Query 042073
Match_columns 225
No_of_seqs 165 out of 1053
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 02:33:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042073.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042073hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK13507 formate--tetrahydrofo 100.0 6.5E-97 1E-101 708.5 24.8 223 1-225 358-587 (587)
2 PLN02759 Formate--tetrahydrofo 100.0 4.1E-96 9E-101 706.9 24.2 225 1-225 407-637 (637)
3 PRK13506 formate--tetrahydrofo 100.0 5.2E-96 1E-100 702.9 24.4 222 1-225 350-578 (578)
4 PF01268 FTHFS: Formate--tetra 100.0 1.8E-96 4E-101 706.0 16.2 215 1-225 336-557 (557)
5 PTZ00386 formyl tetrahydrofola 100.0 4.4E-94 9.4E-99 691.8 24.1 217 1-225 402-625 (625)
6 COG2759 MIS1 Formyltetrahydrof 100.0 2.4E-93 5.2E-98 669.9 22.1 215 1-225 334-554 (554)
7 PRK13505 formate--tetrahydrofo 100.0 7.5E-91 1.6E-95 667.8 23.8 215 1-225 337-557 (557)
8 cd00477 FTHFS Formyltetrahydro 100.0 1.4E-87 3E-92 639.9 22.9 199 1-208 320-524 (524)
9 KOG4230 C1-tetrahydrofolate sy 100.0 3.7E-81 8E-86 600.4 18.4 223 1-225 707-935 (935)
10 PRK15452 putative protease; Pr 93.8 0.42 9.1E-06 46.3 9.4 103 31-148 46-153 (443)
11 COG1149 MinD superfamily P-loo 92.8 0.13 2.8E-06 47.4 3.9 45 28-78 198-243 (284)
12 PLN02591 tryptophan synthase 91.5 4.7 0.0001 36.3 12.3 144 3-159 28-194 (250)
13 COG0370 FeoB Fe2+ transport sy 90.9 0.72 1.6E-05 46.9 7.2 88 31-126 92-186 (653)
14 TIGR00436 era GTP-binding prot 90.8 3 6.4E-05 36.9 10.3 92 34-127 97-189 (270)
15 PRK00089 era GTPase Era; Revie 90.0 5.2 0.00011 35.4 11.2 77 33-115 102-180 (292)
16 PRK13111 trpA tryptophan synth 89.6 6.4 0.00014 35.5 11.5 145 3-159 38-205 (258)
17 cd04145 M_R_Ras_like M-Ras/R-R 89.2 2.8 6.2E-05 32.6 8.0 69 30-101 89-163 (164)
18 PF00009 GTP_EFTU: Elongation 88.7 3.5 7.7E-05 34.0 8.6 70 31-101 109-186 (188)
19 TIGR00262 trpA tryptophan synt 88.4 15 0.00032 32.9 13.0 146 3-159 36-203 (256)
20 CHL00200 trpA tryptophan synth 88.2 12 0.00027 33.8 12.4 144 3-159 41-207 (263)
21 PRK15494 era GTPase Era; Provi 87.9 4.6 9.9E-05 37.4 9.7 92 30-127 145-241 (339)
22 cd04138 H_N_K_Ras_like H-Ras/N 87.5 4.1 9E-05 31.4 7.9 69 29-100 87-160 (162)
23 TIGR03470 HpnH hopanoid biosyn 86.9 2.6 5.7E-05 38.6 7.4 57 30-86 148-204 (318)
24 COG0826 Collagenase and relate 86.9 2.9 6.3E-05 39.4 7.8 59 31-96 49-109 (347)
25 cd04112 Rab26 Rab26 subfamily. 86.8 1.7 3.6E-05 35.9 5.6 70 31-103 90-164 (191)
26 PRK05286 dihydroorotate dehydr 86.5 16 0.00035 33.9 12.5 105 28-138 122-246 (344)
27 PRK12298 obgE GTPase CgtA; Rev 86.5 7.3 0.00016 37.0 10.4 68 43-115 274-342 (390)
28 cd04127 Rab27A Rab27a subfamil 86.2 3.1 6.7E-05 33.3 6.7 70 29-101 101-176 (180)
29 PF02421 FeoB_N: Ferrous iron 86.0 0.26 5.6E-06 41.3 0.3 62 32-97 90-156 (156)
30 COG0532 InfB Translation initi 85.9 1.8 4E-05 42.9 6.1 65 37-102 100-170 (509)
31 PRK13210 putative L-xylulose 5 85.9 8.6 0.00019 33.5 9.9 104 18-126 81-201 (284)
32 PRK09554 feoB ferrous iron tra 85.6 2.3 5E-05 44.0 7.0 84 40-129 108-193 (772)
33 PF01261 AP_endonuc_2: Xylose 85.5 6.7 0.00015 31.7 8.5 91 21-115 62-166 (213)
34 cd04106 Rab23_lke Rab23-like s 85.0 5.5 0.00012 31.0 7.5 66 29-97 89-158 (162)
35 TIGR00542 hxl6Piso_put hexulos 83.1 11 0.00024 33.1 9.4 90 18-115 81-184 (279)
36 TIGR02493 PFLA pyruvate format 83.0 3.5 7.7E-05 35.2 6.0 45 30-74 142-188 (235)
37 PRK07259 dihydroorotate dehydr 82.5 29 0.00064 31.1 12.1 90 42-136 89-188 (301)
38 cd00945 Aldolase_Class_I Class 82.2 13 0.00029 30.0 8.9 71 30-101 96-169 (201)
39 cd00019 AP2Ec AP endonuclease 81.8 12 0.00027 32.7 9.2 97 17-115 71-178 (279)
40 TIGR00231 small_GTP small GTP- 81.7 10 0.00023 28.1 7.6 69 26-96 90-158 (161)
41 PF07005 DUF1537: Protein of u 81.2 1.5 3.3E-05 37.5 3.1 68 21-97 9-76 (223)
42 PRK09856 fructoselysine 3-epim 80.9 20 0.00043 31.2 10.1 60 22-83 81-151 (275)
43 cd04124 RabL2 RabL2 subfamily. 80.4 15 0.00032 29.1 8.4 70 28-101 86-157 (161)
44 cd00154 Rab Rab family. Rab G 80.3 10 0.00022 28.6 7.2 65 29-96 87-156 (159)
45 TIGR00036 dapB dihydrodipicoli 80.0 7.6 0.00016 34.8 7.3 97 33-150 81-178 (266)
46 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 79.8 6.8 0.00015 30.9 6.2 70 29-101 89-163 (166)
47 cd01897 NOG NOG1 is a nucleola 79.8 9.9 0.00021 29.8 7.2 61 37-100 104-166 (168)
48 cd04724 Tryptophan_synthase_al 79.0 45 0.00097 29.4 12.3 126 22-159 51-192 (242)
49 cd01866 Rab2 Rab2 subfamily. 78.6 4.7 0.0001 32.2 5.0 68 30-100 92-164 (168)
50 PRK13813 orotidine 5'-phosphat 78.2 30 0.00064 29.4 10.1 46 30-75 92-141 (215)
51 PRK06852 aldolase; Validated 77.9 29 0.00063 32.3 10.6 103 30-136 153-264 (304)
52 cd01890 LepA LepA subfamily. 77.7 8.7 0.00019 30.6 6.3 62 40-101 115-176 (179)
53 PF00290 Trp_syntA: Tryptophan 77.5 11 0.00025 34.1 7.6 143 3-159 36-203 (259)
54 cd04139 RalA_RalB RalA/RalB su 77.2 13 0.00029 28.6 7.1 69 31-102 91-162 (164)
55 cd04163 Era Era subfamily. Er 77.1 12 0.00026 28.4 6.7 63 34-98 101-165 (168)
56 smart00518 AP2Ec AP endonuclea 76.6 30 0.00065 30.1 9.9 97 17-115 70-175 (273)
57 PRK12289 GTPase RsgA; Reviewed 76.6 11 0.00024 35.4 7.6 63 32-97 108-170 (352)
58 cd00881 GTP_translation_factor 76.5 11 0.00024 29.8 6.6 67 32-101 102-186 (189)
59 PRK13209 L-xylulose 5-phosphat 76.4 31 0.00068 30.1 10.0 91 19-114 87-188 (283)
60 cd04136 Rap_like Rap-like subf 76.3 15 0.00032 28.5 7.2 68 30-100 88-161 (163)
61 cd00959 DeoC 2-deoxyribose-5-p 75.9 14 0.00031 31.5 7.5 66 22-88 91-159 (203)
62 TIGR00475 selB selenocysteine- 75.4 14 0.0003 36.9 8.3 69 31-102 89-166 (581)
63 cd02033 BchX Chlorophyllide re 75.1 12 0.00026 34.9 7.4 107 20-147 181-291 (329)
64 PRK07565 dihydroorotate dehydr 75.1 38 0.00082 31.2 10.6 49 28-79 84-133 (334)
65 KOG1145 Mitochondrial translat 75.0 9.7 0.00021 38.7 6.9 64 37-102 246-316 (683)
66 PTZ00369 Ras-like protein; Pro 74.8 21 0.00045 29.3 8.0 70 30-102 92-167 (189)
67 smart00175 RAB Rab subfamily o 74.5 13 0.00028 28.8 6.4 68 31-101 89-161 (164)
68 cd04115 Rab33B_Rab33A Rab33B/R 74.5 22 0.00048 28.3 7.9 71 30-101 91-168 (170)
69 cd04175 Rap1 Rap1 subgroup. T 74.3 14 0.0003 29.0 6.6 69 30-101 88-162 (164)
70 PRK08318 dihydropyrimidine deh 74.3 59 0.0013 30.8 11.9 50 29-80 82-133 (420)
71 TIGR03849 arch_ComA phosphosul 74.1 41 0.00088 30.4 10.1 93 33-136 43-153 (237)
72 PRK15447 putative protease; Pr 74.0 11 0.00023 34.5 6.6 112 31-159 48-175 (301)
73 PF01113 DapB_N: Dihydrodipico 74.0 5.9 0.00013 31.3 4.3 38 31-71 78-115 (124)
74 cd01894 EngA1 EngA1 subfamily. 73.6 15 0.00033 28.0 6.5 59 36-99 97-155 (157)
75 cd01867 Rab8_Rab10_Rab13_like 73.5 22 0.00047 28.2 7.6 69 30-101 91-164 (167)
76 smart00173 RAS Ras subfamily o 73.4 27 0.00059 27.2 8.1 70 30-102 87-162 (164)
77 PRK04213 GTP-binding protein; 72.9 25 0.00055 28.8 8.1 62 37-102 123-192 (201)
78 cd04165 GTPBP1_like GTPBP1-lik 72.8 9.2 0.0002 33.3 5.7 37 31-67 125-161 (224)
79 cd04107 Rab32_Rab38 Rab38/Rab3 72.6 20 0.00043 29.7 7.5 59 42-102 108-168 (201)
80 cd01861 Rab6 Rab6 subfamily. 72.6 18 0.00039 28.0 6.8 68 29-99 87-159 (161)
81 cd01891 TypA_BipA TypA (tyrosi 72.4 22 0.00049 29.2 7.7 39 33-71 106-147 (194)
82 PLN02495 oxidoreductase, actin 72.4 34 0.00073 32.8 9.7 113 21-140 87-217 (385)
83 TIGR02329 propionate_PrpR prop 72.3 15 0.00033 36.4 7.7 83 29-130 104-187 (526)
84 cd04104 p47_IIGP_like p47 (47- 72.3 25 0.00053 29.4 8.0 69 35-103 98-185 (197)
85 cd03174 DRE_TIM_metallolyase D 72.1 17 0.00036 31.4 7.1 54 29-82 113-168 (265)
86 PF04055 Radical_SAM: Radical 72.1 12 0.00026 28.6 5.6 40 29-68 125-165 (166)
87 cd04113 Rab4 Rab4 subfamily. 72.0 21 0.00045 27.8 7.1 67 30-99 88-159 (161)
88 cd01860 Rab5_related Rab5-rela 71.9 25 0.00054 27.3 7.5 69 30-101 89-162 (163)
89 cd00945 Aldolase_Class_I Class 71.5 52 0.0011 26.5 9.8 112 44-158 48-176 (201)
90 PHA02096 hypothetical protein 71.4 3.8 8.3E-05 31.7 2.6 13 42-54 63-75 (103)
91 cd03110 Fer4_NifH_child This p 71.1 14 0.00031 30.0 6.2 43 32-75 131-173 (179)
92 TIGR03598 GTPase_YsxC ribosome 71.0 10 0.00023 30.8 5.3 36 38-73 123-162 (179)
93 PRK05301 pyrroloquinoline quin 70.8 16 0.00034 33.9 7.0 50 30-80 140-189 (378)
94 TIGR02109 PQQ_syn_pqqE coenzym 70.6 17 0.00037 33.2 7.2 50 30-80 131-180 (358)
95 COG1159 Era GTPase [General fu 69.7 43 0.00094 31.3 9.5 92 35-127 105-197 (298)
96 cd01854 YjeQ_engC YjeQ/EngC. 69.3 16 0.00034 33.0 6.5 62 31-95 96-157 (287)
97 cd01879 FeoB Ferrous iron tran 69.3 19 0.00041 27.6 6.2 61 39-102 96-157 (158)
98 cd01859 MJ1464 MJ1464. This f 69.2 35 0.00076 27.0 7.9 59 41-102 38-96 (156)
99 cd00958 DhnA Class I fructose- 68.9 61 0.0013 27.8 9.9 18 61-79 110-127 (235)
100 cd01994 Alpha_ANH_like_IV This 68.9 39 0.00085 28.9 8.6 118 44-165 23-151 (194)
101 TIGR03234 OH-pyruv-isom hydrox 68.8 40 0.00087 29.0 8.8 86 28-116 81-180 (254)
102 cd00876 Ras Ras family. The R 68.6 21 0.00046 27.3 6.3 66 31-99 90-158 (160)
103 TIGR03471 HpnJ hopanoid biosyn 68.3 14 0.0003 35.5 6.3 60 16-75 306-368 (472)
104 cd04740 DHOD_1B_like Dihydroor 68.2 88 0.0019 27.9 12.9 97 35-136 79-185 (296)
105 cd00878 Arf_Arl Arf (ADP-ribos 68.0 24 0.00052 27.4 6.6 67 30-96 82-154 (158)
106 cd01884 EF_Tu EF-Tu subfamily. 68.0 15 0.00033 31.1 5.9 43 32-74 105-153 (195)
107 COG1082 IolE Sugar phosphate i 67.5 49 0.0011 28.4 9.0 61 20-81 73-146 (274)
108 TIGR00437 feoB ferrous iron tr 67.5 16 0.00034 36.7 6.7 59 40-101 95-154 (591)
109 cd01857 HSR1_MMR1 HSR1/MMR1. 67.3 20 0.00042 28.3 6.0 33 43-75 41-73 (141)
110 cd04170 EF-G_bact Elongation f 67.3 14 0.00031 32.4 5.8 43 33-75 105-147 (268)
111 PF01297 TroA: Periplasmic sol 67.2 43 0.00094 29.1 8.7 70 16-86 120-211 (256)
112 cd01892 Miro2 Miro2 subfamily. 67.1 15 0.00033 29.6 5.5 71 30-102 93-166 (169)
113 COG1456 CdhE CO dehydrogenase/ 67.0 49 0.0011 32.2 9.4 81 15-99 161-256 (467)
114 cd04132 Rho4_like Rho4-like su 66.9 40 0.00086 27.1 7.9 72 30-103 88-168 (187)
115 cd01863 Rab18 Rab18 subfamily. 66.6 31 0.00067 26.7 7.0 66 31-99 89-159 (161)
116 cd01881 Obg_like The Obg-like 66.5 23 0.0005 27.7 6.3 54 43-99 119-174 (176)
117 cd04171 SelB SelB subfamily. 66.4 31 0.00067 26.5 6.9 61 34-97 93-161 (164)
118 cd04119 RJL RJL (RabJ-Like) su 66.2 44 0.00096 25.7 7.8 55 43-100 109-165 (168)
119 PRK13125 trpA tryptophan synth 66.0 93 0.002 27.3 12.8 126 20-159 52-190 (244)
120 TIGR02729 Obg_CgtA Obg family 66.0 42 0.0009 31.1 8.7 56 43-101 272-328 (329)
121 PRK13361 molybdenum cofactor b 65.7 22 0.00047 32.6 6.8 56 30-86 139-195 (329)
122 PRK03670 competence damage-ind 65.6 1E+02 0.0022 27.7 12.0 127 40-206 29-163 (252)
123 cd04120 Rab12 Rab12 subfamily. 65.5 47 0.001 28.3 8.4 69 30-101 88-162 (202)
124 smart00174 RHO Rho (Ras homolo 65.4 45 0.00097 26.3 7.8 70 30-101 85-171 (174)
125 cd01868 Rab11_like Rab11-like. 64.7 27 0.00059 27.3 6.4 55 43-100 107-163 (165)
126 cd01888 eIF2_gamma eIF2-gamma 64.6 29 0.00062 29.2 6.9 67 32-101 124-198 (203)
127 TIGR03594 GTPase_EngA ribosome 64.6 41 0.0009 31.3 8.5 64 36-102 275-344 (429)
128 cd01886 EF-G Elongation factor 64.4 17 0.00036 32.7 5.6 25 33-57 105-129 (270)
129 cd02940 DHPD_FMN Dihydropyrimi 64.4 1.1E+02 0.0024 27.6 13.1 41 37-79 90-132 (299)
130 PRK13306 ulaD 3-keto-L-gulonat 64.3 97 0.0021 26.9 10.9 122 23-152 29-164 (216)
131 PRK00048 dihydrodipicolinate r 63.5 36 0.00078 30.1 7.6 94 33-149 73-167 (257)
132 TIGR02666 moaA molybdenum cofa 63.2 26 0.00057 31.8 6.8 52 30-82 138-190 (334)
133 PRK15424 propionate catabolism 63.2 34 0.00073 34.2 8.0 80 29-127 114-194 (538)
134 cd02911 arch_FMN Archeal FMN-b 62.6 71 0.0015 28.1 9.2 68 32-103 60-137 (233)
135 cd04144 Ras2 Ras2 subfamily. 62.5 52 0.0011 26.9 7.9 58 43-103 105-164 (190)
136 cd06268 PBP1_ABC_transporter_L 62.3 90 0.0019 25.8 10.4 122 33-159 79-221 (298)
137 cd01828 sialate_O-acetylestera 62.3 57 0.0012 25.9 7.9 53 21-75 65-126 (169)
138 PRK01060 endonuclease IV; Prov 62.2 79 0.0017 27.5 9.4 97 16-114 74-180 (281)
139 cd04501 SGNH_hydrolase_like_4 62.1 58 0.0012 26.1 8.0 61 22-85 77-150 (183)
140 smart00729 Elp3 Elongator prot 62.0 43 0.00094 26.6 7.2 63 31-93 136-200 (216)
141 COG2229 Predicted GTPase [Gene 61.2 34 0.00073 30.0 6.7 30 45-75 122-154 (187)
142 TIGR03822 AblA_like_2 lysine-2 61.0 62 0.0013 29.8 8.9 49 31-79 214-264 (321)
143 cd02810 DHOD_DHPD_FMN Dihydroo 61.0 1.2E+02 0.0026 26.8 12.4 44 29-75 81-126 (289)
144 cd01865 Rab3 Rab3 subfamily. 60.9 53 0.0012 25.9 7.5 56 43-101 105-162 (165)
145 cd01019 ZnuA Zinc binding prot 60.8 71 0.0015 28.7 9.1 68 16-84 149-238 (286)
146 PLN03110 Rab GTPase; Provision 60.3 36 0.00078 28.8 6.8 69 30-101 100-173 (216)
147 cd04118 Rab24 Rab24 subfamily. 60.2 47 0.001 26.9 7.2 70 30-102 89-166 (193)
148 PRK12736 elongation factor Tu; 59.8 47 0.001 31.3 8.0 44 31-74 114-163 (394)
149 cd04125 RabA_like RabA-like su 59.5 61 0.0013 26.3 7.8 69 30-101 88-165 (188)
150 TIGR00485 EF-Tu translation el 59.5 53 0.0012 30.8 8.3 43 31-73 114-162 (394)
151 cd04123 Rab21 Rab21 subfamily. 59.5 77 0.0017 24.1 8.2 55 42-99 103-159 (162)
152 PRK00164 moaA molybdenum cofac 59.4 31 0.00068 31.2 6.6 46 30-75 143-189 (331)
153 cd00880 Era_like Era (E. coli 59.4 34 0.00074 25.2 5.8 61 36-99 96-161 (163)
154 cd01020 TroA_b Metal binding p 59.4 1.1E+02 0.0023 27.1 9.9 35 16-50 123-159 (264)
155 cd04176 Rap2 Rap2 subgroup. T 59.3 48 0.001 25.8 6.9 65 32-99 93-160 (163)
156 TIGR00539 hemN_rel putative ox 59.2 32 0.0007 31.8 6.7 65 16-80 119-187 (360)
157 TIGR00157 ribosome small subun 59.1 35 0.00076 30.0 6.7 134 30-213 53-190 (245)
158 PTZ00141 elongation factor 1- 58.8 14 0.0003 35.6 4.4 39 31-69 131-174 (446)
159 TIGR02494 PFLE_PFLC glycyl-rad 58.7 40 0.00088 29.9 7.1 51 32-83 202-257 (295)
160 cd04738 DHOD_2_like Dihydrooro 58.1 1.5E+02 0.0033 27.2 12.5 37 33-69 117-157 (327)
161 TIGR02495 NrdG2 anaerobic ribo 57.8 28 0.0006 28.7 5.5 41 32-73 141-183 (191)
162 cd04146 RERG_RasL11_like RERG/ 57.7 68 0.0015 25.1 7.6 67 32-100 92-162 (165)
163 cd01895 EngA2 EngA2 subfamily. 57.6 54 0.0012 25.1 6.9 30 40-69 109-140 (174)
164 cd01864 Rab19 Rab19 subfamily. 57.5 47 0.001 26.0 6.6 67 31-99 95-163 (165)
165 cd04168 TetM_like Tet(M)-like 57.4 26 0.00056 30.7 5.5 44 32-75 104-147 (237)
166 PRK15467 ethanolamine utilizat 57.1 22 0.00047 28.8 4.6 58 43-102 90-147 (158)
167 cd04148 RGK RGK subfamily. Th 57.0 1E+02 0.0022 26.3 9.0 106 30-149 88-200 (221)
168 TIGR01405 polC_Gram_pos DNA po 57.0 42 0.00092 36.8 8.0 152 37-203 491-680 (1213)
169 cd01870 RhoA_like RhoA-like su 56.8 95 0.0021 24.4 8.6 27 30-56 88-117 (175)
170 PF07485 DUF1529: Domain of Un 56.8 30 0.00065 28.1 5.4 45 58-102 66-121 (123)
171 COG0274 DeoC Deoxyribose-phosp 56.8 73 0.0016 28.7 8.2 72 21-92 98-172 (228)
172 TIGR02026 BchE magnesium-proto 56.6 28 0.0006 33.9 6.1 62 16-77 306-370 (497)
173 PRK12299 obgE GTPase CgtA; Rev 56.4 68 0.0015 29.8 8.4 58 43-103 270-329 (335)
174 cd04110 Rab35 Rab35 subfamily. 56.2 46 0.00099 27.6 6.6 69 30-101 94-166 (199)
175 cd01874 Cdc42 Cdc42 subfamily. 56.1 63 0.0014 26.2 7.3 69 30-100 88-173 (175)
176 PF00071 Ras: Ras family; Int 56.0 44 0.00096 25.9 6.2 67 32-101 92-160 (162)
177 TIGR02127 pyrF_sub2 orotidine 55.9 1.1E+02 0.0024 27.6 9.4 124 20-147 58-207 (261)
178 PRK00454 engB GTP-binding prot 55.8 48 0.001 26.7 6.5 60 39-101 130-193 (196)
179 cd04137 RheB Rheb (Ras Homolog 55.8 35 0.00076 27.2 5.7 59 42-103 104-164 (180)
180 cd07062 Peptidase_S66_mccF_lik 55.8 35 0.00076 31.2 6.3 96 32-132 19-124 (308)
181 cd01898 Obg Obg subfamily. Th 55.7 46 0.00099 25.9 6.2 54 43-99 113-168 (170)
182 cd04169 RF3 RF3 subfamily. Pe 55.4 34 0.00074 30.6 6.1 25 33-57 112-136 (267)
183 COG0535 Predicted Fe-S oxidore 55.3 46 0.00099 29.4 6.8 50 29-79 143-192 (347)
184 PRK00507 deoxyribose-phosphate 55.2 60 0.0013 28.6 7.5 67 22-89 96-165 (221)
185 PRK13762 tRNA-modifying enzyme 55.2 38 0.00083 31.3 6.5 49 29-77 206-254 (322)
186 PRK10512 selenocysteinyl-tRNA- 55.1 58 0.0013 32.9 8.2 72 31-102 90-166 (614)
187 TIGR00284 dihydropteroate synt 54.8 64 0.0014 32.0 8.3 70 33-103 296-376 (499)
188 PRK00098 GTPase RsgA; Reviewed 54.7 36 0.00079 30.8 6.2 60 33-95 100-160 (298)
189 PRK12288 GTPase RsgA; Reviewed 54.7 46 0.001 31.2 7.0 129 31-206 137-270 (347)
190 cd01821 Rhamnogalacturan_acety 54.7 1.1E+02 0.0023 25.0 8.6 52 21-75 87-148 (198)
191 cd04143 Rhes_like Rhes_like su 54.2 53 0.0011 28.9 7.0 57 43-102 112-171 (247)
192 PF11720 Inhibitor_I78: Peptid 54.2 11 0.00024 26.5 2.2 28 193-224 30-57 (60)
193 TIGR02668 moaA_archaeal probab 54.1 45 0.00097 29.7 6.6 53 30-83 133-186 (302)
194 PF00682 HMGL-like: HMGL-like 53.6 62 0.0013 27.7 7.2 58 26-83 103-160 (237)
195 cd00877 Ran Ran (Ras-related n 53.6 53 0.0012 26.2 6.4 66 33-102 94-159 (166)
196 cd04122 Rab14 Rab14 subfamily. 53.6 69 0.0015 25.2 7.0 68 29-99 89-161 (166)
197 CHL00071 tufA elongation facto 53.6 29 0.00064 32.8 5.6 44 31-74 114-163 (409)
198 KOG3361 Iron binding protein i 53.6 8.9 0.00019 32.2 1.8 30 182-222 50-80 (157)
199 PRK13758 anaerobic sulfatase-m 53.3 33 0.00071 31.5 5.7 49 30-79 143-191 (370)
200 PRK07226 fructose-bisphosphate 53.2 1.7E+02 0.0036 26.1 10.8 113 44-160 73-202 (267)
201 PF10662 PduV-EutP: Ethanolami 52.6 42 0.00091 27.9 5.7 55 41-97 86-141 (143)
202 TIGR03680 eif2g_arch translati 52.5 48 0.001 31.3 6.8 69 31-102 120-196 (406)
203 cd03768 SR_ResInv Serine Recom 52.4 74 0.0016 24.2 6.8 45 27-75 42-86 (126)
204 cd04133 Rop_like Rop subfamily 52.4 84 0.0018 26.0 7.6 73 28-102 86-173 (176)
205 PRK05234 mgsA methylglyoxal sy 52.4 1.3E+02 0.0028 24.7 8.7 45 59-115 92-136 (142)
206 PRK04165 acetyl-CoA decarbonyl 52.1 52 0.0011 32.3 7.1 64 15-83 157-235 (450)
207 COG0137 ArgG Argininosuccinate 52.0 2.4E+02 0.0052 27.6 11.7 154 37-202 21-241 (403)
208 cd01858 NGP_1 NGP-1. Autoanti 51.9 90 0.0019 24.8 7.5 68 31-101 27-94 (157)
209 PRK10076 pyruvate formate lyas 51.8 69 0.0015 27.9 7.2 47 40-86 123-171 (213)
210 cd04160 Arfrp1 Arfrp1 subfamil 51.8 55 0.0012 25.5 6.1 14 43-56 106-119 (167)
211 PRK00049 elongation factor Tu; 51.6 86 0.0019 29.6 8.4 26 31-56 114-140 (396)
212 COG0159 TrpA Tryptophan syntha 51.3 1.4E+02 0.003 27.5 9.2 143 3-159 43-210 (265)
213 cd01889 SelB_euk SelB subfamil 51.3 78 0.0017 25.9 7.2 64 35-101 111-185 (192)
214 cd04101 RabL4 RabL4 (Rab-like4 51.3 46 0.00099 25.9 5.5 55 43-100 106-162 (164)
215 cd01876 YihA_EngB The YihA (En 51.1 94 0.002 23.5 7.2 17 40-56 106-122 (170)
216 PRK08195 4-hyroxy-2-oxovalerat 51.1 70 0.0015 29.8 7.5 51 32-82 116-166 (337)
217 cd07944 DRE_TIM_HOA_like 4-hyd 51.1 68 0.0015 28.7 7.3 53 30-82 108-160 (266)
218 TIGR00126 deoC deoxyribose-pho 51.1 1.1E+02 0.0025 26.7 8.5 67 22-89 92-161 (211)
219 cd07025 Peptidase_S66 LD-Carbo 51.1 49 0.0011 29.8 6.4 96 31-133 14-121 (282)
220 COG0825 AccA Acetyl-CoA carbox 51.1 53 0.0011 30.9 6.6 77 17-99 127-215 (317)
221 PRK00093 GTP-binding protein D 50.5 74 0.0016 29.8 7.7 63 37-102 277-344 (435)
222 cd07939 DRE_TIM_NifV Streptomy 50.4 96 0.0021 27.3 8.0 104 27-135 106-212 (259)
223 cd01887 IF2_eIF5B IF2/eIF5B (i 50.3 82 0.0018 24.4 6.9 64 35-101 93-165 (168)
224 PF07287 DUF1446: Protein of u 50.2 32 0.00069 32.8 5.2 49 32-83 59-107 (362)
225 cd04116 Rab9 Rab9 subfamily. 50.1 67 0.0015 25.2 6.4 55 43-99 113-168 (170)
226 cd04152 Arl4_Arl7 Arl4/Arl7 su 49.9 1.2E+02 0.0026 24.7 8.0 60 41-101 106-169 (183)
227 PRK04804 minC septum formation 49.8 57 0.0012 28.6 6.4 51 21-75 23-75 (221)
228 PRK11253 ldcA L,D-carboxypepti 49.7 43 0.00092 30.8 5.8 61 32-97 18-86 (305)
229 PLN03108 Rab family protein; P 49.2 92 0.002 26.2 7.5 60 30-92 94-158 (210)
230 cd00882 Ras_like_GTPase Ras-li 49.0 69 0.0015 23.0 5.9 60 35-97 93-155 (157)
231 TIGR01394 TypA_BipA GTP-bindin 49.0 70 0.0015 32.3 7.6 43 31-73 103-148 (594)
232 PLN00043 elongation factor 1-a 48.7 44 0.00096 32.3 6.0 44 31-74 131-183 (447)
233 cd01137 PsaA Metal binding pro 48.6 1.1E+02 0.0025 27.4 8.4 24 16-39 145-168 (287)
234 PRK09989 hypothetical protein; 48.4 1.1E+02 0.0025 26.4 8.1 83 28-114 82-179 (258)
235 cd01878 HflX HflX subfamily. 48.4 69 0.0015 26.3 6.5 57 37-99 146-202 (204)
236 PRK08208 coproporphyrinogen II 48.4 55 0.0012 31.2 6.6 44 32-75 178-223 (430)
237 TIGR03217 4OH_2_O_val_ald 4-hy 48.3 78 0.0017 29.5 7.4 51 32-82 115-165 (333)
238 PRK00741 prfC peptide chain re 48.1 44 0.00096 33.1 6.0 44 32-75 119-162 (526)
239 PRK09249 coproporphyrinogen II 47.8 65 0.0014 30.9 7.0 63 16-78 170-236 (453)
240 PF01171 ATP_bind_3: PP-loop f 47.7 57 0.0012 26.9 5.9 82 46-131 30-121 (182)
241 cd04154 Arl2 Arl2 subfamily. 47.7 62 0.0014 25.7 5.9 66 30-98 97-171 (173)
242 cd04509 PBP1_ABC_transporter_G 47.7 1.6E+02 0.0035 24.3 10.3 116 39-159 86-224 (299)
243 PF01180 DHO_dh: Dihydroorotat 47.5 60 0.0013 29.1 6.4 45 30-75 81-126 (295)
244 cd04141 Rit_Rin_Ric Rit/Rin/Ri 47.4 62 0.0013 26.1 5.9 64 33-99 95-161 (172)
245 cd04129 Rho2 Rho2 subfamily. 47.1 1.1E+02 0.0024 24.9 7.5 70 30-101 88-172 (187)
246 COG0012 Predicted GTPase, prob 46.6 67 0.0014 30.9 6.7 77 44-134 206-288 (372)
247 cd04732 HisA HisA. Phosphorib 46.5 83 0.0018 26.7 6.8 8 128-135 193-200 (234)
248 COG3961 Pyruvate decarboxylase 46.4 33 0.00071 34.6 4.8 178 12-201 181-418 (557)
249 TIGR02011 IscA iron-sulfur clu 46.2 44 0.00095 25.7 4.6 49 134-182 1-59 (105)
250 cd04109 Rab28 Rab28 subfamily. 45.9 1.1E+02 0.0024 25.6 7.5 70 30-102 89-166 (215)
251 TIGR01294 P_lamban phospholamb 45.5 26 0.00057 24.2 2.8 28 120-147 2-31 (52)
252 cd00958 DhnA Class I fructose- 45.5 1.9E+02 0.0042 24.7 9.7 110 44-160 55-185 (235)
253 PRK05306 infB translation init 45.4 54 0.0012 34.4 6.4 66 32-99 377-449 (787)
254 COG1533 SplB DNA repair photol 45.1 62 0.0014 29.8 6.2 53 35-87 173-226 (297)
255 COG0656 ARA1 Aldo/keto reducta 45.0 49 0.0011 30.5 5.4 114 29-149 139-264 (280)
256 cd04114 Rab30 Rab30 subfamily. 44.8 1.4E+02 0.0031 23.1 7.5 60 37-99 105-166 (169)
257 PTZ00327 eukaryotic translatio 44.5 1.1E+02 0.0023 30.0 7.9 67 33-102 159-233 (460)
258 PRK10660 tilS tRNA(Ile)-lysidi 44.5 61 0.0013 31.2 6.2 51 43-94 43-96 (436)
259 COG1213 Predicted sugar nucleo 44.4 45 0.00099 30.2 5.0 56 28-89 29-86 (239)
260 PLN02951 Molybderin biosynthes 44.3 88 0.0019 29.5 7.2 53 29-82 183-236 (373)
261 CHL00189 infB translation init 44.1 63 0.0014 33.7 6.6 147 34-209 337-494 (742)
262 cd00879 Sar1 Sar1 subfamily. 43.9 83 0.0018 25.3 6.1 56 43-98 119-187 (190)
263 TIGR00381 cdhD CO dehydrogenas 43.8 1.5E+02 0.0032 28.9 8.6 114 32-149 228-371 (389)
264 cd01852 AIG1 AIG1 (avrRpt2-ind 43.8 1.8E+02 0.004 23.9 9.4 46 43-88 82-131 (196)
265 cd06341 PBP1_ABC_ligand_bindin 43.6 2.3E+02 0.0049 24.9 11.2 120 37-160 83-220 (341)
266 PRK14862 rimO ribosomal protei 43.6 49 0.0011 31.8 5.4 60 18-77 266-330 (440)
267 cd04134 Rho3 Rho3 subfamily. 43.6 1.4E+02 0.0031 24.3 7.6 72 29-102 86-174 (189)
268 PRK12297 obgE GTPase CgtA; Rev 43.6 1.1E+02 0.0025 29.5 7.9 56 43-103 273-328 (424)
269 PRK04452 acetyl-CoA decarbonyl 43.5 1.5E+02 0.0032 27.9 8.4 77 20-101 136-233 (319)
270 PRK05286 dihydroorotate dehydr 43.4 1.5E+02 0.0033 27.5 8.5 49 33-83 194-248 (344)
271 TIGR00487 IF-2 translation ini 43.3 62 0.0013 32.6 6.3 65 34-99 177-247 (587)
272 PRK09997 hydroxypyruvate isome 43.3 1.5E+02 0.0033 25.6 8.1 81 30-114 84-179 (258)
273 PRK08227 autoinducer 2 aldolas 43.2 2.6E+02 0.0057 25.5 10.3 54 29-84 125-180 (264)
274 cd01862 Rab7 Rab7 subfamily. 43.0 1.6E+02 0.0034 22.8 8.0 56 44-102 109-167 (172)
275 TIGR02717 AcCoA-syn-alpha acet 43.0 1.5E+02 0.0032 28.6 8.6 42 62-103 77-119 (447)
276 PTZ00393 protein tyrosine phos 42.6 1.1E+02 0.0023 27.8 7.1 106 32-151 104-229 (241)
277 cd04117 Rab15 Rab15 subfamily. 42.6 1.6E+02 0.0034 23.2 7.5 67 30-99 88-159 (161)
278 PF06506 PrpR_N: Propionate ca 42.6 16 0.00035 30.4 1.8 68 43-128 99-166 (176)
279 COG1038 PycA Pyruvate carboxyl 42.5 40 0.00086 36.0 4.8 111 34-152 123-274 (1149)
280 TIGR01859 fruc_bis_ald_ fructo 42.4 1.7E+02 0.0037 26.6 8.5 24 30-53 58-83 (282)
281 TIGR01037 pyrD_sub1_fam dihydr 42.1 2.5E+02 0.0055 25.0 10.0 72 29-103 74-154 (300)
282 PLN03126 Elongation factor Tu; 42.0 57 0.0012 32.0 5.7 44 31-74 183-232 (478)
283 PLN03127 Elongation factor Tu; 42.0 44 0.00096 32.3 4.9 27 31-57 163-190 (447)
284 TIGR01125 MiaB-like tRNA modif 41.9 61 0.0013 30.8 5.8 60 16-75 253-317 (430)
285 cd01883 EF1_alpha Eukaryotic e 41.8 61 0.0013 27.5 5.3 43 32-74 124-175 (219)
286 COG0276 HemH Protoheme ferro-l 41.8 1.2E+02 0.0026 28.6 7.5 70 32-101 244-318 (320)
287 PRK05283 deoxyribose-phosphate 41.7 1.3E+02 0.0028 27.4 7.6 67 21-87 104-174 (257)
288 PRK09426 methylmalonyl-CoA mut 41.7 2.3E+02 0.005 29.4 10.2 121 25-154 560-688 (714)
289 PF00944 Peptidase_S3: Alphavi 41.6 12 0.00027 31.5 0.9 65 150-224 57-122 (158)
290 PF06858 NOG1: Nucleolar GTP-b 41.6 22 0.00047 25.5 2.0 16 38-53 39-56 (58)
291 PLN00023 GTP-binding protein; 41.6 61 0.0013 30.7 5.6 48 28-75 120-190 (334)
292 PRK12735 elongation factor Tu; 41.5 1.2E+02 0.0026 28.5 7.7 43 31-73 114-162 (396)
293 TIGR01579 MiaB-like-C MiaB-lik 41.5 1.3E+02 0.0027 28.4 7.8 59 17-75 257-320 (414)
294 PRK14336 (dimethylallyl)adenos 41.5 1E+02 0.0022 29.4 7.2 60 16-75 242-306 (418)
295 smart00177 ARF ARF-like small 41.4 1.6E+02 0.0035 23.7 7.5 56 44-100 114-172 (175)
296 cd04739 DHOD_like Dihydroorota 41.2 1.7E+02 0.0038 26.9 8.5 44 29-75 83-127 (325)
297 cd04108 Rab36_Rab34 Rab34/Rab3 41.2 1.8E+02 0.0038 23.4 7.7 71 29-102 87-165 (170)
298 TIGR01496 DHPS dihydropteroate 41.1 67 0.0015 28.7 5.6 43 33-75 185-237 (257)
299 cd04121 Rab40 Rab40 subfamily. 40.9 1.3E+02 0.0027 25.3 7.0 70 29-101 93-166 (189)
300 cd00739 DHPS DHPS subgroup of 40.8 2.7E+02 0.0058 24.9 10.2 49 28-87 59-108 (257)
301 PRK00035 hemH ferrochelatase; 40.7 2.9E+02 0.0062 25.2 11.6 171 31-212 105-314 (333)
302 cd02801 DUS_like_FMN Dihydrour 40.3 2.2E+02 0.0049 23.9 8.9 105 34-145 112-221 (231)
303 cd00338 Ser_Recombinase Serine 40.3 63 0.0014 24.7 4.7 52 27-81 51-102 (137)
304 cd04130 Wrch_1 Wrch-1 subfamil 40.2 1.7E+02 0.0038 23.1 7.5 55 43-99 103-171 (173)
305 cd04111 Rab39 Rab39 subfamily. 40.2 1.3E+02 0.0028 25.4 7.0 69 30-101 91-165 (211)
306 PTZ00099 rab6; Provisional 40.0 1.7E+02 0.0036 24.2 7.5 72 29-103 67-143 (176)
307 PRK13992 minC septum formation 40.0 1.1E+02 0.0023 26.6 6.6 45 30-75 25-72 (205)
308 PF09547 Spore_IV_A: Stage IV 39.9 82 0.0018 31.3 6.3 49 33-82 169-217 (492)
309 cd04159 Arl10_like Arl10-like 39.7 1.1E+02 0.0025 22.8 6.0 18 42-59 99-116 (159)
310 smart00857 Resolvase Resolvase 39.7 1.3E+02 0.0028 23.4 6.5 35 60-95 52-86 (148)
311 PRK07535 methyltetrahydrofolat 39.6 2.8E+02 0.0061 24.9 10.3 87 15-101 71-184 (261)
312 cd01018 ZntC Metal binding pro 39.6 2.2E+02 0.0047 25.1 8.6 109 16-140 140-250 (266)
313 cd00739 DHPS DHPS subgroup of 39.5 82 0.0018 28.2 5.9 43 33-75 187-239 (257)
314 cd01871 Rac1_like Rac1-like su 39.4 1.6E+02 0.0035 23.8 7.2 69 29-99 87-172 (174)
315 cd07937 DRE_TIM_PC_TC_5S Pyruv 39.1 1.5E+02 0.0033 26.5 7.6 54 30-83 117-172 (275)
316 PRK00339 minC septum formation 39.1 1E+02 0.0022 27.7 6.4 54 21-77 30-86 (249)
317 COG3414 SgaB Phosphotransferas 38.7 9 0.00019 29.6 -0.3 57 118-178 18-74 (93)
318 cd02517 CMP-KDO-Synthetase CMP 38.7 1.4E+02 0.003 25.2 7.0 53 29-90 25-78 (239)
319 cd04155 Arl3 Arl3 subfamily. 38.6 1.2E+02 0.0027 23.7 6.3 54 41-97 112-170 (173)
320 PF04272 Phospholamban: Phosph 38.6 39 0.00086 23.4 2.8 28 120-147 2-31 (52)
321 PRK07226 fructose-bisphosphate 38.5 1.8E+02 0.0039 25.9 7.9 18 58-75 158-175 (267)
322 TIGR00089 RNA modification enz 38.5 1.4E+02 0.003 28.3 7.6 60 16-75 257-321 (429)
323 COG1084 Predicted GTPase [Gene 38.5 97 0.0021 29.6 6.4 61 38-100 273-334 (346)
324 PF02016 Peptidase_S66: LD-car 38.5 42 0.00091 30.4 3.9 70 31-104 14-90 (284)
325 TIGR00735 hisF imidazoleglycer 38.3 1.8E+02 0.004 25.5 7.9 90 40-134 117-226 (254)
326 PRK05799 coproporphyrinogen II 38.1 88 0.0019 28.9 6.1 45 31-75 135-181 (374)
327 COG0289 DapB Dihydrodipicolina 38.1 1.3E+02 0.0029 27.7 7.1 61 34-100 83-143 (266)
328 TIGR03164 UHCUDC OHCU decarbox 38.1 40 0.00086 28.2 3.4 14 41-54 105-118 (157)
329 cd04140 ARHI_like ARHI subfami 38.1 97 0.0021 24.3 5.6 68 29-99 87-162 (165)
330 cd04142 RRP22 RRP22 subfamily. 37.9 1.6E+02 0.0035 24.6 7.2 68 32-102 101-174 (198)
331 PRK05433 GTP-binding protein L 37.9 1.1E+02 0.0023 30.9 7.0 67 36-102 118-184 (600)
332 TIGR01997 sufA_proteo FeS asse 37.8 45 0.00098 25.7 3.5 50 133-182 2-61 (107)
333 TIGR01393 lepA GTP-binding pro 37.6 1E+02 0.0022 31.0 6.8 68 35-102 113-180 (595)
334 PF04320 DUF469: Protein with 37.4 79 0.0017 25.0 4.8 62 18-82 27-96 (101)
335 cd04157 Arl6 Arl6 subfamily. 37.3 1.2E+02 0.0025 23.3 5.9 55 42-97 102-159 (162)
336 cd01849 YlqF_related_GTPase Yl 37.3 1.9E+02 0.0041 22.9 7.2 59 39-100 24-83 (155)
337 PF02786 CPSase_L_D2: Carbamoy 37.2 41 0.00089 29.2 3.5 60 36-100 5-70 (211)
338 COG0587 DnaE DNA polymerase II 37.1 4.2E+02 0.0092 29.3 11.6 151 40-199 189-377 (1139)
339 PRK09518 bifunctional cytidyla 37.1 1.1E+02 0.0023 31.3 7.0 67 37-103 554-622 (712)
340 TIGR02836 spore_IV_A stage IV 37.0 92 0.002 31.0 6.1 48 34-82 170-217 (492)
341 PLN02775 Probable dihydrodipic 36.9 89 0.0019 29.0 5.8 100 33-152 93-192 (286)
342 COG0352 ThiE Thiamine monophos 36.7 86 0.0019 27.6 5.5 113 34-169 24-140 (211)
343 PRK11702 hypothetical protein; 36.6 81 0.0018 25.3 4.8 36 47-82 67-102 (108)
344 cd06454 KBL_like KBL_like; thi 36.5 91 0.002 27.4 5.7 53 33-86 120-174 (349)
345 cd01893 Miro1 Miro1 subfamily. 36.2 2.1E+02 0.0046 22.4 7.5 55 43-102 102-164 (166)
346 TIGR01222 minC septum site-det 36.1 1.1E+02 0.0024 26.6 6.0 52 21-75 19-72 (217)
347 cd06568 GH20_SpHex_like A subg 36.1 1.1E+02 0.0024 28.3 6.4 59 30-90 17-103 (329)
348 PRK04000 translation initiatio 36.0 1.3E+02 0.0029 28.5 7.0 69 31-102 125-201 (411)
349 cd01017 AdcA Metal binding pro 35.8 2.1E+02 0.0046 25.4 8.0 86 40-131 185-280 (282)
350 cd06339 PBP1_YraM_LppC_lipopro 35.6 3.3E+02 0.007 24.4 9.7 119 38-159 77-235 (336)
351 PRK14040 oxaloacetate decarbox 35.6 1.4E+02 0.003 30.4 7.3 53 30-82 123-177 (593)
352 cd04738 DHOD_2_like Dihydrooro 35.6 2.5E+02 0.0053 25.8 8.5 48 34-83 186-239 (327)
353 cd04102 RabL3 RabL3 (Rab-like3 35.6 2.8E+02 0.0061 23.6 8.8 75 28-102 91-197 (202)
354 PF00875 DNA_photolyase: DNA p 35.5 1.6E+02 0.0035 23.7 6.6 70 21-103 46-115 (165)
355 PF10049 DUF2283: Protein of u 35.5 20 0.00043 24.3 1.0 14 210-224 31-44 (50)
356 cd07943 DRE_TIM_HOA 4-hydroxy- 35.4 1.8E+02 0.0038 25.7 7.3 40 34-75 88-127 (263)
357 PRK07206 hypothetical protein; 35.3 3.6E+02 0.0079 24.9 9.7 58 37-100 18-91 (416)
358 PRK08446 coproporphyrinogen II 35.1 3.7E+02 0.0079 24.8 11.1 44 59-102 133-176 (350)
359 PRK04165 acetyl-CoA decarbonyl 34.6 4.6E+02 0.0099 25.8 11.0 125 16-154 100-228 (450)
360 PRK08599 coproporphyrinogen II 34.6 1.1E+02 0.0023 28.5 6.0 19 144-162 222-241 (377)
361 cd04743 NPD_PKS 2-Nitropropane 34.5 1.6E+02 0.0034 27.7 7.1 65 33-102 71-155 (320)
362 KOG0024 Sorbitol dehydrogenase 34.4 18 0.00038 34.5 0.8 30 125-154 188-217 (354)
363 TIGR03821 AblA_like_1 lysine-2 34.3 2.5E+02 0.0054 25.9 8.4 47 38-86 197-245 (321)
364 TIGR00538 hemN oxygen-independ 34.2 1.3E+02 0.0029 28.7 6.8 62 16-77 170-235 (455)
365 cd01829 SGNH_hydrolase_peri2 S 34.0 1.4E+02 0.0031 24.1 6.1 45 30-75 94-145 (200)
366 PRK03511 minC septum formation 33.8 1.4E+02 0.0029 26.5 6.3 54 21-79 23-78 (228)
367 PRK01973 septum formation inhi 33.4 1.5E+02 0.0033 27.3 6.7 60 18-80 23-84 (271)
368 cd01987 USP_OKCHK USP domain i 33.4 1.7E+02 0.0037 21.7 6.0 14 61-74 50-63 (124)
369 PRK00513 minC septum formation 33.3 1.1E+02 0.0023 26.8 5.5 45 30-75 32-79 (214)
370 PRK09502 iscA iron-sulfur clus 33.0 73 0.0016 24.5 4.0 49 134-183 3-62 (107)
371 TIGR03679 arCOG00187 arCOG0018 32.9 3.1E+02 0.0067 23.7 8.3 117 43-165 20-149 (218)
372 PF07287 DUF1446: Protein of u 32.6 1.1E+02 0.0025 29.1 6.0 65 54-123 52-116 (362)
373 PRK14830 undecaprenyl pyrophos 32.4 3.8E+02 0.0082 24.2 9.5 105 22-128 44-167 (251)
374 cd00954 NAL N-Acetylneuraminic 32.3 3.7E+02 0.008 24.0 9.4 116 32-147 22-155 (288)
375 PF00809 Pterin_bind: Pterin b 32.2 29 0.00063 29.9 1.8 16 15-30 74-89 (210)
376 PF00867 XPG_I: XPG I-region; 32.1 63 0.0014 24.2 3.4 39 41-87 1-42 (94)
377 cd06360 PBP1_alkylbenzenes_lik 31.9 3.4E+02 0.0074 23.6 9.8 116 39-158 84-221 (336)
378 PRK05177 minC septum formation 31.8 1.6E+02 0.0036 26.1 6.5 53 21-77 27-81 (239)
379 PRK07094 biotin synthase; Prov 31.8 1.5E+02 0.0032 26.8 6.3 55 21-75 153-210 (323)
380 PRK10218 GTP-binding protein; 31.7 96 0.0021 31.5 5.5 43 31-73 107-152 (607)
381 TIGR00222 panB 3-methyl-2-oxob 31.6 3E+02 0.0064 25.2 8.2 63 33-102 118-195 (263)
382 cd03017 PRX_BCP Peroxiredoxin 31.3 2.1E+02 0.0045 21.7 6.3 11 59-69 40-50 (140)
383 cd04135 Tc10 TC10 subfamily. 31.3 2.5E+02 0.0055 21.9 7.8 57 42-100 102-172 (174)
384 PF12804 NTP_transf_3: MobA-li 31.2 1.1E+02 0.0024 23.9 4.9 58 28-95 22-80 (160)
385 PRK04322 peptidyl-tRNA hydrola 31.2 2.2E+02 0.0047 22.6 6.5 42 38-87 40-81 (113)
386 TIGR01212 radical SAM protein, 31.0 2.1E+02 0.0045 26.0 7.2 57 58-117 161-221 (302)
387 PF07555 NAGidase: beta-N-acet 31.0 1.7E+02 0.0037 27.2 6.7 51 30-80 55-111 (306)
388 COG5428 Uncharacterized conser 31.0 25 0.00055 26.1 1.0 14 210-224 32-45 (69)
389 PRK09250 fructose-bisphosphate 30.9 2.6E+02 0.0057 26.7 8.0 71 30-101 178-277 (348)
390 PRK00007 elongation factor G; 30.9 92 0.002 31.8 5.3 27 32-58 115-141 (693)
391 COG1168 MalY Bifunctional PLP- 30.8 50 0.0011 32.0 3.2 40 45-85 159-202 (388)
392 PF01212 Beta_elim_lyase: Beta 30.8 1E+02 0.0022 28.1 5.1 51 19-75 104-160 (290)
393 cd03769 SR_IS607_transposase_l 30.8 2.4E+02 0.0052 22.4 6.8 68 27-102 48-117 (134)
394 PRK12399 tagatose 1,6-diphosph 30.7 1.6E+02 0.0034 28.0 6.4 145 37-198 111-278 (324)
395 cd01875 RhoG RhoG subfamily. 30.7 3E+02 0.0065 22.5 8.6 71 30-102 90-177 (191)
396 TIGR00693 thiE thiamine-phosph 30.7 1.2E+02 0.0025 25.1 5.2 88 57-155 11-98 (196)
397 TIGR00737 nifR3_yhdG putative 30.7 4.1E+02 0.0089 24.1 9.1 102 37-143 123-228 (319)
398 PF14226 DIOX_N: non-haem diox 30.5 56 0.0012 24.6 2.9 53 56-124 11-63 (116)
399 cd04730 NPD_like 2-Nitropropan 30.4 3E+02 0.0065 23.3 7.7 27 51-77 58-84 (236)
400 CHL00076 chlB photochlorophyll 30.4 2.2E+02 0.0047 28.1 7.7 73 68-147 387-475 (513)
401 cd06388 PBP1_iGluR_AMPA_GluR4 30.4 2.4E+02 0.0051 26.2 7.6 59 58-118 72-137 (371)
402 PTZ00132 GTP-binding nuclear p 30.3 3.2E+02 0.0069 22.7 8.8 56 44-102 113-168 (215)
403 cd04726 KGPDC_HPS 3-Keto-L-gul 30.3 2.4E+02 0.0051 23.3 6.9 109 34-159 41-163 (202)
404 TIGR01019 sucCoAalpha succinyl 30.2 3E+02 0.0065 25.3 8.1 63 35-103 21-112 (286)
405 PRK06740 histidinol-phosphatas 30.0 30 0.00065 32.2 1.6 55 21-82 206-260 (331)
406 cd00157 Rho Rho (Ras homology) 29.7 2.1E+02 0.0046 22.0 6.3 61 36-99 94-170 (171)
407 PF00155 Aminotran_1_2: Aminot 29.7 1.4E+02 0.0029 26.6 5.7 60 31-91 133-198 (363)
408 TIGR03180 UraD_2 OHCU decarbox 29.7 68 0.0015 26.9 3.5 13 41-53 105-117 (158)
409 PRK14334 (dimethylallyl)adenos 29.6 1.3E+02 0.0028 28.8 5.9 60 18-77 257-321 (440)
410 PRK04516 minC septum formation 29.5 1.2E+02 0.0026 27.3 5.3 61 18-81 22-83 (235)
411 PLN02912 oxidoreductase, 2OG-F 29.5 1.6E+02 0.0035 27.5 6.3 64 43-123 40-104 (348)
412 cd02430 PTH2 Peptidyl-tRNA hyd 29.5 2.3E+02 0.005 22.5 6.4 43 37-87 41-83 (115)
413 PRK11145 pflA pyruvate formate 29.2 1.6E+02 0.0034 25.4 5.8 36 38-73 155-192 (246)
414 PRK02083 imidazole glycerol ph 29.2 2.1E+02 0.0046 24.9 6.8 73 61-138 154-228 (253)
415 cd07941 DRE_TIM_LeuA3 Desulfob 29.0 1.5E+02 0.0033 26.4 5.9 55 29-83 117-174 (273)
416 PLN02997 flavonol synthase 29.0 1.6E+02 0.0034 27.3 6.1 64 28-101 12-79 (325)
417 TIGR03584 PseF pseudaminic aci 28.9 2.6E+02 0.0056 24.1 7.2 71 21-102 16-90 (222)
418 cd06241 Peptidase_M14-like_1_4 28.6 2.6E+02 0.0057 25.1 7.4 107 51-188 128-237 (266)
419 PLN03118 Rab family protein; P 28.6 2.6E+02 0.0055 23.2 6.9 58 43-103 119-178 (211)
420 cd04167 Snu114p Snu114p subfam 28.6 1.3E+02 0.0028 25.2 5.2 22 34-55 113-134 (213)
421 TIGR01287 nifH nitrogenase iro 28.5 3.9E+02 0.0086 23.2 9.1 50 23-75 152-203 (275)
422 PRK14338 (dimethylallyl)adenos 28.5 2.4E+02 0.0053 27.2 7.6 65 17-81 274-343 (459)
423 cd07948 DRE_TIM_HCS Saccharomy 28.5 3.5E+02 0.0076 24.2 8.1 95 27-125 108-206 (262)
424 PF03029 ATP_bind_1: Conserved 28.5 84 0.0018 27.7 4.1 88 30-125 142-232 (238)
425 TIGR01859 fruc_bis_ald_ fructo 28.2 1.3E+02 0.0027 27.5 5.3 63 32-103 3-71 (282)
426 PRK01889 GTPase RsgA; Reviewed 28.2 2E+02 0.0043 26.9 6.7 61 32-97 130-192 (356)
427 cd04158 ARD1 ARD1 subfamily. 28.1 2.3E+02 0.005 22.4 6.3 59 44-102 100-161 (169)
428 PRK05660 HemN family oxidoredu 28.1 2E+02 0.0043 27.0 6.7 58 18-75 128-189 (378)
429 PRK05628 coproporphyrinogen II 28.1 1.7E+02 0.0038 27.1 6.3 12 146-157 232-243 (375)
430 cd08025 RNR_PFL_like_DUF711 Un 28.1 3.5E+02 0.0075 26.4 8.4 75 25-102 44-135 (400)
431 TIGR02432 lysidine_TilS_N tRNA 28.0 3.3E+02 0.0072 22.1 7.9 36 43-79 26-63 (189)
432 cd06556 ICL_KPHMT Members of t 27.9 3.7E+02 0.0081 23.9 8.1 115 35-164 2-134 (240)
433 TIGR01949 AroFGH_arch predicte 27.9 4E+02 0.0086 23.4 8.3 66 30-101 122-191 (258)
434 cd04162 Arl9_Arfrp2_like Arl9/ 27.8 2E+02 0.0044 22.8 6.0 56 30-86 83-146 (164)
435 cd04166 CysN_ATPS CysN_ATPS su 27.8 1.4E+02 0.0031 25.0 5.2 42 33-74 118-166 (208)
436 PRK08446 coproporphyrinogen II 27.6 1.8E+02 0.0038 27.0 6.2 71 4-77 108-182 (350)
437 cd02742 GH20_hexosaminidase Be 27.6 1.4E+02 0.0031 27.0 5.5 55 31-87 16-97 (303)
438 cd04177 RSR1 RSR1 subgroup. R 27.5 3E+02 0.0066 21.5 8.5 55 42-99 104-161 (168)
439 PRK09912 L-glyceraldehyde 3-ph 27.5 1.1E+02 0.0024 28.0 4.9 48 38-86 180-228 (346)
440 TIGR00109 hemH ferrochelatase. 27.5 3.2E+02 0.007 25.2 7.9 64 36-99 251-319 (322)
441 smart00642 Aamy Alpha-amylase 27.5 2.1E+02 0.0045 23.8 6.1 50 30-80 18-89 (166)
442 PF14987 NADHdh_A3: NADH dehyd 27.4 26 0.00057 26.8 0.6 32 162-209 39-72 (84)
443 PRK04004 translation initiatio 27.4 3.3E+02 0.0073 27.4 8.5 26 31-56 110-135 (586)
444 PRK12296 obgE GTPase CgtA; Rev 27.3 2.9E+02 0.0063 27.5 7.9 58 43-103 283-341 (500)
445 cd01850 CDC_Septin CDC/Septin. 27.2 1.3E+02 0.0029 26.9 5.2 19 44-62 143-161 (276)
446 TIGR00238 KamA family protein. 27.1 4.1E+02 0.009 24.5 8.6 53 38-92 214-268 (331)
447 TIGR01361 DAHP_synth_Bsub phos 27.1 1.6E+02 0.0035 26.4 5.7 95 36-133 124-225 (260)
448 cd07575 Xc-1258_like Xanthomon 27.1 2.1E+02 0.0046 24.6 6.3 53 26-80 15-79 (252)
449 PLN02299 1-aminocyclopropane-1 27.1 2.2E+02 0.0048 26.2 6.7 51 44-102 6-57 (321)
450 PF08821 CGGC: CGGC domain; I 26.9 1.7E+02 0.0036 23.1 5.1 51 31-82 52-107 (107)
451 PF04312 DUF460: Protein of un 26.9 1.2E+02 0.0027 25.3 4.5 19 36-54 68-86 (138)
452 cd06323 PBP1_ribose_binding Pe 26.9 3.6E+02 0.0078 22.2 12.5 121 36-158 72-211 (268)
453 PF06041 DUF924: Bacterial pro 26.8 45 0.00097 28.7 2.0 34 26-67 144-185 (188)
454 PRK00090 bioD dithiobiotin syn 26.8 2.4E+02 0.0053 23.6 6.5 23 35-57 152-175 (222)
455 PF00356 LacI: Bacterial regul 26.8 21 0.00046 24.0 0.0 39 65-103 2-40 (46)
456 PRK13798 putative OHCU decarbo 26.8 81 0.0018 26.7 3.5 15 40-54 109-123 (166)
457 cd00885 cinA Competence-damage 26.6 3.8E+02 0.0082 22.4 8.7 70 130-206 84-154 (170)
458 CHL00067 rps2 ribosomal protei 26.6 85 0.0018 27.8 3.8 55 23-82 138-193 (230)
459 KOG1322 GDP-mannose pyrophosph 26.5 2.1E+02 0.0044 27.6 6.4 69 33-103 43-112 (371)
460 cd02117 NifH_like This family 26.5 2.1E+02 0.0046 24.0 6.1 52 21-75 151-204 (212)
461 COG1654 BirA Biotin operon rep 26.5 72 0.0016 24.0 2.8 30 25-54 28-57 (79)
462 CHL00198 accA acetyl-CoA carbo 26.5 2.5E+02 0.0055 26.5 7.0 61 28-90 138-207 (322)
463 cd01885 EF2 EF2 (for archaea a 26.4 1.2E+02 0.0025 26.5 4.5 25 32-56 113-137 (222)
464 PF05209 MinC_N: Septum format 26.3 69 0.0015 24.3 2.8 55 20-79 22-78 (99)
465 cd02801 DUS_like_FMN Dihydrour 26.2 3.9E+02 0.0085 22.4 9.5 36 42-80 52-87 (231)
466 PRK14057 epimerase; Provisiona 26.2 3.1E+02 0.0067 25.0 7.3 23 31-53 110-141 (254)
467 PLN03230 acetyl-coenzyme A car 26.1 2.5E+02 0.0053 27.7 7.0 62 27-90 204-274 (431)
468 TIGR03310 matur_ygfJ molybdenu 26.0 1.2E+02 0.0027 24.2 4.4 62 28-96 23-85 (188)
469 PRK07328 histidinol-phosphatas 25.9 38 0.00082 30.0 1.4 52 23-82 147-198 (269)
470 PRK04161 tagatose 1,6-diphosph 25.9 2.1E+02 0.0046 27.2 6.4 146 36-198 112-280 (329)
471 PRK11613 folP dihydropteroate 25.9 2.5E+02 0.0055 25.7 6.8 63 33-97 200-272 (282)
472 cd00755 YgdL_like Family of ac 25.9 1.4E+02 0.003 26.4 5.0 67 56-139 110-182 (231)
473 KOG0143 Iron/ascorbate family 25.7 2.4E+02 0.0051 26.2 6.7 69 42-126 15-85 (322)
474 TIGR00483 EF-1_alpha translati 25.6 1.8E+02 0.0039 27.5 6.0 42 33-74 129-177 (426)
475 cd04149 Arf6 Arf6 subfamily. 25.6 2.7E+02 0.0059 22.2 6.3 35 29-63 91-132 (168)
476 PLN03176 flavanone-3-hydroxyla 25.5 2.5E+02 0.0053 22.2 5.9 63 44-123 37-102 (120)
477 TIGR00283 arch_pth2 peptidyl-t 25.5 3.2E+02 0.0069 21.8 6.5 34 38-76 42-76 (115)
478 cd07940 DRE_TIM_IPMS 2-isoprop 25.4 3.5E+02 0.0075 23.9 7.5 54 30-83 113-166 (268)
479 cd04156 ARLTS1 ARLTS1 subfamil 25.4 2.3E+02 0.005 21.7 5.7 14 43-56 100-113 (160)
480 cd03770 SR_TndX_transposase Se 25.4 1.4E+02 0.0031 23.7 4.6 35 60-95 55-89 (140)
481 smart00484 XPGI Xeroderma pigm 25.3 1.2E+02 0.0025 22.3 3.7 33 41-81 1-33 (73)
482 cd06394 PBP1_iGluR_Kainate_KA1 25.3 3.3E+02 0.0073 25.0 7.6 62 55-118 72-147 (333)
483 PRK08208 coproporphyrinogen II 25.3 89 0.0019 29.8 3.9 69 35-105 142-222 (430)
484 PF02352 Decorin_bind: Decorin 25.2 44 0.00095 27.9 1.5 66 56-125 9-98 (140)
485 PRK14837 undecaprenyl pyrophos 25.1 5E+02 0.011 23.3 9.3 105 21-127 27-149 (230)
486 PRK05672 dnaE2 error-prone DNA 25.1 8.3E+02 0.018 26.7 11.3 154 37-200 185-369 (1046)
487 PRK11565 dkgA 2,5-diketo-D-glu 25.1 3E+02 0.0065 24.3 7.0 116 29-149 136-262 (275)
488 PRK11572 copper homeostasis pr 25.0 5.3E+02 0.011 23.4 9.6 89 43-134 50-145 (248)
489 PRK01736 hypothetical protein; 24.9 3.2E+02 0.007 23.5 6.9 61 93-153 70-144 (190)
490 COG0284 PyrF Orotidine-5'-phos 24.8 5.1E+02 0.011 23.2 8.5 109 36-149 54-175 (240)
491 TIGR01370 cysRS possible cyste 24.8 2.8E+02 0.006 26.0 6.9 10 92-101 284-293 (315)
492 PRK12330 oxaloacetate decarbox 24.8 3E+02 0.0065 27.4 7.5 93 30-125 123-222 (499)
493 PRK03003 GTP-binding protein D 24.7 3.1E+02 0.0066 26.5 7.5 64 37-103 315-383 (472)
494 PLN03071 GTP-binding nuclear p 24.7 2.8E+02 0.006 23.6 6.5 70 29-102 100-172 (219)
495 cd07571 ALP_N-acyl_transferase 24.6 3.1E+02 0.0067 24.1 7.0 51 31-82 23-80 (270)
496 PF06074 DUF935: Protein of un 24.6 2.2E+02 0.0048 27.9 6.6 41 33-75 223-264 (516)
497 PRK14339 (dimethylallyl)adenos 24.5 3.2E+02 0.0069 26.1 7.5 89 18-127 250-345 (420)
498 PF03599 CdhD: CO dehydrogenas 24.5 2.5E+02 0.0054 27.2 6.7 57 32-92 132-188 (386)
499 TIGR02034 CysN sulfate adenyly 24.4 1.6E+02 0.0034 27.9 5.4 26 32-57 120-146 (406)
500 PF01136 Peptidase_U32: Peptid 24.4 1.1E+02 0.0024 26.0 4.0 89 60-161 2-101 (233)
No 1
>PRK13507 formate--tetrahydrofolate ligase; Provisional
Probab=100.00 E-value=6.5e-97 Score=708.47 Aligned_cols=223 Identities=49% Similarity=0.801 Sum_probs=219.6
Q ss_pred CCCCCCCccCCCCCccccccccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEc
Q 042073 1 MHGGGPQVVAGKPLDHAYLNENVALVEAGCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVC 80 (225)
Q Consensus 1 ~HGGv~~~~lg~pl~~~l~~eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs 80 (225)
||||+++..+|+|||++|++||++||++||+||+|||+|+++||+|||||||+|++||++||++|+++|+++|++ +++|
T Consensus 358 ~hgG~~~~~~g~~l~~~l~~enl~al~~G~~NL~~Hi~n~~~fg~pvVVaiN~F~~Dt~~Ei~~l~~~~~~~g~~-~~v~ 436 (587)
T PRK13507 358 MHGGGPKVVPGKPLPEEYTKENVGLVEKGCANLLHHIGTVKKSGINPVVCINAFYTDTHAEIAIVRRLAEQAGAR-VAVS 436 (587)
T ss_pred HcCCCCccccCCccchhccccCHHHHHHHHHHHHHHHHHHHHcCCCeEEEeCCCCCCCHHHHHHHHHHHHHcCCC-EEEe
Confidence 799999999999999999999999999999999999999999999999999999999999999999999999997 9999
Q ss_pred cccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHHHHHHHHh-HhccCCCCCCHHHHHHHHHHHHCC-CCCCCee
Q 042073 81 SHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKEKIDTIAR-SYGASGVEYSEEAEKQIKMYTRQG-FSGLPFC 158 (225)
Q Consensus 81 ~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~-IYGA~~V~~s~~A~~~l~~~e~~G-~~~lPVC 158 (225)
+||++||+|+++||++|+++|++ +++|+|||++++||+|||++||+ ||||++|+||++|++||++||++| |++||||
T Consensus 437 ~~wa~GGeGa~eLA~~Vv~a~e~-~s~fk~LYd~~~sI~EKIetIAkeIYGAdgVe~S~~A~kqLk~le~~gGfg~LPVC 515 (587)
T PRK13507 437 RHWEKGGEGALELADAVIDACNE-PNDFKFLYPLEMPLRERIETIAREVYGADGVSYTPEAEAKLKRLESDPETADFGTC 515 (587)
T ss_pred chhhccchhHHHHHHHHHHHhhC-cCCCcccCCCCCCHHHHHHHHHHHccCCCceeECHHHHHHHHHHHhcCCCCCCCEE
Confidence 99999999999999999999985 67899999999999999999999 999999999999999999999996 9999999
Q ss_pred EeecCCCcCCC-----CCCCceEEeeEEEeecCCceeeeecccccccCCCCCCCceeeeeeeCCCCeeeccC
Q 042073 159 MAKTQHSFSHN-----APTGFILPIRDVRASIGAGFIYPLVGTISTMLGLPTRPCFYEIDGDTATGRVLGLS 225 (225)
Q Consensus 159 mAKTqyS~Sdd-----~P~~f~~~vrdv~~~~GAgFiv~~~G~i~tMPGLpk~Paa~~idvd~~~G~I~GL~ 225 (225)
||||||||||| +|+||+|||||||+|+||||||++||+|||||||||+|+|++||||+++|+|+|||
T Consensus 516 mAKTqyS~S~d~~~~g~P~gf~~~ir~v~~~~GAGFiv~l~G~i~tMPGLp~~Paa~~idid~~~G~i~GL~ 587 (587)
T PRK13507 516 MVKTHLSLSHDPALKGVPKGWTLPIRDILTYGGAGFVVPVAGDISLMPGTGSDPAFRRIDVDTQTGKVKGLF 587 (587)
T ss_pred EEecCcCcCCCccccCCCCCcEEEeeEEEEcCCCCEEEEecCCcccCCCCCCCCccccccccCCCCEEeccC
Confidence 99999999999 99999999999999999999999999999999999999999999999999999998
No 2
>PLN02759 Formate--tetrahydrofolate ligase
Probab=100.00 E-value=4.1e-96 Score=706.90 Aligned_cols=225 Identities=82% Similarity=1.295 Sum_probs=220.0
Q ss_pred CCCCCCCccCCCCCccccccccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEc
Q 042073 1 MHGGGPQVVAGKPLDHAYLNENVALVEAGCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVC 80 (225)
Q Consensus 1 ~HGGv~~~~lg~pl~~~l~~eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs 80 (225)
||||+++..+|.|||++|.+||+++|++||+||.|||+|+++||+|||||||+|++||++||++|+++|+++|+.++++|
T Consensus 407 ~hGG~~~~~pg~~l~~~l~~enl~al~~G~~NL~~Hi~n~~~fg~pvVVaiN~F~~Dt~~Ei~~v~~~~~~~ga~~~~~~ 486 (637)
T PLN02759 407 MHGGGPAVVAGKPLDHAYTTENVELVEAGCVNLARHIENTKSYGVNVVVAINMFATDTEAELEAVRQAALAAGAFDAVLC 486 (637)
T ss_pred hcCCCCcccCCccchhhhcccCHHHHHhhhhhHHHHHHHHHHcCCCeEEEecCCCCCCHHHHHHHHHHHHHcCCCcEEEe
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999995239999
Q ss_pred cccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHHHHHHHHh-HhccCCCCCCHHHHHHHHHHHHCCCCCCCeeE
Q 042073 81 SHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKEKIDTIAR-SYGASGVEYSEEAEKQIKMYTRQGFSGLPFCM 159 (225)
Q Consensus 81 ~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~-IYGA~~V~~s~~A~~~l~~~e~~G~~~lPVCm 159 (225)
+||++||+|++|||++|++++++++++|+|||++++||+|||++||+ ||||++|+||++|++||++||++||++|||||
T Consensus 487 ~~wa~GGeGa~eLA~~Vv~a~e~~~s~fk~LYd~~~sI~eKIetIAkeIYGAd~VefS~~AkkqLk~ie~lGfg~LPVCm 566 (637)
T PLN02759 487 THHAHGGKGAVDLGEAVQKACEGNSQPFKFLYPLDISIKEKIEAIAKESYGADGVEYSEQAEAQIEMYTRQGFSNLPICM 566 (637)
T ss_pred chhhcccHHHHHHHHHHHHHHhcCCCCccccCCCCCCHHHHHHHHHHHccCCCceEECHHHHHHHHHHHHcCCCCCCeeE
Confidence 99999999999999999999985467899999999999999999999 99999999999999999999999999999999
Q ss_pred eecCCCcCCC-----CCCCceEEeeEEEeecCCceeeeecccccccCCCCCCCceeeeeeeCCCCeeeccC
Q 042073 160 AKTQHSFSHN-----APTGFILPIRDVRASIGAGFIYPLVGTISTMLGLPTRPCFYEIDGDTATGRVLGLS 225 (225)
Q Consensus 160 AKTqyS~Sdd-----~P~~f~~~vrdv~~~~GAgFiv~~~G~i~tMPGLpk~Paa~~idvd~~~G~I~GL~ 225 (225)
|||||||||| +|+||+|||||||+|+||||||++||+|||||||||+|||++||||+++|+|+|||
T Consensus 567 AKTqyS~S~dp~l~G~P~gf~~~ir~~~~~~GAGFiv~l~G~i~tMPGLp~~Paa~~idid~~~G~i~GL~ 637 (637)
T PLN02759 567 AKTQYSFSHDASLKGAPSGFTLPIRDVRASVGAGFIYPLVGTMSTMPGLPTRPCFYDIDIDTETGKVLGLS 637 (637)
T ss_pred ecCCCCcCCChhhhCCCCCcEEEeeEEEEcCCCCEEEEecCccccCCCCCCCCcccccccccCCCEEecCC
Confidence 9999999999 99999999999999999999999999999999999999999999999999999998
No 3
>PRK13506 formate--tetrahydrofolate ligase; Provisional
Probab=100.00 E-value=5.2e-96 Score=702.94 Aligned_cols=222 Identities=42% Similarity=0.681 Sum_probs=217.9
Q ss_pred CCCCCCCccCCCCCccccccccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHH-cCCCeEEE
Q 042073 1 MHGGGPQVVAGKPLDHAYLNENVALVEAGCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMA-AGAFDAVV 79 (225)
Q Consensus 1 ~HGGv~~~~lg~pl~~~l~~eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~-~g~~~~av 79 (225)
||||+...+.|+|||++|++||++||++||+||+|||+|+++||+|||||||+|++||++||++|+++|++ .|+. +++
T Consensus 350 ~hGG~~~~~~g~pl~~~l~~en~~al~~G~~NL~~Hi~n~~~fg~pvVVaiN~F~~Dt~~Ei~~~~~~~~~~~~~~-~~~ 428 (578)
T PRK13506 350 ANSGLYDLRPGQALPDSINAPDQARLEAGFANLKWHINNVAQYGLPVVVAINRFPTDTDEELEWLKEAVLLTGAFG-CEI 428 (578)
T ss_pred hcCCCCCcccCcccchhccccCHHHHHHHHHHHHHHHHHHHHcCCCeEEEecCCCCCCHHHHHHHHHHHHHcCCCc-EEE
Confidence 79998888999999999999999999999999999999999999999999999999999999999999999 6776 999
Q ss_pred ccccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHHHHHHHHh-HhccCCCCCCHHHHHHHHHHHHCCCCCCCee
Q 042073 80 CSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKEKIDTIAR-SYGASGVEYSEEAEKQIKMYTRQGFSGLPFC 158 (225)
Q Consensus 80 s~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~-IYGA~~V~~s~~A~~~l~~~e~~G~~~lPVC 158 (225)
|+||++||+|++|||++|+++|++ +++|+|||++++||+|||++||+ ||||++|+||++|++||++||++||++||||
T Consensus 429 ~~~wa~GGeGa~eLA~~Vv~a~e~-~s~fk~LYd~~~sI~eKIetIAkeIYGA~gVefS~~A~kqLk~ie~~Gf~~LPVC 507 (578)
T PRK13506 429 SEAFAQGGEGATALAQAVVRACEQ-PSQFKLLYPDEMSLEAKLMTLAEVGYGAAGVSLSDKAKQQLAQLTALGYDHLPVC 507 (578)
T ss_pred echhhccchhHHHHHHHHHHHhhC-cCCCcccCCCCCCHHHHHHHHHHHccCCCceEECHHHHHHHHHHHHcCCCCCCEE
Confidence 999999999999999999999985 68899999999999999999999 9999999999999999999999999999999
Q ss_pred EeecCCCcCCC-----CCCCceEEeeEEEeecCCceeeeecccccccCCCCCCCceeeeeeeCCCCeeeccC
Q 042073 159 MAKTQHSFSHN-----APTGFILPIRDVRASIGAGFIYPLVGTISTMLGLPTRPCFYEIDGDTATGRVLGLS 225 (225)
Q Consensus 159 mAKTqyS~Sdd-----~P~~f~~~vrdv~~~~GAgFiv~~~G~i~tMPGLpk~Paa~~idvd~~~G~I~GL~ 225 (225)
||||||||||| +|+||+|||||||+|+||||||++||+|||||||||+|+|++|||| ++|+|+|||
T Consensus 508 mAKTq~S~S~d~~l~g~P~~f~~~ir~~~~~~GAgfiv~~~g~i~tMPGLp~~Paa~~idid-~~g~i~Gl~ 578 (578)
T PRK13506 508 MAKTPLSISHDPALKGAPTDFEVPIRELRLCAGAGFITALVGNVMTMPGLGLKPGYLNIDID-ADGEIVGLS 578 (578)
T ss_pred EEecCCccCCChhhcCCCCCcEEEeeEEEEcCCCCEEEEecCccccCCCCCCCCccccCccC-CCCcEecCC
Confidence 99999999999 9999999999999999999999999999999999999999999999 999999998
No 4
>PF01268 FTHFS: Formate--tetrahydrofolate ligase; InterPro: IPR000559 Formate--tetrahydrofolate ligase (6.3.4.3 from EC) (formyltetrahydrofolate synthetase) (FTHFS) is one of the enzymes participating in the transfer of one-carbon units, an essential element of various biosynthetic pathways. In many of these processes the transfers of one-carbon units are mediated by the coenzyme tetrahydrofolate (THF). In eukaryotes the FTHFS activity is expressed by a multifunctional enzyme, C-1-tetrahydrofolate synthase (C1-THF synthase), which also catalyses the dehydrogenase and cyclohydrolase activities. Two forms of C1-THF synthases are known [], one is located in the mitochondrial matrix, while the second one is cytoplasmic. In both forms the FTHFS domain consists of about 600 amino acid residues and is located in the C-terminal section of C1-THF synthase. In prokaryotes FTHFS activity is expressed by a monofunctional homotetrameric enzyme of about 560 amino acid residues []. The crystal structure of N(10)-formyltetrahydrofolate synthetase from Moorella thermoacetica shows that the subunit is composed of three domains organised around three mixed beta-sheets. There are two cavities between adjacent domains. One of them was identified as the nucleotide binding site by homology modelling. The large domain contains a seven-stranded beta-sheet surrounded by helices on both sides. The second domain contains a five-stranded beta-sheet with two alpha-helices packed on one side while the other two are a wall of the active site cavity. The third domain contains a four-stranded beta-sheet forming a half-barrel. The concave side is covered by two helices while the convex side is another wall of the large cavity. Arg 97 is likely involved in formyl phosphate binding. The tetrameric molecule is relatively flat with the shape of the letter X, and the active sites are located at the end of the subunits far from the subunit interface [].; GO: 0004329 formate-tetrahydrofolate ligase activity, 0005524 ATP binding, 0009396 folic acid-containing compound biosynthetic process; PDB: 2EO2_A 3DO6_B 1FPM_A 3RBO_A 3PZX_B 3QB6_A 1FP7_A 3SIN_B 1EG7_A 3QUS_A ....
Probab=100.00 E-value=1.8e-96 Score=705.95 Aligned_cols=215 Identities=51% Similarity=0.785 Sum_probs=174.7
Q ss_pred CCCCCCCccCCCCCccccccccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEc
Q 042073 1 MHGGGPQVVAGKPLDHAYLNENVALVEAGCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVC 80 (225)
Q Consensus 1 ~HGGv~~~~lg~pl~~~l~~eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs 80 (225)
||||+++ ++|++||++||++||+||+|||+|+|+||+|||||||+|++||++||++|+++|+++|++ +++|
T Consensus 336 ~HGG~~~--------~~l~~eNl~al~~G~~NL~rHIeNik~fGvpvVVAIN~F~tDT~aEi~~I~~~~~~~Gv~-~avs 406 (557)
T PF01268_consen 336 MHGGVAK--------DDLNEENLEALEKGFANLERHIENIKKFGVPVVVAINRFPTDTDAEIELIRELCEELGVR-AAVS 406 (557)
T ss_dssp HHTT--G--------GGTTS--HHHHHHHHHHHHHHHHHHHCTT--EEEEEE--TTS-HHHHHHHHHHCCCCCEE-EEEC
T ss_pred hhcCCCc--------cccCccCHHHHHHHHHHHHHHHHHHHhcCCCeEEEecCCCCCCHHHHHHHHHHHHhCCCC-EEEe
Confidence 7999986 567779999999999999999999999999999999999999999999999999999997 9999
Q ss_pred cccccCchhhHHHHHHHHHHh-hcCCCCcccccCCCCCHHHHHHHHHh-HhccCCCCCCHHHHHHHHHHHHCCCCCCCee
Q 042073 81 SHHAHGGKGAVDLGIAVQRAC-ENVTQPLKFLYPSDVSIKEKIDTIAR-SYGASGVEYSEEAEKQIKMYTRQGFSGLPFC 158 (225)
Q Consensus 81 ~~wa~GG~Ga~~LA~~Vv~~~-e~~~~~f~~lY~~~~~i~eKI~~IA~-IYGA~~V~~s~~A~~~l~~~e~~G~~~lPVC 158 (225)
+||++||+|++|||++|+++| ++.+++|+|||++++||+|||++||+ ||||++|+||++|++||+++|++||++||||
T Consensus 407 ~~wa~GGeGa~eLA~~Vv~a~ee~~~~~fk~LY~l~~sI~eKIe~IA~eIYGA~~V~~S~~A~kqLk~~e~~Gf~~LPVC 486 (557)
T PF01268_consen 407 EHWAKGGEGAVELAEAVVEACEEEEPSNFKPLYDLEDSIEEKIETIATEIYGADGVEYSPKAKKQLKKIEKLGFGNLPVC 486 (557)
T ss_dssp -HHHHGGGGCHHHHHHHHHH-HHHS------SS-TTS-HHHHHHHHHHHTT--SEEEE-HHHHHHHHHHHHCTTTTS-EE
T ss_pred chhhcccccHHHHHHHHHHHhhccCCCCcCcccCCcccHHHHHHHHHhhhcCCCcceeCHHHHHHHHHHHhcCCCcCceE
Confidence 999999999999999999999 45678899999999999999999999 9999999999999999999999999999999
Q ss_pred EeecCCCcCCC-----CCCCceEEeeEEEeecCCceeeeecccccccCCCCCCCceeeeeeeCCCCeeeccC
Q 042073 159 MAKTQHSFSHN-----APTGFILPIRDVRASIGAGFIYPLVGTISTMLGLPTRPCFYEIDGDTATGRVLGLS 225 (225)
Q Consensus 159 mAKTqyS~Sdd-----~P~~f~~~vrdv~~~~GAgFiv~~~G~i~tMPGLpk~Paa~~idvd~~~G~I~GL~ 225 (225)
||||||||||| +|+||+|||||||+|+||||||++||+|||||||||+|||++|||| ++|+|+|||
T Consensus 487 mAKTqySlSdDp~l~G~P~~f~i~Vrdv~~saGAGFvv~l~G~I~tMPGLpk~Paa~~idid-~~G~I~GLf 557 (557)
T PF01268_consen 487 MAKTQYSLSDDPKLKGAPTGFTIPVRDVRISAGAGFVVALTGDIMTMPGLPKRPAAENIDID-EDGNIVGLF 557 (557)
T ss_dssp EES-SSSSSSSTT--SS--S-EEEE-EEEEETTTCEEEECSSTTTSS----SS-GGGC-EEC-TTTEECS--
T ss_pred EecCCCCccCCCcccCCCCCcEEEEeEEEEcCCCcEEEEEeccccccCCCCCCccceeCCCC-CCCCEecCC
Confidence 99999999999 9999999999999999999999999999999999999999999999 999999998
No 5
>PTZ00386 formyl tetrahydrofolate synthetase; Provisional
Probab=100.00 E-value=4.4e-94 Score=691.76 Aligned_cols=217 Identities=57% Similarity=0.936 Sum_probs=210.1
Q ss_pred CCCCCCCccCCCCCccccccccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHH-HcCCCeEEE
Q 042073 1 MHGGGPQVVAGKPLDHAYLNENVALVEAGCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAM-AAGAFDAVV 79 (225)
Q Consensus 1 ~HGGv~~~~lg~pl~~~l~~eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~-~~g~~~~av 79 (225)
||||+++.++++ ||+++|++||+||.|||+|+++||+|||||||+|++||++||++|+++|+ ++|+.++++
T Consensus 402 ~hGG~~~~~l~~--------enl~al~~G~~NL~~Hien~~~fgvpvVVAIN~F~tDT~~Ei~~i~~~~~~~~ga~~~~~ 473 (625)
T PTZ00386 402 FHGGVEPVVAGK--------ENLEAVRKGLSNLQRHIQNIRKFGVPVVVALNKFSTDTDAELELVKELALQEGGAADVVV 473 (625)
T ss_pred HhCCCCccccCc--------cCHHHHHHHHHHHHHHHHHHHHcCCCeEEEecCCCCCCHHHHHHHHHHHHHhcCCccEEE
Confidence 799999866665 99999999999999999999999999999999999999999999999999 999423999
Q ss_pred ccccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHHHHHHHHh-HhccCCCCCCHHHHHHHHHHHHCCCCCCCee
Q 042073 80 CSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKEKIDTIAR-SYGASGVEYSEEAEKQIKMYTRQGFSGLPFC 158 (225)
Q Consensus 80 s~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~-IYGA~~V~~s~~A~~~l~~~e~~G~~~lPVC 158 (225)
|+||++||+|++|||++|+++|++++++|+|||++++||+|||++||+ ||||++|+||++|++||++||++||++||||
T Consensus 474 s~~~a~GG~Ga~eLA~~Vv~a~~~~~s~fk~LYd~~~sI~eKIetIAkeIYGA~gVefS~~AkkqLk~ie~~G~~~LPVC 553 (625)
T PTZ00386 474 TDHWAKGGAGAVDLAQALIRVTENVPSNFKLLYPLDASLKEKIETICKEIYGAAGVEYLNDADEKLEDFERMGYGKFPVC 553 (625)
T ss_pred echhhccchhHHHHHHHHHHHHhcCCCCCcccCCCCCCHHHHHHHHHHHccCCCcEEECHHHHHHHHHHHHcCCCCCCeE
Confidence 999999999999999999999986577899999999999999999999 9999999999999999999999999999999
Q ss_pred EeecCCCcCCC-----CCCCceEEeeEEEeecCCceeeeecccccccCCCCCCCceeeeeeeCCCCeeeccC
Q 042073 159 MAKTQHSFSHN-----APTGFILPIRDVRASIGAGFIYPLVGTISTMLGLPTRPCFYEIDGDTATGRVLGLS 225 (225)
Q Consensus 159 mAKTqyS~Sdd-----~P~~f~~~vrdv~~~~GAgFiv~~~G~i~tMPGLpk~Paa~~idvd~~~G~I~GL~ 225 (225)
||||||||||| +|+||+|||||||+|+||||||++||+|||||||||+|+|++||||+++|+|+|||
T Consensus 554 mAKTqyS~S~dp~l~G~P~gf~l~irdv~~~aGAGFiv~l~G~i~tMPGLp~~Paa~~idid~~~G~i~GL~ 625 (625)
T PTZ00386 554 MAKTQYSFSHDPELRGAPTGFTVPIRDVRVNCGAGFVFPLLGDISTMPGLPTRPAFYNIDIDCETGKIVGLS 625 (625)
T ss_pred EeccCCCcCCChhhcCCCCCCEEEeeEEEEcCCCCEEEEecCCcccCCCCCCCCCceeccccCCCCEEeccC
Confidence 99999999999 99999999999999999999999999999999999999999999998999999998
No 6
>COG2759 MIS1 Formyltetrahydrofolate synthetase [Nucleotide transport and metabolism]
Probab=100.00 E-value=2.4e-93 Score=669.90 Aligned_cols=215 Identities=47% Similarity=0.762 Sum_probs=211.2
Q ss_pred CCCCCCCccCCCCCccccccccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEc
Q 042073 1 MHGGGPQVVAGKPLDHAYLNENVALVEAGCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVC 80 (225)
Q Consensus 1 ~HGGv~~~~lg~pl~~~l~~eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs 80 (225)
||||+++ ++|.+||++||++||+||.|||+|+|+||+|||||||+|++||++||+.|+++|.++|++ +++|
T Consensus 334 ~hGG~~~--------~~l~~Env~avk~G~aNL~~Hi~Nikkfgvp~VVAIN~F~tDt~~Ei~~i~~~~~~~gv~-~~ls 404 (554)
T COG2759 334 MHGGVPK--------EDLTEENVDAVKKGFANLLKHIENIKKFGVPVVVAINKFPTDTEAEIAAIEKLCEEHGVE-VALS 404 (554)
T ss_pred HcCCCCh--------HHhcchhHHHHHHHHHHHHHHHHHHHHcCCCeEEEeccCCCCCHHHHHHHHHHHHHcCCc-eeeh
Confidence 7999995 777779999999999999999999999999999999999999999999999999999997 9999
Q ss_pred cccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHHHHHHHHh-HhccCCCCCCHHHHHHHHHHHHCCCCCCCeeE
Q 042073 81 SHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKEKIDTIAR-SYGASGVEYSEEAEKQIKMYTRQGFSGLPFCM 159 (225)
Q Consensus 81 ~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~-IYGA~~V~~s~~A~~~l~~~e~~G~~~lPVCm 159 (225)
+||++||+|++|||++|++++++++++|++|||.++||++||++||+ ||||++|+||++|++||++|+++||++|||||
T Consensus 405 ~vwakGg~Gg~eLA~kVv~~~~~~~~~f~~lYd~~~~i~~Ki~~I~~~iYga~~v~~s~~A~~ql~~~~~~g~d~lPiCm 484 (554)
T COG2759 405 EVWAKGGEGGIELAKKVVEAIEQNDSEFKRLYDVEDPIEEKIEKIAKEIYGADGVEFSPKAKEQLKTFEKQGFDNLPICM 484 (554)
T ss_pred hhhhccCccHHHHHHHHHHHHhCCcccceeecccCCcHHHHHHHHHHHhcCCcceeeCHHHHHHHHHHHHhCCCCCceeE
Confidence 99999999999999999999998778999999999999999999999 99999999999999999999999999999999
Q ss_pred eecCCCcCCC-----CCCCceEEeeEEEeecCCceeeeecccccccCCCCCCCceeeeeeeCCCCeeeccC
Q 042073 160 AKTQHSFSHN-----APTGFILPIRDVRASIGAGFIYPLVGTISTMLGLPTRPCFYEIDGDTATGRVLGLS 225 (225)
Q Consensus 160 AKTqyS~Sdd-----~P~~f~~~vrdv~~~~GAgFiv~~~G~i~tMPGLpk~Paa~~idvd~~~G~I~GL~ 225 (225)
|||||||||| +|+||++||||+|+|+||||||+|||+|||||||||+|||++|||| ++|+|+|||
T Consensus 485 AKTqYS~Sddp~llg~P~~F~v~Ir~~~~s~GAGFival~g~ImtMPGLpk~Paa~~idv~-e~G~i~GLf 554 (554)
T COG2759 485 AKTQYSFSDDPSLLGAPTGFTVPIRELRLSAGAGFIVALTGEIMTMPGLPKKPAAENIDVD-EDGEIVGLF 554 (554)
T ss_pred ecCcccccCCHhhcCCCCCcEEEeeEeEecCCCceEeeeccccccCCCCCCCcchhceeec-CCCceeccC
Confidence 9999999999 9999999999999999999999999999999999999999999999 999999998
No 7
>PRK13505 formate--tetrahydrofolate ligase; Provisional
Probab=100.00 E-value=7.5e-91 Score=667.83 Aligned_cols=215 Identities=45% Similarity=0.709 Sum_probs=209.9
Q ss_pred CCCCCCCccCCCCCccccccccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEc
Q 042073 1 MHGGGPQVVAGKPLDHAYLNENVALVEAGCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVC 80 (225)
Q Consensus 1 ~HGGv~~~~lg~pl~~~l~~eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs 80 (225)
||||+++ ++|++||+|++++||.||+|||+|+|+||+|+|||||||++||++|++.|+++|+++|++ +++|
T Consensus 337 ~hgg~~~--------~~l~~en~Eal~sGl~NL~RHIenvr~FGvPvVVAINKFd~DTe~Ei~~I~~~c~e~Gv~-va~~ 407 (557)
T PRK13505 337 MHGGVAK--------DDLKEENVEALKKGFANLERHIENIRKFGVPVVVAINKFVTDTDAEIAALKELCEELGVE-VALS 407 (557)
T ss_pred HcCCCCh--------hhccccCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCCCCCCHHHHHHHHHHHHHcCCC-EEEe
Confidence 7999987 566779999999999999999999999999999999999999999999999999999997 9999
Q ss_pred cccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHHHHHHHHh-HhccCCCCCCHHHHHHHHHHHHCCCCCCCeeE
Q 042073 81 SHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKEKIDTIAR-SYGASGVEYSEEAEKQIKMYTRQGFSGLPFCM 159 (225)
Q Consensus 81 ~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~-IYGA~~V~~s~~A~~~l~~~e~~G~~~lPVCm 159 (225)
+||++||+|+++||++|++++++.+++|+|+|++++|+++||++||+ ||||++|+||++|++||++||++||++|||||
T Consensus 408 ~~~~~Gg~Gai~LA~aVveA~~~~~s~f~~lY~~d~sl~eKIe~IAkkIYGA~~V~~s~~A~kqL~~~e~~Gf~~lPVCm 487 (557)
T PRK13505 408 EVWAKGGEGGVELAEKVVELIEEGESNFKPLYDDEDSLEEKIEKIATKIYGAKGVEFSPKAKKQLKQIEKNGWDKLPVCM 487 (557)
T ss_pred cccccCCcchHHHHHHHHHHHhcCCCCCceecCCCCcHHHHHHHHHHHccCCCCeeECHHHHHHHHHHHHcCCCCCCeEE
Confidence 99999999999999999999986567899999999999999999999 99999999999999999999999999999999
Q ss_pred eecCCCcCCC-----CCCCceEEeeEEEeecCCceeeeecccccccCCCCCCCceeeeeeeCCCCeeeccC
Q 042073 160 AKTQHSFSHN-----APTGFILPIRDVRASIGAGFIYPLVGTISTMLGLPTRPCFYEIDGDTATGRVLGLS 225 (225)
Q Consensus 160 AKTqyS~Sdd-----~P~~f~~~vrdv~~~~GAgFiv~~~G~i~tMPGLpk~Paa~~idvd~~~G~I~GL~ 225 (225)
|||||||||| +|+||+|||||||+|+||||||++||+|||||||||+|+|++|||| ++|+|+|||
T Consensus 488 AKTqyS~s~d~~~~g~p~~f~~~ir~~~~~~GAgfiv~~~g~i~tmPGLp~~Paa~~idid-~~g~i~gl~ 557 (557)
T PRK13505 488 AKTQYSFSDDPKLLGAPTGFTITVRELRPSAGAGFIVALTGDIMTMPGLPKVPAALNIDVD-EDGNIVGLF 557 (557)
T ss_pred EccCCCcCCChhhhCCCCCcEEEeeEEEEcCCCCEEEEecCCcccCCCCCCCCcccccccC-CCCceecCC
Confidence 9999999999 9999999999999999999999999999999999999999999999 999999998
No 8
>cd00477 FTHFS Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2 fixation (acetogenesis) and the glycine synthase/reductase pathways of purinolysis. The key physiological role of this enzyme in acetogens is to catalyze the formylation of tetrahydrofolate, an initial step in the reduction of carbon dioxide and other one-carbon precursors to acetate. In purinolytic organisms, the enzymatic reaction is reversed, liberating formate from 10-formyltetrahydrofolate with concurrent production of ATP.
Probab=100.00 E-value=1.4e-87 Score=639.93 Aligned_cols=199 Identities=56% Similarity=0.887 Sum_probs=193.3
Q ss_pred CCCCCCCccCCCCCccccccccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEc
Q 042073 1 MHGGGPQVVAGKPLDHAYLNENVALVEAGCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVC 80 (225)
Q Consensus 1 ~HGGv~~~~lg~pl~~~l~~eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs 80 (225)
||||+++.++++ +||++||++||+||+|||+|+|+||+|||||||+|++||++||++|+++|+++|++ +++|
T Consensus 320 ~hGG~~~~~l~~-------~en~~al~~G~~NL~~Hi~n~~~fg~p~VVaiN~F~~Dt~~Ei~~v~~~~~~~g~~-~~~~ 391 (524)
T cd00477 320 MHGGVPKVTLGL-------EENLEALEKGFANLRKHIENIKKFGVPVVVAINKFSTDTDAELALVRKLAEEAGAF-VAVS 391 (524)
T ss_pred HhCCCCcccCCC-------ccCHHHHHhHHHHHHHHHHHHHHcCCCeEEEecCCCCCCHHHHHHHHHHHHHcCCC-EEEe
Confidence 799999866551 59999999999999999999999999999999999999999999999999999997 9999
Q ss_pred cccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHHHHHHHHh-HhccCCCCCCHHHHHHHHHHHHCCCCCCCeeE
Q 042073 81 SHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKEKIDTIAR-SYGASGVEYSEEAEKQIKMYTRQGFSGLPFCM 159 (225)
Q Consensus 81 ~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~-IYGA~~V~~s~~A~~~l~~~e~~G~~~lPVCm 159 (225)
+||++||+|+++||++|++++++ +++|+|||++++||+|||++||+ ||||++|+||++|++||++||++||++|||||
T Consensus 392 ~~~~~GG~Ga~eLA~~Vi~a~e~-~s~fk~LY~~~~si~eKIetIAk~IYGA~~V~~S~~A~kqLk~ie~~Gfg~LPvCm 470 (524)
T cd00477 392 EHWAEGGKGAVELAEAVIEACEQ-PSEFKFLYDLEDPLEDKIETIAKKIYGADGVELSPKAKKKLARYEKQGFGNLPVCM 470 (524)
T ss_pred hhhhhhhhhHHHHHHHHHHHhcC-CCCCccccCCCCCHHHHHHHHHHHccCCCceeECHHHHHHHHHHHHcCCCCCCeEE
Confidence 99999999999999999999985 67899999999999999999999 99999999999999999999999999999999
Q ss_pred eecCCCcCCC-----CCCCceEEeeEEEeecCCceeeeecccccccCCCCCCCc
Q 042073 160 AKTQHSFSHN-----APTGFILPIRDVRASIGAGFIYPLVGTISTMLGLPTRPC 208 (225)
Q Consensus 160 AKTqyS~Sdd-----~P~~f~~~vrdv~~~~GAgFiv~~~G~i~tMPGLpk~Pa 208 (225)
|||||||||| +|+||+|||||||+|+||||||++||+|||||||||+|+
T Consensus 471 AKTqyS~S~d~~~~g~P~~f~~~vr~~~~~~GAgfiv~l~g~i~tMPGLp~~Pa 524 (524)
T cd00477 471 AKTQYSLSDDPSLKGAPTGFTLPIRDVRLSAGAGFIVALTGDIMTMPGLPKRPA 524 (524)
T ss_pred EcCCCCcCCCccccCCCCCcEEEeeEEEEcCCCCEEEEecCCcccCCCCCCCCC
Confidence 9999999999 999999999999999999999999999999999999996
No 9
>KOG4230 consensus C1-tetrahydrofolate synthase [Coenzyme transport and metabolism]
Probab=100.00 E-value=3.7e-81 Score=600.38 Aligned_cols=223 Identities=52% Similarity=0.929 Sum_probs=220.5
Q ss_pred CCCCCCCccCCCCCccccccccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEc
Q 042073 1 MHGGGPQVVAGKPLDHAYLNENVALVEAGCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVC 80 (225)
Q Consensus 1 ~HGGv~~~~lg~pl~~~l~~eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs 80 (225)
+|||.+...+|+|||++|.+||++.+++|+.||.|||+|+++||+|||||||+|.|||+.||+.|++.+.++|+.+++-|
T Consensus 707 ~hgggp~v~pg~plp~~y~~en~dlv~kg~snl~k~i~n~~~fgipvvvain~f~tds~~ei~~ir~~al~aga~dav~s 786 (935)
T KOG4230|consen 707 LHGGGPKVKPGQPLPEEYTEENLDLVEKGCSNLVKQIENIKKFGIPVVVAINKFKTDSEKEIEAIREAALEAGAFDAVTS 786 (935)
T ss_pred hcCCCCCCCCCCCCcHHHHHhhHHHHHHHHHHHHHHHHhHHhcCCCEEEEeccccCCCHHHHHHHHHHHHhcCCcccccc
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHHHHHHHHh-HhccCCCCCCHHHHHHHHHHHHCCCCCCCeeE
Q 042073 81 SHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKEKIDTIAR-SYGASGVEYSEEAEKQIKMYTRQGFSGLPFCM 159 (225)
Q Consensus 81 ~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~-IYGA~~V~~s~~A~~~l~~~e~~G~~~lPVCm 159 (225)
+||++||+||++||++|+++|+. ++.|++|||.+.|||+||+.||+ +|||++|++||+|++++..|+++||++|||||
T Consensus 787 nhwaeggkgai~la~av~~a~~~-~s~f~llydv~~~iedk~~~iaqkmyga~~ie~~p~aq~ki~~y~kqgfgnlpici 865 (935)
T KOG4230|consen 787 NHWAEGGKGAIELAKAVITACDS-PSKFRLLYDVNSSIEDKLTIIAQKMYGAAGIELSPEAQEKIDTYKKQGFGNLPICI 865 (935)
T ss_pred cchhhcCccHHHHHHHHHHHhcC-CcceeEEEecCccHHHHHHHHHHHHcCCccceeCHHHHHHHHHHHhccCCCCceee
Confidence 99999999999999999999984 78999999999999999999999 99999999999999999999999999999999
Q ss_pred eecCCCcCCC-----CCCCceEEeeEEEeecCCceeeeecccccccCCCCCCCceeeeeeeCCCCeeeccC
Q 042073 160 AKTQHSFSHN-----APTGFILPIRDVRASIGAGFIYPLVGTISTMLGLPTRPCFYEIDGDTATGRVLGLS 225 (225)
Q Consensus 160 AKTqyS~Sdd-----~P~~f~~~vrdv~~~~GAgFiv~~~G~i~tMPGLpk~Paa~~idvd~~~G~I~GL~ 225 (225)
|||||||||| +|+||++||||+|+|+||||+++|++.|+||||||..|++++|||| ++|+|.|||
T Consensus 866 aktqyslshdp~~kgvpt~ft~pird~r~s~gagflyplaa~iqtipglpt~p~y~~idi~-~~gei~gl~ 935 (935)
T KOG4230|consen 866 AKTQYSLSHDPELKGVPTGFTVPIRDMRLSAGAGFLYPLAAEIQTIPGLPTYPAYMNIDID-ENGEIVGLF 935 (935)
T ss_pred eecccccccCccccCCCCCceeechhhhcccCCcchhhhhHHhhcCCCCCCccceeeeeec-CCCcccccC
Confidence 9999999999 9999999999999999999999999999999999999999999999 999999998
No 10
>PRK15452 putative protease; Provisional
Probab=93.80 E-value=0.42 Score=46.32 Aligned_cols=103 Identities=17% Similarity=0.128 Sum_probs=65.0
Q ss_pred HHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHH---HHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCC
Q 042073 31 VNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAA---MAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQP 107 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c---~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~ 107 (225)
+.|++.++-.++.|+.+.|++|+++. ++|++.+.++. .+.|+..+.+++. |.+.++++. .| .
T Consensus 46 edl~eav~~ah~~g~kvyvt~n~i~~--e~el~~~~~~l~~l~~~gvDgvIV~d~------G~l~~~ke~------~p-~ 110 (443)
T PRK15452 46 ENLALGINEAHALGKKFYVVVNIAPH--NAKLKTFIRDLEPVIAMKPDALIMSDP------GLIMMVREH------FP-E 110 (443)
T ss_pred HHHHHHHHHHHHcCCEEEEEecCcCC--HHHHHHHHHHHHHHHhCCCCEEEEcCH------HHHHHHHHh------CC-C
Confidence 35778888889999999999999988 46666666554 4789974555443 555555542 11 2
Q ss_pred cccccCCCCCHHHHHHHHHh-HhccCCCCCCHHH-HHHHHHHH
Q 042073 108 LKFLYPSDVSIKEKIDTIAR-SYGASGVEYSEEA-EKQIKMYT 148 (225)
Q Consensus 108 f~~lY~~~~~i~eKI~~IA~-IYGA~~V~~s~~A-~~~l~~~e 148 (225)
+....+...++-.--..=.- =+|++.|++|.+- .++|+.+.
T Consensus 111 l~ih~stqlni~N~~a~~f~~~lG~~rvvLSrELsl~EI~~i~ 153 (443)
T PRK15452 111 MPIHLSVQANAVNWATVKFWQQMGLTRVILSRELSLEEIEEIR 153 (443)
T ss_pred CeEEEEecccCCCHHHHHHHHHCCCcEEEECCcCCHHHHHHHH
Confidence 23333333333332222222 4689999999876 57777776
No 11
>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]
Probab=92.77 E-value=0.13 Score=47.36 Aligned_cols=45 Identities=20% Similarity=0.321 Sum_probs=38.0
Q ss_pred HhHHHHHHHHHHHhhcCCeEEEEecCC-CCCcHHHHHHHHHHHHHcCCCeEE
Q 042073 28 AGCVNLARHIANTKAYGVNVVVAVNMF-ATDSEAELNAVRIAAMAAGAFDAV 78 (225)
Q Consensus 28 ~G~~NL~~HIeNi~~fGvpvVVAIN~F-~~DT~~Ei~~i~~~c~~~g~~~~a 78 (225)
.|+--|+|=++-++.||+|+++.|||+ +.|+ | |.++|++.|++ ..
T Consensus 198 ~glhD~kr~~el~~~f~ip~~iViNr~~~g~s--~---ie~~~~e~gi~-il 243 (284)
T COG1149 198 FGLHDLKRALELVEHFGIPTGIVINRYNLGDS--E---IEEYCEEEGIP-IL 243 (284)
T ss_pred cchhHHHHHHHHHHHhCCceEEEEecCCCCch--H---HHHHHHHcCCC-ee
Confidence 578899999999999999999999999 2333 4 56999999997 54
No 12
>PLN02591 tryptophan synthase
Probab=91.48 E-value=4.7 Score=36.27 Aligned_cols=144 Identities=16% Similarity=0.235 Sum_probs=84.2
Q ss_pred CCCCCccCCCCCcccc------ccccHHHHHHhHH--HHHHHHHHHhh-cCCeEEE--EecCCCCCcHHHHHHHHHHHHH
Q 042073 3 GGGPQVVAGKPLDHAY------LNENVALVEAGCV--NLARHIANTKA-YGVNVVV--AVNMFATDSEAELNAVRIAAMA 71 (225)
Q Consensus 3 GGv~~~~lg~pl~~~l------~~eN~~al~~G~~--NL~~HIeNi~~-fGvpvVV--AIN~F~~DT~~Ei~~i~~~c~~ 71 (225)
+|+...++|-|-.+-+ .+-+..||+.|+. ....-++++|+ +.+|+|+ -.|-+-. -=++...+.|++
T Consensus 28 ~Gad~iElGiPfSDP~aDGpvIq~a~~rAL~~G~~~~~~~~~~~~~r~~~~~p~ilm~Y~N~i~~---~G~~~F~~~~~~ 104 (250)
T PLN02591 28 CGADVIELGVPYSDPLADGPVIQAAATRALEKGTTLDSVISMLKEVAPQLSCPIVLFTYYNPILK---RGIDKFMATIKE 104 (250)
T ss_pred CCCCEEEECCCCCCCcccCHHHHHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCEEEEecccHHHH---hHHHHHHHHHHH
Confidence 4555555665444332 3457788888852 33444455553 6788653 2342211 133456677899
Q ss_pred cCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHHHHHHHHh-----Hh-----ccCCC--CCCHH
Q 042073 72 AGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKEKIDTIAR-----SY-----GASGV--EYSEE 139 (225)
Q Consensus 72 ~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~-----IY-----GA~~V--~~s~~ 139 (225)
.|+..+.+-+. -.|-++.+.+.|.+..=.+-++...+.+ +++|++||+ || |.++. .+.+.
T Consensus 105 aGv~GviipDL-------P~ee~~~~~~~~~~~gl~~I~lv~Ptt~-~~ri~~ia~~~~gFIY~Vs~~GvTG~~~~~~~~ 176 (250)
T PLN02591 105 AGVHGLVVPDL-------PLEETEALRAEAAKNGIELVLLTTPTTP-TERMKAIAEASEGFVYLVSSTGVTGARASVSGR 176 (250)
T ss_pred cCCCEEEeCCC-------CHHHHHHHHHHHHHcCCeEEEEeCCCCC-HHHHHHHHHhCCCcEEEeeCCCCcCCCcCCchh
Confidence 99986666553 1355666777776432234466655555 445555554 55 33444 45577
Q ss_pred HHHHHHHHHHCCCCCCCeeE
Q 042073 140 AEKQIKMYTRQGFSGLPFCM 159 (225)
Q Consensus 140 A~~~l~~~e~~G~~~lPVCm 159 (225)
..+.++++++. .++|||+
T Consensus 177 ~~~~i~~vk~~--~~~Pv~v 194 (250)
T PLN02591 177 VESLLQELKEV--TDKPVAV 194 (250)
T ss_pred HHHHHHHHHhc--CCCceEE
Confidence 77778899884 7999997
No 13
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=90.90 E-value=0.72 Score=46.92 Aligned_cols=88 Identities=24% Similarity=0.352 Sum_probs=61.5
Q ss_pred HHHHHHHHH---HhhcCCeEEEEecCCCCCcHH----HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhc
Q 042073 31 VNLARHIAN---TKAYGVNVVVAVNMFATDSEA----ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACEN 103 (225)
Q Consensus 31 ~NL~~HIeN---i~~fGvpvVVAIN~F~~DT~~----Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~ 103 (225)
.||+|++-- +..+|+|+|+|+|...- .+ +|+ +.++-+.+|++ ++ ..=+.=|+|-.+|-+++++..+.
T Consensus 92 tnLeRnLyltlQLlE~g~p~ilaLNm~D~--A~~~Gi~ID-~~~L~~~LGvP-Vv--~tvA~~g~G~~~l~~~i~~~~~~ 165 (653)
T COG0370 92 TNLERNLYLTLQLLELGIPMILALNMIDE--AKKRGIRID-IEKLSKLLGVP-VV--PTVAKRGEGLEELKRAIIELAES 165 (653)
T ss_pred chHHHHHHHHHHHHHcCCCeEEEeccHhh--HHhcCCccc-HHHHHHHhCCC-EE--EEEeecCCCHHHHHHHHHHhccc
Confidence 589998875 34599999999998732 11 121 34556789998 43 23467788899999999998875
Q ss_pred CCCCcccccCCCCCHHHHHHHHH
Q 042073 104 VTQPLKFLYPSDVSIKEKIDTIA 126 (225)
Q Consensus 104 ~~~~f~~lY~~~~~i~eKI~~IA 126 (225)
+..++.+-|+ ..+++.|+.++
T Consensus 166 ~~~~~~~~y~--~~ie~~i~~l~ 186 (653)
T COG0370 166 KTTPREVDYG--EEIEEEIKELE 186 (653)
T ss_pred cccccccccc--hHHHHHHHHHH
Confidence 4333445554 47888887776
No 14
>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=90.79 E-value=3 Score=36.89 Aligned_cols=92 Identities=15% Similarity=0.044 Sum_probs=55.0
Q ss_pred HHHHHHHhhcCCeEEEEecCCCCCc-HHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCccccc
Q 042073 34 ARHIANTKAYGVNVVVAVNMFATDS-EAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLY 112 (225)
Q Consensus 34 ~~HIeNi~~fGvpvVVAIN~F~~DT-~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY 112 (225)
+..++.++.++.|+++++|+-..-. ++..+.+.+++...+.. .+-..=++-|.|-.+|.+.+.+.+...+.-|..-+
T Consensus 97 ~~i~~~l~~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~~~~~~~--~v~~iSA~~g~gi~~L~~~l~~~l~~~~~~~~~~~ 174 (270)
T TIGR00436 97 EFVLTKLQNLKRPVVLTRNKLDNKFKDKLLPLIDKYAILEDFK--DIVPISALTGDNTSFLAAFIEVHLPEGPFRYPEDY 174 (270)
T ss_pred HHHHHHHHhcCCCEEEEEECeeCCCHHHHHHHHHHHHhhcCCC--ceEEEecCCCCCHHHHHHHHHHhCCCCCCCCCCcc
Confidence 3445566778999999999965422 33344566666655542 22334467789999999999888754322222333
Q ss_pred CCCCCHHHHHHHHHh
Q 042073 113 PSDVSIKEKIDTIAR 127 (225)
Q Consensus 113 ~~~~~i~eKI~~IA~ 127 (225)
-.+.|.+.-+..|.|
T Consensus 175 ~t~~~~~~~~~e~ir 189 (270)
T TIGR00436 175 VTDQPDRFKISEIIR 189 (270)
T ss_pred cCCCCHHHHHHHHHH
Confidence 344455544444443
No 15
>PRK00089 era GTPase Era; Reviewed
Probab=90.02 E-value=5.2 Score=35.42 Aligned_cols=77 Identities=16% Similarity=0.088 Sum_probs=48.5
Q ss_pred HHHHHHHHhhcCCeEEEEecCCCCC-cHHHHHH-HHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCccc
Q 042073 33 LARHIANTKAYGVNVVVAVNMFATD-SEAELNA-VRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKF 110 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAIN~F~~D-T~~Ei~~-i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~ 110 (225)
....++.++..+.|+++++|+-.-- +.+++.. +.++++..+..++... =+.=|+|-.+|-+.+.+.+..++ +
T Consensus 102 ~~~i~~~l~~~~~pvilVlNKiDl~~~~~~l~~~~~~l~~~~~~~~i~~i--SA~~~~gv~~L~~~L~~~l~~~~----~ 175 (292)
T PRK00089 102 DEFILEKLKKVKTPVILVLNKIDLVKDKEELLPLLEELSELMDFAEIVPI--SALKGDNVDELLDVIAKYLPEGP----P 175 (292)
T ss_pred HHHHHHHHhhcCCCEEEEEECCcCCCCHHHHHHHHHHHHhhCCCCeEEEe--cCCCCCCHHHHHHHHHHhCCCCC----C
Confidence 4455666777899999999998664 4455544 4444444443323222 25567888899888888764322 4
Q ss_pred ccCCC
Q 042073 111 LYPSD 115 (225)
Q Consensus 111 lY~~~ 115 (225)
+|+.+
T Consensus 176 ~y~~~ 180 (292)
T PRK00089 176 YYPED 180 (292)
T ss_pred CCCCC
Confidence 66655
No 16
>PRK13111 trpA tryptophan synthase subunit alpha; Provisional
Probab=89.56 E-value=6.4 Score=35.48 Aligned_cols=145 Identities=15% Similarity=0.236 Sum_probs=90.5
Q ss_pred CCCCCccCCCCCccc------cccccHHHHHHhHH--HHHHHHHHHh-h-cCCeEEEEe--cCCCCCcHHHHHHHHHHHH
Q 042073 3 GGGPQVVAGKPLDHA------YLNENVALVEAGCV--NLARHIANTK-A-YGVNVVVAV--NMFATDSEAELNAVRIAAM 70 (225)
Q Consensus 3 GGv~~~~lg~pl~~~------l~~eN~~al~~G~~--NL~~HIeNi~-~-fGvpvVVAI--N~F~~DT~~Ei~~i~~~c~ 70 (225)
||+...++|-|..+- +.+-|..||+.|+. .+.+-++.+| + ..+|+|+=. |-+-.= =++...+.|+
T Consensus 38 ~Gad~iElGiPfSDP~aDGpvIq~a~~~AL~~G~~~~~~~~~~~~~r~~~~~~p~vlm~Y~N~i~~~---G~e~f~~~~~ 114 (258)
T PRK13111 38 AGADIIELGIPFSDPVADGPVIQAASLRALAAGVTLADVFELVREIREKDPTIPIVLMTYYNPIFQY---GVERFAADAA 114 (258)
T ss_pred CCCCEEEECCCCCCCcccCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCEEEEecccHHhhc---CHHHHHHHHH
Confidence 566666677655443 34568889999963 3455566666 3 688987544 643221 2345577889
Q ss_pred HcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHH--HHHHHHHh--Hh-----ccCCC--CCCHH
Q 042073 71 AAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIK--EKIDTIAR--SY-----GASGV--EYSEE 139 (225)
Q Consensus 71 ~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~--eKI~~IA~--IY-----GA~~V--~~s~~ 139 (225)
+.|+..+.+.+. -.+-++..++.|.+..=.+-++...+.|-+ ++|.+.+. || |.++. .+++.
T Consensus 115 ~aGvdGviipDL-------p~ee~~~~~~~~~~~gl~~I~lvap~t~~eri~~i~~~s~gfIY~vs~~GvTG~~~~~~~~ 187 (258)
T PRK13111 115 EAGVDGLIIPDL-------PPEEAEELRAAAKKHGLDLIFLVAPTTTDERLKKIASHASGFVYYVSRAGVTGARSADAAD 187 (258)
T ss_pred HcCCcEEEECCC-------CHHHHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHhCCCcEEEEeCCCCCCcccCCCcc
Confidence 999986655543 235666777777643222335555555532 44555555 66 45666 56778
Q ss_pred HHHHHHHHHHCCCCCCCeeE
Q 042073 140 AEKQIKMYTRQGFSGLPFCM 159 (225)
Q Consensus 140 A~~~l~~~e~~G~~~lPVCm 159 (225)
....++++.+. .++|||+
T Consensus 188 ~~~~i~~vk~~--~~~pv~v 205 (258)
T PRK13111 188 LAELVARLKAH--TDLPVAV 205 (258)
T ss_pred HHHHHHHHHhc--CCCcEEE
Confidence 88899999984 4789987
No 17
>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=89.22 E-value=2.8 Score=32.64 Aligned_cols=69 Identities=7% Similarity=-0.096 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHhh----cCCeEEEEecCCCCCcHH--HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 30 CVNLARHIANTKA----YGVNVVVAVNMFATDSEA--ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 30 ~~NL~~HIeNi~~----fGvpvVVAIN~F~~DT~~--Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
+.++...++.+.+ .++|+||++|+..-..+. ..+...+++++.++. +..+. ++-|.|-.+|=+.+++.+
T Consensus 89 ~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~S--a~~~~~i~~l~~~l~~~~ 163 (164)
T cd04145 89 FEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVSREEGQELARKLKIP-YIETS--AKDRLNVDKAFHDLVRVI 163 (164)
T ss_pred HHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceecHHHHHHHHHHcCCc-EEEee--CCCCCCHHHHHHHHHHhh
Confidence 3444444444432 589999999998654332 233467788888886 44443 355788888877776643
No 18
>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=88.69 E-value=3.5 Score=34.01 Aligned_cols=70 Identities=20% Similarity=0.196 Sum_probs=46.5
Q ss_pred HHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHH-----HHcCCCe---EEEccccccCchhhHHHHHHHHHHh
Q 042073 31 VNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAA-----MAAGAFD---AVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c-----~~~g~~~---~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
.....|++-++.+++|+||+||+-..- +++++.+.+.. +..+... +-+--.=+.=|.|-.+|-+.+++.+
T Consensus 109 ~~~~~~l~~~~~~~~p~ivvlNK~D~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~ 186 (188)
T PF00009_consen 109 PQTEEHLKILRELGIPIIVVLNKMDLI-EKELEEIIEEIKEKLLKEYGENGEEIVPVIPISALTGDGIDELLEALVELL 186 (188)
T ss_dssp HHHHHHHHHHHHTT-SEEEEEETCTSS-HHHHHHHHHHHHHHHHHHTTSTTTSTEEEEEEBTTTTBTHHHHHHHHHHHS
T ss_pred cccccccccccccccceEEeeeeccch-hhhHHHHHHHHHHHhccccccCccccceEEEEecCCCCCHHHHHHHHHHhC
Confidence 356889999999999999999998665 66655554433 3333321 2233344556778888888887764
No 19
>TIGR00262 trpA tryptophan synthase, alpha subunit. Tryptophan synthase catalyzes the last step in the biosynthesis of tryptophan. The alpha chain is responsible for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate. In bacteria and plants each domain is found on a separate subunit (alpha and beta chains), while in fungi the two domains are fused together on a single multifunctional protein. The signature pattern for trpA contains three conserved acidic residues. [LIVM]-E-[LIVM]-G-x(2)-[FYC]-[ST]-[DE]-[PA]-[LIVMY]-[AGLI]-[DE]-G and this is located between residues 43-58 of the model. The Sulfolobus solfataricus trpA is known to be quite divergent from other known trpA sequences.
Probab=88.43 E-value=15 Score=32.92 Aligned_cols=146 Identities=12% Similarity=0.188 Sum_probs=85.1
Q ss_pred CCCCCccCCCCCcccc------ccccHHHHHHhH--HHHHHHHHHHhh--cCCeEEEEecCCCCCcHHHHHHHHHHHHHc
Q 042073 3 GGGPQVVAGKPLDHAY------LNENVALVEAGC--VNLARHIANTKA--YGVNVVVAVNMFATDSEAELNAVRIAAMAA 72 (225)
Q Consensus 3 GGv~~~~lg~pl~~~l------~~eN~~al~~G~--~NL~~HIeNi~~--fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~ 72 (225)
+|+...++|-|..+-+ .+-+..||+.|+ ..+...++.+++ ..+|++ .+=.+..=-.-=++...+.|++.
T Consensus 36 ~Gad~iElGiPfsDP~aDGpvIq~a~~~al~~G~~~~~~~~~v~~ir~~~~~~plv-~m~Y~Npi~~~G~e~f~~~~~~a 114 (256)
T TIGR00262 36 AGADALELGVPFSDPLADGPTIQAADLRALRAGMTPEKCFELLKKVRQKHPNIPIG-LLTYYNLIFRKGVEEFYAKCKEV 114 (256)
T ss_pred cCCCEEEECCCCCCCCCcCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCEE-EEEeccHHhhhhHHHHHHHHHHc
Confidence 4566666665544332 345677888886 245666777775 478866 33222110000112334567789
Q ss_pred CCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHHHHHHHHh-----Hh-----ccCCCC--CCHHH
Q 042073 73 GAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKEKIDTIAR-----SY-----GASGVE--YSEEA 140 (225)
Q Consensus 73 g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~-----IY-----GA~~V~--~s~~A 140 (225)
|+..+.+-+. ..+-....++.|.+..-.+-++...+.|.+ .|+.|+. || |..+.. |.+..
T Consensus 115 GvdgviipDl-------p~ee~~~~~~~~~~~gl~~i~lv~P~T~~e-ri~~i~~~~~gfiy~vs~~G~TG~~~~~~~~~ 186 (256)
T TIGR00262 115 GVDGVLVADL-------PLEESGDLVEAAKKHGVKPIFLVAPNADDE-RLKQIAEKSQGFVYLVSRAGVTGARNRAASAL 186 (256)
T ss_pred CCCEEEECCC-------ChHHHHHHHHHHHHCCCcEEEEECCCCCHH-HHHHHHHhCCCCEEEEECCCCCCCcccCChhH
Confidence 9974444432 234456677777643223446667776754 4444443 33 455654 88999
Q ss_pred HHHHHHHHHCCCCCCCeeE
Q 042073 141 EKQIKMYTRQGFSGLPFCM 159 (225)
Q Consensus 141 ~~~l~~~e~~G~~~lPVCm 159 (225)
...++++.+. .+.|||+
T Consensus 187 ~~~i~~lr~~--~~~pi~v 203 (256)
T TIGR00262 187 NELVKRLKAY--SAKPVLV 203 (256)
T ss_pred HHHHHHHHhh--cCCCEEE
Confidence 9999999986 3568886
No 20
>CHL00200 trpA tryptophan synthase alpha subunit; Provisional
Probab=88.16 E-value=12 Score=33.76 Aligned_cols=144 Identities=17% Similarity=0.259 Sum_probs=88.3
Q ss_pred CCCCCccCCCCCcccc------ccccHHHHHHhH--HHHHHHHHHHhh-cCCeEEE--EecCCCCCcHHHHHHHHHHHHH
Q 042073 3 GGGPQVVAGKPLDHAY------LNENVALVEAGC--VNLARHIANTKA-YGVNVVV--AVNMFATDSEAELNAVRIAAMA 71 (225)
Q Consensus 3 GGv~~~~lg~pl~~~l------~~eN~~al~~G~--~NL~~HIeNi~~-fGvpvVV--AIN~F~~DT~~Ei~~i~~~c~~ 71 (225)
+|+...++|-|-.+-+ .+-+..||+.|+ ..+..-++.+|+ ..+|+|+ -.|-+-. -=++...+.|++
T Consensus 41 ~Gad~iElGiPfSDP~aDGpvIq~a~~rAL~~g~~~~~~~~~~~~~r~~~~~p~vlm~Y~N~i~~---~G~e~F~~~~~~ 117 (263)
T CHL00200 41 KGADIIELGIPYSDPLADGPIIQEASNRALKQGINLNKILSILSEVNGEIKAPIVIFTYYNPVLH---YGINKFIKKISQ 117 (263)
T ss_pred CCCCEEEECCCCCCCCccCHHHHHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCEEEEecccHHHH---hCHHHHHHHHHH
Confidence 4555556665444432 345778888886 244445556654 6888653 2343211 012345667888
Q ss_pred cCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHHHHHHHHh-----Hh-----ccCCC--CCCHH
Q 042073 72 AGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKEKIDTIAR-----SY-----GASGV--EYSEE 139 (225)
Q Consensus 72 ~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~-----IY-----GA~~V--~~s~~ 139 (225)
.|+..+.+-+. . .+-++.+.+.|.+..-.+-++...+.| .+.|+.|++ || |.++. .+.+.
T Consensus 118 aGvdgviipDL-P------~ee~~~~~~~~~~~gi~~I~lv~PtT~-~eri~~i~~~a~gFIY~vS~~GvTG~~~~~~~~ 189 (263)
T CHL00200 118 AGVKGLIIPDL-P------YEESDYLISVCNLYNIELILLIAPTSS-KSRIQKIARAAPGCIYLVSTTGVTGLKTELDKK 189 (263)
T ss_pred cCCeEEEecCC-C------HHHHHHHHHHHHHcCCCEEEEECCCCC-HHHHHHHHHhCCCcEEEEcCCCCCCCCccccHH
Confidence 99975555443 2 345677777776533345567777655 456666665 34 55565 66788
Q ss_pred HHHHHHHHHHCCCCCCCeeE
Q 042073 140 AEKQIKMYTRQGFSGLPFCM 159 (225)
Q Consensus 140 A~~~l~~~e~~G~~~lPVCm 159 (225)
.++-++++++ .-++|||+
T Consensus 190 ~~~~i~~ir~--~t~~Pi~v 207 (263)
T CHL00200 190 LKKLIETIKK--MTNKPIIL 207 (263)
T ss_pred HHHHHHHHHH--hcCCCEEE
Confidence 8888888888 46899997
No 21
>PRK15494 era GTPase Era; Provisional
Probab=87.92 E-value=4.6 Score=37.36 Aligned_cols=92 Identities=14% Similarity=0.166 Sum_probs=57.7
Q ss_pred HHHHH-HHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCc
Q 042073 30 CVNLA-RHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPL 108 (225)
Q Consensus 30 ~~NL~-~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f 108 (225)
+.++. +.++.++.++.|+|+++|+..-.. +.+..+.+++.+.+.. ..+-..=+.=|+|-.+|-+.+.+.+...
T Consensus 145 ~~~~~~~il~~l~~~~~p~IlViNKiDl~~-~~~~~~~~~l~~~~~~-~~i~~iSAktg~gv~eL~~~L~~~l~~~---- 218 (339)
T PRK15494 145 FDDITHNILDKLRSLNIVPIFLLNKIDIES-KYLNDIKAFLTENHPD-SLLFPISALSGKNIDGLLEYITSKAKIS---- 218 (339)
T ss_pred CCHHHHHHHHHHHhcCCCEEEEEEhhcCcc-ccHHHHHHHHHhcCCC-cEEEEEeccCccCHHHHHHHHHHhCCCC----
Confidence 34443 345667778999999999986532 2456677777766532 2233334667888888888887766433
Q ss_pred ccccCCCC----CHHHHHHHHHh
Q 042073 109 KFLYPSDV----SIKEKIDTIAR 127 (225)
Q Consensus 109 ~~lY~~~~----~i~eKI~~IA~ 127 (225)
.++|+.++ |.+.-+..|-|
T Consensus 219 ~~~~~~~~~td~~~~~~~~eiiR 241 (339)
T PRK15494 219 PWLYAEDDITDLPMRFIAAEITR 241 (339)
T ss_pred CCCCCCCCCCCCCHHHHHHHHHH
Confidence 35665554 55555555544
No 22
>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.
Probab=87.52 E-value=4.1 Score=31.37 Aligned_cols=69 Identities=14% Similarity=0.033 Sum_probs=42.8
Q ss_pred hHHHHHHHHHHHhh----cCCeEEEEecCCCCCc-HHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHH
Q 042073 29 GCVNLARHIANTKA----YGVNVVVAVNMFATDS-EAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRA 100 (225)
Q Consensus 29 G~~NL~~HIeNi~~----fGvpvVVAIN~F~~DT-~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~ 100 (225)
.+.++...++.+.+ .+.|++|+.|+...-. ....+.+.++++..+.. +..+. ++-|+|-.+|=+.+++.
T Consensus 87 s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~S--a~~~~gi~~l~~~l~~~ 160 (162)
T cd04138 87 SFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAARTVSSRQGQDLAKSYGIP-YIETS--AKTRQGVEEAFYTLVRE 160 (162)
T ss_pred HHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccceecHHHHHHHHHHhCCe-EEEec--CCCCCCHHHHHHHHHHH
Confidence 34555555555543 4899999999965422 22334566777778875 43333 67777877776666543
No 23
>TIGR03470 HpnH hopanoid biosynthesis associated radical SAM protein HpnH. The sequences represented by this model are members of the radical SAM superfamily of enzymes (pfam04055). These enzymes utilize an iron-sulfur redox cluster and S-adenosylmethionine to carry out diverse radical mediated reactions. The members of this clade are frequently found in the same locus as squalene-hopene cyclase (SHC, TIGR01507) and other genes associated with the biosynthesis of hopanoid natural products. The linkage between SHC and this radical SAM enzyme is strong; one is nearly always observed in the same genome where the other is found. A hopanoid biosynthesis locus was described in Zymomonas mobilis consisting of the genes HpnA-E and SHC (HpnF). Continuing past SHC are found a phosphorylase enzyme (ZMO0873, i.e. HpnG, TIGR03468) and this radical SAM enzyme (ZMO0874) which we name here HpnH. Granted, in Z. mobilis, HpnH is in a convergent orientation with respect to HpnA-G, but one gene beyond HpnH
Probab=86.88 E-value=2.6 Score=38.61 Aligned_cols=57 Identities=16% Similarity=0.105 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccC
Q 042073 30 CVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHG 86 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~G 86 (225)
+....+-|+++++.|+++.|-.--|..++.+|+..+.++++++|+..+.++..+..|
T Consensus 148 f~~~l~~I~~l~~~G~~v~v~~tv~~~~n~~ei~~~~~~~~~lGv~~i~i~p~~~~~ 204 (318)
T TIGR03470 148 FDRAVEAIREAKARGFRVTTNTTLFNDTDPEEVAEFFDYLTDLGVDGMTISPGYAYE 204 (318)
T ss_pred HHHHHHHHHHHHHCCCcEEEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCcccc
Confidence 444555555666689887665555778899999999999999999767777766554
No 24
>COG0826 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]
Probab=86.88 E-value=2.9 Score=39.39 Aligned_cols=59 Identities=24% Similarity=0.260 Sum_probs=45.4
Q ss_pred HHHHHHHHHHhhcCCeEEEEecCCCCCcHHH--HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHH
Q 042073 31 VNLARHIANTKAYGVNVVVAVNMFATDSEAE--LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIA 96 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~E--i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~ 96 (225)
..|+.+|+-..++|.-+.|++|-|..+.+.| .+.|.++ .+.|+..+++++. |.+.|+++
T Consensus 49 ~~l~e~i~~ah~~gkk~~V~~N~~~~~~~~~~~~~~l~~l-~e~GvDaviv~Dp------g~i~l~~e 109 (347)
T COG0826 49 EDLAEAVELAHSAGKKVYVAVNTLLHNDELETLERYLDRL-VELGVDAVIVADP------GLIMLARE 109 (347)
T ss_pred HHHHHHHHHHHHcCCeEEEEeccccccchhhHHHHHHHHH-HHcCCCEEEEcCH------HHHHHHHH
Confidence 3588999999999999999999999887777 4555555 5699986777765 44555544
No 25
>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=86.80 E-value=1.7 Score=35.92 Aligned_cols=70 Identities=17% Similarity=0.032 Sum_probs=44.5
Q ss_pred HHHHHHHHHHhh---cCCeEEEEecCCCCCcHHH--HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhc
Q 042073 31 VNLARHIANTKA---YGVNVVVAVNMFATDSEAE--LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACEN 103 (225)
Q Consensus 31 ~NL~~HIeNi~~---fGvpvVVAIN~F~~DT~~E--i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~ 103 (225)
.|+.+-++.++. -++|++|++|+..-.++.+ .+.+.++++..++. +..+. ++=|+|-.+|-+.+++.+..
T Consensus 90 ~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~-~~e~S--a~~~~~v~~l~~~l~~~~~~ 164 (191)
T cd04112 90 DNIRAWLTEIKEYAQEDVVIMLLGNKADMSGERVVKREDGERLAKEYGVP-FMETS--AKTGLNVELAFTAVAKELKH 164 (191)
T ss_pred HHHHHHHHHHHHhCCCCCcEEEEEEcccchhccccCHHHHHHHHHHcCCe-EEEEe--CCCCCCHHHHHHHHHHHHHH
Confidence 344444444443 4789999999987543221 23455666777875 44443 45568999998888887654
No 26
>PRK05286 dihydroorotate dehydrogenase 2; Reviewed
Probab=86.51 E-value=16 Score=33.90 Aligned_cols=105 Identities=21% Similarity=0.207 Sum_probs=55.3
Q ss_pred HhHHHHHHHHHHHhhcCCeEEEEecCCC----CCcHHHHHHHHHHHHHcCCCeEEEcccc---ccC------chhhHHHH
Q 042073 28 AGCVNLARHIANTKAYGVNVVVAVNMFA----TDSEAELNAVRIAAMAAGAFDAVVCSHH---AHG------GKGAVDLG 94 (225)
Q Consensus 28 ~G~~NL~~HIeNi~~fGvpvVVAIN~F~----~DT~~Ei~~i~~~c~~~g~~~~avs~~w---a~G------G~Ga~~LA 94 (225)
.|+....+|+...+ .++|++|-||... .++.+|...+.+.+.+ ++. +...+.- .+| ++-..++.
T Consensus 122 ~g~~~~~~~l~~~~-~~~pvivsI~~~~~~~~~~~~~d~~~~~~~~~~-~ad-~lelN~scP~~~g~~~~~~~~~~~eiv 198 (344)
T PRK05286 122 DGADALAERLKKAY-RGIPLGINIGKNKDTPLEDAVDDYLICLEKLYP-YAD-YFTVNISSPNTPGLRDLQYGEALDELL 198 (344)
T ss_pred HhHHHHHHHHHHhc-CCCcEEEEEecCCCCCcccCHHHHHHHHHHHHh-hCC-EEEEEccCCCCCCcccccCHHHHHHHH
Confidence 34444455555555 7899999998774 3456777766666543 454 4333321 112 12234555
Q ss_pred HHHHHHhhc----CCCCcccccCCCCCHHHHHHHHHh---HhccCCCCCCH
Q 042073 95 IAVQRACEN----VTQPLKFLYPSDVSIKEKIDTIAR---SYGASGVEYSE 138 (225)
Q Consensus 95 ~~Vv~~~e~----~~~~f~~lY~~~~~i~eKI~~IA~---IYGA~~V~~s~ 138 (225)
++|.+.+.. -|=-.|.- .+.+.++ +..+|+ -.||++|+.+-
T Consensus 199 ~aVr~~~~~~~~~~PV~vKls--p~~~~~~-~~~ia~~l~~~Gadgi~~~n 246 (344)
T PRK05286 199 AALKEAQAELHGYVPLLVKIA--PDLSDEE-LDDIADLALEHGIDGVIATN 246 (344)
T ss_pred HHHHHHHhccccCCceEEEeC--CCCCHHH-HHHHHHHHHHhCCcEEEEeC
Confidence 666655531 11112222 2233333 556666 36888887764
No 27
>PRK12298 obgE GTPase CgtA; Reviewed
Probab=86.46 E-value=7.3 Score=37.03 Aligned_cols=68 Identities=16% Similarity=0.006 Sum_probs=44.5
Q ss_pred cCCeEEEEecCCCCCcHHHHH-HHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCC
Q 042073 43 YGVNVVVAVNMFATDSEAELN-AVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSD 115 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~~Ei~-~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~ 115 (225)
.+.|+||++|+-.--..+++. .+.++++..+.. ..+...-+.=|+|-.+|.+.+.+.+... .++|+.+
T Consensus 274 ~~kP~IlVlNKiDl~~~~el~~~l~~l~~~~~~~-~~Vi~ISA~tg~GIdeLl~~I~~~L~~~----~~~~~~~ 342 (390)
T PRK12298 274 AEKPRWLVFNKIDLLDEEEAEERAKAIVEALGWE-GPVYLISAASGLGVKELCWDLMTFIEEN----PREEAEE 342 (390)
T ss_pred cCCCEEEEEeCCccCChHHHHHHHHHHHHHhCCC-CCEEEEECCCCcCHHHHHHHHHHHhhhC----cccCCcc
Confidence 468999999998765555554 445555555531 1122344556899999999999988643 3556654
No 28
>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=86.19 E-value=3.1 Score=33.32 Aligned_cols=70 Identities=10% Similarity=0.053 Sum_probs=49.2
Q ss_pred hHHHHHHHHHHHhhc----CCeEEEEecCCCCCcHH--HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 29 GCVNLARHIANTKAY----GVNVVVAVNMFATDSEA--ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 29 G~~NL~~HIeNi~~f----GvpvVVAIN~F~~DT~~--Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
-+.++...++.++.+ +.|++++.|+..--.+. ..+.+.++|++.++. .-+..++=|.|-.+|-+.+++.+
T Consensus 101 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~---~~e~Sak~~~~v~~l~~~l~~~~ 176 (180)
T cd04127 101 SFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALADKYGIP---YFETSAATGTNVEKAVERLLDLV 176 (180)
T ss_pred HHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHHHHcCCe---EEEEeCCCCCCHHHHHHHHHHHH
Confidence 356666666666653 68999999987642221 224567888888875 34678899999999888877654
No 29
>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=85.98 E-value=0.26 Score=41.31 Aligned_cols=62 Identities=24% Similarity=0.328 Sum_probs=38.5
Q ss_pred HHHHHHH---HHhhcCCeEEEEecCCCCCcHH--HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHH
Q 042073 32 NLARHIA---NTKAYGVNVVVAVNMFATDSEA--ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAV 97 (225)
Q Consensus 32 NL~~HIe---Ni~~fGvpvVVAIN~F~~DT~~--Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~V 97 (225)
||+|++. .++.+|+|+||++|+...=... ++ -..++.+.+|++ +. ..=+..|+|-.+|-+++
T Consensus 90 ~l~r~l~l~~ql~e~g~P~vvvlN~~D~a~~~g~~i-d~~~Ls~~Lg~p-vi--~~sa~~~~g~~~L~~~I 156 (156)
T PF02421_consen 90 NLERNLYLTLQLLELGIPVVVVLNKMDEAERKGIEI-DAEKLSERLGVP-VI--PVSARTGEGIDELKDAI 156 (156)
T ss_dssp GHHHHHHHHHHHHHTTSSEEEEEETHHHHHHTTEEE--HHHHHHHHTS--EE--EEBTTTTBTHHHHHHHH
T ss_pred CHHHHHHHHHHHHHcCCCEEEEEeCHHHHHHcCCEE-CHHHHHHHhCCC-EE--EEEeCCCcCHHHHHhhC
Confidence 4444443 3456999999999997321111 11 144556678997 44 34578899998887764
No 30
>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=85.89 E-value=1.8 Score=42.90 Aligned_cols=65 Identities=29% Similarity=0.345 Sum_probs=45.6
Q ss_pred HHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCC------eEEEccccccCchhhHHHHHHHHHHhh
Q 042073 37 IANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAF------DAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 37 IeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~------~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
|+.+|.+|+|.|||+|+-..- ++..+.++....+.|+. ++.+-.+=|+.|+|--+|-+.++-.++
T Consensus 100 I~hak~a~vP~iVAiNKiDk~-~~np~~v~~el~~~gl~~E~~gg~v~~VpvSA~tg~Gi~eLL~~ill~ae 170 (509)
T COG0532 100 INHAKAAGVPIVVAINKIDKP-EANPDKVKQELQEYGLVPEEWGGDVIFVPVSAKTGEGIDELLELILLLAE 170 (509)
T ss_pred HHHHHHCCCCEEEEEecccCC-CCCHHHHHHHHHHcCCCHhhcCCceEEEEeeccCCCCHHHHHHHHHHHHH
Confidence 566788999999999986432 33334444444445542 256666778999999999888877765
No 31
>PRK13210 putative L-xylulose 5-phosphate 3-epimerase; Reviewed
Probab=85.87 E-value=8.6 Score=33.46 Aligned_cols=104 Identities=12% Similarity=0.014 Sum_probs=64.8
Q ss_pred cccccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCC----CCCcH-------HHHHHHHHHHHHcCCCeEEEccccccC
Q 042073 18 YLNENVALVEAGCVNLARHIANTKAYGVNVVVAVNMF----ATDSE-------AELNAVRIAAMAAGAFDAVVCSHHAHG 86 (225)
Q Consensus 18 l~~eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F----~~DT~-------~Ei~~i~~~c~~~g~~~~avs~~wa~G 86 (225)
+...+.+.-++.+.++++.|+..+.+|.++|+.- -+ ..+++ +.++.+.+.+++.|+. .++-++-..-
T Consensus 81 ~~~~d~~~r~~~~~~~~~~i~~a~~lG~~~v~~~-~~~~~~~~~~~~~~~~~~~~l~~l~~~a~~~gv~-l~lE~~~~~~ 158 (284)
T PRK13210 81 FGSRDPATRERALEIMKKAIRLAQDLGIRTIQLA-GYDVYYEEKSEETRQRFIEGLAWAVEQAAAAQVM-LAVEIMDTPF 158 (284)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhCCCEEEEC-CcccccccccHHHHHHHHHHHHHHHHHHHHhCCE-EEEEecCccc
Confidence 3346777788899999999999999999999852 11 12232 2367778888899996 8777652211
Q ss_pred chhhHHHHHHHHHHhhcCCCCcccccCC------CCCHHHHHHHHH
Q 042073 87 GKGAVDLGIAVQRACENVTQPLKFLYPS------DVSIKEKIDTIA 126 (225)
Q Consensus 87 G~Ga~~LA~~Vv~~~e~~~~~f~~lY~~------~~~i~eKI~~IA 126 (225)
. ...+-+..+++.+. ...+...+|. ..++.+-+++..
T Consensus 159 ~-~~~~~~~~l~~~v~--~~~~~~~~D~~h~~~~~~~~~~~l~~~~ 201 (284)
T PRK13210 159 M-NSISKWKKWDKEID--SPWLTVYPDVGNLSAWGNDVWSELKLGI 201 (284)
T ss_pred c-CCHHHHHHHHHHcC--CCceeEEecCChhhhcCCCHHHHHHHhc
Confidence 1 11222334455443 2346666655 345556665543
No 32
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=85.61 E-value=2.3 Score=44.00 Aligned_cols=84 Identities=19% Similarity=0.311 Sum_probs=54.8
Q ss_pred HhhcCCeEEEEecCCCCCcHHHHH-HHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCH
Q 042073 40 TKAYGVNVVVAVNMFATDSEAELN-AVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSI 118 (225)
Q Consensus 40 i~~fGvpvVVAIN~F~~DT~~Ei~-~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i 118 (225)
+++.|+|+|+++|+-......+++ .+.++.+.+|++ +.. .=+.-|+|-.+|.+.+.+..+.. ..-+.-|+. .+
T Consensus 108 l~e~giPvIvVlNK~Dl~~~~~i~id~~~L~~~LG~p-Vvp--iSA~~g~GIdeL~~~I~~~~~~~-~~~~~~yp~--~l 181 (772)
T PRK09554 108 LLELGIPCIVALNMLDIAEKQNIRIDIDALSARLGCP-VIP--LVSTRGRGIEALKLAIDRHQANE-NVELVHYPQ--PL 181 (772)
T ss_pred HHHcCCCEEEEEEchhhhhccCcHHHHHHHHHHhCCC-EEE--EEeecCCCHHHHHHHHHHhhhcc-CCcccCCCH--HH
Confidence 456899999999997653332222 245566788997 443 34566788888888888765432 222334553 58
Q ss_pred HHHHHHHHh-Hh
Q 042073 119 KEKIDTIAR-SY 129 (225)
Q Consensus 119 ~eKI~~IA~-IY 129 (225)
++.|+.+.. +-
T Consensus 182 e~~I~~l~~~L~ 193 (772)
T PRK09554 182 LNEADSLAKVMP 193 (772)
T ss_pred HHHHHHHHHHhh
Confidence 888888877 53
No 33
>PF01261 AP_endonuc_2: Xylose isomerase-like TIM barrel; InterPro: IPR012307 This TIM alpha/beta barrel structure is found in xylose isomerase (P19148 from SWISSPROT) and in endonuclease IV (P12638 from SWISSPROT, 3.1.21.2 from EC). This domain is also found in the N termini of bacterial myo-inositol catabolism proteins. These are involved in the myo-inositol catabolism pathway, and is required for growth on myo-inositol in Rhizobium leguminosarum bv. viciae []. ; PDB: 3KWS_B 3DX5_A 3CQH_B 3CQI_A 3CQK_A 3CQJ_B 2G0W_B 1DXI_A 2ZDS_D 3TVA_B ....
Probab=85.50 E-value=6.7 Score=31.73 Aligned_cols=91 Identities=13% Similarity=0.090 Sum_probs=60.5
Q ss_pred ccHHHHHHhHHHHHHHHHHHhhcCCeEEEEe----cCCCCCcHH--------HHHHHHHHHHHcCCCeEEEccccccCch
Q 042073 21 ENVALVEAGCVNLARHIANTKAYGVNVVVAV----NMFATDSEA--------ELNAVRIAAMAAGAFDAVVCSHHAHGGK 88 (225)
Q Consensus 21 eN~~al~~G~~NL~~HIeNi~~fGvpvVVAI----N~F~~DT~~--------Ei~~i~~~c~~~g~~~~avs~~wa~GG~ 88 (225)
++-+ -++.+..+++.|+-.+.+|.+.|+.- +....++.+ -++.+.+.+++.|+. +++-++......
T Consensus 62 ~~~~-r~~~~~~~~~~i~~a~~lg~~~i~~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~a~~~gv~-i~lE~~~~~~~~ 139 (213)
T PF01261_consen 62 ANDE-REEALEYLKKAIDLAKRLGAKYIVVHSGRYPSGPEDDTEENWERLAENLRELAEIAEEYGVR-IALENHPGPFSE 139 (213)
T ss_dssp SSSH-HHHHHHHHHHHHHHHHHHTBSEEEEECTTESSSTTSSHHHHHHHHHHHHHHHHHHHHHHTSE-EEEE-SSSSSSS
T ss_pred cchh-hHHHHHHHHHHHHHHHHhCCCceeecCcccccccCCCHHHHHHHHHHHHHHHHhhhhhhcce-EEEecccCcccc
Confidence 3434 78889999999999999999998877 344455443 355666778888996 888777777665
Q ss_pred hhH--HHHHHHHHHhhcCCCCcccccCCC
Q 042073 89 GAV--DLGIAVQRACENVTQPLKFLYPSD 115 (225)
Q Consensus 89 Ga~--~LA~~Vv~~~e~~~~~f~~lY~~~ 115 (225)
... +-+..+++.+. ..++..++|..
T Consensus 140 ~~~~~~~~~~~l~~~~--~~~~~i~~D~~ 166 (213)
T PF01261_consen 140 TPFSVEEIYRLLEEVD--SPNVGICFDTG 166 (213)
T ss_dssp EESSHHHHHHHHHHHT--TTTEEEEEEHH
T ss_pred chhhHHHHHHHHhhcC--CCcceEEEehH
Confidence 541 33333334332 23488888753
No 34
>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=85.02 E-value=5.5 Score=31.01 Aligned_cols=66 Identities=9% Similarity=-0.075 Sum_probs=40.6
Q ss_pred hHHHHHHHHHHHhh--cCCeEEEEecCCCCCcHHH--HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHH
Q 042073 29 GCVNLARHIANTKA--YGVNVVVAVNMFATDSEAE--LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAV 97 (225)
Q Consensus 29 G~~NL~~HIeNi~~--fGvpvVVAIN~F~~DT~~E--i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~V 97 (225)
.+.++.+-++.+++ .++|+||+.|+.....+.+ .+.+.++++..|.+ +..+.... |.|-.+|-+.+
T Consensus 89 s~~~l~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~-~~~~Sa~~--~~~v~~l~~~l 158 (162)
T cd04106 89 SFEAIESWKEKVEAECGDIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLP-LFRTSVKD--DFNVTELFEYL 158 (162)
T ss_pred HHHHHHHHHHHHHHhCCCCCEEEEEEChhcccccCCCHHHHHHHHHHcCCe-EEEEECCC--CCCHHHHHHHH
Confidence 35566655555554 5899999999986543333 24456777888886 54444443 45555554443
No 35
>TIGR00542 hxl6Piso_put hexulose-6-phosphate isomerase, putative. This family is conserved at better than 40 % identity among the four known examples from three species: Escherichia coli (SgbU and SgaU), Haemophilus influenzae, and Mycoplasma pneumoniae. The rarity of the family, high level of conservation, and proposed catabolic role suggests lateral transfer may be a part of the evolutionary history of this protein.
Probab=83.09 E-value=11 Score=33.08 Aligned_cols=90 Identities=10% Similarity=0.039 Sum_probs=56.1
Q ss_pred cccccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCC----CCCcHH-------HHHHHHHHHHHcCCCeEEEccc---c
Q 042073 18 YLNENVALVEAGCVNLARHIANTKAYGVNVVVAVNMF----ATDSEA-------ELNAVRIAAMAAGAFDAVVCSH---H 83 (225)
Q Consensus 18 l~~eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F----~~DT~~-------Ei~~i~~~c~~~g~~~~avs~~---w 83 (225)
+...|.+.-++.+..++++|+-.+.+|.|+|+. +-. ..++++ -+..+.+++++.|+. .++-.+ |
T Consensus 81 l~~~~~~~r~~~~~~~~~~i~~a~~lG~~~v~~-~~~~~~~~~~~~~~~~~~~~~l~~l~~~A~~~Gv~-l~lE~~~~~~ 158 (279)
T TIGR00542 81 LGSKDKAVRQQGLEIMEKAIQLARDLGIRTIQL-AGYDVYYEEHDEETRRRFREGLKEAVELAARAQVT-LAVEIMDTPF 158 (279)
T ss_pred CCCcCHHHHHHHHHHHHHHHHHHHHhCCCEEEe-cCcccccCcCCHHHHHHHHHHHHHHHHHHHHcCCE-EEEeeCCCch
Confidence 334567778889999999999999999998864 421 123342 234556778888996 777654 2
Q ss_pred ccCchhhHHHHHHHHHHhhcCCCCcccccCCC
Q 042073 84 AHGGKGAVDLGIAVQRACENVTQPLKFLYPSD 115 (225)
Q Consensus 84 a~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~ 115 (225)
..-.. ++ .++++.+. ...+..+||.-
T Consensus 159 ~~t~~---~~-~~li~~v~--~~~v~~~~D~~ 184 (279)
T TIGR00542 159 MSSIS---KW-LKWDHYLN--SPWFTLYPDIG 184 (279)
T ss_pred hcCHH---HH-HHHHHHcC--CCceEEEeCcC
Confidence 22222 22 22344443 23577777663
No 36
>TIGR02493 PFLA pyruvate formate-lyase 1-activating enzyme. An iron-sulfur protein with a radical-SAM domain (pfam04055). A single glycine residue in EC 2.3.1.54, formate C-acetyltransferase (formate-pyruvate lyase), is oxidized to the corresponding radical by transfer of H from its CH2 to AdoMet with concomitant cleavage of the latter. The reaction requires Fe2+. The first stage is reduction of the AdoMet to give methionine and the 5'-deoxyadenosin-5-yl radical, which then abstracts a hydrogen radical from the glycine residue.
Probab=82.95 E-value=3.5 Score=35.23 Aligned_cols=45 Identities=11% Similarity=0.014 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecCCC--CCcHHHHHHHHHHHHHcCC
Q 042073 30 CVNLARHIANTKAYGVNVVVAVNMFA--TDSEAELNAVRIAAMAAGA 74 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVVAIN~F~--~DT~~Ei~~i~~~c~~~g~ 74 (225)
+....+-|+.++++|+++.|...-++ .|+++|++.+.+++.+.|.
T Consensus 142 ~~~v~~~i~~l~~~g~~~~v~~vv~~~~~~n~~ei~~l~~~~~~l~~ 188 (235)
T TIGR02493 142 LQPTLDFAKYLAKRNKPIWIRYVLVPGYTDSEEDIEALAEFVKTLPN 188 (235)
T ss_pred cHHHHHHHHHHHhCCCcEEEEEeeeCCcCCCHHHHHHHHHHHHhCCC
Confidence 34566667777789999877666666 6899999999999999994
No 37
>PRK07259 dihydroorotate dehydrogenase 1B; Reviewed
Probab=82.54 E-value=29 Score=31.12 Aligned_cols=90 Identities=21% Similarity=0.300 Sum_probs=50.4
Q ss_pred hcCCeEEEEecCCCCCcHHHHHHHHHHHHHcC-CCeEEE---ccccccCchh---hHHHHHHHHHHhhcCCCCcccccCC
Q 042073 42 AYGVNVVVAVNMFATDSEAELNAVRIAAMAAG-AFDAVV---CSHHAHGGKG---AVDLGIAVQRACENVTQPLKFLYPS 114 (225)
Q Consensus 42 ~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g-~~~~av---s~~wa~GG~G---a~~LA~~Vv~~~e~~~~~f~~lY~~ 114 (225)
+++.|++|-|+-. +.+++....+.+++.| +.-+.+ |-+...||.. -.++..++++.+.+. ..+......
T Consensus 89 ~~~~p~i~si~g~---~~~~~~~~a~~~~~aG~~D~iElN~~cP~~~~gg~~~~~~~~~~~eiv~~vr~~-~~~pv~vKl 164 (301)
T PRK07259 89 EFDTPIIANVAGS---TEEEYAEVAEKLSKAPNVDAIELNISCPNVKHGGMAFGTDPELAYEVVKAVKEV-VKVPVIVKL 164 (301)
T ss_pred ccCCcEEEEeccC---CHHHHHHHHHHHhccCCcCEEEEECCCCCCCCCccccccCHHHHHHHHHHHHHh-cCCCEEEEc
Confidence 4789999988754 4788888888889998 763444 3333333221 135666666666532 122222222
Q ss_pred CCCHHHHHHHHHh---HhccCCCCC
Q 042073 115 DVSIKEKIDTIAR---SYGASGVEY 136 (225)
Q Consensus 115 ~~~i~eKI~~IA~---IYGA~~V~~ 136 (225)
..+++ -+..+|+ -.|++.|++
T Consensus 165 ~~~~~-~~~~~a~~l~~~G~d~i~~ 188 (301)
T PRK07259 165 TPNVT-DIVEIAKAAEEAGADGLSL 188 (301)
T ss_pred CCCch-hHHHHHHHHHHcCCCEEEE
Confidence 22232 3444554 467777765
No 38
>cd00945 Aldolase_Class_I Class I aldolases. The class I aldolases use an active-site lysine which stablilzes a reaction intermediates via Schiff base formation, and have TIM beta/alpha barrel fold. The members of this family include 2-keto-3-deoxy-6-phosphogluconate (KDPG) and 2-keto-4-hydroxyglutarate (KHG) aldolases, transaldolase, dihydrodipicolinate synthase sub-family, Type I 3-dehydroquinate dehydratase, DeoC and DhnA proteins, and metal-independent fructose-1,6-bisphosphate aldolase. Although structurally similar, the class II aldolases use a different mechanism and are believed to have an independent evolutionary origin.
Probab=82.22 E-value=13 Score=30.02 Aligned_cols=71 Identities=18% Similarity=0.131 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHhhc---CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 30 CVNLARHIANTKAY---GVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 30 ~~NL~~HIeNi~~f---GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
...+.+|++.+.+. ++|+++-.+-..+-+.+++..+.+.+.+.|+.-+-.+..|..|+.. .+..+++.+..
T Consensus 96 ~~~~~~~~~~i~~~~~~~~pv~iy~~p~~~~~~~~~~~~~~~~~~~g~~~iK~~~~~~~~~~~-~~~~~~i~~~~ 169 (201)
T cd00945 96 WEEVLEEIAAVVEAADGGLPLKVILETRGLKTADEIAKAARIAAEAGADFIKTSTGFGGGGAT-VEDVKLMKEAV 169 (201)
T ss_pred HHHHHHHHHHHHHHhcCCceEEEEEECCCCCCHHHHHHHHHHHHHhCCCEEEeCCCCCCCCCC-HHHHHHHHHhc
Confidence 35677888888764 8998887774444467788877777788899744455556654444 34445555544
No 39
>cd00019 AP2Ec AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of D-arabino-6-hexulose 3-phosphate to D-fructose 6-phosphate, via cleaving the phosphoesterbond with the sugar.
Probab=81.85 E-value=12 Score=32.72 Aligned_cols=97 Identities=11% Similarity=0.106 Sum_probs=59.7
Q ss_pred ccccccHHHHHHhHHHHHHHHHHHhhcCCeEEEE-ecCCCC-CcHH-------HHHHHHHHHHHcCCCeEEEccccccCc
Q 042073 17 AYLNENVALVEAGCVNLARHIANTKAYGVNVVVA-VNMFAT-DSEA-------ELNAVRIAAMAAGAFDAVVCSHHAHGG 87 (225)
Q Consensus 17 ~l~~eN~~al~~G~~NL~~HIeNi~~fGvpvVVA-IN~F~~-DT~~-------Ei~~i~~~c~~~g~~~~avs~~wa~GG 87 (225)
.+..++.+--++.+..+++.|+-.+.+|.+.||. ...... ++++ -+..+.+.+++.|+. +++-+++....
T Consensus 71 ~~~~~~~~~r~~~~~~~~~~i~~A~~lG~~~v~~~~g~~~~~~~~~~~~~~~~~l~~l~~~a~~~gi~-l~lEn~~~~~~ 149 (279)
T cd00019 71 NLASPDKEKREKSIERLKDEIERCEELGIRLLVFHPGSYLGQSKEEGLKRVIEALNELIDKAETKGVV-IALETMAGQGN 149 (279)
T ss_pred ccCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEECCCCCCCCCHHHHHHHHHHHHHHHHHhccCCCCE-EEEeCCCCCCC
Confidence 3445666778999999999999999999998775 222221 2232 233344445578996 88888765531
Q ss_pred --hhhHHHHHHHHHHhhcCCCCcccccCCC
Q 042073 88 --KGAVDLGIAVQRACENVTQPLKFLYPSD 115 (225)
Q Consensus 88 --~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~ 115 (225)
-...+-+..+++.+.. ...+..+||..
T Consensus 150 ~~~~t~~~~~~li~~v~~-~~~~g~~lD~~ 178 (279)
T cd00019 150 EIGSSFEELKEIIDLIKE-KPRVGVCIDTC 178 (279)
T ss_pred CCCCCHHHHHHHHHhcCC-CCCeEEEEEhh
Confidence 2334455556665541 23466666543
No 40
>TIGR00231 small_GTP small GTP-binding protein domain. This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.
Probab=81.73 E-value=10 Score=28.14 Aligned_cols=69 Identities=13% Similarity=0.012 Sum_probs=38.7
Q ss_pred HHHhHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHH
Q 042073 26 VEAGCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIA 96 (225)
Q Consensus 26 l~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~ 96 (225)
++.+.....+.+.+....++|++|++|+...-+.+..+...+.....+-.. .-..=+..|+|-.+|-+.
T Consensus 90 ~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~--~~~~sa~~~~gv~~~~~~ 158 (161)
T TIGR00231 90 VEEILEKQTKEIIHHAESNVPIILVGNKIDLRDAKLKTHVAFLFAKLNGEP--IIPLSAETGKNIDSAFKI 158 (161)
T ss_pred hhhHhHHHHHHHHHhcccCCcEEEEEEcccCCcchhhHHHHHHHhhccCCc--eEEeecCCCCCHHHHHHH
Confidence 344443444444444434899999999886644333344444444443322 223337788887777554
No 41
>PF07005 DUF1537: Protein of unknown function, DUF1537; InterPro: IPR010737 This entry represents a conserved region found in a range of Proteobacteria as well as the Gram-positive Oceanobacillus iheyensis. This entry includes YgbK from Escherichia coli, which is dependent upon FlhDC, the master regulator of the flagellar genes. The ygbK gene appears to be regulated by sigmaF [].; PDB: 3DQQ_B 1YZY_B.
Probab=81.16 E-value=1.5 Score=37.54 Aligned_cols=68 Identities=24% Similarity=0.286 Sum_probs=49.7
Q ss_pred ccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHH
Q 042073 21 ENVALVEAGCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAV 97 (225)
Q Consensus 21 eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~V 97 (225)
=+++.|++|-..|..+++++++-|..+|| |..-|++.++.|.+.+.+.+.+ . .|..+|-=+..|++..
T Consensus 9 i~l~~v~~g~~~l~~~l~~~~~~g~~ivV----~Da~t~~DL~~ia~a~~~~~~~-~----l~vGsagla~aL~~~~ 76 (223)
T PF07005_consen 9 IDLEDVRRGPEALSAALAALQAEGARIVV----FDAETDEDLDAIAEALLELGRR-V----LWVGSAGLAAALARAL 76 (223)
T ss_dssp E-HHHHCC-HHHHHHHHHHHHHTTECEEE----E-BSSCHHHHHHHHHCTT-S--------EEEESCHHHHHHHHHH
T ss_pred EEHHHHhCcHHHHHHHHHHHHhCCCcEEE----EecCCHHHHHHHHHHHHhCCCc-e----EEecchHHHHHHHhhh
Confidence 46788999999999999999999999999 8999999999999999887775 3 5555544444455443
No 42
>PRK09856 fructoselysine 3-epimerase; Provisional
Probab=80.92 E-value=20 Score=31.17 Aligned_cols=60 Identities=8% Similarity=-0.021 Sum_probs=45.0
Q ss_pred cHHHHHHhHHHHHHHHHHHhhcCCeEEEE---ecCCCCCcHHH--------HHHHHHHHHHcCCCeEEEcccc
Q 042073 22 NVALVEAGCVNLARHIANTKAYGVNVVVA---VNMFATDSEAE--------LNAVRIAAMAAGAFDAVVCSHH 83 (225)
Q Consensus 22 N~~al~~G~~NL~~HIeNi~~fGvpvVVA---IN~F~~DT~~E--------i~~i~~~c~~~g~~~~avs~~w 83 (225)
+-+..++-+.-+.++|+-.+.+|.+.||. -+.+.. +.+| ++.+.+.+++.|+. .++-++.
T Consensus 81 ~~~~r~~~~~~~~~~i~~a~~lGa~~i~~~~~~~~~~~-~~~~~~~~~~~~l~~l~~~a~~~gv~-l~iE~~~ 151 (275)
T PRK09856 81 DEHMRRESLDMIKLAMDMAKEMNAGYTLISAAHAGYLT-PPNVIWGRLAENLSELCEYAENIGMD-LILEPLT 151 (275)
T ss_pred CHHHHHHHHHHHHHHHHHHHHhCCCEEEEcCCCCCCCC-CHHHHHHHHHHHHHHHHHHHHHcCCE-EEEecCC
Confidence 44567788899999999999999999876 222222 3444 67888889999996 8887763
No 43
>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=80.40 E-value=15 Score=29.12 Aligned_cols=70 Identities=16% Similarity=0.087 Sum_probs=46.8
Q ss_pred HhHHHHHHHHHHHhhc--CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 28 AGCVNLARHIANTKAY--GVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 28 ~G~~NL~~HIeNi~~f--GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
..+.++.+.++.++++ ++|++|+.|+-.-+. +..+...++++..+.+ +.. .=++=|.|-.+|-+.+++.+
T Consensus 86 ~s~~~~~~~~~~i~~~~~~~p~ivv~nK~Dl~~-~~~~~~~~~~~~~~~~-~~~--~Sa~~~~gv~~l~~~l~~~~ 157 (161)
T cd04124 86 ITYKNLSKWYEELREYRPEIPCIVVANKIDLDP-SVTQKKFNFAEKHNLP-LYY--VSAADGTNVVKLFQDAIKLA 157 (161)
T ss_pred HHHHHHHHHHHHHHHhCCCCcEEEEEECccCch-hHHHHHHHHHHHcCCe-EEE--EeCCCCCCHHHHHHHHHHHH
Confidence 3566777777777764 899999999976532 2233445667777775 333 23466678888877777654
No 44
>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=80.29 E-value=10 Score=28.61 Aligned_cols=65 Identities=14% Similarity=0.165 Sum_probs=38.7
Q ss_pred hHHHHHHHHHHHhh---cCCeEEEEecCCCC--CcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHH
Q 042073 29 GCVNLARHIANTKA---YGVNVVVAVNMFAT--DSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIA 96 (225)
Q Consensus 29 G~~NL~~HIeNi~~---fGvpvVVAIN~F~~--DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~ 96 (225)
.+..+.+.+..+.. .+.|++|++|+... +...-.+.+++++.+.++. +..+.... |+|-.++-+.
T Consensus 87 ~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~--~~~i~~~~~~ 156 (159)
T cd00154 87 SFENLDKWLKELKEYAPENIPIILVGNKIDLEDQRQVSTEEAQQFAKENGLL-FFETSAKT--GENVEELFQS 156 (159)
T ss_pred HHHHHHHHHHHHHHhCCCCCcEEEEEEcccccccccccHHHHHHHHHHcCCe-EEEEecCC--CCCHHHHHHH
Confidence 35555666666655 45999999999766 2232335566777777775 44443322 4555554443
No 45
>TIGR00036 dapB dihydrodipicolinate reductase.
Probab=80.03 E-value=7.6 Score=34.75 Aligned_cols=97 Identities=22% Similarity=0.138 Sum_probs=58.5
Q ss_pred HHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCccccc
Q 042073 33 LARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLY 112 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY 112 (225)
...|++..-+.|+|+|+.-=- =|++|.+.|.+.|++.|+. +.++-.|+-|-.=...|++...+.+. =|
T Consensus 81 ~~~~~~~al~~g~~vVigttg---~~~e~~~~l~~aA~~~g~~-v~~a~NfSlGv~ll~~~~~~aa~~l~--------~~ 148 (266)
T TIGR00036 81 VLNHLKFALEHGVRLVVGTTG---FSEEDKQELADLAEKAGIA-AVIAPNFSIGVNLMFKLLEKAAKYLG--------DY 148 (266)
T ss_pred HHHHHHHHHHCCCCEEEECCC---CCHHHHHHHHHHHhcCCcc-EEEECcccHHHHHHHHHHHHHHHhcc--------CC
Confidence 345555666789999986423 3788999999999998886 88888887764443444433333221 12
Q ss_pred CCCCCHHHHHHHHHhHhccCCCCC-CHHHHHHHHHHHHC
Q 042073 113 PSDVSIKEKIDTIARSYGASGVEY-SEEAEKQIKMYTRQ 150 (225)
Q Consensus 113 ~~~~~i~eKI~~IA~IYGA~~V~~-s~~A~~~l~~~e~~ 150 (225)
| -.|.| +=....++. |-.|++-.+.+.+.
T Consensus 149 d--ieI~E-------~HH~~K~DaPSGTA~~l~~~i~~~ 178 (266)
T TIGR00036 149 D--IEIIE-------LHHRHKKDAPSGTALKTAEMIAEA 178 (266)
T ss_pred C--EEeee-------eccCCCCCCCCHHHHHHHHHHHHh
Confidence 1 12222 334455666 66666666666543
No 46
>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=79.83 E-value=6.8 Score=30.88 Aligned_cols=70 Identities=13% Similarity=0.095 Sum_probs=45.8
Q ss_pred hHHHHHHHHHHHhhc---CCeEEEEecCCCCCcHHH--HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 29 GCVNLARHIANTKAY---GVNVVVAVNMFATDSEAE--LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 29 G~~NL~~HIeNi~~f---GvpvVVAIN~F~~DT~~E--i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
-+.+|...++.++++ ++|+|++.|+..-..+.. .+.+.++++..++. +.. .=++-|+|-.++=+.+++.+
T Consensus 89 s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~--~Sa~~~~~v~~~~~~i~~~~ 163 (166)
T cd01869 89 SFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKRVVDYSEAQEFADELGIP-FLE--TSAKNATNVEQAFMTMAREI 163 (166)
T ss_pred HHHhHHHHHHHHHHhCCCCCcEEEEEEChhcccccCCCHHHHHHHHHHcCCe-EEE--EECCCCcCHHHHHHHHHHHH
Confidence 366666667766653 689999999976433322 35567788888885 433 33445678777777666654
No 47
>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=79.81 E-value=9.9 Score=29.82 Aligned_cols=61 Identities=11% Similarity=0.091 Sum_probs=38.8
Q ss_pred HHHHhhc--CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHH
Q 042073 37 IANTKAY--GVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRA 100 (225)
Q Consensus 37 IeNi~~f--GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~ 100 (225)
++.+++. +.|+||++|+-..-+..++....++....+.. +. +.=++=|+|-.+|-+.+.+.
T Consensus 104 ~~~l~~~~~~~pvilv~NK~Dl~~~~~~~~~~~~~~~~~~~-~~--~~Sa~~~~gi~~l~~~l~~~ 166 (168)
T cd01897 104 FEEIKPLFKNKPVIVVLNKIDLLTFEDLSEIEEEEELEGEE-VL--KISTLTEEGVDEVKNKACEL 166 (168)
T ss_pred HHHHHhhcCcCCeEEEEEccccCchhhHHHHHHhhhhccCc-eE--EEEecccCCHHHHHHHHHHH
Confidence 3334443 89999999997765556665555665544443 32 33357778888887776654
No 48
>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.
Probab=78.98 E-value=45 Score=29.36 Aligned_cols=126 Identities=17% Similarity=0.250 Sum_probs=75.0
Q ss_pred cHHHHHHhH--HHHHHHHHHHhh-cCCeEEE--EecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHH
Q 042073 22 NVALVEAGC--VNLARHIANTKA-YGVNVVV--AVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIA 96 (225)
Q Consensus 22 N~~al~~G~--~NL~~HIeNi~~-fGvpvVV--AIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~ 96 (225)
+..||+.|. ......++.+|+ ..+|+++ -+|-+-+=- ++...+.|++.|+..+.+-+.-. |-.+.
T Consensus 51 ~~~al~~g~~~~~~~~~~~~vr~~~~~pv~lm~y~n~~~~~G---~~~fi~~~~~aG~~giiipDl~~-------ee~~~ 120 (242)
T cd04724 51 SERALANGVTLKDVLELVKEIRKKNTIPIVLMGYYNPILQYG---LERFLRDAKEAGVDGLIIPDLPP-------EEAEE 120 (242)
T ss_pred HHHHHHcCCCHHHHHHHHHHHhhcCCCCEEEEEecCHHHHhC---HHHHHHHHHHCCCcEEEECCCCH-------HHHHH
Confidence 355788886 456666777775 5789766 446432110 13345567889997555544321 23455
Q ss_pred HHHHhhcCCCCcccccCCCCCHH--HHHHHHHh--Hh-----ccCCC--CCCHHHHHHHHHHHHCCCCCCCeeE
Q 042073 97 VQRACENVTQPLKFLYPSDVSIK--EKIDTIAR--SY-----GASGV--EYSEEAEKQIKMYTRQGFSGLPFCM 159 (225)
Q Consensus 97 Vv~~~e~~~~~f~~lY~~~~~i~--eKI~~IA~--IY-----GA~~V--~~s~~A~~~l~~~e~~G~~~lPVCm 159 (225)
+++.|.+..-..-++...+.|.+ ++|...+. +| |..+. .|.+...++++++++. .++|||+
T Consensus 121 ~~~~~~~~g~~~i~~i~P~T~~~~i~~i~~~~~~~vy~~s~~g~tG~~~~~~~~~~~~i~~lr~~--~~~pI~v 192 (242)
T cd04724 121 FREAAKEYGLDLIFLVAPTTPDERIKKIAELASGFIYYVSRTGVTGARTELPDDLKELIKRIRKY--TDLPIAV 192 (242)
T ss_pred HHHHHHHcCCcEEEEeCCCCCHHHHHHHHhhCCCCEEEEeCCCCCCCccCCChhHHHHHHHHHhc--CCCcEEE
Confidence 66666543233445666666655 44444333 44 33333 3678888999999986 5899997
No 49
>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=78.64 E-value=4.7 Score=32.21 Aligned_cols=68 Identities=12% Similarity=0.097 Sum_probs=41.2
Q ss_pred HHHHHHHHHHHhh---cCCeEEEEecCCCCCcHHH--HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHH
Q 042073 30 CVNLARHIANTKA---YGVNVVVAVNMFATDSEAE--LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRA 100 (225)
Q Consensus 30 ~~NL~~HIeNi~~---fGvpvVVAIN~F~~DT~~E--i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~ 100 (225)
+.++.+.++++++ .+.|+||+.|+.....+.. .+.+++++.+.++.-+.+| +.-|+|-.++-+.+.+.
T Consensus 92 ~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~S---a~~~~~i~~~~~~~~~~ 164 (168)
T cd01866 92 FNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVSYEEGEAFAKEHGLIFMETS---AKTASNVEEAFINTAKE 164 (168)
T ss_pred HHHHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEe---CCCCCCHHHHHHHHHHH
Confidence 5567777777765 4899999999976532222 2345667777777522233 34555555555444443
No 50
>PRK13813 orotidine 5'-phosphate decarboxylase; Provisional
Probab=78.21 E-value=30 Score=29.41 Aligned_cols=46 Identities=24% Similarity=0.207 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecCCC----CCcHHHHHHHHHHHHHcCCC
Q 042073 30 CVNLARHIANTKAYGVNVVVAVNMFA----TDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVVAIN~F~----~DT~~Ei~~i~~~c~~~g~~ 75 (225)
-..+.+=++-++++|.++.+++|--. .+-..+++.+...|.+.|..
T Consensus 92 ~~~l~~~i~~~~~~g~~~~v~~~~~~~~~~~~~~~~~~~v~~m~~e~G~~ 141 (215)
T PRK13813 92 RDSLKAVVEAAAESGGKVFVVVEMSHPGALEFIQPHADKLAKLAQEAGAF 141 (215)
T ss_pred HHHHHHHHHHHHhcCCeEEEEEeCCCCCCCCCHHHHHHHHHHHHHHhCCC
Confidence 34577777888999999999998632 22345788888889999986
No 51
>PRK06852 aldolase; Validated
Probab=77.89 E-value=29 Score=32.31 Aligned_cols=103 Identities=17% Similarity=0.066 Sum_probs=57.3
Q ss_pred HHHHHHHHHHHhhcCCeEEE---EecCCCCC-c-HHHHHHHHHHHHHcCCCeEEEccccc-cCchhhHHHHHHHHHHhhc
Q 042073 30 CVNLARHIANTKAYGVNVVV---AVNMFATD-S-EAELNAVRIAAMAAGAFDAVVCSHHA-HGGKGAVDLGIAVQRACEN 103 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVV---AIN~F~~D-T-~~Ei~~i~~~c~~~g~~~~avs~~wa-~GG~Ga~~LA~~Vv~~~e~ 103 (225)
+.||.+=++-.++||+|+|+ .-.....| . .+-|....+.|.++|+. + +-.-|. +=|+|-.+.=++|++.|.
T Consensus 153 l~~l~~v~~ea~~~GlPll~~~yprG~~i~~~~~~~~ia~aaRiaaELGAD-I-VKv~y~~~~~~g~~e~f~~vv~~~g- 229 (304)
T PRK06852 153 LSEAAQIIYEAHKHGLIAVLWIYPRGKAVKDEKDPHLIAGAAGVAACLGAD-F-VKVNYPKKEGANPAELFKEAVLAAG- 229 (304)
T ss_pred HHHHHHHHHHHHHhCCcEEEEeeccCcccCCCccHHHHHHHHHHHHHHcCC-E-EEecCCCcCCCCCHHHHHHHHHhCC-
Confidence 56777777888889999886 22322222 2 35677778888999996 4 444554 223344444445666652
Q ss_pred CCCCcccccCCCCCHHHHHHHHHh-Hh--ccCCCCC
Q 042073 104 VTQPLKFLYPSDVSIKEKIDTIAR-SY--GASGVEY 136 (225)
Q Consensus 104 ~~~~f~~lY~~~~~i~eKI~~IA~-IY--GA~~V~~ 136 (225)
+...=..=-...+.++=++.+-. +- ||.+|.+
T Consensus 230 -~vpVviaGG~k~~~~e~L~~v~~ai~~aGa~Gv~~ 264 (304)
T PRK06852 230 -RTKVVCAGGSSTDPEEFLKQLYEQIHISGASGNAT 264 (304)
T ss_pred -CCcEEEeCCCCCCHHHHHHHHHHHHHHcCCceeee
Confidence 11111111112234444555544 44 8888876
No 52
>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=77.73 E-value=8.7 Score=30.56 Aligned_cols=62 Identities=15% Similarity=0.059 Sum_probs=38.8
Q ss_pred HhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 40 TKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 40 i~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
+...++|+|+++|+.......+-+...++++..|....-+-..=++=|+|-.+|-+.+.+.+
T Consensus 115 ~~~~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~ 176 (179)
T cd01890 115 ALENNLEIIPVINKIDLPSADPERVKQQIEDVLGLDPSEAILVSAKTGLGVEDLLEAIVERI 176 (179)
T ss_pred HHHcCCCEEEEEECCCCCcCCHHHHHHHHHHHhCCCcccEEEeeccCCCCHHHHHHHHHhhC
Confidence 34578999999999875322222334555666666311123444667889888888877654
No 53
>PF00290 Trp_syntA: Tryptophan synthase alpha chain; InterPro: IPR002028 Tryptophan synthase (4.2.1.20 from EC) catalyzes the last step in the biosynthesis of tryptophan [, ]: L-serine + 1-(indol-3-yl)glycerol 3-phosphate = L-tryptophan + glyceraldehyde 3-phosphate + H2O It has two functional domains, each found in bacteria and plants on a separate subunit. In Escherichia coli, the 2 subunits, A and B, are encoded by the trpA and trpB genes respectively. The alpha chain is for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate and the beta chain IPR006653 from INTERPRO is for the synthesis of tryptophan from indole and serine. In fungi the two domains are fused together in a single multifunctional protein, in the order: (NH2-A-B-COOH) [, ]. The two domains of the Neurospora crassa polypeptide are linked by a connector of 54-amino acid residues that has less than 25% identity to the 45-residue connector of the Saccharomyces cerevisiae (Baker's yeast) polypeptide. Two acidic residues are believed to serve as proton donors/acceptors in the enzyme's catalytic mechanism.; GO: 0004834 tryptophan synthase activity, 0006568 tryptophan metabolic process; PDB: 1TJR_B 1RD5_B 1K8X_A 1QOQ_A 1KFE_A 1KFB_A 2CLO_A 1TTP_A 2RH9_A 1K7F_A ....
Probab=77.50 E-value=11 Score=34.09 Aligned_cols=143 Identities=18% Similarity=0.269 Sum_probs=80.3
Q ss_pred CCCCCccCCCCCccc------cccccHHHHHHhHHHHHHH---HHHHh-h-cCCeEEEEe--cCCCCCcHHHHHHHHHHH
Q 042073 3 GGGPQVVAGKPLDHA------YLNENVALVEAGCVNLARH---IANTK-A-YGVNVVVAV--NMFATDSEAELNAVRIAA 69 (225)
Q Consensus 3 GGv~~~~lg~pl~~~------l~~eN~~al~~G~~NL~~H---IeNi~-~-fGvpvVVAI--N~F~~DT~~Ei~~i~~~c 69 (225)
+|+...++|-|-.+- +.+-+..||+.|+ |+.+= ++.+| + ..+|+|+-- |-+ -.--++...+.|
T Consensus 36 ~GaD~iEiGiPfSDP~ADGpvIq~A~~rAL~~G~-~~~~~~~~~~~ir~~~~~~pivlm~Y~N~i---~~~G~e~F~~~~ 111 (259)
T PF00290_consen 36 AGADIIEIGIPFSDPVADGPVIQKASQRALKNGF-TLEKIFELVKEIRKKEPDIPIVLMTYYNPI---FQYGIERFFKEA 111 (259)
T ss_dssp TTBSSEEEE--SSSCTTSSHHHHHHHHHHHHTT---HHHHHHHHHHHHHHCTSSEEEEEE-HHHH---HHH-HHHHHHHH
T ss_pred cCCCEEEECCCCCCCCCCCHHHHHHHHHHHHCCC-CHHHHHHHHHHHhccCCCCCEEEEeeccHH---hccchHHHHHHH
Confidence 345555555443332 2346778899887 45444 45555 3 568877632 211 011245567788
Q ss_pred HHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHHHHHHHHh-----Hh-----ccCCC--CCC
Q 042073 70 MAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKEKIDTIAR-----SY-----GASGV--EYS 137 (225)
Q Consensus 70 ~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~-----IY-----GA~~V--~~s 137 (225)
++.|+..+.+-+.= .|-++.+.+.|++..=.+-++-..+ +-.++|++|++ || |.++. .++
T Consensus 112 ~~aGvdGlIipDLP-------~ee~~~~~~~~~~~gl~~I~lv~p~-t~~~Ri~~i~~~a~gFiY~vs~~GvTG~~~~~~ 183 (259)
T PF00290_consen 112 KEAGVDGLIIPDLP-------PEESEELREAAKKHGLDLIPLVAPT-TPEERIKKIAKQASGFIYLVSRMGVTGSRTELP 183 (259)
T ss_dssp HHHTEEEEEETTSB-------GGGHHHHHHHHHHTT-EEEEEEETT-S-HHHHHHHHHH-SSEEEEESSSSSSSTTSSCH
T ss_pred HHcCCCEEEEcCCC-------hHHHHHHHHHHHHcCCeEEEEECCC-CCHHHHHHHHHhCCcEEEeeccCCCCCCcccch
Confidence 89999866666642 2445666677764221222233332 45667777664 45 33444 467
Q ss_pred HHHHHHHHHHHHCCCCCCCeeE
Q 042073 138 EEAEKQIKMYTRQGFSGLPFCM 159 (225)
Q Consensus 138 ~~A~~~l~~~e~~G~~~lPVCm 159 (225)
....+.++++++.. ++|||+
T Consensus 184 ~~l~~~i~~ik~~~--~~Pv~v 203 (259)
T PF00290_consen 184 DELKEFIKRIKKHT--DLPVAV 203 (259)
T ss_dssp HHHHHHHHHHHHTT--SS-EEE
T ss_pred HHHHHHHHHHHhhc--CcceEE
Confidence 88999999999975 999997
No 54
>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=77.17 E-value=13 Score=28.60 Aligned_cols=69 Identities=13% Similarity=0.045 Sum_probs=44.9
Q ss_pred HHHHHHHHHHhh-cCCeEEEEecCCCCCc--HHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 31 VNLARHIANTKA-YGVNVVVAVNMFATDS--EAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 31 ~NL~~HIeNi~~-fGvpvVVAIN~F~~DT--~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
.++..++..++. +++|+||++|+..... ..+.+...+++++.+++ +.. .=+.=|+|-.+|-+.+.+.+.
T Consensus 91 ~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~~~~~~~-~~~--~Sa~~~~gi~~l~~~l~~~~~ 162 (164)
T cd04139 91 AEFREQILRVKDDDNVPLLLVGNKCDLEDKRQVSSEEAANLARQWGVP-YVE--TSAKTRQNVEKAFYDLVREIR 162 (164)
T ss_pred HHHHHHHHHhcCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCe-EEE--eeCCCCCCHHHHHHHHHHHHH
Confidence 344444444433 7899999999987543 23445566778888875 432 334556888888888776553
No 55
>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=77.06 E-value=12 Score=28.42 Aligned_cols=63 Identities=14% Similarity=0.049 Sum_probs=36.1
Q ss_pred HHHHHHHhhcCCeEEEEecCCCCC-cHHHHHHHHHHHHHcC-CCeEEEccccccCchhhHHHHHHHH
Q 042073 34 ARHIANTKAYGVNVVVAVNMFATD-SEAELNAVRIAAMAAG-AFDAVVCSHHAHGGKGAVDLGIAVQ 98 (225)
Q Consensus 34 ~~HIeNi~~fGvpvVVAIN~F~~D-T~~Ei~~i~~~c~~~g-~~~~avs~~wa~GG~Ga~~LA~~Vv 98 (225)
.+.++.++.++.|+++.+|+.... ++++++.+.+...+.. ..++..++ +.=++|-.+|-+.+.
T Consensus 101 ~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~s--~~~~~~~~~l~~~l~ 165 (168)
T cd04163 101 EFILELLKKSKTPVILVLNKIDLVKDKEDLLPLLEKLKELGPFAEIFPIS--ALKGENVDELLEEIV 165 (168)
T ss_pred HHHHHHHHHhCCCEEEEEEchhccccHHHHHHHHHHHHhccCCCceEEEE--eccCCChHHHHHHHH
Confidence 344455667789999999988665 5666666555555443 22122222 344556555555443
No 56
>smart00518 AP2Ec AP endonuclease family 2. These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites
Probab=76.58 E-value=30 Score=30.06 Aligned_cols=97 Identities=12% Similarity=0.159 Sum_probs=57.3
Q ss_pred ccccccHHHHHHhHHHHHHHHHHHhhcCCeEEEEe-cCCC-CCcHHHHH----HHHHHHH-HcCCCeEEEccccccCch-
Q 042073 17 AYLNENVALVEAGCVNLARHIANTKAYGVNVVVAV-NMFA-TDSEAELN----AVRIAAM-AAGAFDAVVCSHHAHGGK- 88 (225)
Q Consensus 17 ~l~~eN~~al~~G~~NL~~HIeNi~~fGvpvVVAI-N~F~-~DT~~Ei~----~i~~~c~-~~g~~~~avs~~wa~GG~- 88 (225)
.+..++.+..++.+..|++.|+-.+.+|.+.||.- .... .++++.++ .+.+.|+ +.|+. .++-+.+..+..
T Consensus 70 nl~s~d~~~r~~~~~~l~~~i~~A~~lGa~~vv~h~g~~~~~~~e~~~~~~~~~l~~l~~~~~gv~-l~lEn~~~~~~~~ 148 (273)
T smart00518 70 NLASPDKEKVEKSIERLIDEIKRCEELGIKALVFHPGSYLKQSKEEALNRIIESLNEVIDETKGVV-ILLETTAGKGSQI 148 (273)
T ss_pred cCCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEccccccCCCHHHHHHHHHHHHHHHHhccCCcE-EEEeccCCCCCcc
Confidence 44556777888899999999999999999987751 1111 23344444 3444454 36775 777666544322
Q ss_pred h-hHHHHHHHHHHhhcCCCCcccccCCC
Q 042073 89 G-AVDLGIAVQRACENVTQPLKFLYPSD 115 (225)
Q Consensus 89 G-a~~LA~~Vv~~~e~~~~~f~~lY~~~ 115 (225)
| ..+-...+++.+.. ..++.+++|..
T Consensus 149 ~~~~~~~~~ll~~v~~-~~~~g~~lD~g 175 (273)
T smart00518 149 GSTFEDLKEIIDLIKE-LDRIGVCIDTC 175 (273)
T ss_pred CCCHHHHHHHHHhcCC-CCCeEEEEEcc
Confidence 1 23344555555532 13467776654
No 57
>PRK12289 GTPase RsgA; Reviewed
Probab=76.55 E-value=11 Score=35.41 Aligned_cols=63 Identities=19% Similarity=0.185 Sum_probs=42.4
Q ss_pred HHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHH
Q 042073 32 NLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAV 97 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~V 97 (225)
.|.|.+..+...|+|+|+++|+-.-.++++++...+..+..|+. +...+ +.-|+|-.+|.+.+
T Consensus 108 ~LdR~L~~a~~~~ip~ILVlNK~DLv~~~~~~~~~~~~~~~g~~-v~~iS--A~tg~GI~eL~~~L 170 (352)
T PRK12289 108 QLSRFLVKAESTGLEIVLCLNKADLVSPTEQQQWQDRLQQWGYQ-PLFIS--VETGIGLEALLEQL 170 (352)
T ss_pred HHHHHHHHHHHCCCCEEEEEEchhcCChHHHHHHHHHHHhcCCe-EEEEE--cCCCCCHHHHhhhh
Confidence 34566666667899999999998776777776666666778885 43332 44456655554443
No 58
>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=76.47 E-value=11 Score=29.84 Aligned_cols=67 Identities=21% Similarity=0.230 Sum_probs=41.1
Q ss_pred HHHHHHHHHhhcCCeEEEEecCCCCCcHHHHH----HHHHHHHHcC--------------CCeEEEccccccCchhhHHH
Q 042073 32 NLARHIANTKAYGVNVVVAVNMFATDSEAELN----AVRIAAMAAG--------------AFDAVVCSHHAHGGKGAVDL 93 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~----~i~~~c~~~g--------------~~~~avs~~wa~GG~Ga~~L 93 (225)
.+..++..+++.+.|+++++|+...-++++++ .+++..+..+ .+ +.. .=+.-|.|-.+|
T Consensus 102 ~~~~~~~~~~~~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-v~~--~Sa~~g~gi~~l 178 (189)
T cd00881 102 QTREHLRIAREGGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKEEGTRNGLLVP-IVP--GSALTGIGVEEL 178 (189)
T ss_pred HHHHHHHHHHHCCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhhhhcccCCcce-EEE--EecccCcCHHHH
Confidence 34556667777899999999997654544443 3444444322 32 322 225667777777
Q ss_pred HHHHHHHh
Q 042073 94 GIAVQRAC 101 (225)
Q Consensus 94 A~~Vv~~~ 101 (225)
-+.+.+.+
T Consensus 179 ~~~l~~~l 186 (189)
T cd00881 179 LEAIVEHL 186 (189)
T ss_pred HHHHHhhC
Confidence 77766654
No 59
>PRK13209 L-xylulose 5-phosphate 3-epimerase; Reviewed
Probab=76.39 E-value=31 Score=30.10 Aligned_cols=91 Identities=9% Similarity=0.011 Sum_probs=55.6
Q ss_pred ccccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCCC----CCcH-------HHHHHHHHHHHHcCCCeEEEccccccCc
Q 042073 19 LNENVALVEAGCVNLARHIANTKAYGVNVVVAVNMFA----TDSE-------AELNAVRIAAMAAGAFDAVVCSHHAHGG 87 (225)
Q Consensus 19 ~~eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F~----~DT~-------~Ei~~i~~~c~~~g~~~~avs~~wa~GG 87 (225)
..+|.+.-++.+..+++.|+..+.+|.|.|+. .-+. .+.+ +.++.+.+.+++.|+. +++-++...-
T Consensus 87 ~~~~~~~r~~~~~~~~~~i~~a~~lG~~~i~~-~~~~~~~~~~~~~~~~~~~~~l~~l~~~A~~~GV~-i~iE~~~~~~- 163 (283)
T PRK13209 87 GSEDDAVRAQALEIMRKAIQLAQDLGIRVIQL-AGYDVYYEQANNETRRRFIDGLKESVELASRASVT-LAFEIMDTPF- 163 (283)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEE-CCccccccccHHHHHHHHHHHHHHHHHHHHHhCCE-EEEeecCCcc-
Confidence 34566677888999999999999999998874 3221 1112 2345566777788996 8887663221
Q ss_pred hhhHHHHHHHHHHhhcCCCCcccccCC
Q 042073 88 KGAVDLGIAVQRACENVTQPLKFLYPS 114 (225)
Q Consensus 88 ~Ga~~LA~~Vv~~~e~~~~~f~~lY~~ 114 (225)
-...+=+..+++.+. ...+..+||.
T Consensus 164 ~~~~~~~~~ll~~v~--~~~lgl~~D~ 188 (283)
T PRK13209 164 MNSISKALGYAHYLN--SPWFQLYPDI 188 (283)
T ss_pred cCCHHHHHHHHHHhC--CCccceEecc
Confidence 112222333334332 2457777774
No 60
>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=76.31 E-value=15 Score=28.51 Aligned_cols=68 Identities=15% Similarity=-0.002 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHhh----cCCeEEEEecCCCCCcH--HHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHH
Q 042073 30 CVNLARHIANTKA----YGVNVVVAVNMFATDSE--AELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRA 100 (225)
Q Consensus 30 ~~NL~~HIeNi~~----fGvpvVVAIN~F~~DT~--~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~ 100 (225)
+.++...++.+++ .++|++|+.|+..--.+ ...+...+++++.+.+ +..+. ++=|+|-.+|-+.+++.
T Consensus 88 ~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~S--a~~~~~v~~l~~~l~~~ 161 (163)
T cd04136 88 FNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSREEGQALARQWGCP-FYETS--AKSKINVDEVFADLVRQ 161 (163)
T ss_pred HHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceecHHHHHHHHHHcCCe-EEEec--CCCCCCHHHHHHHHHHh
Confidence 3445444444432 58999999999753211 1233445666777764 33332 34477888877776653
No 61
>cd00959 DeoC 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family. DERA belongs to the class I aldolases and catalyzes a reversible aldol reaction between acetaldehyde and glyceraldehyde 3-phosphate to generate 2-deoxyribose 5-phosphate. DERA is unique in catalyzing the aldol reaction between two aldehydes, and its broad substrate specificity confers considerable utility as a biocatalyst, offering an environmentally benign alternative to chiral transition metal catalysis of the asymmetric aldol reaction.
Probab=75.85 E-value=14 Score=31.49 Aligned_cols=66 Identities=20% Similarity=0.184 Sum_probs=42.6
Q ss_pred cHHHHHHhHHH-HHHHHHHHhh--cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCch
Q 042073 22 NVALVEAGCVN-LARHIANTKA--YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGK 88 (225)
Q Consensus 22 N~~al~~G~~N-L~~HIeNi~~--fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~ 88 (225)
|+.+++.|..+ ..+-|..++. -|+|+.|.+..=.- +++||....+.|.++|+.-+-.++.|..+|.
T Consensus 91 ~~g~~~~~~~~~~~~ei~~v~~~~~g~~lkvI~e~~~l-~~~~i~~a~ria~e~GaD~IKTsTG~~~~~a 159 (203)
T cd00959 91 NIGALKSGDYEAVYEEIAAVVEACGGAPLKVILETGLL-TDEEIIKACEIAIEAGADFIKTSTGFGPGGA 159 (203)
T ss_pred cHHHHhCCCHHHHHHHHHHHHHhcCCCeEEEEEecCCC-CHHHHHHHHHHHHHhCCCEEEcCCCCCCCCC
Confidence 44444444322 3333444443 28998886665333 5889999999999999985556677976553
No 62
>TIGR00475 selB selenocysteine-specific elongation factor SelB. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.
Probab=75.44 E-value=14 Score=36.92 Aligned_cols=69 Identities=19% Similarity=0.227 Sum_probs=45.5
Q ss_pred HHHHHHHHHHhhcCCe-EEEEecCCCCCcHHHHHH----HHHHHHHc----CCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 31 VNLARHIANTKAYGVN-VVVAVNMFATDSEAELNA----VRIAAMAA----GAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvp-vVVAIN~F~~DT~~Ei~~----i~~~c~~~----g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
+....|+..++.+|+| +||++|+-..-++++++. ++++++.. +++ +..++ +.=|+|-.+|-+.+.+.+
T Consensus 89 ~qT~ehl~il~~lgi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~-ii~vS--A~tG~GI~eL~~~L~~l~ 165 (581)
T TIGR00475 89 TQTGEHLAVLDLLGIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAK-IFKTS--AKTGQGIGELKKELKNLL 165 (581)
T ss_pred HHHHHHHHHHHHcCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCc-EEEEe--CCCCCCchhHHHHHHHHH
Confidence 4566788888999999 999999987655555543 44555544 344 43333 344677777777766665
Q ss_pred h
Q 042073 102 E 102 (225)
Q Consensus 102 e 102 (225)
+
T Consensus 166 ~ 166 (581)
T TIGR00475 166 E 166 (581)
T ss_pred H
Confidence 5
No 63
>cd02033 BchX Chlorophyllide reductase converts chlorophylls into bacteriochlorophylls by reducing the chlorin B-ring. This family contains the X subunit of this three-subunit enzyme. Sequence and structure similarity between bchX, protochlorophyllide reductase L subunit (bchL and chlL) and nitrogenase Fe protein (nifH gene) suggest their functional similarity. Members of the BchX family serve as the unique electron donors to their respective catalytic subunits (bchN-bchB, bchY-bchZ and nitrogenase component 1). Mechanistically, they hydrolyze ATP and transfer electrons through a Fe4-S4 cluster.
Probab=75.15 E-value=12 Score=34.92 Aligned_cols=107 Identities=11% Similarity=0.085 Sum_probs=69.6
Q ss_pred cccHHHHHHhHHHHHHHHHHHhhcCCe---EEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHH
Q 042073 20 NENVALVEAGCVNLARHIANTKAYGVN---VVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIA 96 (225)
Q Consensus 20 ~eN~~al~~G~~NL~~HIeNi~~fGvp---vVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~ 96 (225)
.+++.++. +-.|+.|-++-+++.|.+ .-+.+|++..+ .+ +.++|++.|++ + +. .+-.-+.
T Consensus 181 ~pe~~si~-~A~~v~kai~~~~~lg~~~~i~GlViNr~d~~--~~---ie~~ae~lgi~-v-Lg---------~IP~D~~ 243 (329)
T cd02033 181 SNDLQSLY-VANNVCNAVEYFRKLGGNVGVAGMVINKDDGT--GE---AQAFAAHAGIP-I-LA---------AIPADEE 243 (329)
T ss_pred CchHHHHH-HHHHHHHHHHHHHHhCCCCCceEEEEeCcCCc--ch---HHHHHHHhCCC-E-EE---------ECCCCHH
Confidence 34555543 345888999889888655 56888997553 23 56788888997 4 22 2344456
Q ss_pred HHHHhhcCCCCcccccCCCCCHHHHHHHHHh-HhccCCCCCCHHHHHHHHHH
Q 042073 97 VQRACENVTQPLKFLYPSDVSIKEKIDTIAR-SYGASGVEYSEEAEKQIKMY 147 (225)
Q Consensus 97 Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~-IYGA~~V~~s~~A~~~l~~~ 147 (225)
|.++..+. ++++..+.++.+.++.||+ |.....+.-.+.-.++|.++
T Consensus 244 V~~a~~~g----~~~~~p~s~~a~~f~~LA~~I~~~~~~~~~~~~~~~~~~~ 291 (329)
T cd02033 244 LRRKSAAY----QIVGRPGTTWGPLFEQLATNVAEAPPMRPKPLSQDELLGL 291 (329)
T ss_pred HHHHHHcC----CeecCCCCHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHH
Confidence 66665432 2455555678999999999 88766666555555555443
No 64
>PRK07565 dihydroorotate dehydrogenase 2; Reviewed
Probab=75.13 E-value=38 Score=31.16 Aligned_cols=49 Identities=18% Similarity=0.108 Sum_probs=33.0
Q ss_pred HhHHHHHHHHHHHhh-cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEE
Q 042073 28 AGCVNLARHIANTKA-YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVV 79 (225)
Q Consensus 28 ~G~~NL~~HIeNi~~-fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~av 79 (225)
.|.....+++..+++ +++|++|-|+- .+.+|...+.+.+++.|+.-+.+
T Consensus 84 ~g~d~~~~~i~~~~~~~~~pvi~sI~g---~~~~e~~~~a~~~~~agad~iel 133 (334)
T PRK07565 84 VGPEEYLELIRRAKEAVDIPVIASLNG---SSAGGWVDYARQIEQAGADALEL 133 (334)
T ss_pred cCHHHHHHHHHHHHHhcCCcEEEEecc---CCHHHHHHHHHHHHHcCCCEEEE
Confidence 455556777877755 68999998866 33456666666677889863444
No 65
>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=75.01 E-value=9.7 Score=38.74 Aligned_cols=64 Identities=25% Similarity=0.186 Sum_probs=47.7
Q ss_pred HHHHhhcCCeEEEEecCCCCCcHHHHHHHHHH-------HHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 37 IANTKAYGVNVVVAVNMFATDSEAELNAVRIA-------AMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 37 IeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~-------c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
|...|.-++|+|||||+-..- .+-++-+.+. |++.|-. +-+-..=+.=|++--+|+++++-.++
T Consensus 246 IkhAk~A~VpiVvAinKiDkp-~a~pekv~~eL~~~gi~~E~~GGd-VQvipiSAl~g~nl~~L~eaill~Ae 316 (683)
T KOG1145|consen 246 IKHAKSANVPIVVAINKIDKP-GANPEKVKRELLSQGIVVEDLGGD-VQVIPISALTGENLDLLEEAILLLAE 316 (683)
T ss_pred HHHHHhcCCCEEEEEeccCCC-CCCHHHHHHHHHHcCccHHHcCCc-eeEEEeecccCCChHHHHHHHHHHHH
Confidence 556677899999999987532 3334433332 5667774 77778888999999999999998776
No 66
>PTZ00369 Ras-like protein; Provisional
Probab=74.76 E-value=21 Score=29.30 Aligned_cols=70 Identities=16% Similarity=0.010 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHhh----cCCeEEEEecCCCCCcHH--HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 30 CVNLARHIANTKA----YGVNVVVAVNMFATDSEA--ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 30 ~~NL~~HIeNi~~----fGvpvVVAIN~F~~DT~~--Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
|.++...++.+.+ -++|+|++.|+..-..+. +.+...++++..+.+ +..+. ++-|.|-.++-+.+++.+.
T Consensus 92 ~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~~~~-~~e~S--ak~~~gi~~~~~~l~~~l~ 167 (189)
T PTZ00369 92 FEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEGQELAKSFGIP-FLETS--AKQRVNVDEAFYELVREIR 167 (189)
T ss_pred HHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHhCCE-EEEee--CCCCCCHHHHHHHHHHHHH
Confidence 3445444444432 489999999997642111 223455667777775 44333 5667888886666665543
No 67
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=74.51 E-value=13 Score=28.82 Aligned_cols=68 Identities=12% Similarity=0.048 Sum_probs=43.6
Q ss_pred HHHHHHHHHHhh---cCCeEEEEecCCCCCcH--HHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 31 VNLARHIANTKA---YGVNVVVAVNMFATDSE--AELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 31 ~NL~~HIeNi~~---fGvpvVVAIN~F~~DT~--~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
..+.+-++.+.+ -++|+||++|+-..... ...+.+.+++++.|+. +. +.=+.-|+|-.+|-+.+++.+
T Consensus 89 ~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~--e~Sa~~~~~i~~l~~~i~~~~ 161 (164)
T smart00175 89 ENLKNWLKELREYADPNVVIMLVGNKSDLEDQRQVSREEAEAFAEEHGLP-FF--ETSAKTNTNVEEAFEELAREI 161 (164)
T ss_pred HHHHHHHHHHHHhCCCCCeEEEEEEchhcccccCCCHHHHHHHHHHcCCe-EE--EEeCCCCCCHHHHHHHHHHHH
Confidence 344444444443 47999999998654332 2345677888888875 33 344466778888877777654
No 68
>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=74.47 E-value=22 Score=28.29 Aligned_cols=71 Identities=10% Similarity=-0.005 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHhh----cCCeEEEEecCCCCCcHHH--HHHHHHHHHHcCCCeEEEccccc-cCchhhHHHHHHHHHHh
Q 042073 30 CVNLARHIANTKA----YGVNVVVAVNMFATDSEAE--LNAVRIAAMAAGAFDAVVCSHHA-HGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 30 ~~NL~~HIeNi~~----fGvpvVVAIN~F~~DT~~E--i~~i~~~c~~~g~~~~avs~~wa-~GG~Ga~~LA~~Vv~~~ 101 (225)
+.++...++.+++ -++|+|++.|+..-....+ .+...++++..+.. +..+.... .++.+-.++-..+++.+
T Consensus 91 ~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~e~Sa~~~~~~~~i~~~f~~l~~~~ 168 (170)
T cd04115 91 FHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADAHSMP-LFETSAKDPSENDHVEAIFMTLAHKL 168 (170)
T ss_pred HHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCCHHHHHHHHHHcCCc-EEEEeccCCcCCCCHHHHHHHHHHHh
Confidence 4455555554443 4699999999986533332 23455666777775 55555554 45777777766665543
No 69
>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=74.34 E-value=14 Score=28.99 Aligned_cols=69 Identities=13% Similarity=0.007 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHh----hcCCeEEEEecCCCCCcHH--HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 30 CVNLARHIANTK----AYGVNVVVAVNMFATDSEA--ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 30 ~~NL~~HIeNi~----~fGvpvVVAIN~F~~DT~~--Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
+.++.+.++.+. ..++|++++.|+..-.... +.+...+++++.+.. +..+. ++=|.|-.++-+.+++.+
T Consensus 88 ~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~S--a~~~~~v~~~~~~l~~~l 162 (164)
T cd04175 88 FNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWGCA-FLETS--AKAKINVNEIFYDLVRQI 162 (164)
T ss_pred HHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHHHHHHHHHHhCCE-EEEee--CCCCCCHHHHHHHHHHHh
Confidence 444444444443 2579999999997653221 122345677777875 54443 345788888888887654
No 70
>PRK08318 dihydropyrimidine dehydrogenase subunit B; Validated
Probab=74.33 E-value=59 Score=30.78 Aligned_cols=50 Identities=16% Similarity=0.115 Sum_probs=32.3
Q ss_pred hHHHHHHHHHHHhh-c-CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEc
Q 042073 29 GCVNLARHIANTKA-Y-GVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVC 80 (225)
Q Consensus 29 G~~NL~~HIeNi~~-f-GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs 80 (225)
|+..-.++++.+++ + ..|++|-|| .+.+++|+....+..++.|+.-+.++
T Consensus 82 ~~~~~~~~~~~~~~~~~~~p~i~si~--g~~~~~~~~~~a~~~~~~g~d~ielN 133 (420)
T PRK08318 82 PLEVNLREIRRVKRDYPDRALIASIM--VECNEEEWKEIAPLVEETGADGIELN 133 (420)
T ss_pred CHHHHHHHHHHHHhhCCCceEEEEec--cCCCHHHHHHHHHHHHhcCCCEEEEe
Confidence 33333356666654 4 588888887 33357888888888888888644443
No 71
>TIGR03849 arch_ComA phosphosulfolactate synthase. This model finds the ComA (Coenzyme M biosynthesis A) protein, phosphosulfolactate synthase, in methanogenic archaea. The ComABC pathway is one of at least two pathways to the intermediate sulfopyruvate. Coenzyme M occurs rarely and sporadically outside of the archaea, as for expoxide metabolism in Xanthobacter autotrophicus Py2, but candidate phosphosulfolactate synthases from that and other species occur fall below the cutoff and outside the scope of this model. This model deliberately is narrower in scope than pfam02679.
Probab=74.06 E-value=41 Score=30.38 Aligned_cols=93 Identities=18% Similarity=0.212 Sum_probs=63.3
Q ss_pred HHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHH-------HHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCC
Q 042073 33 LARHIANTKAYGVNVVVAVNMFATDSEAELNAVR-------IAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVT 105 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~-------~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~ 105 (225)
|++-|+-.+++||+| |+.+|-.|+.+.+ +.|+++|...+.+|+.+-+ -.-.++++.|-.+.+.
T Consensus 43 l~eki~la~~~~V~v------~~GGtl~E~~~~q~~~~~Yl~~~k~lGf~~IEiS~G~~~--i~~~~~~rlI~~~~~~-- 112 (237)
T TIGR03849 43 VKEKIEMYKDYGIKV------YPGGTLFEIAHSKGKFDEYLNECDELGFEAVEISDGSME--ISLEERCNLIERAKDN-- 112 (237)
T ss_pred HHHHHHHHHHcCCeE------eCCccHHHHHHHhhhHHHHHHHHHHcCCCEEEEcCCccC--CCHHHHHHHHHHHHhC--
Confidence 777788889999998 5678888876554 4899999988888887665 2234555555554432
Q ss_pred CCccccc---------CCCCCHHHHHHHHHh--HhccCCCCC
Q 042073 106 QPLKFLY---------PSDVSIKEKIDTIAR--SYGASGVEY 136 (225)
Q Consensus 106 ~~f~~lY---------~~~~~i~eKI~~IA~--IYGA~~V~~ 136 (225)
.|+.+. +...++.+.|+.+.+ =-||+.|..
T Consensus 113 -g~~v~~EvG~K~~~~~~~~~~~~~i~~~~~~LeAGA~~Vii 153 (237)
T TIGR03849 113 -GFMVLSEVGKKSPEKDSELTPDDRIKLINKDLEAGADYVII 153 (237)
T ss_pred -CCeEeccccccCCcccccCCHHHHHHHHHHHHHCCCcEEEE
Confidence 233222 224678888888877 577777644
No 72
>PRK15447 putative protease; Provisional
Probab=73.98 E-value=11 Score=34.47 Aligned_cols=112 Identities=20% Similarity=0.184 Sum_probs=66.7
Q ss_pred HHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCccc
Q 042073 31 VNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKF 110 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~ 110 (225)
.-|..=++-+++.|..++|++|+.... ++|++.+.++++. ++. .++. +--|...++++- .+..
T Consensus 48 ~~l~e~v~~~~~~gkkvyva~p~i~~~-~~e~~~l~~~l~~-~~~-~v~v-----~d~g~l~~~~e~---------~~~l 110 (301)
T PRK15447 48 GDWLELAERLAAAGKEVVLSTLALVEA-PSELKELRRLVEN-GEF-LVEA-----NDLGAVRLLAER---------GLPF 110 (301)
T ss_pred HHHHHHHHHHHHcCCEEEEEecccccC-HHHHHHHHHHHhc-CCC-EEEE-----eCHHHHHHHHhc---------CCCE
Confidence 344555667788999999999996421 4588888887764 654 3332 233556666541 1223
Q ss_pred ccCCCCCHHHHHHHHHh-HhccCCCCCCHHHH-HHHHHHHHC--------------CCCCCCeeE
Q 042073 111 LYPSDVSIKEKIDTIAR-SYGASGVEYSEEAE-KQIKMYTRQ--------------GFSGLPFCM 159 (225)
Q Consensus 111 lY~~~~~i~eKI~~IA~-IYGA~~V~~s~~A~-~~l~~~e~~--------------G~~~lPVCm 159 (225)
..+....+-.-...-.- =+|+++|+.|.+-- +||+.+.+. -+|++|+++
T Consensus 111 ~~d~~lni~N~~a~~~l~~~G~~rv~ls~ELsl~eI~~i~~~~~~~~~~~~~~Ev~VhG~lp~m~ 175 (301)
T PRK15447 111 VAGPALNCYNAATLALLARLGATRWCMPVELSRDWLANLLAQCPELGRNQFEVEVFAYGRLPLAY 175 (301)
T ss_pred EEecccccCCHHHHHHHHHcCCcEEEECCcCCHHHHHHHHHhcccccCCCcceEEEEEchhHHHh
Confidence 33333333333222222 57899998887653 677776432 378888633
No 73
>PF01113 DapB_N: Dihydrodipicolinate reductase, N-terminus; InterPro: IPR000846 Dihydrodipicolinate reductase catalyzes the second step in the biosynthesis of diaminopimelic acid and lysine, the NAD or NADP-dependent reduction of 2,3-dihydrodipicolinate into 2,3,4,5-tetrahydrodipicolinate [, , ]. In Escherichia coli and Mycobacterium tuberculosis, dihydrodipicolinate reductase has equal specificity for NADH and NADPH, however in Thermotoga maritima there it has a greater affinity for NADPH []. In addition, the enzyme is inhibited by high concentrations of its substrate, which consequently acts as a feedback control on the lysine biosynthesis pathway. In T. maritima, the enzyme also lacks N-terminal and C-terminal loops which are present in enzyme of the former two organisms. This entry represents the N-terminal domain of dihydrodipicolinate reductase which binds the dinucleotide NAD(P)H.; GO: 0008839 dihydrodipicolinate reductase activity, 0009089 lysine biosynthetic process via diaminopimelate, 0055114 oxidation-reduction process; PDB: 3QY9_D 1VM6_C 1ARZ_A 1DIH_A 1DRW_A 1DRV_A 1DRU_A 2DAP_A 1DAP_B 3DAP_A ....
Probab=73.96 E-value=5.9 Score=31.26 Aligned_cols=38 Identities=16% Similarity=0.239 Sum_probs=28.6
Q ss_pred HHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHH
Q 042073 31 VNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMA 71 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~ 71 (225)
.++..|++-..++|+|+|+.-=-| |+++++.|++++++
T Consensus 78 ~~~~~~~~~~~~~g~~~ViGTTG~---~~~~~~~l~~~a~~ 115 (124)
T PF01113_consen 78 DAVYDNLEYALKHGVPLVIGTTGF---SDEQIDELEELAKK 115 (124)
T ss_dssp HHHHHHHHHHHHHT-EEEEE-SSS---HHHHHHHHHHHTTT
T ss_pred HHhHHHHHHHHhCCCCEEEECCCC---CHHHHHHHHHHhcc
Confidence 456778888888899999987666 67888888888776
No 74
>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=73.61 E-value=15 Score=27.98 Aligned_cols=59 Identities=19% Similarity=0.127 Sum_probs=35.4
Q ss_pred HHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 36 HIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 36 HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
+.+-++++++|+++++|+-.....++. .+...+.|...+. ..=++-|.|-.+|-+.+++
T Consensus 97 ~~~~~~~~~~piiiv~nK~D~~~~~~~---~~~~~~~~~~~~~--~~Sa~~~~gv~~l~~~l~~ 155 (157)
T cd01894 97 IAKYLRKSKKPVILVVNKVDNIKEEDE---AAEFYSLGFGEPI--PISAEHGRGIGDLLDAILE 155 (157)
T ss_pred HHHHHHhcCCCEEEEEECcccCChHHH---HHHHHhcCCCCeE--EEecccCCCHHHHHHHHHh
Confidence 344456788999999999866554443 2333446652222 3334456777777766654
No 75
>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=73.54 E-value=22 Score=28.22 Aligned_cols=69 Identities=9% Similarity=-0.000 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHhh---cCCeEEEEecCCCCCcHH--HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 30 CVNLARHIANTKA---YGVNVVVAVNMFATDSEA--ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 30 ~~NL~~HIeNi~~---fGvpvVVAIN~F~~DT~~--Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
|.++.+-++++++ -++|++|+.|+..-.... ..+...++++..+..-+.+|-. =|.|-.++-+.+++.+
T Consensus 91 ~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~---~~~~v~~~~~~i~~~~ 164 (167)
T cd01867 91 FENIRNWMRNIEEHASEDVERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAK---ANINVEEAFFTLAKDI 164 (167)
T ss_pred HHhHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCC---CCCCHHHHHHHHHHHH
Confidence 3344444444443 378999999997543211 2334556777777753334433 3578888877777765
No 76
>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=73.44 E-value=27 Score=27.15 Aligned_cols=70 Identities=13% Similarity=0.003 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHh----hcCCeEEEEecCCCCCcHH--HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 30 CVNLARHIANTK----AYGVNVVVAVNMFATDSEA--ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 30 ~~NL~~HIeNi~----~fGvpvVVAIN~F~~DT~~--Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
+.++.+..+.+. ..+.|++++.|+..-..+. +.+.+.++++..+++ +..+ =++-|.|-.+|=+.+++.+.
T Consensus 87 ~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~--Sa~~~~~i~~l~~~l~~~~~ 162 (164)
T smart00173 87 FEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELARQWGCP-FLET--SAKERVNVDEAFYDLVREIR 162 (164)
T ss_pred HHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEcHHHHHHHHHHcCCE-EEEe--ecCCCCCHHHHHHHHHHHHh
Confidence 445555444443 2479999999997643221 233456677777775 3332 23558888888877776553
No 77
>PRK04213 GTP-binding protein; Provisional
Probab=72.86 E-value=25 Score=28.80 Aligned_cols=62 Identities=19% Similarity=0.205 Sum_probs=37.7
Q ss_pred HHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCC--------eEEEccccccCchhhHHHHHHHHHHhh
Q 042073 37 IANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAF--------DAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 37 IeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~--------~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
++.++..++|++|++|+-.-...+ -+.+.++++..|.. .+..+.. .=| |-.+|-+.+.+.+.
T Consensus 123 ~~~~~~~~~p~iiv~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~SA--~~g-gi~~l~~~l~~~~~ 192 (201)
T PRK04213 123 FDFLRELGIPPIVAVNKMDKIKNR-DEVLDEIAERLGLYPPWRQWQDIIAPISA--KKG-GIEELKEAIRKRLH 192 (201)
T ss_pred HHHHHHcCCCeEEEEECccccCcH-HHHHHHHHHHhcCCccccccCCcEEEEec--ccC-CHHHHHHHHHHhhc
Confidence 445556899999999998753322 23445566666651 1233333 334 87788777777654
No 78
>cd04165 GTPBP1_like GTPBP1-like. Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and
Probab=72.76 E-value=9.2 Score=33.27 Aligned_cols=37 Identities=16% Similarity=0.087 Sum_probs=28.3
Q ss_pred HHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHH
Q 042073 31 VNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRI 67 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~ 67 (225)
..-.+|++-++..|+|++|++|+..--++++++...+
T Consensus 125 ~~d~~~l~~l~~~~ip~ivvvNK~D~~~~~~~~~~~~ 161 (224)
T cd04165 125 GMTKEHLGLALALNIPVFVVVTKIDLAPANILQETLK 161 (224)
T ss_pred HHHHHHHHHHHHcCCCEEEEEECccccCHHHHHHHHH
Confidence 4457888889999999999999987655656654444
No 79
>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=72.62 E-value=20 Score=29.68 Aligned_cols=59 Identities=7% Similarity=-0.055 Sum_probs=38.1
Q ss_pred hcCCeEEEEecCCCCC--cHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 42 AYGVNVVVAVNMFATD--SEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 42 ~fGvpvVVAIN~F~~D--T~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
..++|+|++.|+-.-. .....+.+.++|++.++..+.. .=++=|+|-.++-+.+++.+-
T Consensus 108 ~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e--~Sak~~~~v~e~f~~l~~~l~ 168 (201)
T cd04107 108 GEPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGWFE--TSAKEGINIEEAMRFLVKNIL 168 (201)
T ss_pred CCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCceEEE--EeCCCCCCHHHHHHHHHHHHH
Confidence 3679999999997653 2223445678888888422332 223446787787777776554
No 80
>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=72.57 E-value=18 Score=28.05 Aligned_cols=68 Identities=16% Similarity=0.148 Sum_probs=42.9
Q ss_pred hHHHHHHHHHHHhh-cC--CeEEEEecCCCCCcHH--HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 29 GCVNLARHIANTKA-YG--VNVVVAVNMFATDSEA--ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 29 G~~NL~~HIeNi~~-fG--vpvVVAIN~F~~DT~~--Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
.+.++...++.+++ .+ +|+++++|+-...... -.+.+...+++.++. +. +.=+.=|+|-.+|-+.+.+
T Consensus 87 s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~--~~Sa~~~~~v~~l~~~i~~ 159 (161)
T cd01861 87 SFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGEKKAKELNAM-FI--ETSAKAGHNVKELFRKIAS 159 (161)
T ss_pred HHHHHHHHHHHHHHhCCCCCEEEEEEEChhccccCccCHHHHHHHHHHhCCE-EE--EEeCCCCCCHHHHHHHHHH
Confidence 46777777777654 55 9999999987662221 223345566666764 32 3444566777777776654
No 81
>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=72.36 E-value=22 Score=29.20 Aligned_cols=39 Identities=13% Similarity=0.134 Sum_probs=25.9
Q ss_pred HHHHHHHHhhcCCeEEEEecCCCCC---cHHHHHHHHHHHHH
Q 042073 33 LARHIANTKAYGVNVVVAVNMFATD---SEAELNAVRIAAMA 71 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAIN~F~~D---T~~Ei~~i~~~c~~ 71 (225)
...++..+...++|+++++|+-... .++.++.+++++.+
T Consensus 106 ~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~ 147 (194)
T cd01891 106 TRFVLKKALELGLKPIVVINKIDRPDARPEEVVDEVFDLFIE 147 (194)
T ss_pred HHHHHHHHHHcCCCEEEEEECCCCCCCCHHHHHHHHHHHHHH
Confidence 3444555566799999999997652 23446666776643
No 82
>PLN02495 oxidoreductase, acting on the CH-CH group of donors
Probab=72.36 E-value=34 Score=32.82 Aligned_cols=113 Identities=16% Similarity=0.179 Sum_probs=65.0
Q ss_pred ccHHHH-HHhHHHHHHHHHHHh-hc-CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccc--cccCch--h----
Q 042073 21 ENVALV-EAGCVNLARHIANTK-AY-GVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSH--HAHGGK--G---- 89 (225)
Q Consensus 21 eN~~al-~~G~~NL~~HIeNi~-~f-GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~--wa~GG~--G---- 89 (225)
+|.+.+ +.|+....+++..++ .| .+|+++.| +...+.+|...+.+.+++.|+.-+.++=. ...+.. |
T Consensus 87 ~N~~~~s~~g~~~~l~~i~~~k~~~~~~pvIaSi--~~~~s~~~~~~~a~~~e~~GaD~iELNiSCPn~~~~r~~g~~~g 164 (385)
T PLN02495 87 QNIELISDRPFETMLAEFKQLKEEYPDRILIASI--MEEYNKDAWEEIIERVEETGVDALEINFSCPHGMPERKMGAAVG 164 (385)
T ss_pred cCcccccccCHHHHHHHHHHHHhhCCCCcEEEEc--cCCCCHHHHHHHHHHHHhcCCCEEEEECCCCCCCCcCccchhhc
Confidence 444422 456777778888886 47 57999987 22345788888888899999863333221 221111 1
Q ss_pred -hHHHHHHHHHHhhcCCC-C--cccccCCCCCHHHHHHHHHh---HhccCCCCCCHHH
Q 042073 90 -AVDLGIAVQRACENVTQ-P--LKFLYPSDVSIKEKIDTIAR---SYGASGVEYSEEA 140 (225)
Q Consensus 90 -a~~LA~~Vv~~~e~~~~-~--f~~lY~~~~~i~eKI~~IA~---IYGA~~V~~s~~A 140 (225)
-.++.++|++.+.+..+ + .|..-+. .+ |..+|+ -.||++|+..-..
T Consensus 165 q~~e~~~~i~~~Vk~~~~iPv~vKLsPn~----t~-i~~ia~aa~~~Gadgi~liNT~ 217 (385)
T PLN02495 165 QDCDLLEEVCGWINAKATVPVWAKMTPNI----TD-ITQPARVALKSGCEGVAAINTI 217 (385)
T ss_pred cCHHHHHHHHHHHHHhhcCceEEEeCCCh----hh-HHHHHHHHHHhCCCEEEEeccc
Confidence 23566666666543111 1 2222122 12 566666 4789999876544
No 83
>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=72.33 E-value=15 Score=36.37 Aligned_cols=83 Identities=17% Similarity=0.155 Sum_probs=51.0
Q ss_pred hHHHHHHHHHHHhh-cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCC
Q 042073 29 GCVNLARHIANTKA-YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQP 107 (225)
Q Consensus 29 G~~NL~~HIeNi~~-fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~ 107 (225)
||.|.-.-++.+.. +++++.+ |.-++.+|+....+.+++.|+. +++++. -+.+.+++-.-+
T Consensus 104 g~~~~~~~~~~~~~ll~~~i~~----~~~~~~~e~~~~~~~l~~~G~~-~viG~~-------------~~~~~A~~~gl~ 165 (526)
T TIGR02329 104 THQDTPPALRRFQAAFNLDIVQ----RSYVTEEDARSCVNDLRARGIG-AVVGAG-------------LITDLAEQAGLH 165 (526)
T ss_pred ecCcccHHHHHHHHHhCCceEE----EEecCHHHHHHHHHHHHHCCCC-EEECCh-------------HHHHHHHHcCCc
Confidence 45555555555554 6666544 6678889999988889999997 888754 222333322223
Q ss_pred cccccCCCCCHHHHHHHHHhHhc
Q 042073 108 LKFLYPSDVSIKEKIDTIARSYG 130 (225)
Q Consensus 108 f~~lY~~~~~i~eKI~~IA~IYG 130 (225)
.-++|.. ++|.+-++.--++|.
T Consensus 166 ~ili~s~-esi~~a~~~A~~~~~ 187 (526)
T TIGR02329 166 GVFLYSA-DSVRQAFDDALDVAR 187 (526)
T ss_pred eEEEecH-HHHHHHHHHHHHHHH
Confidence 4466764 777776665333433
No 84
>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=72.26 E-value=25 Score=29.43 Aligned_cols=69 Identities=13% Similarity=0.121 Sum_probs=45.3
Q ss_pred HHHHHHhhcCCeEEEEecCCCCCcHHH-------------HHHHHHHHHH----cCC--CeEEEccccccCchhhHHHHH
Q 042073 35 RHIANTKAYGVNVVVAVNMFATDSEAE-------------LNAVRIAAMA----AGA--FDAVVCSHHAHGGKGAVDLGI 95 (225)
Q Consensus 35 ~HIeNi~~fGvpvVVAIN~F~~DT~~E-------------i~~i~~~c~~----~g~--~~~avs~~wa~GG~Ga~~LA~ 95 (225)
+.++.++++|.|+++++|+-..+...| ++.+++.|.+ .|+ +.+-+...+..||-+-..|-+
T Consensus 98 ~~~~~l~~~~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~~~p~v~~vS~~~~~~~~~~~l~~ 177 (197)
T cd04104 98 KLAKAIQCMGKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQEAGVSEPPVFLVSNFDPSDYDFPKLRE 177 (197)
T ss_pred HHHHHHHHhCCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEEeCCChhhcChHHHHH
Confidence 455667778899999999987765322 5666666663 222 224444555567778888888
Q ss_pred HHHHHhhc
Q 042073 96 AVQRACEN 103 (225)
Q Consensus 96 ~Vv~~~e~ 103 (225)
.++..+.+
T Consensus 178 ~~~~~l~~ 185 (197)
T cd04104 178 TLLKDLPA 185 (197)
T ss_pred HHHHHhhH
Confidence 88877653
No 85
>cd03174 DRE_TIM_metallolyase DRE-TIM metallolyase superfamily. The DRE-TIM metallolyase superfamily includes 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues that cap the core of the barrel. In addition, the catalytic site includes three invariant residues - an aspartate (D), an arginine (R), and a glutamate (E) - which is the basis for the domain name "DRE-TIM".
Probab=72.09 E-value=17 Score=31.36 Aligned_cols=54 Identities=20% Similarity=0.167 Sum_probs=44.9
Q ss_pred hHHHHHHHHHHHhhcCCeEEEEe-cCCC-CCcHHHHHHHHHHHHHcCCCeEEEccc
Q 042073 29 GCVNLARHIANTKAYGVNVVVAV-NMFA-TDSEAELNAVRIAAMAAGAFDAVVCSH 82 (225)
Q Consensus 29 G~~NL~~HIeNi~~fGvpvVVAI-N~F~-~DT~~Ei~~i~~~c~~~g~~~~avs~~ 82 (225)
=+.+..+.|+.+++.|+++.+.+ .-|. ..+++++..+.+.+.+.|+..+.+++.
T Consensus 113 ~~~~~~~~i~~a~~~G~~v~~~~~~~~~~~~~~~~l~~~~~~~~~~g~~~i~l~Dt 168 (265)
T cd03174 113 DLENAEEAIEAAKEAGLEVEGSLEDAFGCKTDPEYVLEVAKALEEAGADEISLKDT 168 (265)
T ss_pred HHHHHHHHHHHHHHCCCeEEEEEEeecCCCCCHHHHHHHHHHHHHcCCCEEEechh
Confidence 46788889999999999999999 4554 277999999999999999986777766
No 86
>PF04055 Radical_SAM: Radical SAM superfamily; InterPro: IPR007197 Radical SAM proteins catalyze diverse reactions, including unusual methylations, isomerization, sulphur insertion, ring formation, anaerobic oxidation and protein radical formation. Evidence exists that these proteins generate a radical species by reductive cleavage of S:-adenosylmethionine (SAM) through an unusual Fe-S centre [, ].; GO: 0003824 catalytic activity, 0051536 iron-sulfur cluster binding; PDB: 2A5H_D 3T7V_A 3C8F_A 3CB8_A 2FB2_A 2FB3_A 3CIX_A 3IIX_A 3IIZ_A 3CIW_A ....
Probab=72.07 E-value=12 Score=28.64 Aligned_cols=40 Identities=10% Similarity=0.187 Sum_probs=31.7
Q ss_pred hHHHHHHHHHHHhhcCCe-EEEEecCCCCCcHHHHHHHHHH
Q 042073 29 GCVNLARHIANTKAYGVN-VVVAVNMFATDSEAELNAVRIA 68 (225)
Q Consensus 29 G~~NL~~HIeNi~~fGvp-vVVAIN~F~~DT~~Ei~~i~~~ 68 (225)
-++...+-++.+++.|+| ++..+=-++.+|++|++.+.+|
T Consensus 125 ~~~~~~~~l~~l~~~g~~~~~~~i~~~~~~~~~e~~~~~~~ 165 (166)
T PF04055_consen 125 SFERVLEALERLKEAGIPRVIIFIVGLPGENDEEIEETIRF 165 (166)
T ss_dssp HHHHHHHHHHHHHHTTSETEEEEEEEBTTTSHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHcCCCcEEEEEEEeCCCCHHHHHHHhCc
Confidence 345566666677789999 7778888999999999888776
No 87
>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=72.03 E-value=21 Score=27.82 Aligned_cols=67 Identities=15% Similarity=0.137 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHhh---cCCeEEEEecCCCCCcHHH--HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 30 CVNLARHIANTKA---YGVNVVVAVNMFATDSEAE--LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 30 ~~NL~~HIeNi~~---fGvpvVVAIN~F~~DT~~E--i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
+.|+.+-++.++. .++|++|+.|+...-...+ .+.+.+++++.++. +.. .=++=|+|-.++=+.+++
T Consensus 88 ~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~--~Sa~~~~~i~~~~~~~~~ 159 (161)
T cd04113 88 FEALPTWLSDARALASPNIVVILVGNKSDLADQREVTFLEASRFAQENGLL-FLE--TSALTGENVEEAFLKCAR 159 (161)
T ss_pred HHHHHHHHHHHHHhCCCCCeEEEEEEchhcchhccCCHHHHHHHHHHcCCE-EEE--EECCCCCCHHHHHHHHHH
Confidence 4555555555543 5899999999975421211 23456677778865 333 334557776666555443
No 88
>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=71.87 E-value=25 Score=27.28 Aligned_cols=69 Identities=10% Similarity=0.070 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHhh---cCCeEEEEecCCCCC--cHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 30 CVNLARHIANTKA---YGVNVVVAVNMFATD--SEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 30 ~~NL~~HIeNi~~---fGvpvVVAIN~F~~D--T~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
+.++.+.++-++. .++|+||++|+-..- ...+.+.+.++|++.++. ...+. ++=|+|-.+|-+.+++.+
T Consensus 89 ~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~S--a~~~~~v~~l~~~l~~~l 162 (163)
T cd01860 89 FEKAKSWVKELQRNASPNIIIALVGNKADLESKRQVSTEEAQEYADENGLL-FFETS--AKTGENVNELFTEIAKKL 162 (163)
T ss_pred HHHHHHHHHHHHHhCCCCCeEEEEEECccccccCcCCHHHHHHHHHHcCCE-EEEEE--CCCCCCHHHHHHHHHHHh
Confidence 4444555555544 469999999986432 222445677888888875 44333 344678888887776643
No 89
>cd00945 Aldolase_Class_I Class I aldolases. The class I aldolases use an active-site lysine which stablilzes a reaction intermediates via Schiff base formation, and have TIM beta/alpha barrel fold. The members of this family include 2-keto-3-deoxy-6-phosphogluconate (KDPG) and 2-keto-4-hydroxyglutarate (KHG) aldolases, transaldolase, dihydrodipicolinate synthase sub-family, Type I 3-dehydroquinate dehydratase, DeoC and DhnA proteins, and metal-independent fructose-1,6-bisphosphate aldolase. Although structurally similar, the class II aldolases use a different mechanism and are believed to have an independent evolutionary origin.
Probab=71.48 E-value=52 Score=26.49 Aligned_cols=112 Identities=18% Similarity=0.093 Sum_probs=55.9
Q ss_pred CCeEEEEecCCCCC--cHHHHHHHHHHHHHcCCCeEEEcc-cc-ccC---chhhHHHHHHHHHHhhcCCCC-cccccCCC
Q 042073 44 GVNVVVAVNMFATD--SEAELNAVRIAAMAAGAFDAVVCS-HH-AHG---GKGAVDLGIAVQRACENVTQP-LKFLYPSD 115 (225)
Q Consensus 44 GvpvVVAIN~F~~D--T~~Ei~~i~~~c~~~g~~~~avs~-~w-a~G---G~Ga~~LA~~Vv~~~e~~~~~-f~~lY~~~ 115 (225)
.+|+++-++....+ |++-++ ..+.+++.|+. ++... .| ..- -++..+.-++|.+.+ ...-. +-+.|+..
T Consensus 48 ~~~v~~~v~~~~~~~~~~~~~~-~a~~a~~~Gad-~i~v~~~~~~~~~~~~~~~~~~~~~i~~~~-~~~~pv~iy~~p~~ 124 (201)
T cd00945 48 DVPVIVVVGFPTGLTTTEVKVA-EVEEAIDLGAD-EIDVVINIGSLKEGDWEEVLEEIAAVVEAA-DGGLPLKVILETRG 124 (201)
T ss_pred CCeEEEEecCCCCCCcHHHHHH-HHHHHHHcCCC-EEEEeccHHHHhCCCHHHHHHHHHHHHHHh-cCCceEEEEEECCC
Confidence 59999999887633 444444 34566788997 54432 22 222 144455555555554 11111 11222322
Q ss_pred C-CH--HHHHHHHHhHhccCCCCCCHH------HHHHHHHHHHCCCCCCCee
Q 042073 116 V-SI--KEKIDTIARSYGASGVEYSEE------AEKQIKMYTRQGFSGLPFC 158 (225)
Q Consensus 116 ~-~i--~eKI~~IA~IYGA~~V~~s~~------A~~~l~~~e~~G~~~lPVC 158 (225)
. +. -.++-+++...|++.|..+.. -..+++++.+.--.++||.
T Consensus 125 ~~~~~~~~~~~~~~~~~g~~~iK~~~~~~~~~~~~~~~~~i~~~~~~~~~v~ 176 (201)
T cd00945 125 LKTADEIAKAARIAAEAGADFIKTSTGFGGGGATVEDVKLMKEAVGGRVGVK 176 (201)
T ss_pred CCCHHHHHHHHHHHHHhCCCEEEeCCCCCCCCCCHHHHHHHHHhcccCCcEE
Confidence 2 32 223333344568888877654 3455555554311144554
No 90
>PHA02096 hypothetical protein
Probab=71.38 E-value=3.8 Score=31.68 Aligned_cols=13 Identities=31% Similarity=0.447 Sum_probs=11.7
Q ss_pred hcCCeEEEEecCC
Q 042073 42 AYGVNVVVAVNMF 54 (225)
Q Consensus 42 ~fGvpvVVAIN~F 54 (225)
.||.|.+|+||+=
T Consensus 63 lfg~ptiv~inkp 75 (103)
T PHA02096 63 LFGPPTIVSVNKP 75 (103)
T ss_pred hcCCCeEEEecCc
Confidence 3999999999984
No 91
>cd03110 Fer4_NifH_child This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.
Probab=71.10 E-value=14 Score=29.96 Aligned_cols=43 Identities=19% Similarity=0.325 Sum_probs=31.3
Q ss_pred HHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 32 NLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
.+.+-++.++++|+|+.+.+|++...+.. .+.+++++++.|++
T Consensus 131 ~~~~~~~~l~~~~~~~~vV~N~~~~~~~~-~~~~~~~~~~~~~~ 173 (179)
T cd03110 131 DLERAVELVRHFGIPVGVVINKYDLNDEI-AEEIEDYCEEEGIP 173 (179)
T ss_pred HHHHHHHHHHHcCCCEEEEEeCCCCCcch-HHHHHHHHHHcCCC
Confidence 34455556667899999999998876543 34567888888886
No 92
>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB. Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.
Probab=71.05 E-value=10 Score=30.79 Aligned_cols=36 Identities=14% Similarity=0.199 Sum_probs=20.6
Q ss_pred HHHhhcCCeEEEEecCCCCCcHHH----HHHHHHHHHHcC
Q 042073 38 ANTKAYGVNVVVAVNMFATDSEAE----LNAVRIAAMAAG 73 (225)
Q Consensus 38 eNi~~fGvpvVVAIN~F~~DT~~E----i~~i~~~c~~~g 73 (225)
+.++.+++|+++++|+.....+++ ++.+++++...+
T Consensus 123 ~~~~~~~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~~~ 162 (179)
T TIGR03598 123 EWLRERGIPVLIVLTKADKLKKSELNKQLKKIKKALKKDA 162 (179)
T ss_pred HHHHHcCCCEEEEEECcccCCHHHHHHHHHHHHHHHhhcc
Confidence 334456778778888765544433 344555555443
No 93
>PRK05301 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional
Probab=70.83 E-value=16 Score=33.87 Aligned_cols=50 Identities=12% Similarity=0.024 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEc
Q 042073 30 CVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVC 80 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs 80 (225)
+....+.|++++++|+++.|..- ....+.+|+..+.+++.++|+..+.+.
T Consensus 140 f~~~~~~i~~l~~~g~~v~i~~v-v~~~N~~~i~~~~~~~~~lgv~~i~~~ 189 (378)
T PRK05301 140 FAKKLAVARLVKAHGYPLTLNAV-IHRHNIDQIPRIIELAVELGADRLELA 189 (378)
T ss_pred HHHHHHHHHHHHHCCCceEEEEE-eecCCHHHHHHHHHHHHHcCCCEEEEe
Confidence 67777788888999998776543 355788999999999999999755444
No 94
>TIGR02109 PQQ_syn_pqqE coenzyme PQQ biosynthesis protein E. This model describes coenzyme PQQ biosynthesis protein E, a gene required for the biosynthesis of pyrrolo-quinoline-quinone (coenzyme PQQ). PQQ is required for some glucose dehydrogenases and alcohol dehydrogenases.
Probab=70.58 E-value=17 Score=33.25 Aligned_cols=50 Identities=12% Similarity=0.071 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEc
Q 042073 30 CVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVC 80 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs 80 (225)
+....+.|++++++|+++.|... ...++.+|++.+.+++.++|+..+.+.
T Consensus 131 f~~v~~~i~~l~~~g~~v~v~~v-v~~~N~~~l~~~~~~~~~lg~~~i~~~ 180 (358)
T TIGR02109 131 FEQKLAMARAVKAAGLPLTLNFV-IHRHNIDQIPEIIELAIELGADRVELA 180 (358)
T ss_pred HHHHHHHHHHHHhCCCceEEEEE-eccCCHHHHHHHHHHHHHcCCCEEEEE
Confidence 56667778888889999877554 346788999999999999999755554
No 95
>COG1159 Era GTPase [General function prediction only]
Probab=69.66 E-value=43 Score=31.26 Aligned_cols=92 Identities=13% Similarity=-0.046 Sum_probs=60.6
Q ss_pred HHHHHHhhcCCeEEEEecCCCCCcHHH-HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccC
Q 042073 35 RHIANTKAYGVNVVVAVNMFATDSEAE-LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYP 113 (225)
Q Consensus 35 ~HIeNi~~fGvpvVVAIN~F~~DT~~E-i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~ 113 (225)
.-++.++.-..|++++||+-..-+++. +..+.++..+..-. ..+-..=|.-|.+-..|.+.+.+.+.+++.-|-.=|=
T Consensus 105 ~il~~lk~~~~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f-~~ivpiSA~~g~n~~~L~~~i~~~Lpeg~~~yp~d~i 183 (298)
T COG1159 105 FILEQLKKTKTPVILVVNKIDKVKPKTVLLKLIAFLKKLLPF-KEIVPISALKGDNVDTLLEIIKEYLPEGPWYYPEDQI 183 (298)
T ss_pred HHHHHHhhcCCCeEEEEEccccCCcHHHHHHHHHHHHhhCCc-ceEEEeeccccCCHHHHHHHHHHhCCCCCCcCChhhc
Confidence 345566666689999999876444444 45555555555554 4566677899999999999999988654332333333
Q ss_pred CCCCHHHHHHHHHh
Q 042073 114 SDVSIKEKIDTIAR 127 (225)
Q Consensus 114 ~~~~i~eKI~~IA~ 127 (225)
.+.|.+-.+..|-|
T Consensus 184 tD~~~rf~~aEiiR 197 (298)
T COG1159 184 TDRPERFLAAEIIR 197 (298)
T ss_pred cCChHHHHHHHHHH
Confidence 44566666665555
No 96
>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=69.28 E-value=16 Score=33.02 Aligned_cols=62 Identities=23% Similarity=0.235 Sum_probs=39.3
Q ss_pred HHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHH
Q 042073 31 VNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGI 95 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~ 95 (225)
..|+|.+..++..++|+|+++|+-.-.++.+......+..+.|.. +...+ ++=|.|-.+|-+
T Consensus 96 ~~ldr~L~~~~~~~ip~iIVlNK~DL~~~~~~~~~~~~~~~~g~~-v~~vS--A~~g~gi~~L~~ 157 (287)
T cd01854 96 RLLDRYLVAAEAAGIEPVIVLTKADLLDDEEEELELVEALALGYP-VLAVS--AKTGEGLDELRE 157 (287)
T ss_pred HHHHHHHHHHHHcCCCEEEEEEHHHCCChHHHHHHHHHHHhCCCe-EEEEE--CCCCccHHHHHh
Confidence 467788888888999999999997764444433344455667875 43322 334455544443
No 97
>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=69.25 E-value=19 Score=27.64 Aligned_cols=61 Identities=26% Similarity=0.303 Sum_probs=36.8
Q ss_pred HHhhcCCeEEEEecCCCCCcHHHHH-HHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 39 NTKAYGVNVVVAVNMFATDSEAELN-AVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 39 Ni~~fGvpvVVAIN~F~~DT~~Ei~-~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
-++++++|+++++|+...-.++++. .+.++....|+. +.... +.-|.|-.+|-+.+.+.++
T Consensus 96 ~~~~~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~-~~~iS--a~~~~~~~~l~~~l~~~~~ 157 (158)
T cd01879 96 QLLELGLPVVVALNMIDEAEKRGIKIDLDKLSELLGVP-VVPTS--ARKGEGIDELKDAIAELAE 157 (158)
T ss_pred HHHHcCCCEEEEEehhhhcccccchhhHHHHHHhhCCC-eEEEE--ccCCCCHHHHHHHHHHHhc
Confidence 3456899999999997653222222 234555666775 43333 3445677777777666543
No 98
>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=69.17 E-value=35 Score=27.00 Aligned_cols=59 Identities=14% Similarity=0.100 Sum_probs=38.7
Q ss_pred hhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 41 KAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 41 ~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
+..+.|+++++|+-.--++++.+...++.+..+.+-+.+| ++-|+|-.+|-+.+.+.+.
T Consensus 38 ~~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~iS---a~~~~gi~~L~~~l~~~~~ 96 (156)
T cd01859 38 LELGKKLLIVLNKADLVPKEVLEKWKSIKESEGIPVVYVS---AKERLGTKILRRTIKELAK 96 (156)
T ss_pred HhCCCcEEEEEEhHHhCCHHHHHHHHHHHHhCCCcEEEEE---ccccccHHHHHHHHHHHHh
Confidence 3458999999999875445455444445555565412233 4667888888888877764
No 99
>cd00958 DhnA Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs) found in bacteria and archaea. Catalysis of the enzymes proceeds via a Schiff-base mechanism like other class I aldolases, although this subfamily is clearly divergent based on sequence similarity to other class I and class II (metal dependent) aldolase subfamilies.
Probab=68.87 E-value=61 Score=27.81 Aligned_cols=18 Identities=28% Similarity=0.202 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHcCCCeEEE
Q 042073 61 ELNAVRIAAMAAGAFDAVV 79 (225)
Q Consensus 61 Ei~~i~~~c~~~g~~~~av 79 (225)
++..+++.|.+.|++ +.+
T Consensus 110 ~i~~v~~~~~~~g~~-~ii 127 (235)
T cd00958 110 ELARVAAEAHKYGLP-LIA 127 (235)
T ss_pred HHHHHHHHHHHcCCC-EEE
Confidence 455555555556664 444
No 100
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=68.85 E-value=39 Score=28.90 Aligned_cols=118 Identities=13% Similarity=0.190 Sum_probs=69.1
Q ss_pred CCeEEEEecCCCCCcHH------HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccC---C
Q 042073 44 GVNVVVAVNMFATDSEA------ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYP---S 114 (225)
Q Consensus 44 GvpvVVAIN~F~~DT~~------Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~---~ 114 (225)
|..|+-.++..+.+.+. +++.++..|+++|++ ..+.+.-..-.+=..+|.+.+.++.++ .+.-+.. .
T Consensus 23 G~~v~~l~~~~~~~~~~~~~h~~~~e~~~~~A~~lgip-l~~i~~~~~~e~~~~~l~~~l~~~~~~---g~~~vv~G~i~ 98 (194)
T cd01994 23 GHEVVALLNLTPEEGSSMMYHTVNHELLELQAEAMGIP-LIRIEISGEEEDEVEDLKELLRKLKEE---GVDAVVFGAIL 98 (194)
T ss_pred CCEEEEEEEEecCCCCcccccccCHHHHHHHHHHcCCc-EEEEeCCCCchHHHHHHHHHHHHHHHc---CCCEEEECccc
Confidence 54444444444444333 889999999999997 555543222223335666666665432 2332221 1
Q ss_pred CCCHHHHHHHHHhHhccCCC--CCCHHHHHHHHHHHHCCCCCCCeeEeecCCC
Q 042073 115 DVSIKEKIDTIARSYGASGV--EYSEEAEKQIKMYTRQGFSGLPFCMAKTQHS 165 (225)
Q Consensus 115 ~~~i~eKI~~IA~IYGA~~V--~~s~~A~~~l~~~e~~G~~~lPVCmAKTqyS 165 (225)
.+-.++.++.+|.=-|-..+ -|-...+.=++.+-+.||.-.=||++...+.
T Consensus 99 sd~~~~~~e~~~~~~gl~~~~PLW~~~~~~ll~e~~~~g~~~~iv~v~~~~L~ 151 (194)
T cd01994 99 SEYQRTRVERVCERLGLEPLAPLWGRDQEELLREMIEAGFKAIIIKVAAEGLD 151 (194)
T ss_pred cHHHHHHHHHHHHHcCCEEEecccCCCHHHHHHHHHHcCCeEEEEEeccCCCC
Confidence 23478888888882233322 2333445567788889999888888876543
No 101
>TIGR03234 OH-pyruv-isom hydroxypyruvate isomerase. This enzyme interconverts tartronate semi-aldehyde (TSA, aka 2-hydroxy 3-oxopropionate) and hydroxypyruvate. The E. coli enzyme has been characterized and found to be specific for TSA, contain no cofactors, and have a rather high Km for hydroxypyruvate of 12.5 mM. The gene is ofter found in association with glyoxalate carboligase (which produces TSA), but has been shown to have no effect on growth on glyoxalate when knocked out. This is consistent with the fact that the gene for tartronate semialdehyde reductase (glxR) is also associated and may have primary responsibility for the catabolism of TSA.
Probab=68.77 E-value=40 Score=28.99 Aligned_cols=86 Identities=20% Similarity=0.068 Sum_probs=50.8
Q ss_pred HhHHHHHHHHHHHhhcCCeEEEEecCCCC--CcHHH--------HHHHHHHHHHcCCCeEEEccc--cccCch--hhHHH
Q 042073 28 AGCVNLARHIANTKAYGVNVVVAVNMFAT--DSEAE--------LNAVRIAAMAAGAFDAVVCSH--HAHGGK--GAVDL 93 (225)
Q Consensus 28 ~G~~NL~~HIeNi~~fGvpvVVAIN~F~~--DT~~E--------i~~i~~~c~~~g~~~~avs~~--wa~GG~--Ga~~L 93 (225)
+-..+++++|+..+.+|.++|+...-... .+.+| ++.+.+.+++.|+. +.+-.+ |...+. ...+=
T Consensus 81 ~~~~~~~~~i~~a~~lg~~~i~~~~g~~~~~~~~~~~~~~~~~~l~~l~~~A~~~gi~-l~lE~~~~~~~~~~~l~t~~~ 159 (254)
T TIGR03234 81 EFREGVALAIAYARALGCPQVNCLAGKRPAGVSPEEARATLVENLRYAADALDRIGLT-LLIEPINSFDMPGFFLTTTEQ 159 (254)
T ss_pred HHHHHHHHHHHHHHHhCCCEEEECcCCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCE-EEEEECCcccCCCChhcCHHH
Confidence 34678999999999999998876432211 12233 55666778889996 777643 432222 12223
Q ss_pred HHHHHHHhhcCCCCcccccCCCC
Q 042073 94 GIAVQRACENVTQPLKFLYPSDV 116 (225)
Q Consensus 94 A~~Vv~~~e~~~~~f~~lY~~~~ 116 (225)
+..+++.+. ..++..+||...
T Consensus 160 ~~~li~~v~--~~~~~i~~D~~h 180 (254)
T TIGR03234 160 ALAVIDDVG--RENLKLQYDLYH 180 (254)
T ss_pred HHHHHHHhC--CCCEeEeeehhh
Confidence 334444442 344777776643
No 102
>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=68.55 E-value=21 Score=27.27 Aligned_cols=66 Identities=14% Similarity=0.033 Sum_probs=40.2
Q ss_pred HHHHHHHHHHhh-cCCeEEEEecCCCCCcHH--HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 31 VNLARHIANTKA-YGVNVVVAVNMFATDSEA--ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 31 ~NL~~HIeNi~~-fGvpvVVAIN~F~~DT~~--Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
.++...+.+... .++|++|++|+....... -.+.+.++++..++.-+.+| ++-|+|-.+|-+.+++
T Consensus 90 ~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S---~~~~~~i~~l~~~l~~ 158 (160)
T cd00876 90 KGYREQILRVKDDEDIPIVLVGNKCDLENERQVSKEEGKALAKEWGCPFIETS---AKDNINIDEVFKLLVR 158 (160)
T ss_pred HHHHHHHHHhcCCCCCcEEEEEECCcccccceecHHHHHHHHHHcCCcEEEec---cCCCCCHHHHHHHHHh
Confidence 444555555544 689999999998754322 22455666677776523233 3456787777776654
No 103
>TIGR03471 HpnJ hopanoid biosynthesis associated radical SAM protein HpnJ. One of the well-described hopanoid intermediates is bacteriohopanetetrol. In the conversion from hopene several reactions must occur in the side chain for which a radical mechanism might be reasonable. These include the four (presumably anaerobic) hydroxylations and a methyl shift.
Probab=68.34 E-value=14 Score=35.48 Aligned_cols=60 Identities=8% Similarity=0.043 Sum_probs=48.5
Q ss_pred cccccccHHHHHHhHH--HHHHHHHHHhhcCCeEEEE-ecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 16 HAYLNENVALVEAGCV--NLARHIANTKAYGVNVVVA-VNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 16 ~~l~~eN~~al~~G~~--NL~~HIeNi~~fGvpvVVA-IN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
+..+++.++.+.||.. ...+-++.++++|+.+.+- |==||.+|.++++...+++.+++..
T Consensus 306 ES~s~~~L~~~~K~~~~~~~~~~i~~~~~~Gi~v~~~~IiGlPget~e~~~~ti~~~~~l~~~ 368 (472)
T TIGR03471 306 ESGDQQILKNIKKGLTVEIARRFTRDCHKLGIKVHGTFILGLPGETRETIRKTIDFAKELNPH 368 (472)
T ss_pred CCCCHHHHHHhcCCCCHHHHHHHHHHHHHCCCeEEEEEEEeCCCCCHHHHHHHHHHHHhcCCC
Confidence 5566678888888854 6667888899999987644 3358999999999999999999875
No 104
>cd04740 DHOD_1B_like Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively.
Probab=68.23 E-value=88 Score=27.86 Aligned_cols=97 Identities=20% Similarity=0.254 Sum_probs=52.5
Q ss_pred HHHHHHhh-cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEE---ccccccCch---hhHHHHHHHHHHhhcCCCC
Q 042073 35 RHIANTKA-YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVV---CSHHAHGGK---GAVDLGIAVQRACENVTQP 107 (225)
Q Consensus 35 ~HIeNi~~-fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~av---s~~wa~GG~---Ga~~LA~~Vv~~~e~~~~~ 107 (225)
+++...++ .+.|++|-|+-. +.++.....+.+++.|+.-+.+ |-+...+|. +..++..++++.+.+.. +
T Consensus 79 ~~~~~~~~~~~~p~ivsi~g~---~~~~~~~~a~~~~~~G~d~iElN~~cP~~~~~g~~~~~~~~~~~eiv~~vr~~~-~ 154 (296)
T cd04740 79 EELLPWLREFGTPVIASIAGS---TVEEFVEVAEKLADAGADAIELNISCPNVKGGGMAFGTDPEAVAEIVKAVKKAT-D 154 (296)
T ss_pred HHHHHHhhcCCCcEEEEEecC---CHHHHHHHHHHHHHcCCCEEEEECCCCCCCCCcccccCCHHHHHHHHHHHHhcc-C
Confidence 34444433 689999988743 4677777888888889863333 222222222 34577777888775421 2
Q ss_pred cccccCCCCCHHHHHHHHHh---HhccCCCCC
Q 042073 108 LKFLYPSDVSIKEKIDTIAR---SYGASGVEY 136 (225)
Q Consensus 108 f~~lY~~~~~i~eKI~~IA~---IYGA~~V~~ 136 (225)
+.........+. .+..+|+ -.|++.|.+
T Consensus 155 ~Pv~vKl~~~~~-~~~~~a~~~~~~G~d~i~~ 185 (296)
T cd04740 155 VPVIVKLTPNVT-DIVEIARAAEEAGADGLTL 185 (296)
T ss_pred CCEEEEeCCCch-hHHHHHHHHHHcCCCEEEE
Confidence 211111111122 2445555 367777654
No 105
>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=68.00 E-value=24 Score=27.36 Aligned_cols=67 Identities=9% Similarity=-0.103 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHh----hcCCeEEEEecCCCCCcHHHHHHHHHHHHHc--CCCeEEEccccccCchhhHHHHHH
Q 042073 30 CVNLARHIANTK----AYGVNVVVAVNMFATDSEAELNAVRIAAMAA--GAFDAVVCSHHAHGGKGAVDLGIA 96 (225)
Q Consensus 30 ~~NL~~HIeNi~----~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~--g~~~~avs~~wa~GG~Ga~~LA~~ 96 (225)
+.++..++..+. ..+.|++++.|+.......+.+.+.+.+... +-..+.+.+.=++-|.|-.++=+.
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~ 154 (158)
T cd00878 82 IEEAKEELHKLLNEEELKGVPLLIFANKQDLPGALSVSELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGLDW 154 (158)
T ss_pred HHHHHHHHHHHHhCcccCCCcEEEEeeccCCccccCHHHHHHhhChhhccCCcEEEEEeeCCCCCCHHHHHHH
Confidence 344444444432 4699999999998776544444455554322 111122333334446676665443
No 106
>cd01884 EF_Tu EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.
Probab=67.97 E-value=15 Score=31.14 Aligned_cols=43 Identities=28% Similarity=0.294 Sum_probs=28.7
Q ss_pred HHHHHHHHHhhcCCe-EEEEecCCCC-CcHHHHH----HHHHHHHHcCC
Q 042073 32 NLARHIANTKAYGVN-VVVAVNMFAT-DSEAELN----AVRIAAMAAGA 74 (225)
Q Consensus 32 NL~~HIeNi~~fGvp-vVVAIN~F~~-DT~~Ei~----~i~~~c~~~g~ 74 (225)
..++|+..++++|+| +||+||+... +.++-.+ .+++..++.|.
T Consensus 105 ~~~~~~~~~~~~~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~ 153 (195)
T cd01884 105 QTREHLLLARQVGVPYIVVFLNKADMVDDEELLELVEMEVRELLSKYGF 153 (195)
T ss_pred HHHHHHHHHHHcCCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhcc
Confidence 466889999999998 7799999864 3232223 35555555554
No 107
>COG1082 IolE Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]
Probab=67.49 E-value=49 Score=28.35 Aligned_cols=61 Identities=21% Similarity=0.169 Sum_probs=39.5
Q ss_pred cccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCC--CCCc-----------HHHHHHHHHHHHHcCCCeEEEcc
Q 042073 20 NENVALVEAGCVNLARHIANTKAYGVNVVVAVNMF--ATDS-----------EAELNAVRIAAMAAGAFDAVVCS 81 (225)
Q Consensus 20 ~eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F--~~DT-----------~~Ei~~i~~~c~~~g~~~~avs~ 81 (225)
.++-...++++..++++|+..+.+|.++||..--+ ..++ .+-+..+.+.+++.|+. ..+-.
T Consensus 73 ~~~~~~~~~~~~~~~~~i~~a~~lg~~~vv~~~g~~~~~~~~~~~~~~~~~~~~~l~~l~~~a~~~~i~-l~~e~ 146 (274)
T COG1082 73 SPDEEEREEALEELKRAIELAKELGAKVVVVHPGLGAGADDPDSPEEARERWAEALEELAEIAEELGIG-LALEN 146 (274)
T ss_pred CCchhhHHHHHHHHHHHHHHHHHcCCCeEEeecccCCcCCCCCCCcccHHHHHHHHHHHHHHHHHhCCc-eEEee
Confidence 34444458889999999999999999977754421 1111 23344455556777886 66665
No 108
>TIGR00437 feoB ferrous iron transporter FeoB. FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum.
Probab=67.48 E-value=16 Score=36.67 Aligned_cols=59 Identities=20% Similarity=0.268 Sum_probs=40.7
Q ss_pred HhhcCCeEEEEecCCCCCcHHHHH-HHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 40 TKAYGVNVVVAVNMFATDSEAELN-AVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 40 i~~fGvpvVVAIN~F~~DT~~Ei~-~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
+++.|+|+|+++|+..-....++. ...+++++.|++ +.... ++=|+|-.+|-+.+.+.+
T Consensus 95 l~~~~~PiIIVlNK~Dl~~~~~i~~d~~~L~~~lg~p-vv~tS--A~tg~Gi~eL~~~i~~~~ 154 (591)
T TIGR00437 95 LLELGIPMILALNLVDEAEKKGIRIDEEKLEERLGVP-VVPTS--ATEGRGIERLKDAIRKAI 154 (591)
T ss_pred HHhcCCCEEEEEehhHHHHhCCChhhHHHHHHHcCCC-EEEEE--CCCCCCHHHHHHHHHHHh
Confidence 445799999999997643222222 246677888986 44333 566789999988887764
No 109
>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=67.34 E-value=20 Score=28.30 Aligned_cols=33 Identities=12% Similarity=-0.055 Sum_probs=26.9
Q ss_pred cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 43 YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
.+.|+++++|+-.--.+++++.+.+++++.|..
T Consensus 41 ~~k~~iivlNK~DL~~~~~~~~~~~~~~~~~~~ 73 (141)
T cd01857 41 PRKKNILLLNKADLLTEEQRKAWAEYFKKEGIV 73 (141)
T ss_pred CCCcEEEEEechhcCCHHHHHHHHHHHHhcCCe
Confidence 488999999998776677877777888888875
No 110
>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=67.29 E-value=14 Score=32.36 Aligned_cols=43 Identities=9% Similarity=0.047 Sum_probs=27.7
Q ss_pred HHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 33 LARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
..++++.++.+|+|+++++|+.......--+.+.++.+..|..
T Consensus 105 ~~~~~~~~~~~~~p~iivvNK~D~~~~~~~~~~~~l~~~~~~~ 147 (268)
T cd04170 105 TEKLWEFADEAGIPRIIFINKMDRERADFDKTLAALQEAFGRP 147 (268)
T ss_pred HHHHHHHHHHcCCCEEEEEECCccCCCCHHHHHHHHHHHhCCC
Confidence 4556667778999999999998755432223334444445664
No 111
>PF01297 TroA: Periplasmic solute binding protein family; InterPro: IPR006127 This is a family of ABC transporter metal-binding lipoproteins. An example is the periplasmic zinc-binding protein TroA P96116 from SWISSPROT that interacts with an ATP-binding cassette transport system in Treponema pallidum and plays a role in the transport of zinc across the cytoplasmic membrane. Related proteins are found in both Gram-positive and Gram-negative bacteria. ; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2PS9_A 2PS0_A 2OSV_A 2OGW_A 2PS3_A 2PRS_B 3MFQ_C 3GI1_B 2OV3_A 1PQ4_A ....
Probab=67.23 E-value=43 Score=29.07 Aligned_cols=70 Identities=14% Similarity=0.126 Sum_probs=45.9
Q ss_pred cccccccHHHHHHhHHHHHHHHHHHhh--------------------cCCeEEEEe--cCCCCCcHHHHHHHHHHHHHcC
Q 042073 16 HAYLNENVALVEAGCVNLARHIANTKA--------------------YGVNVVVAV--NMFATDSEAELNAVRIAAMAAG 73 (225)
Q Consensus 16 ~~l~~eN~~al~~G~~NL~~HIeNi~~--------------------fGvpvVVAI--N~F~~DT~~Ei~~i~~~c~~~g 73 (225)
.+.-++|.+.+.+-+..|.+.++.... ||+.++-.+ +.-..=|.+++..+.+.+++.+
T Consensus 120 ~~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~h~~~~Y~~~~~gl~~~~~~~~~~~~~ps~~~l~~l~~~ik~~~ 199 (256)
T PF01297_consen 120 KDYYEKNAEKYLKELDELDAEIKEKLAKLPGRPVVVYHDAFQYFAKRYGLKVIGVIEISPGEEPSPKDLAELIKLIKENK 199 (256)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHTTSSGGEEEEEESTTHHHHHHTT-EEEEEESSSSSSSS-HHHHHHHHHHHHHTT
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCeEEEEChHHHHHHHhcCCceeeeeccccccCCCHHHHHHHHHHhhhcC
Confidence 345567889999999999988876432 455544444 3334457888888888888888
Q ss_pred CCeEEEccccccC
Q 042073 74 AFDAVVCSHHAHG 86 (225)
Q Consensus 74 ~~~~avs~~wa~G 86 (225)
+. +++.+.+...
T Consensus 200 v~-~i~~e~~~~~ 211 (256)
T PF01297_consen 200 VK-CIFTEPQFSS 211 (256)
T ss_dssp -S-EEEEETTS-T
T ss_pred Cc-EEEecCCCCh
Confidence 86 7777665443
No 112
>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=67.12 E-value=15 Score=29.57 Aligned_cols=71 Identities=8% Similarity=-0.044 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHhh-cCCeEEEEecCCCCCcHHHH--HHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 30 CVNLARHIANTKA-YGVNVVVAVNMFATDSEAEL--NAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 30 ~~NL~~HIeNi~~-fGvpvVVAIN~F~~DT~~Ei--~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
+.++..-++.++. .++|+++++|+..-....+. ....++++..|..... +.=+.=|+|-.+|-+.+++.+-
T Consensus 93 ~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~--~~Sa~~~~~v~~lf~~l~~~~~ 166 (169)
T cd01892 93 FSYCAEVYKKYFMLGEIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGLPPPL--HFSSKLGDSSNELFTKLATAAQ 166 (169)
T ss_pred HHHHHHHHHHhccCCCCeEEEEEEcccccccccccccCHHHHHHHcCCCCCE--EEEeccCccHHHHHHHHHHHhh
Confidence 4455444554532 58999999999865322221 2345677777763222 2234556688888888777653
No 113
>COG1456 CdhE CO dehydrogenase/acetyl-CoA synthase gamma subunit (corrinoid Fe-S protein) [Energy production and conversion]
Probab=66.96 E-value=49 Score=32.16 Aligned_cols=81 Identities=19% Similarity=0.133 Sum_probs=60.9
Q ss_pred ccccccccHHHHHHhHH---------------HHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEE
Q 042073 15 DHAYLNENVALVEAGCV---------------NLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVV 79 (225)
Q Consensus 15 ~~~l~~eN~~al~~G~~---------------NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~av 79 (225)
|--|-.=|.+.+++|++ |+..-++-.-.|++|+|+ ++.-.-+++.-+..-|+++|+.+.++
T Consensus 161 pv~l~s~dpevmkaaLev~~dqkPllYaAte~n~~e~~klav~y~vplvl----~a~~dl~~lk~la~~~~~~Gi~divL 236 (467)
T COG1456 161 PVILCSFDPEVMKAALEVVKDQKPLLYAATEDNWKEFAKLAVEYKVPLVL----SAFNDLDDLKNLAVTYAQAGIKDIVL 236 (467)
T ss_pred cEEEEeCCHHHHHHHHHHhhccCceeeecccccHHHHHHHHhhcCCcEEE----eccCCHHHHHHHHHHHHHcCCceEEe
Confidence 44455567777777774 555666666789999998 55444677888888899999999999
Q ss_pred ccccccCchhhHHHHHHHHH
Q 042073 80 CSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 80 s~~wa~GG~Ga~~LA~~Vv~ 99 (225)
--+=.-||+|-.+--+.++.
T Consensus 237 dPgT~p~~egl~~T~d~~v~ 256 (467)
T COG1456 237 DPGTYPGGEGLKDTFDNFVM 256 (467)
T ss_pred cCCcccCccchhHHHHHHHH
Confidence 99999999998776555543
No 114
>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=66.87 E-value=40 Score=27.12 Aligned_cols=72 Identities=13% Similarity=0.081 Sum_probs=45.3
Q ss_pred HHHHHH-HHHHHhh--cCCeEEEEecCCCCCcHH------HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHH
Q 042073 30 CVNLAR-HIANTKA--YGVNVVVAVNMFATDSEA------ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRA 100 (225)
Q Consensus 30 ~~NL~~-HIeNi~~--fGvpvVVAIN~F~~DT~~------Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~ 100 (225)
|.|+.. .+..+++ -++|+|++.|+..-..+. ..+...++|.+.|...+..+. +.=|+|-.+|-+.+++.
T Consensus 88 ~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~S--a~~~~~v~~~f~~l~~~ 165 (187)
T cd04132 88 LDNVEDKWFPEVNHFCPGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAFAYLECS--AKTMENVEEVFDTAIEE 165 (187)
T ss_pred HHHHHHHHHHHHHHhCCCCCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCcEEEEcc--CCCCCCHHHHHHHHHHH
Confidence 445532 3444443 479999999997542211 134566788888883244443 66778888888888776
Q ss_pred hhc
Q 042073 101 CEN 103 (225)
Q Consensus 101 ~e~ 103 (225)
+..
T Consensus 166 ~~~ 168 (187)
T cd04132 166 ALK 168 (187)
T ss_pred HHh
Confidence 653
No 115
>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=66.64 E-value=31 Score=26.74 Aligned_cols=66 Identities=12% Similarity=0.037 Sum_probs=39.0
Q ss_pred HHHHHHHHHHh----hcCCeEEEEecCCCCC-cHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 31 VNLARHIANTK----AYGVNVVVAVNMFATD-SEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 31 ~NL~~HIeNi~----~fGvpvVVAIN~F~~D-T~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
.++.++++.++ ..++|++|++|+-... .+...+...+++++.++. +..+. ++=|+|-.++-+.+++
T Consensus 89 ~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~S--a~~~~gi~~~~~~~~~ 159 (161)
T cd01863 89 TNLETWLNELETYSTNNDIVKMLVGNKIDKENREVTREEGLKFARKHNML-FIETS--AKTRDGVQQAFEELVE 159 (161)
T ss_pred HhHHHHHHHHHHhCCCCCCcEEEEEECCcccccccCHHHHHHHHHHcCCE-EEEEe--cCCCCCHHHHHHHHHH
Confidence 34444444443 4689999999986432 122234466777877775 43332 2336787777776654
No 116
>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=66.54 E-value=23 Score=27.68 Aligned_cols=54 Identities=26% Similarity=0.225 Sum_probs=35.2
Q ss_pred cCCeEEEEecCCCCCcHHHHHHH--HHHHHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 43 YGVNVVVAVNMFATDSEAELNAV--RIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~~Ei~~i--~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
.+.|+||++|+..-.+..++... ...+...+.. +.. .=+.-|.|-.+|.+.+..
T Consensus 119 ~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~--~Sa~~~~gl~~l~~~l~~ 174 (176)
T cd01881 119 TAKPVIYVLNKIDLDDAEELEEELVRELALEEGAE-VVP--ISAKTEEGLDELIRAIYE 174 (176)
T ss_pred hhCCeEEEEEchhcCchhHHHHHHHHHHhcCCCCC-EEE--EehhhhcCHHHHHHHHHh
Confidence 58999999999887666666554 3334444444 333 345667787777776654
No 117
>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=66.37 E-value=31 Score=26.54 Aligned_cols=61 Identities=20% Similarity=0.139 Sum_probs=33.6
Q ss_pred HHHHHHHhhcCC-eEEEEecCCCCCcHHH----HHHHHHHHHH---cCCCeEEEccccccCchhhHHHHHHH
Q 042073 34 ARHIANTKAYGV-NVVVAVNMFATDSEAE----LNAVRIAAMA---AGAFDAVVCSHHAHGGKGAVDLGIAV 97 (225)
Q Consensus 34 ~~HIeNi~~fGv-pvVVAIN~F~~DT~~E----i~~i~~~c~~---~g~~~~avs~~wa~GG~Ga~~LA~~V 97 (225)
..++..++..+. |+++++|+..--.+.. .+.+.++++. .+.. +..+. ++-|+|-.+|-+.+
T Consensus 93 ~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~S--a~~~~~v~~l~~~l 161 (164)
T cd04171 93 REHLEILELLGIKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAP-IFPVS--AVTGEGIEELKEYL 161 (164)
T ss_pred HHHHHHHHHhCCCcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCc-EEEEe--CCCCcCHHHHHHHH
Confidence 344444556677 9999999976544332 3444555554 2444 33332 45556666654443
No 118
>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=66.24 E-value=44 Score=25.67 Aligned_cols=55 Identities=18% Similarity=0.138 Sum_probs=35.9
Q ss_pred cCCeEEEEecCCCCCcHH--HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHH
Q 042073 43 YGVNVVVAVNMFATDSEA--ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRA 100 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~~--Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~ 100 (225)
.+.|++++.|+-....+. ..+..++++.+.+.. +. +.=++-|+|-.+|-+.+++.
T Consensus 109 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~--~~Sa~~~~gi~~l~~~l~~~ 165 (168)
T cd04119 109 ENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFK-YF--ETSACTGEGVNEMFQTLFSS 165 (168)
T ss_pred CCceEEEEEEchhcccccccCHHHHHHHHHHcCCe-EE--EEECCCCCCHHHHHHHHHHH
Confidence 468999999997654211 233445677888875 33 23345588888887777654
No 119
>PRK13125 trpA tryptophan synthase subunit alpha; Provisional
Probab=65.98 E-value=93 Score=27.30 Aligned_cols=126 Identities=12% Similarity=0.050 Sum_probs=71.9
Q ss_pred cccHHHHHHhHHHHHHHHHHHhh-cCCeEE--EEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccc-cccCchhhHHHHH
Q 042073 20 NENVALVEAGCVNLARHIANTKA-YGVNVV--VAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSH-HAHGGKGAVDLGI 95 (225)
Q Consensus 20 ~eN~~al~~G~~NL~~HIeNi~~-fGvpvV--VAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~-wa~GG~Ga~~LA~ 95 (225)
+.+..|++.|+ ...++.+++ ..+|++ +=+|-|..| .++ ..+.|++.|+..+.+-.. +. +.+-.+
T Consensus 52 ~~~~~a~~~g~---~~~v~~vr~~~~~Pl~lM~y~n~~~~~-~~~---~i~~~~~~Gadgvii~dlp~e-----~~~~~~ 119 (244)
T PRK13125 52 KSHRKVKGLDI---WPLLEEVRKDVSVPIILMTYLEDYVDS-LDN---FLNMARDVGADGVLFPDLLID-----YPDDLE 119 (244)
T ss_pred HHHHHHHHcCc---HHHHHHHhccCCCCEEEEEecchhhhC-HHH---HHHHHHHcCCCEEEECCCCCC-----cHHHHH
Confidence 34567888888 557888876 689975 455877444 332 345567899974433221 22 112234
Q ss_pred HHHHHhhcCCCCcccccCCCCCHHHHHHHHHh-----Hh----ccCCCCCCHHHHHHHHHHHHCCCCCCCeeE
Q 042073 96 AVQRACENVTQPLKFLYPSDVSIKEKIDTIAR-----SY----GASGVEYSEEAEKQIKMYTRQGFSGLPFCM 159 (225)
Q Consensus 96 ~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~-----IY----GA~~V~~s~~A~~~l~~~e~~G~~~lPVCm 159 (225)
..++.+.+..-..=++...+.|+ +.++.++. +| +..+-.|.+...++++++.++ ..+.||++
T Consensus 120 ~~~~~~~~~Gl~~~~~v~p~T~~-e~l~~~~~~~~~~l~msv~~~~g~~~~~~~~~~i~~lr~~-~~~~~i~v 190 (244)
T PRK13125 120 KYVEIIKNKGLKPVFFTSPKFPD-LLIHRLSKLSPLFIYYGLRPATGVPLPVSVERNIKRVRNL-VGNKYLVV 190 (244)
T ss_pred HHHHHHHHcCCCEEEEECCCCCH-HHHHHHHHhCCCEEEEEeCCCCCCCchHHHHHHHHHHHHh-cCCCCEEE
Confidence 45555543222222344444443 34555443 32 234557889999999999986 33467663
No 120
>TIGR02729 Obg_CgtA Obg family GTPase CgtA. This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal.
Probab=65.97 E-value=42 Score=31.10 Aligned_cols=56 Identities=23% Similarity=0.121 Sum_probs=38.1
Q ss_pred cCCeEEEEecCCCCCcHHHHHHHH-HHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 43 YGVNVVVAVNMFATDSEAELNAVR-IAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~~Ei~~i~-~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
.+.|++|++|+.....+++++.+. +++++.+.. +.... +.=|+|-.+|-+.+.+.+
T Consensus 272 ~~kp~IIV~NK~DL~~~~~~~~~~~~l~~~~~~~-vi~iS--Aktg~GI~eL~~~I~~~l 328 (329)
T TIGR02729 272 AEKPRIVVLNKIDLLDEEELAELLKELKKALGKP-VFPIS--ALTGEGLDELLYALAELL 328 (329)
T ss_pred ccCCEEEEEeCccCCChHHHHHHHHHHHHHcCCc-EEEEE--ccCCcCHHHHHHHHHHHh
Confidence 478999999998875556555444 445566765 44433 345688888888877654
No 121
>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional
Probab=65.73 E-value=22 Score=32.55 Aligned_cols=56 Identities=13% Similarity=0.102 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHhhcCC-eEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccC
Q 042073 30 CVNLARHIANTKAYGV-NVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHG 86 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGv-pvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~G 86 (225)
+....+.|+.+++.|+ ++.+-.=-.+..+++|+..+.+++++.|+. +.+.+...-|
T Consensus 139 ~~~vl~~i~~~~~~Gi~~v~in~v~~~g~N~~ei~~~~~~~~~~gi~-~~~ie~mP~g 195 (329)
T PRK13361 139 LERVIAGIDAAKAAGFERIKLNAVILRGQNDDEVLDLVEFCRERGLD-IAFIEEMPLG 195 (329)
T ss_pred HHHHHHHHHHHHHcCCCceEEEEEEECCCCHHHHHHHHHHHHhcCCe-EEEEecccCC
Confidence 5566666777777888 554321123456789999999999999996 7666655544
No 122
>PRK03670 competence damage-inducible protein A; Provisional
Probab=65.61 E-value=1e+02 Score=27.69 Aligned_cols=127 Identities=18% Similarity=0.201 Sum_probs=68.9
Q ss_pred HhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHH
Q 042073 40 TKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIK 119 (225)
Q Consensus 40 i~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~ 119 (225)
++.+|+.+.-.. -..|..++|....+.+.+.... +++++ ||-|.- +.++ +
T Consensus 29 L~~~G~~v~~~~--iV~Dd~~~I~~~l~~a~~~~~D-lVItt----GGlGpt-------------~dD~--------T-- 78 (252)
T PRK03670 29 LTEKGYWVRRIT--TVGDDVEEIKSVVLEILSRKPE-VLVIS----GGLGPT-------------HDDV--------T-- 78 (252)
T ss_pred HHHCCCEEEEEE--EcCCCHHHHHHHHHHHhhCCCC-EEEEC----CCccCC-------------CCCc--------h--
Confidence 566887754211 2367777777665555444554 66665 676621 0111 1
Q ss_pred HHHHHHHhHhccCCCCCCHHHHHHHHHHH-HCCCCCCCeeEeecCCCcCCC------CCCCceEEeeEEEeecCCceeee
Q 042073 120 EKIDTIARSYGASGVEYSEEAEKQIKMYT-RQGFSGLPFCMAKTQHSFSHN------APTGFILPIRDVRASIGAGFIYP 192 (225)
Q Consensus 120 eKI~~IA~IYGA~~V~~s~~A~~~l~~~e-~~G~~~lPVCmAKTqyS~Sdd------~P~~f~~~vrdv~~~~GAgFiv~ 192 (225)
.+.||+. ....+++.+++.+.|+++= +.|...++ + .-+++.. .|+|-++--+.+ ..-.||.+-
T Consensus 79 --~eava~a-~g~~l~~~~e~~~~i~~~~~~~~~~~~~-~----~~~~~~~~~kmA~~P~ga~~l~N~~--g~ApG~~~~ 148 (252)
T PRK03670 79 --MLAVAEA-LGRELVLCEDCLERIKEFYEELYKKGLI-D----DPTLNEARKKMAYLPEGAEPLENTE--GAAPGAYIE 148 (252)
T ss_pred --HHHHHHH-hCCCCcCCHHHHHHHHHHHHHhcccccc-c----ccccChHHHheeCCCCCCEECCCCC--CcCceEEEE
Confidence 1334444 3466888888888888643 33321111 0 0112222 677765544333 334578776
Q ss_pred ecc-cccccCCCCCC
Q 042073 193 LVG-TISTMLGLPTR 206 (225)
Q Consensus 193 ~~G-~i~tMPGLpk~ 206 (225)
.-+ ++.-|||-|..
T Consensus 149 ~~~~~v~~lPGvP~e 163 (252)
T PRK03670 149 HKGTKIFVLPGMPRE 163 (252)
T ss_pred ECCeEEEEeCCChHH
Confidence 433 79999999964
No 123
>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=65.50 E-value=47 Score=28.28 Aligned_cols=69 Identities=10% Similarity=0.074 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHhh---cCCeEEEEecCCCCCcHHHH--HHHHHHHHHc-CCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 30 CVNLARHIANTKA---YGVNVVVAVNMFATDSEAEL--NAVRIAAMAA-GAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 30 ~~NL~~HIeNi~~---fGvpvVVAIN~F~~DT~~Ei--~~i~~~c~~~-g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
|.|+...++.+++ -++|+|++.|+-.-..+.++ +...++|++. +.. +..+. |+-|+|-.++=+.+++.+
T Consensus 88 f~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~-~~etS--Aktg~gV~e~F~~l~~~~ 162 (202)
T cd04120 88 FDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREISRQQGEKFAQQITGMR-FCEAS--AKDNFNVDEIFLKLVDDI 162 (202)
T ss_pred HHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCE-EEEec--CCCCCCHHHHHHHHHHHH
Confidence 5555555555554 36999999999765433433 3446677764 664 43333 777888888776666654
No 124
>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=65.35 E-value=45 Score=26.27 Aligned_cols=70 Identities=14% Similarity=0.108 Sum_probs=41.7
Q ss_pred HHHHH-HHHHHHhh--cCCeEEEEecCCCCCcHHH-H-------------HHHHHHHHHcCCCeEEEccccccCchhhHH
Q 042073 30 CVNLA-RHIANTKA--YGVNVVVAVNMFATDSEAE-L-------------NAVRIAAMAAGAFDAVVCSHHAHGGKGAVD 92 (225)
Q Consensus 30 ~~NL~-~HIeNi~~--fGvpvVVAIN~F~~DT~~E-i-------------~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~ 92 (225)
|.++. +.++.+++ -++|++++.|+....++.+ + +...++|++.|...+.. .=++=|+|-.+
T Consensus 85 ~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e--~Sa~~~~~v~~ 162 (174)
T smart00174 85 FENVKEKWYPEVKHFCPNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLE--CSALTQEGVRE 162 (174)
T ss_pred HHHHHHHHHHHHHhhCCCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEE--ecCCCCCCHHH
Confidence 44553 24555554 3899999999976543211 1 22346777777632332 33466677777
Q ss_pred HHHHHHHHh
Q 042073 93 LGIAVQRAC 101 (225)
Q Consensus 93 LA~~Vv~~~ 101 (225)
|-+.+++.+
T Consensus 163 lf~~l~~~~ 171 (174)
T smart00174 163 VFEEAIRAA 171 (174)
T ss_pred HHHHHHHHh
Confidence 777776654
No 125
>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=64.70 E-value=27 Score=27.26 Aligned_cols=55 Identities=9% Similarity=-0.005 Sum_probs=36.1
Q ss_pred cCCeEEEEecCCCCCcHHH--HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHH
Q 042073 43 YGVNVVVAVNMFATDSEAE--LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRA 100 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~~E--i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~ 100 (225)
-++|++|+.|+-.-.+..+ .+.+.++|.+.++. +. +.=+.-|.|-.+|-+.+++.
T Consensus 107 ~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~--~~Sa~~~~~v~~l~~~l~~~ 163 (165)
T cd01868 107 SNIVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLS-FI--ETSALDGTNVEEAFKQLLTE 163 (165)
T ss_pred CCCeEEEEEECccccccccCCHHHHHHHHHHcCCE-EE--EEECCCCCCHHHHHHHHHHH
Confidence 3799999999977543322 23456777777764 33 34456678888877776553
No 126
>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=64.60 E-value=29 Score=29.15 Aligned_cols=67 Identities=12% Similarity=0.095 Sum_probs=40.4
Q ss_pred HHHHHHHHHhhcCC-eEEEEecCCCCCcHHHH----HHHHHHHHHc---CCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 32 NLARHIANTKAYGV-NVVVAVNMFATDSEAEL----NAVRIAAMAA---GAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 32 NL~~HIeNi~~fGv-pvVVAIN~F~~DT~~Ei----~~i~~~c~~~---g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
....|+..++.+++ |+||++|+-.-..++++ +.+++++... ++. +... =+.=|+|-.+|-+.+.+.+
T Consensus 124 ~t~~~l~~~~~~~~~~iiivvNK~Dl~~~~~~~~~~~~i~~~~~~~~~~~~~-i~~v--SA~~g~gi~~L~~~l~~~l 198 (203)
T cd01888 124 QTSEHLAALEIMGLKHIIIVQNKIDLVKEEQALENYEQIKKFVKGTIAENAP-IIPI--SAQLKYNIDVLLEYIVKKI 198 (203)
T ss_pred chHHHHHHHHHcCCCcEEEEEEchhccCHHHHHHHHHHHHHHHhccccCCCc-EEEE--eCCCCCCHHHHHHHHHHhC
Confidence 34567777777787 58889999876655554 4455555432 443 2222 2345677777766666544
No 127
>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=64.58 E-value=41 Score=31.31 Aligned_cols=64 Identities=22% Similarity=0.114 Sum_probs=39.3
Q ss_pred HHHHHhhcCCeEEEEecCCCCC-cHHHHHHHHHHHHHc-----CCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 36 HIANTKAYGVNVVVAVNMFATD-SEAELNAVRIAAMAA-----GAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 36 HIeNi~~fGvpvVVAIN~F~~D-T~~Ei~~i~~~c~~~-----g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
.+..+.+.|.|+||++|+..-. .+++.+.+.+...+. +++ +..+. ++=|.|-.+|-+.+.+..+
T Consensus 275 ~~~~~~~~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~-vi~~S--A~~g~~v~~l~~~i~~~~~ 344 (429)
T TIGR03594 275 IAGLILEAGKALVIVVNKWDLVKDEKTREEFKKELRRKLPFLDFAP-IVFIS--ALTGQGVDKLLDAIDEVYE 344 (429)
T ss_pred HHHHHHHcCCcEEEEEECcccCCCHHHHHHHHHHHHHhcccCCCCc-eEEEe--CCCCCCHHHHHHHHHHHHH
Confidence 3444566899999999998653 455566665554432 233 33333 3446777777777766654
No 128
>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=64.41 E-value=17 Score=32.69 Aligned_cols=25 Identities=16% Similarity=0.159 Sum_probs=21.3
Q ss_pred HHHHHHHHhhcCCeEEEEecCCCCC
Q 042073 33 LARHIANTKAYGVNVVVAVNMFATD 57 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAIN~F~~D 57 (225)
-.++++.++++|+|++|+||+....
T Consensus 105 t~~~~~~~~~~~~p~ivviNK~D~~ 129 (270)
T cd01886 105 TETVWRQADRYNVPRIAFVNKMDRT 129 (270)
T ss_pred HHHHHHHHHHcCCCEEEEEECCCCC
Confidence 3678888899999999999998754
No 129
>cd02940 DHPD_FMN Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and eight [4Fe-4S] clusters, arranged in two electron transfer chains that pass the dimer interface twice. Two of the Fe-S clusters show a hitherto unobserved coordination involving a glutamine residue.
Probab=64.35 E-value=1.1e+02 Score=27.62 Aligned_cols=41 Identities=12% Similarity=0.098 Sum_probs=26.3
Q ss_pred HHHHhh-c-CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEE
Q 042073 37 IANTKA-Y-GVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVV 79 (225)
Q Consensus 37 IeNi~~-f-GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~av 79 (225)
+..+++ + ..|+++-++-. .+.+|+..+.+.+++.|+.-+.+
T Consensus 90 ~~~~~~~~~~~p~i~si~G~--~~~~~~~~~a~~~~~~gad~iel 132 (299)
T cd02940 90 IRELKKDFPDKILIASIMCE--YNKEDWTELAKLVEEAGADALEL 132 (299)
T ss_pred HHHHHhhCCCCeEEEEecCC--CCHHHHHHHHHHHHhcCCCEEEE
Confidence 444433 3 57888877654 35678777777777778853444
No 130
>PRK13306 ulaD 3-keto-L-gulonate-6-phosphate decarboxylase; Provisional
Probab=64.26 E-value=97 Score=26.93 Aligned_cols=122 Identities=18% Similarity=0.221 Sum_probs=72.6
Q ss_pred HHHHHHhHHHHHHH----HHHHhhc--CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHH
Q 042073 23 VALVEAGCVNLARH----IANTKAY--GVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIA 96 (225)
Q Consensus 23 ~~al~~G~~NL~~H----IeNi~~f--GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~ 96 (225)
+..++-|++.+..+ |+.+++. |.|+++=+--+ |-+ +++.+.+.++|+. . .++++.||...+.=+-+
T Consensus 29 v~~~kvG~~l~~~~G~~~i~~lk~~~~~~~v~~DLK~~--Di~---~~v~~~~~~~Gad-~--vTvH~~a~~~~i~~~~~ 100 (216)
T PRK13306 29 VDIIEVGTILLLAEGMKAVRVLRALYPDKIIVADTKIA--DAG---KILAKMAFEAGAD-W--VTVICAAHIPTIKAALK 100 (216)
T ss_pred CCEEEEChHHHHHhCHHHHHHHHHHCCCCEEEEEEeec--CCc---HHHHHHHHHCCCC-E--EEEeCCCCHHHHHHHHH
Confidence 34567788888887 7888886 88877666555 433 5555557889996 3 34556665553322222
Q ss_pred HHHHhhc------CCC-Ccccc-cCCCCCHHHHHHHHHhHhccCCCCCCHHHHHHHHHHHHCCC
Q 042073 97 VQRACEN------VTQ-PLKFL-YPSDVSIKEKIDTIARSYGASGVEYSEEAEKQIKMYTRQGF 152 (225)
Q Consensus 97 Vv~~~e~------~~~-~f~~l-Y~~~~~i~eKI~~IA~IYGA~~V~~s~~A~~~l~~~e~~G~ 152 (225)
.++.... .++ ....+ +-.+.++.+-+-..+.-=+.+++.||+...++++++.+.|+
T Consensus 101 ~~~~~g~~~~V~llts~~~~~l~~~~~~~~~~~vl~~a~~~~~~G~v~s~~~~~~ir~~~~~~~ 164 (216)
T PRK13306 101 VAKEFNGEIQIELYGNWTWEQAQQWRDAGISQVIYHRSRDAQLAGVAWGEKDLNKVKKLSDMGF 164 (216)
T ss_pred HHHHcCCEEEEEECCCCCHHHHHHHHcCChhhhhhhhhhhhhhcCCCCCHHHHHHHHHHhcCCC
Confidence 2111100 111 11111 11233566666666662238899999999999999987665
No 131
>PRK00048 dihydrodipicolinate reductase; Provisional
Probab=63.51 E-value=36 Score=30.15 Aligned_cols=94 Identities=16% Similarity=0.123 Sum_probs=63.1
Q ss_pred HHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCccccc
Q 042073 33 LARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLY 112 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY 112 (225)
+..|+...-+.|+|+|+.---| |++|++.|.+ |. .++. +.++-.|+-|-.-...|++.....+. . |
T Consensus 73 ~~~~~~~al~~G~~vvigttG~---s~~~~~~l~~-aa-~~~~-v~~s~n~s~g~~~~~~l~~~aa~~l~-------~-~ 138 (257)
T PRK00048 73 TLENLEFALEHGKPLVIGTTGF---TEEQLAELEE-AA-KKIP-VVIAPNFSIGVNLLMKLAEKAAKYLG-------D-Y 138 (257)
T ss_pred HHHHHHHHHHcCCCEEEECCCC---CHHHHHHHHH-Hh-cCCC-EEEECcchHHHHHHHHHHHHHHHhcC-------C-C
Confidence 3566666677999999983233 4778888888 44 7786 88999999988777777777665432 2 5
Q ss_pred CCCCCHHHHHHHHHhHhccCCCCC-CHHHHHHHHHHHH
Q 042073 113 PSDVSIKEKIDTIARSYGASGVEY-SEEAEKQIKMYTR 149 (225)
Q Consensus 113 ~~~~~i~eKI~~IA~IYGA~~V~~-s~~A~~~l~~~e~ 149 (225)
+.+ | ..+=....++. |-.|.+-.+.+.+
T Consensus 139 d~e--i-------~E~HH~~K~DaPSGTA~~l~~~i~~ 167 (257)
T PRK00048 139 DIE--I-------IEAHHRHKVDAPSGTALKLAEAIAE 167 (257)
T ss_pred CEE--E-------EEccCCCCCCCCCHHHHHHHHHHHH
Confidence 432 1 11445666777 6666666666655
No 132
>TIGR02666 moaA molybdenum cofactor biosynthesis protein A, bacterial. The model for this family describes molybdenum cofactor biosynthesis protein A, or MoaA, as found in bacteria. It does not include the family of probable functional equivalent proteins from the archaea. MoaA works together with MoaC to synthesize precursor Z from guanine.
Probab=63.18 E-value=26 Score=31.81 Aligned_cols=52 Identities=13% Similarity=0.062 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHhhcCCe-EEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccc
Q 042073 30 CVNLARHIANTKAYGVN-VVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSH 82 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvp-vVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~ 82 (225)
+....+.|+.+++.|++ +.+-.-..+..+++|+..+.+++++.|+. +.+.+.
T Consensus 138 ~~~vl~~i~~l~~~G~~~v~in~vv~~g~n~~ei~~l~~~~~~~gv~-~~~ie~ 190 (334)
T TIGR02666 138 LEQVLAGIDAALAAGLEPVKLNTVVMRGVNDDEIVDLAEFAKERGVT-LRFIEL 190 (334)
T ss_pred HHHHHHHHHHHHHcCCCcEEEEEEEeCCCCHHHHHHHHHHHHhcCCe-EEEEec
Confidence 66677777778888886 54433334556788999999999999985 655443
No 133
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=63.17 E-value=34 Score=34.18 Aligned_cols=80 Identities=13% Similarity=0.115 Sum_probs=50.5
Q ss_pred hHHHHHHHHHHHhh-cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCC
Q 042073 29 GCVNLARHIANTKA-YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQP 107 (225)
Q Consensus 29 G~~NL~~HIeNi~~-fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~ 107 (225)
|+.|.-.-++.+.. |++++.. |.-++.+|+....+.+++.|+. ++++.. =..++|++ -.-+
T Consensus 114 ~~~~~~~~~~~~~~~l~~~i~~----~~~~~~~e~~~~v~~lk~~G~~-~vvG~~------~~~~~A~~-------~g~~ 175 (538)
T PRK15424 114 TYQETIPALVAFQKTFNLRIEQ----RSYVTEEDARGQINELKANGIE-AVVGAG------LITDLAEE-------AGMT 175 (538)
T ss_pred ecCcccHHHHHHHHHhCCceEE----EEecCHHHHHHHHHHHHHCCCC-EEEcCc------hHHHHHHH-------hCCc
Confidence 45555555666655 7777555 6678899999999999999997 888754 12333332 1222
Q ss_pred cccccCCCCCHHHHHHHHHh
Q 042073 108 LKFLYPSDVSIKEKIDTIAR 127 (225)
Q Consensus 108 f~~lY~~~~~i~eKI~~IA~ 127 (225)
--++|+. ++|.+-|+.--+
T Consensus 176 g~~~~s~-e~i~~a~~~A~~ 194 (538)
T PRK15424 176 GIFIYSA-ATVRQAFEDALD 194 (538)
T ss_pred eEEecCH-HHHHHHHHHHHH
Confidence 3466654 567666665433
No 134
>cd02911 arch_FMN Archeal FMN-binding domain. This family of archaeal proteins are part of the NAD(P)H-dependent flavin oxidoreductase (oxidored) FMN-binding family that reduce a range of alternative electron acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as electron donor. Some contain 4Fe-4S cluster to transfer electron from FAD to FMN. The specific function of this group is unknown.
Probab=62.65 E-value=71 Score=28.12 Aligned_cols=68 Identities=16% Similarity=0.067 Sum_probs=41.8
Q ss_pred HHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccc-----cCchhh-----HHHHHHHHHHh
Q 042073 32 NLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHA-----HGGKGA-----VDLGIAVQRAC 101 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa-----~GG~Ga-----~~LA~~Vv~~~ 101 (225)
-+++.+..++..+.|++ +|-+.+| .+++....+.+++.+ .-+.++=+-. ++|.|+ .++..++++++
T Consensus 60 ~~~~~~~~~~~~~~p~~--vqi~g~~-~~~~~~aa~~~~~~~-~~ielN~gCP~~~v~~~g~G~~Ll~~p~~l~eiv~av 135 (233)
T cd02911 60 FIEGEIKALKDSNVLVG--VNVRSSS-LEPLLNAAALVAKNA-AILEINAHCRQPEMVEAGAGEALLKDPERLSEFIKAL 135 (233)
T ss_pred HHHHHHHHhhccCCeEE--EEecCCC-HHHHHHHHHHHhhcC-CEEEEECCCCcHHHhcCCcchHHcCCHHHHHHHHHHH
Confidence 34445555666677655 5667555 677777777776644 3355544432 557788 67777777776
Q ss_pred hc
Q 042073 102 EN 103 (225)
Q Consensus 102 e~ 103 (225)
.+
T Consensus 136 r~ 137 (233)
T cd02911 136 KE 137 (233)
T ss_pred Hh
Confidence 53
No 135
>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=62.49 E-value=52 Score=26.91 Aligned_cols=58 Identities=16% Similarity=0.013 Sum_probs=36.8
Q ss_pred cCCeEEEEecCCCCCcHHH--HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhc
Q 042073 43 YGVNVVVAVNMFATDSEAE--LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACEN 103 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~~E--i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~ 103 (225)
.++|++++.|+...-.+.+ .+...+++...++. +..+.. +=|.|-.+|-+.+++.+..
T Consensus 105 ~~~piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~-~~e~SA--k~~~~v~~l~~~l~~~l~~ 164 (190)
T cd04144 105 ADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCE-FIEASA--KTNVNVERAFYTLVRALRQ 164 (190)
T ss_pred CCCCEEEEEEChhccccCccCHHHHHHHHHHhCCE-EEEecC--CCCCCHHHHHHHHHHHHHH
Confidence 5799999999965422222 12345667777875 443333 3368888888888876653
No 136
>cd06268 PBP1_ABC_transporter_LIVBP_like Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. They are mostly present in archaea and eubacteria, and are primarily involved in scavenging solutes from the environment. ABC-type transporters couple ATP hydrolysis with the uptake and efflux of a wide range of substrates across bacterial membranes, including amino acids, peptides, lipids and sterols, and various drugs. These systems are comprised of transmembrane domains, nucleotide binding domains, and in most bacterial uptake systems, periplasmic binding proteins (PBPs) which transfer the ligand to the extracellular gate of the transmembrane domains. These PBPs bind their substrates selectively and with high affinity. Members of this group include ABC
Probab=62.30 E-value=90 Score=25.84 Aligned_cols=122 Identities=14% Similarity=0.129 Sum_probs=72.5
Q ss_pred HHHHHHHHhhcCCeEEEEe------------c--CCCCCcHHHHHHHHHHHHHcC-CCeEEEccccccCchhhHHHHHHH
Q 042073 33 LARHIANTKAYGVNVVVAV------------N--MFATDSEAELNAVRIAAMAAG-AFDAVVCSHHAHGGKGAVDLGIAV 97 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAI------------N--~F~~DT~~Ei~~i~~~c~~~g-~~~~avs~~wa~GG~Ga~~LA~~V 97 (225)
.....+.+++.|+|+|..- | ++..+..++...+.+++.+.+ ...+++.. .+.. -+.+.++..
T Consensus 79 ~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~--~~~~-~~~~~~~~~ 155 (298)
T cd06268 79 ALAAAPVAEEAGVPLISPGATSPALTGKGNPYVFRTAPSDAQQAAALADYLAEKGKVKKVAIIY--DDYA-YGRGLAAAF 155 (298)
T ss_pred HHhhHHHHHhCCCcEEccCCCCcccccCCCceEEEcccCcHHHHHHHHHHHHHhcCCCEEEEEE--cCCc-hhHHHHHHH
Confidence 3455677788999998641 1 124466778888999988877 65555543 2222 345677777
Q ss_pred HHHhhcCCCCc--ccccCC-CCCHHHHHHHHHhHhccCCCCCC---HHHHHHHHHHHHCCCCCCCeeE
Q 042073 98 QRACENVTQPL--KFLYPS-DVSIKEKIDTIARSYGASGVEYS---EEAEKQIKMYTRQGFSGLPFCM 159 (225)
Q Consensus 98 v~~~e~~~~~f--~~lY~~-~~~i~eKI~~IA~IYGA~~V~~s---~~A~~~l~~~e~~G~~~lPVCm 159 (225)
.+.++...-++ ...|+. .......+.++.+- +.+.|... ..+..-++.+.+.|+ +.+|+.
T Consensus 156 ~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~l~~~-~~~~vi~~~~~~~~~~~~~~~~~~g~-~~~~~~ 221 (298)
T cd06268 156 REALKKLGGEVVAEETYPPGATDFSPLIAKLKAA-GPDAVFLAGYGGDAALFLKQAREAGL-KVPIVG 221 (298)
T ss_pred HHHHHHcCCEEEEEeccCCCCccHHHHHHHHHhc-CCCEEEEccccchHHHHHHHHHHcCC-CCcEEe
Confidence 77776422121 122332 24566666665431 22333222 567888889999998 677754
No 137
>cd01828 sialate_O-acetylesterase_like2 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=62.25 E-value=57 Score=25.88 Aligned_cols=53 Identities=9% Similarity=0.092 Sum_probs=32.5
Q ss_pred ccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCCCC-----CcHHH----HHHHHHHHHHcCCC
Q 042073 21 ENVALVEAGCVNLARHIANTKAYGVNVVVAVNMFAT-----DSEAE----LNAVRIAAMAAGAF 75 (225)
Q Consensus 21 eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~-----DT~~E----i~~i~~~c~~~g~~ 75 (225)
.+.+..++++.+|.+.+... .-+.+||+ +.-.+. .+.+. -+.+++.|++.|+.
T Consensus 65 ~~~~~~~~~l~~li~~~~~~-~~~~~vi~-~~~~p~~~~~~~~~~~~~~~n~~l~~~a~~~~~~ 126 (169)
T cd01828 65 TSDEDIVANYRTILEKLRKH-FPNIKIVV-QSILPVGELKSIPNEQIEELNRQLAQLAQQEGVT 126 (169)
T ss_pred CCHHHHHHHHHHHHHHHHHH-CCCCeEEE-EecCCcCccCcCCHHHHHHHHHHHHHHHHHCCCE
Confidence 56777777777776655543 25677666 333333 23333 34578889988886
No 138
>PRK01060 endonuclease IV; Provisional
Probab=62.20 E-value=79 Score=27.55 Aligned_cols=97 Identities=15% Similarity=0.102 Sum_probs=56.4
Q ss_pred cccccccHHHHHHhHHHHHHHHHHHhhcCCeEEEEe-cCCC-CCcHH-HHH----HHHHHHH-HcCCCeEEEccccccCc
Q 042073 16 HAYLNENVALVEAGCVNLARHIANTKAYGVNVVVAV-NMFA-TDSEA-ELN----AVRIAAM-AAGAFDAVVCSHHAHGG 87 (225)
Q Consensus 16 ~~l~~eN~~al~~G~~NL~~HIeNi~~fGvpvVVAI-N~F~-~DT~~-Ei~----~i~~~c~-~~g~~~~avs~~wa~GG 87 (225)
-.+..+|-+-.++-+..++++|+-.+.+|.+.||.- -.+. ..+.+ -++ .+.+.++ +.|+. .++-++|..+.
T Consensus 74 ~nl~~~d~~~r~~s~~~~~~~i~~A~~lga~~vv~h~G~~~~~~~~~~~~~~~~e~l~~l~~~~~gv~-l~iEn~~~~~~ 152 (281)
T PRK01060 74 INLGNPNKEILEKSRDFLIQEIERCAALGAKLLVFHPGSHLGDIDEEDCLARIAESLNEALDKTQGVT-IVLENTAGQGS 152 (281)
T ss_pred ecCCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEcCCcCCCCCcHHHHHHHHHHHHHHHHhcCCCCE-EEEecCCCCCC
Confidence 345667878888999999999999999999987752 1221 11222 333 3333332 35785 88888876653
Q ss_pred hh--hHHHHHHHHHHhhcCCCCcccccCC
Q 042073 88 KG--AVDLGIAVQRACENVTQPLKFLYPS 114 (225)
Q Consensus 88 ~G--a~~LA~~Vv~~~e~~~~~f~~lY~~ 114 (225)
.- ..+-...+++.+.. +..+.+++|.
T Consensus 153 ~~~~~~~~~~~l~~~v~~-~~~vg~~lD~ 180 (281)
T PRK01060 153 ELGRRFEELARIIDGVED-KSRVGVCLDT 180 (281)
T ss_pred cccCCHHHHHHHHHhcCC-cccEEEEEeH
Confidence 21 12223344444432 2225555544
No 139
>cd04501 SGNH_hydrolase_like_4 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid.
Probab=62.06 E-value=58 Score=26.14 Aligned_cols=61 Identities=13% Similarity=0.159 Sum_probs=32.7
Q ss_pred cHHHHHHhHHHHHHHHHHHhhcCCeEEEEe----cCCCC-----CcHHHHH----HHHHHHHHcCCCeEEEcccccc
Q 042073 22 NVALVEAGCVNLARHIANTKAYGVNVVVAV----NMFAT-----DSEAELN----AVRIAAMAAGAFDAVVCSHHAH 85 (225)
Q Consensus 22 N~~al~~G~~NL~~HIeNi~~fGvpvVVAI----N~F~~-----DT~~Ei~----~i~~~c~~~g~~~~avs~~wa~ 85 (225)
.++...+++ ++=|+-+++.|.++|+.. +.... .+.++++ .++++|++.|+.-+-+.+.|.+
T Consensus 77 ~~~~~~~~~---~~li~~~~~~~~~~il~~~~p~~~~~~~~~~~~~~~~~~~~n~~~~~~a~~~~v~~vd~~~~~~~ 150 (183)
T cd04501 77 SLEMIKDNI---RSMVELAEANGIKVILASPLPVDDYPWKPQWLRPANKLKSLNRWLKDYARENGLLFLDFYSPLLD 150 (183)
T ss_pred CHHHHHHHH---HHHHHHHHHCCCcEEEEeCCCcCccccchhhcchHHHHHHHHHHHHHHHHHcCCCEEechhhhhc
Confidence 345555544 444555577888877763 22221 2234444 3677888888862323444433
No 140
>smart00729 Elp3 Elongator protein 3, MiaB family, Radical SAM. This superfamily contains MoaA, NifB, PqqE, coproporphyrinogen III oxidase, biotin synthase and MiaB families, and includes a representative in the eukaryotic elongator subunit, Elp-3. Some members of the family are methyltransferases.
Probab=61.95 E-value=43 Score=26.60 Aligned_cols=63 Identities=10% Similarity=0.143 Sum_probs=37.4
Q ss_pred HHHHHHHHHHhhcC-CeEEEEec-CCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHH
Q 042073 31 VNLARHIANTKAYG-VNVVVAVN-MFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDL 93 (225)
Q Consensus 31 ~NL~~HIeNi~~fG-vpvVVAIN-~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~L 93 (225)
.+..+-|+.+++.| +++.+-+= -++.++.+++..+.+++++.|+..+.+.......|......
T Consensus 136 ~~~~~~i~~~~~~g~~~v~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~p~~~t~~~~~ 200 (216)
T smart00729 136 EDVLEAVEKLREAGPIKVSTDLIVGLPGETEEDFEETLKLLKELGPDRVSIFPLSPRPGTPLAKL 200 (216)
T ss_pred HHHHHHHHHHHHhCCcceEEeEEecCCCCCHHHHHHHHHHHHHcCCCeEEeeeeeeCCCChHHHh
Confidence 45555566666667 55443222 24457788888888888888886455554444555444333
No 141
>COG2229 Predicted GTPase [General function prediction only]
Probab=61.20 E-value=34 Score=29.96 Aligned_cols=30 Identities=20% Similarity=0.232 Sum_probs=23.9
Q ss_pred CeEEEEecC---CCCCcHHHHHHHHHHHHHcCCC
Q 042073 45 VNVVVAVNM---FATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 45 vpvVVAIN~---F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
+|+|||+|+ |...+.++|..+.+.|. +.++
T Consensus 122 ip~vVa~NK~DL~~a~ppe~i~e~l~~~~-~~~~ 154 (187)
T COG2229 122 IPVVVAINKQDLFDALPPEKIREALKLEL-LSVP 154 (187)
T ss_pred CCEEEEeeccccCCCCCHHHHHHHHHhcc-CCCc
Confidence 999999998 45677888888888775 4565
No 142
>TIGR03822 AblA_like_2 lysine-2,3-aminomutase-related protein. Members of this protein form a distinctive clade, homologous to lysine-2,3-aminomutase (of Bacillus, Clostridium, and methanogenic archaea) and likely similar in function. Members of this family are found in Rhodopseudomonas, Caulobacter crescentus, Bradyrhizobium, etc.
Probab=61.03 E-value=62 Score=29.77 Aligned_cols=49 Identities=14% Similarity=0.017 Sum_probs=33.0
Q ss_pred HHHHHHHHHHhhcCCeEEE--EecCCCCCcHHHHHHHHHHHHHcCCCeEEE
Q 042073 31 VNLARHIANTKAYGVNVVV--AVNMFATDSEAELNAVRIAAMAAGAFDAVV 79 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvVV--AIN~F~~DT~~Ei~~i~~~c~~~g~~~~av 79 (225)
+...+-|+++++.|+++.+ .+.+-..|+.++++.+.+++.+.|+....+
T Consensus 214 ~~~~~ai~~L~~~Gi~v~~q~vLl~gvNd~~~~l~~l~~~l~~~gv~pyyl 264 (321)
T TIGR03822 214 AEARAACARLIDAGIPMVSQSVLLRGVNDDPETLAALMRAFVECRIKPYYL 264 (321)
T ss_pred HHHHHHHHHHHHcCCEEEEEeeEeCCCCCCHHHHHHHHHHHHhcCCeeEEE
Confidence 4556667777777777655 455666777777777777777777753433
No 143
>cd02810 DHOD_DHPD_FMN Dihydroorotate dehydrogenase (DHOD) and Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN and eight [4Fe-4S] clusters, arranged in two electron transfer chains that pass its homodimeric interface twice. Two of
Probab=60.98 E-value=1.2e+02 Score=26.83 Aligned_cols=44 Identities=23% Similarity=0.171 Sum_probs=31.2
Q ss_pred hHHHHHHHHHHHhh--cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 29 GCVNLARHIANTKA--YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 29 G~~NL~~HIeNi~~--fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
|.....++|...++ .+.|++|-|+.. +.+++....+.+.+.|+.
T Consensus 81 g~~~~~~~i~~~~~~~~~~pvi~si~g~---~~~~~~~~a~~~~~~G~d 126 (289)
T cd02810 81 GLDVWLQDIAKAKKEFPGQPLIASVGGS---SKEDYVELARKIERAGAK 126 (289)
T ss_pred CHHHHHHHHHHHHhccCCCeEEEEeccC---CHHHHHHHHHHHHHhCCC
Confidence 45556666666655 488988887654 467777777788888886
No 144
>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=60.92 E-value=53 Score=25.86 Aligned_cols=56 Identities=13% Similarity=-0.057 Sum_probs=36.6
Q ss_pred cCCeEEEEecCCCCCcHHH--HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 43 YGVNVVVAVNMFATDSEAE--LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~~E--i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
-+.|++|+.|+-.-..+.+ .+...+++...|.. +.. .=++=|.|-.+|-+.+++.+
T Consensus 105 ~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~--~Sa~~~~gv~~l~~~l~~~~ 162 (165)
T cd01865 105 DNAQVILVGNKCDMEDERVVSSERGRQLADQLGFE-FFE--ASAKENINVKQVFERLVDII 162 (165)
T ss_pred CCCCEEEEEECcccCcccccCHHHHHHHHHHcCCE-EEE--EECCCCCCHHHHHHHHHHHH
Confidence 4689999999875433222 23445667777875 332 33467778888888877754
No 145
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=60.80 E-value=71 Score=28.67 Aligned_cols=68 Identities=19% Similarity=0.195 Sum_probs=43.2
Q ss_pred cccccccHHHHHHhHHHHHHHHHHHhh--------------------cCCeEEE--EecCCCCCcHHHHHHHHHHHHHcC
Q 042073 16 HAYLNENVALVEAGCVNLARHIANTKA--------------------YGVNVVV--AVNMFATDSEAELNAVRIAAMAAG 73 (225)
Q Consensus 16 ~~l~~eN~~al~~G~~NL~~HIeNi~~--------------------fGvpvVV--AIN~F~~DT~~Ei~~i~~~c~~~g 73 (225)
.++-++|.+++.+=|..|.+-++...+ ||+.++- .++.-..=|..+|..+.+.+++.+
T Consensus 149 ~~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~H~af~Yl~~~~gl~~~~~~~~~~~~eps~~~l~~l~~~ik~~~ 228 (286)
T cd01019 149 AATYAANLEAFNARLAELDATIKERLAPVKTKPFFVFHDAYGYFEKRYGLTQAGVFTIDPEIDPGAKRLAKIRKEIKEKG 228 (286)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCeEEEecccHHHHHHHcCCceeeeecCCCCCCCCHHHHHHHHHHHHHcC
Confidence 456668888888888888887776422 4444332 222233445777777777777777
Q ss_pred CCeEEEccccc
Q 042073 74 AFDAVVCSHHA 84 (225)
Q Consensus 74 ~~~~avs~~wa 84 (225)
+. +.+++...
T Consensus 229 v~-~If~e~~~ 238 (286)
T cd01019 229 AT-CVFAEPQF 238 (286)
T ss_pred Cc-EEEecCCC
Confidence 75 66666654
No 146
>PLN03110 Rab GTPase; Provisional
Probab=60.30 E-value=36 Score=28.84 Aligned_cols=69 Identities=10% Similarity=-0.023 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHhh---cCCeEEEEecCCCCCcHH--HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 30 CVNLARHIANTKA---YGVNVVVAVNMFATDSEA--ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 30 ~~NL~~HIeNi~~---fGvpvVVAIN~F~~DT~~--Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
+.|+.+-++.+++ .++|+|++.|+-.-+... +.+..+.++...++. +..+ =++=|.|-.+|-+.+++.+
T Consensus 100 ~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~~~~-~~e~--SA~~g~~v~~lf~~l~~~i 173 (216)
T PLN03110 100 FDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLS-FLET--SALEATNVEKAFQTILLEI 173 (216)
T ss_pred HHHHHHHHHHHHHhCCCCCeEEEEEEChhcccccCCCHHHHHHHHHHcCCE-EEEE--eCCCCCCHHHHHHHHHHHH
Confidence 5566666665554 589999999986532211 123345666667775 4333 3666777777777766655
No 147
>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=60.22 E-value=47 Score=26.91 Aligned_cols=70 Identities=9% Similarity=-0.025 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHhhc--CCeEEEEecCCCCCcHH----H--HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 30 CVNLARHIANTKAY--GVNVVVAVNMFATDSEA----E--LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 30 ~~NL~~HIeNi~~f--GvpvVVAIN~F~~DT~~----E--i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
+.++..-++.++++ +.|+++++|+....... + .+.+.+++.+.++. +. ++=++=|+|-.+|-+.+++.+
T Consensus 89 ~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~-~~--~~Sa~~~~gv~~l~~~i~~~~ 165 (193)
T cd04118 89 FERAKFWVKELQNLEEHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQ-HF--ETSSKTGQNVDELFQKVAEDF 165 (193)
T ss_pred HHHHHHHHHHHHhcCCCCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCe-EE--EEeCCCCCCHHHHHHHHHHHH
Confidence 45555555555554 79999999998642211 1 23456777777775 33 233445577778777777655
Q ss_pred h
Q 042073 102 E 102 (225)
Q Consensus 102 e 102 (225)
-
T Consensus 166 ~ 166 (193)
T cd04118 166 V 166 (193)
T ss_pred H
Confidence 3
No 148
>PRK12736 elongation factor Tu; Reviewed
Probab=59.82 E-value=47 Score=31.28 Aligned_cols=44 Identities=23% Similarity=0.207 Sum_probs=30.5
Q ss_pred HHHHHHHHHHhhcCCe-EEEEecCCCCCcHHH----HH-HHHHHHHHcCC
Q 042073 31 VNLARHIANTKAYGVN-VVVAVNMFATDSEAE----LN-AVRIAAMAAGA 74 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvp-vVVAIN~F~~DT~~E----i~-~i~~~c~~~g~ 74 (225)
..-+.|+..++.+|+| .||++|+...=+++| +. .++++++..+.
T Consensus 114 ~~t~~~~~~~~~~g~~~~IvviNK~D~~~~~~~~~~i~~~i~~~l~~~~~ 163 (394)
T PRK12736 114 PQTREHILLARQVGVPYLVVFLNKVDLVDDEELLELVEMEVRELLSEYDF 163 (394)
T ss_pred hhHHHHHHHHHHcCCCEEEEEEEecCCcchHHHHHHHHHHHHHHHHHhCC
Confidence 4456899999999999 579999986432333 22 45666666664
No 149
>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=59.50 E-value=61 Score=26.25 Aligned_cols=69 Identities=12% Similarity=-0.040 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHhh---cCCeEEEEecCCCCCcHH--HHHHHHHHHHHcCCCeEEEccccccCchhhHH----HHHHHHHH
Q 042073 30 CVNLARHIANTKA---YGVNVVVAVNMFATDSEA--ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVD----LGIAVQRA 100 (225)
Q Consensus 30 ~~NL~~HIeNi~~---fGvpvVVAIN~F~~DT~~--Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~----LA~~Vv~~ 100 (225)
|.++...++.+++ ...|+||+.|+..-..+. +.+..+++++..|+.-+.+|- +=|.|-.+ |++.+.+-
T Consensus 88 ~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~evSa---~~~~~i~~~f~~l~~~~~~~ 164 (188)
T cd04125 88 FENLKFWINEINRYARENVIKVIVANKSDLVNNKVVDSNIAKSFCDSLNIPFFETSA---KQSINVEEAFILLVKLIIKR 164 (188)
T ss_pred HHHHHHHHHHHHHhCCCCCeEEEEEECCCCcccccCCHHHHHHHHHHcCCeEEEEeC---CCCCCHHHHHHHHHHHHHHH
Confidence 5566666665554 468999999997543222 223445677778875233332 34566644 55555443
Q ss_pred h
Q 042073 101 C 101 (225)
Q Consensus 101 ~ 101 (225)
.
T Consensus 165 ~ 165 (188)
T cd04125 165 L 165 (188)
T ss_pred h
Confidence 3
No 150
>TIGR00485 EF-Tu translation elongation factor TU. This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.
Probab=59.47 E-value=53 Score=30.81 Aligned_cols=43 Identities=23% Similarity=0.196 Sum_probs=30.8
Q ss_pred HHHHHHHHHHhhcCCeEE-EEecCCCCCcHHHH-----HHHHHHHHHcC
Q 042073 31 VNLARHIANTKAYGVNVV-VAVNMFATDSEAEL-----NAVRIAAMAAG 73 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvV-VAIN~F~~DT~~Ei-----~~i~~~c~~~g 73 (225)
....+|+..++.+|+|.+ |++|+...-+++|. +.+++++++.+
T Consensus 114 ~qt~e~l~~~~~~gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~~~~ 162 (394)
T TIGR00485 114 PQTREHILLARQVGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSEYD 162 (394)
T ss_pred HHHHHHHHHHHHcCCCEEEEEEEecccCCHHHHHHHHHHHHHHHHHhcC
Confidence 455689999999999976 69999875333332 24667777776
No 151
>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=59.47 E-value=77 Score=24.14 Aligned_cols=55 Identities=18% Similarity=0.233 Sum_probs=33.1
Q ss_pred hcCCeEEEEecCCCCCcHH--HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 42 AYGVNVVVAVNMFATDSEA--ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 42 ~fGvpvVVAIN~F~~DT~~--Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
..++|++|++|+..-.... ..+.+.+..+..+..-+.+| +.=|+|-.++-+...+
T Consensus 103 ~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s---~~~~~gi~~~~~~l~~ 159 (162)
T cd04123 103 GNNISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETS---AKTGKGIEELFLSLAK 159 (162)
T ss_pred CCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEe---CCCCCCHHHHHHHHHH
Confidence 3479999999997654222 12344556667777523333 5555676666665544
No 152
>PRK00164 moaA molybdenum cofactor biosynthesis protein A; Reviewed
Probab=59.45 E-value=31 Score=31.21 Aligned_cols=46 Identities=17% Similarity=0.091 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHhhcCC-eEEEEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 30 CVNLARHIANTKAYGV-NVVVAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGv-pvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
+....+.|+.+++.|+ ++.+-.-..+..+++|+..+.+++++.|+.
T Consensus 143 ~~~vl~~i~~~~~~g~~~v~i~~vv~~g~n~~ei~~l~~~~~~~gv~ 189 (331)
T PRK00164 143 LDQVLAGIDAALAAGLTPVKVNAVLMKGVNDDEIPDLLEWAKDRGIQ 189 (331)
T ss_pred HHHHHHHHHHHHHCCCCcEEEEEEEECCCCHHHHHHHHHHHHhCCCe
Confidence 4455555556656665 433222123344556777777777777764
No 153
>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=59.43 E-value=34 Score=25.25 Aligned_cols=61 Identities=21% Similarity=0.212 Sum_probs=35.3
Q ss_pred HHHHHhhcCCeEEEEecCCCCCcHHHHHHHH-----HHHHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 36 HIANTKAYGVNVVVAVNMFATDSEAELNAVR-----IAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 36 HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~-----~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
.+......+.|++|++|+...-++.++.... ......+.+ +...+ +.=|+|-.+|-+.+.+
T Consensus 96 ~~~~~~~~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~s--a~~~~~v~~l~~~l~~ 161 (163)
T cd00880 96 LLELLRERGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLP-VIAVS--ALTGEGIDELREALIE 161 (163)
T ss_pred HHHHHHhcCCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCc-eEEEe--eeccCCHHHHHHHHHh
Confidence 4666677999999999998766666655442 122223343 22222 2335666666655544
No 154
>cd01020 TroA_b Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=59.39 E-value=1.1e+02 Score=27.08 Aligned_cols=35 Identities=29% Similarity=0.285 Sum_probs=27.0
Q ss_pred cccccccHHHHHHhHHHHHHHHHHHhh--cCCeEEEE
Q 042073 16 HAYLNENVALVEAGCVNLARHIANTKA--YGVNVVVA 50 (225)
Q Consensus 16 ~~l~~eN~~al~~G~~NL~~HIeNi~~--fGvpvVVA 50 (225)
++.-++|.+++.+-+.+|.+-++.+.. -+.++|+.
T Consensus 123 ~~~y~~N~~~~~~~l~~l~~~~~~~~~~~~~~~~v~~ 159 (264)
T cd01020 123 KKYYQANAKKFVASLKPLAAKIAELSAKYKGAPVAAT 159 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeEEEe
Confidence 566678999999999999999988744 34566654
No 155
>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=59.29 E-value=48 Score=25.77 Aligned_cols=65 Identities=18% Similarity=0.103 Sum_probs=36.7
Q ss_pred HHHHHHHHHhh-cCCeEEEEecCCCCCcHH--HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 32 NLARHIANTKA-YGVNVVVAVNMFATDSEA--ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 32 NL~~HIeNi~~-fGvpvVVAIN~F~~DT~~--Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
++.+.+.+... .++|+|++.|+.....+. +.+...++++..++. +..+.. +=|.|-.+|-+.+++
T Consensus 93 ~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~Sa--~~~~~v~~l~~~l~~ 160 (163)
T cd04176 93 PMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEGRALAEEWGCP-FMETSA--KSKTMVNELFAEIVR 160 (163)
T ss_pred HHHHHHHHhcCCCCCCEEEEEECccchhcCccCHHHHHHHHHHhCCE-EEEecC--CCCCCHHHHHHHHHH
Confidence 33334444332 689999999997653222 233456667777775 443333 334566666555543
No 156
>TIGR00539 hemN_rel putative oxygen-independent coproporphyrinogen III oxidase. Experimentally determined examples of oxygen-independent coproporphyrinogen III oxidase, an enzyme that replaces HemF function under anaerobic conditions, belong to a family of proteins described by the model hemN. This model, hemN_rel, models a closely related protein, shorter at the amino end and lacking the region containing the motif PYRT[SC]YP found in members of the hemN family. Several species, including E. coli, Helicobacter pylori, Aquifex aeolicus, and Chlamydia trachomatis, have members of both this family and the E. coli hemN family. The member of this family from Bacillus subtilis was shown to complement an hemF/hemN double mutant of Salmonella typimurium and to prevent accumulation of coproporphyrinogen III under anaerobic conditions, but the exact role of this protein is still uncertain. It is found in a number of species that do not synthesize heme de novo.
Probab=59.17 E-value=32 Score=31.79 Aligned_cols=65 Identities=9% Similarity=0.083 Sum_probs=42.4
Q ss_pred cccccccHHHHHHh--HHHHHHHHHHHhhcCCeEEEE--ecCCCCCcHHHHHHHHHHHHHcCCCeEEEc
Q 042073 16 HAYLNENVALVEAG--CVNLARHIANTKAYGVNVVVA--VNMFATDSEAELNAVRIAAMAAGAFDAVVC 80 (225)
Q Consensus 16 ~~l~~eN~~al~~G--~~NL~~HIeNi~~fGvpvVVA--IN~F~~DT~~Ei~~i~~~c~~~g~~~~avs 80 (225)
+..+.+-++++.++ .+...+-|++++++|++.|-. |=-+|..|.+++....+++.++++..+.+.
T Consensus 119 qS~~~~~l~~lgR~~~~~~~~~ai~~l~~~G~~~v~~dli~GlPgqt~~~~~~~l~~~~~l~~~~is~y 187 (360)
T TIGR00539 119 QSFRDDKLLFLGRQHSAKNIAPAIETALKSGIENISLDLMYGLPLQTLNSLKEELKLAKELPINHLSAY 187 (360)
T ss_pred ccCChHHHHHhCCCCCHHHHHHHHHHHHHcCCCeEEEeccCCCCCCCHHHHHHHHHHHHccCCCEEEee
Confidence 44455556666442 566777778888888764332 445678888888888888888887634333
No 157
>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=59.15 E-value=35 Score=30.04 Aligned_cols=134 Identities=16% Similarity=0.168 Sum_probs=72.5
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHH--HHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCC
Q 042073 30 CVNLARHIANTKAYGVNVVVAVNMFATDSEAEL--NAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQP 107 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei--~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~ 107 (225)
+.+|.+.+..++..++|+|+++|+-.-.++.+. +++..++ +.|.. +..++ ++=|+|-.+|-+.+. +
T Consensus 53 ~~~l~r~l~~~~~~~i~~vIV~NK~DL~~~~~~~~~~~~~~~-~~g~~-v~~~S--Aktg~gi~eLf~~l~----~---- 120 (245)
T TIGR00157 53 LNQLDRFLVVAEAQNIEPIIVLNKIDLLDDEDMEKEQLDIYR-NIGYQ-VLMTS--SKNQDGLKELIEALQ----N---- 120 (245)
T ss_pred HHHHHHHHHHHHHCCCCEEEEEECcccCCCHHHHHHHHHHHH-HCCCe-EEEEe--cCCchhHHHHHhhhc----C----
Confidence 455777777777789999999999875433333 4455554 57875 33222 344566554443321 1
Q ss_pred cccccCCCCCHHHHHHHHHh-HhccCCCCCCHHHHHHHHHHHHCCCCCCCeeEeecC-CCcCCCCCCCceEEeeEEEeec
Q 042073 108 LKFLYPSDVSIKEKIDTIAR-SYGASGVEYSEEAEKQIKMYTRQGFSGLPFCMAKTQ-HSFSHNAPTGFILPIRDVRASI 185 (225)
Q Consensus 108 f~~lY~~~~~i~eKI~~IA~-IYGA~~V~~s~~A~~~l~~~e~~G~~~lPVCmAKTq-yS~Sdd~P~~f~~~vrdv~~~~ 185 (225)
| .. +=|..+|==|-....-+.+. -.||+ .|=++++-++=|-+.+-+.++
T Consensus 121 -------------~----~~~~~G~sgvGKStLiN~L~~~~-----------~~~t~~i~~~~~~G~hTT~~~~l~~l~- 171 (245)
T TIGR00157 121 -------------R----ISVFAGQSGVGKSSLINALDPSV-----------KQQVNDISSKLGLGKHTTTHVELFHFH- 171 (245)
T ss_pred -------------C----EEEEECCCCCCHHHHHHHHhhhh-----------hccccceeccCCCCCCcCCceEEEEcC-
Confidence 0 23 66777775554433333221 12343 222233556666777777772
Q ss_pred CCceeeeecccccccCCCCCCCceeeee
Q 042073 186 GAGFIYPLVGTISTMLGLPTRPCFYEID 213 (225)
Q Consensus 186 GAgFiv~~~G~i~tMPGLpk~Paa~~id 213 (225)
| | -|...||+- .+.-.+++
T Consensus 172 ~-~-------~liDtPG~~-~~~l~~~~ 190 (245)
T TIGR00157 172 G-G-------LIADTPGFN-EFGLWHLE 190 (245)
T ss_pred C-c-------EEEeCCCcc-ccCCCCCC
Confidence 3 3 366777773 34444333
No 158
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=58.82 E-value=14 Score=35.64 Aligned_cols=39 Identities=15% Similarity=0.273 Sum_probs=28.1
Q ss_pred HHHHHHHHHHhhcCCe-EEEEecCCCCC----cHHHHHHHHHHH
Q 042073 31 VNLARHIANTKAYGVN-VVVAVNMFATD----SEAELNAVRIAA 69 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvp-vVVAIN~F~~D----T~~Ei~~i~~~c 69 (225)
....+|+.-++.+|+| +||+||+-..+ +++.++.+.+..
T Consensus 131 ~qT~eh~~~~~~~gi~~iiv~vNKmD~~~~~~~~~~~~~i~~~i 174 (446)
T PTZ00141 131 GQTREHALLAFTLGVKQMIVCINKMDDKTVNYSQERYDEIKKEV 174 (446)
T ss_pred ccHHHHHHHHHHcCCCeEEEEEEccccccchhhHHHHHHHHHHH
Confidence 4788999999999998 56999998732 345555444433
No 159
>TIGR02494 PFLE_PFLC glycyl-radical enzyme activating protein family. This subset of the radical-SAM family (pfam04055) includes a number of probable activating proteins acting on different enzymes all requiring an amino-acid-centered radical. The closest relatives to this family are the pyruvate-formate lyase activating enzyme (PflA, 1.97.1.4, TIGR02493) and the anaerobic ribonucleotide reductase activating enzyme (TIGR02491). Included within this subfamily are activators of hydroxyphenyl acetate decarboxylase (HdpA, ), benzylsuccinate synthase (BssD, ), gycerol dehydratase (DhaB2, ) as well as enzymes annotated in E. coli as activators of different isozymes of pyruvate-formate lyase (PFLC and PFLE) however, these appear to lack characterization and may activate enzymes with distinctive functions. Most of the sequence-level variability between these forms is concentrated within an N-terminal domain which follows a conserved group of three cysteines and contains a variable pattern of 0
Probab=58.71 E-value=40 Score=29.92 Aligned_cols=51 Identities=22% Similarity=0.251 Sum_probs=34.5
Q ss_pred HHHHHHHHHhhcCCeEEEEe---cCCCCCcHHHHHHHHHHHHHcC--CCeEEEcccc
Q 042073 32 NLARHIANTKAYGVNVVVAV---NMFATDSEAELNAVRIAAMAAG--AFDAVVCSHH 83 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAI---N~F~~DT~~Ei~~i~~~c~~~g--~~~~avs~~w 83 (225)
...+.|+.+.+.|.++.|.. ..| .|+++|++.+.+++++.| +..+.+...+
T Consensus 202 ~vl~~i~~l~~~~~~~~i~~~~v~~~-n~~~~ei~~l~~~~~~~~~~v~~v~l~~~~ 257 (295)
T TIGR02494 202 PILENLEALAAAGKNVVIRIPVIPGF-NDSEENIEAIAAFLRKLEPGVDEIDLLPYH 257 (295)
T ss_pred HHHHHHHHHHhCCCcEEEEeceeCCc-CCCHHHHHHHHHHHHHhccCCceEEecCCC
Confidence 34455556666788876643 233 588999999999999998 5435454433
No 160
>cd04738 DHOD_2_like Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences, their cellular location and their natural electron acceptor used to reoxidize the flavin group. Members of class 1 are cytosolic enzymes and multimers, while class 2 enzymes are membrane associated, monomeric and use respiratory quinones as their physiological electron acceptors.
Probab=58.11 E-value=1.5e+02 Score=27.17 Aligned_cols=37 Identities=11% Similarity=0.079 Sum_probs=21.3
Q ss_pred HHHHHHHHhhcCCeEEEEecCCC----CCcHHHHHHHHHHH
Q 042073 33 LARHIANTKAYGVNVVVAVNMFA----TDSEAELNAVRIAA 69 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAIN~F~----~DT~~Ei~~i~~~c 69 (225)
..+.++..+.+++|++|-|+... .+..+|+..+.+.+
T Consensus 117 ~~~~l~~~~~~~~plivsi~g~~~~~~~~~~~d~~~~~~~~ 157 (327)
T cd04738 117 VAKRLKKRRPRGGPLGVNIGKNKDTPLEDAVEDYVIGVRKL 157 (327)
T ss_pred HHHHHHHhccCCCeEEEEEeCCCCCcccccHHHHHHHHHHH
Confidence 34444444446899999998775 22245554444443
No 161
>TIGR02495 NrdG2 anaerobic ribonucleoside-triphosphate reductase activating protein. This enzyme is a member of the radical-SAM family (pfam04055). It is often gene clustered with the class III (anaerobic) ribonucleotide triphosphate reductase (NrdD, TIGR02487) and presumably fulfills the identical function as NrdG which utilizes S-adenosyl methionine, an iron-sulfur cluster and a reductant (dihydroflavodoxin) to produce a glycine-centered radical in NrdD.
Probab=57.80 E-value=28 Score=28.73 Aligned_cols=41 Identities=17% Similarity=0.200 Sum_probs=31.9
Q ss_pred HHHHHHHHHhhcCCeEEEE--ecCCCCCcHHHHHHHHHHHHHcC
Q 042073 32 NLARHIANTKAYGVNVVVA--VNMFATDSEAELNAVRIAAMAAG 73 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVA--IN~F~~DT~~Ei~~i~~~c~~~g 73 (225)
+..+-|+.+++.|+++.|. +++...| ++|++.+.+++++.|
T Consensus 141 ~~~~~i~~l~~~gi~~~i~~~v~~~~~~-~~ei~~~~~~l~~~~ 183 (191)
T TIGR02495 141 NILKSLEILLRSGIPFELRTTVHRGFLD-EEDLAEIATRIKENG 183 (191)
T ss_pred HHHHHHHHHHHcCCCEEEEEEEeCCCCC-HHHHHHHHHHhccCC
Confidence 7777888888888887665 4444555 789999999998887
No 162
>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=57.66 E-value=68 Score=25.09 Aligned_cols=67 Identities=16% Similarity=0.048 Sum_probs=37.9
Q ss_pred HHHHHHHHHh--hcCCeEEEEecCCCCCcHH--HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHH
Q 042073 32 NLARHIANTK--AYGVNVVVAVNMFATDSEA--ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRA 100 (225)
Q Consensus 32 NL~~HIeNi~--~fGvpvVVAIN~F~~DT~~--Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~ 100 (225)
++...++..+ ..++|++++.|+-.-..+. ..+...++++..+.. +..+.. ..|.+|-.++=+.+++.
T Consensus 92 ~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~-~~e~Sa-~~~~~~v~~~f~~l~~~ 162 (165)
T cd04146 92 QLKQLIREIKKRDREIPVILVGNKADLLHYRQVSTEEGEKLASELGCL-FFEVSA-AEDYDGVHSVFHELCRE 162 (165)
T ss_pred HHHHHHHHHhcCCCCCCEEEEEECCchHHhCccCHHHHHHHHHHcCCE-EEEeCC-CCCchhHHHHHHHHHHH
Confidence 3344444444 3589999999986532111 123445667777874 443333 33445666666666543
No 163
>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=57.63 E-value=54 Score=25.09 Aligned_cols=30 Identities=13% Similarity=0.190 Sum_probs=15.7
Q ss_pred HhhcCCeEEEEecCCCCCcH--HHHHHHHHHH
Q 042073 40 TKAYGVNVVVAVNMFATDSE--AELNAVRIAA 69 (225)
Q Consensus 40 i~~fGvpvVVAIN~F~~DT~--~Ei~~i~~~c 69 (225)
++..+.|+++++|+..-..+ .+++.+.+..
T Consensus 109 ~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~ 140 (174)
T cd01895 109 ILEEGKALVIVVNKWDLVEKDSKTMKEFKKEI 140 (174)
T ss_pred HHhcCCCEEEEEeccccCCccHHHHHHHHHHH
Confidence 34456777777777543222 3444444443
No 164
>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=57.54 E-value=47 Score=26.03 Aligned_cols=67 Identities=9% Similarity=0.061 Sum_probs=40.1
Q ss_pred HHHHHHHHHHhhcCCeEEEEecCCCCCcHH--HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 31 VNLARHIANTKAYGVNVVVAVNMFATDSEA--ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~--Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
.+...++......++|++|+.|+-...... ..+..+++++..+...+.. .=++=|+|-.++-+.+++
T Consensus 95 ~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e--~Sa~~~~~v~~~~~~l~~ 163 (165)
T cd01864 95 PHWIEEVEKYGASNVVLLLIGNKCDLEEQREVLFEEACTLAEKNGMLAVLE--TSAKESQNVEEAFLLMAT 163 (165)
T ss_pred HHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCcEEEE--EECCCCCCHHHHHHHHHH
Confidence 344555554455789999999986543222 2355677888777642222 223346777776666554
No 165
>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=57.43 E-value=26 Score=30.68 Aligned_cols=44 Identities=5% Similarity=-0.089 Sum_probs=28.4
Q ss_pred HHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 32 NLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
..+++++.++++|+|++|.+|+.......--+.+.+.-+..|..
T Consensus 104 ~~~~~~~~~~~~~~P~iivvNK~D~~~a~~~~~~~~i~~~~~~~ 147 (237)
T cd04168 104 QTRILWRLLRKLNIPTIIFVNKIDRAGADLEKVYQEIKEKLSSD 147 (237)
T ss_pred HHHHHHHHHHHcCCCEEEEEECccccCCCHHHHHHHHHHHHCCC
Confidence 45677788888999999999997654311123333444455664
No 166
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=57.12 E-value=22 Score=28.75 Aligned_cols=58 Identities=10% Similarity=0.099 Sum_probs=41.2
Q ss_pred cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 43 YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
.+.|+++++|+-.-. +.+.+.+.+++++.+.. .-+-..=+.=|+|-.+|-+.+.+...
T Consensus 90 ~~~~ii~v~nK~Dl~-~~~~~~~~~~~~~~~~~-~p~~~~Sa~~g~gi~~l~~~l~~~~~ 147 (158)
T PRK15467 90 VSKRQIAVISKTDMP-DADVAATRKLLLETGFE-EPIFELNSHDPQSVQQLVDYLASLTK 147 (158)
T ss_pred CCCCeEEEEEccccC-cccHHHHHHHHHHcCCC-CCEEEEECCCccCHHHHHHHHHHhch
Confidence 578999999998653 34556678888888862 11223345668898999888888764
No 167
>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=57.01 E-value=1e+02 Score=26.31 Aligned_cols=106 Identities=11% Similarity=0.005 Sum_probs=63.9
Q ss_pred HHHHHHHHHHHhh----cCCeEEEEecCCCCCcHHH--HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhc
Q 042073 30 CVNLARHIANTKA----YGVNVVVAVNMFATDSEAE--LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACEN 103 (225)
Q Consensus 30 ~~NL~~HIeNi~~----fGvpvVVAIN~F~~DT~~E--i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~ 103 (225)
|.++...++.+++ .++|++++.|+-.-....+ .+...+++...++. +..+. +.=|.|-.+|=+.+++.+..
T Consensus 88 ~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~~~~-~~e~S--A~~~~gv~~l~~~l~~~~~~ 164 (221)
T cd04148 88 FERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRACAVVFDCK-FIETS--AGLQHNVDELLEGIVRQIRL 164 (221)
T ss_pred HHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHHHHHHHHHHcCCe-EEEec--CCCCCCHHHHHHHHHHHHHh
Confidence 5555555555544 4799999999875422222 23345667777775 43322 34457777887777776642
Q ss_pred CCCCcccccCCCCCHHHHHHHHHh-HhccCCCCCCHHHHHHHHHHHH
Q 042073 104 VTQPLKFLYPSDVSIKEKIDTIAR-SYGASGVEYSEEAEKQIKMYTR 149 (225)
Q Consensus 104 ~~~~f~~lY~~~~~i~eKI~~IA~-IYGA~~V~~s~~A~~~l~~~e~ 149 (225)
. ...+..=+. . -. .|.+........|++.|.++-.
T Consensus 165 ~-~~~~~~~~~---~-------~~~~~~~r~~~~~~~a~~~l~~~~~ 200 (221)
T cd04148 165 R-RDSKEKNER---R-------SRRAYRGRRESLTSKAKRFLGKLVA 200 (221)
T ss_pred h-hccccccCc---c-------ccccccCccchHHHHHHHHHHHHhc
Confidence 1 111111010 0 24 7888888888899988888765
No 168
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type. The N-terminal region of about 200 amino acids is rich in low-complexity sequence, poorly alignable, and not included n this model.
Probab=56.98 E-value=42 Score=36.84 Aligned_cols=152 Identities=16% Similarity=0.135 Sum_probs=81.7
Q ss_pred HHHHhhcCCeEEEEec-CCCCCcHHHHHHHHHHHHHcCCCeEEE-------ccc-----------cccCch-h----hHH
Q 042073 37 IANTKAYGVNVVVAVN-MFATDSEAELNAVRIAAMAAGAFDAVV-------CSH-----------HAHGGK-G----AVD 92 (225)
Q Consensus 37 IeNi~~fGvpvVVAIN-~F~~DT~~Ei~~i~~~c~~~g~~~~av-------s~~-----------wa~GG~-G----a~~ 92 (225)
++-.+++|+|+|..=+ +|..-.|.+..-+....+..+-. ..- .+. |+.=++ - +++
T Consensus 491 ~~la~~~~~p~VaT~dvhyl~~~D~~~~~il~~~~~~~~~-~~~~~~~~~~~~~y~~t~~EM~~~F~~l~~~~a~e~~i~ 569 (1213)
T TIGR01405 491 IELAKELNKPVVATGDVHYIEPEDKIYRKILVASQGLGNP-LNRHFNPKEVPELHFRTTNEMLDEFSFLGEEKAYEIVVE 569 (1213)
T ss_pred HHHHHHhCCCEEEeCCccccChhhHHHHHHHHhhhccCCc-ccccccccCCcccccCCHHHHHHHHhhcchhhhhHHHHH
Confidence 3444679999877766 57766677666665543321211 110 011 222122 1 222
Q ss_pred HHHHHHHHhhc-CCC---CcccccCCCCCHHHHHHHH----Hh-HhccCC-CCCCHHHHHHHHHHHHCCCCCCCeeEee-
Q 042073 93 LGIAVQRACEN-VTQ---PLKFLYPSDVSIKEKIDTI----AR-SYGASG-VEYSEEAEKQIKMYTRQGFSGLPFCMAK- 161 (225)
Q Consensus 93 LA~~Vv~~~e~-~~~---~f~~lY~~~~~i~eKI~~I----A~-IYGA~~-V~~s~~A~~~l~~~e~~G~~~lPVCmAK- 161 (225)
=..++.+.|+. .+. .+-|-+ .+-++.++.+ |+ .||..- =.+.+...++|+-|.++||..+-.-+.+
T Consensus 570 Nt~~IA~~c~~~~~~~~~~~~P~~---~~~~~~L~~l~~~~~~~~yg~~l~~~v~~RLe~EL~~I~~~gf~~yfLIv~dl 646 (1213)
T TIGR01405 570 NTNKIADQIEEIQPIKDKLYTPKI---EGADEKIRDLTYENAKKIYGDPLPEIVEQRIEKELKSIIGNGFAVIYLISQLL 646 (1213)
T ss_pred HHHHHHHHhhcccccCCCCCCCCC---CCHHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHHHhCCCchhHHHHHHH
Confidence 23344555542 111 122333 3456777777 67 898641 1245666778888999999988776655
Q ss_pred cCCCcCCC---CCCCceEEeeEEEeecCCceeeeecccccccCCC
Q 042073 162 TQHSFSHN---APTGFILPIRDVRASIGAGFIYPLVGTISTMLGL 203 (225)
Q Consensus 162 TqyS~Sdd---~P~~f~~~vrdv~~~~GAgFiv~~~G~i~tMPGL 203 (225)
..+|-++. -|+| ++||=+||++=.|...==|
T Consensus 647 V~~a~~~gi~VG~RG-----------S~agSlVAy~lgITeVdPL 680 (1213)
T TIGR01405 647 VQKSLQDGYLVGSRG-----------SVGSSLVATMTGITEVNPL 680 (1213)
T ss_pred HHHHHHCCceECCCC-----------cHHHHHHHHHhcCCCcCCC
Confidence 45666666 4455 4455555554445444333
No 169
>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=56.78 E-value=95 Score=24.38 Aligned_cols=27 Identities=15% Similarity=0.121 Sum_probs=16.9
Q ss_pred HHHHHHH-HHHHhh--cCCeEEEEecCCCC
Q 042073 30 CVNLARH-IANTKA--YGVNVVVAVNMFAT 56 (225)
Q Consensus 30 ~~NL~~H-IeNi~~--fGvpvVVAIN~F~~ 56 (225)
|.|+..+ ++.+++ -++|+|++.|+...
T Consensus 88 ~~~~~~~~~~~~~~~~~~~piilv~nK~Dl 117 (175)
T cd01870 88 LENIPEKWTPEVKHFCPNVPIILVGNKKDL 117 (175)
T ss_pred HHHHHHHHHHHHHhhCCCCCEEEEeeChhc
Confidence 4555432 233343 38999999999764
No 170
>PF07485 DUF1529: Domain of Unknown Function (DUF1259); InterPro: IPR011094 This family is the lppY/lpqO homologue family. They are related to 'probable conserved lipoproteins' LppY and LpqO from Mycobacterium bovis.
Probab=56.77 E-value=30 Score=28.11 Aligned_cols=45 Identities=24% Similarity=0.198 Sum_probs=37.5
Q ss_pred cHHHHHHHHHHHHHcCCCeEEEcccccc-----------CchhhHHHHHHHHHHhh
Q 042073 58 SEAELNAVRIAAMAAGAFDAVVCSHHAH-----------GGKGAVDLGIAVQRACE 102 (225)
Q Consensus 58 T~~Ei~~i~~~c~~~g~~~~avs~~wa~-----------GG~Ga~~LA~~Vv~~~e 102 (225)
+++|++-+.+...+.|+.-.++.+||-. |=.-+.+||++|-++++
T Consensus 66 l~~EV~pvi~aL~~~GI~vtAlHNH~l~e~Prl~ymH~~~~gdp~~lA~~vr~Ald 121 (123)
T PF07485_consen 66 LEDEVNPVISALRKNGIEVTALHNHWLFEQPRLFYMHIWGVGDPAKLARKVRAALD 121 (123)
T ss_pred cHHHHHHHHHHHHHCCceEEEEecccccCCCCEEEEEEEecCCHHHHHHHHHHHHh
Confidence 6899999999999999988899999864 34457889999888875
No 171
>COG0274 DeoC Deoxyribose-phosphate aldolase [Nucleotide transport and metabolism]
Probab=56.77 E-value=73 Score=28.73 Aligned_cols=72 Identities=18% Similarity=0.148 Sum_probs=53.4
Q ss_pred ccHHHHHHh-HHHHHHHHHHHhh-cCCe-EEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHH
Q 042073 21 ENVALVEAG-CVNLARHIANTKA-YGVN-VVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVD 92 (225)
Q Consensus 21 eN~~al~~G-~~NL~~HIeNi~~-fGvp-vVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~ 92 (225)
-|+.+|+.| +.=+.+-|.-+++ -+=+ +|=+|=-..-=|++|+....+.|.+.|+..+=-|+.|..||.--.+
T Consensus 98 inig~~k~g~~~~V~~eI~~v~~a~~~~~~lKVIlEt~~Lt~ee~~~A~~i~~~aGAdFVKTSTGf~~~gAT~ed 172 (228)
T COG0274 98 INIGALKSGNWEAVEREIRAVVEACADAVVLKVILETGLLTDEEKRKACEIAIEAGADFVKTSTGFSAGGATVED 172 (228)
T ss_pred eeHHHHhcCCHHHHHHHHHHHHHHhCCCceEEEEEeccccCHHHHHHHHHHHHHhCCCEEEcCCCCCCCCCCHHH
Confidence 588888888 6677778887776 4432 4444555666788999999999999999856678889977665444
No 172
>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase. This model respresents the cobalamin-dependent oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.
Probab=56.64 E-value=28 Score=33.90 Aligned_cols=62 Identities=8% Similarity=0.055 Sum_probs=48.2
Q ss_pred cccccccHHHHHHhHH--HHHHHHHHHhhcCCeEEEE-ecCCCCCcHHHHHHHHHHHHHcCCCeE
Q 042073 16 HAYLNENVALVEAGCV--NLARHIANTKAYGVNVVVA-VNMFATDSEAELNAVRIAAMAAGAFDA 77 (225)
Q Consensus 16 ~~l~~eN~~al~~G~~--NL~~HIeNi~~fGvpvVVA-IN~F~~DT~~Ei~~i~~~c~~~g~~~~ 77 (225)
+..+++.++.+.||.. ...+-|+.+++.|+.+.+- |==||.+|.++++...+++.+.+...+
T Consensus 306 ES~~~~~L~~~~K~~t~~~~~~ai~~l~~~Gi~~~~~~I~G~P~et~e~~~~t~~~~~~l~~~~~ 370 (497)
T TIGR02026 306 EAAAQATLDHFRKGTTTSTNKEAIRLLRQHNILSEAQFITGFENETDETFEETYRQLLDWDPDQA 370 (497)
T ss_pred ccCCHHHHHHhcCCCCHHHHHHHHHHHHHCCCcEEEEEEEECCCCCHHHHHHHHHHHHHcCCCce
Confidence 5566788888888762 3446678888899987654 335899999999999999999998633
No 173
>PRK12299 obgE GTPase CgtA; Reviewed
Probab=56.40 E-value=68 Score=29.84 Aligned_cols=58 Identities=21% Similarity=0.141 Sum_probs=37.5
Q ss_pred cCCeEEEEecCCCCCcHHHH--HHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhc
Q 042073 43 YGVNVVVAVNMFATDSEAEL--NAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACEN 103 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~~Ei--~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~ 103 (225)
.+.|++|++|+...-..+++ +.+..++.+.+.. +..+. +.=|+|-.+|-+.+.+.+.+
T Consensus 270 ~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~~~~-i~~iS--Aktg~GI~eL~~~L~~~l~~ 329 (335)
T PRK12299 270 ADKPRILVLNKIDLLDEEEEREKRAALELAALGGP-VFLIS--AVTGEGLDELLRALWELLEE 329 (335)
T ss_pred ccCCeEEEEECcccCCchhHHHHHHHHHHHhcCCC-EEEEE--cCCCCCHHHHHHHHHHHHHh
Confidence 36899999999875333332 2345556666665 43333 34568888888888877754
No 174
>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=56.18 E-value=46 Score=27.58 Aligned_cols=69 Identities=14% Similarity=0.053 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHhhc--CCeEEEEecCCCCCcHH--HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 30 CVNLARHIANTKAY--GVNVVVAVNMFATDSEA--ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 30 ~~NL~~HIeNi~~f--GvpvVVAIN~F~~DT~~--Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
|.++.+.++.++.+ .+|++|++|+..--... ..+...+++++.+.. +. +.=+.=|.|-.+|=+.+++.+
T Consensus 94 ~~~~~~~~~~i~~~~~~~piivVgNK~Dl~~~~~~~~~~~~~~~~~~~~~-~~--e~Sa~~~~gi~~lf~~l~~~~ 166 (199)
T cd04110 94 FVNVKRWLQEIEQNCDDVCKVLVGNKNDDPERKVVETEDAYKFAGQMGIS-LF--ETSAKENINVEEMFNCITELV 166 (199)
T ss_pred HHHHHHHHHHHHHhCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCE-EE--EEECCCCcCHHHHHHHHHHHH
Confidence 34455555555442 58999999997643221 224556777777875 33 334456778888777766654
No 175
>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=56.11 E-value=63 Score=26.22 Aligned_cols=69 Identities=12% Similarity=0.001 Sum_probs=36.7
Q ss_pred HHHHH-HHHHHHhhc--CCeEEEEecCCCCCcHHHH--------------HHHHHHHHHcCCCeEEEccccccCchhhHH
Q 042073 30 CVNLA-RHIANTKAY--GVNVVVAVNMFATDSEAEL--------------NAVRIAAMAAGAFDAVVCSHHAHGGKGAVD 92 (225)
Q Consensus 30 ~~NL~-~HIeNi~~f--GvpvVVAIN~F~~DT~~Ei--------------~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~ 92 (225)
|.|+. +.++-++++ ++|+|++.|+..-..++|+ +..++++++.+...+. +.=++=|+|-.+
T Consensus 88 ~~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~--e~SA~tg~~v~~ 165 (175)
T cd01874 88 FENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYV--ECSALTQKGLKN 165 (175)
T ss_pred HHHHHHHHHHHHHHhCCCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEE--EecCCCCCCHHH
Confidence 55554 345555443 7999999998754222221 1223455555531132 233355577777
Q ss_pred HHHHHHHH
Q 042073 93 LGIAVQRA 100 (225)
Q Consensus 93 LA~~Vv~~ 100 (225)
+-+.++.+
T Consensus 166 ~f~~~~~~ 173 (175)
T cd01874 166 VFDEAILA 173 (175)
T ss_pred HHHHHHHH
Confidence 66666653
No 176
>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=55.97 E-value=44 Score=25.88 Aligned_cols=67 Identities=18% Similarity=0.147 Sum_probs=43.3
Q ss_pred HHHHHHHHHhhcCCeEEEEecCCCCCcHHHH--HHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 32 NLARHIANTKAYGVNVVVAVNMFATDSEAEL--NAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei--~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
++...|+.....+.|+||+-|+-..+.+.++ +.++++|++.++. +..+. ++=|.|-.++-..+++.+
T Consensus 92 ~~~~~i~~~~~~~~~iivvg~K~D~~~~~~v~~~~~~~~~~~~~~~-~~e~S--a~~~~~v~~~f~~~i~~i 160 (162)
T PF00071_consen 92 KWLEEIQKYKPEDIPIIVVGNKSDLSDEREVSVEEAQEFAKELGVP-YFEVS--AKNGENVKEIFQELIRKI 160 (162)
T ss_dssp HHHHHHHHHSTTTSEEEEEEETTTGGGGSSSCHHHHHHHHHHTTSE-EEEEB--TTTTTTHHHHHHHHHHHH
T ss_pred cccccccccccccccceeeeccccccccccchhhHHHHHHHHhCCE-EEEEE--CCCCCCHHHHHHHHHHHH
Confidence 3334444444446899999998765543333 4578899999975 54443 555678777777766654
No 177
>TIGR02127 pyrF_sub2 orotidine 5'-phosphate decarboxylase, subfamily 2. This model represents orotidine 5'-monophosphate decarboxylase, the PyrF protein of pyrimidine nucleotide biosynthesis. See TIGR01740 for a related but distinct subfamily of the same enzyme.
Probab=55.90 E-value=1.1e+02 Score=27.62 Aligned_cols=124 Identities=19% Similarity=0.145 Sum_probs=79.7
Q ss_pred cccHHHHHH----hHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHH
Q 042073 20 NENVALVEA----GCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGI 95 (225)
Q Consensus 20 ~eN~~al~~----G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~ 95 (225)
+.|++..++ |+.=|++=++.+++.|.+|+.=+-++.--+-.+ ...+.+.+..|+. +. ++..-+|..++.=+.
T Consensus 58 K~g~~lf~~~G~~gi~~l~~~~~~~~~~g~~VilD~K~~DIpnTv~-~~a~a~~~~~g~D-~v--Tvh~~~G~d~l~~~~ 133 (261)
T TIGR02127 58 KPQVAFFERFGSEGFKALEEVIAHARSLGLPVLADVKRGDIGSTAS-AYAKAWLGHLHAD-AL--TVSPYLGLDSLRPFL 133 (261)
T ss_pred ecCHHHHHhcCHHHHHHHHHHHHHHHHCCCeEEEEeeccChHHHHH-HHHHHHHhhcCCC-EE--EECCcCCHHHHHHHH
Confidence 355555443 466677777888889999988888876653343 4666666578885 43 456788877776554
Q ss_pred HHHHH--------hhc-CCC--Ccccc-cCCCCCHHHHHHHHHh-Hh------ccCCCCC---CHHHHHHHHHH
Q 042073 96 AVQRA--------CEN-VTQ--PLKFL-YPSDVSIKEKIDTIAR-SY------GASGVEY---SEEAEKQIKMY 147 (225)
Q Consensus 96 ~Vv~~--------~e~-~~~--~f~~l-Y~~~~~i~eKI~~IA~-IY------GA~~V~~---s~~A~~~l~~~ 147 (225)
+..+. +.. ++. .|+-+ .+...++.+.+-..|+ .. |.++|+- |++..+.|++.
T Consensus 134 ~~~~~~~~~v~VlvlTSnp~~~~lq~~~~~~~~~~~~~V~~~a~~~~~~~~~~g~~GvV~gAT~p~e~~~iR~~ 207 (261)
T TIGR02127 134 EYARANGAGIFVLVKTSNPGGADLQDLRVSDGRTVYEEVAELAGELNESPGDCSSVGAVVGATSPGDLLRLRIE 207 (261)
T ss_pred HHHhhcCCEEEEEEeCCCCCHHHHhhhhccCCCCHHHHHHHHHHHhccccCcCCceEEEECCCCHHHHHHHHHh
Confidence 44321 110 111 24321 1223389999999999 75 6789999 88877777764
No 178
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=55.83 E-value=48 Score=26.74 Aligned_cols=60 Identities=17% Similarity=0.148 Sum_probs=30.8
Q ss_pred HHhhcCCeEEEEecCCCCCcHHHHHHH----HHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 39 NTKAYGVNVVVAVNMFATDSEAELNAV----RIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 39 Ni~~fGvpvVVAIN~F~~DT~~Ei~~i----~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
.++.+++|+++++|+....+..|.+.+ +++....... +. ..=+.-|+|..+|-+.+.+.+
T Consensus 130 ~l~~~~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~~~~-~~--~~Sa~~~~gi~~l~~~i~~~~ 193 (196)
T PRK00454 130 WLKEYGIPVLIVLTKADKLKKGERKKQLKKVRKALKFGDDE-VI--LFSSLKKQGIDELRAAIAKWL 193 (196)
T ss_pred HHHHcCCcEEEEEECcccCCHHHHHHHHHHHHHHHHhcCCc-eE--EEEcCCCCCHHHHHHHHHHHh
Confidence 345567777777777666555554432 2333322333 22 222344566666665555544
No 179
>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=55.83 E-value=35 Score=27.18 Aligned_cols=59 Identities=15% Similarity=0.034 Sum_probs=39.2
Q ss_pred hcCCeEEEEecCCCCCcHHH--HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhc
Q 042073 42 AYGVNVVVAVNMFATDSEAE--LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACEN 103 (225)
Q Consensus 42 ~fGvpvVVAIN~F~~DT~~E--i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~ 103 (225)
..++|+|+++|+.....+.+ .+.+.+++++.+.. +..+. +.=|+|-.++-+.+++.+..
T Consensus 104 ~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~S--a~~~~gv~~l~~~l~~~~~~ 164 (180)
T cd04137 104 KESVPIVLVGNKSDLHTQRQVSTEEGKELAESWGAA-FLESS--ARENENVEEAFELLIEEIEK 164 (180)
T ss_pred CCCCCEEEEEEchhhhhcCccCHHHHHHHHHHcCCe-EEEEe--CCCCCCHHHHHHHHHHHHHH
Confidence 36899999999987653332 22345667777765 44443 34466888888888877664
No 180
>cd07062 Peptidase_S66_mccF_like Microcin C7 self-immunity protein determines resistance to exogenous microcin C7. Microcin C7 self-immunity protein (mccF): MccF, a homolog of the LD-carboxypeptidase family, mediates resistance against exogenously added microcin C7 (MccC7), a ribosomally-encoded peptide antibiotic that contains a phosphoramidate linkage to adenosine monophosphate at its C-terminus. The plasmid-encoded mccF gene is transcribed in the opposite direction to the other five genes (mccA-E) and is required for the full expression of immunity but not for production. The catalytic triad residues (Ser, His, Glu) of LD-carboxypeptidase are also conserved in MccF, strongly suggesting that MccF shares the hydrolytic activity with LD-carboxypeptidases. Substrates of MccF have not been deduced, but could likely be microcin C7 precursors. The possible role of MccF is to defend producer cells against exogenous microcin from re-entering after having been exported. It is suggested that M
Probab=55.82 E-value=35 Score=31.16 Aligned_cols=96 Identities=17% Similarity=0.180 Sum_probs=58.9
Q ss_pred HHHHHHHHHhhcCCeEEEEecCCCC------CcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHH-HHhhcC
Q 042073 32 NLARHIANTKAYGVNVVVAVNMFAT------DSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQ-RACENV 104 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN~F~~------DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv-~~~e~~ 104 (225)
++++=++++++.|..||+.=|.+.. ..++-.+.|.++...-.+. +++| ..||.|+..|...+= +.+.++
T Consensus 19 ~~~~~~~~L~~~G~~v~~~~~~~~~~~~~ag~~~~Ra~dL~~a~~Dp~i~-aI~~---~rGG~g~~rlL~~lD~~~i~~~ 94 (308)
T cd07062 19 RLERAKKRLENLGFEVVEGPNALKGDKYLSASPEERAEELMAAFADPSIK-AIIP---TIGGDDSNELLPYLDYELIKKN 94 (308)
T ss_pred HHHHHHHHHHhCCCEEEEecccccccccccCCHHHHHHHHHHHhcCCCCC-EEEE---CCcccCHhhhhhhcCHHHHhhC
Confidence 4444456667789999998886443 3455566777777777886 7766 679999999988752 334333
Q ss_pred CCCcccccCCCCCHHHHHHHH---HhHhccC
Q 042073 105 TQPLKFLYPSDVSIKEKIDTI---ARSYGAS 132 (225)
Q Consensus 105 ~~~f~~lY~~~~~i~eKI~~I---A~IYGA~ 132 (225)
|+ .=.=|.+-..|--=+.+- +++||--
T Consensus 95 PK-~fiGySDiTaL~~al~~~~g~~t~hGp~ 124 (308)
T cd07062 95 PK-IFIGYSDITALHLAIYKKTGLVTYYGPN 124 (308)
T ss_pred CC-EEEeccHHHHHHHHHHHhcCCeEEECcc
Confidence 32 223355544444444322 2266653
No 181
>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=55.68 E-value=46 Score=25.94 Aligned_cols=54 Identities=19% Similarity=0.124 Sum_probs=31.5
Q ss_pred cCCeEEEEecCCCCCcHHHH-HHHHHHHHHc-CCCeEEEccccccCchhhHHHHHHHHH
Q 042073 43 YGVNVVVAVNMFATDSEAEL-NAVRIAAMAA-GAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~~Ei-~~i~~~c~~~-g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
.+.|+++++|+..-....++ +.+.++.++. +.. +..+ =++-|.|-.+|-+.+.+
T Consensus 113 ~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~--Sa~~~~gi~~l~~~i~~ 168 (170)
T cd01898 113 LEKPRIVVLNKIDLLDEEELFELLKELLKELWGKP-VFPI--SALTGEGLDELLRKLAE 168 (170)
T ss_pred cccccEEEEEchhcCCchhhHHHHHHHHhhCCCCC-EEEE--ecCCCCCHHHHHHHHHh
Confidence 47999999999775333332 3455555553 554 3333 23456777776666554
No 182
>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=55.44 E-value=34 Score=30.55 Aligned_cols=25 Identities=8% Similarity=0.259 Sum_probs=18.8
Q ss_pred HHHHHHHHhhcCCeEEEEecCCCCC
Q 042073 33 LARHIANTKAYGVNVVVAVNMFATD 57 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAIN~F~~D 57 (225)
.+++++-++.+++|++|++|+....
T Consensus 112 ~~~i~~~~~~~~~P~iivvNK~D~~ 136 (267)
T cd04169 112 TRKLFEVCRLRGIPIITFINKLDRE 136 (267)
T ss_pred HHHHHHHHHhcCCCEEEEEECCccC
Confidence 3455666677899999999998643
No 183
>COG0535 Predicted Fe-S oxidoreductases [General function prediction only]
Probab=55.25 E-value=46 Score=29.41 Aligned_cols=50 Identities=22% Similarity=0.136 Sum_probs=38.9
Q ss_pred hHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEE
Q 042073 29 GCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVV 79 (225)
Q Consensus 29 G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~av 79 (225)
-+.+..+-|++++..|+++++..+.. ..+..|++.+.+++.++|+....+
T Consensus 143 ~~~~~~~~i~~~~~~g~~~~~~~~v~-~~n~~~l~~~~~~~~~~g~~~~~~ 192 (347)
T COG0535 143 VFKRAVEAIKNLKEAGILVVINTTVT-KINYDELPEIADLAAELGVDELNV 192 (347)
T ss_pred HHHHHHHHHHHHHHcCCeeeEEEEEe-cCcHHHHHHHHHHHHHcCCCEEEE
Confidence 46788888999999999865555544 567889999999999999854433
No 184
>PRK00507 deoxyribose-phosphate aldolase; Provisional
Probab=55.24 E-value=60 Score=28.57 Aligned_cols=67 Identities=16% Similarity=0.108 Sum_probs=42.4
Q ss_pred cHHHHHH-hHHHHHHHHHHHhh--cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchh
Q 042073 22 NVALVEA-GCVNLARHIANTKA--YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKG 89 (225)
Q Consensus 22 N~~al~~-G~~NL~~HIeNi~~--fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~G 89 (225)
|+.++.. .+..+..-|.-++. -++++=|.|. -+.=|++|+..+.+.|.+.|+..+..|+.|..||.-
T Consensus 96 n~~~~~~g~~~~v~~ei~~v~~~~~~~~lKvIlE-t~~L~~e~i~~a~~~~~~agadfIKTsTG~~~~gat 165 (221)
T PRK00507 96 NIGALKSGDWDAVEADIRAVVEAAGGAVLKVIIE-TCLLTDEEKVKACEIAKEAGADFVKTSTGFSTGGAT 165 (221)
T ss_pred cHHHhcCCCHHHHHHHHHHHHHhcCCceEEEEee-cCcCCHHHHHHHHHHHHHhCCCEEEcCCCCCCCCCC
Confidence 4444444 34555555555554 2443333333 122257899999999999999877788999877743
No 185
>PRK13762 tRNA-modifying enzyme; Provisional
Probab=55.16 E-value=38 Score=31.32 Aligned_cols=49 Identities=4% Similarity=-0.061 Sum_probs=37.0
Q ss_pred hHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeE
Q 042073 29 GCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDA 77 (225)
Q Consensus 29 G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~ 77 (225)
.+.++.+-|+.++++|.++++-+--.+.-++.|++.+.+++++.|+..+
T Consensus 206 ~~~~vl~~L~~l~~~~~~~~ir~tlv~g~Nd~e~~~~a~l~~~~~~~~I 254 (322)
T PRK13762 206 AWERILETLELLPSKKTRTVIRITLVKGYNMHDPEGFAKLIERANPDFV 254 (322)
T ss_pred cHHHHHHHHHHHHhCCCCEEEEEEEECCcCccHHHHHHHHHHHcCCCEE
Confidence 4778888888888999998887665554455555588899999998633
No 186
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=55.10 E-value=58 Score=32.93 Aligned_cols=72 Identities=21% Similarity=0.180 Sum_probs=45.6
Q ss_pred HHHHHHHHHHhhcCCeE-EEEecCCCCCcHHHHH----HHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 31 VNLARHIANTKAYGVNV-VVAVNMFATDSEAELN----AVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpv-VVAIN~F~~DT~~Ei~----~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
+.-..|++-++.+|+|. ||++|+..--++++++ .+++++++.|...+-+-.+=+.-|+|-.+|-+.+.+...
T Consensus 90 ~qT~ehl~il~~lgi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii~VSA~tG~gI~~L~~~L~~~~~ 166 (614)
T PRK10512 90 AQTREHLAILQLTGNPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLFVTAATEGRGIDALREHLLQLPE 166 (614)
T ss_pred HHHHHHHHHHHHcCCCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEeCCCCCCCHHHHHHHHHhhc
Confidence 45567888889999995 7999998764455544 345555555531111222334457888888888776543
No 187
>TIGR00284 dihydropteroate synthase-related protein. This protein has been found so far only in the Archaea, and in particular in those archaea that lack a bacterial-type dihydropteroate synthase. The central region of this protein shows considerable homology to the amino-terminal half of dihydropteroate synthases, while the carboxyl-terminal region shows homology to the small, uncharacterized protein slr0651 of Synechocystis PCC6803.
Probab=54.78 E-value=64 Score=32.04 Aligned_cols=70 Identities=16% Similarity=0.134 Sum_probs=52.7
Q ss_pred HHHHHHHHh----hcCCeEEEEecCC----CCCcHHHHHHHHHHHHHcCCCeEEEccc---cccCchhhHHHHHHHHHHh
Q 042073 33 LARHIANTK----AYGVNVVVAVNMF----ATDSEAELNAVRIAAMAAGAFDAVVCSH---HAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 33 L~~HIeNi~----~fGvpvVVAIN~F----~~DT~~Ei~~i~~~c~~~g~~~~avs~~---wa~GG~Ga~~LA~~Vv~~~ 101 (225)
+.++++.++ .||.|+++.+... +.|+..=-.++.-+|.++|+. .....- |++|+--...-|.++..++
T Consensus 296 l~~sL~~l~~~r~~~~~Pil~GvSNvtel~daDs~g~naal~~~a~e~Ga~-ilrvhd~S~k~r~sV~E~~~A~~m~~~~ 374 (499)
T TIGR00284 296 LLESIIRFRRASRLLNVPLVFGAANVTELVDADSHGVNALLAAIALEAGAS-ILYVVEDSYKSYRSTAEAAEAAKMASAA 374 (499)
T ss_pred HHHHHHHHHHHHHhcCCcEEEeeccccCCCccchhHHHHHHHHHHHHcCCC-EEEEcCCcccccccHHHHHHHHHHHHHH
Confidence 566677776 4899999999544 445555555667789999997 555544 8999998888899988887
Q ss_pred hc
Q 042073 102 EN 103 (225)
Q Consensus 102 e~ 103 (225)
..
T Consensus 375 ~~ 376 (499)
T TIGR00284 375 RK 376 (499)
T ss_pred Hh
Confidence 64
No 188
>PRK00098 GTPase RsgA; Reviewed
Probab=54.75 E-value=36 Score=30.80 Aligned_cols=60 Identities=22% Similarity=0.240 Sum_probs=39.2
Q ss_pred HHHHHHHHhhcCCeEEEEecCCCC-CcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHH
Q 042073 33 LARHIANTKAYGVNVVVAVNMFAT-DSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGI 95 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAIN~F~~-DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~ 95 (225)
+.|-+..++..++|+|+++|+-.- +..++++...+++++.|.. +...+. .=|+|-.+|.+
T Consensus 100 idr~L~~~~~~~ip~iIVlNK~DL~~~~~~~~~~~~~~~~~g~~-v~~vSA--~~g~gi~~L~~ 160 (298)
T PRK00098 100 LDRFLVLAEANGIKPIIVLNKIDLLDDLEEARELLALYRAIGYD-VLELSA--KEGEGLDELKP 160 (298)
T ss_pred HHHHHHHHHHCCCCEEEEEEhHHcCCCHHHHHHHHHHHHHCCCe-EEEEeC--CCCccHHHHHh
Confidence 456667777789999999999765 3455566666777778885 433222 33556555543
No 189
>PRK12288 GTPase RsgA; Reviewed
Probab=54.68 E-value=46 Score=31.20 Aligned_cols=129 Identities=17% Similarity=0.128 Sum_probs=70.0
Q ss_pred HHHHHHHHHHhhcCCeEEEEecCCCCCcHHH---HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCC
Q 042073 31 VNLARHIANTKAYGVNVVVAVNMFATDSEAE---LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQP 107 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~E---i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~ 107 (225)
..|.|-+..+...|+|+|+++|+-.-.++++ ++...+..++.|+.-+.+| +.=|+|-.+|.+.+..
T Consensus 137 ~~Ldr~L~~a~~~~i~~VIVlNK~DL~~~~~~~~~~~~~~~y~~~g~~v~~vS---A~tg~GideL~~~L~~-------- 205 (347)
T PRK12288 137 NIIDRYLVACETLGIEPLIVLNKIDLLDDEGRAFVNEQLDIYRNIGYRVLMVS---SHTGEGLEELEAALTG-------- 205 (347)
T ss_pred HHHHHHHHHHHhcCCCEEEEEECccCCCcHHHHHHHHHHHHHHhCCCeEEEEe---CCCCcCHHHHHHHHhh--------
Confidence 3556666666678999999999987755544 3333344456787523233 3445665555544321
Q ss_pred cccccCCCCCHHHHHHHHHh-HhccCCCCCCHHHHHHHHHHHHCCCCCCCeeEeecCC-CcCCCCCCCceEEeeEEEeec
Q 042073 108 LKFLYPSDVSIKEKIDTIAR-SYGASGVEYSEEAEKQIKMYTRQGFSGLPFCMAKTQH-SFSHNAPTGFILPIRDVRASI 185 (225)
Q Consensus 108 f~~lY~~~~~i~eKI~~IA~-IYGA~~V~~s~~A~~~l~~~e~~G~~~lPVCmAKTqy-S~Sdd~P~~f~~~vrdv~~~~ 185 (225)
| + . +=|..+|==|...-.=+ | =...||.- |=++++=++-|-+.+-+.+..
T Consensus 206 -------------k---i-~~~vG~sgVGKSTLiN~Ll------~-----~~~~~t~~is~~~~rGrHTT~~~~l~~l~~ 257 (347)
T PRK12288 206 -------------R---I-SIFVGQSGVGKSSLINALL------P-----EAEILVGDVSDNSGLGQHTTTAARLYHFPH 257 (347)
T ss_pred -------------C---C-EEEECCCCCCHHHHHHHhc------c-----ccceeeccccCcCCCCcCceeeEEEEEecC
Confidence 0 1 3 66777773332221111 1 12235532 222335555566666677765
Q ss_pred CCceeeeecccccccCCCCCC
Q 042073 186 GAGFIYPLVGTISTMLGLPTR 206 (225)
Q Consensus 186 GAgFiv~~~G~i~tMPGLpk~ 206 (225)
| |.|+..||+..-
T Consensus 258 ~--------~~liDTPGir~~ 270 (347)
T PRK12288 258 G--------GDLIDSPGVREF 270 (347)
T ss_pred C--------CEEEECCCCCcc
Confidence 4 347788887653
No 190
>cd01821 Rhamnogalacturan_acetylesterase_like Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are highly branched regions in pectic polysaccharides, consisting of repeating -(1,2)-L-Rha-(1,4)-D-GalUA disaccharide units, with many rhamnose residues substituted by neutral oligosaccharides such as arabinans, galactans and arabinogalactans. Extracellular enzymes participating in the degradation of plant cell wall polymers, such as Rhamnogalacturonan acetylesterase, would typically be found in saprophytic and plant pathogenic fungi and bacteria.
Probab=54.65 E-value=1.1e+02 Score=25.05 Aligned_cols=52 Identities=15% Similarity=0.082 Sum_probs=32.1
Q ss_pred ccHHHHHHhHHHHHHHHHHHhhcCCeEEEE----ecCCCC------CcHHHHHHHHHHHHHcCCC
Q 042073 21 ENVALVEAGCVNLARHIANTKAYGVNVVVA----VNMFAT------DSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 21 eN~~al~~G~~NL~~HIeNi~~fGvpvVVA----IN~F~~------DT~~Ei~~i~~~c~~~g~~ 75 (225)
..++..++.+.++.+ .+++.|..+|+. .+.|.. +..+=-+.+++.|++.|+.
T Consensus 87 ~~~~~~~~nl~~ii~---~~~~~~~~~il~tp~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ 148 (198)
T cd01821 87 EPYTTYKEYLRRYIA---EARAKGATPILVTPVTRRTFDEGGKVEDTLGDYPAAMRELAAEEGVP 148 (198)
T ss_pred CcHHHHHHHHHHHHH---HHHHCCCeEEEECCccccccCCCCcccccchhHHHHHHHHHHHhCCC
Confidence 356666665555554 455668887775 223332 2233346788999999997
No 191
>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=54.25 E-value=53 Score=28.91 Aligned_cols=57 Identities=12% Similarity=0.021 Sum_probs=36.5
Q ss_pred cCCeEEEEecCCCCCc--HHHHHHHHHHHHH-cCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 43 YGVNVVVAVNMFATDS--EAELNAVRIAAMA-AGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT--~~Ei~~i~~~c~~-~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
-++|+|++.|+..-.. +...+.+.+++.. .++. +-+.=++-|.|-.+|-+.+++.+.
T Consensus 112 ~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~---~~evSAktg~gI~elf~~L~~~~~ 171 (247)
T cd04143 112 VKIPMVICGNKADRDFPREVQRDEVEQLVGGDENCA---YFEVSAKKNSNLDEMFRALFSLAK 171 (247)
T ss_pred CCCcEEEEEECccchhccccCHHHHHHHHHhcCCCE---EEEEeCCCCCCHHHHHHHHHHHhc
Confidence 3799999999986542 1123344455442 2332 334445668999999999988764
No 192
>PF11720 Inhibitor_I78: Peptidase inhibitor I78 family; InterPro: IPR021719 This family includes Aspergillus elastase inhibitor and belongs to MEROPS peptidase inhibitor family I78.
Probab=54.25 E-value=11 Score=26.51 Aligned_cols=28 Identities=25% Similarity=0.271 Sum_probs=23.5
Q ss_pred ecccccccCCCCCCCceeeeeeeCCCCeeecc
Q 042073 193 LVGTISTMLGLPTRPCFYEIDGDTATGRVLGL 224 (225)
Q Consensus 193 ~~G~i~tMPGLpk~Paa~~idvd~~~G~I~GL 224 (225)
=-|+++||- -+|.=.+|.+| ++|+|+.+
T Consensus 30 ~Pg~~vTmD---yr~dRLnv~~D-~~g~I~~v 57 (60)
T PF11720_consen 30 RPGDAVTMD---YRPDRLNVEVD-DDGVITRV 57 (60)
T ss_pred CCCCcCccc---CCCCcEEEEEC-CCCcEEEE
Confidence 368999996 66888999999 89999864
No 193
>TIGR02668 moaA_archaeal probable molybdenum cofactor biosynthesis protein A, archaeal. This model describes an archaeal family related, and predicted to be functionally equivalent, to molybdenum cofactor biosynthesis protein A (MoaA) of bacteria (see TIGR02666).
Probab=54.09 E-value=45 Score=29.74 Aligned_cols=53 Identities=13% Similarity=0.111 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHhhcCCe-EEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEcccc
Q 042073 30 CVNLARHIANTKAYGVN-VVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHH 83 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvp-vVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~w 83 (225)
+....+.|+.+++.|++ +-+-.--.+.++++|+..+.+++++.|+. +-..+..
T Consensus 133 ~~~vl~~i~~~~~~G~~~v~i~~v~~~g~n~~ei~~~~~~~~~~g~~-~~~ie~~ 186 (302)
T TIGR02668 133 LDRVIEGIESAVDAGLTPVKLNMVVLKGINDNEIPDMVEFAAEGGAI-LQLIELM 186 (302)
T ss_pred HHHHHHHHHHHHHcCCCcEEEEEEEeCCCCHHHHHHHHHHHHhcCCE-EEEEEEe
Confidence 55556666666667764 43322235567888999999999999885 5554443
No 194
>PF00682 HMGL-like: HMGL-like of this family is not conserved in other members. are a sub-families of this Pfam.; InterPro: IPR000891 Pyruvate carboxylase (6.4.1.1 from EC) (PC), a member of the biotin-dependent enzyme family, is involved in the gluconeogenesis by mediating the carboxylation of pyruvate to oxaloacetate. Biotin-dependent carboxylase enzymes perform a two step reaction. Enzyme-bound biotin is first carboxylated by bicarbonate and ATP and the carboxyl group temporarily bound to biotin is subsequently transferred to an acceptor substrate such as pyruvate []. PC has three functional domains: a biotin carboxylase (BC) domain, a carboxyltransferase (CT) domain which perform the second part of the reaction and a biotinyl domain [, ]. The mechanism by which the carboxyl group is transferred from the carboxybiotin to the pyruvate is not well understood. The pyruvate carboxyltransferase domain is also found in other pyruvate binding enzymes and acetyl-CoA dependent enzymes suggesting that this domain can be associated with different enzymatic activities. This domain is found towards the N-terminal region of various aldolase enzymes. This N-terminal TIM barrel domain [] interacts with the C-terminal domain. The C-terminal DmpG_comm domain (IPR012425 from INTERPRO) is thought to promote heterodimerisation with members of IPR003361 from INTERPRO to form a bifunctional aldolase-dehydrogenase []. ; GO: 0003824 catalytic activity; PDB: 3MP5_E 3MP3_E 2CW6_E 3MP4_D 3HBL_A 3HB9_C 3HO8_A 3BG5_C 1YDN_B 3RMJ_A ....
Probab=53.63 E-value=62 Score=27.68 Aligned_cols=58 Identities=17% Similarity=0.110 Sum_probs=46.8
Q ss_pred HHHhHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEcccc
Q 042073 26 VEAGCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHH 83 (225)
Q Consensus 26 l~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~w 83 (225)
.+..+.++.++++-.|+.|..|.+..-....=+++++..+.+.+.+.|+..+.+++..
T Consensus 103 ~~~~~~~~~~~v~~ak~~g~~v~~~~~~~~~~~~~~~~~~~~~~~~~g~~~i~l~Dt~ 160 (237)
T PF00682_consen 103 REEALERIEEAVKYAKELGYEVAFGCEDASRTDPEELLELAEALAEAGADIIYLADTV 160 (237)
T ss_dssp HHHHHHHHHHHHHHHHHTTSEEEEEETTTGGSSHHHHHHHHHHHHHHT-SEEEEEETT
T ss_pred HHHHHHHHHHHHHHHHhcCCceEeCccccccccHHHHHHHHHHHHHcCCeEEEeeCcc
Confidence 4566889999999999999999777766555568899888889999999877777664
No 195
>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=53.61 E-value=53 Score=26.21 Aligned_cols=66 Identities=8% Similarity=-0.082 Sum_probs=38.2
Q ss_pred HHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 33 LARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
..+.|.+... ++|++|+.|+.............++++..+.. +. +.=++=|+|-.+|=+.+++.+-
T Consensus 94 ~~~~i~~~~~-~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~--e~Sa~~~~~v~~~f~~l~~~~~ 159 (166)
T cd00877 94 WHRDLVRVCG-NIPIVLCGNKVDIKDRKVKAKQITFHRKKNLQ-YY--EISAKSNYNFEKPFLWLARKLL 159 (166)
T ss_pred HHHHHHHhCC-CCcEEEEEEchhcccccCCHHHHHHHHHcCCE-EE--EEeCCCCCChHHHHHHHHHHHH
Confidence 3333433333 89999999998754222112334566665554 32 3334457788887777776554
No 196
>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=53.58 E-value=69 Score=25.17 Aligned_cols=68 Identities=13% Similarity=0.205 Sum_probs=39.7
Q ss_pred hHHHHHHHHHHHhh---cCCeEEEEecCCCCCcHHH--HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 29 GCVNLARHIANTKA---YGVNVVVAVNMFATDSEAE--LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 29 G~~NL~~HIeNi~~---fGvpvVVAIN~F~~DT~~E--i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
-|.++...++.+++ -+.|+|++.|+-.-..+.+ .+.++++|++.+.. +..+. ++=|+|-.++-+.+++
T Consensus 89 s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~e~S--a~~~~~i~e~f~~l~~ 161 (166)
T cd04122 89 TYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLL-FLECS--AKTGENVEDAFLETAK 161 (166)
T ss_pred HHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCE-EEEEE--CCCCCCHHHHHHHHHH
Confidence 35566665555443 5689999999865433222 24566788887775 44333 3445665555444443
No 197
>CHL00071 tufA elongation factor Tu
Probab=53.58 E-value=29 Score=32.81 Aligned_cols=44 Identities=27% Similarity=0.186 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhhcCCe-EEEEecCCCCCcHHHH-----HHHHHHHHHcCC
Q 042073 31 VNLARHIANTKAYGVN-VVVAVNMFATDSEAEL-----NAVRIAAMAAGA 74 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvp-vVVAIN~F~~DT~~Ei-----~~i~~~c~~~g~ 74 (225)
..-+.|+..++.+|+| +||++|+...=+++|+ +.+.++.+..|.
T Consensus 114 ~qt~~~~~~~~~~g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~~~ 163 (409)
T CHL00071 114 PQTKEHILLAKQVGVPNIVVFLNKEDQVDDEELLELVELEVRELLSKYDF 163 (409)
T ss_pred HHHHHHHHHHHHcCCCEEEEEEEccCCCCHHHHHHHHHHHHHHHHHHhCC
Confidence 4567899999999999 7799999875443432 245555555553
No 198
>KOG3361 consensus Iron binding protein involved in Fe-S cluster formation [Energy production and conversion]
Probab=53.58 E-value=8.9 Score=32.19 Aligned_cols=30 Identities=20% Similarity=0.447 Sum_probs=25.4
Q ss_pred EeecCCceeee-ecccccccCCCCCCCceeeeeeeCCCCeee
Q 042073 182 RASIGAGFIYP-LVGTISTMLGLPTRPCFYEIDGDTATGRVL 222 (225)
Q Consensus 182 ~~~~GAgFiv~-~~G~i~tMPGLpk~Paa~~idvd~~~G~I~ 222 (225)
-.+.|-|.|-| -|||+|. ..|-|| ++|.|+
T Consensus 50 dpnVGtGlVGAPACGDVMk----------LqIkvd-~~g~I~ 80 (157)
T KOG3361|consen 50 DPNVGTGLVGAPACGDVMK----------LQIKVD-DSGVIE 80 (157)
T ss_pred CCCcccccccCccccceee----------EEEEEC-CCCcEE
Confidence 35779999876 9999994 589999 899997
No 199
>PRK13758 anaerobic sulfatase-maturase; Provisional
Probab=53.29 E-value=33 Score=31.49 Aligned_cols=49 Identities=10% Similarity=0.002 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEE
Q 042073 30 CVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVV 79 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~av 79 (225)
+....+.|++++++|+++.|..+.- .++.+|++.+.+++.++|+..+.+
T Consensus 143 f~~v~~~i~~l~~~~~~~~i~~~v~-~~n~~~l~~i~~~~~~~g~~~~~~ 191 (370)
T PRK13758 143 FSKVERAAELFKKYKVEFNILCVVT-SNTARHVNKIYKYFKEKDFKFLQF 191 (370)
T ss_pred HHHHHHHHHHHHHhCCCceEEEEec-cccccCHHHHHHHHHHcCCCeEee
Confidence 5666777777777888877766544 356789999999999999974433
No 200
>PRK07226 fructose-bisphosphate aldolase; Provisional
Probab=53.21 E-value=1.7e+02 Score=26.08 Aligned_cols=113 Identities=19% Similarity=0.238 Sum_probs=51.6
Q ss_pred CCeEEEEec---CC-CCCc-HHHHHHHHHHHHHcCCCeEEEccccc-cCchhhHHHHHHHHHHhhcCCCCcccc-cC---
Q 042073 44 GVNVVVAVN---MF-ATDS-EAELNAVRIAAMAAGAFDAVVCSHHA-HGGKGAVDLGIAVQRACENVTQPLKFL-YP--- 113 (225)
Q Consensus 44 GvpvVVAIN---~F-~~DT-~~Ei~~i~~~c~~~g~~~~avs~~wa-~GG~Ga~~LA~~Vv~~~e~~~~~f~~l-Y~--- 113 (225)
+++++|.|+ .| +.-+ +.-+..++ .+.+.|+..+.+..-|. ..-+--.+++++|++.|....-.+.-+ |+
T Consensus 73 ~~~l~~~i~~~~~~~~~~~~~~~~~~ve-~A~~~Gad~v~~~~~~g~~~~~~~~~~~~~v~~~~~~~g~pl~vi~~~~g~ 151 (267)
T PRK07226 73 DVGLIVHLSASTSLSPDPNDKVLVGTVE-EAIKLGADAVSVHVNVGSETEAEMLEDLGEVAEECEEWGMPLLAMMYPRGP 151 (267)
T ss_pred CCcEEEEEcCCCCCCCCCCcceeeecHH-HHHHcCCCEEEEEEecCChhHHHHHHHHHHHHHHHHHcCCcEEEEEecCCC
Confidence 688888777 24 2222 22222233 34557875333322221 112234567777777776422334432 32
Q ss_pred ---CCCCHHHHHHHHHh---HhccCCCCCCHHH-HHHHHHHHHCCCCCCCeeEe
Q 042073 114 ---SDVSIKEKIDTIAR---SYGASGVEYSEEA-EKQIKMYTRQGFSGLPFCMA 160 (225)
Q Consensus 114 ---~~~~i~eKI~~IA~---IYGA~~V~~s~~A-~~~l~~~e~~G~~~lPVCmA 160 (225)
...+.+++ ...++ -+|||=|..+... .+.++++.+. ..+||+.+
T Consensus 152 ~~e~~~~~~~i-~~a~~~a~e~GAD~vKt~~~~~~~~l~~~~~~--~~ipV~a~ 202 (267)
T PRK07226 152 GIKNEYDPEVV-AHAARVAAELGADIVKTNYTGDPESFREVVEG--CPVPVVIA 202 (267)
T ss_pred ccCCCccHHHH-HHHHHHHHHHCCCEEeeCCCCCHHHHHHHHHh--CCCCEEEE
Confidence 22232332 23333 3677776555221 2334444332 35788765
No 201
>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=52.62 E-value=42 Score=27.89 Aligned_cols=55 Identities=15% Similarity=0.193 Sum_probs=44.6
Q ss_pred hhcCCeEEEEecCCCCC-cHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHH
Q 042073 41 KAYGVNVVVAVNMFATD-SEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAV 97 (225)
Q Consensus 41 ~~fGvpvVVAIN~F~~D-T~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~V 97 (225)
+-|+.|||=.|++-.-+ +++.++..+++.+.+|+.+ +-.+=+.=|+|-.+|.+.+
T Consensus 86 ~~f~~pvIGVITK~Dl~~~~~~i~~a~~~L~~aG~~~--if~vS~~~~eGi~eL~~~L 141 (143)
T PF10662_consen 86 SMFNKPVIGVITKIDLPSDDANIERAKKWLKNAGVKE--IFEVSAVTGEGIEELKDYL 141 (143)
T ss_pred cccCCCEEEEEECccCccchhhHHHHHHHHHHcCCCC--eEEEECCCCcCHHHHHHHH
Confidence 44899999999998777 7899999999999999974 3555566788888886643
No 202
>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma. eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.
Probab=52.53 E-value=48 Score=31.34 Aligned_cols=69 Identities=13% Similarity=0.118 Sum_probs=43.9
Q ss_pred HHHHHHHHHHhhcCCe-EEEEecCCCCCcHHHH----HHHHHHHHHc---CCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 31 VNLARHIANTKAYGVN-VVVAVNMFATDSEAEL----NAVRIAAMAA---GAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvp-vVVAIN~F~~DT~~Ei----~~i~~~c~~~---g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
....+|+..++.+|++ +||++|+-.--++++. +.+.++.+.. ++. +... =+.=|+|-.+|-+.+...+.
T Consensus 120 ~qt~e~l~~l~~~gi~~iIVvvNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~-ii~v--SA~~g~gi~~L~e~L~~~l~ 196 (406)
T TIGR03680 120 PQTKEHLMALEIIGIKNIVIVQNKIDLVSKEKALENYEEIKEFVKGTVAENAP-IIPV--SALHNANIDALLEAIEKFIP 196 (406)
T ss_pred cchHHHHHHHHHcCCCeEEEEEEccccCCHHHHHHHHHHHHhhhhhcccCCCe-EEEE--ECCCCCChHHHHHHHHHhCC
Confidence 4567899988889875 8999999876555443 3444444432 343 3322 33456777777777776543
No 203
>cd03768 SR_ResInv Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. Resolvases and invertases affect resolution or inversion and comprise a major phylogenic group. Resolvases (e.g. Tn3, gamma-delta, and Tn5044) normally recombine two sites in direct repeat causing deletion of the DNA between the sites. Invertases (e.g. Gin and Hin) recombine sites in inverted repeat to invert the DNA between the sites. Cointegrate resolution with gamma-delta resolvase requires the formation of a synaptosome of three resolvase dimers bound to each of two res sites on the DNA. Also included in this subfamily are some
Probab=52.42 E-value=74 Score=24.20 Aligned_cols=45 Identities=11% Similarity=0.090 Sum_probs=32.3
Q ss_pred HHhHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 27 EAGCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 27 ~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
+.+|..|...++ .+.+=+|--++||.-++ .|+-.+.++|.+.|+.
T Consensus 42 R~~~~~ll~~~~---~~d~lvv~~~dRl~R~~-~e~~~~~~~l~~~gi~ 86 (126)
T cd03768 42 RPELQKLLEDLR---EGDTLVVTKLDRLGRST-KDLLEIVEELREKGVS 86 (126)
T ss_pred CHHHHHHHHhCc---CCCEEEEEEcchhcCcH-HHHHHHHHHHHHCCCE
Confidence 567777776655 56655555677898776 5666777789999997
No 204
>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=52.42 E-value=84 Score=25.97 Aligned_cols=73 Identities=11% Similarity=0.068 Sum_probs=47.0
Q ss_pred HhHHHH-HHHHHHHhhc--CCeEEEEecCCCCCcH------------HHHHHHHHHHHHcCCCeEEEccccccCchhhHH
Q 042073 28 AGCVNL-ARHIANTKAY--GVNVVVAVNMFATDSE------------AELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVD 92 (225)
Q Consensus 28 ~G~~NL-~~HIeNi~~f--GvpvVVAIN~F~~DT~------------~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~ 92 (225)
.-|.|+ .+.++.++++ ++|+|++-|+-.-..+ -+-+...++|++.|.. ...+.=++=|+|-.+
T Consensus 86 ~Sf~~~~~~w~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~--~~~E~SAk~~~nV~~ 163 (176)
T cd04133 86 ASYENVLKKWVPELRHYAPNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAA--AYIECSSKTQQNVKA 163 (176)
T ss_pred HHHHHHHHHHHHHHHHhCCCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCC--EEEECCCCcccCHHH
Confidence 346676 4566666653 7999999999653111 1233456778887773 133555677888888
Q ss_pred HHHHHHHHhh
Q 042073 93 LGIAVQRACE 102 (225)
Q Consensus 93 LA~~Vv~~~e 102 (225)
+=+.+++.+.
T Consensus 164 ~F~~~~~~~~ 173 (176)
T cd04133 164 VFDAAIKVVL 173 (176)
T ss_pred HHHHHHHHHh
Confidence 8777777653
No 205
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=52.38 E-value=1.3e+02 Score=24.66 Aligned_cols=45 Identities=9% Similarity=-0.042 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCC
Q 042073 59 EAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSD 115 (225)
Q Consensus 59 ~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~ 115 (225)
..+...|++.|.+.+++ +..+ .+.|+++++++.. +-.++.+|+..
T Consensus 92 ~~D~~~IRR~Av~~~IP-~~T~----------l~tA~a~~~al~~-~~~~~~~~~~~ 136 (142)
T PRK05234 92 DPDVKALLRLADVWNIP-VATN----------RATADFLISSLLF-DDEVEILIPDY 136 (142)
T ss_pred cchHHHHHHHHHHcCCC-EEcC----------HHHHHHHHHHHhc-ccchhhcccch
Confidence 44677899999999997 6554 6788888888875 55677777653
No 206
>PRK04165 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional
Probab=52.07 E-value=52 Score=32.28 Aligned_cols=64 Identities=25% Similarity=0.217 Sum_probs=44.1
Q ss_pred ccccccccHHHHHHhH---------------HHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEE
Q 042073 15 DHAYLNENVALVEAGC---------------VNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVV 79 (225)
Q Consensus 15 ~~~l~~eN~~al~~G~---------------~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~av 79 (225)
|=.+...|.+.+++|+ .|++.-.+-+++||.|+|+- +.| -+++..+.+.|.++|+.+.++
T Consensus 157 PLSIDT~dpevleaAleagad~~plI~Sat~dN~~~m~~la~~yg~pvVv~----~~d-l~~L~~lv~~~~~~GI~dIIL 231 (450)
T PRK04165 157 PLILCSEDPAVLKAALEVVADRKPLLYAATKENYEEMAELAKEYNCPLVVK----APN-LEELKELVEKLQAAGIKDLVL 231 (450)
T ss_pred CEEEeCCCHHHHHHHHHhcCCCCceEEecCcchHHHHHHHHHHcCCcEEEE----chh-HHHHHHHHHHHHHcCCCcEEE
Confidence 3456667777777776 45555556677899999882 223 567777888899999965655
Q ss_pred cccc
Q 042073 80 CSHH 83 (225)
Q Consensus 80 s~~w 83 (225)
--..
T Consensus 232 DPg~ 235 (450)
T PRK04165 232 DPGT 235 (450)
T ss_pred CCCC
Confidence 5443
No 207
>COG0137 ArgG Argininosuccinate synthase [Amino acid transport and metabolism]
Probab=51.96 E-value=2.4e+02 Score=27.56 Aligned_cols=154 Identities=20% Similarity=0.264 Sum_probs=96.5
Q ss_pred HHHHhh-cCC-eEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCC
Q 042073 37 IANTKA-YGV-NVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPS 114 (225)
Q Consensus 37 IeNi~~-fGv-pvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~ 114 (225)
|.-|+. +|- ++-++.|.=.. ++|++.+++.+.+.|+.++-+-+. -.++++.-+-.+-.....+.--|++
T Consensus 21 i~wL~e~~~~eVia~tadvGQ~--eed~~~i~eKA~~~Ga~~~~viD~-------reeF~~~yi~~~i~ana~Yeg~YpL 91 (403)
T COG0137 21 IKWLKEKGGAEVIAVTADVGQP--EEDLDAIREKALELGAEEAYVIDA-------REEFVEDYIFPAIKANALYEGVYPL 91 (403)
T ss_pred HHHHHHhcCceEEEEEEeCCCC--hHHhHHHHHHHHHhCCceEEEeec-------HHHHHHHHHHHHHHhhceeeccccc
Confidence 334543 643 33355555433 899999999999999975555443 4667755554433212224445777
Q ss_pred CCCH-----HHHHHHHHhHhccC------------CCCCCHH--------------------HHHHHHHHHHCCCCCCCe
Q 042073 115 DVSI-----KEKIDTIARSYGAS------------GVEYSEE--------------------AEKQIKMYTRQGFSGLPF 157 (225)
Q Consensus 115 ~~~i-----~eKI~~IA~IYGA~------------~V~~s~~--------------------A~~~l~~~e~~G~~~lPV 157 (225)
..+| -+|+-.+|+=.||+ .|.|.-. -...++-.++.|+ ||
T Consensus 92 ~TalaRPLIak~lVe~A~k~ga~avaHGcTGKGNDQvRFe~~~~al~p~lkiiAP~Rew~~~R~~~i~Ya~~~gi---pv 168 (403)
T COG0137 92 GTALARPLIAKKLVEAAKKEGADAVAHGCTGKGNDQVRFELAILALNPDLKIIAPWREWNLTREEEIEYAEEHGI---PV 168 (403)
T ss_pred cchhhHHHHHHHHHHHHHHcCCCEEEecCCCCCCceeeeeeehhhhCCCcEEEeehhhhccChHHHHHHHHHcCC---Cc
Confidence 7665 57777888766654 3333322 2355666667787 88
Q ss_pred eEe-ecCCCcCCC-----------------CCCC-ceEEe---------eEEEeecCCceeeeecccccccCC
Q 042073 158 CMA-KTQHSFSHN-----------------APTG-FILPI---------RDVRASIGAGFIYPLVGTISTMLG 202 (225)
Q Consensus 158 CmA-KTqyS~Sdd-----------------~P~~-f~~~v---------rdv~~~~GAgFiv~~~G~i~tMPG 202 (225)
=+. +-+||+-.| -|++ |..++ ..|.|.-=.|.-|++-|.-|....
T Consensus 169 ~~~~~kpySiD~Nlwg~S~Egg~LEdp~~~pped~~~~tv~p~dap~~pe~v~I~Fe~G~PValnG~~~~~~~ 241 (403)
T COG0137 169 KATKEKPYSIDENLWGRSIEGGDLEDPWNEPPEDAYEWTVSPEDAPDEPEEVEIGFEKGVPVALNGEKLSPVE 241 (403)
T ss_pred cccCCCCcccchhhhccccccccccCcCcCCCchHHhhcCChhhCCCCCeEEEEEEecCeEEEEcCEeCCHHH
Confidence 887 469998777 3444 33333 667777778899999997665544
No 208
>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=51.89 E-value=90 Score=24.82 Aligned_cols=68 Identities=4% Similarity=-0.108 Sum_probs=38.0
Q ss_pred HHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 31 VNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
..+.+.+... ..+.|+++++|+..--.+++++...+...+. .. +.+...=+.=|.|-.+|-+.+.+.+
T Consensus 27 ~~i~~~l~~~-~~~~p~ilVlNKiDl~~~~~~~~~~~~~~~~-~~-~~~~~iSa~~~~~~~~L~~~l~~~~ 94 (157)
T cd01858 27 KHVEEYLKKE-KPHKHLIFVLNKCDLVPTWVTARWVKILSKE-YP-TIAFHASINNPFGKGSLIQLLRQFS 94 (157)
T ss_pred HHHHHHHHhc-cCCCCEEEEEEchhcCCHHHHHHHHHHHhcC-Cc-EEEEEeeccccccHHHHHHHHHHHH
Confidence 3555555543 4579999999998765566664444443332 22 2221122344556666666665543
No 209
>PRK10076 pyruvate formate lyase II activase; Provisional
Probab=51.79 E-value=69 Score=27.93 Aligned_cols=47 Identities=19% Similarity=0.212 Sum_probs=33.8
Q ss_pred HhhcCCeEEEEecCCC--CCcHHHHHHHHHHHHHcCCCeEEEccccccC
Q 042073 40 TKAYGVNVVVAVNMFA--TDSEAELNAVRIAAMAAGAFDAVVCSHHAHG 86 (225)
Q Consensus 40 i~~fGvpvVVAIN~F~--~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~G 86 (225)
+.+.|+++.|-+=.-| +|+++||+.+.+++++.++..+.+..-+.-|
T Consensus 123 l~~~g~~v~iR~~vIPg~nd~~e~i~~ia~~l~~l~~~~~~llpyh~~g 171 (213)
T PRK10076 123 LVSEGVNVIPRLPLIPGFTLSRENMQQALDVLIPLGIKQIHLLPFHQYG 171 (213)
T ss_pred HHhCCCcEEEEEEEECCCCCCHHHHHHHHHHHHHcCCceEEEecCCccc
Confidence 4457888877666555 4999999999999998887645544444333
No 210
>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=51.76 E-value=55 Score=25.46 Aligned_cols=14 Identities=21% Similarity=0.245 Sum_probs=11.9
Q ss_pred cCCeEEEEecCCCC
Q 042073 43 YGVNVVVAVNMFAT 56 (225)
Q Consensus 43 fGvpvVVAIN~F~~ 56 (225)
.++|++|++|+-..
T Consensus 106 ~~~p~ilv~NK~D~ 119 (167)
T cd04160 106 EGVPLLILANKQDL 119 (167)
T ss_pred cCCCEEEEEEcccc
Confidence 58999999998754
No 211
>PRK00049 elongation factor Tu; Reviewed
Probab=51.56 E-value=86 Score=29.56 Aligned_cols=26 Identities=23% Similarity=0.257 Sum_probs=21.7
Q ss_pred HHHHHHHHHHhhcCCeEE-EEecCCCC
Q 042073 31 VNLARHIANTKAYGVNVV-VAVNMFAT 56 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvV-VAIN~F~~ 56 (225)
...++|++-++.+|+|.+ |++|+...
T Consensus 114 ~qt~~~~~~~~~~g~p~iiVvvNK~D~ 140 (396)
T PRK00049 114 PQTREHILLARQVGVPYIVVFLNKCDM 140 (396)
T ss_pred hHHHHHHHHHHHcCCCEEEEEEeecCC
Confidence 456789999999999986 79999865
No 212
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=51.33 E-value=1.4e+02 Score=27.50 Aligned_cols=143 Identities=18% Similarity=0.237 Sum_probs=87.9
Q ss_pred CCCCCccCCCCCccc------cccccHHHHHHhHHHHHHHHHHHhhc-----CCeEEEE--ecC-CCCCcHHHHHHHHHH
Q 042073 3 GGGPQVVAGKPLDHA------YLNENVALVEAGCVNLARHIANTKAY-----GVNVVVA--VNM-FATDSEAELNAVRIA 68 (225)
Q Consensus 3 GGv~~~~lg~pl~~~------l~~eN~~al~~G~~NL~~HIeNi~~f-----GvpvVVA--IN~-F~~DT~~Ei~~i~~~ 68 (225)
+|+..-+||-|-.+- ...-+..||+.|+ .+.+-.+-++.+ ++|.|.- .|- |... ++...+.
T Consensus 43 ~GaD~iELGvPfSDPvADGP~Iq~A~~rAL~~g~-t~~~~lel~~~~r~~~~~~Pivlm~Y~Npi~~~G----ie~F~~~ 117 (265)
T COG0159 43 AGADILELGVPFSDPVADGPTIQAAHLRALAAGV-TLEDTLELVEEIRAKGVKVPIVLMTYYNPIFNYG----IEKFLRR 117 (265)
T ss_pred CCCCEEEecCCCCCcCccCHHHHHHHHHHHHCCC-CHHHHHHHHHHHHhcCCCCCEEEEEeccHHHHhh----HHHHHHH
Confidence 455555566444433 3346788898887 444444444432 4566653 343 4332 3345667
Q ss_pred HHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCC--HHHHHHHHHh--Hh-----ccCCCCCC--
Q 042073 69 AMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVS--IKEKIDTIAR--SY-----GASGVEYS-- 137 (225)
Q Consensus 69 c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~--i~eKI~~IA~--IY-----GA~~V~~s-- 137 (225)
|++.|+..+.+-+. -.|.++.+.+.+++..=++-||-..+-| .-+||-..++ || |.+++.-.
T Consensus 118 ~~~~GvdGlivpDL-------P~ee~~~~~~~~~~~gi~~I~lvaPtt~~~rl~~i~~~a~GFiY~vs~~GvTG~~~~~~ 190 (265)
T COG0159 118 AKEAGVDGLLVPDL-------PPEESDELLKAAEKHGIDPIFLVAPTTPDERLKKIAEAASGFIYYVSRMGVTGARNPVS 190 (265)
T ss_pred HHHcCCCEEEeCCC-------ChHHHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHhCCCcEEEEecccccCCCcccc
Confidence 89999987777776 4678888888887533334555555544 4455666664 44 67776655
Q ss_pred HHHHHHHHHHHHCCCCCCCeeE
Q 042073 138 EEAEKQIKMYTRQGFSGLPFCM 159 (225)
Q Consensus 138 ~~A~~~l~~~e~~G~~~lPVCm 159 (225)
....+.++++++. .++|||.
T Consensus 191 ~~~~~~v~~vr~~--~~~Pv~v 210 (265)
T COG0159 191 ADVKELVKRVRKY--TDVPVLV 210 (265)
T ss_pred hhHHHHHHHHHHh--cCCCeEE
Confidence 2367778888774 4889996
No 213
>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=51.30 E-value=78 Score=25.88 Aligned_cols=64 Identities=14% Similarity=0.156 Sum_probs=36.7
Q ss_pred HHHHHHhhcCCeEEEEecCCCCCcHHHHH----HHHHHHHH-------cCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 35 RHIANTKAYGVNVVVAVNMFATDSEAELN----AVRIAAMA-------AGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 35 ~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~----~i~~~c~~-------~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
.++...+.++.|++|++|+-..-+.++.+ .+++.... .+++ +.. .=+.=|+|-.+|-+.+.+.+
T Consensus 111 ~~~~~~~~~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~-vi~--iSa~~g~gi~~L~~~l~~~~ 185 (192)
T cd01889 111 ECLVIGEILCKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLEKTRFKNSP-IIP--VSAKPGGGEAELGKDLNNLI 185 (192)
T ss_pred HHHHHHHHcCCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHHhcCcCCCC-EEE--EeccCCCCHHHHHHHHHhcc
Confidence 34444555799999999997654444433 33332211 2443 332 33455678788877776654
No 214
>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=51.29 E-value=46 Score=25.87 Aligned_cols=55 Identities=22% Similarity=0.071 Sum_probs=33.3
Q ss_pred cCCeEEEEecCCCCCcHHHHH--HHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHH
Q 042073 43 YGVNVVVAVNMFATDSEAELN--AVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRA 100 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~~Ei~--~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~ 100 (225)
.++|+||++|+.....+.++. ....+....+.. +..+. ++=|.|-.+|-+.+++.
T Consensus 106 ~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~S--a~~~~gi~~l~~~l~~~ 162 (164)
T cd04101 106 KHMPGVLVGNKMDLADKAEVTDAQAQAFAQANQLK-FFKTS--ALRGVGYEEPFESLARA 162 (164)
T ss_pred CCCCEEEEEECcccccccCCCHHHHHHHHHHcCCe-EEEEe--CCCCCChHHHHHHHHHH
Confidence 479999999998654333332 234455666764 43333 34467777777666654
No 215
>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=51.13 E-value=94 Score=23.47 Aligned_cols=17 Identities=12% Similarity=0.247 Sum_probs=8.3
Q ss_pred HhhcCCeEEEEecCCCC
Q 042073 40 TKAYGVNVVVAVNMFAT 56 (225)
Q Consensus 40 i~~fGvpvVVAIN~F~~ 56 (225)
++.++.|+++++|+...
T Consensus 106 l~~~~~~vi~v~nK~D~ 122 (170)
T cd01876 106 LEELGIPFLVVLTKADK 122 (170)
T ss_pred HHHcCCCEEEEEEchhc
Confidence 34445555555555433
No 216
>PRK08195 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated
Probab=51.11 E-value=70 Score=29.84 Aligned_cols=51 Identities=18% Similarity=0.114 Sum_probs=36.3
Q ss_pred HHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccc
Q 042073 32 NLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSH 82 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~ 82 (225)
++.+||+.+|+.|..|++.+=.-..=|++++..+.+.+.+.|+..+.+++.
T Consensus 116 ~~~~~i~~ak~~G~~v~~~l~~a~~~~~e~l~~~a~~~~~~Ga~~i~i~DT 166 (337)
T PRK08195 116 VSEQHIGLARELGMDTVGFLMMSHMAPPEKLAEQAKLMESYGAQCVYVVDS 166 (337)
T ss_pred HHHHHHHHHHHCCCeEEEEEEeccCCCHHHHHHHHHHHHhCCCCEEEeCCC
Confidence 678888888888887777554433446777777777777888875566655
No 217
>cd07944 DRE_TIM_HOA_like 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain. This family of bacterial enzymes is sequence-similar to 4-hydroxy-2-oxovalerate aldolase (HOA) but its exact function is unknown. This family includes the Bacteroides vulgatus Bvu_2661 protein and belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues t
Probab=51.09 E-value=68 Score=28.72 Aligned_cols=53 Identities=13% Similarity=-0.018 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccc
Q 042073 30 CVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSH 82 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~ 82 (225)
+.|+.++++-+|+.|+.|.+.+=.-..-+++++..+.+.+.+.|+..+.+++.
T Consensus 108 ~~~~~~~i~~ak~~G~~v~~~~~~a~~~~~~~~~~~~~~~~~~g~~~i~l~DT 160 (266)
T cd07944 108 FDEALPLIKAIKEKGYEVFFNLMAISGYSDEELLELLELVNEIKPDVFYIVDS 160 (266)
T ss_pred HHHHHHHHHHHHHCCCeEEEEEEeecCCCHHHHHHHHHHHHhCCCCEEEEecC
Confidence 67788888888888887776654422344777777777777788876666665
No 218
>TIGR00126 deoC deoxyribose-phosphate aldolase. Deoxyribose-phosphate aldolase is involved in the catabolism of nucleotides and deoxyriibonucleotides. The catalytic process is as follows: 2-deoxy-D-ribose 5-phosphate = D-glyceraldehyde 3-phosphate + acetaldehyde. It is found in both gram-postive and gram-negative bacteria.
Probab=51.09 E-value=1.1e+02 Score=26.72 Aligned_cols=67 Identities=18% Similarity=0.157 Sum_probs=44.0
Q ss_pred cHHHHHHhHH-HHHHHHHHHhh--cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchh
Q 042073 22 NVALVEAGCV-NLARHIANTKA--YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKG 89 (225)
Q Consensus 22 N~~al~~G~~-NL~~HIeNi~~--fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~G 89 (225)
|+.+++.|-. ...+-|..+.. -|+|+-|-+-.=. =|++|+....+.|.+.|+..+-.|+.|..+|.-
T Consensus 92 n~g~l~~g~~~~v~~ei~~i~~~~~g~~lKvIlE~~~-L~~~ei~~a~~ia~eaGADfvKTsTGf~~~gat 161 (211)
T TIGR00126 92 NIGALKDGNEEVVYDDIRAVVEACAGVLLKVIIETGL-LTDEEIRKACEICIDAGADFVKTSTGFGAGGAT 161 (211)
T ss_pred chHhhhCCcHHHHHHHHHHHHHHcCCCeEEEEEecCC-CCHHHHHHHHHHHHHhCCCEEEeCCCCCCCCCC
Confidence 4445544332 23333444443 2899888776533 355899999999999999866677899877744
No 219
>cd07025 Peptidase_S66 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein. LD-carboxypeptidase (Muramoyltetrapeptide carboxypeptidase; EC 3.4.17.13; Merops family S66; initially described as Carboxypeptidase II) family also includes the microcin c7 self-immunity protein (MccF) as well as uncharacterized proteins including hypothetical proteins. LD-carboxypeptidase hydrolyzes the amide bond that links the dibasic amino acids to C-terminal D-amino acids. The physiological substrates of LD-carboxypeptidase are tetrapeptide fragments (such as UDP-MurNAc-tetrapeptides) that are produced when bacterial cell walls are degraded; they contain an L-configured residue (L-lysine or meso-diaminopimelic acid residue) as the penultimate residue and D-alanine as the ultimate residue. A possible role of LD-carboxypeptidase is in peptidoglycan recycling whereby the resulting tripeptide (precursor for murein synthesis) can be reconverted into peptidoglycan by attachment o
Probab=51.07 E-value=49 Score=29.78 Aligned_cols=96 Identities=23% Similarity=0.241 Sum_probs=59.9
Q ss_pred HHHHHHHHHHhhcCCeEEEEecCCC------CCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHH-Hhhc
Q 042073 31 VNLARHIANTKAYGVNVVVAVNMFA------TDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR-ACEN 103 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvVVAIN~F~------~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~-~~e~ 103 (225)
.++++=++.+++.|..|++.=|.+. ...++-.+.+.++.+.-.+. +++| ..||.|+..|-..+-- .+.+
T Consensus 14 ~~~~~~~~~L~~~G~~v~~~~~~~~~~~~~a~s~~~Ra~dL~~a~~d~~i~-aI~~---~rGG~ga~rlL~~ld~~~~~~ 89 (282)
T cd07025 14 ERLERAIARLESLGLEVVVGPHVLARDGYLAGTDEERAADLNAAFADPEIK-AIWC---ARGGYGANRLLPYLDYDLIRA 89 (282)
T ss_pred HHHHHHHHHHHhCCCEEEeccchhhhcCccCCCHHHHHHHHHHHhhCCCCC-EEEE---cCCcCCHHHhhhhCCHHHHhh
Confidence 4555556666667999999887553 34455567778888877886 7655 6799999998876422 2222
Q ss_pred CCCCcccc--cCCCCCHHHHHHHH---HhHhccCC
Q 042073 104 VTQPLKFL--YPSDVSIKEKIDTI---ARSYGASG 133 (225)
Q Consensus 104 ~~~~f~~l--Y~~~~~i~eKI~~I---A~IYGA~~ 133 (225)
+-|++ |.+--.|--=+.+- +++||---
T Consensus 90 ---~pK~~iGySDiTaL~~~l~~~~g~~t~hGp~~ 121 (282)
T cd07025 90 ---NPKIFVGYSDITALHLALYAKTGLVTFHGPML 121 (282)
T ss_pred ---CCeEEEEecHHHHHHHHHHHhcCceEEECccc
Confidence 23433 45544555555443 22777543
No 220
>COG0825 AccA Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]
Probab=51.06 E-value=53 Score=30.92 Aligned_cols=77 Identities=9% Similarity=0.091 Sum_probs=54.3
Q ss_pred ccccccHHHHHHhHHHHHHHHHHHhhcCCeEEEEec---CCCCCcHHHH------HHHHHHHHHcCCCeEEEccccccCc
Q 042073 17 AYLNENVALVEAGCVNLARHIANTKAYGVNVVVAVN---MFATDSEAEL------NAVRIAAMAAGAFDAVVCSHHAHGG 87 (225)
Q Consensus 17 ~l~~eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN---~F~~DT~~Ei------~~i~~~c~~~g~~~~avs~~wa~GG 87 (225)
.+..++.+..+|-+ |-++-..+||+|+|--|+ .||.=..||. +.=...|..+.++ ++|.+-.+||
T Consensus 127 NFGm~~PeGyRKAl----Rlm~~AekF~lPiitfIDT~GAypG~~AEErGQ~eAIA~nL~em~~LkvP--iI~iVIGEGg 200 (317)
T COG0825 127 NFGMPRPEGYRKAL----RLMKLAEKFGLPIITFIDTPGAYPGIGAEERGQSEAIARNLREMARLKVP--IISIVIGEGG 200 (317)
T ss_pred cCCCCCchHHHHHH----HHHHHHHHhCCCEEEEecCCCCCCCcchhhcccHHHHHHHHHHHhCCCCC--EEEEEecCCC
Confidence 44557777777765 445566789999999999 4888777764 3333446677886 7999999999
Q ss_pred hhhH---HHHHHHHH
Q 042073 88 KGAV---DLGIAVQR 99 (225)
Q Consensus 88 ~Ga~---~LA~~Vv~ 99 (225)
.|+. ..|++|.-
T Consensus 201 SGGALAi~vad~V~m 215 (317)
T COG0825 201 SGGALAIGVADRVLM 215 (317)
T ss_pred chhhHHhhHHHHHHH
Confidence 9863 34555543
No 221
>PRK00093 GTP-binding protein Der; Reviewed
Probab=50.53 E-value=74 Score=29.80 Aligned_cols=63 Identities=22% Similarity=0.169 Sum_probs=37.1
Q ss_pred HHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHc-----CCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 37 IANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAA-----GAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 37 IeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~-----g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
+.-+...|.|+||++|+.....+++.+.+.+..++. .++ +..+ =+.-|.|-.+|-+.+.+..+
T Consensus 277 ~~~~~~~~~~~ivv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~-i~~~--SA~~~~gv~~l~~~i~~~~~ 344 (435)
T PRK00093 277 AGLALEAGRALVIVVNKWDLVDEKTMEEFKKELRRRLPFLDYAP-IVFI--SALTGQGVDKLLEAIDEAYE 344 (435)
T ss_pred HHHHHHcCCcEEEEEECccCCCHHHHHHHHHHHHHhcccccCCC-EEEE--eCCCCCCHHHHHHHHHHHHH
Confidence 334456889999999998776565565555544321 233 2222 23446666666666665544
No 222
>cd07939 DRE_TIM_NifV Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain. FrbC (NifV) of Streptomyces rubellomurinus catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate and CoA, a reaction similar to one catalyzed by homocitrate synthase. The gene encoding FrbC is one of several genes required for the biosynthesis of FR900098, a potent antimalarial antibiotic. This protein is also required for assembly of the nitrogenase MoFe complex but its exact role is unknown. This family also includes the NifV proteins of Heliobacterium chlorum and Gluconacetobacter diazotrophicus, which appear to be orthologous to FrbC. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarbox
Probab=50.44 E-value=96 Score=27.33 Aligned_cols=104 Identities=18% Similarity=0.083 Sum_probs=61.8
Q ss_pred HHhHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCC
Q 042073 27 EAGCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQ 106 (225)
Q Consensus 27 ~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~ 106 (225)
+..+.|+...++..++.|..|.+.+-.-..-+++++..+.+.+.+.|+..+.+++.. |..--.+.++.|-.+.+.-+.
T Consensus 106 ~~~~~~~~~~i~~a~~~G~~v~~~~~~~~~~~~~~~~~~~~~~~~~G~~~i~l~DT~--G~~~P~~v~~lv~~l~~~~~~ 183 (259)
T cd07939 106 AWVLDQLRRLVGRAKDRGLFVSVGAEDASRADPDFLIEFAEVAQEAGADRLRFADTV--GILDPFTTYELIRRLRAATDL 183 (259)
T ss_pred HHHHHHHHHHHHHHHHCCCeEEEeeccCCCCCHHHHHHHHHHHHHCCCCEEEeCCCC--CCCCHHHHHHHHHHHHHhcCC
Confidence 455778889999999999987766544444457777777777788999877777754 333333444433333332122
Q ss_pred C--cccccCCCCCHHHHHHHHHh-HhccCCCC
Q 042073 107 P--LKFLYPSDVSIKEKIDTIAR-SYGASGVE 135 (225)
Q Consensus 107 ~--f~~lY~~~~~i~eKI~~IA~-IYGA~~V~ 135 (225)
+ |++=-+..+.+. ..++- -.|++-|+
T Consensus 184 ~l~~H~Hn~~Gla~A---n~laAi~aG~~~vd 212 (259)
T cd07939 184 PLEFHAHNDLGLATA---NTLAAVRAGATHVS 212 (259)
T ss_pred eEEEEecCCCChHHH---HHHHHHHhCCCEEE
Confidence 2 444334444443 34444 55655554
No 223
>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=50.27 E-value=82 Score=24.35 Aligned_cols=64 Identities=25% Similarity=0.223 Sum_probs=34.8
Q ss_pred HHHHHHhhcCCeEEEEecCCCCCcH--HH-HHHHHHHHHH----cC--CCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 35 RHIANTKAYGVNVVVAVNMFATDSE--AE-LNAVRIAAMA----AG--AFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 35 ~HIeNi~~fGvpvVVAIN~F~~DT~--~E-i~~i~~~c~~----~g--~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
.+++.++.+++|++|++|+-..... ++ .+.+.++... .+ +. +. ..=+.=|+|-.+|.+.+.+..
T Consensus 93 ~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~--~~Sa~~~~gi~~l~~~l~~~~ 165 (168)
T cd01887 93 EAIKLAKAANVPFIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQ-IV--PTSAKTGEGIDDLLEAILLLA 165 (168)
T ss_pred HHHHHHHHcCCCEEEEEEceecccccHHHHHHHHHHhhccccccccCcCc-EE--EeecccCCCHHHHHHHHHHhh
Confidence 3455567799999999999754321 11 2222222211 11 22 22 222455678788877776654
No 224
>PF07287 DUF1446: Protein of unknown function (DUF1446); InterPro: IPR010839 This family consists of several bacterial and plant proteins of around 400 residues in length. The function of this family is unknown.
Probab=50.22 E-value=32 Score=32.81 Aligned_cols=49 Identities=18% Similarity=0.142 Sum_probs=26.4
Q ss_pred HHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEcccc
Q 042073 32 NLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHH 83 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~w 83 (225)
.|+..+.-+++.|+|+| +|.=..|...=.+.+++.++++|.. +-+.-++
T Consensus 59 ~L~~~L~~~~~~gIkvI--~NaGg~np~~~a~~v~eia~e~Gl~-lkvA~V~ 107 (362)
T PF07287_consen 59 DLRPLLPAAAEKGIKVI--TNAGGLNPAGCADIVREIARELGLS-LKVAVVY 107 (362)
T ss_pred HHHHHHHHHHhCCCCEE--EeCCCCCHHHHHHHHHHHHHhcCCC-eeEEEEE
Confidence 44455555555666654 3555555555555556666666664 4444444
No 225
>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=50.07 E-value=67 Score=25.20 Aligned_cols=55 Identities=13% Similarity=0.009 Sum_probs=33.5
Q ss_pred cCCeEEEEecCCCCCc-HHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 43 YGVNVVVAVNMFATDS-EAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT-~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
-++|++++.|+-.-.. .-..+.+.++|++.+...+..+. ++-|.|-.++=+.+++
T Consensus 113 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~S--a~~~~~v~~~~~~~~~ 168 (170)
T cd04116 113 ESFPFVVLGNKNDIPERQVSTEEAQAWCRENGDYPYFETS--AKDATNVAAAFEEAVR 168 (170)
T ss_pred CCCcEEEEEECccccccccCHHHHHHHHHHCCCCeEEEEE--CCCCCCHHHHHHHHHh
Confidence 5789999999865321 11234567888888853243333 3456777666555543
No 226
>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=49.87 E-value=1.2e+02 Score=24.65 Aligned_cols=60 Identities=20% Similarity=0.029 Sum_probs=33.4
Q ss_pred hhcCCeEEEEecCCCCC---cHHHHHHHHHHHHHcCC-CeEEEccccccCchhhHHHHHHHHHHh
Q 042073 41 KAYGVNVVVAVNMFATD---SEAELNAVRIAAMAAGA-FDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 41 ~~fGvpvVVAIN~F~~D---T~~Ei~~i~~~c~~~g~-~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
...+.|++|++|+.... +.++++...+... .+. ..+.+-+.=+.=|+|-.+|=+.+++.+
T Consensus 106 ~~~~~p~iiv~NK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~SA~~~~gi~~l~~~l~~~l 169 (183)
T cd04152 106 ENQGVPVLVLANKQDLPNALSVSEVEKLLALHE-LSASTPWHVQPACAIIGEGLQEGLEKLYEMI 169 (183)
T ss_pred hcCCCcEEEEEECcCccccCCHHHHHHHhCccc-cCCCCceEEEEeecccCCCHHHHHHHHHHHH
Confidence 34689999999997543 2344443332211 111 012233455677778777766666554
No 227
>PRK04804 minC septum formation inhibitor; Reviewed
Probab=49.77 E-value=57 Score=28.61 Aligned_cols=51 Identities=18% Similarity=0.337 Sum_probs=39.6
Q ss_pred ccHHHHHHhHHHHHHHHHHHhhc--CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 21 ENVALVEAGCVNLARHIANTKAY--GVNVVVAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 21 eN~~al~~G~~NL~~HIeNi~~f--GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
.+.+.+ +..|.++++....| |-|+|+-+.... .++.|++.|.+.|++.|..
T Consensus 23 ~~~~~l---~~~L~~kl~~a~~Ff~~~~vvld~~~~~-~~~~~~~~L~~~l~~~gl~ 75 (221)
T PRK04804 23 SDLAAV---AAELDEKLAQAPQFFAGAPLVVNLSAIQ-DGDIDFVALKELLESRQLI 75 (221)
T ss_pred CCHHHH---HHHHHHHHHhChhhhCCCEEEEEecCcC-CCHHHHHHHHHHHHHCCCE
Confidence 344444 45778888888874 788888887765 5568999999999999986
No 228
>PRK11253 ldcA L,D-carboxypeptidase A; Provisional
Probab=49.74 E-value=43 Score=30.81 Aligned_cols=61 Identities=20% Similarity=0.176 Sum_probs=39.1
Q ss_pred HHHHHHHHHhhcCCeEEEEecCC------CCCcHHHHHHHHHHH--HHcCCCeEEEccccccCchhhHHHHHHH
Q 042073 32 NLARHIANTKAYGVNVVVAVNMF------ATDSEAELNAVRIAA--MAAGAFDAVVCSHHAHGGKGAVDLGIAV 97 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN~F------~~DT~~Ei~~i~~~c--~~~g~~~~avs~~wa~GG~Ga~~LA~~V 97 (225)
+|++=++.++++|..|++.=|.+ ..+.++-.+.+.++. ..- +. +++| ..||.|+..|-..+
T Consensus 18 ~~~~~i~~L~~~G~~v~~~~~~~~~~~~~agtd~~Ra~dL~~a~a~~dp-i~-aI~~---~rGGyg~~rlLp~L 86 (305)
T PRK11253 18 AALRGVQRLTDAGHQVENVEVIARRYQRFAGTDGERLADLNSLADLTTP-NT-IVLA---VRGGYGASRLLAGI 86 (305)
T ss_pred HHHHHHHHHHhCCCEEeeccccccccCccCCCHHHHHHHHHHHHhcCCC-cc-EEEE---ecccCCHhHhhhhC
Confidence 34444566677899888877642 334444455555544 333 65 6655 68999999988775
No 229
>PLN03108 Rab family protein; Provisional
Probab=49.22 E-value=92 Score=26.15 Aligned_cols=60 Identities=12% Similarity=0.108 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHhh---cCCeEEEEecCCCCCcH--HHHHHHHHHHHHcCCCeEEEccccccCchhhHH
Q 042073 30 CVNLARHIANTKA---YGVNVVVAVNMFATDSE--AELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVD 92 (225)
Q Consensus 30 ~~NL~~HIeNi~~---fGvpvVVAIN~F~~DT~--~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~ 92 (225)
+.++.+.++.++. -++|+++..|+..-... -..+...+++++.++. +..+. ++=|.|-.+
T Consensus 94 ~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~e~S--a~~~~~v~e 158 (210)
T PLN03108 94 FNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLI-FMEAS--AKTAQNVEE 158 (210)
T ss_pred HHHHHHHHHHHHHhcCCCCcEEEEEECccCccccCCCHHHHHHHHHHcCCE-EEEEe--CCCCCCHHH
Confidence 4455555555543 37999999998754322 1234556778888885 44333 344556554
No 230
>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=49.01 E-value=69 Score=23.04 Aligned_cols=60 Identities=13% Similarity=0.094 Sum_probs=34.3
Q ss_pred HHHHHHhhcCCeEEEEecCCCCCcHHHHHH---HHHHHHHcCCCeEEEccccccCchhhHHHHHHH
Q 042073 35 RHIANTKAYGVNVVVAVNMFATDSEAELNA---VRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAV 97 (225)
Q Consensus 35 ~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~---i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~V 97 (225)
+........++|++|++|+-......+.+. ........+.. +..+... -|.|-.++-+.+
T Consensus 93 ~~~~~~~~~~~~~ivv~nk~D~~~~~~~~~~~~~~~~~~~~~~~-~~~~s~~--~~~~i~~~~~~l 155 (157)
T cd00882 93 LILINKEGENIPIILVGNKIDLPEERVVSEEELAEQLAKELGVP-YFETSAK--TGENVEELFEEL 155 (157)
T ss_pred HHHHhhccCCCcEEEEEeccccccccchHHHHHHHHHHhhcCCc-EEEEecC--CCCChHHHHHHH
Confidence 445556679999999999965544444333 23334444554 4444433 455655555443
No 231
>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA. This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.
Probab=49.00 E-value=70 Score=32.25 Aligned_cols=43 Identities=12% Similarity=0.123 Sum_probs=31.1
Q ss_pred HHHHHHHHHHhhcCCeEEEEecCCCCC---cHHHHHHHHHHHHHcC
Q 042073 31 VNLARHIANTKAYGVNVVVAVNMFATD---SEAELNAVRIAAMAAG 73 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvVVAIN~F~~D---T~~Ei~~i~~~c~~~g 73 (225)
+....|++-++.+|+|++|++|+-... .++-++.+.++..+.|
T Consensus 103 ~qT~~~l~~a~~~~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g 148 (594)
T TIGR01394 103 PQTRFVLKKALELGLKPIVVINKIDRPSARPDEVVDEVFDLFAELG 148 (594)
T ss_pred HHHHHHHHHHHHCCCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhc
Confidence 556788888999999999999998642 2333566666665444
No 232
>PLN00043 elongation factor 1-alpha; Provisional
Probab=48.68 E-value=44 Score=32.28 Aligned_cols=44 Identities=16% Similarity=0.183 Sum_probs=32.2
Q ss_pred HHHHHHHHHHhhcCCe-EEEEecCCCCCc----HHH----HHHHHHHHHHcCC
Q 042073 31 VNLARHIANTKAYGVN-VVVAVNMFATDS----EAE----LNAVRIAAMAAGA 74 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvp-vVVAIN~F~~DT----~~E----i~~i~~~c~~~g~ 74 (225)
.-..+|+.-++.+|+| .||++|+-...+ .+. ++.+++++++.|.
T Consensus 131 ~qT~eh~~~~~~~gi~~iIV~vNKmD~~~~~~~~~~~~~i~~ei~~~l~~~g~ 183 (447)
T PLN00043 131 GQTREHALLAFTLGVKQMICCCNKMDATTPKYSKARYDEIVKEVSSYLKKVGY 183 (447)
T ss_pred chHHHHHHHHHHcCCCcEEEEEEcccCCchhhhHHHHHHHHHHHHHHHHHcCC
Confidence 4778999999999996 599999976321 111 5557777888884
No 233
>cd01137 PsaA Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=48.60 E-value=1.1e+02 Score=27.41 Aligned_cols=24 Identities=17% Similarity=0.058 Sum_probs=18.4
Q ss_pred cccccccHHHHHHhHHHHHHHHHH
Q 042073 16 HAYLNENVALVEAGCVNLARHIAN 39 (225)
Q Consensus 16 ~~l~~eN~~al~~G~~NL~~HIeN 39 (225)
.++-++|.+++.+-+..|.+.++.
T Consensus 145 ~~~y~~N~~~~~~~L~~l~~~~~~ 168 (287)
T cd01137 145 AETYQKNAAAYKAKLKALDEWAKA 168 (287)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455567888888888888887765
No 234
>PRK09989 hypothetical protein; Provisional
Probab=48.41 E-value=1.1e+02 Score=26.40 Aligned_cols=83 Identities=10% Similarity=0.013 Sum_probs=47.5
Q ss_pred HhHHHHHHHHHHHhhcCCeEEEE-ecCCCC--CcH-------HHHHHHHHHHHHcCCCeEEEccc-c----ccCchhhHH
Q 042073 28 AGCVNLARHIANTKAYGVNVVVA-VNMFAT--DSE-------AELNAVRIAAMAAGAFDAVVCSH-H----AHGGKGAVD 92 (225)
Q Consensus 28 ~G~~NL~~HIeNi~~fGvpvVVA-IN~F~~--DT~-------~Ei~~i~~~c~~~g~~~~avs~~-w----a~GG~Ga~~ 92 (225)
.....|++-|+-.+.+|.|.|+. ...++. +.+ +-+..+.+.+++.|+. ..+-.. + ..-..+. +
T Consensus 82 ~~~~~l~~~i~~A~~lg~~~v~v~~g~~~~~~~~~~~~~~~~~~l~~l~~~a~~~gv~-l~lE~l~~~~~~~~~~~~~-~ 159 (258)
T PRK09989 82 EARADIDLALEYALALNCEQVHVMAGVVPAGEDAERYRAVFIDNLRYAADRFAPHGKR-ILVEALSPGVKPHYLFSSQ-Y 159 (258)
T ss_pred HHHHHHHHHHHHHHHhCcCEEEECccCCCCCCCHHHHHHHHHHHHHHHHHHHHhcCCE-EEEEeCCCCCCCCCccCCH-H
Confidence 34578999999999999998864 344432 212 3345566777888996 655321 0 0112222 2
Q ss_pred HHHHHHHHhhcCCCCcccccCC
Q 042073 93 LGIAVQRACENVTQPLKFLYPS 114 (225)
Q Consensus 93 LA~~Vv~~~e~~~~~f~~lY~~ 114 (225)
-+..+++.+. +.+++.++|.
T Consensus 160 ~~~~ll~~v~--~~~v~l~lD~ 179 (258)
T PRK09989 160 QALAIVEEVA--RDNVFIQLDT 179 (258)
T ss_pred HHHHHHHHcC--CCCeEEEeeh
Confidence 2333444443 3457777775
No 235
>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=48.41 E-value=69 Score=26.28 Aligned_cols=57 Identities=21% Similarity=0.206 Sum_probs=33.8
Q ss_pred HHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 37 IANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 37 IeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
++.+...+.|+++++|+-....+.++. ++....+.. +.. .=++-|.|-.++-+.+.+
T Consensus 146 l~~~~~~~~~viiV~NK~Dl~~~~~~~---~~~~~~~~~-~~~--~Sa~~~~gi~~l~~~L~~ 202 (204)
T cd01878 146 LKELGAEDIPMILVLNKIDLLDDEELE---ERLEAGRPD-AVF--ISAKTGEGLDELLEAIEE 202 (204)
T ss_pred HHHcCcCCCCEEEEEEccccCChHHHH---HHhhcCCCc-eEE--EEcCCCCCHHHHHHHHHh
Confidence 344444578999999998776666654 344444443 332 224556777776665543
No 236
>PRK08208 coproporphyrinogen III oxidase; Validated
Probab=48.39 E-value=55 Score=31.21 Aligned_cols=44 Identities=9% Similarity=0.080 Sum_probs=23.9
Q ss_pred HHHHHHHHHhhcCCeEE-E-EecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 32 NLARHIANTKAYGVNVV-V-AVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvV-V-AIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
...+-|+.++++|+++| + .|=-+|.+|.++++.-.+++.++|+.
T Consensus 178 ~~~~ai~~l~~~g~~~i~~dlI~GlP~qt~e~~~~~l~~~~~l~~~ 223 (430)
T PRK08208 178 DVHQALEWIRAAGFPILNIDLIYGIPGQTHASWMESLDQALVYRPE 223 (430)
T ss_pred HHHHHHHHHHHcCCCeEEEEeecCCCCCCHHHHHHHHHHHHhCCCC
Confidence 34444555555666543 2 23345666666666666666666654
No 237
>TIGR03217 4OH_2_O_val_ald 4-hydroxy-2-oxovalerate aldolase. Members of this protein family are 4-hydroxy-2-oxovalerate aldolase, also called 4-hydroxy-2-ketovalerate aldolase and 2-oxo-4-hydroxypentanoate aldolase. This enzyme, part of the pathway for the meta-cleavage of catechol, produces pyruvate and acetaldehyde. Acetaldehyde is then converted by acetaldehyde dehydrogenase (acylating) (DmpF; EC 1.2.1.10) to acetyl-CoA. The two enzymes are tightly associated.
Probab=48.31 E-value=78 Score=29.50 Aligned_cols=51 Identities=16% Similarity=0.107 Sum_probs=30.6
Q ss_pred HHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccc
Q 042073 32 NLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSH 82 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~ 82 (225)
+.++||+-+|+.|..+++.+=.-..=|++++..+.+...+.|+..+.+++.
T Consensus 115 ~~~~~i~~ak~~G~~v~~~l~~s~~~~~e~l~~~a~~~~~~Ga~~i~i~DT 165 (333)
T TIGR03217 115 VSEQHIGMARELGMDTVGFLMMSHMTPPEKLAEQAKLMESYGADCVYIVDS 165 (333)
T ss_pred HHHHHHHHHHHcCCeEEEEEEcccCCCHHHHHHHHHHHHhcCCCEEEEccC
Confidence 567777777777776655543222334666666666666777764444444
No 238
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=48.08 E-value=44 Score=33.11 Aligned_cols=44 Identities=9% Similarity=0.103 Sum_probs=27.8
Q ss_pred HHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 32 NLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
..++.++..+.+|+|+++.+|+.......-.+.+.+.-..+|..
T Consensus 119 ~t~~l~~~~~~~~iPiiv~iNK~D~~~a~~~~~l~~i~~~l~~~ 162 (526)
T PRK00741 119 QTRKLMEVCRLRDTPIFTFINKLDRDGREPLELLDEIEEVLGIA 162 (526)
T ss_pred HHHHHHHHHHhcCCCEEEEEECCcccccCHHHHHHHHHHHhCCC
Confidence 35677777888999999999998654322223333333345554
No 239
>PRK09249 coproporphyrinogen III oxidase; Provisional
Probab=47.81 E-value=65 Score=30.90 Aligned_cols=63 Identities=5% Similarity=-0.014 Sum_probs=42.5
Q ss_pred cccccccHHHHHHh--HHHHHHHHHHHhhcCC-eEEE-EecCCCCCcHHHHHHHHHHHHHcCCCeEE
Q 042073 16 HAYLNENVALVEAG--CVNLARHIANTKAYGV-NVVV-AVNMFATDSEAELNAVRIAAMAAGAFDAV 78 (225)
Q Consensus 16 ~~l~~eN~~al~~G--~~NL~~HIeNi~~fGv-pvVV-AIN~F~~DT~~Ei~~i~~~c~~~g~~~~a 78 (225)
+..+.+-++++.++ .....+-++.++++|+ ++.+ .|--+|.+|.++++...+++.+.|+..+.
T Consensus 170 qS~~~~~L~~l~r~~~~~~~~~ai~~l~~~G~~~v~~dli~GlPgqt~e~~~~~l~~~~~l~~~~i~ 236 (453)
T PRK09249 170 QDFDPEVQKAVNRIQPFEFTFALVEAARELGFTSINIDLIYGLPKQTPESFARTLEKVLELRPDRLA 236 (453)
T ss_pred CCCCHHHHHHhCCCCCHHHHHHHHHHHHHcCCCcEEEEEEccCCCCCHHHHHHHHHHHHhcCCCEEE
Confidence 34444555555554 3456667888888887 4444 34468889999998888888888886333
No 240
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=47.74 E-value=57 Score=26.94 Aligned_cols=82 Identities=11% Similarity=0.133 Sum_probs=49.0
Q ss_pred eEEEEecC-CCCCcHHHHHHHHHHHHHcCCCeEEEccc-c-ccCchhhHHHHHHHH-----HHhhcCCCCcccccCCCCC
Q 042073 46 NVVVAVNM-FATDSEAELNAVRIAAMAAGAFDAVVCSH-H-AHGGKGAVDLGIAVQ-----RACENVTQPLKFLYPSDVS 117 (225)
Q Consensus 46 pvVVAIN~-F~~DT~~Ei~~i~~~c~~~g~~~~avs~~-w-a~GG~Ga~~LA~~Vv-----~~~e~~~~~f~~lY~~~~~ 117 (225)
-.+|.||+ +..++++|.+.++++|++.|++ +.+.+. | ...+.+..+.|+... +.+.+ ..+..+ -....
T Consensus 30 ~~~~~vdh~~~~~s~~~~~~v~~~~~~~~i~-~~~~~~~~~~~~~~~~e~~aR~~Ry~~l~~~a~~--~g~~~i-~~GHh 105 (182)
T PF01171_consen 30 LIAVHVDHGLREESDEEAEFVEEICEQLGIP-LYIVRIDEDRKKGSNIEECARELRYQFLREIAKE--EGCNKI-ALGHH 105 (182)
T ss_dssp EEEEEEE-STSCCHHHHHHHHHHHHHHTT-E-EEEEE--CHCCTTSTCHHHHHHHHHHHHHHHHHT--TT-CEE-E---B
T ss_pred eEEEEEecCCCcccchhHHHHHHHHHhcCCc-eEEEEeeeeecccCCHHHHHHHHHHHHHHHhhhc--ccccce-eecCc
Confidence 45777885 6678899999999999999997 544433 2 234666677777544 22221 223333 34567
Q ss_pred HHHHHHHHHh--Hhcc
Q 042073 118 IKEKIDTIAR--SYGA 131 (225)
Q Consensus 118 i~eKI~~IA~--IYGA 131 (225)
..+-+|++-. .+|.
T Consensus 106 ~dD~~ET~l~~l~rg~ 121 (182)
T PF01171_consen 106 LDDQAETFLMNLLRGS 121 (182)
T ss_dssp HHHHHHHHHHHHHHT-
T ss_pred CCccHHHHHHHHHHhc
Confidence 8888888877 4443
No 241
>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=47.73 E-value=62 Score=25.75 Aligned_cols=66 Identities=14% Similarity=0.001 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHh----hcCCeEEEEecCCCCC---cHHHHHHHHHHH--HHcCCCeEEEccccccCchhhHHHHHHHH
Q 042073 30 CVNLARHIANTK----AYGVNVVVAVNMFATD---SEAELNAVRIAA--MAAGAFDAVVCSHHAHGGKGAVDLGIAVQ 98 (225)
Q Consensus 30 ~~NL~~HIeNi~----~fGvpvVVAIN~F~~D---T~~Ei~~i~~~c--~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv 98 (225)
+.++..+++.+. ..+.|++|++|+-.-. +.+|++...+.. ...+++ + -+.=++-|+|-.+|-+.++
T Consensus 97 ~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~--~~~Sa~~g~gi~~l~~~l~ 171 (173)
T cd04154 97 LDDCKRELKELLQEERLAGATLLILANKQDLPGALSEEEIREALELDKISSHHWR-I--QPCSAVTGEGLLQGIDWLV 171 (173)
T ss_pred HHHHHHHHHHHHhChhhcCCCEEEEEECcccccCCCHHHHHHHhCccccCCCceE-E--EeccCCCCcCHHHHHHHHh
Confidence 445555555542 2689999999997542 334443322211 122332 3 3334566678777766543
No 242
>cd04509 PBP1_ABC_transporter_GCPR_C_like Family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. This CD includes members of the family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. The family C GPCR includes glutamate/glycine-gated ion channels such as the NMDA receptor, G-protein-coupled receptors, metabotropic glutamate, GABA-B, calcium sensing, phermone receptors, and atrial natriuretic peptide-guanylate cyclase receptors. The glutamate receptors that form cation-selective ion channels, iGluR, can be classified into three different subgroups according to their binding-affinity for the agonists NMDA (N-methyl-D-asparate), AMPA (alpha-amino-3-dihydro-5-methyl-3-oxo-4-isoxazolepropionic acid), and kainate. L-glutamate is a major neurotransmitter in the brain of vertebrates and acts th
Probab=47.68 E-value=1.6e+02 Score=24.32 Aligned_cols=116 Identities=13% Similarity=0.100 Sum_probs=67.5
Q ss_pred HHhhcCCeEEEEe---------------cCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhc
Q 042073 39 NTKAYGVNVVVAV---------------NMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACEN 103 (225)
Q Consensus 39 Ni~~fGvpvVVAI---------------N~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~ 103 (225)
-++..++|+|..- -+...|...+...+.++..+.|.+.+++. ..+.. -+....+...+.+++
T Consensus 86 ~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~iv--~~~~~-~~~~~~~~~~~~~~~ 162 (299)
T cd04509 86 VAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEALADYIKEYNWKKVAIL--YDDDS-YGRGLLEAFKAAFKK 162 (299)
T ss_pred HHhhCCceEEeccCCCcccccccCCCCEEEecCCcHHHHHHHHHHHHHcCCcEEEEE--ecCch-HHHHHHHHHHHHHHH
Confidence 3456899988742 11234566778888899998888766544 23333 335555666666654
Q ss_pred CCCCc--ccccCCC-CCHHHHHHHHHh-HhccCCCCC--C-HHHHHHHHHHHHCCC-CCCCeeE
Q 042073 104 VTQPL--KFLYPSD-VSIKEKIDTIAR-SYGASGVEY--S-EEAEKQIKMYTRQGF-SGLPFCM 159 (225)
Q Consensus 104 ~~~~f--~~lY~~~-~~i~eKI~~IA~-IYGA~~V~~--s-~~A~~~l~~~e~~G~-~~lPVCm 159 (225)
..-.. ...|+.. .+..+.++++.+ - ++-|.. + ..+..=++++.+.|+ +++++..
T Consensus 163 ~g~~i~~~~~~~~~~~~~~~~~~~l~~~~--~~~v~~~~~~~~~~~~~~~~~~~g~~~~~~~i~ 224 (299)
T cd04509 163 KGGTVVGEEYYPLGTTDFTSLLQKLKAAK--PDVIVLCGSGEDAATILKQAAEAGLTGGYPILG 224 (299)
T ss_pred cCCEEEEEecCCCCCccHHHHHHHHHhcC--CCEEEEcccchHHHHHHHHHHHcCCCCCCcEEe
Confidence 22111 1223332 456666666643 2 222221 2 788888899999998 3667654
No 243
>PF01180 DHO_dh: Dihydroorotate dehydrogenase; InterPro: IPR012135 Dihydroorotate dehydrogenase (DHOD), also known as dihydroorotate oxidase, catalyses the fourth step in de novo pyrimidine biosynthesis, the stereospecific oxidation of (S)-dihydroorotate to orotate, which is the only redox reaction in this pathway. DHODs can be divided into two mains classes: class 1 cytosolic enzymes found primarily in Gram-positive bacteria, and class 2 membrane-associated enzymes found primarily in eukaryotic mitochondria and Gram-negative bacteria []. The class 1 DHODs can be further divided into subclasses 1A and 1B, which differ in their structural organisation and use of electron acceptors. The 1A enzyme is a homodimer of two PyrD subunits where each subunit forms a TIM barrel fold with a bound FMN cofactor located near the top of the barrel []. Fumarate is the natural electron acceptor for this enzyme. The 1B enzyme, in contrast is a heterotetramer composed of a central, FMN-containing, PyrD homodimer resembling the 1A homodimer, and two additional PyrK subunits which contain FAD and a 2Fe-2S cluster []. These additional groups allow the enzyme to use NAD(+) as its natural electron acceptor. The class 2 membrane-associated enzymes are monomers which have the FMN-containing TIM barrel domain found in the class 1 PyrD subunit, and an additional N-terminal alpha helical domain [, ]. These enzymes use respiratory quinones as the physiological electron acceptor. This entry represents the FMN-binding subunit common to all classes of dihydroorotate dehydrogenase.; GO: 0004152 dihydroorotate dehydrogenase activity, 0006222 UMP biosynthetic process, 0055114 oxidation-reduction process; PDB: 3GYE_A 3GZ3_A 3MHU_B 3MJY_A 3TQ0_A 2B4G_C 1EP3_A 1EP2_A 1EP1_A 3I6R_A ....
Probab=47.50 E-value=60 Score=29.09 Aligned_cols=45 Identities=16% Similarity=0.127 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHhh-cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 30 CVNLARHIANTKA-YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 30 ~~NL~~HIeNi~~-fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
+..+.++....++ ..+||++.||-+..+..+|...+.+..+ .|+.
T Consensus 81 ~~~~~~~~~~~~~~~~~pvi~Si~~~~~~~~~d~~~~a~~~~-~~ad 126 (295)
T PF01180_consen 81 LERLRPILKEAKKDVDIPVIASINGDSEEEIEDWAELAKRLE-AGAD 126 (295)
T ss_dssp HHHHHHTHHHTTCH-CEEEEEEE-TSSSGHHHHHHHHHHHHH-HHCS
T ss_pred HHHHHHHhhhcccccceeEEEEeecCCchhHHHHHHHHHHhc-CcCC
Confidence 3444555444433 5899999999998777777766666555 6675
No 244
>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=47.38 E-value=62 Score=26.14 Aligned_cols=64 Identities=14% Similarity=-0.006 Sum_probs=37.3
Q ss_pred HHHHHHHHhh-cCCeEEEEecCCCCCcHHH--HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 33 LARHIANTKA-YGVNVVVAVNMFATDSEAE--LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 33 L~~HIeNi~~-fGvpvVVAIN~F~~DT~~E--i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
+.+.+..++. .++|+||+.|+-.-..+.+ -+...++|++.++. +..++. .=|.|-.++=+.+++
T Consensus 95 ~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~a~~~~~~-~~e~Sa--~~~~~v~~~f~~l~~ 161 (172)
T cd04141 95 FKKLITRVRLTEDIPLVLVGNKVDLESQRQVTTEEGRNLAREFNCP-FFETSA--ALRHYIDDAFHGLVR 161 (172)
T ss_pred HHHHHHHhcCCCCCCEEEEEEChhhhhcCccCHHHHHHHHHHhCCE-EEEEec--CCCCCHHHHHHHHHH
Confidence 3455666654 6899999999965432211 22346778888885 443333 335666655444443
No 245
>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=47.11 E-value=1.1e+02 Score=24.85 Aligned_cols=70 Identities=24% Similarity=0.270 Sum_probs=43.2
Q ss_pred HHHHH-HHHHHHhhc--CCeEEEEecCCCCCcH---H---------HHHHHHHHHHHcCCCeEEEccccccCchhhHHHH
Q 042073 30 CVNLA-RHIANTKAY--GVNVVVAVNMFATDSE---A---------ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLG 94 (225)
Q Consensus 30 ~~NL~-~HIeNi~~f--GvpvVVAIN~F~~DT~---~---------Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA 94 (225)
+.++. +.++.+++. .+|+|++.|+.....+ . ..+...+++++.|...+..+. ++-|.|-.+|-
T Consensus 88 ~~~~~~~~~~~i~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~S--a~~~~~v~~~f 165 (187)
T cd04129 88 LENVRTKWIEEVRRYCPNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECS--ALTGEGVDDVF 165 (187)
T ss_pred HHHHHHHHHHHHHHhCCCCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcEEEEcc--CCCCCCHHHHH
Confidence 45553 345555442 6999999999764210 0 023456777888863243333 78889988887
Q ss_pred HHHHHHh
Q 042073 95 IAVQRAC 101 (225)
Q Consensus 95 ~~Vv~~~ 101 (225)
+.+++.+
T Consensus 166 ~~l~~~~ 172 (187)
T cd04129 166 EAATRAA 172 (187)
T ss_pred HHHHHHH
Confidence 7777544
No 246
>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]
Probab=46.63 E-value=67 Score=30.93 Aligned_cols=77 Identities=14% Similarity=0.109 Sum_probs=50.7
Q ss_pred CCeEEEEecCCCCCcHHH---HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh--cCCCCcccccCCCCCH
Q 042073 44 GVNVVVAVNMFATDSEAE---LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE--NVTQPLKFLYPSDVSI 118 (225)
Q Consensus 44 GvpvVVAIN~F~~DT~~E---i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e--~~~~~f~~lY~~~~~i 118 (225)
.-|++.+.|.-..|-.+. ++.|+++.++.+.. +++..+ .++.-+..++ ..+..|--.+.. .
T Consensus 206 ~KP~lyvaN~~e~~~~~~n~~~~~i~~~~~~~~~~-vV~~sA----------~~E~eL~~l~~~~e~~~F~~~~g~--~- 271 (372)
T COG0012 206 AKPMLYVANVSEDDLANLNEYVKRLKELAAKENAE-VVPVSA----------AIELELRELADAEEKGEFLIELGQ--K- 271 (372)
T ss_pred cCCeEEEEECCcccccchhHHHHHHHHHhhhcCCc-EEEeeH----------HHHHHHHhCccccchhhHHHhcCc--c-
Confidence 469999999988887655 89999999988886 554432 1222222222 122334444443 3
Q ss_pred HHHHHHHHh-HhccCCC
Q 042073 119 KEKIDTIAR-SYGASGV 134 (225)
Q Consensus 119 ~eKI~~IA~-IYGA~~V 134 (225)
++.|+++.+ -||.-++
T Consensus 272 ~~~l~~~i~~~y~~lgl 288 (372)
T COG0012 272 ESGLNELIRAGYGLLGL 288 (372)
T ss_pred hhHHHHHHHHHhcccch
Confidence 789999888 9998887
No 247
>cd04732 HisA HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-phospho-ribosyl)-4-imidazolecarboxamide). In bacteria and archaea, ProFAR isomerase is encoded by the HisA gene.
Probab=46.47 E-value=83 Score=26.74 Aligned_cols=8 Identities=25% Similarity=0.439 Sum_probs=3.8
Q ss_pred HhccCCCC
Q 042073 128 SYGASGVE 135 (225)
Q Consensus 128 IYGA~~V~ 135 (225)
++.+.+|.
T Consensus 193 vi~~GGi~ 200 (234)
T cd04732 193 VIASGGVS 200 (234)
T ss_pred EEEecCCC
Confidence 44455553
No 248
>COG3961 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]
Probab=46.41 E-value=33 Score=34.56 Aligned_cols=178 Identities=20% Similarity=0.233 Sum_probs=111.4
Q ss_pred CCCccccccccHHHHHHhHHHHHHHHHHHhhcCCeEEEE---ecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccC--
Q 042073 12 KPLDHAYLNENVALVEAGCVNLARHIANTKAYGVNVVVA---VNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHG-- 86 (225)
Q Consensus 12 ~pl~~~l~~eN~~al~~G~~NL~~HIeNi~~fGvpvVVA---IN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~G-- 86 (225)
.||+..+...|.++++.=..- =++-|.+-.-|+|.| ++||.- . +.+++++.+.+++ + ....|.||
T Consensus 181 ~Pl~~~~~~sd~e~~~e~i~~---i~~lI~~ak~p~ILad~~~~r~~~--~---~~~~~l~~~t~~p-~-~~~pmGKg~i 250 (557)
T COG3961 181 TPLDLQLKTSDPEALSEVIDT---IAELINKAKKPVILADALVSRFGL--E---KELKKLINATGFP-V-ATLPMGKGVI 250 (557)
T ss_pred CccccccCCCCHHHHHHHHHH---HHHHHhccCCcEEecchhhhhhhh--H---HHHHHHHHhcCCC-e-EEeecccccc
Confidence 577777777888888765433 345556666788865 677743 2 4667888889997 3 45677776
Q ss_pred ------------chhhHHHHHHHHHHhhc-----------CCCCcccccCCCCCHHHHHHH--HHh-HhccCCCCCCHHH
Q 042073 87 ------------GKGAVDLGIAVQRACEN-----------VTQPLKFLYPSDVSIKEKIDT--IAR-SYGASGVEYSEEA 140 (225)
Q Consensus 87 ------------G~Ga~~LA~~Vv~~~e~-----------~~~~f~~lY~~~~~i~eKI~~--IA~-IYGA~~V~~s~~A 140 (225)
|+=+..=.+++++.++- .+..|++.|+.+..|+=-... |.- .|+ +|.+.+.-
T Consensus 251 dEs~P~y~GvY~G~~s~~~vre~vE~aD~il~iG~~ltD~~Tg~Ft~~~~~~~~i~~~~~~v~I~~~~f~--~l~m~~~L 328 (557)
T COG3961 251 DESHPNYLGVYNGKLSEPEVREAVESADLILTIGVLLTDFNTGGFTYQYKPANIIEIHPDSVKIKDAVFT--NLSMKDAL 328 (557)
T ss_pred cccCCCeeeEEecccCCHHHHHHhhcCCEEEEeceEEeeccccceeeecCcccEEEeccCeeEecccccC--CeeHHHHH
Confidence 33334455566665542 233488888765433322222 222 333 35555544
Q ss_pred HHHHHHHHHCCCCCCCeeE-eecCCC--------cCCC----------CCCC--------ceEEeeEEEeecCCceee-e
Q 042073 141 EKQIKMYTRQGFSGLPFCM-AKTQHS--------FSHN----------APTG--------FILPIRDVRASIGAGFIY-P 192 (225)
Q Consensus 141 ~~~l~~~e~~G~~~lPVCm-AKTqyS--------~Sdd----------~P~~--------f~~~vrdv~~~~GAgFiv-~ 192 (225)
++=.+.+.+.+++..|+-- ++||-+ |+.+ .|.| .-+-+.++++..||-||. +
T Consensus 329 ~~L~~~i~~~~~~~~~~~~~~~~p~~~~~~~~~pLtq~~~w~~~~~fl~p~dviiaetGtS~FG~~~~~lP~~~~~i~Q~ 408 (557)
T COG3961 329 QELAKKIDKRNLSAPPVAYPARTPPTPYPPANEPLTQEWLWNTVQNFLKPGDVIIAETGTSFFGALDIRLPKGATFISQP 408 (557)
T ss_pred HHHHHHhhhcccCCCCccCCCCCCCCCCCCCCCcccHHHHHHHHHhhCCCCCEEEEccccccccceeeecCCCCeEEccc
Confidence 4444889999988888755 666644 2222 4443 445689999999999986 5
Q ss_pred ecccc-cccC
Q 042073 193 LVGTI-STML 201 (225)
Q Consensus 193 ~~G~i-~tMP 201 (225)
+=|.| +|||
T Consensus 409 lWGSIG~t~p 418 (557)
T COG3961 409 LWGSIGYTLP 418 (557)
T ss_pred chhhcccccH
Confidence 88888 6654
No 249
>TIGR02011 IscA iron-sulfur cluster assembly protein IscA. This clade is limited to the proteobacteria.
Probab=46.17 E-value=44 Score=25.67 Aligned_cols=49 Identities=8% Similarity=0.263 Sum_probs=30.5
Q ss_pred CCCCHHHHHHHHHHHHCCCCCC--CeeEee-----cCCCcC-CC--CCCCceEEeeEEE
Q 042073 134 VEYSEEAEKQIKMYTRQGFSGL--PFCMAK-----TQHSFS-HN--APTGFILPIRDVR 182 (225)
Q Consensus 134 V~~s~~A~~~l~~~e~~G~~~l--PVCmAK-----TqyS~S-dd--~P~~f~~~vrdv~ 182 (225)
|++|+.|+++|+++-+..=..+ =|-+.. -+|.|+ +| .+.|.++....++
T Consensus 1 I~iT~~A~~~i~~~~~~~~~~~~lRi~v~~~GCsG~~y~l~l~~~~~~~D~v~~~~g~~ 59 (105)
T TIGR02011 1 ITLTDSAAARVNTFLANRGKGFGLRLGVKTSGCSGMAYVLEFVDEPTPDDIVFEDKGVK 59 (105)
T ss_pred CEECHHHHHHHHHHHhccCCCceEEEEEeCCCCCCEEEEeeecCCCCCCCEEEEcCCEE
Confidence 5689999999999775421223 444443 278888 55 5566555544333
No 250
>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=45.95 E-value=1.1e+02 Score=25.64 Aligned_cols=70 Identities=17% Similarity=0.006 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHhh------cCCeEEEEecCCCCCcHHH--HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 30 CVNLARHIANTKA------YGVNVVVAVNMFATDSEAE--LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 30 ~~NL~~HIeNi~~------fGvpvVVAIN~F~~DT~~E--i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
|.++.+.++.+++ -+.|+|++.|+..-..+.+ .+...++++..|...+.+ =++=|+|-.+|-+.+++.+
T Consensus 89 ~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~~~~i---SAktg~gv~~lf~~l~~~l 165 (215)
T cd04109 89 FENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFAQANGMESCLV---SAKTGDRVNLLFQQLAAEL 165 (215)
T ss_pred HHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHHHHcCCEEEEE---ECCCCCCHHHHHHHHHHHH
Confidence 4555554444443 3468999999976532211 134556777778753333 3455688888888777765
Q ss_pred h
Q 042073 102 E 102 (225)
Q Consensus 102 e 102 (225)
.
T Consensus 166 ~ 166 (215)
T cd04109 166 L 166 (215)
T ss_pred H
Confidence 4
No 251
>TIGR01294 P_lamban phospholamban. This model represents the short (52 residue) transmembrane phosphoprotein phospholamban. Phospholamban, in its unphosphorylated form, inhibits SERCA2, the cardiac sarcoplasmic reticulum Ca-ATPase.
Probab=45.55 E-value=26 Score=24.20 Aligned_cols=28 Identities=25% Similarity=0.398 Sum_probs=25.1
Q ss_pred HHHHHHHh--HhccCCCCCCHHHHHHHHHH
Q 042073 120 EKIDTIAR--SYGASGVEYSEEAEKQIKMY 147 (225)
Q Consensus 120 eKI~~IA~--IYGA~~V~~s~~A~~~l~~~ 147 (225)
||+.-+.+ |-+|+.++..|+|++.|+.+
T Consensus 2 ekvq~~trsairras~ie~~~qar~~lq~l 31 (52)
T TIGR01294 2 EKVQYLTRSAIRRASTIEMPQQARQNLQNL 31 (52)
T ss_pred hHHHHHHHHHHHHHHhccCCHHHHHHHHHH
Confidence 68888888 88999999999999999875
No 252
>cd00958 DhnA Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs) found in bacteria and archaea. Catalysis of the enzymes proceeds via a Schiff-base mechanism like other class I aldolases, although this subfamily is clearly divergent based on sequence similarity to other class I and class II (metal dependent) aldolase subfamilies.
Probab=45.48 E-value=1.9e+02 Score=24.67 Aligned_cols=110 Identities=20% Similarity=0.137 Sum_probs=49.7
Q ss_pred CCeEEEEecC-----CCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchh---hHHHHHHHHHHhhcCCCCcccccCCC
Q 042073 44 GVNVVVAVNM-----FATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKG---AVDLGIAVQRACENVTQPLKFLYPSD 115 (225)
Q Consensus 44 GvpvVVAIN~-----F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~G---a~~LA~~Vv~~~e~~~~~f~~lY~~~ 115 (225)
+.|.++.+|. |+..+.+....-.+.+.+.|+. .+.-..+ .|... -.+.++++.+.|.+ ..++++-+..
T Consensus 55 ~~~~i~~~~~~~~i~~p~~~~~~~~~~v~~a~~~Ga~-~v~~~~~-~~~~~~~~~~~~i~~v~~~~~~--~g~~~iie~~ 130 (235)
T cd00958 55 DIPLIVKLNGSTSLSPKDDNDKVLVASVEDAVRLGAD-AVGVTVY-VGSEEEREMLEELARVAAEAHK--YGLPLIAWMY 130 (235)
T ss_pred CCcEEEEECCCCCCCCCCCCchhhhcCHHHHHHCCCC-EEEEEEe-cCCchHHHHHHHHHHHHHHHHH--cCCCEEEEEe
Confidence 5576766653 4333334333334445568885 3311111 22222 23355556666543 2334333221
Q ss_pred C---------CHHHHHHHHHh---HhccCCCCCCHHH-HHHHHHHHHCCCCCCCeeEe
Q 042073 116 V---------SIKEKIDTIAR---SYGASGVEYSEEA-EKQIKMYTRQGFSGLPFCMA 160 (225)
Q Consensus 116 ~---------~i~eKI~~IA~---IYGA~~V~~s~~A-~~~l~~~e~~G~~~lPVCmA 160 (225)
. + .+-|+..++ -.|||-|-++..- .+.++++.+. ..+||.++
T Consensus 131 ~~g~~~~~~~~-~~~i~~~~~~a~~~GaD~Ik~~~~~~~~~~~~i~~~--~~~pvv~~ 185 (235)
T cd00958 131 PRGPAVKNEKD-PDLIAYAARIGAELGADIVKTKYTGDAESFKEVVEG--CPVPVVIA 185 (235)
T ss_pred ccCCcccCccC-HHHHHHHHHHHHHHCCCEEEecCCCCHHHHHHHHhc--CCCCEEEe
Confidence 1 1 234444333 3588877665321 2334444443 35787654
No 253
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=45.45 E-value=54 Score=34.35 Aligned_cols=66 Identities=24% Similarity=0.275 Sum_probs=37.0
Q ss_pred HHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHH-------HHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 32 NLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIA-------AMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~-------c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
.-..|+..++.+|+|+||++|+..... +..+.+.+. +++.|-. +-+..+=+.=|+|-.+|-+.++.
T Consensus 377 qT~e~i~~a~~~~vPiIVviNKiDl~~-a~~e~V~~eL~~~~~~~e~~g~~-vp~vpvSAktG~GI~eLle~I~~ 449 (787)
T PRK05306 377 QTIEAINHAKAAGVPIIVAINKIDKPG-ANPDRVKQELSEYGLVPEEWGGD-TIFVPVSAKTGEGIDELLEAILL 449 (787)
T ss_pred hHHHHHHHHHhcCCcEEEEEECccccc-cCHHHHHHHHHHhcccHHHhCCC-ceEEEEeCCCCCCchHHHHhhhh
Confidence 345677778889999999999986532 112223322 2233311 11222334556676676666553
No 254
>COG1533 SplB DNA repair photolyase [DNA replication, recombination, and repair]
Probab=45.10 E-value=62 Score=29.83 Aligned_cols=53 Identities=21% Similarity=0.156 Sum_probs=40.0
Q ss_pred HHHHHHhhcCCeEEEEec-CCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCc
Q 042073 35 RHIANTKAYGVNVVVAVN-MFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGG 87 (225)
Q Consensus 35 ~HIeNi~~fGvpvVVAIN-~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG 87 (225)
+=+..+.+-|+|+.|-+= -+|..+|+|+..+.+.+.+.|+..+......-.++
T Consensus 173 ~al~~l~eaGi~~~v~v~PIiP~~~d~e~e~~l~~~~~ag~~~v~~~~l~~~~~ 226 (297)
T COG1533 173 EALKELSEAGIPVGLFVAPIIPGLNDEELERILEAAAEAGARVVVYGTLRLRLD 226 (297)
T ss_pred HHHHHHHHCCCeEEEEEecccCCCChHHHHHHHHHHHHcCCCeeEeeeeeccHH
Confidence 335566779999999887 58888999999999999999998444433333433
No 255
>COG0656 ARA1 Aldo/keto reductases, related to diketogulonate reductase [General function prediction only]
Probab=44.96 E-value=49 Score=30.49 Aligned_cols=114 Identities=19% Similarity=0.183 Sum_probs=70.4
Q ss_pred hHHHH-HHHHHHHhhc-C-CeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcC-
Q 042073 29 GCVNL-ARHIANTKAY-G-VNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENV- 104 (225)
Q Consensus 29 G~~NL-~~HIeNi~~f-G-vpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~- 104 (225)
|..|. ..|++.+.+. + .|+|.=|.-.+-....| +.++|++.|+. +.--.-.++|+. .|-+.++..+.++
T Consensus 139 GVSNF~~~~L~~l~~~~~~~p~~NQIe~hp~~~q~e---l~~~~~~~gI~-v~AysPL~~g~~---l~~~~~l~~Ia~k~ 211 (280)
T COG0656 139 GVSNFGVEHLEELLSLAKVKPAVNQIEYHPYLRQPE---LLPFCQRHGIA-VEAYSPLAKGGK---LLDNPVLAEIAKKY 211 (280)
T ss_pred EeeCCCHHHHHHHHHhcCCCCceEEEEeccCCCcHH---HHHHHHHcCCE-EEEECCcccccc---cccChHHHHHHHHh
Confidence 44454 3567777654 2 36666666678888888 89999999996 543334444443 5556666655431
Q ss_pred -CC--C--cccccCCC---CCHHHHHHHHHhHhccCCCCCCHHHHHHHHHHHH
Q 042073 105 -TQ--P--LKFLYPSD---VSIKEKIDTIARSYGASGVEYSEEAEKQIKMYTR 149 (225)
Q Consensus 105 -~~--~--f~~lY~~~---~~i~eKI~~IA~IYGA~~V~~s~~A~~~l~~~e~ 149 (225)
.+ + ++++.... -|=..+-+.|..-+.+-+.++|++=.++|..+-.
T Consensus 212 g~t~AQv~L~W~i~~gv~~Ipks~~~~ri~eN~~~~~f~Ls~ed~~~i~~l~~ 264 (280)
T COG0656 212 GKTPAQVALRWHIQRGVIVIPKSTTPERIRENLAAFDFELSEEDMAAIDALDR 264 (280)
T ss_pred CCCHHHHHHHHHHhCCcEEecCCCCHHHHHHHHhhhcCCCCHHHHHHHHhhcc
Confidence 12 2 33333311 1223455666668888899999988888877765
No 256
>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=44.76 E-value=1.4e+02 Score=23.10 Aligned_cols=60 Identities=12% Similarity=0.049 Sum_probs=34.8
Q ss_pred HHHHhhcCCeEEEEecCCCCCcHHHH--HHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 37 IANTKAYGVNVVVAVNMFATDSEAEL--NAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 37 IeNi~~fGvpvVVAIN~F~~DT~~Ei--~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
+..+...++|++++.|+.......++ +..+++.+..... +..++. .=|.|-.++-+.+.+
T Consensus 105 l~~~~~~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~~~~-~~~~Sa--~~~~gv~~l~~~i~~ 166 (169)
T cd04114 105 IEQYANNKVITILVGNKIDLAERREVSQQRAEEFSDAQDMY-YLETSA--KESDNVEKLFLDLAC 166 (169)
T ss_pred HHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCe-EEEeeC--CCCCCHHHHHHHHHH
Confidence 33334468999999999876443332 2234455544443 444433 336787777776654
No 257
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=44.54 E-value=1.1e+02 Score=30.04 Aligned_cols=67 Identities=12% Similarity=0.015 Sum_probs=41.9
Q ss_pred HHHHHHHHhhcCCe-EEEEecCCCCCcHHHHHHH----HHHHHH---cCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 33 LARHIANTKAYGVN-VVVAVNMFATDSEAELNAV----RIAAMA---AGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 33 L~~HIeNi~~fGvp-vVVAIN~F~~DT~~Ei~~i----~~~c~~---~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
..+|+..++.+|++ +||+||+-.--++++++.+ +++.+. .+++ +. .+=+.=|+|-.+|-+.+.+.+.
T Consensus 159 T~ehl~i~~~lgi~~iIVvlNKiDlv~~~~~~~~~~ei~~~l~~~~~~~~~-ii--pVSA~~G~nI~~Ll~~L~~~lp 233 (460)
T PTZ00327 159 TSEHLAAVEIMKLKHIIILQNKIDLVKEAQAQDQYEEIRNFVKGTIADNAP-II--PISAQLKYNIDVVLEYICTQIP 233 (460)
T ss_pred hHHHHHHHHHcCCCcEEEEEecccccCHHHHHHHHHHHHHHHHhhccCCCe-EE--EeeCCCCCCHHHHHHHHHhhCC
Confidence 46899988899996 7889999765445554333 333322 2343 22 2334556787777777765553
No 258
>PRK10660 tilS tRNA(Ile)-lysidine synthetase; Provisional
Probab=44.48 E-value=61 Score=31.24 Aligned_cols=51 Identities=14% Similarity=0.120 Sum_probs=33.2
Q ss_pred cCCeE-EEEecC-CCCCcHHHHHHHHHHHHHcCCCeEEEccc-cccCchhhHHHH
Q 042073 43 YGVNV-VVAVNM-FATDSEAELNAVRIAAMAAGAFDAVVCSH-HAHGGKGAVDLG 94 (225)
Q Consensus 43 fGvpv-VVAIN~-F~~DT~~Ei~~i~~~c~~~g~~~~avs~~-wa~GG~Ga~~LA 94 (225)
.|.++ ++-||+ +..+++++.+.++++|+++|++ +.+-+. +...|.+..+.|
T Consensus 43 ~~~~l~a~hvnhglr~~s~~~~~~~~~~~~~l~i~-~~~~~~~~~~~~~~~e~~A 96 (436)
T PRK10660 43 PGVTLRAIHVHHGLSPNADSWVKHCEQVCQQWQVP-LVVERVQLDQRGLGIEAAA 96 (436)
T ss_pred CCCeEEEEEEeCCCCcchHHHHHHHHHHHHHcCCc-EEEEEEeccCCCCCHHHHH
Confidence 34444 566785 5667888889999999999997 655432 113344545544
No 259
>COG1213 Predicted sugar nucleotidyltransferases [Cell envelope biogenesis, outer membrane]
Probab=44.43 E-value=45 Score=30.21 Aligned_cols=56 Identities=23% Similarity=0.216 Sum_probs=41.5
Q ss_pred HhHHHHHHHHHHHhhcCC-eEEEEecCCCCCcHHHHHHHHHHHHHcC-CCeEEEccccccCchh
Q 042073 28 AGCVNLARHIANTKAYGV-NVVVAVNMFATDSEAELNAVRIAAMAAG-AFDAVVCSHHAHGGKG 89 (225)
Q Consensus 28 ~G~~NL~~HIeNi~~fGv-pvVVAIN~F~~DT~~Ei~~i~~~c~~~g-~~~~avs~~wa~GG~G 89 (225)
.|-+=|.|||+|+.+-|+ .+||..|.|-.| ++.++..+.. ...+..+..+.+|.-|
T Consensus 29 ~gr~ii~~~i~~L~~~gi~e~vvV~~g~~~~------lve~~l~~~~~~~~iv~N~~y~ktN~~ 86 (239)
T COG1213 29 GGREIIYRTIENLAKAGITEFVVVTNGYRAD------LVEEFLKKYPFNAKIVINSDYEKTNTG 86 (239)
T ss_pred CCeEeHHHHHHHHHHcCCceEEEEeccchHH------HHHHHHhcCCcceEEEeCCCcccCCce
Confidence 377779999999999888 667777888775 6666666555 2347788888877643
No 260
>PLN02951 Molybderin biosynthesis protein CNX2
Probab=44.28 E-value=88 Score=29.48 Aligned_cols=53 Identities=11% Similarity=0.016 Sum_probs=33.9
Q ss_pred hHHHHHHHHHHHhhcCC-eEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccc
Q 042073 29 GCVNLARHIANTKAYGV-NVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSH 82 (225)
Q Consensus 29 G~~NL~~HIeNi~~fGv-pvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~ 82 (225)
++....+-|+++++.|. |+.|-+-..+.-+++|+..+.+++++.|+. +-+-+.
T Consensus 183 ~~~~vl~~I~~a~~~G~~~vkin~vv~~g~N~~Ei~~li~~a~~~gi~-vr~ie~ 236 (373)
T PLN02951 183 GHDRVLESIDTAIELGYNPVKVNCVVMRGFNDDEICDFVELTRDKPIN-VRFIEF 236 (373)
T ss_pred CHHHHHHHHHHHHHcCCCcEEEEEEecCCCCHHHHHHHHHHHHhCCCe-EEEEEc
Confidence 35555666666677786 443322233455778999999999998874 544444
No 261
>CHL00189 infB translation initiation factor 2; Provisional
Probab=44.05 E-value=63 Score=33.67 Aligned_cols=147 Identities=16% Similarity=0.144 Sum_probs=75.0
Q ss_pred HHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHH-------HHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCC
Q 042073 34 ARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIA-------AMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQ 106 (225)
Q Consensus 34 ~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~-------c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~ 106 (225)
..|+..++.+++|+||++|+..... ++.+.+.+. +.+.|-. +.+..+=+.=|+|-.+|-+.++..++. .
T Consensus 337 ~E~I~~~k~~~iPiIVViNKiDl~~-~~~e~v~~eL~~~~ll~e~~g~~-vpvv~VSAktG~GIdeLle~I~~l~e~--~ 412 (742)
T CHL00189 337 IEAINYIQAANVPIIVAINKIDKAN-ANTERIKQQLAKYNLIPEKWGGD-TPMIPISASQGTNIDKLLETILLLAEI--E 412 (742)
T ss_pred HHHHHHHHhcCceEEEEEECCCccc-cCHHHHHHHHHHhccchHhhCCC-ceEEEEECCCCCCHHHHHHhhhhhhhh--h
Confidence 4567777889999999999976532 122222222 2233321 223334456678888887777665421 0
Q ss_pred CcccccCCCCCHHHHHHHHHhHhccCCCCCCHHHHHHHHHHHHCCCCCCCeeEeecCCCcCCC----CCCCceEEeeEEE
Q 042073 107 PLKFLYPSDVSIKEKIDTIARSYGASGVEYSEEAEKQIKMYTRQGFSGLPFCMAKTQHSFSHN----APTGFILPIRDVR 182 (225)
Q Consensus 107 ~f~~lY~~~~~i~eKI~~IA~IYGA~~V~~s~~A~~~l~~~e~~G~~~lPVCmAKTqyS~Sdd----~P~~f~~~vrdv~ 182 (225)
.++. +.+.+ +.++.|.- .-..|.|.+.-++. .+=+|.-+ ... ..-+||.+.
T Consensus 413 ~lk~--~~~~~-------------~~g~V~e~--------~iD~~~G~V~~~~V-~sGtLr~GD~vv~g~-~~gkVr~m~ 467 (742)
T CHL00189 413 DLKA--DPTQL-------------AQGIILEA--------HLDKTKGPVATILV-QNGTLHIGDIIVIGT-SYAKIRGMI 467 (742)
T ss_pred cccC--CCCCC-------------ceEEEEEE--------EEcCCCceEEEEEE-EcCEEecCCEEEECC-cceEEEEEE
Confidence 1111 00000 00111100 00012332222222 12233332 111 234788888
Q ss_pred eecCCceeeeecccccccCCCCCCCce
Q 042073 183 ASIGAGFIYPLVGTISTMLGLPTRPCF 209 (225)
Q Consensus 183 ~~~GAgFiv~~~G~i~tMPGLpk~Paa 209 (225)
-..|.-.-.+..|++...+||...|.+
T Consensus 468 ~~~~~~v~~a~pgdiV~I~gl~~~~~~ 494 (742)
T CHL00189 468 NSLGNKINLATPSSVVEIWGLSSVPAT 494 (742)
T ss_pred cCCCcCccEEcCCCceEecCcccCCCC
Confidence 887887778888888888999877764
No 262
>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=43.86 E-value=83 Score=25.31 Aligned_cols=56 Identities=13% Similarity=-0.058 Sum_probs=31.1
Q ss_pred cCCeEEEEecCCCCCcHHHHHHHHHHHHHcC-------------CCeEEEccccccCchhhHHHHHHHH
Q 042073 43 YGVNVVVAVNMFATDSEAELNAVRIAAMAAG-------------AFDAVVCSHHAHGGKGAVDLGIAVQ 98 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g-------------~~~~avs~~wa~GG~Ga~~LA~~Vv 98 (225)
.+.|++|+.|+..--..-..+.+++++.... ...+-+...=++.|+|-.++-+.+.
T Consensus 119 ~~~pvivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~e~~~~l~ 187 (190)
T cd00879 119 ANVPFLILGNKIDLPGAVSEEELRQALGLYGTTTGKGVSLKVSGIRPIEVFMCSVVKRQGYGEAFRWLS 187 (190)
T ss_pred cCCCEEEEEeCCCCCCCcCHHHHHHHhCcccccccccccccccCceeEEEEEeEecCCCChHHHHHHHH
Confidence 6799999999986421122334455543211 1112334455777888777655543
No 263
>TIGR00381 cdhD CO dehydrogenase/acetyl-CoA synthase, delta subunit. This is the small subunit of a heterodimer which catalyzes the reaction CO + H2O + Acceptor = CO2 + Reduced acceptor and is involved in the synthesis of acetyl-CoA from CO2 and H2.
Probab=43.85 E-value=1.5e+02 Score=28.85 Aligned_cols=114 Identities=11% Similarity=0.047 Sum_probs=73.9
Q ss_pred HHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCC--eEEEcccc---ccCchhhHHHHHHHHHHhhcCCC
Q 042073 32 NLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAF--DAVVCSHH---AHGGKGAVDLGIAVQRACENVTQ 106 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~--~~avs~~w---a~GG~Ga~~LA~~Vv~~~e~~~~ 106 (225)
|.++..+-.++||.|+|| +..|...+...+.+.+.++|++ +.++--.= ..|=+-+.+--+++..++=++..
T Consensus 228 Ny~~ia~lAk~yg~~Vvv----~s~~Din~ak~Ln~kL~~~Gv~~eDIVlDP~t~alG~Gieya~s~~erIRraALkgD~ 303 (389)
T TIGR00381 228 DYEKIANAAKKYGHVVLS----WTIMDINMQKTLNRYLLKRGLMPRDIVMDPTTCALGYGIEFSITNMERIRLSGLKGDT 303 (389)
T ss_pred hHHHHHHHHHHhCCeEEE----EcCCcHHHHHHHHHHHHHcCCCHHHEEEcCCCccccCCHHHHHHHHHHHHHHHhcCCc
Confidence 777888888999999999 6768888888888888899997 65554332 26666666666666654332222
Q ss_pred Cccc--c------------------cCC---CCCHHHHHHHHHh-HhccCCCC-CCHHHHHHHHHHHH
Q 042073 107 PLKF--L------------------YPS---DVSIKEKIDTIAR-SYGASGVE-YSEEAEKQIKMYTR 149 (225)
Q Consensus 107 ~f~~--l------------------Y~~---~~~i~eKI~~IA~-IYGA~~V~-~s~~A~~~l~~~e~ 149 (225)
.|.+ + |.+ --+++|=+...+- +=|++=+. -.|.+.+.++++-+
T Consensus 304 ~L~~Pii~~~~~~w~~kEa~~~~~~wG~~~~Rg~lwE~~ta~~~~~aG~di~~m~HP~sv~~~k~~~~ 371 (389)
T TIGR00381 304 DLNMPMSSGTTNAWGAREAWMVDSEWGPREYRGPLWEIITGLTMMLAGVDLFMMLHPVSVAVLKEIGN 371 (389)
T ss_pred CCCCCeeccchhhhhheeeccCCCCCCChHHhchhhhHHHHHHHHHcCCcEEEEeCHHHHHHHHHHHH
Confidence 2221 0 100 1245666666666 66666544 46888888877655
No 264
>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=43.82 E-value=1.8e+02 Score=23.91 Aligned_cols=46 Identities=17% Similarity=0.074 Sum_probs=24.2
Q ss_pred cCCeEEEEecCCCCCcHHHHHHHHHHHHHcC----CCeEEEccccccCch
Q 042073 43 YGVNVVVAVNMFATDSEAELNAVRIAAMAAG----AFDAVVCSHHAHGGK 88 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g----~~~~avs~~wa~GG~ 88 (225)
-|+.+|+-+.....-|+++.+.+..+.+..| -.-+++-++|.+=..
T Consensus 82 ~g~~~illVi~~~~~t~~d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~ 131 (196)
T cd01852 82 PGPHAFLLVVPLGRFTEEEEQAVETLQELFGEKVLDHTIVLFTRGDDLEG 131 (196)
T ss_pred CCCEEEEEEEECCCcCHHHHHHHHHHHHHhChHhHhcEEEEEECccccCC
Confidence 4677777776554455666555544433323 122455566665443
No 265
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=43.63 E-value=2.3e+02 Score=24.93 Aligned_cols=120 Identities=13% Similarity=0.107 Sum_probs=73.4
Q ss_pred HHHHhhcCCeEEEEe----------c--CCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcC
Q 042073 37 IANTKAYGVNVVVAV----------N--MFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENV 104 (225)
Q Consensus 37 IeNi~~fGvpvVVAI----------N--~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~ 104 (225)
++.+++.++|+|..- | ++..+...+...+.++..+.|..++++. +.+...-+.++++.+.+.+++.
T Consensus 83 ~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~~i--~~~~~~~g~~~~~~~~~~~~~~ 160 (341)
T cd06341 83 LPYLAGAGIPVIGGAGTSAWELTSPNSFPFSGGTPASLTTWGDFAKDQGGTRAVAL--VTALSAAVSAAAALLARSLAAA 160 (341)
T ss_pred HHHHhhcCCceecCCCCCchhhcCCCeEEecCCCcchhHHHHHHHHHcCCcEEEEE--EeCCcHHHHHHHHHHHHHHHHc
Confidence 367788999988532 1 3455777788899999998887656543 2222224466677777777643
Q ss_pred CCC--cccccCCC-CCHHHHHHHHHhHhccCCCCC---CHHHHHHHHHHHHCCCCCCCeeEe
Q 042073 105 TQP--LKFLYPSD-VSIKEKIDTIARSYGASGVEY---SEEAEKQIKMYTRQGFSGLPFCMA 160 (225)
Q Consensus 105 ~~~--f~~lY~~~-~~i~eKI~~IA~IYGA~~V~~---s~~A~~~l~~~e~~G~~~lPVCmA 160 (225)
.-+ ....|+.+ .+...-+.+|..- +.+.|.+ .+.+..=++++.++|+. .|+++.
T Consensus 161 G~~v~~~~~~~~~~~d~~~~~~~i~~~-~pdaV~~~~~~~~a~~~~~~~~~~G~~-~~~~~~ 220 (341)
T cd06341 161 GVSVAGIVVITATAPDPTPQAQQAAAA-GADAIITVLDAAVCASVLKAVRAAGLT-PKVVLS 220 (341)
T ss_pred CCccccccccCCCCCCHHHHHHHHHhc-CCCEEEEecChHHHHHHHHHHHHcCCC-CCEEEe
Confidence 211 22344443 4555555555431 3444433 34788888999999984 577654
No 266
>PRK14862 rimO ribosomal protein S12 methylthiotransferase; Provisional
Probab=43.62 E-value=49 Score=31.77 Aligned_cols=60 Identities=7% Similarity=-0.002 Sum_probs=38.2
Q ss_pred cccccHHHHHHhH--HHHHHHHHHHhhc--CCeEEEE-ecCCCCCcHHHHHHHHHHHHHcCCCeE
Q 042073 18 YLNENVALVEAGC--VNLARHIANTKAY--GVNVVVA-VNMFATDSEAELNAVRIAAMAAGAFDA 77 (225)
Q Consensus 18 l~~eN~~al~~G~--~NL~~HIeNi~~f--GvpvVVA-IN~F~~DT~~Ei~~i~~~c~~~g~~~~ 77 (225)
.+++.++.++++. ....+-|+.+++. |+.+... |==||.+|+++++...+++++.+...+
T Consensus 266 gs~~vLk~m~r~~~~~~~~~~i~~lr~~~~~i~i~t~~IvGfPgET~edf~~tl~fi~e~~~d~~ 330 (440)
T PRK14862 266 ASPRVLKRMKRPASVEKTLERIKKWREICPDLTIRSTFIVGFPGETEEDFQMLLDFLKEAQLDRV 330 (440)
T ss_pred CCHHHHHhcCCCCCHHHHHHHHHHHHHHCCCceecccEEEECCCCCHHHHHHHHHHHHHcCCCee
Confidence 3445666665542 3445556666653 3332221 223799999999999999999998633
No 267
>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=43.62 E-value=1.4e+02 Score=24.31 Aligned_cols=72 Identities=14% Similarity=0.120 Sum_probs=41.1
Q ss_pred hHHHHHH-HHHHHhh--cCCeEEEEecCCCCCcHHHH--------------HHHHHHHHHcCCCeEEEccccccCchhhH
Q 042073 29 GCVNLAR-HIANTKA--YGVNVVVAVNMFATDSEAEL--------------NAVRIAAMAAGAFDAVVCSHHAHGGKGAV 91 (225)
Q Consensus 29 G~~NL~~-HIeNi~~--fGvpvVVAIN~F~~DT~~Ei--------------~~i~~~c~~~g~~~~avs~~wa~GG~Ga~ 91 (225)
-|.|+.+ .++.+++ -++|+|++.|+-.-..+.+. +...+++++.+...+..+ =++=|+|-.
T Consensus 86 sf~~~~~~~~~~i~~~~~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~--SAk~~~~v~ 163 (189)
T cd04134 86 SLENVESKWLGEIREHCPGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLEC--SAKLNRGVN 163 (189)
T ss_pred HHHHHHHHHHHHHHHhCCCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEc--cCCcCCCHH
Confidence 3555542 3555554 38999999998654322221 123456666663223333 345567888
Q ss_pred HHHHHHHHHhh
Q 042073 92 DLGIAVQRACE 102 (225)
Q Consensus 92 ~LA~~Vv~~~e 102 (225)
++=+.+++.+-
T Consensus 164 e~f~~l~~~~~ 174 (189)
T cd04134 164 EAFTEAARVAL 174 (189)
T ss_pred HHHHHHHHHHh
Confidence 87777776554
No 268
>PRK12297 obgE GTPase CgtA; Reviewed
Probab=43.56 E-value=1.1e+02 Score=29.54 Aligned_cols=56 Identities=20% Similarity=0.103 Sum_probs=36.7
Q ss_pred cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhc
Q 042073 43 YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACEN 103 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~ 103 (225)
.+.|.||++|+-.-... .+.+.++++..+.. +..+. +.=|+|-.+|-+.+.+.+.+
T Consensus 273 ~~kP~IVV~NK~DL~~~--~e~l~~l~~~l~~~-i~~iS--A~tgeGI~eL~~~L~~~l~~ 328 (424)
T PRK12297 273 LERPQIVVANKMDLPEA--EENLEEFKEKLGPK-VFPIS--ALTGQGLDELLYAVAELLEE 328 (424)
T ss_pred cCCcEEEEEeCCCCcCC--HHHHHHHHHHhCCc-EEEEe--CCCCCCHHHHHHHHHHHHHh
Confidence 47899999999764211 12345556666654 33332 34578889998888887764
No 269
>PRK04452 acetyl-CoA decarbonylase/synthase complex subunit delta; Provisional
Probab=43.46 E-value=1.5e+02 Score=27.91 Aligned_cols=77 Identities=16% Similarity=0.149 Sum_probs=48.9
Q ss_pred cccHHHHHHhHH---------------HHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCC--CeEEEccc
Q 042073 20 NENVALVEAGCV---------------NLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGA--FDAVVCSH 82 (225)
Q Consensus 20 ~eN~~al~~G~~---------------NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~--~~~avs~~ 82 (225)
++|.++|++|++ |.++-.+-.++||.|||+ +..|.-+....+.+.+.+.|+ .+.++ +.
T Consensus 136 ~kD~evleaale~~~g~~pLInSat~en~~~i~~lA~~y~~~Vva----~s~~Dln~ak~L~~~l~~~Gi~~edIvi-DP 210 (319)
T PRK04452 136 EKDAEVLEKVAEAAEGERCLLGSAEEDNYKKIAAAAMAYGHAVIA----WSPLDINLAKQLNILLTELGVPRERIVM-DP 210 (319)
T ss_pred CCCHHHHHHHHHHhCCCCCEEEECCHHHHHHHHHHHHHhCCeEEE----EcHHHHHHHHHHHHHHHHcCCCHHHEEE-eC
Confidence 357888888875 555667777889999988 444556666666677778999 33222 22
Q ss_pred ccc----CchhhHHHHHHHHHHh
Q 042073 83 HAH----GGKGAVDLGIAVQRAC 101 (225)
Q Consensus 83 wa~----GG~Ga~~LA~~Vv~~~ 101 (225)
-.. |-+.+.+.-+++..++
T Consensus 211 ~~~~lg~g~e~~~~~~e~IR~aA 233 (319)
T PRK04452 211 TTGALGYGIEYSYSVMERIRLAA 233 (319)
T ss_pred CcccccCCHHHHHHHHHHHHHHH
Confidence 223 5555566555555543
No 270
>PRK05286 dihydroorotate dehydrogenase 2; Reviewed
Probab=43.39 E-value=1.5e+02 Score=27.46 Aligned_cols=49 Identities=20% Similarity=0.252 Sum_probs=36.3
Q ss_pred HHHHHHHHhh-cC-----CeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEcccc
Q 042073 33 LARHIANTKA-YG-----VNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHH 83 (225)
Q Consensus 33 L~~HIeNi~~-fG-----vpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~w 83 (225)
+.+-++.+++ .+ +||.|=|. +..|.+|+..+.+.+.+.|+..+.+++.+
T Consensus 194 ~~eiv~aVr~~~~~~~~~~PV~vKls--p~~~~~~~~~ia~~l~~~Gadgi~~~nt~ 248 (344)
T PRK05286 194 LDELLAALKEAQAELHGYVPLLVKIA--PDLSDEELDDIADLALEHGIDGVIATNTT 248 (344)
T ss_pred HHHHHHHHHHHHhccccCCceEEEeC--CCCCHHHHHHHHHHHHHhCCcEEEEeCCc
Confidence 3445555554 44 99999999 34566788889899999999877777755
No 271
>TIGR00487 IF-2 translation initiation factor IF-2. This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.
Probab=43.32 E-value=62 Score=32.62 Aligned_cols=65 Identities=23% Similarity=0.261 Sum_probs=38.8
Q ss_pred HHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCC------eEEEccccccCchhhHHHHHHHHH
Q 042073 34 ARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAF------DAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 34 ~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~------~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
..|+..++.+++|+||++|+-.... +..+.+.+++.+.|.. +..+-..=+.=|+|-.+|-+.++.
T Consensus 177 ~e~i~~~~~~~vPiIVviNKiDl~~-~~~e~v~~~L~~~g~~~~~~~~~~~~v~iSAktGeGI~eLl~~I~~ 247 (587)
T TIGR00487 177 IEAISHAKAANVPIIVAINKIDKPE-ANPDRVKQELSEYGLVPEDWGGDTIFVPVSALTGDGIDELLDMILL 247 (587)
T ss_pred HHHHHHHHHcCCCEEEEEECccccc-CCHHHHHHHHHHhhhhHHhcCCCceEEEEECCCCCChHHHHHhhhh
Confidence 4567777889999999999976421 1223344444444431 012223445667787787777654
No 272
>PRK09997 hydroxypyruvate isomerase; Provisional
Probab=43.29 E-value=1.5e+02 Score=25.60 Aligned_cols=81 Identities=16% Similarity=0.133 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHhhcCCeEEEEe-cCCCC-CcHHH--------HHHHHHHHHHcCCCeEEEcc--cccc-C--chhhHHHH
Q 042073 30 CVNLARHIANTKAYGVNVVVAV-NMFAT-DSEAE--------LNAVRIAAMAAGAFDAVVCS--HHAH-G--GKGAVDLG 94 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVVAI-N~F~~-DT~~E--------i~~i~~~c~~~g~~~~avs~--~wa~-G--G~Ga~~LA 94 (225)
..++++.|+-.+.+|.|.|+.. -..+. .+++| +..+.+.+++.|+. +++-. ++.- | ..... -+
T Consensus 84 ~~~~~~~i~~a~~lga~~i~~~~g~~~~~~~~~~~~~~~~~~l~~l~~~a~~~Gv~-l~lE~~n~~~~~~~~~~~~~-~~ 161 (258)
T PRK09997 84 RDGVAAAIRYARALGNKKINCLVGKTPAGFSSEQIHATLVENLRYAANMLMKEDIL-LLIEPINHFDIPGFHLTGTR-QA 161 (258)
T ss_pred HHHHHHHHHHHHHhCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCE-EEEEeCCCcCCCCCccCCHH-HH
Confidence 3678999999999999987653 11112 22333 24445566788996 77753 4321 1 22222 33
Q ss_pred HHHHHHhhcCCCCcccccCC
Q 042073 95 IAVQRACENVTQPLKFLYPS 114 (225)
Q Consensus 95 ~~Vv~~~e~~~~~f~~lY~~ 114 (225)
.++++.+. +..++.++|.
T Consensus 162 ~~ll~~v~--~~~v~l~~D~ 179 (258)
T PRK09997 162 LKLIDDVG--CCNLKIQYDI 179 (258)
T ss_pred HHHHHHhC--CCCEEEEeEH
Confidence 33455543 2346666653
No 273
>PRK08227 autoinducer 2 aldolase; Validated
Probab=43.18 E-value=2.6e+02 Score=25.48 Aligned_cols=54 Identities=13% Similarity=0.108 Sum_probs=36.9
Q ss_pred hHHHHHHHHHHHhhcCCeEEEEecCCC--CCcHHHHHHHHHHHHHcCCCeEEEccccc
Q 042073 29 GCVNLARHIANTKAYGVNVVVAVNMFA--TDSEAELNAVRIAAMAAGAFDAVVCSHHA 84 (225)
Q Consensus 29 G~~NL~~HIeNi~~fGvpvVVAIN~F~--~DT~~Ei~~i~~~c~~~g~~~~avs~~wa 84 (225)
=+.+|.+=++...+||+|++.-.=|=+ .|...-|....+.+.|+|+. + +-.-|.
T Consensus 125 ~l~~l~~v~~ea~~~G~Plla~~prG~~~~~~~~~ia~aaRiaaELGAD-i-VK~~y~ 180 (264)
T PRK08227 125 SIKNIIQLVDAGLRYGMPVMAVTAVGKDMVRDARYFSLATRIAAEMGAQ-I-IKTYYV 180 (264)
T ss_pred HHHHHHHHHHHHHHhCCcEEEEecCCCCcCchHHHHHHHHHHHHHHcCC-E-EecCCC
Confidence 367888888888999999887332211 34444677777788899996 4 445565
No 274
>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=42.98 E-value=1.6e+02 Score=22.84 Aligned_cols=56 Identities=11% Similarity=-0.029 Sum_probs=34.7
Q ss_pred CCeEEEEecCCCCCcHH--HHHHHHHHHHHcC-CCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 44 GVNVVVAVNMFATDSEA--ELNAVRIAAMAAG-AFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 44 GvpvVVAIN~F~~DT~~--Ei~~i~~~c~~~g-~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
++|+++++|+..--.+. -.+.+.++++..| +.-+.+| ++=|.|-.+|-+.+++.+-
T Consensus 109 ~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~S---a~~~~gv~~l~~~i~~~~~ 167 (172)
T cd01862 109 NFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYFETS---AKEAINVEQAFETIARKAL 167 (172)
T ss_pred CceEEEEEECcccccccccCHHHHHHHHHHcCCceEEEEE---CCCCCCHHHHHHHHHHHHH
Confidence 79999999997553111 1244567778777 4323333 3336777777777776553
No 275
>TIGR02717 AcCoA-syn-alpha acetyl coenzyme A synthetase (ADP forming), alpha domain. Although technically reversible, it is believed that this group of ADP-dependent acetyl-CoA synthetases (ACS) act in the direction of acetate and ATP production in the organisms in which it has been characterized. In most species this protein exists as a fused alpha-beta domain polypeptide. In Pyrococcus and related species, however the domains exist as separate polypeptides. This model represents the alpha (N-terminal) domain. In Pyrococcus and related species there appears to have been the development of a paralogous family such that four other proteins are close relatives. In reference, one of these (along with its beta-domain partner) was characterized as ACS-II showing specificity for phenylacetyl-CoA. This model has been constructed to exclude these non-ACS-I paralogs. This may result in new, authentic ACS-I sequences falling below the trusted cutoff.
Probab=42.96 E-value=1.5e+02 Score=28.63 Aligned_cols=42 Identities=14% Similarity=0.140 Sum_probs=30.5
Q ss_pred HHHHHHHHHHcCCCeE-EEccccccCchhhHHHHHHHHHHhhc
Q 042073 62 LNAVRIAAMAAGAFDA-VVCSHHAHGGKGAVDLGIAVQRACEN 103 (225)
Q Consensus 62 i~~i~~~c~~~g~~~~-avs~~wa~GG~Ga~~LA~~Vv~~~e~ 103 (225)
...+.+.|.++|++.+ .++.+|++-|..+.+|-+++++.+.+
T Consensus 77 ~~~~l~e~~~~gv~~~vi~s~gf~e~g~~g~~~~~~l~~~a~~ 119 (447)
T TIGR02717 77 VPQVVEECGEKGVKGAVVITAGFKEVGEEGAELEQELVEIARK 119 (447)
T ss_pred HHHHHHHHHhcCCCEEEEECCCccccCcchHHHHHHHHHHHHH
Confidence 3455666888999744 45789998776566777888888764
No 276
>PTZ00393 protein tyrosine phosphatase; Provisional
Probab=42.64 E-value=1.1e+02 Score=27.83 Aligned_cols=106 Identities=21% Similarity=0.180 Sum_probs=69.8
Q ss_pred HHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhc----CCC-
Q 042073 32 NLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACEN----VTQ- 106 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~----~~~- 106 (225)
|+..+|+.++++||..||-+|.+.-|. +++ ++.|+. ...=-|.+|+.-..+.-++.++.++. +..
T Consensus 104 ~~~~yl~eLk~~gV~~lVrlcE~~Yd~-~~~-------~~~GI~--~~~lpipDg~aPs~~~i~~~l~~i~~~l~~g~~V 173 (241)
T PTZ00393 104 LLPLYIKEMKNYNVTDLVRTCERTYND-GEI-------TSAGIN--VHELIFPDGDAPTVDIVSNWLTIVNNVIKNNRAV 173 (241)
T ss_pred HHHHHHHHHHHcCCCEEEECCCCCCCH-HHH-------HHcCCe--EEEeecCCCCCCCHHHHHHHHHHHHHHHhcCCeE
Confidence 778999999999999999998876653 333 357775 34456788887777766666665542 100
Q ss_pred -----------C---cccccCCCCCHHHHHHHHHh-HhccCCCCCCHHHHHHHHHHHHCC
Q 042073 107 -----------P---LKFLYPSDVSIKEKIDTIAR-SYGASGVEYSEEAEKQIKMYTRQG 151 (225)
Q Consensus 107 -----------~---f~~lY~~~~~i~eKI~~IA~-IYGA~~V~~s~~A~~~l~~~e~~G 151 (225)
. ..+|-...++.+|=|+.|-. ==|| + ...=.+.|++|++..
T Consensus 174 aVHC~AGlGRTGtl~AayLI~~GmspeeAI~~VR~~RPgA--I--n~~Q~~fL~~y~~~~ 229 (241)
T PTZ00393 174 AVHCVAGLGRAPVLASIVLIEFGMDPIDAIVFIRDRRKGA--I--NKRQLQFLKAYKKKK 229 (241)
T ss_pred EEECCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHCCCC--C--CHHHHHHHHHHHHhc
Confidence 0 12444567788888877766 3333 4 456666677777653
No 277
>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=42.63 E-value=1.6e+02 Score=23.19 Aligned_cols=67 Identities=7% Similarity=-0.009 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHhh---cCCeEEEEecCCCCCcHHH--HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 30 CVNLARHIANTKA---YGVNVVVAVNMFATDSEAE--LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 30 ~~NL~~HIeNi~~---fGvpvVVAIN~F~~DT~~E--i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
|.++.+-++.+++ -++|+++.-|+..-....+ .+....+++..+..-+..|-. =|.|-.++=+.+++
T Consensus 88 f~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~---~~~~v~~~f~~l~~ 159 (161)
T cd04117 88 YQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSAC---TNSNIKESFTRLTE 159 (161)
T ss_pred HHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCC---CCCCHHHHHHHHHh
Confidence 3444444444433 3689999999986432222 134555667777752333332 25676666555543
No 278
>PF06506 PrpR_N: Propionate catabolism activator; InterPro: IPR010524 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents a domain found at the N terminus of several sigma54- dependent transcriptional activators including PrpR, which activates catabolism of propionate. In Salmonella enterica subsp. enterica serovar Typhimurium, PrpR acts as a sensor of 2-methylcitrate (2-MC), an intermediate of the 2-methylcitric acid cycle used by this bacterium to convert propionate to pyruvate []. ; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay); PDB: 2Q5C_A 2PJU_A.
Probab=42.60 E-value=16 Score=30.38 Aligned_cols=68 Identities=25% Similarity=0.341 Sum_probs=42.3
Q ss_pred cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHHHH
Q 042073 43 YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKEKI 122 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~eKI 122 (225)
+|+++.. |+-++++|++...+.+++.|+. +.+. |....++|++ ..-+.-++|...+||+.=|
T Consensus 99 l~~~i~~----~~~~~~~e~~~~i~~~~~~G~~-viVG------g~~~~~~A~~-------~gl~~v~i~sg~esi~~Al 160 (176)
T PF06506_consen 99 LGVDIKI----YPYDSEEEIEAAIKQAKAEGVD-VIVG------GGVVCRLARK-------LGLPGVLIESGEESIRRAL 160 (176)
T ss_dssp HT-EEEE----EEESSHHHHHHHHHHHHHTT---EEEE------SHHHHHHHHH-------TTSEEEESS--HHHHHHHH
T ss_pred hCCceEE----EEECCHHHHHHHHHHHHHcCCc-EEEC------CHHHHHHHHH-------cCCcEEEEEecHHHHHHHH
Confidence 5665444 6678899999999999999996 7764 4455566543 2233567777777887766
Q ss_pred HHHHhH
Q 042073 123 DTIARS 128 (225)
Q Consensus 123 ~~IA~I 128 (225)
+.=.++
T Consensus 161 ~eA~~i 166 (176)
T PF06506_consen 161 EEALRI 166 (176)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 653333
No 279
>COG1038 PycA Pyruvate carboxylase [Energy production and conversion]
Probab=42.54 E-value=40 Score=36.04 Aligned_cols=111 Identities=21% Similarity=0.242 Sum_probs=79.9
Q ss_pred HHHHHHHhhcCCeEEEEecCCCCCcHHH-HHHHHHHHHHcCCCeEEEccccccCchhh------HHHHHHHHHHhhc---
Q 042073 34 ARHIANTKAYGVNVVVAVNMFATDSEAE-LNAVRIAAMAAGAFDAVVCSHHAHGGKGA------VDLGIAVQRACEN--- 103 (225)
Q Consensus 34 ~~HIeNi~~fGvpvVVAIN~F~~DT~~E-i~~i~~~c~~~g~~~~avs~~wa~GG~Ga------~~LA~~Vv~~~e~--- 103 (225)
-+-.+-..+-|+|||-+- |-.-| ++.+.+++++.|.+ +-+--.|.-||.|. .+|++++-++-.+
T Consensus 123 v~Ar~~A~~agvPvipgt-----~~~~~~~ee~~~fa~~~gyP-vmiKA~~GGGGRGMR~vr~~~~l~~~~~~AksEAka 196 (1149)
T COG1038 123 VKARNAAIKAGVPVIPGT-----DGPIETIEEALEFAEEYGYP-VMIKAAAGGGGRGMRVVRSEADLAEAFERAKSEAKA 196 (1149)
T ss_pred HHHHHHHHHcCCCccCCC-----CCCcccHHHHHHHHHhcCCc-EEEEEccCCCccceeeecCHHHHHHHHHHHHHHHHH
Confidence 344444567899999854 44444 67778999999998 88999999999995 4688877665432
Q ss_pred --------------CC------------CCcccccCCCCCHHHHHHHHHhHhccCCCCCCHHHHHHHHH-----HHHCCC
Q 042073 104 --------------VT------------QPLKFLYPSDVSIKEKIDTIARSYGASGVEYSEEAEKQIKM-----YTRQGF 152 (225)
Q Consensus 104 --------------~~------------~~f~~lY~~~~~i~eKI~~IA~IYGA~~V~~s~~A~~~l~~-----~e~~G~ 152 (225)
+| .+.-.||+.+-|++.+=.|+.. -|-.+.+|++-+.+|-. .++-||
T Consensus 197 AFG~~eVyvEk~ve~pkHIEVQiLgD~~GnvvHLfERDCSvQRRhQKVVE--~APa~~L~~~~R~~ic~~Avkla~~~~Y 274 (1149)
T COG1038 197 AFGNDEVYVEKLVENPKHIEVQILGDTHGNVVHLFERDCSVQRRHQKVVE--VAPAPYLSPELRDEICDDAVKLARNIGY 274 (1149)
T ss_pred hcCCCcEEhhhhhcCcceeEEEEeecCCCCEEEEeecccchhhccceeEE--ecCCCCCCHHHHHHHHHHHHHHHHHcCC
Confidence 11 1244689999999987766544 57788899998887654 345566
No 280
>TIGR01859 fruc_bis_ald_ fructose-1,6-bisphosphate aldolase, class II, various bacterial and amitochondriate protist. This model represents of one of several subtypes of the class II fructose-1,6-bisphosphate aldolase, an enzyme of glycolysis. The subtypes are split into several models to allow separation of a family of tagatose bisphosphate aldolases. This form is found in Gram-positive bacteria, a variety of Gram-negative, and in amitochondriate protists. The class II enzymes share homology with tagatose bisphosphate aldolase but not with class I aldolase.
Probab=42.36 E-value=1.7e+02 Score=26.65 Aligned_cols=24 Identities=8% Similarity=0.026 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHh-hcC-CeEEEEecC
Q 042073 30 CVNLARHIANTK-AYG-VNVVVAVNM 53 (225)
Q Consensus 30 ~~NL~~HIeNi~-~fG-vpvVVAIN~ 53 (225)
+.+|...+..+. ++. +||++-+.+
T Consensus 58 ~~~~~~~~~~~a~~~~~vpv~lhlDH 83 (282)
T TIGR01859 58 YKMAVAMVKTLIERMSIVPVALHLDH 83 (282)
T ss_pred HHHHHHHHHHHHHHCCCCeEEEECCC
Confidence 444444444432 244 444444443
No 281
>TIGR01037 pyrD_sub1_fam dihydroorotate dehydrogenase (subfamily 1) family protein. This family includes subfamily 1 dihydroorotate dehydrogenases while excluding the closely related subfamily 2 (TIGR01036). This family also includes a number of uncharacterized proteins and a domain of dihydropyrimidine dehydrogenase. The uncharacterized proteins might all be dihydroorotate dehydrogenase.
Probab=42.07 E-value=2.5e+02 Score=25.02 Aligned_cols=72 Identities=17% Similarity=0.192 Sum_probs=39.4
Q ss_pred hHHHHHHHHHHHh-hcCCeEEEEecCCCCCcHHHHHHHHHHHHHcC--CCeEEEc---cccccCch---hhHHHHHHHHH
Q 042073 29 GCVNLARHIANTK-AYGVNVVVAVNMFATDSEAELNAVRIAAMAAG--AFDAVVC---SHHAHGGK---GAVDLGIAVQR 99 (225)
Q Consensus 29 G~~NL~~HIeNi~-~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g--~~~~avs---~~wa~GG~---Ga~~LA~~Vv~ 99 (225)
|.....+++...+ .++.|++|-|+ ..+.+|+....+.+++.+ +.-+.++ -.....|. +-.++..++++
T Consensus 74 g~~~~~~~~~~~~~~~~~pl~~qi~---g~~~~~~~~~a~~~~~~~~~~d~ielN~~cP~~~~~g~~l~~~~~~~~eiv~ 150 (300)
T TIGR01037 74 GVEAFLEELKPVREEFPTPLIASVY---GSSVEEFAEVAEKLEKAPPYVDAYELNLSCPHVKGGGIAIGQDPELSADVVK 150 (300)
T ss_pred CHHHHHHHHHHHhccCCCcEEEEee---cCCHHHHHHHHHHHHhccCccCEEEEECCCCCCCCCccccccCHHHHHHHHH
Confidence 3333344444433 48889888875 345788888888877653 5423332 12211122 34466666776
Q ss_pred Hhhc
Q 042073 100 ACEN 103 (225)
Q Consensus 100 ~~e~ 103 (225)
.+.+
T Consensus 151 ~vr~ 154 (300)
T TIGR01037 151 AVKD 154 (300)
T ss_pred HHHH
Confidence 6643
No 282
>PLN03126 Elongation factor Tu; Provisional
Probab=42.05 E-value=57 Score=31.98 Aligned_cols=44 Identities=25% Similarity=0.202 Sum_probs=29.8
Q ss_pred HHHHHHHHHHhhcCCe-EEEEecCCCCCcHHH----HH-HHHHHHHHcCC
Q 042073 31 VNLARHIANTKAYGVN-VVVAVNMFATDSEAE----LN-AVRIAAMAAGA 74 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvp-vVVAIN~F~~DT~~E----i~-~i~~~c~~~g~ 74 (225)
..-++|+..++.+|+| .||+||+...=+++| +. .++++.+..|.
T Consensus 183 ~qt~e~~~~~~~~gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~~g~ 232 (478)
T PLN03126 183 PQTKEHILLAKQVGVPNMVVFLNKQDQVDDEELLELVELEVRELLSSYEF 232 (478)
T ss_pred HHHHHHHHHHHHcCCCeEEEEEecccccCHHHHHHHHHHHHHHHHHhcCC
Confidence 3457899999999999 789999986533332 22 45555555543
No 283
>PLN03127 Elongation factor Tu; Provisional
Probab=42.01 E-value=44 Score=32.33 Aligned_cols=27 Identities=26% Similarity=0.237 Sum_probs=22.0
Q ss_pred HHHHHHHHHHhhcCCeE-EEEecCCCCC
Q 042073 31 VNLARHIANTKAYGVNV-VVAVNMFATD 57 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpv-VVAIN~F~~D 57 (225)
..-+.|+.-++.+|+|. ||+||+...=
T Consensus 163 ~qt~e~l~~~~~~gip~iIvviNKiDlv 190 (447)
T PLN03127 163 PQTKEHILLARQVGVPSLVVFLNKVDVV 190 (447)
T ss_pred hhHHHHHHHHHHcCCCeEEEEEEeeccC
Confidence 34578999999999994 7899998653
No 284
>TIGR01125 MiaB-like tRNA modifying enzyme YliG, TIGR01125. This clade spans alpha and gamma proteobacteria, cyano bacteria, deinococcus, porphyromonas, aquifex, helicobacter, campylobacter, thermotoga, chlamydia, streptococcus coelicolor and clostridium, but does not include most other gram positive bacteria, archaea or eukaryotes.
Probab=41.88 E-value=61 Score=30.79 Aligned_cols=60 Identities=7% Similarity=-0.026 Sum_probs=39.1
Q ss_pred cccccccHHHHHHhH--HHHHHHHHHHhhcC--CeE-EEEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 16 HAYLNENVALVEAGC--VNLARHIANTKAYG--VNV-VVAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 16 ~~l~~eN~~al~~G~--~NL~~HIeNi~~fG--vpv-VVAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
+..+++.++.+.+|. +...+=|+.+++.+ +.+ .-.|-=||.+|+++++...+++++.++.
T Consensus 253 ES~s~~vLk~m~k~~~~~~~~~~i~~l~~~~~~i~i~~~~I~G~PgET~e~~~~t~~fl~~~~~~ 317 (430)
T TIGR01125 253 QHASDRILKLMRRPGSGEQQLDFIERLREKCPDAVLRTTFIVGFPGETEEDFQELLDFVEEGQFD 317 (430)
T ss_pred CCCCHHHHhhCCCCCCHHHHHHHHHHHHHhCCCCeEeEEEEEECCCCCHHHHHHHHHHHHhcCCC
Confidence 334456666666653 23344556666653 322 1234568999999999999999999886
No 285
>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily. EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in
Probab=41.84 E-value=61 Score=27.54 Aligned_cols=43 Identities=23% Similarity=0.319 Sum_probs=26.9
Q ss_pred HHHHHHHHHhhcCC-eEEEEecCCCCC----cHHHHHHHHH----HHHHcCC
Q 042073 32 NLARHIANTKAYGV-NVVVAVNMFATD----SEAELNAVRI----AAMAAGA 74 (225)
Q Consensus 32 NL~~HIeNi~~fGv-pvVVAIN~F~~D----T~~Ei~~i~~----~c~~~g~ 74 (225)
.+.+|+..++.+++ |+||++|+-.-. ++++++.+.+ .++..|.
T Consensus 124 ~~~~~~~~~~~~~~~~iiivvNK~Dl~~~~~~~~~~~~i~~~l~~~l~~~~~ 175 (219)
T cd01883 124 QTREHALLARTLGVKQLIVAVNKMDDVTVNWSEERYDEIKKELSPFLKKVGY 175 (219)
T ss_pred chHHHHHHHHHcCCCeEEEEEEccccccccccHHHHHHHHHHHHHHHHHcCC
Confidence 45667777778885 788899997654 2343444433 4455554
No 286
>COG0276 HemH Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]
Probab=41.80 E-value=1.2e+02 Score=28.57 Aligned_cols=70 Identities=19% Similarity=0.095 Sum_probs=48.4
Q ss_pred HHHHHHHHHhhcCCeEEEEec-CCCCCcH---HHHHH-HHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 32 NLARHIANTKAYGVNVVVAVN-MFATDSE---AELNA-VRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN-~F~~DT~---~Ei~~-i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
+-..+++++.+-|+.-|+.++ -|.+|.- .||+. .++.++++|..++.....--+--+...-||+.|.+.+
T Consensus 244 ~t~~~l~~L~~~g~k~iiv~pigFvsDhlETL~Eid~e~~e~~~~~Gg~~y~rip~lN~~p~fi~~la~lv~~~~ 318 (320)
T COG0276 244 YTDDLLEELGEKGVKKIIVVPIGFVSDHLETLYEIDHEYRELAEEAGGKKYVRIPCLNDSPEFIDALADLVRELL 318 (320)
T ss_pred CHHHHHHHHHhcCCCeEEEECCchhhhhHHHHHHHHHHHHHHHHHhCCccEEecCCCCCCHHHHHHHHHHHHHHh
Confidence 445678888777999888888 6999855 46666 5777888984346666665555666666666665543
No 287
>PRK05283 deoxyribose-phosphate aldolase; Provisional
Probab=41.72 E-value=1.3e+02 Score=27.42 Aligned_cols=67 Identities=16% Similarity=0.022 Sum_probs=45.7
Q ss_pred ccHHHHHHhHHHH-HHHHHHHhh--c-CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCc
Q 042073 21 ENVALVEAGCVNL-ARHIANTKA--Y-GVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGG 87 (225)
Q Consensus 21 eN~~al~~G~~NL-~~HIeNi~~--f-GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG 87 (225)
-|+.+|+.|--+. .+.|.-+.. . |+|+=|.|--=--+.++||..+.+.|.+.|+..+--|+.|..+|
T Consensus 104 inig~lk~g~~~~v~~ei~~v~~~~~~~~~lKVIlEt~~L~~ee~i~~a~~~a~~aGADFVKTSTGf~~~g 174 (257)
T PRK05283 104 FPYRALMAGNEQVGFELVKACKEACAANVLLKVIIETGELKDEALIRKASEIAIKAGADFIKTSTGKVPVN 174 (257)
T ss_pred ccHHHHhCCcHHHHHHHHHHHHHHhCCCceEEEEEeccccCCHHHHHHHHHHHHHhCCCEEEcCCCCCCCC
Confidence 5777777776553 333455554 2 57777776643334356799999999999998666679998766
No 288
>PRK09426 methylmalonyl-CoA mutase; Reviewed
Probab=41.71 E-value=2.3e+02 Score=29.42 Aligned_cols=121 Identities=7% Similarity=-0.000 Sum_probs=74.6
Q ss_pred HHHHhHHHHHHHHHHH-hhcC-CeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 25 LVEAGCVNLARHIANT-KAYG-VNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 25 al~~G~~NL~~HIeNi-~~fG-vpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
.+..+|+.|+.+.+.- ++-| -|-|+..+.-+...+.-.+++..+.+..|+. +....++ ....+.++++ .
T Consensus 560 r~~~~fE~LR~~~~~~~~~~g~rpkV~LatlG~d~H~~ra~fv~~~l~~~Gfe-V~~~~~~----~s~e~~v~aa----~ 630 (714)
T PRK09426 560 GDDPEFAAARALVEAFAEAEGRRPRILVAKMGQDGHDRGAKVIATAFADLGFD-VDIGPLF----QTPEEAARQA----V 630 (714)
T ss_pred hhhHHHHHHHHHHHHHHHhcCCCceEEEEecCCcchhHhHHHHHHHHHhCCee-EecCCCC----CCHHHHHHHH----H
Confidence 5788999999999974 3444 6677778887777899999999999999996 6433333 1223333333 2
Q ss_pred cCCCCcccccCCCCCHHHHHHHHHh---HhccCCC-CCCHH--HHHHHHHHHHCCCCC
Q 042073 103 NVTQPLKFLYPSDVSIKEKIDTIAR---SYGASGV-EYSEE--AEKQIKMYTRQGFSG 154 (225)
Q Consensus 103 ~~~~~f~~lY~~~~~i~eKI~~IA~---IYGA~~V-~~s~~--A~~~l~~~e~~G~~~ 154 (225)
+...++--|...+..-.+....+++ -.|+++| .+--. ..++.+.+++.|.+.
T Consensus 631 ~~~a~ivvlcs~d~~~~e~~~~l~~~Lk~~G~~~v~vl~GG~~~~~~~~~l~~aGvD~ 688 (714)
T PRK09426 631 ENDVHVVGVSSLAAGHKTLVPALIEALKKLGREDIMVVVGGVIPPQDYDFLYEAGVAA 688 (714)
T ss_pred HcCCCEEEEeccchhhHHHHHHHHHHHHhcCCCCcEEEEeCCCChhhHHHHHhCCCCE
Confidence 2234455566565555556666655 3444444 22221 123346677778763
No 289
>PF00944 Peptidase_S3: Alphavirus core protein ; InterPro: IPR000930 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. Togavirin, also known as Sindbis virus core endopeptidase, is a serine protease resident at the N terminus of the p130 polyprotein of togaviruses []. The endopeptidase signature identifies the peptidase as belonging to the MEROPS peptidase family S3 (togavirin family, clan PA(S)). The polyprotein also includes structural proteins for the nucleocapsid core and for the glycoprotein spikes []. Togavirin is only active while part of the polyprotein, cleavage at a Trp-Ser bond resulting in total lack of activity []. Mutagenesis studies have identified the location of the His-Asp-Ser catalytic triad, and X-ray studies have revealed the protein fold to be similar to that of chymotrypsin [, ].; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis, 0016020 membrane; PDB: 2YEW_D 1EP5_A 3J0C_F 1EP6_C 1WYK_D 1DYL_A 1VCQ_B 1VCP_B 1LD4_D 1KXA_A ....
Probab=41.64 E-value=12 Score=31.50 Aligned_cols=65 Identities=22% Similarity=0.244 Sum_probs=36.4
Q ss_pred CCCCCCCeeEeecCCCcCCCCCCCceEEeeEEEeecCCceeeeecccccccC-CCCCCCceeeeeeeCCCCeeecc
Q 042073 150 QGFSGLPFCMAKTQHSFSHNAPTGFILPIRDVRASIGAGFIYPLVGTISTML-GLPTRPCFYEIDGDTATGRVLGL 224 (225)
Q Consensus 150 ~G~~~lPVCmAKTqyS~Sdd~P~~f~~~vrdv~~~~GAgFiv~~~G~i~tMP-GLpk~Paa~~idvd~~~G~I~GL 224 (225)
+-|..+|+||----+-++++.|+||- .-..|| |-+.+...||| |-.++=-.-+-=.| ++|+++|+
T Consensus 57 lE~a~~P~~Mrsda~~~t~e~peg~Y------NwhhGa---Vqy~~grftip~g~g~~GDSGRpi~D-NsGrVVaI 122 (158)
T PF00944_consen 57 LEFAQVPQNMRSDAFKYTTEKPEGFY------NWHHGA---VQYSNGRFTIPTGVGKPGDSGRPIFD-NSGRVVAI 122 (158)
T ss_dssp EEEEE--GGGCTSSBBB-SS--SEEE------EETTEE---EEEETTEEEEETTS-STTSTTEEEES-TTSBEEEE
T ss_pred hhhcccchhhhhhhccccccCCCcee------ccccce---EEEeCCeEEeccCCCCCCCCCCccCc-CCCCEEEE
Confidence 45778999997666777788899952 223333 22555566666 33444344455567 88998875
No 290
>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1). The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.
Probab=41.63 E-value=22 Score=25.51 Aligned_cols=16 Identities=25% Similarity=0.428 Sum_probs=10.2
Q ss_pred HHHhh-c-CCeEEEEecC
Q 042073 38 ANTKA-Y-GVNVVVAVNM 53 (225)
Q Consensus 38 eNi~~-f-GvpvVVAIN~ 53 (225)
+++|. | +.|+++++|+
T Consensus 39 ~~ik~~F~~~P~i~V~nK 56 (58)
T PF06858_consen 39 KEIKPLFPNKPVIVVLNK 56 (58)
T ss_dssp HHHHHHTTTS-EEEEE--
T ss_pred HHHHHHcCCCCEEEEEec
Confidence 45555 8 8999999997
No 291
>PLN00023 GTP-binding protein; Provisional
Probab=41.60 E-value=61 Score=30.69 Aligned_cols=48 Identities=17% Similarity=0.099 Sum_probs=34.3
Q ss_pred HhHHHHHHHHHHHhhc---------------CCeEEEEecCCCCCcHH--------HHHHHHHHHHHcCCC
Q 042073 28 AGCVNLARHIANTKAY---------------GVNVVVAVNMFATDSEA--------ELNAVRIAAMAAGAF 75 (225)
Q Consensus 28 ~G~~NL~~HIeNi~~f---------------GvpvVVAIN~F~~DT~~--------Ei~~i~~~c~~~g~~ 75 (225)
+-+.||.+.++.++.. ++|+|++-|+-.-+..+ ..+..++||++.|.-
T Consensus 120 ~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~~~~r~~s~~~~e~a~~~A~~~g~l 190 (334)
T PLN00023 120 RTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPKEGTRGSSGNLVDAARQWVEKQGLL 190 (334)
T ss_pred HHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECccccccccccccccccHHHHHHHHHHcCCC
Confidence 4567777777777653 38999999986643322 367788999988874
No 292
>PRK12735 elongation factor Tu; Reviewed
Probab=41.52 E-value=1.2e+02 Score=28.52 Aligned_cols=43 Identities=23% Similarity=0.217 Sum_probs=28.6
Q ss_pred HHHHHHHHHHhhcCCeEE-EEecCCCCCcHHHH-H----HHHHHHHHcC
Q 042073 31 VNLARHIANTKAYGVNVV-VAVNMFATDSEAEL-N----AVRIAAMAAG 73 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvV-VAIN~F~~DT~~Ei-~----~i~~~c~~~g 73 (225)
....+|+..++.+|+|.+ |++|+...-+++|+ + .++++.+..+
T Consensus 114 ~qt~e~l~~~~~~gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l~~~~ 162 (396)
T PRK12735 114 PQTREHILLARQVGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYD 162 (396)
T ss_pred hhHHHHHHHHHHcCCCeEEEEEEecCCcchHHHHHHHHHHHHHHHHHcC
Confidence 456689999999999966 68999865333332 2 3445555544
No 293
>TIGR01579 MiaB-like-C MiaB-like tRNA modifying enzyme. This clade is a member of a subfamily (TIGR00089) and spans low GC Gram positive bacteria, alpha and epsilon proteobacteria, Campylobacter, Porphyromonas, Aquifex, Thermotoga, Chlamydia, Treponema and Fusobacterium.
Probab=41.49 E-value=1.3e+02 Score=28.43 Aligned_cols=59 Identities=5% Similarity=-0.013 Sum_probs=42.2
Q ss_pred ccccccHHHHHHhH--HHHHHHHHHHhh--cCCeEEE-EecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 17 AYLNENVALVEAGC--VNLARHIANTKA--YGVNVVV-AVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 17 ~l~~eN~~al~~G~--~NL~~HIeNi~~--fGvpvVV-AIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
..+.+-+.++.++. ....+-|+.+++ .|+.+.. -|-=||.+|+++++...+++++.+..
T Consensus 257 Sgs~~vLk~m~R~~~~~~~~~~v~~l~~~~~gi~i~~~~IvG~PgET~ed~~~tl~~i~~~~~~ 320 (414)
T TIGR01579 257 SGSDRVLKRMRRKYTRDDFLKLVNKLRSVRPDYAFGTDIIVGFPGESEEDFQETLRMVKEIEFS 320 (414)
T ss_pred cCChHHHHhcCCCCCHHHHHHHHHHHHHhCCCCeeeeeEEEECCCCCHHHHHHHHHHHHhCCCC
Confidence 34445555565553 456667777777 6776544 45579999999999999999998886
No 294
>PRK14336 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=41.46 E-value=1e+02 Score=29.36 Aligned_cols=60 Identities=13% Similarity=0.117 Sum_probs=45.4
Q ss_pred cccccccHHHHHHh--HHHHHHHHHHHhhc--CCeEEE-EecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 16 HAYLNENVALVEAG--CVNLARHIANTKAY--GVNVVV-AVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 16 ~~l~~eN~~al~~G--~~NL~~HIeNi~~f--GvpvVV-AIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
...+.+-+.++.+| ...+.+-|+.+++. |+.+.. -|-=||.+|+++.+...+++++.+..
T Consensus 242 QSgsd~vLk~M~R~~~~~~~~~~i~~lr~~~pgi~i~~d~IvGfPGET~edf~~tl~fi~~~~~~ 306 (418)
T PRK14336 242 QAGDDTILAAMRRGYTNQQYRELVERLKTAMPDISLQTDLIVGFPSETEEQFNQSYKLMADIGYD 306 (418)
T ss_pred CcCCHHHHHHhCCCCCHHHHHHHHHHHHhhCCCCEEEEEEEEECCCCCHHHHHHHHHHHHhcCCC
Confidence 34455667777777 55677778888887 775432 35669999999999999999998886
No 295
>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=41.38 E-value=1.6e+02 Score=23.67 Aligned_cols=56 Identities=13% Similarity=-0.029 Sum_probs=31.5
Q ss_pred CCeEEEEecCCCCC---cHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHH
Q 042073 44 GVNVVVAVNMFATD---SEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRA 100 (225)
Q Consensus 44 GvpvVVAIN~F~~D---T~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~ 100 (225)
++|++|+.|+..-. +.+|+...........-. +-+-..=++-|.|-.++-+.+.+.
T Consensus 114 ~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~-~~~~~~Sa~~g~gv~e~~~~l~~~ 172 (175)
T smart00177 114 DAVILVFANKQDLPDAMKAAEITEKLGLHSIRDRN-WYIQPTCATSGDGLYEGLTWLSNN 172 (175)
T ss_pred CCcEEEEEeCcCcccCCCHHHHHHHhCccccCCCc-EEEEEeeCCCCCCHHHHHHHHHHH
Confidence 68999999998642 224433222111111111 223344568899988887776554
No 296
>cd04739 DHOD_like Dihydroorotate dehydrogenase (DHOD) like proteins. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively. This subgroup has the conserved FMN binding site, but lacks some catalytic residues and may therefore be inactive.
Probab=41.19 E-value=1.7e+02 Score=26.86 Aligned_cols=44 Identities=20% Similarity=0.105 Sum_probs=29.9
Q ss_pred hHHHHHHHHHHHhh-cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 29 GCVNLARHIANTKA-YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 29 G~~NL~~HIeNi~~-fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
|+.-..+++.-.++ ++.|++|-||. .+.+|+..+.+.+++.|+.
T Consensus 83 g~~~~~~~i~~~~~~~~~pvi~si~g---~~~~~~~~~a~~~~~~gad 127 (325)
T cd04739 83 GPEEYLELIRRAKRAVSIPVIASLNG---VSAGGWVDYARQIEEAGAD 127 (325)
T ss_pred CHHHHHHHHHHHHhccCCeEEEEeCC---CCHHHHHHHHHHHHhcCCC
Confidence 44444555555544 58999999875 3467777777777888886
No 297
>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=41.15 E-value=1.8e+02 Score=23.39 Aligned_cols=71 Identities=13% Similarity=-0.036 Sum_probs=44.2
Q ss_pred hHHHHHHHHHHHhhc----CCeEEEEecCCCCCcHHHH----HHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHH
Q 042073 29 GCVNLARHIANTKAY----GVNVVVAVNMFATDSEAEL----NAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRA 100 (225)
Q Consensus 29 G~~NL~~HIeNi~~f----GvpvVVAIN~F~~DT~~Ei----~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~ 100 (225)
-+.++.+.++.+++. ..|+++..|+..-....++ +...+++++.+.. +. +.=++=|+|-.+|-+.+++.
T Consensus 87 s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~--e~Sa~~g~~v~~lf~~l~~~ 163 (170)
T cd04108 87 SLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAAEMQAE-YW--SVSALSGENVREFFFRVAAL 163 (170)
T ss_pred HHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccccccccHHHHHHHHHHcCCe-EE--EEECCCCCCHHHHHHHHHHH
Confidence 466777777766442 2568999999875222221 2345667777775 33 23345667888888777776
Q ss_pred hh
Q 042073 101 CE 102 (225)
Q Consensus 101 ~e 102 (225)
+.
T Consensus 164 ~~ 165 (170)
T cd04108 164 TF 165 (170)
T ss_pred HH
Confidence 64
No 298
>TIGR01496 DHPS dihydropteroate synthase. This model represents dihydropteroate synthase, the enzyme that catalyzes the second to last step in folic acid biosynthesis. The gene is usually designated folP (folic acid biosynthsis) or sul (sulfanilamide resistance). This model represents one branch of the family of pterin-binding enzymes (pfam00809) and of a cluster of dihydropteroate synthase and related enzymes (COG0294). Other members of pfam00809 and COG0294 are represented by TIGR00284.
Probab=41.09 E-value=67 Score=28.74 Aligned_cols=43 Identities=21% Similarity=0.183 Sum_probs=30.2
Q ss_pred HHHHHHHHhhcCCeEEEEecC----------CCCCcHHHHHHHHHHHHHcCCC
Q 042073 33 LARHIANTKAYGVNVVVAVNM----------FATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAIN~----------F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
+.++++.++++|+|+++.+-| -+.|....=..+.-+|.+.|+.
T Consensus 185 ~l~~i~~l~~~~~p~l~G~SrkSfig~v~~~~~~~r~~~t~~~~~~a~~~Ga~ 237 (257)
T TIGR01496 185 LLKHLEEFVALGYPLLVGASRKSFIGALLGTPPEERLEGTLAASAYAVQKGAD 237 (257)
T ss_pred HHHHHHHHHhCCCcEEEEecccHHHHhhcCCChhhhhHHHHHHHHHHHHcCCC
Confidence 457788888899999999932 2234444444556678899996
No 299
>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=40.89 E-value=1.3e+02 Score=25.26 Aligned_cols=70 Identities=11% Similarity=0.028 Sum_probs=44.3
Q ss_pred hHHHHHHHHHHHhhc--CCeEEEEecCCCCCcH--HHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 29 GCVNLARHIANTKAY--GVNVVVAVNMFATDSE--AELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 29 G~~NL~~HIeNi~~f--GvpvVVAIN~F~~DT~--~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
-|.|+.+-++.++++ ++|+||.-|+..-... -..+.++++|++.+.. +..+ =++=|.|-.++=+.+++.+
T Consensus 93 Sf~~~~~w~~~i~~~~~~~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~~-~~e~--SAk~g~~V~~~F~~l~~~i 166 (189)
T cd04121 93 SFDGIDRWIKEIDEHAPGVPKILVGNRLHLAFKRQVATEQAQAYAERNGMT-FFEV--SPLCNFNITESFTELARIV 166 (189)
T ss_pred HHHHHHHHHHHHHHhCCCCCEEEEEECccchhccCCCHHHHHHHHHHcCCE-EEEe--cCCCCCCHHHHHHHHHHHH
Confidence 355666656666543 7999999999765321 1234567888888885 4433 3556688777655555543
No 300
>cd00739 DHPS DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and protein biosynthesis. Prokaryotes (and some lower eukaryotes) must synthesize folate de novo, while higher eukaryotes are able to utilize dietary folate and therefore lack DHPS. Sulfonamide drugs, which are substrate analogs of pABA, target DHPS.
Probab=40.76 E-value=2.7e+02 Score=24.93 Aligned_cols=49 Identities=16% Similarity=0.187 Sum_probs=29.3
Q ss_pred HhHHHHHHHHHHHhh-cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCc
Q 042073 28 AGCVNLARHIANTKA-YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGG 87 (225)
Q Consensus 28 ~G~~NL~~HIeNi~~-fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG 87 (225)
.-+.-|..=|+.++. +++| |+|--|.. +. .+.|.+.|+. .+++++..-.
T Consensus 59 ~E~~rl~~~v~~i~~~~~~p--lSIDT~~~---~v----~e~al~~G~~--iINdisg~~~ 108 (257)
T cd00739 59 EELERVIPVLEALRGELDVL--ISVDTFRA---EV----ARAALEAGAD--IINDVSGGSD 108 (257)
T ss_pred HHHHHHHHHHHHHHhcCCCc--EEEeCCCH---HH----HHHHHHhCCC--EEEeCCCCCC
Confidence 345566666777776 5777 45555433 22 3445556875 5888877654
No 301
>PRK00035 hemH ferrochelatase; Reviewed
Probab=40.65 E-value=2.9e+02 Score=25.22 Aligned_cols=171 Identities=15% Similarity=0.156 Sum_probs=108.9
Q ss_pred HHHHHHHHHHhhcCCeEEEEecCCCCC----cHHHHHHHHHHHHHcC-CCeEEEccccccCchhhHHHHHHHHHHhhcCC
Q 042073 31 VNLARHIANTKAYGVNVVVAVNMFATD----SEAELNAVRIAAMAAG-AFDAVVCSHHAHGGKGAVDLGIAVQRACENVT 105 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvVVAIN~F~~D----T~~Ei~~i~~~c~~~g-~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~ 105 (225)
+++..=++.+++-|+--|+++=-|+.. |....+.+.+.+++.. ...+.+.+.|..=-.=...+++.+.+..+..+
T Consensus 105 P~i~eal~~l~~~G~~~IivlPL~p~~s~~t~gs~~~~i~~~~~~~~~~~~i~~i~~~~~~p~~i~~l~~~I~~~~~~~~ 184 (333)
T PRK00035 105 PSIEEALEALKADGVDRIVVLPLYPQYSYSTTASYFEDLARALAKLRLQPEIRFIRSYYDHPGYIEALAESIREALAKHG 184 (333)
T ss_pred CCHHHHHHHHHhcCCCEEEEEECCCccccccHHHHHHHHHHHHHhcCCCCcEEEeCCccCCHHHHHHHHHHHHHHHHhcC
Confidence 456666777777889999999988843 3667777777777654 22377888888877766777777777764321
Q ss_pred ---CC--ccccc--------CCCCCHHHHHHHHHh-HhccCCC----------------C-CCHHHHHHHHHHHHCCCCC
Q 042073 106 ---QP--LKFLY--------PSDVSIKEKIDTIAR-SYGASGV----------------E-YSEEAEKQIKMYTRQGFSG 154 (225)
Q Consensus 106 ---~~--f~~lY--------~~~~~i~eKI~~IA~-IYGA~~V----------------~-~s~~A~~~l~~~e~~G~~~ 154 (225)
.+ +=+.| ...++-..-+++.++ +.-.-+. . ..|.....|+++.+.|+.+
T Consensus 185 ~~~~~~~llfs~HG~P~~~~~~gd~Y~~~~~~t~~~l~~~l~~~~~~~~~~fqs~~g~~~Wl~P~~~~~l~~l~~~g~k~ 264 (333)
T PRK00035 185 EDPEPDRLLFSAHGLPQRYIDKGDPYQQQCEETARLLAEALGLPDEDYDLTYQSRFGPEPWLEPYTDDTLEELAEKGVKK 264 (333)
T ss_pred cccCCcEEEEecCCCchHHhhcCCChHHHHHHHHHHHHHHhCCCCCCeEEEeeCCCCCCccCCCCHHHHHHHHHHcCCCe
Confidence 11 22333 234666666766665 5432221 1 4589999999999999988
Q ss_pred CCeeEeecCCCcCCC-CCCCceEEe--eEEEeecCCceeeeecccccccCCCCCCCceeee
Q 042073 155 LPFCMAKTQHSFSHN-APTGFILPI--RDVRASIGAGFIYPLVGTISTMLGLPTRPCFYEI 212 (225)
Q Consensus 155 lPVCmAKTqyS~Sdd-~P~~f~~~v--rdv~~~~GAgFiv~~~G~i~tMPGLpk~Paa~~i 212 (225)
+=| -|++|..| .=+-+.+.+ |++--.+| + .+...+|+|...|...++
T Consensus 265 V~v----~P~~Fv~D~lEtl~ei~~e~~~~~~~~G--~-----~~~~~~~~ln~~~~~i~~ 314 (333)
T PRK00035 265 VVV----VPPGFVSDHLETLEEIDIEYREIAEEAG--G-----EEFRRIPCLNDSPEFIEA 314 (333)
T ss_pred EEE----ECCeeeccchhHHHHHHHHHHHHHHHcC--C-----ceEEECCCCCCCHHHHHH
Confidence 766 46788888 333344432 23322333 2 134678888888876543
No 302
>cd02801 DUS_like_FMN Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also in some archaea. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. It is likely that different family members have different substrate specificities, which may overlap. 1VHN, a putative flavin oxidoreductase, has high sequence similarity to DUS. The enzymatic mechanism of 1VHN is not known at the present.
Probab=40.32 E-value=2.2e+02 Score=23.89 Aligned_cols=105 Identities=18% Similarity=0.156 Sum_probs=53.7
Q ss_pred HHHHHHHhh-cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEcccccc---CchhhHHHHHHHHHHhhcCCCCcc
Q 042073 34 ARHIANTKA-YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAH---GGKGAVDLGIAVQRACENVTQPLK 109 (225)
Q Consensus 34 ~~HIeNi~~-fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~---GG~Ga~~LA~~Vv~~~e~~~~~f~ 109 (225)
..-|+.+++ .++|+.|=+|.-.++. +|...+.+.+.+.|+..+.++..-.+ .+....+..+++.+. ....
T Consensus 112 ~eii~~v~~~~~~~v~vk~r~~~~~~-~~~~~~~~~l~~~Gvd~i~v~~~~~~~~~~~~~~~~~~~~i~~~-----~~ip 185 (231)
T cd02801 112 AEIVRAVREAVPIPVTVKIRLGWDDE-EETLELAKALEDAGASALTVHGRTREQRYSGPADWDYIAEIKEA-----VSIP 185 (231)
T ss_pred HHHHHHHHHhcCCCEEEEEeeccCCc-hHHHHHHHHHHHhCCCEEEECCCCHHHcCCCCCCHHHHHHHHhC-----CCCe
Confidence 344555554 5689999898755443 46666667777889963434332111 122233443343331 1234
Q ss_pred cccCCCC-CHHHHHHHHHhHhccCCCCCCHHHHHHHH
Q 042073 110 FLYPSDV-SIKEKIDTIARSYGASGVEYSEEAEKQIK 145 (225)
Q Consensus 110 ~lY~~~~-~i~eKI~~IA~IYGA~~V~~s~~A~~~l~ 145 (225)
.++.-.- +.++ ++++-...||+.|.+...+...-.
T Consensus 186 vi~~Ggi~~~~d-~~~~l~~~gad~V~igr~~l~~P~ 221 (231)
T cd02801 186 VIANGDIFSLED-ALRCLEQTGVDGVMIGRGALGNPW 221 (231)
T ss_pred EEEeCCCCCHHH-HHHHHHhcCCCEEEEcHHhHhCCH
Confidence 4444433 3333 444333456777766655554433
No 303
>cd00338 Ser_Recombinase Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are protei
Probab=40.32 E-value=63 Score=24.73 Aligned_cols=52 Identities=15% Similarity=0.135 Sum_probs=33.6
Q ss_pred HHhHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEcc
Q 042073 27 EAGCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCS 81 (225)
Q Consensus 27 ~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~ 81 (225)
+.+|.-|.+-+++ .++..=+|--+.||.-|+. |...+.+.|.++|+. +...+
T Consensus 51 R~~~~~ll~~~~~-~~~d~ivv~~~~Rl~R~~~-~~~~~~~~l~~~gi~-l~~~~ 102 (137)
T cd00338 51 RPGLQRLLADVKA-GKIDVVLVEKLDRLSRNLV-DLLELLELLEAHGVR-VVTAD 102 (137)
T ss_pred CHHHHHHHHHHHc-CCCCEEEEEecchhhCCHH-HHHHHHHHHHHCCCE-EEEec
Confidence 4555555554444 3566666667888987766 555666778888996 54444
No 304
>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=40.22 E-value=1.7e+02 Score=23.10 Aligned_cols=55 Identities=9% Similarity=0.003 Sum_probs=35.7
Q ss_pred cCCeEEEEecCCCCCcHH--------------HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 43 YGVNVVVAVNMFATDSEA--------------ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~~--------------Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
-++|++++.|+-.-..+. +.+..++++++.+...+. +.=++-|.|-.+|-++++-
T Consensus 103 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~--e~Sa~~~~~v~~lf~~~~~ 171 (173)
T cd04130 103 PKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYI--ECSALTQKNLKEVFDTAIL 171 (173)
T ss_pred CCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEE--EEeCCCCCCHHHHHHHHHh
Confidence 479999999997542211 123455777777773233 3445777888888877764
No 305
>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=40.16 E-value=1.3e+02 Score=25.39 Aligned_cols=69 Identities=7% Similarity=0.025 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHhh----cCCeEEEEecCCCCCcHHH--HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 30 CVNLARHIANTKA----YGVNVVVAVNMFATDSEAE--LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 30 ~~NL~~HIeNi~~----fGvpvVVAIN~F~~DT~~E--i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
|.++.+.++.+++ -..|++|+.|+..--.+.+ .+...++++..++. +..+ =++=|+|-.++-+.+++.+
T Consensus 91 f~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~-~~e~--Sak~g~~v~e~f~~l~~~~ 165 (211)
T cd04111 91 FEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAEKLAKDLGMK-YIET--SARTGDNVEEAFELLTQEI 165 (211)
T ss_pred HHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccCHHHHHHHHHHhCCE-EEEE--eCCCCCCHHHHHHHHHHHH
Confidence 4455555555543 3678899999975422211 23456677778875 4333 2355677666666555543
No 306
>PTZ00099 rab6; Provisional
Probab=40.00 E-value=1.7e+02 Score=24.17 Aligned_cols=72 Identities=13% Similarity=-0.002 Sum_probs=44.1
Q ss_pred hHHHHHHHHHHHhh---cCCeEEEEecCCCCCcH--HHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhc
Q 042073 29 GCVNLARHIANTKA---YGVNVVVAVNMFATDSE--AELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACEN 103 (225)
Q Consensus 29 G~~NL~~HIeNi~~---fGvpvVVAIN~F~~DT~--~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~ 103 (225)
-|.++..+++.+.+ -++|+++..|+..--.. -..+...+++.+.+.. +. +.=++=|+|-.++-+.+++.+.+
T Consensus 67 sf~~~~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~e~~~~~~~~~~~-~~--e~SAk~g~nV~~lf~~l~~~l~~ 143 (176)
T PTZ00099 67 SFENTTKWIQDILNERGKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTM-FH--ETSAKAGHNIKVLFKKIAAKLPN 143 (176)
T ss_pred HHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCE-EE--EEECCCCCCHHHHHHHHHHHHHh
Confidence 35666666666643 36889999999543111 0222345667777764 43 33355678888888887776643
No 307
>PRK13992 minC septum formation inhibitor; Provisional
Probab=39.97 E-value=1.1e+02 Score=26.63 Aligned_cols=45 Identities=7% Similarity=0.120 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHhh-c--CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 30 CVNLARHIANTKA-Y--GVNVVVAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 30 ~~NL~~HIeNi~~-f--GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
+..|.+++++.++ | +-|+++-+.... ++..|++.|.+.+++.|..
T Consensus 25 ~~~L~~kl~~~~~FF~~~a~v~l~~~~~~-~~~~~~~~l~~~l~~~~l~ 72 (205)
T PRK13992 25 LNEIDAKITQMGGFFAKGDKISLMIENHE-KHIQDIPKIVSKLRNLGLE 72 (205)
T ss_pred HHHHHHHHHhChHhhcCCCeEEEEecCCC-CCHHHHHHHHHHHHHCCCE
Confidence 5578888999988 7 458998887754 4568899999999999975
No 308
>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.
Probab=39.91 E-value=82 Score=31.33 Aligned_cols=49 Identities=16% Similarity=0.045 Sum_probs=42.1
Q ss_pred HHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccc
Q 042073 33 LARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSH 82 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~ 82 (225)
=+|-|+-+|..|-|.||.+|--.-.+++=.++-.++-++.+++ +..-++
T Consensus 169 EervI~ELk~igKPFvillNs~~P~s~et~~L~~eL~ekY~vp-Vlpvnc 217 (492)
T PF09547_consen 169 EERVIEELKEIGKPFVILLNSTKPYSEETQELAEELEEKYDVP-VLPVNC 217 (492)
T ss_pred HHHHHHHHHHhCCCEEEEEeCCCCCCHHHHHHHHHHHHHhCCc-EEEeeh
Confidence 3677999999999999999988888888888888999999997 666555
No 309
>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=39.73 E-value=1.1e+02 Score=22.78 Aligned_cols=18 Identities=17% Similarity=0.091 Sum_probs=13.7
Q ss_pred hcCCeEEEEecCCCCCcH
Q 042073 42 AYGVNVVVAVNMFATDSE 59 (225)
Q Consensus 42 ~fGvpvVVAIN~F~~DT~ 59 (225)
..++|++|.+|+......
T Consensus 99 ~~~~p~iiv~nK~D~~~~ 116 (159)
T cd04159 99 LEGIPLLVLGNKNDLPGA 116 (159)
T ss_pred hcCCCEEEEEeCccccCC
Confidence 368999999999875433
No 310
>smart00857 Resolvase Resolvase, N terminal domain. The N-terminal domain of the resolvase family contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase.
Probab=39.65 E-value=1.3e+02 Score=23.38 Aligned_cols=35 Identities=17% Similarity=0.049 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHH
Q 042073 60 AELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGI 95 (225)
Q Consensus 60 ~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~ 95 (225)
-+++.+.+.+++-.+. +.+...+.+=|--..++..
T Consensus 52 p~l~~ll~~~~~g~~~-~ivv~~~~Rl~R~~~~~~~ 86 (148)
T smart00857 52 PGLQRLLADLRAGDID-VLVVYKLDRLGRSLRDLLA 86 (148)
T ss_pred HHHHHHHHHHHcCCCC-EEEEeccchhhCcHHHHHH
Confidence 4455555555443342 4555555555544444444
No 311
>PRK07535 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated
Probab=39.59 E-value=2.8e+02 Score=24.87 Aligned_cols=87 Identities=18% Similarity=0.082 Sum_probs=52.2
Q ss_pred ccccccccHHHHHHhHHH----------------HHHHHHHHhhcCCeEEEEecC---CCCCc---HHHHHHHHHHHHHc
Q 042073 15 DHAYLNENVALVEAGCVN----------------LARHIANTKAYGVNVVVAVNM---FATDS---EAELNAVRIAAMAA 72 (225)
Q Consensus 15 ~~~l~~eN~~al~~G~~N----------------L~~HIeNi~~fGvpvVVAIN~---F~~DT---~~Ei~~i~~~c~~~ 72 (225)
|=.++..|.+.+++++.. +.+.++-+++||.|+|+-.+. -|.+. -++++.+.+.|.++
T Consensus 71 plsIDT~~~~v~eaaL~~~~G~~iINsIs~~~~~~~~~~~l~~~~g~~vv~m~~~~~g~P~t~~~~~~~l~~~v~~a~~~ 150 (261)
T PRK07535 71 PLCIDSPNPAAIEAGLKVAKGPPLINSVSAEGEKLEVVLPLVKKYNAPVVALTMDDTGIPKDAEDRLAVAKELVEKADEY 150 (261)
T ss_pred CEEEeCCCHHHHHHHHHhCCCCCEEEeCCCCCccCHHHHHHHHHhCCCEEEEecCCCCCCCCHHHHHHHHHHHHHHHHHc
Confidence 446777888888888863 345566678899999886542 22222 24445566678888
Q ss_pred CCC--eEEEccc---cccCchhhHHHHHHHHHHh
Q 042073 73 GAF--DAVVCSH---HAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 73 g~~--~~avs~~---wa~GG~Ga~~LA~~Vv~~~ 101 (225)
|+. +..+--. |+.+.+++.++-+.+-..-
T Consensus 151 GI~~~~IilDPgi~~~~~~~~~~~~~l~~i~~l~ 184 (261)
T PRK07535 151 GIPPEDIYIDPLVLPLSAAQDAGPEVLETIRRIK 184 (261)
T ss_pred CCCHhHEEEeCCCCcccCChHHHHHHHHHHHHHH
Confidence 983 2433332 3455555655555554443
No 312
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=39.57 E-value=2.2e+02 Score=25.12 Aligned_cols=109 Identities=16% Similarity=0.128 Sum_probs=59.6
Q ss_pred cccccccHHHHHHhHHHHHHHHHHHhh-c-CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHH
Q 042073 16 HAYLNENVALVEAGCVNLARHIANTKA-Y-GVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDL 93 (225)
Q Consensus 16 ~~l~~eN~~al~~G~~NL~~HIeNi~~-f-GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~L 93 (225)
.+.-++|.+++.+=+..|.+-++.... . +.++|+.=+.| .=+++..|.....+. .....-++.+|
T Consensus 140 ~~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~H~af-----------~Y~~~~ygl~~~~~~--~~~~eps~~~l 206 (266)
T cd01018 140 ATYYQANLDALLAELDALDSEIRTILSKLKQRAFMVYHPAW-----------GYFARDYGLTQIPIE--EEGKEPSPADL 206 (266)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCeEEEECchh-----------HHHHHHcCCEEEecC--CCCCCCCHHHH
Confidence 455567888888888888888877643 3 34455533333 234566777522221 22223345555
Q ss_pred HHHHHHHhhcCCCCcccccCCCCCHHHHHHHHHhHhccCCCCCCHHH
Q 042073 94 GIAVQRACENVTQPLKFLYPSDVSIKEKIDTIARSYGASGVEYSEEA 140 (225)
Q Consensus 94 A~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~IYGA~~V~~s~~A 140 (225)
++.+-. +.+ ...+.++.....=..-+++||+-.|+.-+.+++..
T Consensus 207 ~~l~~~-ik~--~~v~~if~e~~~~~~~~~~la~~~g~~v~~ld~~~ 250 (266)
T cd01018 207 KRLIDL-AKE--KGVRVVFVQPQFSTKSAEAIAREIGAKVVTIDPLA 250 (266)
T ss_pred HHHHHH-HHH--cCCCEEEEcCCCCcHHHHHHHHHcCCeEEEeCCcH
Confidence 554433 332 33555554444444556677775566666655544
No 313
>cd00739 DHPS DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and protein biosynthesis. Prokaryotes (and some lower eukaryotes) must synthesize folate de novo, while higher eukaryotes are able to utilize dietary folate and therefore lack DHPS. Sulfonamide drugs, which are substrate analogs of pABA, target DHPS.
Probab=39.51 E-value=82 Score=28.23 Aligned_cols=43 Identities=28% Similarity=0.264 Sum_probs=32.2
Q ss_pred HHHHHHHHhhcCCeEEEEe----------cCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 33 LARHIANTKAYGVNVVVAV----------NMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAI----------N~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
+.+|++.++++|.|+.+.+ +..+.|....=.++.-+|.+.|+.
T Consensus 187 ~l~~i~~l~~~~~pil~G~SrkSfig~~~~~~~~~r~~~t~~~~~~~~~~Ga~ 239 (257)
T cd00739 187 LLRRLDELKQLGLPVLVGASRKSFIGALLGREPKDRDWGTLALSALAAANGAD 239 (257)
T ss_pred HHHHHHHHHhCCCcEEEEecccHHHHHhcCCCccccchhHHHHHHHHHHcCCC
Confidence 4678899999999999998 223335555556667778899996
No 314
>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=39.43 E-value=1.6e+02 Score=23.77 Aligned_cols=69 Identities=12% Similarity=0.049 Sum_probs=39.3
Q ss_pred hHHHHH-HHHHHHhh--cCCeEEEEecCCCCCc-HHH-------------HHHHHHHHHHcCCCeEEEccccccCchhhH
Q 042073 29 GCVNLA-RHIANTKA--YGVNVVVAVNMFATDS-EAE-------------LNAVRIAAMAAGAFDAVVCSHHAHGGKGAV 91 (225)
Q Consensus 29 G~~NL~-~HIeNi~~--fGvpvVVAIN~F~~DT-~~E-------------i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~ 91 (225)
-|.++. .+++.+++ -++|+||+.|+-.-.. ..+ .+...++|++.+...+. +.=++=|+|-.
T Consensus 87 sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~--e~Sa~~~~~i~ 164 (174)
T cd01871 87 SFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYL--ECSALTQKGLK 164 (174)
T ss_pred HHHHHHHHHHHHHHHhCCCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEE--EecccccCCHH
Confidence 356664 35555544 3799999999965421 111 12334567777752233 33345567777
Q ss_pred HHHHHHHH
Q 042073 92 DLGIAVQR 99 (225)
Q Consensus 92 ~LA~~Vv~ 99 (225)
+|-+.+++
T Consensus 165 ~~f~~l~~ 172 (174)
T cd01871 165 TVFDEAIR 172 (174)
T ss_pred HHHHHHHH
Confidence 77666654
No 315
>cd07937 DRE_TIM_PC_TC_5S Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain. This family includes the carboxyltransferase domains of pyruvate carboxylase (PC) and the transcarboxylase (TC) 5S subunit. Transcarboxylase 5S is a cobalt-dependent metalloenzyme subunit of the biotin-dependent transcarboxylase multienzyme complex. Transcarboxylase 5S transfers carbon dioxide from the 1.3S biotin to pyruvate in the second of two carboxylation reactions catalyzed by TC. The first reaction involves the transfer of carbon dioxide from methylmalonyl-CoA to the 1.3S biotin, and is catalyzed by the 12S subunit. These two steps allow a carboxylate group to be transferred from oxaloacetate to propionyl-CoA to yield pyruvate and methylmalonyl-CoA. The catalytic domain of transcarboxylase 5S has a canonical TIM-barrel fold with a large C-terminal extension that forms a funnel leading to the active site. Transcarboxylase 5S forms a homodimer and there are six dimers per complex
Probab=39.09 E-value=1.5e+02 Score=26.51 Aligned_cols=54 Identities=17% Similarity=0.017 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecC-CCC-CcHHHHHHHHHHHHHcCCCeEEEcccc
Q 042073 30 CVNLARHIANTKAYGVNVVVAVNM-FAT-DSEAELNAVRIAAMAAGAFDAVVCSHH 83 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVVAIN~-F~~-DT~~Ei~~i~~~c~~~g~~~~avs~~w 83 (225)
+.|+..+|+.+|+.|.-+.+++.- |.+ =|++++..+.+.+.+.|+..+.+++..
T Consensus 117 ~~~~~~~i~~ak~~G~~v~~~i~~~~~~~~~~~~~~~~~~~~~~~Ga~~i~l~DT~ 172 (275)
T cd07937 117 VRNLEVAIKAVKKAGKHVEGAICYTGSPVHTLEYYVKLAKELEDMGADSICIKDMA 172 (275)
T ss_pred HHHHHHHHHHHHHCCCeEEEEEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEcCCC
Confidence 377888888888888888877753 332 345666666666777888766666653
No 316
>PRK00339 minC septum formation inhibitor; Reviewed
Probab=39.08 E-value=1e+02 Score=27.72 Aligned_cols=54 Identities=15% Similarity=0.272 Sum_probs=40.9
Q ss_pred ccHHHHHHhHHHHHHHHHHHhhc--CCeEEEEecCCCC-CcHHHHHHHHHHHHHcCCCeE
Q 042073 21 ENVALVEAGCVNLARHIANTKAY--GVNVVVAVNMFAT-DSEAELNAVRIAAMAAGAFDA 77 (225)
Q Consensus 21 eN~~al~~G~~NL~~HIeNi~~f--GvpvVVAIN~F~~-DT~~Ei~~i~~~c~~~g~~~~ 77 (225)
.+++.|+ ..|.+++++..+| |.|+|+=+..... +++.|++.|.+.+++.|...+
T Consensus 30 ~d~~~l~---~~L~~kl~~a~~FF~~~pvvld~~~~~~~~~~~dl~~L~~~l~~~gl~~v 86 (249)
T PRK00339 30 NDLDRLD---RQLAAKVAQAPNFFSNTPLVLALDKLPEGEGELDLPGLMRICRRHGLRTL 86 (249)
T ss_pred CCHHHHH---HHHHHHHHhChhhhCCCeEEEEecccccccchHHHHHHHHHHHHCCCEEE
Confidence 4566664 4677888888873 8999998888763 335689999999999998633
No 317
>COG3414 SgaB Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and metabolism]
Probab=38.69 E-value=9 Score=29.63 Aligned_cols=57 Identities=21% Similarity=0.327 Sum_probs=33.7
Q ss_pred HHHHHHHHHhHhccCCCCCCHHHHHHHHHHHHCCCCCCCeeEeecCCCcCCCCCCCceEEe
Q 042073 118 IKEKIDTIARSYGASGVEYSEEAEKQIKMYTRQGFSGLPFCMAKTQHSFSHNAPTGFILPI 178 (225)
Q Consensus 118 i~eKI~~IA~IYGA~~V~~s~~A~~~l~~~e~~G~~~lPVCmAKTqyS~Sdd~P~~f~~~v 178 (225)
++.||+++++=+|-+ ++.+..+....+.+.. .-++=||.+|+..+|+++-+ ++.+-+
T Consensus 18 ik~kve~~l~~~gi~-~~~~~~~v~~~~~~~~--~aDiiv~s~~l~~~~~~~~~-~~v~~~ 74 (93)
T COG3414 18 IKMKVEEVLKELGID-VDVEQCAVDEIKALTD--GADIIVTSTKLADEFEDIPK-GYVVIT 74 (93)
T ss_pred HHHHHHHHHHHcCCC-ceeeeEEecccccCCC--cccEEEEehHhhhhcCcCCC-ceEEEE
Confidence 677777777755554 5554444444443333 23677778888888876633 555443
No 318
>cd02517 CMP-KDO-Synthetase CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide. CMP-KDO Synthetase: 3-Deoxy-D-manno-octulosonate cytidylyltransferase (CMP-KDO synthetase) catalyzes the conversion of CTP and 3-deoxy-D-manno-octulosonate into CMP-3-deoxy-D-manno-octulosonate (CMP-KDO) and pyrophosphate. KDO is an essential component of the lipopolysaccharide found in the outer surface of gram-negative eubacteria. It is also a constituent of the capsular polysaccharides of some gram-negative eubacteria. Its presence in the cell wall polysaccharides of green algae and plant were also discovered. However, they have not been found in yeast and animals. The absence of the enzyme in mammalian cells makes it an attractive target molecule for drug design.
Probab=38.69 E-value=1.4e+02 Score=25.18 Aligned_cols=53 Identities=23% Similarity=0.241 Sum_probs=33.7
Q ss_pred hHHHHHHHHHHHhhc-CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhh
Q 042073 29 GCVNLARHIANTKAY-GVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGA 90 (225)
Q Consensus 29 G~~NL~~HIeNi~~f-GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga 90 (225)
|-+=|++.++++++. |+.-||.. ++. +.+.+++.+.++. +..+..+..+|-+.
T Consensus 25 gkpll~~~l~~l~~~~~i~~ivvv----~~~----~~i~~~~~~~~~~-~~~~~~~~~~gt~~ 78 (239)
T cd02517 25 GKPMIQHVYERAKKAKGLDEVVVA----TDD----ERIADAVESFGGK-VVMTSPDHPSGTDR 78 (239)
T ss_pred CcCHHHHHHHHHHhCCCCCEEEEE----CCc----HHHHHHHHHcCCE-EEEcCcccCchhHH
Confidence 566688889999987 77654432 122 2356666667885 76766665666553
No 319
>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=38.60 E-value=1.2e+02 Score=23.66 Aligned_cols=54 Identities=24% Similarity=0.133 Sum_probs=31.0
Q ss_pred hhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCe-----EEEccccccCchhhHHHHHHH
Q 042073 41 KAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFD-----AVVCSHHAHGGKGAVDLGIAV 97 (225)
Q Consensus 41 ~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~-----~avs~~wa~GG~Ga~~LA~~V 97 (225)
...++|+++++|+-.-....+++.+.+ ..+... .-+.+.=++-|+|-.++-+.+
T Consensus 112 ~~~~~p~ivv~nK~D~~~~~~~~~i~~---~l~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l 170 (173)
T cd04155 112 KLAGVPVLVFANKQDLATAAPAEEIAE---ALNLHDLRDRTWHIQACSAKTGEGLQEGMNWV 170 (173)
T ss_pred hhcCCCEEEEEECCCCccCCCHHHHHH---HcCCcccCCCeEEEEEeECCCCCCHHHHHHHH
Confidence 346899999999976544433444433 333321 112244467788877665554
No 320
>PF04272 Phospholamban: Phospholamban; InterPro: IPR005984 Phospholamban (PLB) is a small protein (52 amino acids) that regulates the affinity of the cardiac sarcoplasmic reticulum Ca2+-ATPase (SERCA2a) for calcium. PLB is present in cardiac myocytes, in slow-twitch and smooth muscle and is expressed also in aorta endothelial cells in which it could play a role in tissue relaxation. The phosphorylation/dephosphorylation of phospholamban removes and restores, respectively, its inhibitory activity on SERCA2a. It has in fact been shown that phospholamban, in its non-phosphorylated form, binds to SERCA2a and inhibits this pump by lowering its affinity for Ca2+, whereas the phosphorylated form does not exert the inhibition. PLB is phosphorylated at two sites, namely at Ser-16 for a cAMP-dependent phosphokinase and at Thr-17 for a Ca2+/calmodulin-dependent phosphokinase, phosphorylation at Ser-16 being a prerequisite for the phosphorylation at Thr-17. The structure of a 36-amino-acid-long N-terminal fragment of human phospholamban phosphorylated at Ser-16 and Thr-17 and Cys36Ser mutated was determined from nuclear magnetic resonance data. The peptide assumes a conformation characterised by two alpha-helices connected by an irregular strand, which comprises the amino acids from Arg-13 to Pro-21. The proline is in a trans conformation. The two phosphate groups on Ser-16 and Thr-17 are shown to interact preferably with the side chains of Arg-14 and Arg-13, respectively [].; GO: 0005246 calcium channel regulator activity, 0042030 ATPase inhibitor activity, 0006816 calcium ion transport, 0016020 membrane; PDB: 1N7L_A 1FJP_A 1FJK_A 2HYN_C 1ZLL_D 1PLP_A 3O7L_I.
Probab=38.58 E-value=39 Score=23.36 Aligned_cols=28 Identities=25% Similarity=0.405 Sum_probs=25.1
Q ss_pred HHHHHHHh--HhccCCCCCCHHHHHHHHHH
Q 042073 120 EKIDTIAR--SYGASGVEYSEEAEKQIKMY 147 (225)
Q Consensus 120 eKI~~IA~--IYGA~~V~~s~~A~~~l~~~ 147 (225)
||+....+ |-+|+.++..++|++.++.+
T Consensus 2 ekvqhmtrsairrastiev~~qa~qnlqel 31 (52)
T PF04272_consen 2 EKVQHMTRSAIRRASTIEVPQQARQNLQEL 31 (52)
T ss_dssp HHHHHHHHHHHHHHHTSSSCHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHhhccCCHHHHHHHHHH
Confidence 78888888 88999999999999998875
No 321
>PRK07226 fructose-bisphosphate aldolase; Provisional
Probab=38.53 E-value=1.8e+02 Score=25.89 Aligned_cols=18 Identities=17% Similarity=0.021 Sum_probs=10.3
Q ss_pred cHHHHHHHHHHHHHcCCC
Q 042073 58 SEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 58 T~~Ei~~i~~~c~~~g~~ 75 (225)
+++++....+.|.+.|+.
T Consensus 158 ~~~~i~~a~~~a~e~GAD 175 (267)
T PRK07226 158 DPEVVAHAARVAAELGAD 175 (267)
T ss_pred cHHHHHHHHHHHHHHCCC
Confidence 345555555556666664
No 322
>TIGR00089 RNA modification enzyme, MiaB family. This subfamily is aparrently a part of a larger superfamily of enzymes utilizing both a 4Fe4S cluster and S-adenosyl methionine (SAM) to initiate radical reactions. MiaB acts on a particular isoprenylated Adenine base of certain tRNAs causing thiolation at an aromatic carbon, and probably also transferring a methyl grouyp from SAM to the thiol. The particular substrate of the three other clades is unknown but may be very closely related.
Probab=38.53 E-value=1.4e+02 Score=28.28 Aligned_cols=60 Identities=5% Similarity=-0.036 Sum_probs=40.7
Q ss_pred cccccccHHHHHHh--HHHHHHHHHHHhhcC--CeEEE-EecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 16 HAYLNENVALVEAG--CVNLARHIANTKAYG--VNVVV-AVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 16 ~~l~~eN~~al~~G--~~NL~~HIeNi~~fG--vpvVV-AIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
+..+++-+..+.++ .....+-|+.+++.| +.+.. -|--||.+|+++++...+++++.+..
T Consensus 257 ES~s~~vLk~m~R~~~~~~~~~~i~~lr~~~~~i~i~~~~IvG~PgET~ed~~~tl~~i~~~~~~ 321 (429)
T TIGR00089 257 QSGSDRILKRMNRKYTREEYLDIVEKIRAKIPDAAITTDIIVGFPGETEEDFEETLDLVEEVKFD 321 (429)
T ss_pred ccCChHHHHhCCCCCCHHHHHHHHHHHHHHCCCCEEEeeEEEECCCCCHHHHHHHHHHHHhcCCC
Confidence 34444555666655 234556677777766 43221 34459999999999999999998886
No 323
>COG1084 Predicted GTPase [General function prediction only]
Probab=38.51 E-value=97 Score=29.59 Aligned_cols=61 Identities=20% Similarity=0.280 Sum_probs=40.8
Q ss_pred HHHhh-cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHH
Q 042073 38 ANTKA-YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRA 100 (225)
Q Consensus 38 eNi~~-fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~ 100 (225)
++++. |..|+||++|+-.-=++++++.+.....+.|.. ..-..-+..|.|--.+-+.|..+
T Consensus 273 ~eIk~~f~~p~v~V~nK~D~~~~e~~~~~~~~~~~~~~~--~~~~~~~~~~~~~d~~~~~v~~~ 334 (346)
T COG1084 273 EEIKELFKAPIVVVINKIDIADEEKLEEIEASVLEEGGE--EPLKISATKGCGLDKLREEVRKT 334 (346)
T ss_pred HHHHHhcCCCeEEEEecccccchhHHHHHHHHHHhhccc--cccceeeeehhhHHHHHHHHHHH
Confidence 45664 889999999998766678888887777766664 12234445555555555566655
No 324
>PF02016 Peptidase_S66: LD-carboxypeptidase; InterPro: IPR003507 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This signature is found in the Escherichia coli microcin C7 self-immunity protein mccF and in muramoyltetrapeptide carboxypeptidase (3.4.17.13 from EC, LD-carboxypeptidase A). LD-carboxypeptidase A belongs to MEROPS peptidase family S66 (clan SS). The entry also contains uncharacterised proteins including hypothetical proteins from various bacteria archaea.; PDB: 1ZRS_A 1ZL0_B 2AUM_B 2AUN_B 3TLG_A 3TLC_A 3TLZ_B 3TLY_B 3TLE_A 3TLB_B ....
Probab=38.45 E-value=42 Score=30.36 Aligned_cols=70 Identities=29% Similarity=0.351 Sum_probs=43.0
Q ss_pred HHHHHHHHHHhhcCCeEEEEecCCCC-----CcHHH-HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHH-HHhhc
Q 042073 31 VNLARHIANTKAYGVNVVVAVNMFAT-----DSEAE-LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQ-RACEN 103 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvVVAIN~F~~-----DT~~E-i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv-~~~e~ 103 (225)
.+|++=++.++++|..|++.=|.+.. -|++| .+.+.++.+.-.+. +++| ..||.|+..|-..+= +++.+
T Consensus 14 ~~l~~~~~~L~~~G~~v~~~~~~~~~~~~~ags~~~Ra~dL~~a~~d~~i~-aI~~---~rGGyg~~rlL~~ld~~~i~~ 89 (284)
T PF02016_consen 14 ERLERGIKRLESWGFKVVVGPHVFKRDGYLAGSDEERAEDLNEAFADPEID-AIWC---ARGGYGANRLLPYLDYDAIRK 89 (284)
T ss_dssp HHHHHHHHHHHHTTEEEEE-TTTTS-BTTBSS-HHHHHHHHHHHHHSTTEE-EEEE---S--SS-GGGGGGGCHHHHHHH
T ss_pred HHHHHHHHHHHhCCCEEEECCcccccCCCcCCCHHHHHHHHHHHhcCCCCC-EEEE---eeccccHHHHHhccccccccc
Confidence 45666677788899999999776544 34554 55566666665664 6554 689999999877665 34443
Q ss_pred C
Q 042073 104 V 104 (225)
Q Consensus 104 ~ 104 (225)
+
T Consensus 90 ~ 90 (284)
T PF02016_consen 90 N 90 (284)
T ss_dssp S
T ss_pred C
Confidence 3
No 325
>TIGR00735 hisF imidazoleglycerol phosphate synthase, cyclase subunit.
Probab=38.33 E-value=1.8e+02 Score=25.48 Aligned_cols=90 Identities=17% Similarity=0.167 Sum_probs=50.0
Q ss_pred HhhcC-CeEEEEecCC-----------------CCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhh--HHHHHHHHH
Q 042073 40 TKAYG-VNVVVAVNMF-----------------ATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGA--VDLGIAVQR 99 (225)
Q Consensus 40 i~~fG-vpvVVAIN~F-----------------~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga--~~LA~~Vv~ 99 (225)
.+.|| --+||+|..+ ...+..+...+.+.+.++|+..+.++..=.+|-.++ .++++++.+
T Consensus 117 ~~~~~~~~iv~slD~~~g~~~~~~~~~v~i~gw~~~~~~~~~~~~~~l~~~G~~~iivt~i~~~g~~~g~~~~~~~~i~~ 196 (254)
T TIGR00735 117 ADRFGSQCIVVAIDAKRVYVNSYCWYEVYIYGGRESTGLDAVEWAKEVEKLGAGEILLTSMDKDGTKSGYDLELTKAVSE 196 (254)
T ss_pred HHHcCCCCEEEEEEeccCCCCCCccEEEEEeCCcccCCCCHHHHHHHHHHcCCCEEEEeCcCcccCCCCCCHHHHHHHHH
Confidence 34576 5677777633 234556666677777899997555555444443333 456666655
Q ss_pred HhhcCCCCcccccCCCCCHHHHHHHHHhHhccCCC
Q 042073 100 ACENVTQPLKFLYPSDVSIKEKIDTIARSYGASGV 134 (225)
Q Consensus 100 ~~e~~~~~f~~lY~~~~~i~eKI~~IA~IYGA~~V 134 (225)
.. +...++.-.-+=.+.++++.+..++++|
T Consensus 197 ~~-----~ipvia~GGi~s~~di~~~~~~g~~dgv 226 (254)
T TIGR00735 197 AV-----KIPVIASGGAGKPEHFYEAFTKGKADAA 226 (254)
T ss_pred hC-----CCCEEEeCCCCCHHHHHHHHHcCCccee
Confidence 43 2444444444444455554444445554
No 326
>PRK05799 coproporphyrinogen III oxidase; Provisional
Probab=38.14 E-value=88 Score=28.91 Aligned_cols=45 Identities=7% Similarity=0.042 Sum_probs=22.2
Q ss_pred HHHHHHHHHHhhcCCe-E-EEEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 31 VNLARHIANTKAYGVN-V-VVAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvp-v-VVAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
....+-|+.+++.|++ + +-.|=-+|..|.+++....+++.+.++.
T Consensus 135 ~~~~~ai~~l~~~g~~~v~~dli~GlPgqt~e~~~~~l~~~~~l~~~ 181 (374)
T PRK05799 135 EEFLENYKLARKLGFNNINVDLMFGLPNQTLEDWKETLEKVVELNPE 181 (374)
T ss_pred HHHHHHHHHHHHcCCCcEEEEeecCCCCCCHHHHHHHHHHHHhcCCC
Confidence 3444445555555554 2 1222234555555555555555555553
No 327
>COG0289 DapB Dihydrodipicolinate reductase [Amino acid transport and metabolism]
Probab=38.13 E-value=1.3e+02 Score=27.65 Aligned_cols=61 Identities=18% Similarity=0.211 Sum_probs=44.5
Q ss_pred HHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHH
Q 042073 34 ARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRA 100 (225)
Q Consensus 34 ~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~ 100 (225)
..|++-..++|+|.||.===| |+++++.|+++.++ ++ +.+|-.|+-|=-=-.-|+++..+.
T Consensus 83 ~~~l~~~~~~~~~lVIGTTGf---~~e~~~~l~~~a~~--v~-vv~a~NfSiGvnll~~l~~~aak~ 143 (266)
T COG0289 83 LENLEFALEHGKPLVIGTTGF---TEEQLEKLREAAEK--VP-VVIAPNFSLGVNLLFKLAEQAAKV 143 (266)
T ss_pred HHHHHHHHHcCCCeEEECCCC---CHHHHHHHHHHHhh--CC-EEEeccchHHHHHHHHHHHHHHHh
Confidence 456777888999999986666 57889999999887 65 788999988754444444444433
No 328
>TIGR03164 UHCUDC OHCU decarboxylase. Previously thought to only proceed spontaneously, the decarboxylation of 2-oxo-4-hydroxy-4-carboxy--5-ureidoimidazoline (OHCU) has been recently been shown to be catalyzed by this enzyme in Mus musculus. Homologs of this enzyme are found adjacent to and fused with uricase in a number of prokaryotes and are represented by this model.
Probab=38.12 E-value=40 Score=28.23 Aligned_cols=14 Identities=21% Similarity=0.346 Sum_probs=12.0
Q ss_pred hhcCCeEEEEecCC
Q 042073 41 KAYGVNVVVAVNMF 54 (225)
Q Consensus 41 ~~fGvpvVVAIN~F 54 (225)
.+||.|.||++|--
T Consensus 105 ~kFGfpFvi~v~g~ 118 (157)
T TIGR03164 105 ARFGFPFIMAVKGK 118 (157)
T ss_pred HHCCCeeEEeeCCC
Confidence 57999999999953
No 329
>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=38.11 E-value=97 Score=24.34 Aligned_cols=68 Identities=10% Similarity=-0.018 Sum_probs=39.9
Q ss_pred hHHHHHHHHHHHhh------cCCeEEEEecCCCCCcHHHH--HHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 29 GCVNLARHIANTKA------YGVNVVVAVNMFATDSEAEL--NAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 29 G~~NL~~HIeNi~~------fGvpvVVAIN~F~~DT~~Ei--~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
-+.++.+.++.+++ -++|++++.|+-.-....++ +....++...++. +.. .=++=|+|-.+|-+.+++
T Consensus 87 s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~-~~e--~SA~~g~~v~~~f~~l~~ 162 (165)
T cd04140 87 SLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSNEGAACATEWNCA-FME--TSAKTNHNVQELFQELLN 162 (165)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHHHHHHHHHHhCCc-EEE--eecCCCCCHHHHHHHHHh
Confidence 35555555554443 36999999999754322222 2234566666764 432 334566787777776654
No 330
>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=37.93 E-value=1.6e+02 Score=24.62 Aligned_cols=68 Identities=12% Similarity=-0.045 Sum_probs=40.6
Q ss_pred HHHHHHHHHh---hcCCeEEEEecCCCCCcHH--HHHHHHHHHH-HcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 32 NLARHIANTK---AYGVNVVVAVNMFATDSEA--ELNAVRIAAM-AAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 32 NL~~HIeNi~---~fGvpvVVAIN~F~~DT~~--Ei~~i~~~c~-~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
++.+.+.+.+ .-++|+||+.|+.....+. +-+.+.++++ ..++. +. +.=++-|.|-.+|-+.+++.+-
T Consensus 101 ~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~-~~--e~Sak~g~~v~~lf~~i~~~~~ 174 (198)
T cd04142 101 LLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCG-YL--ECSAKYNWHILLLFKELLISAT 174 (198)
T ss_pred HHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHHHhcCCc-EE--EecCCCCCCHHHHHHHHHHHhh
Confidence 3444455544 3579999999997662221 1123445554 34664 33 3345677888888888887654
No 331
>PRK05433 GTP-binding protein LepA; Provisional
Probab=37.85 E-value=1.1e+02 Score=30.95 Aligned_cols=67 Identities=9% Similarity=0.011 Sum_probs=38.9
Q ss_pred HHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 36 HIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 36 HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
|+..+...++|+++++|+........-+...+++...|.....+-..=+.=|.|-.+|-+.+++.+.
T Consensus 118 ~~~~~~~~~lpiIvViNKiDl~~a~~~~v~~ei~~~lg~~~~~vi~iSAktG~GI~~Ll~~I~~~lp 184 (600)
T PRK05433 118 NVYLALENDLEIIPVLNKIDLPAADPERVKQEIEDVIGIDASDAVLVSAKTGIGIEEVLEAIVERIP 184 (600)
T ss_pred HHHHHHHCCCCEEEEEECCCCCcccHHHHHHHHHHHhCCCcceEEEEecCCCCCHHHHHHHHHHhCc
Confidence 3444556899999999998753211111223444445553111122335667888888888887664
No 332
>TIGR01997 sufA_proteo FeS assembly scaffold SufA. This model represents the SufA protein of the SUF system of iron-sulfur cluster biosynthesis. This system performs FeS biosynthesis even during oxidative stress and tends to be absent in obligate anaerobic and microaerophilic bacteria.
Probab=37.82 E-value=45 Score=25.68 Aligned_cols=50 Identities=8% Similarity=0.125 Sum_probs=31.6
Q ss_pred CCCCCHHHHHHHHHHHHC-C-CCCCCeeEee-----cCCCcC-CC--CCCCceEEeeEEE
Q 042073 133 GVEYSEEAEKQIKMYTRQ-G-FSGLPFCMAK-----TQHSFS-HN--APTGFILPIRDVR 182 (225)
Q Consensus 133 ~V~~s~~A~~~l~~~e~~-G-~~~lPVCmAK-----TqyS~S-dd--~P~~f~~~vrdv~ 182 (225)
.|.+|+.|.++|+++-+. + -..|=|-+.. -+|+|+ .| .|.|.++...+++
T Consensus 2 ~i~iT~~A~~~i~~l~~~~~~~~~lRi~v~~~GC~G~~y~~~l~~~~~~~D~v~~~~g~~ 61 (107)
T TIGR01997 2 VITLTDAAAIHIRELVAKRPEAVGIRLGVKKTGCAGMEYVLDLVSEPKKDDDLIEHDGAK 61 (107)
T ss_pred eEEECHHHHHHHHHHHhcCCCCcEEEEEEECCCCCCcEEEeeecCCCCCCCEEEecCCEE
Confidence 378999999999997743 3 1124454443 358887 34 6777766654443
No 333
>TIGR01393 lepA GTP-binding protein LepA. LepA (GUF1 in Saccaromyces) is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function is unknown.
Probab=37.56 E-value=1e+02 Score=31.02 Aligned_cols=68 Identities=10% Similarity=0.056 Sum_probs=40.0
Q ss_pred HHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 35 RHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 35 ~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
.|+......++|+++++|+........-+...+++...|.....+-..=++=|.|-.+|-+.+++.+.
T Consensus 113 ~~~~~~~~~~ipiIiViNKiDl~~~~~~~~~~el~~~lg~~~~~vi~vSAktG~GI~~Lle~I~~~lp 180 (595)
T TIGR01393 113 ANVYLALENDLEIIPVINKIDLPSADPERVKKEIEEVIGLDASEAILASAKTGIGIEEILEAIVKRVP 180 (595)
T ss_pred HHHHHHHHcCCCEEEEEECcCCCccCHHHHHHHHHHHhCCCcceEEEeeccCCCCHHHHHHHHHHhCC
Confidence 34455556899999999998753211112234445555653111222345667888888888877664
No 334
>PF04320 DUF469: Protein with unknown function (DUF469); InterPro: IPR007416 This entry represents a family of uncharacterised proteins which are predicted to function as phosphotransferases.
Probab=37.42 E-value=79 Score=25.02 Aligned_cols=62 Identities=16% Similarity=0.148 Sum_probs=42.7
Q ss_pred cccccHHHHHHhHHHHHHHHHHHhh-c---C---CeEEEEecCCCCCcHHHHHHHHHHHHHcC-CCeEEEccc
Q 042073 18 YLNENVALVEAGCVNLARHIANTKA-Y---G---VNVVVAVNMFATDSEAELNAVRIAAMAAG-AFDAVVCSH 82 (225)
Q Consensus 18 l~~eN~~al~~G~~NL~~HIeNi~~-f---G---vpvVVAIN~F~~DT~~Ei~~i~~~c~~~g-~~~~avs~~ 82 (225)
.+.+.++++-.-|-+ -|+--.. | | .--.|+.-+..+-|++..++|++|.+++. +.++.+|+-
T Consensus 27 ~~~e~~D~~~D~fId---~Ie~~gL~~~Ggg~~~~eG~vc~~~~gs~tee~R~~v~~WL~~~~ev~~v~vs~L 96 (101)
T PF04320_consen 27 TSEEQIDAFVDAFID---VIEPNGLAFGGGGYEQWEGFVCLQRYGSCTEEDRAAVEAWLKARPEVSDVEVSEL 96 (101)
T ss_pred CCHHHHHHHHHHHHH---HHHhCCCEEecCCccCEeEEEEeccCCCCCHHHHHHHHHHHHhCCCcceEEecce
Confidence 445666666555533 3443332 3 2 22678888999999999999999999988 777777654
No 335
>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=37.35 E-value=1.2e+02 Score=23.32 Aligned_cols=55 Identities=9% Similarity=-0.012 Sum_probs=29.0
Q ss_pred hcCCeEEEEecCCCCCc---HHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHH
Q 042073 42 AYGVNVVVAVNMFATDS---EAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAV 97 (225)
Q Consensus 42 ~fGvpvVVAIN~F~~DT---~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~V 97 (225)
..++|+++++|+..... .+|+....+....... .+.+-+.=++-|+|-.+|-+.+
T Consensus 102 ~~~~p~iiv~NK~Dl~~~~~~~~~~~~l~~~~~~~~-~~~~~~~Sa~~g~gv~~~~~~l 159 (162)
T cd04157 102 HRRVPILFFANKMDLPDALTAVKITQLLGLENIKDK-PWHIFASNALTGEGLDEGVQWL 159 (162)
T ss_pred cCCCCEEEEEeCccccCCCCHHHHHHHhCCccccCc-eEEEEEeeCCCCCchHHHHHHH
Confidence 35899999999976532 2333222221110111 1222333467788877776654
No 336
>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=37.29 E-value=1.9e+02 Score=22.90 Aligned_cols=59 Identities=14% Similarity=0.094 Sum_probs=36.2
Q ss_pred HHhhcCCeEEEEecCCCCCcHHHH-HHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHH
Q 042073 39 NTKAYGVNVVVAVNMFATDSEAEL-NAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRA 100 (225)
Q Consensus 39 Ni~~fGvpvVVAIN~F~~DT~~Ei-~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~ 100 (225)
-++..+.|+++++|+-.--+++++ +++..+-+..+.. +.. +=+.-|.|-.+|-+.+.+.
T Consensus 24 ~~~~~~~p~IiVlNK~Dl~~~~~~~~~~~~~~~~~~~~-ii~--vSa~~~~gi~~L~~~i~~~ 83 (155)
T cd01849 24 LIKEKGKKLILVLNKADLVPKEVLRKWLAYLRHSYPTI-PFK--ISATNGQGIEKKESAFTKQ 83 (155)
T ss_pred HHhcCCCCEEEEEechhcCCHHHHHHHHHHHHhhCCce-EEE--EeccCCcChhhHHHHHHHH
Confidence 445678999999999877556655 3344443333432 222 2345577777777776554
No 337
>PF02786 CPSase_L_D2: Carbamoyl-phosphate synthase L chain, ATP binding domain; InterPro: IPR005479 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the ATP-binding domain found in the large subunit of carbamoyl phosphate synthase, as well as in related proteins.; GO: 0003824 catalytic activity, 0005524 ATP binding, 0008152 metabolic process; PDB: 3U9S_A 3U9T_A 2C00_B 2VQD_A 1W96_B 1W93_A 1M6V_C 1CS0_C 1C30_E 1C3O_G ....
Probab=37.15 E-value=41 Score=29.20 Aligned_cols=60 Identities=25% Similarity=0.207 Sum_probs=41.5
Q ss_pred HHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhh------HHHHHHHHHH
Q 042073 36 HIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGA------VDLGIAVQRA 100 (225)
Q Consensus 36 HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga------~~LA~~Vv~~ 100 (225)
.-+.+++.|+|++-....- .+|.+| +.++|++.|.+ +.+--.+.-||.|. .+|.+.+..+
T Consensus 5 ~~~~~~~~gvp~~pg~~~~-~~~~ee---a~~~a~~iGyP-VliKas~ggGG~gm~iv~~~~eL~~~~~~~ 70 (211)
T PF02786_consen 5 FRKLAKKLGVPVPPGSTVP-ISSVEE---ALEFAEEIGYP-VLIKASAGGGGRGMRIVHNEEELEEAFERA 70 (211)
T ss_dssp HHHHHHHTT-BBSSBESSS-BSSHHH---HHHHHHHH-SS-EEEEETTSSTTTSEEEESSHHHHHHHHHHH
T ss_pred HHHHHHHCCCCcCCCCCCC-CCCHHH---HHHHHHhcCCc-eEEeecccccccccccccchhhhhhhhhhc
Confidence 3466888999998765544 344544 45778889998 99999999999996 3566665544
No 338
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=37.09 E-value=4.2e+02 Score=29.28 Aligned_cols=151 Identities=19% Similarity=0.272 Sum_probs=85.8
Q ss_pred HhhcCCeEEEEec--CCCCCcHHHHHHHHHHHHHcCCC-------eEEEccccccCchhhHHHHH----------HHHHH
Q 042073 40 TKAYGVNVVVAVN--MFATDSEAELNAVRIAAMAAGAF-------DAVVCSHHAHGGKGAVDLGI----------AVQRA 100 (225)
Q Consensus 40 i~~fGvpvVVAIN--~F~~DT~~Ei~~i~~~c~~~g~~-------~~avs~~wa~GG~Ga~~LA~----------~Vv~~ 100 (225)
.+.+|+| +||.| +|.+=.+.++.-+. .|...|.. ...-.+.|-+..+=...|=. ++++.
T Consensus 189 a~~~~ip-~vaTndv~y~~~~d~~ahd~~-l~i~~~~~l~~~~~~~~~~~e~ylks~eeM~~lf~d~peAl~nT~~Ia~r 266 (1139)
T COG0587 189 ARELGIP-LVATNDVHYINPEDREAHDAL-LCIRTGKTLSDDKRLRYSSAEQYLKSPEEMARLFADIPEALANTVEIAER 266 (1139)
T ss_pred HHHcCCC-eEEeccceecCcchHHHHHHH-HHHhcCCeecccccccccCcccccCCHHHHHHHhhhhHHHHHHHHHHHHh
Confidence 4569999 67777 46665566655443 34445551 02223334444443333322 23333
Q ss_pred hhcC--CCCcccccCC--CCCHHHHHHHHHh-H----hc----cCCC-----CCCHHHHHHHHHHHHCCCCCCCeeEee-
Q 042073 101 CENV--TQPLKFLYPS--DVSIKEKIDTIAR-S----YG----ASGV-----EYSEEAEKQIKMYTRQGFSGLPFCMAK- 161 (225)
Q Consensus 101 ~e~~--~~~f~~lY~~--~~~i~eKI~~IA~-I----YG----A~~V-----~~s~~A~~~l~~~e~~G~~~lPVCmAK- 161 (225)
|+-. ...+-|-|+. ..+..+=++++|. - |. -..+ +|-...+.+|.-|.++||..+=.-+..
T Consensus 267 c~~~l~~~~~lP~fp~~~~~~~~~~L~~~~~~Gl~~r~~~~~~~~~~~~~~~~y~~RL~~EL~vI~~mgf~~YFLiV~D~ 346 (1139)
T COG0587 267 CNFELDLGPRLPNFPTPPGKSAAEYLRKLAEEGLEERYKERLAPEEVPEKVREYKERLEYELDVINKMGFPGYFLIVWDF 346 (1139)
T ss_pred cceehhccccCCCCCCCCCCCHHHHHHHHHHHHHHHHHhhccCccccchhhHHHHHHHHHHHHHHHhcCCCCeEEeHHHH
Confidence 3211 1123477877 6788888888888 5 54 3333 377888999999999999776654421
Q ss_pred cCCCcCCCCCCCceEEeeEEEeecCCceeeeecccccc
Q 042073 162 TQHSFSHNAPTGFILPIRDVRASIGAGFIYPLVGTIST 199 (225)
Q Consensus 162 TqyS~Sdd~P~~f~~~vrdv~~~~GAgFiv~~~G~i~t 199 (225)
.+|+=+.|.|-|. =| =+|||=+|++|=.|..
T Consensus 347 I~~Ak~~gI~vGP---GR----GSaAGSLVaY~L~IT~ 377 (1139)
T COG0587 347 IKFARDNGIPVGP---GR----GSAAGSLVAYALGITD 377 (1139)
T ss_pred HHHHHHCCCccCC---CC----cchHHHHHHHHhcCCC
Confidence 2233345533320 01 2678888888766643
No 339
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=37.07 E-value=1.1e+02 Score=31.33 Aligned_cols=67 Identities=18% Similarity=0.041 Sum_probs=39.8
Q ss_pred HHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHH-c-CCCeEEEccccccCchhhHHHHHHHHHHhhc
Q 042073 37 IANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMA-A-GAFDAVVCSHHAHGGKGAVDLGIAVQRACEN 103 (225)
Q Consensus 37 IeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~-~-g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~ 103 (225)
++.+...|.|+||++|+..--.+++.+.+.+.... . +...+-+-..=+.-|.|-.+|-+.+.++.++
T Consensus 554 ~~~~~~~~~piIiV~NK~DL~~~~~~~~~~~~~~~~l~~~~~~~ii~iSAktg~gv~~L~~~i~~~~~~ 622 (712)
T PRK09518 554 MSMAVDAGRALVLVFNKWDLMDEFRRQRLERLWKTEFDRVTWARRVNLSAKTGWHTNRLAPAMQEALES 622 (712)
T ss_pred HHHHHHcCCCEEEEEEchhcCChhHHHHHHHHHHHhccCCCCCCEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 44455679999999999875444444444443322 1 1111111223457788888888888887753
No 340
>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=37.00 E-value=92 Score=31.03 Aligned_cols=48 Identities=8% Similarity=-0.047 Sum_probs=33.6
Q ss_pred HHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccc
Q 042073 34 ARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSH 82 (225)
Q Consensus 34 ~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~ 82 (225)
++-|+.+++-|.|+||.+|.-...+++..++..++-++.+++ +...++
T Consensus 170 e~~i~eLk~~~kPfiivlN~~dp~~~et~~l~~~l~eky~vp-vl~v~c 217 (492)
T TIGR02836 170 ERVIEELKELNKPFIILLNSTHPYHPETEALRQELEEKYDVP-VLAMDV 217 (492)
T ss_pred HHHHHHHHhcCCCEEEEEECcCCCCchhHHHHHHHHHHhCCc-eEEEEH
Confidence 466888999999999999986644455555555665667886 444444
No 341
>PLN02775 Probable dihydrodipicolinate reductase
Probab=36.88 E-value=89 Score=28.95 Aligned_cols=100 Identities=14% Similarity=0.113 Sum_probs=62.2
Q ss_pred HHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCccccc
Q 042073 33 LARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLY 112 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY 112 (225)
+..|++-..++|+|+||.-=-|. ++|++ ++|++.++. +.++..|+-|--=-..|++...+... +.|. =|
T Consensus 93 ~~~~~~~~~~~g~~~VvGTTG~~---~e~l~---~~~~~~~i~-vv~apNfSiGv~ll~~l~~~aA~~l~---~~f~-~y 161 (286)
T PLN02775 93 VNDNAELYCKNGLPFVMGTTGGD---RDRLL---KDVEESGVY-AVIAPQMGKQVVAFQAAMEIMAEQFP---GAFS-GY 161 (286)
T ss_pred HHHHHHHHHHCCCCEEEECCCCC---HHHHH---HHHhcCCcc-EEEECcccHHHHHHHHHHHHHHHhcc---cccC-CC
Confidence 56777778889999999877663 33544 566667886 88999998876655555555544442 1121 13
Q ss_pred CCCCCHHHHHHHHHhHhccCCCCCCHHHHHHHHHHHHCCC
Q 042073 113 PSDVSIKEKIDTIARSYGASGVEYSEEAEKQIKMYTRQGF 152 (225)
Q Consensus 113 ~~~~~i~eKI~~IA~IYGA~~V~~s~~A~~~l~~~e~~G~ 152 (225)
|.+ |.| +-....++.|-.|.+-.+.+.++|.
T Consensus 162 DiE--IiE-------~HH~~K~DaSGTA~~lae~i~~~g~ 192 (286)
T PLN02775 162 TLE--VVE-------SHQATKLDTSGTAKAVISSFRKLGV 192 (286)
T ss_pred CEE--EEE-------CCCCCCCCCcHHHHHHHHHHHHhCC
Confidence 321 111 2344455557778777777776664
No 342
>COG0352 ThiE Thiamine monophosphate synthase [Coenzyme metabolism]
Probab=36.66 E-value=86 Score=27.60 Aligned_cols=113 Identities=16% Similarity=0.101 Sum_probs=71.9
Q ss_pred HHHHHHHhhcCCeEEEEecCCCCCcH--HHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccc
Q 042073 34 ARHIANTKAYGVNVVVAVNMFATDSE--AELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFL 111 (225)
Q Consensus 34 ~~HIeNi~~fGvpvVVAIN~F~~DT~--~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~l 111 (225)
.+-||.+-+.|+..|.--.+-.++-+ +....+++.|++.|+. +.+++.| +||.+| ....=.|
T Consensus 24 ~~~ve~al~~Gv~~vQlR~K~~~~~~~~~~a~~~~~lc~~~~v~-liINd~~--------dlA~~~-------~AdGVHl 87 (211)
T COG0352 24 LEWVEAALKGGVTAVQLREKDLSDEEYLALAEKLRALCQKYGVP-LIINDRV--------DLALAV-------GADGVHL 87 (211)
T ss_pred HHHHHHHHhCCCeEEEEecCCCChHHHHHHHHHHHHHHHHhCCe-EEecCcH--------HHHHhC-------CCCEEEc
Confidence 45578888899999988777655544 4557789999999997 9999995 555532 1222223
Q ss_pred cCCCCCHHHHHHHHHh--HhccCCCCCCHHHHHHHHHHHHCCCCCCCeeEeecCCCcCCC
Q 042073 112 YPSDVSIKEKIDTIAR--SYGASGVEYSEEAEKQIKMYTRQGFSGLPFCMAKTQHSFSHN 169 (225)
Q Consensus 112 Y~~~~~i~eKI~~IA~--IYGA~~V~~s~~A~~~l~~~e~~G~~~lPVCmAKTqyS~Sdd 169 (225)
=..++++.+-.+.... +=| .|-.-..++++.+++|-+ .|+.-.-.-+-|..
T Consensus 88 Gq~D~~~~~ar~~~~~~~iIG-----~S~h~~eea~~A~~~g~D--Yv~~GpifpT~tK~ 140 (211)
T COG0352 88 GQDDMPLAEARELLGPGLIIG-----LSTHDLEEALEAEELGAD--YVGLGPIFPTSTKP 140 (211)
T ss_pred CCcccchHHHHHhcCCCCEEE-----eecCCHHHHHHHHhcCCC--EEEECCcCCCCCCC
Confidence 3346666655554444 323 233345566677777644 57776666666655
No 343
>PRK11702 hypothetical protein; Provisional
Probab=36.60 E-value=81 Score=25.29 Aligned_cols=36 Identities=11% Similarity=0.009 Sum_probs=32.0
Q ss_pred EEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccc
Q 042073 47 VVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSH 82 (225)
Q Consensus 47 vVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~ 82 (225)
-+|+..+..+=|++.-++|++|.+.+++.++.+|+.
T Consensus 67 G~vc~~~~gs~tEe~R~~V~~WL~~r~v~~v~vseL 102 (108)
T PRK11702 67 GLICLQKIGKCTEEHRALVKKWLEGRKLTDVEVSEL 102 (108)
T ss_pred EEEeecccCCCCHHHHHHHHHHHHhCCCceEEeecc
Confidence 578889999999999999999999999887887764
No 344
>cd06454 KBL_like KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS), 8-amino-7-oxononanoate synthase (AONS), and 2-amino-3-ketobutyrate CoA ligase (KBL). SPT is responsible for the condensation of L-serine with palmitoyl-CoA to produce 3-ketodihydrospingosine, the reaction of the first step in sphingolipid biosynthesis. ALAS is involved in heme biosynthesis; it catalyzes the synthesis of 5-aminolevulinic acid from glycine and succinyl-coenzyme A. AONS catalyses the decarboxylative condensation of l-alanine and pimeloyl-CoA in the first committed step of biotin biosynthesis. KBL catalyzes the second reaction step of the metabolic degradation pathway for threonine converting 2-amino-3-ketobutyrate, to glycine and acetyl-CoA. The members of this CD are widely found in all three forms of life.
Probab=36.51 E-value=91 Score=27.43 Aligned_cols=53 Identities=17% Similarity=0.093 Sum_probs=33.8
Q ss_pred HHHHHHHHhhcCCeEEEEecC--CCCCcHHHHHHHHHHHHHcCCCeEEEccccccC
Q 042073 33 LARHIANTKAYGVNVVVAVNM--FATDSEAELNAVRIAAMAAGAFDAVVCSHHAHG 86 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAIN~--F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~G 86 (225)
|+++|+....-.-+.+|.++. .++=+-.+++.|.++|++.|+. +.+-+.|+.|
T Consensus 120 le~~i~~~~~~~~~~~v~~~~~~~~tG~~~~~~~i~~~~~~~~~~-livD~a~~~g 174 (349)
T cd06454 120 LEKLLREARRPYGKKLIVTEGVYSMDGDIAPLPELVDLAKKYGAI-LFVDEAHSVG 174 (349)
T ss_pred HHHHHHHhhccCCCeEEEEeccccCCCCccCHHHHHHHHHHcCCE-EEEEcccccc
Confidence 455555443113445666643 3443455688899999999996 8888887654
No 345
>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=36.22 E-value=2.1e+02 Score=22.44 Aligned_cols=55 Identities=16% Similarity=0.067 Sum_probs=32.2
Q ss_pred cCCeEEEEecCCCCCcH-------HHHHHHHHHHHHc-CCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 43 YGVNVVVAVNMFATDSE-------AELNAVRIAAMAA-GAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~-------~Ei~~i~~~c~~~-g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
.++|++++.|+-.-... +++..+ +.+. +...+..+. +.=|.|-.+|-+++++.+-
T Consensus 102 ~~~pviiv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~~~e~S--a~~~~~v~~lf~~~~~~~~ 164 (166)
T cd01893 102 VKVPIILVGNKSDLRDGSSQAGLEEEMLPI---MNEFREIETCVECS--AKTLINVSEVFYYAQKAVL 164 (166)
T ss_pred CCCCEEEEEEchhcccccchhHHHHHHHHH---HHHHhcccEEEEec--cccccCHHHHHHHHHHHhc
Confidence 38999999999764322 233322 2222 222243333 3556888888888877763
No 346
>TIGR01222 minC septum site-determining protein MinC. The minC protein assists in correct placement of the septum for cell division by inhibiting septum formation at other sites. Homologs from Deinocoocus, Synechocystis PCC 6803, and Helicobacter pylori do not hit the full length of the model and score between the trusted and noise cutoffs.
Probab=36.14 E-value=1.1e+02 Score=26.63 Aligned_cols=52 Identities=13% Similarity=0.153 Sum_probs=39.2
Q ss_pred ccHHHHHHhHHHHHHHHHHHhhc--CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 21 ENVALVEAGCVNLARHIANTKAY--GVNVVVAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 21 eN~~al~~G~~NL~~HIeNi~~f--GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
.+.+.+ +..|.++++....| |-|+|+-+..+..+...|++.+.+.+.+.|..
T Consensus 19 ~~~~~l---~~~L~~kl~~a~~ff~~~~~vld~~~~~~~~~~~~~~l~~~l~~~gl~ 72 (217)
T TIGR01222 19 QNLDEL---LQELSEKITQAPKFFAKGPIILDVIELPNPELKDLPALVSELRRHGLE 72 (217)
T ss_pred CCHHHH---HHHHHHHHHhChhhhCCCcEEEEehhccCcchHHHHHHHHHHHHCCCE
Confidence 455555 45788889988884 78888888776554457788899999999986
No 347
>cd06568 GH20_SpHex_like A subgroup of the Glycosyl hydrolase family 20 (GH20) catalytic domain found in proteins similar to the N-acetylhexosaminidase from Streptomyces plicatus (SpHex). SpHex catalyzes the hydrolysis of N-acetyl-beta-hexosaminides. An Asp residue within the active site plays a critical role in substrate-assisted catalysis by orienting the 2-acetamido group and stabilizing the transition state. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by solvent or the enzyme, but by the substrate itself. Proteins belonging to this subgroup lack the C-terminal PKD (polycystic kidney disease I)-like domain found in the chitobiases.
Probab=36.09 E-value=1.1e+02 Score=28.34 Aligned_cols=59 Identities=15% Similarity=0.190 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHhhcCCeEE-----------EEecCCCC-----------------CcHHHHHHHHHHHHHcCCCeEEEcc
Q 042073 30 CVNLARHIANTKAYGVNVV-----------VAVNMFAT-----------------DSEAELNAVRIAAMAAGAFDAVVCS 81 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvV-----------VAIN~F~~-----------------DT~~Ei~~i~~~c~~~g~~~~avs~ 81 (225)
.+-|+|.|+-|..|++++. +-+-.||. =|.+|+..|.++|+++|+. + +-+
T Consensus 17 ~~~lk~~id~ma~~KlN~lhlHLtD~~~~rle~~~~P~lt~~ga~~~~~~~~~~~YT~~di~elv~yA~~rgI~-v-IPE 94 (329)
T cd06568 17 VAEVKRYIDLLALYKLNVLHLHLTDDQGWRIEIKSWPKLTEIGGSTEVGGGPGGYYTQEDYKDIVAYAAERHIT-V-VPE 94 (329)
T ss_pred HHHHHHHHHHHHHhCCcEEEEEeecCCcceeeecCcccccccccccccCCCCCCcCCHHHHHHHHHHHHHcCCE-E-EEe
Confidence 3457777777777777664 22333321 3899999999999999996 4 444
Q ss_pred ccccCchhh
Q 042073 82 HHAHGGKGA 90 (225)
Q Consensus 82 ~wa~GG~Ga 90 (225)
.=.-|=.++
T Consensus 95 iD~PGH~~a 103 (329)
T cd06568 95 IDMPGHTNA 103 (329)
T ss_pred cCCcHHHHH
Confidence 444444443
No 348
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=35.97 E-value=1.3e+02 Score=28.53 Aligned_cols=69 Identities=14% Similarity=0.101 Sum_probs=43.6
Q ss_pred HHHHHHHHHHhhcCC-eEEEEecCCCCCcHHHH----HHHHHHHHHc---CCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 31 VNLARHIANTKAYGV-NVVVAVNMFATDSEAEL----NAVRIAAMAA---GAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 31 ~NL~~HIeNi~~fGv-pvVVAIN~F~~DT~~Ei----~~i~~~c~~~---g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
.+...|+..++.+++ |+||++|+-..-+++++ +.++++++.. +++ +.. .=+.-|+|-.+|-+.+.+.+.
T Consensus 125 ~~t~~~l~~l~~~~i~~iiVVlNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~-ii~--vSA~~g~gI~~L~~~L~~~l~ 201 (411)
T PRK04000 125 PQTKEHLMALDIIGIKNIVIVQNKIDLVSKERALENYEQIKEFVKGTVAENAP-IIP--VSALHKVNIDALIEAIEEEIP 201 (411)
T ss_pred hhHHHHHHHHHHcCCCcEEEEEEeeccccchhHHHHHHHHHHHhccccCCCCe-EEE--EECCCCcCHHHHHHHHHHhCC
Confidence 455678888888887 58999999875444443 3455555432 343 322 225567788888877776543
No 349
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=35.75 E-value=2.1e+02 Score=25.35 Aligned_cols=86 Identities=12% Similarity=0.066 Sum_probs=0.0
Q ss_pred HhhcCCeEE--EEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccc------
Q 042073 40 TKAYGVNVV--VAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFL------ 111 (225)
Q Consensus 40 i~~fGvpvV--VAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~l------ 111 (225)
.+.||+.++ +.++.-..=|..+|..+.+.+++.|+. +++++..... .+++.+.+.+.-+--.+.++
T Consensus 185 ~~~~gl~~~~~~~~~~~~eps~~~l~~l~~~ik~~~v~-~if~e~~~~~-----~~~~~la~~~g~~v~~ld~l~~~~~~ 258 (282)
T cd01017 185 ARRYGLKQIAIVGVSPEVEPSPKQLAELVEFVKKSDVK-YIFFEENASS-----KIAETLAKETGAKLLVLNPLETLTKE 258 (282)
T ss_pred HHHCCCeEEecccCCCCCCCCHHHHHHHHHHHHHcCCC-EEEEeCCCCh-----HHHHHHHHHcCCcEEEeccccccchh
Q ss_pred -cCCCCCHHHHHHHHHh-Hhcc
Q 042073 112 -YPSDVSIKEKIDTIAR-SYGA 131 (225)
Q Consensus 112 -Y~~~~~i~eKI~~IA~-IYGA 131 (225)
++...+..+=++..++ +..|
T Consensus 259 ~~~~~~~y~~~m~~n~~~l~~a 280 (282)
T cd01017 259 EIDDGKDYFSLMKENLETLKRA 280 (282)
T ss_pred cccccCcHHHHHHHHHHHHHHH
No 350
>cd06339 PBP1_YraM_LppC_lipoprotein_like Periplasmic binding component of lipoprotein LppC, an immunodominant antigen. This subgroup includes periplasmic binding component of lipoprotein LppC, an immunodominant antigen, whose molecular function is not characterized. Members of this subgroup are predicted to be involved in transport of lipid compounds, and they are sequence similar to the family of ABC-type hydrophobic amino acid transporters (HAAT).
Probab=35.62 E-value=3.3e+02 Score=24.40 Aligned_cols=119 Identities=15% Similarity=0.125 Sum_probs=69.5
Q ss_pred HHHhhcCCeEEEE-----------ecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCC
Q 042073 38 ANTKAYGVNVVVA-----------VNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQ 106 (225)
Q Consensus 38 eNi~~fGvpvVVA-----------IN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~ 106 (225)
+.+++.|+|+|.. +-++..+...+...+.+++.+.|.+++++-. .+.. -+.++++...+.+++..-
T Consensus 77 ~~~~~~~ip~i~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~k~vaii~--~~~~-~g~~~~~~f~~~~~~~G~ 153 (336)
T cd06339 77 AAAAELGVPVLALNNDESVAAGPNLFYFGLSPEDEARRAAEYARSQGKRRPLVLA--PDGA-YGQRVADAFRQAWQQLGG 153 (336)
T ss_pred hhhccCCCCEEEccCCccccCCCCEEEecCChHHHHHHHHHHHHhcCccceEEEe--cCCh-HHHHHHHHHHHHHHHcCC
Confidence 3456789998863 2345557788899999999988987666553 3333 347888888888764221
Q ss_pred C--cccccCCCC-CHHHHHHHHHhH---h-----------------ccCCCC---CCH-HHHHHHHHHHHCCC--CCCCe
Q 042073 107 P--LKFLYPSDV-SIKEKIDTIARS---Y-----------------GASGVE---YSE-EAEKQIKMYTRQGF--SGLPF 157 (225)
Q Consensus 107 ~--f~~lY~~~~-~i~eKI~~IA~I---Y-----------------GA~~V~---~s~-~A~~~l~~~e~~G~--~~lPV 157 (225)
+ -...|+... +...-|.+|... + +.+.|. +.+ .+..-.++++..|+ .+.|+
T Consensus 154 ~vv~~~~~~~~~~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 233 (336)
T cd06339 154 TVVAIESYDPSPTDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQDIDAIDAVALPDGEARLIKPQLLFYYGVPGDVPL 233 (336)
T ss_pred ceeeeEecCCCHHHHHHHHHHHhccccchhhhhhhhhcccCccccCCCCcEEEEecChhhhhhhcchhhhhccCcCCCCE
Confidence 2 223555443 344444444332 1 455543 233 33333345566666 58888
Q ss_pred eE
Q 042073 158 CM 159 (225)
Q Consensus 158 Cm 159 (225)
..
T Consensus 234 ~g 235 (336)
T cd06339 234 YG 235 (336)
T ss_pred EE
Confidence 64
No 351
>PRK14040 oxaloacetate decarboxylase; Provisional
Probab=35.61 E-value=1.4e+02 Score=30.35 Aligned_cols=53 Identities=8% Similarity=0.003 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecC--CCCCcHHHHHHHHHHHHHcCCCeEEEccc
Q 042073 30 CVNLARHIANTKAYGVNVVVAVNM--FATDSEAELNAVRIAAMAAGAFDAVVCSH 82 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVVAIN~--F~~DT~~Ei~~i~~~c~~~g~~~~avs~~ 82 (225)
+.|+...|+-+|+.|.-+.++|.- -+-||.+.+..+.+.+.+.|+..+.+++.
T Consensus 123 ~~~~~~ai~~ak~~G~~~~~~i~yt~~p~~~~~~~~~~a~~l~~~Gad~i~i~Dt 177 (593)
T PRK14040 123 PRNLETALKAVRKVGAHAQGTLSYTTSPVHTLQTWVDLAKQLEDMGVDSLCIKDM 177 (593)
T ss_pred HHHHHHHHHHHHHcCCeEEEEEEEeeCCccCHHHHHHHHHHHHHcCCCEEEECCC
Confidence 379999999999999988878763 45677777777777777899987777775
No 352
>cd04738 DHOD_2_like Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences, their cellular location and their natural electron acceptor used to reoxidize the flavin group. Members of class 1 are cytosolic enzymes and multimers, while class 2 enzymes are membrane associated, monomeric and use respiratory quinones as their physiological electron acceptors.
Probab=35.59 E-value=2.5e+02 Score=25.82 Aligned_cols=48 Identities=17% Similarity=0.204 Sum_probs=33.5
Q ss_pred HHHHHHHhh-cC-----CeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEcccc
Q 042073 34 ARHIANTKA-YG-----VNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHH 83 (225)
Q Consensus 34 ~~HIeNi~~-fG-----vpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~w 83 (225)
.+-++.+++ .+ +|+.|=|.- ..+++|+..+.+.|.+.|+..+.+++-+
T Consensus 186 ~~iv~av~~~~~~~~~~~Pv~vKl~~--~~~~~~~~~ia~~l~~aGad~I~~~n~~ 239 (327)
T cd04738 186 RELLTAVKEERNKLGKKVPLLVKIAP--DLSDEELEDIADVALEHGVDGIIATNTT 239 (327)
T ss_pred HHHHHHHHHHHhhcccCCCeEEEeCC--CCCHHHHHHHHHHHHHcCCcEEEEECCc
Confidence 344555554 33 999999974 3456788888899999999755555543
No 353
>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=35.57 E-value=2.8e+02 Score=23.63 Aligned_cols=75 Identities=20% Similarity=0.131 Sum_probs=46.9
Q ss_pred HhHHHHHHHHHHHhh----------------------cCCeEEEEecCCCCCcHH------HHHHHHHHHHHcCCCeEEE
Q 042073 28 AGCVNLARHIANTKA----------------------YGVNVVVAVNMFATDSEA------ELNAVRIAAMAAGAFDAVV 79 (225)
Q Consensus 28 ~G~~NL~~HIeNi~~----------------------fGvpvVVAIN~F~~DT~~------Ei~~i~~~c~~~g~~~~av 79 (225)
+-+.||.+.++.+++ -++|++++-|+..-..+. .+..-..++.+.|++...+
T Consensus 91 ~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r~~~~~~~~~~~~~ia~~~~~~~i~~ 170 (202)
T cd04102 91 KSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEKESSGNLVLTARGFVAEQGNAEEINL 170 (202)
T ss_pred HHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhcccchHHHhhHhhhHHHhcCCceEEE
Confidence 446777777666643 268999999998653322 1222335577788874433
Q ss_pred c----cccccCchhhHHHHHHHHHHhh
Q 042073 80 C----SHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 80 s----~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
+ +..+.|..-+..|.+-.-.++|
T Consensus 171 ~c~~~~~~~~~~~~~~~~~~~~~~~~~ 197 (202)
T cd04102 171 NCTNGRLLAAGSSDAVKLSRFFDKVIE 197 (202)
T ss_pred ecCCcccccCCCccHHHHHHHHHHHHH
Confidence 3 4567777777777665555555
No 354
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=35.53 E-value=1.6e+02 Score=23.73 Aligned_cols=70 Identities=16% Similarity=0.122 Sum_probs=43.2
Q ss_pred ccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHH
Q 042073 21 ENVALVEAGCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRA 100 (225)
Q Consensus 21 eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~ 100 (225)
--...|.+++.+|.+ ++++.|++.+|-- .|+ .+.+.++|++.|+. .+.+ ...-+.. ....=++|.+.
T Consensus 46 ~r~~Fl~~sL~~L~~---~L~~~g~~L~v~~----g~~---~~~l~~l~~~~~~~-~V~~-~~~~~~~-~~~rd~~v~~~ 112 (165)
T PF00875_consen 46 RRRRFLLESLADLQE---SLRKLGIPLLVLR----GDP---EEVLPELAKEYGAT-AVYF-NEEYTPY-ERRRDERVRKA 112 (165)
T ss_dssp HHHHHHHHHHHHHHH---HHHHTTS-EEEEE----SSH---HHHHHHHHHHHTES-EEEE-E---SHH-HHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHH---HHHhcCcceEEEe----cch---HHHHHHHHHhcCcC-eeEe-ccccCHH-HHHHHHHHHHH
Confidence 456778899999987 5577899999954 443 34566778888887 3333 2333333 34555566666
Q ss_pred hhc
Q 042073 101 CEN 103 (225)
Q Consensus 101 ~e~ 103 (225)
+.+
T Consensus 113 l~~ 115 (165)
T PF00875_consen 113 LKK 115 (165)
T ss_dssp HHH
T ss_pred HHh
Confidence 663
No 355
>PF10049 DUF2283: Protein of unknown function (DUF2283); InterPro: IPR019270 Members of this family of hypothetical proteins have no known function.
Probab=35.49 E-value=20 Score=24.32 Aligned_cols=14 Identities=36% Similarity=0.724 Sum_probs=11.5
Q ss_pred eeeeeeCCCCeeecc
Q 042073 210 YEIDGDTATGRVLGL 224 (225)
Q Consensus 210 ~~idvd~~~G~I~GL 224 (225)
.-+|+| ++|+++|+
T Consensus 31 iild~d-~~G~ivGI 44 (50)
T PF10049_consen 31 IILDYD-EDGRIVGI 44 (50)
T ss_pred EEEEEC-CCCCEEEE
Confidence 457888 89999996
No 356
>cd07943 DRE_TIM_HOA 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain. 4-hydroxy 2-ketovalerate aldolase (Also known as 4-hydroxy-2-ketovalerate aldolase and 4-hydroxy-2-oxopentanoate aldolase (HOA)) converts 4-hydroxy-2-oxopentanoate to acetaldehyde and pyruvate, the penultimate step in the meta-cleavage pathway for the degradation of phenols, cresols and catechol. This family includes the Escherichia coli MhpE aldolase, the Pseudomonas DmpG aldolase, and the Burkholderia xenovorans BphI pyruvate aldolase. In Pseudomonas, the DmpG aldolase tightly associates with a dehydrogenase (DmpF ) and is inactive without it. HOA has a canonical TIM-barrel fold with a C-terminal extension that forms a funnel leading to the active site. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate
Probab=35.38 E-value=1.8e+02 Score=25.70 Aligned_cols=40 Identities=20% Similarity=0.128 Sum_probs=21.2
Q ss_pred HHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 34 ARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 34 ~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
.++++.....|+..|-..- +.+|. .++....+++++.|..
T Consensus 88 ~~~i~~a~~~g~~~iri~~-~~s~~-~~~~~~i~~ak~~G~~ 127 (263)
T cd07943 88 VDDLKMAADLGVDVVRVAT-HCTEA-DVSEQHIGAARKLGMD 127 (263)
T ss_pred HHHHHHHHHcCCCEEEEEe-chhhH-HHHHHHHHHHHHCCCe
Confidence 3667776667776533211 22232 3455556666677763
No 357
>PRK07206 hypothetical protein; Provisional
Probab=35.29 E-value=3.6e+02 Score=24.90 Aligned_cols=58 Identities=16% Similarity=0.275 Sum_probs=36.4
Q ss_pred HHHHhhcCCeEEEEecC----------CCCCc------HHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHH
Q 042073 37 IANTKAYGVNVVVAVNM----------FATDS------EAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRA 100 (225)
Q Consensus 37 IeNi~~fGvpvVVAIN~----------F~~DT------~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~ 100 (225)
++.+++.|..+|+.... |..+. ..+++.+.+.|++.++. .+++ |.+-...+|..+.+.
T Consensus 18 ~~a~~~~G~~~v~v~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~d-~vi~-----~~e~~~~~~a~l~~~ 91 (416)
T PRK07206 18 APAFKKRGIEPIAVTSSCLLDPYYYASFDTSDFIEVIINGDIDDLVEFLRKLGPE-AIIA-----GAESGVELADRLAEI 91 (416)
T ss_pred HHHHHHcCCeEEEEEcCCCCchhhhcccCcccchhhhcCCCHHHHHHHHHHcCCC-EEEE-----CCCccHHHHHHHHHh
Confidence 45677889987766522 11111 12256788899999986 7675 456677777776543
No 358
>PRK08446 coproporphyrinogen III oxidase; Provisional
Probab=35.11 E-value=3.7e+02 Score=24.84 Aligned_cols=44 Identities=14% Similarity=-0.094 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 59 EAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 59 ~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
.+++....+.+++.|...+.+.=.+.--|+--.++.+.+-.+.+
T Consensus 133 ~~~~~~ai~~lr~~g~~~v~iDli~GlPgqt~~~~~~~l~~~~~ 176 (350)
T PRK08446 133 QKQIIKAIENAKKAGFENISIDLIYDTPLDNKKLLKEELKLAKE 176 (350)
T ss_pred HHHHHHHHHHHHHcCCCEEEEEeecCCCCCCHHHHHHHHHHHHh
Confidence 44444455555555654232333333334555555554444443
No 359
>PRK04165 acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional
Probab=34.63 E-value=4.6e+02 Score=25.83 Aligned_cols=125 Identities=12% Similarity=0.132 Sum_probs=73.1
Q ss_pred cccccccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHH-cCCCeEEEccccccCchhhHHHH
Q 042073 16 HAYLNENVALVEAGCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMA-AGAFDAVVCSHHAHGGKGAVDLG 94 (225)
Q Consensus 16 ~~l~~eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~-~g~~~~avs~~wa~GG~Ga~~LA 94 (225)
+.++++.+++..+-+.++..- .+-+.|+.-.|..-+. ++.++.+..+.+..++ .+++ ..+.+ --.+.+
T Consensus 100 D~l~~e~i~~r~~~~~~~~~~-rvG~~~~AD~IaL~~~--s~dp~~v~~~Vk~V~~~~dvP-LSIDT-------~dpevl 168 (450)
T PRK04165 100 DTMDDEEIDARLKKINNFQFE-RVGEILKLDMVALRNA--SGDPEKFAKAVKKVAETTDLP-LILCS-------EDPAVL 168 (450)
T ss_pred CCCChHHHHHHHHHhhcchHh-hhcccccCCEEEEeCC--CCCHHHHHHHHHHHHHhcCCC-EEEeC-------CCHHHH
Confidence 445556666665555555443 4445677877766544 3356666666666554 5886 66664 234556
Q ss_pred HHHHHHhhcCCCCcccccCCCCCHHHHHHHHHhHhccCCCCCCH---HHHHHHHHHHHCCCCC
Q 042073 95 IAVQRACENVTQPLKFLYPSDVSIKEKIDTIARSYGASGVEYSE---EAEKQIKMYTRQGFSG 154 (225)
Q Consensus 95 ~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~IYGA~~V~~s~---~A~~~l~~~e~~G~~~ 154 (225)
++.++++.. .-..+|..+..=.+++-.+|+-||+.=|.-++ .+++.+++++++|+.+
T Consensus 169 eaAleagad---~~plI~Sat~dN~~~m~~la~~yg~pvVv~~~dl~~L~~lv~~~~~~GI~d 228 (450)
T PRK04165 169 KAALEVVAD---RKPLLYAATKENYEEMAELAKEYNCPLVVKAPNLEELKELVEKLQAAGIKD 228 (450)
T ss_pred HHHHHhcCC---CCceEEecCcchHHHHHHHHHHcCCcEEEEchhHHHHHHHHHHHHHcCCCc
Confidence 666666532 12356666532224455556688877666663 3666677788888843
No 360
>PRK08599 coproporphyrinogen III oxidase; Provisional
Probab=34.62 E-value=1.1e+02 Score=28.46 Aligned_cols=19 Identities=21% Similarity=0.347 Sum_probs=9.9
Q ss_pred HHHHHHCCCCCCCe-eEeec
Q 042073 144 IKMYTRQGFSGLPF-CMAKT 162 (225)
Q Consensus 144 l~~~e~~G~~~lPV-CmAKT 162 (225)
.+.+++.||.+..+ +.||.
T Consensus 222 ~~~l~~~Gy~~~~~~~fa~~ 241 (377)
T PRK08599 222 MDEMEAHGFHQYEISNFAKP 241 (377)
T ss_pred HHHHHHcCCcEeeeeeeeCC
Confidence 34555667765554 33443
No 361
>cd04743 NPD_PKS 2-Nitropropane dioxygenase (NPD)-like domain, associated with polyketide synthases (PKS). NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDPs are members of the NAD(P)H-dependent flavin oxidoreductase family that reduce a range of alternative electron acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as electron donor. Some contain 4Fe-4S cluster to transfer electron from FAD to FMN.
Probab=34.53 E-value=1.6e+02 Score=27.74 Aligned_cols=65 Identities=15% Similarity=0.073 Sum_probs=41.5
Q ss_pred HHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHH----------------HHHHHcCCCeEEEccccccCchh----hHH
Q 042073 33 LARHIANTKAYGVNVVVAVNMFATDSEAELNAVR----------------IAAMAAGAFDAVVCSHHAHGGKG----AVD 92 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~----------------~~c~~~g~~~~avs~~wa~GG~G----a~~ 92 (225)
...|++-+...++|+|+.- |. .+.+++.++ +.+.+.|+. +.+.+.+.-||-. ...
T Consensus 71 ~~~~l~vi~e~~v~~V~~~--~G--~P~~~~~lk~~Gi~v~~~v~s~~~A~~a~~~GaD-~vVaqG~EAGGH~G~~~t~~ 145 (320)
T cd04743 71 RAAQLAVVRAIKPTFALIA--GG--RPDQARALEAIGISTYLHVPSPGLLKQFLENGAR-KFIFEGRECGGHVGPRSSFV 145 (320)
T ss_pred hHHHHHHHHhcCCcEEEEc--CC--ChHHHHHHHHCCCEEEEEeCCHHHHHHHHHcCCC-EEEEecCcCcCCCCCCCchh
Confidence 3567777777888777642 22 222333332 345678886 8889999998874 455
Q ss_pred HHHHHHHHhh
Q 042073 93 LGIAVQRACE 102 (225)
Q Consensus 93 LA~~Vv~~~e 102 (225)
|...|++.+.
T Consensus 146 L~~~v~~~l~ 155 (320)
T cd04743 146 LWESAIDALL 155 (320)
T ss_pred hHHHHHHHHH
Confidence 7777777663
No 362
>KOG0024 consensus Sorbitol dehydrogenase [Secondary metabolites biosynthesis, transport and catabolism]
Probab=34.39 E-value=18 Score=34.50 Aligned_cols=30 Identities=20% Similarity=0.360 Sum_probs=24.2
Q ss_pred HHhHhccCCCCCCHHHHHHHHHHHHCCCCC
Q 042073 125 IARSYGASGVEYSEEAEKQIKMYTRQGFSG 154 (225)
Q Consensus 125 IA~IYGA~~V~~s~~A~~~l~~~e~~G~~~ 154 (225)
.|+.+||++|.+++.+..+|+..+++|++.
T Consensus 188 ~Aka~GA~~VVi~d~~~~Rle~Ak~~Ga~~ 217 (354)
T KOG0024|consen 188 VAKAMGASDVVITDLVANRLELAKKFGATV 217 (354)
T ss_pred HHHHcCCCcEEEeecCHHHHHHHHHhCCeE
Confidence 344888888888888888888888888754
No 363
>TIGR03821 AblA_like_1 lysine-2,3-aminomutase-related protein. Members of this protein form a distinctive clade, homologous to lysine-2,3-aminomutase (of Bacillus, Clostridium, and methanogenic archaea) and likely similar in function. Members of this family are found in E. coli, Buchnera, Yersinia, etc.
Probab=34.30 E-value=2.5e+02 Score=25.89 Aligned_cols=47 Identities=17% Similarity=0.089 Sum_probs=24.8
Q ss_pred HHHhhcCCeEEE--EecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccC
Q 042073 38 ANTKAYGVNVVV--AVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHG 86 (225)
Q Consensus 38 eNi~~fGvpvVV--AIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~G 86 (225)
+.++++|++.++ -+|.=. .+.++...-.+.+++.|+. +....+--+|
T Consensus 197 ~~L~~~~~~~~~~~h~dh~~-Ei~d~~~~ai~~L~~~Gi~-v~~qtvllkg 245 (321)
T TIGR03821 197 DLLANSRLQTVLVVHINHAN-EIDAEVADALAKLRNAGIT-LLNQSVLLRG 245 (321)
T ss_pred HHHHhcCCcEEEEeeCCChH-hCcHHHHHHHHHHHHcCCE-EEecceeeCC
Confidence 344556666552 455543 2223333334445667775 6666676666
No 364
>TIGR00538 hemN oxygen-independent coproporphyrinogen III oxidase. This model represents HemN, the oxygen-independent coproporphyrinogen III oxidase that replaces HemF function under anaerobic conditions. Several species, including E. coli, Helicobacter pylori, and Aquifex aeolicus, have both a member of this family and a member of another, closely related family for which there is no evidence of coproporphyrinogen III oxidase activity. Members of this family have a perfectly conserved motif PYRT[SC]YP in a region N-terminal to the region of homology with the related uncharacterized protein.
Probab=34.15 E-value=1.3e+02 Score=28.74 Aligned_cols=62 Identities=5% Similarity=0.009 Sum_probs=41.7
Q ss_pred cccccccHHHHHHh--HHHHHHHHHHHhhcCCe-EEE-EecCCCCCcHHHHHHHHHHHHHcCCCeE
Q 042073 16 HAYLNENVALVEAG--CVNLARHIANTKAYGVN-VVV-AVNMFATDSEAELNAVRIAAMAAGAFDA 77 (225)
Q Consensus 16 ~~l~~eN~~al~~G--~~NL~~HIeNi~~fGvp-vVV-AIN~F~~DT~~Ei~~i~~~c~~~g~~~~ 77 (225)
+..+.+-++.+.++ .+...+-+++++++|++ +-+ .|=-+|.+|.+++....+++.+.++..+
T Consensus 170 qS~~~~~l~~l~r~~~~~~~~~ai~~l~~~G~~~v~~dli~GlPgqt~e~~~~tl~~~~~l~~~~i 235 (455)
T TIGR00538 170 QDFNKEVQQAVNRIQPEEMIFELMNHAREAGFTSINIDLIYGLPKQTKESFAKTLEKVAELNPDRL 235 (455)
T ss_pred CCCCHHHHHHhCCCCCHHHHHHHHHHHHhcCCCcEEEeEEeeCCCCCHHHHHHHHHHHHhcCCCEE
Confidence 44555666666664 34456677888888876 223 2335788888888888888888888633
No 365
>cd01829 SGNH_hydrolase_peri2 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=33.97 E-value=1.4e+02 Score=24.09 Aligned_cols=45 Identities=20% Similarity=0.099 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecCCCCCc-------HHHHHHHHHHHHHcCCC
Q 042073 30 CVNLARHIANTKAYGVNVVVAVNMFATDS-------EAELNAVRIAAMAAGAF 75 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVVAIN~F~~DT-------~~Ei~~i~~~c~~~g~~ 75 (225)
..||+..++.++.-|.+||+. --.+... .+-.+.+++.|++.++.
T Consensus 94 ~~~l~~lv~~~~~~~~~vili-~~pp~~~~~~~~~~~~~~~~~~~~a~~~~~~ 145 (200)
T cd01829 94 RQRIDELLNVARAKGVPVIWV-GLPAMRSPKLSADMVYLNSLYREEVAKAGGE 145 (200)
T ss_pred HHHHHHHHHHHHhCCCcEEEE-cCCCCCChhHhHHHHHHHHHHHHHHHHcCCE
Confidence 367777777777778886654 3233322 23455677888888875
No 366
>PRK03511 minC septum formation inhibitor; Reviewed
Probab=33.83 E-value=1.4e+02 Score=26.53 Aligned_cols=54 Identities=20% Similarity=0.245 Sum_probs=41.2
Q ss_pred ccHHHHHHhHHHHHHHHHHHhhc--CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEE
Q 042073 21 ENVALVEAGCVNLARHIANTKAY--GVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVV 79 (225)
Q Consensus 21 eN~~al~~G~~NL~~HIeNi~~f--GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~av 79 (225)
-+.+.| ...|.++++....| |-|+|+-+-.+.. ++|++.|.+.|++.|...+.+
T Consensus 23 ~~~~~l---~~~L~~ki~~a~~FF~~apvvld~~~l~~--~~~~~~L~~~l~~~gl~~vgv 78 (228)
T PRK03511 23 AEPEVI---RQALEDKIAQAPAFLKNAPVVINVSALED--PVNWSALHKAVSSTGLRVVGV 78 (228)
T ss_pred CCHHHH---HHHHHHHHHhChHHhCCCeEEEEeccCCC--hHHHHHHHHHHHHCCCEEEEE
Confidence 344444 46888999999985 8999999988753 358889999999999864444
No 367
>PRK01973 septum formation inhibitor; Reviewed
Probab=33.38 E-value=1.5e+02 Score=27.28 Aligned_cols=60 Identities=17% Similarity=0.192 Sum_probs=45.7
Q ss_pred cccccHHHHHHhHHHHHHHHHHHhhc--CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEc
Q 042073 18 YLNENVALVEAGCVNLARHIANTKAY--GVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVC 80 (225)
Q Consensus 18 l~~eN~~al~~G~~NL~~HIeNi~~f--GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs 80 (225)
|...+++++.+ -|.+.|+..-.| +-|+|+=+=++..+.+.++..|.+.|+++|...+.++
T Consensus 23 L~~~d~~~l~~---~L~~ki~~aP~FF~~aPvVlDl~~l~~~~~~dl~~L~~~lr~~gl~~VGV~ 84 (271)
T PRK01973 23 VKTADLDALRA---ELVKRFEATPEFFADDVVAIDVRRLADDERVPLDDIRQMLNDVRMRPIGVV 84 (271)
T ss_pred eCCCCHHHHHH---HHHHHHHhChHhhcCCCEEEEchHhCCCcccCHHHHHHHHHHCCCEEEEEe
Confidence 34567777754 566778887774 8899888888875555679999999999999877777
No 368
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=33.36 E-value=1.7e+02 Score=21.73 Aligned_cols=14 Identities=29% Similarity=0.159 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHcCC
Q 042073 61 ELNAVRIAAMAAGA 74 (225)
Q Consensus 61 Ei~~i~~~c~~~g~ 74 (225)
.++..++.+++.++
T Consensus 50 ~l~~~~~~~~~~~~ 63 (124)
T cd01987 50 RLAEALRLAEELGA 63 (124)
T ss_pred HHHHHHHHHHHcCC
Confidence 34444555555554
No 369
>PRK00513 minC septum formation inhibitor; Reviewed
Probab=33.32 E-value=1.1e+02 Score=26.75 Aligned_cols=45 Identities=18% Similarity=0.164 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHhh-c-C-CeEEEEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 30 CVNLARHIANTKA-Y-G-VNVVVAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 30 ~~NL~~HIeNi~~-f-G-vpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
+..|.+.++..+. | | .|+++-+.... -|++|++.|.+.+.+.+..
T Consensus 32 ~~~L~~kl~~~~~ff~~~~~v~l~~~~r~-l~~~~~~~l~~~l~~~~~~ 79 (214)
T PRK00513 32 LQELKEKLSKGKYFWKGKATVHVKVGNRL-LDEEQLQELKDVITERRQT 79 (214)
T ss_pred HHHHHHHHHhCchhcCCCeEEEEEECCCC-CCHHHHHHHHHHHHhCCCe
Confidence 5577788888877 4 4 79999896654 4567899999999988764
No 370
>PRK09502 iscA iron-sulfur cluster assembly protein; Provisional
Probab=32.96 E-value=73 Score=24.55 Aligned_cols=49 Identities=14% Similarity=0.367 Sum_probs=31.1
Q ss_pred CCCCHHHHHHHHHHHHC-CCCC--CCeeEee-----cCCCcC-CC--CCCCceEEeeEEEe
Q 042073 134 VEYSEEAEKQIKMYTRQ-GFSG--LPFCMAK-----TQHSFS-HN--APTGFILPIRDVRA 183 (225)
Q Consensus 134 V~~s~~A~~~l~~~e~~-G~~~--lPVCmAK-----TqyS~S-dd--~P~~f~~~vrdv~~ 183 (225)
|.+|+.|.++|+++-+. + .. |=|-+.+ =+|+|+ +| .+.|.++...++++
T Consensus 3 i~iT~~A~~~i~~l~~~~~-~~~~LRi~v~~~GCsG~~Y~l~~~~~~~~~D~~~~~~g~~v 62 (107)
T PRK09502 3 ITLSDSAAARVNTFLANRG-KGFGLRLGVRTSGCSGMAYVLEFVDEPTPEDIVFEDKGVKV 62 (107)
T ss_pred EEECHHHHHHHHHHHhCcC-CCceEEEEEECCCcCCeeeEeeecCCCCCCCEEEEcCCeEE
Confidence 67899999999987643 3 22 4444432 247777 44 66677766554443
No 371
>TIGR03679 arCOG00187 arCOG00187 universal archaeal metal-binding-domain/4Fe-4S-binding-domain containing ABC transporter, ATP-binding protein. This model has the same scope as an archaeal COG (arCOG00187) and is found in all completely sequenced archaea and does not recognize any known non-archaeal genes.
Probab=32.92 E-value=3.1e+02 Score=23.73 Aligned_cols=117 Identities=15% Similarity=0.130 Sum_probs=61.9
Q ss_pred cCCeEEEEecCCCCC------cHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCC-
Q 042073 43 YGVNVVVAVNMFATD------SEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSD- 115 (225)
Q Consensus 43 fGvpvVVAIN~F~~D------T~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~- 115 (225)
-|..|+.+++..+.+ ...|++.++..|+..|++ ..+-+.-..-..--.+|.+++.++.++ .+.-+..-+
T Consensus 20 ~G~~v~~l~~~~~~~~~~~~~~~~~~~~~~~~A~~lgip-~~~i~~~~~~~~~~~~l~~~l~~~~~~---g~~~vv~G~i 95 (218)
T TIGR03679 20 EGHEVRCLITVVPENEESYMFHTPNIELTRLQAEALGIP-LVKIETSGEKEKEVEDLKGALKELKRE---GVEGIVTGAI 95 (218)
T ss_pred cCCEEEEEEEeccCCCCccccCCCCHHHHHHHHHHhCCC-EEEEECCCCChHHHHHHHHHHHHHHHc---CCCEEEECCc
Confidence 455555454533322 245889999999999997 443333111012223366666555442 233222111
Q ss_pred --CCHHHHHHHHHhHhccCCCCCCHHH----HHHHHHHHHCCCCCCCeeEeecCCC
Q 042073 116 --VSIKEKIDTIARSYGASGVEYSEEA----EKQIKMYTRQGFSGLPFCMAKTQHS 165 (225)
Q Consensus 116 --~~i~eKI~~IA~IYGA~~V~~s~~A----~~~l~~~e~~G~~~lPVCmAKTqyS 165 (225)
+-....++.+|. .++=-.++|.. +.=++++.+.||.-.=||++...+.
T Consensus 96 ~sd~~~~~~e~v~~--~~gl~~~~PLw~~~~~el~~~~~~~G~~~~i~~v~~~~l~ 149 (218)
T TIGR03679 96 ASRYQKSRIERICE--ELGLKVFAPLWGRDQEEYLRELVERGFRFIIVSVSAYGLD 149 (218)
T ss_pred ccHhHHHHHHHHHH--hCCCeEEeehhcCCHHHHHHHHHHCCCEEEEEEEecCCCC
Confidence 123566666665 22333444443 2345566678998888888876543
No 372
>PF07287 DUF1446: Protein of unknown function (DUF1446); InterPro: IPR010839 This family consists of several bacterial and plant proteins of around 400 residues in length. The function of this family is unknown.
Probab=32.63 E-value=1.1e+02 Score=29.07 Aligned_cols=65 Identities=18% Similarity=0.231 Sum_probs=45.9
Q ss_pred CCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHHHHH
Q 042073 54 FATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKEKID 123 (225)
Q Consensus 54 F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~ 123 (225)
|..+=.+.++.+...|+++|++ ++++. ||--...+|+.|.+++++..-.||.-|=..+.+.+.|+
T Consensus 52 Y~~~~~~~L~~~L~~~~~~gIk-vI~Na----Gg~np~~~a~~v~eia~e~Gl~lkvA~V~gDd~~~~v~ 116 (362)
T PF07287_consen 52 YAPDFVRDLRPLLPAAAEKGIK-VITNA----GGLNPAGCADIVREIARELGLSLKVAVVYGDDLKDEVK 116 (362)
T ss_pred chHHHHHHHHHHHHHHHhCCCC-EEEeC----CCCCHHHHHHHHHHHHHhcCCCeeEEEEECccchHhHH
Confidence 7777788999999999999997 76554 44444568999999887643336655544445555553
No 373
>PRK14830 undecaprenyl pyrophosphate synthase; Provisional
Probab=32.43 E-value=3.8e+02 Score=24.21 Aligned_cols=105 Identities=15% Similarity=0.132 Sum_probs=67.3
Q ss_pred cHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCCCC----CcHHHHHHHHHHHH-----------HcCCCeEEEccccccC
Q 042073 22 NVALVEAGCVNLARHIANTKAYGVNVVVAVNMFAT----DSEAELNAVRIAAM-----------AAGAFDAVVCSHHAHG 86 (225)
Q Consensus 22 N~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~----DT~~Ei~~i~~~c~-----------~~g~~~~avs~~wa~G 86 (225)
-.+.=++|..+|.+=++-...+||+.|-. -.|++ -+++|++.+.+++. +.|++ +-+.--...=
T Consensus 44 ~~~Gh~~G~~~l~~~l~~c~~~GI~~vTv-YaFS~eN~~R~~~Ev~~Lm~l~~~~l~~~~~~~~~~~ir-i~viG~~~~L 121 (251)
T PRK14830 44 RIAGHKAGMDTVKKITKAASELGVKVLTL-YAFSTENWKRPKDEVKFLMNLPVEFLDKFVPELIENNVK-VNVIGDTDRL 121 (251)
T ss_pred hhhhHHHHHHHHHHHHHHHHHcCCCEEEE-EEEehhhcCCCHHHHHHHHHHHHHHHHHHHHHHHHcCCE-EEEEcChhhC
Confidence 34677899999999999999999997643 34666 46999998865432 36775 5444322222
Q ss_pred chhhHHHHHHHHHHhhcCCC---CcccccCCCCCHHHHHHHHHh-H
Q 042073 87 GKGAVDLGIAVQRACENVTQ---PLKFLYPSDVSIKEKIDTIAR-S 128 (225)
Q Consensus 87 G~Ga~~LA~~Vv~~~e~~~~---~f~~lY~~~~~i~eKI~~IA~-I 128 (225)
.+--.+..+.+.+...+++. ++-.-|.--+.|.+=++++++ +
T Consensus 122 p~~~~~~~~~~e~~T~~~~~~~Lnia~~YggR~EI~~A~~~~~~~v 167 (251)
T PRK14830 122 PEHTLRALEKAIEKTKNNTGLILNFALNYGGRAEIVSAVKEIAKDV 167 (251)
T ss_pred CHHHHHHHHHHHHHccCCCceEEEEEecCCCHHHHHHHHHHHHHHH
Confidence 22222333333333332211 144778888999999999998 5
No 374
>cd00954 NAL N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL), which catalyses the reversible aldol reaction of N-acetyl-D-mannosamine and pyruvate to give N-acetyl-D-neuraminic acid (D-sialic acid). It has a widespread application as biocatalyst for the synthesis of sialic acid and its derivatives. This enzyme has been shown to be quite specific for pyruvate as the donor, but flexible to a variety of D- and, to some extent, L-hexoses and pentoses as acceptor substrates. NAL is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases.
Probab=32.29 E-value=3.7e+02 Score=24.01 Aligned_cols=116 Identities=15% Similarity=0.031 Sum_probs=66.2
Q ss_pred HHHHHHHHHhhc-CCeEEEEec---CCCCCcHHHHHHHHHHHHHc-CCCeEEEccccccCchhhHHHHHHHHHHhhcCCC
Q 042073 32 NLARHIANTKAY-GVNVVVAVN---MFATDSEAELNAVRIAAMAA-GAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQ 106 (225)
Q Consensus 32 NL~~HIeNi~~f-GvpvVVAIN---~F~~DT~~Ei~~i~~~c~~~-g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~ 106 (225)
=+++|++.+-.. |+.-|+..= .|.+-|++|...+.+.+.+. +-+--++.-+=+..=+-++++|+...++=-..--
T Consensus 22 ~~~~~i~~l~~~~Gv~gi~~~GstGE~~~Lt~~Er~~~~~~~~~~~~~~~~viagv~~~~~~~ai~~a~~a~~~Gad~v~ 101 (288)
T cd00954 22 VLRAIVDYLIEKQGVDGLYVNGSTGEGFLLSVEERKQIAEIVAEAAKGKVTLIAHVGSLNLKESQELAKHAEELGYDAIS 101 (288)
T ss_pred HHHHHHHHHHhcCCCCEEEECcCCcCcccCCHHHHHHHHHHHHHHhCCCCeEEeccCCCCHHHHHHHHHHHHHcCCCEEE
Confidence 456778888778 998865443 47889999998888766542 2121233333233334456666665443111000
Q ss_pred Cccccc--CCCCCHHHHHHHHHh-H-------hc---cCCCCCCHHHHHHHHHH
Q 042073 107 PLKFLY--PSDVSIKEKIDTIAR-S-------YG---ASGVEYSEEAEKQIKMY 147 (225)
Q Consensus 107 ~f~~lY--~~~~~i~eKI~~IA~-I-------YG---A~~V~~s~~A~~~l~~~ 147 (225)
-..|.| ..++.+.+=.++||. . |- ..++.+|++..++|.++
T Consensus 102 ~~~P~y~~~~~~~i~~~~~~v~~a~~~lpi~iYn~P~~tg~~l~~~~~~~L~~~ 155 (288)
T cd00954 102 AITPFYYKFSFEEIKDYYREIIAAAASLPMIIYHIPALTGVNLTLEQFLELFEI 155 (288)
T ss_pred EeCCCCCCCCHHHHHHHHHHHHHhcCCCCEEEEeCccccCCCCCHHHHHHHhcC
Confidence 022333 233456666666765 5 32 56888888877777653
No 375
>PF00809 Pterin_bind: Pterin binding enzyme This Prosite entry is a subset of the Pfam family; InterPro: IPR000489 The ~250-residue pterin-binding domain has been shown to adopt a (beta/alpha)8 barrel fold, which has the overall shape of a distorted cylinder. It has eight alpha-helices stacked around the outside of an inner cylinder of parallel beta-strands. The pterin ring binds at the bottom of the (beta/alpha;)8 barrel in a polar cup-like region that is relatively solvent exposed and fairly negatively charged. The pterin ring is partially buried within the (beta/alpha)8 barrel. The pterin binding residues are highly conserved and include aspartate and asparagine residues located at the C terminus of the beta-strands of the barrel, which are predicted to form hydrogen bonds with the nitrogen and oxygen atoms of the pterin ring [, , ]. Some proteins known to contain a pterin-binding domain are listed below: Prokaryotic and eukaryotic B12-dependent methionine synthase (MetH) (2.1.1.13 from EC), a large, modular protein that catalyzes the transfer of a methyl group from methyltetrahydrofolate (CH3-H4folate) to Hcy to form methionine, using cobalamin as an intermediate methyl carrier. Prokaryotic and eukaryotic dihydropteroate synthase (DHPS) (2.5.1.15 from EC). It catalyzes the condensation of para-aminobenzoic acid (pABA) with 7,8- dihydropterin-pyrophosphate (DHPPP), eliminating pyrophosphate to form 7,8- dihydropteroate which is subsequently converted to tetrahydrofolate. Moorella thermoacetica 5-methyltetrahydrofolate corrinoid/iron sulphur protein methyltransferase (MeTr). It transfers the N5-methyl group from CH3-H4folate to a cob(I)amide centre in another protein, the corrinoid iron sulphur protein. ; GO: 0042558 pteridine-containing compound metabolic process; PDB: 2VP8_B 2BMB_A 2Y5S_B 2Y5J_A 3BOF_B 1Q7Q_B 1Q85_B 1Q7Z_A 1Q7M_A 1Q8A_B ....
Probab=32.24 E-value=29 Score=29.91 Aligned_cols=16 Identities=19% Similarity=-0.012 Sum_probs=9.2
Q ss_pred ccccccccHHHHHHhH
Q 042073 15 DHAYLNENVALVEAGC 30 (225)
Q Consensus 15 ~~~l~~eN~~al~~G~ 30 (225)
|=.++.-|.+.+++++
T Consensus 74 plSIDT~~~~v~~~aL 89 (210)
T PF00809_consen 74 PLSIDTFNPEVAEAAL 89 (210)
T ss_dssp EEEEEESSHHHHHHHH
T ss_pred EEEEECCCHHHHHHHH
Confidence 3445556666666665
No 376
>PF00867 XPG_I: XPG I-region; InterPro: IPR006086 This entry represents endonucleases that cleave the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA. The endonuclease binds 2 magnesium ions per subunit. which probably participate in the reaction catalyzed by the enzyme. May bind an additional third magnesium ion after substrate binding.; GO: 0004518 nuclease activity, 0006281 DNA repair; PDB: 1UL1_Z 3Q8K_A 3Q8M_A 3Q8L_A 2IZO_A 1A77_A 1A76_A 3QEA_Z 3QE9_Y 3QEB_Z ....
Probab=32.07 E-value=63 Score=24.20 Aligned_cols=39 Identities=28% Similarity=0.396 Sum_probs=21.5
Q ss_pred hhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEcc---ccccCc
Q 042073 41 KAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCS---HHAHGG 87 (225)
Q Consensus 41 ~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~---~wa~GG 87 (225)
|.+|+|+||| |..-|+++.++. ..|.-++++++ .|.-|+
T Consensus 1 ~~~gv~~i~A----P~EAeAq~A~L~----~~g~vd~V~t~DsD~l~fG~ 42 (94)
T PF00867_consen 1 RLMGVPYIVA----PYEAEAQCAYLE----RNGLVDAVITEDSDLLLFGA 42 (94)
T ss_dssp HHHT-EEEE-----SS-HHHHHHHHH----HTTSSSEEE-SSSHHHHTT-
T ss_pred CCCCCeEEEc----CchHHHHHHHHH----HhcceeEEEecCCCEEeeCC
Confidence 4689999997 555566665444 45665577776 444443
No 377
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=31.94 E-value=3.4e+02 Score=23.55 Aligned_cols=116 Identities=12% Similarity=0.054 Sum_probs=69.0
Q ss_pred HHhhcCCeEEEEec---------------CCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhc
Q 042073 39 NTKAYGVNVVVAVN---------------MFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACEN 103 (225)
Q Consensus 39 Ni~~fGvpvVVAIN---------------~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~ 103 (225)
.+++.++|+|..-. ++..+...+...+.++..+.|.+.+++. +.+.. -+.++.+.+.+.+++
T Consensus 84 ~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~~v~~l--~~~~~-~g~~~~~~~~~~~~~ 160 (336)
T cd06360 84 VLREPGTPLINPNAGADDLTGRLCAPNFFRTSFSNAQWAAPMGKYAADDGYKKVVTV--AWDYA-FGYEVVEGFKEAFTE 160 (336)
T ss_pred HHHhcCceEEecCCCCccccccCCCCcEEEEeCchHHHHHHHHHHHHHcCCCeEEEE--eccch-hhHHHHHHHHHHHHH
Confidence 45668999886421 1123556777888899988888755554 33433 455666666666654
Q ss_pred CCCC--cccccCC-CCCHHHHHHHHHhHhccCCCC---CCHHHHHHHHHHHHCCCC-CCCee
Q 042073 104 VTQP--LKFLYPS-DVSIKEKIDTIARSYGASGVE---YSEEAEKQIKMYTRQGFS-GLPFC 158 (225)
Q Consensus 104 ~~~~--f~~lY~~-~~~i~eKI~~IA~IYGA~~V~---~s~~A~~~l~~~e~~G~~-~lPVC 158 (225)
..-+ ....|+. ..+...-|.++.+ .+++-|. +.+.+..-++++.+.|+. ++|++
T Consensus 161 ~G~~v~~~~~~~~~~~d~~~~v~~~~~-~~pd~v~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 221 (336)
T cd06360 161 AGGKIVKELWVPFGTSDFASYLAQIPD-DVPDAVFVFFAGGDAIKFVKQYDAAGLKAKIPLI 221 (336)
T ss_pred cCCEEEEEEecCCCCcchHHHHHHHHh-cCCCEEEEecccccHHHHHHHHHHcCCccCCeEE
Confidence 2111 1234443 3456655555543 2344443 256677788999999994 57775
No 378
>PRK05177 minC septum formation inhibitor; Reviewed
Probab=31.84 E-value=1.6e+02 Score=26.07 Aligned_cols=53 Identities=21% Similarity=0.135 Sum_probs=38.8
Q ss_pred ccHHHHHHhHHHHHHHHHHHhhc--CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeE
Q 042073 21 ENVALVEAGCVNLARHIANTKAY--GVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDA 77 (225)
Q Consensus 21 eN~~al~~G~~NL~~HIeNi~~f--GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~ 77 (225)
.+.+.|. ..|.++++...+| |-|+|+-+-... .++.|++.|.+.+++.|...+
T Consensus 27 ~~~~~l~---~~L~~kl~~a~~FF~~apvvld~~~~~-~~~~~~~~L~~~l~~~gl~~v 81 (239)
T PRK05177 27 APLDDWL---ARLDALIARSPGFFLGRPVVLDLAGLA-IERSQLAALLAELEARGIRIL 81 (239)
T ss_pred CCHHHHH---HHHHHHHHhChhhhCCCeEEEEeCCCC-CCHHHHHHHHHHHHHCCCEEE
Confidence 3444443 5778888888774 788888777664 445789999999999998533
No 379
>PRK07094 biotin synthase; Provisional
Probab=31.78 E-value=1.5e+02 Score=26.77 Aligned_cols=55 Identities=15% Similarity=0.040 Sum_probs=33.0
Q ss_pred ccHHHHHHh--HHHHHHHHHHHhhcCCeEEEE-ecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 21 ENVALVEAG--CVNLARHIANTKAYGVNVVVA-VNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 21 eN~~al~~G--~~NL~~HIeNi~~fGvpvVVA-IN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
+-.+.+.++ .....+-++++++.|+++..- |-=||.+|.+++....+++++.++.
T Consensus 153 ~~~~~i~~~~s~~~~~~~i~~l~~~Gi~v~~~~iiGlpget~ed~~~~l~~l~~l~~~ 210 (323)
T PRK07094 153 ELYAKLHPGMSFENRIACLKDLKELGYEVGSGFMVGLPGQTLEDLADDILFLKELDLD 210 (323)
T ss_pred HHHHHhCCCCCHHHHHHHHHHHHHcCCeecceEEEECCCCCHHHHHHHHHHHHhCCCC
Confidence 334444433 334455566777777764332 2236677788887777777777775
No 380
>PRK10218 GTP-binding protein; Provisional
Probab=31.68 E-value=96 Score=31.47 Aligned_cols=43 Identities=14% Similarity=0.104 Sum_probs=31.9
Q ss_pred HHHHHHHHHHhhcCCeEEEEecCCC---CCcHHHHHHHHHHHHHcC
Q 042073 31 VNLARHIANTKAYGVNVVVAVNMFA---TDSEAELNAVRIAAMAAG 73 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvVVAIN~F~---~DT~~Ei~~i~~~c~~~g 73 (225)
...+.|+.-+..+|+|++|++|+.. .+.++.++.+++.....+
T Consensus 107 ~qt~~~l~~a~~~gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~ 152 (607)
T PRK10218 107 PQTRFVTKKAFAYGLKPIVVINKVDRPGARPDWVVDQVFDLFVNLD 152 (607)
T ss_pred HHHHHHHHHHHHcCCCEEEEEECcCCCCCchhHHHHHHHHHHhccC
Confidence 3456677777789999999999975 466777788887765433
No 381
>TIGR00222 panB 3-methyl-2-oxobutanoate hydroxymethyltransferase. Members of this family are 3-methyl-2-oxobutanoate hydroxymethyltransferase, the first enzyme of the pantothenate biosynthesis pathway. An alternate name is ketopantoate hydroxymethyltransferase.
Probab=31.59 E-value=3e+02 Score=25.22 Aligned_cols=63 Identities=25% Similarity=0.300 Sum_probs=43.9
Q ss_pred HHHHHHHHhhcCCeEE-------EEecCCC-----CCcHHHHHHHHHHHH---HcCCCeEEEccccccCchhhHHHHHHH
Q 042073 33 LARHIANTKAYGVNVV-------VAVNMFA-----TDSEAELNAVRIAAM---AAGAFDAVVCSHHAHGGKGAVDLGIAV 97 (225)
Q Consensus 33 L~~HIeNi~~fGvpvV-------VAIN~F~-----~DT~~Ei~~i~~~c~---~~g~~~~avs~~wa~GG~Ga~~LA~~V 97 (225)
+...|+-+.+-|+||+ ...|.+. ..|+++.+.+.+.++ ++|+. +.+-+... .++|+++
T Consensus 118 ~~~~i~~l~~~gIpV~gHiGltPq~a~~~ggy~~qgrt~~~a~~~i~~A~a~e~AGA~-~ivlE~vp------~~~a~~I 190 (263)
T TIGR00222 118 LVETVQMLTERGVPVVGHLGLTPQSVNILGGYKVQGKDEEAAKKLLEDALALEEAGAQ-LLVLECVP------VELAAKI 190 (263)
T ss_pred HHHHHHHHHHCCCCEEEecCCCceeEeecCCeeecCCCHHHHHHHHHHHHHHHHcCCC-EEEEcCCc------HHHHHHH
Confidence 3355777888999999 6666543 356666555555543 78997 77766654 3899999
Q ss_pred HHHhh
Q 042073 98 QRACE 102 (225)
Q Consensus 98 v~~~e 102 (225)
.+.+.
T Consensus 191 t~~l~ 195 (263)
T TIGR00222 191 TEALA 195 (263)
T ss_pred HHhCC
Confidence 88876
No 382
>cd03017 PRX_BCP Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing and detoxifying hydroperoxides. The protein was named BCP based on its electrophoretic mobility before its function was known. BCP shows substrate selectivity toward fatty acid hydroperoxides rather than hydrogen peroxide or alkyl hydroperoxides. BCP contains the peroxidatic cysteine but appears not to possess a resolving cysteine (some sequences, not all, contain a second cysteine but its role is still unknown). Unlike other PRXs, BCP exists as a monomer. The plant homolog of BCP is PRX Q, which is expressed only in leaves and is cellularly localized in the chloroplasts and the guard cells of stomata. Also included in this subfamily is the fungal nuclear protein, Dot5p (for disrupter of telomere silencing protein 5), w
Probab=31.34 E-value=2.1e+02 Score=21.74 Aligned_cols=11 Identities=18% Similarity=-0.076 Sum_probs=5.3
Q ss_pred HHHHHHHHHHH
Q 042073 59 EAELNAVRIAA 69 (225)
Q Consensus 59 ~~Ei~~i~~~c 69 (225)
.+++..+.+..
T Consensus 40 ~~~~~~l~~~~ 50 (140)
T cd03017 40 TKEACDFRDLY 50 (140)
T ss_pred HHHHHHHHHHH
Confidence 35555554444
No 383
>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=31.27 E-value=2.5e+02 Score=21.85 Aligned_cols=57 Identities=21% Similarity=0.040 Sum_probs=32.4
Q ss_pred hcCCeEEEEecCCCC-CcHHHH-------------HHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHH
Q 042073 42 AYGVNVVVAVNMFAT-DSEAEL-------------NAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRA 100 (225)
Q Consensus 42 ~fGvpvVVAIN~F~~-DT~~Ei-------------~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~ 100 (225)
..+.|++|+.|+... |...+. +...+++++.|...+. +.=+.=|.|-.+|=+.+++.
T Consensus 102 ~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~--e~Sa~~~~gi~~~f~~~~~~ 172 (174)
T cd04135 102 APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYV--ECSALTQKGLKTVFDEAILA 172 (174)
T ss_pred CCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEE--EecCCcCCCHHHHHHHHHHH
Confidence 368999999999753 222111 2345566677763232 33344456666665555543
No 384
>PF12804 NTP_transf_3: MobA-like NTP transferase domain; PDB: 3FWW_A 2XME_D 2XMH_C 2DPW_A 2WAW_A 2OI5_B 1HV9_B 1FWY_A 2OI6_A 2OI7_B ....
Probab=31.25 E-value=1.1e+02 Score=23.89 Aligned_cols=58 Identities=19% Similarity=0.193 Sum_probs=40.1
Q ss_pred HhHHHHHHHHHHHhhcCC-eEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHH
Q 042073 28 AGCVNLARHIANTKAYGV-NVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGI 95 (225)
Q Consensus 28 ~G~~NL~~HIeNi~~fGv-pvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~ 95 (225)
.|-+-|++.|+++++.|+ ++||..|. ++ +.+.+...++. ++....|..|--.++..|-
T Consensus 22 ~g~~li~~~l~~l~~~~~~~Ivvv~~~------~~---~~~~~~~~~~~-~v~~~~~~~G~~~sl~~a~ 80 (160)
T PF12804_consen 22 GGKPLIERVLEALREAGVDDIVVVTGE------EE---IYEYLERYGIK-VVVDPEPGQGPLASLLAAL 80 (160)
T ss_dssp TTEEHHHHHHHHHHHHTESEEEEEEST------HH---HHHHHTTTTSE-EEE-STSSCSHHHHHHHHH
T ss_pred CCccHHHHHHHHhhccCCceEEEecCh------HH---HHHHHhccCce-EEEeccccCChHHHHHHHH
Confidence 677889999999999885 67777766 12 33455667885 8888888766655555443
No 385
>PRK04322 peptidyl-tRNA hydrolase; Provisional
Probab=31.25 E-value=2.2e+02 Score=22.60 Aligned_cols=42 Identities=26% Similarity=0.195 Sum_probs=32.0
Q ss_pred HHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCc
Q 042073 38 ANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGG 87 (225)
Q Consensus 38 eNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG 87 (225)
+.=+..|.+.|| ..-++++|+..+.+.+++.|+..+ .|.|.|
T Consensus 40 ~~W~~~G~~Kvv----lkv~~~~el~~l~~~a~~~~l~~~----~v~DAG 81 (113)
T PRK04322 40 EEWLNEGQKKVV----LKVNSEEELLELKEKAERLGLPTA----LIRDAG 81 (113)
T ss_pred HHHHHCCCcEEE----EeCCCHHHHHHHHHHHHHcCCCEE----EEEeCC
Confidence 334468999998 467889999999999999999733 455544
No 386
>TIGR01212 radical SAM protein, TIGR01212 family. This uncharacterized protein family shows significant similarity to TIGR01211, a longer protein that is a histone acetyltransferase at its C-terminus and is a subunit of RNA polymerase II (in yeast). This family lacks the GNAT acetyltransferase domain.
Probab=31.04 E-value=2.1e+02 Score=26.00 Aligned_cols=57 Identities=16% Similarity=0.034 Sum_probs=27.1
Q ss_pred cHHHHHHHHHHHHHcCCCeEEEccccccC--chhhHHHHHHHHHHhhcCCCC--cccccCCCCC
Q 042073 58 SEAELNAVRIAAMAAGAFDAVVCSHHAHG--GKGAVDLGIAVQRACENVTQP--LKFLYPSDVS 117 (225)
Q Consensus 58 T~~Ei~~i~~~c~~~g~~~~avs~~wa~G--G~Ga~~LA~~Vv~~~e~~~~~--f~~lY~~~~~ 117 (225)
|.+++....+.++++|+. + +-++--| |+.-.++.+.+-.+.+-++.. +.+|+....+
T Consensus 161 t~~~~~~ai~~l~~~gi~-v--~~~lI~GlPget~e~~~~t~~~l~~l~~d~i~i~~l~~~pgT 221 (302)
T TIGR01212 161 DFACYVDAVKRARKRGIK-V--CSHVILGLPGEDREEMMETAKIVSLLDVDGIKIHPLHVVKGT 221 (302)
T ss_pred hHHHHHHHHHHHHHcCCE-E--EEeEEECCCCCCHHHHHHHHHHHHhcCCCEEEEEEEEecCCC
Confidence 344555555556666663 3 3343333 555555544444443332222 4556555544
No 387
>PF07555 NAGidase: beta-N-acetylglucosaminidase ; InterPro: IPR011496 This family consists of both eukaryotic and prokaryotic hyaluronidases. Human Q9HAR0 from SWISSPROT is expressed during meningioma []. Clostridium perfringens, P26831 from SWISSPROT, is involved in pathogenesis and is likely to act on connectivity tissue during gas gangrene []. It catalyses the random hydrolysis of 1->4-linkages between N-acetyl-beta-D-glucosamine and D-glucuronate residues in hyaluronate.; PDB: 2WB5_B 2V5C_B 2VUR_A 2V5D_A 2YDS_A 2CBI_A 2XPK_A 2CBJ_B 2J62_A 2X0Y_A ....
Probab=30.98 E-value=1.7e+02 Score=27.22 Aligned_cols=51 Identities=22% Similarity=0.207 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecCCCC---CcHHHHHHHHHHHH---HcCCCeEEEc
Q 042073 30 CVNLARHIANTKAYGVNVVVAVNMFAT---DSEAELNAVRIAAM---AAGAFDAVVC 80 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVVAIN~F~~---DT~~Ei~~i~~~c~---~~g~~~~avs 80 (225)
++.|..=++--++.||-.|+||.=+-. ..+++++.|.+... ++||+.++|.
T Consensus 55 l~~l~~L~~~a~~~~V~Fv~aisPg~~~~~s~~~d~~~L~~K~~ql~~lGvr~Fail 111 (306)
T PF07555_consen 55 LAELKELADAAKANGVDFVYAISPGLDICYSSEEDFEALKAKFDQLYDLGVRSFAIL 111 (306)
T ss_dssp HHHHHHHHHHHHHTT-EEEEEEBGTTT--TSHHHHHHHHHHHHHHHHCTT--EEEEE
T ss_pred HHHHHHHHHHHHHcCCEEEEEECcccccccCcHHHHHHHHHHHHHHHhcCCCEEEEe
Confidence 567888888899999999999985544 35889998876644 7899888774
No 388
>COG5428 Uncharacterized conserved small protein [Function unknown]
Probab=30.98 E-value=25 Score=26.10 Aligned_cols=14 Identities=43% Similarity=0.733 Sum_probs=11.7
Q ss_pred eeeeeeCCCCeeecc
Q 042073 210 YEIDGDTATGRVLGL 224 (225)
Q Consensus 210 ~~idvd~~~G~I~GL 224 (225)
.-||+| ++|+|.|+
T Consensus 32 i~Idid-e~GkV~Gi 45 (69)
T COG5428 32 ILIDID-ENGKVIGI 45 (69)
T ss_pred EEEEec-CCCcEEEE
Confidence 357999 99999985
No 389
>PRK09250 fructose-bisphosphate aldolase; Provisional
Probab=30.91 E-value=2.6e+02 Score=26.72 Aligned_cols=71 Identities=14% Similarity=0.119 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHhhcCCeEEE---EecCCCCCcH------HHHHHHHHHHHHcCCCeEEEccccccCch------------
Q 042073 30 CVNLARHIANTKAYGVNVVV---AVNMFATDSE------AELNAVRIAAMAAGAFDAVVCSHHAHGGK------------ 88 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVV---AIN~F~~DT~------~Ei~~i~~~c~~~g~~~~avs~~wa~GG~------------ 88 (225)
+.+|.+=++..++||+|+|+ .-+.--+|.. +-|....+.+.++|+. ++-...=.+-+.
T Consensus 178 l~~l~~i~~ea~~~GlPlv~~~YpRG~~i~~~~d~~~~~d~Ia~AaRiaaELGAD-IVKv~yp~~~~~f~~v~~~~~~~~ 256 (348)
T PRK09250 178 IEEISEAFEEAHELGLATVLWSYLRNSAFKKDGDYHTAADLTGQANHLAATIGAD-IIKQKLPTNNGGYKAINFGKTDDR 256 (348)
T ss_pred HHHHHHHHHHHHHhCCCEEEEecccCcccCCcccccccHHHHHHHHHHHHHHcCC-EEEecCCCChhhHHHhhccccccc
Q ss_pred --------hhHHHHHHHHHHh
Q 042073 89 --------GAVDLGIAVQRAC 101 (225)
Q Consensus 89 --------Ga~~LA~~Vv~~~ 101 (225)
+-.++-+.|++.|
T Consensus 257 ~~~~~~~~~~~~~~~~~V~ac 277 (348)
T PRK09250 257 VYSKLTSDHPIDLVRYQVANC 277 (348)
T ss_pred ccccccccchHHHHHHHHHhh
No 390
>PRK00007 elongation factor G; Reviewed
Probab=30.90 E-value=92 Score=31.77 Aligned_cols=27 Identities=15% Similarity=0.135 Sum_probs=22.5
Q ss_pred HHHHHHHHHhhcCCeEEEEecCCCCCc
Q 042073 32 NLARHIANTKAYGVNVVVAVNMFATDS 58 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN~F~~DT 58 (225)
.-++|++.++++|+|++|+||+.....
T Consensus 115 qt~~~~~~~~~~~~p~iv~vNK~D~~~ 141 (693)
T PRK00007 115 QSETVWRQADKYKVPRIAFVNKMDRTG 141 (693)
T ss_pred hhHHHHHHHHHcCCCEEEEEECCCCCC
Confidence 346788888999999999999987653
No 391
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=30.83 E-value=50 Score=31.95 Aligned_cols=40 Identities=20% Similarity=0.201 Sum_probs=32.1
Q ss_pred CeEEEEecC-CCC---CcHHHHHHHHHHHHHcCCCeEEEcccccc
Q 042073 45 VNVVVAVNM-FAT---DSEAELNAVRIAAMAAGAFDAVVCSHHAH 85 (225)
Q Consensus 45 vpvVVAIN~-F~~---DT~~Ei~~i~~~c~~~g~~~~avs~~wa~ 85 (225)
+...+-.|= =|+ =|.+|+..|.+.|++.|+. ++--+.|++
T Consensus 159 vkl~iLCnPHNP~Grvwt~eeL~~i~elc~kh~v~-VISDEIHaD 202 (388)
T COG1168 159 VKLFILCNPHNPTGRVWTKEELRKIAELCLRHGVR-VISDEIHAD 202 (388)
T ss_pred ccEEEEeCCCCCCCccccHHHHHHHHHHHHHcCCE-EEeeccccc
Confidence 677888884 333 5799999999999999997 766677776
No 392
>PF01212 Beta_elim_lyase: Beta-eliminating lyase; InterPro: IPR001597 This domain is found in many tryptophanases (tryptophan indole-lyase, TNase), tyrosine phenol-lyases (TPL) and threonine aldolases. It is involved in the degradation of amino acids. The glycine cleavage system is composed of four proteins: P, T, L and H. In Bacillus subtilis, the P 'protein' is an heterodimer of two subunits. The glycine cleavage system catalyses the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor; CO(2) is released and the remaining methylamine moiety is then transferred to the lipoamide cofactor of the H protein; GO: 0016829 lyase activity, 0006520 cellular amino acid metabolic process; PDB: 3PJ0_C 2C44_C 2V0Y_A 2OQX_A 2V1P_A 1AX4_B 3LWS_A 1C7G_A 1V72_A 2YHK_B ....
Probab=30.81 E-value=1e+02 Score=28.05 Aligned_cols=51 Identities=20% Similarity=0.001 Sum_probs=32.3
Q ss_pred ccccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCCC------CCcHHHHHHHHHHHHHcCCC
Q 042073 19 LNENVALVEAGCVNLARHIANTKAYGVNVVVAVNMFA------TDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 19 ~~eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F~------~DT~~Ei~~i~~~c~~~g~~ 75 (225)
..-+++.|++-+..... .+..|-+|.|=.=. -=|.+||+.|.++|++.|+.
T Consensus 104 G~l~~~~l~~~~~~~~~------h~~~~~~v~le~t~~~~GG~~~s~~el~ai~~~a~~~gl~ 160 (290)
T PF01212_consen 104 GKLTPEDLEAAIEEHGA------HHPQPAVVSLENTTELAGGTVYSLEELRAISELAREHGLP 160 (290)
T ss_dssp TBB-HHHHHHHHHHHTG------TSGGEEEEEEESSBTTTTSB---HHHHHHHHHHHHHHT-E
T ss_pred CCCCHHHHHHHhhhccc------cCCCccEEEEEecCcCCCCeeCCHHHHHHHHHHHHhCceE
Confidence 44667777765544333 45667788774321 13589999999999999996
No 393
>cd03769 SR_IS607_transposase_like Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. This subfamily is composed of proteins that catalyze the transposition of insertion sequence (IS) elements such as IS607 from Helicobacter and IS1535 from Mycobacterium, and similar proteins from other bacteria and several archaeal species. IS elements are DNA segments that move to new sites in prokaryotic and eukaryotic genomes causing insertion mutations and gene rearrangements.
Probab=30.76 E-value=2.4e+02 Score=22.37 Aligned_cols=68 Identities=16% Similarity=0.029 Sum_probs=33.9
Q ss_pred HHhHHHHHHHHHHHhhcCCeEEEE--ecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 27 EAGCVNLARHIANTKAYGVNVVVA--VNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 27 ~~G~~NL~~HIeNi~~fGvpvVVA--IN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
+.||.-|.+.+ +.=.+-+||. +.||.-++.+ ++...|++.|+.-..+++.+.. .-..+|...++.++.
T Consensus 48 Rp~l~~ll~~i---~~g~~d~lvV~~ldRl~R~~~d---~~~~~l~~~gv~l~~~~~~~d~--~~~~~l~~~~~~~~~ 117 (134)
T cd03769 48 RKGLLKLLEDV---LAGKVERVVITYKDRLARFGFE---LLEELFKAYGVEIVVINQEENE--ELEQELVEDLIEIIT 117 (134)
T ss_pred CHHHHHHHHHH---HcCCCCEEEEEeccHHHHhhHH---HHHHHHHHCCCEEEEEeCCCCC--CCHHHHHHHHHHHHH
Confidence 44444444433 3322334444 6677776533 4556677888863444443321 111256666655543
No 394
>PRK12399 tagatose 1,6-diphosphate aldolase; Reviewed
Probab=30.75 E-value=1.6e+02 Score=27.97 Aligned_cols=145 Identities=19% Similarity=0.252 Sum_probs=85.4
Q ss_pred HHHHhhcCCeEEEEecCCCCCcHHHHHH--------HHHHHHHcCCCeEEE---ccccccCchhhHHHH----HHHHHHh
Q 042073 37 IANTKAYGVNVVVAVNMFATDSEAELNA--------VRIAAMAAGAFDAVV---CSHHAHGGKGAVDLG----IAVQRAC 101 (225)
Q Consensus 37 IeNi~~fGvpvVVAIN~F~~DT~~Ei~~--------i~~~c~~~g~~~~av---s~~wa~GG~Ga~~LA----~~Vv~~~ 101 (225)
.+.+|.+|-..|=.+=.|..|.++||+. |-+.|++.+.+ +.+ +.--..+.+++.+-| ++|++++
T Consensus 111 ~~rike~GadavK~Llyy~pD~~~~in~~k~a~vervg~eC~a~dip-f~lE~ltY~~~~~d~~~~~yak~kP~~V~~a~ 189 (324)
T PRK12399 111 AKRIKEEGADAVKFLLYYDVDEPDEINEQKKAYIERIGSECVAEDIP-FFLEILTYDEKIADNGSVEYAKVKPHKVNEAM 189 (324)
T ss_pred HHHHHHhCCCeEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCC-eEEEEeeccCcccccccHHHHhhChHHHHHHH
Confidence 4556788888887777888888886653 44569999997 544 322223445555554 4477766
Q ss_pred hcC--CC----CcccccCCCCCHHHHHHHHHhHhccCCCCCCH-HHHHHHHHHHHCCCCCCCeeEeecCCCcCCCCCCC-
Q 042073 102 ENV--TQ----PLKFLYPSDVSIKEKIDTIARSYGASGVEYSE-EAEKQIKMYTRQGFSGLPFCMAKTQHSFSHNAPTG- 173 (225)
Q Consensus 102 e~~--~~----~f~~lY~~~~~i~eKI~~IA~IYGA~~V~~s~-~A~~~l~~~e~~G~~~lPVCmAKTqyS~Sdd~P~~- 173 (225)
..= +. -+|--||.++... .-||...+.||. +|.+-.++.... .++|-.+ ||.-++..
T Consensus 190 kefs~~~~gvDVlKvEvPvn~~~v-------eG~~~~e~~yt~~eA~~~f~~~~~~--~~~P~i~------LSaGV~~~~ 254 (324)
T PRK12399 190 KVFSKPRFGVDVLKVEVPVNMKYV-------EGFAEGEVVYTKEEAAQHFKEQDAA--THLPYIY------LSAGVSAEL 254 (324)
T ss_pred HHhccCCCCCcEEEEecccccccc-------cccCcccccccHHHHHHHHHHHhhc--cCCCEEE------EcCCCCHHH
Confidence 531 11 1455555554332 225666888994 444446666655 5666443 55443333
Q ss_pred ceEEeeEEEeecCCceeeeeccccc
Q 042073 174 FILPIRDVRASIGAGFIYPLVGTIS 198 (225)
Q Consensus 174 f~~~vrdv~~~~GAgFiv~~~G~i~ 198 (225)
|.=+ =++--.+||+|--+|||--.
T Consensus 255 F~~~-l~~A~~aGa~fsGvL~GRAt 278 (324)
T PRK12399 255 FQET-LVFAHEAGAKFNGVLCGRAT 278 (324)
T ss_pred HHHH-HHHHHHcCCCcceEEeehhh
Confidence 3211 22334579989999998543
No 395
>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=30.74 E-value=3e+02 Score=22.52 Aligned_cols=71 Identities=15% Similarity=0.076 Sum_probs=40.8
Q ss_pred HHHHH-HHHHHHhh--cCCeEEEEecCCCCCc-HHHH-------------HHHHHHHHHcCCCeEEEccccccCchhhHH
Q 042073 30 CVNLA-RHIANTKA--YGVNVVVAVNMFATDS-EAEL-------------NAVRIAAMAAGAFDAVVCSHHAHGGKGAVD 92 (225)
Q Consensus 30 ~~NL~-~HIeNi~~--fGvpvVVAIN~F~~DT-~~Ei-------------~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~ 92 (225)
|.|+. ..++.+++ -++|+|++.|+-.-.. ..+. +...++|++.+...+..+. |+=|+|-.+
T Consensus 90 f~~~~~~w~~~i~~~~~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~S--Ak~g~~v~e 167 (191)
T cd01875 90 YENVRHKWHPEVCHHCPNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECS--ALNQDGVKE 167 (191)
T ss_pred HHHHHHHHHHHHHhhCCCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeC--CCCCCCHHH
Confidence 44553 23333332 3799999999976422 1111 2345677777742233333 567788888
Q ss_pred HHHHHHHHhh
Q 042073 93 LGIAVQRACE 102 (225)
Q Consensus 93 LA~~Vv~~~e 102 (225)
+=+.+++.+-
T Consensus 168 ~f~~l~~~~~ 177 (191)
T cd01875 168 VFAEAVRAVL 177 (191)
T ss_pred HHHHHHHHHh
Confidence 7777776553
No 396
>TIGR00693 thiE thiamine-phosphate pyrophosphorylase. This model includes ThiE from Bacillus subtilis but excludes its paralog, the regulatory protein TenI, and neighbors of TenI.
Probab=30.72 E-value=1.2e+02 Score=25.09 Aligned_cols=88 Identities=19% Similarity=0.246 Sum_probs=0.0
Q ss_pred CcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHHHHHHHHhHhccCCCCC
Q 042073 57 DSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKEKIDTIARSYGASGVEY 136 (225)
Q Consensus 57 DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~IYGA~~V~~ 136 (225)
++++.++.+.+.++ .|+. ++.-+....-...-..+++++...|. .....+++.... .+|.-+|+++|.+
T Consensus 11 ~~~~~~~~~~~~~~-~g~~-~v~lR~~~~~~~~~~~~~~~l~~~~~--~~~~~l~i~~~~-------~la~~~g~~GvHl 79 (196)
T TIGR00693 11 GPADLLNRVEAALK-GGVT-LVQLRDKGSNTRERLALAEKLQELCR--RYGVPFIVNDRV-------DLALALGADGVHL 79 (196)
T ss_pred ccccHHHHHHHHHh-cCCC-EEEEecCCCCHHHHHHHHHHHHHHHH--HhCCeEEEECHH-------HHHHHcCCCEEec
Q ss_pred CHHHHHHHHHHHHCCCCCC
Q 042073 137 SEEAEKQIKMYTRQGFSGL 155 (225)
Q Consensus 137 s~~A~~~l~~~e~~G~~~l 155 (225)
+.........-+..+.+.+
T Consensus 80 ~~~~~~~~~~r~~~~~~~~ 98 (196)
T TIGR00693 80 GQDDLPASEARALLGPDKI 98 (196)
T ss_pred CcccCCHHHHHHhcCCCCE
No 397
>TIGR00737 nifR3_yhdG putative TIM-barrel protein, nifR3 family. Members of this family show a distant relationship to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase.
Probab=30.71 E-value=4.1e+02 Score=24.08 Aligned_cols=102 Identities=19% Similarity=0.188 Sum_probs=53.0
Q ss_pred HHHHhh-cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEcccc-ccCchhh--HHHHHHHHHHhhcCCCCccccc
Q 042073 37 IANTKA-YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHH-AHGGKGA--VDLGIAVQRACENVTQPLKFLY 112 (225)
Q Consensus 37 IeNi~~-fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~w-a~GG~Ga--~~LA~~Vv~~~e~~~~~f~~lY 112 (225)
++.+++ .++|+.|=|..-..+++.+...+.+.+++.|+..+.++... ..|-.|. .+..++|.+.+ ....++
T Consensus 123 ~~~vr~~~~~pv~vKir~g~~~~~~~~~~~a~~l~~~G~d~i~vh~r~~~~~~~~~~~~~~i~~i~~~~-----~ipvi~ 197 (319)
T TIGR00737 123 VKAVVDAVDIPVTVKIRIGWDDAHINAVEAARIAEDAGAQAVTLHGRTRAQGYSGEANWDIIARVKQAV-----RIPVIG 197 (319)
T ss_pred HHHHHhhcCCCEEEEEEcccCCCcchHHHHHHHHHHhCCCEEEEEcccccccCCCchhHHHHHHHHHcC-----CCcEEE
Confidence 444544 67999998875334444455556666778899644443222 2232333 33333433322 244455
Q ss_pred CCCCCHHHHHHHHHhHhccCCCCCCHHHHHH
Q 042073 113 PSDVSIKEKIDTIARSYGASGVEYSEEAEKQ 143 (225)
Q Consensus 113 ~~~~~i~eKI~~IA~IYGA~~V~~s~~A~~~ 143 (225)
.-+-.=.+.++++-+-+||+.|.....+...
T Consensus 198 nGgI~~~~da~~~l~~~gad~VmigR~~l~~ 228 (319)
T TIGR00737 198 NGDIFSPEDAKAMLETTGCDGVMIGRGALGN 228 (319)
T ss_pred eCCCCCHHHHHHHHHhhCCCEEEEChhhhhC
Confidence 4443322334444444677777776665543
No 398
>PF14226 DIOX_N: non-haem dioxygenase in morphine synthesis N-terminal; PDB: 3OOX_A 1BK0_A 1IPS_B 1QIQ_A 1OC1_A 2Y86_A 2Y60_A 1W03_A 2VE1_A 1QJF_A ....
Probab=30.51 E-value=56 Score=24.56 Aligned_cols=53 Identities=25% Similarity=0.287 Sum_probs=34.7
Q ss_pred CCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHHHHHH
Q 042073 56 TDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKEKIDT 124 (225)
Q Consensus 56 ~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~ 124 (225)
.+..+.++.|.+.|++.|.. .|.+| |-- .+|.+.+.+++.+ .+ ++|.++|-+-
T Consensus 11 ~~~~~~~~~l~~A~~~~GFf--~l~nh----Gi~-~~l~~~~~~~~~~-------fF--~lp~e~K~~~ 63 (116)
T PF14226_consen 11 ADREEVAEQLRDACEEWGFF--YLVNH----GIP-QELIDRVFAAARE-------FF--ALPLEEKQKY 63 (116)
T ss_dssp HHHHHHHHHHHHHHHHTSEE--EEESS----SSS-HHHHHHHHHHHHH-------HH--CSHHHHHHHH
T ss_pred ccHHHHHHHHHHHHHhCCEE--EEecc----ccc-chhhHHHHHHHHH-------HH--HhhHHHHHHh
Confidence 34467888999999999984 56666 221 3677777776642 33 4577776554
No 399
>cd04730 NPD_like 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase family that reduce a range of alternative electron acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as electron donor. Some contain 4Fe-4S cluster to transfer electron from FAD to FMN.
Probab=30.43 E-value=3e+02 Score=23.26 Aligned_cols=27 Identities=22% Similarity=0.327 Sum_probs=16.6
Q ss_pred ecCCCCCcHHHHHHHHHHHHHcCCCeE
Q 042073 51 VNMFATDSEAELNAVRIAAMAAGAFDA 77 (225)
Q Consensus 51 IN~F~~DT~~Ei~~i~~~c~~~g~~~~ 77 (225)
+|-|..|.....+...+.|.+.|+.-+
T Consensus 58 v~~i~~~~~~~~~~~~~~~~~~g~d~v 84 (236)
T cd04730 58 VNLLVPSSNPDFEALLEVALEEGVPVV 84 (236)
T ss_pred EeEecCCCCcCHHHHHHHHHhCCCCEE
Confidence 677766632233455567788999733
No 400
>CHL00076 chlB photochlorophyllide reductase subunit B
Probab=30.40 E-value=2.2e+02 Score=28.15 Aligned_cols=73 Identities=18% Similarity=0.191 Sum_probs=42.3
Q ss_pred HHHHcCCCeEEEc--cccc---------cCchhhHHHHHHHHHHh----hcCCCCcccccCCCCCHHHHHHHHHh-Hhcc
Q 042073 68 AAMAAGAFDAVVC--SHHA---------HGGKGAVDLGIAVQRAC----ENVTQPLKFLYPSDVSIKEKIDTIAR-SYGA 131 (225)
Q Consensus 68 ~c~~~g~~~~avs--~~wa---------~GG~Ga~~LA~~Vv~~~----e~~~~~f~~lY~~~~~i~eKI~~IA~-IYGA 131 (225)
.++++|++-..++ -||. -|=+|+..|++.+..++ ++. =|. ++...+. ++ .+++ .=..
T Consensus 387 ia~~lgiP~~~is~Pv~~~~~p~~~~p~~Gy~Ga~~l~~~i~n~l~~~~~~~--l~~-~~~~~~~-~~---~~~~~~~~~ 459 (513)
T CHL00076 387 IGKRLDIPCGVISAPVHIQNFPLGYRPFLGYEGTNQIADLVYNSFTLGMEDH--LLE-IFGGHDT-KE---IITKSLSTD 459 (513)
T ss_pred HHHHhCCCEEEeecccccccccCCCCCccchHHHHHHHHHHHHHhhhhHHHH--HHH-hcCCCCc-cc---ccCCccccC
Confidence 5667778633333 1112 26689999999999987 321 011 1111111 11 1444 4356
Q ss_pred CCCCCCHHHHHHHHHH
Q 042073 132 SGVEYSEEAEKQIKMY 147 (225)
Q Consensus 132 ~~V~~s~~A~~~l~~~ 147 (225)
+...||++|++.|+++
T Consensus 460 ~~~~w~~ea~~~l~~i 475 (513)
T CHL00076 460 SDLIWSPESQLELSKI 475 (513)
T ss_pred CCCCCCHHHHHHHHhC
Confidence 7788999999888875
No 401
>cd06388 PBP1_iGluR_AMPA_GluR4 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=30.35 E-value=2.4e+02 Score=26.15 Aligned_cols=59 Identities=14% Similarity=0.135 Sum_probs=29.8
Q ss_pred cHHHHHHHHHHHHHcCCCeEEEccccccCchh------hHHHHHHHHHHhhc-CCCCcccccCCCCCH
Q 042073 58 SEAELNAVRIAAMAAGAFDAVVCSHHAHGGKG------AVDLGIAVQRACEN-VTQPLKFLYPSDVSI 118 (225)
Q Consensus 58 T~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~G------a~~LA~~Vv~~~e~-~~~~f~~lY~~~~~i 118 (225)
+-..-..+...|.+.+++ . ++..|...+.= .-.+..+++++++. +-+.|..+|+.++.+
T Consensus 72 ss~~~~~v~~i~~~~~IP-~-I~~~~~~~~~~~f~i~~~p~~~~a~~~~i~~~~wk~vaiiYd~~~~~ 137 (371)
T cd06388 72 DKRSVHTLTSFCSALHIS-L-ITPSFPTEGESQFVLQLRPSLRGALLSLLDHYEWNRFVFLYDTDRGY 137 (371)
T ss_pred CHHHHHHHHHHhhCCCCC-e-eecCccccCCCceEEEeChhhhhHHHHHHHhcCceEEEEEecCCccH
Confidence 344555666667777775 3 33344321110 11245555555543 234577888766544
No 402
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=30.35 E-value=3.2e+02 Score=22.67 Aligned_cols=56 Identities=7% Similarity=-0.106 Sum_probs=29.6
Q ss_pred CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 44 GVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 44 GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
++|+++..|+......+......++++..+.. +. +.-++=|.|-.++-..+.+.+-
T Consensus 113 ~~~i~lv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~--e~Sa~~~~~v~~~f~~ia~~l~ 168 (215)
T PTZ00132 113 NIPIVLVGNKVDVKDRQVKARQITFHRKKNLQ-YY--DISAKSNYNFEKPFLWLARRLT 168 (215)
T ss_pred CCCEEEEEECccCccccCCHHHHHHHHHcCCE-EE--EEeCCCCCCHHHHHHHHHHHHh
Confidence 68999999997643221112223566666764 33 3334445555554444444443
No 403
>cd04726 KGPDC_HPS 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for L-ascorbate utilization in some eubacteria. HPS catalyzes the formation of D-arabino-3-hexulose-6-phosphate from D-ribulose 5-phosphate and formaldehyde in microorganisms that can use formaldehyde as a carbon source. Both catalyze reactions that involve the Mg2+-assisted formation and stabilization of 1,2-enediolate reaction intermediates.
Probab=30.30 E-value=2.4e+02 Score=23.25 Aligned_cols=109 Identities=13% Similarity=0.019 Sum_probs=54.7
Q ss_pred HHHHHHHhhc--CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccc
Q 042073 34 ARHIANTKAY--GVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFL 111 (225)
Q Consensus 34 ~~HIeNi~~f--GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~l 111 (225)
.+.|+.+++. ++|+++.+=.. |.+ ....+.+.++|+. +.+... .-+ . +-.+.+++.+.+ ...++.
T Consensus 41 ~~~i~~i~~~~~~~~i~~~~~v~--~~~---~~~~~~~~~aGad-~i~~h~-~~~-~---~~~~~~i~~~~~--~g~~~~ 107 (202)
T cd04726 41 MEAVRALREAFPDKIIVADLKTA--DAG---ALEAEMAFKAGAD-IVTVLG-AAP-L---STIKKAVKAAKK--YGKEVQ 107 (202)
T ss_pred HHHHHHHHHHCCCCEEEEEEEec--ccc---HHHHHHHHhcCCC-EEEEEe-eCC-H---HHHHHHHHHHHH--cCCeEE
Confidence 4668888774 78877643322 222 1333667889996 654432 222 1 334556666653 234554
Q ss_pred cC--CCCCHHHHHHHHHhHhccCCCCCC----------HHHHHHHHHHHHCCCCCCCeeE
Q 042073 112 YP--SDVSIKEKIDTIARSYGASGVEYS----------EEAEKQIKMYTRQGFSGLPFCM 159 (225)
Q Consensus 112 Y~--~~~~i~eKI~~IA~IYGA~~V~~s----------~~A~~~l~~~e~~G~~~lPVCm 159 (225)
-+ .-.+.++-++ +.-+|++-|.+. +...+.++++.+. .++|||.
T Consensus 108 v~~~~~~t~~e~~~--~~~~~~d~v~~~~~~~~~~~~~~~~~~~i~~~~~~--~~~~i~~ 163 (202)
T cd04726 108 VDLIGVEDPEKRAK--LLKLGVDIVILHRGIDAQAAGGWWPEDDLKKVKKL--LGVKVAV 163 (202)
T ss_pred EEEeCCCCHHHHHH--HHHCCCCEEEEcCcccccccCCCCCHHHHHHHHhh--cCCCEEE
Confidence 32 2234444444 223455544331 2224555555554 4677765
No 404
>TIGR01019 sucCoAalpha succinyl-CoA synthetase, alpha subunit. ATP citrate lyases appear to form an outgroup.
Probab=30.18 E-value=3e+02 Score=25.25 Aligned_cols=63 Identities=27% Similarity=0.197 Sum_probs=40.0
Q ss_pred HHHHHHhhcCCeEEEEecCC--CC--------CcHHHH------------------HHHHHHHHHcCCCeE-EEcccccc
Q 042073 35 RHIANTKAYGVNVVVAVNMF--AT--------DSEAEL------------------NAVRIAAMAAGAFDA-VVCSHHAH 85 (225)
Q Consensus 35 ~HIeNi~~fGvpvVVAIN~F--~~--------DT~~Ei------------------~~i~~~c~~~g~~~~-avs~~wa~ 85 (225)
.|++||..||-++|..+|-= .. .|-+|+ .-+.+.|.+.|++.+ +++.+|++
T Consensus 21 ~~~~~~~~~g~~~v~~V~p~~~~~~v~G~~~y~sv~dlp~~~~~Dlavi~vpa~~v~~~l~e~~~~Gvk~avIis~Gf~e 100 (286)
T TIGR01019 21 FHTEQMLAYGTNIVGGVTPGKGGTTVLGLPVFDSVKEAVEETGANASVIFVPAPFAADAIFEAIDAGIELIVCITEGIPV 100 (286)
T ss_pred HHHHHHHhCCCCEEEEECCCCCcceecCeeccCCHHHHhhccCCCEEEEecCHHHHHHHHHHHHHCCCCEEEEECCCCCH
Confidence 79999999999988889943 32 122222 223456778999733 34566633
Q ss_pred CchhhHHHHHHHHHHhhc
Q 042073 86 GGKGAVDLGIAVQRACEN 103 (225)
Q Consensus 86 GG~Ga~~LA~~Vv~~~e~ 103 (225)
.+.+++++.+.+
T Consensus 101 ------~~~~~l~~~a~~ 112 (286)
T TIGR01019 101 ------HDMLKVKRYMEE 112 (286)
T ss_pred ------HHHHHHHHHHHH
Confidence 356677777764
No 405
>PRK06740 histidinol-phosphatase; Validated
Probab=30.03 E-value=30 Score=32.15 Aligned_cols=55 Identities=7% Similarity=0.122 Sum_probs=37.9
Q ss_pred ccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccc
Q 042073 21 ENVALVEAGCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSH 82 (225)
Q Consensus 21 eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~ 82 (225)
.=+++++.|..+..-|...++.|+-+. ...+....++.|.+.|++.|+. +.+++.
T Consensus 206 ~~~~~i~~~~fdvIgHpDlik~f~~~~------~~~~~~~~~~~I~~a~~~~g~~-lEINt~ 260 (331)
T PRK06740 206 TVECAIRSELFDIIAHLDNIKVFNYRL------DENEQLSYYKEIARALVETNTA-TEINAG 260 (331)
T ss_pred HHHHHHHcCCCCEeeCccHHHhcCCCc------chhhhHHHHHHHHHHHHHcCCE-EEEECc
Confidence 334566667777777888888876321 0112345888888999999997 889985
No 406
>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=29.73 E-value=2.1e+02 Score=22.04 Aligned_cols=61 Identities=13% Similarity=0.040 Sum_probs=34.5
Q ss_pred HHHHHhh--cCCeEEEEecCCCCCcHH-H------------HHHHHHHHHHcCC-CeEEEccccccCchhhHHHHHHHHH
Q 042073 36 HIANTKA--YGVNVVVAVNMFATDSEA-E------------LNAVRIAAMAAGA-FDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 36 HIeNi~~--fGvpvVVAIN~F~~DT~~-E------------i~~i~~~c~~~g~-~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
.+..+.. .++|++|+.|+-..-... . .+...+++...+. .-+.+| ++=|+|-.+|-+.+++
T Consensus 94 ~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S---a~~~~gi~~l~~~i~~ 170 (171)
T cd00157 94 WIPEIRHYCPNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECS---ALTQEGVKEVFEEAIR 170 (171)
T ss_pred HHHHHHhhCCCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEee---cCCCCCHHHHHHHHhh
Confidence 3444443 369999999986431111 1 2345667777776 323334 3445666666665543
No 407
>PF00155 Aminotran_1_2: Aminotransferase class I and II 1-aminocyclopropane-1-carboxylate synthase signature aspartate aminotransferase signature; InterPro: IPR004839 Aminotransferases share certain mechanistic features with other pyridoxal-phosphate dependent enzymes, such as the covalent binding of the pyridoxal-phosphate group to a lysine residue. On the basis of sequence similarity, these various enzymes can be grouped [] into class I and class II. This entry includes proteins from both subfamilies.; GO: 0016769 transferase activity, transferring nitrogenous groups, 0030170 pyridoxal phosphate binding, 0009058 biosynthetic process; PDB: 3NRA_B 3P6K_B 3OP7_A 3ASB_A 3ASA_A 1W7M_A 3FVX_A 1W7N_A 3FVU_B 3FVS_A ....
Probab=29.70 E-value=1.4e+02 Score=26.64 Aligned_cols=60 Identities=18% Similarity=0.060 Sum_probs=40.5
Q ss_pred HHHHHHHHHHhhcCC--eEEEEecCC-CCC---cHHHHHHHHHHHHHcCCCeEEEccccccCchhhH
Q 042073 31 VNLARHIANTKAYGV--NVVVAVNMF-ATD---SEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAV 91 (225)
Q Consensus 31 ~NL~~HIeNi~~fGv--pvVVAIN~F-~~D---T~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~ 91 (225)
..|++-++..+.-+. .+|+.-|-+ ||= +.+|++.|.++|++.++. +.+-++|....-+..
T Consensus 133 ~~l~~~l~~~~~~~~~~~~v~~~~p~nPtG~~~~~~~l~~l~~~~~~~~~~-ii~De~y~~~~~~~~ 198 (363)
T PF00155_consen 133 EALEEALDELPSKGPRPKAVLICNPNNPTGSVLSLEELRELAELAREYNII-IIVDEAYSDLIFGDP 198 (363)
T ss_dssp HHHHHHHHTSHTTTETEEEEEEESSBTTTTBB--HHHHHHHHHHHHHTTSE-EEEEETTTTGBSSSS
T ss_pred cccccccccccccccccceeeecccccccccccccccccchhhhhcccccc-eeeeeceeccccCCC
Confidence 344555555554443 445544433 332 789999999999999996 889899988777754
No 408
>TIGR03180 UraD_2 OHCU decarboxylase. Previously thought to only proceed spontaneously, the decarboxylation of 2-oxo-4-hydroxy-4-carboxy--5-ureidoimidazoline (OHCU) has been recently been shown to be catalyzed by this enzyme in Mus musculus. Homologs of this enzyme are found adjacent to and fused with uricase in a number of prokaryotes and are represented by this model. This model is a separate (but related) clade from that represented by TIGR3164. This model places a second homolog in streptomyces species which (are not in the vicinity of other urate catabolism associated genes) below the trusted cutoff.
Probab=29.66 E-value=68 Score=26.91 Aligned_cols=13 Identities=8% Similarity=0.217 Sum_probs=11.5
Q ss_pred hhcCCeEEEEecC
Q 042073 41 KAYGVNVVVAVNM 53 (225)
Q Consensus 41 ~~fGvpvVVAIN~ 53 (225)
.+||.|.||+++-
T Consensus 105 ~kFGfpFii~v~g 117 (158)
T TIGR03180 105 EKFGRIFLIRAAG 117 (158)
T ss_pred HHCCCeEEEeeCC
Confidence 5799999999993
No 409
>PRK14334 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=29.61 E-value=1.3e+02 Score=28.79 Aligned_cols=60 Identities=13% Similarity=0.079 Sum_probs=41.2
Q ss_pred cccccHHHHHHhHH--HHHHHHHHHhhcCCeEEEE---ecCCCCCcHHHHHHHHHHHHHcCCCeE
Q 042073 18 YLNENVALVEAGCV--NLARHIANTKAYGVNVVVA---VNMFATDSEAELNAVRIAAMAAGAFDA 77 (225)
Q Consensus 18 l~~eN~~al~~G~~--NL~~HIeNi~~fGvpvVVA---IN~F~~DT~~Ei~~i~~~c~~~g~~~~ 77 (225)
.+.+-+.++.++.. ...+=|+.+++.|..+.+. |-=||.+|+++++...+++++.+...+
T Consensus 257 gs~~vLk~m~R~~~~~~~~~~v~~lr~~~~~i~i~~d~IvG~PgEt~ed~~~tl~~i~~l~~~~i 321 (440)
T PRK14334 257 GSDRVLRRMAREYRREKYLERIAEIREALPDVVLSTDIIVGFPGETEEDFQETLSLYDEVGYDSA 321 (440)
T ss_pred CCHHHHHHhCCCCCHHHHHHHHHHHHHhCCCcEEEEeEEEECCCCCHHHHHHHHHHHHhcCCCEe
Confidence 34444555555543 3556677778776554443 335899999999999999999988633
No 410
>PRK04516 minC septum formation inhibitor; Reviewed
Probab=29.51 E-value=1.2e+02 Score=27.33 Aligned_cols=61 Identities=15% Similarity=0.011 Sum_probs=44.7
Q ss_pred cccccHHHHHHhHHHHHHHHHHHhhc-CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEcc
Q 042073 18 YLNENVALVEAGCVNLARHIANTKAY-GVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCS 81 (225)
Q Consensus 18 l~~eN~~al~~G~~NL~~HIeNi~~f-GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~ 81 (225)
|...|++++++ .|...|+..-.| +.|+|+=+-....+++.++..|.+.|+++|...+.++.
T Consensus 22 L~~~d~~~l~~---~L~~ki~qaP~f~~aPvVldl~~l~~~~~~dl~~L~~~l~~~gl~~vGv~g 83 (235)
T PRK04516 22 LHTSDLFDLED---VLVKLGKKFQESGVVPFVLDVQEFDYPESLDLAALVSLFSRHGMQILGLKH 83 (235)
T ss_pred eCCCCHHHHHH---HHHHHHHhCcCCCCCcEEEEchhhCCcccccHHHHHHHHHHCCCEEEEEeC
Confidence 44577777765 445556665555 78999999888754456899999999999998666653
No 411
>PLN02912 oxidoreductase, 2OG-Fe(II) oxygenase family protein
Probab=29.51 E-value=1.6e+02 Score=27.47 Aligned_cols=64 Identities=13% Similarity=0.201 Sum_probs=39.9
Q ss_pred cCCeEEEEecCCCC-CcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHHH
Q 042073 43 YGVNVVVAVNMFAT-DSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKEK 121 (225)
Q Consensus 43 fGvpvVVAIN~F~~-DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~eK 121 (225)
..+|+| =+..|.+ |.++..+.|.+.|++.|.. .+.+| |- ..+|.+++.+++.+ .|+ +|.++|
T Consensus 40 ~~iPvI-Dls~~~~~~~~~~~~~l~~A~~~~GFf--~v~nH----GI-~~~l~~~~~~~~~~-------FF~--LP~eeK 102 (348)
T PLN02912 40 DSIPLI-DLRDLHGPNRADIINQFAHACSSYGFF--QIKNH----GV-PEETIKKMMNVARE-------FFH--QSESER 102 (348)
T ss_pred CCCCeE-ECcccCCcCHHHHHHHHHHHHHHCCEE--EEEeC----CC-CHHHHHHHHHHHHH-------Hhc--CCHHHH
Confidence 468854 4556644 3344468999999999995 45555 21 23677777766542 333 466666
Q ss_pred HH
Q 042073 122 ID 123 (225)
Q Consensus 122 I~ 123 (225)
.+
T Consensus 103 ~k 104 (348)
T PLN02912 103 VK 104 (348)
T ss_pred Hh
Confidence 66
No 412
>cd02430 PTH2 Peptidyl-tRNA hydrolase, type 2 (PTH2). Peptidyl-tRNA hydrolase (PTH) activity releases tRNA from the premature translation termination product peptidyl-tRNA, therefore allowing the tRNA and peptide to be reused in protein synthesis. PTH2 is present in archaea and eukaryotes.
Probab=29.48 E-value=2.3e+02 Score=22.51 Aligned_cols=43 Identities=21% Similarity=0.234 Sum_probs=32.5
Q ss_pred HHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCc
Q 042073 37 IANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGG 87 (225)
Q Consensus 37 IeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG 87 (225)
++.-+..|.+.|| ...++++|+..+.+.+++.|+..+ .|.|-|
T Consensus 41 ~~~W~~~G~~KiV----l~~~~~~el~~l~~~a~~~~l~~~----~v~DAG 83 (115)
T cd02430 41 LRAWEREGQKKIV----LKVNSEEELLELKKKAKSLGLPTS----LIQDAG 83 (115)
T ss_pred HHHHHhcCCcEEE----EecCCHHHHHHHHHHHHHcCCCeE----EEEeCC
Confidence 3445678999888 456789999999999999999733 455554
No 413
>PRK11145 pflA pyruvate formate lyase-activating enzyme 1; Provisional
Probab=29.25 E-value=1.6e+02 Score=25.41 Aligned_cols=36 Identities=11% Similarity=-0.066 Sum_probs=23.6
Q ss_pred HHHhhcCCeEEEE--ecCCCCCcHHHHHHHHHHHHHcC
Q 042073 38 ANTKAYGVNVVVA--VNMFATDSEAELNAVRIAAMAAG 73 (225)
Q Consensus 38 eNi~~fGvpvVVA--IN~F~~DT~~Ei~~i~~~c~~~g 73 (225)
+.+++.|+++.|- +-.=-+|+++|++.+.+|+++.+
T Consensus 155 ~~l~~~g~~v~i~~~li~g~nd~~~ei~~l~~~l~~l~ 192 (246)
T PRK11145 155 RYLAKRNQKTWIRYVVVPGWTDDDDSAHRLGEFIKDMG 192 (246)
T ss_pred HHHHhCCCcEEEEEEEECCCCCCHHHHHHHHHHHHhcC
Confidence 4455667766542 22323788889999999988764
No 414
>PRK02083 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=29.20 E-value=2.1e+02 Score=24.92 Aligned_cols=73 Identities=18% Similarity=0.094 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHcCCCeEEEccccccCchhhHHH--HHHHHHHhhcCCCCcccccCCCCCHHHHHHHHHhHhccCCCCCCH
Q 042073 61 ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDL--GIAVQRACENVTQPLKFLYPSDVSIKEKIDTIARSYGASGVEYSE 138 (225)
Q Consensus 61 Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~L--A~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~IYGA~~V~~s~ 138 (225)
....+.+.+.+.|+..+.+.++..+|-.-+.++ .+++.+. .....++.-.-.=.+.+.++.+.+|+++|....
T Consensus 154 ~~~~~~~~~~~~g~~~ii~~~i~~~g~~~g~d~~~i~~~~~~-----~~ipvia~GGv~s~~d~~~~~~~~G~~gvivg~ 228 (253)
T PRK02083 154 DAVEWAKEVEELGAGEILLTSMDRDGTKNGYDLELTRAVSDA-----VNVPVIASGGAGNLEHFVEAFTEGGADAALAAS 228 (253)
T ss_pred CHHHHHHHHHHcCCCEEEEcCCcCCCCCCCcCHHHHHHHHhh-----CCCCEEEECCCCCHHHHHHHHHhCCccEEeEhH
Confidence 444445666789997455555554453333443 3443332 234555555444445555544356776665543
No 415
>cd07941 DRE_TIM_LeuA3 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain. Desulfobacterium autotrophicum LeuA3 is sequence-similar to alpha-isopropylmalate synthase (LeuA) but its exact function is unknown. Members of this family have an N-terminal TIM barrel domain that belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of in
Probab=29.04 E-value=1.5e+02 Score=26.43 Aligned_cols=55 Identities=22% Similarity=0.224 Sum_probs=33.8
Q ss_pred hHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHH---HHHcCCCeEEEcccc
Q 042073 29 GCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIA---AMAAGAFDAVVCSHH 83 (225)
Q Consensus 29 G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~---c~~~g~~~~avs~~w 83 (225)
=+.++...++-.+..|..|.+..=.|..-+..+.+.+.++ +.+.|+..+.+++..
T Consensus 117 ~~~~~~~~i~~ak~~G~~v~~~~~~~~d~~~~~~~~~~~~~~~~~~~g~~~i~l~DT~ 174 (273)
T cd07941 117 NLAMIRDSVAYLKSHGREVIFDAEHFFDGYKANPEYALATLKAAAEAGADWLVLCDTN 174 (273)
T ss_pred HHHHHHHHHHHHHHcCCeEEEeEEeccccCCCCHHHHHHHHHHHHhCCCCEEEEecCC
Confidence 3567788889999999988774334421123344444444 356788766666653
No 416
>PLN02997 flavonol synthase
Probab=29.03 E-value=1.6e+02 Score=27.26 Aligned_cols=64 Identities=22% Similarity=0.266 Sum_probs=39.3
Q ss_pred HhHHHHHHHHHHHhhc----CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 28 AGCVNLARHIANTKAY----GVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 28 ~G~~NL~~HIeNi~~f----GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
+-+.-|-|.+.+-+.+ .+|+| =+.. .|.++.++.|.+.|++.|.. . +.+|=- ..+|-+++.+++
T Consensus 12 ~~~~~~~~~~~~~~~~~~~~~IPvI-Dls~--~~~~~~~~~l~~Ac~~~GFF-~-v~nHGI-----~~~li~~~~~~~ 79 (325)
T PLN02997 12 SSLPSLSKQLASSTLGGSAVDVPVV-DLSV--SDEDFLVREVVKASEEWGVF-Q-VVNHGI-----PTELMRQLQMVG 79 (325)
T ss_pred ccCcchhhhhccccCCCCCCCCCeE-ECCC--CCHHHHHHHHHHHHHHCCEE-E-EECCCC-----CHHHHHHHHHHH
Confidence 3355566666665555 58864 3333 36678899999999999995 4 444411 134555555544
No 417
>TIGR03584 PseF pseudaminic acid CMP-transferase. The sequences in this family include the pfam02348 (cytidyltransferase) domain and are homologous to the NeuA protein responsible for the transfer of CMP to neuraminic acid. According to, this gene is responsible for the transfer of CMP to the structurally related sugar, pseudaminic acid which is observed as a component of sugar modifications of flagellin in Campylobacter species. This gene is commonly observed in apparent operons with other genes responsible for the biosynthesis of pseudaminic acid and as a component of flagellar and exopolysaccharide biosynthesis loci.
Probab=28.86 E-value=2.6e+02 Score=24.05 Aligned_cols=71 Identities=24% Similarity=0.200 Sum_probs=48.0
Q ss_pred ccHHHHHHhHHHHHHHHHHHhhcCC--eEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEE--ccccccCchhhHHHHHH
Q 042073 21 ENVALVEAGCVNLARHIANTKAYGV--NVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVV--CSHHAHGGKGAVDLGIA 96 (225)
Q Consensus 21 eN~~al~~G~~NL~~HIeNi~~fGv--pvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~av--s~~wa~GG~Ga~~LA~~ 96 (225)
.|+--| .|-+=|.+-|+.+.+.+. .+|| .+|.+ || .+.|++.|+. +.. ...|+.++.|..+.-+.
T Consensus 16 Knl~~l-~GkpLi~~ti~~a~~s~~~d~IvV-----std~~-~i---~~~a~~~g~~-v~~~r~~~l~~d~~~~~~si~~ 84 (222)
T TIGR03584 16 KNIKPF-CGKPMIAYSIEAALNSGLFDKVVV-----STDDE-EI---AEVAKSYGAS-VPFLRPKELADDFTGTAPVVKH 84 (222)
T ss_pred ccchhc-CCcCHHHHHHHHHHhCCCCCEEEE-----eCCCH-HH---HHHHHHcCCE-eEEeChHHHcCCCCCchHHHHH
Confidence 566444 476667777888887653 3334 46643 43 4566778885 433 56789999999888888
Q ss_pred HHHHhh
Q 042073 97 VQRACE 102 (225)
Q Consensus 97 Vv~~~e 102 (225)
.++.++
T Consensus 85 ~l~~l~ 90 (222)
T TIGR03584 85 AIEELK 90 (222)
T ss_pred HHHHHh
Confidence 887765
No 418
>cd06241 Peptidase_M14-like_1_4 Peptidase M14-like domain of a functionally uncharacterized subgroup of the M14 family of metallocarboxypeptidases (MCPs). The M14 family are zinc-binding carboxypeptidases (CPs) which hydrolyze single, C-terminal amino acids from polypeptide chains, and have a recognition site for the free C-terminal carboxyl group, which is a key determinant of specificity. Two major subfamilies of the M14 family, defined based on sequence and structural homology, are the A/B and N/E subfamilies. Enzymes belonging to the A/B subfamily are normally synthesized as inactive precursors containing preceding signal peptide, followed by an N-terminal pro-region linked to the enzyme; these proenzymes are called procarboxypeptidases. The A/B enzymes can be further divided based on their substrate specificity; Carboxypeptidase A-like (CPA-like) enzymes favor hydrophobic residues while carboxypeptidase B-like (CPB-like) enzymes only cleave the basic residues lysine or arginine. Th
Probab=28.63 E-value=2.6e+02 Score=25.14 Aligned_cols=107 Identities=19% Similarity=0.198 Sum_probs=54.3
Q ss_pred ecC-CCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHHHHHHHHhHh
Q 042073 51 VNM-FATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKEKIDTIARSY 129 (225)
Q Consensus 51 IN~-F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~IY 129 (225)
+|| |..-+..|.+.+.++..+.... +.+.-|=.+| . ...-.+.+.|+.+.+|-.-+...-.
T Consensus 128 LNRdf~~~~~pEtra~~~~~~~~~p~-~~iD~H~~~g--------------~-~~~yd~t~~~~~~~~~~~~~~~~~~-- 189 (266)
T cd06241 128 LNRDFIKLDAPEMRAFAKLFNKWNPD-LFIDNHVTDG--------------A-DYQYDLTYDFTGHNKLSPALGAWLD-- 189 (266)
T ss_pred cCCCCcccCCHHHHHHHHHHHHhCCC-EEEEeccCCC--------------c-CceeeecccccCCCccChHHHHHHH--
Confidence 565 5666667777788887777664 6565553322 0 1112233444444433222322222
Q ss_pred ccCCCCCCHHHHHHHHHHHHCCCCCCCeeEeecCCCcCCC-CCC-CceEEeeEEEeecCCc
Q 042073 130 GASGVEYSEEAEKQIKMYTRQGFSGLPFCMAKTQHSFSHN-APT-GFILPIRDVRASIGAG 188 (225)
Q Consensus 130 GA~~V~~s~~A~~~l~~~e~~G~~~lPVCmAKTqyS~Sdd-~P~-~f~~~vrdv~~~~GAg 188 (225)
-.|.++.. +.+++.|+...| -|+..++ .|+ ||.--...=|.|.|.+
T Consensus 190 ----~~~~~~~~---~~l~~~g~~~~~------~~~~~~~~~~~~g~~~~~~~pr~s~~y~ 237 (266)
T cd06241 190 ----TRLRPAVY---AALERKGHIPTP------YYSLIDNDDPTKGFSQFPDSPRYSTGYG 237 (266)
T ss_pred ----hHHHHHHH---HHHHHcCCCCCC------CccccCCCCCcccccCCCCCCccccCHH
Confidence 11223333 346778888777 3344333 344 6765555556666643
No 419
>PLN03118 Rab family protein; Provisional
Probab=28.59 E-value=2.6e+02 Score=23.23 Aligned_cols=58 Identities=14% Similarity=0.052 Sum_probs=37.1
Q ss_pred cCCeEEEEecCCCCCcHHH--HHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhc
Q 042073 43 YGVNVVVAVNMFATDSEAE--LNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACEN 103 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~~E--i~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~ 103 (225)
-++|++++.|+...-...+ .+...+++.+.++. +..+. ++=|+|-.+|-+.+.+.+-.
T Consensus 119 ~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~~~~-~~e~S--Ak~~~~v~~l~~~l~~~~~~ 178 (211)
T PLN03118 119 QDCVKMLVGNKVDRESERDVSREEGMALAKEHGCL-FLECS--AKTRENVEQCFEELALKIME 178 (211)
T ss_pred CCCCEEEEEECccccccCccCHHHHHHHHHHcCCE-EEEEe--CCCCCCHHHHHHHHHHHHHh
Confidence 4689999999975422222 23445667777775 43322 34478888888888876643
No 420
>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=28.58 E-value=1.3e+02 Score=25.22 Aligned_cols=22 Identities=23% Similarity=0.366 Sum_probs=16.4
Q ss_pred HHHHHHHhhcCCeEEEEecCCC
Q 042073 34 ARHIANTKAYGVNVVVAVNMFA 55 (225)
Q Consensus 34 ~~HIeNi~~fGvpvVVAIN~F~ 55 (225)
+++++.++..+.|+++++|+-.
T Consensus 113 ~~~~~~~~~~~~p~iiviNK~D 134 (213)
T cd04167 113 ERLIRHAILEGLPIVLVINKID 134 (213)
T ss_pred HHHHHHHHHcCCCEEEEEECcc
Confidence 4555656667899999999876
No 421
>TIGR01287 nifH nitrogenase iron protein. This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.
Probab=28.54 E-value=3.9e+02 Score=23.19 Aligned_cols=50 Identities=16% Similarity=0.112 Sum_probs=30.0
Q ss_pred HHHHHHhHHHHHHHHHHHhh-cCCeEE-EEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 23 VALVEAGCVNLARHIANTKA-YGVNVV-VAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 23 ~~al~~G~~NL~~HIeNi~~-fGvpvV-VAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
..++ +|+.+|.+.|..+++ .++++. |..|+-. +..+.+.+.++++..|..
T Consensus 152 ~~sl-~~~~~l~~~i~~~~~~~~~~~~giv~n~~~--~~~~~~~~e~l~~~~~~~ 203 (275)
T TIGR01287 152 MMAL-YAANNICKGILKYAKSGGVRLGGLICNSRN--VDDEKELIDEFAKKLGTQ 203 (275)
T ss_pred HHHH-HHHHHHHHHHHHHHhcCCCeeeEEEEcCCC--CchHHHHHHHHHHHhCCc
Confidence 3344 367788777776653 566654 4457643 334444567777777764
No 422
>PRK14338 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=28.51 E-value=2.4e+02 Score=27.18 Aligned_cols=65 Identities=11% Similarity=0.042 Sum_probs=41.2
Q ss_pred ccccccHHHHHHhH--HHHHHHHHHHhhc--CCeEEE-EecCCCCCcHHHHHHHHHHHHHcCCCeEEEcc
Q 042073 17 AYLNENVALVEAGC--VNLARHIANTKAY--GVNVVV-AVNMFATDSEAELNAVRIAAMAAGAFDAVVCS 81 (225)
Q Consensus 17 ~l~~eN~~al~~G~--~NL~~HIeNi~~f--GvpvVV-AIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~ 81 (225)
..+.+-++.+.++. ....+=++.+++. |+.+.. .|--||.+|+++++...+++++.+...+.+..
T Consensus 274 Sgsd~vLk~m~R~~t~e~~~~~i~~lr~~~pgi~i~~d~IvG~PgET~ed~~~ti~~l~~l~~~~v~i~~ 343 (459)
T PRK14338 274 AGDDEVLKRMRRGYTVARYRELIARIREAIPDVSLTTDIIVGHPGETEEQFQRTYDLLEEIRFDKVHIAA 343 (459)
T ss_pred cCCHHHHHhccCCCCHHHHHHHHHHHHHhCCCCEEEEEEEEECCCCCHHHHHHHHHHHHHcCCCEeEEEe
Confidence 34445566666552 2333445555554 554321 35569999999999999999999986343443
No 423
>cd07948 DRE_TIM_HCS Saccharomyces cerevisiae homocitrate synthase and related proteins, catalytic TIM barrel domain. Homocitrate synthase (HCS) catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate, the first step in the lysine biosynthesis pathway. This family includes the Yarrowia lipolytica LYS1 protein as well as the Saccharomyces cerevisiae LYS20 and LYS21 proteins. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. Th
Probab=28.48 E-value=3.5e+02 Score=24.19 Aligned_cols=95 Identities=14% Similarity=0.072 Sum_probs=57.8
Q ss_pred HHhHHHHHHHHHHHhhcCCeEEEEe-cCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcC-
Q 042073 27 EAGCVNLARHIANTKAYGVNVVVAV-NMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENV- 104 (225)
Q Consensus 27 ~~G~~NL~~HIeNi~~fGvpvVVAI-N~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~- 104 (225)
+.-+..+.+.|+..+..|+.|.+.+ ..|.+| .+++..+.+.+.+.|+..+.+++... -..-+-....++.+.+.
T Consensus 108 ~e~~~~~~~~i~~a~~~G~~v~~~~eda~r~~-~~~l~~~~~~~~~~g~~~i~l~Dt~G---~~~P~~v~~~~~~~~~~~ 183 (262)
T cd07948 108 TEIIESAVEVIEFVKSKGIEVRFSSEDSFRSD-LVDLLRVYRAVDKLGVNRVGIADTVG---IATPRQVYELVRTLRGVV 183 (262)
T ss_pred HHHHHHHHHHHHHHHHCCCeEEEEEEeeCCCC-HHHHHHHHHHHHHcCCCEEEECCcCC---CCCHHHHHHHHHHHHHhc
Confidence 4456777888888888898887776 467666 67777777777889998777777643 33333344444444322
Q ss_pred CCC--cccccCCCCCHHHHHHHH
Q 042073 105 TQP--LKFLYPSDVSIKEKIDTI 125 (225)
Q Consensus 105 ~~~--f~~lY~~~~~i~eKI~~I 125 (225)
+.+ |++=-+..+.+..=+..|
T Consensus 184 ~~~i~~H~Hn~~Gla~an~~~a~ 206 (262)
T cd07948 184 SCDIEFHGHNDTGCAIANAYAAL 206 (262)
T ss_pred CCeEEEEECCCCChHHHHHHHHH
Confidence 122 334334445554444433
No 424
>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=28.46 E-value=84 Score=27.71 Aligned_cols=88 Identities=9% Similarity=0.001 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCC--C
Q 042073 30 CVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQ--P 107 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~--~ 107 (225)
+.++.--...|-++++|.|+++|+..-=++. .+...+|..+.... ....+.. -..|.+++.++++.-.. .
T Consensus 142 ~s~~L~s~s~~~~~~lP~vnvlsK~Dl~~~~-~~~~l~~~~d~~~l-~~~~~~~------~~~l~~~i~~~l~~~~~~~~ 213 (238)
T PF03029_consen 142 VSSLLLSLSIMLRLELPHVNVLSKIDLLSKY-LEFILEWFEDPDSL-EDLLESD------YKKLNEEIAELLDDFGLVIR 213 (238)
T ss_dssp HHHHHHHHHHHHHHTSEEEEEE--GGGS-HH-HHHHHHHHHSHHHH-HHHHHT-------HHHHHHHHHHHCCCCSSS--
T ss_pred HHHHHHHHHHHhhCCCCEEEeeeccCcccch-hHHHHHHhcChHHH-HHHHHHH------HHHHHHHHHHHHhhcCCCce
Confidence 4555556666778999999999997543322 55555555432221 0111111 78899999999985322 3
Q ss_pred cccccC-CCCCHHHHHHHH
Q 042073 108 LKFLYP-SDVSIKEKIDTI 125 (225)
Q Consensus 108 f~~lY~-~~~~i~eKI~~I 125 (225)
|.|+-- ...++++=+..|
T Consensus 214 f~pls~~~~~~~~~L~~~i 232 (238)
T PF03029_consen 214 FIPLSSKDGEGMEELLAAI 232 (238)
T ss_dssp -EE-BTTTTTTHHHHHHHH
T ss_pred EEEEECCChHHHHHHHHHH
Confidence 555543 334555444443
No 425
>TIGR01859 fruc_bis_ald_ fructose-1,6-bisphosphate aldolase, class II, various bacterial and amitochondriate protist. This model represents of one of several subtypes of the class II fructose-1,6-bisphosphate aldolase, an enzyme of glycolysis. The subtypes are split into several models to allow separation of a family of tagatose bisphosphate aldolases. This form is found in Gram-positive bacteria, a variety of Gram-negative, and in amitochondriate protists. The class II enzymes share homology with tagatose bisphosphate aldolase but not with class I aldolase.
Probab=28.24 E-value=1.3e+02 Score=27.49 Aligned_cols=63 Identities=21% Similarity=0.134 Sum_probs=38.7
Q ss_pred HHHHHHHHHhh--cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCch---h-hHHHHHHHHHHhhc
Q 042073 32 NLARHIANTKA--YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGK---G-AVDLGIAVQRACEN 103 (225)
Q Consensus 32 NL~~HIeNi~~--fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~---G-a~~LA~~Vv~~~e~ 103 (225)
|+..-++..++ |++| |+|-+.. +-+..+.+.+++.+.+ +.+.- +.|.. | -..|+..|.+++++
T Consensus 3 ~~~~~l~~A~~~~yav~---Afn~~n~---e~~~avi~aAe~~~~P-vIl~~--~~~~~~~~~~~~~~~~~~~~~a~~ 71 (282)
T TIGR01859 3 NGKEILQKAKKEGYAVG---AFNFNNL---EWTQAILEAAEEENSP-VIIQV--SEGAIKYMGGYKMAVAMVKTLIER 71 (282)
T ss_pred CHHHHHHHHHHCCceEE---EEEECCH---HHHHHHHHHHHHhCCC-EEEEc--CcchhhccCcHHHHHHHHHHHHHH
Confidence 44445555543 6554 7777643 3478888888888886 66642 22221 3 45678888877765
No 426
>PRK01889 GTPase RsgA; Reviewed
Probab=28.20 E-value=2e+02 Score=26.87 Aligned_cols=61 Identities=20% Similarity=0.180 Sum_probs=37.9
Q ss_pred HHHHHHHHHhhcCCeEEEEecCCCCCcH--HHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHH
Q 042073 32 NLARHIANTKAYGVNVVVAVNMFATDSE--AELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAV 97 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN~F~~DT~--~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~V 97 (225)
-|+|-+..++..|+|+|+++|+-.--++ +.++.+.++ ..|+.-+.+| +.-|+|-.+|.+.+
T Consensus 130 ~ldr~L~~a~~~~i~piIVLNK~DL~~~~~~~~~~~~~~--~~g~~Vi~vS---a~~g~gl~~L~~~L 192 (356)
T PRK01889 130 RIERYLALAWESGAEPVIVLTKADLCEDAEEKIAEVEAL--APGVPVLAVS---ALDGEGLDVLAAWL 192 (356)
T ss_pred HHHHHHHHHHHcCCCEEEEEEChhcCCCHHHHHHHHHHh--CCCCcEEEEE---CCCCccHHHHHHHh
Confidence 4667777788899999999999765322 234455544 4577523233 33466766665554
No 427
>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=28.11 E-value=2.3e+02 Score=22.42 Aligned_cols=59 Identities=8% Similarity=-0.050 Sum_probs=33.6
Q ss_pred CCeEEEEecCCCCCcHHHHHHHHHHHHHcC--C-CeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 44 GVNVVVAVNMFATDSEAELNAVRIAAMAAG--A-FDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 44 GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g--~-~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
+.|+||+.|+..-......+.+++++...+ . +...+.+.=++-|.|-.++-+.+.+.+-
T Consensus 100 ~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~f~~l~~~~~ 161 (169)
T cd04158 100 DALLLIFANKQDVAGALSVEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEGLDWLSRQLV 161 (169)
T ss_pred CCCEEEEEeCcCcccCCCHHHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHHHHHHHHHHh
Confidence 489999999976532212233333332111 1 0123444557888998888877766543
No 428
>PRK05660 HemN family oxidoreductase; Provisional
Probab=28.08 E-value=2e+02 Score=26.99 Aligned_cols=58 Identities=12% Similarity=0.007 Sum_probs=29.5
Q ss_pred cccccHHHHHHh--HHHHHHHHHHHhhcCCeE--EEEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 18 YLNENVALVEAG--CVNLARHIANTKAYGVNV--VVAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 18 l~~eN~~al~~G--~~NL~~HIeNi~~fGvpv--VVAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
.+.+-+.++.++ .+...+.|+.+++.|++. |-.|--+|..|.+++..-.+.+.+.|+.
T Consensus 128 ~~~~~L~~l~r~~~~~~~~~ai~~~~~~G~~~v~~dli~Glpgqt~~~~~~~l~~~~~l~p~ 189 (378)
T PRK05660 128 FSEEKLKRLGRIHGPDEAKRAAKLAQGLGLRSFNLDLMHGLPDQSLEEALDDLRQAIALNPP 189 (378)
T ss_pred CCHHHHHHhCCCCCHHHHHHHHHHHHHcCCCeEEEEeecCCCCCCHHHHHHHHHHHHhcCCC
Confidence 333444444432 344445555556666542 2233445666666666666666666654
No 429
>PRK05628 coproporphyrinogen III oxidase; Validated
Probab=28.07 E-value=1.7e+02 Score=27.07 Aligned_cols=12 Identities=17% Similarity=0.243 Sum_probs=7.0
Q ss_pred HHHHCCCCCCCe
Q 042073 146 MYTRQGFSGLPF 157 (225)
Q Consensus 146 ~~e~~G~~~lPV 157 (225)
.+++.||.+.-+
T Consensus 232 ~l~~~G~~~ye~ 243 (375)
T PRK05628 232 RLSAAGFDWYEV 243 (375)
T ss_pred HHHHcCCCeeee
Confidence 455677765544
No 430
>cd08025 RNR_PFL_like_DUF711 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase. This subfamily contains Streptococcus pneumoniae Sp0239 and similar uncharacterized proteins. Sp0239 is structurally similar to ribonucleotide reductase (RNR) and pyruvate formate lyase (PFL), which are believed to have diverged from a common ancestor. RNR and PFL possess a ten-stranded alpha-beta barrel domain that hosts the active site, and are radical enzymes. RNRs are found in all organisms and provide the only mechanism by which nucleotides are converted to deoxynucleotides. PFL is an essential enzyme in anaerobic bacteria that catalyzes the conversion of pyruvate and CoA to acteylCoA and formate.
Probab=28.05 E-value=3.5e+02 Score=26.44 Aligned_cols=75 Identities=20% Similarity=0.258 Sum_probs=48.9
Q ss_pred HHHHhHHHHHHHHHHHh-hcCCeEE---EEecCCCC-----CcHH---HHHHHHHHHHHcCCCeEEEccccc----cC-c
Q 042073 25 LVEAGCVNLARHIANTK-AYGVNVV---VAVNMFAT-----DSEA---ELNAVRIAAMAAGAFDAVVCSHHA----HG-G 87 (225)
Q Consensus 25 al~~G~~NL~~HIeNi~-~fGvpvV---VAIN~F~~-----DT~~---Ei~~i~~~c~~~g~~~~avs~~wa----~G-G 87 (225)
.+.+=..||-+..+.+. +||+|+| +++|-|+- |.++ -.+.+-+.+++.|+. +.- .|+ +| .
T Consensus 44 ki~~~a~~lv~~~~~i~~e~GipI~nkRIsvtPi~~~~~~~~~~~~v~~a~~Ld~aa~~~gvd-fig--Gfsalv~kG~~ 120 (400)
T cd08025 44 KITSAAKRLVETVEEVSSELGVPIVNKRISVTPIAILAAGLDAEDYVEIAKTLDKAAKEVGVD-FIG--GFSALVQKGFT 120 (400)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCeEEEEEEeeCCHHHHhccCChhhHHHHHHHHHHHHHHCCCc-eee--hhhhhHhcCCC
Confidence 35566678888888885 4999988 78887764 4443 336677778899996 641 333 44 3
Q ss_pred hhhHHHHHHHHHHhh
Q 042073 88 KGAVDLGIAVQRACE 102 (225)
Q Consensus 88 ~Ga~~LA~~Vv~~~e 102 (225)
.|..+|-+.+-+++.
T Consensus 121 ~~d~~lI~sipeaL~ 135 (400)
T cd08025 121 RGDRALIESIPEALA 135 (400)
T ss_pred cccHHHHHHHHHHHH
Confidence 445555555555554
No 431
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).
Probab=27.96 E-value=3.3e+02 Score=22.15 Aligned_cols=36 Identities=11% Similarity=0.124 Sum_probs=26.0
Q ss_pred cCCe-EEEEecC-CCCCcHHHHHHHHHHHHHcCCCeEEE
Q 042073 43 YGVN-VVVAVNM-FATDSEAELNAVRIAAMAAGAFDAVV 79 (225)
Q Consensus 43 fGvp-vVVAIN~-F~~DT~~Ei~~i~~~c~~~g~~~~av 79 (225)
+|.+ .+|-+|. +..++++|.+.++++|++.|++ +.+
T Consensus 26 ~~~~v~~v~vd~g~~~~~~~~~~~~~~~~~~~gi~-~~~ 63 (189)
T TIGR02432 26 LKIRLIAAHVDHGLRPESDEEAEFVQQFCKKLNIP-LEI 63 (189)
T ss_pred cCCCEEEEEeCCCCChhHHHHHHHHHHHHHHcCCC-EEE
Confidence 4544 4455554 4557788999999999999997 444
No 432
>cd06556 ICL_KPHMT Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate lyase (ICL), 2-methylisocitrate lyase (MICL), and ketopantoate hydroxymethyltransferase (KPHMT).
Probab=27.90 E-value=3.7e+02 Score=23.92 Aligned_cols=115 Identities=15% Similarity=0.124 Sum_probs=66.8
Q ss_pred HHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEcccc--------ccCch-hhHHHHHH---HHHHhh
Q 042073 35 RHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHH--------AHGGK-GAVDLGIA---VQRACE 102 (225)
Q Consensus 35 ~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~w--------a~GG~-Ga~~LA~~---Vv~~~e 102 (225)
+++.+.++=| ..+++.|.|.. .-.+..+++|+. +.....| .+++. .-.++... |.+.+.
T Consensus 2 ~~~~~~~~~~-~~i~~~~ayD~-------~sA~i~e~aG~d-ai~v~~s~~a~~~G~pD~~~vtl~em~~~~~~I~r~~~ 72 (240)
T cd06556 2 WLLQKYKQEK-ERFATLTAYDY-------SMAKQFADAGLN-VMLVGDSQGMTVAGYDDTLPYPVNDVPYHVRAVRRGAP 72 (240)
T ss_pred HhHHHHHhCC-CeEEEecCCCH-------HHHHHHHHcCCC-EEEEChHHHHHhcCCCCCCCcCHHHHHHHHHHHHhhCC
Confidence 3466666555 67789999943 333455677886 5544333 34332 22233333 333332
Q ss_pred cCC--CCcccccCCCCCHHHHHHHHHh--HhccCCCCCCHH--HHHHHHHHHHCCCCCCCeeEeecCC
Q 042073 103 NVT--QPLKFLYPSDVSIKEKIDTIAR--SYGASGVEYSEE--AEKQIKMYTRQGFSGLPFCMAKTQH 164 (225)
Q Consensus 103 ~~~--~~f~~lY~~~~~i~eKI~~IA~--IYGA~~V~~s~~--A~~~l~~~e~~G~~~lPVCmAKTqy 164 (225)
..| .++-+-|-. +.++=++.+.+ --||++|.+.+. ...+++.+.+.| +||| |-|-.
T Consensus 73 ~~pviaD~~~G~g~--~~~~~~~~~~~l~~aGa~gv~iED~~~~~~~i~ai~~a~---i~Vi-aRtd~ 134 (240)
T cd06556 73 LALIVADLPFGAYG--APTAAFELAKTFMRAGAAGVKIEGGEWHIETLQMLTAAA---VPVI-AHTGL 134 (240)
T ss_pred CCCEEEeCCCCCCc--CHHHHHHHHHHHHHcCCcEEEEcCcHHHHHHHHHHHHcC---CeEE-EEeCC
Confidence 111 125556554 44554555555 368999999886 556788888888 5777 99865
No 433
>TIGR01949 AroFGH_arch predicted phospho-2-dehydro-3-deoxyheptonate aldolase. Together these two genes appear to perform the synthesis of 3-dehydroquinate. It is presumed that the substrates and the chemical transformations involved are identical, but this has not yet been proven experimentally.
Probab=27.88 E-value=4e+02 Score=23.43 Aligned_cols=66 Identities=15% Similarity=0.144 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHhhcCCeEEEEec----CCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHh
Q 042073 30 CVNLARHIANTKAYGVNVVVAVN----MFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRAC 101 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVVAIN----~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~ 101 (225)
+..+.+=.+-.+++|+|++|-+. +....+.+++....+.+.+.|+. ++-.. |. |..++-+++++.+
T Consensus 122 ~~~~~~i~~~~~~~g~~liv~~~~~Gvh~~~~~~~~~~~~~~~a~~~GAD-yikt~-~~----~~~~~l~~~~~~~ 191 (258)
T TIGR01949 122 IRDLGMIAEICDDWGVPLLAMMYPRGPHIDDRDPELVAHAARLGAELGAD-IVKTP-YT----GDIDSFRDVVKGC 191 (258)
T ss_pred HHHHHHHHHHHHHcCCCEEEEEeccCcccccccHHHHHHHHHHHHHHCCC-EEecc-CC----CCHHHHHHHHHhC
No 434
>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=27.82 E-value=2e+02 Score=22.79 Aligned_cols=56 Identities=11% Similarity=-0.023 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHhh--cCCeEEEEecCCCCCcHHHHHH------HHHHHHHcCCCeEEEccccccC
Q 042073 30 CVNLARHIANTKA--YGVNVVVAVNMFATDSEAELNA------VRIAAMAAGAFDAVVCSHHAHG 86 (225)
Q Consensus 30 ~~NL~~HIeNi~~--fGvpvVVAIN~F~~DT~~Ei~~------i~~~c~~~g~~~~avs~~wa~G 86 (225)
+.+....+..+.+ -++|++++.|+..-..+..++. +.+++++.+.. +..+..+.+.
T Consensus 83 ~~~~~~~l~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~-~~~~Sa~~~~ 146 (164)
T cd04162 83 LPLARQELHQLLQHPPDLPLVVLANKQDLPAARSVQEIHKELELEPIARGRRWI-LQGTSLDDDG 146 (164)
T ss_pred HHHHHHHHHHHHhCCCCCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCceE-EEEeeecCCC
Confidence 4455555555532 5899999999987543333322 24445555664 4444444433
No 435
>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=27.79 E-value=1.4e+02 Score=25.02 Aligned_cols=42 Identities=31% Similarity=0.237 Sum_probs=25.1
Q ss_pred HHHHHHHHhhcCCe-EEEEecCCCCC--cHHH----HHHHHHHHHHcCC
Q 042073 33 LARHIANTKAYGVN-VVVAVNMFATD--SEAE----LNAVRIAAMAAGA 74 (225)
Q Consensus 33 L~~HIeNi~~fGvp-vVVAIN~F~~D--T~~E----i~~i~~~c~~~g~ 74 (225)
..+|..-++.+++| +||++|+...- .++. .+.++++++..|.
T Consensus 118 ~~~~~~~~~~~~~~~iIvviNK~D~~~~~~~~~~~i~~~~~~~~~~~~~ 166 (208)
T cd04166 118 TRRHSYILSLLGIRHVVVAVNKMDLVDYSEEVFEEIVADYLAFAAKLGI 166 (208)
T ss_pred HHHHHHHHHHcCCCcEEEEEEchhcccCCHHHHHHHHHHHHHHHHHcCC
Confidence 34566666778876 67789997642 2221 2344555666775
No 436
>PRK08446 coproporphyrinogen III oxidase; Provisional
Probab=27.59 E-value=1.8e+02 Score=26.96 Aligned_cols=71 Identities=13% Similarity=0.127 Sum_probs=50.9
Q ss_pred CCCCccCCCCCccccccccHHHHHHh--HHHHHHHHHHHhhcCCeEE-E-EecCCCCCcHHHHHHHHHHHHHcCCCeE
Q 042073 4 GGPQVVAGKPLDHAYLNENVALVEAG--CVNLARHIANTKAYGVNVV-V-AVNMFATDSEAELNAVRIAAMAAGAFDA 77 (225)
Q Consensus 4 Gv~~~~lg~pl~~~l~~eN~~al~~G--~~NL~~HIeNi~~fGvpvV-V-AIN~F~~DT~~Ei~~i~~~c~~~g~~~~ 77 (225)
|+....+|- +.++.+-+..+.++ .+...+-|+.++++|++.| + .|=-+|..|.+++....+++.+.++..+
T Consensus 108 GvnRiSiGv---QS~~~~~L~~lgR~~~~~~~~~ai~~lr~~g~~~v~iDli~GlPgqt~~~~~~~l~~~~~l~~~~i 182 (350)
T PRK08446 108 GVNRISFGV---QSFNEDKLKFLGRIHSQKQIIKAIENAKKAGFENISIDLIYDTPLDNKKLLKEELKLAKELPINHL 182 (350)
T ss_pred CCCEEEEec---ccCCHHHHHHcCCCCCHHHHHHHHHHHHHcCCCEEEEEeecCCCCCCHHHHHHHHHHHHhcCCCEE
Confidence 334444444 55666667777654 6677888999999998643 2 3334699999999999999999998733
No 437
>cd02742 GH20_hexosaminidase Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides. These enzymes are broadly distributed in microorganisms, plants and animals, and play roles in various key physiological and pathological processes. These processes include cell structural integrity, energy storage, cellular signaling, fertilization, pathogen defense, viral penetration, the development of carcinomas, inflammatory events and lysosomal storage disorders. The GH20 enzymes include the eukaryotic beta-N-acetylhexosaminidases A and B, the bacterial chitobiases, dispersin B, and lacto-N-biosidase. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by the solvent or the enzyme, but by the substrate itself.
Probab=27.57 E-value=1.4e+02 Score=27.04 Aligned_cols=55 Identities=20% Similarity=0.215 Sum_probs=37.6
Q ss_pred HHHHHHHHHHhhcCCeEE-----------EEecCCCC----------------CcHHHHHHHHHHHHHcCCCeEEEcccc
Q 042073 31 VNLARHIANTKAYGVNVV-----------VAVNMFAT----------------DSEAELNAVRIAAMAAGAFDAVVCSHH 83 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvV-----------VAIN~F~~----------------DT~~Ei~~i~~~c~~~g~~~~avs~~w 83 (225)
.-|++.|+.|..++++++ +.+..||. =|.+|+..|.++|+++|+. + +-+.=
T Consensus 16 ~~lk~~id~ma~~K~N~lhlHl~D~~~~~le~~~~p~l~~~g~~~~~~~~~~~yT~~di~elv~yA~~rgI~-v-iPEiD 93 (303)
T cd02742 16 ESIKRTIDVLARYKINTFHWHLTDDQAWRIESKKFPELAEKGGQINPRSPGGFYTYAQLKDIIEYAAARGIE-V-IPEID 93 (303)
T ss_pred HHHHHHHHHHHHhCCcEEEEeeecCCCceEeeCccchhhhhcccccCCCCCCeECHHHHHHHHHHHHHcCCE-E-EEecc
Confidence 457778888888888776 33334442 3579999999999999996 4 43443
Q ss_pred ccCc
Q 042073 84 AHGG 87 (225)
Q Consensus 84 a~GG 87 (225)
.-|=
T Consensus 94 ~PGH 97 (303)
T cd02742 94 MPGH 97 (303)
T ss_pred chHH
Confidence 3333
No 438
>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=27.53 E-value=3e+02 Score=21.53 Aligned_cols=55 Identities=13% Similarity=-0.004 Sum_probs=31.7
Q ss_pred hcCCeEEEEecCCCCCcHH--HHHHHHHHHHHcC-CCeEEEccccccCchhhHHHHHHHHH
Q 042073 42 AYGVNVVVAVNMFATDSEA--ELNAVRIAAMAAG-AFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 42 ~fGvpvVVAIN~F~~DT~~--Ei~~i~~~c~~~g-~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
..++|+|++.|+...-... ..+...++.+..+ +. +.. .=++=|.|-.++-+.+++
T Consensus 104 ~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~-~~~--~SA~~~~~i~~~f~~i~~ 161 (168)
T cd04177 104 SDNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVP-FYE--TSARKRTNVDEVFIDLVR 161 (168)
T ss_pred CCCCCEEEEEEChhccccCccCHHHHHHHHHHcCCce-EEE--eeCCCCCCHHHHHHHHHH
Confidence 3689999999998532211 2233445556666 43 333 334456676666666654
No 439
>PRK09912 L-glyceraldehyde 3-phosphate reductase; Provisional
Probab=27.52 E-value=1.1e+02 Score=28.04 Aligned_cols=48 Identities=6% Similarity=0.111 Sum_probs=31.2
Q ss_pred HHHhhcCCeEEEEecCCCC-CcHHHHHHHHHHHHHcCCCeEEEccccccC
Q 042073 38 ANTKAYGVNVVVAVNMFAT-DSEAELNAVRIAAMAAGAFDAVVCSHHAHG 86 (225)
Q Consensus 38 eNi~~fGvpvVVAIN~F~~-DT~~Ei~~i~~~c~~~g~~~~avs~~wa~G 86 (225)
+.++.+++|+++.=+.|.- |...|.+-+.++|++.|+. +.....++.|
T Consensus 180 ~~~~~~~~~~~~~Q~~ynll~~~~~~~~ll~~~~~~gI~-via~spl~~G 228 (346)
T PRK09912 180 ELLREWKIPLLIHQPSYNLLNRWVDKSGLLDTLQNNGVG-CIAFTPLAQG 228 (346)
T ss_pred HHHHhcCCCcEEeeccCCceecccchhhHHHHHHHcCce-EEEehhhcCc
Confidence 4456688887665455542 4333445588999999996 6666666544
No 440
>TIGR00109 hemH ferrochelatase. Human ferrochelatase, found at the mitochondrial inner membrane inner surface, was shown in an active recombinant form to be a homodimer. This contrasts to an earlier finding by gel filtration that overexpressed E. coli ferrochelatase runs as a monomer.
Probab=27.48 E-value=3.2e+02 Score=25.16 Aligned_cols=64 Identities=19% Similarity=0.168 Sum_probs=28.5
Q ss_pred HHHHHhhcCCeEEEEec-CCCCCcHHHHHHHH----HHHHHcCCCeEEEccccccCchhhHHHHHHHHH
Q 042073 36 HIANTKAYGVNVVVAVN-MFATDSEAELNAVR----IAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQR 99 (225)
Q Consensus 36 HIeNi~~fGvpvVVAIN-~F~~DT~~Ei~~i~----~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~ 99 (225)
.++.+.+-|+.-|+.+- -|.+|.-|-+..+. +.+++.|..++..+..--+--.-...||+.|.+
T Consensus 251 ~l~~l~~~G~k~V~vvP~gFv~D~lETl~ei~~e~~~~~~~~G~~~~~~vp~lN~~p~fi~~l~~~v~~ 319 (322)
T TIGR00109 251 LLEKLGEQGVQHIVVVPIGFTADHLETLYEIDEEYREVAEDAGGDKYQRCPALNAKPEFIEAMATLVKK 319 (322)
T ss_pred HHHHHHHcCCceEEEECCcccccchhHHHhhhHHHHHHHHHcCCCeEEECCCCCCCHHHHHHHHHHHHH
Confidence 34444444542222222 46666544443332 455566664455444444444444444444433
No 441
>smart00642 Aamy Alpha-amylase domain.
Probab=27.47 E-value=2.1e+02 Score=23.79 Aligned_cols=50 Identities=14% Similarity=0.139 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHhhcCCeEEEE------------------ecCCCC----CcHHHHHHHHHHHHHcCCCeEEEc
Q 042073 30 CVNLARHIANTKAYGVNVVVA------------------VNMFAT----DSEAELNAVRIAAMAAGAFDAVVC 80 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVVA------------------IN~F~~----DT~~Ei~~i~~~c~~~g~~~~avs 80 (225)
+..+...+.-++..|+..|-. .+-|.- -|.+|++.+.+.|.++|+. +.+-
T Consensus 18 ~~gi~~~l~yl~~lG~~~I~l~Pi~~~~~~~~~~~gY~~~d~~~i~~~~Gt~~d~~~lv~~~h~~Gi~-vilD 89 (166)
T smart00642 18 LQGIIEKLDYLKDLGVTAIWLSPIFESPQGYPSYHGYDISDYKQIDPRFGTMEDFKELVDAAHARGIK-VILD 89 (166)
T ss_pred HHHHHHHHHHHHHCCCCEEEECcceeCCCCCCCCCCcCccccCCCCcccCCHHHHHHHHHHHHHCCCE-EEEE
Confidence 555666677777788777632 111111 2679999999999999996 6543
No 442
>PF14987 NADHdh_A3: NADH dehydrogenase 1 alpha subcomplex subunit 3
Probab=27.40 E-value=26 Score=26.82 Aligned_cols=32 Identities=34% Similarity=0.562 Sum_probs=26.0
Q ss_pred cCCCcCCC--CCCCceEEeeEEEeecCCceeeeecccccccCCCCCCCce
Q 042073 162 TQHSFSHN--APTGFILPIRDVRASIGAGFIYPLVGTISTMLGLPTRPCF 209 (225)
Q Consensus 162 TqyS~Sdd--~P~~f~~~vrdv~~~~GAgFiv~~~G~i~tMPGLpk~Paa 209 (225)
|-||..-| .|-+|-++|||= | .||..|.+|+.
T Consensus 39 tkYs~miN~atPynYPvPvrdd-------------G---nmpdvPshPqd 72 (84)
T PF14987_consen 39 TKYSVMINQATPYNYPVPVRDD-------------G---NMPDVPSHPQD 72 (84)
T ss_pred HhhhhhccCCCCccCcccccCC-------------C---CCCCCCCCCCC
Confidence 67888888 899999999984 4 57888888864
No 443
>PRK04004 translation initiation factor IF-2; Validated
Probab=27.39 E-value=3.3e+02 Score=27.39 Aligned_cols=26 Identities=23% Similarity=0.093 Sum_probs=20.6
Q ss_pred HHHHHHHHHHhhcCCeEEEEecCCCC
Q 042073 31 VNLARHIANTKAYGVNVVVAVNMFAT 56 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvVVAIN~F~~ 56 (225)
..-..|++.++..++|++|++|+...
T Consensus 110 ~qt~e~i~~~~~~~vpiIvviNK~D~ 135 (586)
T PRK04004 110 PQTIEAINILKRRKTPFVVAANKIDR 135 (586)
T ss_pred HhHHHHHHHHHHcCCCEEEEEECcCC
Confidence 34456777778899999999999865
No 444
>PRK12296 obgE GTPase CgtA; Reviewed
Probab=27.29 E-value=2.9e+02 Score=27.51 Aligned_cols=58 Identities=24% Similarity=0.168 Sum_probs=37.3
Q ss_pred cCCeEEEEecCCCCCcHHHH-HHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhc
Q 042073 43 YGVNVVVAVNMFATDSEAEL-NAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACEN 103 (225)
Q Consensus 43 fGvpvVVAIN~F~~DT~~Ei-~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~ 103 (225)
.+.|.||++|+-.--...++ +.+++..++.|+.-+.+| +.=|+|-.+|-+.+.+.++.
T Consensus 283 ~~kP~IVVlNKiDL~da~el~e~l~~~l~~~g~~Vf~IS---A~tgeGLdEL~~~L~ell~~ 341 (500)
T PRK12296 283 AERPRLVVLNKIDVPDARELAEFVRPELEARGWPVFEVS---AASREGLRELSFALAELVEE 341 (500)
T ss_pred cCCCEEEEEECccchhhHHHHHHHHHHHHHcCCeEEEEE---CCCCCCHHHHHHHHHHHHHh
Confidence 57899999999654223333 445555566677523333 34567888888888777754
No 445
>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=27.24 E-value=1.3e+02 Score=26.92 Aligned_cols=19 Identities=26% Similarity=0.293 Sum_probs=10.0
Q ss_pred CCeEEEEecCCCCCcHHHH
Q 042073 44 GVNVVVAVNMFATDSEAEL 62 (225)
Q Consensus 44 GvpvVVAIN~F~~DT~~Ei 62 (225)
++|+|+++|+-..=|++|+
T Consensus 143 ~v~vi~VinK~D~l~~~e~ 161 (276)
T cd01850 143 RVNIIPVIAKADTLTPEEL 161 (276)
T ss_pred cCCEEEEEECCCcCCHHHH
Confidence 4566666666544344443
No 446
>TIGR00238 KamA family protein. Note that the E. coli homolog was expressed in E. coli and purified and found not to display display lysine 2,3-aminomutase activity. Active site residues are found in 100 residue extension in B. subtilis. Name changed to KamA family protein.
Probab=27.12 E-value=4.1e+02 Score=24.54 Aligned_cols=53 Identities=8% Similarity=0.022 Sum_probs=28.6
Q ss_pred HHHhhcCCeEEEEe--cCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHH
Q 042073 38 ANTKAYGVNVVVAV--NMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVD 92 (225)
Q Consensus 38 eNi~~fGvpvVVAI--N~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~ 92 (225)
+-++++|+++++.. |+=..-| ++...-.+.+.++|+. +....+.-+|=--..+
T Consensus 214 ~~L~~~~~~~~~vsh~nh~~Ei~-~~~~~ai~~L~~aGi~-v~~qtvLl~gvnD~~~ 268 (331)
T TIGR00238 214 ELLASFELQLMLVTHINHCNEIT-EEFAEAMKKLRTVNVT-LLNQSVLLRGVNDRAQ 268 (331)
T ss_pred HHHHhcCCcEEEEccCCChHhCC-HHHHHHHHHHHHcCCE-EEeecceECCcCCCHH
Confidence 34555666655433 4422223 3333333455677885 7788888887554333
No 447
>TIGR01361 DAHP_synth_Bsub phospho-2-dehydro-3-deoxyheptonate aldolase. The member of this family from Synechocystis PCC 6803, CcmA, was shown to be essential for carboxysome formation. However, no other candidate for this enzyme is present in that species, chorismate biosynthesis does occur, other species having this protein lack carboxysomes but appear to make chorismate, and a requirement of CcmA for carboxysome formation does not prohibit a role in chorismate biosynthesis.
Probab=27.11 E-value=1.6e+02 Score=26.40 Aligned_cols=95 Identities=13% Similarity=0.157 Sum_probs=58.1
Q ss_pred HHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccc-ccc-CchhhHHHHHHHHHHhhcCCCCcccccC
Q 042073 36 HIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSH-HAH-GGKGAVDLGIAVQRACENVTQPLKFLYP 113 (225)
Q Consensus 36 HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~-wa~-GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~ 113 (225)
+++-+.+.|.||++-=..|. |.+|+....+.+++.|..++++++. .+- -+-.-.++=-.++..+.+ ...+...||
T Consensus 124 LL~~~a~~gkPVilk~G~~~--t~~e~~~Ave~i~~~Gn~~i~l~~rG~s~y~~~~~~~~dl~~i~~lk~-~~~~pV~~d 200 (260)
T TIGR01361 124 LLKEVGKQGKPVLLKRGMGN--TIEEWLYAAEYILSSGNGNVILCERGIRTFEKATRNTLDLSAVPVLKK-ETHLPIIVD 200 (260)
T ss_pred HHHHHhcCCCcEEEeCCCCC--CHHHHHHHHHHHHHcCCCcEEEEECCCCCCCCCCcCCcCHHHHHHHHH-hhCCCEEEc
Confidence 56677788999999877763 4899999999999999877888764 321 122222333334444432 124566675
Q ss_pred CCCCHH--HHHHHHHh---HhccCC
Q 042073 114 SDVSIK--EKIDTIAR---SYGASG 133 (225)
Q Consensus 114 ~~~~i~--eKI~~IA~---IYGA~~ 133 (225)
.+.+.- +=+..+|+ .+||++
T Consensus 201 s~Hs~G~r~~~~~~~~aAva~Ga~g 225 (260)
T TIGR01361 201 PSHAAGRRDLVIPLAKAAIAAGADG 225 (260)
T ss_pred CCCCCCccchHHHHHHHHHHcCCCE
Confidence 554322 33334433 777875
No 448
>cd07575 Xc-1258_like Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases). Uncharacterized subgroup belonging to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), class 13 represents proteins that at the time were difficult to place in a distinct similarity group; this subgroup either represents a new class or one that was included previously in class 13. Members of this superfamily generally form homomeric complexes, the basic building block of which is a homodimer. XC1258 is a homotetramer.
Probab=27.10 E-value=2.1e+02 Score=24.58 Aligned_cols=53 Identities=19% Similarity=0.226 Sum_probs=33.6
Q ss_pred HHHhHHHHHHHHHHHhhcCCeEEE----EecCCCCCc--------HHHHHHHHHHHHHcCCCeEEEc
Q 042073 26 VEAGCVNLARHIANTKAYGVNVVV----AVNMFATDS--------EAELNAVRIAAMAAGAFDAVVC 80 (225)
Q Consensus 26 l~~G~~NL~~HIeNi~~fGvpvVV----AIN~F~~DT--------~~Ei~~i~~~c~~~g~~~~avs 80 (225)
++..+.++.++|+...+ |.-+|| ++--|..+. ...++.+++.+++.|+. ++.+
T Consensus 15 ~~~N~~~~~~~i~~a~~-gadlvvfPE~~l~g~~~~~~~~~~~~~~~~~~~l~~la~~~~i~-i~~~ 79 (252)
T cd07575 15 PEANLAHFEEKIEQLKE-KTDLIVLPEMFTTGFSMNAEALAEPMNGPTLQWMKAQAKKKGAA-ITGS 79 (252)
T ss_pred HHHHHHHHHHHHHHhhc-CCCEEEeCCcCcCCCCccHHHhhcccCChHHHHHHHHHHHCCeE-EEEE
Confidence 55566667777777777 888877 222232221 24577899999998874 4443
No 449
>PLN02299 1-aminocyclopropane-1-carboxylate oxidase
Probab=27.09 E-value=2.2e+02 Score=26.22 Aligned_cols=51 Identities=18% Similarity=0.281 Sum_probs=33.1
Q ss_pred CCeEEEEecCCCC-CcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 44 GVNVVVAVNMFAT-DSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 44 GvpvVVAIN~F~~-DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
.+|+| -+..+.+ |.+++++.|.+.|++.|.. .+.+| |- ..+|-+++.+++.
T Consensus 6 ~iPvI-Dls~~~~~~~~~~~~~l~~A~~~~GFF--~v~nH----GI-~~~l~~~~~~~~~ 57 (321)
T PLN02299 6 SFPVI-DMEKLNGEERAATMELIKDACENWGFF--ELVNH----GI-SHELMDEVEKMTK 57 (321)
T ss_pred CCCEE-ECcCCCcccHHHHHHHHHHHHHhcCEE--EEECC----CC-CHHHHHHHHHHHH
Confidence 46644 4555533 4456789999999999994 56666 22 4566666666553
No 450
>PF08821 CGGC: CGGC domain; InterPro: IPR014925 Proteins in this entry are a quite highly conserved sequence of CGGC in its central region. The region has many conserved cysteines and histidines suggestive of a zinc binding function.
Probab=26.91 E-value=1.7e+02 Score=23.07 Aligned_cols=51 Identities=18% Similarity=0.267 Sum_probs=33.5
Q ss_pred HHHHHHHHHHhhcCCeEEEEecCCCCCcH----HHHHHHHHHHHHc-CCCeEEEccc
Q 042073 31 VNLARHIANTKAYGVNVVVAVNMFATDSE----AELNAVRIAAMAA-GAFDAVVCSH 82 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvpvVVAIN~F~~DT~----~Ei~~i~~~c~~~-g~~~~avs~~ 82 (225)
.+|.+-++.|+++|+.+|--=+=...+++ --++.+.+..++. |++ ++.-+|
T Consensus 52 ~~~~~~~~~l~~~~~d~IHlssC~~~~~~~~~CP~~~~~~~~I~~~~gi~-VV~GTH 107 (107)
T PF08821_consen 52 RKLVRRIKKLKKNGADVIHLSSCMVKGNPHGPCPHIDEIKKIIEEKFGIE-VVEGTH 107 (107)
T ss_pred hHHHHHHHHHHHCCCCEEEEcCCEecCCCCCCCCCHHHHHHHHHHHhCCC-EeeecC
Confidence 37778888999999998775554333331 1266666776666 986 765543
No 451
>PF04312 DUF460: Protein of unknown function (DUF460); InterPro: IPR007408 This is an archaeal protein of unknown function.
Probab=26.87 E-value=1.2e+02 Score=25.28 Aligned_cols=19 Identities=32% Similarity=0.405 Sum_probs=12.9
Q ss_pred HHHHHhhcCCeEEEEecCC
Q 042073 36 HIANTKAYGVNVVVAVNMF 54 (225)
Q Consensus 36 HIeNi~~fGvpvVVAIN~F 54 (225)
=|+-+.++|.|+|||--.-
T Consensus 68 vi~~I~~~G~PviVAtDV~ 86 (138)
T PF04312_consen 68 VIEWISEYGKPVIVATDVS 86 (138)
T ss_pred HHHHHHHcCCEEEEEecCC
Confidence 4667777888888865443
No 452
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=26.86 E-value=3.6e+02 Score=22.21 Aligned_cols=121 Identities=17% Similarity=0.171 Sum_probs=62.1
Q ss_pred HHHHHhhcCCeEEEEecC---------CCCCcHHHHHHHHHHHHHc--CCCeEEEccccccCchhhHHHHHHHHHHhhcC
Q 042073 36 HIANTKAYGVNVVVAVNM---------FATDSEAELNAVRIAAMAA--GAFDAVVCSHHAHGGKGAVDLGIAVQRACENV 104 (225)
Q Consensus 36 HIeNi~~fGvpvVVAIN~---------F~~DT~~Ei~~i~~~c~~~--g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~ 104 (225)
-++.++..|+|+|..-+. ...|..+--..+.+++.+. |...+++-.. ..+.....+..+...+.+++.
T Consensus 72 ~l~~l~~~~ipvv~~~~~~~~~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~-~~~~~~~~~r~~g~~~~l~~~ 150 (268)
T cd06323 72 AVKAANEAGIPVFTIDREANGGEVVSQIASDNVAGGKMAAEYLVKLLGGKGKVVELQG-IPGASAARERGKGFHEVVDKY 150 (268)
T ss_pred HHHHHHHCCCcEEEEccCCCCCceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeC-CCCCccHHHHHHHHHHHHHhC
Confidence 456667788998876331 1245555556677777766 6654554322 122334456666677776642
Q ss_pred CCCcccc--cCCCCC---HHHHHHHHHh-HhccCCC--CCCHHHHHHHHHHHHCCCCCCCee
Q 042073 105 TQPLKFL--YPSDVS---IKEKIDTIAR-SYGASGV--EYSEEAEKQIKMYTRQGFSGLPFC 158 (225)
Q Consensus 105 ~~~f~~l--Y~~~~~---i~eKI~~IA~-IYGA~~V--~~s~~A~~~l~~~e~~G~~~lPVC 158 (225)
..+... +..+.+ ..+.+..+.+ -...+.| ..+..|.--++.++++|.++++|+
T Consensus 151 -~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~~di~ii 211 (268)
T cd06323 151 -PGLKVVASQPADFDRAKGLNVMENILQAHPDIKGVFAQNDEMALGAIEALKAAGKDDVKVV 211 (268)
T ss_pred -CCcEEEecccCCCCHHHHHHHHHHHHHHCCCcCEEEEcCCchHHHHHHHHHHcCCCCcEEE
Confidence 123322 111222 2333433332 1112222 223445566778888888777775
No 453
>PF06041 DUF924: Bacterial protein of unknown function (DUF924); InterPro: IPR010323 This entry consists of several hypothetical bacterial proteins of unknown function.; PDB: 2I6H_B.
Probab=26.84 E-value=45 Score=28.67 Aligned_cols=34 Identities=18% Similarity=0.155 Sum_probs=22.8
Q ss_pred HHHhHHHHHHHHHHHhhcCCeEEEEecCCCC--------CcHHHHHHHHH
Q 042073 26 VEAGCVNLARHIANTKAYGVNVVVAVNMFAT--------DSEAELNAVRI 67 (225)
Q Consensus 26 l~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~--------DT~~Ei~~i~~ 67 (225)
++.-+.=-.+|-+.|++|| |||. .|+||+++|.+
T Consensus 144 ~~~~~~~a~~H~~iI~rFG--------RfPhRN~~LGR~sT~eE~~~L~~ 185 (188)
T PF06041_consen 144 FKGFLDFAKRHRDIIERFG--------RFPHRNAALGRESTPEELAYLAQ 185 (188)
T ss_dssp ---HHHHHHHHHHHHHHHS--------S-GGGCCCCT----HHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHhC--------CCcccccccCCCCCHHHHHHHHc
Confidence 3345556679999999998 6775 89999998864
No 454
>PRK00090 bioD dithiobiotin synthetase; Reviewed
Probab=26.81 E-value=2.4e+02 Score=23.62 Aligned_cols=23 Identities=13% Similarity=0.157 Sum_probs=9.5
Q ss_pred HHHHHHhhcCCeE-EEEecCCCCC
Q 042073 35 RHIANTKAYGVNV-VVAVNMFATD 57 (225)
Q Consensus 35 ~HIeNi~~fGvpv-VVAIN~F~~D 57 (225)
..++.+++.|+++ -|.+|++..+
T Consensus 152 ~~i~~l~~~~~~i~gvIlN~~~~~ 175 (222)
T PRK00090 152 LTLEAIRARGLPLAGWVANGIPPE 175 (222)
T ss_pred HHHHHHHHCCCCeEEEEEccCCCc
Confidence 3333344444443 2344554443
No 455
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=26.80 E-value=21 Score=23.96 Aligned_cols=39 Identities=15% Similarity=0.082 Sum_probs=28.5
Q ss_pred HHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhc
Q 042073 65 VRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACEN 103 (225)
Q Consensus 65 i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~ 103 (225)
|++.++.+|+....+|.++..-+.=..+..++|.+++++
T Consensus 2 i~dIA~~agvS~~TVSr~ln~~~~vs~~tr~rI~~~a~~ 40 (46)
T PF00356_consen 2 IKDIAREAGVSKSTVSRVLNGPPRVSEETRERILEAAEE 40 (46)
T ss_dssp HHHHHHHHTSSHHHHHHHHTTCSSSTHHHHHHHHHHHHH
T ss_pred HHHHHHHHCcCHHHHHHHHhCCCCCCHHHHHHHHHHHHH
Confidence 567778888876677777776666667777788777764
No 456
>PRK13798 putative OHCU decarboxylase; Provisional
Probab=26.76 E-value=81 Score=26.69 Aligned_cols=15 Identities=7% Similarity=0.217 Sum_probs=12.5
Q ss_pred HhhcCCeEEEEecCC
Q 042073 40 TKAYGVNVVVAVNMF 54 (225)
Q Consensus 40 i~~fGvpvVVAIN~F 54 (225)
-.+||.|.||+.+.-
T Consensus 109 ~~kFGfpFii~v~g~ 123 (166)
T PRK13798 109 EEKFGFVFLICATGR 123 (166)
T ss_pred HHhCCCeEEEeeCCC
Confidence 357999999999854
No 457
>cd00885 cinA Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.
Probab=26.65 E-value=3.8e+02 Score=22.36 Aligned_cols=70 Identities=21% Similarity=0.189 Sum_probs=37.3
Q ss_pred ccCCCCCCHHHHHHHHHHHHCCCCCCCeeEeecCCCcCCCCCCCceEEeeEEEeecCCceeeeecc-cccccCCCCCC
Q 042073 130 GASGVEYSEEAEKQIKMYTRQGFSGLPFCMAKTQHSFSHNAPTGFILPIRDVRASIGAGFIYPLVG-TISTMLGLPTR 206 (225)
Q Consensus 130 GA~~V~~s~~A~~~l~~~e~~G~~~lPVCmAKTqyS~Sdd~P~~f~~~vrdv~~~~GAgFiv~~~G-~i~tMPGLpk~ 206 (225)
....+.+.+++.+.|+++-...-..++-.-.| |-. .|+|-++-.+..- .--||.+-.-| .|.-|||-|..
T Consensus 84 ~~~~l~~~~e~~~~i~~~~~~~~~~~~~~~~r-~a~----~p~ga~~i~N~~G--~apg~~~~~~~~~i~~lPG~P~e 154 (170)
T cd00885 84 FGRPLVLDEEALERIEARFARRGREMTEANLK-QAM----LPEGATLLPNPVG--TAPGFSVEHNGKNVFLLPGVPSE 154 (170)
T ss_pred hCCCcccCHHHHHHHHHHHHhcCCccChhhhh-eec----CCCCCEECcCCCC--EeeEEEEEeCCeEEEEECCChHH
Confidence 35678888888888887654321111100000 111 6777666444321 22355544323 68899999864
No 458
>CHL00067 rps2 ribosomal protein S2
Probab=26.57 E-value=85 Score=27.82 Aligned_cols=55 Identities=16% Similarity=0.186 Sum_probs=33.2
Q ss_pred HHHHHHhHHHHHHHHHHHhh-cCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccc
Q 042073 23 VALVEAGCVNLARHIANTKA-YGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSH 82 (225)
Q Consensus 23 ~~al~~G~~NL~~HIeNi~~-fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~ 82 (225)
.-.+.+=..+|++.+..++. -..|=+| |-.|...|..+|+| |..+|++-+++++-
T Consensus 138 ~~~~~~~~~kl~k~~~Gi~~m~~~P~~i----iv~d~~~~~~ai~E-a~~l~IPvIaivDT 193 (230)
T CHL00067 138 AAILKRQLSRLEKYLGGIKYMTKLPDIV----IIIDQQEEYTALRE-CRKLGIPTISILDT 193 (230)
T ss_pred HHHHHHHHHHHHHhhccccccccCCCEE----EEeCCcccHHHHHH-HHHcCCCEEEEEeC
Confidence 33344444455555444443 3577666 34666777777766 67799987777754
No 459
>KOG1322 consensus GDP-mannose pyrophosphorylase/mannose-1-phosphate guanylyltransferase [Cell wall/membrane/envelope biogenesis]
Probab=26.52 E-value=2.1e+02 Score=27.64 Aligned_cols=69 Identities=13% Similarity=0.189 Sum_probs=50.2
Q ss_pred HHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEcc-ccccCchhhHHHHHHHHHHhhc
Q 042073 33 LARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCS-HHAHGGKGAVDLGIAVQRACEN 103 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~-~wa~GG~Ga~~LA~~Vv~~~e~ 103 (225)
+...|+|+.+-|+.=||.+=.|.+-+-- ..+.+.+-.++|+. +.-|. -=-.|=+|-++|||+.+..-+.
T Consensus 43 I~hqieal~nsGi~~I~la~~y~s~sl~-~~~~k~y~~~lgVe-i~~s~eteplgtaGpl~laR~~L~~~~~ 112 (371)
T KOG1322|consen 43 ILHQIEALINSGITKIVLATQYNSESLN-RHLSKAYGKELGVE-ILASTETEPLGTAGPLALARDFLWVFED 112 (371)
T ss_pred hHHHHHHHHhCCCcEEEEEEecCcHHHH-HHHHHHhhhccceE-EEEEeccCCCcccchHHHHHHHhhhcCC
Confidence 5667999999999988887778775432 34667777788885 43332 2256778999999999987653
No 460
>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase. Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.
Probab=26.50 E-value=2.1e+02 Score=23.98 Aligned_cols=52 Identities=19% Similarity=0.148 Sum_probs=35.2
Q ss_pred ccHHHHHHhHHHHHHHHHHHhh-cCCeEE-EEecCCCCCcHHHHHHHHHHHHHcCCC
Q 042073 21 ENVALVEAGCVNLARHIANTKA-YGVNVV-VAVNMFATDSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 21 eN~~al~~G~~NL~~HIeNi~~-fGvpvV-VAIN~F~~DT~~Ei~~i~~~c~~~g~~ 75 (225)
++..++ .|+..+.+.++.+++ +++++. |.+|++... .+-+.+.+++++.|..
T Consensus 151 p~~~sl-~~~~~l~~~i~~~~~~~~~~~~gvv~N~~~~~--~~~~~~~~~~~~~~~~ 204 (212)
T cd02117 151 GEFMAL-YAANNICKGIRKYAKSGGVRLGGLICNSRNTD--RETELIDAFAERLGTQ 204 (212)
T ss_pred ccHHHH-HHHHHHHHHHHHhCcccCCcEEEEEEeCCCCc--cHHHHHHHHHHHcCCC
Confidence 344443 367788888888865 476654 889999766 3334577888887775
No 461
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=26.49 E-value=72 Score=23.98 Aligned_cols=30 Identities=13% Similarity=0.110 Sum_probs=24.6
Q ss_pred HHHHhHHHHHHHHHHHhhcCCeEEEEecCC
Q 042073 25 LVEAGCVNLARHIANTKAYGVNVVVAVNMF 54 (225)
Q Consensus 25 al~~G~~NL~~HIeNi~~fGvpvVVAIN~F 54 (225)
.|--.=.++.|||+.+|.-|+++-..-|++
T Consensus 28 ~LgiSRtaVwK~Iq~Lr~~G~~I~s~~~kG 57 (79)
T COG1654 28 ELGISRTAVWKHIQQLREEGVDIESVRGKG 57 (79)
T ss_pred HHCccHHHHHHHHHHHHHhCCceEecCCCc
Confidence 344455799999999999999998888865
No 462
>CHL00198 accA acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional
Probab=26.49 E-value=2.5e+02 Score=26.47 Aligned_cols=61 Identities=16% Similarity=0.420 Sum_probs=40.3
Q ss_pred HhHHHHHHHHHHHhhcCCeEEEEecC---CCCCcHHHH---HHHHHHH---HHcCCCeEEEccccccCchhh
Q 042073 28 AGCVNLARHIANTKAYGVNVVVAVNM---FATDSEAEL---NAVRIAA---MAAGAFDAVVCSHHAHGGKGA 90 (225)
Q Consensus 28 ~G~~NL~~HIeNi~~fGvpvVVAIN~---F~~DT~~Ei---~~i~~~c---~~~g~~~~avs~~wa~GG~Ga 90 (225)
.|.....|.++...+||+|+|--++- ++.-..+|- ..+.+.. ....++ .+|=+-.+||-|+
T Consensus 138 ~g~rKa~Rlm~lA~~f~lPIItlvDTpGA~~G~~AE~~G~~~aiar~l~~~a~~~VP--~IsVViGeggsGG 207 (322)
T CHL00198 138 GGYRKALRLMKHANKFGLPILTFIDTPGAWAGVKAEKLGQGEAIAVNLREMFSFEVP--IICTIIGEGGSGG 207 (322)
T ss_pred HHHHHHHHHHHHHHHcCCCEEEEEeCCCcCcCHHHHHHhHHHHHHHHHHHHHcCCCC--EEEEEeCcccHHH
Confidence 45666778888888999999999984 665444432 3343332 345665 5666777776665
No 463
>cd01885 EF2 EF2 (for archaea and eukarya). Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco
Probab=26.36 E-value=1.2e+02 Score=26.52 Aligned_cols=25 Identities=12% Similarity=0.111 Sum_probs=20.0
Q ss_pred HHHHHHHHHhhcCCeEEEEecCCCC
Q 042073 32 NLARHIANTKAYGVNVVVAVNMFAT 56 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN~F~~ 56 (225)
.-+++++...+.|+|+||++|+..-
T Consensus 113 ~t~~~l~~~~~~~~p~ilviNKiD~ 137 (222)
T cd01885 113 QTETVLRQALKERVKPVLVINKIDR 137 (222)
T ss_pred HHHHHHHHHHHcCCCEEEEEECCCc
Confidence 4467777777789999999999864
No 464
>PF05209 MinC_N: Septum formation inhibitor MinC, N-terminal domain; InterPro: IPR007874 In Escherichia coli FtsZ (P0A9A6 from SWISSPROT) assembles into a Z ring at midcell. Its assembly at polar sites is prevented by the min system. MinC P18196 from SWISSPROT, a component of this system, is an inhibitor of FtsZ assembly that is positioned within the cell by interaction with the MinDE proteins. MinC is an oligomer, probably a dimer []. The C-terminal half of MinC is the most conserved and interacts with MinD. The N-terminal half is thought to interact with FtsZ. MinC rapidly oscillates between the poles of the cell to destabilise FtsZ filaments that have formed before they mature into polar Z rings; GO: 0051302 regulation of cell division; PDB: 3GHF_A 1HF2_C.
Probab=26.26 E-value=69 Score=24.29 Aligned_cols=55 Identities=18% Similarity=0.193 Sum_probs=41.9
Q ss_pred cccHHHHHHhHHHHHHHHHHHhhc--CCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEE
Q 042073 20 NENVALVEAGCVNLARHIANTKAY--GVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVV 79 (225)
Q Consensus 20 ~eN~~al~~G~~NL~~HIeNi~~f--GvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~av 79 (225)
..|++.+.+ .|...++..-+| |-|+|+=+-.. +++.+++.+.+.|++.|...+.+
T Consensus 22 ~~d~~~l~~---~L~~ki~~ap~FF~~~pvvldl~~l--~~~~dl~~L~~~l~~~gl~~vgv 78 (99)
T PF05209_consen 22 SADLDELLQ---ALDEKIAQAPDFFKNAPVVLDLSNL--PDELDLAALVELLRRHGLRPVGV 78 (99)
T ss_dssp SS-HHHHHH---HHHHHHHHTHHHCTTTEEEEEEEEE--ETTHHHHHHHHHHHCCCHCCCCE
T ss_pred CCCHHHHHH---HHHHHHHhChHhHcCCCeEEehhhc--CChhhHHHHHHHHHHcCCEEEEe
Confidence 456666654 556677777774 99999999888 56678999999999999975555
No 465
>cd02801 DUS_like_FMN Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also in some archaea. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. It is likely that different family members have different substrate specificities, which may overlap. 1VHN, a putative flavin oxidoreductase, has high sequence similarity to DUS. The enzymatic mechanism of 1VHN is not known at the present.
Probab=26.19 E-value=3.9e+02 Score=22.38 Aligned_cols=36 Identities=11% Similarity=0.017 Sum_probs=27.4
Q ss_pred hcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEc
Q 042073 42 AYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVC 80 (225)
Q Consensus 42 ~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs 80 (225)
.-++|+++-|. ..+.+++....+.+.++|+..+.++
T Consensus 52 ~~~~p~~~qi~---g~~~~~~~~aa~~~~~aG~d~ieln 87 (231)
T cd02801 52 PEERPLIVQLG---GSDPETLAEAAKIVEELGADGIDLN 87 (231)
T ss_pred ccCCCEEEEEc---CCCHHHHHHHHHHHHhcCCCEEEEe
Confidence 47899998876 4457888888888888899744443
No 466
>PRK14057 epimerase; Provisional
Probab=26.17 E-value=3.1e+02 Score=24.96 Aligned_cols=23 Identities=9% Similarity=0.027 Sum_probs=18.5
Q ss_pred HHHHHHHHHHhhcCCe---------EEEEecC
Q 042073 31 VNLARHIANTKAYGVN---------VVVAVNM 53 (225)
Q Consensus 31 ~NL~~HIeNi~~fGvp---------vVVAIN~ 53 (225)
.++.+=|+.+|+.|.+ +=||||-
T Consensus 110 ~~~~~~l~~Ir~~G~k~~~~~~~~kaGlAlnP 141 (254)
T PRK14057 110 IHLHHTLSWLGQQTVPVIGGEMPVIRGISLCP 141 (254)
T ss_pred cCHHHHHHHHHHcCCCcccccccceeEEEECC
Confidence 4577777889999975 8999995
No 467
>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional
Probab=26.07 E-value=2.5e+02 Score=27.72 Aligned_cols=62 Identities=18% Similarity=0.358 Sum_probs=38.8
Q ss_pred HHhHHHHHHHHHHHhhcCCeEEEEecC---CCCCcHHHH---HHHHHHH---HHcCCCeEEEccccccCchhh
Q 042073 27 EAGCVNLARHIANTKAYGVNVVVAVNM---FATDSEAEL---NAVRIAA---MAAGAFDAVVCSHHAHGGKGA 90 (225)
Q Consensus 27 ~~G~~NL~~HIeNi~~fGvpvVVAIN~---F~~DT~~Ei---~~i~~~c---~~~g~~~~avs~~wa~GG~Ga 90 (225)
..|.....|=++-..+|++|+|--||- |+....||- +.+.+.. ..++++ .+|=+-.+||-|+
T Consensus 204 peGyRKAlR~mklAekf~lPIVtLVDTpGA~pG~~AEe~Gqa~aIAr~l~ams~l~VP--iISVViGeGgSGG 274 (431)
T PLN03230 204 PNGYRKALRFMRHAEKFGFPILTFVDTPGAYAGIKAEELGQGEAIAFNLREMFGLRVP--IIATVIGEGGSGG 274 (431)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEEEeCCCcCCCHHHHHHhHHHHHHHHHHHHhcCCCC--EEEEEeCCCCcHH
Confidence 345556667777778899999999994 666554552 2233322 345676 4666777764444
No 468
>TIGR03310 matur_ygfJ molybdenum hydroxylase accessory protein, YgfJ family. Members of this protein family are probable accessory proteins for the biosynthesis of enzymes related to xanthine dehydrogenase. Comparative genomics suggests a role in the maturation of selenium-dependent molybdenum hydroxylases, although a tenuous alternative hypothesis is a role for this protein (with a requirement for SelD, the selenium donor protein in the selenocysteine and selenouridine biosynthesis pathways) metabolizing a selenium-containing substrate such as selenate.
Probab=26.03 E-value=1.2e+02 Score=24.23 Aligned_cols=62 Identities=19% Similarity=0.214 Sum_probs=37.5
Q ss_pred HhHHHHHHHHHHHhhcCCe-EEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHH
Q 042073 28 AGCVNLARHIANTKAYGVN-VVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIA 96 (225)
Q Consensus 28 ~G~~NL~~HIeNi~~fGvp-vVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~ 96 (225)
.|-+=|++.++++++.++. +||+.+.- ..+ .+..++...++. +.....|..|..+++..|-+
T Consensus 23 ~g~pll~~~i~~l~~~~~~~iivv~~~~----~~~--~~~~~~~~~~v~-~v~~~~~~~g~~~si~~~l~ 85 (188)
T TIGR03310 23 KGKTILEHVVDNALRLFFDEVILVLGHE----ADE--LVALLANHSNIT-LVHNPQYAEGQSSSIKLGLE 85 (188)
T ss_pred CCeeHHHHHHHHHHHcCCCcEEEEeCCc----HHH--HHHHhccCCCeE-EEECcChhcCHHHHHHHHhc
Confidence 4666778888898876654 55655532 122 234445456775 66666787776666555543
No 469
>PRK07328 histidinol-phosphatase; Provisional
Probab=25.93 E-value=38 Score=30.01 Aligned_cols=52 Identities=17% Similarity=0.098 Sum_probs=38.2
Q ss_pred HHHHHHhHHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccc
Q 042073 23 VALVEAGCVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSH 82 (225)
Q Consensus 23 ~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~ 82 (225)
+++++.|..+..-|...++.|+.. +..+.++.++.+.+.|++.|+. ..+++.
T Consensus 147 ~~~~~~~~~dvlgH~d~i~~~~~~-------~~~~~~~~~~~il~~~~~~g~~-lEiNt~ 198 (269)
T PRK07328 147 EQAARSGLFDIIGHPDLIKKFGHR-------PREDLTELYEEALDVIAAAGLA-LEVNTA 198 (269)
T ss_pred HHHHHcCCCCEeeCccHHHHcCCC-------CchhHHHHHHHHHHHHHHcCCE-EEEEch
Confidence 445666777777788888877642 3344567778899999999996 888873
No 470
>PRK04161 tagatose 1,6-diphosphate aldolase; Reviewed
Probab=25.93 E-value=2.1e+02 Score=27.18 Aligned_cols=146 Identities=19% Similarity=0.239 Sum_probs=87.8
Q ss_pred HHHHHhhcCCeEEEEecCCCCCcHHHHH--------HHHHHHHHcCCCeEEE---ccccccCchhhHHHHHH----HHHH
Q 042073 36 HIANTKAYGVNVVVAVNMFATDSEAELN--------AVRIAAMAAGAFDAVV---CSHHAHGGKGAVDLGIA----VQRA 100 (225)
Q Consensus 36 HIeNi~~fGvpvVVAIN~F~~DT~~Ei~--------~i~~~c~~~g~~~~av---s~~wa~GG~Ga~~LA~~----Vv~~ 100 (225)
-.+.+|.+|--.|=.+=.|..|.++||+ .|-+.|++.+.+ +.+ +.--..+.+...+-|+. |+++
T Consensus 112 s~~rike~GadavK~Llyy~pD~~~ein~~k~a~vervg~eC~a~dip-f~lE~l~Yd~~~~d~~~~eyak~kP~~V~~a 190 (329)
T PRK04161 112 SVKRLKEAGADAVKFLLYYDVDGDEEINDQKQAYIERIGSECTAEDIP-FFLELLTYDERISDNNSAAYAKLKPHKVNGA 190 (329)
T ss_pred hHHHHHHhCCCeEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCC-eEEEEeccCCcccccccHHHHhhChHHHHHH
Confidence 4556688888888777788888777654 344569999997 544 33233445666777755 8888
Q ss_pred hhcC--CC----CcccccCCCCCHHHHHHHHHhHhccCCCCCCHHHH-HHHHHHHHCCCCCCCeeEeecCCCcCCCCCCC
Q 042073 101 CENV--TQ----PLKFLYPSDVSIKEKIDTIARSYGASGVEYSEEAE-KQIKMYTRQGFSGLPFCMAKTQHSFSHNAPTG 173 (225)
Q Consensus 101 ~e~~--~~----~f~~lY~~~~~i~eKI~~IA~IYGA~~V~~s~~A~-~~l~~~e~~G~~~lPVCmAKTqyS~Sdd~P~~ 173 (225)
+..= +. -+|--||.++... .-||...+.||.+.. +-.++.... .++|-.+ ||.-++..
T Consensus 191 mkefs~~~~gvDVlKvEvPvn~~~v-------eG~~~g~~~yt~~eA~~~f~~~~~~--~~~P~i~------LSaGV~~~ 255 (329)
T PRK04161 191 MKVFSDKRFGVDVLKVEVPVNMAYV-------EGFTEGEVVYSQEEAIKAFKDQEAA--THLPYIY------LSAGVSAK 255 (329)
T ss_pred HHHhccCCCCCcEEEEecccccccc-------cccCcccccccHHHHHHHHHHHhcc--cCCCEEE------EcCCCCHH
Confidence 7641 11 1455555554332 226767888987655 555555444 5666443 55543333
Q ss_pred -ceEEeeEEEeecCCceeeeeccccc
Q 042073 174 -FILPIRDVRASIGAGFIYPLVGTIS 198 (225)
Q Consensus 174 -f~~~vrdv~~~~GAgFiv~~~G~i~ 198 (225)
|.=++ ++--.+||+|--+|||--.
T Consensus 256 ~F~~~l-~~A~~aGa~fnGvL~GRAt 280 (329)
T PRK04161 256 LFQETL-VFAAEAGAQFNGVLCGRAT 280 (329)
T ss_pred HHHHHH-HHHHhcCCCcccEEeehhh
Confidence 32111 2333479999999999543
No 471
>PRK11613 folP dihydropteroate synthase; Provisional
Probab=25.91 E-value=2.5e+02 Score=25.73 Aligned_cols=63 Identities=17% Similarity=0.202 Sum_probs=35.3
Q ss_pred HHHHHHHHhhcCCeEEEEecC--CC----CCcHHHH----HHHHHHHHHcCCCeEEEccccccCchhhHHHHHHH
Q 042073 33 LARHIANTKAYGVNVVVAVNM--FA----TDSEAEL----NAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAV 97 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAIN~--F~----~DT~~Ei----~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~V 97 (225)
|.+|++.++.||.|+.|.+-| |- ....+|- -...-+|...|+. .+-.|=-..-.=++.++++.
T Consensus 200 ll~~l~~l~~lg~Pilvg~SRKsfig~~~~~~~~~r~~~T~a~~~~a~~~ga~--iiRvHdV~~~~~a~~~~~~~ 272 (282)
T PRK11613 200 LLARLAEFHHFNLPLLVGMSRKSMIGQLLNVGPSERLSGSLACAVIAAMQGAQ--IIRVHDVKETVEAMRVVEAT 272 (282)
T ss_pred HHHHHHHHHhCCCCEEEEecccHHHHhhcCCChhhhhHHHHHHHHHHHHCCCC--EEEcCCHHHHHHHHHHHHHH
Confidence 567888899999999999874 22 1112221 1233446677886 34444333333344444443
No 472
>cd00755 YgdL_like Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of the substrate. The exact function of this family is unknown.
Probab=25.88 E-value=1.4e+02 Score=26.42 Aligned_cols=67 Identities=16% Similarity=0.009 Sum_probs=44.1
Q ss_pred CCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCC--cccccCCC-CCHHHHHHHHHh-Hhcc
Q 042073 56 TDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQP--LKFLYPSD-VSIKEKIDTIAR-SYGA 131 (225)
Q Consensus 56 ~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~--f~~lY~~~-~~i~eKI~~IA~-IYGA 131 (225)
.|+-+....|.++|.+.+++ +.-+ ||.|+. -.|.. +.-+|... +|+-.|+++--+ -|+.
T Consensus 110 iD~~~~k~~L~~~c~~~~ip-~I~s-----~g~g~~-----------~dp~~i~i~di~~t~~~pla~~~R~~Lrk~~~~ 172 (231)
T cd00755 110 IDSIRAKVALIAYCRKRKIP-VISS-----MGAGGK-----------LDPTRIRVADISKTSGDPLARKVRKRLRKRGIF 172 (231)
T ss_pred CCCHHHHHHHHHHHHHhCCC-EEEE-----eCCcCC-----------CCCCeEEEccEeccccCcHHHHHHHHHHHcCCC
Confidence 47777677788999999997 6443 555532 01333 33455444 688888888888 5553
Q ss_pred --CCCCCCHH
Q 042073 132 --SGVEYSEE 139 (225)
Q Consensus 132 --~~V~~s~~ 139 (225)
=.|.||.+
T Consensus 173 ~~~~~v~S~E 182 (231)
T cd00755 173 FGVPVVYSTE 182 (231)
T ss_pred CCeEEEeCCC
Confidence 56788877
No 473
>KOG0143 consensus Iron/ascorbate family oxidoreductases [Secondary metabolites biosynthesis, transport and catabolism; General function prediction only]
Probab=25.73 E-value=2.4e+02 Score=26.20 Aligned_cols=69 Identities=19% Similarity=0.258 Sum_probs=42.1
Q ss_pred hcCCeEEEEecCCCCC--cHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHH
Q 042073 42 AYGVNVVVAVNMFATD--SEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIK 119 (225)
Q Consensus 42 ~fGvpvVVAIN~F~~D--T~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~ 119 (225)
..-+|+|=--+....+ +.+-++.|+++|++.|+. =+++..- ..+|-++|.+...+ ++++ |.+
T Consensus 15 ~~~iPvIDls~~~~~~~~~~~~~~~i~~Ace~wGfF-qviNHGI------~~~l~~~~~~~~~~-------fF~l--P~e 78 (322)
T KOG0143|consen 15 ELDIPVIDLSCLDSDDPGREEVVEKLREACEEWGFF-QVINHGI------SLELLDKVKEASKE-------FFEL--PLE 78 (322)
T ss_pred CCCcCeEECCCCCCcchhHHHHHHHHHHHHHHCCee-EEEcCCC------CHHHHHHHHHHHHH-------HhcC--CHH
Confidence 3567776543332222 345588999999999996 3444333 26777887777653 3443 666
Q ss_pred HHHHHHH
Q 042073 120 EKIDTIA 126 (225)
Q Consensus 120 eKI~~IA 126 (225)
+|.+--.
T Consensus 79 eK~k~~~ 85 (322)
T KOG0143|consen 79 EKLKVAS 85 (322)
T ss_pred HHHhhcc
Confidence 6665544
No 474
>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha. This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels.
Probab=25.57 E-value=1.8e+02 Score=27.52 Aligned_cols=42 Identities=21% Similarity=0.322 Sum_probs=27.5
Q ss_pred HHHHHHHHhhcCC-eEEEEecCCCCC--cHHHH----HHHHHHHHHcCC
Q 042073 33 LARHIANTKAYGV-NVVVAVNMFATD--SEAEL----NAVRIAAMAAGA 74 (225)
Q Consensus 33 L~~HIeNi~~fGv-pvVVAIN~F~~D--T~~Ei----~~i~~~c~~~g~ 74 (225)
...|+..++.+++ |+||++|+...- +++++ +.+++++++.|.
T Consensus 129 t~~~~~~~~~~~~~~iIVviNK~Dl~~~~~~~~~~~~~ei~~~~~~~g~ 177 (426)
T TIGR00483 129 TREHAFLARTLGINQLIVAINKMDSVNYDEEEFEAIKKEVSNLIKKVGY 177 (426)
T ss_pred hHHHHHHHHHcCCCeEEEEEEChhccCccHHHHHHHHHHHHHHHHHcCC
Confidence 4567777777886 588999997642 23333 455667777774
No 475
>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=25.56 E-value=2.7e+02 Score=22.20 Aligned_cols=35 Identities=9% Similarity=-0.008 Sum_probs=22.0
Q ss_pred hHHHHHHHHHHHhh----cCCeEEEEecCCCCC---cHHHHH
Q 042073 29 GCVNLARHIANTKA----YGVNVVVAVNMFATD---SEAELN 63 (225)
Q Consensus 29 G~~NL~~HIeNi~~----fGvpvVVAIN~F~~D---T~~Ei~ 63 (225)
.+.++.+++..+.+ -+.|+|++.|+..-. +.+|++
T Consensus 91 s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~ 132 (168)
T cd04149 91 RIDEARQELHRIINDREMRDALLLVFANKQDLPDAMKPHEIQ 132 (168)
T ss_pred hHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCccCCCHHHHH
Confidence 35566666655432 368999999998642 445544
No 476
>PLN03176 flavanone-3-hydroxylase; Provisional
Probab=25.54 E-value=2.5e+02 Score=22.24 Aligned_cols=63 Identities=16% Similarity=0.238 Sum_probs=37.2
Q ss_pred CCeEEEEecCCCCCc---HHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHH
Q 042073 44 GVNVVVAVNMFATDS---EAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKE 120 (225)
Q Consensus 44 GvpvVVAIN~F~~DT---~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~e 120 (225)
-+|+|= +-++.+++ ++.++.|.+.|++.|.. .+.+| |- ..+|.+++.+...+ +|++ |.++
T Consensus 37 ~iPvID-ls~~~~~~~~~~~~~~~L~~A~~~~GFf--~l~nh----Gi-~~elid~~~~~~~~-------FF~L--P~e~ 99 (120)
T PLN03176 37 EIPVIS-IAGIDDGGEKRAEICNKIVEACEEWGVF--QIVDH----GV-DAKLVSEMTTLAKE-------FFAL--PPEE 99 (120)
T ss_pred CCCeEE-CccccCCchHHHHHHHHHHHHHHHCCEE--EEECC----CC-CHHHHHHHHHHHHH-------HHCC--CHHH
Confidence 466554 44554432 24588999999999985 44444 11 13677776665532 4443 6666
Q ss_pred HHH
Q 042073 121 KID 123 (225)
Q Consensus 121 KI~ 123 (225)
|.+
T Consensus 100 K~k 102 (120)
T PLN03176 100 KLR 102 (120)
T ss_pred HHh
Confidence 655
No 477
>TIGR00283 arch_pth2 peptidyl-tRNA hydrolase. This model describes an archaeal/eukaryotic form of peptidyl-tRNA hydrolase. Most bacterial forms are described by TIGR00447.
Probab=25.46 E-value=3.2e+02 Score=21.78 Aligned_cols=34 Identities=24% Similarity=0.163 Sum_probs=26.7
Q ss_pred HHHhhcCCe-EEEEecCCCCCcHHHHHHHHHHHHHcCCCe
Q 042073 38 ANTKAYGVN-VVVAVNMFATDSEAELNAVRIAAMAAGAFD 76 (225)
Q Consensus 38 eNi~~fGvp-vVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~ 76 (225)
+.-+..|.+ ||| ..++++|+..+.+.+++.|+..
T Consensus 42 ~~W~~~G~~KVvl-----k~~~~~el~~l~~~a~~~~l~~ 76 (115)
T TIGR00283 42 RKWLDEGQKKVVL-----KVNSLEELLEIYHKAESLGLVT 76 (115)
T ss_pred HHHHHcCCCEEEE-----EeCCHHHHHHHHHHHHHcCCCE
Confidence 333458999 666 4568999999999999999973
No 478
>cd07940 DRE_TIM_IPMS 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain. 2-isopropylmalate synthase (IPMS) catalyzes an aldol-type condensation of acetyl-CoA and 2-oxoisovalerate yielding 2-isopropylmalate and CoA, the first committed step in leucine biosynthesis. This family includes the Arabidopsis thaliana IPMS1 and IPMS2 proteins, the Glycine max GmN56 protein, and the Brassica insularis BatIMS protein. This family also includes a group of archeal IPMS-like proteins represented by the Methanocaldococcus jannaschii AksA protein. AksA catalyzes the condensation of alpha-ketoglutarate and acetyl-CoA to form trans-homoaconitate, one of 13 steps in the conversion of alpha-ketoglutarate and acetylCoA to alpha-ketosuberate, a precursor to coenzyme B and biotin. AksA also catalyzes the condensation of alpha-ketoadipate or alpha-ketopimelate with acetylCoA to form, respectively, the (R)-homocitrate homologs (R)-2-hydroxy-1,2,5-pentanetricarboxylic acid and (R)-2-h
Probab=25.42 E-value=3.5e+02 Score=23.91 Aligned_cols=54 Identities=19% Similarity=0.090 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEcccc
Q 042073 30 CVNLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHH 83 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~w 83 (225)
+.++...|+-++..|..+.+..=..+.-+++.+..+.+.+.+.|+..+.+++..
T Consensus 113 ~~~~~~~i~~a~~~G~~v~~~~~~~~~~~~~~~~~~~~~~~~~G~~~i~l~DT~ 166 (268)
T cd07940 113 LERAVEAVEYAKSHGLDVEFSAEDATRTDLDFLIEVVEAAIEAGATTINIPDTV 166 (268)
T ss_pred HHHHHHHHHHHHHcCCeEEEeeecCCCCCHHHHHHHHHHHHHcCCCEEEECCCC
Confidence 566778888888888876654334444457777777777788899877777764
No 479
>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=25.40 E-value=2.3e+02 Score=21.72 Aligned_cols=14 Identities=36% Similarity=0.304 Sum_probs=12.1
Q ss_pred cCCeEEEEecCCCC
Q 042073 43 YGVNVVVAVNMFAT 56 (225)
Q Consensus 43 fGvpvVVAIN~F~~ 56 (225)
.+.|++|++|+-..
T Consensus 100 ~~~piilv~nK~Dl 113 (160)
T cd04156 100 KGVPVVLLANKQDL 113 (160)
T ss_pred cCCCEEEEEECccc
Confidence 58999999999764
No 480
>cd03770 SR_TndX_transposase Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.
Probab=25.37 E-value=1.4e+02 Score=23.72 Aligned_cols=35 Identities=14% Similarity=0.171 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHH
Q 042073 60 AELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGI 95 (225)
Q Consensus 60 ~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~ 95 (225)
.+++.+.+.+++-.+. +.+...+.+=|-...++..
T Consensus 55 p~l~~ll~~~~~g~vd-~vvv~~ldRl~R~~~d~~~ 89 (140)
T cd03770 55 PGFNRMIEDIEAGKID-IVIVKDMSRLGRNYLKVGL 89 (140)
T ss_pred HHHHHHHHHHHcCCCC-EEEEeccchhccCHHHHHH
Confidence 4555555555443343 4455555555554444444
No 481
>smart00484 XPGI Xeroderma pigmentosum G I-region. domain in nucleases
Probab=25.34 E-value=1.2e+02 Score=22.27 Aligned_cols=33 Identities=24% Similarity=0.430 Sum_probs=21.9
Q ss_pred hhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEcc
Q 042073 41 KAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCS 81 (225)
Q Consensus 41 ~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~ 81 (225)
+.+|+|+|+| |..-+++...+.+ .|.-+++.++
T Consensus 1 ~~~gi~~i~A----P~eAeAq~A~L~~----~g~vdav~s~ 33 (73)
T smart00484 1 RLMGIPYIVA----PYEAEAQCAYLAK----SGLVDAIITE 33 (73)
T ss_pred CcCCCeEEEc----CCcHHHHHHHHHh----CCCeeEEEcC
Confidence 3589999998 5566666665543 5665566665
No 482
>cd06394 PBP1_iGluR_Kainate_KA1_2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the KA1 and KA2 subunits of Kainate receptor. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. There are five types of kainate receptors, GluR5, GluR6, GluR7, KA1, and KA2, which are structurally similar to AMPA and NMDA subunits of ionotropic glutamate receptors. KA1 and KA2 subunits can only form functional receptors with one of the GluR5-7 subunits. Moreover, GluR5-7 can also form functional homomeric receptor channels act
Probab=25.33 E-value=3.3e+02 Score=25.05 Aligned_cols=62 Identities=10% Similarity=-0.009 Sum_probs=42.9
Q ss_pred CCCcHHHHHHHHHHHHHcCCCeEEEccccccC----ch---------hhHHHHHHHHHHhhcC-CCCcccccCCCCCH
Q 042073 55 ATDSEAELNAVRIAAMAAGAFDAVVCSHHAHG----GK---------GAVDLGIAVQRACENV-TQPLKFLYPSDVSI 118 (225)
Q Consensus 55 ~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~G----G~---------Ga~~LA~~Vv~~~e~~-~~~f~~lY~~~~~i 118 (225)
|+++......+...|.+.+++ + ++-.|..- -. .-..+.++++++++.- =+.|.++|++++-|
T Consensus 72 p~ss~~~~~~v~~i~~~~~VP-~-Is~~~~~~~~~~~~~~~~i~l~P~~~~~~~Ai~dli~~~~W~~v~~iYe~d~~l 147 (333)
T cd06394 72 PSSSPASSSIVSHICGEKEIP-H-FKVGPEETPKLQYLRFASVNLHPSNEDISVAVAGILNSFNYPTASLICAKAECL 147 (333)
T ss_pred CCCchHHHHHHHHHhhccCCc-e-EEeccccCcccccccceEEEecCCHHHHHHHHHHHHHhcCCCEEEEEEeCcHHH
Confidence 445555677999999999997 3 55556531 11 3344899999998752 25589999998754
No 483
>PRK08208 coproporphyrinogen III oxidase; Validated
Probab=25.33 E-value=89 Score=29.81 Aligned_cols=69 Identities=17% Similarity=0.032 Sum_probs=41.8
Q ss_pred HHHHHHhhcCCeEE-E-----------EecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 35 RHIANTKAYGVNVV-V-----------AVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 35 ~HIeNi~~fGvpvV-V-----------AIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
..++-++++|+.-| + .+||. .|.+++....+.+++.|+..+.+.=.+.--|+--.++.+.+-.+.+
T Consensus 142 e~l~~l~~~G~~rvslGvQS~~~~~L~~l~R~--~~~~~~~~ai~~l~~~g~~~i~~dlI~GlP~qt~e~~~~~l~~~~~ 219 (430)
T PRK08208 142 EKLALLAARGVNRLSIGVQSFHDSELHALHRP--QKRADVHQALEWIRAAGFPILNIDLIYGIPGQTHASWMESLDQALV 219 (430)
T ss_pred HHHHHHHHcCCCEEEEecccCCHHHHHHhCCC--CCHHHHHHHHHHHHHcCCCeEEEEeecCCCCCCHHHHHHHHHHHHh
Confidence 34555666665544 1 34553 2566777777788888886223343555567777777777766665
Q ss_pred cCC
Q 042073 103 NVT 105 (225)
Q Consensus 103 ~~~ 105 (225)
-++
T Consensus 220 l~~ 222 (430)
T PRK08208 220 YRP 222 (430)
T ss_pred CCC
Confidence 443
No 484
>PF02352 Decorin_bind: Decorin binding protein; InterPro: IPR003332 Decorin is a proteoglycan that decorates collagen fibres. Borrelia burgdorferi causes lyme disease, a tick-borne infection that can develop into a chronic, multisystemic disorder. Decorin may mediate the adherence of B. burgdorferi to collagen fibres in skin and other tissues []. B. burgdorferi decorin binding protein A (DbpA) facilitates this binding [].
Probab=25.15 E-value=44 Score=27.92 Aligned_cols=66 Identities=21% Similarity=0.348 Sum_probs=46.5
Q ss_pred CCcHHHHHHHHHHHHHcCCCeEEEccccccC-------chh--------hHHHHHHHHHHhhc---------CCCCcccc
Q 042073 56 TDSEAELNAVRIAAMAAGAFDAVVCSHHAHG-------GKG--------AVDLGIAVQRACEN---------VTQPLKFL 111 (225)
Q Consensus 56 ~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~G-------G~G--------a~~LA~~Vv~~~e~---------~~~~f~~l 111 (225)
.|--.||+.+++.+...||. + +.|.++ |.| +++++++.+.++++ ...+|.-+
T Consensus 9 kdI~deI~kikkeA~~~GVn-f---~AFt~~~TGskV~~~~~ireAKirai~~~eKFlk~ieEEA~kLKE~G~s~eF~am 84 (140)
T PF02352_consen 9 KDIKDEIDKIKKEAADKGVN-F---DAFTDTKTGSKVAGPGFIREAKIRAIDLTEKFLKAIEEEAIKLKENGSSGEFSAM 84 (140)
T ss_pred HHHHHHHHHHHHHHHHcCCC-H---HHhccCccccccCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChhHHHHH
Confidence 45668999999999999997 5 344332 223 56788888888874 13458888
Q ss_pred cCCCCCHHHHHHHH
Q 042073 112 YPSDVSIKEKIDTI 125 (225)
Q Consensus 112 Y~~~~~i~eKI~~I 125 (225)
|++-..+-+=++.|
T Consensus 85 ydlMl~vs~~le~i 98 (140)
T PF02352_consen 85 YDLMLEVSEPLEKI 98 (140)
T ss_pred HHHHHHHHHHHHHH
Confidence 88876666665555
No 485
>PRK14837 undecaprenyl pyrophosphate synthase; Provisional
Probab=25.11 E-value=5e+02 Score=23.26 Aligned_cols=105 Identities=10% Similarity=0.088 Sum_probs=65.0
Q ss_pred ccHHHHHHhHHHHHHHHHHHhhcCCeEEEEecCCCCC----cHHHHHHHHHHHH-----------HcCCCeEEEcccccc
Q 042073 21 ENVALVEAGCVNLARHIANTKAYGVNVVVAVNMFATD----SEAELNAVRIAAM-----------AAGAFDAVVCSHHAH 85 (225)
Q Consensus 21 eN~~al~~G~~NL~~HIeNi~~fGvpvVVAIN~F~~D----T~~Ei~~i~~~c~-----------~~g~~~~avs~~wa~ 85 (225)
+-.+.=++|+.+|.+=++-...+||+.|- +=.|+++ +++|++.|-++.+ +.|++ +-+.--...
T Consensus 27 ~~~~GH~~G~~~~~~i~~~c~~~GI~~lT-~YaFS~EN~~Rp~~EV~~Lm~L~~~~l~~~~~~~~~~~ir-vr~iGd~~~ 104 (230)
T PRK14837 27 SFFEGHKEGLKRAKEIVKHSLKLGIKYLS-LYVFSTENWNRTDSEIEHLMFLIADYLSSEFNFYKKNNIK-IIVSGDIES 104 (230)
T ss_pred chhhhHHHHHHHHHHHHHHHHHcCCCEEE-EEEeehhhcCCCHHHHHHHHHHHHHHHHHHHHHHHHCCcE-EEEEcChhh
Confidence 44567799999999999999999999765 3446654 5899987654432 45675 544333332
Q ss_pred CchhhHHHHHHHHHHhhcCCC---CcccccCCCCCHHHHHHHHHh
Q 042073 86 GGKGAVDLGIAVQRACENVTQ---PLKFLYPSDVSIKEKIDTIAR 127 (225)
Q Consensus 86 GG~Ga~~LA~~Vv~~~e~~~~---~f~~lY~~~~~i~eKI~~IA~ 127 (225)
=.+.-.+..+.+.+...+++. ++-+-|.-.+.|.+-++++++
T Consensus 105 Lp~~l~~~i~~~e~~T~~n~~~~Lnia~~Yggr~EI~~A~~~~~~ 149 (230)
T PRK14837 105 LSEEVKKSIKDAISFTKNFDGLVLNLAINYGGRNEIVRAVKKFLS 149 (230)
T ss_pred CCHHHHHHHHHHHHHhcCCCCcEEEEEecCCCHHHHHHHHHHHHh
Confidence 233333333333333322211 144678888888888887774
No 486
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=25.06 E-value=8.3e+02 Score=26.70 Aligned_cols=154 Identities=14% Similarity=0.129 Sum_probs=83.6
Q ss_pred HHHHhhcCCeEEEEec-CCCCCcHHHHHHHHHHHHHcCCCeEE--------EccccccCch----------hhHHHHHHH
Q 042073 37 IANTKAYGVNVVVAVN-MFATDSEAELNAVRIAAMAAGAFDAV--------VCSHHAHGGK----------GAVDLGIAV 97 (225)
Q Consensus 37 IeNi~~fGvpvVVAIN-~F~~DT~~Ei~~i~~~c~~~g~~~~a--------vs~~wa~GG~----------Ga~~LA~~V 97 (225)
++-.+++|+|+|++=+ +|..-.|.+...+... ...|.. .. -.+.|-+--+ -+++=..++
T Consensus 185 ~~la~~~~ip~Vat~dv~Y~~~~d~~~~~vl~~-i~~~~~-l~~~~~~~~~~~~~ylks~~Em~~~f~~~~~al~Nt~~I 262 (1046)
T PRK05672 185 AALAARAGVPLVATGDVHMHHRSRRRLQDAMTA-IRARRS-LAEAGGWLAPNGERHLRSGAEMARLFPDYPEALAETVEL 262 (1046)
T ss_pred HHHHHHhCCCEEEecCccccCHhhHHHHHHHHH-HhCCCc-cccccccccCCCcCccCCHHHHHHHhhccHHHHHHHHHH
Confidence 3344569999766555 4555556665555443 334432 11 1122222222 222223344
Q ss_pred HHHhhcC---CCC--cccccCCCCCHHHHHHHHH----h-HhccC-CCCCCHHHHHHHHHHHHCCCCCCCeeEee-cCCC
Q 042073 98 QRACENV---TQP--LKFLYPSDVSIKEKIDTIA----R-SYGAS-GVEYSEEAEKQIKMYTRQGFSGLPFCMAK-TQHS 165 (225)
Q Consensus 98 v~~~e~~---~~~--f~~lY~~~~~i~eKI~~IA----~-IYGA~-~V~~s~~A~~~l~~~e~~G~~~lPVCmAK-TqyS 165 (225)
.+.|+-. ... .+|.++...+-.+.++++| + -||.. .-+|-...+.+|+-|.++||..+-..++. .+|+
T Consensus 263 a~~c~~~l~~~~~~lP~f~~p~~~~~~~~L~~l~~~gl~~ry~~~~~~~~~~RL~~EL~vI~~~gf~~YFLIV~D~i~~A 342 (1046)
T PRK05672 263 AERCAFDLDLLAYEYPDEPVPAGHTPASWLRQLTEAGAARRYGPGIPPKARAQIEHELALIAELGYEGYFLTVHDIVRFA 342 (1046)
T ss_pred HHhhccccccCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHCCCCccHHHHHHHHHHH
Confidence 4555311 011 2344556667778888887 4 57653 12366777788999999999888765543 3344
Q ss_pred cCCCCCCCceEEeeEEEeecCCceeeeeccccccc
Q 042073 166 FSHNAPTGFILPIRDVRASIGAGFIYPLVGTISTM 200 (225)
Q Consensus 166 ~Sdd~P~~f~~~vrdv~~~~GAgFiv~~~G~i~tM 200 (225)
=+++.| +|=| =++||-+|++|=.|...
T Consensus 343 k~~gi~----vpGR----GSaAGSLVaY~LgIT~V 369 (1046)
T PRK05672 343 RSQGIL----CQGR----GSAANSAVCYALGITEV 369 (1046)
T ss_pred HHCCce----eCCC----ChHHHHHHHHHhCCCcc
Confidence 443411 1222 27899999988777543
No 487
>PRK11565 dkgA 2,5-diketo-D-gluconate reductase A; Provisional
Probab=25.06 E-value=3e+02 Score=24.34 Aligned_cols=116 Identities=16% Similarity=0.238 Sum_probs=57.1
Q ss_pred hHHHHH-HHHHHHh-hcCC-eEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcC-
Q 042073 29 GCVNLA-RHIANTK-AYGV-NVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENV- 104 (225)
Q Consensus 29 G~~NL~-~HIeNi~-~fGv-pvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~- 104 (225)
|+.|.. .|++.+. ..++ |+++-++-.+...+. .+..+|++.|+. +..-...+.|+.+... .+.+.+.+++.
T Consensus 136 GvSn~~~~~l~~~~~~~~v~~~~~Q~~~~~~~~~~---~~~~~~~~~~i~-~~a~spl~~G~~~~~~-~~~l~~ia~~~g 210 (275)
T PRK11565 136 GVCNFQIHHLQRLIDETGVTPVINQIELHPLMQQR---QLHAWNATHKIQ-TESWSPLAQGGKGVFD-QKVIRDLADKYG 210 (275)
T ss_pred eeccCCHHHHHHHHHhCCCCceeeeeecCCccchH---HHHHHHHHCCCE-EEEEccCCCCCccccc-CHHHHHHHHHhC
Confidence 444432 3555543 4665 444444333333332 477899999996 4333344444432111 12333333321
Q ss_pred --CCC--cccccCCCC-CH--HHHHHHHHhHhccCCCCCCHHHHHHHHHHHH
Q 042073 105 --TQP--LKFLYPSDV-SI--KEKIDTIARSYGASGVEYSEEAEKQIKMYTR 149 (225)
Q Consensus 105 --~~~--f~~lY~~~~-~i--~eKI~~IA~IYGA~~V~~s~~A~~~l~~~e~ 149 (225)
+.+ ++++=.... +| -.+++.|..-..|-++.+|++-.++|.++..
T Consensus 211 ~s~aq~aL~w~l~~~~~~I~g~~~~~~i~~n~~a~~~~Ls~~~~~~i~~~~~ 262 (275)
T PRK11565 211 KTPAQIVIRWHLDSGLVVIPKSVTPSRIAENFDVFDFRLDKDELGEIAKLDQ 262 (275)
T ss_pred CCHHHHHHHHHHcCCCEeeCCCCCHHHHHHHHhccCCCcCHHHHHHHHhhcc
Confidence 111 222221111 11 3345555555567778899998888888763
No 488
>PRK11572 copper homeostasis protein CutC; Provisional
Probab=24.95 E-value=5.3e+02 Score=23.44 Aligned_cols=89 Identities=12% Similarity=0.086 Sum_probs=55.9
Q ss_pred cCCeEEEEecC----CCCCcHHHHHHHHH---HHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCC
Q 042073 43 YGVNVVVAVNM----FATDSEAELNAVRI---AAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSD 115 (225)
Q Consensus 43 fGvpvVVAIN~----F~~DT~~Ei~~i~~---~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~ 115 (225)
..+|+.|-|-- |.- |++|++..++ .|+++|+..+++-=.=.+| .=-.+.-+.+++++..-+-.|+..+|.-
T Consensus 50 ~~ipv~vMIRPR~gdF~Y-s~~E~~~M~~di~~~~~~GadGvV~G~L~~dg-~vD~~~~~~Li~~a~~~~vTFHRAfD~~ 127 (248)
T PRK11572 50 VTIPVHPIIRPRGGDFCY-SDGEFAAMLEDIATVRELGFPGLVTGVLDVDG-HVDMPRMRKIMAAAGPLAVTFHRAFDMC 127 (248)
T ss_pred cCCCeEEEEecCCCCCCC-CHHHHHHHHHHHHHHHHcCCCEEEEeeECCCC-CcCHHHHHHHHHHhcCCceEEechhhcc
Confidence 47999999973 433 4788887754 4779999755442222222 2223345666777653344589899988
Q ss_pred CCHHHHHHHHHhHhccCCC
Q 042073 116 VSIKEKIDTIARSYGASGV 134 (225)
Q Consensus 116 ~~i~eKI~~IA~IYGA~~V 134 (225)
....+-++.+... |-+.|
T Consensus 128 ~d~~~al~~l~~l-G~~rI 145 (248)
T PRK11572 128 ANPLNALKQLADL-GVARI 145 (248)
T ss_pred CCHHHHHHHHHHc-CCCEE
Confidence 7777777777663 54443
No 489
>PRK01736 hypothetical protein; Reviewed
Probab=24.92 E-value=3.2e+02 Score=23.46 Aligned_cols=61 Identities=20% Similarity=0.193 Sum_probs=37.2
Q ss_pred HHHHHHHHhhcCCCCcccccCCC-CCHHHHHHHHHh-Hhc------c---CCCCCCHHHHHHHHH---HHHCCCC
Q 042073 93 LGIAVQRACENVTQPLKFLYPSD-VSIKEKIDTIAR-SYG------A---SGVEYSEEAEKQIKM---YTRQGFS 153 (225)
Q Consensus 93 LA~~Vv~~~e~~~~~f~~lY~~~-~~i~eKI~~IA~-IYG------A---~~V~~s~~A~~~l~~---~e~~G~~ 153 (225)
|-+.+...+...+-.|.+|.+++ .+|.++.+.++. +.| - +.-..|+.++.-|+. |.+.|++
T Consensus 70 ly~~t~~~L~d~~~~f~llLPdd~~~l~~Ra~AL~~W~~GFl~G~gl~~~~~~~~~~e~~E~l~Dl~~Ia~~~~d 144 (190)
T PRK01736 70 LHQATSDALTDDGFLFQLLLPEGEDSVFDRADALAGWVNHFLLGLGLAQPKLDKVSGETGEAIDDLRNIAQLGYD 144 (190)
T ss_pred HHHHHHHHHcCCCcceeeeCCCCCcchHHHHHHHHHHHHHHHHHHHhcccccccCCHHHHHHHHHHHHHHhcCCC
Confidence 34555555543344599988855 589999999987 655 1 223346555555554 4455653
No 490
>COG0284 PyrF Orotidine-5'-phosphate decarboxylase [Nucleotide transport and metabolism]
Probab=24.82 E-value=5.1e+02 Score=23.21 Aligned_cols=109 Identities=24% Similarity=0.220 Sum_probs=74.8
Q ss_pred HHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh--------c-CCC
Q 042073 36 HIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE--------N-VTQ 106 (225)
Q Consensus 36 HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e--------~-~~~ 106 (225)
=++-++++|-+|+.=+-+. |=+.=.....+.+.++|+. ++ ++++-+|..++.-+.++.+... . .++
T Consensus 54 ~~~el~~~~~~VflDlK~~--DIpnT~~~~~~~~~~~g~d-~v--tvH~~~G~~~~~~~~e~~~~~~~~vl~vT~lts~~ 128 (240)
T COG0284 54 ILEELKARGKKVFLDLKLA--DIPNTVALAAKAAADLGAD-AV--TVHAFGGFDMLRAAKEALEAGGPFVLAVTSLTSMG 128 (240)
T ss_pred HHHHHHHhCCceEEeeecc--cchHHHHHHHHHhhhcCCc-EE--EEeCcCCHHHHHHHHHHHhhcCceEEEEEeCCCch
Confidence 3666777666666655554 4455555555557788996 43 6888899998888888776431 0 011
Q ss_pred Ccc-cccCCCCCHHHHHHHHHh---HhccCCCCCCHHHHHHHHHHHH
Q 042073 107 PLK-FLYPSDVSIKEKIDTIAR---SYGASGVEYSEEAEKQIKMYTR 149 (225)
Q Consensus 107 ~f~-~lY~~~~~i~eKI~~IA~---IYGA~~V~~s~~A~~~l~~~e~ 149 (225)
..+ ..-.-..++++++..+|+ -+|=++|.-|++..+.+++...
T Consensus 129 ~~~~~~~~~~~~~~~~v~~~a~~~~~~G~dgvv~~~~e~~~ir~~~g 175 (240)
T COG0284 129 ELQLAELGINSSLEEQVLRLAKLAGEAGLDGVVCSAEEVAAIREILG 175 (240)
T ss_pred hhhhhhccccchHHHHHHHHHHHhccCCceEEEcCHHHHHHHHHhcC
Confidence 121 111334699999999998 4688999999999999999875
No 491
>TIGR01370 cysRS possible cysteinyl-tRNA synthetase, Methanococcus type. Assignment of this protein family as cysteinyl-tRNA synthetase is controversial, supported by PubMed:11333988 but challenged by PubMed:14679218. Members of this family from Deinococcus radiodurans (bacterial) and Methanococcus jannaschii (archaeal), species lacking a conventional cysteinyl-tRNA synthetase (Cys--tRNA ligase), have been indicated to be a novel form of that enzyme, perhaps distantly related to class I tRNA ligases. The member from Thermotoga maritima is presumed to be a second isozyme of cysteinyl-tRNA synthetase. A number of homologous but more distantly related proteins are annotated as alpha-1,4 polygalactosaminidases.
Probab=24.81 E-value=2.8e+02 Score=25.97 Aligned_cols=10 Identities=0% Similarity=-0.263 Sum_probs=4.4
Q ss_pred HHHHHHHHHh
Q 042073 92 DLGIAVQRAC 101 (225)
Q Consensus 92 ~LA~~Vv~~~ 101 (225)
++++++.+.|
T Consensus 284 ~~~~~~~~~~ 293 (315)
T TIGR01370 284 ARMKDAAEKA 293 (315)
T ss_pred HHHHHHHHHH
Confidence 3444444444
No 492
>PRK12330 oxaloacetate decarboxylase; Provisional
Probab=24.76 E-value=3e+02 Score=27.45 Aligned_cols=93 Identities=10% Similarity=0.053 Sum_probs=59.3
Q ss_pred HHHHHHHHHHHhhcCCeEEEEe--cCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcC---
Q 042073 30 CVNLARHIANTKAYGVNVVVAV--NMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENV--- 104 (225)
Q Consensus 30 ~~NL~~HIeNi~~fGvpvVVAI--N~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~--- 104 (225)
+.|++.+|+-+++.|.-+..+| .-=+-+|.+.+..+.+.+.+.|+....+++.- |-..-+-+...++.+.+.
T Consensus 123 v~nl~~ai~~vk~ag~~~~~~i~yt~sp~~t~e~~~~~a~~l~~~Gad~I~IkDta---Gll~P~~~~~LV~~Lk~~~~~ 199 (499)
T PRK12330 123 PRNLEHAMKAVKKVGKHAQGTICYTVSPIHTVEGFVEQAKRLLDMGADSICIKDMA---ALLKPQPAYDIVKGIKEACGE 199 (499)
T ss_pred HHHHHHHHHHHHHhCCeEEEEEEEecCCCCCHHHHHHHHHHHHHcCCCEEEeCCCc---cCCCHHHHHHHHHHHHHhCCC
Confidence 3899999999999888775555 44677888888888888888999867676652 333333333334433221
Q ss_pred --CCCcccccCCCCCHHHHHHHH
Q 042073 105 --TQPLKFLYPSDVSIKEKIDTI 125 (225)
Q Consensus 105 --~~~f~~lY~~~~~i~eKI~~I 125 (225)
+=.+|.=++..+.+..=+..|
T Consensus 200 ~ipI~~H~Hnt~GlA~An~laAi 222 (499)
T PRK12330 200 DTRINLHCHSTTGVTLVSLMKAI 222 (499)
T ss_pred CCeEEEEeCCCCCcHHHHHHHHH
Confidence 112555555666665544443
No 493
>PRK03003 GTP-binding protein Der; Reviewed
Probab=24.73 E-value=3.1e+02 Score=26.45 Aligned_cols=64 Identities=19% Similarity=0.100 Sum_probs=36.0
Q ss_pred HHHHhhcCCeEEEEecCCCCCcHHHHHHHHHH-HHH---c-CCCeEEEccccccCchhhHHHHHHHHHHhhc
Q 042073 37 IANTKAYGVNVVVAVNMFATDSEAELNAVRIA-AMA---A-GAFDAVVCSHHAHGGKGAVDLGIAVQRACEN 103 (225)
Q Consensus 37 IeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~-c~~---~-g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~ 103 (225)
+..+...|.|+||++|+..-..+++...+.+. .+. . .++ +...=++-|.|-.+|=+.+.+..++
T Consensus 315 ~~~~~~~~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~---~~~~SAk~g~gv~~lf~~i~~~~~~ 383 (472)
T PRK03003 315 LSMVIEAGRALVLAFNKWDLVDEDRRYYLEREIDRELAQVPWAP---RVNISAKTGRAVDKLVPALETALES 383 (472)
T ss_pred HHHHHHcCCCEEEEEECcccCChhHHHHHHHHHHHhcccCCCCC---EEEEECCCCCCHHHHHHHHHHHHHH
Confidence 44455578999999998865433322222221 111 1 232 2234567777877777777776653
No 494
>PLN03071 GTP-binding nuclear protein Ran; Provisional
Probab=24.69 E-value=2.8e+02 Score=23.55 Aligned_cols=70 Identities=9% Similarity=-0.043 Sum_probs=42.0
Q ss_pred hHHHHHHHHHHHhh--cCCeEEEEecCCCCCcHH-HHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhh
Q 042073 29 GCVNLARHIANTKA--YGVNVVVAVNMFATDSEA-ELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACE 102 (225)
Q Consensus 29 G~~NL~~HIeNi~~--fGvpvVVAIN~F~~DT~~-Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e 102 (225)
.+.|+..-++.+++ -++|+|++.|+..-.... +-+.+ +++++.++. +. +.=++-|.|-.++=+.+++.+-
T Consensus 100 s~~~i~~w~~~i~~~~~~~piilvgNK~Dl~~~~v~~~~~-~~~~~~~~~-~~--e~SAk~~~~i~~~f~~l~~~~~ 172 (219)
T PLN03071 100 TYKNVPTWHRDLCRVCENIPIVLCGNKVDVKNRQVKAKQV-TFHRKKNLQ-YY--EISAKSNYNFEKPFLYLARKLA 172 (219)
T ss_pred HHHHHHHHHHHHHHhCCCCcEEEEEEchhhhhccCCHHHH-HHHHhcCCE-EE--EcCCCCCCCHHHHHHHHHHHHH
Confidence 45566555555553 379999999997542111 11222 566777775 33 3345678888887766665553
No 495
>cd07571 ALP_N-acyl_transferase Apolipoprotein N-acyl transferase (class 9 nitrilases). ALP N-acyl transferase (Lnt), is an essential membrane-bound enzyme in gram-negative bacteria, which catalyzes the N-acylation of apolipoproteins, the final step in lipoprotein maturation. This is a reverse amidase (i.e. condensation) reaction. This subgroup belongs to a larger nitrilase superfamily comprised of nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes, which depend on a Glu-Lys-Cys catalytic triad. This superfamily has been classified in the literature based on global and structure based sequence analysis into thirteen different enzyme classes (referred to as 1-13), this subgroup corresponds to class 9.
Probab=24.59 E-value=3.1e+02 Score=24.05 Aligned_cols=51 Identities=24% Similarity=0.174 Sum_probs=34.2
Q ss_pred HHHHHHHHHHh---hcCCeEEE----EecCCCCCcHHHHHHHHHHHHHcCCCeEEEccc
Q 042073 31 VNLARHIANTK---AYGVNVVV----AVNMFATDSEAELNAVRIAAMAAGAFDAVVCSH 82 (225)
Q Consensus 31 ~NL~~HIeNi~---~fGvpvVV----AIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~ 82 (225)
.||+|+++-++ +=|.-+|| ++--|+.+....++.++++|++.++. .++.-.
T Consensus 23 ~nl~~~~~~i~~a~~~ga~lvvfPE~~l~g~~~~~~~~~~~l~~~ak~~~i~-ii~G~~ 80 (270)
T cd07571 23 ATLDRYLDLTRELADEKPDLVVWPETALPFDLQRDPDALARLARAARAVGAP-LLTGAP 80 (270)
T ss_pred HHHHHHHHHHhhcccCCCCEEEecCCcCCcccccCHHHHHHHHHHHHhcCCe-EEEeee
Confidence 35555555554 44677776 44455555678899999999999995 555443
No 496
>PF06074 DUF935: Protein of unknown function (DUF935); InterPro: IPR009279 This entry is represented by Bacteriophage Mu, Gp29. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several bacterial proteins of unknown function as well as the Bacteriophage Mu Gp29 protein Q9T1W5 from SWISSPROT.
Probab=24.58 E-value=2.2e+02 Score=27.87 Aligned_cols=41 Identities=22% Similarity=0.267 Sum_probs=32.1
Q ss_pred HHHHHHHHhhcCCeEEEEecCCCC-CcHHHHHHHHHHHHHcCCC
Q 042073 33 LARHIANTKAYGVNVVVAVNMFAT-DSEAELNAVRIAAMAAGAF 75 (225)
Q Consensus 33 L~~HIeNi~~fGvpvVVAIN~F~~-DT~~Ei~~i~~~c~~~g~~ 75 (225)
+....+-+.+||+|.+|+- |+. -|++|.+.+.+..+..|-.
T Consensus 223 ~~~w~~f~E~yG~P~~vgk--y~~~a~~~e~~~L~~al~~~g~~ 264 (516)
T PF06074_consen 223 LKDWAEFLEKYGMPIRVGK--YPPGASDEEKDALLRALANMGSD 264 (516)
T ss_pred HHHHHHHHHHcCCCeEEEe--cCCCCCHHHHHHHHHHHHHhccC
Confidence 4455667788999999875 555 7899999999988877764
No 497
>PRK14339 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=24.53 E-value=3.2e+02 Score=26.07 Aligned_cols=89 Identities=11% Similarity=0.057 Sum_probs=54.4
Q ss_pred cccccHHHHHHh--HHHHHHHHHHHhhc--CCeEEE-EecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHH
Q 042073 18 YLNENVALVEAG--CVNLARHIANTKAY--GVNVVV-AVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVD 92 (225)
Q Consensus 18 l~~eN~~al~~G--~~NL~~HIeNi~~f--GvpvVV-AIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~ 92 (225)
-+.+-+.++.+| .+...+-++.+++. |+.+-. .|-=||.+|+++++...+++++.+...+.+. .|
T Consensus 250 gsd~vLk~M~R~~t~~~~~~~v~~lr~~~p~i~i~~d~IvGfPgETeedf~~Tl~fl~~l~~~~~~~f-~~--------- 319 (420)
T PRK14339 250 GSSEILKAMKRGYTKEWFLNRAEKLRALVPEVSISTDIIVGFPGESDKDFEDTMDVLEKVRFEQIFSF-KY--------- 319 (420)
T ss_pred CCHHHHHhccCCCCHHHHHHHHHHHHHHCCCCEEEEEEEEECCCCCHHHHHHHHHHHHhcCCCEEeeE-ec---------
Confidence 344556666665 33444456677764 444322 3556999999999999999998887522221 12
Q ss_pred HHHHHHHHhhcCCCCcccccCC--CCCHHHHHHHHHh
Q 042073 93 LGIAVQRACENVTQPLKFLYPS--DVSIKEKIDTIAR 127 (225)
Q Consensus 93 LA~~Vv~~~e~~~~~f~~lY~~--~~~i~eKI~~IA~ 127 (225)
.|.+-+++|.. ..|-+.|-++..+
T Consensus 320 -----------sp~pGT~a~~~~~~v~~~~k~~R~~~ 345 (420)
T PRK14339 320 -----------SPRPLTEAAAWKNQVDEEVASERLER 345 (420)
T ss_pred -----------CCCCCCchhhCCCCCCHHHHHHHHHH
Confidence 13334555554 4577777777665
No 498
>PF03599 CdhD: CO dehydrogenase/acetyl-CoA synthase delta subunit; InterPro: IPR016041 This entry represents a conserved region predicted to form a TIM alpha/beta barrel, and is found in the delta subunit of a number of CO dehydrogenase/acetyl-CoA synthase enzymes.; PDB: 2H9A_B 2YCL_B 4DJF_E 4DJD_C 4DJE_C.
Probab=24.52 E-value=2.5e+02 Score=27.20 Aligned_cols=57 Identities=23% Similarity=0.166 Sum_probs=38.6
Q ss_pred HHHHHHHHHhhcCCeEEEEecCCCCCcHHHHHHHHHHHHHcCCCeEEEccccccCchhhHH
Q 042073 32 NLARHIANTKAYGVNVVVAVNMFATDSEAELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVD 92 (225)
Q Consensus 32 NL~~HIeNi~~fGvpvVVAIN~F~~DT~~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~ 92 (225)
|.+.-.+-.+.||.|++| +...+-+++..+-..+.++|+.+.++--.=+.-|.|-..
T Consensus 132 Nyk~m~~lA~~y~~pl~v----~sp~Dln~lk~Ln~~l~~~Gv~dIVlDpgt~~lGyGie~ 188 (386)
T PF03599_consen 132 NYKAMAALAKEYGHPLIV----SSPIDLNLLKQLNIKLTELGVKDIVLDPGTRALGYGIEY 188 (386)
T ss_dssp THHHHHHHHHHCT-EEEE----E-SSCHHHHHHHHHHHHTTT-GGEEEE---SSTTTTHHH
T ss_pred HHHHHHHHHHHcCCeEEE----EecccHHHHHHHHHHHHhcCcccEEecCCcccchhHHHH
Confidence 555556666789999999 665778888888888999999877776555555676544
No 499
>TIGR02034 CysN sulfate adenylyltransferase, large subunit. Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase).
Probab=24.45 E-value=1.6e+02 Score=27.90 Aligned_cols=26 Identities=31% Similarity=0.336 Sum_probs=20.3
Q ss_pred HHHHHHHHHhhcCCe-EEEEecCCCCC
Q 042073 32 NLARHIANTKAYGVN-VVVAVNMFATD 57 (225)
Q Consensus 32 NL~~HIeNi~~fGvp-vVVAIN~F~~D 57 (225)
.-.+|+.-++.+|+| +||++|+....
T Consensus 120 qt~~~~~~~~~~~~~~iivviNK~D~~ 146 (406)
T TIGR02034 120 QTRRHSYIASLLGIRHVVLAVNKMDLV 146 (406)
T ss_pred ccHHHHHHHHHcCCCcEEEEEEecccc
Confidence 346788888888886 78899997653
No 500
>PF01136 Peptidase_U32: Peptidase family U32 This is family U32 in the peptidase classification. ; InterPro: IPR001539 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belonging to MEROPS peptidase family U32 (clan U-). The type example is collagenase (gene prtC) from Porphyromonas gingivalis (Bacteroides gingivalis) [], which is an enzyme that degrades type I collagen and that seems to require a metal cofactor. The product of PrtC is evolutionary related to a number of uncharacterised proteins with a well conserved region containing two cysteines.; GO: 0008233 peptidase activity, 0006508 proteolysis
Probab=24.40 E-value=1.1e+02 Score=26.04 Aligned_cols=89 Identities=19% Similarity=0.188 Sum_probs=52.3
Q ss_pred HHHHHHHHHHHHcCCCeEEEccccccCchhhHHHHHHHHHHhhcCCCCcccccCCCCCHHHHHHHHHh-HhccCCCCCCH
Q 042073 60 AELNAVRIAAMAAGAFDAVVCSHHAHGGKGAVDLGIAVQRACENVTQPLKFLYPSDVSIKEKIDTIAR-SYGASGVEYSE 138 (225)
Q Consensus 60 ~Ei~~i~~~c~~~g~~~~avs~~wa~GG~Ga~~LA~~Vv~~~e~~~~~f~~lY~~~~~i~eKI~~IA~-IYGA~~V~~s~ 138 (225)
+|++...+..++.|+..+.+++. |...+++.- -..++..++....+...-..=.- =+|++.|+.|+
T Consensus 2 ~~~~~~l~~l~~~g~dgi~v~~~------g~~~~~k~~-------~~~~~i~~~~~~nv~N~~s~~~~~~~G~~~i~ls~ 68 (233)
T PF01136_consen 2 EELEKYLDKLKELGVDGILVSNP------GLLELLKEL-------GPDLKIIADYSLNVFNSESARFLKELGASRITLSP 68 (233)
T ss_pred hHHHHHHHHHHhCCCCEEEEcCH------HHHHHHHHh-------CCCCcEEEecCccCCCHHHHHHHHHcCCCEEEECc
Confidence 46677777788899986666654 444444432 12355555555555444333333 56999999998
Q ss_pred HH-HHHHHHHHHC---------CCCCCCeeEee
Q 042073 139 EA-EKQIKMYTRQ---------GFSGLPFCMAK 161 (225)
Q Consensus 139 ~A-~~~l~~~e~~---------G~~~lPVCmAK 161 (225)
+. .++|+++.+. .++++|+.+++
T Consensus 69 EL~~~ei~~i~~~~~~~~~Ev~v~G~~~~m~s~ 101 (233)
T PF01136_consen 69 ELSLEEIKEIAENSPGVPLEVIVHGNLPMMVSE 101 (233)
T ss_pred cCCHHHHHHHHHhCCCCeEEEEEeCCcccccCC
Confidence 76 3455554442 35666664444
Done!