114 UPF0640: Uncharacterised protein family UPF0640
Probab=45.11 E-value=9.8 Score=23.32 Aligned_cols=16 Identities=19% Similarity=0.472 Sum_probs=13.2
Q ss_pred ccccchhhhhhhhhhc
Q psy5599 44 VTSNVHYENFRCRKLA 59 (79)
Q Consensus 44 lgkst~~e~~r~~~L~ 59 (79)
+|+++||++|+....+
T Consensus 46 vG~~~FY~tykrrqae 61 (69)
T PF15114_consen 46 VGKENFYDTYKRRQAE 61 (69)
T ss_pred eCceeHHHHHHHHHHH
Confidence 6899999999976544
No 320
>TIGR02673 FtsE cell division ATP-binding protein FtsE. This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.
Probab=45.10 E-value=14 Score=25.12 Aligned_cols=20 Identities=5% Similarity=-0.006 Sum_probs=17.0
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 31 ~~l~G~nGsGKSTLl~~i~G 50 (214)
T TIGR02673 31 LFLTGPSGAGKTTLLKLLYG 50 (214)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 56899999999999877654
No 321
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=45.08 E-value=11 Score=29.46 Aligned_cols=24 Identities=4% Similarity=0.122 Sum_probs=21.7
Q ss_pred EeeeeecccCccccchhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~ 57 (79)
+++.++|..+.|||+++|.|....
T Consensus 216 ~kV~ivG~~nvGKSSLln~L~~~~ 239 (449)
T PRK05291 216 LKVVIAGRPNVGKSSLLNALLGEE 239 (449)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCC
Confidence 689999999999999999998654
No 322
>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM
Probab=45.03 E-value=14 Score=25.03 Aligned_cols=20 Identities=0% Similarity=0.052 Sum_probs=17.5
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 29 ~~l~G~nGsGKSTLl~~l~G 48 (213)
T cd03262 29 VVIIGPSGSGKSTLLRCINL 48 (213)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 57999999999999888764
No 323
>COG1159 Era GTPase [General function prediction only]
Probab=45.00 E-value=13 Score=28.48 Aligned_cols=28 Identities=7% Similarity=0.159 Sum_probs=24.7
Q ss_pred eeeecccCccccchhhhhhhhhhcCCCC
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKLAGLGT 63 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L~~~~~ 63 (79)
+-++|...+||||+.|.+..++++-.+.
T Consensus 9 VaIiGrPNvGKSTLlN~l~G~KisIvS~ 36 (298)
T COG1159 9 VAIIGRPNVGKSTLLNALVGQKISIVSP 36 (298)
T ss_pred EEEEcCCCCcHHHHHHHHhcCceEeecC
Confidence 5689999999999999999999887663
No 324
>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []. It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.
Probab=44.86 E-value=16 Score=24.90 Aligned_cols=24 Identities=0% Similarity=-0.097 Sum_probs=18.9
Q ss_pred EeeeeecccCccccchhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~ 57 (79)
.-+++.|..|.|||++.+.+....
T Consensus 16 ~~~i~aG~~GsGKSt~~~~~~~~~ 39 (199)
T PF06414_consen 16 TLIIIAGQPGSGKSTLARQLLEEF 39 (199)
T ss_dssp EEEEEES-TTSTTHHHHHHHHHHT
T ss_pred EEEEEeCCCCCCHHHHHHHhhhhc
Confidence 447899999999999998886643
No 325
>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=44.79 E-value=13 Score=25.80 Aligned_cols=20 Identities=5% Similarity=-0.016 Sum_probs=17.5
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+.+.+..
T Consensus 29 ~~l~G~nGsGKSTLl~~l~G 48 (235)
T cd03261 29 LAIIGPSGSGKSTLLRLIVG 48 (235)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 67999999999999887764
No 326
>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.
Probab=44.79 E-value=13 Score=25.37 Aligned_cols=20 Identities=5% Similarity=-0.002 Sum_probs=17.2
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 33 ~~l~G~nGsGKSTLl~~i~G 52 (218)
T cd03255 33 VAIVGPSGSGKSTLLNILGG 52 (218)
T ss_pred EEEEcCCCCCHHHHHHHHhC
Confidence 56999999999999887764
No 327
>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein. This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.
Probab=44.66 E-value=15 Score=25.15 Aligned_cols=20 Identities=0% Similarity=-0.027 Sum_probs=17.6
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||||+...+..
T Consensus 27 ~~i~G~nGsGKSTLl~~l~G 46 (213)
T TIGR01277 27 VAIMGPSGAGKSTLLNLIAG 46 (213)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 56899999999999988875
No 328
>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=44.49 E-value=13 Score=25.23 Aligned_cols=20 Identities=0% Similarity=-0.090 Sum_probs=17.4
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 29 ~~i~G~nGsGKSTLl~~l~G 48 (210)
T cd03269 29 FGLLGPNGAGKTTTIRMILG 48 (210)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 56899999999999887765
No 329
>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane. The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.
Probab=44.46 E-value=14 Score=24.97 Aligned_cols=20 Identities=5% Similarity=-0.009 Sum_probs=17.2
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 30 ~~i~G~nGsGKSTLl~~l~G 49 (214)
T cd03292 30 VFLVGPSGAGKSTLLKLIYK 49 (214)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 56899999999999887764
No 330
>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake. NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.
Probab=44.39 E-value=14 Score=25.09 Aligned_cols=20 Identities=0% Similarity=-0.090 Sum_probs=17.3
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 34 ~~i~G~nGsGKSTLl~~l~G 53 (218)
T cd03266 34 TGLLGPNGAGKTTTLRMLAG 53 (218)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 56899999999999887764
No 331
>PRK03839 putative kinase; Provisional
Probab=44.37 E-value=17 Score=24.12 Aligned_cols=21 Identities=5% Similarity=-0.021 Sum_probs=16.6
Q ss_pred eeeeecccCccccchhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~ 55 (79)
++.+.|.+|.||||+-..+..
T Consensus 2 ~I~l~G~pGsGKsT~~~~La~ 22 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLLAE 22 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 478999999999998655543
No 332
>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.
Probab=44.29 E-value=14 Score=25.61 Aligned_cols=20 Identities=0% Similarity=0.059 Sum_probs=17.2
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 30 ~~i~G~nGsGKSTLl~~l~G 49 (236)
T TIGR03864 30 VALLGPNGAGKSTLFSLLTR 49 (236)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 45899999999999888764
No 333
>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]
Probab=44.25 E-value=15 Score=26.47 Aligned_cols=22 Identities=5% Similarity=0.024 Sum_probs=19.1
Q ss_pred eeeecccCccccchhhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~ 57 (79)
+.+.|-||+||+|+...++...
T Consensus 7 ~vlsgPSG~GKsTl~k~L~~~~ 28 (191)
T COG0194 7 IVLSGPSGVGKSTLVKALLEDD 28 (191)
T ss_pred EEEECCCCCCHHHHHHHHHhhc
Confidence 4678999999999999988766
No 334
>PRK09866 hypothetical protein; Provisional
Probab=44.18 E-value=23 Score=30.24 Aligned_cols=31 Identities=10% Similarity=0.083 Sum_probs=26.1
Q ss_pred CceEeeeeecccCccccchhhhhhhhhhcCC
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRKLAGL 61 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~L~~~ 61 (79)
...+.+-++|.+|.||||++|.+....+...
T Consensus 67 ~~~~~valvG~sgaGKSTLiNaL~G~~Vlpt 97 (741)
T PRK09866 67 RLEMVLAIVGTMKAGKSTTINAIVGTEVLPN 97 (741)
T ss_pred ccceEEEEECCCCCCHHHHHHHHhCCccccC
Confidence 4558899999999999999999987666554
No 335
>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=44.15 E-value=14 Score=26.83 Aligned_cols=20 Identities=15% Similarity=0.213 Sum_probs=18.0
Q ss_pred eeeeecccCccccchhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r 54 (79)
|+-++|..|.||||+.|.+.
T Consensus 4 ni~ivGh~~~GKTTL~e~ll 23 (267)
T cd04169 4 TFAIISHPDAGKTTLTEKLL 23 (267)
T ss_pred EEEEEcCCCCCHHHHHHHHH
Confidence 67899999999999999875
No 336
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=44.08 E-value=13 Score=26.24 Aligned_cols=20 Identities=10% Similarity=0.213 Sum_probs=16.8
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|..|.||||+-..+..
T Consensus 2 Ivl~G~pGSGKST~a~~La~ 21 (249)
T TIGR03574 2 IILTGLPGVGKSTFSKELAK 21 (249)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 57899999999999876653
No 337
>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=44.08 E-value=13 Score=25.14 Aligned_cols=20 Identities=5% Similarity=0.077 Sum_probs=17.3
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 30 ~~l~G~nGsGKSTLl~~l~G 49 (211)
T cd03225 30 VLIVGPNGSGKSTLLRLLNG 49 (211)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 56899999999999887764
No 338
>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.
Probab=44.07 E-value=13 Score=25.14 Aligned_cols=20 Identities=0% Similarity=-0.140 Sum_probs=17.4
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+.+.+..
T Consensus 29 ~~i~G~nGsGKSTLl~~l~G 48 (208)
T cd03268 29 YGFLGPNGAGKTTTMKIILG 48 (208)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 56899999999999888764
No 339
>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin. In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=43.88 E-value=13 Score=25.41 Aligned_cols=20 Identities=0% Similarity=-0.002 Sum_probs=17.4
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 29 ~~i~G~nGsGKSTLl~~i~G 48 (220)
T cd03265 29 FGLLGPNGAGKTTTIKMLTT 48 (220)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 57999999999999887764
No 340
>COG0444 DppD ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=43.86 E-value=12 Score=28.81 Aligned_cols=19 Identities=16% Similarity=0.053 Sum_probs=15.0
Q ss_pred eeeecccCccccchhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r 54 (79)
+-++||||.|||+.-...-
T Consensus 34 lgiVGESGsGKS~~~~aim 52 (316)
T COG0444 34 LGIVGESGSGKSVLAKAIM 52 (316)
T ss_pred EEEEcCCCCCHHHHHHHHH
Confidence 5789999999998855443
No 341
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=43.84 E-value=17 Score=24.97 Aligned_cols=26 Identities=8% Similarity=0.051 Sum_probs=20.2
Q ss_pred eeeeecccCccccchhhhhhhhhhcC
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
.+++.|.+|.|||+|-..|-...+..
T Consensus 21 ~~li~G~~GsGKT~l~~q~l~~~~~~ 46 (226)
T PF06745_consen 21 VVLISGPPGSGKTTLALQFLYNGLKN 46 (226)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHH
T ss_pred EEEEEeCCCCCcHHHHHHHHHHhhhh
Confidence 37899999999999977766555443
No 342
>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=43.73 E-value=13 Score=25.20 Aligned_cols=20 Identities=5% Similarity=-0.026 Sum_probs=17.3
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 29 ~~i~G~nGsGKSTLl~~l~G 48 (213)
T cd03259 29 LALLGPSGCGKTTLLRLIAG 48 (213)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 66999999999999887764
No 343
>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]
Probab=43.63 E-value=16 Score=29.42 Aligned_cols=38 Identities=11% Similarity=0.085 Sum_probs=28.3
Q ss_pred CceeeeeCCChHHHHHHhh-CceEeeeeecccCccccch
Q psy5599 12 GYIGFANLPNQVFRKAVKK-GFEFTLMVVDLKDVTSNVH 49 (79)
Q Consensus 12 ~~~G~~~lpnq~~~~~~K~-g~~fn~mvvglsglgkst~ 49 (79)
..+|=+..=.+.+....|. ..+.++++.|+||+||++.
T Consensus 142 ~liG~S~am~~l~~~i~kvA~s~a~VLI~GESGtGKElv 180 (464)
T COG2204 142 ELVGESPAMQQLRRLIAKVAPSDASVLITGESGTGKELV 180 (464)
T ss_pred CceecCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHH
Confidence 3456555555556666666 8999999999999999754
No 344
>KOG0092|consensus
Probab=43.59 E-value=18 Score=26.22 Aligned_cols=30 Identities=13% Similarity=0.117 Sum_probs=25.2
Q ss_pred CceEeeeeecccCccccchhhhhhhhhhcC
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
...|-+-+.|.+++||+++...|-...+..
T Consensus 3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e 32 (200)
T KOG0092|consen 3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHE 32 (200)
T ss_pred cceEEEEEECCCCCCchhhhhhhhhCcccc
Confidence 456788999999999999999988766655
No 345
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=43.30 E-value=16 Score=23.29 Aligned_cols=21 Identities=10% Similarity=0.135 Sum_probs=16.4
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+.+.|.+|.||||+-..+...
T Consensus 2 i~l~G~~GsGKST~a~~l~~~ 22 (150)
T cd02021 2 IVVMGVSGSGKSTVGKALAER 22 (150)
T ss_pred EEEEcCCCCCHHHHHHHHHhh
Confidence 468899999999986665443
No 346
>PRK13543 cytochrome c biogenesis protein CcmA; Provisional
Probab=43.27 E-value=15 Score=25.23 Aligned_cols=20 Identities=10% Similarity=0.019 Sum_probs=17.0
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||||+.+.+..
T Consensus 40 ~~i~G~nGsGKSTLl~~i~G 59 (214)
T PRK13543 40 LLVQGDNGAGKTTLLRVLAG 59 (214)
T ss_pred EEEEcCCCCCHHHHHHHHhC
Confidence 45999999999999887764
No 347
>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=43.22 E-value=14 Score=25.52 Aligned_cols=20 Identities=0% Similarity=0.019 Sum_probs=17.3
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+.+.+..
T Consensus 30 ~~i~G~nGsGKSTLl~~l~G 49 (241)
T cd03256 30 VALIGPSGAGKSTLLRCLNG 49 (241)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 57899999999999887764
No 348
>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=43.20 E-value=15 Score=25.17 Aligned_cols=21 Identities=5% Similarity=-0.070 Sum_probs=18.1
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+.++|.+|.||||+.+.+-..
T Consensus 32 ~~i~G~nGsGKSTLl~~l~G~ 52 (229)
T cd03254 32 VAIVGPTGAGKTTLINLLMRF 52 (229)
T ss_pred EEEECCCCCCHHHHHHHHhcC
Confidence 679999999999998888643
No 349
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=43.18 E-value=16 Score=24.10 Aligned_cols=21 Identities=5% Similarity=0.101 Sum_probs=17.3
Q ss_pred eeeeecccCccccchhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~ 55 (79)
++.+.|..|.||+|+-..+..
T Consensus 1 ~I~i~G~pGsGKst~a~~La~ 21 (194)
T cd01428 1 RILLLGPPGSGKGTQAERLAK 21 (194)
T ss_pred CEEEECCCCCCHHHHHHHHHH
Confidence 478899999999998776654
No 350
>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.
Probab=43.14 E-value=16 Score=24.43 Aligned_cols=21 Identities=5% Similarity=-0.029 Sum_probs=18.1
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+.+.|..|.||||+.+.+...
T Consensus 2 I~ieG~~GsGKSTl~~~L~~~ 22 (193)
T cd01673 2 IVVEGNIGAGKSTLAKELAEH 22 (193)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 567899999999999988764
No 351
>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.
Probab=43.11 E-value=16 Score=24.20 Aligned_cols=20 Identities=0% Similarity=-0.075 Sum_probs=17.3
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+.+.+..
T Consensus 29 ~~l~G~nGsGKSTLl~~i~G 48 (163)
T cd03216 29 HALLGENGAGKSTLMKILSG 48 (163)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 56899999999999887764
No 352
>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=43.08 E-value=16 Score=24.28 Aligned_cols=20 Identities=0% Similarity=-0.147 Sum_probs=16.9
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 29 ~~i~G~nGsGKStLl~~l~G 48 (173)
T cd03230 29 YGLLGPNGAGKTTLIKIILG 48 (173)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 55899999999999887654
No 353
>TIGR01978 sufC FeS assembly ATPase SufC. SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.
Probab=43.04 E-value=14 Score=25.49 Aligned_cols=21 Identities=0% Similarity=-0.051 Sum_probs=18.0
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+.++|.+|.||||+...+..-
T Consensus 29 ~~i~G~nGsGKSTLl~~l~Gl 49 (243)
T TIGR01978 29 HAIMGPNGSGKSTLSKTIAGH 49 (243)
T ss_pred EEEECCCCCCHHHHHHHHhCC
Confidence 679999999999998887653
No 354
>PF13304 AAA_21: AAA domain; PDB: 3QKS_B 1US8_B 1F2U_B 1F2T_B 3QKT_A 1II8_B 3QKR_B 3QKU_A.
Probab=42.96 E-value=8 Score=24.83 Aligned_cols=19 Identities=5% Similarity=0.011 Sum_probs=0.0
Q ss_pred eeeecccCccccchhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r 54 (79)
+.++|..|.|||++.+.+.
T Consensus 2 ~viiG~N~sGKS~il~ai~ 20 (303)
T PF13304_consen 2 NVIIGPNGSGKSNILEAIY 20 (303)
T ss_dssp -------------------
T ss_pred Ccccccccccccccccccc
Confidence 3578999999999988775
No 355
>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=42.93 E-value=14 Score=24.49 Aligned_cols=22 Identities=0% Similarity=0.003 Sum_probs=18.2
Q ss_pred eeeecccCccccchhhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~ 57 (79)
+.+.|..|.|||++..++....
T Consensus 2 i~~~G~~GsGKTt~~~~l~~~~ 23 (148)
T cd03114 2 IGITGVPGAGKSTLIDALITAL 23 (148)
T ss_pred EEEECCCCCcHHHHHHHHHHHH
Confidence 5678999999999998886543
No 356
>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.
Probab=42.90 E-value=16 Score=23.78 Aligned_cols=20 Identities=5% Similarity=-0.031 Sum_probs=17.0
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+.+.+..
T Consensus 29 ~~i~G~nGsGKStLl~~l~G 48 (144)
T cd03221 29 IGLVGRNGAGKSTLLKLIAG 48 (144)
T ss_pred EEEECCCCCCHHHHHHHHcC
Confidence 46899999999999887754
No 357
>PRK14495 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional
Probab=42.88 E-value=15 Score=29.56 Aligned_cols=23 Identities=13% Similarity=0.057 Sum_probs=19.4
Q ss_pred eeeecccCccccchhhhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L 58 (79)
+-++|-||.||||++|.+-...-
T Consensus 4 i~IvG~sgSGKTTLiekLI~~L~ 26 (452)
T PRK14495 4 YGIIGWKDAGKTGLVERLVAAIA 26 (452)
T ss_pred EEEEecCCCCHHHHHHHHHHHHH
Confidence 56899999999999999876543
No 358
>PRK03731 aroL shikimate kinase II; Reviewed
Probab=42.81 E-value=13 Score=24.27 Aligned_cols=20 Identities=10% Similarity=0.089 Sum_probs=15.7
Q ss_pred eeeeecccCccccchhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r 54 (79)
++.++|.+|.||+++-..+-
T Consensus 4 ~i~~~G~~GsGKst~~~~la 23 (171)
T PRK03731 4 PLFLVGARGCGKTTVGMALA 23 (171)
T ss_pred eEEEECCCCCCHHHHHHHHH
Confidence 47889999999998755444
No 359
>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=42.81 E-value=13 Score=27.77 Aligned_cols=18 Identities=0% Similarity=0.010 Sum_probs=15.3
Q ss_pred eeeecccCccccchhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENF 53 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~ 53 (79)
+.++|-||.||||+.+-.
T Consensus 32 vsilGpSGcGKSTLLrii 49 (248)
T COG1116 32 VAILGPSGCGKSTLLRLI 49 (248)
T ss_pred EEEECCCCCCHHHHHHHH
Confidence 679999999999996643
No 360
>PRK14530 adenylate kinase; Provisional
Probab=42.80 E-value=15 Score=25.24 Aligned_cols=19 Identities=5% Similarity=0.216 Sum_probs=16.6
Q ss_pred eeeeecccCccccchhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENF 53 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~ 53 (79)
++.++|.+|.||+|+-..+
T Consensus 5 ~I~i~G~pGsGKsT~~~~L 23 (215)
T PRK14530 5 RILLLGAPGAGKGTQSSNL 23 (215)
T ss_pred EEEEECCCCCCHHHHHHHH
Confidence 6889999999999987766
No 361
>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=42.76 E-value=13 Score=25.52 Aligned_cols=20 Identities=5% Similarity=0.001 Sum_probs=17.1
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||||+.+.+..
T Consensus 28 ~~l~G~nGsGKSTLl~~l~G 47 (177)
T cd03222 28 IGIVGPNGTGKTTAVKILAG 47 (177)
T ss_pred EEEECCCCChHHHHHHHHHc
Confidence 67999999999999886653
No 362
>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).
Probab=42.73 E-value=14 Score=25.33 Aligned_cols=21 Identities=0% Similarity=-0.089 Sum_probs=18.0
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+-++|.+|.||||+.+.+..-
T Consensus 29 ~~i~G~nGsGKSTLl~~i~G~ 49 (227)
T cd03260 29 TALIGPSGCGKSTLLRLLNRL 49 (227)
T ss_pred EEEECCCCCCHHHHHHHHHhh
Confidence 569999999999998877654
No 363
>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.
Probab=42.67 E-value=14 Score=25.08 Aligned_cols=20 Identities=10% Similarity=0.074 Sum_probs=16.9
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 28 ~~l~G~nGsGKSTLl~~l~G 47 (213)
T cd03235 28 LAIVGPNGAGKSTLLKAILG 47 (213)
T ss_pred EEEECCCCCCHHHHHHHHcC
Confidence 57899999999999877654
No 364
>TIGR03743 SXT_TraD conjugative coupling factor TraD, SXT/TOL subfamily. Members of this protein family are the putative conjugative coupling factor, TraD (or TraG), rather distantly related to the well-characterized TraD of the F plasmid. Members are associated with conjugative-transposon-like mobile genetic elements of the class that includes SXT, an antibiotic resistance transfer element in some Vibrio cholerae strains.
Probab=42.59 E-value=16 Score=30.15 Aligned_cols=30 Identities=10% Similarity=-0.071 Sum_probs=25.7
Q ss_pred CceEeeeeecccCccccchhhhhhhhhhcC
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
...-+++|+|-+|.|||++++.+-.+.+..
T Consensus 174 ~~~~H~lv~G~TGsGKT~l~~~l~~q~i~~ 203 (634)
T TIGR03743 174 HRVGHTLVLGTTGVGKTRLAELLITQDIRR 203 (634)
T ss_pred CCCCcEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 355679999999999999999888888775
No 365
>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=42.57 E-value=14 Score=26.98 Aligned_cols=20 Identities=10% Similarity=0.110 Sum_probs=18.1
Q ss_pred eeeeecccCccccchhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r 54 (79)
|+.++|..|.|||++.|.+.
T Consensus 1 nv~ivGh~~~GKTtL~~~Ll 20 (270)
T cd01886 1 NIGIIAHIDAGKTTTTERIL 20 (270)
T ss_pred CEEEEcCCCCCHHHHHHHHH
Confidence 67899999999999999875
No 366
>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=42.53 E-value=16 Score=24.33 Aligned_cols=20 Identities=0% Similarity=-0.052 Sum_probs=17.1
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 29 ~~i~G~nGsGKSTLl~~l~G 48 (178)
T cd03229 29 VALLGPSGSGKSTLLRCIAG 48 (178)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 45899999999999888764
No 367
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=42.40 E-value=19 Score=25.09 Aligned_cols=26 Identities=4% Similarity=-0.134 Sum_probs=21.0
Q ss_pred CceEeeeeecccCccccchhhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~ 56 (79)
+-.+-+-+.|.+|.||||+.+.+...
T Consensus 31 ~~~~iigi~G~~GsGKTTl~~~L~~~ 56 (229)
T PRK09270 31 QRRTIVGIAGPPGAGKSTLAEFLEAL 56 (229)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 44677889999999999998876643
No 368
>PRK15093 antimicrobial peptide ABC transporter ATP-binding protein; Provisional
Probab=42.32 E-value=15 Score=27.29 Aligned_cols=20 Identities=5% Similarity=-0.147 Sum_probs=17.0
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|++|.||||+...+-.
T Consensus 36 ~~ivG~sGsGKSTLl~~i~G 55 (330)
T PRK15093 36 RGLVGESGSGKSLIAKAICG 55 (330)
T ss_pred EEEECCCCCCHHHHHHHHHc
Confidence 56999999999999887653
No 369
>PRK13342 recombination factor protein RarA; Reviewed
Probab=42.24 E-value=14 Score=28.29 Aligned_cols=50 Identities=14% Similarity=0.189 Sum_probs=32.1
Q ss_pred CCCccCCceeeeeCC--ChHHHHHHhhCceEeeeeecccCccccchhhhhhh
Q psy5599 6 IPKEVDGYIGFANLP--NQVFRKAVKKGFEFTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 6 ~~~~~~~~~G~~~lp--nq~~~~~~K~g~~fn~mvvglsglgkst~~e~~r~ 55 (79)
++..+...+|=..+- +......+..+-.-++.+.|..|+|||++-..+..
T Consensus 7 RP~~l~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~ 58 (413)
T PRK13342 7 RPKTLDEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAG 58 (413)
T ss_pred CCCCHHHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHH
Confidence 344455556644432 23344555556556788999999999999777654
No 370
>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit. The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.
Probab=42.24 E-value=14 Score=28.80 Aligned_cols=19 Identities=0% Similarity=-0.036 Sum_probs=16.8
Q ss_pred eeeecccCccccchhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r 54 (79)
+.++|.+|.||||+.+.+.
T Consensus 364 vaIvG~SGsGKSTLl~lL~ 382 (529)
T TIGR02868 364 VAILGPSGSGKSTLLMLLT 382 (529)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 5899999999999988775
No 371
>smart00072 GuKc Guanylate kinase homologues. Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.
Probab=42.22 E-value=16 Score=24.57 Aligned_cols=21 Identities=5% Similarity=0.044 Sum_probs=18.7
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+.++|-+|.||+++.+.+...
T Consensus 5 ivl~Gpsg~GK~tl~~~L~~~ 25 (184)
T smart00072 5 IVLSGPSGVGKGTLLAELIQE 25 (184)
T ss_pred EEEECCCCCCHHHHHHHHHhc
Confidence 578999999999999988776
No 372
>PRK13540 cytochrome c biogenesis protein CcmA; Provisional
Probab=42.17 E-value=16 Score=24.72 Aligned_cols=20 Identities=5% Similarity=-0.064 Sum_probs=16.9
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+.+.+..
T Consensus 30 ~~l~G~nGsGKSTLl~~i~G 49 (200)
T PRK13540 30 LHLKGSNGAGKTTLLKLIAG 49 (200)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 56899999999999887654
No 373
>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional
Probab=42.16 E-value=15 Score=25.28 Aligned_cols=22 Identities=5% Similarity=-0.022 Sum_probs=18.4
Q ss_pred eeeeecccCccccchhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~ 56 (79)
.+-++|.+|.||||+...+..-
T Consensus 38 ~~~i~G~nGsGKSTLl~~i~Gl 59 (228)
T PRK10584 38 TIALIGESGSGKSTLLAILAGL 59 (228)
T ss_pred EEEEECCCCCCHHHHHHHHHcC
Confidence 3678999999999998887653
No 374
>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.
Probab=42.15 E-value=16 Score=24.87 Aligned_cols=20 Identities=0% Similarity=-0.009 Sum_probs=17.5
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+.+.+..
T Consensus 31 ~~i~G~nGsGKSTLl~~l~G 50 (220)
T cd03263 31 FGLLGHNGAGKTTTLKMLTG 50 (220)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 56899999999999887775
No 375
>PRK13721 conjugal transfer ATP-binding protein TraC; Provisional
Probab=42.09 E-value=18 Score=30.56 Aligned_cols=29 Identities=7% Similarity=0.036 Sum_probs=23.9
Q ss_pred ceEeeeeecccCccccchhhhhhhhhhcC
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
-.+|++++|.+|.|||++.+.+..+.+..
T Consensus 448 ~N~N~~I~G~sGsGKS~l~k~l~~~~~~~ 476 (844)
T PRK13721 448 TNYNMAVCGTSGAGKTGLIQPLIRSVLDS 476 (844)
T ss_pred CcccEEEEcCCCCCHHHHHHHHHHhhhcc
Confidence 56799999999999999998777665543
No 376
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=41.96 E-value=17 Score=26.59 Aligned_cols=23 Identities=0% Similarity=-0.101 Sum_probs=19.2
Q ss_pred EeeeeecccCccccchhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~ 56 (79)
-++.+.|..|+|||+....+..+
T Consensus 41 ~~i~I~G~~GtGKT~l~~~~~~~ 63 (365)
T TIGR02928 41 SNVFIYGKTGTGKTAVTKYVMKE 63 (365)
T ss_pred CcEEEECCCCCCHHHHHHHHHHH
Confidence 46899999999999988777653
No 377
>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=41.96 E-value=14 Score=26.32 Aligned_cols=22 Identities=9% Similarity=0.077 Sum_probs=18.8
Q ss_pred eeeeecccCccccchhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~ 56 (79)
|+-++|..|.|||++.|.+...
T Consensus 1 ni~i~G~~~~GKTtL~~~ll~~ 22 (237)
T cd04168 1 NIGILAHVDAGKTTLTESLLYT 22 (237)
T ss_pred CEEEEcCCCCCHHHHHHHHHHH
Confidence 5678999999999999988653
No 378
>cd01918 HprK_C HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of Ser-46 of HPr and its dephosphorylation by phosphorolysis. The latter reaction uses inorganic phosphate as substrate and produces pyrophosphate. Phosphoenolpyruvate carboxykinase (PEPCK) and the C-terminal catalytic domain of HprK/P are structurally similar with conserved active site residues suggesting these two phosphotransferases have related functions. The HprK/P N-terminal domain is structurally similar to the N-terminal domains of the MurE and MurF amino acid ligases.
Probab=41.95 E-value=13 Score=25.40 Aligned_cols=18 Identities=0% Similarity=-0.001 Sum_probs=14.9
Q ss_pred EeeeeecccCccccchhh
Q psy5599 34 FTLMVVDLKDVTSNVHYE 51 (79)
Q Consensus 34 fn~mvvglsglgkst~~e 51 (79)
..+++.|.||.|||++--
T Consensus 15 ~gvLi~G~sG~GKStlal 32 (149)
T cd01918 15 IGVLITGPSGIGKSELAL 32 (149)
T ss_pred EEEEEEcCCCCCHHHHHH
Confidence 457899999999998743
No 379
>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional
Probab=41.93 E-value=15 Score=26.18 Aligned_cols=20 Identities=0% Similarity=-0.097 Sum_probs=17.1
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||||+...+..
T Consensus 40 ~~i~G~nGsGKSTLl~~l~G 59 (265)
T PRK10575 40 TGLIGHNGSGKSTLLKMLGR 59 (265)
T ss_pred EEEECCCCCCHHHHHHHHcC
Confidence 46999999999999887664
No 380
>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=41.80 E-value=15 Score=25.04 Aligned_cols=20 Identities=0% Similarity=-0.120 Sum_probs=17.3
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 26 ~~i~G~nGsGKSTLl~~l~G 45 (214)
T cd03297 26 TGIFGASGAGKSTLLRCIAG 45 (214)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 67899999999999887764
No 381
>cd01127 TrwB Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria.
Probab=41.78 E-value=15 Score=28.17 Aligned_cols=27 Identities=7% Similarity=0.053 Sum_probs=21.9
Q ss_pred EeeeeecccCccccchhhhhhhhhhcC
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
=+++++|.+|.||++++.++..+.+..
T Consensus 43 ~h~~i~g~tGsGKt~~i~~l~~~~~~~ 69 (410)
T cd01127 43 AHTMIIGTTGTGKTTQIRELLASIRAR 69 (410)
T ss_pred ccEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence 368999999999999988877665544
No 382
>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []. G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....
Probab=41.72 E-value=24 Score=26.71 Aligned_cols=25 Identities=8% Similarity=0.175 Sum_probs=21.6
Q ss_pred CceEeeeeecccCccccchhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~ 55 (79)
.-.+.+++.|..+.||+|++..++-
T Consensus 56 ~~~~kiLLLG~geSGKSTi~KQ~ri 80 (389)
T PF00503_consen 56 KREIKILLLGSGESGKSTILKQMRI 80 (389)
T ss_dssp HEEEEEEEEESTTSSHHHHHHHHHH
T ss_pred hccceEEEECCCCcchhhHHHHHHH
Confidence 6788999999999999999876653
No 383
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=41.71 E-value=8.8 Score=28.80 Aligned_cols=21 Identities=0% Similarity=0.132 Sum_probs=17.6
Q ss_pred CceEeeeeecccCccccchhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYE 51 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e 51 (79)
.....+++.|++|+||+++=.
T Consensus 20 ~~~~pVLI~GE~GtGK~~lAr 40 (329)
T TIGR02974 20 PLDRPVLIIGERGTGKELIAA 40 (329)
T ss_pred CCCCCEEEECCCCChHHHHHH
Confidence 677889999999999987643
No 384
>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL. Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.
Probab=41.67 E-value=17 Score=24.94 Aligned_cols=20 Identities=0% Similarity=0.016 Sum_probs=17.5
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+.+.+..
T Consensus 37 ~~l~G~nGsGKSTLl~~i~G 56 (224)
T TIGR02324 37 VALSGPSGAGKSTLLKSLYA 56 (224)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 56999999999999887764
No 385
>cd03277 ABC_SMC5_euk Eukaryotic SMC5 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=41.65 E-value=16 Score=25.56 Aligned_cols=20 Identities=5% Similarity=-0.051 Sum_probs=17.3
Q ss_pred eeecccCccccchhhhhhhh
Q psy5599 37 MVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 37 mvvglsglgkst~~e~~r~~ 56 (79)
.++|..|.|||++.|.++-.
T Consensus 27 ~i~G~NgsGKS~lleAi~~~ 46 (213)
T cd03277 27 MIIGPNGSGKSSIVCAICLG 46 (213)
T ss_pred EEECCCCCCHHHHHHHHHHH
Confidence 69999999999999987543
No 386
>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. 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, w
Probab=41.63 E-value=15 Score=25.28 Aligned_cols=19 Identities=11% Similarity=0.092 Sum_probs=16.6
Q ss_pred eeeecccCccccchhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r 54 (79)
+-++|.+|.|||++.+.+.
T Consensus 25 ~~i~G~nGsGKStll~al~ 43 (197)
T cd03278 25 TAIVGPNGSGKSNIIDAIR 43 (197)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 4599999999999998764
No 387
>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional
Probab=41.61 E-value=14 Score=27.97 Aligned_cols=27 Identities=19% Similarity=0.052 Sum_probs=21.4
Q ss_pred eEeeeeecccCccccchhhhhhhhhhc
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~L~ 59 (79)
..-+-++|.+|.||||+++.+-...-.
T Consensus 205 ~~~~~~~g~~~~GKtt~~~~l~~~l~~ 231 (366)
T PRK14489 205 PPLLGVVGYSGTGKTTLLEKLIPELIA 231 (366)
T ss_pred ccEEEEecCCCCCHHHHHHHHHHHHHH
Confidence 346889999999999999887755433
No 388
>PRK14239 phosphate transporter ATP-binding protein; Provisional
Probab=41.59 E-value=15 Score=25.63 Aligned_cols=20 Identities=0% Similarity=-0.026 Sum_probs=17.5
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 34 ~~i~G~nGsGKSTLl~~l~G 53 (252)
T PRK14239 34 TALIGPSGSGKSTLLRSINR 53 (252)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 56899999999999888764
No 389
>cd03279 ABC_sbcCD SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini.
Probab=41.59 E-value=15 Score=25.27 Aligned_cols=19 Identities=0% Similarity=0.123 Sum_probs=16.7
Q ss_pred eeeecccCccccchhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r 54 (79)
+.++|.+|.||||+.+.+.
T Consensus 31 ~~i~G~NGsGKSTll~~i~ 49 (213)
T cd03279 31 FLICGPTGAGKSTILDAIT 49 (213)
T ss_pred EEEECCCCCCHHHHHHHhe
Confidence 5699999999999988764
No 390
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=41.58 E-value=17 Score=25.97 Aligned_cols=20 Identities=10% Similarity=0.243 Sum_probs=16.5
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.+.|.+|.||||+...+-.
T Consensus 5 iil~G~pGSGKSTla~~L~~ 24 (300)
T PHA02530 5 ILTVGVPGSGKSTWAREFAA 24 (300)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 67899999999999776543
No 391
>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK. Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.
Probab=41.51 E-value=15 Score=25.69 Aligned_cols=20 Identities=10% Similarity=-0.026 Sum_probs=17.3
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 32 ~~i~G~nGsGKSTLl~~l~G 51 (253)
T TIGR02323 32 LGIVGESGSGKSTLLGCLAG 51 (253)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 57999999999999887664
No 392
>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.
Probab=41.49 E-value=15 Score=25.00 Aligned_cols=21 Identities=0% Similarity=-0.061 Sum_probs=17.9
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+-++|.+|.||||+...+...
T Consensus 33 ~~i~G~nGsGKSTLl~~i~G~ 53 (220)
T cd03245 33 VAIIGRVGSGKSTLLKLLAGL 53 (220)
T ss_pred EEEECCCCCCHHHHHHHHhcC
Confidence 669999999999998877653
No 393
>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein. This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.
Probab=41.39 E-value=15 Score=25.00 Aligned_cols=20 Identities=5% Similarity=-0.011 Sum_probs=17.2
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 34 ~~i~G~nGsGKSTLl~~i~G 53 (221)
T TIGR02211 34 VAIVGSSGSGKSTLLHLLGG 53 (221)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 45999999999999888764
No 394
>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=41.36 E-value=15 Score=25.04 Aligned_cols=21 Identities=0% Similarity=-0.034 Sum_probs=18.0
Q ss_pred EeeeeecccCccccchhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r 54 (79)
+|+-++|..|.||||+.+.+-
T Consensus 1 ~~i~~~g~~~~GKttL~~~l~ 21 (203)
T cd01888 1 INIGTIGHVAHGKSTLVKALS 21 (203)
T ss_pred CEEEEECCCCCCHHHHHHHHh
Confidence 367899999999999998773
No 395
>PRK14531 adenylate kinase; Provisional
Probab=41.34 E-value=20 Score=24.04 Aligned_cols=22 Identities=5% Similarity=0.037 Sum_probs=17.8
Q ss_pred EeeeeecccCccccchhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~ 55 (79)
.++.+.|..|.||+|+-..+-.
T Consensus 3 ~~i~i~G~pGsGKsT~~~~la~ 24 (183)
T PRK14531 3 QRLLFLGPPGAGKGTQAARLCA 24 (183)
T ss_pred cEEEEECCCCCCHHHHHHHHHH
Confidence 4688999999999998665543
No 396
>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=41.31 E-value=18 Score=26.57 Aligned_cols=26 Identities=8% Similarity=0.064 Sum_probs=20.9
Q ss_pred CceEeeeeecccCccccchhhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~ 56 (79)
+-...+.+.|..|.||||+.+.+-..
T Consensus 32 ~~~~~i~i~G~~G~GKttl~~~l~~~ 57 (300)
T TIGR00750 32 GNAHRVGITGTPGAGKSTLLEALGME 57 (300)
T ss_pred CCceEEEEECCCCCCHHHHHHHHHHH
Confidence 34566788899999999999987654
No 397
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=41.29 E-value=16 Score=24.41 Aligned_cols=23 Identities=4% Similarity=0.081 Sum_probs=18.4
Q ss_pred EeeeeecccCccccchhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~ 56 (79)
.-+.+.|.+|.||+|+...+...
T Consensus 19 ~~i~i~G~~GsGKstla~~l~~~ 41 (184)
T TIGR00455 19 VVIWLTGLSGSGKSTIANALEKK 41 (184)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 35789999999999987766644
No 398
>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.
Probab=41.22 E-value=17 Score=24.61 Aligned_cols=20 Identities=0% Similarity=0.016 Sum_probs=17.1
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||||+...+..
T Consensus 29 ~~l~G~nGsGKSTLl~~l~G 48 (213)
T cd03301 29 VVLLGPSGCGKTTTLRMIAG 48 (213)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 56899999999999877765
No 399
>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=41.03 E-value=15 Score=29.19 Aligned_cols=22 Identities=14% Similarity=0.191 Sum_probs=18.5
Q ss_pred EeeeeecccCccccchhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~ 55 (79)
-.++++|..|.||||....+-.
T Consensus 101 ~vi~lvG~~GvGKTTtaaKLA~ 122 (429)
T TIGR01425 101 NVIMFVGLQGSGKTTTCTKLAY 122 (429)
T ss_pred eEEEEECCCCCCHHHHHHHHHH
Confidence 4589999999999998777653
No 400
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=41.01 E-value=24 Score=22.98 Aligned_cols=24 Identities=13% Similarity=0.025 Sum_probs=18.6
Q ss_pred eeeecccCccccchhhhhhhhhhc
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L~ 59 (79)
+.+.|.+|.|||++--.|-...+.
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~ 25 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLA 25 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHH
Confidence 678999999999987776555443
No 401
>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.
Probab=40.88 E-value=17 Score=24.94 Aligned_cols=20 Identities=0% Similarity=-0.046 Sum_probs=17.1
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 29 ~~l~G~nGsGKSTLl~~l~G 48 (232)
T cd03218 29 VGLLGPNGAGKTTTFYMIVG 48 (232)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 56899999999999887754
No 402
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=40.84 E-value=14 Score=28.34 Aligned_cols=22 Identities=18% Similarity=0.241 Sum_probs=18.8
Q ss_pred EeeeeecccCccccchhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~ 55 (79)
=++++.|.+|.|||++.+.+-.
T Consensus 65 ~~ilL~G~pGtGKTtla~~lA~ 86 (327)
T TIGR01650 65 RRVMVQGYHGTGKSTHIEQIAA 86 (327)
T ss_pred CcEEEEeCCCChHHHHHHHHHH
Confidence 3599999999999999887743
No 403
>PRK09984 phosphonate/organophosphate ester transporter subunit; Provisional
Probab=40.83 E-value=17 Score=25.69 Aligned_cols=20 Identities=0% Similarity=0.021 Sum_probs=17.5
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||||+...+..
T Consensus 33 ~~i~G~nGsGKSTLl~~i~G 52 (262)
T PRK09984 33 VALLGPSGSGKSTLLRHLSG 52 (262)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 67999999999999887764
No 404
>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=40.81 E-value=16 Score=24.74 Aligned_cols=20 Identities=0% Similarity=-0.062 Sum_probs=17.4
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 29 ~~i~G~nGsGKSTLl~~l~G 48 (205)
T cd03226 29 IALTGKNGAGKTTLAKILAG 48 (205)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 67899999999999887764
No 405
>COG4107 PhnK ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=40.63 E-value=17 Score=26.82 Aligned_cols=22 Identities=14% Similarity=0.031 Sum_probs=17.1
Q ss_pred eeeecccCccccchhhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~ 57 (79)
+-+||+||.||+|+...+-...
T Consensus 35 LgiVGESGSGKtTLL~~is~rl 56 (258)
T COG4107 35 LGIVGESGSGKTTLLKCISGRL 56 (258)
T ss_pred EEEEecCCCcHHhHHHHHhccc
Confidence 5689999999999977654433
No 406
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=40.56 E-value=22 Score=20.81 Aligned_cols=25 Identities=4% Similarity=-0.132 Sum_probs=19.2
Q ss_pred eeeeecccCccccchhhhhhhhhhc
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L~ 59 (79)
++++.|..|.|||+.+-.+-...+.
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~ 26 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLD 26 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHh
Confidence 4678999999999887766655554
No 407
>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.
Probab=40.49 E-value=16 Score=24.33 Aligned_cols=20 Identities=0% Similarity=0.021 Sum_probs=17.2
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 28 ~~l~G~nGsGKStLl~~i~G 47 (180)
T cd03214 28 VGILGPNGAGKSTLLKTLAG 47 (180)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 56899999999999887764
No 408
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=40.47 E-value=15 Score=24.66 Aligned_cols=20 Identities=5% Similarity=0.051 Sum_probs=16.3
Q ss_pred eeeeecccCccccchhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r 54 (79)
++.++|.+|.||+|+-..+-
T Consensus 6 ~I~liG~~GaGKStl~~~La 25 (172)
T PRK05057 6 NIFLVGPMGAGKSTIGRQLA 25 (172)
T ss_pred EEEEECCCCcCHHHHHHHHH
Confidence 58899999999999855544
No 409
>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter. The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.
Probab=40.46 E-value=18 Score=24.58 Aligned_cols=20 Identities=10% Similarity=-0.019 Sum_probs=17.0
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||||+.+.+..
T Consensus 29 ~~i~G~nGsGKSTLl~~l~G 48 (201)
T cd03231 29 LQVTGPNGSGKTTLLRILAG 48 (201)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 67899999999999876654
No 410
>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.
Probab=40.38 E-value=16 Score=24.89 Aligned_cols=20 Identities=10% Similarity=-0.082 Sum_probs=17.6
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 34 ~~i~G~nGsGKSTLl~~l~G 53 (228)
T cd03257 34 LGLVGESGSGKSTLARAILG 53 (228)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 67999999999999887765
No 411
>COG3451 VirB4 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]
Probab=40.31 E-value=17 Score=30.87 Aligned_cols=27 Identities=7% Similarity=0.005 Sum_probs=23.5
Q ss_pred eeeeecccCccccchhhhhhhhhhcCC
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKLAGL 61 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L~~~ 61 (79)
+++++|-+|-|||++.+-+-.+...-.
T Consensus 438 hT~I~G~tGaGKTvLl~~llaq~~k~~ 464 (796)
T COG3451 438 HTLIIGPTGAGKTVLLSFLLAQALKYG 464 (796)
T ss_pred CeEEECCCCCCHHHHHHHHHHHHHHhc
Confidence 799999999999999998887776654
No 412
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=40.22 E-value=19 Score=27.51 Aligned_cols=27 Identities=11% Similarity=0.169 Sum_probs=22.4
Q ss_pred CceEeeeeecccCccccchhhhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~ 57 (79)
|--+.+-+.|..|.||||+.+.+....
T Consensus 54 ~~~~~igi~G~~GaGKSTl~~~l~~~l 80 (332)
T PRK09435 54 GNALRIGITGVPGVGKSTFIEALGMHL 80 (332)
T ss_pred CCcEEEEEECCCCCCHHHHHHHHHHHH
Confidence 666789999999999999999865443
No 413
>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional
Probab=40.21 E-value=17 Score=25.20 Aligned_cols=20 Identities=0% Similarity=-0.129 Sum_probs=17.1
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||++..+..
T Consensus 16 ~~l~G~NGsGKSTLlk~i~G 35 (213)
T PRK15177 16 IGILAAPGSGKTTLTRLLCG 35 (213)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 56899999999999887764
No 414
>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=40.20 E-value=19 Score=23.34 Aligned_cols=20 Identities=5% Similarity=0.011 Sum_probs=17.3
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||||+.+.+..
T Consensus 28 ~~i~G~nGsGKStll~~l~g 47 (157)
T cd00267 28 VALVGPNGSGKSTLLRAIAG 47 (157)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 56899999999999888764
No 415
>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=40.20 E-value=16 Score=25.13 Aligned_cols=20 Identities=5% Similarity=-0.059 Sum_probs=17.6
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||||+...+..
T Consensus 30 ~~l~G~nGsGKSTLl~~i~G 49 (236)
T cd03253 30 VAIVGPSGSGKSTILRLLFR 49 (236)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 57999999999999888865
No 416
>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.
Probab=40.15 E-value=18 Score=24.15 Aligned_cols=21 Identities=10% Similarity=-0.103 Sum_probs=17.6
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+.++|.+|.||||+.+.+...
T Consensus 29 ~~i~G~nGsGKSTLl~~l~G~ 49 (182)
T cd03215 29 VGIAGLVGNGQTELAEALFGL 49 (182)
T ss_pred EEEECCCCCCHHHHHHHHhCC
Confidence 578999999999998876643
No 417
>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional
Probab=40.14 E-value=18 Score=25.11 Aligned_cols=21 Identities=0% Similarity=-0.095 Sum_probs=17.7
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+-++|.+|.||||+...+-..
T Consensus 32 ~~l~G~nGsGKSTLl~~l~G~ 52 (241)
T PRK10895 32 VGLLGPNGAGKTTTFYMVVGI 52 (241)
T ss_pred EEEECCCCCCHHHHHHHHhCC
Confidence 468999999999998877653
No 418
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=40.02 E-value=20 Score=25.69 Aligned_cols=23 Identities=4% Similarity=-0.087 Sum_probs=18.9
Q ss_pred EeeeeecccCccccchhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~ 56 (79)
-++.+.|.+|+|||++-..+..+
T Consensus 31 ~~~ll~Gp~G~GKT~la~~ia~~ 53 (305)
T TIGR00635 31 DHLLLYGPPGLGKTTLAHIIANE 53 (305)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH
Confidence 35789999999999998877654
No 419
>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor. The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI s are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLIs have an N-terminal Fe-S domain and two nucleotide binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=40.01 E-value=16 Score=26.24 Aligned_cols=21 Identities=10% Similarity=0.115 Sum_probs=17.8
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+.++|.+|.||||+.+.+..-
T Consensus 29 ~~IvG~nGsGKSTLlk~l~Gl 49 (255)
T cd03236 29 LGLVGPNGIGKSTALKILAGK 49 (255)
T ss_pred EEEECCCCCCHHHHHHHHhCC
Confidence 789999999999998776643
No 420
>PRK13949 shikimate kinase; Provisional
Probab=39.98 E-value=16 Score=24.61 Aligned_cols=18 Identities=6% Similarity=0.054 Sum_probs=15.0
Q ss_pred eeeeecccCccccchhhh
Q psy5599 35 TLMVVDLKDVTSNVHYEN 52 (79)
Q Consensus 35 n~mvvglsglgkst~~e~ 52 (79)
++.++|..|.||+|+--.
T Consensus 3 ~I~liG~~GsGKstl~~~ 20 (169)
T PRK13949 3 RIFLVGYMGAGKTTLGKA 20 (169)
T ss_pred EEEEECCCCCCHHHHHHH
Confidence 588999999999987543
No 421
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=39.98 E-value=17 Score=26.09 Aligned_cols=23 Identities=0% Similarity=-0.083 Sum_probs=18.8
Q ss_pred eEeeeeecccCccccchhhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~ 55 (79)
.-.+++.|..|+|||++-..+-.
T Consensus 21 g~~vLL~G~~GtGKT~lA~~la~ 43 (262)
T TIGR02640 21 GYPVHLRGPAGTGKTTLAMHVAR 43 (262)
T ss_pred CCeEEEEcCCCCCHHHHHHHHHH
Confidence 34678999999999998877654
No 422
>PRK07667 uridine kinase; Provisional
Probab=39.90 E-value=24 Score=24.07 Aligned_cols=26 Identities=15% Similarity=0.138 Sum_probs=20.6
Q ss_pred CceEeeeeecccCccccchhhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~ 56 (79)
+-.+-+-+.|.+|.||||+-+.+...
T Consensus 15 ~~~~iIgI~G~~gsGKStla~~L~~~ 40 (193)
T PRK07667 15 ENRFILGIDGLSRSGKTTFVANLKEN 40 (193)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence 44477889999999999988777653
No 423
>PRK03846 adenylylsulfate kinase; Provisional
Probab=39.87 E-value=17 Score=24.77 Aligned_cols=22 Identities=9% Similarity=0.010 Sum_probs=17.3
Q ss_pred EeeeeecccCccccchhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~ 55 (79)
..+.++|.+|.||||+-..+-.
T Consensus 25 ~~i~i~G~~GsGKSTla~~l~~ 46 (198)
T PRK03846 25 VVLWFTGLSGSGKSTVAGALEE 46 (198)
T ss_pred EEEEEECCCCCCHHHHHHHHHH
Confidence 3577889999999998766654
No 424
>TIGR03754 conj_TOL_TraD conjugative coupling factor TraD, TOL family. Members of this protein are assigned by homology to the TraD family of conjugative coupling factor. This particular clade serves as a marker for an extended gene region that occurs occasionally on plasmids, including the toluene catabolism TOL plasmid. More commonly, the gene region is chromosomal, flanked by various markers of conjugative transfer and insertion.
Probab=39.81 E-value=19 Score=30.13 Aligned_cols=30 Identities=10% Similarity=-0.108 Sum_probs=25.8
Q ss_pred ceEeeeeecccCccccchhhhhhhhhhcCC
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKLAGL 61 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L~~~ 61 (79)
..-.++++|-+|.|||++++.+-.+.+...
T Consensus 179 ~~gHtlV~GtTGsGKT~l~~~li~q~i~~g 208 (643)
T TIGR03754 179 RVGHTLVLGTTRVGKTRLAELLITQDIRRG 208 (643)
T ss_pred ccCceEEECCCCCCHHHHHHHHHHHHHHcC
Confidence 456789999999999999999988888653
No 425
>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....
Probab=39.80 E-value=19 Score=24.34 Aligned_cols=20 Identities=0% Similarity=-0.074 Sum_probs=16.5
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-+.|-+|.||||+=+.+..
T Consensus 2 IgI~G~sgSGKTTla~~L~~ 21 (194)
T PF00485_consen 2 IGIAGPSGSGKTTLAKRLAQ 21 (194)
T ss_dssp EEEEESTTSSHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 56899999999999776654
No 426
>PRK00698 tmk thymidylate kinase; Validated
Probab=39.80 E-value=20 Score=23.80 Aligned_cols=21 Identities=5% Similarity=0.121 Sum_probs=18.0
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+-+.|..|.||||+.+.+...
T Consensus 6 I~ieG~~gsGKsT~~~~L~~~ 26 (205)
T PRK00698 6 ITIEGIDGAGKSTQIELLKEL 26 (205)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 678899999999999877654
No 427
>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=39.79 E-value=17 Score=25.30 Aligned_cols=20 Identities=0% Similarity=-0.079 Sum_probs=17.5
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 31 ~~i~G~nGsGKSTLl~~l~G 50 (239)
T cd03296 31 VALLGPSGSGKTTLLRLIAG 50 (239)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 66999999999999888764
No 428
>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional
Probab=39.73 E-value=17 Score=25.48 Aligned_cols=20 Identities=5% Similarity=0.114 Sum_probs=17.0
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 33 ~~l~G~nGsGKSTLl~~l~G 52 (253)
T PRK14267 33 FALMGPSGCGKSTLLRTFNR 52 (253)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 46999999999999887664
No 429
>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional
Probab=39.73 E-value=17 Score=25.35 Aligned_cols=20 Identities=0% Similarity=0.008 Sum_probs=17.2
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 32 ~~i~G~nGsGKSTLl~~l~G 51 (250)
T PRK11264 32 VAIIGPSGSGKTTLLRCINL 51 (250)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 56899999999999887764
No 430
>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=39.70 E-value=13 Score=27.92 Aligned_cols=16 Identities=13% Similarity=-0.004 Sum_probs=13.3
Q ss_pred eeeecccCccccchhh
Q psy5599 36 LMVVDLKDVTSNVHYE 51 (79)
Q Consensus 36 ~mvvglsglgkst~~e 51 (79)
+-++|+||.||||+-.
T Consensus 36 lgivGeSGsGKSTL~r 51 (252)
T COG1124 36 LGIVGESGSGKSTLAR 51 (252)
T ss_pred EEEEcCCCCCHHHHHH
Confidence 4589999999999843
No 431
>PRK13539 cytochrome c biogenesis protein CcmA; Provisional
Probab=39.69 E-value=19 Score=24.61 Aligned_cols=21 Identities=5% Similarity=-0.056 Sum_probs=17.8
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+-++|.+|.||||+.+.+...
T Consensus 31 ~~i~G~nGsGKSTLl~~l~G~ 51 (207)
T PRK13539 31 LVLTGPNGSGKTTLLRLIAGL 51 (207)
T ss_pred EEEECCCCCCHHHHHHHHhCC
Confidence 468999999999998877753
No 432
>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional
Probab=39.61 E-value=17 Score=25.40 Aligned_cols=20 Identities=5% Similarity=-0.002 Sum_probs=17.3
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+.+.+..
T Consensus 32 ~~i~G~nGsGKSTLl~~i~G 51 (250)
T PRK14247 32 TALMGPSGSGKSTLLRVFNR 51 (250)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 56999999999999887764
No 433
>PRK11124 artP arginine transporter ATP-binding subunit; Provisional
Probab=39.52 E-value=19 Score=25.06 Aligned_cols=20 Identities=5% Similarity=0.057 Sum_probs=17.4
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-+.|.+|.||||+.+.+..
T Consensus 31 ~~i~G~nGsGKSTLl~~l~G 50 (242)
T PRK11124 31 LVLLGPSGAGKSSLLRVLNL 50 (242)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 57899999999999888764
No 434
>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D. This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.
Probab=39.49 E-value=17 Score=25.28 Aligned_cols=20 Identities=0% Similarity=-0.007 Sum_probs=17.1
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 14 ~~i~G~nGsGKSTLl~~l~G 33 (230)
T TIGR01184 14 ISLIGHSGCGKSTLLNLISG 33 (230)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 67899999999999887654
No 435
>PRK14261 phosphate ABC transporter ATP-binding protein; Provisional
Probab=39.43 E-value=18 Score=25.31 Aligned_cols=20 Identities=5% Similarity=0.046 Sum_probs=17.3
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||||+...+..
T Consensus 35 ~~i~G~nGsGKSTLl~~l~G 54 (253)
T PRK14261 35 TALIGPSGCGKSTLLRCFNR 54 (253)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 56899999999999888864
No 436
>PTZ00258 GTP-binding protein; Provisional
Probab=39.38 E-value=19 Score=28.24 Aligned_cols=28 Identities=14% Similarity=0.341 Sum_probs=23.2
Q ss_pred CceEeeeeecccCccccchhhhhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~L 58 (79)
+..+.+-++|...+||||++|.+-....
T Consensus 19 ~~~~kvgIVG~PNvGKSTLfnaLt~~~~ 46 (390)
T PTZ00258 19 GNNLKMGIVGLPNVGKSTTFNALCKQQV 46 (390)
T ss_pred CCCcEEEEECCCCCChHHHHHHHhcCcc
Confidence 5666789999999999999999965543
No 437
>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=39.35 E-value=18 Score=24.72 Aligned_cols=21 Identities=5% Similarity=-0.016 Sum_probs=17.9
Q ss_pred eeeeecccCccccchhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~ 55 (79)
++-++|..+.||||+.|.+..
T Consensus 1 ~i~iiG~~~~GKStL~~~Ll~ 21 (208)
T cd04166 1 RFLTCGSVDDGKSTLIGRLLY 21 (208)
T ss_pred CEEEEECCCCCHHHHHHHHHH
Confidence 467899999999999998854
No 438
>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional
Probab=39.32 E-value=17 Score=25.38 Aligned_cols=21 Identities=0% Similarity=0.041 Sum_probs=17.7
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+-++|.+|.||||+...+..-
T Consensus 34 ~~l~G~nGsGKSTLl~~l~Gl 54 (255)
T PRK11300 34 VSLIGPNGAGKTTVFNCLTGF 54 (255)
T ss_pred EEEECCCCCCHHHHHHHHhCC
Confidence 569999999999998877653
No 439
>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals. Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].
Probab=39.25 E-value=24 Score=25.29 Aligned_cols=27 Identities=4% Similarity=-0.090 Sum_probs=22.2
Q ss_pred CceEeeeeecccCccccchhhhhhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~ 57 (79)
.-.+.+.+.|.=|.|||++.+.+....
T Consensus 18 ~~~~~IgL~G~WGsGKSs~l~~l~~~L 44 (325)
T PF07693_consen 18 DDPFVIGLYGEWGSGKSSFLNMLKEEL 44 (325)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence 356788999999999999998876543
No 440
>PRK14240 phosphate transporter ATP-binding protein; Provisional
Probab=39.11 E-value=19 Score=25.13 Aligned_cols=20 Identities=0% Similarity=0.031 Sum_probs=17.5
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||||+...+..
T Consensus 32 ~~i~G~nGsGKSTLl~~i~G 51 (250)
T PRK14240 32 TALIGPSGCGKSTFLRTLNR 51 (250)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 56999999999999888764
No 441
>CHL00095 clpC Clp protease ATP binding subunit
Probab=39.03 E-value=16 Score=30.80 Aligned_cols=24 Identities=13% Similarity=0.051 Sum_probs=20.2
Q ss_pred EeeeeecccCccccchhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~ 57 (79)
=|+.++|.+|+|||++.+.+-..-
T Consensus 201 ~n~lL~G~pGvGKTal~~~la~~i 224 (821)
T CHL00095 201 NNPILIGEPGVGKTAIAEGLAQRI 224 (821)
T ss_pred CCeEEECCCCCCHHHHHHHHHHHH
Confidence 378999999999999998886543
No 442
>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional
Probab=38.90 E-value=18 Score=25.09 Aligned_cols=20 Identities=5% Similarity=0.006 Sum_probs=17.4
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 38 ~~l~G~nGsGKSTLl~~l~G 57 (233)
T PRK11629 38 MAIVGSSGSGKSTLLHLLGG 57 (233)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 56999999999999888765
No 443
>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE. Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.
Probab=38.88 E-value=19 Score=24.71 Aligned_cols=20 Identities=10% Similarity=0.049 Sum_probs=17.2
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 29 ~~l~G~nGsGKSTLl~~l~G 48 (230)
T TIGR03410 29 TCVLGRNGVGKTTLLKTLMG 48 (230)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 67899999999999887664
No 444
>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+). This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.
Probab=38.75 E-value=20 Score=24.99 Aligned_cols=21 Identities=0% Similarity=-0.059 Sum_probs=17.5
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+.+.|.+|.||||+-+.+...
T Consensus 2 i~i~G~sgsGKTtla~~l~~~ 22 (187)
T cd02024 2 VGISGVTNSGKTTLAKLLQRI 22 (187)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 567899999999998877664
No 445
>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=38.73 E-value=18 Score=25.93 Aligned_cols=20 Identities=5% Similarity=0.124 Sum_probs=17.3
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||||+...+..
T Consensus 53 ~~l~G~nGsGKSTLl~~L~G 72 (269)
T cd03294 53 FVIMGLSGSGKSTLLRCINR 72 (269)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 67899999999999887754
No 446
>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....
Probab=38.68 E-value=20 Score=24.41 Aligned_cols=22 Identities=5% Similarity=-0.019 Sum_probs=17.6
Q ss_pred EeeeeecccCccccchhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~ 55 (79)
.+++++|.+|+||+.+-+.+-.
T Consensus 4 ~~~ll~GpsGvGKT~la~~la~ 25 (171)
T PF07724_consen 4 SNFLLAGPSGVGKTELAKALAE 25 (171)
T ss_dssp EEEEEESSTTSSHHHHHHHHHH
T ss_pred EEEEEECCCCCCHHHHHHHHHH
Confidence 4789999999999987665544
No 447
>COG4172 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]
Probab=38.65 E-value=17 Score=29.71 Aligned_cols=17 Identities=12% Similarity=-0.132 Sum_probs=14.0
Q ss_pred eeeecccCccccchhhh
Q psy5599 36 LMVVDLKDVTSNVHYEN 52 (79)
Q Consensus 36 ~mvvglsglgkst~~e~ 52 (79)
+=+||+||.||+|+=-.
T Consensus 316 lGlVGESGSGKsTlG~a 332 (534)
T COG4172 316 LGLVGESGSGKSTLGLA 332 (534)
T ss_pred EEEEecCCCCcchHHHH
Confidence 56899999999998443
No 448
>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=38.59 E-value=20 Score=24.99 Aligned_cols=20 Identities=5% Similarity=0.079 Sum_probs=17.2
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||||+...+..
T Consensus 30 ~~i~G~nGsGKSTLl~~l~G 49 (242)
T cd03295 30 LVLIGPSGSGKTTTMKMINR 49 (242)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 56999999999999887764
No 449
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=38.55 E-value=15 Score=29.65 Aligned_cols=23 Identities=9% Similarity=0.156 Sum_probs=18.2
Q ss_pred CceEeeeeecccCccccchhhhh
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENF 53 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~ 53 (79)
.....+++.|++|+||+++=...
T Consensus 346 ~~~~pvli~Ge~GtGK~~~A~~i 368 (638)
T PRK11388 346 KSSFPVLLCGEEGVGKALLAQAI 368 (638)
T ss_pred CcCCCEEEECCCCcCHHHHHHHH
Confidence 56778999999999998764433
No 450
>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1). NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.
Probab=38.55 E-value=18 Score=24.50 Aligned_cols=20 Identities=5% Similarity=-0.084 Sum_probs=17.1
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.+.|.+|.||||+...+..
T Consensus 37 ~~i~G~nGsGKSTLl~~l~G 56 (207)
T cd03369 37 IGIVGRTGAGKSTLILALFR 56 (207)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 56889999999999887754
No 451
>KOG1423|consensus
Probab=38.43 E-value=23 Score=27.87 Aligned_cols=34 Identities=9% Similarity=0.130 Sum_probs=29.1
Q ss_pred CceEeeeeecccCccccchhhhhhhhhhcCCCCC
Q psy5599 31 GFEFTLMVVDLKDVTSNVHYENFRCRKLAGLGTD 64 (79)
Q Consensus 31 g~~fn~mvvglsglgkst~~e~~r~~~L~~~~~~ 64 (79)
--.+++-++|...+||+|+.|+.-..++...+..
T Consensus 70 ~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K 103 (379)
T KOG1423|consen 70 QKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRK 103 (379)
T ss_pred ceEEEEEEEcCCCcchhhhhhHhhCCcccccccc
Confidence 3567899999999999999999999888876644
No 452
>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.
Probab=38.33 E-value=20 Score=23.76 Aligned_cols=21 Identities=0% Similarity=-0.013 Sum_probs=17.8
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+-+.|.+|.||||+...+...
T Consensus 31 ~~i~G~nGsGKStLl~~l~G~ 51 (178)
T cd03247 31 IALLGRSGSGKSTLLQLLTGD 51 (178)
T ss_pred EEEECCCCCCHHHHHHHHhcc
Confidence 568999999999998887653
No 453
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=38.27 E-value=13 Score=30.06 Aligned_cols=41 Identities=10% Similarity=0.037 Sum_probs=25.4
Q ss_pred ceeeeeCCChHHHHHHhh-CceEeeeeecccCccccchhhhh
Q psy5599 13 YIGFANLPNQVFRKAVKK-GFEFTLMVVDLKDVTSNVHYENF 53 (79)
Q Consensus 13 ~~G~~~lpnq~~~~~~K~-g~~fn~mvvglsglgkst~~e~~ 53 (79)
.+|-...=.+......+. ....++++.|++|+||+.+=...
T Consensus 214 iiG~S~~m~~~~~~i~~~A~~~~pVLI~GE~GTGKe~lA~~I 255 (526)
T TIGR02329 214 LLGASAPMEQVRALVRLYARSDATVLILGESGTGKELVAQAI 255 (526)
T ss_pred eeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCcCHHHHHHHH
Confidence 455444222233333333 67889999999999998764443
No 454
>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra
Probab=38.24 E-value=21 Score=23.69 Aligned_cols=20 Identities=5% Similarity=-0.056 Sum_probs=17.6
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 31 ~~i~G~nGsGKStLl~~l~G 50 (173)
T cd03246 31 LAIIGPSGSGKSTLARLILG 50 (173)
T ss_pred EEEECCCCCCHHHHHHHHHh
Confidence 57999999999999888765
No 455
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=38.21 E-value=36 Score=24.14 Aligned_cols=32 Identities=9% Similarity=-0.095 Sum_probs=22.7
Q ss_pred HHHhhCceEeeeeecccCccccchhhhhhhhh
Q psy5599 26 KAVKKGFEFTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 26 ~~~K~g~~fn~mvvglsglgkst~~e~~r~~~ 57 (79)
..++.+-.=++.+.|..|.||+++...+..+.
T Consensus 31 ~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l 62 (319)
T PRK00440 31 SYVKEKNMPHLLFAGPPGTGKTTAALALAREL 62 (319)
T ss_pred HHHhCCCCCeEEEECCCCCCHHHHHHHHHHHH
Confidence 33444333357999999999999988776553
No 456
>TIGR03783 Bac_Flav_CT_G Bacteroides conjugation system ATPase, TraG family. Members of this family include the predicted ATPase, TraG, encoded by transfer region genes of conjugative transposons of Bacteroides, such as CTnDOT, found on the main chromosome. Members also include TraG homologs borne on plasmids in Bacteroides. The protein family is related to the conjugative transfer system ATPase VirB4.
Probab=38.20 E-value=21 Score=30.40 Aligned_cols=29 Identities=0% Similarity=-0.070 Sum_probs=24.2
Q ss_pred ceEeeeeecccCccccchhhhhhhhhhcC
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
..-|+.+.|.+|.|||++.+.+..+.+..
T Consensus 437 ~n~N~~I~G~sGsGKS~l~~~l~~~~~~~ 465 (829)
T TIGR03783 437 TNRNKFILGPSGSGKSFFTNHLVRQYYEQ 465 (829)
T ss_pred ccCceEEECCCCCCHHHHHHHHHHHHHhc
Confidence 46789999999999999998888766554
No 457
>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E. coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.
Probab=38.19 E-value=18 Score=24.95 Aligned_cols=20 Identities=5% Similarity=-0.056 Sum_probs=17.2
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+-.
T Consensus 31 ~~i~G~nGsGKSTLl~~l~G 50 (237)
T cd03252 31 VGIVGRSGSGKSTLTKLIQR 50 (237)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 67999999999999877664
No 458
>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=38.17 E-value=19 Score=24.74 Aligned_cols=19 Identities=5% Similarity=-0.011 Sum_probs=16.2
Q ss_pred eeeecccCccccchhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r 54 (79)
+-++|.+|.||||+.+...
T Consensus 24 ~~l~G~nG~GKSTLl~~il 42 (176)
T cd03238 24 VVVTGVSGSGKSTLVNEGL 42 (176)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 5689999999999987663
No 459
>PRK11022 dppD dipeptide transporter ATP-binding subunit; Provisional
Probab=38.07 E-value=19 Score=26.86 Aligned_cols=20 Identities=10% Similarity=-0.052 Sum_probs=17.0
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|++|.||||+...+-.
T Consensus 36 ~~lvG~sGsGKSTL~~~l~G 55 (326)
T PRK11022 36 VGIVGESGSGKSVSSLAIMG 55 (326)
T ss_pred EEEECCCCChHHHHHHHHHc
Confidence 45999999999999887754
No 460
>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]
Probab=37.92 E-value=18 Score=28.47 Aligned_cols=25 Identities=12% Similarity=0.244 Sum_probs=20.0
Q ss_pred eEeeeeecccCccccchhhhhhhhh
Q psy5599 33 EFTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 33 ~fn~mvvglsglgkst~~e~~r~~~ 57 (79)
.+.+=+||+..+|||||+|.+=...
T Consensus 2 ~l~~GIVGlPNVGKSTlFnAlT~~~ 26 (372)
T COG0012 2 SLKIGIVGLPNVGKSTLFNALTKAG 26 (372)
T ss_pred CceeEEecCCCCcHHHHHHHHHcCC
Confidence 3566789999999999998776544
No 461
>PRK13873 conjugal transfer ATPase TrbE; Provisional
Probab=37.86 E-value=26 Score=29.43 Aligned_cols=25 Identities=12% Similarity=-0.005 Sum_probs=21.3
Q ss_pred eeeeecccCccccchhhhhhhhhhc
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKLA 59 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L~ 59 (79)
|+++.|.+|.|||++.+.+-.+.+.
T Consensus 443 n~~I~G~tGsGKS~l~~~l~~~~~~ 467 (811)
T PRK13873 443 HTLVVGPTGAGKSVLLALMALQFRR 467 (811)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhhh
Confidence 8899999999999999887765543
No 462
>PRK14241 phosphate transporter ATP-binding protein; Provisional
Probab=37.78 E-value=20 Score=25.21 Aligned_cols=20 Identities=0% Similarity=-0.029 Sum_probs=17.3
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+.+.+-.
T Consensus 33 ~~i~G~nGsGKSTLl~~laG 52 (258)
T PRK14241 33 TAFIGPSGCGKSTVLRTLNR 52 (258)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 56899999999999888765
No 463
>CHL00131 ycf16 sulfate ABC transporter protein; Validated
Probab=37.77 E-value=19 Score=25.15 Aligned_cols=20 Identities=0% Similarity=-0.109 Sum_probs=16.9
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+-.
T Consensus 36 ~~i~G~nGsGKSTLl~~i~G 55 (252)
T CHL00131 36 HAIMGPNGSGKSTLSKVIAG 55 (252)
T ss_pred EEEECCCCCCHHHHHHHHcC
Confidence 55899999999999887654
No 464
>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein.
Probab=37.58 E-value=21 Score=24.89 Aligned_cols=20 Identities=0% Similarity=-0.069 Sum_probs=17.2
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 29 ~~l~G~nGsGKSTLl~~i~G 48 (237)
T TIGR00968 29 VALLGPSGSGKSTLLRIIAG 48 (237)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 45899999999999888864
No 465
>PRK11308 dppF dipeptide transporter ATP-binding subunit; Provisional
Probab=37.40 E-value=20 Score=26.76 Aligned_cols=20 Identities=15% Similarity=0.031 Sum_probs=17.0
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|++|.||||+...+-.
T Consensus 44 ~~IvG~sGsGKSTLl~~l~g 63 (327)
T PRK11308 44 LAVVGESGCGKSTLARLLTM 63 (327)
T ss_pred EEEECCCCCcHHHHHHHHHc
Confidence 56899999999999877754
No 466
>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]
Probab=37.39 E-value=20 Score=28.32 Aligned_cols=19 Identities=5% Similarity=0.001 Sum_probs=16.4
Q ss_pred eeeecccCccccchhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r 54 (79)
+.++|.+|.||+|+.+.+.
T Consensus 358 vaiVG~sGsGKSTl~~LL~ 376 (567)
T COG1132 358 VAIVGPSGSGKSTLIKLLL 376 (567)
T ss_pred EEEECCCCCCHHHHHHHHh
Confidence 4689999999999988765
No 467
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=37.35 E-value=14 Score=29.99 Aligned_cols=42 Identities=7% Similarity=0.044 Sum_probs=26.5
Q ss_pred ceeeeeCCChHHHHHHhh-CceEeeeeecccCccccchhhhhh
Q psy5599 13 YIGFANLPNQVFRKAVKK-GFEFTLMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 13 ~~G~~~lpnq~~~~~~K~-g~~fn~mvvglsglgkst~~e~~r 54 (79)
.+|-...=.+......+. ....++++.|++|+||+++=..+.
T Consensus 221 iiG~S~~m~~~~~~i~~~A~s~~pVLI~GE~GTGKe~~A~~IH 263 (538)
T PRK15424 221 LLGQSPQMEQVRQTILLYARSSAAVLIQGETGTGKELAAQAIH 263 (538)
T ss_pred eeeCCHHHHHHHHHHHHHhCCCCcEEEECCCCCCHHHHHHHHH
Confidence 455544323333333333 678899999999999987644443
No 468
>PRK09601 GTP-binding protein YchF; Reviewed
Probab=37.29 E-value=20 Score=27.86 Aligned_cols=24 Identities=13% Similarity=0.192 Sum_probs=20.9
Q ss_pred EeeeeecccCccccchhhhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~~~ 57 (79)
+.+-++|...+||||++|.+-...
T Consensus 3 ~~vgIVG~PNvGKSTLfnaLt~~~ 26 (364)
T PRK09601 3 LKCGIVGLPNVGKSTLFNALTKAG 26 (364)
T ss_pred cEEEEECCCCCCHHHHHHHHhCCC
Confidence 567899999999999999987665
No 469
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=37.28 E-value=22 Score=24.82 Aligned_cols=22 Identities=5% Similarity=-0.062 Sum_probs=17.8
Q ss_pred eeeeecccCccccchhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~ 56 (79)
.+.+.|.+|.||+|+-..+-..
T Consensus 5 ~i~i~G~~G~GKst~a~~l~~~ 26 (197)
T PRK12339 5 IHFIGGIPGVGKTSISGYIARH 26 (197)
T ss_pred EEEEECCCCCCHHHHHHHHHHh
Confidence 4789999999999987666544
No 470
>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA. This family consists of a single polypeptide chain transporter in the ATP-binding cassette (ABC) transporter family, MsbA, which exports lipid A. It may also act in multidrug resistance. Lipid A, a part of lipopolysaccharide, is found in the outer leaflet of the outer membrane of most Gram-negative bacteria. Members of this family are restricted to the Proteobacteria (although lipid A is more broadly distributed) and often are clustered with lipid A biosynthesis genes.
Probab=37.26 E-value=20 Score=28.04 Aligned_cols=20 Identities=5% Similarity=-0.062 Sum_probs=17.0
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||||+...+-.
T Consensus 361 v~IvG~sGsGKSTLl~lL~g 380 (571)
T TIGR02203 361 VALVGRSGSGKSTLVNLIPR 380 (571)
T ss_pred EEEECCCCCCHHHHHHHHHh
Confidence 48999999999999887653
No 471
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=37.22 E-value=18 Score=29.21 Aligned_cols=19 Identities=11% Similarity=0.104 Sum_probs=15.9
Q ss_pred ceEeeeeecccCccccchh
Q psy5599 32 FEFTLMVVDLKDVTSNVHY 50 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~ 50 (79)
-...+||||+.|.||||-.
T Consensus 99 ~P~vImmvGLQGsGKTTt~ 117 (451)
T COG0541 99 PPTVILMVGLQGSGKTTTA 117 (451)
T ss_pred CCeEEEEEeccCCChHhHH
Confidence 3466999999999999863
No 472
>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=37.21 E-value=21 Score=25.45 Aligned_cols=20 Identities=10% Similarity=0.084 Sum_probs=17.0
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 30 ~~i~G~nGsGKSTLl~~l~G 49 (271)
T PRK13638 30 TGLVGANGCGKSTLFMNLSG 49 (271)
T ss_pred EEEECCCCCCHHHHHHHHcC
Confidence 56999999999999887654
No 473
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=37.11 E-value=25 Score=25.28 Aligned_cols=24 Identities=13% Similarity=0.286 Sum_probs=19.3
Q ss_pred eeeeecccCccccchhhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L 58 (79)
.+.+.|.+|.|||+|--.|-...+
T Consensus 38 ~~lI~G~pGtGKT~l~~qf~~~~a 61 (259)
T TIGR03878 38 VINITGVSDTGKSLMVEQFAVTQA 61 (259)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHH
Confidence 488999999999999777755443
No 474
>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]
Probab=37.04 E-value=20 Score=26.52 Aligned_cols=18 Identities=0% Similarity=0.021 Sum_probs=15.4
Q ss_pred eeeecccCccccchhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENF 53 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~ 53 (79)
+-+.|.||-||+|+.|-.
T Consensus 28 vAi~GpSGaGKSTLLnLI 45 (231)
T COG3840 28 VAILGPSGAGKSTLLNLI 45 (231)
T ss_pred EEEECCCCccHHHHHHHH
Confidence 568999999999998754
No 475
>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional
Probab=37.02 E-value=21 Score=24.67 Aligned_cols=20 Identities=0% Similarity=0.021 Sum_probs=16.8
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 34 ~~i~G~nGsGKSTLl~~l~G 53 (237)
T PRK11614 34 VTLIGANGAGKTTLLGTLCG 53 (237)
T ss_pred EEEECCCCCCHHHHHHHHcC
Confidence 44999999999999887754
No 476
>PRK14242 phosphate transporter ATP-binding protein; Provisional
Probab=37.02 E-value=20 Score=25.11 Aligned_cols=20 Identities=0% Similarity=-0.007 Sum_probs=17.5
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 35 ~~i~G~nGsGKSTLl~~l~G 54 (253)
T PRK14242 35 TALIGPSGCGKSTFLRCLNR 54 (253)
T ss_pred EEEECCCCCCHHHHHHHHHh
Confidence 56999999999999988864
No 477
>PRK00889 adenylylsulfate kinase; Provisional
Probab=36.94 E-value=22 Score=23.40 Aligned_cols=21 Identities=10% Similarity=0.025 Sum_probs=16.5
Q ss_pred eeeeecccCccccchhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~ 55 (79)
.+.+.|.+|.||||+-..+-.
T Consensus 6 ~i~~~G~~GsGKST~a~~la~ 26 (175)
T PRK00889 6 TVWFTGLSGAGKTTIARALAE 26 (175)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 467889999999998665544
No 478
>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).
Probab=36.81 E-value=20 Score=24.69 Aligned_cols=20 Identities=0% Similarity=-0.036 Sum_probs=17.1
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 29 ~~l~G~nGsGKSTLl~~l~G 48 (236)
T cd03219 29 HGLIGPNGAGKTTLFNLISG 48 (236)
T ss_pred EEEECCCCCCHHHHHHHHcC
Confidence 57999999999999887754
No 479
>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.
Probab=36.78 E-value=22 Score=24.16 Aligned_cols=21 Identities=0% Similarity=-0.094 Sum_probs=17.7
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+-++|.+|.||||+.+.+...
T Consensus 29 ~~i~G~nGsGKStLl~~l~G~ 49 (200)
T cd03217 29 HALMGPNGSGKSTLAKTIMGH 49 (200)
T ss_pred EEEECCCCCCHHHHHHHHhCC
Confidence 569999999999998877643
No 480
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=36.76 E-value=21 Score=26.32 Aligned_cols=22 Identities=0% Similarity=-0.031 Sum_probs=18.7
Q ss_pred EeeeeecccCccccchhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~ 55 (79)
-++.++|..|.||||+.+.+..
T Consensus 145 ~~ili~G~tGsGKTTll~al~~ 166 (308)
T TIGR02788 145 KNIIISGGTGSGKTTFLKSLVD 166 (308)
T ss_pred CEEEEECCCCCCHHHHHHHHHc
Confidence 4789999999999999876653
No 481
>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=36.71 E-value=17 Score=26.11 Aligned_cols=18 Identities=6% Similarity=0.045 Sum_probs=14.9
Q ss_pred eecccCccccchhhhhhh
Q psy5599 38 VVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 38 vvglsglgkst~~e~~r~ 55 (79)
|+|-.|.||||+...+..
T Consensus 1 ViGpaGSGKTT~~~~~~~ 18 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSE 18 (238)
T ss_dssp -EESTTSSHHHHHHHHHH
T ss_pred CCCCCCCCHHHHHHHHHH
Confidence 579999999999888765
No 482
>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional
Probab=36.62 E-value=20 Score=25.59 Aligned_cols=20 Identities=5% Similarity=0.018 Sum_probs=17.4
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+.+.+..
T Consensus 42 ~~i~G~NGsGKSTLl~~l~G 61 (267)
T PRK15112 42 LAIIGENGSGKSTLAKMLAG 61 (267)
T ss_pred EEEEcCCCCCHHHHHHHHhC
Confidence 56999999999999888764
No 483
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=36.55 E-value=21 Score=27.25 Aligned_cols=19 Identities=11% Similarity=0.169 Sum_probs=17.3
Q ss_pred eeeecccCccccchhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r 54 (79)
+++.|.+|+||||+...+-
T Consensus 28 vli~G~~G~gKttl~r~~~ 46 (337)
T TIGR02030 28 VMVMGDRGTGKSTAVRALA 46 (337)
T ss_pred EEEEcCCCCCHHHHHHHHH
Confidence 7899999999999988875
No 484
>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=36.55 E-value=22 Score=24.54 Aligned_cols=18 Identities=6% Similarity=0.082 Sum_probs=16.4
Q ss_pred eeecccCccccchhhhhh
Q psy5599 37 MVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 37 mvvglsglgkst~~e~~r 54 (79)
.++|..|.|||++++.+.
T Consensus 25 ~i~G~NGsGKStll~ai~ 42 (198)
T cd03276 25 FIVGNNGSGKSAILTALT 42 (198)
T ss_pred EEECCCCCcHHHHHHHHH
Confidence 689999999999998876
No 485
>COG4639 Predicted kinase [General function prediction only]
Probab=36.55 E-value=17 Score=25.70 Aligned_cols=19 Identities=0% Similarity=-0.090 Sum_probs=15.7
Q ss_pred eeeecccCccccchhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFR 54 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r 54 (79)
+.++|.+|.||+||.-.-+
T Consensus 5 vvL~G~~~sGKsT~ak~n~ 23 (168)
T COG4639 5 VVLRGASGSGKSTFAKENF 23 (168)
T ss_pred EEEecCCCCchhHHHHHhC
Confidence 6789999999999976533
No 486
>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.
Probab=36.45 E-value=20 Score=24.85 Aligned_cols=20 Identities=0% Similarity=-0.032 Sum_probs=16.9
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 51 ~~i~G~nGsGKSTLl~~l~G 70 (224)
T cd03220 51 IGLIGRNGAGKSTLLRLLAG 70 (224)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 45899999999999887764
No 487
>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters. PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=36.44 E-value=21 Score=24.12 Aligned_cols=20 Identities=0% Similarity=-0.056 Sum_probs=17.4
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||||+...+..
T Consensus 36 ~~l~G~nGsGKSTLl~~l~G 55 (192)
T cd03232 36 TALMGESGAGKTTLLDVLAG 55 (192)
T ss_pred EEEECCCCCCHHHHHHHHhC
Confidence 46899999999999888764
No 488
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=36.43 E-value=30 Score=23.74 Aligned_cols=24 Identities=13% Similarity=0.155 Sum_probs=18.7
Q ss_pred eeeeecccCccccchhhhhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRCRKL 58 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~~~L 58 (79)
.+.+.|.+|.|||++-..|....+
T Consensus 22 ~~~i~G~~G~GKT~l~~~~~~~~~ 45 (229)
T TIGR03881 22 FVAVTGEPGTGKTIFCLHFAYKGL 45 (229)
T ss_pred EEEEECCCCCChHHHHHHHHHHHH
Confidence 378899999999999777654444
No 489
>KOG0962|consensus
Probab=36.43 E-value=30 Score=31.33 Aligned_cols=22 Identities=9% Similarity=0.152 Sum_probs=19.5
Q ss_pred eeeecccCccccchhhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRK 57 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~ 57 (79)
+.++|.+|.||+|++|-+.-..
T Consensus 30 TLIvG~NG~GKTTiIEcLKyat 51 (1294)
T KOG0962|consen 30 TLIVGANGTGKTTIIECLKYAT 51 (1294)
T ss_pred eeEecCCCCCchhHHHHHHHHh
Confidence 7899999999999999887554
No 490
>PRK15079 oligopeptide ABC transporter ATP-binding protein OppF; Provisional
Probab=36.39 E-value=21 Score=26.71 Aligned_cols=20 Identities=15% Similarity=-0.012 Sum_probs=17.1
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|++|.||||+...+..
T Consensus 50 ~~lvG~sGsGKSTLlk~i~G 69 (331)
T PRK15079 50 LGVVGESGCGKSTFARAIIG 69 (331)
T ss_pred EEEECCCCCCHHHHHHHHHC
Confidence 56999999999999887764
No 491
>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit. Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD
Probab=36.33 E-value=21 Score=27.79 Aligned_cols=20 Identities=5% Similarity=-0.029 Sum_probs=17.4
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||||+.+.+..
T Consensus 351 ~~ivG~sGsGKSTL~~ll~g 370 (529)
T TIGR02857 351 VALVGPSGAGKSTLLNLLLG 370 (529)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 68999999999999887753
No 492
>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=36.32 E-value=22 Score=24.39 Aligned_cols=20 Identities=5% Similarity=-0.064 Sum_probs=17.3
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.++|.+|.||||+...+..
T Consensus 31 ~~i~G~nGsGKSTLl~~l~G 50 (234)
T cd03251 31 VALVGPSGSGKSTLVNLIPR 50 (234)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 67999999999999887754
No 493
>TIGR02173 cyt_kin_arch cytidylate kinase, putative. Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.
Probab=36.31 E-value=25 Score=22.60 Aligned_cols=21 Identities=0% Similarity=-0.122 Sum_probs=17.3
Q ss_pred eeeeecccCccccchhhhhhh
Q psy5599 35 TLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 35 n~mvvglsglgkst~~e~~r~ 55 (79)
-+.+.|.+|.||+++-+.+..
T Consensus 2 iI~i~G~~GSGKstia~~la~ 22 (171)
T TIGR02173 2 IITISGPPGSGKTTVAKILAE 22 (171)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 377899999999998777754
No 494
>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional
Probab=36.25 E-value=22 Score=25.03 Aligned_cols=21 Identities=0% Similarity=0.036 Sum_probs=17.9
Q ss_pred eeeecccCccccchhhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRCR 56 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~ 56 (79)
+-++|.+|.||||+...+...
T Consensus 41 ~~l~G~nGsGKSTLl~~l~G~ 61 (259)
T PRK14274 41 TAIIGPSGCGKSTFIKTLNLM 61 (259)
T ss_pred EEEECCCCCCHHHHHHHHHhh
Confidence 568999999999999887753
No 495
>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed
Probab=36.24 E-value=21 Score=28.18 Aligned_cols=20 Identities=5% Similarity=0.009 Sum_probs=17.4
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.||.||||+...+..
T Consensus 379 vaIvG~SGsGKSTL~~lL~g 398 (588)
T PRK11174 379 IALVGPSGAGKTSLLNALLG 398 (588)
T ss_pred EEEECCCCCCHHHHHHHHhc
Confidence 48999999999999887754
No 496
>TIGR00929 VirB4_CagE type IV secretion/conjugal transfer ATPase, VirB4 family. Type IV secretion systems are found in Gram-negative pathogens. They export proteins, DNA, or complexes in different systems and are related to plasmid conjugation systems. This model represents related ATPases that include VirB4 in Agrobacterium tumefaciens (DNA export) CagE in Helicobacter pylori (protein export) and plasmid TraB (conjugation).
Probab=36.20 E-value=27 Score=28.50 Aligned_cols=29 Identities=0% Similarity=-0.189 Sum_probs=24.2
Q ss_pred ceEeeeeecccCccccchhhhhhhhhhcC
Q psy5599 32 FEFTLMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 32 ~~fn~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
...+++++|.+|.|||++.+.+..+.+..
T Consensus 433 ~~~n~~I~G~tGsGKS~~~~~l~~~~~~~ 461 (785)
T TIGR00929 433 VLGHTLIFGPTGSGKTTLLNFLLAQMQKY 461 (785)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHHhhcc
Confidence 37889999999999999998877666553
No 497
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=36.19 E-value=28 Score=23.95 Aligned_cols=25 Identities=4% Similarity=-0.015 Sum_probs=19.5
Q ss_pred eeeecccCccccchhhhhhhhhhcC
Q psy5599 36 LMVVDLKDVTSNVHYENFRCRKLAG 60 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~~~L~~ 60 (79)
+++.|.+|.|||+|.-++.......
T Consensus 16 ~lI~G~~G~GKT~~~~~~~~~~~~~ 40 (242)
T cd00984 16 IIIAARPSMGKTAFALNIAENIAKK 40 (242)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHHh
Confidence 6789999999999977776555443
No 498
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=36.05 E-value=20 Score=24.04 Aligned_cols=20 Identities=0% Similarity=0.061 Sum_probs=17.5
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+.+.|.-|.||||+++++-.
T Consensus 3 ~ii~GfLGsGKTTli~~ll~ 22 (178)
T PF02492_consen 3 IIITGFLGSGKTTLINHLLK 22 (178)
T ss_dssp EEEEESTTSSHHHHHHHHHH
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 56889999999999998875
No 499
>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]
Probab=36.04 E-value=29 Score=25.30 Aligned_cols=22 Identities=0% Similarity=-0.088 Sum_probs=18.1
Q ss_pred EeeeeecccCccccchhhhhhh
Q psy5599 34 FTLMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 34 fn~mvvglsglgkst~~e~~r~ 55 (79)
+-+-+.|.||.||||+...+..
T Consensus 9 iiIgIaG~SgSGKTTva~~l~~ 30 (218)
T COG0572 9 IIIGIAGGSGSGKTTVAKELSE 30 (218)
T ss_pred EEEEEeCCCCCCHHHHHHHHHH
Confidence 4578899999999999776654
No 500
>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C. This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.
Probab=36.02 E-value=21 Score=24.32 Aligned_cols=20 Identities=5% Similarity=-0.124 Sum_probs=17.2
Q ss_pred eeeecccCccccchhhhhhh
Q psy5599 36 LMVVDLKDVTSNVHYENFRC 55 (79)
Q Consensus 36 ~mvvglsglgkst~~e~~r~ 55 (79)
+-++|.+|.||||+...+..
T Consensus 33 ~~i~G~nGsGKSTLl~~l~G 52 (221)
T cd03244 33 VGIVGRTGSGKSSLLLALFR 52 (221)
T ss_pred EEEECCCCCCHHHHHHHHHc
Confidence 56899999999999887764
Done!