Query 017904
Match_columns 364
No_of_seqs 151 out of 1278
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 04:26:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017904.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017904hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02606 LpxK: Tetraacyldisacc 100.0 2.1E-87 4.6E-92 656.9 32.5 306 27-361 1-325 (326)
2 PRK01906 tetraacyldisaccharide 100.0 3.7E-82 8E-87 621.5 30.7 291 13-343 12-321 (338)
3 PRK00652 lpxK tetraacyldisacch 100.0 8.4E-82 1.8E-86 616.3 30.3 297 15-361 7-323 (325)
4 TIGR00682 lpxK tetraacyldisacc 100.0 1.8E-80 3.9E-85 604.0 28.4 275 34-343 1-294 (311)
5 COG1663 LpxK Tetraacyldisaccha 100.0 9.9E-79 2.1E-83 588.1 27.0 304 15-360 7-332 (336)
6 PF02492 cobW: CobW/HypB/UreG, 99.5 4.1E-14 8.8E-19 127.5 10.9 150 62-222 1-177 (178)
7 COG0523 Putative GTPases (G3E 99.5 3E-14 6.6E-19 140.0 6.6 157 61-227 1-185 (323)
8 COG2403 Predicted GTPase [Gene 99.5 1.1E-12 2.4E-17 128.9 15.0 174 59-255 124-326 (449)
9 PRK11537 putative GTP-binding 99.3 1.4E-12 3E-17 128.2 6.3 154 60-227 3-188 (318)
10 KOG2743 Cobalamin synthesis pr 99.3 5.8E-12 1.3E-16 121.0 8.9 164 57-228 53-252 (391)
11 TIGR02475 CobW cobalamin biosy 99.3 1.3E-11 2.8E-16 122.4 11.4 161 60-226 3-213 (341)
12 COG0378 HypB Ni2+-binding GTPa 99.2 5.1E-10 1.1E-14 102.1 14.9 155 62-227 12-184 (202)
13 TIGR00073 hypB hydrogenase acc 98.8 9.1E-08 2E-12 88.0 15.3 150 60-223 21-186 (207)
14 PRK10463 hydrogenase nickel in 98.8 4.2E-07 9.2E-12 88.3 17.0 152 61-225 104-270 (290)
15 TIGR00101 ureG urease accessor 98.6 1E-06 2.2E-11 81.1 12.9 150 62-224 3-176 (199)
16 cd03112 CobW_like The function 98.5 2.3E-07 5.1E-12 82.1 7.1 126 62-199 1-158 (158)
17 COG1703 ArgK Putative periplas 98.4 3.7E-06 8.1E-11 81.6 12.4 131 60-199 50-201 (323)
18 PRK09435 membrane ATPase/prote 98.3 5.5E-06 1.2E-10 82.1 11.8 142 62-213 57-220 (332)
19 PRK00771 signal recognition pa 98.3 3.3E-06 7.1E-11 86.6 10.2 218 60-302 95-336 (437)
20 cd03114 ArgK-like The function 98.1 9.9E-06 2.2E-10 71.1 7.8 119 71-198 7-148 (148)
21 PF03308 ArgK: ArgK protein; 98.0 1.9E-05 4.2E-10 75.5 8.1 130 60-200 28-180 (266)
22 TIGR00750 lao LAO/AO transport 97.9 7.3E-05 1.6E-09 72.9 10.4 137 60-204 33-189 (300)
23 TIGR01425 SRP54_euk signal rec 97.8 0.00016 3.4E-09 74.1 11.6 214 62-302 102-343 (429)
24 COG0541 Ffh Signal recognition 97.8 0.00054 1.2E-08 69.7 14.9 266 4-302 51-343 (451)
25 PRK14974 cell division protein 97.8 0.00012 2.6E-09 72.8 9.4 129 62-200 142-292 (336)
26 PRK13768 GTPase; Provisional 97.7 4.6E-05 1E-09 72.6 4.8 38 63-102 4-41 (253)
27 PF00448 SRP54: SRP54-type pro 97.7 0.00018 4E-09 66.1 8.5 127 62-200 3-153 (196)
28 PRK10416 signal recognition pa 97.6 0.00092 2E-08 66.0 13.2 151 63-226 117-294 (318)
29 COG0552 FtsY Signal recognitio 97.6 0.00041 8.8E-09 68.5 9.7 126 63-198 142-295 (340)
30 PRK14494 putative molybdopteri 97.5 0.00081 1.8E-08 63.5 10.9 37 62-100 2-38 (229)
31 TIGR00064 ftsY signal recognit 97.5 0.0037 8.1E-08 60.4 15.0 128 63-200 75-230 (272)
32 PRK10751 molybdopterin-guanine 97.4 0.00077 1.7E-08 61.0 8.9 41 60-102 5-45 (173)
33 PRK12723 flagellar biosynthesi 97.4 0.0019 4E-08 65.6 12.3 128 60-200 174-325 (388)
34 KOG0780 Signal recognition par 97.4 0.0014 3.1E-08 65.8 10.9 208 63-296 103-337 (483)
35 PHA02519 plasmid partition pro 97.3 0.00044 9.6E-09 70.0 6.9 37 61-98 106-142 (387)
36 PHA02518 ParA-like protein; Pr 97.3 0.00027 5.8E-09 64.1 4.8 37 62-99 1-37 (211)
37 PF01656 CbiA: CobQ/CobB/MinD/ 97.3 0.00028 6.1E-09 62.8 4.3 39 64-103 1-39 (195)
38 PRK10867 signal recognition pa 97.3 0.0027 5.8E-08 65.3 11.9 217 60-302 100-344 (433)
39 PRK13849 putative crown gall t 97.2 0.00034 7.4E-09 65.9 4.7 37 62-99 2-38 (231)
40 PRK13869 plasmid-partitioning 97.2 0.0007 1.5E-08 69.0 7.1 37 60-97 120-156 (405)
41 cd01983 Fer4_NifH The Fer4_Nif 97.2 0.00045 9.8E-09 53.7 4.2 34 63-98 1-34 (99)
42 TIGR01007 eps_fam capsular exo 97.2 0.006 1.3E-07 55.6 12.1 39 61-100 17-55 (204)
43 TIGR03499 FlhF flagellar biosy 97.2 0.013 2.9E-07 56.7 14.9 80 63-146 196-280 (282)
44 PRK13705 plasmid-partitioning 97.1 0.00068 1.5E-08 68.7 6.0 37 60-97 105-141 (388)
45 PRK05703 flhF flagellar biosyn 97.1 0.0013 2.8E-08 67.5 8.0 80 63-147 224-308 (424)
46 TIGR00959 ffh signal recogniti 97.1 0.006 1.3E-07 62.7 12.2 127 63-199 102-251 (428)
47 cd02038 FleN-like FleN is a me 97.1 0.0056 1.2E-07 52.8 10.1 38 63-101 1-38 (139)
48 TIGR03371 cellulose_yhjQ cellu 97.0 0.00074 1.6E-08 62.9 4.8 39 62-101 2-40 (246)
49 PRK10037 cell division protein 97.0 0.00079 1.7E-08 63.6 4.6 35 62-97 2-36 (250)
50 cd02036 MinD Bacterial cell di 97.0 0.00074 1.6E-08 59.4 4.1 38 63-101 1-38 (179)
51 TIGR03018 pepcterm_TyrKin exop 97.0 0.0019 4E-08 59.4 6.6 41 60-101 34-75 (207)
52 PF03205 MobB: Molybdopterin g 97.0 0.00096 2.1E-08 58.1 4.4 36 62-100 1-37 (140)
53 COG1192 Soj ATPases involved i 96.9 0.00089 1.9E-08 63.2 4.4 39 62-101 3-42 (259)
54 TIGR03453 partition_RepA plasm 96.9 0.0019 4.2E-08 65.1 6.9 37 60-97 103-139 (387)
55 PRK11889 flhF flagellar biosyn 96.9 0.004 8.6E-08 63.4 8.8 78 62-146 243-328 (436)
56 TIGR01968 minD_bact septum sit 96.9 0.0012 2.6E-08 61.7 4.7 40 62-102 2-41 (261)
57 cd02037 MRP-like MRP (Multiple 96.9 0.0012 2.5E-08 58.5 4.2 40 63-103 1-40 (169)
58 TIGR01969 minD_arch cell divis 96.9 0.0013 2.7E-08 61.3 4.7 38 63-101 2-39 (251)
59 cd03111 CpaE_like This protein 96.9 0.0086 1.9E-07 49.4 9.1 38 63-101 1-39 (106)
60 COG1763 MobB Molybdopterin-gua 96.9 0.0014 3E-08 58.7 4.6 40 61-102 2-41 (161)
61 PF07015 VirC1: VirC1 protein; 96.8 0.0014 3E-08 61.9 4.7 36 61-97 1-36 (231)
62 cd03115 SRP The signal recogni 96.8 0.007 1.5E-07 53.6 8.8 36 64-102 4-39 (173)
63 cd02042 ParA ParA and ParB of 96.8 0.0015 3.2E-08 52.9 4.1 37 63-100 1-37 (104)
64 COG3640 CooC CO dehydrogenase 96.8 0.012 2.5E-07 55.8 10.4 27 72-98 9-36 (255)
65 PRK14489 putative bifunctional 96.8 0.0049 1.1E-07 61.9 8.3 40 61-102 205-244 (366)
66 COG1341 Predicted GTPase or GT 96.8 0.0073 1.6E-07 61.1 9.3 43 58-103 71-113 (398)
67 PRK10818 cell division inhibit 96.7 0.0018 4E-08 61.5 4.6 44 62-106 3-46 (270)
68 cd02040 NifH NifH gene encodes 96.7 0.0018 4E-08 61.1 4.6 34 62-97 2-35 (270)
69 PRK14493 putative bifunctional 96.7 0.002 4.3E-08 62.4 4.8 37 62-101 2-38 (274)
70 PF09140 MipZ: ATPase MipZ; I 96.7 0.0019 4.2E-08 61.6 4.4 38 63-101 2-39 (261)
71 TIGR00176 mobB molybdopterin-g 96.7 0.002 4.3E-08 57.0 4.3 36 64-101 2-37 (155)
72 cd02117 NifH_like This family 96.7 0.0023 4.9E-08 58.9 4.7 33 63-97 2-34 (212)
73 COG3367 Uncharacterized conser 96.6 0.017 3.6E-07 56.9 10.5 145 58-213 145-313 (339)
74 PRK13185 chlL protochlorophyll 96.6 0.0024 5.3E-08 60.7 4.7 34 62-97 3-36 (270)
75 PRK14495 putative molybdopteri 96.6 0.0027 5.8E-08 65.1 4.8 38 62-101 2-39 (452)
76 PF06564 YhjQ: YhjQ protein; 96.5 0.0035 7.5E-08 59.8 4.9 35 62-97 2-36 (243)
77 PRK13235 nifH nitrogenase redu 96.5 0.0033 7.1E-08 60.2 4.6 33 63-97 3-35 (274)
78 TIGR01281 DPOR_bchL light-inde 96.5 0.0033 7.1E-08 59.7 4.6 33 63-97 2-34 (268)
79 PRK12724 flagellar biosynthesi 96.4 0.011 2.3E-07 60.7 8.1 84 63-151 226-313 (432)
80 cd04163 Era Era subfamily. Er 96.4 0.0089 1.9E-07 50.5 6.3 117 63-214 6-139 (168)
81 cd02032 Bchl_like This family 96.4 0.0043 9.4E-08 59.0 4.7 33 63-97 2-34 (267)
82 cd03116 MobB Molybdenum is an 96.3 0.0057 1.2E-07 54.5 5.0 38 62-101 2-39 (159)
83 PRK14491 putative bifunctional 96.3 0.0066 1.4E-07 64.9 6.0 41 59-101 8-48 (597)
84 PRK14723 flhF flagellar biosyn 96.3 0.02 4.4E-07 62.6 9.7 146 63-226 188-358 (767)
85 PRK13231 nitrogenase reductase 96.3 0.003 6.5E-08 60.0 3.0 33 62-97 3-35 (264)
86 PRK14722 flhF flagellar biosyn 96.3 0.037 8.1E-07 55.9 10.9 83 62-150 139-228 (374)
87 CHL00175 minD septum-site dete 96.2 0.0096 2.1E-07 57.0 5.9 46 61-107 15-60 (281)
88 PRK12726 flagellar biosynthesi 96.1 0.024 5.3E-07 57.5 8.8 79 62-145 207-292 (407)
89 COG4088 Predicted nucleotide k 96.0 0.0056 1.2E-07 57.2 3.5 46 61-108 1-49 (261)
90 PRK13230 nitrogenase reductase 96.0 0.0077 1.7E-07 57.7 4.6 33 63-97 3-35 (279)
91 TIGR01287 nifH nitrogenase iro 96.0 0.0082 1.8E-07 57.3 4.5 32 64-97 3-34 (275)
92 PRK00089 era GTPase Era; Revie 95.9 0.029 6.4E-07 54.0 8.2 112 62-211 7-138 (292)
93 PRK13233 nifH nitrogenase redu 95.9 0.0093 2E-07 56.9 4.5 34 62-97 3-37 (275)
94 PRK12727 flagellar biosynthesi 95.9 0.1 2.2E-06 55.2 12.4 172 63-272 353-544 (559)
95 PRK07667 uridine kinase; Provi 95.9 0.012 2.5E-07 53.7 4.9 38 61-100 17-54 (193)
96 PRK06696 uridine kinase; Valid 95.8 0.011 2.3E-07 55.0 4.3 40 61-102 22-62 (223)
97 PRK11670 antiporter inner memb 95.7 0.013 2.8E-07 59.1 4.8 39 61-100 107-145 (369)
98 cd02028 UMPK_like Uridine mono 95.7 0.013 2.8E-07 52.8 4.3 35 63-99 1-35 (179)
99 TIGR03815 CpaE_hom_Actino heli 95.7 0.014 3E-07 57.3 4.7 37 60-97 92-128 (322)
100 CHL00072 chlL photochlorophyll 95.6 0.014 2.9E-07 56.9 4.5 33 64-98 3-35 (290)
101 PRK13236 nitrogenase reductase 95.6 0.017 3.6E-07 56.3 4.9 41 61-103 6-46 (296)
102 PRK13232 nifH nitrogenase redu 95.5 0.017 3.7E-07 55.1 4.5 33 63-97 3-35 (273)
103 TIGR03029 EpsG chain length de 95.3 0.039 8.4E-07 52.6 6.3 38 60-98 102-139 (274)
104 PRK13234 nifH nitrogenase redu 95.3 0.022 4.7E-07 55.5 4.6 36 62-99 5-40 (295)
105 COG2894 MinD Septum formation 95.2 0.074 1.6E-06 50.2 7.6 39 63-102 4-42 (272)
106 PF00485 PRK: Phosphoribulokin 95.2 0.024 5.1E-07 51.5 4.4 38 63-102 1-43 (194)
107 PRK05986 cob(I)alamin adenolsy 95.1 0.17 3.6E-06 46.7 9.4 52 62-117 24-77 (191)
108 cd01895 EngA2 EngA2 subfamily. 95.0 0.077 1.7E-06 45.3 6.9 22 61-85 3-24 (174)
109 cd02034 CooC The accessory pro 95.0 0.036 7.9E-07 46.7 4.5 35 63-100 2-36 (116)
110 cd00561 CobA_CobO_BtuR ATP:cor 94.9 0.15 3.2E-06 45.6 8.5 46 72-119 11-59 (159)
111 PRK05439 pantothenate kinase; 94.9 0.14 3E-06 50.6 9.0 73 26-102 52-128 (311)
112 PF10662 PduV-EutP: Ethanolami 94.9 0.16 3.5E-06 44.7 8.4 114 62-215 3-118 (143)
113 PF02374 ArsA_ATPase: Anion-tr 94.9 0.034 7.4E-07 54.6 4.7 38 63-102 3-40 (305)
114 TIGR00347 bioD dethiobiotin sy 94.8 0.029 6.2E-07 49.3 3.7 27 71-97 6-32 (166)
115 TIGR02016 BchX chlorophyllide 94.8 0.035 7.6E-07 54.2 4.7 37 63-101 2-38 (296)
116 cd02033 BchX Chlorophyllide re 94.8 0.039 8.4E-07 54.9 5.0 39 60-100 30-68 (329)
117 cd00881 GTP_translation_factor 94.7 0.059 1.3E-06 47.1 5.4 128 63-213 2-140 (189)
118 cd01672 TMPK Thymidine monopho 94.6 0.052 1.1E-06 48.2 4.7 34 63-99 3-36 (200)
119 cd00550 ArsA_ATPase Oxyanion-t 94.5 0.046 1E-06 52.0 4.6 38 63-102 2-39 (254)
120 PRK06921 hypothetical protein; 94.5 0.11 2.5E-06 49.9 7.1 35 61-98 118-153 (266)
121 PRK06731 flhF flagellar biosyn 94.5 0.25 5.5E-06 47.8 9.5 38 60-100 74-112 (270)
122 TIGR03172 probable selenium-de 94.4 0.034 7.3E-07 52.7 3.3 28 71-98 5-32 (232)
123 PRK07933 thymidylate kinase; V 94.4 0.057 1.2E-06 50.1 4.8 39 63-103 2-41 (213)
124 KOG1532 GTPase XAB1, interacts 94.3 0.05 1.1E-06 52.9 4.3 35 60-97 19-53 (366)
125 PF01583 APS_kinase: Adenylyls 94.3 0.067 1.5E-06 47.7 4.7 34 62-97 3-36 (156)
126 PRK15453 phosphoribulokinase; 94.1 0.069 1.5E-06 52.1 4.8 38 61-100 5-42 (290)
127 TIGR00041 DTMP_kinase thymidyl 94.1 0.073 1.6E-06 47.8 4.6 34 62-98 5-38 (195)
128 PRK13886 conjugal transfer pro 94.0 0.078 1.7E-06 50.5 4.8 39 62-101 3-41 (241)
129 cd01884 EF_Tu EF-Tu subfamily. 94.0 0.17 3.7E-06 46.3 6.9 130 62-214 4-146 (195)
130 PTZ00301 uridine kinase; Provi 94.0 0.077 1.7E-06 49.4 4.7 41 60-102 2-45 (210)
131 PRK15494 era GTPase Era; Provi 93.9 0.36 7.9E-06 48.0 9.7 32 62-102 54-85 (339)
132 PRK14490 putative bifunctional 93.9 0.084 1.8E-06 53.0 5.1 36 62-100 6-41 (369)
133 cd02029 PRK_like Phosphoribulo 93.9 0.07 1.5E-06 51.7 4.3 35 63-99 1-35 (277)
134 TIGR03574 selen_PSTK L-seryl-t 93.8 0.085 1.9E-06 49.7 4.6 33 63-98 2-34 (249)
135 cd02035 ArsA ArsA ATPase funct 93.7 0.08 1.7E-06 49.0 4.2 37 64-102 2-38 (217)
136 PRK07952 DNA replication prote 93.7 0.095 2.1E-06 49.9 4.8 34 62-98 101-134 (244)
137 COG1419 FlhF Flagellar GTP-bin 93.6 0.28 6.2E-06 50.0 8.3 83 62-151 205-295 (407)
138 PF02223 Thymidylate_kin: Thym 93.6 0.1 2.2E-06 46.7 4.6 31 72-103 5-35 (186)
139 cd02019 NK Nucleoside/nucleoti 93.5 0.14 3E-06 38.8 4.5 31 64-99 3-33 (69)
140 cd00880 Era_like Era (E. coli 93.4 0.17 3.7E-06 41.8 5.5 49 156-208 77-125 (163)
141 COG1618 Predicted nucleotide k 93.4 0.096 2.1E-06 47.2 4.0 34 59-95 4-37 (179)
142 PRK08116 hypothetical protein; 93.4 0.15 3.3E-06 49.1 5.7 36 60-98 114-149 (268)
143 TIGR00708 cobA cob(I)alamin ad 93.4 0.48 1E-05 43.0 8.5 32 63-97 8-39 (173)
144 PF13245 AAA_19: Part of AAA d 93.3 0.082 1.8E-06 41.2 3.1 29 72-100 19-51 (76)
145 COG4917 EutP Ethanolamine util 93.1 1.6 3.4E-05 38.0 10.7 124 63-226 4-128 (148)
146 PF13207 AAA_17: AAA domain; P 93.0 0.083 1.8E-06 43.5 2.9 28 63-95 1-28 (121)
147 PRK00698 tmk thymidylate kinas 93.0 0.14 3.1E-06 46.0 4.7 35 63-101 6-40 (205)
148 TIGR01005 eps_transp_fam exopo 93.0 0.15 3.3E-06 55.8 5.6 61 33-98 522-582 (754)
149 KOG0781 Signal recognition par 93.0 0.15 3.2E-06 52.9 5.1 34 63-99 380-414 (587)
150 COG1159 Era GTPase [General fu 92.9 0.29 6.2E-06 47.9 6.8 114 62-213 8-141 (298)
151 PRK06995 flhF flagellar biosyn 92.9 0.48 1.1E-05 49.6 8.9 188 63-295 259-467 (484)
152 PRK00889 adenylylsulfate kinas 92.9 0.19 4.1E-06 44.5 5.2 34 62-97 5-38 (175)
153 PF13238 AAA_18: AAA domain; P 92.8 0.086 1.9E-06 43.3 2.7 22 64-87 1-22 (129)
154 COG3854 SpoIIIAA ncharacterize 92.8 0.23 4.9E-06 47.5 5.7 91 38-145 122-225 (308)
155 PF13604 AAA_30: AAA domain; P 92.7 0.18 3.9E-06 46.1 4.8 37 63-102 21-57 (196)
156 PF13614 AAA_31: AAA domain; P 92.6 0.22 4.8E-06 42.8 5.1 41 63-104 2-42 (157)
157 cd00009 AAA The AAA+ (ATPases 92.5 0.22 4.7E-06 40.8 4.8 37 60-99 19-55 (151)
158 PF08433 KTI12: Chromatin asso 92.5 0.16 3.4E-06 49.2 4.5 35 62-98 2-36 (270)
159 cd04165 GTPBP1_like GTPBP1-lik 92.5 0.62 1.3E-05 43.6 8.3 54 154-214 109-165 (224)
160 PF03029 ATP_bind_1: Conserved 92.5 0.096 2.1E-06 49.6 2.9 29 72-100 5-33 (238)
161 KOG1805 DNA replication helica 92.5 0.32 6.8E-06 54.2 7.1 42 62-106 687-728 (1100)
162 COG0003 ArsA Predicted ATPase 92.5 0.17 3.7E-06 50.2 4.8 36 63-100 4-39 (322)
163 PRK05480 uridine/cytidine kina 92.4 0.2 4.3E-06 45.8 4.8 35 61-99 6-40 (209)
164 TIGR00554 panK_bact pantothena 92.2 0.61 1.3E-05 45.6 8.2 38 63-102 64-104 (290)
165 COG1084 Predicted GTPase [Gene 92.2 1.2 2.6E-05 44.3 10.1 144 39-214 149-307 (346)
166 PRK06761 hypothetical protein; 92.1 0.16 3.5E-06 49.5 4.0 38 62-101 4-41 (282)
167 cd02027 APSK Adenosine 5'-phos 92.0 0.2 4.4E-06 43.6 4.2 32 64-97 2-33 (149)
168 PRK01077 cobyrinic acid a,c-di 91.9 0.21 4.6E-06 51.6 4.8 50 61-112 3-52 (451)
169 COG0529 CysC Adenylylsulfate k 91.9 0.24 5.2E-06 45.3 4.5 34 62-97 24-57 (197)
170 PRK12377 putative replication 91.7 0.26 5.7E-06 47.1 4.8 36 61-99 102-137 (248)
171 PRK09841 cryptic autophosphory 91.6 0.34 7.5E-06 53.0 6.3 63 32-99 506-568 (726)
172 TIGR03575 selen_PSTK_euk L-ser 91.5 0.23 4.9E-06 49.7 4.4 28 72-99 8-36 (340)
173 cd02025 PanK Pantothenate kina 91.5 0.24 5.1E-06 46.3 4.3 30 72-101 8-40 (220)
174 PRK05541 adenylylsulfate kinas 91.4 0.32 6.9E-06 43.1 4.9 34 62-97 8-41 (176)
175 PLN02924 thymidylate kinase 91.4 0.31 6.7E-06 45.6 5.0 34 62-97 17-50 (220)
176 PRK08939 primosomal protein Dn 91.4 0.28 6E-06 48.3 4.8 36 60-98 156-191 (306)
177 smart00382 AAA ATPases associa 91.3 0.2 4.3E-06 40.4 3.2 36 62-100 4-39 (148)
178 PF01695 IstB_IS21: IstB-like 91.3 0.32 6.9E-06 44.0 4.7 34 62-98 49-82 (178)
179 cd03109 DTBS Dethiobiotin synt 91.3 0.21 4.5E-06 42.9 3.4 27 73-99 9-35 (134)
180 COG0125 Tmk Thymidylate kinase 91.3 0.36 7.9E-06 44.9 5.2 38 63-103 5-42 (208)
181 cd01124 KaiC KaiC is a circadi 91.3 0.35 7.5E-06 42.8 4.9 36 63-101 2-37 (187)
182 PRK08727 hypothetical protein; 91.2 0.32 6.9E-06 45.7 4.8 35 61-98 42-76 (233)
183 PRK08233 hypothetical protein; 91.2 0.19 4.1E-06 44.3 3.1 25 62-88 4-28 (182)
184 PRK06526 transposase; Provisio 91.1 0.18 4E-06 48.2 3.2 33 62-97 100-132 (254)
185 PF07728 AAA_5: AAA domain (dy 91.1 0.33 7.1E-06 41.1 4.4 39 62-107 1-39 (139)
186 COG0572 Udk Uridine kinase [Nu 91.1 0.23 5.1E-06 46.6 3.7 34 62-99 9-42 (218)
187 PRK08903 DnaA regulatory inact 91.0 0.73 1.6E-05 42.5 7.0 36 60-98 42-77 (227)
188 PF03266 NTPase_1: NTPase; In 90.9 0.28 6E-06 44.0 3.9 35 64-101 3-38 (168)
189 PLN03046 D-glycerate 3-kinase; 90.8 0.28 6E-06 50.6 4.3 35 63-99 214-248 (460)
190 PF05729 NACHT: NACHT domain 90.8 0.27 5.9E-06 42.0 3.7 27 62-91 2-28 (166)
191 cd02023 UMPK Uridine monophosp 90.8 0.29 6.3E-06 44.2 4.1 33 64-100 2-34 (198)
192 PRK08118 topology modulation p 90.7 0.22 4.7E-06 44.4 3.1 24 62-88 3-26 (167)
193 PF02367 UPF0079: Uncharacteri 90.7 0.24 5.3E-06 42.4 3.2 35 62-102 17-51 (123)
194 cd01120 RecA-like_NTPases RecA 90.7 0.41 8.8E-06 40.5 4.6 36 64-102 3-38 (165)
195 cd03110 Fer4_NifH_child This p 90.6 0.29 6.2E-06 43.4 3.7 33 71-107 8-40 (179)
196 PRK13973 thymidylate kinase; P 90.6 0.74 1.6E-05 42.5 6.6 38 63-103 5-42 (213)
197 PRK00049 elongation factor Tu; 90.5 1.1 2.4E-05 45.4 8.4 32 57-91 9-40 (396)
198 PLN02796 D-glycerate 3-kinase 90.5 0.3 6.6E-06 48.9 4.1 35 63-99 102-136 (347)
199 TIGR03420 DnaA_homol_Hda DnaA 90.3 0.87 1.9E-05 41.6 6.8 35 60-97 38-72 (226)
200 PLN03127 Elongation factor Tu; 90.3 1.7 3.7E-05 45.0 9.7 124 57-203 58-193 (447)
201 PRK04296 thymidine kinase; Pro 90.3 0.37 8E-06 43.8 4.3 33 63-98 5-37 (190)
202 PRK06762 hypothetical protein; 90.3 0.39 8.5E-06 42.0 4.3 30 63-98 5-34 (166)
203 PRK10536 hypothetical protein; 90.3 0.38 8.1E-06 46.4 4.4 37 62-101 76-113 (262)
204 TIGR00436 era GTP-binding prot 90.2 1.3 2.7E-05 42.4 8.1 31 62-101 2-32 (270)
205 PRK00093 GTP-binding protein D 90.2 1.8 3.9E-05 44.0 9.7 55 156-214 257-311 (435)
206 PRK10646 ADP-binding protein; 90.2 0.21 4.5E-06 44.4 2.5 22 63-87 31-52 (153)
207 PRK13896 cobyrinic acid a,c-di 90.2 1.3 2.7E-05 45.9 8.5 89 72-166 11-116 (433)
208 PRK14721 flhF flagellar biosyn 90.2 1.7 3.6E-05 44.8 9.3 84 62-151 193-283 (420)
209 TIGR02881 spore_V_K stage V sp 90.2 0.79 1.7E-05 43.5 6.6 38 50-91 33-70 (261)
210 COG1149 MinD superfamily P-loo 90.1 0.31 6.7E-06 47.3 3.7 35 63-100 4-38 (284)
211 PRK09270 nucleoside triphospha 90.1 0.43 9.4E-06 44.4 4.7 40 61-102 33-74 (229)
212 cd01394 radB RadB. The archaea 90.0 0.5 1.1E-05 43.3 4.9 35 63-100 22-56 (218)
213 TIGR02880 cbbX_cfxQ probable R 89.9 0.81 1.8E-05 44.3 6.6 40 50-93 49-88 (284)
214 PRK06835 DNA replication prote 89.8 0.46 9.9E-06 47.3 4.8 35 61-98 184-218 (329)
215 PRK13976 thymidylate kinase; P 89.7 0.88 1.9E-05 42.2 6.4 38 64-103 3-41 (209)
216 COG3172 NadR Predicted ATPase/ 89.7 0.33 7.2E-06 43.8 3.3 68 62-145 10-85 (187)
217 PRK05642 DNA replication initi 89.7 0.51 1.1E-05 44.3 4.8 36 61-99 46-81 (234)
218 PRK05339 PEP synthetase regula 89.6 0.38 8.2E-06 46.6 3.9 42 49-97 132-173 (269)
219 PRK11823 DNA repair protein Ra 89.6 1.9 4.1E-05 44.7 9.3 77 63-145 83-163 (446)
220 PF13086 AAA_11: AAA domain; P 89.6 0.28 6.1E-06 44.2 2.9 31 72-102 26-64 (236)
221 COG0455 flhG Antiactivator of 89.4 0.47 1E-05 45.8 4.4 36 63-99 4-40 (262)
222 COG0489 Mrp ATPases involved i 89.3 0.53 1.2E-05 45.3 4.7 32 71-102 66-98 (265)
223 PRK12736 elongation factor Tu; 89.2 2.1 4.5E-05 43.5 9.1 124 57-203 9-144 (394)
224 TIGR00150 HI0065_YjeE ATPase, 89.2 0.32 7E-06 42.2 2.8 24 62-88 24-47 (133)
225 KOG3022 Predicted ATPase, nucl 89.1 0.37 8.1E-06 46.8 3.4 39 72-110 57-95 (300)
226 PF00004 AAA: ATPase family as 88.9 0.63 1.4E-05 38.2 4.3 32 63-100 1-32 (132)
227 cd00046 DEXDc DEAD-like helica 88.9 2.5 5.3E-05 34.0 7.9 27 72-98 9-37 (144)
228 cd01121 Sms Sms (bacterial rad 88.4 2.7 5.9E-05 42.5 9.3 72 72-146 91-166 (372)
229 PHA00547 hypothetical protein 88.4 0.91 2E-05 44.1 5.5 34 63-102 78-111 (337)
230 PRK12735 elongation factor Tu; 88.4 2.5 5.4E-05 42.9 9.1 127 54-203 6-144 (396)
231 cd00544 CobU Adenosylcobinamid 88.3 3.8 8.3E-05 36.7 9.3 38 63-106 2-39 (169)
232 PRK09183 transposase/IS protei 88.3 0.7 1.5E-05 44.2 4.7 34 62-98 104-137 (259)
233 PRK07261 topology modulation p 88.3 0.43 9.2E-06 42.6 3.1 22 63-87 3-24 (171)
234 PRK08181 transposase; Validate 88.3 0.65 1.4E-05 44.9 4.5 34 62-98 108-141 (269)
235 PF03618 Kinase-PPPase: Kinase 88.2 0.47 1E-05 45.6 3.5 42 49-97 126-167 (255)
236 TIGR00235 udk uridine kinase. 88.1 0.57 1.2E-05 42.8 3.9 34 62-99 7-40 (207)
237 TIGR01499 folC folylpolyglutam 88.0 1 2.2E-05 45.4 6.0 49 44-99 4-52 (397)
238 TIGR02237 recomb_radB DNA repa 87.7 0.9 1.9E-05 41.2 4.9 35 63-100 15-49 (209)
239 TIGR02012 tigrfam_recA protein 87.6 1.7 3.6E-05 43.3 7.0 36 63-101 58-93 (321)
240 PF05970 PIF1: PIF1-like helic 87.6 0.6 1.3E-05 46.8 4.0 34 63-98 24-57 (364)
241 COG1100 GTPase SAR1 and relate 87.5 0.41 8.8E-06 43.3 2.5 34 61-97 6-39 (219)
242 PF08477 Miro: Miro-like prote 87.4 0.53 1.1E-05 38.2 2.9 22 63-87 2-23 (119)
243 TIGR01085 murE UDP-N-acetylmur 87.3 0.68 1.5E-05 47.7 4.2 36 60-99 84-119 (464)
244 PRK03846 adenylylsulfate kinas 87.2 0.94 2E-05 41.1 4.7 33 63-97 26-58 (198)
245 PRK09361 radB DNA repair and r 87.0 1 2.2E-05 41.4 4.9 36 63-100 25-60 (225)
246 PRK14093 UDP-N-acetylmuramoyla 86.9 3.8 8.2E-05 42.6 9.5 34 60-97 107-140 (479)
247 COG0802 Predicted ATPase or ki 86.9 0.59 1.3E-05 41.4 3.0 36 60-101 25-60 (149)
248 PRK11519 tyrosine kinase; Prov 86.8 1.3 2.8E-05 48.5 6.3 63 33-100 502-564 (719)
249 PRK08533 flagellar accessory p 86.7 1 2.3E-05 42.2 4.8 34 62-98 26-59 (230)
250 PRK00090 bioD dithiobiotin syn 86.7 0.73 1.6E-05 42.4 3.7 27 72-98 9-35 (222)
251 cd00984 DnaB_C DnaB helicase C 86.6 0.97 2.1E-05 41.9 4.6 39 62-102 14-53 (242)
252 PRK13695 putative NTPase; Prov 86.5 0.91 2E-05 40.2 4.1 29 63-94 3-31 (174)
253 COG1484 DnaC DNA replication p 86.5 1 2.2E-05 43.1 4.7 34 62-98 107-140 (254)
254 TIGR02782 TrbB_P P-type conjug 86.4 0.87 1.9E-05 44.6 4.3 34 61-97 133-168 (299)
255 TIGR00416 sms DNA repair prote 86.3 3.4 7.4E-05 42.9 8.8 78 63-145 96-177 (454)
256 PRK06067 flagellar accessory p 86.3 1.1 2.5E-05 41.5 4.8 36 62-100 27-62 (234)
257 PRK05973 replicative DNA helic 86.2 1.1 2.4E-05 42.6 4.7 38 62-102 66-103 (237)
258 PRK06893 DNA replication initi 86.2 1.1 2.4E-05 41.9 4.7 34 62-98 40-74 (229)
259 COG1428 Deoxynucleoside kinase 86.1 0.64 1.4E-05 43.5 3.0 26 61-88 4-29 (216)
260 PRK08084 DNA replication initi 86.1 1.2 2.5E-05 41.9 4.8 35 62-99 47-81 (235)
261 cd01122 GP4d_helicase GP4d_hel 86.0 1 2.3E-05 42.5 4.5 37 63-101 32-69 (271)
262 PF00437 T2SE: Type II/IV secr 85.8 0.9 2E-05 43.1 4.0 35 61-98 128-162 (270)
263 PRK14016 cyanophycin synthetas 85.8 0.98 2.1E-05 49.6 4.7 37 59-99 478-514 (727)
264 COG4107 PhnK ABC-type phosphon 85.7 0.49 1.1E-05 43.5 1.9 59 34-102 12-71 (258)
265 COG1797 CobB Cobyrinic acid a, 85.5 0.83 1.8E-05 47.0 3.7 31 63-95 3-33 (451)
266 PF12846 AAA_10: AAA-like doma 85.5 1.1 2.5E-05 42.0 4.5 35 63-102 4-38 (304)
267 COG4098 comFA Superfamily II D 85.3 3.1 6.8E-05 41.9 7.5 41 71-114 124-164 (441)
268 TIGR02768 TraA_Ti Ti-type conj 85.3 1.1 2.3E-05 49.5 4.7 36 62-100 370-405 (744)
269 TIGR03878 thermo_KaiC_2 KaiC d 85.3 1.3 2.9E-05 42.2 4.8 36 62-100 38-73 (259)
270 TIGR00455 apsK adenylylsulfate 85.2 1.4 3E-05 39.3 4.7 35 62-98 19-53 (184)
271 PF13191 AAA_16: AAA ATPase do 85.2 1.1 2.3E-05 39.2 3.8 29 60-91 24-52 (185)
272 PRK10865 protein disaggregatio 85.0 5.7 0.00012 44.6 10.3 40 51-93 589-628 (857)
273 COG0467 RAD55 RecA-superfamily 84.8 1.4 3.1E-05 41.7 4.8 38 62-102 25-62 (260)
274 CHL00181 cbbX CbbX; Provisiona 84.7 1.3 2.7E-05 43.2 4.5 39 50-92 50-88 (287)
275 COG1102 Cmk Cytidylate kinase 84.7 1.1 2.4E-05 40.5 3.7 32 63-101 2-33 (179)
276 PF13500 AAA_26: AAA domain; P 84.5 0.97 2.1E-05 40.9 3.4 122 72-199 10-140 (199)
277 cd00983 recA RecA is a bacter 84.5 3.7 8.1E-05 40.9 7.7 36 63-101 58-93 (325)
278 TIGR00379 cobB cobyrinic acid 84.5 1 2.2E-05 46.6 3.9 42 71-113 8-49 (449)
279 cd02030 NDUO42 NADH:Ubiquinone 84.5 0.76 1.6E-05 42.6 2.7 23 64-89 3-25 (219)
280 PRK06547 hypothetical protein; 84.3 1.1 2.3E-05 40.3 3.5 25 61-87 15-39 (172)
281 PRK00139 murE UDP-N-acetylmura 84.3 2 4.4E-05 44.3 6.0 36 60-99 94-129 (460)
282 cd02024 NRK1 Nicotinamide ribo 84.3 0.82 1.8E-05 41.8 2.8 32 63-100 1-32 (187)
283 TIGR03594 GTPase_EngA ribosome 84.3 4.3 9.3E-05 41.1 8.3 56 155-214 255-311 (429)
284 PRK12374 putative dithiobiotin 84.2 1.1 2.5E-05 41.7 3.8 27 72-98 12-38 (231)
285 PF13671 AAA_33: AAA domain; P 84.1 1.2 2.6E-05 37.4 3.6 31 63-101 2-32 (143)
286 PTZ00141 elongation factor 1- 84.1 3.8 8.3E-05 42.4 7.9 77 138-214 84-176 (446)
287 PRK00141 murD UDP-N-acetylmura 84.0 1.6 3.4E-05 45.4 5.1 36 60-99 120-155 (473)
288 PF00580 UvrD-helicase: UvrD/R 84.0 1.5 3.2E-05 41.6 4.5 38 60-100 13-54 (315)
289 PRK06851 hypothetical protein; 83.9 0.99 2.1E-05 45.7 3.4 29 72-100 223-251 (367)
290 PRK12422 chromosomal replicati 83.8 1.4 3.1E-05 45.5 4.7 35 61-98 142-176 (445)
291 KOG3877 NADH:ubiquinone oxidor 83.7 0.91 2E-05 44.4 2.9 39 61-102 71-114 (393)
292 PRK06217 hypothetical protein; 83.7 0.92 2E-05 40.6 2.8 23 62-87 3-25 (183)
293 PF00931 NB-ARC: NB-ARC domain 83.6 1.2 2.6E-05 42.1 3.7 28 59-88 17-44 (287)
294 PRK10846 bifunctional folylpol 83.5 2.6 5.7E-05 42.9 6.4 53 41-100 32-84 (416)
295 PRK01438 murD UDP-N-acetylmura 83.5 1.6 3.5E-05 45.1 4.9 36 60-99 121-156 (480)
296 PRK01390 murD UDP-N-acetylmura 83.5 1.6 3.4E-05 44.9 4.8 35 59-97 112-146 (460)
297 KOG0063 RNAse L inhibitor, ABC 83.3 1.1 2.3E-05 46.4 3.4 32 71-102 375-407 (592)
298 TIGR02068 cya_phycin_syn cyano 83.0 1.4 3.1E-05 49.3 4.5 37 59-99 477-513 (864)
299 TIGR03881 KaiC_arch_4 KaiC dom 82.9 2 4.3E-05 39.6 4.8 36 62-100 22-57 (229)
300 PRK13946 shikimate kinase; Pro 82.6 1.3 2.8E-05 39.8 3.4 26 59-87 9-34 (184)
301 PLN02913 dihydrofolate synthet 82.6 2.8 6.2E-05 44.1 6.3 53 42-101 59-111 (510)
302 cd01673 dNK Deoxyribonucleosid 82.5 1.2 2.6E-05 39.9 3.0 21 64-87 3-23 (193)
303 TIGR01360 aden_kin_iso1 adenyl 82.2 1.5 3.3E-05 38.6 3.6 26 60-87 2-27 (188)
304 TIGR03263 guanyl_kin guanylate 82.1 0.97 2.1E-05 39.9 2.3 36 62-100 3-38 (180)
305 PRK04220 2-phosphoglycerate ki 82.0 3 6.5E-05 41.1 5.8 31 63-99 94-124 (301)
306 TIGR00376 DNA helicase, putati 81.9 1.8 3.8E-05 46.9 4.6 34 62-98 175-208 (637)
307 PRK00784 cobyric acid synthase 81.9 1.2 2.6E-05 46.5 3.2 29 71-99 11-39 (488)
308 PHA00729 NTP-binding motif con 81.9 2.2 4.9E-05 40.3 4.7 24 62-88 19-42 (226)
309 PF13521 AAA_28: AAA domain; P 81.8 1.2 2.5E-05 39.0 2.7 30 63-102 2-31 (163)
310 TIGR00362 DnaA chromosomal rep 81.6 2 4.3E-05 43.5 4.6 35 61-98 137-173 (405)
311 PRK00683 murD UDP-N-acetylmura 81.5 2.2 4.7E-05 43.4 4.9 35 61-99 102-136 (418)
312 COG1066 Sms Predicted ATP-depe 81.5 9 0.0002 39.5 9.1 79 61-145 93-175 (456)
313 cd00464 SK Shikimate kinase (S 81.5 1.5 3.2E-05 37.3 3.2 23 62-87 1-23 (154)
314 TIGR02640 gas_vesic_GvpN gas v 81.3 3.5 7.5E-05 39.3 5.9 37 59-102 20-56 (262)
315 PF01591 6PF2K: 6-phosphofruct 81.2 1.9 4.2E-05 40.6 4.0 37 61-100 13-49 (222)
316 PLN03126 Elongation factor Tu; 81.2 4.1 9E-05 42.6 6.9 134 57-213 78-224 (478)
317 PRK14106 murD UDP-N-acetylmura 81.1 2.1 4.6E-05 43.6 4.7 35 61-99 108-142 (450)
318 TIGR02858 spore_III_AA stage I 81.1 3.3 7.1E-05 40.1 5.7 25 62-89 113-137 (270)
319 PF13481 AAA_25: AAA domain; P 81.1 2.3 5E-05 37.8 4.4 37 63-102 35-81 (193)
320 PF06745 KaiC: KaiC; InterPro 81.0 2 4.3E-05 39.6 4.0 36 62-100 21-57 (226)
321 TIGR01650 PD_CobS cobaltochela 80.9 14 0.0003 37.0 10.1 123 61-192 65-214 (327)
322 PF10412 TrwB_AAD_bind: Type I 80.9 2 4.4E-05 43.5 4.4 35 63-100 18-52 (386)
323 COG0285 FolC Folylpolyglutamat 80.8 6.2 0.00014 40.8 7.9 143 60-214 43-216 (427)
324 PRK07414 cob(I)yrinic acid a,c 80.8 8.8 0.00019 35.0 8.0 26 72-97 30-55 (178)
325 KOG2825 Putative arsenite-tran 80.6 1.8 4E-05 41.8 3.7 38 62-101 20-57 (323)
326 PRK13947 shikimate kinase; Pro 80.5 1.6 3.5E-05 38.1 3.1 23 62-87 3-25 (171)
327 PF00142 Fer4_NifH: 4Fe-4S iro 80.4 1.7 3.8E-05 42.1 3.5 31 72-102 9-39 (273)
328 PF05673 DUF815: Protein of un 80.3 1.4 3.1E-05 42.1 2.9 40 59-101 51-90 (249)
329 cd01131 PilT Pilus retraction 80.3 2.4 5.1E-05 38.7 4.3 25 63-90 4-28 (198)
330 TIGR03880 KaiC_arch_3 KaiC dom 80.3 2.8 6E-05 38.6 4.8 37 62-101 18-54 (224)
331 PRK00131 aroK shikimate kinase 80.3 1.9 4.2E-05 37.3 3.5 23 62-87 6-28 (175)
332 PRK14022 UDP-N-acetylmuramoyla 80.3 4.1 8.8E-05 42.3 6.5 35 60-98 109-143 (481)
333 PRK02006 murD UDP-N-acetylmura 80.1 2.3 5E-05 44.3 4.6 34 61-98 121-154 (498)
334 PRK14737 gmk guanylate kinase; 79.8 1.2 2.5E-05 40.5 2.0 38 60-100 4-41 (186)
335 cd01128 rho_factor Transcripti 79.5 9.2 0.0002 36.5 8.1 26 62-90 18-43 (249)
336 PRK03369 murD UDP-N-acetylmura 79.4 2.9 6.2E-05 43.6 5.1 36 60-99 116-151 (488)
337 PRK13974 thymidylate kinase; P 79.2 5.6 0.00012 36.6 6.4 40 62-103 4-47 (212)
338 TIGR01087 murD UDP-N-acetylmur 79.2 2.8 6.1E-05 42.6 4.8 34 60-97 101-134 (433)
339 PRK00300 gmk guanylate kinase; 79.1 1.8 3.8E-05 39.1 3.0 37 61-100 6-42 (205)
340 PRK03806 murD UDP-N-acetylmura 78.8 3 6.5E-05 42.5 4.9 36 60-99 104-139 (438)
341 PRK13900 type IV secretion sys 78.8 1.9 4.1E-05 42.9 3.4 33 61-97 161-193 (332)
342 PF01935 DUF87: Domain of unkn 78.8 3.1 6.6E-05 38.3 4.6 32 63-97 26-58 (229)
343 COG4240 Predicted kinase [Gene 78.8 2.7 5.8E-05 40.2 4.1 30 71-100 58-88 (300)
344 PRK02472 murD UDP-N-acetylmura 78.7 3 6.5E-05 42.5 4.9 36 60-99 107-142 (447)
345 PRK04663 murD UDP-N-acetylmura 78.7 3.1 6.7E-05 42.6 5.0 35 61-99 108-142 (438)
346 cd01893 Miro1 Miro1 subfamily. 78.7 1.9 4E-05 37.4 2.9 21 62-85 2-22 (166)
347 PRK04308 murD UDP-N-acetylmura 78.7 3 6.4E-05 42.7 4.8 35 60-98 109-143 (445)
348 PRK13889 conjugal transfer rel 78.6 2.5 5.4E-05 48.0 4.5 35 63-100 365-399 (988)
349 PRK04182 cytidylate kinase; Pr 78.5 1.8 3.9E-05 37.8 2.8 23 63-87 2-24 (180)
350 PRK14087 dnaA chromosomal repl 78.5 2.8 6.1E-05 43.5 4.6 34 61-97 142-177 (450)
351 PRK10773 murF UDP-N-acetylmura 78.5 6.3 0.00014 40.6 7.2 35 60-100 99-133 (453)
352 COG0771 MurD UDP-N-acetylmuram 78.3 2.7 5.8E-05 43.7 4.4 40 59-102 108-148 (448)
353 TIGR00313 cobQ cobyric acid sy 78.3 2.1 4.7E-05 44.6 3.7 30 70-99 6-35 (475)
354 PF02562 PhoH: PhoH-like prote 78.3 3.3 7.2E-05 38.5 4.6 36 63-101 22-58 (205)
355 smart00173 RAS Ras subfamily o 78.2 1.9 4.1E-05 36.8 2.8 20 62-84 2-21 (164)
356 PRK01368 murD UDP-N-acetylmura 78.1 3.1 6.8E-05 43.0 4.8 35 61-99 104-138 (454)
357 TIGR03600 phage_DnaB phage rep 77.8 3.2 6.9E-05 42.3 4.7 38 62-101 195-233 (421)
358 COG5271 MDN1 AAA ATPase contai 77.8 1.7 3.6E-05 51.9 2.8 32 60-97 464-495 (4600)
359 cd01129 PulE-GspE PulE/GspE Th 77.8 2.6 5.6E-05 40.5 3.8 33 62-97 82-114 (264)
360 PLN02881 tetrahydrofolylpolygl 77.7 6.7 0.00015 41.6 7.2 55 42-101 43-97 (530)
361 PRK03803 murD UDP-N-acetylmura 77.6 3.3 7.1E-05 42.4 4.8 36 60-99 107-142 (448)
362 PRK13833 conjugal transfer pro 77.5 2.9 6.2E-05 41.6 4.2 33 62-97 146-180 (323)
363 PRK04690 murD UDP-N-acetylmura 77.5 3 6.5E-05 43.3 4.5 35 61-99 115-149 (468)
364 PRK00149 dnaA chromosomal repl 77.1 3.2 7E-05 42.7 4.6 34 61-97 149-184 (450)
365 cd01878 HflX HflX subfamily. 77.1 4 8.7E-05 36.6 4.7 22 62-86 43-64 (204)
366 cd02020 CMPK Cytidine monophos 77.0 2.1 4.5E-05 36.0 2.7 16 72-87 8-23 (147)
367 PLN02348 phosphoribulokinase 77.0 5.1 0.00011 41.0 5.8 27 62-90 50-76 (395)
368 PRK12339 2-phosphoglycerate ki 76.8 2.2 4.7E-05 39.3 2.9 23 63-87 5-27 (197)
369 PRK04040 adenylate kinase; Pro 76.8 2.5 5.4E-05 38.5 3.2 23 63-88 5-27 (188)
370 PRK13975 thymidylate kinase; P 76.6 2.4 5.2E-05 37.9 3.1 24 63-89 5-28 (196)
371 PRK02705 murD UDP-N-acetylmura 76.6 3.7 8E-05 42.0 4.8 35 60-98 108-142 (459)
372 PF13401 AAA_22: AAA domain; P 76.6 3.1 6.7E-05 34.2 3.6 25 62-89 6-30 (131)
373 TIGR03877 thermo_KaiC_1 KaiC d 76.5 4.2 9.1E-05 38.0 4.8 37 62-101 23-59 (237)
374 PLN03118 Rab family protein; P 76.5 2.3 5.1E-05 38.6 3.0 26 56-84 10-35 (211)
375 PF08303 tRNA_lig_kinase: tRNA 76.5 2 4.4E-05 38.8 2.5 22 71-92 7-28 (168)
376 PF04665 Pox_A32: Poxvirus A32 76.4 4.3 9.4E-05 38.7 4.9 39 60-101 13-51 (241)
377 PRK03839 putative kinase; Prov 76.3 2.5 5.3E-05 37.5 3.1 22 63-87 3-24 (180)
378 KOG0927 Predicted transporter 76.0 6.1 0.00013 42.0 6.2 15 58-72 384-398 (614)
379 PRK05506 bifunctional sulfate 75.9 3.2 7E-05 44.7 4.4 36 61-98 460-495 (632)
380 COG2074 2-phosphoglycerate kin 75.9 4.6 0.0001 39.1 4.8 31 60-95 87-118 (299)
381 COG0773 MurC UDP-N-acetylmuram 75.8 2.2 4.8E-05 44.3 2.9 34 62-99 108-141 (459)
382 PRK13948 shikimate kinase; Pro 75.8 2.8 6.1E-05 38.1 3.3 27 58-87 8-34 (182)
383 PF13555 AAA_29: P-loop contai 75.7 2.6 5.6E-05 31.8 2.5 38 49-89 7-49 (62)
384 TIGR01081 mpl UDP-N-acetylmura 75.6 3.9 8.4E-05 41.9 4.7 32 63-98 104-135 (448)
385 TIGR03346 chaperone_ClpB ATP-d 75.5 19 0.00041 40.4 10.4 44 51-97 586-629 (852)
386 PRK09376 rho transcription ter 75.5 6.4 0.00014 40.5 6.0 48 64-116 173-223 (416)
387 TIGR01448 recD_rel helicase, p 75.4 3.8 8.2E-05 45.1 4.8 34 63-99 341-376 (720)
388 PRK01710 murD UDP-N-acetylmura 75.1 3.8 8.2E-05 42.2 4.5 33 60-96 116-148 (458)
389 PRK00411 cdc6 cell division co 75.1 4 8.7E-05 40.7 4.6 33 62-97 57-91 (394)
390 TIGR02528 EutP ethanolamine ut 75.1 2.3 5E-05 35.6 2.4 21 62-85 2-22 (142)
391 TIGR03345 VI_ClpV1 type VI sec 75.1 14 0.00031 41.5 9.2 88 51-147 587-677 (852)
392 cd01874 Cdc42 Cdc42 subfamily. 75.1 2.3 5.1E-05 37.5 2.6 21 61-84 2-22 (175)
393 PRK14733 coaE dephospho-CoA ki 75.0 2.4 5.2E-05 39.4 2.7 25 60-87 6-30 (204)
394 PRK06851 hypothetical protein; 75.0 4.2 9.1E-05 41.2 4.6 34 62-97 31-64 (367)
395 TIGR03015 pepcterm_ATPase puta 75.0 2.9 6.3E-05 39.2 3.3 27 62-91 45-71 (269)
396 PRK08099 bifunctional DNA-bind 75.0 2.5 5.4E-05 43.2 3.1 24 61-87 220-243 (399)
397 COG0563 Adk Adenylate kinase a 75.0 2.9 6.2E-05 37.9 3.1 32 62-101 2-33 (178)
398 PRK13764 ATPase; Provisional 74.9 3.7 8.1E-05 44.2 4.4 32 62-96 259-290 (602)
399 PRK08506 replicative DNA helic 74.9 4.3 9.4E-05 42.3 4.8 39 62-102 193-231 (472)
400 cd04154 Arl2 Arl2 subfamily. 74.8 2.9 6.2E-05 36.4 3.0 23 60-85 14-36 (173)
401 cd04101 RabL4 RabL4 (Rab-like4 74.8 2.7 5.8E-05 35.9 2.8 20 62-84 2-21 (164)
402 PRK00625 shikimate kinase; Pro 74.7 2.9 6.3E-05 37.6 3.1 23 62-87 2-24 (173)
403 PRK03731 aroL shikimate kinase 74.7 3 6.5E-05 36.5 3.1 23 62-87 4-26 (171)
404 PHA00520 packaging NTPase P4 74.6 3.5 7.7E-05 40.5 3.8 35 62-100 126-160 (330)
405 TIGR02322 phosphon_PhnN phosph 74.5 2.7 5.9E-05 37.1 2.9 25 63-90 4-28 (179)
406 cd00227 CPT Chloramphenicol (C 74.4 3 6.5E-05 36.9 3.1 25 62-88 3-27 (175)
407 PRK13826 Dtr system oriT relax 74.3 3.9 8.4E-05 47.0 4.6 36 62-100 399-434 (1102)
408 cd04140 ARHI_like ARHI subfami 74.2 2.7 5.9E-05 36.2 2.7 21 61-84 2-22 (165)
409 COG2019 AdkA Archaeal adenylat 74.2 3.2 6.9E-05 37.9 3.1 42 62-114 6-47 (189)
410 PRK13894 conjugal transfer ATP 74.2 3.7 7.9E-05 40.7 3.9 24 61-87 149-172 (319)
411 COG1855 ATPase (PilT family) [ 74.1 3.6 7.7E-05 42.9 3.8 27 63-92 266-292 (604)
412 cd04119 RJL RJL (RabJ-Like) su 74.1 2.9 6.3E-05 35.4 2.8 20 62-84 2-21 (168)
413 PF09848 DUF2075: Uncharacteri 74.1 4.1 8.8E-05 40.5 4.3 36 63-100 3-40 (352)
414 PRK05057 aroK shikimate kinase 74.0 3.1 6.7E-05 37.1 3.1 23 62-87 6-28 (172)
415 PRK14088 dnaA chromosomal repl 73.8 4.3 9.3E-05 41.9 4.5 35 61-98 131-167 (440)
416 TIGR02760 TraI_TIGR conjugativ 73.8 3.8 8.2E-05 50.0 4.6 30 72-101 455-484 (1960)
417 TIGR01359 UMP_CMP_kin_fam UMP- 73.8 3.1 6.7E-05 36.7 3.0 22 63-87 2-23 (183)
418 cd04138 H_N_K_Ras_like H-Ras/N 73.8 2.9 6.4E-05 35.1 2.8 20 62-84 3-22 (162)
419 PRK12338 hypothetical protein; 73.8 2.7 5.9E-05 41.7 2.9 24 62-87 5-28 (319)
420 PRK04328 hypothetical protein; 73.7 5.4 0.00012 37.7 4.8 37 62-101 25-61 (249)
421 PRK11929 putative bifunctional 73.7 7.1 0.00015 44.1 6.5 36 60-99 111-146 (958)
422 PRK05537 bifunctional sulfate 73.6 7.1 0.00015 41.8 6.2 33 63-97 394-427 (568)
423 PHA02542 41 41 helicase; Provi 73.5 4.7 0.0001 42.2 4.7 38 63-102 192-229 (473)
424 TIGR01447 recD exodeoxyribonuc 73.5 4.1 8.9E-05 43.7 4.4 34 63-99 163-201 (586)
425 cd04135 Tc10 TC10 subfamily. 73.4 3 6.6E-05 36.0 2.8 20 62-84 2-21 (174)
426 COG1245 Predicted ATPase, RNas 73.4 3.9 8.5E-05 42.7 3.9 33 71-103 375-416 (591)
427 PF03796 DnaB_C: DnaB-like hel 73.3 5.2 0.00011 37.8 4.6 39 62-102 20-59 (259)
428 TIGR00390 hslU ATP-dependent p 73.2 13 0.00028 38.6 7.6 51 60-113 47-100 (441)
429 COG0421 SpeE Spermidine syntha 72.9 3 6.5E-05 40.7 2.9 77 141-217 133-212 (282)
430 cd04113 Rab4 Rab4 subfamily. 72.9 3.1 6.7E-05 35.4 2.7 20 62-84 2-21 (161)
431 TIGR02639 ClpA ATP-dependent C 72.7 21 0.00046 39.3 9.7 88 50-147 474-562 (731)
432 COG1160 Predicted GTPases [Gen 72.6 8.4 0.00018 39.9 6.1 136 73-214 150-318 (444)
433 COG1806 Uncharacterized protei 72.4 3.6 7.7E-05 39.8 3.2 35 49-86 133-167 (273)
434 PRK11776 ATP-dependent RNA hel 72.3 1.2E+02 0.0026 31.0 16.1 59 247-315 241-300 (460)
435 PRK00421 murC UDP-N-acetylmura 72.3 5.2 0.00011 41.2 4.7 32 62-97 108-139 (461)
436 TIGR02759 TraD_Ftype type IV c 72.3 4.9 0.00011 43.0 4.6 34 63-99 179-212 (566)
437 COG2805 PilT Tfp pilus assembl 72.2 8.7 0.00019 38.2 5.8 35 63-100 127-161 (353)
438 TIGR00231 small_GTP small GTP- 72.2 3.4 7.3E-05 33.9 2.7 22 61-85 2-23 (161)
439 COG1348 NifH Nitrogenase subun 72.2 3.7 8.1E-05 39.3 3.2 31 72-102 10-40 (278)
440 cd04106 Rab23_lke Rab23-like s 72.1 3.4 7.3E-05 35.1 2.8 20 62-84 2-21 (162)
441 cd04150 Arf1_5_like Arf1-Arf5- 72.1 3.2 7E-05 35.8 2.7 20 62-84 2-21 (159)
442 KOG1803 DNA helicase [Replicat 72.1 2.7 5.8E-05 45.0 2.5 37 62-101 203-239 (649)
443 cd01428 ADK Adenylate kinase ( 72.1 3.4 7.5E-05 36.6 2.9 22 63-87 2-23 (194)
444 TIGR01313 therm_gnt_kin carboh 72.1 2.8 6E-05 36.4 2.3 16 72-87 7-22 (163)
445 KOG2749 mRNA cleavage and poly 72.0 11 0.00023 38.3 6.5 55 40-102 88-142 (415)
446 KOG0726 26S proteasome regulat 71.8 7.6 0.00016 38.6 5.3 48 58-114 217-271 (440)
447 cd01127 TrwB Bacterial conjuga 71.8 9 0.00019 39.1 6.2 33 62-97 44-76 (410)
448 cd04124 RabL2 RabL2 subfamily. 71.8 3.6 7.8E-05 35.4 2.9 20 62-84 2-21 (161)
449 PF00071 Ras: Ras family; Int 71.8 3.6 7.7E-05 35.0 2.8 20 62-84 1-20 (162)
450 smart00174 RHO Rho (Ras homolo 71.8 2.8 6.1E-05 36.2 2.2 19 63-84 1-19 (174)
451 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 71.6 3.4 7.3E-05 37.1 2.8 22 60-84 5-26 (182)
452 cd04139 RalA_RalB RalA/RalB su 71.6 3.4 7.4E-05 34.9 2.7 20 62-84 2-21 (164)
453 COG3451 VirB4 Type IV secretor 71.5 5.3 0.00012 44.5 4.8 31 72-102 445-476 (796)
454 KOG0635 Adenosine 5'-phosphosu 71.5 6.5 0.00014 35.4 4.4 34 62-97 32-65 (207)
455 cd03221 ABCF_EF-3 ABCF_EF-3 E 71.5 4.7 0.0001 34.7 3.5 24 62-88 28-51 (144)
456 PF02399 Herpes_ori_bp: Origin 71.3 3.2 7E-05 45.9 2.9 36 62-99 50-86 (824)
457 PRK05632 phosphate acetyltrans 71.3 4 8.7E-05 44.5 3.7 28 72-99 12-39 (684)
458 cd04132 Rho4_like Rho4-like su 71.1 3.7 7.9E-05 36.1 2.9 20 62-84 2-21 (187)
459 PF00154 RecA: recA bacterial 71.1 11 0.00023 37.6 6.4 77 62-145 54-138 (322)
460 PRK13949 shikimate kinase; Pro 71.1 3.8 8.2E-05 36.5 2.9 24 62-88 3-26 (169)
461 cd01860 Rab5_related Rab5-rela 71.0 3.4 7.4E-05 35.1 2.6 21 61-84 2-22 (163)
462 cd00071 GMPK Guanosine monopho 71.0 3.4 7.4E-05 35.4 2.5 24 62-88 1-24 (137)
463 cd04103 Centaurin_gamma Centau 71.0 3.8 8.2E-05 35.6 2.9 20 62-84 2-21 (158)
464 TIGR01143 murF UDP-N-acetylmur 70.9 5.3 0.00011 40.6 4.3 28 61-92 74-101 (417)
465 cd04121 Rab40 Rab40 subfamily. 70.9 4 8.6E-05 37.0 3.1 22 60-84 6-27 (189)
466 PRK14964 DNA polymerase III su 70.8 15 0.00032 38.7 7.6 31 56-89 31-61 (491)
467 PF13173 AAA_14: AAA domain 70.8 5.9 0.00013 33.2 3.9 34 62-98 3-36 (128)
468 PRK13851 type IV secretion sys 70.8 3.5 7.7E-05 41.3 2.9 32 61-96 163-194 (344)
469 cd04146 RERG_RasL11_like RERG/ 70.7 3.6 7.7E-05 35.3 2.6 19 63-84 2-20 (165)
470 PF00308 Bac_DnaA: Bacterial d 70.7 7.1 0.00015 36.3 4.8 34 61-97 35-70 (219)
471 KOG0394 Ras-related GTPase [Ge 70.7 4.4 9.5E-05 37.4 3.2 31 56-89 5-36 (210)
472 COG5008 PilU Tfp pilus assembl 70.7 9.6 0.00021 37.4 5.7 75 62-145 129-207 (375)
473 cd04120 Rab12 Rab12 subfamily. 70.6 3.5 7.7E-05 37.8 2.7 20 62-84 2-21 (202)
474 cd01864 Rab19 Rab19 subfamily. 70.6 3.7 8E-05 35.2 2.7 21 61-84 4-24 (165)
475 KOG1533 Predicted GTPase [Gene 70.4 5.1 0.00011 38.5 3.7 36 63-101 5-40 (290)
476 PRK05595 replicative DNA helic 70.2 6.5 0.00014 40.5 4.8 39 62-102 202-241 (444)
477 cd01892 Miro2 Miro2 subfamily. 70.2 3.7 8E-05 35.9 2.6 20 62-84 6-25 (169)
478 TIGR02173 cyt_kin_arch cytidyl 70.2 4.1 8.9E-05 35.2 2.9 23 63-87 2-24 (171)
479 KOG0345 ATP-dependent RNA heli 70.1 7.9 0.00017 40.5 5.2 100 64-166 46-167 (567)
480 cd04115 Rab33B_Rab33A Rab33B/R 70.1 3.8 8.2E-05 35.6 2.7 20 62-84 4-23 (170)
481 cd04118 Rab24 Rab24 subfamily. 70.1 4 8.7E-05 36.1 2.9 20 62-84 2-21 (193)
482 cd04145 M_R_Ras_like M-Ras/R-R 70.1 4 8.7E-05 34.6 2.8 22 61-85 3-24 (164)
483 PF12775 AAA_7: P-loop contain 69.9 3.6 7.9E-05 39.7 2.7 37 61-100 34-70 (272)
484 PRK13700 conjugal transfer pro 69.9 5.7 0.00012 43.6 4.5 26 72-97 194-219 (732)
485 cd04136 Rap_like Rap-like subf 69.9 4.1 8.8E-05 34.5 2.8 20 62-84 3-22 (163)
486 cd02022 DPCK Dephospho-coenzym 69.9 4.9 0.00011 35.9 3.4 20 63-85 2-21 (179)
487 smart00178 SAR Sar1p-like memb 69.8 5.1 0.00011 35.6 3.5 22 60-84 17-38 (184)
488 PRK14738 gmk guanylate kinase; 69.8 4.7 0.0001 37.0 3.3 25 59-86 12-36 (206)
489 COG1936 Predicted nucleotide k 69.7 5.4 0.00012 36.4 3.6 31 62-98 1-31 (180)
490 cd04152 Arl4_Arl7 Arl4/Arl7 su 69.6 3.9 8.5E-05 36.2 2.7 22 60-84 3-24 (183)
491 cd04162 Arl9_Arfrp2_like Arl9/ 69.6 3.6 7.7E-05 35.8 2.4 19 63-84 2-20 (164)
492 cd01130 VirB11-like_ATPase Typ 69.4 4.7 0.0001 36.2 3.2 25 62-89 27-51 (186)
493 TIGR00665 DnaB replicative DNA 69.4 6.8 0.00015 40.0 4.8 38 63-102 197-235 (434)
494 PF04851 ResIII: Type III rest 69.3 4.6 0.0001 34.8 3.1 33 62-100 27-59 (184)
495 cd02026 PRK Phosphoribulokinas 69.1 3.5 7.6E-05 39.8 2.4 31 72-103 8-38 (273)
496 TIGR01082 murC UDP-N-acetylmur 69.0 7 0.00015 40.1 4.8 32 61-96 99-130 (448)
497 PLN03025 replication factor C 69.0 11 0.00023 37.0 5.9 28 63-93 37-64 (319)
498 cd04134 Rho3 Rho3 subfamily. 69.0 3.9 8.4E-05 36.5 2.5 20 62-84 2-21 (189)
499 cd01125 repA Hexameric Replica 68.9 7.4 0.00016 36.3 4.6 23 63-88 4-26 (239)
500 PRK12608 transcription termina 68.9 15 0.00032 37.5 6.9 51 62-116 135-187 (380)
No 1
>PF02606 LpxK: Tetraacyldisaccharide-1-P 4'-kinase; InterPro: IPR003758 Tetraacyldisaccharide 4'-kinase phosphorylates the 4'-position of a tetraacyldisaccharide 1-phosphate precursor (DS-1-P) of lipid A, but the enzyme has not yet been purified because of instability []. This enzyme is involved in the synthesis of lipid A portion of the bacterial lipopolysaccharide layer (LPS).; GO: 0005524 ATP binding, 0009029 tetraacyldisaccharide 4'-kinase activity, 0009245 lipid A biosynthetic process
Probab=100.00 E-value=2.1e-87 Score=656.91 Aligned_cols=306 Identities=39% Similarity=0.593 Sum_probs=264.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHhcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC---
Q 017904 27 LIPLLSLASSLYGISLFLRHSFYRFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG--- 103 (364)
Q Consensus 27 L~~lL~plS~lY~~~~~~R~~~y~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~--- 103 (364)
|+++|+|||+||++++++||++|++|+++++++|+|||||||||+|||||||+|+||+++|+++|++|+|||||||+
T Consensus 1 ~~~lL~PlS~lY~~~~~~R~~~y~~g~~~~~~~~vpVIsVGNltvGGTGKTP~v~~L~~~L~~~G~~~~IlSRGYg~~~~ 80 (326)
T PF02606_consen 1 WRWLLWPLSLLYGLIVSLRNFLYDRGLLKSYRLPVPVISVGNLTVGGTGKTPLVIWLARLLQARGYRPAILSRGYGRKSK 80 (326)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHhcCCcccCCCCCcEEEEcccccCCCCchHHHHHHHHHHHhcCCceEEEcCCCCCCCC
Confidence 35689999999999999999999999999999999999999999999999999999999999999999999999996
Q ss_pred ---------------CchHHHHHHHhCCCCEEEeccccchhHH-HhhhcCCCCEEEEcCCCCCccccCceeEEEEeCCCC
Q 017904 104 ---------------GDEVRMLERHLLERPAKIGKNCINPKVG-SHLKSGKIGAVILDDGMQHWSLRRDLEIVMVNGLMP 167 (364)
Q Consensus 104 ---------------GDE~~lla~~~~~~~v~v~~~~~~~~~~-~~~~~~~~dviIlDDgfQh~~L~rdl~Ivl~Da~~~ 167 (364)
||||+|+|+++| ++|.|+.++. .+. .++.+.++|||||||||||++|+||+||||+|+.+|
T Consensus 81 ~~~~~v~~~~~~~~~GDEp~lla~~~~-~~V~V~~dR~--~~~~~~~~~~~~dviilDDGfQh~~L~rDl~Ivl~D~~~~ 157 (326)
T PF02606_consen 81 GEPILVSDGSDAEEVGDEPLLLARKLP-VPVIVGPDRV--AAARAALKEFPADVIILDDGFQHRRLKRDLDIVLVDADRP 157 (326)
T ss_pred CCeEEEeCCCChhhhcCHHHHHHHhcC-CcEEEeCcHH--HHHHHHHHHCCCCEEEEcCCcccccccCCcEEEEEeCCCC
Confidence 899999999999 9999887643 333 344555699999999999999999999999999999
Q ss_pred CCCCccccCCCCCCchhhhccccEEEEcCCcchhhhhhHHHHHHHHhhccCCcEEEEEEecceeEeecCCCCcccccccC
Q 017904 168 WGNRKLLPLGPLREPLMALKRADIAVVHHADLISEQNLKDIELEMRDIKKSLSIFFTRMVPSYLFEVGNINSKIPLTAVC 247 (364)
Q Consensus 168 ~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~~~~~~~~~i~~~l~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 247 (364)
|||+++||+|+||||+++|+|||+||+|+.+.......+.+ .++.|+|++++.+..+.++.. .+..+++
T Consensus 158 ~gng~lLPaG~LREp~~~l~rAD~vi~~~~~~~~~~~~~~~-------~~~~p~~~~~~~~~~~~~~~~----~~~~~l~ 226 (326)
T PF02606_consen 158 FGNGFLLPAGPLREPLSALKRADAVIVTGCDASDPAIEKAI-------RPGKPIFSARLKPEGLRNLNT----GSIEPLK 226 (326)
T ss_pred CcCCccCCCCcccCChhHhCcccEEEEcCCCcchhHHHHhh-------hcCCceEEEEEEecccccccc----cchhhcc
Confidence 99999999999999999999999999998665433221111 158999999999987755432 2334589
Q ss_pred CCeEEEEecCCChHHHHHHHHHhCCcccccccCCCCCCCCHHHHHHHHHHHHhhhcCCCCCCeEEecccCcccChhHHhh
Q 017904 248 NANVLCVSAIGSANAFVQSLQKLGPCSVNRLDFNDHHSFQARDIEMIKKKLEELEGKFNPKPIVVVTEKDYDRDPEILMH 327 (364)
Q Consensus 248 ~~~v~a~sGIg~P~~F~~~L~~~G~~~~~~~~f~DHh~yt~~dl~~l~~~~~~~~~~~~~~~~ivtTEKDaVKl~~~~~~ 327 (364)
|++++||||||||++|+++|+++|+++++++.|||||.||++|++.+.+.+++. . .|||||||||||+.....
T Consensus 227 ~~~v~a~sGIg~P~~F~~~L~~~G~~~~~~~~f~DHh~yt~~dl~~l~~~a~~~------~-~iltTeKDaVKl~~~~~~ 299 (326)
T PF02606_consen 227 GKPVLAFSGIGNPERFFDTLESLGIEVVGTLAFPDHHRYTEQDLEKLEAEAKAA------G-IILTTEKDAVKLPDFAQE 299 (326)
T ss_pred CCeeEEEEEcCChHHHHHHHHHcCCeEEEeeECCCCCCCCHHHHHHHHHhhccc------c-eEEecHHHHhhChhhhhh
Confidence 999999999999999999999999999999999999999999999999987753 1 699999999999864331
Q ss_pred hccceEEEEeeEEEEeccCCCChHHHHHHHHHhh
Q 017904 328 LEAYKVLVLCSKLQIIPCRGCTEDSFKLLLKELV 361 (364)
Q Consensus 328 ~~~~~~~~l~~~l~~~~~~~~~~~~l~~~l~~~~ 361 (364)
.+.++|+++++++|. +.|.+.|.+.+
T Consensus 300 -~~~~~~~l~i~~~~~-------~~~~~~l~~~l 325 (326)
T PF02606_consen 300 -NGLKIWVLPIELEFE-------EEFEEFLLKKL 325 (326)
T ss_pred -cCCeEEEEEEEEEEC-------HHHHHHHHHhh
Confidence 124599999999883 57888887765
No 2
>PRK01906 tetraacyldisaccharide 4'-kinase; Provisional
Probab=100.00 E-value=3.7e-82 Score=621.46 Aligned_cols=291 Identities=27% Similarity=0.423 Sum_probs=242.7
Q ss_pred hhccCCCcChhHHHHHHHHHHHHHHHHHHHHHHHHhHhcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCC
Q 017904 13 YAQDHAKLTPIQSSLIPLLSLASSLYGISLFLRHSFYRFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEI 92 (364)
Q Consensus 13 ~~~~~~~~~~~~~~L~~lL~plS~lY~~~~~~R~~~y~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~ 92 (364)
+.+.|.+.+++ ..+|+|+|+||++++++||++|+.|+++++++|+|||||||||||||||||+|+||+++|+++|+
T Consensus 12 ~~~~W~~~~~~----~~lL~PlS~lY~~i~~lR~~~y~~g~~~~~~~pvPVIsVGNitvGGTGKTP~v~~La~~l~~~G~ 87 (338)
T PRK01906 12 VTREWQRRGAL----AWALTPFACLFGAIAALRRAAYARGWKKSVRLGVPVVVVGNVTVGGTGKTPTVIALVDALRAAGF 87 (338)
T ss_pred HHHHHccCCHH----HHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCCEEEECCccCCCCChHHHHHHHHHHHHHcCC
Confidence 45568777654 34788999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceEEEecCCCC-----------------CchHHHHHHHhCCCCEEEeccccchhHHH-hhh-cCCCCEEEEcCCCCCccc
Q 017904 93 SPLILTRGYAG-----------------GDEVRMLERHLLERPAKIGKNCINPKVGS-HLK-SGKIGAVILDDGMQHWSL 153 (364)
Q Consensus 93 kvaIlsRGYg~-----------------GDE~~lla~~~~~~~v~v~~~~~~~~~~~-~~~-~~~~dviIlDDgfQh~~L 153 (364)
+|+|||||||+ ||||+|||+++ +++|.|+.++ ..+.. ++. ..++|+|||||||||++|
T Consensus 88 ~~~IlSRGYg~~~~~~~~v~~~~~~~~~GDEpllla~~~-~~~V~V~~dR--~~aa~~l~~~~~~~dviIlDDGfQH~~L 164 (338)
T PRK01906 88 TPGVVSRGYGAKIKHPTAVTPASRASDAGDEPLLIARRT-DAPVWVCPDR--VAAAQALLAAHPGVDVIVSDDGLQHYRL 164 (338)
T ss_pred ceEEEecCCCCCCCCCeEEcCCCChhhhCcHHHHhhhcC-CCeEEEeCcH--HHHHHHHHHhCCCCCEEEECCCCccchh
Confidence 99999999995 99999999986 8889888763 33333 333 347999999999999999
Q ss_pred cCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcchhhhhhHHHHHHHHhhccCCcEEEEEEecceeEe
Q 017904 154 RRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLISEQNLKDIELEMRDIKKSLSIFFTRMVPSYLFE 233 (364)
Q Consensus 154 ~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~~~~~~~~~i~~~l~~~~~~~~i~~~~~~~~~~~~ 233 (364)
+||+||||+|+ ++|||+++||+||||||.+++++||++ |+.+. . .+. ...+++.+++.+..+++
T Consensus 165 ~RDleIvl~D~-~~~Gng~lLPaGpLREp~~~l~~a~v~--~~~~~------~----~~~---~~~~~~~~~~~~~~~~~ 228 (338)
T PRK01906 165 ARDVEIVVFDH-RLGGNGFLLPAGPLREPLSRRRDATLI--NDPYS------R----ALP---PWPDTYALRLAPGDAWH 228 (338)
T ss_pred cCCcEEEEEcC-CCCCCCcccCCcCCcCChhhcccEEEE--eCcch------h----hhc---ccCcceEEEecccceee
Confidence 99999999999 778999999999999999999987744 43211 0 111 12357788888877666
Q ss_pred ecCCCCcccccccCCCeEEEEecCCChHHHHHHHHHhCCcccccccCCCCCCCCHHHHHHHHHHHHhhhcCCCCCCeEEe
Q 017904 234 VGNINSKIPLTAVCNANVLCVSAIGSANAFVQSLQKLGPCSVNRLDFNDHHSFQARDIEMIKKKLEELEGKFNPKPIVVV 313 (364)
Q Consensus 234 ~~~~~~~~~~~~~~~~~v~a~sGIg~P~~F~~~L~~~G~~~~~~~~f~DHh~yt~~dl~~l~~~~~~~~~~~~~~~~ivt 313 (364)
+..+.+..+.+.++|++++||||||||++|+++|+++|+++ .++.|||||.||++|++.+. ++.|||
T Consensus 229 ~~~~~~~~~~~~l~~~~v~a~aGIgnP~~F~~~L~~~G~~~-~~~~fpDHh~yt~~dl~~~~------------~~~lvt 295 (338)
T PRK01906 229 LDDPALRRPLSQFAGERVLAAAGIGAPERFFATLRAAGLAP-ATRALPDHYAFADNPFVDDD------------ADAILI 295 (338)
T ss_pred cCCccccCchhHcCCCeEEEEEECCCHHHHHHHHHHcCCce-eEEeCCCCCCCCHHHHhhcC------------CCeEEE
Confidence 64433334566788999999999999999999999999986 67999999999999996541 246999
Q ss_pred cccCcccChhHHhhhccceEEEEeeEEEEe
Q 017904 314 TEKDYDRDPEILMHLEAYKVLVLCSKLQII 343 (364)
Q Consensus 314 TEKDaVKl~~~~~~~~~~~~~~l~~~l~~~ 343 (364)
||||+||+.+. ...++|+++++++|.
T Consensus 296 TeKDaVKl~~~----~~~~~~~l~i~~~~~ 321 (338)
T PRK01906 296 TEKDAVKLGSW----RDARIWVVPVEAALD 321 (338)
T ss_pred CchHhhcCccc----cCCCEEEEEEEEEEC
Confidence 99999998632 134799999999985
No 3
>PRK00652 lpxK tetraacyldisaccharide 4'-kinase; Reviewed
Probab=100.00 E-value=8.4e-82 Score=616.34 Aligned_cols=297 Identities=34% Similarity=0.513 Sum_probs=245.1
Q ss_pred ccCCCcChhHHHHHHHHHHHHHHHHHHHHHHHHhHhcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCce
Q 017904 15 QDHAKLTPIQSSLIPLLSLASSLYGISLFLRHSFYRFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISP 94 (364)
Q Consensus 15 ~~~~~~~~~~~~L~~lL~plS~lY~~~~~~R~~~y~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kv 94 (364)
+.|.+.+ .+..+|+|+|++|++++++||++|+.|+++++++|+|||||||||||||||||+++||+++|+++|++|
T Consensus 7 ~~w~~~~----~l~~lL~PlS~lY~~~~~~R~~~y~~~~~~~~~~~~pvIsVGNi~vGGtGKTP~v~~L~~~l~~~g~~~ 82 (325)
T PRK00652 7 RFWYKRS----PLAWLLLPLSWLYGLIAALRRLLYRLGLKKPYRAPVPVIVVGNITVGGTGKTPVVIALAEQLQARGLKP 82 (325)
T ss_pred HHhcccc----HHHHHHHHHHHHHHHHHHHHHHHHHhCCCcccCCCCCEEEEcCeeCCCCChHHHHHHHHHHHHHCCCeE
Confidence 3465532 355689999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEecCCCC------------------CchHHHHHHHhCCCCEEEeccccchhHHHhh-hcCCCCEEEEcCCCCCccccC
Q 017904 95 LILTRGYAG------------------GDEVRMLERHLLERPAKIGKNCINPKVGSHL-KSGKIGAVILDDGMQHWSLRR 155 (364)
Q Consensus 95 aIlsRGYg~------------------GDE~~lla~~~~~~~v~v~~~~~~~~~~~~~-~~~~~dviIlDDgfQh~~L~r 155 (364)
+|||||||+ ||||+|||++ |+++|+|+.++. .+...+ ++.++|+|||||||||++|+|
T Consensus 83 ~ilsRGYg~~~~~~~~~v~~~~~~~~~GDEp~lla~~-~~~~V~V~~dR~--~~~~~~~~~~~~dviilDDGfQh~~l~r 159 (325)
T PRK00652 83 GVVSRGYGGKLEKGPLLVDPDHTAAEVGDEPLLIARR-TGAPVAVSPDRV--AAARALLAAHGADIIILDDGLQHYRLAR 159 (325)
T ss_pred EEECCCCCCCcCCCCEEeCCCCChhhhCcHHHHhccC-CCceEEEcCcHH--HHHHHHHhcCCCCEEEEcCCccCcccCC
Confidence 999999985 8999999998 889998887532 343333 445899999999999999999
Q ss_pred ceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCC-cchhhhhhHHHHHHHHhhccCCcEEEEEEecceeEee
Q 017904 156 DLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHA-DLISEQNLKDIELEMRDIKKSLSIFFTRMVPSYLFEV 234 (364)
Q Consensus 156 dl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~-d~~~~~~~~~i~~~l~~~~~~~~i~~~~~~~~~~~~~ 234 (364)
|+||||+|+++||||+++||+|+||||+++|+|||+||+|+. +. ..+.+..++.+....++
T Consensus 160 dl~Ivl~d~~~~fgng~~LPaG~LREp~~~l~rAd~vv~~~~~~~------------------~~~~~~~~~~~~~~~~~ 221 (325)
T PRK00652 160 DIEIVVVDGQRGFGNGFLLPAGPLREPPSRLKSVDAVIVNGGGDA------------------RAGEIPMRLEPGEAVNL 221 (325)
T ss_pred CeEEEEECCCCCCCCCccCCCcCccCChhHhccCCEEEEeCCCcc------------------ccccceeeecccccccc
Confidence 999999999999999999999999999999999999999983 21 01234444444433333
Q ss_pred cCCCCcccccccCCCeEEEEecCCChHHHHHHHHHhCCcccccccCCCCCCCCHHHHHHHHHHHHhhhcCCCCCCeEEec
Q 017904 235 GNINSKIPLTAVCNANVLCVSAIGSANAFVQSLQKLGPCSVNRLDFNDHHSFQARDIEMIKKKLEELEGKFNPKPIVVVT 314 (364)
Q Consensus 235 ~~~~~~~~~~~~~~~~v~a~sGIg~P~~F~~~L~~~G~~~~~~~~f~DHh~yt~~dl~~l~~~~~~~~~~~~~~~~ivtT 314 (364)
. .+..+.+.+ ++++||||||||++|+++|+++|++++++..|||||.||++|++.+.+. ++.||||
T Consensus 222 -~-~~~~~~~~l--~~v~a~sGIgnP~~F~~~L~~~G~~~~~~~~f~DHh~ft~~dl~~l~~~----------~~~ivtT 287 (325)
T PRK00652 222 -T-GERRPLASL--QRVVAFAGIGNPQRFFATLRALGIEVVKTHAFPDHYPFTKADLEALVSK----------GLTLLMT 287 (325)
T ss_pred -c-cccCchhhh--ceEEEEEeCCCHHHHHHHHHHcCCceeeeeeCCCCCCCCHHHHHHHHhc----------CCeEEEc
Confidence 1 112233445 7899999999999999999999999999999999999999999988652 1469999
Q ss_pred ccCcccChhHHhhhccceEEEEeeEEEEeccCCCChHHHHHHHHHhh
Q 017904 315 EKDYDRDPEILMHLEAYKVLVLCSKLQIIPCRGCTEDSFKLLLKELV 361 (364)
Q Consensus 315 EKDaVKl~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~l~~~l~~~~ 361 (364)
|||+||+++. ...++|+++++++|. ++|.+.+.+.+
T Consensus 288 eKDaVKl~~~----~~~~~~~l~i~~~~~-------~~~~~~l~~~i 323 (325)
T PRK00652 288 EKDAVKCRAF----AQDNWWYLPVDAELS-------PDFPDALLEKL 323 (325)
T ss_pred hhHHhhCccc----cCCCEEEEEEEEEEC-------HHHHHHHHHHH
Confidence 9999998731 124789999999985 23555555544
No 4
>TIGR00682 lpxK tetraacyldisaccharide 4'-kinase. Also called lipid-A 4'-kinase. This essential gene encodes an enzyme in the pathway of lipid A biosynthesis in Gram-negative organisms. A single copy of this protein is found in Gram-negative bacteria. PSI-BLAST converges on this set of apparent orthologs without identifying any other homologs.
Probab=100.00 E-value=1.8e-80 Score=603.97 Aligned_cols=275 Identities=33% Similarity=0.458 Sum_probs=228.9
Q ss_pred HHHHHHHHHHHHHHhHhcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC----------
Q 017904 34 ASSLYGISLFLRHSFYRFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG---------- 103 (364)
Q Consensus 34 lS~lY~~~~~~R~~~y~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~---------- 103 (364)
+|++|++++++|+++|+.|+++++++|+|||||||||||||||||+++||+++|+++|++|+|||||||+
T Consensus 1 ls~ly~~~~~lr~~~y~~~~~~~~~~~vPVIsVGNitvGGTGKTP~v~~La~~l~~~G~~~~IlSRGYg~~~~~~~~~v~ 80 (311)
T TIGR00682 1 FSWLYELISNVRRFLYDLGLKKAKRAPVPVVIVGNLSVGGTGKTPVVVWLAELLKDRGLRVGVLSRGYGSKTKKYTLVGS 80 (311)
T ss_pred CHHHHHHHHHHHHHHHHcCccccccCCCCEEEEeccccCCcChHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCCeeeeC
Confidence 4899999999999999999999999999999999999999999999999999999999999999999995
Q ss_pred --------CchHHHHHHHhCCCCEEEeccccchhHHHh-hhcCCCCEEEEcCCCCCccccCceeEEEEeCCCCCCCCccc
Q 017904 104 --------GDEVRMLERHLLERPAKIGKNCINPKVGSH-LKSGKIGAVILDDGMQHWSLRRDLEIVMVNGLMPWGNRKLL 174 (364)
Q Consensus 104 --------GDE~~lla~~~~~~~v~v~~~~~~~~~~~~-~~~~~~dviIlDDgfQh~~L~rdl~Ivl~Da~~~~gn~~~l 174 (364)
||||+|||+++ +++|.|+.++ ..+..+ +++.++|+|||||||||++|+||+||||+|+++||||+++|
T Consensus 81 ~~~~~~~~GDEp~lla~~~-~~~V~V~~dR--~~a~~~~~~~~~~dviilDDGfQh~~l~rD~~IvlvD~~~~fgng~lL 157 (311)
T TIGR00682 81 KKHTASEVGDEPVLLAKYL-HATVVASKDR--KDAILLILEQLDPDVIILDDGLQHRKLHRDVEIVVVDGQRPFGNGFLL 157 (311)
T ss_pred CCCChHHcCcHHHHhhhhc-CCcEEEeChH--HHHHHHHHhcCCCCEEEECCCCcCccccCCeEEEEECCCCCCCCCccc
Confidence 99999999997 8889888753 334333 34558999999999999999999999999999999999999
Q ss_pred cCCCCCCchhhhccccEEEEcCCcchhhhhhHHHHHHHHhhccCCcEEEEEEecceeEeecCCCCcccccccCCCeEEEE
Q 017904 175 PLGPLREPLMALKRADIAVVHHADLISEQNLKDIELEMRDIKKSLSIFFTRMVPSYLFEVGNINSKIPLTAVCNANVLCV 254 (364)
Q Consensus 175 PaG~LREp~~~L~rAd~ivvtk~d~~~~~~~~~i~~~l~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~a~ 254 (364)
|+||||||.++|+|||+||+|+.+.... .+... . .+.+. .+.++.. .+..+.+.++|+ ++||
T Consensus 158 PaGpLREp~~~l~raD~vvv~~~~~~~~----~~~~~---~---~~~~~------~~~~~~~-~~~~~~~~l~~~-v~a~ 219 (311)
T TIGR00682 158 PAGPLREFPKRLKSADAVIVNGGENQSG----FIPMF---L---MPRIA------CCVNLST-GERVPFDILKEL-VGAF 219 (311)
T ss_pred CCcCCCCChhhhhhCCEEEEeCCccccc----hHHhh---c---Ccccc------ceeeccc-cccCChhHhCCe-EEEE
Confidence 9999999999999999999998642221 11111 1 11111 1111211 122345567888 9999
Q ss_pred ecCCChHHHHHHHHHhCCcccccccCCCCCCCCHHHHHHHHHHHHhhhcCCCCCCeEEecccCcccChhHHhhhccceEE
Q 017904 255 SAIGSANAFVQSLQKLGPCSVNRLDFNDHHSFQARDIEMIKKKLEELEGKFNPKPIVVVTEKDYDRDPEILMHLEAYKVL 334 (364)
Q Consensus 255 sGIg~P~~F~~~L~~~G~~~~~~~~f~DHh~yt~~dl~~l~~~~~~~~~~~~~~~~ivtTEKDaVKl~~~~~~~~~~~~~ 334 (364)
||||||++|+++|+++|+++++++.|||||.||.+|++.+.+ ....||||||||||++.. ...++|
T Consensus 220 aGIgnP~~F~~~L~~~G~~~~~~~~fpDHh~f~~~d~~~~~~----------~~~~ivtTeKDaVKl~~~----~~~~~~ 285 (311)
T TIGR00682 220 SGIGNPQRFFAMLKNLGIQVKGTYLFPDHQELNEFCSSFAPE----------QGQILLTTEKDAVKLQAL----AEEIWL 285 (311)
T ss_pred EECCChHHHHHHHHHcCCccccceECCCCccCCHHHHHHHHh----------CCCeEEechhHHhhchhc----cCCcEE
Confidence 999999999999999999999999999999999999987543 124699999999998742 124789
Q ss_pred EEeeEEEEe
Q 017904 335 VLCSKLQII 343 (364)
Q Consensus 335 ~l~~~l~~~ 343 (364)
+++++++|.
T Consensus 286 ~l~i~~~~~ 294 (311)
T TIGR00682 286 YLPVDLERM 294 (311)
T ss_pred EEEEEEEEC
Confidence 999999996
No 5
>COG1663 LpxK Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]
Probab=100.00 E-value=9.9e-79 Score=588.14 Aligned_cols=304 Identities=33% Similarity=0.457 Sum_probs=243.1
Q ss_pred ccCCCcChhHHHHHHHHHHHHHHHHHHHHHHHHhHhcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCce
Q 017904 15 QDHAKLTPIQSSLIPLLSLASSLYGISLFLRHSFYRFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISP 94 (364)
Q Consensus 15 ~~~~~~~~~~~~L~~lL~plS~lY~~~~~~R~~~y~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kv 94 (364)
+.|++.++| +..+|+||||||+.++.+|+.+|++| ++++|+|||||||+|||||||||+++||++.|+++|++|
T Consensus 7 ~~w~~~~~~---l~~lL~PlS~ly~~i~~~r~~~~~~g---~~~~pvPVI~VGNltvGGtGKTP~vi~la~~l~~rG~~~ 80 (336)
T COG1663 7 RFWYGPSPW---LAFLLLPLSWLYAFIAGLRRKLAKKG---SYRAPVPVICVGNLTVGGTGKTPVVIWLAEALQARGVRV 80 (336)
T ss_pred HhhhCcchH---HHHHHHHHHHHHHHHHHHHHHHhccc---cccCCCCEEEEccEEECCCCcCHHHHHHHHHHHhcCCee
Confidence 456666666 66789999999999999999999998 899999999999999999999999999999999999999
Q ss_pred EEEecCCCC------------------CchHHHHHHHhCCCCEEEeccccchhHHH-hhh-cCCCCEEEEcCCCCCcccc
Q 017904 95 LILTRGYAG------------------GDEVRMLERHLLERPAKIGKNCINPKVGS-HLK-SGKIGAVILDDGMQHWSLR 154 (364)
Q Consensus 95 aIlsRGYg~------------------GDE~~lla~~~~~~~v~v~~~~~~~~~~~-~~~-~~~~dviIlDDgfQh~~L~ 154 (364)
+|+|||||+ ||||+|+|++ .++||.|+.++ .++.. +++ +.++|+||+||||||++|+
T Consensus 81 gvvSRGYgg~~~~~~~~~~~~~~a~~~GDEPlLlA~~-t~~pv~v~~~R--~~~~~~l~~~~~~~diIi~DDG~Qh~rL~ 157 (336)
T COG1663 81 GVVSRGYGGKLKVVPLVDNIHTTAAEVGDEPLLLARR-TGAPVAVSPDR--KDAAKALLAAHLGCDIIVLDDGLQHYRLH 157 (336)
T ss_pred EEEecCcCCCCccccccccCcCChHHcCchHHHHhhh-cCCcEEEehhH--HHHHHHHHhhCCCCCEEEEcCcchhhHhh
Confidence 999999996 9999999998 47889887753 34433 344 3689999999999999999
Q ss_pred CceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcchhhhhhHHHHHHHHhhccCCcEEEEEEecceeEee
Q 017904 155 RDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLISEQNLKDIELEMRDIKKSLSIFFTRMVPSYLFEV 234 (364)
Q Consensus 155 rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~~~~~~~~~i~~~l~~~~~~~~i~~~~~~~~~~~~~ 234 (364)
||++|||+|+.++||||++||+||||||+.+|++||+|+.++..... . + +..++.. ...+++.+..
T Consensus 158 rD~eIvvvd~~r~fGng~~lPaGpLRep~~rl~~ad~ii~~g~~~~~-~--~-~~~~l~~--~~~~~l~~~~-------- 223 (336)
T COG1663 158 RDFEIVVVDGQRGFGNGFLLPAGPLREPPKRLKSADAIITNGGGSRA-D--P-IPMRLAP--GHAPNLVAPG-------- 223 (336)
T ss_pred cceeEEEEeccccCCCcccccCCcccCChhhhhcCcEEEecCCCccc-c--c-hhhhhcc--cccceeeccc--------
Confidence 99999999999999999999999999999999999999998732211 1 1 2222221 1223333222
Q ss_pred cCCCCcccccccCCCeEEEEecCCChHHHHHHHHHhCCcccccccCCCCCCCCHHHHHHHHHHHHhhhcCCCCCCeEEec
Q 017904 235 GNINSKIPLTAVCNANVLCVSAIGSANAFVQSLQKLGPCSVNRLDFNDHHSFQARDIEMIKKKLEELEGKFNPKPIVVVT 314 (364)
Q Consensus 235 ~~~~~~~~~~~~~~~~v~a~sGIg~P~~F~~~L~~~G~~~~~~~~f~DHh~yt~~dl~~l~~~~~~~~~~~~~~~~ivtT 314 (364)
...+..++++++++||||||||++||+||+++|++++++++|||||.|+++|++.+.+.++. ..+|||
T Consensus 224 ----~~~~~~~~~~~~v~afaGIg~P~rFf~tL~~~g~~~~~~~~FpDH~~f~~~~l~~l~~~~~~--------~~Ll~T 291 (336)
T COG1663 224 ----ERSDVADLKGKRVVAFAGIGNPQRFFATLRNLGIQVVETLAFPDHYDFSAADLEDLAKKAQA--------DGLLTT 291 (336)
T ss_pred ----eecchhhcCCceEEEEEecCChHHHHHHHHHcCcceeeeecCCchhhccHHHHHHHHhhhcc--------ceEEee
Confidence 22344567889999999999999999999999999999999999999999999999887653 359999
Q ss_pred ccCcccChhHHhhhccceEEEEeeEEE-EeccCCCChHH-HHHHHHHh
Q 017904 315 EKDYDRDPEILMHLEAYKVLVLCSKLQ-IIPCRGCTEDS-FKLLLKEL 360 (364)
Q Consensus 315 EKDaVKl~~~~~~~~~~~~~~l~~~l~-~~~~~~~~~~~-l~~~l~~~ 360 (364)
|||+||++... +.++|.+++... +. .+..+. +.+.++..
T Consensus 292 eKDaVKl~~~~----~~~~~~l~v~~~~~~---~e~~~~~i~~~~~~~ 332 (336)
T COG1663 292 EKDAVKLRDFA----PENVWNLPVLAIELS---FELPDAKLLALLKRL 332 (336)
T ss_pred ccceeeccccc----chhhccceeeEEecc---ccchhHHHHHHHHHh
Confidence 99999997522 244555555432 22 123344 55555443
No 6
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=99.54 E-value=4.1e-14 Score=127.46 Aligned_cols=150 Identities=19% Similarity=0.319 Sum_probs=99.8
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCC--chHHHHHHHhCCCCE-EEeccccchh--------H
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGG--DEVRMLERHLLERPA-KIGKNCINPK--------V 130 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~G--DE~~lla~~~~~~~v-~v~~~~~~~~--------~ 130 (364)
||++|+++ -|||||+++..+++ ...+|.|++||.+++|.. |+. ++.+ . ++++ .+..+++|+. .
T Consensus 1 Pv~ii~Gf--LGsGKTTli~~ll~-~~~~~~~~~vI~ne~g~~~iD~~-~l~~-~-~~~v~~l~~gcicc~~~~~~~~~l 74 (178)
T PF02492_consen 1 PVIIITGF--LGSGKTTLINHLLK-RNRQGERVAVIVNEFGEVNIDAE-LLQE-D-GVPVVELNNGCICCTLRDDLVEAL 74 (178)
T ss_dssp -EEEEEES--TTSSHHHHHHHHHH-HHTTTS-EEEEECSTTSTHHHHH-HHHT-T-T-EEEEECTTTESS-TTS-HHHHH
T ss_pred CEEEEEcC--CCCCHHHHHHHHHH-HhcCCceeEEEEccccccccchh-hhcc-c-ceEEEEecCCCcccccHHHHHHHH
Confidence 89999999 79999999999999 667899999999999852 333 3332 2 3322 3333445442 1
Q ss_pred HHhhhcC--CCCEEEEc-CCCCCcc-c-----------cCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEc
Q 017904 131 GSHLKSG--KIGAVILD-DGMQHWS-L-----------RRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVH 195 (364)
Q Consensus 131 ~~~~~~~--~~dviIlD-DgfQh~~-L-----------~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvt 195 (364)
..+.... ++|.||+| -|+-|+. + +-+.-|.|+|+.+ |.. ....-..-..+++.||+||+|
T Consensus 75 ~~l~~~~~~~~d~IiIE~sG~a~p~~l~~~~~~~~~~~~~~~iI~vVDa~~-~~~----~~~~~~~~~~Qi~~ADvIvln 149 (178)
T PF02492_consen 75 RRLLREYEERPDRIIIETSGLADPAPLILQDPPLKEDFRLDSIITVVDATN-FDE----LENIPELLREQIAFADVIVLN 149 (178)
T ss_dssp HHHCCCCHGC-SEEEEEEECSSGGGGHHHHSHHHHHHESESEEEEEEEGTT-HGG----HTTHCHHHHHHHCT-SEEEEE
T ss_pred HHHHHhcCCCcCEEEECCccccccchhhhccccccccccccceeEEecccc-ccc----cccchhhhhhcchhcCEEEEe
Confidence 2334455 79999999 6666653 2 2333489999977 311 011112235599999999999
Q ss_pred CCcchhhhh-hHHHHHHHHhhccCCcEE
Q 017904 196 HADLISEQN-LKDIELEMRDIKKSLSIF 222 (364)
Q Consensus 196 k~d~~~~~~-~~~i~~~l~~~~~~~~i~ 222 (364)
|.|++++++ ++.+++.+++.||.++|+
T Consensus 150 K~D~~~~~~~i~~~~~~ir~lnp~a~Iv 177 (178)
T PF02492_consen 150 KIDLVSDEQKIERVREMIRELNPKAPIV 177 (178)
T ss_dssp -GGGHHHH--HHHHHHHHHHH-TTSEEE
T ss_pred ccccCChhhHHHHHHHHHHHHCCCCEEe
Confidence 999999884 499999999999999986
No 7
>COG0523 Putative GTPases (G3E family) [General function prediction only]
Probab=99.49 E-value=3e-14 Score=139.99 Aligned_cols=157 Identities=15% Similarity=0.200 Sum_probs=111.6
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC-----------CchHHHHHHHhCCCCEEEeccccchh
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG-----------GDEVRMLERHLLERPAKIGKNCINPK 129 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~-----------GDE~~lla~~~~~~~v~v~~~~~~~~ 129 (364)
+||++|+++ .|+||||++.++++... |.|+|||.|.+|- .||. +.+..+||.|+...+..-+.
T Consensus 1 ipVtvitGF--LGsGKTTlL~~lL~~~~--g~kiAVIVNEfGEvgID~~~~l~~~~e~--~~El~nGCICCT~r~dl~~~ 74 (323)
T COG0523 1 IPVTVITGF--LGSGKTTLLNHLLANRD--GKKIAVIVNEFGEVGIDGGALLSDTGEE--VVELTNGCICCTVRDDLLPA 74 (323)
T ss_pred CCEEEEeec--CCCCHHHHHHHHHhccC--CCcEEEEEecCccccccCCCccccCCcc--EEEeCCceEEEeccchhHHH
Confidence 699999999 89999999999999886 8999999999983 2222 33344566552211100001
Q ss_pred HHHhhh-cCCCCEEEEc-CC----------CCC-ccccCcee----EEEEeCCCCCCCCccccCCCCCCchhhhccccEE
Q 017904 130 VGSHLK-SGKIGAVILD-DG----------MQH-WSLRRDLE----IVMVNGLMPWGNRKLLPLGPLREPLMALKRADIA 192 (364)
Q Consensus 130 ~~~~~~-~~~~dviIlD-Dg----------fQh-~~L~rdl~----Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~i 192 (364)
...+.. +..+|.||+| =| |++ ..+...+. |.|+|+.+ |.++.. + .-.+-..|++-||+|
T Consensus 75 ~~~L~~~~~~~D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~-~~~~~~--~-~~~~~~~Qia~AD~i 150 (323)
T COG0523 75 LERLLRRRDRPDRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAH-FLEGLD--A-IAELAEDQLAFADVI 150 (323)
T ss_pred HHHHHhccCCCCEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHH-hhhhHH--H-HHHHHHHHHHhCcEE
Confidence 122333 4469999999 33 444 34555554 68999987 432211 1 113345699999999
Q ss_pred EEcCCcchhhhhhHHHHHHHHhhccCCcEEEEEEe
Q 017904 193 VVHHADLISEQNLKDIELEMRDIKKSLSIFFTRMV 227 (364)
Q Consensus 193 vvtk~d~~~~~~~~~i~~~l~~~~~~~~i~~~~~~ 227 (364)
|+||+|++++++++.+++.+++.||.++++.+.+.
T Consensus 151 vlNK~Dlv~~~~l~~l~~~l~~lnp~A~i~~~~~~ 185 (323)
T COG0523 151 VLNKTDLVDAEELEALEARLRKLNPRARIIETSYG 185 (323)
T ss_pred EEecccCCCHHHHHHHHHHHHHhCCCCeEEEcccc
Confidence 99999999999999999999999999999987765
No 8
>COG2403 Predicted GTPase [General function prediction only]
Probab=99.46 E-value=1.1e-12 Score=128.86 Aligned_cols=174 Identities=21% Similarity=0.317 Sum_probs=122.2
Q ss_pred CCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec--CCCCCchHHH------------------------HHH
Q 017904 59 LPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR--GYAGGDEVRM------------------------LER 112 (364)
Q Consensus 59 ~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR--GYg~GDE~~l------------------------la~ 112 (364)
+..|||-|-..- -|.|||.+..|+++.|+++||||+++.. =|+ ||++-+ .+.
T Consensus 124 ~ekPviaV~atr-tg~GKsaVS~~v~r~l~ergyrv~vVrhPmiy~-~~~ieitve~~~k~edld~ha~t~eereeye~~ 201 (449)
T COG2403 124 LEKPVIAVTATR-TGVGKSAVSRYVARLLRERGYRVCVVRHPMIYR-GDRIEITVERLAKLEDLDRHAATDEEREEYESY 201 (449)
T ss_pred hcCceEEEEEec-cccchhHHHHHHHHHHHHcCCceEEEecCceec-CCchhhhHHHHhCHhhccccccchhhHHHHhhc
Confidence 345766544332 6889999999999999999999999976 343 344211 111
Q ss_pred HhCCCCEEEeccccchhHHHhhhcCCCCEEEEcCCCCC-ccccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccE
Q 017904 113 HLLERPAKIGKNCINPKVGSHLKSGKIGAVILDDGMQH-WSLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADI 191 (364)
Q Consensus 113 ~~~~~~v~v~~~~~~~~~~~~~~~~~~dviIlDDgfQh-~~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ 191 (364)
-.-+..+..|+++. ..... .+...|+|++|.|=.+ +-++.|+-|||+||.+|--+-.-. -|++| ++-||+
T Consensus 202 I~tg~~vlAGvdy~--~vlke-~~~~aD~IlwdGgnndfPfvkpd~~Ivvvda~rpg~ei~~~-pGe~~-----irlAD~ 272 (449)
T COG2403 202 IPTGGGVLAGVDYG--TVLKE-GEKEADFILWDGGNNDFPFVKPDLHIVVVDALRPGEEIGSF-PGELR-----IRLADL 272 (449)
T ss_pred cccccceEeeeeHH--HHHHH-HhhhccEEEEeCCCCCCCcccCCeeEEEecCCCCchhhccC-CCcee-----eeeccE
Confidence 11122334444321 01111 1223599999977544 468999999999999985432233 57776 999999
Q ss_pred EEEcCCcchhhhhhHHHHHHHHhhccCCcEEEE--EEecceeEeecCCCCcccccccCCCeEEEEe
Q 017904 192 AVVHHADLISEQNLKDIELEMRDIKKSLSIFFT--RMVPSYLFEVGNINSKIPLTAVCNANVLCVS 255 (364)
Q Consensus 192 ivvtk~d~~~~~~~~~i~~~l~~~~~~~~i~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~v~a~s 255 (364)
+|+|+++..+.++..++...++++||.+.|..+ .+.|. ++.++.||+++.++
T Consensus 273 VIItkveea~~~kvrkI~~~I~~iNP~A~Vi~~~~~~~~~------------~~~~ieGKrvlvve 326 (449)
T COG2403 273 VIITKVEEAMAEKVRKIVRNIEEINPKAEVILAASVFRPD------------PPEDIEGKRVLVVE 326 (449)
T ss_pred EEEecccccchHHHHHHHHHHHhhCCCcEEEecccccccC------------ChhhcCCcEEEEEe
Confidence 999999999999999999999999999999877 44432 34567899988876
No 9
>PRK11537 putative GTP-binding protein YjiA; Provisional
Probab=99.33 E-value=1.4e-12 Score=128.17 Aligned_cols=154 Identities=13% Similarity=0.220 Sum_probs=104.1
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC--CchHHHHHHHhCCCC-EEEeccccchh-------
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG--GDEVRMLERHLLERP-AKIGKNCINPK------- 129 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~--GDE~~lla~~~~~~~-v~v~~~~~~~~------- 129 (364)
++||.+|+++ .||||||++..+++. .+|.|++||.|.+|. -|..+ +... +.. +....+|+||.
T Consensus 3 ~ipv~iltGF--LGaGKTTll~~ll~~--~~~~riaVi~NEfG~v~iD~~l-l~~~--~~~v~eL~~GCiCCs~~~~l~~ 75 (318)
T PRK11537 3 PIAVTLLTGF--LGAGKTTLLRHILNE--QHGYKIAVIENEFGEVSVDDQL-IGDR--ATQIKTLTNGCICCSRSNELED 75 (318)
T ss_pred ccCEEEEEEC--CCCCHHHHHHHHHhc--ccCCcccccccCcCCccccHHH-HhCc--CceEEEECCCEEEEccCchHHH
Confidence 5899999999 899999999999875 468999999999985 34442 3221 111 11111223331
Q ss_pred -HHHhhhc-----CCCCEEEEc-CCCCCc-----------cccCcee----EEEEeCCCCCCCCccccCCCCCCchhhhc
Q 017904 130 -VGSHLKS-----GKIGAVILD-DGMQHW-----------SLRRDLE----IVMVNGLMPWGNRKLLPLGPLREPLMALK 187 (364)
Q Consensus 130 -~~~~~~~-----~~~dviIlD-DgfQh~-----------~L~rdl~----Ivl~Da~~~~gn~~~lPaG~LREp~~~L~ 187 (364)
...++.. .++|.||+| -|.-++ .+.+.+. |.|+|+.+ |.. .+. ...+..+|++
T Consensus 76 ~l~~l~~~~~~~~~~~d~IvIEttG~a~p~~i~~~~~~~~~l~~~~~l~~vvtvvDa~~-~~~--~~~--~~~~~~~Qi~ 150 (318)
T PRK11537 76 ALLDLLDNLDKGNIQFDRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVH-ADE--QMN--QFTIAQSQVG 150 (318)
T ss_pred HHHHHHHHHhccCCCCCEEEEECCCccCHHHHHHHHhcChhhcccEEeccEEEEEEhhh-hhh--hcc--ccHHHHHHHH
Confidence 1222221 269999999 444332 3444444 79999976 322 222 1234567999
Q ss_pred cccEEEEcCCcchhhhhhHHHHHHHHhhccCCcEEEEEEe
Q 017904 188 RADIAVVHHADLISEQNLKDIELEMRDIKKSLSIFFTRMV 227 (364)
Q Consensus 188 rAd~ivvtk~d~~~~~~~~~i~~~l~~~~~~~~i~~~~~~ 227 (364)
.||+||+||+|++++. +.+++.++.+||.++++.+.+.
T Consensus 151 ~AD~IvlnK~Dl~~~~--~~~~~~l~~lnp~a~i~~~~~~ 188 (318)
T PRK11537 151 YADRILLTKTDVAGEA--EKLRERLARINARAPVYTVVHG 188 (318)
T ss_pred hCCEEEEeccccCCHH--HHHHHHHHHhCCCCEEEEeccC
Confidence 9999999999998754 6889999999999999877653
No 10
>KOG2743 consensus Cobalamin synthesis protein [Coenzyme transport and metabolism]
Probab=99.31 E-value=5.8e-12 Score=120.97 Aligned_cols=164 Identities=18% Similarity=0.278 Sum_probs=120.8
Q ss_pred CCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC-------------Cc----hHHHHHHHhCCCCE
Q 017904 57 HRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG-------------GD----EVRMLERHLLERPA 119 (364)
Q Consensus 57 ~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~-------------GD----E~~lla~~~~~~~v 119 (364)
...++||-+|-++ .|+|||+++.+++. .++|.|+|||.|.+|. |- |.++|+ +||-|
T Consensus 53 ~~~rIPvtIITGy--LGaGKtTLLn~Il~--~~hgKRIAVIlNEfGes~die~sl~~~~~gg~lyEewv~L~---NGClC 125 (391)
T KOG2743|consen 53 LGARIPVTIITGY--LGAGKTTLLNYILT--GQHGKRIAVILNEFGESSDIEKSLAVSQEGGELYEEWVELR---NGCLC 125 (391)
T ss_pred CCCccceEEEEec--ccCChHHHHHHHHc--cCCCceEEEEhhhcccchhhhHHHHhccccchHHHHHHHhc---CCeEE
Confidence 3456899888887 79999999999864 5679999999999984 22 233332 47766
Q ss_pred EEeccccchhH-HHhhh-cCCCCEEEEc-CCCCCc-----------cccCcee----EEEEeCCCCC-CCCccccCCCCC
Q 017904 120 KIGKNCINPKV-GSHLK-SGKIGAVILD-DGMQHW-----------SLRRDLE----IVMVNGLMPW-GNRKLLPLGPLR 180 (364)
Q Consensus 120 ~v~~~~~~~~~-~~~~~-~~~~dviIlD-DgfQh~-----------~L~rdl~----Ivl~Da~~~~-gn~~~lPaG~LR 180 (364)
+-..+. ...+ ..+.+ +.++|-|+++ -|+.++ .|..|+. |.|+|+.+.. --+..-|.|.+-
T Consensus 126 CtVk~~-gvraie~lvqkkGkfD~IllETTGlAnPaPia~~Fw~dd~l~sdVkLDGIVTvvD~K~~~~~Lde~k~~g~i~ 204 (391)
T KOG2743|consen 126 CTVKDN-GVRAIENLVQKKGKFDHILLETTGLANPAPIASMFWLDDELGSDVKLDGIVTVVDAKHILKHLDEEKPDGLIN 204 (391)
T ss_pred EEecch-HHHHHHHHHhcCCCcceEEEeccCCCCcHHHHHHHhhhhhhcCceeeeeEEEEEehhhHHhhhcccCcccchH
Confidence 322210 0112 23343 3369999999 455443 5666666 5889987532 113566899999
Q ss_pred CchhhhccccEEEEcCCcchhhhhhHHHHHHHHhhccCCcEEEEEEec
Q 017904 181 EPLMALKRADIAVVHHADLISEQNLKDIELEMRDIKKSLSIFFTRMVP 228 (364)
Q Consensus 181 Ep~~~L~rAd~ivvtk~d~~~~~~~~~i~~~l~~~~~~~~i~~~~~~~ 228 (364)
|-..|++.||.||+||+|++++++...++.+++++|.-++++++.+.-
T Consensus 205 EA~~QiA~AD~II~NKtDli~~e~~~~l~q~I~~INslA~m~~Tky~~ 252 (391)
T KOG2743|consen 205 EATRQIALADRIIMNKTDLVSEEEVKKLRQRIRSINSLAQMIETKYSR 252 (391)
T ss_pred HHHHHHhhhheeeeccccccCHHHHHHHHHHHHHhhhHHHhhhhhhcc
Confidence 999999999999999999999999999999999999989999887763
No 11
>TIGR02475 CobW cobalamin biosynthesis protein CobW. A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).
Probab=99.30 E-value=1.3e-11 Score=122.43 Aligned_cols=161 Identities=19% Similarity=0.283 Sum_probs=107.7
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC-C-chHHHHHHHh-C----CCCEEEeccccchh---
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG-G-DEVRMLERHL-L----ERPAKIGKNCINPK--- 129 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~-G-DE~~lla~~~-~----~~~v~v~~~~~~~~--- 129 (364)
++||.+|+++ -|+||||++.++++. .+|.|++||.|.+|. + |.. ++...- . .-.+.+.-+|+||.
T Consensus 3 ~ipv~iltGF--LGaGKTTll~~ll~~--~~~~~iavi~Ne~G~~~ID~~-ll~~~~~~~~~~~~v~el~nGCiCCs~~~ 77 (341)
T TIGR02475 3 KIPVTIVTGF--LGAGKTTLIRHLLQN--AAGRRIAVIVNEFGDLGIDGE-ILKACGIEGCSEENIVELANGCICCTVAD 77 (341)
T ss_pred ccCEEEEEEC--CCCCHHHHHHHHHhc--cCCCcEEEEECCCccccchHH-HHhccccccCCcceEEEeCCCCccccCcH
Confidence 5799999998 799999999999875 468999999999995 2 333 333210 0 00122333444442
Q ss_pred -----HHHhhh-cCCCCEEEEc-----------CCCCCccccCcee----EEEEeCCCCCCCCc----------cccCC-
Q 017904 130 -----VGSHLK-SGKIGAVILD-----------DGMQHWSLRRDLE----IVMVNGLMPWGNRK----------LLPLG- 177 (364)
Q Consensus 130 -----~~~~~~-~~~~dviIlD-----------DgfQh~~L~rdl~----Ivl~Da~~~~gn~~----------~lPaG- 177 (364)
...++. ..++|.||+| +.|+...+.+.+. |.|+|+.+ |-.+. ..+.+
T Consensus 78 dl~~~l~~l~~~~~~~d~IvIEtsG~a~P~~i~~~~~~~~l~~~~~l~~vvtvVDa~~-~~~~~~~~~~~~~~~~~~~~~ 156 (341)
T TIGR02475 78 DFIPTMTKLLARRQRPDHILIETSGLALPKPLVQAFQWPEIRSRVTVDGVVTVVDGPA-VAAGRFAADPDALDAQRAADD 156 (341)
T ss_pred HHHHHHHHHHhccCCCCEEEEeCCCCCCHHHHHHHhcCccccceEEeeeEEEEEECch-hhhhccccchhhhhhhccccc
Confidence 122332 4579999999 4555556666555 68999875 21100 11111
Q ss_pred ------CCC-CchhhhccccEEEEcCCcchhhhhhHHHHHHHHhhccC-CcEEEEEE
Q 017904 178 ------PLR-EPLMALKRADIAVVHHADLISEQNLKDIELEMRDIKKS-LSIFFTRM 226 (364)
Q Consensus 178 ------~LR-Ep~~~L~rAd~ivvtk~d~~~~~~~~~i~~~l~~~~~~-~~i~~~~~ 226 (364)
++. +...|++.||+||+||+|++++++++.+++.++..+|. ++++.+.+
T Consensus 157 ~~~~~~~~~~~~~~Qi~~AD~IvlnK~Dl~~~~~l~~~~~~l~~~~~~~a~i~~~~~ 213 (341)
T TIGR02475 157 NLDHETPLEELFEDQLACADLVILNKADLLDAAGLARVRAEIAAELPRAVKIVEASH 213 (341)
T ss_pred cccccchHHHHHHHHHHhCCEEEEeccccCCHHHHHHHHHHHHHhCCCCCEEEEccc
Confidence 111 12569999999999999999999999999999987775 57877655
No 12
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=99.19 E-value=5.1e-10 Score=102.11 Aligned_cols=155 Identities=19% Similarity=0.240 Sum_probs=109.3
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC-CchHHHHHHHhCCCCEEEeccc-cch-hH-------H
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG-GDEVRMLERHLLERPAKIGKNC-INP-KV-------G 131 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~-GDE~~lla~~~~~~~v~v~~~~-~~~-~~-------~ 131 (364)
|+..||=-..=|||||++++++++.|+++ |++|||.+.--. -|.-.+. +.++.++..+-.. -|. ++ .
T Consensus 12 ~~~~i~v~Gp~GSGKTaLie~~~~~L~~~-~~~aVI~~Di~t~~Da~~l~--~~~g~~i~~v~TG~~CH~da~m~~~ai~ 88 (202)
T COG0378 12 PMLRIGVGGPPGSGKTALIEKTLRALKDE-YKIAVITGDIYTKEDADRLR--KLPGEPIIGVETGKGCHLDASMNLEAIE 88 (202)
T ss_pred ceEEEEecCCCCcCHHHHHHHHHHHHHhh-CCeEEEeceeechhhHHHHH--hCCCCeeEEeccCCccCCcHHHHHHHHH
Confidence 34444433446999999999999999887 999999998654 4444333 3267666432221 221 21 1
Q ss_pred HhhhcC-CCCEEEEcC-C-C---CCccccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcchhhhhh
Q 017904 132 SHLKSG-KIGAVILDD-G-M---QHWSLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLISEQNL 205 (364)
Q Consensus 132 ~~~~~~-~~dviIlDD-g-f---Qh~~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~~~~~~~ 205 (364)
.+.... +.|++++|- | + .++.|...+.|+|+|.+. |.+...-.||. +.+||++||||.|+++.-..
T Consensus 89 ~l~~~~~~~Dll~iEs~GNL~~~~sp~L~d~~~v~Vidvte--Ge~~P~K~gP~------i~~aDllVInK~DLa~~v~~ 160 (202)
T COG0378 89 ELVLDFPDLDLLFIESVGNLVCPFSPDLGDHLRVVVIDVTE--GEDIPRKGGPG------IFKADLLVINKTDLAPYVGA 160 (202)
T ss_pred HHhhcCCcCCEEEEecCcceecccCcchhhceEEEEEECCC--CCCCcccCCCc------eeEeeEEEEehHHhHHHhCc
Confidence 122222 379999994 4 4 455788789999999876 55566656777 88899999999999876544
Q ss_pred --HHHHHHHHhhccCCcEEEEEEe
Q 017904 206 --KDIELEMRDIKKSLSIFFTRMV 227 (364)
Q Consensus 206 --~~i~~~l~~~~~~~~i~~~~~~ 227 (364)
+...+..++.+|+.|++++...
T Consensus 161 dlevm~~da~~~np~~~ii~~n~k 184 (202)
T COG0378 161 DLEVMARDAKEVNPEAPIIFTNLK 184 (202)
T ss_pred cHHHHHHHHHHhCCCCCEEEEeCC
Confidence 8888889999999999987765
No 13
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=98.85 E-value=9.1e-08 Score=88.04 Aligned_cols=150 Identities=20% Similarity=0.263 Sum_probs=93.2
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC-CchHHHHHHHhCCCCE-EEeccccchh----HHHh
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG-GDEVRMLERHLLERPA-KIGKNCINPK----VGSH 133 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~-GDE~~lla~~~~~~~v-~v~~~~~~~~----~~~~ 133 (364)
.+|+|++.+. -|+|||+++..+++.+. ++.+++|+.++.+. .|.. ++.+ . +..+ .+..+++|+. ....
T Consensus 21 ~~~~i~~~G~--~gsGKTTli~~l~~~~~-~~~~v~v~~~~~~~~~D~~-~~~~-~-~~~~~~l~~gcic~~~~~~~~~~ 94 (207)
T TIGR00073 21 GLVVLNFMSS--PGSGKTTLIEKLIDNLK-DEVKIAVIEGDVITKFDAE-RLRK-Y-GAPAIQINTGKECHLDAHMVAHA 94 (207)
T ss_pred CcEEEEEECC--CCCCHHHHHHHHHHHHh-cCCeEEEEECCCCCcccHH-HHHH-c-CCcEEEEcCCCcccCChHHHHHH
Confidence 4799988887 69999999999999875 46899999998754 3544 3433 2 3333 2222333331 1111
Q ss_pred ---hhcCCCCEEEEcCCC-----CCccccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcchhh--h
Q 017904 134 ---LKSGKIGAVILDDGM-----QHWSLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLISE--Q 203 (364)
Q Consensus 134 ---~~~~~~dviIlDDgf-----Qh~~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~~~~--~ 203 (364)
+...++|+||+|=.. ..+.+..++.++++|+.+.. ... ++. ...+..|+++++||.|+.+. .
T Consensus 95 l~~~~~~~~d~IiIEt~G~l~~~~~~~~~~~~~i~Vvd~~~~d--~~~-----~~~-~~~~~~a~iiv~NK~Dl~~~~~~ 166 (207)
T TIGR00073 95 LEDLPLDDIDLLFIENVGNLVCPADFDLGEHMRVVLLSVTEGD--DKP-----LKY-PGMFKEADLIVINKADLAEAVGF 166 (207)
T ss_pred HHHhccCCCCEEEEecCCCcCCCcccccccCeEEEEEecCccc--chh-----hhh-HhHHhhCCEEEEEHHHccccchh
Confidence 112368999998422 22345667778999987532 111 111 23478899999999998753 2
Q ss_pred hhHHHHHHHHhhccCCcEEE
Q 017904 204 NLKDIELEMRDIKKSLSIFF 223 (364)
Q Consensus 204 ~~~~i~~~l~~~~~~~~i~~ 223 (364)
+.+.+.+.+++.++..|++.
T Consensus 167 ~~~~~~~~l~~~~~~~~i~~ 186 (207)
T TIGR00073 167 DVEKMKADAKKINPEAEIIL 186 (207)
T ss_pred hHHHHHHHHHHhCCCCCEEE
Confidence 34556666666555555543
No 14
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=98.75 E-value=4.2e-07 Score=88.27 Aligned_cols=152 Identities=14% Similarity=0.176 Sum_probs=98.4
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCCCE-EEeccccchh-------HHH
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLERPA-KIGKNCINPK-------VGS 132 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~~v-~v~~~~~~~~-------~~~ 132 (364)
+.+|.|-+. -|+|||+++..+++.|... .+++|+....+.-.....+.. -|+++ .+.-++.|+- +..
T Consensus 104 ~~~v~l~G~--pGsGKTTLl~~l~~~l~~~-~~~~VI~gD~~t~~Da~rI~~--~g~pvvqi~tG~~Chl~a~mv~~Al~ 178 (290)
T PRK10463 104 QLVLNLVSS--PGSGKTTLLTETLMRLKDS-VPCAVIEGDQQTVNDAARIRA--TGTPAIQVNTGKGCHLDAQMIADAAP 178 (290)
T ss_pred CeEEEEECC--CCCCHHHHHHHHHHHhccC-CCEEEECCCcCcHHHHHHHHh--cCCcEEEecCCCCCcCcHHHHHHHHH
Confidence 566644443 5999999999999999765 699999888765222333432 24543 2222222331 112
Q ss_pred hhhcCCCCEEEEc-CCC-CCc---cccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcchh--hhhh
Q 017904 133 HLKSGKIGAVILD-DGM-QHW---SLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLIS--EQNL 205 (364)
Q Consensus 133 ~~~~~~~dviIlD-Dgf-Qh~---~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~~~--~~~~ 205 (364)
.+...+.|++|+| -|- -.+ .|..++.+++++...+ .+..+ .- ...++.||++|+||.|+++ +.++
T Consensus 179 ~L~~~~~d~liIEnvGnLvcPa~fdlge~~~v~vlsV~eg--~dkpl-----Ky-p~~f~~ADIVVLNKiDLl~~~~~dl 250 (290)
T PRK10463 179 RLPLDDNGILFIENVGNLVCPASFDLGEKHKVAVLSVTEG--EDKPL-----KY-PHMFAAASLMLLNKVDLLPYLNFDV 250 (290)
T ss_pred HHhhcCCcEEEEECCCCccCCCccchhhceeEEEEECccc--cccch-----hc-cchhhcCcEEEEEhHHcCcccHHHH
Confidence 2334567999999 442 222 3667788999998753 23222 11 2468999999999999986 3467
Q ss_pred HHHHHHHHhhccCCcEEEEE
Q 017904 206 KDIELEMRDIKKSLSIFFTR 225 (364)
Q Consensus 206 ~~i~~~l~~~~~~~~i~~~~ 225 (364)
+.+.+.++..+|..+||...
T Consensus 251 e~~~~~lr~lnp~a~I~~vS 270 (290)
T PRK10463 251 EKCIACAREVNPEIEIILIS 270 (290)
T ss_pred HHHHHHHHhhCCCCcEEEEE
Confidence 77888888888888876543
No 15
>TIGR00101 ureG urease accessory protein UreG. This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.
Probab=98.56 E-value=1e-06 Score=81.06 Aligned_cols=150 Identities=20% Similarity=0.314 Sum_probs=90.0
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC-CchHHHHHHH-hCC-CCEEE-eccccch----hH---
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG-GDEVRMLERH-LLE-RPAKI-GKNCINP----KV--- 130 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~-GDE~~lla~~-~~~-~~v~v-~~~~~~~----~~--- 130 (364)
-|..+|. .|+|||+++..+++.+.. +.+++++.+..+. .|.++..... .+. -.+.+ ..++.++ +.
T Consensus 3 ~i~i~G~---~GsGKTTll~~l~~~l~~-~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~ 78 (199)
T TIGR00101 3 KIGVAGP---VGSGKTALIEALTRALRQ-KYQLAVITNDIYTQEDAEFLVKNSALPPERILGVETGGCPHTAIREDASMN 78 (199)
T ss_pred EEEEECC---CCCCHHHHHHHHHHhhCc-CCcEEEEeCCcCChhHHHHHHHcCCCCcCceehhhcCCCccceeccCHHHH
Confidence 3556675 599999999999998865 4678999887764 2333222110 010 01111 0001111 11
Q ss_pred ----HHhhhc-CCCCEEEEc-CC--C---CCccccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcc
Q 017904 131 ----GSHLKS-GKIGAVILD-DG--M---QHWSLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADL 199 (364)
Q Consensus 131 ----~~~~~~-~~~dviIlD-Dg--f---Qh~~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~ 199 (364)
..+... .++|.|++| -| . ..+.+ .|.-|+|+|+.+.- . .+ ++...++..||++++||.|+
T Consensus 79 ~~~L~~l~~~~~~~D~iiIEt~G~~l~~~~~~~l-~~~~i~vvD~~~~~--~--~~----~~~~~qi~~ad~~~~~k~d~ 149 (199)
T TIGR00101 79 LEAVAEMEARFPPLEMVFIESGGDNLSATFSPEL-ADLTIFVIDVAAGD--K--IP----RKGGPGITRSDLLVINKIDL 149 (199)
T ss_pred HHHHHHHHhcCCCCCEEEEECCCCCcccccchhh-hCcEEEEEEcchhh--h--hh----hhhHhHhhhccEEEEEhhhc
Confidence 112222 368999999 33 1 12333 35679999987632 1 11 23335899999999999998
Q ss_pred hh--hhhhHHHHHHHHhhccCCcEEEE
Q 017904 200 IS--EQNLKDIELEMRDIKKSLSIFFT 224 (364)
Q Consensus 200 ~~--~~~~~~i~~~l~~~~~~~~i~~~ 224 (364)
.. +.+++.+.+.++.+++..++|++
T Consensus 150 ~~~~~~~~~~~~~~~~~~~~~~~i~~~ 176 (199)
T TIGR00101 150 APMVGADLGVMERDAKKMRGEKPFIFT 176 (199)
T ss_pred cccccccHHHHHHHHHHhCCCCCEEEE
Confidence 75 35677888888887777776543
No 16
>cd03112 CobW_like The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.
Probab=98.52 E-value=2.3e-07 Score=82.10 Aligned_cols=126 Identities=15% Similarity=0.209 Sum_probs=77.8
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC--CchHHHHHHHhCCCC-EEEeccccchh----H-HHh
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG--GDEVRMLERHLLERP-AKIGKNCINPK----V-GSH 133 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~--GDE~~lla~~~~~~~-v~v~~~~~~~~----~-~~~ 133 (364)
||+.+.+. -|+|||+++..+++.. .|++++++.+.+|. -|+.. +.+ .+.. +.++.+++|+. . .++
T Consensus 1 p~~~l~G~--~GsGKTtl~~~l~~~~--~~~~~~~i~~~~G~~~~d~~~-~~~--~~~~v~~l~~GCiCC~~~~~l~~~l 73 (158)
T cd03112 1 PVTVLTGF--LGAGKTTLLNHILTEQ--HGRKIAVIENEFGEVGIDNQL-VVD--TDEEIIEMNNGCICCTVRGDLIRAL 73 (158)
T ss_pred CEEEEEEC--CCCCHHHHHHHHHhcc--cCCcEEEEecCCCccchhHHH-HhC--CCceEEEeCCCEeEeeCchhHHHHH
Confidence 66666665 5999999999998875 48999999999984 23332 222 1222 23333334442 1 111
Q ss_pred -------h-hcCCCCEEEEc-CCCCC-----------ccccCcee----EEEEeCCCCCCCCccccCCCCCCchhhhccc
Q 017904 134 -------L-KSGKIGAVILD-DGMQH-----------WSLRRDLE----IVMVNGLMPWGNRKLLPLGPLREPLMALKRA 189 (364)
Q Consensus 134 -------~-~~~~~dviIlD-DgfQh-----------~~L~rdl~----Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rA 189 (364)
. ...++|.|++| -|+-+ ..+...++ +.++|+.+ |. ..+.. ..+...|++.|
T Consensus 74 ~~l~~~~~~~~~~~d~I~IEt~G~~~p~~~~~~~~~~~~~~~~~~~d~vv~vvDa~~-~~--~~~~~--~~~~~~Qi~~a 148 (158)
T cd03112 74 LDLLERLDAGKIAFDRIVIETTGLADPGPVAQTFFMDEELAERYLLDGVITLVDAKH-AN--QHLDQ--QTEAQSQIAFA 148 (158)
T ss_pred HHHHHHHHhccCCCCEEEEECCCcCCHHHHHHHHhhchhhhcceeeccEEEEEEhhH-hH--HHhhc--cHHHHHHHHHC
Confidence 1 13579999999 44432 22333333 68899876 22 12222 23456799999
Q ss_pred cEEEEcCCcc
Q 017904 190 DIAVVHHADL 199 (364)
Q Consensus 190 d~ivvtk~d~ 199 (364)
|.||+||.|+
T Consensus 149 d~ivlnk~dl 158 (158)
T cd03112 149 DRILLNKTDL 158 (158)
T ss_pred CEEEEecccC
Confidence 9999999874
No 17
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=98.39 E-value=3.7e-06 Score=81.56 Aligned_cols=131 Identities=20% Similarity=0.250 Sum_probs=85.8
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC----C----CchHHHHHHH-hCCCCEEEec--c---c
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA----G----GDEVRMLERH-LLERPAKIGK--N---C 125 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg----~----GDE~~lla~~-~~~~~v~v~~--~---~ 125 (364)
..+||-|-+. +|+||+|++..|.+.|.++|+||+||+=.=. + ||...|-... .|++-+.-.. + .
T Consensus 50 ~a~viGITG~--PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGDRiRM~~~~~~~~vFiRs~~srG~lGG 127 (323)
T COG1703 50 NAHVIGITGV--PGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGDRIRMQRLAVDPGVFIRSSPSRGTLGG 127 (323)
T ss_pred CCcEEEecCC--CCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccccHhhHHhhccCCCeEEeecCCCccchh
Confidence 4579988887 9999999999999999999999999965433 2 9998776554 4554331111 0 0
Q ss_pred cch---hHHHhhhcCCCCEEEEc---CCCCCccccCceeEEEEeCCCCCCCC-ccccCCCCCCchhhhccccEEEEcCCc
Q 017904 126 INP---KVGSHLKSGKIGAVILD---DGMQHWSLRRDLEIVMVNGLMPWGNR-KLLPLGPLREPLMALKRADIAVVHHAD 198 (364)
Q Consensus 126 ~~~---~~~~~~~~~~~dviIlD---DgfQh~~L~rdl~Ivl~Da~~~~gn~-~~lPaG~LREp~~~L~rAd~ivvtk~d 198 (364)
+.. ++..++...++|+||+| -|=-.-.+..-.|++++=...++|.+ +.+-+|- +.-||++||||.|
T Consensus 128 lS~at~~~i~~ldAaG~DvIIVETVGvGQsev~I~~~aDt~~~v~~pg~GD~~Q~iK~Gi-------mEiaDi~vINKaD 200 (323)
T COG1703 128 LSRATREAIKLLDAAGYDVIIVETVGVGQSEVDIANMADTFLVVMIPGAGDDLQGIKAGI-------MEIADIIVINKAD 200 (323)
T ss_pred hhHHHHHHHHHHHhcCCCEEEEEecCCCcchhHHhhhcceEEEEecCCCCcHHHHHHhhh-------hhhhheeeEeccC
Confidence 111 12334566789999999 23233345555554444333445653 3444553 5789999999998
Q ss_pred c
Q 017904 199 L 199 (364)
Q Consensus 199 ~ 199 (364)
.
T Consensus 201 ~ 201 (323)
T COG1703 201 R 201 (323)
T ss_pred h
Confidence 4
No 18
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=98.31 E-value=5.5e-06 Score=82.12 Aligned_cols=142 Identities=18% Similarity=0.181 Sum_probs=82.3
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC--------CchHHHHH-HHhCCCCEEE-e-ccccc---
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG--------GDEVRMLE-RHLLERPAKI-G-KNCIN--- 127 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~--------GDE~~lla-~~~~~~~v~v-~-~~~~~--- 127 (364)
.+|.|.+. .|+||||++.+|+..|+++|++|+|++-.-.+ ||.-.|-. ...|++.+.. + ++...
T Consensus 57 ~~igi~G~--~GaGKSTl~~~l~~~l~~~g~~v~vi~~Dp~s~~~~gallgd~~r~~~~~~~~~~~~r~~~~~~~l~~~a 134 (332)
T PRK09435 57 LRIGITGV--PGVGKSTFIEALGMHLIEQGHKVAVLAVDPSSTRTGGSILGDKTRMERLSRHPNAFIRPSPSSGTLGGVA 134 (332)
T ss_pred EEEEEECC--CCCCHHHHHHHHHHHHHHCCCeEEEEEeCCCccccchhhhchHhHHHhhcCCCCeEEEecCCcccccchH
Confidence 56666655 79999999999999999999999999987643 56654332 1223321111 0 11111
Q ss_pred hh---HHHhhhcCCCCEEEEc-CCC-CCc-cc--cCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcc
Q 017904 128 PK---VGSHLKSGKIGAVILD-DGM-QHW-SL--RRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADL 199 (364)
Q Consensus 128 ~~---~~~~~~~~~~dviIlD-Dgf-Qh~-~L--~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~ 199 (364)
.. +...+...++|+||+| -|. |.- .+ .-|+-++++++ +.|++ +++ .....+.-||++|+||.|+
T Consensus 135 ~~~~~~~~~~~~~g~d~viieT~Gv~qs~~~i~~~aD~vlvv~~p--~~gd~--iq~----~k~gi~E~aDIiVVNKaDl 206 (332)
T PRK09435 135 RKTRETMLLCEAAGYDVILVETVGVGQSETAVAGMVDFFLLLQLP--GAGDE--LQG----IKKGIMELADLIVINKADG 206 (332)
T ss_pred HHHHHHHHHHhccCCCEEEEECCCCccchhHHHHhCCEEEEEecC--CchHH--HHH----HHhhhhhhhheEEeehhcc
Confidence 01 1223445689999999 221 332 12 23444555542 33332 211 1123577799999999998
Q ss_pred hhhhhhHHHHHHHH
Q 017904 200 ISEQNLKDIELEMR 213 (364)
Q Consensus 200 ~~~~~~~~i~~~l~ 213 (364)
......+.....++
T Consensus 207 ~~~~~a~~~~~el~ 220 (332)
T PRK09435 207 DNKTAARRAAAEYR 220 (332)
T ss_pred cchhHHHHHHHHHH
Confidence 76544444444443
No 19
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=98.30 E-value=3.3e-06 Score=86.60 Aligned_cols=218 Identities=11% Similarity=0.124 Sum_probs=119.8
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC---CchHHHHHHHhCCCCEEEeccccchh--HHHhh
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG---GDEVRMLERHLLERPAKIGKNCINPK--VGSHL 134 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~---GDE~~lla~~~~~~~v~v~~~~~~~~--~~~~~ 134 (364)
|.-|+.|| ..|+||||++.+||.+|.++|++|++++-..-+ .|....+++.. ++|+.......++. +...+
T Consensus 95 p~vI~lvG---~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~R~aa~eQL~~la~~~-gvp~~~~~~~~d~~~i~~~al 170 (437)
T PRK00771 95 PQTIMLVG---LQGSGKTTTAAKLARYFKKKGLKVGLVAADTYRPAAYDQLKQLAEKI-GVPFYGDPDNKDAVEIAKEGL 170 (437)
T ss_pred CeEEEEEC---CCCCcHHHHHHHHHHHHHHcCCeEEEecCCCCCHHHHHHHHHHHHHc-CCcEEecCCccCHHHHHHHHH
Confidence 44566777 489999999999999999999999999887543 34445566664 56665433222222 11122
Q ss_pred h-cCCCCEEEEcCCCCCc--------------cccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcc
Q 017904 135 K-SGKIGAVILDDGMQHW--------------SLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADL 199 (364)
Q Consensus 135 ~-~~~~dviIlDDgfQh~--------------~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~ 199 (364)
. ....|+||+|.+-.+. .+.+|.-++++|+..+ ... + ..-+.+..--..+-+|+||.|.
T Consensus 171 ~~~~~~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~g--q~a-v---~~a~~F~~~l~i~gvIlTKlD~ 244 (437)
T PRK00771 171 EKFKKADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIG--QQA-K---NQAKAFHEAVGIGGIIITKLDG 244 (437)
T ss_pred HHhhcCCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEecccc--HHH-H---HHHHHHHhcCCCCEEEEecccC
Confidence 1 1235999999775444 3467888999998653 211 1 1111122112357799999875
Q ss_pred hhhhhhHHHHHHHHhhccCCcEEEEEEecceeEeecCCCCcccccccCCCe-EEEEecCCChHHHHHHHHHhCCc--ccc
Q 017904 200 ISEQNLKDIELEMRDIKKSLSIFFTRMVPSYLFEVGNINSKIPLTAVCNAN-VLCVSAIGSANAFVQSLQKLGPC--SVN 276 (364)
Q Consensus 200 ~~~~~~~~i~~~l~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-v~a~sGIg~P~~F~~~L~~~G~~--~~~ 276 (364)
.+. .-.+-.... ..+.||.+...-..- . .+..+...+ +-.+-|.|+..++.+..++.--+ ..+
T Consensus 245 ~a~--~G~~ls~~~--~~~~Pi~fig~Ge~v-~---------Dle~f~~~~~~~~ilgmgd~~~l~e~~~~~~~~~~~~~ 310 (437)
T PRK00771 245 TAK--GGGALSAVA--ETGAPIKFIGTGEKI-D---------DLERFDPDRFISRLLGMGDLESLLEKVEEALDEEEEEK 310 (437)
T ss_pred CCc--ccHHHHHHH--HHCcCEEEEecCCCc-c---------cCCcCCHHHHHHHHhCCCChHHHHHHHHHhhhHHHHHH
Confidence 321 112222222 236788765553210 0 111111111 11223888888888877653111 000
Q ss_pred -cccCCCCCCCCHHHHHHHHHHHHhhh
Q 017904 277 -RLDFNDHHSFQARDIEMIKKKLEELE 302 (364)
Q Consensus 277 -~~~f~DHh~yt~~dl~~l~~~~~~~~ 302 (364)
...+ -+-.||-+|+..-.+..++++
T Consensus 311 ~~~~~-~~~~f~l~d~~~q~~~~~kmG 336 (437)
T PRK00771 311 DVEKM-MKGKFTLKDMYKQLEAMNKMG 336 (437)
T ss_pred HHHHH-HcCCcCHHHHHHHHHHHHhcC
Confidence 0011 124677788776555555554
No 20
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=98.11 E-value=9.9e-06 Score=71.14 Aligned_cols=119 Identities=21% Similarity=0.216 Sum_probs=65.6
Q ss_pred cCCCCchHHHHHHHHHHHhCCCceEEEecCCCC--------CchHHHHHH--HhCCCCEEEeccc--------cchhHHH
Q 017904 71 WGGNGKTPMVEFLAHCLADSEISPLILTRGYAG--------GDEVRMLER--HLLERPAKIGKNC--------INPKVGS 132 (364)
Q Consensus 71 vGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~--------GDE~~lla~--~~~~~~v~v~~~~--------~~~~~~~ 132 (364)
-||+|||+++..++..+.++|.++.++.-.-+. +++. -+.+ ..+++.+....+. ...+...
T Consensus 7 ~~GsGKTt~~~~l~~~~~~~g~~v~ii~~D~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (148)
T cd03114 7 VPGAGKSTLIDALITALRARGKRVAVLAIDPSSPFSGGAILGDRI-RMERHASDPGVFIRSLATRGFLGGLSRATPEVIR 85 (148)
T ss_pred CCCCcHHHHHHHHHHHHHHCCCEEEEEEeCCCCCCcccchhcCce-EhhheecCCCceEEEcCCcCcccccchhHHHHHH
Confidence 389999999999999999999999998755221 1110 0101 0122212111100 0001122
Q ss_pred hhhcCCCCEEEEcC-C----CCCccccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCc
Q 017904 133 HLKSGKIGAVILDD-G----MQHWSLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHAD 198 (364)
Q Consensus 133 ~~~~~~~dviIlDD-g----fQh~~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d 198 (364)
.++..++|+||+|= | .++.-...|.-|+++.++ .++.+-+=-. ..+.+||++++||.|
T Consensus 86 ~~~~~~~D~iiIDtaG~~~~~~~~~~~Ad~~ivv~tpe--~~D~y~~~k~------~~~~~~~~~~~~k~~ 148 (148)
T cd03114 86 VLDAAGFDVIIVETVGVGQSEVDIASMADTTVVVMAPG--AGDDIQAIKA------GIMEIADIVVVNKAD 148 (148)
T ss_pred HHHhcCCCEEEEECCccChhhhhHHHhCCEEEEEECCC--chhHHHHhhh------hHhhhcCEEEEeCCC
Confidence 23344689999992 2 233334456667777665 3443322111 237889999999864
No 21
>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components. In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.
Probab=98.00 E-value=1.9e-05 Score=75.47 Aligned_cols=130 Identities=21% Similarity=0.251 Sum_probs=72.4
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC------C--CchHHHHHHH-hCCCCEEEeccc-----
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA------G--GDEVRMLERH-LLERPAKIGKNC----- 125 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg------~--GDE~~lla~~-~~~~~v~v~~~~----- 125 (364)
+.+||.|-+- +|+||++|+..|++.+.++|++||||.=+=. + ||-..|-... .|++-+.--..+
T Consensus 28 ~a~~iGiTG~--PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlLGDRiRM~~~~~d~~vfIRS~atRG~lGG 105 (266)
T PF03308_consen 28 RAHVIGITGP--PGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALLGDRIRMQELSRDPGVFIRSMATRGSLGG 105 (266)
T ss_dssp -SEEEEEEE---TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS--GGGCHHHHTSTTEEEEEE---SSHHH
T ss_pred CceEEEeeCC--CCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCcccccHHHhcCcCCCCCEEEeecCcCCCCCC
Confidence 3578877765 9999999999999999999999999965432 2 9998766433 345322110110
Q ss_pred cch---hHHHhhhcCCCCEEEEc-CCC-CCc-ccc--CceeEEEEeCCCCCCCC-ccccCCCCCCchhhhccccEEEEcC
Q 017904 126 INP---KVGSHLKSGKIGAVILD-DGM-QHW-SLR--RDLEIVMVNGLMPWGNR-KLLPLGPLREPLMALKRADIAVVHH 196 (364)
Q Consensus 126 ~~~---~~~~~~~~~~~dviIlD-Dgf-Qh~-~L~--rdl~Ivl~Da~~~~gn~-~~lPaG~LREp~~~L~rAd~ivvtk 196 (364)
+.+ ++..++...++|+||+| =|. |.- .+. -|.-++|+-+. .|.. ..+-+|- +.-||++||||
T Consensus 106 ls~~t~~~v~ll~aaG~D~IiiETVGvGQsE~~I~~~aD~~v~v~~Pg--~GD~iQ~~KaGi-------mEiaDi~vVNK 176 (266)
T PF03308_consen 106 LSRATRDAVRLLDAAGFDVIIIETVGVGQSEVDIADMADTVVLVLVPG--LGDEIQAIKAGI-------MEIADIFVVNK 176 (266)
T ss_dssp HHHHHHHHHHHHHHTT-SEEEEEEESSSTHHHHHHTTSSEEEEEEESS--TCCCCCTB-TTH-------HHH-SEEEEE-
T ss_pred ccHhHHHHHHHHHHcCCCEEEEeCCCCCccHHHHHHhcCeEEEEecCC--CccHHHHHhhhh-------hhhccEEEEeC
Confidence 000 12234556789999999 222 322 222 25556666543 4443 4455654 56799999999
Q ss_pred Ccch
Q 017904 197 ADLI 200 (364)
Q Consensus 197 ~d~~ 200 (364)
.|..
T Consensus 177 aD~~ 180 (266)
T PF03308_consen 177 ADRP 180 (266)
T ss_dssp -SHH
T ss_pred CChH
Confidence 9854
No 22
>TIGR00750 lao LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.
Probab=97.90 E-value=7.3e-05 Score=72.91 Aligned_cols=137 Identities=18% Similarity=0.185 Sum_probs=74.7
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC--------CchHHHHHH-HhCCCCE-EEecc-c---
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG--------GDEVRMLER-HLLERPA-KIGKN-C--- 125 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~--------GDE~~lla~-~~~~~~v-~v~~~-~--- 125 (364)
+.++|.|-+. +|+|||+++..++..+.++|++|+|++-.-.. ||...+-.. ..+++.+ .+... .
T Consensus 33 ~~~~i~i~G~--~G~GKttl~~~l~~~~~~~~~~v~~i~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 110 (300)
T TIGR00750 33 NAHRVGITGT--PGAGKSTLLEALGMELRRRGLKVAVIAVDPSSPFTGGSILGDRTRMQRLATDPGAFIRSMPTRGHLGG 110 (300)
T ss_pred CceEEEEECC--CCCCHHHHHHHHHHHHHHCCCeEEEEecCCCCCcchhhhcccchhhhhcccCCCceeeecCccccccc
Confidence 3466655554 89999999999999999999999999876221 333221110 1123211 11110 0
Q ss_pred cch---hHHHhhhcCCCCEEEEc-CCCCCc--cccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcc
Q 017904 126 INP---KVGSHLKSGKIGAVILD-DGMQHW--SLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADL 199 (364)
Q Consensus 126 ~~~---~~~~~~~~~~~dviIlD-DgfQh~--~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~ 199 (364)
... ++...+...++|+||+| -|.-+. .+....|.+++....+.++. +-... ..-...++++++||.|.
T Consensus 111 ~~~~~~~~~~~l~~~g~D~viidT~G~~~~e~~i~~~aD~i~vv~~~~~~~e-l~~~~-----~~l~~~~~ivv~NK~Dl 184 (300)
T TIGR00750 111 LSQATRELILLLDAAGYDVIIVETVGVGQSEVDIANMADTFVVVTIPGTGDD-LQGIK-----AGLMEIADIYVVNKADG 184 (300)
T ss_pred hhHHHHHHHHHHHhCCCCEEEEeCCCCchhhhHHHHhhceEEEEecCCccHH-HHHHH-----HHHhhhccEEEEEcccc
Confidence 000 12223455689999999 454333 23334444333322223332 10000 11257789999999998
Q ss_pred hhhhh
Q 017904 200 ISEQN 204 (364)
Q Consensus 200 ~~~~~ 204 (364)
.....
T Consensus 185 ~~~~~ 189 (300)
T TIGR00750 185 EGATN 189 (300)
T ss_pred cchhH
Confidence 75543
No 23
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=97.83 E-value=0.00016 Score=74.13 Aligned_cols=214 Identities=14% Similarity=0.168 Sum_probs=114.2
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC-CCC-CchH-HHHHHHhCCCCEEEeccccchh-----HHHh
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG-YAG-GDEV-RMLERHLLERPAKIGKNCINPK-----VGSH 133 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG-Yg~-GDE~-~lla~~~~~~~v~v~~~~~~~~-----~~~~ 133 (364)
-|..|| + .|+||||++..||.+|+++|++|++++-+ |+. .-|- ..+++. .++|+....+..++. +...
T Consensus 102 vi~lvG-~--~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~-~~vp~~~~~~~~dp~~i~~~~l~~ 177 (429)
T TIGR01425 102 VIMFVG-L--QGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATK-ARIPFYGSYTESDPVKIASEGVEK 177 (429)
T ss_pred EEEEEC-C--CCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhc-cCCeEEeecCCCCHHHHHHHHHHH
Confidence 344666 4 89999999999999999999999999764 321 1121 223444 356664322222321 1122
Q ss_pred hhcCCCCEEEEc-CCCCCc-------------cccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcc
Q 017904 134 LKSGKIGAVILD-DGMQHW-------------SLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADL 199 (364)
Q Consensus 134 ~~~~~~dviIlD-DgfQh~-------------~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~ 199 (364)
+...++|+||+| -|..|. ...+|--++|+|+.. |....-=+-.++ +.-..+-+|+||.|.
T Consensus 178 ~~~~~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~--Gq~a~~~a~~F~----~~~~~~g~IlTKlD~ 251 (429)
T TIGR01425 178 FKKENFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSI--GQAAEAQAKAFK----DSVDVGSVIITKLDG 251 (429)
T ss_pred HHhCCCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEecccc--ChhHHHHHHHHH----hccCCcEEEEECccC
Confidence 334578999999 343222 234566689999865 322211111121 122457799999886
Q ss_pred hhhhhhHHHHHHHHhhccCCcEEEEEEecceeEeecCCCCcccccccCCCe-EEEEecCCChHHHHHHHHHhCCc-----
Q 017904 200 ISEQNLKDIELEMRDIKKSLSIFFTRMVPSYLFEVGNINSKIPLTAVCNAN-VLCVSAIGSANAFVQSLQKLGPC----- 273 (364)
Q Consensus 200 ~~~~~~~~i~~~l~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-v~a~sGIg~P~~F~~~L~~~G~~----- 273 (364)
.... -..+. .. ...+.||.+......- . .+..+...+ +-..-|.|+..++.+..++.--+
T Consensus 252 ~arg-G~aLs-~~--~~t~~PI~fig~Ge~v-~---------Dle~f~p~~~~~rilgmgDi~~L~ek~~~~~~~~~~~~ 317 (429)
T TIGR01425 252 HAKG-GGALS-AV--AATKSPIIFIGTGEHI-D---------DFEIFKTQPFISKLLGMGDIEGLIDKVQDLKLDDNEKA 317 (429)
T ss_pred CCCc-cHHhh-hH--HHHCCCeEEEcCCCCh-h---------hcCcCChHHHHHHHhcCCCcHHHHHHHHHhhhHHHHHH
Confidence 4321 11111 11 1236787665543210 0 011111111 12344999999998877643111
Q ss_pred ccccccCCCCCCCCHHHHHHHHHHHHhhh
Q 017904 274 SVNRLDFNDHHSFQARDIEMIKKKLEELE 302 (364)
Q Consensus 274 ~~~~~~f~DHh~yt~~dl~~l~~~~~~~~ 302 (364)
..+. .. +..||-+|+..-.+..++++
T Consensus 318 ~~~k-~~--~~~f~l~D~~~q~~~i~kmG 343 (429)
T TIGR01425 318 LIEK-LK--EGTFTLRDMYEQFQNLLKMG 343 (429)
T ss_pred HHHH-HH--hCCCCHHHHHHHHHHHHhcc
Confidence 1111 11 24688888776666666554
No 24
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=97.80 E-value=0.00054 Score=69.71 Aligned_cols=266 Identities=14% Similarity=0.125 Sum_probs=135.9
Q ss_pred HHHHHHHHhhhc-cCCCcChhHHHHHHHHHHHHHHHHHHHHHHHHhHhcCCCccCCCCCcEEEEcCcccCCCCchHHHHH
Q 017904 4 LRRIVNEIAYAQ-DHAKLTPIQSSLIPLLSLASSLYGISLFLRHSFYRFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEF 82 (364)
Q Consensus 4 ~~~~~~~~~~~~-~~~~~~~~~~~L~~lL~plS~lY~~~~~~R~~~y~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~ 82 (364)
+++.|++-.-.. =++..++-+.++. .+|.=++.+=-- -...+.-..+.|.-|..|| .=|+||||++..
T Consensus 51 fi~~ikera~g~ev~~~l~p~q~~iK-------iV~eELv~llG~-~~~~~~l~~~~P~vImmvG---LQGsGKTTt~~K 119 (451)
T COG0541 51 FIKRIKERALGEEVPKGLTPGQQFIK-------IVYEELVKLLGG-ENSELNLAKKPPTVILMVG---LQGSGKTTTAGK 119 (451)
T ss_pred HHHHHHHHhccccCCCCCCHHHHHHH-------HHHHHHHHHhCC-CCcccccCCCCCeEEEEEe---ccCCChHhHHHH
Confidence 345555555554 4555555555433 346554433221 0111111233344456777 469999999999
Q ss_pred HHHHHHhCCCceEEEecCCCC---CchHHHHHHHhCCCCEEEeccccchh-----HHHhhhcCCCCEEEEcCCCC-----
Q 017904 83 LAHCLADSEISPLILTRGYAG---GDEVRMLERHLLERPAKIGKNCINPK-----VGSHLKSGKIGAVILDDGMQ----- 149 (364)
Q Consensus 83 L~~~L~~~g~kvaIlsRGYg~---GDE~~lla~~~~~~~v~v~~~~~~~~-----~~~~~~~~~~dviIlDDgfQ----- 149 (364)
||++|+++|+||.+++=+--+ -|.-..+++.. ++++.-..+..++. +...+.+..+|+||+|=+=.
T Consensus 120 LA~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~-~v~~f~~~~~~~Pv~Iak~al~~ak~~~~DvvIvDTAGRl~ide 198 (451)
T COG0541 120 LAKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQV-GVPFFGSGTEKDPVEIAKAALEKAKEEGYDVVIVDTAGRLHIDE 198 (451)
T ss_pred HHHHHHHcCCceEEEecccCChHHHHHHHHHHHHc-CCceecCCCCCCHHHHHHHHHHHHHHcCCCEEEEeCCCcccccH
Confidence 999999999999999876443 35555666665 55553221122332 12234556789999993322
Q ss_pred ---------CccccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcchhhhhhHHHHHHHHhhccCCc
Q 017904 150 ---------HWSLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLISEQNLKDIELEMRDIKKSLS 220 (364)
Q Consensus 150 ---------h~~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~~~~~~~~~i~~~l~~~~~~~~ 220 (364)
+..+.+|=-+.|+||.. |.+ |.+.-+.+..----.-||+||.|--... -..+.. . ...++|
T Consensus 199 ~Lm~El~~Ik~~~~P~E~llVvDam~--GQd----A~~~A~aF~e~l~itGvIlTKlDGdaRG-GaALS~--~-~~tg~P 268 (451)
T COG0541 199 ELMDELKEIKEVINPDETLLVVDAMI--GQD----AVNTAKAFNEALGITGVILTKLDGDARG-GAALSA--R-AITGKP 268 (451)
T ss_pred HHHHHHHHHHhhcCCCeEEEEEeccc--chH----HHHHHHHHhhhcCCceEEEEcccCCCcc-hHHHhh--H-HHHCCC
Confidence 22466777799999875 333 2222222221112345889997632211 111111 1 123678
Q ss_pred EEEEEEecceeEeecCCCCcccccccCCCeE-EEEecCCChHHHHHHHHHhCCc--ccc-cccCCCCCCCCHHHHHHHHH
Q 017904 221 IFFTRMVPSYLFEVGNINSKIPLTAVCNANV-LCVSAIGSANAFVQSLQKLGPC--SVN-RLDFNDHHSFQARDIEMIKK 296 (364)
Q Consensus 221 i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v-~a~sGIg~P~~F~~~L~~~G~~--~~~-~~~f~DHh~yt~~dl~~l~~ 296 (364)
|-|....-. + ..++.+.-.++ -=.-|+|+=.++.+..++.--+ ..+ .-.+-- ..||-+|+.+-.+
T Consensus 269 IkFiGtGEk----i------~dLE~F~P~R~asRILGMGDv~sLvEk~~~~~d~e~a~~~~~kl~~-g~FtL~Df~~Ql~ 337 (451)
T COG0541 269 IKFIGTGEK----I------DDLEPFHPDRFASRILGMGDVLSLIEKAEEVVDEEEAEKLAEKLKK-GKFTLEDFLEQLE 337 (451)
T ss_pred eEEEecCCC----c------ccCCCcChHHHHHHhcCcccHHHHHHHHHHhhhHHHHHHHHHHHHh-CCCCHHHHHHHHH
Confidence 766543200 0 01122211121 0122888888888877654311 000 001111 2277777665545
Q ss_pred HHHhhh
Q 017904 297 KLEELE 302 (364)
Q Consensus 297 ~~~~~~ 302 (364)
+.++++
T Consensus 338 ~m~kmG 343 (451)
T COG0541 338 QMKKMG 343 (451)
T ss_pred HHHccC
Confidence 444443
No 25
>PRK14974 cell division protein FtsY; Provisional
Probab=97.76 E-value=0.00012 Score=72.84 Aligned_cols=129 Identities=26% Similarity=0.296 Sum_probs=76.7
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC-CCCCc-hH-HHHHHHhCCCCEEEeccccchh-----HHHh
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG-YAGGD-EV-RMLERHLLERPAKIGKNCINPK-----VGSH 133 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG-Yg~GD-E~-~lla~~~~~~~v~v~~~~~~~~-----~~~~ 133 (364)
-++.+| ..|+||||++..++.+|.++|++|++++-. |..|. |- ..++..+ ++++..+....++. +...
T Consensus 142 vi~~~G---~~GvGKTTtiakLA~~l~~~g~~V~li~~Dt~R~~a~eqL~~~a~~l-gv~v~~~~~g~dp~~v~~~ai~~ 217 (336)
T PRK14974 142 VIVFVG---VNGTGKTTTIAKLAYYLKKNGFSVVIAAGDTFRAGAIEQLEEHAERL-GVKVIKHKYGADPAAVAYDAIEH 217 (336)
T ss_pred EEEEEc---CCCCCHHHHHHHHHHHHHHcCCeEEEecCCcCcHHHHHHHHHHHHHc-CCceecccCCCCHHHHHHHHHHH
Confidence 344566 479999999999999999999999998643 43322 22 2244444 56554322111221 1122
Q ss_pred hhcCCCCEEEEcC-CCCCc-------------cccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcc
Q 017904 134 LKSGKIGAVILDD-GMQHW-------------SLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADL 199 (364)
Q Consensus 134 ~~~~~~dviIlDD-gfQh~-------------~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~ 199 (364)
+...+.|+||+|- |..|. .+.+|.-++|+|+.. |++.+--+ +. +...-..|-+|+||.|.
T Consensus 218 ~~~~~~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~--g~d~~~~a---~~-f~~~~~~~giIlTKlD~ 291 (336)
T PRK14974 218 AKARGIDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALA--GNDAVEQA---RE-FNEAVGIDGVILTKVDA 291 (336)
T ss_pred HHhCCCCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeecccc--chhHHHHH---HH-HHhcCCCCEEEEeeecC
Confidence 3345689999993 33321 235788889999864 44322111 11 11123568999999886
Q ss_pred h
Q 017904 200 I 200 (364)
Q Consensus 200 ~ 200 (364)
.
T Consensus 292 ~ 292 (336)
T PRK14974 292 D 292 (336)
T ss_pred C
Confidence 4
No 26
>PRK13768 GTPase; Provisional
Probab=97.68 E-value=4.6e-05 Score=72.64 Aligned_cols=38 Identities=21% Similarity=0.275 Sum_probs=32.3
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
+|+|++- ||+|||+++..++.++..+|.+|.++.-+-+
T Consensus 4 ~i~v~G~--~G~GKTt~~~~~~~~l~~~g~~v~~i~~D~~ 41 (253)
T PRK13768 4 IVFFLGT--AGSGKTTLTKALSDWLEEQGYDVAIVNLDPA 41 (253)
T ss_pred EEEEECC--CCccHHHHHHHHHHHHHhcCCceEEEECCCc
Confidence 5666665 9999999999999999999999999966443
No 27
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=97.67 E-value=0.00018 Score=66.12 Aligned_cols=127 Identities=17% Similarity=0.199 Sum_probs=76.2
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC---CchHHHHHHHhCCCCEEEeccccchh--HH---Hh
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG---GDEVRMLERHLLERPAKIGKNCINPK--VG---SH 133 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~---GDE~~lla~~~~~~~v~v~~~~~~~~--~~---~~ 133 (364)
-++.||. -|+||||++..||.+++.+|.+|+++|=+--+ -|.-..+|+.+ ++|+.......++. +. ..
T Consensus 3 vi~lvGp---tGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l-~vp~~~~~~~~~~~~~~~~~l~~ 78 (196)
T PF00448_consen 3 VIALVGP---TGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEIL-GVPFYVARTESDPAEIAREALEK 78 (196)
T ss_dssp EEEEEES---TTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHH-TEEEEESSTTSCHHHHHHHHHHH
T ss_pred EEEEECC---CCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHh-ccccchhhcchhhHHHHHHHHHH
Confidence 4678885 69999999999999999889999999987433 34455667776 66664433222221 11 12
Q ss_pred hhcCCCCEEEEc-CCCCCc-------------cccCceeEEEEeCCCCCCCCccccCCCCCCchhhh--ccccEEEEcCC
Q 017904 134 LKSGKIGAVILD-DGMQHW-------------SLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMAL--KRADIAVVHHA 197 (364)
Q Consensus 134 ~~~~~~dviIlD-DgfQh~-------------~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L--~rAd~ivvtk~ 197 (364)
..+.+.|+|++| -|..++ .+.++--++++|++.. ... +.+-.... -..+-+|+||.
T Consensus 79 ~~~~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~--~~~------~~~~~~~~~~~~~~~lIlTKl 150 (196)
T PF00448_consen 79 FRKKGYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMG--QED------LEQALAFYEAFGIDGLILTKL 150 (196)
T ss_dssp HHHTTSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGG--GHH------HHHHHHHHHHSSTCEEEEEST
T ss_pred HhhcCCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccC--hHH------HHHHHHHhhcccCceEEEEee
Confidence 334568999999 555443 1234444677787642 111 11111111 13467889998
Q ss_pred cch
Q 017904 198 DLI 200 (364)
Q Consensus 198 d~~ 200 (364)
|..
T Consensus 151 Det 153 (196)
T PF00448_consen 151 DET 153 (196)
T ss_dssp TSS
T ss_pred cCC
Confidence 764
No 28
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=97.62 E-value=0.00092 Score=66.03 Aligned_cols=151 Identities=17% Similarity=0.152 Sum_probs=84.7
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC-CCCC-chHHHHHHHhCCCCEEEeccccchh-----HHHhhh
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG-YAGG-DEVRMLERHLLERPAKIGKNCINPK-----VGSHLK 135 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG-Yg~G-DE~~lla~~~~~~~v~v~~~~~~~~-----~~~~~~ 135 (364)
+..|| ..|+||||++..|+.++..+|.+|+++.-. |+.+ -|.+.....-.++++.......++. +.....
T Consensus 117 i~lvG---pnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~~~~~~~dpa~~v~~~l~~~~ 193 (318)
T PRK10416 117 ILVVG---VNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPVIAQKEGADPASVAFDAIQAAK 193 (318)
T ss_pred EEEEC---CCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHHHHHcCceEEEeCCCCCHHHHHHHHHHHHH
Confidence 34566 589999999999999999999999999765 3322 2332222222356553322111221 111223
Q ss_pred cCCCCEEEEc-CCCCCc-------------------cccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEc
Q 017904 136 SGKIGAVILD-DGMQHW-------------------SLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVH 195 (364)
Q Consensus 136 ~~~~dviIlD-DgfQh~-------------------~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvt 195 (364)
..+.|+||+| -|--|. ...++--++|+|++. |+..+.-+ ++.. ..-..+.+|+|
T Consensus 194 ~~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~--g~~~~~~a---~~f~-~~~~~~giIlT 267 (318)
T PRK10416 194 ARGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATT--GQNALSQA---KAFH-EAVGLTGIILT 267 (318)
T ss_pred hCCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCC--ChHHHHHH---HHHH-hhCCCCEEEEE
Confidence 4578999999 333221 123555689999885 43333222 2211 12256789999
Q ss_pred CCcchhhhhhHHHHHHHHhhccCCcEEEEEE
Q 017904 196 HADLISEQNLKDIELEMRDIKKSLSIFFTRM 226 (364)
Q Consensus 196 k~d~~~~~~~~~i~~~l~~~~~~~~i~~~~~ 226 (364)
|.|.... .-.+-...... +.|+.+...
T Consensus 268 KlD~t~~--~G~~l~~~~~~--~~Pi~~v~~ 294 (318)
T PRK10416 268 KLDGTAK--GGVVFAIADEL--GIPIKFIGV 294 (318)
T ss_pred CCCCCCC--ccHHHHHHHHH--CCCEEEEeC
Confidence 9885422 22233333332 677766553
No 29
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=97.57 E-value=0.00041 Score=68.51 Aligned_cols=126 Identities=22% Similarity=0.308 Sum_probs=76.0
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC-CCC-CchHHHH-HHHhCCCCEEEeccccchh-----HHHhh
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG-YAG-GDEVRML-ERHLLERPAKIGKNCINPK-----VGSHL 134 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG-Yg~-GDE~~ll-a~~~~~~~v~v~~~~~~~~-----~~~~~ 134 (364)
+..|| |=|+||||.+..||.+|+++|++|.+..=. |++ .=|-+.. ++++ |++|+-+...-++. +...+
T Consensus 142 il~vG---VNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~-gv~vI~~~~G~DpAaVafDAi~~A 217 (340)
T COG0552 142 ILFVG---VNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERL-GVPVISGKEGADPAAVAFDAIQAA 217 (340)
T ss_pred EEEEe---cCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHh-CCeEEccCCCCCcHHHHHHHHHHH
Confidence 34566 579999999999999999999999886311 111 1233333 3443 77775422111332 23344
Q ss_pred hcCCCCEEEEc-CC-CCCc------------cccCcee------EEEEeCCCCCCCCccccCCCCCCchhhhccccEEEE
Q 017904 135 KSGKIGAVILD-DG-MQHW------------SLRRDLE------IVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVV 194 (364)
Q Consensus 135 ~~~~~dviIlD-Dg-fQh~------------~L~rdl~------Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivv 194 (364)
...+.|++|+| -| +|+- -++++.. ++++||+. |+.-+--+-.+.| .-.-|-+|+
T Consensus 218 kar~~DvvliDTAGRLhnk~nLM~EL~KI~rV~~k~~~~ap~e~llvlDAtt--Gqnal~QAk~F~e----av~l~GiIl 291 (340)
T COG0552 218 KARGIDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLDATT--GQNALSQAKIFNE----AVGLDGIIL 291 (340)
T ss_pred HHcCCCEEEEeCcccccCchhHHHHHHHHHHHhccccCCCCceEEEEEEccc--ChhHHHHHHHHHH----hcCCceEEE
Confidence 56689999999 33 4442 3456663 45559986 5444333322222 333688999
Q ss_pred cCCc
Q 017904 195 HHAD 198 (364)
Q Consensus 195 tk~d 198 (364)
||.|
T Consensus 292 TKlD 295 (340)
T COG0552 292 TKLD 295 (340)
T ss_pred Eecc
Confidence 9977
No 30
>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional
Probab=97.53 E-value=0.00081 Score=63.50 Aligned_cols=37 Identities=19% Similarity=0.220 Sum_probs=31.7
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
+||+|-+.+ |+|||+++..|++.|+++|++|+++...
T Consensus 2 ~vi~ivG~~--gsGKTtl~~~l~~~L~~~G~~V~viK~~ 38 (229)
T PRK14494 2 RAIGVIGFK--DSGKTTLIEKILKNLKERGYRVATAKHT 38 (229)
T ss_pred eEEEEECCC--CChHHHHHHHHHHHHHhCCCeEEEEEec
Confidence 567666554 9999999999999999999999999753
No 31
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=97.48 E-value=0.0037 Score=60.35 Aligned_cols=128 Identities=20% Similarity=0.184 Sum_probs=73.6
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC-CCCC-chHH-HHHHHhCCCCEEEeccccchhH-----HHhh
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG-YAGG-DEVR-MLERHLLERPAKIGKNCINPKV-----GSHL 134 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG-Yg~G-DE~~-lla~~~~~~~v~v~~~~~~~~~-----~~~~ 134 (364)
+..+| .+|+|||+++..||.++.++|++|++++=+ |+.+ .|.+ ..++.. ++++.......++.. ...+
T Consensus 75 i~l~G---~~G~GKTTt~akLA~~l~~~g~~V~li~~D~~r~~a~~ql~~~~~~~-~i~~~~~~~~~dp~~~~~~~l~~~ 150 (272)
T TIGR00064 75 ILFVG---VNGVGKTTTIAKLANKLKKQGKSVLLAAGDTFRAAAIEQLEEWAKRL-GVDVIKQKEGADPAAVAFDAIQKA 150 (272)
T ss_pred EEEEC---CCCCcHHHHHHHHHHHHHhcCCEEEEEeCCCCCHHHHHHHHHHHHhC-CeEEEeCCCCCCHHHHHHHHHHHH
Confidence 44555 589999999999999999999999999865 6543 2332 233443 444432221112211 1122
Q ss_pred hcCCCCEEEEc-CCCCCc-------------cc------cCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEE
Q 017904 135 KSGKIGAVILD-DGMQHW-------------SL------RRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVV 194 (364)
Q Consensus 135 ~~~~~dviIlD-DgfQh~-------------~L------~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivv 194 (364)
...+.|+||+| -|--+. .+ .+|--++|+|+.. |+..+-=+ ++..+. -..+-+|+
T Consensus 151 ~~~~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~--~~~~~~~~---~~f~~~-~~~~g~Il 224 (272)
T TIGR00064 151 KARNIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATT--GQNALEQA---KVFNEA-VGLTGIIL 224 (272)
T ss_pred HHCCCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCC--CHHHHHHH---HHHHhh-CCCCEEEE
Confidence 34568999999 232221 11 2677789999864 43222111 111111 23578999
Q ss_pred cCCcch
Q 017904 195 HHADLI 200 (364)
Q Consensus 195 tk~d~~ 200 (364)
||.|..
T Consensus 225 TKlDe~ 230 (272)
T TIGR00064 225 TKLDGT 230 (272)
T ss_pred EccCCC
Confidence 998764
No 32
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=97.42 E-value=0.00077 Score=61.02 Aligned_cols=41 Identities=22% Similarity=0.440 Sum_probs=34.9
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
..||++|.+- -||||||++..+++.|..+|++|++|.+...
T Consensus 5 ~~~ii~ivG~--sgsGKTTLi~~li~~l~~~g~~vg~Ik~~~~ 45 (173)
T PRK10751 5 MIPLLAIAAW--SGTGKTTLLKKLIPALCARGIRPGLIKHTHH 45 (173)
T ss_pred CceEEEEECC--CCChHHHHHHHHHHHHhhcCCeEEEEEEcCC
Confidence 3578877766 4999999999999999999999999987443
No 33
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=97.40 E-value=0.0019 Score=65.59 Aligned_cols=128 Identities=18% Similarity=0.112 Sum_probs=73.8
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHH----hCCCceEEEecCCCCCchHHHHHHHhC--CCCEEEeccccchhHHH-
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLA----DSEISPLILTRGYAGGDEVRMLERHLL--ERPAKIGKNCINPKVGS- 132 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~----~~g~kvaIlsRGYg~GDE~~lla~~~~--~~~v~v~~~~~~~~~~~- 132 (364)
|.-|+.||. .|+||||++..||.++. ++|.+|++++=.--+.--..+++.... ++|+.++.+ ......
T Consensus 174 ~~vi~lvGp---tGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~--~~~l~~~ 248 (388)
T PRK12723 174 KRVFILVGP---TGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIES--FKDLKEE 248 (388)
T ss_pred CeEEEEECC---CCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCc--HHHHHHH
Confidence 334667885 59999999999999887 358999999765433112222433322 556544322 112222
Q ss_pred hhhcCCCCEEEEcCC-CCCcc-------------ccCcee-EEEEeCCCCCCCCccccCCCCCCchhhhcc--ccEEEEc
Q 017904 133 HLKSGKIGAVILDDG-MQHWS-------------LRRDLE-IVMVNGLMPWGNRKLLPLGPLREPLMALKR--ADIAVVH 195 (364)
Q Consensus 133 ~~~~~~~dviIlDDg-fQh~~-------------L~rdl~-Ivl~Da~~~~gn~~~lPaG~LREp~~~L~r--Ad~ivvt 195 (364)
+....+.|+||+|.+ .-|.. ...+.+ ++|+|++... .-+.+-+.+... .+-+|+|
T Consensus 249 L~~~~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~--------~~~~~~~~~~~~~~~~~~I~T 320 (388)
T PRK12723 249 ITQSKDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKT--------SDVKEIFHQFSPFSYKTVIFT 320 (388)
T ss_pred HHHhCCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCH--------HHHHHHHHHhcCCCCCEEEEE
Confidence 223356899999943 32221 112333 5777776531 113344455533 6789999
Q ss_pred CCcch
Q 017904 196 HADLI 200 (364)
Q Consensus 196 k~d~~ 200 (364)
|-|..
T Consensus 321 KlDet 325 (388)
T PRK12723 321 KLDET 325 (388)
T ss_pred eccCC
Confidence 98764
No 34
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.38 E-value=0.0014 Score=65.80 Aligned_cols=208 Identities=16% Similarity=0.179 Sum_probs=119.0
Q ss_pred EE-EEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC-CCC--CchHHHHHHHhCCCCEEEeccccchh-----HHHh
Q 017904 63 VI-SVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG-YAG--GDEVRMLERHLLERPAKIGKNCINPK-----VGSH 133 (364)
Q Consensus 63 VI-sVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG-Yg~--GDE~~lla~~~~~~~v~v~~~~~~~~-----~~~~ 133 (364)
|| .|| | =|+||||.+..||.+++++|+|++++.-+ |.+ -|.-.+.|.+. +||++.+.+..++. +...
T Consensus 103 VimfVG-L--qG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~-~iP~ygsyte~dpv~ia~egv~~ 178 (483)
T KOG0780|consen 103 VIMFVG-L--QGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKA-RVPFYGSYTEADPVKIASEGVDR 178 (483)
T ss_pred EEEEEe-c--cCCCcceeHHHHHHHHHhcCCceeEEeecccccchHHHHHHHhHhh-CCeeEecccccchHHHHHHHHHH
Confidence 44 555 4 69999999999999999999999999654 333 36656666665 67776655555553 1234
Q ss_pred hhcCCCCEEEEcCCCCC--------------ccccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcc
Q 017904 134 LKSGKIGAVILDDGMQH--------------WSLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADL 199 (364)
Q Consensus 134 ~~~~~~dviIlDDgfQh--------------~~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~ 199 (364)
..+.++|+||+|-.=.| ..+.+|.-|.|+||+- |.... ..-.-++.--..-.||+||-|-
T Consensus 179 fKke~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDasi--GQaae----~Qa~aFk~~vdvg~vIlTKlDG 252 (483)
T KOG0780|consen 179 FKKENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDASI--GQAAE----AQARAFKETVDVGAVILTKLDG 252 (483)
T ss_pred HHhcCCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEeccc--cHhHH----HHHHHHHHhhccceEEEEeccc
Confidence 55678999999943222 2577888899999874 32110 0000111122234588998663
Q ss_pred hhhh--hhHHHHHHHHhhccCCcEEEEEEecceeEeecCCCCcccccccCCCe-EEEEecCCChHHHHHHHHHhCCcc-c
Q 017904 200 ISEQ--NLKDIELEMRDIKKSLSIFFTRMVPSYLFEVGNINSKIPLTAVCNAN-VLCVSAIGSANAFVQSLQKLGPCS-V 275 (364)
Q Consensus 200 ~~~~--~~~~i~~~l~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-v~a~sGIg~P~~F~~~L~~~G~~~-~ 275 (364)
.... .+.... ....||.|...- ..-..++.+.-++ +--.-|+|+=++|.+.+.+.+.+- .
T Consensus 253 hakGGgAlSaVa------aTksPIiFIGtG----------EhmdDlE~F~pk~FvsrlLGmGDi~glvek~~ev~~~d~~ 316 (483)
T KOG0780|consen 253 HAKGGGALSAVA------ATKSPIIFIGTG----------EHMDDLEPFDPKPFVSRLLGMGDIEGLVEKVQEVGKDDAK 316 (483)
T ss_pred CCCCCceeeehh------hhCCCEEEEecC----------ccccccCCCChHHHHHHHhccccHHHHHHHHHHHhhhhHH
Confidence 2211 111111 124566554321 0001122233333 223449999999999999877211 1
Q ss_pred ccccCCCCCCCCHHHHHHHHH
Q 017904 276 NRLDFNDHHSFQARDIEMIKK 296 (364)
Q Consensus 276 ~~~~f~DHh~yt~~dl~~l~~ 296 (364)
+..-==-|-.||-.|+-+-.+
T Consensus 317 el~~kl~~gkFtlrd~y~Qfq 337 (483)
T KOG0780|consen 317 ELVEKLKQGKFTLRDFYDQFQ 337 (483)
T ss_pred HHHHHHHhCCccHHHHHHHHH
Confidence 111111367788777754333
No 35
>PHA02519 plasmid partition protein SopA; Reviewed
Probab=97.33 E-value=0.00044 Score=70.02 Aligned_cols=37 Identities=27% Similarity=0.190 Sum_probs=34.8
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
..||+|.|.- ||+|||+++.+|+..|..+|+||.+|=
T Consensus 106 ~~vIav~n~K-GGVGKTTta~nLA~~LA~~G~rVLlID 142 (387)
T PHA02519 106 PVVLAVMSHK-GGVYKTSSAVHTAQWLALQGHRVLLIE 142 (387)
T ss_pred ceEEEEecCC-CCCcHHHHHHHHHHHHHhCCCcEEEEe
Confidence 5799999996 999999999999999999999999994
No 36
>PHA02518 ParA-like protein; Provisional
Probab=97.33 E-value=0.00027 Score=64.13 Aligned_cols=37 Identities=32% Similarity=0.389 Sum_probs=33.7
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
.||+|.|.- ||+||||++..|+..|.++|++|.+|-=
T Consensus 1 ~ii~v~~~K-GGvGKTT~a~~la~~la~~g~~vlliD~ 37 (211)
T PHA02518 1 KIIAVLNQK-GGAGKTTVATNLASWLHADGHKVLLVDL 37 (211)
T ss_pred CEEEEEcCC-CCCCHHHHHHHHHHHHHhCCCeEEEEeC
Confidence 479999986 9999999999999999999999999943
No 37
>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....
Probab=97.27 E-value=0.00028 Score=62.84 Aligned_cols=39 Identities=31% Similarity=0.354 Sum_probs=32.7
Q ss_pred EEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC
Q 017904 64 ISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG 103 (364)
Q Consensus 64 IsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~ 103 (364)
|+|.|.. ||+|||+++..|+..|.++|++|+++--+..+
T Consensus 1 I~v~~~k-GG~GKTt~a~~la~~la~~g~~VlliD~D~~~ 39 (195)
T PF01656_consen 1 IAVTSGK-GGVGKTTIAANLAQALARKGKKVLLIDLDPQA 39 (195)
T ss_dssp EEEEESS-TTSSHHHHHHHHHHHHHHTTS-EEEEEESTTS
T ss_pred CEEEcCC-CCccHHHHHHHHHhccccccccccccccCccc
Confidence 5666664 99999999999999999999999999876643
No 38
>PRK10867 signal recognition particle protein; Provisional
Probab=97.27 E-value=0.0027 Score=65.33 Aligned_cols=217 Identities=16% Similarity=0.140 Sum_probs=111.6
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhC-CCceEEEecC-CCCC-chHH-HHHHHhCCCCEEEeccccchhH-----
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADS-EISPLILTRG-YAGG-DEVR-MLERHLLERPAKIGKNCINPKV----- 130 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~-g~kvaIlsRG-Yg~G-DE~~-lla~~~~~~~v~v~~~~~~~~~----- 130 (364)
|.-|+.|| ..|+||||++..||.+|.++ |++|++++-+ |+.+ -|-+ .+++.. ++++.......++..
T Consensus 100 p~vI~~vG---~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~-gv~v~~~~~~~dp~~i~~~a 175 (433)
T PRK10867 100 PTVIMMVG---LQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQI-GVPVFPSGDGQDPVDIAKAA 175 (433)
T ss_pred CEEEEEEC---CCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhc-CCeEEecCCCCCHHHHHHHH
Confidence 33455676 48999999999999999988 9999999876 4432 1222 234443 666643221123321
Q ss_pred HHhhhcCCCCEEEEcCC-CCCc-------------cccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcC
Q 017904 131 GSHLKSGKIGAVILDDG-MQHW-------------SLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHH 196 (364)
Q Consensus 131 ~~~~~~~~~dviIlDDg-fQh~-------------~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk 196 (364)
...+...++|+||+|-+ -.|. .+.++--++|+|+.. |...+-=+ ++...++ ..+-+|+||
T Consensus 176 ~~~a~~~~~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~--gq~av~~a---~~F~~~~-~i~giIlTK 249 (433)
T PRK10867 176 LEEAKENGYDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMT--GQDAVNTA---KAFNEAL-GLTGVILTK 249 (433)
T ss_pred HHHHHhcCCCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEeccc--HHHHHHHH---HHHHhhC-CCCEEEEeC
Confidence 12234457899999943 2221 234565688889753 22111101 1111122 346789999
Q ss_pred CcchhhhhhHHHHHHHHhhccCCcEEEEEEec--ceeEeecCCCCcccccccCCCeEEEEecCCChHHHHHHHHHhCCcc
Q 017904 197 ADLISEQNLKDIELEMRDIKKSLSIFFTRMVP--SYLFEVGNINSKIPLTAVCNANVLCVSAIGSANAFVQSLQKLGPCS 274 (364)
Q Consensus 197 ~d~~~~~~~~~i~~~l~~~~~~~~i~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~v~a~sGIg~P~~F~~~L~~~G~~~ 274 (364)
.|.... .-.+...... .+.||.+..... ..+..+ ..+.+. -.+-|.|+..++.+..++.--+-
T Consensus 250 lD~~~r--gG~alsi~~~--~~~PI~fig~Ge~v~DLe~f-------~p~~~~----~~ilgmgD~~~l~e~~~~~~~~~ 314 (433)
T PRK10867 250 LDGDAR--GGAALSIRAV--TGKPIKFIGTGEKLDDLEPF-------HPDRMA----SRILGMGDVLSLIEKAQEVVDEE 314 (433)
T ss_pred ccCccc--ccHHHHHHHH--HCcCEEEEeCCCccccCccC-------CHHHHH----HHHhCCCChHHHHHHHHHhhCHH
Confidence 774221 1112121121 257876655421 111111 011111 12228888888888766431100
Q ss_pred -cc--cccCCCCCCCCHHHHHHHHHHHHhhh
Q 017904 275 -VN--RLDFNDHHSFQARDIEMIKKKLEELE 302 (364)
Q Consensus 275 -~~--~~~f~DHh~yt~~dl~~l~~~~~~~~ 302 (364)
.+ .-.... ..||-+|+..-.+..++++
T Consensus 315 ~~~~~~~~~~~-g~f~l~d~~~q~~~~~kmG 344 (433)
T PRK10867 315 KAEKLAKKLKK-GKFDLEDFLEQLQQMKKMG 344 (433)
T ss_pred HHHHHHHHHHh-CCCCHHHHHHHHHHHHhcC
Confidence 00 001222 3688888776556566554
No 39
>PRK13849 putative crown gall tumor protein VirC1; Provisional
Probab=97.24 E-value=0.00034 Score=65.93 Aligned_cols=37 Identities=22% Similarity=0.320 Sum_probs=34.4
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
+||+|+|.- ||+||||++..|+..|.++|++|++|-=
T Consensus 2 ~iI~v~n~K-GGvGKTT~a~nLA~~la~~G~~VlliD~ 38 (231)
T PRK13849 2 KLLTFCSFK-GGAGKTTALMGLCAALASDGKRVALFEA 38 (231)
T ss_pred eEEEEECCC-CCccHHHHHHHHHHHHHhCCCcEEEEeC
Confidence 689999996 9999999999999999999999999944
No 40
>PRK13869 plasmid-partitioning protein RepA; Provisional
Probab=97.23 E-value=0.0007 Score=68.96 Aligned_cols=37 Identities=38% Similarity=0.480 Sum_probs=34.7
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
+..||+|.|.- ||+|||+++.+|+..|..+|+||.+|
T Consensus 120 ~~~vIav~n~K-GGvGKTTta~nLA~~LA~~G~rVLlI 156 (405)
T PRK13869 120 HLQVIAVTNFK-GGSGKTTTSAHLAQYLALQGYRVLAV 156 (405)
T ss_pred CceEEEEEcCC-CCCCHHHHHHHHHHHHHhcCCceEEE
Confidence 35899999996 99999999999999999999999998
No 41
>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.
Probab=97.19 E-value=0.00045 Score=53.71 Aligned_cols=34 Identities=38% Similarity=0.469 Sum_probs=30.3
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
+|.+++- +|+|||+++..++..|++.|+++.++.
T Consensus 1 ~~~~~g~--~G~Gktt~~~~l~~~l~~~g~~v~~~~ 34 (99)
T cd01983 1 VIVVTGK--GGVGKTTLAANLAAALAKRGKRVLLID 34 (99)
T ss_pred CEEEECC--CCCCHHHHHHHHHHHHHHCCCeEEEEC
Confidence 4677776 699999999999999999999999887
No 42
>TIGR01007 eps_fam capsular exopolysaccharide family. This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes.
Probab=97.18 E-value=0.006 Score=55.56 Aligned_cols=39 Identities=18% Similarity=0.356 Sum_probs=34.6
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
..||+|.|.. ||+|||+++..|+..|.++|+||.+|==.
T Consensus 17 ~kvI~v~s~k-gG~GKTt~a~~LA~~la~~G~rVllID~D 55 (204)
T TIGR01007 17 IKVLLITSVK-PGEGKSTTSANIAVAFAQAGYKTLLIDGD 55 (204)
T ss_pred CcEEEEecCC-CCCCHHHHHHHHHHHHHhCCCeEEEEeCC
Confidence 5789998885 99999999999999999999999998433
No 43
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=97.16 E-value=0.013 Score=56.74 Aligned_cols=80 Identities=20% Similarity=0.214 Sum_probs=46.2
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhC-C-CceEEEecCC-CCC-chHHHHHHHhCCCCEEEeccccchhHHHhhhc-C
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADS-E-ISPLILTRGY-AGG-DEVRMLERHLLERPAKIGKNCINPKVGSHLKS-G 137 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~-g-~kvaIlsRGY-g~G-DE~~lla~~~~~~~v~v~~~~~~~~~~~~~~~-~ 137 (364)
||.+-+- .|+|||+++..|+.++..+ | ++|++++-.- +.| -|-+......-++++.+..+ .......+.. .
T Consensus 196 vi~~vGp--tGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~--~~~l~~~l~~~~ 271 (282)
T TIGR03499 196 VIALVGP--TGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVKVARD--PKELRKALDRLR 271 (282)
T ss_pred EEEEECC--CCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCceeccCC--HHHHHHHHHHcc
Confidence 5544443 7999999999999999876 5 9999998643 222 22222222223566643321 1112222222 2
Q ss_pred CCCEEEEcC
Q 017904 138 KIGAVILDD 146 (364)
Q Consensus 138 ~~dviIlDD 146 (364)
++|+||+|.
T Consensus 272 ~~d~vliDt 280 (282)
T TIGR03499 272 DKDLILIDT 280 (282)
T ss_pred CCCEEEEeC
Confidence 478888885
No 44
>PRK13705 plasmid-partitioning protein SopA; Provisional
Probab=97.15 E-value=0.00068 Score=68.70 Aligned_cols=37 Identities=35% Similarity=0.351 Sum_probs=34.9
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
...||+|+|.- ||+|||+++..|+..|..+|+||.+|
T Consensus 105 ~~~vIai~n~K-GGVGKTT~a~nLA~~LA~~G~rVLlI 141 (388)
T PRK13705 105 FPPVIGVAAHK-GGVYKTSVSVHLAQDLALKGLRVLLV 141 (388)
T ss_pred CCeEEEEECCC-CCchHHHHHHHHHHHHHhcCCCeEEE
Confidence 46899999996 99999999999999999999999999
No 45
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=97.14 E-value=0.0013 Score=67.47 Aligned_cols=80 Identities=20% Similarity=0.209 Sum_probs=48.7
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHH--hCCCceEEEecC-CCC-CchHHHHHHHhCCCCEEEeccccchhHHHhh-hcC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLA--DSEISPLILTRG-YAG-GDEVRMLERHLLERPAKIGKNCINPKVGSHL-KSG 137 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~--~~g~kvaIlsRG-Yg~-GDE~~lla~~~~~~~v~v~~~~~~~~~~~~~-~~~ 137 (364)
+..||- +|+||||++..|+.++. ..|++|++++-. |+. ..|-+.-+...-++|+.++.+. .+....+ ...
T Consensus 224 i~~vGp---tGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~--~~l~~~l~~~~ 298 (424)
T PRK05703 224 VALVGP---TGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDP--KELAKALEQLR 298 (424)
T ss_pred EEEECC---CCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCH--HhHHHHHHHhC
Confidence 456663 79999999999999886 568999999753 321 2233322222236676544321 1222222 223
Q ss_pred CCCEEEEcCC
Q 017904 138 KIGAVILDDG 147 (364)
Q Consensus 138 ~~dviIlDDg 147 (364)
++|+||+|.+
T Consensus 299 ~~DlVlIDt~ 308 (424)
T PRK05703 299 DCDVILIDTA 308 (424)
T ss_pred CCCEEEEeCC
Confidence 6899999954
No 46
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=97.08 E-value=0.006 Score=62.69 Aligned_cols=127 Identities=18% Similarity=0.176 Sum_probs=72.3
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHH-hCCCceEEEecCCCC-C--chHHHHHHHhCCCCEEEeccccchh-----HHHh
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLA-DSEISPLILTRGYAG-G--DEVRMLERHLLERPAKIGKNCINPK-----VGSH 133 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~-~~g~kvaIlsRGYg~-G--DE~~lla~~~~~~~v~v~~~~~~~~-----~~~~ 133 (364)
++.+| ..|+|||+++..||.+|. ++|++|++++-+--+ + +.-..+++. .++++.......++. +...
T Consensus 102 i~~vG---~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~-~gvp~~~~~~~~~P~~i~~~al~~ 177 (428)
T TIGR00959 102 ILMVG---LQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQ-VGVPVFALGKGQSPVEIARRALEY 177 (428)
T ss_pred EEEEC---CCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHh-cCCceEecCCCCCHHHHHHHHHHH
Confidence 44555 379999999999999986 579999999887433 2 111123333 356665433222332 1122
Q ss_pred hhcCCCCEEEEcCC-CCCc-------------cccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcc
Q 017904 134 LKSGKIGAVILDDG-MQHW-------------SLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADL 199 (364)
Q Consensus 134 ~~~~~~dviIlDDg-fQh~-------------~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~ 199 (364)
+...++|+||+|-+ -.|. .+.+|--++|+|+..+ .+..- -.++..+++ .-+-+|+||.|.
T Consensus 178 ~~~~~~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tg--q~~~~---~a~~f~~~v-~i~giIlTKlD~ 251 (428)
T TIGR00959 178 AKENGFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTG--QDAVN---TAKTFNERL-GLTGVVLTKLDG 251 (428)
T ss_pred HHhcCCCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccch--HHHHH---HHHHHHhhC-CCCEEEEeCccC
Confidence 33557899999943 2221 2335555888897642 21110 011111122 346788999773
No 47
>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.
Probab=97.06 E-value=0.0056 Score=52.77 Aligned_cols=38 Identities=34% Similarity=0.348 Sum_probs=31.6
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
||++-|- -||+|||++...++.++.++|.++.++--+.
T Consensus 1 ~i~~~~~-kgg~gkt~~~~~~a~~~~~~~~~~~~vd~D~ 38 (139)
T cd02038 1 IIAVTSG-KGGVGKTNISANLALALAKLGKRVLLLDADL 38 (139)
T ss_pred CEEEEcC-CCCCcHHHHHHHHHHHHHHCCCcEEEEECCC
Confidence 3556665 4999999999999999999999999987553
No 48
>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ. Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=97.04 E-value=0.00074 Score=62.86 Aligned_cols=39 Identities=28% Similarity=0.285 Sum_probs=35.1
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
+||+|.|-- ||+|||+++..|+..|.++|+||.+|==+.
T Consensus 2 ~iI~v~s~K-GGvGKTt~a~nla~~la~~g~~VlliD~D~ 40 (246)
T TIGR03371 2 KVIAIVGVK-GGVGKTTLTANLASALKLLGEPVLAIDLDP 40 (246)
T ss_pred cEEEEEeCC-CCccHHHHHHHHHHHHHhCCCcEEEEeCCC
Confidence 689999975 999999999999999999999999995554
No 49
>PRK10037 cell division protein; Provisional
Probab=97.01 E-value=0.00079 Score=63.61 Aligned_cols=35 Identities=23% Similarity=0.383 Sum_probs=33.2
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
.||+|.|.- ||+|||+++..|+..|.++|+||.+|
T Consensus 2 ~~iav~n~K-GGvGKTT~a~nLA~~La~~G~rVLlI 36 (250)
T PRK10037 2 AILGLQGVR-GGVGTTSITAALAWSLQMLGENVLVI 36 (250)
T ss_pred cEEEEecCC-CCccHHHHHHHHHHHHHhcCCcEEEE
Confidence 389999996 99999999999999999999999999
No 50
>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.
Probab=97.00 E-value=0.00074 Score=59.38 Aligned_cols=38 Identities=29% Similarity=0.340 Sum_probs=33.0
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
||+|.|-. ||+|||+++..|+..|.++|++|.++-=..
T Consensus 1 ~i~v~~~k-gG~GKtt~a~~la~~l~~~g~~vllvD~D~ 38 (179)
T cd02036 1 VIVVTSGK-GGVGKTTTTANLGTALAQLGYKVVLIDADL 38 (179)
T ss_pred CEEEeeCC-CCCCHHHHHHHHHHHHHhCCCeEEEEeCCC
Confidence 47777775 999999999999999999999999995443
No 51
>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase. Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.
Probab=96.97 E-value=0.0019 Score=59.39 Aligned_cols=41 Identities=24% Similarity=0.216 Sum_probs=34.9
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHh-CCCceEEEecCC
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLAD-SEISPLILTRGY 101 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~-~g~kvaIlsRGY 101 (364)
...||+|.|.. ||+|||+++..||..|.+ +|+||.+|--.-
T Consensus 34 ~~~vi~v~s~k-gG~GkSt~a~nLA~~la~~~g~~VLlvD~D~ 75 (207)
T TIGR03018 34 NNNLIMVTSSL-PGEGKSFTAINLAISLAQEYDKTVLLIDADL 75 (207)
T ss_pred CCeEEEEECCC-CCCCHHHHHHHHHHHHHHhcCCeEEEEECCC
Confidence 35799999885 999999999999999975 699999995443
No 52
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=96.96 E-value=0.00096 Score=58.13 Aligned_cols=36 Identities=25% Similarity=0.387 Sum_probs=26.9
Q ss_pred cEE-EEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 62 PVI-SVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 62 PVI-sVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
||| +|| - =|||||+++.+|+++|.++|++|+++.+.
T Consensus 1 pvv~VvG-~--~~sGKTTl~~~Li~~l~~~g~~v~~ik~~ 37 (140)
T PF03205_consen 1 PVVQVVG-P--KNSGKTTLIRKLINELKRRGYRVAVIKHT 37 (140)
T ss_dssp -EEEEEE-S--TTSSHHHHHHHHHHHHHHTT--EEEEEE-
T ss_pred CEEEEEC-C--CCCCHHHHHHHHHHHHhHcCCceEEEEEc
Confidence 555 555 3 49999999999999999999999966553
No 53
>COG1192 Soj ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=96.94 E-value=0.00089 Score=63.24 Aligned_cols=39 Identities=33% Similarity=0.378 Sum_probs=33.8
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHH-hCCCceEEEecCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLA-DSEISPLILTRGY 101 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~-~~g~kvaIlsRGY 101 (364)
.||+|.|.. ||+||||++.+|+.+|. .+|+||.+|==+.
T Consensus 3 ~iI~v~n~K-GGvGKTT~a~nLa~~La~~~~~kVLliDlDp 42 (259)
T COG1192 3 KIIAVANQK-GGVGKTTTAVNLAAALAKRGGKKVLLIDLDP 42 (259)
T ss_pred EEEEEEecC-CCccHHHHHHHHHHHHHHhcCCcEEEEeCCC
Confidence 589999996 99999999999999998 5569999984433
No 54
>TIGR03453 partition_RepA plasmid partitioning protein RepA. Members of this family are the RepA (or ParA) protein involved in replicon partitioning. All known examples occur in bacterial species with two or more replicons, on a plasmid or the smaller chromosome. Note that an apparent exception may be seen as a pseudomolecule from assembly of an incompletely sequenced genome. Members of this family belong to a larger family that also includes the enzyme cobyrinic acid a,c-diamide synthase, but assignment of that name to members of this family would be in error.
Probab=96.93 E-value=0.0019 Score=65.09 Aligned_cols=37 Identities=38% Similarity=0.495 Sum_probs=34.4
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
+..||+|.|.- ||+|||+++..||..|..+|+||.+|
T Consensus 103 ~~~vI~v~n~K-GGvGKTT~a~nLA~~La~~G~rVLlI 139 (387)
T TIGR03453 103 HLQVIAVTNFK-GGSGKTTTAAHLAQYLALRGYRVLAI 139 (387)
T ss_pred CceEEEEEccC-CCcCHHHHHHHHHHHHHhcCCCEEEE
Confidence 35799999995 99999999999999999999999998
No 55
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.90 E-value=0.004 Score=63.44 Aligned_cols=78 Identities=12% Similarity=0.187 Sum_probs=49.4
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC---CchHHHHHHHhCCCCEEEeccccchh-HHHh---h
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG---GDEVRMLERHLLERPAKIGKNCINPK-VGSH---L 134 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~---GDE~~lla~~~~~~~v~v~~~~~~~~-~~~~---~ 134 (364)
.|..||. +|+||||++..|+..|..+|++|++++-+-.+ -+.-...+.. .++++.++. ++. .... +
T Consensus 243 vI~LVGp---tGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~-lgipv~v~~---d~~~L~~aL~~l 315 (436)
T PRK11889 243 TIALIGP---TGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKT-IGFEVIAVR---DEAAMTRALTYF 315 (436)
T ss_pred EEEEECC---CCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhh-cCCcEEecC---CHHHHHHHHHHH
Confidence 3445563 89999999999999999999999999874322 1222222333 367776543 222 1111 2
Q ss_pred hc-CCCCEEEEcC
Q 017904 135 KS-GKIGAVILDD 146 (364)
Q Consensus 135 ~~-~~~dviIlDD 146 (364)
.+ .+.|+||+|-
T Consensus 316 k~~~~~DvVLIDT 328 (436)
T PRK11889 316 KEEARVDYILIDT 328 (436)
T ss_pred HhccCCCEEEEeC
Confidence 22 3589999993
No 56
>TIGR01968 minD_bact septum site-determining protein MinD. This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.
Probab=96.88 E-value=0.0012 Score=61.73 Aligned_cols=40 Identities=25% Similarity=0.290 Sum_probs=35.5
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
.||+|.|-. ||+|||+++..||..|.++|+||+++=-..+
T Consensus 2 ~ii~v~s~k-GGvGKTt~a~~lA~~la~~g~~vlliD~D~~ 41 (261)
T TIGR01968 2 RVIVITSGK-GGVGKTTTTANLGTALARLGKKVVLIDADIG 41 (261)
T ss_pred eEEEEecCC-CCccHHHHHHHHHHHHHHcCCeEEEEECCCC
Confidence 489999985 9999999999999999999999999965543
No 57
>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.
Probab=96.87 E-value=0.0012 Score=58.54 Aligned_cols=40 Identities=33% Similarity=0.304 Sum_probs=34.3
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG 103 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~ 103 (364)
||+|.|-. ||+|||+++..||..+.++|+||.++--.-.+
T Consensus 1 vi~v~s~k-gG~GKTt~a~~LA~~la~~g~~vllvD~D~q~ 40 (169)
T cd02037 1 VIAVMSGK-GGVGKSTVAVNLALALAKLGYKVGLLDADIYG 40 (169)
T ss_pred CEEEecCC-CcCChhHHHHHHHHHHHHcCCcEEEEeCCCCC
Confidence 57777774 99999999999999999999999999665543
No 58
>TIGR01969 minD_arch cell division ATPase MinD, archaeal. This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown.
Probab=96.86 E-value=0.0013 Score=61.31 Aligned_cols=38 Identities=29% Similarity=0.383 Sum_probs=33.9
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
||+|.|-. ||+|||+++..||..|.++|++|.++=-.-
T Consensus 2 ii~v~~~K-GGvGKTt~a~~LA~~la~~g~~VlliD~D~ 39 (251)
T TIGR01969 2 IITIASGK-GGTGKTTITANLGVALAKLGKKVLALDADI 39 (251)
T ss_pred EEEEEcCC-CCCcHHHHHHHHHHHHHHCCCeEEEEeCCC
Confidence 78888885 999999999999999999999999995443
No 59
>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.
Probab=96.86 E-value=0.0086 Score=49.35 Aligned_cols=38 Identities=29% Similarity=0.320 Sum_probs=30.8
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhC-CCceEEEecCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADS-EISPLILTRGY 101 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~-g~kvaIlsRGY 101 (364)
||+|.|-- ||.|||++...|+..+.+. |+++.++-=.+
T Consensus 1 ~i~~~~~k-gg~gkt~~~~~la~~~~~~~~~~~~l~d~d~ 39 (106)
T cd03111 1 VIAFIGAK-GGVGATTLAANLAVALAKEAGRRVLLVDLDL 39 (106)
T ss_pred CEEEECCC-CCCcHHHHHHHHHHHHHhcCCCcEEEEECCC
Confidence 45665654 9999999999999999987 88888884444
No 60
>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]
Probab=96.86 E-value=0.0014 Score=58.69 Aligned_cols=40 Identities=15% Similarity=0.218 Sum_probs=34.3
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
.||+.|=+- =+|||||++..+++.|+++|++|++|.+-..
T Consensus 2 ~~Il~ivG~--k~SGKTTLie~lv~~L~~~G~rVa~iKH~hh 41 (161)
T COG1763 2 MKILGIVGY--KNSGKTTLIEKLVRKLKARGYRVATVKHAHH 41 (161)
T ss_pred CcEEEEEec--CCCChhhHHHHHHHHHHhCCcEEEEEEecCC
Confidence 367766666 4999999999999999999999999988654
No 61
>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins. In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].
Probab=96.84 E-value=0.0014 Score=61.90 Aligned_cols=36 Identities=33% Similarity=0.445 Sum_probs=33.7
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
.|||++-|-- ||+||||.+..|+..|.++|.+|++|
T Consensus 1 M~vItf~s~K-GGaGKTT~~~~LAs~la~~G~~V~lI 36 (231)
T PF07015_consen 1 MPVITFASSK-GGAGKTTAAMALASELAARGARVALI 36 (231)
T ss_pred CCeEEEecCC-CCCcHHHHHHHHHHHHHHCCCeEEEE
Confidence 3899999975 99999999999999999999999999
No 62
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=96.81 E-value=0.007 Score=53.60 Aligned_cols=36 Identities=28% Similarity=0.281 Sum_probs=30.9
Q ss_pred EEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 64 ISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 64 IsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
+.+| ..|+|||+++..++..+.++|.++++++.+..
T Consensus 4 ~~~G---~~G~GKTt~~~~la~~~~~~g~~v~~i~~D~~ 39 (173)
T cd03115 4 LLVG---LQGVGKTTTAAKLALYLKKKGKKVLLVAADTY 39 (173)
T ss_pred EEEC---CCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCC
Confidence 3455 37999999999999999999999999998754
No 63
>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.
Probab=96.81 E-value=0.0015 Score=52.94 Aligned_cols=37 Identities=38% Similarity=0.426 Sum_probs=31.0
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
+|+|.|.. ||+|||+++..++..+.++|.++.++--.
T Consensus 1 ~i~~~~~k-gG~Gkst~~~~la~~~~~~~~~vl~~d~d 37 (104)
T cd02042 1 VIAVANQK-GGVGKTTTAVNLAAALARRGKRVLLIDLD 37 (104)
T ss_pred CEEEEeCC-CCcCHHHHHHHHHHHHHhCCCcEEEEeCC
Confidence 46777775 99999999999999999888888877543
No 64
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=96.79 E-value=0.012 Score=55.85 Aligned_cols=27 Identities=30% Similarity=0.484 Sum_probs=22.4
Q ss_pred CCCCchHHHHHHHHHHHhCC-CceEEEe
Q 017904 72 GGNGKTPMVEFLAHCLADSE-ISPLILT 98 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~g-~kvaIls 98 (364)
||||||+++.-|+..|.++| ++|-++=
T Consensus 9 GG~GKTtiaalll~~l~~~~~~~VLvVD 36 (255)
T COG3640 9 GGVGKTTIAALLLKRLLSKGGYNVLVVD 36 (255)
T ss_pred CCccHHHHHHHHHHHHHhcCCceEEEEe
Confidence 99999999999677666655 9998883
No 65
>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional
Probab=96.76 E-value=0.0049 Score=61.89 Aligned_cols=40 Identities=23% Similarity=0.276 Sum_probs=35.3
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
.|||+|-+- =|||||+++..|++.|+++|++|++|.+...
T Consensus 205 ~~~~~~~g~--~~~GKtt~~~~l~~~l~~~g~~v~~iKh~~h 244 (366)
T PRK14489 205 PPLLGVVGY--SGTGKTTLLEKLIPELIARGYRIGLIKHSHH 244 (366)
T ss_pred ccEEEEecC--CCCCHHHHHHHHHHHHHHcCCEEEEEEECCc
Confidence 578888776 4999999999999999999999999997543
No 66
>COG1341 Predicted GTPase or GTP-binding protein [General function prediction only]
Probab=96.75 E-value=0.0073 Score=61.07 Aligned_cols=43 Identities=21% Similarity=0.247 Sum_probs=37.3
Q ss_pred CCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC
Q 017904 58 RLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG 103 (364)
Q Consensus 58 ~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~ 103 (364)
..+.-+++||+. +||||+|+.||+..+.++|++++||.=+-|.
T Consensus 71 ~~~~~vmvvG~v---DSGKSTLt~~LaN~~l~rG~~v~iiDaDvGQ 113 (398)
T COG1341 71 GKVGVVMVVGPV---DSGKSTLTTYLANKLLARGRKVAIIDADVGQ 113 (398)
T ss_pred cCCcEEEEECCc---CcCHHHHHHHHHHHHhhcCceEEEEeCCCCC
Confidence 334457799998 9999999999999999999999999887763
No 67
>PRK10818 cell division inhibitor MinD; Provisional
Probab=96.71 E-value=0.0018 Score=61.47 Aligned_cols=44 Identities=23% Similarity=0.220 Sum_probs=38.8
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCch
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDE 106 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE 106 (364)
.||+|.|.. ||+|||+++..|+..|.++|++|.++==+.+.++-
T Consensus 3 kviav~s~K-GGvGKTt~a~nlA~~la~~g~~vllvD~D~~~~~~ 46 (270)
T PRK10818 3 RIIVVTSGK-GGVGKTTSSAAIATGLAQKGKKTVVIDFDIGLRNL 46 (270)
T ss_pred eEEEEEeCC-CCCcHHHHHHHHHHHHHHCCCeEEEEECCCCCCCh
Confidence 689999986 99999999999999999999999999887754443
No 68
>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.
Probab=96.71 E-value=0.0018 Score=61.14 Aligned_cols=34 Identities=26% Similarity=0.345 Sum_probs=30.6
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
.+|+|.| =||+||||++..||..|.++|+||.+|
T Consensus 2 ~~iav~~--KGGvGKTT~~~nLA~~La~~G~kVlli 35 (270)
T cd02040 2 RQIAIYG--KGGIGKSTTTQNLSAALAEMGKKVMIV 35 (270)
T ss_pred cEEEEEe--CCcCCHHHHHHHHHHHHHhCCCeEEEE
Confidence 3677765 699999999999999999999999999
No 69
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=96.70 E-value=0.002 Score=62.42 Aligned_cols=37 Identities=24% Similarity=0.205 Sum_probs=33.3
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
|+|+|-|- .|||||||+..|++.|+++| +|++|...-
T Consensus 2 ~~i~i~G~--~gSGKTTLi~~Li~~L~~~G-~V~~IKhd~ 38 (274)
T PRK14493 2 KVLSIVGY--KATGKTTLVERLVDRLSGRG-RVGTVKHMD 38 (274)
T ss_pred cEEEEECC--CCCCHHHHHHHHHHHHHhCC-CEEEEEEcC
Confidence 67888887 69999999999999999999 999998853
No 70
>PF09140 MipZ: ATPase MipZ; InterPro: IPR015223 Cell division in bacteria is facilitated by a polymeric ring structure, the Z ring, composed of tubulin-like FtsZ protofilaments. Correct positioning of the division plane is a prerequisite for the generation of daughter cells with a normal chromosome complement. In Caulobacter crescentus MipZ, an essential protein, coordinates and regulates the assembly of the FtsZ cytokinetic ring during cell division. MipZ, forms a complex with the partitioning protein ParB near the origin of replication and localizes with the duplicated origin regions to the cell poles. MipZ also directly interferes with FtsZ polymerisation, thereby restricting FtsZ ring formation to mid-cell, the region of lowest MipZ concentration. In eukaryotes members of this entry belong to the Mrp/NBP35 ATP-binding protein family, and specifically the NUBP2/CFD1 subfamily. This includes the cytosolic Fe-S cluster assembly factor Cfd1, which is a component of the cytosolic iron-sulphur (Fe/S) protein assembly machinery. This protein is required for maturation of extra-mitochondrial Fe/S proteins. It may bind and transfer a labile 4Fe-4S cluster to target apoproteins. Cfd1 is also required for biogenesis and export of both ribosomal subunits, suggesting a role in assembly of the Fe/S clusters in RLI1, a protein which performs rRNA processing and ribosome export. ; PDB: 2XIT_B 2XJ4_A 2XJ9_A.
Probab=96.68 E-value=0.0019 Score=61.63 Aligned_cols=38 Identities=32% Similarity=0.321 Sum_probs=30.5
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
||+|||=- ||+||||++.+||-.|..+|+||+++==..
T Consensus 2 iIvV~sgK-GGvGKSTva~~lA~aLa~~G~kVg~lD~Di 39 (261)
T PF09140_consen 2 IIVVGSGK-GGVGKSTVAVNLAVALARMGKKVGLLDLDI 39 (261)
T ss_dssp EEEEE-SS-TTTTHHHHHHHHHHHHHCTT--EEEEE--T
T ss_pred EEEEecCC-CCCcHHHHHHHHHHHHHHCCCeEEEEecCC
Confidence 78999975 999999999999999999999999995444
No 71
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=96.68 E-value=0.002 Score=57.04 Aligned_cols=36 Identities=17% Similarity=0.226 Sum_probs=30.2
Q ss_pred EEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 64 ISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 64 IsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
|+|-+. -|||||+++.+|++.|+++|++|+++.+..
T Consensus 2 i~i~G~--~gsGKTtl~~~l~~~l~~~G~~V~viK~~~ 37 (155)
T TIGR00176 2 LQIVGP--KNSGKTTLIERLVKALKARGYRVATIKHDH 37 (155)
T ss_pred EEEECC--CCCCHHHHHHHHHHHHHhcCCeEEEEeccc
Confidence 444444 399999999999999999999999998754
No 72
>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=96.66 E-value=0.0023 Score=58.91 Aligned_cols=33 Identities=27% Similarity=0.307 Sum_probs=30.8
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
||+|.| =||+|||+++..||..|.++|+||.+|
T Consensus 2 ~iav~g--KGGvGKTt~~~nLA~~la~~G~rvLli 34 (212)
T cd02117 2 QIAIYG--KGGIGKSTTSQNLSAALAEMGKKVLQV 34 (212)
T ss_pred EEEEEC--CCcCcHHHHHHHHHHHHHHCCCcEEEE
Confidence 678887 599999999999999999999999999
No 73
>COG3367 Uncharacterized conserved protein [Function unknown]
Probab=96.61 E-value=0.017 Score=56.92 Aligned_cols=145 Identities=12% Similarity=0.166 Sum_probs=93.8
Q ss_pred CCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCCCEEEeccccchh--H-----
Q 017904 58 RLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLERPAKIGKNCINPK--V----- 130 (364)
Q Consensus 58 ~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~~v~v~~~~~~~~--~----- 130 (364)
+.++|++.|++-. =-+||-+.++.|.+.++++|++++.+.-|.-+ .|.+.. + +.+. .+--+ +
T Consensus 145 k~~a~~V~vvGTd-~~vGKrTTa~~L~~~~~e~G~~a~fvaTgqtg----il~~~~--g--vvvd--av~~DfaAGave~ 213 (339)
T COG3367 145 KVDAKVVLVVGTD-CAVGKRTTALELREAAREEGIKAGFVATGQTG----ILIADD--G--VVVD--AVVMDFAAGAVES 213 (339)
T ss_pred ccCCcEEEEeccc-cccchhHHHHHHHHHHHHhCCccceEecCcee----eEEecC--c--eEec--chhHHHHHHHHHH
Confidence 3447888777432 23499999999999999999999999888653 344221 2 2221 12111 1
Q ss_pred -HHhhhcCCCCEEEEc--CCCCCcc----------ccCceeEEEEeCCCCCCCCccccCCCCCCchh---hhccccEEEE
Q 017904 131 -GSHLKSGKIGAVILD--DGMQHWS----------LRRDLEIVMVNGLMPWGNRKLLPLGPLREPLM---ALKRADIAVV 194 (364)
Q Consensus 131 -~~~~~~~~~dviIlD--DgfQh~~----------L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~---~L~rAd~ivv 194 (364)
...+.+.++|+|+.+ -++.|+. ..+|-=+++=|+.|++..++.=|.++|+|-.. .|..|+++-+
T Consensus 214 ~v~~~~e~~~Dii~VEGQgsl~HP~y~vtl~il~gs~PDavvL~H~P~r~~~~g~P~~ip~leevi~l~e~l~~a~Vvgi 293 (339)
T COG3367 214 AVYEAEEKNPDIIFVEGQGSLTHPAYGVTLGILHGSAPDAVVLCHDPNRKYRDGFPEPIPPLEEVIALYELLSNAKVVGI 293 (339)
T ss_pred HHHHhhhcCCCEEEEeccccccCCCcccchhhhcCCCCCeEEEEecCCCccccCCCCcCCCHHHHHHHHHHccCCcEEEE
Confidence 112334589999999 5688886 34666677778999887666557889988654 6777888665
Q ss_pred cC-CcchhhhhhHHHHHHHH
Q 017904 195 HH-ADLISEQNLKDIELEMR 213 (364)
Q Consensus 195 tk-~d~~~~~~~~~i~~~l~ 213 (364)
.- +...++++...+.+.+.
T Consensus 294 ~lNtr~~dE~~are~~a~l~ 313 (339)
T COG3367 294 ALNTRNLDEEEARELCAKLE 313 (339)
T ss_pred EecccccChHHHHHHHHHHh
Confidence 42 23344444444554444
No 74
>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional
Probab=96.61 E-value=0.0024 Score=60.69 Aligned_cols=34 Identities=26% Similarity=0.262 Sum_probs=31.6
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
.||+|+| =||+||||++..||..|.++|+||.+|
T Consensus 3 ~iIav~~--KGGVGKTT~~~nLA~~la~~G~kVLli 36 (270)
T PRK13185 3 LVLAVYG--KGGIGKSTTSSNLSAAFAKLGKKVLQI 36 (270)
T ss_pred eEEEEEC--CCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence 5888886 699999999999999999999999999
No 75
>PRK14495 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional
Probab=96.56 E-value=0.0027 Score=65.14 Aligned_cols=38 Identities=24% Similarity=0.219 Sum_probs=33.5
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
+||+|-+-+ ||||||++..|+..|+++|+||++|.+..
T Consensus 2 kVi~IvG~s--gSGKTTLiekLI~~L~~rG~rVavIKH~h 39 (452)
T PRK14495 2 RVYGIIGWK--DAGKTGLVERLVAAIAARGFSVSTVKHSH 39 (452)
T ss_pred cEEEEEecC--CCCHHHHHHHHHHHHHhCCCeEEEEeccC
Confidence 677776664 99999999999999999999999998754
No 76
>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=96.51 E-value=0.0035 Score=59.75 Aligned_cols=35 Identities=37% Similarity=0.406 Sum_probs=32.6
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
++|+|=++. ||+|||+++..|+-.|++.|.+|.+|
T Consensus 2 ~~iai~s~k-GGvG~TTltAnLA~aL~~~G~~VlaI 36 (243)
T PF06564_consen 2 KVIAIVSPK-GGVGKTTLTANLAWALARLGESVLAI 36 (243)
T ss_pred cEEEEecCC-CCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence 688888886 99999999999999999999999888
No 77
>PRK13235 nifH nitrogenase reductase; Reviewed
Probab=96.48 E-value=0.0033 Score=60.16 Aligned_cols=33 Identities=18% Similarity=0.255 Sum_probs=30.7
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
||+|.| =||+|||+++..|+-.|.++|+||.+|
T Consensus 3 ~iav~~--KGGVGKTT~~~nLA~~La~~G~rVLlI 35 (274)
T PRK13235 3 KVAIYG--KGGIGKSTTTQNTVAGLAEMGKKVMVV 35 (274)
T ss_pred EEEEeC--CCCccHHHHHHHHHHHHHHCCCcEEEE
Confidence 677776 699999999999999999999999999
No 78
>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein. The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.
Probab=96.48 E-value=0.0033 Score=59.74 Aligned_cols=33 Identities=24% Similarity=0.274 Sum_probs=29.9
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
+|+|++ =||+||||++..|+..|.++|+||.+|
T Consensus 2 ~i~~~g--KGGVGKTT~~~nLA~~La~~g~rVLli 34 (268)
T TIGR01281 2 ILAVYG--KGGIGKSTTSSNLSVAFAKLGKRVLQI 34 (268)
T ss_pred EEEEEc--CCcCcHHHHHHHHHHHHHhCCCeEEEE
Confidence 467774 699999999999999999999999998
No 79
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.42 E-value=0.011 Score=60.72 Aligned_cols=84 Identities=24% Similarity=0.196 Sum_probs=48.7
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHH-HhCCCceEEEecCCCCCchHHHHHHH--hCCCCEEEeccccchhHHHhhhcCCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCL-ADSEISPLILTRGYAGGDEVRMLERH--LLERPAKIGKNCINPKVGSHLKSGKI 139 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L-~~~g~kvaIlsRGYg~GDE~~lla~~--~~~~~v~v~~~~~~~~~~~~~~~~~~ 139 (364)
+.++| .+|+||||++..|+..+ ..+|.+|++++=+-.+.=...++.+. ..++++....+ .......+...+.
T Consensus 226 i~lvG---ptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~~--~~~l~~~l~~~~~ 300 (432)
T PRK12724 226 VFFVG---PTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVKD--IKKFKETLARDGS 300 (432)
T ss_pred EEEEC---CCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHHHHhcCCCeeehHH--HHHHHHHHHhCCC
Confidence 55666 58999999999999755 67899999997433221011233332 23455432211 0112223334567
Q ss_pred CEEEEc-CCCCCc
Q 017904 140 GAVILD-DGMQHW 151 (364)
Q Consensus 140 dviIlD-DgfQh~ 151 (364)
|+||+| -|+-|+
T Consensus 301 D~VLIDTaGr~~r 313 (432)
T PRK12724 301 ELILIDTAGYSHR 313 (432)
T ss_pred CEEEEeCCCCCcc
Confidence 888888 456554
No 80
>cd04163 Era Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.
Probab=96.37 E-value=0.0089 Score=50.52 Aligned_cols=117 Identities=20% Similarity=0.262 Sum_probs=60.4
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCCCEEEeccccchhHHHhhhcCCCCEE
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLERPAKIGKNCINPKVGSHLKSGKIGAV 142 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~~v~v~~~~~~~~~~~~~~~~~~dvi 142 (364)
|..+|. -|+|||+++..++ |.+++++++........ .. + .....+.+++
T Consensus 6 i~~~G~---~g~GKttl~~~l~------~~~~~~~~~~~~~~~~~-----------~~-~----------~~~~~~~~~~ 54 (168)
T cd04163 6 VAIVGR---PNVGKSTLLNALV------GQKISIVSPKPQTTRNR-----------IR-G----------IYTDDDAQII 54 (168)
T ss_pred EEEECC---CCCCHHHHHHHHh------CCceEeccCCCCceece-----------EE-E----------EEEcCCeEEE
Confidence 556775 4999999999875 45666665543321000 00 0 0011234566
Q ss_pred EEc-CCCCC---------------ccccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcch-hhhhh
Q 017904 143 ILD-DGMQH---------------WSLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLI-SEQNL 205 (364)
Q Consensus 143 IlD-DgfQh---------------~~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~~-~~~~~ 205 (364)
++| -|+-. ..-.-|.=++++|+++++.... -.+.+-....+...++|+||.|+. .+++.
T Consensus 55 liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~i~~v~d~~~~~~~~~----~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~ 130 (168)
T cd04163 55 FVDTPGIHKPKKKLGERMVKAAWSALKDVDLVLFVVDASEPIGEGD----EFILELLKKSKTPVILVLNKIDLVKDKEDL 130 (168)
T ss_pred EEECCCCCcchHHHHHHHHHHHHHHHHhCCEEEEEEECCCccCchH----HHHHHHHHHhCCCEEEEEEchhccccHHHH
Confidence 676 23211 1112244467889888743211 011111222335678999999987 44555
Q ss_pred HHHHHHHHh
Q 017904 206 KDIELEMRD 214 (364)
Q Consensus 206 ~~i~~~l~~ 214 (364)
......+..
T Consensus 131 ~~~~~~~~~ 139 (168)
T cd04163 131 LPLLEKLKE 139 (168)
T ss_pred HHHHHHHHh
Confidence 554444443
No 81
>cd02032 Bchl_like This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.
Probab=96.36 E-value=0.0043 Score=58.97 Aligned_cols=33 Identities=30% Similarity=0.320 Sum_probs=29.7
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
||+|.| =||+|||+++..||..|.++|+||.+|
T Consensus 2 ~i~v~g--KGGvGKTT~a~nLA~~la~~G~rvlli 34 (267)
T cd02032 2 VLAVYG--KGGIGKSTTSSNLSVALAKRGKKVLQI 34 (267)
T ss_pred EEEEec--CCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence 466666 599999999999999999999999998
No 82
>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.
Probab=96.33 E-value=0.0057 Score=54.48 Aligned_cols=38 Identities=24% Similarity=0.363 Sum_probs=33.1
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
+||+|-+.+ |||||+++..|++.|.++|++|+++...-
T Consensus 2 ~vi~i~G~~--gsGKTTli~~L~~~l~~~g~~V~~iK~~~ 39 (159)
T cd03116 2 KVIGFVGYS--GSGKTTLLEKLIPALSARGLRVAVIKHDH 39 (159)
T ss_pred eEEEEECCC--CCCHHHHHHHHHHHHHHcCCcEEEEEecC
Confidence 577777664 99999999999999999999999997643
No 83
>PRK14491 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional
Probab=96.28 E-value=0.0066 Score=64.90 Aligned_cols=41 Identities=22% Similarity=0.408 Sum_probs=35.6
Q ss_pred CCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 59 LPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 59 ~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
...|||+|-+- -|||||+++..|+..|+++|+|||+|.+..
T Consensus 8 ~~~~vi~ivG~--s~sGKTTlie~li~~L~~~G~rVavIKh~~ 48 (597)
T PRK14491 8 LSIPLLGFCAY--SGTGKTTLLEQLIPELNQRGLRLAVIKHAH 48 (597)
T ss_pred CCccEEEEEcC--CCCCHHHHHHHHHHHHHhCCceEEEEEcCC
Confidence 45789988755 499999999999999999999999999843
No 84
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.27 E-value=0.02 Score=62.55 Aligned_cols=146 Identities=21% Similarity=0.176 Sum_probs=80.8
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHH-HhCC-CceEEEecCCCC--CchHHHHHHHhCCCCEEEeccccchh-HHHhh-hc
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCL-ADSE-ISPLILTRGYAG--GDEVRMLERHLLERPAKIGKNCINPK-VGSHL-KS 136 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L-~~~g-~kvaIlsRGYg~--GDE~~lla~~~~~~~v~v~~~~~~~~-~~~~~-~~ 136 (364)
+..|| .-|+||||++..|+.++ ..+| .+|++++-..-+ .=|.+......-++++.+.. ++. ....+ .-
T Consensus 188 i~lVG---pnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~---~~~~l~~al~~~ 261 (767)
T PRK14723 188 LALVG---PTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVK---DAADLRFALAAL 261 (767)
T ss_pred EEEEC---CCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccC---CHHHHHHHHHHh
Confidence 45777 47999999999999888 4566 699999875332 22433333334477775433 222 22222 22
Q ss_pred CCCCEEEEc-CCCCCc-------------cccCceeEEEEeCCCCCCCCccccCCCCCCchhhhc-----cccEEEEcCC
Q 017904 137 GKIGAVILD-DGMQHW-------------SLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALK-----RADIAVVHHA 197 (364)
Q Consensus 137 ~~~dviIlD-DgfQh~-------------~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~-----rAd~ivvtk~ 197 (364)
.+.|+||+| -|.-|+ ...++-.++|+|++.. .. -+.|-..+.+ .-|-+|+||-
T Consensus 262 ~~~D~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~--~~------~l~~i~~~f~~~~~~~i~glIlTKL 333 (767)
T PRK14723 262 GDKHLVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASH--GD------TLNEVVHAYRHGAGEDVDGCIITKL 333 (767)
T ss_pred cCCCEEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCCc--HH------HHHHHHHHHhhcccCCCCEEEEecc
Confidence 357999999 554332 1223444677777631 11 1222222222 3567999998
Q ss_pred cchhhhhhHHHHHHHHhhccCCcEEEEEE
Q 017904 198 DLISEQNLKDIELEMRDIKKSLSIFFTRM 226 (364)
Q Consensus 198 d~~~~~~~~~i~~~l~~~~~~~~i~~~~~ 226 (364)
|.... .-.+-..+.. .+.||.+...
T Consensus 334 DEt~~--~G~iL~i~~~--~~lPI~yit~ 358 (767)
T PRK14723 334 DEATH--LGPALDTVIR--HRLPVHYVST 358 (767)
T ss_pred CCCCC--ccHHHHHHHH--HCCCeEEEec
Confidence 86432 2222222222 3677766544
No 85
>PRK13231 nitrogenase reductase-like protein; Reviewed
Probab=96.26 E-value=0.003 Score=59.97 Aligned_cols=33 Identities=24% Similarity=0.380 Sum_probs=30.1
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
.+|+|+| -||+|||+++..|+..|.++| ||.+|
T Consensus 3 ~~iav~~--KGGvGKTT~a~nLA~~La~~G-rVLli 35 (264)
T PRK13231 3 KKIAIYG--KGGIGKSTTVSNMAAAYSNDH-RVLVI 35 (264)
T ss_pred eEEEEEC--CCCCcHHHHHHHHhcccCCCC-EEEEE
Confidence 4788886 699999999999999999999 99988
No 86
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=96.26 E-value=0.037 Score=55.93 Aligned_cols=83 Identities=23% Similarity=0.233 Sum_probs=50.2
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHH-hCC-CceEEEec-CCCC-CchHH-HHHHHhCCCCEEEeccccchhHHH-hhh
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLA-DSE-ISPLILTR-GYAG-GDEVR-MLERHLLERPAKIGKNCINPKVGS-HLK 135 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~-~~g-~kvaIlsR-GYg~-GDE~~-lla~~~~~~~v~v~~~~~~~~~~~-~~~ 135 (364)
-++.||. -|+|||+++..|+..+. .+| .+|++++= .|.. +-|-+ -+++.+ ++++.+..+ ..+... +..
T Consensus 139 ii~lvGp---tGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~-gv~~~~~~~--~~~l~~~l~~ 212 (374)
T PRK14722 139 VFALMGP---TGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKIL-GVPVHAVKD--GGDLQLALAE 212 (374)
T ss_pred EEEEECC---CCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHc-CCceEecCC--cccHHHHHHH
Confidence 5667885 59999999999999864 446 58988864 4432 22332 234444 666654332 111222 222
Q ss_pred cCCCCEEEEcC-CCCC
Q 017904 136 SGKIGAVILDD-GMQH 150 (364)
Q Consensus 136 ~~~~dviIlDD-gfQh 150 (364)
-.+.|+|++|. |+.+
T Consensus 213 l~~~DlVLIDTaG~~~ 228 (374)
T PRK14722 213 LRNKHMVLIDTIGMSQ 228 (374)
T ss_pred hcCCCEEEEcCCCCCc
Confidence 34679999994 5554
No 87
>CHL00175 minD septum-site determining protein; Validated
Probab=96.15 E-value=0.0096 Score=57.01 Aligned_cols=46 Identities=17% Similarity=0.146 Sum_probs=38.5
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchH
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEV 107 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~ 107 (364)
..||+|.|-. ||+|||+++..|+..|.++|+||.+|=-+.+.|+-.
T Consensus 15 ~~vi~v~s~K-GGvGKTt~a~nLA~~La~~g~~vlliD~D~~~~~l~ 60 (281)
T CHL00175 15 SRIIVITSGK-GGVGKTTTTANLGMSIARLGYRVALIDADIGLRNLD 60 (281)
T ss_pred ceEEEEEcCC-CCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCCCChh
Confidence 4699998875 999999999999999999999999996666544433
No 88
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.14 E-value=0.024 Score=57.51 Aligned_cols=79 Identities=16% Similarity=0.167 Sum_probs=49.0
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC-CCC-CchHHHHHHHhCCCCEEEeccccchh-HHH---hhh
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG-YAG-GDEVRMLERHLLERPAKIGKNCINPK-VGS---HLK 135 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG-Yg~-GDE~~lla~~~~~~~v~v~~~~~~~~-~~~---~~~ 135 (364)
.+|++-|. .|+|||+++..|+.++.++|++|++++=+ |+. +-|-+.-....-++|+.++. ++. ... .+.
T Consensus 207 ~ii~lvGp--tGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~---dp~dL~~al~~l~ 281 (407)
T PRK12726 207 RIISLIGQ--TGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYADKLDVELIVAT---SPAELEEAVQYMT 281 (407)
T ss_pred eEEEEECC--CCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhhcCCCCEEecC---CHHHHHHHHHHHH
Confidence 45544444 59999999999999998899999999764 443 23332222222356665442 232 111 122
Q ss_pred -cCCCCEEEEc
Q 017904 136 -SGKIGAVILD 145 (364)
Q Consensus 136 -~~~~dviIlD 145 (364)
..++|+||+|
T Consensus 282 ~~~~~D~VLID 292 (407)
T PRK12726 282 YVNCVDHILID 292 (407)
T ss_pred hcCCCCEEEEE
Confidence 1357888888
No 89
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=96.05 E-value=0.0056 Score=57.18 Aligned_cols=46 Identities=28% Similarity=0.346 Sum_probs=40.0
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC---CchHH
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG---GDEVR 108 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~---GDE~~ 108 (364)
.|.|++.+. -|+|||++...|++.|+++++++..++.+|.. .||.+
T Consensus 1 mpLiIlTGy--PgsGKTtfakeLak~L~~~i~~vi~l~kdy~~~i~~DEsl 49 (261)
T COG4088 1 MPLIILTGY--PGSGKTTFAKELAKELRQEIWRVIHLEKDYLRGILWDESL 49 (261)
T ss_pred CceEEEecC--CCCCchHHHHHHHHHHHHhhhhccccchhhhhheeccccc
Confidence 377888877 79999999999999999999999999998865 67753
No 90
>PRK13230 nitrogenase reductase-like protein; Reviewed
Probab=96.03 E-value=0.0077 Score=57.74 Aligned_cols=33 Identities=30% Similarity=0.319 Sum_probs=29.9
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
+|++.| =||+|||+++..|+-.|.++|+||.+|
T Consensus 3 ~i~~~g--KGGVGKTT~a~nLA~~La~~G~rVLli 35 (279)
T PRK13230 3 KFCFYG--KGGIGKSTTVCNIAAALAESGKKVLVV 35 (279)
T ss_pred EEEEEC--CCCCcHHHHHHHHHHHHHhCCCEEEEE
Confidence 566665 599999999999999999999999999
No 91
>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=95.99 E-value=0.0082 Score=57.31 Aligned_cols=32 Identities=28% Similarity=0.392 Sum_probs=28.4
Q ss_pred EEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 64 ISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 64 IsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
|.|-| =||+|||+++..||..|.++|+||.+|
T Consensus 3 ia~~g--KGGVGKTT~a~nLA~~La~~G~~Vlli 34 (275)
T TIGR01287 3 IAIYG--KGGIGKSTTTQNIAAALAEMGKKVMIV 34 (275)
T ss_pred eEEeC--CCcCcHHHHHHHHHHHHHHCCCeEEEE
Confidence 44444 599999999999999999999999998
No 92
>PRK00089 era GTPase Era; Reviewed
Probab=95.95 E-value=0.029 Score=53.96 Aligned_cols=112 Identities=21% Similarity=0.188 Sum_probs=61.3
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCCCEEEeccccchhHHHhhhcCCCCE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLERPAKIGKNCINPKVGSHLKSGKIGA 141 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~~v~v~~~~~~~~~~~~~~~~~~dv 141 (364)
-|..||. -|+|||+++..|+ |.+++++|.--... +. .+ .+ .....+.++
T Consensus 7 ~V~iiG~---pn~GKSTLin~L~------g~~~~~vs~~~~tt--------~~---~i-~~----------i~~~~~~qi 55 (292)
T PRK00089 7 FVAIVGR---PNVGKSTLLNALV------GQKISIVSPKPQTT--------RH---RI-RG----------IVTEDDAQI 55 (292)
T ss_pred EEEEECC---CCCCHHHHHHHHh------CCceeecCCCCCcc--------cc---cE-EE----------EEEcCCceE
Confidence 4778886 4999999999875 56777776532210 00 00 00 001122467
Q ss_pred EEEc-CCCCCcc---------------ccCceeEEEEeCCCCCCCCccccCCCCCCchhhh---ccccEEEEcCCcch-h
Q 017904 142 VILD-DGMQHWS---------------LRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMAL---KRADIAVVHHADLI-S 201 (364)
Q Consensus 142 iIlD-DgfQh~~---------------L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L---~rAd~ivvtk~d~~-~ 201 (364)
+++| -|+.+.. -.-|+=++++|+++++... .++-...+ ....++|+||.|+. +
T Consensus 56 ~~iDTPG~~~~~~~l~~~~~~~~~~~~~~~D~il~vvd~~~~~~~~-------~~~i~~~l~~~~~pvilVlNKiDl~~~ 128 (292)
T PRK00089 56 IFVDTPGIHKPKRALNRAMNKAAWSSLKDVDLVLFVVDADEKIGPG-------DEFILEKLKKVKTPVILVLNKIDLVKD 128 (292)
T ss_pred EEEECCCCCCchhHHHHHHHHHHHHHHhcCCEEEEEEeCCCCCChh-------HHHHHHHHhhcCCCEEEEEECCcCCCC
Confidence 7777 4543321 1234457888988755432 12222333 34578999999987 4
Q ss_pred hhhhHHHHHH
Q 017904 202 EQNLKDIELE 211 (364)
Q Consensus 202 ~~~~~~i~~~ 211 (364)
.++.....+.
T Consensus 129 ~~~l~~~~~~ 138 (292)
T PRK00089 129 KEELLPLLEE 138 (292)
T ss_pred HHHHHHHHHH
Confidence 3444333333
No 93
>PRK13233 nifH nitrogenase reductase; Reviewed
Probab=95.91 E-value=0.0093 Score=56.94 Aligned_cols=34 Identities=24% Similarity=0.240 Sum_probs=30.6
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHh-CCCceEEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLAD-SEISPLIL 97 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~-~g~kvaIl 97 (364)
.||+|.| =||+|||+++..|+-.|.+ +|+||.+|
T Consensus 3 ~vIav~~--KGGVGKTT~a~nLA~~La~~~G~rvLli 37 (275)
T PRK13233 3 RKIAIYG--KGGIGKSTTTQNTAAAMAYFHDKKVFIH 37 (275)
T ss_pred eEEEEEc--CCCCcHHHHHHHHHHHHHHhcCCeEEEe
Confidence 5788885 6999999999999999987 59999998
No 94
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.90 E-value=0.1 Score=55.18 Aligned_cols=172 Identities=17% Similarity=0.182 Sum_probs=87.3
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhC--CCceEEEecC-CCCC-chHHHHHHHhCCCCEEEeccccchhHHHhhh-cC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADS--EISPLILTRG-YAGG-DEVRMLERHLLERPAKIGKNCINPKVGSHLK-SG 137 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~--g~kvaIlsRG-Yg~G-DE~~lla~~~~~~~v~v~~~~~~~~~~~~~~-~~ 137 (364)
+..||- +|+|||+++..|+.++..+ |.+|++++-. |+.| .|-+.......++++....+ .......+. ..
T Consensus 353 IaLVGP---tGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d--~~~L~~aL~~l~ 427 (559)
T PRK12727 353 IALVGP---TGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADS--AESLLDLLERLR 427 (559)
T ss_pred EEEECC---CCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCc--HHHHHHHHHHhc
Confidence 445563 6999999999999987665 5789999753 4322 23221111122444432211 111222222 23
Q ss_pred CCCEEEEcCC-CCCcc------------ccCceeEEEEeCCCCCCCCccccCCCCCCchhhhc--cccEEEEcCCcchhh
Q 017904 138 KIGAVILDDG-MQHWS------------LRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALK--RADIAVVHHADLISE 202 (364)
Q Consensus 138 ~~dviIlDDg-fQh~~------------L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~--rAd~ivvtk~d~~~~ 202 (364)
+.|+||+|.. .-++. ....-+++|+++..... . +.+-...++ .-+-+|+||.|....
T Consensus 428 ~~DLVLIDTaG~s~~D~~l~eeL~~L~aa~~~a~lLVLpAtss~~--D------l~eii~~f~~~~~~gvILTKlDEt~~ 499 (559)
T PRK12727 428 DYKLVLIDTAGMGQRDRALAAQLNWLRAARQVTSLLVLPANAHFS--D------LDEVVRRFAHAKPQGVVLTKLDETGR 499 (559)
T ss_pred cCCEEEecCCCcchhhHHHHHHHHHHHHhhcCCcEEEEECCCChh--H------HHHHHHHHHhhCCeEEEEecCcCccc
Confidence 5899999964 32210 12334577777654321 1 112222222 346688999876322
Q ss_pred hhhHHHHHHHHhhccCCcEEEEEEecceeEeecCCCCcccccccCCCeEEEEecCCChHHHHHHHHHhCC
Q 017904 203 QNLKDIELEMRDIKKSLSIFFTRMVPSYLFEVGNINSKIPLTAVCNANVLCVSAIGSANAFVQSLQKLGP 272 (364)
Q Consensus 203 ~~~~~i~~~l~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~a~sGIg~P~~F~~~L~~~G~ 272 (364)
.-.+...+.. .+.||.+.... +..| +++. .++|..|.+.+..++.
T Consensus 500 --lG~aLsv~~~--~~LPI~yvt~G-----------Q~VP-eDL~---------~A~~~~Lv~r~~~l~~ 544 (559)
T PRK12727 500 --FGSALSVVVD--HQMPITWVTDG-----------QRVP-DDLH---------RANAASLVLRLEDLRR 544 (559)
T ss_pred --hhHHHHHHHH--hCCCEEEEeCC-----------CCch-hhhh---------cCCHHHHHHHHHHHHh
Confidence 2222222222 24566443331 1111 2221 3788888888887764
No 95
>PRK07667 uridine kinase; Provisional
Probab=95.90 E-value=0.012 Score=53.68 Aligned_cols=38 Identities=21% Similarity=0.262 Sum_probs=33.8
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
..+|.|.+. .||||||++..|++.|.+.|.++.+++-.
T Consensus 17 ~~iIgI~G~--~gsGKStla~~L~~~l~~~~~~~~~i~~D 54 (193)
T PRK07667 17 RFILGIDGL--SRSGKTTFVANLKENMKQEGIPFHIFHID 54 (193)
T ss_pred CEEEEEECC--CCCCHHHHHHHHHHHHHhCCCcEEEEEcC
Confidence 378899987 79999999999999999999999998754
No 96
>PRK06696 uridine kinase; Validated
Probab=95.78 E-value=0.011 Score=55.03 Aligned_cols=40 Identities=13% Similarity=0.205 Sum_probs=33.4
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe-cCCC
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT-RGYA 102 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls-RGYg 102 (364)
..+|.|++. .||||||++..|++.|.+.|.++.+++ -+|-
T Consensus 22 ~~iI~I~G~--sgsGKSTlA~~L~~~l~~~g~~v~~~~~Ddf~ 62 (223)
T PRK06696 22 PLRVAIDGI--TASGKTTFADELAEEIKKRGRPVIRASIDDFH 62 (223)
T ss_pred ceEEEEECC--CCCCHHHHHHHHHHHHHHcCCeEEEecccccc
Confidence 478999997 699999999999999998888777765 4553
No 97
>PRK11670 antiporter inner membrane protein; Provisional
Probab=95.72 E-value=0.013 Score=59.12 Aligned_cols=39 Identities=31% Similarity=0.295 Sum_probs=34.9
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
.-||+|.|-- ||.|||+++..||..|.++|+||.+|==.
T Consensus 107 ~~vIaV~S~K-GGVGKTT~avNLA~aLA~~G~rVlLID~D 145 (369)
T PRK11670 107 KNIIAVSSGK-GGVGKSSTAVNLALALAAEGAKVGILDAD 145 (369)
T ss_pred CEEEEEeCCC-CCCCHHHHHHHHHHHHHHCCCcEEEEeCC
Confidence 4799999985 99999999999999999999999999443
No 98
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=95.69 E-value=0.013 Score=52.84 Aligned_cols=35 Identities=26% Similarity=0.496 Sum_probs=30.0
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
||.|++. -|||||+++..|++.|...|.++.+++-
T Consensus 1 ii~i~G~--sgsGKttla~~l~~~l~~~~~~~~~i~~ 35 (179)
T cd02028 1 VVGIAGP--SGSGKTTFAKKLSNQLRVNGIGPVVISL 35 (179)
T ss_pred CEEEECC--CCCCHHHHHHHHHHHHHHcCCCEEEEeh
Confidence 4667766 5999999999999999988999998864
No 99
>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein. Members of this protein family belong to the MinD/ParA family of P-loop NTPases, and in particular show homology to the CpaE family of pilus assembly proteins (see PubMed:12370432). Nearly all members are found, not only in a gene context consistent with pilus biogenesis or a pilus-like secretion apparatus, but also near a DEAD/DEAH-box helicase, suggesting an involvement in DNA transfer activity. The model describes a clade restricted to the Actinobacteria.
Probab=95.67 E-value=0.014 Score=57.31 Aligned_cols=37 Identities=24% Similarity=0.306 Sum_probs=33.9
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
...||+|-|-. ||+||||++..|+..|.++|++|.+|
T Consensus 92 ~~~vIav~~~K-GGvGkTT~a~nLA~~la~~g~~VlLv 128 (322)
T TIGR03815 92 RGVVVAVIGGR-GGAGASTLAAALALAAARHGLRTLLV 128 (322)
T ss_pred CceEEEEEcCC-CCCcHHHHHHHHHHHHHhcCCCEEEE
Confidence 45899998875 99999999999999999999999999
No 100
>CHL00072 chlL photochlorophyllide reductase subunit L
Probab=95.64 E-value=0.014 Score=56.89 Aligned_cols=33 Identities=24% Similarity=0.220 Sum_probs=29.1
Q ss_pred EEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 64 ISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 64 IsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
|+|.| =||+||||++..|+..|.++|+||.+|=
T Consensus 3 ia~~g--KGGVGKTTta~nLA~~La~~G~rVLlID 35 (290)
T CHL00072 3 LAVYG--KGGIGKSTTSCNISIALARRGKKVLQIG 35 (290)
T ss_pred EEEEC--CCCCcHHHHHHHHHHHHHHCCCeEEEEe
Confidence 55555 4999999999999999999999999983
No 101
>PRK13236 nitrogenase reductase; Reviewed
Probab=95.58 E-value=0.017 Score=56.32 Aligned_cols=41 Identities=20% Similarity=0.160 Sum_probs=34.7
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG 103 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~ 103 (364)
+-||.|++ =||+|||+++..|+-.|.++|+||.++==.-++
T Consensus 6 ~~~~~~~G--KGGVGKTt~a~NLA~~La~~G~rVLliD~D~q~ 46 (296)
T PRK13236 6 IRQIAFYG--KGGIGKSTTSQNTLAAMAEMGQRILIVGCDPKA 46 (296)
T ss_pred ceEEEEEC--CCcCCHHHHHHHHHHHHHHCCCcEEEEEccCCC
Confidence 46888866 599999999999999999999999999444443
No 102
>PRK13232 nifH nitrogenase reductase; Reviewed
Probab=95.47 E-value=0.017 Score=55.14 Aligned_cols=33 Identities=24% Similarity=0.304 Sum_probs=29.3
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
||.|-+ =||+|||+++..|+-.|.++|+||.++
T Consensus 3 ~iav~g--KGGVGKTT~a~nLA~~La~~G~rVllv 35 (273)
T PRK13232 3 QIAIYG--KGGIGKSTTTQNLTAALSTMGNKILLV 35 (273)
T ss_pred EEEEEC--CCCCcHHHHHHHHHHHHHhhCCCeEEE
Confidence 555554 599999999999999999999999999
No 103
>TIGR03029 EpsG chain length determinant protein tyrosine kinase EpsG. The proteins in this family are homologs of the EpsG protein found in Methylobacillus strain 12S and are generally found in operons with other Eps homologs. The protein is believed to function as the protein tyrosine kinase component of the chain length regulator (along with the transmembrane component EpsF).
Probab=95.30 E-value=0.039 Score=52.63 Aligned_cols=38 Identities=16% Similarity=0.192 Sum_probs=34.1
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
+..||.|.+-. ||.|||+++..||..|.+.|.||.+|=
T Consensus 102 ~~~vi~vts~~-~g~Gktt~a~nLA~~la~~g~~VllID 139 (274)
T TIGR03029 102 GRKALAVVSAK-SGEGCSYIAANLAIVFSQLGEKTLLID 139 (274)
T ss_pred CCeEEEEECCC-CCCCHHHHHHHHHHHHHhcCCeEEEEe
Confidence 45789888875 999999999999999999999999993
No 104
>PRK13234 nifH nitrogenase reductase; Reviewed
Probab=95.29 E-value=0.022 Score=55.48 Aligned_cols=36 Identities=22% Similarity=0.159 Sum_probs=31.6
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
-||.|+ .=||+|||+++..|+-.|.++|+||.+|--
T Consensus 5 ~~iai~--~KGGvGKTt~~~nLa~~la~~g~kVLliD~ 40 (295)
T PRK13234 5 RQIAFY--GKGGIGKSTTSQNTLAALVEMGQKILIVGC 40 (295)
T ss_pred eEEEEE--CCCCccHHHHHHHHHHHHHHCCCeEEEEec
Confidence 477776 469999999999999999999999999933
No 105
>COG2894 MinD Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]
Probab=95.22 E-value=0.074 Score=50.23 Aligned_cols=39 Identities=23% Similarity=0.252 Sum_probs=32.5
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
||+|-.= =||.||||.+..+...|.++|+||+++--..|
T Consensus 4 iIVvTSG-KGGVGKTTttAnig~aLA~~GkKv~liD~DiG 42 (272)
T COG2894 4 IIVVTSG-KGGVGKTTTTANIGTALAQLGKKVVLIDFDIG 42 (272)
T ss_pred EEEEecC-CCCcCccchhHHHHHHHHHcCCeEEEEecCcC
Confidence 4444332 39999999999999999999999999988776
No 106
>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....
Probab=95.22 E-value=0.024 Score=51.48 Aligned_cols=38 Identities=29% Similarity=0.517 Sum_probs=31.4
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCc----eEEEe-cCCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEIS----PLILT-RGYA 102 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~k----vaIls-RGYg 102 (364)
||.|++- .||||||++..|+..|.++|.. +.+++ .+|-
T Consensus 1 IIgI~G~--sgSGKTTla~~L~~~L~~~~~~~~~~~~~~~~d~~~ 43 (194)
T PF00485_consen 1 IIGIAGP--SGSGKTTLAKRLAQILNKRGIPAMEMDIILSLDDFY 43 (194)
T ss_dssp EEEEEES--TTSSHHHHHHHHHHHHTTCTTTCCCSEEEEEGGGGB
T ss_pred CEEEECC--CCCCHHHHHHHHHHHhCccCcCccceeEEEeecccc
Confidence 6888887 6999999999999999998887 56664 5553
No 107
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=95.07 E-value=0.17 Score=46.66 Aligned_cols=52 Identities=15% Similarity=0.033 Sum_probs=35.9
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE--ecCCCCCchHHHHHHHhCCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL--TRGYAGGDEVRMLERHLLER 117 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl--sRGYg~GDE~~lla~~~~~~ 117 (364)
=|++.|+ -|.|||+.+.-++-....+|.+|.|+ ..|-....|-..+ ++++++
T Consensus 24 ~v~v~~g---~GkGKtt~a~g~a~ra~g~G~~V~ivQFlKg~~~~GE~~~l-~~l~~v 77 (191)
T PRK05986 24 LLIVHTG---NGKGKSTAAFGMALRAVGHGKKVGVVQFIKGAWSTGERNLL-EFGGGV 77 (191)
T ss_pred eEEEECC---CCCChHHHHHHHHHHHHHCCCeEEEEEEecCCCccCHHHHH-hcCCCc
Confidence 3555554 49999999999999999999999998 4443222454444 344544
No 108
>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=95.05 E-value=0.077 Score=45.29 Aligned_cols=22 Identities=23% Similarity=0.413 Sum_probs=18.2
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHH
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAH 85 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~ 85 (364)
..|+++|+ .|+|||+++..+..
T Consensus 3 ~~i~i~G~---~~~GKstli~~l~~ 24 (174)
T cd01895 3 IRIAIIGR---PNVGKSSLVNALLG 24 (174)
T ss_pred cEEEEEcC---CCCCHHHHHHHHhC
Confidence 45889997 59999999998864
No 109
>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.
Probab=95.00 E-value=0.036 Score=46.70 Aligned_cols=35 Identities=31% Similarity=0.463 Sum_probs=29.5
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
++..| -||+|||+++..+++++.++|.+|.++.-.
T Consensus 2 i~~~G---kgG~GKTt~a~~la~~l~~~g~~V~~id~D 36 (116)
T cd02034 2 IAITG---KGGVGKTTIAALLARYLAEKGKPVLAIDAD 36 (116)
T ss_pred EEEEC---CCCCCHHHHHHHHHHHHHHCCCcEEEEECC
Confidence 44555 399999999999999999999999998644
No 110
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=94.91 E-value=0.15 Score=45.60 Aligned_cols=46 Identities=24% Similarity=0.200 Sum_probs=33.0
Q ss_pred CCCCchHHHHHHHHHHHhCCCceEE---EecCCCCCchHHHHHHHhCCCCE
Q 017904 72 GGNGKTPMVEFLAHCLADSEISPLI---LTRGYAGGDEVRMLERHLLERPA 119 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~g~kvaI---lsRGYg~GDE~~lla~~~~~~~v 119 (364)
-|+|||+.+.-++-....+|++|.+ +.-+.. ..|-..+ +++|++..
T Consensus 11 ~G~Gkt~~a~g~~~ra~~~g~~v~~vQFlKg~~~-~gE~~~l-~~l~~v~~ 59 (159)
T cd00561 11 NGKGKTTAALGLALRALGHGYRVGVVQFLKGGWK-YGELKAL-ERLPNIEI 59 (159)
T ss_pred CCCCHHHHHHHHHHHHHHCCCeEEEEEEeCCCCc-cCHHHHH-HhCCCcEE
Confidence 4999999999999999899999999 544322 2454444 45566543
No 111
>PRK05439 pantothenate kinase; Provisional
Probab=94.91 E-value=0.14 Score=50.65 Aligned_cols=73 Identities=19% Similarity=0.251 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHhcCCCccCCCCC-cEEEEcCcccCCCCchHHHHHHHHHHHh--CCCceEEEec-CC
Q 017904 26 SLIPLLSLASSLYGISLFLRHSFYRFGFFSKHRLPV-PVISVGNLTWGGNGKTPMVEFLAHCLAD--SEISPLILTR-GY 101 (364)
Q Consensus 26 ~L~~lL~plS~lY~~~~~~R~~~y~~gi~~~~~~~v-PVIsVGNltvGGtGKTP~v~~L~~~L~~--~g~kvaIlsR-GY 101 (364)
+-.||...++..+......+..+ ..+++...... .||.|++- -|+||||++..|+..|.+ .|.+|++|+- ||
T Consensus 52 iy~plarli~~~~~~~~~~~~~~--~~fl~~~~~~~~~iIgIaG~--~gsGKSTla~~L~~~l~~~~~~~~v~vi~~DdF 127 (311)
T PRK05439 52 IYLPLSRLLNLYVAANQRLQAAL--EQFLGKNGQKVPFIIGIAGS--VAVGKSTTARLLQALLSRWPEHPKVELVTTDGF 127 (311)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHH--HHHhcccCCCCCEEEEEECC--CCCCHHHHHHHHHHHHHhhCCCCceEEEecccc
Confidence 34555555555554433333222 11333333333 46777776 599999999999999876 3678999875 55
Q ss_pred C
Q 017904 102 A 102 (364)
Q Consensus 102 g 102 (364)
=
T Consensus 128 y 128 (311)
T PRK05439 128 L 128 (311)
T ss_pred c
Confidence 3
No 112
>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process
Probab=94.89 E-value=0.16 Score=44.68 Aligned_cols=114 Identities=15% Similarity=0.173 Sum_probs=64.8
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCCCEEEeccccchhHHHh-hhcCCCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLERPAKIGKNCINPKVGSH-LKSGKIG 140 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~~v~v~~~~~~~~~~~~-~~~~~~d 140 (364)
.|+.||.. |+|||+|+++|-..-......-+|.-.+- .-|-|=.+.+ ......++ ....++|
T Consensus 3 rimliG~~---g~GKTTL~q~L~~~~~~~~KTq~i~~~~~-~IDTPGEyiE-------------~~~~y~aLi~ta~dad 65 (143)
T PF10662_consen 3 RIMLIGPS---GSGKTTLAQALNGEEIRYKKTQAIEYYDN-TIDTPGEYIE-------------NPRFYHALIVTAQDAD 65 (143)
T ss_pred eEEEECCC---CCCHHHHHHHHcCCCCCcCccceeEeccc-EEECChhhee-------------CHHHHHHHHHHHhhCC
Confidence 47899986 99999999988764433222334432221 1233321111 01112222 2234566
Q ss_pred EEEEcCCCCCccccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcch-hhhhhHHHHHHHHhh
Q 017904 141 AVILDDGMQHWSLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLI-SEQNLKDIELEMRDI 215 (364)
Q Consensus 141 viIlDDgfQh~~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~~-~~~~~~~i~~~l~~~ 215 (364)
+|+ .|.|+++++ ..+|.|-.+ ...+-=+=||||.|+. ++++.+..++.|+..
T Consensus 66 ~V~----------------ll~dat~~~---~~~pP~fa~----~f~~pvIGVITK~Dl~~~~~~i~~a~~~L~~a 118 (143)
T PF10662_consen 66 VVL----------------LLQDATEPR---SVFPPGFAS----MFNKPVIGVITKIDLPSDDANIERAKKWLKNA 118 (143)
T ss_pred EEE----------------EEecCCCCC---ccCCchhhc----ccCCCEEEEEECccCccchhhHHHHHHHHHHc
Confidence 654 467777654 366766543 2344455688999987 667788887787754
No 113
>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B ....
Probab=94.89 E-value=0.034 Score=54.59 Aligned_cols=38 Identities=32% Similarity=0.423 Sum_probs=31.4
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
+|.+|+= ||+||||+...+|-++.++|+|+.++|=+=.
T Consensus 3 ~~~~~GK--GGVGKTT~aaA~A~~~A~~G~rtLlvS~Dpa 40 (305)
T PF02374_consen 3 ILFFGGK--GGVGKTTVAAALALALARRGKRTLLVSTDPA 40 (305)
T ss_dssp EEEEEES--TTSSHHHHHHHHHHHHHHTTS-EEEEESSTT
T ss_pred EEEEecC--CCCCcHHHHHHHHHHHhhCCCCeeEeecCCC
Confidence 4555554 9999999999999999999999999987653
No 114
>TIGR00347 bioD dethiobiotin synthase. Dethiobiotin synthase is involved in biotin biosynthesis and catalyses the reaction (CO2 + 7,8-diaminononanoate + ATP = dethiobiotin + phosphate + ADP). The enzyme binds ATP (see motif in first 12 residues of the SEED alignment) and requires magnesium as a co-factor.
Probab=94.85 E-value=0.029 Score=49.31 Aligned_cols=27 Identities=30% Similarity=0.084 Sum_probs=25.5
Q ss_pred cCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 71 WGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 71 vGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
.+|+|||+++..|++.|+++|+||+++
T Consensus 6 ~~~~GKT~va~~L~~~l~~~g~~V~~~ 32 (166)
T TIGR00347 6 DTGVGKTVASSALAAKLKKAGYSVGYY 32 (166)
T ss_pred CCCccHHHHHHHHHHHHHHCCCcEEEE
Confidence 489999999999999999999999996
No 115
>TIGR02016 BchX chlorophyllide reductase iron protein subunit X. This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.
Probab=94.84 E-value=0.035 Score=54.18 Aligned_cols=37 Identities=27% Similarity=0.304 Sum_probs=30.9
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
||+|-+ =||+|||+++..|+..|.++|+||.+|==.-
T Consensus 2 vIav~g--KGGvGKTT~a~nLA~~La~~g~rVLlID~Dp 38 (296)
T TIGR02016 2 IIAIYG--KGGSGKSFTTTNLSHMMAEMGKRVLQLGCDP 38 (296)
T ss_pred EEEEEC--CCCCCHHHHHHHHHHHHHHCCCeEEEEEecC
Confidence 555553 5999999999999999999999999985443
No 116
>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=94.83 E-value=0.039 Score=54.90 Aligned_cols=39 Identities=21% Similarity=0.251 Sum_probs=33.0
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
+..+|.|-+ -||+|||+++..|+..|.++|+||.+|.=.
T Consensus 30 ~~~ii~v~g--kgG~GKSt~a~nLa~~la~~g~rVllid~D 68 (329)
T cd02033 30 KTQIIAIYG--KGGIGKSFTLANLSYMMAQQGKRVLLIGCD 68 (329)
T ss_pred CCeEEEEEC--CCCCCHHHHHHHHHHHHHHCCCcEEEEEee
Confidence 356776664 599999999999999999999999999543
No 117
>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=94.71 E-value=0.059 Score=47.08 Aligned_cols=128 Identities=20% Similarity=0.153 Sum_probs=64.0
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCCCEEEeccccchhHHHhhhcCCCCEE
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLERPAKIGKNCINPKVGSHLKSGKIGAV 142 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~~v~v~~~~~~~~~~~~~~~~~~dvi 142 (364)
|+++|.- |+|||+++.+|.......+..+++--+.....++ +.-++........ .....+.+++
T Consensus 2 v~v~G~~---~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~--------~~~~~~~~~~ 65 (189)
T cd00881 2 VGIAGHV---DHGKTTLTERLLYVTGDIERDGTVEETFLDVLKE-----ERERGITIKSGVA--------TFEWPDRRVN 65 (189)
T ss_pred EEEEeCC---CCCHHHHHHHHHHhcCCCCcCCceecccccCCHH-----HHHcCCCeecceE--------EEeeCCEEEE
Confidence 6788864 9999999999988754444333332211111111 1111221110000 0111245677
Q ss_pred EEc-CCCCCc-------cccCceeEEEEeCCCCCCCCccccCCCCCCchhhh---ccccEEEEcCCcchhhhhhHHHHHH
Q 017904 143 ILD-DGMQHW-------SLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMAL---KRADIAVVHHADLISEQNLKDIELE 211 (364)
Q Consensus 143 IlD-DgfQh~-------~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L---~rAd~ivvtk~d~~~~~~~~~i~~~ 211 (364)
++| -|..++ .-.-|.=++|+|+..+... ..++....+ ...-++++||.|+..+++.+...+.
T Consensus 66 liDtpG~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~-------~~~~~~~~~~~~~~~i~iv~nK~D~~~~~~~~~~~~~ 138 (189)
T cd00881 66 FIDTPGHEDFSSEVIRGLSVSDGAILVVDANEGVQP-------QTREHLRIAREGGLPIIVAINKIDRVGEEDLEEVLRE 138 (189)
T ss_pred EEeCCCcHHHHHHHHHHHHhcCEEEEEEECCCCCcH-------HHHHHHHHHHHCCCCeEEEEECCCCcchhcHHHHHHH
Confidence 787 332211 1123455788998765421 122222222 3456888999998875555544444
Q ss_pred HH
Q 017904 212 MR 213 (364)
Q Consensus 212 l~ 213 (364)
+.
T Consensus 139 ~~ 140 (189)
T cd00881 139 IK 140 (189)
T ss_pred HH
Confidence 44
No 118
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=94.59 E-value=0.052 Score=48.20 Aligned_cols=34 Identities=26% Similarity=0.433 Sum_probs=27.9
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
|+..|. =|+||||++..|++.|.++|+++.++..
T Consensus 3 I~ieG~---~GsGKtT~~~~L~~~l~~~g~~v~~~~~ 36 (200)
T cd01672 3 IVFEGI---DGAGKTTLIELLAERLEARGYEVVLTRE 36 (200)
T ss_pred EEEECC---CCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence 445554 4999999999999999999999876654
No 119
>cd00550 ArsA_ATPase Oxyanion-translocating ATPase (ArsA). This ATPase is involved in transport of arsenite, antimonite or other oxyanions across biological membranes in all three kingdoms of life. ArsA contains a highly conserved AAA motif present in the AAA+ ATPase superfamily associated with a variety of cellular activities. To form a functional ATP-driven pump, ArsA interacts with the permease ArsB, which is a channel-forming integral membrane protein. One of the most interesting features of ArsA is the allosteric activation by its transport substrates. A divalent cation, typically Mg2+, is required for its enzymatic activity.
Probab=94.54 E-value=0.046 Score=52.04 Aligned_cols=38 Identities=32% Similarity=0.340 Sum_probs=32.2
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
++.++.- ||+|||+++..++..+.++|+||.+++-+-.
T Consensus 2 ~~~~~gk--gG~GKtt~a~~la~~~a~~g~~vLlvd~D~~ 39 (254)
T cd00550 2 YIFFGGK--GGVGKTTISAATAVRLAEQGKKVLLVSTDPA 39 (254)
T ss_pred EEEEECC--CCchHHHHHHHHHHHHHHCCCCceEEeCCCc
Confidence 4555554 9999999999999999999999999987653
No 120
>PRK06921 hypothetical protein; Provisional
Probab=94.46 E-value=0.11 Score=49.93 Aligned_cols=35 Identities=23% Similarity=0.334 Sum_probs=31.2
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhC-CCceEEEe
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADS-EISPLILT 98 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~-g~kvaIls 98 (364)
-+++..|+- |||||.++..++..+.++ |++|..++
T Consensus 118 ~~l~l~G~~---G~GKThLa~aia~~l~~~~g~~v~y~~ 153 (266)
T PRK06921 118 NSIALLGQP---GSGKTHLLTAAANELMRKKGVPVLYFP 153 (266)
T ss_pred CeEEEECCC---CCcHHHHHHHHHHHHhhhcCceEEEEE
Confidence 479999986 999999999999999887 88888776
No 121
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=94.45 E-value=0.25 Score=47.80 Aligned_cols=38 Identities=24% Similarity=0.274 Sum_probs=31.3
Q ss_pred CCcEE-EEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 60 PVPVI-SVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 60 ~vPVI-sVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
+.++| .+|. .|+|||++...++..+..+|.++++++.+
T Consensus 74 ~~~~i~~~G~---~g~GKTtl~~~l~~~l~~~~~~v~~i~~D 112 (270)
T PRK06731 74 EVQTIALIGP---TGVGKTTTLAKMAWQFHGKKKTVGFITTD 112 (270)
T ss_pred CCCEEEEECC---CCCcHHHHHHHHHHHHHHcCCeEEEEecC
Confidence 33555 5554 79999999999999998889999999884
No 122
>TIGR03172 probable selenium-dependent hydroxylase accessory protein YqeC. This uncharacterized protein family includes YqeC from Escherichia coli. A phylogenetic profiling analysis shows correlation with SelD, the selenium donor protein, even in species where SelD contributes to neither selenocysteine nor selenouridine biosynthesis. Instead, this family, and families TIGR03309 and TIGR03310 appear to mark selenium-dependent molybdenum hydroxylase maturation systems.
Probab=94.44 E-value=0.034 Score=52.71 Aligned_cols=28 Identities=29% Similarity=0.309 Sum_probs=25.7
Q ss_pred cCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 71 WGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 71 vGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
+|++|||+++.+|++.|.++|++|.+-+
T Consensus 5 vG~gGKTtl~~~l~~~~~~~g~~v~~TT 32 (232)
T TIGR03172 5 VGAGGKTSTMFWLAAEYRKEGYRVLVTT 32 (232)
T ss_pred EcCCcHHHHHHHHHHHHHHCCCeEEEEC
Confidence 4789999999999999999999999875
No 123
>PRK07933 thymidylate kinase; Validated
Probab=94.43 E-value=0.057 Score=50.13 Aligned_cols=39 Identities=26% Similarity=0.354 Sum_probs=30.9
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec-CCCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR-GYAG 103 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR-GYg~ 103 (364)
.|++-++ -||||||++..|+++|.++|++|.+... +||+
T Consensus 2 ~IviEG~--dGsGKST~~~~L~~~L~~~g~~v~~~~~P~~~~ 41 (213)
T PRK07933 2 LIAIEGV--DGAGKRTLTEALRAALEARGRSVATLAFPRYGR 41 (213)
T ss_pred EEEEEcC--CCCCHHHHHHHHHHHHHHCCCeEEEEecCCCCC
Confidence 3555555 5999999999999999999999887754 4443
No 124
>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]
Probab=94.35 E-value=0.05 Score=52.88 Aligned_cols=35 Identities=31% Similarity=0.611 Sum_probs=28.5
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
|+-+|+|| +-|+|||+|++.|..++++++.+|-||
T Consensus 19 p~~ilVvG---MAGSGKTTF~QrL~~hl~~~~~ppYvi 53 (366)
T KOG1532|consen 19 PVIILVVG---MAGSGKTTFMQRLNSHLHAKKTPPYVI 53 (366)
T ss_pred CcEEEEEe---cCCCCchhHHHHHHHHHhhccCCCeEE
Confidence 55677888 689999999999999999987544444
No 125
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=94.29 E-value=0.067 Score=47.69 Aligned_cols=34 Identities=32% Similarity=0.380 Sum_probs=29.7
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
-||-+-++ -||||||+...|.+.|.++|+++.+|
T Consensus 3 ~vIwltGl--sGsGKtTlA~~L~~~L~~~g~~~~~L 36 (156)
T PF01583_consen 3 FVIWLTGL--SGSGKTTLARALERRLFARGIKVYLL 36 (156)
T ss_dssp EEEEEESS--TTSSHHHHHHHHHHHHHHTTS-EEEE
T ss_pred EEEEEECC--CCCCHHHHHHHHHHHHHHcCCcEEEe
Confidence 36777888 59999999999999999999999988
No 126
>PRK15453 phosphoribulokinase; Provisional
Probab=94.11 E-value=0.069 Score=52.13 Aligned_cols=38 Identities=18% Similarity=0.362 Sum_probs=33.0
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
.|+|.|.+-| |||||++...+++.|...|.++++++-+
T Consensus 5 ~piI~ItG~S--GsGKTTva~~l~~if~~~~~~~~vi~~D 42 (290)
T PRK15453 5 HPIIAVTGSS--GAGTTTVKRAFEKIFRRENINAAVVEGD 42 (290)
T ss_pred CcEEEEECCC--CCCHHHHHHHHHHHHhhcCCCeEEEecc
Confidence 3899999885 9999999999999998888888888653
No 127
>TIGR00041 DTMP_kinase thymidylate kinase. Function: phosphorylation of DTMP to form DTDP in both de novo and salvage pathways of DTTP synthesis. Catalytic activity: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate.
Probab=94.06 E-value=0.073 Score=47.75 Aligned_cols=34 Identities=24% Similarity=0.296 Sum_probs=28.7
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
-|++.|+- ||||||++..|++.|...|+++.++.
T Consensus 5 ~IvieG~~---GsGKsT~~~~L~~~l~~~g~~v~~~~ 38 (195)
T TIGR00041 5 FIVIEGID---GAGKTTQANLLKKLLQENGYDVLFTR 38 (195)
T ss_pred EEEEECCC---CCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 36677765 99999999999999999999986653
No 128
>PRK13886 conjugal transfer protein TraL; Provisional
Probab=94.00 E-value=0.078 Score=50.53 Aligned_cols=39 Identities=23% Similarity=0.206 Sum_probs=33.1
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
++++|++- =||+|||+++..|+.++.++|.+|.++--..
T Consensus 3 ~i~~i~~~-KGGvGKSt~a~~la~~l~~~g~~vl~iD~D~ 41 (241)
T PRK13886 3 KIHMVLQG-KGGVGKSFIAATIAQYKASKGQKPLCIDTDP 41 (241)
T ss_pred eEEEEecC-CCCCcHHHHHHHHHHHHHhCCCCEEEEECCC
Confidence 46777765 4999999999999999999999999985553
No 129
>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=93.98 E-value=0.17 Score=46.26 Aligned_cols=130 Identities=18% Similarity=0.265 Sum_probs=64.9
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCCCEEEeccccchhHHHhhhcCCCCE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLERPAKIGKNCINPKVGSHLKSGKIGA 141 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~~v~v~~~~~~~~~~~~~~~~~~dv 141 (364)
-|.+||.. ++|||+++..|.....+.|..- +.+|..-|.- -.++-+|.....+.. .....+..+
T Consensus 4 ni~iiGh~---~~GKTTL~~~Ll~~~~~~g~~~---~~~~~~~d~~--~~E~~rg~Ti~~~~~--------~~~~~~~~i 67 (195)
T cd01884 4 NVGTIGHV---DHGKTTLTAAITKVLAKKGGAK---FKKYDEIDKA--PEEKARGITINTAHV--------EYETANRHY 67 (195)
T ss_pred EEEEECCC---CCCHHHHHHHHHHHHHhccccc---ccccccccCC--hhhhhcCccEEeeee--------EecCCCeEE
Confidence 36678876 9999999999988765544211 1222111111 112223433211110 111224467
Q ss_pred EEEc-CCCCCc-------cccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccc---c-EEEEcCCcchhhhh-hHHH
Q 017904 142 VILD-DGMQHW-------SLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRA---D-IAVVHHADLISEQN-LKDI 208 (364)
Q Consensus 142 iIlD-DgfQh~-------~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rA---d-~ivvtk~d~~~~~~-~~~i 208 (364)
.++| -|...+ .-.-|.=++|+|+..+.. ...+|-+..+... . ++++||.|+..+++ .+.+
T Consensus 68 ~~iDtPG~~~~~~~~~~~~~~~D~~ilVvda~~g~~-------~~~~~~~~~~~~~~~~~iIvviNK~D~~~~~~~~~~~ 140 (195)
T cd01884 68 AHVDCPGHADYIKNMITGAAQMDGAILVVSATDGPM-------PQTREHLLLARQVGVPYIVVFLNKADMVDDEELLELV 140 (195)
T ss_pred EEEECcCHHHHHHHHHHHhhhCCEEEEEEECCCCCc-------HHHHHHHHHHHHcCCCcEEEEEeCCCCCCcHHHHHHH
Confidence 7888 343111 112455589999987532 2344444433332 2 36789999864333 2334
Q ss_pred HHHHHh
Q 017904 209 ELEMRD 214 (364)
Q Consensus 209 ~~~l~~ 214 (364)
++.+..
T Consensus 141 ~~~i~~ 146 (195)
T cd01884 141 EMEVRE 146 (195)
T ss_pred HHHHHH
Confidence 444443
No 130
>PTZ00301 uridine kinase; Provisional
Probab=93.98 E-value=0.077 Score=49.37 Aligned_cols=41 Identities=22% Similarity=0.302 Sum_probs=30.5
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhC-CC-ceEEEec-CCC
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADS-EI-SPLILTR-GYA 102 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~-g~-kvaIlsR-GYg 102 (364)
++++|.|++- -||||||++..|++.|.+. |- .+++++= +|-
T Consensus 2 ~~~iIgIaG~--SgSGKTTla~~l~~~l~~~~~~~~~~vi~~D~yy 45 (210)
T PTZ00301 2 PCTVIGISGA--SGSGKSSLSTNIVSELMAHCGPVSIGVICEDFYY 45 (210)
T ss_pred CCEEEEEECC--CcCCHHHHHHHHHHHHHhhcCCCeEEEeCCCCCc
Confidence 5789999988 4999999999999988653 32 3445544 554
No 131
>PRK15494 era GTPase Era; Provisional
Probab=93.92 E-value=0.36 Score=47.97 Aligned_cols=32 Identities=19% Similarity=0.247 Sum_probs=24.8
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
.|++||+ .|+|||+++..|+ |.+++++|.-++
T Consensus 54 kV~ivG~---~nvGKSTLin~l~------~~k~~ivs~k~~ 85 (339)
T PRK15494 54 SVCIIGR---PNSGKSTLLNRII------GEKLSIVTPKVQ 85 (339)
T ss_pred EEEEEcC---CCCCHHHHHHHHh------CCceeeccCCCC
Confidence 6889996 6999999988774 446677777654
No 132
>PRK14490 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional
Probab=93.88 E-value=0.084 Score=53.04 Aligned_cols=36 Identities=25% Similarity=0.329 Sum_probs=31.8
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
.||+|-+. -||||||++..|++.|+++ ++|+++..+
T Consensus 6 ~~i~i~G~--~gsGKTTl~~~l~~~l~~~-~~V~~ik~~ 41 (369)
T PRK14490 6 FEIAFCGY--SGSGKTTLITALVRRLSER-FSVGYYKHG 41 (369)
T ss_pred EEEEEEeC--CCCCHHHHHHHHHHHHhhC-ceEEEEEeC
Confidence 57777777 4999999999999999999 999999863
No 133
>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.
Probab=93.87 E-value=0.07 Score=51.75 Aligned_cols=35 Identities=29% Similarity=0.453 Sum_probs=29.8
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
||.|.+- -|||||+++..+.+.|.+.|.++++|+-
T Consensus 1 IIgItG~--SGSGKTTv~~~l~~~l~~~g~~v~vI~~ 35 (277)
T cd02029 1 VIAVTGS--SGAGTTTVKRAFEHIFAREGIHPAVVEG 35 (277)
T ss_pred CEEEECC--CCCCHHHHHHHHHHHHHhcCCceEEEec
Confidence 4666665 4999999999999999999999999975
No 134
>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.
Probab=93.76 E-value=0.085 Score=49.72 Aligned_cols=33 Identities=33% Similarity=0.490 Sum_probs=28.1
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
|+.+| ..|||||+++..|+++|...|+++.+++
T Consensus 2 Ivl~G---~pGSGKST~a~~La~~l~~~~~~v~~i~ 34 (249)
T TIGR03574 2 IILTG---LPGVGKSTFSKELAKKLSEKNIDVIILG 34 (249)
T ss_pred EEEEc---CCCCCHHHHHHHHHHHHHHcCCceEEEc
Confidence 45555 3799999999999999998899988884
No 135
>cd02035 ArsA ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces resistance to the toxic agents. The pump is composed of two subunits, the catalytic ArsA subunit and the membrane subunit ArsB, which are encoded by arsA and arsB genes respectively. Arsenic efflux in bacteria is catalyzed by either ArsB alone or by ArsAB complex. The ATP-coupled pump, however, is more efficient. ArsA is composed of two homologous halves, A1 and A2, connected by a short linker sequence.
Probab=93.68 E-value=0.08 Score=49.01 Aligned_cols=37 Identities=30% Similarity=0.287 Sum_probs=30.7
Q ss_pred EEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 64 ISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 64 IsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
++++. .||+|||+++..++..+.++|+|+.+++-+-.
T Consensus 2 ~~~~g--~~g~Gkt~~~~~la~~~a~~g~~~~l~~~d~~ 38 (217)
T cd02035 2 IFFTG--KGGVGKTTIAAATAVRLAEEGKKVLLVSTDPA 38 (217)
T ss_pred EEEeC--CCCchHHHHHHHHHHHHHHCCCcEEEEECCCC
Confidence 34444 49999999999999999999999999976443
No 136
>PRK07952 DNA replication protein DnaC; Validated
Probab=93.67 E-value=0.095 Score=49.95 Aligned_cols=34 Identities=29% Similarity=0.338 Sum_probs=31.0
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
+++..|+ .|||||.++..++.+|.++|.+|.+++
T Consensus 101 ~~~l~G~---~GtGKThLa~aia~~l~~~g~~v~~it 134 (244)
T PRK07952 101 SFIFSGK---PGTGKNHLAAAICNELLLRGKSVLIIT 134 (244)
T ss_pred eEEEECC---CCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 7888886 699999999999999999999998885
No 137
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=93.64 E-value=0.28 Score=49.97 Aligned_cols=83 Identities=20% Similarity=0.259 Sum_probs=54.2
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHH--hCCCceEEEec-CCCC-CchH-HHHHHHhCCCCEEEeccccchh-H-HHhh
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLA--DSEISPLILTR-GYAG-GDEV-RMLERHLLERPAKIGKNCINPK-V-GSHL 134 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~--~~g~kvaIlsR-GYg~-GDE~-~lla~~~~~~~v~v~~~~~~~~-~-~~~~ 134 (364)
-|.-||= -|.||||++..||..+. .+..||||||= -|+- .=|- .-+|+.+ ++|+.|+-+ +. . .+..
T Consensus 205 vi~LVGP---TGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im-~vp~~vv~~---~~el~~ai~ 277 (407)
T COG1419 205 VIALVGP---TGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIM-GVPLEVVYS---PKELAEAIE 277 (407)
T ss_pred EEEEECC---CCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHh-CCceEEecC---HHHHHHHHH
Confidence 4667884 69999999999999876 66799999976 4542 3444 3345555 788876542 32 1 2222
Q ss_pred hcCCCCEEEEc-CCCCCc
Q 017904 135 KSGKIGAVILD-DGMQHW 151 (364)
Q Consensus 135 ~~~~~dviIlD-DgfQh~ 151 (364)
.-.++|+|+.| -|.-|+
T Consensus 278 ~l~~~d~ILVDTaGrs~~ 295 (407)
T COG1419 278 ALRDCDVILVDTAGRSQY 295 (407)
T ss_pred HhhcCCEEEEeCCCCCcc
Confidence 22357999999 444333
No 138
>PF02223 Thymidylate_kin: Thymidylate kinase; InterPro: IPR018094 Thymidylate kinase (2.7.4.9 from EC; dTMP kinase) catalyzes the phosphorylation of thymidine 5'-monophosphate (dTMP) to form thymidine 5'-diphosphate (dTDP) in the presence of ATP and magnesium: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate Thymidylate kinase is an ubiquitous enzyme of about 25 Kd and is important in the dTTP synthesis pathway for DNA synthesis. The function of dTMP kinase in eukaryotes comes from the study of a cell cycle mutant, cdc8, in Saccharomyces cerevisiae. Structural and functional analyses suggest that the cDNA codes for authentic human dTMP kinase. The mRNA levels and enzyme activities corresponded to cell cycle progression and cell growth stages[]. ; GO: 0004798 thymidylate kinase activity, 0005524 ATP binding, 0006233 dTDP biosynthetic process; PDB: 2PLR_B 1NMX_A 1NN0_A 2XX3_A 1NN3_A 1E9F_A 1E2Q_A 1E2D_A 1E9A_A 1E99_A ....
Probab=93.59 E-value=0.1 Score=46.67 Aligned_cols=31 Identities=29% Similarity=0.441 Sum_probs=27.7
Q ss_pred CCCCchHHHHHHHHHHHhCCCceEEEecCCCC
Q 017904 72 GGNGKTPMVEFLAHCLADSEISPLILTRGYAG 103 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~ 103 (364)
-||||||.+..|.++|.++|++ .++++..++
T Consensus 5 DGsGKtT~~~~L~~~l~~~~~~-~~~~~~~~~ 35 (186)
T PF02223_consen 5 DGSGKTTQIRLLAEALKEKGYK-VIITFPPGS 35 (186)
T ss_dssp TTSSHHHHHHHHHHHHHHTTEE-EEEEESSTS
T ss_pred CCCCHHHHHHHHHHHHHHcCCc-ccccCCCCC
Confidence 5999999999999999999999 777887764
No 139
>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.
Probab=93.49 E-value=0.14 Score=38.82 Aligned_cols=31 Identities=29% Similarity=0.389 Sum_probs=24.8
Q ss_pred EEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 64 ISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 64 IsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
...|+- |||||++...|++.| .|.++.+++-
T Consensus 3 ~i~G~~---gsGKst~~~~l~~~l--~~~~~~~i~~ 33 (69)
T cd02019 3 AITGGS---GSGKSTVAKKLAEQL--GGRSVVVLDE 33 (69)
T ss_pred EEECCC---CCCHHHHHHHHHHHh--cCCCEEEEeE
Confidence 345654 999999999999999 5778888754
No 140
>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=93.42 E-value=0.17 Score=41.76 Aligned_cols=49 Identities=20% Similarity=0.278 Sum_probs=27.4
Q ss_pred ceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcchhhhhhHHH
Q 017904 156 DLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLISEQNLKDI 208 (364)
Q Consensus 156 dl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~~~~~~~~~i 208 (364)
|.-++++|+..+....... +-.-.......-++|+||.|...+.+....
T Consensus 77 d~il~v~~~~~~~~~~~~~----~~~~~~~~~~~~ivv~nK~D~~~~~~~~~~ 125 (163)
T cd00880 77 DLILFVVDADLRADEEEEK----LLELLRERGKPVLLVLNKIDLLPEEEEEEL 125 (163)
T ss_pred CEEEEEEeCCCCCCHHHHH----HHHHHHhcCCeEEEEEEccccCChhhHHHH
Confidence 3336778887754332211 111122345557899999998776554443
No 141
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=93.40 E-value=0.096 Score=47.21 Aligned_cols=34 Identities=24% Similarity=0.296 Sum_probs=28.7
Q ss_pred CCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceE
Q 017904 59 LPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPL 95 (364)
Q Consensus 59 ~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kva 95 (364)
....+.+=|. -|+||||++..++..|+++|++|+
T Consensus 4 ~~mki~ITG~---PGvGKtTl~~ki~e~L~~~g~kvg 37 (179)
T COG1618 4 MAMKIFITGR---PGVGKTTLVLKIAEKLREKGYKVG 37 (179)
T ss_pred cceEEEEeCC---CCccHHHHHHHHHHHHHhcCceee
Confidence 3456667776 499999999999999999999886
No 142
>PRK08116 hypothetical protein; Validated
Probab=93.36 E-value=0.15 Score=49.07 Aligned_cols=36 Identities=22% Similarity=0.417 Sum_probs=31.8
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
+.+++..|+- |||||.++..+++.|.++|.++..++
T Consensus 114 ~~gl~l~G~~---GtGKThLa~aia~~l~~~~~~v~~~~ 149 (268)
T PRK08116 114 NVGLLLWGSV---GTGKTYLAACIANELIEKGVPVIFVN 149 (268)
T ss_pred CceEEEECCC---CCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence 4689999985 99999999999999998888887775
No 143
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=93.36 E-value=0.48 Score=42.97 Aligned_cols=32 Identities=19% Similarity=0.100 Sum_probs=27.0
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
|.+.++ -|.|||+.+.-++-....+|++|.|+
T Consensus 8 i~v~~g---~GkGKtt~a~g~a~ra~~~g~~v~iv 39 (173)
T TIGR00708 8 IIVHTG---NGKGKTTAAFGMALRALGHGKKVGVI 39 (173)
T ss_pred EEEECC---CCCChHHHHHHHHHHHHHCCCeEEEE
Confidence 444444 49999999999999999999999887
No 144
>PF13245 AAA_19: Part of AAA domain
Probab=93.34 E-value=0.082 Score=41.23 Aligned_cols=29 Identities=24% Similarity=0.213 Sum_probs=23.0
Q ss_pred CCCCchHHHHHHHHHHHhC----CCceEEEecC
Q 017904 72 GGNGKTPMVEFLAHCLADS----EISPLILTRG 100 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~----g~kvaIlsRG 100 (364)
-|||||.++..++.++.+. |.++.+++--
T Consensus 19 pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t 51 (76)
T PF13245_consen 19 PGTGKTTTLAARIAELLAARADPGKRVLVLAPT 51 (76)
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCC
Confidence 7999998888888877755 7788888654
No 145
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=93.09 E-value=1.6 Score=37.99 Aligned_cols=124 Identities=19% Similarity=0.116 Sum_probs=68.7
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCCCEEEeccccchhHHHh-hhcCCCCE
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLERPAKIGKNCINPKVGSH-LKSGKIGA 141 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~~v~v~~~~~~~~~~~~-~~~~~~dv 141 (364)
+..||-. |.||||+++.|-..-.--...-||=-+.-|.-|-|=++-+. ++-..++ .-..+.|+
T Consensus 4 i~~vG~~---gcGKTtL~q~L~G~~~lykKTQAve~~d~~~IDTPGEy~~~-------------~~~Y~aL~tt~~dadv 67 (148)
T COG4917 4 IAFVGQV---GCGKTTLFQSLYGNDTLYKKTQAVEFNDKGDIDTPGEYFEH-------------PRWYHALITTLQDADV 67 (148)
T ss_pred eEEeccc---ccCchhHHHHhhcchhhhcccceeeccCccccCCchhhhhh-------------hHHHHHHHHHhhccce
Confidence 4567765 99999999988543221112223333333334555333221 0001222 22345566
Q ss_pred EEEcCCCCCccccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcchhhhhhHHHHHHHHhhccCCcE
Q 017904 142 VILDDGMQHWSLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLISEQNLKDIELEMRDIKKSLSI 221 (364)
Q Consensus 142 iIlDDgfQh~~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~~~~~~~~~i~~~l~~~~~~~~i 221 (364)
|++= -.+.+|+ ..+|.|-+-- ..+--+=||||+|+..+++++..+..|.+.. ..+|
T Consensus 68 i~~v----------------~~and~~---s~f~p~f~~~----~~k~vIgvVTK~DLaed~dI~~~~~~L~eaG-a~~I 123 (148)
T COG4917 68 IIYV----------------HAANDPE---SRFPPGFLDI----GVKKVIGVVTKADLAEDADISLVKRWLREAG-AEPI 123 (148)
T ss_pred eeee----------------ecccCcc---ccCCcccccc----cccceEEEEecccccchHhHHHHHHHHHHcC-Ccce
Confidence 6542 2333332 3556665422 1222677899999998999999998888753 5677
Q ss_pred EEEEE
Q 017904 222 FFTRM 226 (364)
Q Consensus 222 ~~~~~ 226 (364)
|.+..
T Consensus 124 F~~s~ 128 (148)
T COG4917 124 FETSA 128 (148)
T ss_pred EEEec
Confidence 76543
No 146
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=93.03 E-value=0.083 Score=43.46 Aligned_cols=28 Identities=29% Similarity=0.417 Sum_probs=21.0
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceE
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPL 95 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kva 95 (364)
||.|.+. -||||||++..|++.+ |+.+.
T Consensus 1 vI~I~G~--~gsGKST~a~~La~~~---~~~~i 28 (121)
T PF13207_consen 1 VIIISGP--PGSGKSTLAKELAERL---GFPVI 28 (121)
T ss_dssp EEEEEES--TTSSHHHHHHHHHHHH---TCEEE
T ss_pred CEEEECC--CCCCHHHHHHHHHHHH---CCeEE
Confidence 4555554 5999999999999988 55543
No 147
>PRK00698 tmk thymidylate kinase; Validated
Probab=92.99 E-value=0.14 Score=45.97 Aligned_cols=35 Identities=26% Similarity=0.339 Sum_probs=26.3
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
|++.|+. ||||||++..|++.|..+|+.+ +.++.-
T Consensus 6 I~ieG~~---gsGKsT~~~~L~~~l~~~~~~~-~~~~~p 40 (205)
T PRK00698 6 ITIEGID---GAGKSTQIELLKELLEQQGRDV-VFTREP 40 (205)
T ss_pred EEEECCC---CCCHHHHHHHHHHHHHHcCCce-eEeeCC
Confidence 4455654 9999999999999999888554 445543
No 148
>TIGR01005 eps_transp_fam exopolysaccharide transport protein family. The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.
Probab=92.96 E-value=0.15 Score=55.84 Aligned_cols=61 Identities=10% Similarity=-0.050 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHHhHhcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 33 LASSLYGISLFLRHSFYRFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 33 plS~lY~~~~~~R~~~y~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
|-|.....+-.+|..+... .+. -+..||+|.|-. ||.|||+++..||..|.+.|.||.+|=
T Consensus 522 p~s~~~Ea~r~lr~~l~~~---~~~-~~~kvi~vts~~-~G~GKTt~a~nLA~~lA~~g~rvLlID 582 (754)
T TIGR01005 522 PRPVAEEELRVKEEAVAEA---KSV-AEPEVVETQRPR-PVLGKSDIEANAAALIASGGKRALLID 582 (754)
T ss_pred CCCcchHHHHHHHHHHhhh---ccC-CCceEEEeecCC-CCCChhHHHHHHHHHHHhCCCeEEEEe
Confidence 4455566666666544221 222 234689999874 999999999999999999999999993
No 149
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.96 E-value=0.15 Score=52.90 Aligned_cols=34 Identities=35% Similarity=0.408 Sum_probs=29.0
Q ss_pred EEE-EcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 63 VIS-VGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 63 VIs-VGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
||| || |-|.||+|-+..++=||.+++++|-|..-
T Consensus 380 Vi~fvG---VNGVGKSTNLAKIayWLlqNkfrVLIAAC 414 (587)
T KOG0781|consen 380 VISFVG---VNGVGKSTNLAKIAYWLLQNKFRVLIAAC 414 (587)
T ss_pred EEEEEe---ecCccccchHHHHHHHHHhCCceEEEEec
Confidence 554 55 57999999999999999999999999843
No 150
>COG1159 Era GTPase [General function prediction only]
Probab=92.89 E-value=0.29 Score=47.94 Aligned_cols=114 Identities=19% Similarity=0.255 Sum_probs=68.0
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCCCEEEeccccchhHHHhhhcCCCCE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLERPAKIGKNCINPKVGSHLKSGKIGA 141 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~~v~v~~~~~~~~~~~~~~~~~~dv 141 (364)
.|-+||= --+||+||+..|+ |.|++|+|+==.. .+.. + -| ..-..+..+
T Consensus 8 fVaIiGr---PNvGKSTLlN~l~------G~KisIvS~k~QT--------TR~~---I-~G----------I~t~~~~Qi 56 (298)
T COG1159 8 FVAIIGR---PNVGKSTLLNALV------GQKISIVSPKPQT--------TRNR---I-RG----------IVTTDNAQI 56 (298)
T ss_pred EEEEEcC---CCCcHHHHHHHHh------cCceEeecCCcch--------hhhh---e-eE----------EEEcCCceE
Confidence 5677774 4789999998774 7899999975321 0110 1 00 011224567
Q ss_pred EEEc-CCCCCcc--c-----------cCcee--EEEEeCCCCCCCCccccCCCCCCchhhhcc---ccEEEEcCCcchhh
Q 017904 142 VILD-DGMQHWS--L-----------RRDLE--IVMVNGLMPWGNRKLLPLGPLREPLMALKR---ADIAVVHHADLISE 202 (364)
Q Consensus 142 iIlD-DgfQh~~--L-----------~rdl~--Ivl~Da~~~~gn~~~lPaG~LREp~~~L~r---Ad~ivvtk~d~~~~ 202 (364)
|++| -|+..++ | -.|.| +.|+|+.++|+.+.- .-...|++ -.++++||.|...+
T Consensus 57 IfvDTPGih~pk~~l~~~m~~~a~~sl~dvDlilfvvd~~~~~~~~d~-------~il~~lk~~~~pvil~iNKID~~~~ 129 (298)
T COG1159 57 IFVDTPGIHKPKHALGELMNKAARSALKDVDLILFVVDADEGWGPGDE-------FILEQLKKTKTPVILVVNKIDKVKP 129 (298)
T ss_pred EEEeCCCCCCcchHHHHHHHHHHHHHhccCcEEEEEEeccccCCccHH-------HHHHHHhhcCCCeEEEEEccccCCc
Confidence 7777 5665541 1 12444 567899998875321 12334444 57899999998877
Q ss_pred hh-hHHHHHHHH
Q 017904 203 QN-LKDIELEMR 213 (364)
Q Consensus 203 ~~-~~~i~~~l~ 213 (364)
+. +..+.+.+.
T Consensus 130 ~~~l~~~~~~~~ 141 (298)
T COG1159 130 KTVLLKLIAFLK 141 (298)
T ss_pred HHHHHHHHHHHH
Confidence 76 344444444
No 151
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=92.89 E-value=0.48 Score=49.56 Aligned_cols=188 Identities=14% Similarity=0.124 Sum_probs=97.1
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHH-hCC-CceEEEecCCCC--CchHHHH-HHHhCCCCEEEeccccchhHHHhhhcC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLA-DSE-ISPLILTRGYAG--GDEVRML-ERHLLERPAKIGKNCINPKVGSHLKSG 137 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~-~~g-~kvaIlsRGYg~--GDE~~ll-a~~~~~~~v~v~~~~~~~~~~~~~~~~ 137 (364)
+..|| .-|+||||++..|+.++. ++| .+|++++-+--+ +-|-+.. ++.+ |+++.+..+..+. ...+..-.
T Consensus 259 i~LvG---pnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~Aeil-GVpv~~~~~~~Dl-~~aL~~L~ 333 (484)
T PRK06995 259 FALMG---PTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKIL-GVPVHAVKDAADL-RLALSELR 333 (484)
T ss_pred EEEEC---CCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHh-CCCeeccCCchhH-HHHHHhcc
Confidence 44666 369999999999999874 556 589999754322 3455444 4443 6666443321111 12222233
Q ss_pred CCCEEEEc-CCCCCcc--------ccCce-----eEEEEeCCCCCCCCccccCCCCCCchhhh--ccccEEEEcCCcchh
Q 017904 138 KIGAVILD-DGMQHWS--------LRRDL-----EIVMVNGLMPWGNRKLLPLGPLREPLMAL--KRADIAVVHHADLIS 201 (364)
Q Consensus 138 ~~dviIlD-DgfQh~~--------L~rdl-----~Ivl~Da~~~~gn~~~lPaG~LREp~~~L--~rAd~ivvtk~d~~~ 201 (364)
+.|++++| =|..|+. +-.+. .++++|++... + -+++-.... ..-+-+|+||.|...
T Consensus 334 d~d~VLIDTaGr~~~d~~~~e~~~~l~~~~~p~e~~LVLdAt~~~-~-------~l~~i~~~f~~~~~~g~IlTKlDet~ 405 (484)
T PRK06995 334 NKHIVLIDTIGMSQRDRMVSEQIAMLHGAGAPVKRLLLLNATSHG-D-------TLNEVVQAYRGPGLAGCILTKLDEAA 405 (484)
T ss_pred CCCeEEeCCCCcChhhHHHHHHHHHHhccCCCCeeEEEEeCCCcH-H-------HHHHHHHHhccCCCCEEEEeCCCCcc
Confidence 56899999 3443321 11122 46777775421 0 122222211 123568899977542
Q ss_pred hhhhHHHHHHHHhhccCCcEEEEEEecceeEeecCCCCcccccccCCCeEEEEecCCChHHHHHHHHHhCCcccccccCC
Q 017904 202 EQNLKDIELEMRDIKKSLSIFFTRMVPSYLFEVGNINSKIPLTAVCNANVLCVSAIGSANAFVQSLQKLGPCSVNRLDFN 281 (364)
Q Consensus 202 ~~~~~~i~~~l~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~a~sGIg~P~~F~~~L~~~G~~~~~~~~f~ 281 (364)
..-.+-..+.. .+.|+.+.... +..| +++. .++|+.|.+.+-+.+- ..
T Consensus 406 --~~G~~l~i~~~--~~lPI~yvt~G-----------Q~VP-eDL~---------~a~~~~lv~~ll~~~~---~~---- 453 (484)
T PRK06995 406 --SLGGALDVVIR--YKLPLHYVSNG-----------QRVP-EDLH---------LANKKFLLHRAFCAPR---DA---- 453 (484)
T ss_pred --cchHHHHHHHH--HCCCeEEEecC-----------CCCh-hhhc---------cCCHHHHHHHHhcCcc---cc----
Confidence 22222222222 25676554432 1111 2332 3788989887654321 11
Q ss_pred CCCCCCHHHHHHHH
Q 017904 282 DHHSFQARDIEMIK 295 (364)
Q Consensus 282 DHh~yt~~dl~~l~ 295 (364)
.-+.+..+|+..+.
T Consensus 454 ~~~~~~~~~~~~~~ 467 (484)
T PRK06995 454 SPFVPQDDELPLLL 467 (484)
T ss_pred CCCCCChhHHHHHh
Confidence 22566667776554
No 152
>PRK00889 adenylylsulfate kinase; Provisional
Probab=92.87 E-value=0.19 Score=44.53 Aligned_cols=34 Identities=26% Similarity=0.333 Sum_probs=29.3
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
.+|++.++ .|||||++...|++.|...|.++.++
T Consensus 5 ~~i~~~G~--~GsGKST~a~~la~~l~~~g~~v~~i 38 (175)
T PRK00889 5 VTVWFTGL--SGAGKTTIARALAEKLREAGYPVEVL 38 (175)
T ss_pred eEEEEECC--CCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 47777776 69999999999999999888888777
No 153
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=92.79 E-value=0.086 Score=43.30 Aligned_cols=22 Identities=36% Similarity=0.575 Sum_probs=19.0
Q ss_pred EEEcCcccCCCCchHHHHHHHHHH
Q 017904 64 ISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 64 IsVGNltvGGtGKTP~v~~L~~~L 87 (364)
|+|++. -||||||++.+|++.+
T Consensus 1 I~i~G~--~GsGKtTia~~L~~~~ 22 (129)
T PF13238_consen 1 IGISGI--PGSGKTTIAKELAERL 22 (129)
T ss_dssp EEEEES--TTSSHHHHHHHHHHHH
T ss_pred CEEECC--CCCCHHHHHHHHHHHH
Confidence 566776 4999999999999998
No 154
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=92.77 E-value=0.23 Score=47.49 Aligned_cols=91 Identities=22% Similarity=0.243 Sum_probs=55.2
Q ss_pred HHHHHHHHHHhHhcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHh-----CCCceEEE--ecCCCCCchH---
Q 017904 38 YGISLFLRHSFYRFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLAD-----SEISPLIL--TRGYAGGDEV--- 107 (364)
Q Consensus 38 Y~~~~~~R~~~y~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~-----~g~kvaIl--sRGYg~GDE~--- 107 (364)
+|.+-.+-..+|..||+. .+.+|- -|+||||++.-+++.+.. .+.||+|+ +..-+++|-+
T Consensus 122 ~Gt~~~li~~ly~~g~ln-------tLiigp---P~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIag~~~gvpq 191 (308)
T COG3854 122 FGTANPLIKDLYQNGWLN-------TLIIGP---PQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAGCLNGVPQ 191 (308)
T ss_pred hccchHHHHHHHhcCcee-------eEEecC---CCCChHHHHHHHHHHhhccccccCCceEEEEeccchhhccccCCch
Confidence 455555666788887765 355663 599999999999999965 25788888 2233333332
Q ss_pred HHHHHHhCCCCEEEeccccchh--H-HHhhhcCCCCEEEEc
Q 017904 108 RMLERHLLERPAKIGKNCINPK--V-GSHLKSGKIGAVILD 145 (364)
Q Consensus 108 ~lla~~~~~~~v~v~~~~~~~~--~-~~~~~~~~~dviIlD 145 (364)
...+++. .| .- -|+. . ....++.-|+|||+|
T Consensus 192 ~~~g~R~---dV--ld--~cpk~~gmmmaIrsm~PEViIvD 225 (308)
T COG3854 192 HGRGRRM---DV--LD--PCPKAEGMMMAIRSMSPEVIIVD 225 (308)
T ss_pred hhhhhhh---hh--cc--cchHHHHHHHHHHhcCCcEEEEe
Confidence 2222222 11 11 1222 2 234577789999999
No 155
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=92.65 E-value=0.18 Score=46.14 Aligned_cols=37 Identities=24% Similarity=0.308 Sum_probs=29.3
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
+++.|. .|||||+++..+++.+.++|++|.+++---.
T Consensus 21 ~~l~G~---aGtGKT~~l~~~~~~~~~~g~~v~~~apT~~ 57 (196)
T PF13604_consen 21 SVLQGP---AGTGKTTLLKALAEALEAAGKRVIGLAPTNK 57 (196)
T ss_dssp EEEEES---TTSTHHHHHHHHHHHHHHTT--EEEEESSHH
T ss_pred EEEEEC---CCCCHHHHHHHHHHHHHhCCCeEEEECCcHH
Confidence 444463 7999999999999999999999999987654
No 156
>PF13614 AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ_A 3KB1_B 1ION_A 3LA6_H 3BFV_B 3CIO_D.
Probab=92.60 E-value=0.22 Score=42.78 Aligned_cols=41 Identities=32% Similarity=0.320 Sum_probs=30.4
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGG 104 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~G 104 (364)
+|+|-+- .||.|||+++..||..|.++|.+|.++-=.+..+
T Consensus 2 ~i~v~s~-~~g~G~t~~a~~lA~~la~~~~~Vllid~~~~~~ 42 (157)
T PF13614_consen 2 VIAVWSP-KGGVGKTTLALNLAAALARKGKKVLLIDFDFFSP 42 (157)
T ss_dssp EEEEEES-STTSSHHHHHHHHHHHHHHTTT-EEEEE--SSS-
T ss_pred EEEEECC-CCCCCHHHHHHHHHHHHHhcCCCeEEEECCCCCC
Confidence 4544443 3999999999999999999999999997766543
No 157
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=92.52 E-value=0.22 Score=40.80 Aligned_cols=37 Identities=27% Similarity=0.347 Sum_probs=30.1
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
..+++++|. .|||||+++..+++.+.+.+.++..+.-
T Consensus 19 ~~~v~i~G~---~G~GKT~l~~~i~~~~~~~~~~v~~~~~ 55 (151)
T cd00009 19 PKNLLLYGP---PGTGKTTLARAIANELFRPGAPFLYLNA 55 (151)
T ss_pred CCeEEEECC---CCCCHHHHHHHHHHHhhcCCCCeEEEeh
Confidence 347899996 6999999999999999776777666643
No 158
>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []. The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.
Probab=92.52 E-value=0.16 Score=49.16 Aligned_cols=35 Identities=26% Similarity=0.357 Sum_probs=27.3
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
|.|++-++ -|||||+++..|.++|.+.|+++.+++
T Consensus 2 pLiil~G~--P~SGKTt~a~~L~~~~~~~~~~v~~i~ 36 (270)
T PF08433_consen 2 PLIILCGL--PCSGKTTRAKELKKYLEEKGKEVVIIS 36 (270)
T ss_dssp -EEEEE----TTSSHHHHHHHHHHHHHHTT--EEEE-
T ss_pred EEEEEEcC--CCCcHHHHHHHHHHHHHhcCCEEEEEc
Confidence 77888888 899999999999999999999999996
No 159
>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=92.52 E-value=0.62 Score=43.60 Aligned_cols=54 Identities=22% Similarity=0.225 Sum_probs=33.1
Q ss_pred cCceeEEEEeCCCCCCCCccccCCCCCCchh---hhccccEEEEcCCcchhhhhhHHHHHHHHh
Q 017904 154 RRDLEIVMVNGLMPWGNRKLLPLGPLREPLM---ALKRADIAVVHHADLISEQNLKDIELEMRD 214 (364)
Q Consensus 154 ~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~---~L~rAd~ivvtk~d~~~~~~~~~i~~~l~~ 214 (364)
..|+-++|+|+..+.. +.-++-+. .....=++|+||.|..++++.+...+.+..
T Consensus 109 ~~D~~llVvda~~g~~-------~~d~~~l~~l~~~~ip~ivvvNK~D~~~~~~~~~~~~~l~~ 165 (224)
T cd04165 109 APDYAMLVVAANAGII-------GMTKEHLGLALALNIPVFVVVTKIDLAPANILQETLKDLKR 165 (224)
T ss_pred CCCEEEEEEECCCCCc-------HHHHHHHHHHHHcCCCEEEEEECccccCHHHHHHHHHHHHH
Confidence 4678899999887542 11222222 223334789999998877666665555554
No 160
>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=92.51 E-value=0.096 Score=49.62 Aligned_cols=29 Identities=24% Similarity=0.319 Sum_probs=23.3
Q ss_pred CCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 72 GGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
-||||||++..+.+++..+|.++.+|-=.
T Consensus 5 aGSGKTT~~~~~~~~~~~~~~~~~~vNLD 33 (238)
T PF03029_consen 5 AGSGKTTFCKGLSEWLESNGRDVYIVNLD 33 (238)
T ss_dssp TTSSHHHHHHHHHHHHTTT-S-EEEEE--
T ss_pred CCCCHHHHHHHHHHHHHhccCCceEEEcc
Confidence 59999999999999999999999988443
No 161
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=92.51 E-value=0.32 Score=54.19 Aligned_cols=42 Identities=21% Similarity=0.268 Sum_probs=33.6
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCch
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDE 106 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE 106 (364)
--++.| +-|||||+++-.|++.|...|.+|-+.|=-.-+-|.
T Consensus 687 y~LI~G---MPGTGKTTtI~~LIkiL~~~gkkVLLtsyThsAVDN 728 (1100)
T KOG1805|consen 687 YALILG---MPGTGKTTTISLLIKILVALGKKVLLTSYTHSAVDN 728 (1100)
T ss_pred hheeec---CCCCCchhhHHHHHHHHHHcCCeEEEEehhhHHHHH
Confidence 346777 689999999999999999999999888755544333
No 162
>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=92.50 E-value=0.17 Score=50.20 Aligned_cols=36 Identities=28% Similarity=0.348 Sum_probs=30.3
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
++.+|+= ||.||||++.+++-++.+.|.|+.++|=.
T Consensus 4 iv~f~GK--GGVGKTT~aaA~A~~lA~~g~kvLlvStD 39 (322)
T COG0003 4 IVFFTGK--GGVGKTTIAAATAVKLAESGKKVLLVSTD 39 (322)
T ss_pred EEEEecC--CcccHHHHHHHHHHHHHHcCCcEEEEEeC
Confidence 4444443 99999999999999999999999999764
No 163
>PRK05480 uridine/cytidine kinase; Provisional
Probab=92.39 E-value=0.2 Score=45.77 Aligned_cols=35 Identities=20% Similarity=0.297 Sum_probs=28.5
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
..+|.|++- .||||||++..|++.+ .+.++++++-
T Consensus 6 ~~iI~I~G~--sGsGKTTl~~~l~~~l--~~~~~~~i~~ 40 (209)
T PRK05480 6 PIIIGIAGG--SGSGKTTVASTIYEEL--GDESIAVIPQ 40 (209)
T ss_pred CEEEEEECC--CCCCHHHHHHHHHHHh--CCCceEEEeC
Confidence 367888876 6999999999999998 3567888876
No 164
>TIGR00554 panK_bact pantothenate kinase, bacterial type. Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.
Probab=92.23 E-value=0.61 Score=45.62 Aligned_cols=38 Identities=21% Similarity=0.294 Sum_probs=26.8
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhC--CCceEEEec-CCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADS--EISPLILTR-GYA 102 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~--g~kvaIlsR-GYg 102 (364)
||.|.+- -|+||||++..|...+.+. +-+|.+++- ||-
T Consensus 64 IIGIaG~--~GSGKSTlar~L~~ll~~~~~~g~V~vi~~D~f~ 104 (290)
T TIGR00554 64 IISIAGS--VAVGKSTTARILQALLSRWPEHRKVELITTDGFL 104 (290)
T ss_pred EEEEECC--CCCCHHHHHHHHHHHHhhcCCCCceEEEeccccc
Confidence 5555554 5999999999998888642 336777764 554
No 165
>COG1084 Predicted GTPase [General function prediction only]
Probab=92.15 E-value=1.2 Score=44.30 Aligned_cols=144 Identities=19% Similarity=0.205 Sum_probs=86.3
Q ss_pred HHHHHHHHHhHhcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHH--------HHhCCCceEEEecCCCC---CchH
Q 017904 39 GISLFLRHSFYRFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHC--------LADSEISPLILTRGYAG---GDEV 107 (364)
Q Consensus 39 ~~~~~~R~~~y~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~--------L~~~g~kvaIlsRGYg~---GDE~ 107 (364)
.++-..|+++-+. +.-.+..|.|+|-+. --.|||+|+..+-.. +..+|..||-.-+||.+ =|-|
T Consensus 149 ~fL~~~r~~l~~L---P~Idp~~pTivVaG~--PNVGKSSlv~~lT~AkpEvA~YPFTTK~i~vGhfe~~~~R~QvIDTP 223 (346)
T COG1084 149 EFLRKARDHLKKL---PAIDPDLPTIVVAGY--PNVGKSSLVRKLTTAKPEVAPYPFTTKGIHVGHFERGYLRIQVIDTP 223 (346)
T ss_pred HHHHHHHHHHhcC---CCCCCCCCeEEEecC--CCCcHHHHHHHHhcCCCccCCCCccccceeEeeeecCCceEEEecCC
Confidence 4556677777554 778888999999877 789999999988653 44578999999999976 2333
Q ss_pred HH----HHHHhCCCCEEEeccccchhHHHhhhcCCCCEEEEcCCCCCccccCceeEEEEeCCCCCCCCccccCCCCCCch
Q 017904 108 RM----LERHLLERPAKIGKNCINPKVGSHLKSGKIGAVILDDGMQHWSLRRDLEIVMVNGLMPWGNRKLLPLGPLREPL 183 (364)
Q Consensus 108 ~l----la~~~~~~~v~v~~~~~~~~~~~~~~~~~~dviIlDDgfQh~~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~ 183 (364)
=+ +.++++ +-..+...+++. +++=+-++|++.-.|...---.-.++|-.
T Consensus 224 GlLDRPl~ErN~----------IE~qAi~AL~hl-----------------~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk 276 (346)
T COG1084 224 GLLDRPLEERNE----------IERQAILALRHL-----------------AGVILFLFDPSETCGYSLEEQISLLEEIK 276 (346)
T ss_pred cccCCChHHhcH----------HHHHHHHHHHHh-----------------cCeEEEEEcCccccCCCHHHHHHHHHHHH
Confidence 22 333321 111122223232 23334577876543321100011234434
Q ss_pred hhhccccEEEEcCCcchhhhhhHHHHHHHHh
Q 017904 184 MALKRADIAVVHHADLISEQNLKDIELEMRD 214 (364)
Q Consensus 184 ~~L~rAd~ivvtk~d~~~~~~~~~i~~~l~~ 214 (364)
..++.-=++|+||.|...++.++.++..+..
T Consensus 277 ~~f~~p~v~V~nK~D~~~~e~~~~~~~~~~~ 307 (346)
T COG1084 277 ELFKAPIVVVINKIDIADEEKLEEIEASVLE 307 (346)
T ss_pred HhcCCCeEEEEecccccchhHHHHHHHHHHh
Confidence 4455335677899999888888877765543
No 166
>PRK06761 hypothetical protein; Provisional
Probab=92.12 E-value=0.16 Score=49.51 Aligned_cols=38 Identities=24% Similarity=0.365 Sum_probs=31.4
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
++|.|-+. -||||||++..+++.|..+|+++.+.+.|.
T Consensus 4 ~lIvI~G~--~GsGKTTla~~L~~~L~~~g~~v~~~~~~~ 41 (282)
T PRK06761 4 KLIIIEGL--PGFGKSTTAKMLNDILSQNGIEVELYLEGN 41 (282)
T ss_pred cEEEEECC--CCCCHHHHHHHHHHhcCcCceEEEEEecCC
Confidence 45555555 599999999999999999999999877764
No 167
>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.
Probab=91.99 E-value=0.2 Score=43.61 Aligned_cols=32 Identities=25% Similarity=0.338 Sum_probs=25.7
Q ss_pred EEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 64 ISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 64 IsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
|++.+. -|||||+++..|++.+.+.|.++..+
T Consensus 2 i~i~G~--~GsGKSTla~~L~~~l~~~g~~~~~i 33 (149)
T cd02027 2 IWLTGL--SGSGKSTIARALEEKLFQRGRPVYVL 33 (149)
T ss_pred EEEEcC--CCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 444444 69999999999999998888877665
No 168
>PRK01077 cobyrinic acid a,c-diamide synthase; Validated
Probab=91.92 E-value=0.21 Score=51.60 Aligned_cols=50 Identities=16% Similarity=0.125 Sum_probs=37.6
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHH
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLER 112 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~ 112 (364)
.|.+.|.+- -+|+|||+++..|++.|+++|++|+...-|-. +..|..+..
T Consensus 3 m~~i~I~gt-~s~~GKT~it~~L~~~L~~~G~~V~~fK~Gpd-~~d~~~~~~ 52 (451)
T PRK01077 3 MPALVIAAP-ASGSGKTTVTLGLMRALRRRGLRVQPFKVGPD-YIDPAYHTA 52 (451)
T ss_pred CcEEEEEeC-CCCCcHHHHHHHHHHHHHhCCCCcceeecCCC-cccHHHHHH
Confidence 345555554 38999999999999999999999999988642 234654543
No 169
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=91.86 E-value=0.24 Score=45.34 Aligned_cols=34 Identities=26% Similarity=0.352 Sum_probs=31.2
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
-||=.-+|| |+||||+...|.+.|.++|+++-+|
T Consensus 24 ~viW~TGLS--GsGKSTiA~ale~~L~~~G~~~y~L 57 (197)
T COG0529 24 AVIWFTGLS--GSGKSTIANALEEKLFAKGYHVYLL 57 (197)
T ss_pred eEEEeecCC--CCCHHHHHHHHHHHHHHcCCeEEEe
Confidence 488888895 9999999999999999999999886
No 170
>PRK12377 putative replication protein; Provisional
Probab=91.66 E-value=0.26 Score=47.06 Aligned_cols=36 Identities=19% Similarity=0.287 Sum_probs=31.2
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
-.++..|+- |||||.++..++..+.++|++|..++-
T Consensus 102 ~~l~l~G~~---GtGKThLa~AIa~~l~~~g~~v~~i~~ 137 (248)
T PRK12377 102 TNFVFSGKP---GTGKNHLAAAIGNRLLAKGRSVIVVTV 137 (248)
T ss_pred CeEEEECCC---CCCHHHHHHHHHHHHHHcCCCeEEEEH
Confidence 368888975 999999999999999999999877754
No 171
>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional
Probab=91.65 E-value=0.34 Score=53.03 Aligned_cols=63 Identities=21% Similarity=0.113 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHHHhHhcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 32 SLASSLYGISLFLRHSFYRFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 32 ~plS~lY~~~~~~R~~~y~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
.|.|.+...+-.+|..+.-. ...-+..||+|.+- .||.|||+++..||..|...|.||.+|-=
T Consensus 506 ~p~s~~~Ea~r~lrt~l~~~----~~~~~~kvI~vtS~-~~g~GKTtva~nLA~~la~~G~rVLlID~ 568 (726)
T PRK09841 506 NPADSAVEAVRALRTSLHFA----MMETENNILMITGA-TPDSGKTFVSSTLAAVIAQSDQKVLFIDA 568 (726)
T ss_pred CCCCHHHHHHHHHHHHhhhh----ccCCCCeEEEEecC-CCCCCHHHHHHHHHHHHHhCCCeEEEEeC
Confidence 34566666777777655321 11224578988887 49999999999999999999999999943
No 172
>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic. Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.
Probab=91.52 E-value=0.23 Score=49.73 Aligned_cols=28 Identities=18% Similarity=0.267 Sum_probs=25.6
Q ss_pred CCCCchHHHHHHHHHHH-hCCCceEEEec
Q 017904 72 GGNGKTPMVEFLAHCLA-DSEISPLILTR 99 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~-~~g~kvaIlsR 99 (364)
-|+||||++.+|+++|. +.|+++++++=
T Consensus 8 ~GaGKST~~~~l~~~l~~~~g~~v~~~~~ 36 (340)
T TIGR03575 8 PAAGKSTLARSLSATLRRERGWAVAVITY 36 (340)
T ss_pred CCCCHHHHHHHHHHHHHhccCCeEEEEcc
Confidence 79999999999999997 68999999964
No 173
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=91.51 E-value=0.24 Score=46.29 Aligned_cols=30 Identities=20% Similarity=0.300 Sum_probs=24.3
Q ss_pred CCCCchHHHHHHHHHHHh--CCCceEEEec-CC
Q 017904 72 GGNGKTPMVEFLAHCLAD--SEISPLILTR-GY 101 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~--~g~kvaIlsR-GY 101 (364)
-|+||||++..|+..|.. .+.++.+++- ||
T Consensus 8 sGSGKTTla~~L~~~l~~~~~~~~v~vi~~D~f 40 (220)
T cd02025 8 VAVGKSTTARVLQALLSRWPDHPNVELITTDGF 40 (220)
T ss_pred CCCCHHHHHHHHHHHHhhcCCCCcEEEEecCcc
Confidence 599999999999999975 4567887755 45
No 174
>PRK05541 adenylylsulfate kinase; Provisional
Probab=91.45 E-value=0.32 Score=43.12 Aligned_cols=34 Identities=29% Similarity=0.293 Sum_probs=26.9
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
.+|++.++ =|||||++...+++.|..++..+.++
T Consensus 8 ~~I~i~G~--~GsGKst~a~~l~~~l~~~~~~~~~~ 41 (176)
T PRK05541 8 YVIWITGL--AGSGKTTIAKALYERLKLKYSNVIYL 41 (176)
T ss_pred CEEEEEcC--CCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 35655555 49999999999999998877776666
No 175
>PLN02924 thymidylate kinase
Probab=91.45 E-value=0.31 Score=45.65 Aligned_cols=34 Identities=18% Similarity=0.250 Sum_probs=27.1
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
+.|++=++ -||||||.+..|+++|.++|+++.+.
T Consensus 17 ~~IviEGi--DGsGKsTq~~~L~~~l~~~g~~v~~~ 50 (220)
T PLN02924 17 ALIVLEGL--DRSGKSTQCAKLVSFLKGLGVAAELW 50 (220)
T ss_pred eEEEEECC--CCCCHHHHHHHHHHHHHhcCCCceee
Confidence 34444444 69999999999999999999998444
No 176
>PRK08939 primosomal protein DnaI; Reviewed
Probab=91.38 E-value=0.28 Score=48.28 Aligned_cols=36 Identities=25% Similarity=0.362 Sum_probs=32.6
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
..+++..|+. |||||-++.+++..+.++|++|.+++
T Consensus 156 ~~gl~L~G~~---G~GKThLa~Aia~~l~~~g~~v~~~~ 191 (306)
T PRK08939 156 VKGLYLYGDF---GVGKSYLLAAIANELAKKGVSSTLLH 191 (306)
T ss_pred CCeEEEECCC---CCCHHHHHHHHHHHHHHcCCCEEEEE
Confidence 3589999997 99999999999999999999998884
No 177
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=91.34 E-value=0.2 Score=40.43 Aligned_cols=36 Identities=25% Similarity=0.328 Sum_probs=27.6
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
.++.+|. -|||||+++..++..+...+..+..++=+
T Consensus 4 ~~~l~G~---~G~GKTtl~~~l~~~~~~~~~~~~~~~~~ 39 (148)
T smart00382 4 VILIVGP---PGSGKTTLARALARELGPPGGGVIYIDGE 39 (148)
T ss_pred EEEEECC---CCCcHHHHHHHHHhccCCCCCCEEEECCE
Confidence 4678886 59999999999999998765445555433
No 178
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=91.29 E-value=0.32 Score=43.95 Aligned_cols=34 Identities=29% Similarity=0.320 Sum_probs=28.7
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
-++..|+- |||||-++..++..+.++|++|..++
T Consensus 49 ~l~l~G~~---G~GKThLa~ai~~~~~~~g~~v~f~~ 82 (178)
T PF01695_consen 49 NLILYGPP---GTGKTHLAVAIANEAIRKGYSVLFIT 82 (178)
T ss_dssp EEEEEEST---TSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred EEEEEhhH---hHHHHHHHHHHHHHhccCCcceeEee
Confidence 58999974 99999999999999989999998874
No 179
>cd03109 DTBS Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and carbon dioxide. The enzyme utilizes carbon dioxide instead of hydrogen carbonate as substrate and is dependent on ATP and divalent metal ions as cofactors.
Probab=91.28 E-value=0.21 Score=42.85 Aligned_cols=27 Identities=26% Similarity=0.223 Sum_probs=24.0
Q ss_pred CCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 73 GNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 73 GtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
|+|||+++.-+++.|+++|.+|+...-
T Consensus 9 ~~Gkt~~~~~l~~~l~~~~~~v~~~kp 35 (134)
T cd03109 9 DIGKTVATAILARALKEKGYRVAPLKP 35 (134)
T ss_pred CcCHHHHHHHHHHHHHHCCCeEEEEec
Confidence 499999999999999999999887743
No 180
>COG0125 Tmk Thymidylate kinase [Nucleotide transport and metabolism]
Probab=91.28 E-value=0.36 Score=44.94 Aligned_cols=38 Identities=34% Similarity=0.553 Sum_probs=31.4
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG 103 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~ 103 (364)
.|++=++ -|+||||.+..|.++|+++|++ ++++|.=|+
T Consensus 5 fI~iEGi--DGaGKTT~~~~L~~~l~~~g~~-v~~trEP~~ 42 (208)
T COG0125 5 FIVIEGI--DGAGKTTQAELLKERLEERGIK-VVLTREPGG 42 (208)
T ss_pred EEEEECC--CCCCHHHHHHHHHHHHHHcCCe-EEEEeCCCC
Confidence 5777777 7999999999999999999994 566676654
No 181
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=91.27 E-value=0.35 Score=42.75 Aligned_cols=36 Identities=19% Similarity=0.105 Sum_probs=29.0
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
+++.|. .|||||.++..++....++|.++.++|=..
T Consensus 2 ~li~G~---~G~GKT~l~~~~~~~~~~~g~~v~~~s~e~ 37 (187)
T cd01124 2 TLLSGG---PGTGKTTFALQFLYAGLARGEPGLYVTLEE 37 (187)
T ss_pred EEEEcC---CCCCHHHHHHHHHHHHHHCCCcEEEEECCC
Confidence 345554 599999999999888778899999998554
No 182
>PRK08727 hypothetical protein; Validated
Probab=91.20 E-value=0.32 Score=45.67 Aligned_cols=35 Identities=23% Similarity=0.183 Sum_probs=31.2
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
-|++..|+ -|||||.++.+++..+.++|+++..++
T Consensus 42 ~~l~l~G~---~G~GKThL~~a~~~~~~~~~~~~~y~~ 76 (233)
T PRK08727 42 DWLYLSGP---AGTGKTHLALALCAAAEQAGRSSAYLP 76 (233)
T ss_pred CeEEEECC---CCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence 46999997 599999999999999999998888776
No 183
>PRK08233 hypothetical protein; Provisional
Probab=91.16 E-value=0.19 Score=44.25 Aligned_cols=25 Identities=36% Similarity=0.634 Sum_probs=21.8
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLA 88 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~ 88 (364)
.||.|.+. .||||||++..|++.|.
T Consensus 4 ~iI~I~G~--~GsGKtTla~~L~~~l~ 28 (182)
T PRK08233 4 KIITIAAV--SGGGKTTLTERLTHKLK 28 (182)
T ss_pred eEEEEECC--CCCCHHHHHHHHHhhCC
Confidence 68888777 49999999999999984
No 184
>PRK06526 transposase; Provisional
Probab=91.13 E-value=0.18 Score=48.22 Aligned_cols=33 Identities=24% Similarity=0.226 Sum_probs=28.6
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
-++.+|. .|||||.++.+++..+.++|++|...
T Consensus 100 nlll~Gp---~GtGKThLa~al~~~a~~~g~~v~f~ 132 (254)
T PRK06526 100 NVVFLGP---PGTGKTHLAIGLGIRACQAGHRVLFA 132 (254)
T ss_pred eEEEEeC---CCCchHHHHHHHHHHHHHCCCchhhh
Confidence 5789996 69999999999999998889887653
No 185
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=91.08 E-value=0.33 Score=41.09 Aligned_cols=39 Identities=31% Similarity=0.370 Sum_probs=28.0
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEV 107 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~ 107 (364)
||+.+|. -|||||.++.++++.+ +.++-.++ .....++.
T Consensus 1 ~vlL~G~---~G~GKt~l~~~la~~~---~~~~~~i~-~~~~~~~~ 39 (139)
T PF07728_consen 1 PVLLVGP---PGTGKTTLARELAALL---GRPVIRIN-CSSDTTEE 39 (139)
T ss_dssp EEEEEES---SSSSHHHHHHHHHHHH---TCEEEEEE--TTTSTHH
T ss_pred CEEEECC---CCCCHHHHHHHHHHHh---hcceEEEE-eccccccc
Confidence 7899996 5999999999999999 44555543 33333444
No 186
>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]
Probab=91.06 E-value=0.23 Score=46.59 Aligned_cols=34 Identities=21% Similarity=0.335 Sum_probs=27.5
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
-+|.|++- .||||||++..|...|... ++++|+-
T Consensus 9 iiIgIaG~--SgSGKTTva~~l~~~~~~~--~~~~I~~ 42 (218)
T COG0572 9 IIIGIAGG--SGSGKTTVAKELSEQLGVE--KVVVISL 42 (218)
T ss_pred EEEEEeCC--CCCCHHHHHHHHHHHhCcC--cceEeec
Confidence 46677765 5899999999999999744 8888884
No 187
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=90.95 E-value=0.73 Score=42.52 Aligned_cols=36 Identities=14% Similarity=0.133 Sum_probs=30.8
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
+-|++..|. -|||||.++..+++.+.++|.++.+++
T Consensus 42 ~~~~~l~G~---~G~GKT~La~ai~~~~~~~~~~~~~i~ 77 (227)
T PRK08903 42 DRFFYLWGE---AGSGRSHLLQALVADASYGGRNARYLD 77 (227)
T ss_pred CCeEEEECC---CCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence 458999997 599999999999999888787777665
No 188
>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []. It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.
Probab=90.86 E-value=0.28 Score=44.01 Aligned_cols=35 Identities=20% Similarity=0.218 Sum_probs=26.5
Q ss_pred EEEcCcccCCCCchHHHHHHHHHHHhCCCce-EEEecCC
Q 017904 64 ISVGNLTWGGNGKTPMVEFLAHCLADSEISP-LILTRGY 101 (364)
Q Consensus 64 IsVGNltvGGtGKTP~v~~L~~~L~~~g~kv-aIlsRGY 101 (364)
+.-|.. |+||||++..+++.|+++|.++ ++++...
T Consensus 3 ~iTG~p---G~GKTTll~k~i~~l~~~~~~v~Gf~t~ev 38 (168)
T PF03266_consen 3 FITGPP---GVGKTTLLKKVIEELKKKGLPVGGFYTEEV 38 (168)
T ss_dssp EEES-T---TSSHHHHHHHHHHHHHHTCGGEEEEEEEEE
T ss_pred EEECcC---CCCHHHHHHHHHHHhhccCCccceEEeecc
Confidence 445554 9999999999999999988775 4555443
No 189
>PLN03046 D-glycerate 3-kinase; Provisional
Probab=90.84 E-value=0.28 Score=50.58 Aligned_cols=35 Identities=26% Similarity=0.197 Sum_probs=28.4
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
||.|.+- -||||||++..|...+...|.++++||-
T Consensus 214 IIGIsG~--qGSGKSTLa~~L~~lL~~~g~~vgvISi 248 (460)
T PLN03046 214 VIGFSAP--QGCGKTTLVFALDYLFRVTGRKSATLSI 248 (460)
T ss_pred EEEEECC--CCCCHHHHHHHHHHHhcccCCceEEEEE
Confidence 4445544 5999999999999999877899999975
No 190
>PF05729 NACHT: NACHT domain
Probab=90.83 E-value=0.27 Score=41.97 Aligned_cols=27 Identities=33% Similarity=0.495 Sum_probs=23.5
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSE 91 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g 91 (364)
.+++.|. .|+|||+++.+++..+.+.+
T Consensus 2 ~l~I~G~---~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 2 VLWISGE---PGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred EEEEECC---CCCChHHHHHHHHHHHHhcC
Confidence 4678886 79999999999999998765
No 191
>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.
Probab=90.83 E-value=0.29 Score=44.21 Aligned_cols=33 Identities=24% Similarity=0.389 Sum_probs=25.0
Q ss_pred EEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 64 ISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 64 IsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
|.|.+- .|+||||++..|++.+ .+.++.+++-.
T Consensus 2 igi~G~--~GsGKSTl~~~l~~~l--~~~~~~v~~~D 34 (198)
T cd02023 2 IGIAGG--SGSGKTTVAEEIIEQL--GNPKVVIISQD 34 (198)
T ss_pred EEEECC--CCCCHHHHHHHHHHHh--CCCCeEEEEec
Confidence 444444 5999999999999998 35677787654
No 192
>PRK08118 topology modulation protein; Reviewed
Probab=90.75 E-value=0.22 Score=44.42 Aligned_cols=24 Identities=33% Similarity=0.653 Sum_probs=20.5
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLA 88 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~ 88 (364)
-|+++|+ +||||||++..|++.+.
T Consensus 3 rI~I~G~---~GsGKSTlak~L~~~l~ 26 (167)
T PRK08118 3 KIILIGS---GGSGKSTLARQLGEKLN 26 (167)
T ss_pred EEEEECC---CCCCHHHHHHHHHHHhC
Confidence 3788895 79999999999998873
No 193
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=90.71 E-value=0.24 Score=42.38 Aligned_cols=35 Identities=31% Similarity=0.497 Sum_probs=23.8
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
-|.--|++ |+|||+|+..+++.| |.+-.|-|--|.
T Consensus 17 vi~L~GdL---GaGKTtf~r~l~~~l---g~~~~V~SPTF~ 51 (123)
T PF02367_consen 17 VILLSGDL---GAGKTTFVRGLARAL---GIDEEVTSPTFS 51 (123)
T ss_dssp EEEEEEST---TSSHHHHHHHHHHHT---T--S----TTTT
T ss_pred EEEEECCC---CCCHHHHHHHHHHHc---CCCCCcCCCCeE
Confidence 35578998 999999999999999 444467776664
No 194
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=90.68 E-value=0.41 Score=40.46 Aligned_cols=36 Identities=22% Similarity=0.205 Sum_probs=30.1
Q ss_pred EEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 64 ISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 64 IsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
++.|. .|+|||+++..++..+..+|.++.+++-+-.
T Consensus 3 ~i~G~---~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~ 38 (165)
T cd01120 3 LVFGP---TGSGKTTLALQLALNIATKGGKVVYVDIEEE 38 (165)
T ss_pred eEeCC---CCCCHHHHHHHHHHHHHhcCCEEEEEECCcc
Confidence 45564 5999999999999999888889988887654
No 195
>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=90.58 E-value=0.29 Score=43.40 Aligned_cols=33 Identities=24% Similarity=0.236 Sum_probs=26.5
Q ss_pred cCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchH
Q 017904 71 WGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEV 107 (364)
Q Consensus 71 vGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~ 107 (364)
-||+|||+++..||..| ++|+++==..++++-+
T Consensus 8 kgG~GKSt~a~nLA~~l----~~vlliD~D~~~~~~~ 40 (179)
T cd03110 8 KGGTGKTTVTAALAALL----KNVVLADCDVDAPNLH 40 (179)
T ss_pred CCCCCHHHHHHHHHHHH----hCcEEEECCCCCCchh
Confidence 39999999999999999 5888886665554444
No 196
>PRK13973 thymidylate kinase; Provisional
Probab=90.56 E-value=0.74 Score=42.48 Aligned_cols=38 Identities=26% Similarity=0.381 Sum_probs=30.0
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG 103 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~ 103 (364)
.|++=++ -|+||||.+..|+++|.++|+++ +.++..++
T Consensus 5 ~IviEG~--dGsGKtTq~~~l~~~l~~~g~~~-~~~~~p~~ 42 (213)
T PRK13973 5 FITFEGG--EGAGKSTQIRLLAERLRAAGYDV-LVTREPGG 42 (213)
T ss_pred EEEEEcC--CCCCHHHHHHHHHHHHHHCCCeE-EEEECCCC
Confidence 4555444 69999999999999999999876 66666653
No 197
>PRK00049 elongation factor Tu; Reviewed
Probab=90.52 E-value=1.1 Score=45.43 Aligned_cols=32 Identities=25% Similarity=0.407 Sum_probs=25.2
Q ss_pred CCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCC
Q 017904 57 HRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSE 91 (364)
Q Consensus 57 ~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g 91 (364)
.+..+-|.++|+. ++|||+++..|.....+.|
T Consensus 9 ~~~~~ni~iiGhv---d~GKSTL~~~L~~~~~~~g 40 (396)
T PRK00049 9 TKPHVNVGTIGHV---DHGKTTLTAAITKVLAKKG 40 (396)
T ss_pred CCCEEEEEEEeEC---CCCHHHHHHHHHHhhhhcc
Confidence 3445678899997 8999999999988765544
No 198
>PLN02796 D-glycerate 3-kinase
Probab=90.47 E-value=0.3 Score=48.92 Aligned_cols=35 Identities=26% Similarity=0.242 Sum_probs=28.0
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
+|.|.+- -||||||++..|...+...|.++++||-
T Consensus 102 iIGI~G~--sGSGKSTLa~~L~~lL~~~g~~~g~Isi 136 (347)
T PLN02796 102 VIGISAP--QGCGKTTLVFALVYLFNATGRRAASLSI 136 (347)
T ss_pred EEEEECC--CCCcHHHHHHHHHHHhcccCCceeEEEE
Confidence 4444443 5999999999999999887888888864
No 199
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=90.34 E-value=0.87 Score=41.60 Aligned_cols=35 Identities=17% Similarity=0.245 Sum_probs=28.6
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
+-+|+..|- -|||||.++.++++.+.+.|.++..+
T Consensus 38 ~~~lll~G~---~G~GKT~la~~~~~~~~~~~~~~~~i 72 (226)
T TIGR03420 38 DRFLYLWGE---SGSGKSHLLQAACAAAEERGKSAIYL 72 (226)
T ss_pred CCeEEEECC---CCCCHHHHHHHHHHHHHhcCCcEEEE
Confidence 568999995 69999999999999988776655444
No 200
>PLN03127 Elongation factor Tu; Provisional
Probab=90.34 E-value=1.7 Score=45.02 Aligned_cols=124 Identities=15% Similarity=0.224 Sum_probs=65.8
Q ss_pred CCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCCCEEEeccccchhHHHhhhc
Q 017904 57 HRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLERPAKIGKNCINPKVGSHLKS 136 (364)
Q Consensus 57 ~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~~v~v~~~~~~~~~~~~~~~ 136 (364)
.+..+-|..+|.. ++|||+++..|.+...+.|..-.+. |.--|.- -.++-+|...-.+. . ....
T Consensus 58 ~k~~~ni~iiGhv---d~GKSTL~~~L~~~~~~~g~~~~~~---~~~~D~~--~~E~~rGiTi~~~~--~------~~~~ 121 (447)
T PLN03127 58 TKPHVNVGTIGHV---DHGKTTLTAAITKVLAEEGKAKAVA---FDEIDKA--PEEKARGITIATAH--V------EYET 121 (447)
T ss_pred CCceEEEEEECcC---CCCHHHHHHHHHhHHHHhhccccee---eccccCC--hhHhhcCceeeeeE--E------EEcC
Confidence 4444568889987 7999999999987766555421111 1001111 01222343221111 0 1122
Q ss_pred CCCCEEEEc-CCCCCc-------cccCceeEEEEeCCCCCCCCccccCCCCCCchhhhc---ccc-EEEEcCCcchhhh
Q 017904 137 GKIGAVILD-DGMQHW-------SLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALK---RAD-IAVVHHADLISEQ 203 (364)
Q Consensus 137 ~~~dviIlD-DgfQh~-------~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~---rAd-~ivvtk~d~~~~~ 203 (364)
.+..++++| -|...+ .-.-|+-++|+|+..+.. +..+|-+..++ .-. ++++||.|+++++
T Consensus 122 ~~~~i~~iDtPGh~~f~~~~~~g~~~aD~allVVda~~g~~-------~qt~e~l~~~~~~gip~iIvviNKiDlv~~~ 193 (447)
T PLN03127 122 AKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPM-------PQTKEHILLARQVGVPSLVVFLNKVDVVDDE 193 (447)
T ss_pred CCeEEEEEECCCccchHHHHHHHHhhCCEEEEEEECCCCCc-------hhHHHHHHHHHHcCCCeEEEEEEeeccCCHH
Confidence 234678888 444322 122467789999987532 23344444333 333 3578999987543
No 201
>PRK04296 thymidine kinase; Provisional
Probab=90.34 E-value=0.37 Score=43.79 Aligned_cols=33 Identities=15% Similarity=0.207 Sum_probs=27.8
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
++..|+. |+|||+++..++..+..+|.+|.++.
T Consensus 5 ~litG~~---GsGKTT~~l~~~~~~~~~g~~v~i~k 37 (190)
T PRK04296 5 EFIYGAM---NSGKSTELLQRAYNYEERGMKVLVFK 37 (190)
T ss_pred EEEECCC---CCHHHHHHHHHHHHHHHcCCeEEEEe
Confidence 4556654 99999999999999988899999884
No 202
>PRK06762 hypothetical protein; Provisional
Probab=90.30 E-value=0.39 Score=41.95 Aligned_cols=30 Identities=33% Similarity=0.541 Sum_probs=21.9
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
|+..|. -||||||++..|++.+ |..+.+++
T Consensus 5 i~i~G~---~GsGKST~A~~L~~~l---~~~~~~i~ 34 (166)
T PRK06762 5 IIIRGN---SGSGKTTIAKQLQERL---GRGTLLVS 34 (166)
T ss_pred EEEECC---CCCCHHHHHHHHHHHh---CCCeEEec
Confidence 344454 4999999999999988 34556664
No 203
>PRK10536 hypothetical protein; Provisional
Probab=90.28 E-value=0.38 Score=46.45 Aligned_cols=37 Identities=27% Similarity=0.354 Sum_probs=30.5
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHH-HHhCCCceEEEecCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHC-LADSEISPLILTRGY 101 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~-L~~~g~kvaIlsRGY 101 (364)
-|+++|.- |||||.++.+++.. +.+..++..+|+|--
T Consensus 76 lV~i~G~a---GTGKT~La~a~a~~~l~~~~~~kIiI~RP~ 113 (262)
T PRK10536 76 LIFATGEA---GCGKTWISAAKAAEALIHKDVDRIIVTRPV 113 (262)
T ss_pred eEEEECCC---CCCHHHHHHHHHHHHHhcCCeeEEEEeCCC
Confidence 67788875 99999999999984 546669999999855
No 204
>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=90.25 E-value=1.3 Score=42.40 Aligned_cols=31 Identities=19% Similarity=0.137 Sum_probs=23.2
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
.|..||. .|+|||+++..|+ |.+++++|.-.
T Consensus 2 ~V~liG~---pnvGKSTLln~L~------~~~~~~vs~~~ 32 (270)
T TIGR00436 2 FVAILGR---PNVGKSTLLNQLH------GQKISITSPKA 32 (270)
T ss_pred EEEEECC---CCCCHHHHHHHHh------CCcEeecCCCC
Confidence 4678886 6999999999886 45677776543
No 205
>PRK00093 GTP-binding protein Der; Reviewed
Probab=90.23 E-value=1.8 Score=44.04 Aligned_cols=55 Identities=20% Similarity=0.352 Sum_probs=32.5
Q ss_pred ceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcchhhhhhHHHHHHHHh
Q 017904 156 DLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLISEQNLKDIELEMRD 214 (364)
Q Consensus 156 dl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~~~~~~~~~i~~~l~~ 214 (364)
|+=|+|+|++.++.....- +..........-+|++||.|+.++++.+.+.+.+..
T Consensus 257 d~~ilViD~~~~~~~~~~~----i~~~~~~~~~~~ivv~NK~Dl~~~~~~~~~~~~~~~ 311 (435)
T PRK00093 257 DVVLLVIDATEGITEQDLR----IAGLALEAGRALVIVVNKWDLVDEKTMEEFKKELRR 311 (435)
T ss_pred CEEEEEEeCCCCCCHHHHH----HHHHHHHcCCcEEEEEECccCCCHHHHHHHHHHHHH
Confidence 5568899998765322110 001111234667899999998866666666655553
No 206
>PRK10646 ADP-binding protein; Provisional
Probab=90.23 E-value=0.21 Score=44.43 Aligned_cols=22 Identities=32% Similarity=0.501 Sum_probs=20.3
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHH
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
|.--|++ |+|||+|+..+++.|
T Consensus 31 i~L~GdL---GaGKTtf~rgl~~~L 52 (153)
T PRK10646 31 IYLYGDL---GAGKTTFSRGFLQAL 52 (153)
T ss_pred EEEECCC---CCCHHHHHHHHHHHc
Confidence 5688998 999999999999999
No 207
>PRK13896 cobyrinic acid a,c-diamide synthase; Provisional
Probab=90.22 E-value=1.3 Score=45.88 Aligned_cols=89 Identities=19% Similarity=0.217 Sum_probs=54.3
Q ss_pred CCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCCCEEEeccccchh------HHHhhhcCCCCEEEEc
Q 017904 72 GGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLERPAKIGKNCINPK------VGSHLKSGKIGAVILD 145 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~~v~v~~~~~~~~------~~~~~~~~~~dviIlD 145 (364)
.|+|||+++..|++.|+++|++|....-|-.--| |..+.+. -|.++. .+++. ..........|++|+|
T Consensus 11 s~~GKT~vt~gl~~~l~~~g~~v~~~K~Gpd~iD-~~~~~~~-~g~~~~----nld~~~~~~~~i~~~~~~~~~d~~vIE 84 (433)
T PRK13896 11 SGVGKTVATLATIRALEDAGYAVQPAKAGPDFID-PSHHEAV-AGRPSR----TLDPWLSGEDGMRRNYYRGEGDICVVE 84 (433)
T ss_pred CCCCHHHHHHHHHHHHHHCCCeeEEEeeCCCCCC-HHHHHHH-hCCCcc----cCChhhCCHHHHHHHHHhhcCCEEEEE
Confidence 7999999999999999999999988876543223 5444433 344441 12221 1122223347999999
Q ss_pred ------CCC--CCccccCcee---EEEEeCCC
Q 017904 146 ------DGM--QHWSLRRDLE---IVMVNGLM 166 (364)
Q Consensus 146 ------Dgf--Qh~~L~rdl~---Ivl~Da~~ 166 (364)
||- -...+.+.++ |+|+|+..
T Consensus 85 G~gGl~dg~~~s~adla~~l~~PviLVv~~~~ 116 (433)
T PRK13896 85 GVMGLYDGDVSSTAMVAEALDLPVVLVVDAKA 116 (433)
T ss_pred CCCccccCCCCCHHHHHHHHCCCEEEEEcCcc
Confidence 441 1223455555 57777654
No 208
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=90.20 E-value=1.7 Score=44.80 Aligned_cols=84 Identities=23% Similarity=0.192 Sum_probs=49.6
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHH-hC-CCceEEEe-cCCCC-CchH-HHHHHHhCCCCEEEeccccchhH-HHhhh
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLA-DS-EISPLILT-RGYAG-GDEV-RMLERHLLERPAKIGKNCINPKV-GSHLK 135 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~-~~-g~kvaIls-RGYg~-GDE~-~lla~~~~~~~v~v~~~~~~~~~-~~~~~ 135 (364)
-|..||- -|+||||++..|+..+. .+ +.++++++ .+|.- +-|- ..+++.+ |+++.+..+. .+. ..+..
T Consensus 193 vi~lvGp---nG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~il-Gvp~~~v~~~--~dl~~al~~ 266 (420)
T PRK14721 193 VYALIGP---TGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLL-GVSVRSIKDI--ADLQLMLHE 266 (420)
T ss_pred EEEEECC---CCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHc-CCceecCCCH--HHHHHHHHH
Confidence 4667884 59999999999998643 33 36777764 45543 2332 3355554 7777543321 111 12222
Q ss_pred cCCCCEEEEc-CCCCCc
Q 017904 136 SGKIGAVILD-DGMQHW 151 (364)
Q Consensus 136 ~~~~dviIlD-DgfQh~ 151 (364)
-.+.|+|++| -|+.|+
T Consensus 267 l~~~d~VLIDTaGrsqr 283 (420)
T PRK14721 267 LRGKHMVLIDTVGMSQR 283 (420)
T ss_pred hcCCCEEEecCCCCCcc
Confidence 3367899999 467664
No 209
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=90.19 E-value=0.79 Score=43.54 Aligned_cols=38 Identities=24% Similarity=0.390 Sum_probs=29.0
Q ss_pred hcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCC
Q 017904 50 RFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSE 91 (364)
Q Consensus 50 ~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g 91 (364)
..|+..... ..+++..|+ -|||||+++..+++.+.+.|
T Consensus 33 ~~g~~~~~~-~~~vll~Gp---pGtGKTtlA~~ia~~l~~~~ 70 (261)
T TIGR02881 33 EEGLKTSKQ-VLHMIFKGN---PGTGKTTVARILGKLFKEMN 70 (261)
T ss_pred HcCCCCCCC-cceEEEEcC---CCCCHHHHHHHHHHHHHhcC
Confidence 455444433 458999998 59999999999999997654
No 210
>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]
Probab=90.15 E-value=0.31 Score=47.25 Aligned_cols=35 Identities=29% Similarity=0.352 Sum_probs=27.1
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
|-++|+= |||||||++..|+.+|.. .|++..+==+
T Consensus 4 vAV~sGK--GGtGKTTva~~la~~l~~-~~~~~l~DcD 38 (284)
T COG1149 4 VAVASGK--GGTGKTTVAANLAVLLGD-KYKLVLADCD 38 (284)
T ss_pred EEEeecC--CCCChhhHHHHHHHHhcc-ccceEEEecC
Confidence 4556665 999999999999999965 4777776433
No 211
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=90.09 E-value=0.43 Score=44.43 Aligned_cols=40 Identities=25% Similarity=0.502 Sum_probs=30.2
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEE-Ee-cCCC
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLI-LT-RGYA 102 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaI-ls-RGYg 102 (364)
..+|.|.+- .|+||||++..|+..+...+-.+.| ++ .+|-
T Consensus 33 ~~iigi~G~--~GsGKTTl~~~L~~~l~~~~g~~~v~i~~D~~~ 74 (229)
T PRK09270 33 RTIVGIAGP--PGAGKSTLAEFLEALLQQDGELPAIQVPMDGFH 74 (229)
T ss_pred CEEEEEECC--CCCCHHHHHHHHHHHhhhccCCceEEEeccccc
Confidence 356777766 6999999999999999987766655 43 3454
No 212
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=89.96 E-value=0.5 Score=43.28 Aligned_cols=35 Identities=23% Similarity=0.135 Sum_probs=29.1
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
+.+.|. .|||||+++..++..+.++|.++..++-.
T Consensus 22 ~~i~G~---~GsGKT~l~~~~a~~~~~~g~~v~yi~~e 56 (218)
T cd01394 22 TQVYGP---PGTGKTNIAIQLAVETAGQGKKVAYIDTE 56 (218)
T ss_pred EEEECC---CCCCHHHHHHHHHHHHHhcCCeEEEEECC
Confidence 445553 79999999999999998889999999754
No 213
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=89.94 E-value=0.81 Score=44.35 Aligned_cols=40 Identities=28% Similarity=0.309 Sum_probs=31.0
Q ss_pred hcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCc
Q 017904 50 RFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEIS 93 (364)
Q Consensus 50 ~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~k 93 (364)
+.|+.. .....+|+..|+ -|||||+++..+++.+.+.|+.
T Consensus 49 ~~g~~~-~~~~~~vll~G~---pGTGKT~lA~~ia~~l~~~g~~ 88 (284)
T TIGR02880 49 RLGLAS-AAPTLHMSFTGN---PGTGKTTVALRMAQILHRLGYV 88 (284)
T ss_pred HhCCCc-CCCCceEEEEcC---CCCCHHHHHHHHHHHHHHcCCc
Confidence 556543 223458999998 5999999999999999887753
No 214
>PRK06835 DNA replication protein DnaC; Validated
Probab=89.82 E-value=0.46 Score=47.30 Aligned_cols=35 Identities=31% Similarity=0.330 Sum_probs=31.0
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
-.++..|+- |||||.++..+++.+.++|++|..++
T Consensus 184 ~~Lll~G~~---GtGKThLa~aIa~~l~~~g~~V~y~t 218 (329)
T PRK06835 184 ENLLFYGNT---GTGKTFLSNCIAKELLDRGKSVIYRT 218 (329)
T ss_pred CcEEEECCC---CCcHHHHHHHHHHHHHHCCCeEEEEE
Confidence 468999974 99999999999999999999887775
No 215
>PRK13976 thymidylate kinase; Provisional
Probab=89.73 E-value=0.88 Score=42.20 Aligned_cols=38 Identities=34% Similarity=0.514 Sum_probs=29.8
Q ss_pred EEEcCcccCCCCchHHHHHHHHHHHhC-CCceEEEecCCCC
Q 017904 64 ISVGNLTWGGNGKTPMVEFLAHCLADS-EISPLILTRGYAG 103 (364)
Q Consensus 64 IsVGNltvGGtGKTP~v~~L~~~L~~~-g~kvaIlsRGYg~ 103 (364)
|++=++ -||||||.+..|+++|+++ |...++++|.-|+
T Consensus 3 Iv~EGi--DGsGKsTq~~~L~~~L~~~~g~~~v~~~~eP~~ 41 (209)
T PRK13976 3 ITFEGI--DGSGKTTQSRLLAEYLSDIYGENNVVLTREPGG 41 (209)
T ss_pred EEEECC--CCCCHHHHHHHHHHHHHHhcCCcceEEeeCCCC
Confidence 444445 7999999999999999986 6545678887764
No 216
>COG3172 NadR Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]
Probab=89.71 E-value=0.33 Score=43.78 Aligned_cols=68 Identities=18% Similarity=0.202 Sum_probs=39.6
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC--------CchHHHHHHHhCCCCEEEeccccchhHHHh
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG--------GDEVRMLERHLLERPAKIGKNCINPKVGSH 133 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~--------GDE~~lla~~~~~~~v~v~~~~~~~~~~~~ 133 (364)
-|.+.|. -.||||+++..|++-+... .+=.||+ |||.+.++.. |. .. -+ .......
T Consensus 10 ~VailG~---ESsGKStLv~kLA~~fnt~------~~wEY~Re~v~~~l~gdeal~y~Dy-~~--ia--~G--q~~~~d~ 73 (187)
T COG3172 10 TVAILGG---ESSGKSTLVNKLANIFNTT------SAWEYGREYVFEHLGGDEALQYSDY-AK--IA--LG--QAAYEDA 73 (187)
T ss_pred eeeeecC---cccChHHHHHHHHHHhCCC------chhHHHHHHHHHHhCCchhhhhccH-HH--HH--hh--hHHHHHH
Confidence 4556665 3689999999999999542 2345653 7886655433 11 10 11 0011223
Q ss_pred hhcCCCCEEEEc
Q 017904 134 LKSGKIGAVILD 145 (364)
Q Consensus 134 ~~~~~~dviIlD 145 (364)
+......|+|+|
T Consensus 74 av~~a~~v~fiD 85 (187)
T COG3172 74 AVRYANKVAFID 85 (187)
T ss_pred HHhCCCceEEEe
Confidence 444556899999
No 217
>PRK05642 DNA replication initiation factor; Validated
Probab=89.66 E-value=0.51 Score=44.32 Aligned_cols=36 Identities=11% Similarity=0.170 Sum_probs=31.0
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
-|++..|+ -|||||-++.+++..+.++|.++..++-
T Consensus 46 ~~l~l~G~---~G~GKTHLl~a~~~~~~~~~~~v~y~~~ 81 (234)
T PRK05642 46 SLIYLWGK---DGVGRSHLLQAACLRFEQRGEPAVYLPL 81 (234)
T ss_pred CeEEEECC---CCCCHHHHHHHHHHHHHhCCCcEEEeeH
Confidence 58889997 4999999999999999888888877763
No 218
>PRK05339 PEP synthetase regulatory protein; Provisional
Probab=89.64 E-value=0.38 Score=46.59 Aligned_cols=42 Identities=26% Similarity=0.170 Sum_probs=31.3
Q ss_pred HhcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 49 YRFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 49 y~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
||-|.-...-...-||.|| |-=|||||+.+|||. +|+|||=+
T Consensus 132 hDDG~~~~~l~~ADIiLvG---VSRtsKTPlS~YLA~----~G~KvAN~ 173 (269)
T PRK05339 132 HDDGQDPRGLDEADVILVG---VSRTSKTPTSLYLAN----KGIKAANY 173 (269)
T ss_pred cCCCCCcCCcccCCEEEEC---cCCCCCcHHHHHHHc----cCCceEee
Confidence 5666444333346799999 789999999999986 48888744
No 219
>PRK11823 DNA repair protein RadA; Provisional
Probab=89.62 E-value=1.9 Score=44.65 Aligned_cols=77 Identities=18% Similarity=0.222 Sum_probs=44.6
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCC---CEEEeccccchh-HHHhhhcCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLER---PAKIGKNCINPK-VGSHLKSGK 138 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~---~v~v~~~~~~~~-~~~~~~~~~ 138 (364)
+...|. -|+|||+++..++..+.++|.++..++-.- .-++-.+-++++ +. .+.+... .+-. ....+.+.+
T Consensus 83 ~lI~G~---pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ee-s~~qi~~ra~rl-g~~~~~l~~~~e-~~l~~i~~~i~~~~ 156 (446)
T PRK11823 83 VLIGGD---PGIGKSTLLLQVAARLAAAGGKVLYVSGEE-SASQIKLRAERL-GLPSDNLYLLAE-TNLEAILATIEEEK 156 (446)
T ss_pred EEEECC---CCCCHHHHHHHHHHHHHhcCCeEEEEEccc-cHHHHHHHHHHc-CCChhcEEEeCC-CCHHHHHHHHHhhC
Confidence 344453 599999999999998887899999987321 111122224443 21 1222211 1111 223345567
Q ss_pred CCEEEEc
Q 017904 139 IGAVILD 145 (364)
Q Consensus 139 ~dviIlD 145 (364)
+++||+|
T Consensus 157 ~~lVVID 163 (446)
T PRK11823 157 PDLVVID 163 (446)
T ss_pred CCEEEEe
Confidence 9999999
No 220
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=89.57 E-value=0.28 Score=44.18 Aligned_cols=31 Identities=29% Similarity=0.340 Sum_probs=22.4
Q ss_pred CCCCchHHHHHHHHHH--------HhCCCceEEEecCCC
Q 017904 72 GGNGKTPMVEFLAHCL--------ADSEISPLILTRGYA 102 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L--------~~~g~kvaIlsRGYg 102 (364)
-|||||+++..++..+ ...+.++.|++.--.
T Consensus 26 PGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~ 64 (236)
T PF13086_consen 26 PGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNA 64 (236)
T ss_dssp TTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHH
T ss_pred CCCChHHHHHHHHHHhccchhhhhhhccccceeecCCch
Confidence 5999999999999988 445566666655543
No 221
>COG0455 flhG Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]
Probab=89.40 E-value=0.47 Score=45.75 Aligned_cols=36 Identities=33% Similarity=0.307 Sum_probs=25.1
Q ss_pred EEEEcCcccCCCCchHHHHHH-HHHHHhCCCceEEEec
Q 017904 63 VISVGNLTWGGNGKTPMVEFL-AHCLADSEISPLILTR 99 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L-~~~L~~~g~kvaIlsR 99 (364)
+|.|-+-- ||+|||+++..+ +-.++.+|.+|.++==
T Consensus 4 ~Iav~SgK-GGvGKTtitanlga~~~~~~~k~V~~iDa 40 (262)
T COG0455 4 VIAVVSGK-GGVGKTTITANLGAALAALGGKVVLLIDA 40 (262)
T ss_pred EEEEEecC-CCccHHHHHHhHHHHHHhhCCCeEEEEec
Confidence 45444443 999999999999 5566666666666633
No 222
>COG0489 Mrp ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=89.29 E-value=0.53 Score=45.30 Aligned_cols=32 Identities=31% Similarity=0.287 Sum_probs=28.8
Q ss_pred cCCCCchHHHHHHHHHHHhCCCceEEE-ecCCC
Q 017904 71 WGGNGKTPMVEFLAHCLADSEISPLIL-TRGYA 102 (364)
Q Consensus 71 vGGtGKTP~v~~L~~~L~~~g~kvaIl-sRGYg 102 (364)
.||.|||+++..||..+.+.|+||++| .-.||
T Consensus 66 kgGvGKStva~nLA~alA~~G~rVlliDaD~~g 98 (265)
T COG0489 66 KGGVGKSTVAVNLAAALAQLGKRVLLLDADLRG 98 (265)
T ss_pred CCCCcHHHHHHHHHHHHHhcCCcEEEEeCcCCC
Confidence 399999999999999999999999999 55555
No 223
>PRK12736 elongation factor Tu; Reviewed
Probab=89.23 E-value=2.1 Score=43.45 Aligned_cols=124 Identities=16% Similarity=0.247 Sum_probs=63.3
Q ss_pred CCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCCCEEEeccccchhHHHhhhc
Q 017904 57 HRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLERPAKIGKNCINPKVGSHLKS 136 (364)
Q Consensus 57 ~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~~v~v~~~~~~~~~~~~~~~ 136 (364)
.+..+-|.++|+. ++|||+++..|+....+.|..- .++|-.-|.- -.++-.|...-++. . ....
T Consensus 9 ~k~~~ni~i~Ghv---d~GKSTL~~~L~~~~~~~g~~~---~~~~~~~d~~--~~E~~rg~T~~~~~--~------~~~~ 72 (394)
T PRK12736 9 SKPHVNIGTIGHV---DHGKTTLTAAITKVLAERGLNQ---AKDYDSIDAA--PEEKERGITINTAH--V------EYET 72 (394)
T ss_pred CCCeeEEEEEccC---CCcHHHHHHHHHhhhhhhcccc---ccchhhhcCC--HHHHhcCccEEEEe--e------EecC
Confidence 3445678899998 8999999999987654433211 1111101111 11222343332211 0 1112
Q ss_pred CCCCEEEEc-CCCCCc-------cccCceeEEEEeCCCCCCCCccccCCCCCCchhh---hccccE-EEEcCCcchhhh
Q 017904 137 GKIGAVILD-DGMQHW-------SLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMA---LKRADI-AVVHHADLISEQ 203 (364)
Q Consensus 137 ~~~dviIlD-DgfQh~-------~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~---L~rAd~-ivvtk~d~~~~~ 203 (364)
.+..+.++| -|...+ .-.-|.-++|+|+..+.. +.-+|-+.. +....+ |++||.|+.+++
T Consensus 73 ~~~~i~~iDtPGh~~f~~~~~~~~~~~d~~llVvd~~~g~~-------~~t~~~~~~~~~~g~~~~IvviNK~D~~~~~ 144 (394)
T PRK12736 73 EKRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPM-------PQTREHILLARQVGVPYLVVFLNKVDLVDDE 144 (394)
T ss_pred CCcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCc-------hhHHHHHHHHHHcCCCEEEEEEEecCCcchH
Confidence 234677888 442111 001356689999987532 223333332 333334 679999987543
No 224
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=89.23 E-value=0.32 Score=42.19 Aligned_cols=24 Identities=42% Similarity=0.574 Sum_probs=20.9
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLA 88 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~ 88 (364)
-|...|.+ |+|||+++..+++.|.
T Consensus 24 ~i~l~G~l---GaGKTtl~~~l~~~lg 47 (133)
T TIGR00150 24 VVLLKGDL---GAGKTTLVQGLLQGLG 47 (133)
T ss_pred EEEEEcCC---CCCHHHHHHHHHHHcC
Confidence 46688887 9999999999999984
No 225
>KOG3022 consensus Predicted ATPase, nucleotide-binding [Cell cycle control, cell division, chromosome partitioning]
Probab=89.08 E-value=0.37 Score=46.83 Aligned_cols=39 Identities=31% Similarity=0.358 Sum_probs=31.7
Q ss_pred CCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHH
Q 017904 72 GGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRML 110 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~ll 110 (364)
||.||||++..|+..|...|.+++++==+-.+--=|.|+
T Consensus 57 GGVGKSTvt~nla~~La~~g~~vglLD~Dl~GPSiP~m~ 95 (300)
T KOG3022|consen 57 GGVGKSTVTVNLALALASEGKKVGLLDADLCGPSIPRMM 95 (300)
T ss_pred CCCchhHHHHHHHHHHhcCCCcEEEEeecccCCCchhhc
Confidence 999999999999999999999999996665443334444
No 226
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=88.94 E-value=0.63 Score=38.22 Aligned_cols=32 Identities=25% Similarity=0.382 Sum_probs=23.9
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
|+..|. =|||||+++..+++++ |..+.-++.+
T Consensus 1 ill~G~---~G~GKT~l~~~la~~l---~~~~~~i~~~ 32 (132)
T PF00004_consen 1 ILLHGP---PGTGKTTLARALAQYL---GFPFIEIDGS 32 (132)
T ss_dssp EEEESS---TTSSHHHHHHHHHHHT---TSEEEEEETT
T ss_pred CEEECc---CCCCeeHHHHHHHhhc---cccccccccc
Confidence 456675 4999999999999998 4556555443
No 227
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=88.92 E-value=2.5 Score=33.95 Aligned_cols=27 Identities=33% Similarity=0.267 Sum_probs=19.8
Q ss_pred CCCCchHHHHHHHHHHHhC--CCceEEEe
Q 017904 72 GGNGKTPMVEFLAHCLADS--EISPLILT 98 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~--g~kvaIls 98 (364)
-|||||.++..++..+... +.++.+++
T Consensus 9 ~G~GKT~~~~~~~~~~~~~~~~~~~lv~~ 37 (144)
T cd00046 9 TGSGKTLAALLPILELLDSLKGGQVLVLA 37 (144)
T ss_pred CCCchhHHHHHHHHHHHhcccCCCEEEEc
Confidence 4999999999999888753 34454443
No 228
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=88.44 E-value=2.7 Score=42.50 Aligned_cols=72 Identities=18% Similarity=0.179 Sum_probs=42.3
Q ss_pred CCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCC---CEEEeccccchh-HHHhhhcCCCCEEEEcC
Q 017904 72 GGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLER---PAKIGKNCINPK-VGSHLKSGKIGAVILDD 146 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~---~v~v~~~~~~~~-~~~~~~~~~~dviIlDD 146 (364)
.|+|||+++..++..+.++|.++..++-.-. -++..+.++++ +. .+.+... ..-+ ....+.+.++++||+|.
T Consensus 91 pG~GKStLllq~a~~~a~~g~~VlYvs~EEs-~~qi~~Ra~rl-g~~~~~l~l~~e-~~le~I~~~i~~~~~~lVVIDS 166 (372)
T cd01121 91 PGIGKSTLLLQVAARLAKRGGKVLYVSGEES-PEQIKLRADRL-GISTENLYLLAE-TNLEDILASIEELKPDLVIIDS 166 (372)
T ss_pred CCCCHHHHHHHHHHHHHhcCCeEEEEECCcC-HHHHHHHHHHc-CCCcccEEEEcc-CcHHHHHHHHHhcCCcEEEEcc
Confidence 6999999999999999888889988875421 12222333443 21 1121111 1111 22334456788888883
No 229
>PHA00547 hypothetical protein
Probab=88.42 E-value=0.91 Score=44.06 Aligned_cols=34 Identities=26% Similarity=0.529 Sum_probs=26.5
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
.++.|-+ |||||.+..+||.+.++++ ..+-|+ |+
T Consensus 78 s~i~G~L---GsGKTlLMT~LA~~~K~K~--~~lYSN-Y~ 111 (337)
T PHA00547 78 SVIIGKL---GTGKTLLLTYLSQTMKLLT--DEIYSN-YP 111 (337)
T ss_pred eEEeccC---CCchhHHHHHHHHHHHhhh--eeeeec-cC
Confidence 4567866 9999999999999999876 444444 54
No 230
>PRK12735 elongation factor Tu; Reviewed
Probab=88.36 E-value=2.5 Score=42.88 Aligned_cols=127 Identities=17% Similarity=0.269 Sum_probs=64.3
Q ss_pred CccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCCCEEEeccccchhHHHh
Q 017904 54 FSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLERPAKIGKNCINPKVGSH 133 (364)
Q Consensus 54 ~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~~v~v~~~~~~~~~~~~ 133 (364)
+...+..+-|.++|.. ++|||+++..|.....+.|..-. ++|-..|.- -.++-.|...-++. . .
T Consensus 6 ~~~~~~~~~i~iiGhv---d~GKSTL~~~L~~~~~~~g~~~~---~~~~~~d~~--~~E~~rGiT~~~~~--~------~ 69 (396)
T PRK12735 6 FERTKPHVNVGTIGHV---DHGKTTLTAAITKVLAKKGGGEA---KAYDQIDNA--PEEKARGITINTSH--V------E 69 (396)
T ss_pred cCCCCCeEEEEEECcC---CCCHHHHHHHHHHhhhhcCCccc---chhhhccCC--hhHHhcCceEEEee--e------E
Confidence 3445555678899998 79999999999876654432100 011001111 01222343222111 0 1
Q ss_pred hhcCCCCEEEEc-CCCCCc-------cccCceeEEEEeCCCCCCCCccccCCCCCCchhhhcc---ccEE-EEcCCcchh
Q 017904 134 LKSGKIGAVILD-DGMQHW-------SLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKR---ADIA-VVHHADLIS 201 (364)
Q Consensus 134 ~~~~~~dviIlD-DgfQh~-------~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~r---Ad~i-vvtk~d~~~ 201 (364)
....+..+.++| -|...+ .-.-|.=++|+|+..+. .+..+|-+..+.. -.+| ++||.|+.+
T Consensus 70 ~~~~~~~i~~iDtPGh~~f~~~~~~~~~~aD~~llVvda~~g~-------~~qt~e~l~~~~~~gi~~iivvvNK~Dl~~ 142 (396)
T PRK12735 70 YETANRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGP-------MPQTREHILLARQVGVPYIVVFLNKCDMVD 142 (396)
T ss_pred EcCCCcEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCC-------chhHHHHHHHHHHcCCCeEEEEEEecCCcc
Confidence 112234578888 342111 11235558999988742 3334454443332 2353 589999875
Q ss_pred hh
Q 017904 202 EQ 203 (364)
Q Consensus 202 ~~ 203 (364)
++
T Consensus 143 ~~ 144 (396)
T PRK12735 143 DE 144 (396)
T ss_pred hH
Confidence 43
No 231
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=88.32 E-value=3.8 Score=36.71 Aligned_cols=38 Identities=24% Similarity=0.191 Sum_probs=28.7
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCch
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDE 106 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE 106 (364)
+.+.|.- |||||.+...++.. .|.++..++..-.-++|
T Consensus 2 ~li~G~~---~sGKS~~a~~~~~~---~~~~~~y~at~~~~d~e 39 (169)
T cd00544 2 ILVTGGA---RSGKSRFAERLAAE---LGGPVTYIATAEAFDDE 39 (169)
T ss_pred EEEECCC---CCCHHHHHHHHHHh---cCCCeEEEEccCcCCHH
Confidence 4567764 99999999988765 57799999887654444
No 232
>PRK09183 transposase/IS protein; Provisional
Probab=88.29 E-value=0.7 Score=44.25 Aligned_cols=34 Identities=24% Similarity=0.223 Sum_probs=29.3
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
.|+.+|.- |||||.++..++..+..+|++|..++
T Consensus 104 ~v~l~Gp~---GtGKThLa~al~~~a~~~G~~v~~~~ 137 (259)
T PRK09183 104 NIVLLGPS---GVGKTHLAIALGYEAVRAGIKVRFTT 137 (259)
T ss_pred eEEEEeCC---CCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 57888974 99999999999998888899987764
No 233
>PRK07261 topology modulation protein; Provisional
Probab=88.28 E-value=0.43 Score=42.63 Aligned_cols=22 Identities=23% Similarity=0.502 Sum_probs=18.9
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHH
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
|+++|+ .||||||++..|++.+
T Consensus 3 i~i~G~---~GsGKSTla~~l~~~~ 24 (171)
T PRK07261 3 IAIIGY---SGSGKSTLARKLSQHY 24 (171)
T ss_pred EEEEcC---CCCCHHHHHHHHHHHh
Confidence 678885 7999999999998776
No 234
>PRK08181 transposase; Validated
Probab=88.25 E-value=0.65 Score=44.91 Aligned_cols=34 Identities=18% Similarity=0.307 Sum_probs=29.9
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
-++.+|+ -|||||-++..++..+.++|++|..++
T Consensus 108 nlll~Gp---~GtGKTHLa~Aia~~a~~~g~~v~f~~ 141 (269)
T PRK08181 108 NLLLFGP---PGGGKSHLAAAIGLALIENGWRVLFTR 141 (269)
T ss_pred eEEEEec---CCCcHHHHHHHHHHHHHHcCCceeeee
Confidence 3899997 499999999999999998999887764
No 235
>PF03618 Kinase-PPPase: Kinase/pyrophosphorylase; InterPro: IPR005177 This entry represents a family of uncharacterised proteins which are predicted to function as phosphotransferases.; GO: 0005524 ATP binding, 0016772 transferase activity, transferring phosphorus-containing groups
Probab=88.24 E-value=0.47 Score=45.60 Aligned_cols=42 Identities=19% Similarity=0.160 Sum_probs=30.9
Q ss_pred HhcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 49 YRFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 49 y~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
||-|.-...=...-||.|| |-=|||||+.+|||. +|+|||=+
T Consensus 126 ~DDG~~~~~l~~ADivLvG---VSRtsKTPlS~YLA~----~G~KvAN~ 167 (255)
T PF03618_consen 126 HDDGKNPRGLDEADIVLVG---VSRTSKTPLSMYLAN----KGYKVANV 167 (255)
T ss_pred ccCCCCccccccCCEEEEc---ccccCCCchhHHHHh----cCcceeec
Confidence 4555433333346799999 779999999999987 58888754
No 236
>TIGR00235 udk uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below
Probab=88.13 E-value=0.57 Score=42.83 Aligned_cols=34 Identities=24% Similarity=0.445 Sum_probs=25.9
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
-||+|.+- .|+||||++..|+..+.. .++++++.
T Consensus 7 ~vi~I~G~--sGsGKSTl~~~l~~~l~~--~~~~~i~~ 40 (207)
T TIGR00235 7 IIIGIGGG--SGSGKTTVARKIYEQLGK--LEIVIISQ 40 (207)
T ss_pred EEEEEECC--CCCCHHHHHHHHHHHhcc--cCCeEecc
Confidence 46666665 699999999999998864 35666654
No 237
>TIGR01499 folC folylpolyglutamate synthase/dihydrofolate synthase. A mutation study of the FolC gene of E. coli suggests that both activitities belong to the same active site. Because some examples are monofunctional (and these cannot be separated phylogenetically), the model is treated as subfamily, not equivalog.
Probab=88.04 E-value=1 Score=45.41 Aligned_cols=49 Identities=27% Similarity=0.389 Sum_probs=37.1
Q ss_pred HHHHhHhcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 44 LRHSFYRFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 44 ~R~~~y~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
+|+.+-..| .++. ..|||-|. |-.|||+++.++...|++.|+|++..+-
T Consensus 4 ~~~~l~~lg-~p~~--~~~vI~Vt----GTNGKgSt~~~l~~iL~~~g~~vg~~tS 52 (397)
T TIGR01499 4 MKKLLEALG-NPQD--LYPVIHVA----GTNGKGSTCAFLESILRAAGYKVGLFTS 52 (397)
T ss_pred HHHHHHHcC-CcHh--hCCEEEEe----CCCChHHHHHHHHHHHHHcCCCeeEEeC
Confidence 444444444 1222 35888887 7779999999999999999999999965
No 238
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=87.69 E-value=0.9 Score=41.24 Aligned_cols=35 Identities=23% Similarity=0.208 Sum_probs=29.5
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
+.+.|+ .|||||.+...++....++|.+++.++=.
T Consensus 15 ~~i~G~---~GsGKT~l~~~~~~~~~~~g~~v~yi~~e 49 (209)
T TIGR02237 15 TQIYGP---PGSGKTNICMILAVNAARQGKKVVYIDTE 49 (209)
T ss_pred EEEECC---CCCCHHHHHHHHHHHHHhCCCeEEEEECC
Confidence 445664 79999999999999888889999999775
No 239
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=87.60 E-value=1.7 Score=43.26 Aligned_cols=36 Identities=11% Similarity=0.058 Sum_probs=29.0
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
+.+.|. -|||||+|+..++...+++|.+++.++-..
T Consensus 58 teI~G~---~GsGKTtLaL~~~~~~~~~g~~v~yId~E~ 93 (321)
T TIGR02012 58 IEIYGP---ESSGKTTLALHAIAEAQKAGGTAAFIDAEH 93 (321)
T ss_pred EEEECC---CCCCHHHHHHHHHHHHHHcCCcEEEEcccc
Confidence 445554 599999999999998888899999886553
No 240
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=87.59 E-value=0.6 Score=46.81 Aligned_cols=34 Identities=18% Similarity=0.234 Sum_probs=27.0
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
.+.|++- ||||||.++..+..+++.+|..++++.
T Consensus 24 ~~fv~G~--~GtGKs~l~~~i~~~~~~~~~~~~~~a 57 (364)
T PF05970_consen 24 NFFVTGP--AGTGKSFLIKAIIDYLRSRGKKVLVTA 57 (364)
T ss_pred EEEEEcC--CCCChhHHHHHHHHHhccccceEEEec
Confidence 3444443 999999999999999998887777663
No 241
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=87.51 E-value=0.41 Score=43.34 Aligned_cols=34 Identities=26% Similarity=0.318 Sum_probs=28.1
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
..++++| .+|+|||+++..+.+....+++.+.+.
T Consensus 6 ~kivv~G---~~g~GKTtl~~~l~~~~~~~~~~~t~~ 39 (219)
T COG1100 6 FKIVVLG---DGGVGKTTLLNRLVGDEFPEGYPPTIG 39 (219)
T ss_pred EEEEEEc---CCCccHHHHHHHHhcCcCcccCCCcee
Confidence 5789999 489999999999999887777776554
No 242
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=87.45 E-value=0.53 Score=38.24 Aligned_cols=22 Identities=27% Similarity=0.527 Sum_probs=17.9
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHH
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
|+++|+ .|+|||+++..|+..-
T Consensus 2 I~V~G~---~g~GKTsLi~~l~~~~ 23 (119)
T PF08477_consen 2 IVVLGD---SGVGKTSLIRRLCGGE 23 (119)
T ss_dssp EEEECS---TTSSHHHHHHHHHHSS
T ss_pred EEEECc---CCCCHHHHHHHHhcCC
Confidence 789996 6999999988776543
No 243
>TIGR01085 murE UDP-N-acetylmuramyl-tripeptide synthetase. A close homolog, scoring just below the trusted cutoff, is found (with introns) in Arabidopsis thaliana. Its role is unknown.
Probab=87.25 E-value=0.68 Score=47.69 Aligned_cols=36 Identities=28% Similarity=0.311 Sum_probs=31.7
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
+.|||.|. |-.|||+++..+...|.+.|+++++++.
T Consensus 84 ~~~vI~IT----GTnGKTTT~~ml~~iL~~~g~~~~~~~t 119 (464)
T TIGR01085 84 KLKVIGVT----GTNGKTTTTSLIAQLLRLLGKKTGLIGT 119 (464)
T ss_pred ccEEEEEE----CCCCcHhHHHHHHHHHHHcCCCEEEECc
Confidence 46899987 8889999999999999999999987743
No 244
>PRK03846 adenylylsulfate kinase; Provisional
Probab=87.20 E-value=0.94 Score=41.15 Aligned_cols=33 Identities=27% Similarity=0.448 Sum_probs=25.9
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
+|++-+. .|+|||+++..|++.|..+|..+.++
T Consensus 26 ~i~i~G~--~GsGKSTla~~l~~~l~~~~~~~~~l 58 (198)
T PRK03846 26 VLWFTGL--SGSGKSTVAGALEEALHELGVSTYLL 58 (198)
T ss_pred EEEEECC--CCCCHHHHHHHHHHHHHhCCCCEEEE
Confidence 5555544 49999999999999998878766666
No 245
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=87.00 E-value=1 Score=41.44 Aligned_cols=36 Identities=19% Similarity=0.165 Sum_probs=29.5
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
|+.|.+- .|||||+++..++....+.|.++..++=.
T Consensus 25 i~~i~G~--~GsGKT~l~~~la~~~~~~~~~v~yi~~e 60 (225)
T PRK09361 25 ITQIYGP--PGSGKTNICLQLAVEAAKNGKKVIYIDTE 60 (225)
T ss_pred EEEEECC--CCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence 4444443 79999999999999888889999999876
No 246
>PRK14093 UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional
Probab=86.86 E-value=3.8 Score=42.59 Aligned_cols=34 Identities=29% Similarity=0.280 Sum_probs=28.7
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
+.+||.|. |-.||||++..++..|.+.|..++.+
T Consensus 107 ~~~vIgVT----GS~GKTTT~~ml~~iL~~~g~~~~~~ 140 (479)
T PRK14093 107 EAKVIAVT----GSVGKTSTKEALRGVLGAQGETHASV 140 (479)
T ss_pred CCCEEEEc----CCCCccHHHHHHHHHHHhcCCccCCC
Confidence 56899998 88899999999999999888765544
No 247
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=86.86 E-value=0.59 Score=41.38 Aligned_cols=36 Identities=28% Similarity=0.396 Sum_probs=26.8
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
+-=|+--|++ |+|||+|+..+++.|- .+-.|-|--|
T Consensus 25 g~Vv~L~GdL---GAGKTtf~rgi~~~Lg---~~~~V~SPTF 60 (149)
T COG0802 25 GDVVLLSGDL---GAGKTTLVRGIAKGLG---VDGNVKSPTF 60 (149)
T ss_pred CCEEEEEcCC---cCChHHHHHHHHHHcC---CCCcccCCCe
Confidence 3345667887 9999999999999994 3445656555
No 248
>PRK11519 tyrosine kinase; Provisional
Probab=86.76 E-value=1.3 Score=48.49 Aligned_cols=63 Identities=16% Similarity=0.050 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHHHHHhHhcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 33 LASSLYGISLFLRHSFYRFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 33 plS~lY~~~~~~R~~~y~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
|.|..-..+-.+|..+.-. . ...+..||.|-+- .||.|||+++..||..|...|.||.+|==.
T Consensus 502 p~s~~~Ea~r~lrt~l~~~---~-~~~~~kvi~vts~-~~geGKTt~a~nLA~~la~~g~rvLlID~D 564 (719)
T PRK11519 502 PTDLAIEAIRSLRTSLHFA---M-MQAQNNVLMMTGV-SPSIGKTFVCANLAAVISQTNKRVLLIDCD 564 (719)
T ss_pred CCCHHHHHHHHHHHHhhhh---c-cCCCceEEEEECC-CCCCCHHHHHHHHHHHHHhCCCcEEEEeCC
Confidence 4455555555666544221 1 1223468888775 499999999999999999999999999433
No 249
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=86.74 E-value=1 Score=42.21 Aligned_cols=34 Identities=18% Similarity=0.217 Sum_probs=27.2
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
-+..+|. -|||||+++..++..+.++|.++..++
T Consensus 26 ~~~i~G~---~G~GKTtl~~~~~~~~~~~g~~~~yi~ 59 (230)
T PRK08533 26 LILIEGD---ESTGKSILSQRLAYGFLQNGYSVSYVS 59 (230)
T ss_pred EEEEECC---CCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence 5777886 499999997666666667799998888
No 250
>PRK00090 bioD dithiobiotin synthetase; Reviewed
Probab=86.69 E-value=0.73 Score=42.37 Aligned_cols=27 Identities=26% Similarity=0.190 Sum_probs=25.0
Q ss_pred CCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 72 GGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
.|+|||.++..|++.|+++|++|+...
T Consensus 9 t~~GKT~vs~~L~~~l~~~g~~v~~~K 35 (222)
T PRK00090 9 TDVGKTVVTAALAQALREAGYSVAGYK 35 (222)
T ss_pred CCcCHHHHHHHHHHHHHHcCCceEEEe
Confidence 789999999999999999999998864
No 251
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=86.65 E-value=0.97 Score=41.87 Aligned_cols=39 Identities=18% Similarity=0.182 Sum_probs=31.5
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhC-CCceEEEecCCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADS-EISPLILTRGYA 102 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~-g~kvaIlsRGYg 102 (364)
-++.|+.- -|+|||.++..++..+..+ |.++..+|-+-.
T Consensus 14 ~l~lI~G~--~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~ 53 (242)
T cd00984 14 DLIIIAAR--PSMGKTAFALNIAENIAKKQGKPVLFFSLEMS 53 (242)
T ss_pred eEEEEEeC--CCCCHHHHHHHHHHHHHHhCCCceEEEeCCCC
Confidence 36677765 5999999999998877666 999999997753
No 252
>PRK13695 putative NTPase; Provisional
Probab=86.54 E-value=0.91 Score=40.20 Aligned_cols=29 Identities=28% Similarity=0.291 Sum_probs=24.1
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCce
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISP 94 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kv 94 (364)
+..+|. .|+|||+++..++..+++.|+++
T Consensus 3 i~ltG~---~G~GKTTll~~i~~~l~~~G~~~ 31 (174)
T PRK13695 3 IGITGP---PGVGKTTLVLKIAELLKEEGYKV 31 (174)
T ss_pred EEEECC---CCCCHHHHHHHHHHHHHHCCCeE
Confidence 556775 69999999999999998778764
No 253
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=86.53 E-value=1 Score=43.12 Aligned_cols=34 Identities=29% Similarity=0.397 Sum_probs=30.5
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
=++..|.. |||||-++.+++..+.++|++|.+++
T Consensus 107 nl~l~G~~---G~GKThLa~Ai~~~l~~~g~sv~f~~ 140 (254)
T COG1484 107 NLVLLGPP---GVGKTHLAIAIGNELLKAGISVLFIT 140 (254)
T ss_pred cEEEECCC---CCcHHHHHHHHHHHHHHcCCeEEEEE
Confidence 47888975 99999999999999998899999885
No 254
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=86.44 E-value=0.87 Score=44.61 Aligned_cols=34 Identities=26% Similarity=0.406 Sum_probs=26.3
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhC--CCceEEE
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADS--EISPLIL 97 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~--g~kvaIl 97 (364)
.-++++|. .|||||+++..|++++.+. +.++.++
T Consensus 133 ~~ilI~G~---tGSGKTTll~al~~~i~~~~~~~ri~ti 168 (299)
T TIGR02782 133 KNILVVGG---TGSGKTTLANALLAEIAKNDPTDRVVII 168 (299)
T ss_pred CeEEEECC---CCCCHHHHHHHHHHHhhccCCCceEEEE
Confidence 36777774 6999999999999998653 4566555
No 255
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=86.26 E-value=3.4 Score=42.90 Aligned_cols=78 Identities=19% Similarity=0.268 Sum_probs=44.0
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCCC---EEEeccccchh-HHHhhhcCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLERP---AKIGKNCINPK-VGSHLKSGK 138 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~~---v~v~~~~~~~~-~~~~~~~~~ 138 (364)
++.|++= -|+|||+++..++..+.++|.++..+|=.-. -++..+-++++ +.. ..+... .... ....+.+.+
T Consensus 96 vilI~G~--pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs-~~qi~~ra~rl-g~~~~~l~~~~e-~~~~~I~~~i~~~~ 170 (454)
T TIGR00416 96 LILIGGD--PGIGKSTLLLQVACQLAKNQMKVLYVSGEES-LQQIKMRAIRL-GLPEPNLYVLSE-TNWEQICANIEEEN 170 (454)
T ss_pred EEEEEcC--CCCCHHHHHHHHHHHHHhcCCcEEEEECcCC-HHHHHHHHHHc-CCChHHeEEcCC-CCHHHHHHHHHhcC
Confidence 4444443 5999999999999988888888888873321 11112223333 211 111111 1111 223345567
Q ss_pred CCEEEEc
Q 017904 139 IGAVILD 145 (364)
Q Consensus 139 ~dviIlD 145 (364)
+++||+|
T Consensus 171 ~~~vVID 177 (454)
T TIGR00416 171 PQACVID 177 (454)
T ss_pred CcEEEEe
Confidence 9999999
No 256
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=86.25 E-value=1.1 Score=41.55 Aligned_cols=36 Identities=14% Similarity=0.222 Sum_probs=29.7
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
-+++.|+ -|||||+++..++....++|.++..++-.
T Consensus 27 ~~~i~G~---~GsGKt~l~~~~~~~~~~~g~~~~y~~~e 62 (234)
T PRK06067 27 LILIEGD---HGTGKSVLSQQFVYGALKQGKKVYVITTE 62 (234)
T ss_pred EEEEECC---CCCChHHHHHHHHHHHHhCCCEEEEEEcC
Confidence 4667786 59999999999987665679999999875
No 257
>PRK05973 replicative DNA helicase; Provisional
Probab=86.23 E-value=1.1 Score=42.62 Aligned_cols=38 Identities=26% Similarity=0.176 Sum_probs=30.6
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
-+++.|. .|+|||.++..++....++|.++.++|=++.
T Consensus 66 l~LIaG~---PG~GKT~lalqfa~~~a~~Ge~vlyfSlEes 103 (237)
T PRK05973 66 LVLLGAR---PGHGKTLLGLELAVEAMKSGRTGVFFTLEYT 103 (237)
T ss_pred EEEEEeC---CCCCHHHHHHHHHHHHHhcCCeEEEEEEeCC
Confidence 3444443 6999999999998877778999999988874
No 258
>PRK06893 DNA replication initiation factor; Validated
Probab=86.22 E-value=1.1 Score=41.86 Aligned_cols=34 Identities=12% Similarity=0.267 Sum_probs=28.7
Q ss_pred c-EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 62 P-VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 62 P-VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
| ++..|.= |||||.++..++..+.++|.++..++
T Consensus 40 ~~l~l~G~~---G~GKThL~~ai~~~~~~~~~~~~y~~ 74 (229)
T PRK06893 40 PFFYIWGGK---SSGKSHLLKAVSNHYLLNQRTAIYIP 74 (229)
T ss_pred CeEEEECCC---CCCHHHHHHHHHHHHHHcCCCeEEee
Confidence 6 5788874 99999999999999988888876664
No 259
>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]
Probab=86.14 E-value=0.64 Score=43.52 Aligned_cols=26 Identities=31% Similarity=0.451 Sum_probs=22.1
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHH
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLA 88 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~ 88 (364)
.++|+|++- =|+|||+++..|++.|.
T Consensus 4 ~~~IvI~G~--IG~GKSTLa~~La~~l~ 29 (216)
T COG1428 4 AMVIVIEGM--IGAGKSTLAQALAEHLG 29 (216)
T ss_pred ccEEEEecc--cccCHHHHHHHHHHHhC
Confidence 368888765 49999999999999995
No 260
>PRK08084 DNA replication initiation factor; Provisional
Probab=86.08 E-value=1.2 Score=41.93 Aligned_cols=35 Identities=9% Similarity=0.033 Sum_probs=29.9
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
+++..|.= |||||.++..++..+.++|.++..++-
T Consensus 47 ~l~l~Gp~---G~GKThLl~a~~~~~~~~~~~v~y~~~ 81 (235)
T PRK08084 47 YIYLWSRE---GAGRSHLLHAACAELSQRGRAVGYVPL 81 (235)
T ss_pred eEEEECCC---CCCHHHHHHHHHHHHHhCCCeEEEEEH
Confidence 78899974 999999999999999888888777644
No 261
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=85.96 E-value=1 Score=42.52 Aligned_cols=37 Identities=19% Similarity=0.094 Sum_probs=29.1
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhC-CCceEEEecCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADS-EISPLILTRGY 101 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~-g~kvaIlsRGY 101 (364)
++.|+.- .|+|||+++..++..+..+ |.+|..+|=.-
T Consensus 32 ~~~i~g~--~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~ 69 (271)
T cd01122 32 LIILTAG--TGVGKTTFLREYALDLITQHGVRVGTISLEE 69 (271)
T ss_pred EEEEEcC--CCCCHHHHHHHHHHHHHHhcCceEEEEEccc
Confidence 5555544 5999999999998887655 99999998764
No 262
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=85.79 E-value=0.9 Score=43.12 Aligned_cols=35 Identities=17% Similarity=0.292 Sum_probs=27.7
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
.-|++.|. .||||||++.++++.+...+.++.++-
T Consensus 128 ~~ili~G~---tGSGKTT~l~all~~i~~~~~~iv~iE 162 (270)
T PF00437_consen 128 GNILISGP---TGSGKTTLLNALLEEIPPEDERIVTIE 162 (270)
T ss_dssp EEEEEEES---TTSSHHHHHHHHHHHCHTTTSEEEEEE
T ss_pred eEEEEECC---CccccchHHHHHhhhccccccceEEec
Confidence 46777775 599999999999999977656777663
No 263
>PRK14016 cyanophycin synthetase; Provisional
Probab=85.79 E-value=0.98 Score=49.61 Aligned_cols=37 Identities=32% Similarity=0.403 Sum_probs=32.4
Q ss_pred CCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 59 LPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 59 ~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
..+|||+|- |-.||||++..++..|+..|+++++.++
T Consensus 478 ~ripiIaVT----GTnGKTTTt~lla~iL~~~G~~vg~~~t 514 (727)
T PRK14016 478 GRIPIVAVT----GTNGKTTTTRLIAHILKLSGKRVGMTTT 514 (727)
T ss_pred CceeEEEEE----CCCCchHHHHHHHHHHHHcCCeEEEECC
Confidence 357999986 6669999999999999999999998876
No 264
>COG4107 PhnK ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=85.69 E-value=0.49 Score=43.54 Aligned_cols=59 Identities=25% Similarity=0.322 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHHHHhHhcCCCccCCCCCcEE-EEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 34 ASSLYGISLFLRHSFYRFGFFSKHRLPVPVI-SVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 34 lS~lY~~~~~~R~~~y~~gi~~~~~~~vPVI-sVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
+|.+|+-....|+.-|+. .|--|. +||. -|||||++...+...|.-.-=.+.--+|+-+
T Consensus 12 lsk~Yg~~~gc~~vsF~l-------~PGeVLgiVGE---SGSGKtTLL~~is~rl~p~~G~v~Y~~r~~~ 71 (258)
T COG4107 12 LSKLYGPGKGCRDVSFDL-------YPGEVLGIVGE---SGSGKTTLLKCISGRLTPDAGTVTYRMRDGQ 71 (258)
T ss_pred hhhhhCCCcCccccceee-------cCCcEEEEEec---CCCcHHhHHHHHhcccCCCCCeEEEEcCCCC
Confidence 588899888888877764 244555 5664 5999999999999887643336666666643
No 265
>COG1797 CobB Cobyrinic acid a,c-diamide synthase [Coenzyme metabolism]
Probab=85.53 E-value=0.83 Score=47.03 Aligned_cols=31 Identities=26% Similarity=0.321 Sum_probs=24.7
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceE
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPL 95 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kva 95 (364)
||+-|.= -|+|||+++.-|++.|+++|++|.
T Consensus 3 vvIAg~~--SG~GKTTvT~glm~aL~~rg~~Vq 33 (451)
T COG1797 3 VVIAGTS--SGSGKTTVTLGLMRALRRRGLKVQ 33 (451)
T ss_pred eEEecCC--CCCcHHHHHHHHHHHHHhcCCccc
Confidence 3444433 599999999999999999998773
No 266
>PF12846 AAA_10: AAA-like domain
Probab=85.51 E-value=1.1 Score=42.02 Aligned_cols=35 Identities=23% Similarity=0.327 Sum_probs=29.9
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
++++|- -|+|||+++..++..+...|..+.|+ .++
T Consensus 4 ~~i~G~---tGsGKT~~~~~l~~~~~~~g~~~~i~--D~~ 38 (304)
T PF12846_consen 4 TLILGK---TGSGKTTLLKNLLEQLIRRGPRVVIF--DPK 38 (304)
T ss_pred EEEECC---CCCcHHHHHHHHHHHHHHcCCCEEEE--cCC
Confidence 467774 49999999999999999999988888 665
No 267
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=85.34 E-value=3.1 Score=41.87 Aligned_cols=41 Identities=22% Similarity=0.037 Sum_probs=31.6
Q ss_pred cCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHh
Q 017904 71 WGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHL 114 (364)
Q Consensus 71 vGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~ 114 (364)
|-|+|||-++=.-+++..++|.+|+|.|--- |=-+.++.++
T Consensus 124 V~GaGKTEMif~~i~~al~~G~~vciASPRv---DVclEl~~Rl 164 (441)
T COG4098 124 VTGAGKTEMIFQGIEQALNQGGRVCIASPRV---DVCLELYPRL 164 (441)
T ss_pred ecCCCchhhhHHHHHHHHhcCCeEEEecCcc---cchHHHHHHH
Confidence 4699999999888888888999999998643 5545555444
No 268
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=85.28 E-value=1.1 Score=49.45 Aligned_cols=36 Identities=17% Similarity=0.238 Sum_probs=30.3
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
-+++.|. .|||||+++..+...+++.|++|..+.-.
T Consensus 370 ~~il~G~---aGTGKTtll~~i~~~~~~~g~~V~~~ApT 405 (744)
T TIGR02768 370 IAVVVGR---AGTGKSTMLKAAREAWEAAGYRVIGAALS 405 (744)
T ss_pred EEEEEec---CCCCHHHHHHHHHHHHHhCCCeEEEEeCc
Confidence 3567774 79999999999999999999999888654
No 269
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=85.28 E-value=1.3 Score=42.22 Aligned_cols=36 Identities=28% Similarity=0.227 Sum_probs=29.5
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
-+++.|. -|||||.++..++....++|.++..+|=.
T Consensus 38 ~~lI~G~---pGtGKT~l~~qf~~~~a~~Ge~vlyis~E 73 (259)
T TIGR03878 38 VINITGV---SDTGKSLMVEQFAVTQASRGNPVLFVTVE 73 (259)
T ss_pred EEEEEcC---CCCCHHHHHHHHHHHHHhCCCcEEEEEec
Confidence 3566675 59999999999888776779999999864
No 270
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=85.24 E-value=1.4 Score=39.30 Aligned_cols=35 Identities=26% Similarity=0.362 Sum_probs=27.4
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
.+|++-+. -|+|||++...|.+.+...|..+.++.
T Consensus 19 ~~i~i~G~--~GsGKstla~~l~~~l~~~~~~~~~l~ 53 (184)
T TIGR00455 19 VVIWLTGL--SGSGKSTIANALEKKLESKGYRVYVLD 53 (184)
T ss_pred eEEEEECC--CCCCHHHHHHHHHHHHHHcCCcEEEEC
Confidence 45655555 499999999999999988887666663
No 271
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=85.17 E-value=1.1 Score=39.24 Aligned_cols=29 Identities=31% Similarity=0.542 Sum_probs=21.2
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCC
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSE 91 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g 91 (364)
+..++++|. .|+|||.++.++.+.+.+.+
T Consensus 24 ~~~~ll~G~---~G~GKT~ll~~~~~~~~~~~ 52 (185)
T PF13191_consen 24 PRNLLLTGE---SGSGKTSLLRALLDRLAERG 52 (185)
T ss_dssp ---EEE-B----TTSSHHHHHHHHHHHHHHHT
T ss_pred CcEEEEECC---CCCCHHHHHHHHHHHHHhcC
Confidence 345777885 69999999999999998763
No 272
>PRK10865 protein disaggregation chaperone; Provisional
Probab=85.04 E-value=5.7 Score=44.57 Aligned_cols=40 Identities=28% Similarity=0.336 Sum_probs=28.6
Q ss_pred cCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCc
Q 017904 51 FGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEIS 93 (364)
Q Consensus 51 ~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~k 93 (364)
.|+..+.+...+++.+|. -|||||.++..|++.+...+..
T Consensus 589 ~gl~~~~~p~~~~Lf~Gp---~G~GKT~lA~aLa~~l~~~~~~ 628 (857)
T PRK10865 589 AGLSDPNRPIGSFLFLGP---TGVGKTELCKALANFMFDSDDA 628 (857)
T ss_pred hcccCCCCCCceEEEECC---CCCCHHHHHHHHHHHhhcCCCc
Confidence 344444443347888997 5999999999999998654433
No 273
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=84.81 E-value=1.4 Score=41.67 Aligned_cols=38 Identities=21% Similarity=0.105 Sum_probs=33.0
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
-+.+.|+= |||||.|+...+....++|.++..+|=...
T Consensus 25 ~~lI~G~p---GsGKT~f~~qfl~~~~~~ge~vlyvs~~e~ 62 (260)
T COG0467 25 VVLITGPP---GTGKTIFALQFLYEGAREGEPVLYVSTEES 62 (260)
T ss_pred EEEEEcCC---CCcHHHHHHHHHHHHHhcCCcEEEEEecCC
Confidence 57788874 999999999999988888999999998764
No 274
>CHL00181 cbbX CbbX; Provisional
Probab=84.74 E-value=1.3 Score=43.19 Aligned_cols=39 Identities=23% Similarity=0.252 Sum_probs=29.8
Q ss_pred hcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCC
Q 017904 50 RFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEI 92 (364)
Q Consensus 50 ~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~ 92 (364)
..|+..+ +.+.+++..|+ -|||||+++..+++.+.+.|+
T Consensus 50 ~~g~~~~-~~~~~ill~G~---pGtGKT~lAr~la~~~~~~g~ 88 (287)
T CHL00181 50 NLGLTSS-NPGLHMSFTGS---PGTGKTTVALKMADILYKLGY 88 (287)
T ss_pred HcCCCCC-CCCceEEEECC---CCCCHHHHHHHHHHHHHHcCC
Confidence 3465443 33557889998 599999999999999987665
No 275
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=84.69 E-value=1.1 Score=40.46 Aligned_cols=32 Identities=34% Similarity=0.575 Sum_probs=25.2
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
+|.|++. -||||||+...|++.| |++ .+|-|+
T Consensus 2 ~ItIsG~--pGsG~TTva~~lAe~~---gl~--~vsaG~ 33 (179)
T COG1102 2 VITISGL--PGSGKTTVARELAEHL---GLK--LVSAGT 33 (179)
T ss_pred EEEeccC--CCCChhHHHHHHHHHh---CCc--eeeccH
Confidence 6788888 6999999999999998 554 455443
No 276
>PF13500 AAA_26: AAA domain; PDB: 3OF5_A 2IOJ_A 4A0G_B 4A0R_A 4A0H_B 4A0F_B 3FMI_C 3FPA_D 3FMF_C 3FGN_A ....
Probab=84.55 E-value=0.97 Score=40.86 Aligned_cols=122 Identities=16% Similarity=0.125 Sum_probs=61.0
Q ss_pred CCCCchHHHHHHHHHHHhCCCceEEEe---cCCCCCchHHHHHHHhCCCCE------EEeccccchhHHHhhhcCCCCEE
Q 017904 72 GGNGKTPMVEFLAHCLADSEISPLILT---RGYAGGDEVRMLERHLLERPA------KIGKNCINPKVGSHLKSGKIGAV 142 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~g~kvaIls---RGYg~GDE~~lla~~~~~~~v------~v~~~~~~~~~~~~~~~~~~dvi 142 (364)
.|+|||.++..|++.|+++|.+|+... .|...++....+.+.+ +... .+... .+....++.+.+-..+
T Consensus 10 t~vGKT~vslgL~~~l~~~g~~v~~~KPi~~~~~~d~d~~~~~~~~-~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~ 86 (199)
T PF13500_consen 10 TGVGKTVVSLGLARALRRRGIKVGYFKPIQTGPEDDEDAELIRELF-GLSEPPDDPSPYTFD--EPASPHLAAELEGVDI 86 (199)
T ss_dssp SSSSHHHHHHHHHHHHHHTTSEEEEEEEEEESCCCSSHHHHHHHHC-CTCCCHHHHECEEES--SSS-HHHHHHHHT---
T ss_pred CCCCHHHHHHHHHHHHHhCCCceEEEeeeEecCCCCchHHHHHHHh-CCCcccccccccccC--cccCHHHHhhccCCcc
Confidence 689999999999999999999998653 3433222233333333 3211 11111 1111112211110111
Q ss_pred EEcCCCCCccccCceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcc
Q 017904 143 ILDDGMQHWSLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADL 199 (364)
Q Consensus 143 IlDDgfQh~~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~ 199 (364)
-+++-. +.+++++-|++|++...+.. ..+..+.+=--+.+--.|.+|+|.....
T Consensus 87 ~~~~i~-~~~l~~~~D~vlVEGag~~~--~~~~~~~~n~dia~~L~a~vIlV~~~~~ 140 (199)
T PF13500_consen 87 DLERII-YKELAEEYDVVLVEGAGGLM--VPIFSGDLNADIAKALGAPVILVASGRL 140 (199)
T ss_dssp -HHHHH-HHHCHTTTCEEEEEESSSTT--SECCTTEEHHHHHHHHT-EEEEEEESST
T ss_pred cHHHHH-HHHHhhcCCEEEEeCCcccC--cccccChHHHHHHHHcCCCEEEEeCCCC
Confidence 133322 45678889999999766543 1121221100111333568888876544
No 277
>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.
Probab=84.54 E-value=3.7 Score=40.85 Aligned_cols=36 Identities=11% Similarity=0.009 Sum_probs=29.7
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
+.+.|. .|||||+++..++...+++|.+++.++-..
T Consensus 58 teI~Gp---~GsGKTtLal~~~~~~~~~g~~~vyId~E~ 93 (325)
T cd00983 58 IEIYGP---ESSGKTTLALHAIAEAQKLGGTVAFIDAEH 93 (325)
T ss_pred EEEECC---CCCCHHHHHHHHHHHHHHcCCCEEEECccc
Confidence 445553 699999999999999888999999997654
No 278
>TIGR00379 cobB cobyrinic acid a,c-diamide synthase. This model describes cobyrinic acid a,c-diamide synthase, the cobB (cbiA in Salmonella) protein of cobalamin biosynthesis. It is responsible for the amidation of carboxylic groups at positions A and C of either cobyrinic acid or hydrogenobrynic acid. NH(2) groups are provided by glutamine and one molecule of ATP hydrogenolyzed for each amidation.
Probab=84.52 E-value=1 Score=46.62 Aligned_cols=42 Identities=14% Similarity=0.087 Sum_probs=32.9
Q ss_pred cCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHH
Q 017904 71 WGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERH 113 (364)
Q Consensus 71 vGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~ 113 (364)
-.|+|||.++..|++.|+++|++|+...-|-. +.+|..+...
T Consensus 8 ~t~vGKT~vt~~L~~~L~~~G~~V~~fK~g~d-~~D~~~~~~~ 49 (449)
T TIGR00379 8 SSGVGKTTISTGIMKALSRRKLRVQPFKVGPD-YIDPMFHTQA 49 (449)
T ss_pred CCCCcHHHHHHHHHHHHHHCCCceeEEccCCC-CCCHHHHHHH
Confidence 37899999999999999999999999987632 2345544443
No 279
>cd02030 NDUO42 NADH:Ubiquinone oxioreductase, 42 kDa (NDUO42) is a family of proteins that are highly similar to deoxyribonucleoside kinases (dNK). Members of this family have been identified as one of the subunits of NADH:Ubiquinone oxioreductase (complex I), a multi-protein complex located in the inner mitochondrial membrane. The main function of the complex is to transport electrons from NADH to ubiquinone, which is accompanied by the translocation of protons from the mitochondrial matrix to the inter membrane space.
Probab=84.46 E-value=0.76 Score=42.59 Aligned_cols=23 Identities=30% Similarity=0.348 Sum_probs=18.4
Q ss_pred EEEcCcccCCCCchHHHHHHHHHHHh
Q 017904 64 ISVGNLTWGGNGKTPMVEFLAHCLAD 89 (364)
Q Consensus 64 IsVGNltvGGtGKTP~v~~L~~~L~~ 89 (364)
++=||+ ||||||++..|++.|..
T Consensus 3 ~iEG~~---GsGKSTl~~~L~~~l~~ 25 (219)
T cd02030 3 TVDGNI---ASGKGKLAKELAEKLGM 25 (219)
T ss_pred EEEcCC---CCCHHHHHHHHHHHhCC
Confidence 344555 99999999999999853
No 280
>PRK06547 hypothetical protein; Provisional
Probab=84.31 E-value=1.1 Score=40.33 Aligned_cols=25 Identities=24% Similarity=0.316 Sum_probs=19.6
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHH
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
..+|.|.+. .|||||+++..|++.+
T Consensus 15 ~~~i~i~G~--~GsGKTt~a~~l~~~~ 39 (172)
T PRK06547 15 MITVLIDGR--SGSGKTTLAGALAART 39 (172)
T ss_pred CEEEEEECC--CCCCHHHHHHHHHHHh
Confidence 456666444 6999999999999875
No 281
>PRK00139 murE UDP-N-acetylmuramoylalanyl-D-glutamate--2,6-diaminopimelate ligase; Provisional
Probab=84.30 E-value=2 Score=44.26 Aligned_cols=36 Identities=28% Similarity=0.309 Sum_probs=31.9
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
..|||.|. |-.|||+++..+...|++.|++++..++
T Consensus 94 ~~~vI~IT----GTnGKTTT~~~l~~iL~~~g~~~~~~gn 129 (460)
T PRK00139 94 KLKLIGVT----GTNGKTTTAYLLAQILRLLGEKTALIGT 129 (460)
T ss_pred ccEEEEEE----CCCCchhHHHHHHHHHHHcCCCEEEECC
Confidence 45899988 8889999999999999999999988765
No 282
>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+). This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.
Probab=84.29 E-value=0.82 Score=41.82 Aligned_cols=32 Identities=16% Similarity=0.440 Sum_probs=23.4
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
||.|++. .|||||+++..|++.+. .+.+++-+
T Consensus 1 ii~i~G~--sgsGKTtla~~l~~~~~----~~~~i~~D 32 (187)
T cd02024 1 IVGISGV--TNSGKTTLAKLLQRILP----NCCVIHQD 32 (187)
T ss_pred CEEEECC--CCCCHHHHHHHHHHHcC----CCeEEccc
Confidence 4566655 59999999999999873 35566543
No 283
>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=84.27 E-value=4.3 Score=41.09 Aligned_cols=56 Identities=18% Similarity=0.277 Sum_probs=31.8
Q ss_pred CceeEEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcch-hhhhhHHHHHHHHh
Q 017904 155 RDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLI-SEQNLKDIELEMRD 214 (364)
Q Consensus 155 rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~~-~~~~~~~i~~~l~~ 214 (364)
-|+-|+|+|+..++.....-- ++. .......-++|+||.|+. +++..+.+.+.+..
T Consensus 255 ad~~ilV~D~~~~~~~~~~~~---~~~-~~~~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~ 311 (429)
T TIGR03594 255 ADVVLLVLDATEGITEQDLRI---AGL-ILEAGKALVIVVNKWDLVKDEKTREEFKKELRR 311 (429)
T ss_pred CCEEEEEEECCCCccHHHHHH---HHH-HHHcCCcEEEEEECcccCCCHHHHHHHHHHHHH
Confidence 356688899887654321110 111 112245678999999987 44455555555543
No 284
>PRK12374 putative dithiobiotin synthetase; Provisional
Probab=84.16 E-value=1.1 Score=41.75 Aligned_cols=27 Identities=22% Similarity=0.114 Sum_probs=25.0
Q ss_pred CCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 72 GGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
.|+|||.++..|++.|+++|++|+...
T Consensus 12 t~vGKT~vt~~L~~~l~~~g~~v~~~K 38 (231)
T PRK12374 12 TSVGKTVVSRALLQALASQGKTVAGYK 38 (231)
T ss_pred CCCCHHHHHHHHHHHHHHCCCeEEEEC
Confidence 689999999999999999999998873
No 285
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=84.13 E-value=1.2 Score=37.42 Aligned_cols=31 Identities=26% Similarity=0.502 Sum_probs=22.5
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
|+++|- -|||||+++..+++.+. ..+++.+.
T Consensus 2 ii~~G~---pgsGKSt~a~~l~~~~~-----~~~i~~D~ 32 (143)
T PF13671_consen 2 IILCGP---PGSGKSTLAKRLAKRLG-----AVVISQDE 32 (143)
T ss_dssp EEEEES---TTSSHHHHHHHHHHHST-----EEEEEHHH
T ss_pred EEEECC---CCCCHHHHHHHHHHHCC-----CEEEeHHH
Confidence 456663 59999999999988774 55676543
No 286
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=84.11 E-value=3.8 Score=42.37 Aligned_cols=77 Identities=18% Similarity=0.212 Sum_probs=42.3
Q ss_pred CCCEEEEc-CCCCCc-------cccCceeEEEEeCCCCCCCCccccCCCCCCchhhhcc---ccE-EEEcCCcch----h
Q 017904 138 KIGAVILD-DGMQHW-------SLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMALKR---ADI-AVVHHADLI----S 201 (364)
Q Consensus 138 ~~dviIlD-DgfQh~-------~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L~r---Ad~-ivvtk~d~~----~ 201 (364)
+..+.|+| -|...+ .-.-|.=|+|+|+..+....-.-+.+-.||-+..+.. -.+ |++||.|.. +
T Consensus 84 ~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~gi~~iiv~vNKmD~~~~~~~ 163 (446)
T PTZ00141 84 KYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTLGVKQMIVCINKMDDKTVNYS 163 (446)
T ss_pred CeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHcCCCeEEEEEEccccccchhh
Confidence 45678888 341111 1134566899999886432112234556666554332 244 689999932 3
Q ss_pred hhhhHHHHHHHHh
Q 017904 202 EQNLKDIELEMRD 214 (364)
Q Consensus 202 ~~~~~~i~~~l~~ 214 (364)
++..+.+.+.+..
T Consensus 164 ~~~~~~i~~~i~~ 176 (446)
T PTZ00141 164 QERYDEIKKEVSA 176 (446)
T ss_pred HHHHHHHHHHHHH
Confidence 4455555555554
No 287
>PRK00141 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=84.02 E-value=1.6 Score=45.37 Aligned_cols=36 Identities=25% Similarity=0.396 Sum_probs=30.7
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
|.++|.|. |-.||||++..++..|++.|++++.+.+
T Consensus 120 ~~~vIaVT----GTnGKTTTt~ml~~iL~~~g~~~~~~Gn 155 (473)
T PRK00141 120 PRTWLAVT----GTNGKTTTTAMLAAMMQEGGFAAQAVGN 155 (473)
T ss_pred CCCEEEEe----CCCcHHHHHHHHHHHHHhcCCcEEEecc
Confidence 44788877 7889999999999999999999887655
No 288
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=83.99 E-value=1.5 Score=41.61 Aligned_cols=38 Identities=24% Similarity=0.176 Sum_probs=27.4
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCC----CceEEEecC
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSE----ISPLILTRG 100 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g----~kvaIlsRG 100 (364)
.-|+++.|. -|||||+++..-+.+|..++ .++.++|--
T Consensus 13 ~~~~lV~a~---AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft 54 (315)
T PF00580_consen 13 EGPLLVNAG---AGSGKTTTLLERIAYLLYEGGVPPERILVLTFT 54 (315)
T ss_dssp SSEEEEEE----TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESS
T ss_pred CCCEEEEeC---CCCCchHHHHHHHHHhhccccCChHHheecccC
Confidence 458888885 69999998877766665554 567777744
No 289
>PRK06851 hypothetical protein; Provisional
Probab=83.87 E-value=0.99 Score=45.66 Aligned_cols=29 Identities=21% Similarity=0.367 Sum_probs=24.7
Q ss_pred CCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 72 GGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
-|||||+++..+++.+.++|++|.+.--+
T Consensus 223 pG~GKstl~~~i~~~a~~~G~~v~~~hC~ 251 (367)
T PRK06851 223 PGTGKSTMLKKIAKAAEERGFDVEVYHCG 251 (367)
T ss_pred CCCcHHHHHHHHHHHHHhCCCeEEEEeCC
Confidence 39999999999999999988888776433
No 290
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=83.85 E-value=1.4 Score=45.54 Aligned_cols=35 Identities=29% Similarity=0.401 Sum_probs=31.1
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
-|++..|+- |+|||.++..++..+.++|.++..++
T Consensus 142 npl~L~G~~---G~GKTHLl~Ai~~~l~~~~~~v~yi~ 176 (445)
T PRK12422 142 NPIYLFGPE---GSGKTHLMQAAVHALRESGGKILYVR 176 (445)
T ss_pred ceEEEEcCC---CCCHHHHHHHHHHHHHHcCCCEEEee
Confidence 489999986 99999999999999988888887775
No 291
>KOG3877 consensus NADH:ubiquinone oxidoreductase, NDUFA10/42kDa subunit [Energy production and conversion]
Probab=83.68 E-value=0.91 Score=44.39 Aligned_cols=39 Identities=36% Similarity=0.440 Sum_probs=27.6
Q ss_pred CcEEEE-cCcccCCCCchHHHHHHHHHHHhCCC---ce-EEEecCCC
Q 017904 61 VPVISV-GNLTWGGNGKTPMVEFLAHCLADSEI---SP-LILTRGYA 102 (364)
Q Consensus 61 vPVIsV-GNltvGGtGKTP~v~~L~~~L~~~g~---kv-aIlsRGYg 102 (364)
-.|||| ||| |||||.++..||+.|--.-+ +. -|.-..||
T Consensus 71 SkvI~VeGnI---~sGK~klAKelAe~Lgf~hfP~~~~d~iyvdsyg 114 (393)
T KOG3877|consen 71 SKVIVVEGNI---GSGKTKLAKELAEQLGFVHFPEFRMDDIYVDSYG 114 (393)
T ss_pred ceEEEEeCCc---ccCchhHHHHHHHHhCCcccccccccceeecccC
Confidence 467766 888 99999999999999843322 22 24456676
No 292
>PRK06217 hypothetical protein; Validated
Probab=83.68 E-value=0.92 Score=40.62 Aligned_cols=23 Identities=30% Similarity=0.400 Sum_probs=19.7
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
.|+++|+ .|||||++...|++.|
T Consensus 3 ~I~i~G~---~GsGKSTla~~L~~~l 25 (183)
T PRK06217 3 RIHITGA---SGSGTTTLGAALAERL 25 (183)
T ss_pred EEEEECC---CCCCHHHHHHHHHHHc
Confidence 3677885 6999999999999887
No 293
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=83.56 E-value=1.2 Score=42.07 Aligned_cols=28 Identities=32% Similarity=0.455 Sum_probs=21.9
Q ss_pred CCCcEEEEcCcccCCCCchHHHHHHHHHHH
Q 017904 59 LPVPVISVGNLTWGGNGKTPMVEFLAHCLA 88 (364)
Q Consensus 59 ~~vPVIsVGNltvGGtGKTP~v~~L~~~L~ 88 (364)
-+..||+|-+. ||+|||+++..+++...
T Consensus 17 ~~~~~v~I~G~--~G~GKT~LA~~~~~~~~ 44 (287)
T PF00931_consen 17 NEVRVVAIVGM--GGIGKTTLARQVARDLR 44 (287)
T ss_dssp TSSEEEEEEES--TTSSHHHHHHHHHCHHH
T ss_pred CCeEEEEEEcC--CcCCcceeeeecccccc
Confidence 34567766665 99999999999998743
No 294
>PRK10846 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional
Probab=83.51 E-value=2.6 Score=42.86 Aligned_cols=53 Identities=17% Similarity=0.103 Sum_probs=39.1
Q ss_pred HHHHHHHhHhcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 41 SLFLRHSFYRFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 41 ~~~~R~~~y~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
+-++++.+-..|- +. ...++|.|. |-.|||+++.++...|++.|+||+..+-.
T Consensus 32 l~~~~~ll~~lg~--p~-~~~~~I~Vt----GTNGKgSt~~~l~~iL~~~G~~vG~~tSp 84 (416)
T PRK10846 32 LERVSQVAARLDL--LK-PAPFVFTVA----GTNGKGTTCRTLESILMAAGYRVGVYSSP 84 (416)
T ss_pred hHHHHHHHHHhCC--Cc-cCCCEEEEE----CCCChHHHHHHHHHHHHHcCCCceEECCC
Confidence 3455555555541 12 123788776 67799999999999999999999999854
No 295
>PRK01438 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=83.49 E-value=1.6 Score=45.06 Aligned_cols=36 Identities=33% Similarity=0.531 Sum_probs=31.4
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
+.|+|.|. |-.||||++..++..|++.|.+++...+
T Consensus 121 ~~~~I~VT----GTnGKTTTt~mi~~iL~~~g~~~~~~Gn 156 (480)
T PRK01438 121 PAPWLAVT----GTNGKTTTVQMLASMLRAAGLRAAAVGN 156 (480)
T ss_pred CCCEEEEe----CCCcHHHHHHHHHHHHHHcCCCeEEECC
Confidence 56899887 7889999999999999999999887754
No 296
>PRK01390 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=83.47 E-value=1.6 Score=44.86 Aligned_cols=35 Identities=26% Similarity=0.414 Sum_probs=29.8
Q ss_pred CCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 59 LPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 59 ~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
.+.|||.|. |-.||||++..++..|++.|+++++-
T Consensus 112 ~~~~vI~VT----GT~GKTTTt~ll~~iL~~~g~~~~~~ 146 (460)
T PRK01390 112 PDAPFIAIT----GTNGKSTTTALIAHILREAGRDVQMG 146 (460)
T ss_pred CCCCEEEEe----CCCcHHHHHHHHHHHHHhcCCCeEEc
Confidence 456899987 88899999999999999999887543
No 297
>KOG0063 consensus RNAse L inhibitor, ABC superfamily [RNA processing and modification]
Probab=83.34 E-value=1.1 Score=46.42 Aligned_cols=32 Identities=31% Similarity=0.387 Sum_probs=23.0
Q ss_pred cCCCCchHHHHHHHHHHH-hCCCceEEEecCCC
Q 017904 71 WGGNGKTPMVEFLAHCLA-DSEISPLILTRGYA 102 (364)
Q Consensus 71 vGGtGKTP~v~~L~~~L~-~~g~kvaIlsRGYg 102 (364)
-+|||||+|+.++|..++ ..|-.+-+++-.|.
T Consensus 375 EngtgkTTfi~mlag~~~pd~~~e~p~lnVSyk 407 (592)
T KOG0063|consen 375 ENGTGKTTFIRMLAGRLKPDEGGEIPVLNVSYK 407 (592)
T ss_pred cCCcchhHHHHHHhcCCCCCccCcccccceecc
Confidence 489999999999998775 33444555555554
No 298
>TIGR02068 cya_phycin_syn cyanophycin synthetase. Cyanophycin synthesis is analogous to polyhydroxyalkanoic acid (PHA) biosynthesis, except that PHA polymers lack nitrogen and may be made under nitrogen-limiting conditions.
Probab=83.01 E-value=1.4 Score=49.31 Aligned_cols=37 Identities=32% Similarity=0.434 Sum_probs=31.4
Q ss_pred CCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 59 LPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 59 ~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
..+|||.|. |-.|||+++..++..|++.|++++..+.
T Consensus 477 ~~ipiI~VT----GTNGKTTTt~mia~IL~~~G~~vG~~tS 513 (864)
T TIGR02068 477 GRIPIVSVT----GTNGKTTTTRLVAHILKQTGKVVGMTTT 513 (864)
T ss_pred CceEEEEEe----CCCCHhHHHHHHHHHHHHCCCcEEEecC
Confidence 347899987 6669999999999999999999987543
No 299
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=82.89 E-value=2 Score=39.62 Aligned_cols=36 Identities=22% Similarity=0.119 Sum_probs=27.7
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
-+++.|. -|||||+++..++....++|.++..++-+
T Consensus 22 ~~~i~G~---~G~GKT~l~~~~~~~~~~~g~~~~~is~e 57 (229)
T TIGR03881 22 FVAVTGE---PGTGKTIFCLHFAYKGLRDGDPVIYVTTE 57 (229)
T ss_pred EEEEECC---CCCChHHHHHHHHHHHHhcCCeEEEEEcc
Confidence 4667775 59999999998876555678888888753
No 300
>PRK13946 shikimate kinase; Provisional
Probab=82.56 E-value=1.3 Score=39.75 Aligned_cols=26 Identities=35% Similarity=0.301 Sum_probs=21.7
Q ss_pred CCCcEEEEcCcccCCCCchHHHHHHHHHH
Q 017904 59 LPVPVISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 59 ~~vPVIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
.+-.|+.+|- .|||||++...|++.|
T Consensus 9 ~~~~I~l~G~---~GsGKsti~~~LA~~L 34 (184)
T PRK13946 9 GKRTVVLVGL---MGAGKSTVGRRLATML 34 (184)
T ss_pred CCCeEEEECC---CCCCHHHHHHHHHHHc
Confidence 3446788884 6999999999999998
No 301
>PLN02913 dihydrofolate synthetase
Probab=82.55 E-value=2.8 Score=44.10 Aligned_cols=53 Identities=23% Similarity=0.230 Sum_probs=40.4
Q ss_pred HHHHHHhHhcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 42 LFLRHSFYRFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 42 ~~~R~~~y~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
-++++.+-..| .++. ..|||-|. |-.||++++.+|...|++.|+||+.-+--+
T Consensus 59 ~r~~~ll~~LG-~P~~--~~~vIhVa----GTNGKGSt~a~l~~iL~~aG~~vG~fTSPH 111 (510)
T PLN02913 59 GRMRRLMDRLG-NPHS--KFKAVHVA----GTKGKGSTAAFLSNILRAQGYSVGCYTSPH 111 (510)
T ss_pred HHHHHHHHHcC-Cchh--hCcEEEEe----CCCchHHHHHHHHHHHHhcCCCeEEECCCC
Confidence 35666666666 2232 34799887 677999999999999999999999985433
No 302
>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.
Probab=82.47 E-value=1.2 Score=39.93 Aligned_cols=21 Identities=38% Similarity=0.648 Sum_probs=17.0
Q ss_pred EEEcCcccCCCCchHHHHHHHHHH
Q 017904 64 ISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 64 IsVGNltvGGtGKTP~v~~L~~~L 87 (364)
++-|+. ||||||++..|.+++
T Consensus 3 ~ieG~~---GsGKSTl~~~L~~~~ 23 (193)
T cd01673 3 VVEGNI---GAGKSTLAKELAEHL 23 (193)
T ss_pred EEECCC---CCCHHHHHHHHHHHh
Confidence 445555 999999999999875
No 303
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=82.17 E-value=1.5 Score=38.62 Aligned_cols=26 Identities=19% Similarity=0.174 Sum_probs=20.7
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHH
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
.+|+|+|-+. -||||||+...|++.+
T Consensus 2 ~~~ii~i~G~--~GsGKsTl~~~l~~~~ 27 (188)
T TIGR01360 2 KCKIIFIVGG--PGSGKGTQCEKIVEKY 27 (188)
T ss_pred CCcEEEEECC--CCCCHHHHHHHHHHHh
Confidence 4677765554 6999999999999877
No 304
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=82.05 E-value=0.97 Score=39.86 Aligned_cols=36 Identities=25% Similarity=0.227 Sum_probs=25.4
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
+++.+| .-|+|||+++..|++.+...+..+.+.+|-
T Consensus 3 ii~l~G---~~GsGKsTl~~~L~~~~~~~~~~~~~~tr~ 38 (180)
T TIGR03263 3 LIVISG---PSGVGKSTLVKALLEEDPNLKFSISATTRK 38 (180)
T ss_pred EEEEEC---CCCCCHHHHHHHHHccCccccccccceeeC
Confidence 577788 469999999999998775444444444543
No 305
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=81.95 E-value=3 Score=41.11 Aligned_cols=31 Identities=26% Similarity=0.381 Sum_probs=24.0
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
+|.|++. .||||||++..|++.| |.. .|++.
T Consensus 94 iIlI~G~--sgsGKStlA~~La~~l---~~~-~vi~~ 124 (301)
T PRK04220 94 IILIGGA--SGVGTSTIAFELASRL---GIR-SVIGT 124 (301)
T ss_pred EEEEECC--CCCCHHHHHHHHHHHh---CCC-EEEec
Confidence 5667776 5999999999999999 444 46653
No 306
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=81.91 E-value=1.8 Score=46.94 Aligned_cols=34 Identities=24% Similarity=0.266 Sum_probs=29.6
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
.+++.|. -|||||+++..++.++.++|.+|.+++
T Consensus 175 ~~lI~Gp---PGTGKT~t~~~ii~~~~~~g~~VLv~a 208 (637)
T TIGR00376 175 LFLIHGP---PGTGKTRTLVELIRQLVKRGLRVLVTA 208 (637)
T ss_pred eEEEEcC---CCCCHHHHHHHHHHHHHHcCCCEEEEc
Confidence 4667775 599999999999999988999999988
No 307
>PRK00784 cobyric acid synthase; Provisional
Probab=81.88 E-value=1.2 Score=46.54 Aligned_cols=29 Identities=21% Similarity=0.153 Sum_probs=24.9
Q ss_pred cCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 71 WGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 71 vGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
-.|+|||.++..|++.|+++|++|+...-
T Consensus 11 ~T~vGKT~vt~~L~~~l~~~G~~v~~~Kp 39 (488)
T PRK00784 11 ASDAGKSTLVAGLCRILARRGYRVAPFKA 39 (488)
T ss_pred CCCCcHHHHHHHHHHHHHHCCCeEecccc
Confidence 37899999999999999999988776543
No 308
>PHA00729 NTP-binding motif containing protein
Probab=81.86 E-value=2.2 Score=40.28 Aligned_cols=24 Identities=25% Similarity=0.322 Sum_probs=21.1
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLA 88 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~ 88 (364)
-+++.|| -|||||+++..+++.+-
T Consensus 19 nIlItG~---pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 19 SAVIFGK---QGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEECC---CCCCHHHHHHHHHHHHH
Confidence 5889997 59999999999999874
No 309
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=81.82 E-value=1.2 Score=38.97 Aligned_cols=30 Identities=30% Similarity=0.512 Sum_probs=19.3
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
|++.|. =||||||++..|+++ |+. ++ -.|+
T Consensus 2 I~i~G~---~stGKTTL~~~L~~~----g~~--~v-~E~a 31 (163)
T PF13521_consen 2 IVITGG---PSTGKTTLIEALAAR----GYP--VV-PEYA 31 (163)
T ss_dssp EEEE-----TTSHHHHHHHHHHHH----T-E--EE---TT
T ss_pred EEEECC---CCCCHHHHHHHHHHc----CCe--EE-eecH
Confidence 566774 499999999999987 554 33 6676
No 310
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=81.59 E-value=2 Score=43.54 Aligned_cols=35 Identities=17% Similarity=0.393 Sum_probs=28.9
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhC--CCceEEEe
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADS--EISPLILT 98 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~--g~kvaIls 98 (364)
-|++..|.- |||||.++.+++..+.++ |.++..++
T Consensus 137 n~l~l~G~~---G~GKThL~~ai~~~l~~~~~~~~v~yi~ 173 (405)
T TIGR00362 137 NPLFIYGGV---GLGKTHLLHAIGNEILENNPNAKVVYVS 173 (405)
T ss_pred CeEEEECCC---CCcHHHHHHHHHHHHHHhCCCCcEEEEE
Confidence 488899975 999999999999999876 56666663
No 311
>PRK00683 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=81.49 E-value=2.2 Score=43.44 Aligned_cols=35 Identities=29% Similarity=0.516 Sum_probs=30.1
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
.|+|.|. |-.||||++..++..|++.|..++...+
T Consensus 102 ~~~I~IT----GT~GKTTTt~ml~~iL~~~g~~~~~~Gn 136 (418)
T PRK00683 102 YPSLGIT----GSTGKTTTILFLEHLLKRLGIPAFAMGN 136 (418)
T ss_pred CCEEEEE----CCCChHHHHHHHHHHHHHcCCCeEEECC
Confidence 5788887 7889999999999999999987776665
No 312
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=81.47 E-value=9 Score=39.51 Aligned_cols=79 Identities=22% Similarity=0.246 Sum_probs=52.3
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCCC---EEEeccccch-hHHHhhhc
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLERP---AKIGKNCINP-KVGSHLKS 136 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~~---v~v~~~~~~~-~~~~~~~~ 136 (364)
--+|-||+= -|-||||++..++..+.+++ +|..+|=.= +.....|-|+++ +++ ..+-.. .+- +..+.+.+
T Consensus 93 Gs~iLIgGd--PGIGKSTLLLQva~~lA~~~-~vLYVsGEE-S~~QiklRA~RL-~~~~~~l~l~aE-t~~e~I~~~l~~ 166 (456)
T COG1066 93 GSVILIGGD--PGIGKSTLLLQVAARLAKRG-KVLYVSGEE-SLQQIKLRADRL-GLPTNNLYLLAE-TNLEDIIAELEQ 166 (456)
T ss_pred ccEEEEccC--CCCCHHHHHHHHHHHHHhcC-cEEEEeCCc-CHHHHHHHHHHh-CCCccceEEehh-cCHHHHHHHHHh
Confidence 346777764 68999999999999999888 888886332 234457778887 332 222221 111 13344566
Q ss_pred CCCCEEEEc
Q 017904 137 GKIGAVILD 145 (364)
Q Consensus 137 ~~~dviIlD 145 (364)
.+||++|+|
T Consensus 167 ~~p~lvVID 175 (456)
T COG1066 167 EKPDLVVID 175 (456)
T ss_pred cCCCEEEEe
Confidence 789999999
No 313
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=81.46 E-value=1.5 Score=37.35 Aligned_cols=23 Identities=35% Similarity=0.553 Sum_probs=19.7
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
+|+++|- -|||||++...|++.|
T Consensus 1 ~i~l~G~---~GsGKstla~~la~~l 23 (154)
T cd00464 1 NIVLIGM---MGAGKTTVGRLLAKAL 23 (154)
T ss_pred CEEEEcC---CCCCHHHHHHHHHHHh
Confidence 4677884 5999999999999988
No 314
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=81.27 E-value=3.5 Score=39.34 Aligned_cols=37 Identities=27% Similarity=0.362 Sum_probs=27.5
Q ss_pred CCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 59 LPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 59 ~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
.+.||+..|. -|||||.++.++++.+ |.++..+ .++.
T Consensus 20 ~g~~vLL~G~---~GtGKT~lA~~la~~l---g~~~~~i-~~~~ 56 (262)
T TIGR02640 20 SGYPVHLRGP---AGTGKTTLAMHVARKR---DRPVMLI-NGDA 56 (262)
T ss_pred cCCeEEEEcC---CCCCHHHHHHHHHHHh---CCCEEEE-eCCc
Confidence 3569999996 5999999999999865 5554444 5554
No 315
>PF01591 6PF2K: 6-phosphofructo-2-kinase; InterPro: IPR013079 6-Phosphofructo-2-kinase (2.7.1.105 from EC, 3.1.3.46 from EC) is a bifunctional enzyme that catalyses both the synthesis and the degradation of fructose-2, 6-bisphosphate. The fructose-2,6-bisphosphatase reaction involves a phosphohistidine intermediate. The catalytic pathway is: ATP + D-fructose 6-phosphate = ADP + D-fructose 2,6-bisphosphate D-fructose 2,6-bisphosphate + H2O = 6-fructose 6-phosphate + Pi The enzyme is important in the regulation of hepatic carbohydrate metabolism and is found in greatest quantities in the liver, kidney and heart. In mammals, several genes often encode different isoforms, each of which differs in its tissue distribution and enzymatic activity []. The family described here bears a resemblance to the ATP-driven phospho-fructokinases, however, they share little sequence similarity, although a few residues seem key to their interaction with fructose 6-phosphate []. This domain forms the N-terminal region of this enzyme, while IPR013078 from INTERPRO forms the C-terminal domain.; GO: 0003873 6-phosphofructo-2-kinase activity, 0005524 ATP binding, 0006000 fructose metabolic process; PDB: 2DWO_A 3QPW_A 3QPV_A 3QPU_A 2I1V_B 2DWP_A 2AXN_A 1K6M_B 3BIF_A 2BIF_A ....
Probab=81.22 E-value=1.9 Score=40.58 Aligned_cols=37 Identities=19% Similarity=0.297 Sum_probs=30.7
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
+=||.|| .-++|||.++..|+++|.-.|++.-|-.-|
T Consensus 13 l~ivmVG---LPArGKs~ia~kl~ryL~w~g~~~~vFn~g 49 (222)
T PF01591_consen 13 LVIVMVG---LPARGKSYIARKLCRYLNWLGVKTKVFNVG 49 (222)
T ss_dssp EEEEEES---STTSSHHHHHHHHHHHHHHTT--EEEEEHH
T ss_pred EEEEEEC---CCCCCHHHHHHHHHHHHhhcCCCcceeecc
Confidence 4567788 589999999999999999999999999865
No 316
>PLN03126 Elongation factor Tu; Provisional
Probab=81.18 E-value=4.1 Score=42.61 Aligned_cols=134 Identities=18% Similarity=0.246 Sum_probs=64.7
Q ss_pred CCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCCCEEEeccccchhHHHhhhc
Q 017904 57 HRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLERPAKIGKNCINPKVGSHLKS 136 (364)
Q Consensus 57 ~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~~v~v~~~~~~~~~~~~~~~ 136 (364)
.+..+-|..+|.. ++|||+++..|+..+..-+ .-...+|..-|.- -.++..|..+-.+.. ....
T Consensus 78 ~k~~~ni~iiGhv---d~GKSTLi~~Ll~~~~~i~---~~~~~~~~~~D~~--~~Er~rGiTi~~~~~--------~~~~ 141 (478)
T PLN03126 78 KKPHVNIGTIGHV---DHGKTTLTAALTMALASMG---GSAPKKYDEIDAA--PEERARGITINTATV--------EYET 141 (478)
T ss_pred cCCeeEEEEECCC---CCCHHHHHHHHHHhhhhhc---cccccccccccCC--hhHHhCCeeEEEEEE--------EEec
Confidence 3434557788876 8999999999986553210 0001122111111 112223432211110 0112
Q ss_pred CCCCEEEEc-CCCCCc-------cccCceeEEEEeCCCCCCCCccccCCCCCCchhhh---ccccE-EEEcCCcchhhhh
Q 017904 137 GKIGAVILD-DGMQHW-------SLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLMAL---KRADI-AVVHHADLISEQN 204 (364)
Q Consensus 137 ~~~dviIlD-DgfQh~-------~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~~L---~rAd~-ivvtk~d~~~~~~ 204 (364)
.+..+.++| -|..++ .-.-|.-++|+|+..+. .+.-+|-+..+ .-..+ +++||.|+.++++
T Consensus 142 ~~~~i~liDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~-------~~qt~e~~~~~~~~gi~~iIvvvNK~Dl~~~~~ 214 (478)
T PLN03126 142 ENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSGADGP-------MPQTKEHILLAKQVGVPNMVVFLNKQDQVDDEE 214 (478)
T ss_pred CCcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCC-------cHHHHHHHHHHHHcCCCeEEEEEecccccCHHH
Confidence 244677787 332221 11246679999998753 23334443322 22334 5799999876443
Q ss_pred -hHHHHHHHH
Q 017904 205 -LKDIELEMR 213 (364)
Q Consensus 205 -~~~i~~~l~ 213 (364)
.+.+++.+.
T Consensus 215 ~~~~i~~~i~ 224 (478)
T PLN03126 215 LLELVELEVR 224 (478)
T ss_pred HHHHHHHHHH
Confidence 333333333
No 317
>PRK14106 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=81.10 E-value=2.1 Score=43.61 Aligned_cols=35 Identities=23% Similarity=0.485 Sum_probs=29.8
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
.|||+|. |-.||||++..++..|+..|..+++.++
T Consensus 108 ~~vI~IT----GS~GKTTt~~~l~~iL~~~g~~~~~~g~ 142 (450)
T PRK14106 108 APIVAIT----GTNGKTTTTTLLGEIFKNAGRKTLVAGN 142 (450)
T ss_pred CCEEEEe----CCCchHHHHHHHHHHHHHcCCCeEEeCc
Confidence 6899987 8889999999999999988877765543
No 318
>TIGR02858 spore_III_AA stage III sporulation protein AA. Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.
Probab=81.07 E-value=3.3 Score=40.08 Aligned_cols=25 Identities=24% Similarity=0.298 Sum_probs=20.2
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHh
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLAD 89 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~ 89 (364)
-++.+|. -|+|||+++..++..+..
T Consensus 113 ~~~i~g~---~g~GKttl~~~l~~~~~~ 137 (270)
T TIGR02858 113 NTLIISP---PQCGKTTLLRDLARILST 137 (270)
T ss_pred EEEEEcC---CCCCHHHHHHHHhCccCC
Confidence 3566664 599999999999999864
No 319
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=81.06 E-value=2.3 Score=37.77 Aligned_cols=37 Identities=27% Similarity=0.242 Sum_probs=25.1
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHh----------CCCceEEEecCCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLAD----------SEISPLILTRGYA 102 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~----------~g~kvaIlsRGYg 102 (364)
++..| .+|+|||+++..++..+.. ++.+|..++-+..
T Consensus 35 ~~i~g---~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~ 81 (193)
T PF13481_consen 35 TLIAG---PPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS 81 (193)
T ss_dssp EEEEE---CSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-
T ss_pred EEEEe---CCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC
Confidence 44444 3899999999999998865 5678888876653
No 320
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=81.01 E-value=2 Score=39.60 Aligned_cols=36 Identities=19% Similarity=0.123 Sum_probs=25.5
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhC-CCceEEEecC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADS-EISPLILTRG 100 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~-g~kvaIlsRG 100 (364)
=+.+.|. -|||||.++..++..-.++ |.++..+|=.
T Consensus 21 ~~li~G~---~GsGKT~l~~q~l~~~~~~~ge~vlyvs~e 57 (226)
T PF06745_consen 21 VVLISGP---PGSGKTTLALQFLYNGLKNFGEKVLYVSFE 57 (226)
T ss_dssp EEEEEES---TTSSHHHHHHHHHHHHHHHHT--EEEEESS
T ss_pred EEEEEeC---CCCCcHHHHHHHHHHhhhhcCCcEEEEEec
Confidence 4667776 4999999988766544455 8999999854
No 321
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=80.90 E-value=14 Score=36.97 Aligned_cols=123 Identities=17% Similarity=0.073 Sum_probs=64.8
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEE----------------EecCCCC---CchHHHHHHHhCCCCEEE
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLI----------------LTRGYAG---GDEVRMLERHLLERPAKI 121 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaI----------------lsRGYg~---GDE~~lla~~~~~~~v~v 121 (364)
.+|...|- -|||||+++..+++.|.-.-.++-. +..|... -|-|+..|.+. + +++
T Consensus 65 ~~ilL~G~---pGtGKTtla~~lA~~l~~~~~rV~~~~~l~~~DliG~~~~~l~~g~~~~~f~~GpL~~A~~~-g--~il 138 (327)
T TIGR01650 65 RRVMVQGY---HGTGKSTHIEQIAARLNWPCVRVNLDSHVSRIDLVGKDAIVLKDGKQITEFRDGILPWALQH-N--VAL 138 (327)
T ss_pred CcEEEEeC---CCChHHHHHHHHHHHHCCCeEEEEecCCCChhhcCCCceeeccCCcceeEEecCcchhHHhC-C--eEE
Confidence 37888885 6999999999999998533222211 1111100 12254455443 2 222
Q ss_pred eccccch---hHHHh---hhcCCCCEEEEcCCCCCccccCceeEEEEeCCCCCCCCc--cccCCCCCCchhhhccccEE
Q 017904 122 GKNCINP---KVGSH---LKSGKIGAVILDDGMQHWSLRRDLEIVMVNGLMPWGNRK--LLPLGPLREPLMALKRADIA 192 (364)
Q Consensus 122 ~~~~~~~---~~~~~---~~~~~~dviIlDDgfQh~~L~rdl~Ivl~Da~~~~gn~~--~lPaG~LREp~~~L~rAd~i 192 (364)
-.|+++. +.... +.+.+-.+ .+++ +.+.+++.=+..++-+.+|.|.|. -+=.|..+-|.+++.|=-++
T Consensus 139 llDEin~a~p~~~~~L~~lLE~~~~l-~i~~--~~~~i~~hp~FrviAT~Np~g~Gd~~G~y~Gt~~l~~A~lDRF~i~ 214 (327)
T TIGR01650 139 CFDEYDAGRPDVMFVIQRVLEAGGKL-TLLD--QNRVIRAHPAFRLFATANTIGLGDTTGLYHGTQQINQAQMDRWSIV 214 (327)
T ss_pred EechhhccCHHHHHHHHHHhccCCeE-EECC--CceEecCCCCeEEEEeeCCCCcCCCCcceeeeecCCHHHHhheeeE
Confidence 2333333 22111 22222234 4444 345555555555666667776432 23378888888889884443
No 322
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=80.85 E-value=2 Score=43.47 Aligned_cols=35 Identities=20% Similarity=0.357 Sum_probs=27.8
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
++++|.- |||||.++..++..+.++|.+..|.=..
T Consensus 18 ~li~G~~---GsGKT~~i~~ll~~~~~~g~~~iI~D~k 52 (386)
T PF10412_consen 18 ILIIGAT---GSGKTQAIRHLLDQIRARGDRAIIYDPK 52 (386)
T ss_dssp EEEEE-T---TSSHHHHHHHHHHHHHHTT-EEEEEEET
T ss_pred EEEECCC---CCCHHHHHHHHHHHHHHcCCEEEEEECC
Confidence 6788865 9999999999999999999877666443
No 323
>COG0285 FolC Folylpolyglutamate synthase [Coenzyme metabolism]
Probab=80.84 E-value=6.2 Score=40.77 Aligned_cols=143 Identities=20% Similarity=0.212 Sum_probs=77.7
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC-------------CchHHHHHHHhCCCC---E---E
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG-------------GDEVRMLERHLLERP---A---K 120 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~-------------GDE~~lla~~~~~~~---v---~ 120 (364)
..|||=|+ |-.||.+++.++-..|.+.|+||++-|--|=- .||- +++.+..+. . .
T Consensus 43 ~~~vIhVa----GTNGKGSt~afl~siL~~aG~~VG~yTSPHL~~~~ERI~ing~~Isd~~--~~~~~~~ve~~~~~~~~ 116 (427)
T COG0285 43 SPPVIHVA----GTNGKGSTCAFLESILREAGYKVGVYTSPHLLSFNERIRINGEPISDEE--LAAAFERVEEAAGSLDL 116 (427)
T ss_pred cCCeEEEe----CCCCchhHHHHHHHHHHHcCCCceEECCCccCccceEEEECCEECCHHH--HHHHHHHHHHHhccccc
Confidence 45899888 67799999999999999999999998776631 4443 222221100 0 0
Q ss_pred Eeccccchh-HH--HhhhcCCCCEEEEcCCCCCc-----cccCceeEEEEeCCCCCCCCccccCCCCCCchh----hhcc
Q 017904 121 IGKNCINPK-VG--SHLKSGKIGAVILDDGMQHW-----SLRRDLEIVMVNGLMPWGNRKLLPLGPLREPLM----ALKR 188 (364)
Q Consensus 121 v~~~~~~~~-~~--~~~~~~~~dviIlDDgfQh~-----~L~rdl~Ivl~Da~~~~gn~~~lPaG~LREp~~----~L~r 188 (364)
..++++.-. +. .+.++.++|++|+|-|+==| -+.+++. ++. +.|-++.==-|.-+|.+. ++-+
T Consensus 117 ~~~T~FE~~Ta~Af~~F~~~~vD~aIlEVGLGGRlDATNVi~p~vs--vIT---~I~lDH~~~LG~tie~IA~EKAGI~k 191 (427)
T COG0285 117 ISLTYFEVLTAMAFLYFAEAKVDVAILEVGLGGRLDATNVIEPDVS--VIT---SIGLDHTAFLGDTLESIAREKAGIIK 191 (427)
T ss_pred CCCcHHHHHHHHHHHHHHhCCCCEEEEeccccccccchhccCCceE--EEc---ccChhHHHHhCCcHHHHHHHhhhhcc
Confidence 111111000 12 23567789999999777433 1333333 332 233333322466666544 4445
Q ss_pred ccEEEEcCCcchhhhhhHHHHHHHHh
Q 017904 189 ADIAVVHHADLISEQNLKDIELEMRD 214 (364)
Q Consensus 189 Ad~ivvtk~d~~~~~~~~~i~~~l~~ 214 (364)
+-.-++... ...++.++.+++....
T Consensus 192 ~g~P~v~~~-~~~p~a~~vi~~~a~~ 216 (427)
T COG0285 192 AGKPAVIGE-QQPPEALNVIAERAEE 216 (427)
T ss_pred CCCcEEECC-CCCHHHHHHHHHHHHh
Confidence 555444432 1234455556555553
No 324
>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated
Probab=80.83 E-value=8.8 Score=35.03 Aligned_cols=26 Identities=19% Similarity=0.023 Sum_probs=23.1
Q ss_pred CCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 72 GGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
-|=||||.+.=++=.-..+|+||.|+
T Consensus 30 dGKGKTTAAlGlalRAaG~G~rV~ii 55 (178)
T PRK07414 30 SQRNFFTSVMAQALRIAGQGTPVLIV 55 (178)
T ss_pred CCCCchHHHHHHHHHHhcCCCEEEEE
Confidence 49999999988887777899999998
No 325
>KOG2825 consensus Putative arsenite-translocating ATPase [Inorganic ion transport and metabolism]
Probab=80.65 E-value=1.8 Score=41.79 Aligned_cols=38 Identities=39% Similarity=0.327 Sum_probs=34.8
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
.-|-||+= ||.|||+...-||-+|.+.+.+|-|||-.=
T Consensus 20 KwifVGGK--GGVGKTTcs~sLAvqla~~r~~vLiISTDP 57 (323)
T KOG2825|consen 20 KWIFVGGK--GGVGKTTCSCSLAVQLAKVRESVLIISTDP 57 (323)
T ss_pred eEEEEcCc--CCcCccchhhHHHHHHhccCCceEEeecCc
Confidence 67999997 999999999999999999899999998764
No 326
>PRK13947 shikimate kinase; Provisional
Probab=80.50 E-value=1.6 Score=38.13 Aligned_cols=23 Identities=30% Similarity=0.525 Sum_probs=19.2
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
.|+.+| .-|||||++...|++.|
T Consensus 3 ~I~l~G---~~GsGKst~a~~La~~l 25 (171)
T PRK13947 3 NIVLIG---FMGTGKTTVGKRVATTL 25 (171)
T ss_pred eEEEEc---CCCCCHHHHHHHHHHHh
Confidence 356666 47999999999999998
No 327
>PF00142 Fer4_NifH: 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family; InterPro: IPR000392 This entry represents members of the NifH/BchL/ChlL family. Nitrogen fixing bacteria possess a nitrogenase enzyme complex that catalyses the reduction of molecular nitrogen to ammonia [, , ]. The nitrogenase enzyme complex consists of two components: Component I is nitrogenase MoFe protein or dinitrogenase, which contains 2 molecules each of 2 non-identical subunits. Component II is nitrogenase Fe protein or dinitrogenase reductase, which is a homodimer. The monomer is encoded by the nifH gene []. Component II has 2 ATP-binding domains and one 4Fe-4S cluster per homodimer: it supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component I for the reduction of molecular nitrogen to ammonia []. There are a number of conserved regions in the sequence of these proteins: in the N-terminal section there is an ATP-binding site motif 'A' (P-loop) IPR001687 from INTERPRO and in the central section there are two conserved cysteines which have been shown, in nifH, to be the ligands of the 4Fe-4S cluster. Protochlorophyllide reductase is involved in light-independent chlorophyll biosynthesis. The light-independent reaction uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This enzyme complex is composed of three subunits: ChlL, ChlN and ChlB. ChlL is present as a homodimer, and binds one 4Fe-4S cluster per dimer. The conserved domains, including the ATP-binding motif and the Fe-S binding motif found in the three subunits, are similar to those in nitrogenases []. ; GO: 0005524 ATP binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1CP2_A 2AFI_F 1N2C_F 1FP6_C 2AFK_G 1M34_M 1XD8_A 1NIP_A 1M1Y_N 1G21_H ....
Probab=80.42 E-value=1.7 Score=42.07 Aligned_cols=31 Identities=26% Similarity=0.265 Sum_probs=25.8
Q ss_pred CCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 72 GGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
||-||+|++..|+..|.++|+||..+--+=+
T Consensus 9 GGIGKST~~~Nlsaala~~G~kVl~iGCDPK 39 (273)
T PF00142_consen 9 GGIGKSTTASNLSAALAEMGKKVLQIGCDPK 39 (273)
T ss_dssp TTSSHHHHHHHHHHHHHHTT--EEEEEESSS
T ss_pred CCcccChhhhHHHHHHHhccceeeEecccCC
Confidence 9999999999999999999999999855443
No 328
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=80.35 E-value=1.4 Score=42.15 Aligned_cols=40 Identities=23% Similarity=0.301 Sum_probs=35.1
Q ss_pred CCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 59 LPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 59 ~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
..-.|..-|. -|||||.+|..++..+.++|.|+.=|+++.
T Consensus 51 pannvLL~G~---rGtGKSSlVkall~~y~~~GLRlIev~k~~ 90 (249)
T PF05673_consen 51 PANNVLLWGA---RGTGKSSLVKALLNEYADQGLRLIEVSKED 90 (249)
T ss_pred CCcceEEecC---CCCCHHHHHHHHHHHHhhcCceEEEECHHH
Confidence 3458999995 699999999999999999999998888875
No 329
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=80.33 E-value=2.4 Score=38.69 Aligned_cols=25 Identities=20% Similarity=0.446 Sum_probs=19.8
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADS 90 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~ 90 (364)
|+++|- -||||||++..+++++...
T Consensus 4 ilI~Gp---tGSGKTTll~~ll~~~~~~ 28 (198)
T cd01131 4 VLVTGP---TGSGKSTTLAAMIDYINKN 28 (198)
T ss_pred EEEECC---CCCCHHHHHHHHHHHhhhc
Confidence 455663 5999999999999998754
No 330
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=80.31 E-value=2.8 Score=38.59 Aligned_cols=37 Identities=14% Similarity=0.131 Sum_probs=29.7
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
-+++.|+ -|+|||.++..++....++|.++..+|=..
T Consensus 18 ~~li~G~---~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~ 54 (224)
T TIGR03880 18 VIVVIGE---YGTGKTTFSLQFLYQGLKNGEKAMYISLEE 54 (224)
T ss_pred EEEEECC---CCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence 4556775 499999999988877666799999998765
No 331
>PRK00131 aroK shikimate kinase; Reviewed
Probab=80.27 E-value=1.9 Score=37.26 Aligned_cols=23 Identities=30% Similarity=0.573 Sum_probs=18.7
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
.|+.+| . .|||||++...|++.|
T Consensus 6 ~i~l~G-~--~GsGKstla~~La~~l 28 (175)
T PRK00131 6 NIVLIG-F--MGAGKSTIGRLLAKRL 28 (175)
T ss_pred eEEEEc-C--CCCCHHHHHHHHHHHh
Confidence 345555 3 6999999999999998
No 332
>PRK14022 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional
Probab=80.27 E-value=4.1 Score=42.29 Aligned_cols=35 Identities=23% Similarity=0.350 Sum_probs=30.3
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
..|||.|. |-.|||+++.+++..|++.|.+++.++
T Consensus 109 ~~~vIgIT----GTnGKTTT~~~l~~iL~~~g~~~~~~g 143 (481)
T PRK14022 109 KLKLLAFT----GTKGKTTAAYFAYHILKQLHKPAMLST 143 (481)
T ss_pred ccEEEEEe----CCCcHHHHHHHHHHHHHHCCCCEEEEe
Confidence 46899987 888999999999999998888777774
No 333
>PRK02006 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=80.13 E-value=2.3 Score=44.26 Aligned_cols=34 Identities=18% Similarity=0.199 Sum_probs=30.1
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
.|+|.|. |-.||||++..+...|++.|++++...
T Consensus 121 ~~~I~VT----GTnGKTTTt~ml~~iL~~~g~~~~~~G 154 (498)
T PRK02006 121 PKVLAIT----GTNGKTTTTALTGLLCERAGKKVAVAG 154 (498)
T ss_pred CCEEEEE----CCCcHHHHHHHHHHHHHHcCCCEEEEC
Confidence 3899998 778999999999999999999998753
No 334
>PRK14737 gmk guanylate kinase; Provisional
Probab=79.76 E-value=1.2 Score=40.54 Aligned_cols=38 Identities=26% Similarity=0.248 Sum_probs=25.6
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
+.++|.+| .-|+|||+++.+|++.+....+.+...+|-
T Consensus 4 ~~~ivl~G---psG~GK~tl~~~l~~~~~~~~~~v~~TTR~ 41 (186)
T PRK14737 4 PKLFIISS---VAGGGKSTIIQALLEEHPDFLFSISCTTRA 41 (186)
T ss_pred CeEEEEEC---CCCCCHHHHHHHHHhcCCccccccCccCCC
Confidence 45778888 469999999999988763333333444443
No 335
>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.
Probab=79.48 E-value=9.2 Score=36.53 Aligned_cols=26 Identities=19% Similarity=0.314 Sum_probs=22.1
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADS 90 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~ 90 (364)
-+.++|. +|+|||+++..+++.+..+
T Consensus 18 r~~I~G~---~G~GKTTLlr~I~n~l~~~ 43 (249)
T cd01128 18 RGLIVAP---PKAGKTTLLQSIANAITKN 43 (249)
T ss_pred EEEEECC---CCCCHHHHHHHHHhccccc
Confidence 5678886 7999999999999988764
No 336
>PRK03369 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=79.42 E-value=2.9 Score=43.62 Aligned_cols=36 Identities=25% Similarity=0.315 Sum_probs=29.9
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
+.|+|.|- |-.||||++..++..|++.|.+..+..+
T Consensus 116 ~~~vIgIT----GTnGKTTTt~li~~iL~~~g~~~~~~Gn 151 (488)
T PRK03369 116 PRRWLVVT----GTNGKTTTTSMLHAMLIAAGRRSVLCGN 151 (488)
T ss_pred CCCEEEEE----CCCcHHHHHHHHHHHHHHcCCceEEeCC
Confidence 34788876 8889999999999999999987766655
No 337
>PRK13974 thymidylate kinase; Provisional
Probab=79.19 E-value=5.6 Score=36.58 Aligned_cols=40 Identities=33% Similarity=0.535 Sum_probs=30.3
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCC----ceEEEecCCCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEI----SPLILTRGYAG 103 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~----kvaIlsRGYg~ 103 (364)
-+|++=++ -||||||.+..|+++|...|. .-.+.+|..++
T Consensus 4 ~~i~~eG~--dGsGKsT~~~~l~~~l~~~g~~~~~~~~~~~~~p~~ 47 (212)
T PRK13974 4 KFIVLEGI--DGCGKTTQIDHLSKWLPSSGLMPKGAKLIITREPGG 47 (212)
T ss_pred cEEEEECC--CCCCHHHHHHHHHHHHHhcCccccCCeeeeeeCCCC
Confidence 35555555 699999999999999998775 35567777764
No 338
>TIGR01087 murD UDP-N-acetylmuramoylalanine--D-glutamate ligase.
Probab=79.19 E-value=2.8 Score=42.57 Aligned_cols=34 Identities=32% Similarity=0.622 Sum_probs=29.1
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
+.|+|+|. |-.||||++..++..|++.|+++.+-
T Consensus 101 ~~~~I~VT----GT~GKTTTt~li~~iL~~~g~~~~~~ 134 (433)
T TIGR01087 101 PLPVVAIT----GTNGKTTTTSLLYHLLKAAGLKAFLG 134 (433)
T ss_pred CCCEEEEE----CCCCHHHHHHHHHHHHHhcCCCeEEE
Confidence 45899987 78899999999999999999885544
No 339
>PRK00300 gmk guanylate kinase; Provisional
Probab=79.10 E-value=1.8 Score=39.10 Aligned_cols=37 Identities=24% Similarity=0.301 Sum_probs=25.1
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
..++++| .-|||||+++..|++.+..-...+.+.+|-
T Consensus 6 ~~i~i~G---~sGsGKstl~~~l~~~~~~~~~~~~~~tr~ 42 (205)
T PRK00300 6 LLIVLSG---PSGAGKSTLVKALLERDPNLQLSVSATTRA 42 (205)
T ss_pred CEEEEEC---CCCCCHHHHHHHHHhhCccceeccCccccC
Confidence 4566777 369999999999999875333333344443
No 340
>PRK03806 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=78.84 E-value=3 Score=42.51 Aligned_cols=36 Identities=14% Similarity=0.304 Sum_probs=30.3
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
+.|+|.|. |-.||||++..++..|++.|+++++..+
T Consensus 104 ~~~~I~VT----GTnGKTTTt~ll~~iL~~~g~~~~~~gn 139 (438)
T PRK03806 104 QAPIVAIT----GSNGKSTVTTLVGEMAKAAGWKVGVGGN 139 (438)
T ss_pred CCCEEEEe----CCCCHHHHHHHHHHHHHHcCCCEEEeCC
Confidence 45788887 7789999999999999999998876544
No 341
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=78.82 E-value=1.9 Score=42.94 Aligned_cols=33 Identities=15% Similarity=0.156 Sum_probs=25.3
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
.-++++|. -||||||++.+|+.++.+ +.++.++
T Consensus 161 ~nili~G~---tgSGKTTll~aL~~~ip~-~~ri~ti 193 (332)
T PRK13900 161 KNIIISGG---TSTGKTTFTNAALREIPA-IERLITV 193 (332)
T ss_pred CcEEEECC---CCCCHHHHHHHHHhhCCC-CCeEEEe
Confidence 35777775 599999999999998864 4566554
No 342
>PF01935 DUF87: Domain of unknown function DUF87; InterPro: IPR002789 The function of this domain is unknown. It contains several conserved aspartates and histidines that could be metal ligands.
Probab=78.81 E-value=3.1 Score=38.34 Aligned_cols=32 Identities=25% Similarity=0.394 Sum_probs=26.0
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHH-hCCCceEEE
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLA-DSEISPLIL 97 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~-~~g~kvaIl 97 (364)
+-++|+ -|||||.++..|++.+. +.|.++.|+
T Consensus 26 ~~I~G~---TGsGKS~~~~~ll~~l~~~~~~~~ii~ 58 (229)
T PF01935_consen 26 IAIFGT---TGSGKSNTVKVLLEELLKKKGAKVIIF 58 (229)
T ss_pred EEEECC---CCCCHHHHHHHHHHHHHhcCCCCEEEE
Confidence 457786 59999999999999998 666666665
No 343
>COG4240 Predicted kinase [General function prediction only]
Probab=78.78 E-value=2.7 Score=40.23 Aligned_cols=30 Identities=20% Similarity=0.256 Sum_probs=26.4
Q ss_pred cCCCCchHHHHHHHHHHHhCC-CceEEEecC
Q 017904 71 WGGNGKTPMVEFLAHCLADSE-ISPLILTRG 100 (364)
Q Consensus 71 vGGtGKTP~v~~L~~~L~~~g-~kvaIlsRG 100 (364)
.-|||||++...+.+.|.++| ++++-+|=.
T Consensus 58 pQGSGKStls~~i~~~L~~kg~ert~~lSLD 88 (300)
T COG4240 58 PQGSGKSTLSALIVRLLAAKGLERTATLSLD 88 (300)
T ss_pred CCCCchhhHHHHHHHHHHHhcccceEEeehh
Confidence 369999999999999999998 788888753
No 344
>PRK02472 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=78.71 E-value=3 Score=42.49 Aligned_cols=36 Identities=25% Similarity=0.463 Sum_probs=30.0
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
+.|+|+|. |-.||||++..+...|+..|.++....+
T Consensus 107 ~~~~I~VT----GT~GKTTTt~ll~~iL~~~g~~~~~~Gn 142 (447)
T PRK02472 107 EAPIIGIT----GSNGKTTTTTLIGEMLKAGGQHALLAGN 142 (447)
T ss_pred CCCEEEEe----CCCchHHHHHHHHHHHHHCCCCeEEEcc
Confidence 45888887 8889999999999999999987765543
No 345
>PRK04663 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=78.68 E-value=3.1 Score=42.56 Aligned_cols=35 Identities=20% Similarity=0.360 Sum_probs=30.1
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
.|+|.|. |-.||||++..++..|++.|.++++..+
T Consensus 108 ~~~I~VT----GTnGKTTTt~ll~~iL~~~g~~~~~~gn 142 (438)
T PRK04663 108 KPVIAIT----GSNGKSTVTDLTGVMAKAAGVKVAVGGN 142 (438)
T ss_pred CCEEEEe----CCCCHHHHHHHHHHHHHHCCCCEEEEcc
Confidence 5888887 7889999999999999999998876544
No 346
>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=78.67 E-value=1.9 Score=37.38 Aligned_cols=21 Identities=24% Similarity=0.563 Sum_probs=17.9
Q ss_pred cEEEEcCcccCCCCchHHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAH 85 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~ 85 (364)
.|++||+ +|+|||+++..++.
T Consensus 2 kv~ivG~---~~vGKTsl~~~l~~ 22 (166)
T cd01893 2 RIVLIGD---EGVGKSSLIMSLVS 22 (166)
T ss_pred EEEEECC---CCCCHHHHHHHHHh
Confidence 6889997 79999999888764
No 347
>PRK04308 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=78.67 E-value=3 Score=42.68 Aligned_cols=35 Identities=23% Similarity=0.338 Sum_probs=29.4
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
+.|+|.|. |-.||||++..++..|+..|.++.+..
T Consensus 109 ~~~~I~IT----GT~GKTTTt~li~~iL~~~g~~~~~~G 143 (445)
T PRK04308 109 GDKVIAIT----GSNGKTTVTSLVGYLCIKCGLDTVIAG 143 (445)
T ss_pred CCCEEEEE----CCCcHHHHHHHHHHHHHHcCCCeEEeC
Confidence 35899987 788999999999999999998875543
No 348
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=78.58 E-value=2.5 Score=48.05 Aligned_cols=35 Identities=17% Similarity=0.183 Sum_probs=29.1
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
+++.|. -|||||+++..+.+.+.+.|++|..+.--
T Consensus 365 ~vv~G~---AGTGKTT~l~~~~~~~e~~G~~V~~~ApT 399 (988)
T PRK13889 365 GVVVGY---AGTGKSAMLGVAREAWEAAGYEVRGAALS 399 (988)
T ss_pred EEEEeC---CCCCHHHHHHHHHHHHHHcCCeEEEecCc
Confidence 456664 69999999999999999999999888653
No 349
>PRK04182 cytidylate kinase; Provisional
Probab=78.54 E-value=1.8 Score=37.78 Aligned_cols=23 Identities=35% Similarity=0.589 Sum_probs=17.8
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHH
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
+|+|.+. -|||||++...|++.|
T Consensus 2 ~I~i~G~--~GsGKstia~~la~~l 24 (180)
T PRK04182 2 IITISGP--PGSGKTTVARLLAEKL 24 (180)
T ss_pred EEEEECC--CCCCHHHHHHHHHHHc
Confidence 3444444 4999999999999887
No 350
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=78.50 E-value=2.8 Score=43.45 Aligned_cols=34 Identities=21% Similarity=0.376 Sum_probs=27.9
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHh--CCCceEEE
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLAD--SEISPLIL 97 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~--~g~kvaIl 97 (364)
-|++..|+- |+|||.++.+++.++.+ .|.+|..+
T Consensus 142 npl~i~G~~---G~GKTHLl~Ai~~~l~~~~~~~~v~yv 177 (450)
T PRK14087 142 NPLFIYGES---GMGKTHLLKAAKNYIESNFSDLKVSYM 177 (450)
T ss_pred CceEEECCC---CCcHHHHHHHHHHHHHHhCCCCeEEEE
Confidence 389999986 99999999999998875 36676644
No 351
>PRK10773 murF UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed
Probab=78.48 E-value=6.3 Score=40.56 Aligned_cols=35 Identities=31% Similarity=0.511 Sum_probs=28.2
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
+.|||.|. |-.||||++..++..|...|.. +.+.|
T Consensus 99 ~~~vI~VT----GSnGKTTT~~ml~~iL~~~g~~--~~t~g 133 (453)
T PRK10773 99 PARVVALT----GSSGKTSVKEMTAAILRQCGNT--LYTAG 133 (453)
T ss_pred CCCEEEEc----CCCchHHHHHHHHHHHHhcCcc--cccCc
Confidence 35899987 8889999999999999988764 34444
No 352
>COG0771 MurD UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]
Probab=78.33 E-value=2.7 Score=43.66 Aligned_cols=40 Identities=28% Similarity=0.492 Sum_probs=33.7
Q ss_pred CCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec-CCC
Q 017904 59 LPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR-GYA 102 (364)
Q Consensus 59 ~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR-GYg 102 (364)
.+.|+|.|- |-.||||+|..++..|++.|+++.+--| |+.
T Consensus 108 ~~~p~vaIT----GTNGKTTTTsli~~~l~~~G~~~~lgGNIG~p 148 (448)
T COG0771 108 GEAPIVAIT----GTNGKTTTTSLIAHLLKAAGLDALLGGNIGTP 148 (448)
T ss_pred CCCCEEEEE----CCCchHHHHHHHHHHHHhcCCCceeccccCcc
Confidence 367888887 7889999999999999999998887766 554
No 353
>TIGR00313 cobQ cobyric acid synthase CobQ.
Probab=78.28 E-value=2.1 Score=44.61 Aligned_cols=30 Identities=20% Similarity=0.147 Sum_probs=26.0
Q ss_pred ccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 70 TWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 70 tvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
|-.++|||.++..|++.|+++|++|+...-
T Consensus 6 T~t~vGKT~v~~~L~~~l~~~G~~v~~fKp 35 (475)
T TIGR00313 6 TTSSAGKSTLTAGLCRILARRGYRVAPFKS 35 (475)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCeEEEECC
Confidence 346899999999999999999999987643
No 354
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=78.26 E-value=3.3 Score=38.52 Aligned_cols=36 Identities=36% Similarity=0.387 Sum_probs=23.8
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHH-HhCCCceEEEecCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCL-ADSEISPLILTRGY 101 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L-~~~g~kvaIlsRGY 101 (364)
|++.|- =|||||-++.+.+..+ .+..++-.|++|--
T Consensus 22 v~~~G~---AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~ 58 (205)
T PF02562_consen 22 VIVNGP---AGTGKTFLALAAALELVKEGEYDKIIITRPP 58 (205)
T ss_dssp EEEE-----TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S
T ss_pred EEEECC---CCCcHHHHHHHHHHHHHHhCCCcEEEEEecC
Confidence 556663 5999999999998654 44456777887743
No 355
>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=78.17 E-value=1.9 Score=36.79 Aligned_cols=20 Identities=25% Similarity=0.581 Sum_probs=17.3
Q ss_pred cEEEEcCcccCCCCchHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.|+++|+ .|+|||+++..+.
T Consensus 2 ki~v~G~---~~~GKTsli~~~~ 21 (164)
T smart00173 2 KLVVLGS---GGVGKSALTIQFV 21 (164)
T ss_pred EEEEECC---CCCCHHHHHHHHH
Confidence 4789997 6999999999886
No 356
>PRK01368 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=78.07 E-value=3.1 Score=43.04 Aligned_cols=35 Identities=20% Similarity=0.407 Sum_probs=30.2
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
.|+|.|- |-.||||++..+...|+..|.++.+..+
T Consensus 104 ~~~IaVT----GTnGKTTTt~ll~~iL~~~g~~~~~~Gn 138 (454)
T PRK01368 104 LKFIAIT----GTNGKSTTTALISHILNSNGLDYPVAGN 138 (454)
T ss_pred CCEEEEE----CCCcHHHHHHHHHHHHHhcCCCeEEEcc
Confidence 4788887 7889999999999999999998877654
No 357
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=77.82 E-value=3.2 Score=42.31 Aligned_cols=38 Identities=21% Similarity=0.232 Sum_probs=31.5
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHH-hCCCceEEEecCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLA-DSEISPLILTRGY 101 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~-~~g~kvaIlsRGY 101 (364)
-+|+||.- -|+|||.++..++..+. ++|++|+++|=+-
T Consensus 195 ~liviag~--pg~GKT~~al~ia~~~a~~~g~~v~~fSlEm 233 (421)
T TIGR03600 195 DLIVIGAR--PSMGKTTLALNIAENVALREGKPVLFFSLEM 233 (421)
T ss_pred ceEEEEeC--CCCCHHHHHHHHHHHHHHhCCCcEEEEECCC
Confidence 46777766 59999999999997764 6799999999765
No 358
>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]
Probab=77.80 E-value=1.7 Score=51.89 Aligned_cols=32 Identities=34% Similarity=0.597 Sum_probs=26.7
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
.=|+..||. .|||||+++++|+..|. +++.|+
T Consensus 464 nep~LLVGe---TGtGKTT~IQ~La~~l~---~kltvi 495 (4600)
T COG5271 464 NEPTLLVGE---TGTGKTTMIQYLALKLH---FKLTVI 495 (4600)
T ss_pred CCceEEEec---CCCchhhHHHHHHHHhh---hhheeh
Confidence 349999997 49999999999999994 466665
No 359
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=77.80 E-value=2.6 Score=40.49 Aligned_cols=33 Identities=21% Similarity=0.252 Sum_probs=24.6
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
-|++.|- -||||||++..++..+.+.+.++..+
T Consensus 82 lilisG~---tGSGKTT~l~all~~i~~~~~~iiti 114 (264)
T cd01129 82 IILVTGP---TGSGKTTTLYSALSELNTPEKNIITV 114 (264)
T ss_pred EEEEECC---CCCcHHHHHHHHHhhhCCCCCeEEEE
Confidence 3566663 59999999999999886555666555
No 360
>PLN02881 tetrahydrofolylpolyglutamate synthase
Probab=77.70 E-value=6.7 Score=41.63 Aligned_cols=55 Identities=18% Similarity=0.155 Sum_probs=41.0
Q ss_pred HHHHHHhHhcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 42 LFLRHSFYRFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 42 ~~~R~~~y~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
-+++.++-+.|.- +..-..+||-|. |-.||++++.++...|++.|+|++..+--+
T Consensus 43 ~rm~~~L~~LG~p-~~~~~l~vIhVa----GTnGKGSt~a~l~siL~~~G~rvGl~tSPh 97 (530)
T PLN02881 43 DLLFDYLKILELE-EAISRLKVIHVA----GTKGKGSTCTFTESILRNCGFRTGLFTSPH 97 (530)
T ss_pred HHHHHHHHHcCCC-chhhcCCEEEEe----CCCCHHHHHHHHHHHHHHCCCCEEEECCCc
Confidence 4556666666632 211234788887 677999999999999999999999987655
No 361
>PRK03803 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=77.58 E-value=3.3 Score=42.38 Aligned_cols=36 Identities=19% Similarity=0.336 Sum_probs=30.2
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
+.|+|.|. |-.||||++..++..|++.|+++++-.+
T Consensus 107 ~~~~I~VT----GT~GKTTTt~li~~iL~~~g~~~~~ggn 142 (448)
T PRK03803 107 KAPVIAIT----GSNGKSTVTTLVGEMAKAAGKRVAVGGN 142 (448)
T ss_pred CCCEEEEE----CCCcHHHHHHHHHHHHHhcCCCeEEecC
Confidence 45888887 7789999999999999999988776544
No 362
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=77.54 E-value=2.9 Score=41.60 Aligned_cols=33 Identities=24% Similarity=0.376 Sum_probs=23.4
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHh--CCCceEEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLAD--SEISPLIL 97 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~--~g~kvaIl 97 (364)
-+++.|. -|||||+++.+|+..+.+ .+.++.++
T Consensus 146 nilI~G~---tGSGKTTll~aL~~~i~~~~~~~rivti 180 (323)
T PRK13833 146 NIVISGG---TGSGKTTLANAVIAEIVASAPEDRLVIL 180 (323)
T ss_pred eEEEECC---CCCCHHHHHHHHHHHHhcCCCCceEEEe
Confidence 4667774 599999999999998852 23454443
No 363
>PRK04690 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=77.49 E-value=3 Score=43.27 Aligned_cols=35 Identities=23% Similarity=0.342 Sum_probs=29.5
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
.|+|.|. |-.||||++..+...|+..|.++.+..+
T Consensus 115 ~~~IaIT----GTnGKTTTt~ll~~iL~~~g~~~~~~Gn 149 (468)
T PRK04690 115 PGTVCVT----GTKGKSTTTALLAHLLRAAGHRTALVGN 149 (468)
T ss_pred CCEEEEe----CCCCHHHHHHHHHHHHHhcCCcEEEcCC
Confidence 4788887 8889999999999999999977665554
No 364
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=77.14 E-value=3.2 Score=42.72 Aligned_cols=34 Identities=18% Similarity=0.406 Sum_probs=27.8
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhC--CCceEEE
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADS--EISPLIL 97 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~--g~kvaIl 97 (364)
-|++..|.- |||||.++.+++..+.++ |.++..+
T Consensus 149 ~~l~l~G~~---G~GKThL~~ai~~~~~~~~~~~~v~yi 184 (450)
T PRK00149 149 NPLFIYGGV---GLGKTHLLHAIGNYILEKNPNAKVVYV 184 (450)
T ss_pred CeEEEECCC---CCCHHHHHHHHHHHHHHhCCCCeEEEE
Confidence 478999974 999999999999999876 5555544
No 365
>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=77.11 E-value=4 Score=36.60 Aligned_cols=22 Identities=27% Similarity=0.377 Sum_probs=17.6
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHC 86 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~ 86 (364)
-|+++|. .|+|||+++..+...
T Consensus 43 ~I~iiG~---~g~GKStLl~~l~~~ 64 (204)
T cd01878 43 TVALVGY---TNAGKSTLFNALTGA 64 (204)
T ss_pred eEEEECC---CCCCHHHHHHHHhcc
Confidence 5667886 699999999887764
No 366
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=77.04 E-value=2.1 Score=36.01 Aligned_cols=16 Identities=38% Similarity=0.677 Sum_probs=14.6
Q ss_pred CCCCchHHHHHHHHHH
Q 017904 72 GGNGKTPMVEFLAHCL 87 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L 87 (364)
-|||||++...|++.+
T Consensus 8 ~GsGKst~a~~la~~~ 23 (147)
T cd02020 8 AGSGKSTVAKLLAKKL 23 (147)
T ss_pred CCCCHHHHHHHHHHHh
Confidence 4999999999999887
No 367
>PLN02348 phosphoribulokinase
Probab=77.00 E-value=5.1 Score=40.96 Aligned_cols=27 Identities=22% Similarity=0.361 Sum_probs=23.0
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADS 90 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~ 90 (364)
.+|.|.+- -|+||||++..|++.|.+.
T Consensus 50 ~IIGIaG~--SGSGKSTfA~~L~~~Lg~~ 76 (395)
T PLN02348 50 VVIGLAAD--SGCGKSTFMRRLTSVFGGA 76 (395)
T ss_pred EEEEEECC--CCCCHHHHHHHHHHHHhhc
Confidence 57778776 5999999999999999754
No 368
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=76.78 E-value=2.2 Score=39.25 Aligned_cols=23 Identities=26% Similarity=0.502 Sum_probs=20.2
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHH
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
+|.||++ .|+|||+++..|++.+
T Consensus 5 ~i~i~G~--~G~GKst~a~~l~~~~ 27 (197)
T PRK12339 5 IHFIGGI--PGVGKTSISGYIARHR 27 (197)
T ss_pred EEEEECC--CCCCHHHHHHHHHHhc
Confidence 7788887 6999999999999886
No 369
>PRK04040 adenylate kinase; Provisional
Probab=76.75 E-value=2.5 Score=38.48 Aligned_cols=23 Identities=30% Similarity=0.362 Sum_probs=18.6
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHH
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLA 88 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~ 88 (364)
|+++|. -|+|||+++..|++.|.
T Consensus 5 i~v~G~---pG~GKtt~~~~l~~~l~ 27 (188)
T PRK04040 5 VVVTGV---PGVGKTTVLNKALEKLK 27 (188)
T ss_pred EEEEeC---CCCCHHHHHHHHHHHhc
Confidence 445553 59999999999999985
No 370
>PRK13975 thymidylate kinase; Provisional
Probab=76.63 E-value=2.4 Score=37.88 Aligned_cols=24 Identities=33% Similarity=0.487 Sum_probs=19.5
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHh
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLAD 89 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~ 89 (364)
|+..|. -|+||||++..|++.|..
T Consensus 5 I~ieG~---~GsGKtT~~~~L~~~l~~ 28 (196)
T PRK13975 5 IVFEGI---DGSGKTTQAKLLAEKLNA 28 (196)
T ss_pred EEEECC---CCCCHHHHHHHHHHHhCC
Confidence 455564 599999999999999953
No 371
>PRK02705 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=76.56 E-value=3.7 Score=42.01 Aligned_cols=35 Identities=29% Similarity=0.489 Sum_probs=29.9
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
+.|+|.|. |-.||||++..++..|...|.++....
T Consensus 108 ~~~~I~VT----GT~GKTTTt~ml~~iL~~~g~~~~~~g 142 (459)
T PRK02705 108 HIPWVGIT----GTNGKTTVTALLAHILQAAGLNAPACG 142 (459)
T ss_pred CCCEEEEe----CCCchHHHHHHHHHHHHHcCCCeEEec
Confidence 45888887 788999999999999999998887643
No 372
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=76.55 E-value=3.1 Score=34.23 Aligned_cols=25 Identities=32% Similarity=0.473 Sum_probs=19.9
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHh
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLAD 89 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~ 89 (364)
-+++.|- -|+|||.++.++++.+..
T Consensus 6 ~~~i~G~---~G~GKT~~~~~~~~~~~~ 30 (131)
T PF13401_consen 6 ILVISGP---PGSGKTTLIKRLARQLNA 30 (131)
T ss_dssp -EEEEE----TTSSHHHHHHHHHHHHHH
T ss_pred ccEEEcC---CCCCHHHHHHHHHHHhHH
Confidence 3566774 699999999999999875
No 373
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=76.54 E-value=4.2 Score=38.04 Aligned_cols=37 Identities=14% Similarity=0.078 Sum_probs=28.5
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
-+.+.|. -|||||+++..++..-.++|.++..+|-..
T Consensus 23 ~~lI~G~---pGsGKT~la~~~l~~~~~~ge~~lyvs~ee 59 (237)
T TIGR03877 23 VVLLSGG---PGTGKSIFSQQFLWNGLQMGEPGIYVALEE 59 (237)
T ss_pred EEEEEcC---CCCCHHHHHHHHHHHHHHcCCcEEEEEeeC
Confidence 4566664 699999999887765446799999998654
No 374
>PLN03118 Rab family protein; Provisional
Probab=76.53 E-value=2.3 Score=38.61 Aligned_cols=26 Identities=19% Similarity=0.432 Sum_probs=21.3
Q ss_pred cCCCCCcEEEEcCcccCCCCchHHHHHHH
Q 017904 56 KHRLPVPVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 56 ~~~~~vPVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.......|++||+ .|+|||+++..++
T Consensus 10 ~~~~~~kv~ivG~---~~vGKTsli~~l~ 35 (211)
T PLN03118 10 GYDLSFKILLIGD---SGVGKSSLLVSFI 35 (211)
T ss_pred ccCcceEEEEECc---CCCCHHHHHHHHH
Confidence 4455678999997 6999999998875
No 375
>PF08303 tRNA_lig_kinase: tRNA ligase kinase domain; InterPro: IPR015966 This entry represents a kinase domain found in fungal tRNA ligases []. Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation
Probab=76.47 E-value=2 Score=38.77 Aligned_cols=22 Identities=23% Similarity=0.146 Sum_probs=17.8
Q ss_pred cCCCCchHHHHHHHHHHHhCCC
Q 017904 71 WGGNGKTPMVEFLAHCLADSEI 92 (364)
Q Consensus 71 vGGtGKTP~v~~L~~~L~~~g~ 92 (364)
+=|+||||+...|..++-+.|+
T Consensus 7 tiGCGKTTva~aL~~LFg~wgH 28 (168)
T PF08303_consen 7 TIGCGKTTVALALSNLFGEWGH 28 (168)
T ss_pred CCCcCHHHHHHHHHHHcCCCCc
Confidence 3499999999999999954443
No 376
>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein. This is thought to be an ATPase involved in viral DNA packaging [].
Probab=76.41 E-value=4.3 Score=38.74 Aligned_cols=39 Identities=26% Similarity=0.467 Sum_probs=29.0
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
|.-+++||. -|||||+++..|+..+...=-.+.+++..+
T Consensus 13 ~fr~viIG~---sGSGKT~li~~lL~~~~~~f~~I~l~t~~~ 51 (241)
T PF04665_consen 13 PFRMVIIGK---SGSGKTTLIKSLLYYLRHKFDHIFLITPEY 51 (241)
T ss_pred CceEEEECC---CCCCHHHHHHHHHHhhcccCCEEEEEecCC
Confidence 345788996 599999999999999876533455556644
No 377
>PRK03839 putative kinase; Provisional
Probab=76.28 E-value=2.5 Score=37.50 Aligned_cols=22 Identities=36% Similarity=0.525 Sum_probs=18.7
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHH
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
|+.+|- -||||||+...|++.+
T Consensus 3 I~l~G~---pGsGKsT~~~~La~~~ 24 (180)
T PRK03839 3 IAITGT---PGVGKTTVSKLLAEKL 24 (180)
T ss_pred EEEECC---CCCCHHHHHHHHHHHh
Confidence 566774 5999999999999988
No 378
>KOG0927 consensus Predicted transporter (ABC superfamily) [General function prediction only]
Probab=76.01 E-value=6.1 Score=41.96 Aligned_cols=15 Identities=47% Similarity=0.990 Sum_probs=12.5
Q ss_pred CCCCcEEEEcCcccC
Q 017904 58 RLPVPVISVGNLTWG 72 (364)
Q Consensus 58 ~~~vPVIsVGNltvG 72 (364)
+.|-|||.++|++.|
T Consensus 384 ~~p~pvi~~~nv~F~ 398 (614)
T KOG0927|consen 384 KIPPPVIMVQNVSFG 398 (614)
T ss_pred CCCCCeEEEeccccC
Confidence 457899999999874
No 379
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=75.92 E-value=3.2 Score=44.71 Aligned_cols=36 Identities=17% Similarity=0.289 Sum_probs=30.5
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
-.+|.+.++ -|||||++...|++.|..+|..+..|.
T Consensus 460 ~~~i~~~G~--~gsGKst~a~~l~~~l~~~~~~~~~l~ 495 (632)
T PRK05506 460 PATVWFTGL--SGSGKSTIANLVERRLHALGRHTYLLD 495 (632)
T ss_pred cEEEEecCC--CCchHHHHHHHHHHHHHHcCCCEEEEc
Confidence 368888887 599999999999999988887777774
No 380
>COG2074 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]
Probab=75.87 E-value=4.6 Score=39.14 Aligned_cols=31 Identities=32% Similarity=0.506 Sum_probs=24.8
Q ss_pred CCc-EEEEcCcccCCCCchHHHHHHHHHHHhCCCceE
Q 017904 60 PVP-VISVGNLTWGGNGKTPMVEFLAHCLADSEISPL 95 (364)
Q Consensus 60 ~vP-VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kva 95 (364)
..| ||-+|+- -|+|||++...+|+.| |.+-.
T Consensus 87 ~~p~IILIGGa--sGVGkStIA~ElA~rL---gI~~v 118 (299)
T COG2074 87 KRPLIILIGGA--SGVGKSTIAGELARRL---GIRSV 118 (299)
T ss_pred CCCeEEEecCC--CCCChhHHHHHHHHHc---CCcee
Confidence 334 7789997 5999999999999998 55543
No 381
>COG0773 MurC UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]
Probab=75.82 E-value=2.2 Score=44.30 Aligned_cols=34 Identities=32% Similarity=0.501 Sum_probs=27.8
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
.+|.|. |-=||||++..|+..|.+.|..|.++-=
T Consensus 108 ~~iaVa----GTHGKTTTTsmla~vl~~~gldPtf~iG 141 (459)
T COG0773 108 TSIAVA----GTHGKTTTTSMLAWVLEAAGLDPTFLIG 141 (459)
T ss_pred eeEEEe----CCCCchhHHHHHHHHHHhCCCCCEEEEC
Confidence 456655 4559999999999999999999998843
No 382
>PRK13948 shikimate kinase; Provisional
Probab=75.81 E-value=2.8 Score=38.07 Aligned_cols=27 Identities=30% Similarity=0.186 Sum_probs=22.3
Q ss_pred CCCCcEEEEcCcccCCCCchHHHHHHHHHH
Q 017904 58 RLPVPVISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 58 ~~~vPVIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
+.+..|+.||- -|||||++...|++.|
T Consensus 8 ~~~~~I~LiG~---~GsGKSTvg~~La~~l 34 (182)
T PRK13948 8 RPVTWVALAGF---MGTGKSRIGWELSRAL 34 (182)
T ss_pred CCCCEEEEECC---CCCCHHHHHHHHHHHc
Confidence 34567888885 4999999999999987
No 383
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=75.69 E-value=2.6 Score=31.82 Aligned_cols=38 Identities=18% Similarity=0.439 Sum_probs=24.7
Q ss_pred HhcCCCccCCCCCc-----EEEEcCcccCCCCchHHHHHHHHHHHh
Q 017904 49 YRFGFFSKHRLPVP-----VISVGNLTWGGNGKTPMVEFLAHCLAD 89 (364)
Q Consensus 49 y~~gi~~~~~~~vP-----VIsVGNltvGGtGKTP~v~~L~~~L~~ 89 (364)
.++|-+....+++. +...|. =|+|||+++.++.-.|-.
T Consensus 7 ~Nw~~f~~~~~~~~~~g~~tli~G~---nGsGKSTllDAi~~~L~~ 49 (62)
T PF13555_consen 7 VNWGSFDGETIDFDPRGDVTLITGP---NGSGKSTLLDAIQTVLYG 49 (62)
T ss_pred eccCccCCeEEeecCCCcEEEEECC---CCCCHHHHHHHHHHHHcC
Confidence 44555555544432 445554 499999999999877754
No 384
>TIGR01081 mpl UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-diaminopimelate ligase. Alternate name: murein tripeptide ligase
Probab=75.62 E-value=3.9 Score=41.94 Aligned_cols=32 Identities=34% Similarity=0.541 Sum_probs=27.9
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
+|.|. |-.||||++..++..|.+.|+++..+.
T Consensus 104 ~I~IT----GT~GKTTTt~li~~iL~~~g~~~~~~~ 135 (448)
T TIGR01081 104 VLAVA----GTHGKTTTASMLAWVLEQCGLKPGFLI 135 (448)
T ss_pred EEEEE----CCCcHHHHHHHHHHHHHhcCCCCcEEe
Confidence 88887 788999999999999999999987543
No 385
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=75.51 E-value=19 Score=40.38 Aligned_cols=44 Identities=27% Similarity=0.301 Sum_probs=30.9
Q ss_pred cCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 51 FGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 51 ~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
.|+..+.+...+++.+|- -|||||.++..|++.+...+..+..+
T Consensus 586 ~gl~~~~~p~~~~Lf~Gp---~GvGKt~lA~~La~~l~~~~~~~i~~ 629 (852)
T TIGR03346 586 AGLSDPNRPIGSFLFLGP---TGVGKTELAKALAEFLFDDEDAMVRI 629 (852)
T ss_pred ccCCCCCCCCeEEEEEcC---CCCCHHHHHHHHHHHhcCCCCcEEEE
Confidence 444444454456778884 69999999999999987655554444
No 386
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=75.47 E-value=6.4 Score=40.46 Aligned_cols=48 Identities=21% Similarity=0.315 Sum_probs=32.2
Q ss_pred EEEcCcccCCCCchHHHHHHHHHHHhC--CCc-eEEEecCCCCCchHHHHHHHhCC
Q 017904 64 ISVGNLTWGGNGKTPMVEFLAHCLADS--EIS-PLILTRGYAGGDEVRMLERHLLE 116 (364)
Q Consensus 64 IsVGNltvGGtGKTP~v~~L~~~L~~~--g~k-vaIlsRGYg~GDE~~lla~~~~~ 116 (364)
.+|| -+|+|||+++..+++.+..+ +.+ ..+++..++ -|...+-+...+
T Consensus 173 lIvg---ppGvGKTTLaK~Ian~I~~nhFDv~~~VvLIgER~--~EVtdiqrsIlg 223 (416)
T PRK09376 173 LIVA---PPKAGKTVLLQNIANSITTNHPEVHLIVLLIDERP--EEVTDMQRSVKG 223 (416)
T ss_pred EEeC---CCCCChhHHHHHHHHHHHhhcCCeEEEEEEeCCch--hHHHHHHHHhcC
Confidence 4555 48999999999999999775 334 334566654 555555555544
No 387
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=75.45 E-value=3.8 Score=45.07 Aligned_cols=34 Identities=21% Similarity=0.282 Sum_probs=27.1
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCC--CceEEEec
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSE--ISPLILTR 99 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g--~kvaIlsR 99 (364)
+++-|. .|||||+++..+++.+.+.| .++.++.-
T Consensus 341 ~iitGg---pGTGKTt~l~~i~~~~~~~~~~~~v~l~Ap 376 (720)
T TIGR01448 341 VILTGG---PGTGKTTITRAIIELAEELGGLLPVGLAAP 376 (720)
T ss_pred EEEECC---CCCCHHHHHHHHHHHHHHcCCCceEEEEeC
Confidence 455554 69999999999999999887 77776654
No 388
>PRK01710 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=75.15 E-value=3.8 Score=42.24 Aligned_cols=33 Identities=24% Similarity=0.454 Sum_probs=28.5
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEE
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLI 96 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaI 96 (364)
+.|||.|. |-.||||++..++..|...|.++.+
T Consensus 116 ~~~vIaIT----GTnGKTTT~~ll~~iL~~~g~~~~~ 148 (458)
T PRK01710 116 PAKVFGVT----GSDGKTTTTTLIYEMLKEEGYKTWV 148 (458)
T ss_pred CCCEEEEE----CCCCHHHHHHHHHHHHHhCCCCEEE
Confidence 45888887 7889999999999999999988753
No 389
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=75.11 E-value=4 Score=40.68 Aligned_cols=33 Identities=24% Similarity=0.319 Sum_probs=26.0
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCC--CceEEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSE--ISPLIL 97 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g--~kvaIl 97 (364)
.+++.|. -|||||.++.++++.+.+++ ..++.+
T Consensus 57 ~~lI~G~---~GtGKT~l~~~v~~~l~~~~~~~~~v~i 91 (394)
T PRK00411 57 NVLIYGP---PGTGKTTTVKKVFEELEEIAVKVVYVYI 91 (394)
T ss_pred eEEEECC---CCCCHHHHHHHHHHHHHHhcCCcEEEEE
Confidence 4778884 79999999999999998765 444444
No 390
>TIGR02528 EutP ethanolamine utilization protein, EutP. This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.
Probab=75.09 E-value=2.3 Score=35.56 Aligned_cols=21 Identities=29% Similarity=0.493 Sum_probs=17.7
Q ss_pred cEEEEcCcccCCCCchHHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAH 85 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~ 85 (364)
.|+.||+ .|+|||+++..++.
T Consensus 2 kv~liG~---~~vGKSsL~~~l~~ 22 (142)
T TIGR02528 2 RIMFIGS---VGCGKTTLTQALQG 22 (142)
T ss_pred eEEEECC---CCCCHHHHHHHHcC
Confidence 5899998 69999999987753
No 391
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=75.08 E-value=14 Score=41.46 Aligned_cols=88 Identities=20% Similarity=0.291 Sum_probs=46.3
Q ss_pred cCCCccCCCCCc-EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE-ecCCCCCchHHHHHHHhCCC-CEEEeccccc
Q 017904 51 FGFFSKHRLPVP-VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL-TRGYAGGDEVRMLERHLLER-PAKIGKNCIN 127 (364)
Q Consensus 51 ~gi~~~~~~~vP-VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl-sRGYg~GDE~~lla~~~~~~-~v~v~~~~~~ 127 (364)
.|+..+.+ |.. ++-+|. -|+|||-++..|++.|-..+..+..+ +-.|.. +--.++.. |. |-.||.+. .
T Consensus 587 ~gl~~~~~-p~~~~lf~Gp---~GvGKT~lA~~La~~l~~~~~~~~~~dmse~~~---~~~~~~l~-g~~~gyvg~~~-~ 657 (852)
T TIGR03345 587 AGLEDPRK-PLGVFLLVGP---SGVGKTETALALAELLYGGEQNLITINMSEFQE---AHTVSRLK-GSPPGYVGYGE-G 657 (852)
T ss_pred cCCCCCCC-CceEEEEECC---CCCCHHHHHHHHHHHHhCCCcceEEEeHHHhhh---hhhhcccc-CCCCCcccccc-c
Confidence 45544433 555 467775 59999999999999986433332222 223431 11122221 22 22334321 0
Q ss_pred hhHHHhhhcCCCCEEEEcCC
Q 017904 128 PKVGSHLKSGKIGAVILDDG 147 (364)
Q Consensus 128 ~~~~~~~~~~~~dviIlDDg 147 (364)
......+.+.+.+||++|+-
T Consensus 658 g~L~~~v~~~p~svvllDEi 677 (852)
T TIGR03345 658 GVLTEAVRRKPYSVVLLDEV 677 (852)
T ss_pred chHHHHHHhCCCcEEEEech
Confidence 11223445667899999964
No 392
>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=75.07 E-value=2.3 Score=37.52 Aligned_cols=21 Identities=29% Similarity=0.487 Sum_probs=17.3
Q ss_pred CcEEEEcCcccCCCCchHHHHHHH
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~ 84 (364)
+.|+.||+ +|+|||+++..++
T Consensus 2 ~ki~vvG~---~~vGKTsl~~~~~ 22 (175)
T cd01874 2 IKCVVVGD---GAVGKTCLLISYT 22 (175)
T ss_pred eEEEEECC---CCCCHHHHHHHHH
Confidence 35899997 6999999987665
No 393
>PRK14733 coaE dephospho-CoA kinase; Provisional
Probab=75.04 E-value=2.4 Score=39.36 Aligned_cols=25 Identities=24% Similarity=0.426 Sum_probs=20.4
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHH
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
|..|-..|++ |||||++..++.+.+
T Consensus 6 ~~~IglTG~i---GsGKStv~~~l~~~l 30 (204)
T PRK14733 6 TYPIGITGGI---ASGKSTATRILKEKL 30 (204)
T ss_pred eEEEEEECCC---CCCHHHHHHHHHHHc
Confidence 4567788988 999999998887655
No 394
>PRK06851 hypothetical protein; Provisional
Probab=75.03 E-value=4.2 Score=41.17 Aligned_cols=34 Identities=12% Similarity=0.208 Sum_probs=26.4
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
.++++-+- -|||||+++..+++.+.++|+.|..+
T Consensus 31 ~~~il~G~--pGtGKStl~~~i~~~~~~~g~~Ve~~ 64 (367)
T PRK06851 31 RIFILKGG--PGTGKSTLMKKIGEEFLEKGYDVEFL 64 (367)
T ss_pred eEEEEECC--CCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 34444433 59999999999999999888887665
No 395
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=74.99 E-value=2.9 Score=39.19 Aligned_cols=27 Identities=26% Similarity=0.406 Sum_probs=22.1
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSE 91 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g 91 (364)
.++.+|- .|+|||+++.++++.+...+
T Consensus 45 ~~~l~G~---~G~GKTtl~~~l~~~l~~~~ 71 (269)
T TIGR03015 45 FILITGE---VGAGKTTLIRNLLKRLDQER 71 (269)
T ss_pred EEEEEcC---CCCCHHHHHHHHHHhcCCCC
Confidence 4677885 69999999999999987433
No 396
>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional
Probab=74.98 E-value=2.5 Score=43.19 Aligned_cols=24 Identities=29% Similarity=0.444 Sum_probs=20.0
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHH
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
.-|+++|. .||||||++..|++.+
T Consensus 220 ~~IvI~G~---~gsGKTTL~~~La~~~ 243 (399)
T PRK08099 220 RTVAILGG---ESSGKSTLVNKLANIF 243 (399)
T ss_pred cEEEEEcC---CCCCHHHHHHHHHHHh
Confidence 45677774 6999999999999887
No 397
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=74.97 E-value=2.9 Score=37.89 Aligned_cols=32 Identities=28% Similarity=0.387 Sum_probs=24.4
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
-|+++|. -|+||||+...|++.+ .+.=+|.|.
T Consensus 2 riiilG~---pGaGK~T~A~~La~~~-----~i~hlstgd 33 (178)
T COG0563 2 RILILGP---PGAGKSTLAKKLAKKL-----GLPHLDTGD 33 (178)
T ss_pred eEEEECC---CCCCHHHHHHHHHHHh-----CCcEEcHhH
Confidence 3788995 6999999999998884 445566554
No 398
>PRK13764 ATPase; Provisional
Probab=74.91 E-value=3.7 Score=44.19 Aligned_cols=32 Identities=25% Similarity=0.299 Sum_probs=25.5
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLI 96 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaI 96 (364)
-+++.|. -||||||++..|+.++.++|+.+..
T Consensus 259 ~ILIsG~---TGSGKTTll~AL~~~i~~~~riV~T 290 (602)
T PRK13764 259 GILIAGA---PGAGKSTFAQALAEFYADMGKIVKT 290 (602)
T ss_pred EEEEECC---CCCCHHHHHHHHHHHHhhCCCEEEE
Confidence 3667774 5999999999999999888765533
No 399
>PRK08506 replicative DNA helicase; Provisional
Probab=74.86 E-value=4.3 Score=42.31 Aligned_cols=39 Identities=13% Similarity=0.091 Sum_probs=32.6
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
-+|+||.- -|.|||.|+..++....++|.+|++.|=+-.
T Consensus 193 ~LivIaar--pg~GKT~fal~ia~~~~~~g~~V~~fSlEMs 231 (472)
T PRK08506 193 DLIIIAAR--PSMGKTTLCLNMALKALNQDKGVAFFSLEMP 231 (472)
T ss_pred ceEEEEcC--CCCChHHHHHHHHHHHHhcCCcEEEEeCcCC
Confidence 46777765 5999999999999988778999999987754
No 400
>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=74.79 E-value=2.9 Score=36.44 Aligned_cols=23 Identities=22% Similarity=0.377 Sum_probs=18.6
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHH
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAH 85 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~ 85 (364)
...|+.+|+ +|+|||+++..+..
T Consensus 14 ~~kv~ivG~---~~~GKTsL~~~l~~ 36 (173)
T cd04154 14 EMRILILGL---DNAGKTTILKKLLG 36 (173)
T ss_pred ccEEEEECC---CCCCHHHHHHHHcc
Confidence 467899996 79999999887653
No 401
>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=74.76 E-value=2.7 Score=35.89 Aligned_cols=20 Identities=30% Similarity=0.473 Sum_probs=16.8
Q ss_pred cEEEEcCcccCCCCchHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.|+.||+ +|+|||+++..+.
T Consensus 2 ki~vvG~---~~~GKtsl~~~l~ 21 (164)
T cd04101 2 RCAVVGD---PAVGKTAFVQMFH 21 (164)
T ss_pred EEEEECC---CCCCHHHHHHHHh
Confidence 5789997 7999999997665
No 402
>PRK00625 shikimate kinase; Provisional
Probab=74.74 E-value=2.9 Score=37.60 Aligned_cols=23 Identities=30% Similarity=0.333 Sum_probs=19.3
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
.|+.|| +-|||||++...|++.|
T Consensus 2 ~I~LiG---~pGsGKTT~~k~La~~l 24 (173)
T PRK00625 2 QIFLCG---LPTVGKTSFGKALAKFL 24 (173)
T ss_pred EEEEEC---CCCCCHHHHHHHHHHHh
Confidence 356666 47999999999999988
No 403
>PRK03731 aroL shikimate kinase II; Reviewed
Probab=74.65 E-value=3 Score=36.49 Aligned_cols=23 Identities=43% Similarity=0.585 Sum_probs=19.8
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
+++.+|. -|||||++...|++.|
T Consensus 4 ~i~~~G~---~GsGKst~~~~la~~l 26 (171)
T PRK03731 4 PLFLVGA---RGCGKTTVGMALAQAL 26 (171)
T ss_pred eEEEECC---CCCCHHHHHHHHHHHh
Confidence 5677774 5999999999999988
No 404
>PHA00520 packaging NTPase P4
Probab=74.59 E-value=3.5 Score=40.46 Aligned_cols=35 Identities=29% Similarity=0.430 Sum_probs=26.7
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
-.+.||. ||+||||++.+++..+- .|-+.++|.=|
T Consensus 126 v~vvvG~---t~sGKT~~~na~a~~vg-g~d~y~vIR~G 160 (330)
T PHA00520 126 VEVVVGG---TGSGKTPLLNALAPDVG-GGDKYAVIRWG 160 (330)
T ss_pred eEEEEcc---CCCCCchhhhhhhhhhc-CCCceeEEEec
Confidence 4566774 89999999999977774 46788888643
No 405
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=74.51 E-value=2.7 Score=37.06 Aligned_cols=25 Identities=28% Similarity=0.557 Sum_probs=19.4
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADS 90 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~ 90 (364)
++++|- =|+|||++...|+..+...
T Consensus 4 ~~i~G~---sGsGKttl~~~l~~~~~~~ 28 (179)
T TIGR02322 4 IYVVGP---SGAGKDTLLDYARARLAGD 28 (179)
T ss_pred EEEECC---CCCCHHHHHHHHHHHcCcC
Confidence 455564 4999999999999987543
No 406
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=74.43 E-value=3 Score=36.92 Aligned_cols=25 Identities=24% Similarity=0.341 Sum_probs=20.1
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLA 88 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~ 88 (364)
.+|++-+. -||||||++..|++.+.
T Consensus 3 ~~i~l~G~--~gsGKst~a~~l~~~~~ 27 (175)
T cd00227 3 RIIILNGG--SSAGKSSIARALQSVLA 27 (175)
T ss_pred CEEEEECC--CCCCHHHHHHHHHHhhC
Confidence 46666666 69999999999998874
No 407
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=74.29 E-value=3.9 Score=47.02 Aligned_cols=36 Identities=19% Similarity=0.164 Sum_probs=30.0
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
-++++|. -|||||+++..+.+.+.+.|++|..+.-.
T Consensus 399 ~~~v~G~---AGTGKTt~l~~~~~~~e~~G~~V~g~ApT 434 (1102)
T PRK13826 399 IAAVVGR---AGAGKTTMMKAAREAWEAAGYRVVGGALA 434 (1102)
T ss_pred eEEEEeC---CCCCHHHHHHHHHHHHHHcCCeEEEEcCc
Confidence 3566774 69999999999999999999998877554
No 408
>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=74.24 E-value=2.7 Score=36.22 Aligned_cols=21 Identities=33% Similarity=0.555 Sum_probs=17.2
Q ss_pred CcEEEEcCcccCCCCchHHHHHHH
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~ 84 (364)
..|+.||+ +|+|||+++..++
T Consensus 2 ~kv~~vG~---~~vGKTsli~~~~ 22 (165)
T cd04140 2 YRVVVFGA---GGVGKSSLVLRFV 22 (165)
T ss_pred eEEEEECC---CCCCHHHHHHHHH
Confidence 35889996 7999999988654
No 409
>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]
Probab=74.19 E-value=3.2 Score=37.85 Aligned_cols=42 Identities=24% Similarity=0.327 Sum_probs=27.2
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHh
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHL 114 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~ 114 (364)
-|+++| +-|+||||++..+.+.+-+ + -++ .|| |=-+..|.+.
T Consensus 6 vvvitG---VpGvGKTTVl~~~~~~l~~--~--~iv--NyG--~~Mle~A~k~ 47 (189)
T COG2019 6 VVVITG---VPGVGKTTVLKIALKELVK--H--KIV--NYG--DLMLEIAKKK 47 (189)
T ss_pred EEEEEc---CCCCChHHHHHHHHHHHhh--c--eee--eHh--HHHHHHHHHh
Confidence 355555 5899999999999888821 2 222 465 5555555554
No 410
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=74.18 E-value=3.7 Score=40.70 Aligned_cols=24 Identities=25% Similarity=0.538 Sum_probs=20.0
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHH
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
..++++|. -|||||+++..|+..+
T Consensus 149 ~~ilI~G~---tGSGKTTll~aL~~~~ 172 (319)
T PRK13894 149 RNILVIGG---TGSGKTTLVNAIINEM 172 (319)
T ss_pred CeEEEECC---CCCCHHHHHHHHHHhh
Confidence 46777785 5999999999999876
No 411
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=74.11 E-value=3.6 Score=42.94 Aligned_cols=27 Identities=26% Similarity=0.379 Sum_probs=23.3
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEI 92 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~ 92 (364)
+++-| +-|+|||||+++||+++.++|.
T Consensus 266 ILIAG---~PGaGKsTFaqAlAefy~~~Gk 292 (604)
T COG1855 266 ILIAG---APGAGKSTFAQALAEFYASQGK 292 (604)
T ss_pred eEEec---CCCCChhHHHHHHHHHHHhcCc
Confidence 45556 4699999999999999999997
No 412
>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=74.11 E-value=2.9 Score=35.40 Aligned_cols=20 Identities=40% Similarity=0.635 Sum_probs=17.0
Q ss_pred cEEEEcCcccCCCCchHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.|+.||. .|+|||+++..++
T Consensus 2 ki~~vG~---~~vGKTsli~~l~ 21 (168)
T cd04119 2 KVISMGN---SGVGKSCIIKRYC 21 (168)
T ss_pred EEEEECC---CCCCHHHHHHHHH
Confidence 5789996 6999999988775
No 413
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=74.08 E-value=4.1 Score=40.52 Aligned_cols=36 Identities=31% Similarity=0.298 Sum_probs=28.1
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHH--HhCCCceEEEecC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCL--ADSEISPLILTRG 100 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L--~~~g~kvaIlsRG 100 (364)
||+|-+- -|||||-++..+++.| .+.+.++.+++..
T Consensus 3 v~~I~G~--aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n 40 (352)
T PF09848_consen 3 VILITGG--AGTGKTVLALNLAKELQNSEEGKKVLYLCGN 40 (352)
T ss_pred EEEEEec--CCcCHHHHHHHHHHHhhccccCCceEEEEec
Confidence 4444443 6999999999999999 7777888877755
No 414
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=73.97 E-value=3.1 Score=37.07 Aligned_cols=23 Identities=35% Similarity=0.445 Sum_probs=20.1
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
+|+.||- -|+|||++...|++.+
T Consensus 6 ~I~liG~---~GaGKStl~~~La~~l 28 (172)
T PRK05057 6 NIFLVGP---MGAGKSTIGRQLAQQL 28 (172)
T ss_pred EEEEECC---CCcCHHHHHHHHHHHc
Confidence 6788885 4999999999999987
No 415
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=73.84 E-value=4.3 Score=41.91 Aligned_cols=35 Identities=20% Similarity=0.487 Sum_probs=28.2
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhC--CCceEEEe
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADS--EISPLILT 98 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~--g~kvaIls 98 (364)
-|++..|.- |+|||.++..++..+.++ +.++..++
T Consensus 131 n~l~lyG~~---G~GKTHLl~ai~~~l~~~~~~~~v~yi~ 167 (440)
T PRK14088 131 NPLFIYGGV---GLGKTHLLQSIGNYVVQNEPDLRVMYIT 167 (440)
T ss_pred CeEEEEcCC---CCcHHHHHHHHHHHHHHhCCCCeEEEEE
Confidence 389999974 999999999999998775 45666554
No 416
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=73.83 E-value=3.8 Score=49.95 Aligned_cols=30 Identities=30% Similarity=0.520 Sum_probs=27.4
Q ss_pred CCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 72 GGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
+|||||+++..+++.+++.|++|.+++-.-
T Consensus 455 aGTGKTt~l~~l~~~~~~~G~~V~~lAPTg 484 (1960)
T TIGR02760 455 GGTGSTEIAQLLLHLASEQGYEIQIITAGS 484 (1960)
T ss_pred CCCCHHHHHHHHHHHHHhcCCeEEEEeCCH
Confidence 899999999999999999999999997653
No 417
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=73.82 E-value=3.1 Score=36.74 Aligned_cols=22 Identities=23% Similarity=0.397 Sum_probs=17.7
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHH
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
|+++|. -||||||+...|++.+
T Consensus 2 i~i~G~---pGsGKst~a~~la~~~ 23 (183)
T TIGR01359 2 VFVLGG---PGSGKGTQCAKIVENF 23 (183)
T ss_pred EEEECC---CCCCHHHHHHHHHHHc
Confidence 445663 6999999999999877
No 418
>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=73.78 E-value=2.9 Score=35.14 Aligned_cols=20 Identities=35% Similarity=0.606 Sum_probs=17.0
Q ss_pred cEEEEcCcccCCCCchHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.|+++|+ .|+|||+++..++
T Consensus 3 ki~iiG~---~~vGKTsl~~~~~ 22 (162)
T cd04138 3 KLVVVGA---GGVGKSALTIQLI 22 (162)
T ss_pred EEEEECC---CCCCHHHHHHHHH
Confidence 5889997 6999999987775
No 419
>PRK12338 hypothetical protein; Provisional
Probab=73.75 E-value=2.7 Score=41.72 Aligned_cols=24 Identities=38% Similarity=0.509 Sum_probs=21.8
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
.+|.||+. .|||||++...|++.+
T Consensus 5 ~ii~i~G~--sGsGKST~a~~la~~l 28 (319)
T PRK12338 5 YVILIGSA--SGIGKSTIASELARTL 28 (319)
T ss_pred EEEEEECC--CCCCHHHHHHHHHHHC
Confidence 48899987 6999999999999998
No 420
>PRK04328 hypothetical protein; Provisional
Probab=73.71 E-value=5.4 Score=37.74 Aligned_cols=37 Identities=14% Similarity=0.069 Sum_probs=28.9
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
-+++.|. -|||||.|...++..-.++|.++..+|=.-
T Consensus 25 ~ili~G~---pGsGKT~l~~~fl~~~~~~ge~~lyis~ee 61 (249)
T PRK04328 25 VVLLSGG---PGTGKSIFSQQFLWNGLQMGEPGVYVALEE 61 (249)
T ss_pred EEEEEcC---CCCCHHHHHHHHHHHHHhcCCcEEEEEeeC
Confidence 4666775 589999999988776556799999998654
No 421
>PRK11929 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2,6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional
Probab=73.69 E-value=7.1 Score=44.06 Aligned_cols=36 Identities=25% Similarity=0.309 Sum_probs=31.5
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
..|||.|. |-.|||+++.++...|++.|++++..++
T Consensus 111 ~~~vI~IT----GTnGKTTT~~~l~~iL~~~g~~~~~~g~ 146 (958)
T PRK11929 111 QLSLVAVT----GTNGKTSCAQLLAQLLTRLGKPCGSIGT 146 (958)
T ss_pred ccEEEEEE----CCCccHHHHHHHHHHHHHcCCCEEEECC
Confidence 45899887 7889999999999999999999988754
No 422
>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated
Probab=73.55 E-value=7.1 Score=41.76 Aligned_cols=33 Identities=21% Similarity=0.289 Sum_probs=26.2
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHh-CCCceEEE
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLAD-SEISPLIL 97 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~-~g~kvaIl 97 (364)
+|++.++ -|||||++...|++.|.. .|.++.++
T Consensus 394 ~Ivl~Gl--~GSGKSTia~~La~~L~~~~g~~~~~l 427 (568)
T PRK05537 394 TVFFTGL--SGAGKSTIAKALMVKLMEMRGRPVTLL 427 (568)
T ss_pred EEEEECC--CCChHHHHHHHHHHHhhhccCceEEEe
Confidence 6666667 599999999999999976 56555555
No 423
>PHA02542 41 41 helicase; Provisional
Probab=73.53 E-value=4.7 Score=42.16 Aligned_cols=38 Identities=16% Similarity=-0.047 Sum_probs=30.2
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
.|+||.= -|.|||+++..+|....++|.+|+++|=+-.
T Consensus 192 LiiIaar--PgmGKTtfalniA~~~a~~g~~Vl~fSLEM~ 229 (473)
T PHA02542 192 LNVLLAG--VNVGKSLGLCSLAADYLQQGYNVLYISMEMA 229 (473)
T ss_pred EEEEEcC--CCccHHHHHHHHHHHHHhcCCcEEEEeccCC
Confidence 4445533 4889999999999988788999999987664
No 424
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=73.48 E-value=4.1 Score=43.72 Aligned_cols=34 Identities=24% Similarity=0.305 Sum_probs=24.5
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCC-----CceEEEec
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSE-----ISPLILTR 99 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g-----~kvaIlsR 99 (364)
+++-|. .|||||+++..++..|.+.+ .++++..-
T Consensus 163 ~vitGg---pGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~AP 201 (586)
T TIGR01447 163 SLITGG---PGTGKTTTVARLLLALVKQSPKQGKLRIALAAP 201 (586)
T ss_pred EEEEcC---CCCCHHHHHHHHHHHHHHhccccCCCcEEEECC
Confidence 444553 79999999999999887543 45666554
No 425
>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=73.40 E-value=3 Score=35.98 Aligned_cols=20 Identities=35% Similarity=0.501 Sum_probs=16.3
Q ss_pred cEEEEcCcccCCCCchHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.|+++|+ +|+|||+++..+.
T Consensus 2 ki~i~G~---~~~GKTsl~~~~~ 21 (174)
T cd04135 2 KCVVVGD---GAVGKTCLLMSYA 21 (174)
T ss_pred EEEEECC---CCCCHHHHHHHHH
Confidence 5789996 6999999986554
No 426
>COG1245 Predicted ATPase, RNase L inhibitor (RLI) homolog [General function prediction only]
Probab=73.36 E-value=3.9 Score=42.74 Aligned_cols=33 Identities=33% Similarity=0.542 Sum_probs=26.0
Q ss_pred cCCCCchHHHHHHHHHHH-hCC--------CceEEEecCCCC
Q 017904 71 WGGNGKTPMVEFLAHCLA-DSE--------ISPLILTRGYAG 103 (364)
Q Consensus 71 vGGtGKTP~v~~L~~~L~-~~g--------~kvaIlsRGYg~ 103 (364)
--|+|||||+..||-.++ ..| |||--|+-.|.+
T Consensus 375 pNgiGKTTFvk~LAG~ikPdeg~~~~~~vSyKPQyI~~~~~g 416 (591)
T COG1245 375 PNGIGKTTFVKLLAGVIKPDEGSEEDLKVSYKPQYISPDYDG 416 (591)
T ss_pred CCCcchHHHHHHHhccccCCCCCCccceEeecceeecCCCCC
Confidence 359999999999998887 444 677778777754
No 427
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=73.26 E-value=5.2 Score=37.77 Aligned_cols=39 Identities=18% Similarity=0.121 Sum_probs=32.1
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhC-CCceEEEecCCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADS-EISPLILTRGYA 102 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~-g~kvaIlsRGYg 102 (364)
-+++||.- -|.|||.++..++..+..+ |++|.++|=+-.
T Consensus 20 ~L~vi~a~--pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~ 59 (259)
T PF03796_consen 20 ELTVIAAR--PGVGKTAFALQIALNAALNGGYPVLYFSLEMS 59 (259)
T ss_dssp -EEEEEES--TTSSHHHHHHHHHHHHHHTTSSEEEEEESSS-
T ss_pred cEEEEEec--ccCCchHHHHHHHHHHHHhcCCeEEEEcCCCC
Confidence 36777766 5999999999999988776 699999998875
No 428
>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit. This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.
Probab=73.20 E-value=13 Score=38.56 Aligned_cols=51 Identities=29% Similarity=0.383 Sum_probs=34.7
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceE--EEe-cCCCCCchHHHHHHH
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPL--ILT-RGYAGGDEVRMLERH 113 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kva--Ils-RGYg~GDE~~lla~~ 113 (364)
|.-|+.+|. -|||||.++..|++.+....+++- .++ .||-+.|-.-++...
T Consensus 47 p~~ILLiGp---pG~GKT~lAraLA~~l~~~fi~vdat~~~e~g~vG~dvE~i~r~l 100 (441)
T TIGR00390 47 PKNILMIGP---TGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRDVESMVRDL 100 (441)
T ss_pred CceEEEECC---CCCCHHHHHHHHHHHhCCeEEEeecceeecCCcccCCHHHHHHHH
Confidence 456888995 699999999999999966555555 233 577543443344433
No 429
>COG0421 SpeE Spermidine synthase [Amino acid transport and metabolism]
Probab=72.92 E-value=3 Score=40.70 Aligned_cols=77 Identities=18% Similarity=0.282 Sum_probs=49.1
Q ss_pred EEEEcCCCCCccccC-ceeEEEEeCCCCCCCCccccCCCCCCc-hhhhccccEEEEcC-CcchhhhhhHHHHHHHHhhcc
Q 017904 141 AVILDDGMQHWSLRR-DLEIVMVNGLMPWGNRKLLPLGPLREP-LMALKRADIAVVHH-ADLISEQNLKDIELEMRDIKK 217 (364)
Q Consensus 141 viIlDDgfQh~~L~r-dl~Ivl~Da~~~~gn~~~lPaG~LREp-~~~L~rAd~ivvtk-~d~~~~~~~~~i~~~l~~~~~ 217 (364)
=|++|||++.-+-.. .+|++++|.++|.|-+..|....+-+- .+.|+..-+++.+. +.....++.......+++..+
T Consensus 133 ~i~i~Dg~~~v~~~~~~fDvIi~D~tdp~gp~~~Lft~eFy~~~~~~L~~~Gi~v~q~~~~~~~~~~~~~~~~~~~~vf~ 212 (282)
T COG0421 133 EIIIDDGVEFLRDCEEKFDVIIVDSTDPVGPAEALFTEEFYEGCRRALKEDGIFVAQAGSPFLQDEEIALAYRNVSRVFS 212 (282)
T ss_pred EEEeccHHHHHHhCCCcCCEEEEcCCCCCCcccccCCHHHHHHHHHhcCCCcEEEEecCCcccchHHHHHHHHHHHhhcc
Confidence 578899998876444 699999999999776556655554333 33666667776663 333333445555555555443
No 430
>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=72.92 E-value=3.1 Score=35.44 Aligned_cols=20 Identities=25% Similarity=0.532 Sum_probs=17.1
Q ss_pred cEEEEcCcccCCCCchHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.|+++|+ +|+|||+++..+.
T Consensus 2 ki~v~G~---~~vGKTsli~~l~ 21 (161)
T cd04113 2 KFIIIGS---SGTGKSCLLHRFV 21 (161)
T ss_pred EEEEECC---CCCCHHHHHHHHH
Confidence 4788997 6999999998875
No 431
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=72.73 E-value=21 Score=39.29 Aligned_cols=88 Identities=18% Similarity=0.217 Sum_probs=45.3
Q ss_pred hcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE-ecCCCCCchHHHHHHHhCCCCEEEeccccch
Q 017904 50 RFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL-TRGYAGGDEVRMLERHLLERPAKIGKNCINP 128 (364)
Q Consensus 50 ~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl-sRGYg~GDE~~lla~~~~~~~v~v~~~~~~~ 128 (364)
+.|+..+.++...++.+|. -|||||.++..|++.+ +.+...+ +-.|... ...++.....+-.||.+. ..
T Consensus 474 ~~g~~~~~~p~~~~lf~Gp---~GvGKT~lA~~la~~l---~~~~~~~d~se~~~~---~~~~~lig~~~gyvg~~~-~~ 543 (731)
T TIGR02639 474 RAGLGNPNKPVGSFLFTGP---TGVGKTELAKQLAEAL---GVHLERFDMSEYMEK---HTVSRLIGAPPGYVGFEQ-GG 543 (731)
T ss_pred hcCCCCCCCCceeEEEECC---CCccHHHHHHHHHHHh---cCCeEEEeCchhhhc---ccHHHHhcCCCCCcccch-hh
Confidence 3454444443223578886 5999999999999998 3343333 2344321 112222211112333321 11
Q ss_pred hHHHhhhcCCCCEEEEcCC
Q 017904 129 KVGSHLKSGKIGAVILDDG 147 (364)
Q Consensus 129 ~~~~~~~~~~~dviIlDDg 147 (364)
.....+...+..||++|+-
T Consensus 544 ~l~~~~~~~p~~VvllDEi 562 (731)
T TIGR02639 544 LLTEAVRKHPHCVLLLDEI 562 (731)
T ss_pred HHHHHHHhCCCeEEEEech
Confidence 1223344556789999953
No 432
>COG1160 Predicted GTPases [General function prediction only]
Probab=72.62 E-value=8.4 Score=39.94 Aligned_cols=136 Identities=17% Similarity=0.282 Sum_probs=72.9
Q ss_pred CCCchHHHHHHHHHH------HhC----CCceEEEecCCCCCchHHHHHHHhCCCCEEEecc-ccchhHH-HhhhcCCCC
Q 017904 73 GNGKTPMVEFLAHCL------ADS----EISPLILTRGYAGGDEVRMLERHLLERPAKIGKN-CINPKVG-SHLKSGKIG 140 (364)
Q Consensus 73 GtGKTP~v~~L~~~L------~~~----g~kvaIlsRGYg~GDE~~lla~~~~~~~v~v~~~-~~~~~~~-~~~~~~~~d 140 (364)
|-|=.-+..++.+.| ... ..|+|||-|--- |.-+ ++-..+++-.+.|+.- ..-++.. ...+..+-.
T Consensus 150 g~Gi~dLld~v~~~l~~~e~~~~~~~~~~ikiaiiGrPNv-GKSs-LiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~~~ 227 (444)
T COG1160 150 GRGIGDLLDAVLELLPPDEEEEEEEETDPIKIAIIGRPNV-GKSS-LINAILGEERVIVSDIAGTTRDSIDIEFERDGRK 227 (444)
T ss_pred ccCHHHHHHHHHhhcCCcccccccccCCceEEEEEeCCCC-CchH-HHHHhccCceEEecCCCCccccceeeeEEECCeE
Confidence 556666777777765 111 267777766542 3333 2333333333333220 0000110 011222345
Q ss_pred EEEEc-----------CCCCCccccCcee--------EEEEeCCCCCCCCccccCCCCCCchhhhccccEEEEcCCcchh
Q 017904 141 AVILD-----------DGMQHWSLRRDLE--------IVMVNGLMPWGNRKLLPLGPLREPLMALKRADIAVVHHADLIS 201 (364)
Q Consensus 141 viIlD-----------DgfQh~~L~rdl~--------Ivl~Da~~~~gn~~~lPaG~LREp~~~L~rAd~ivvtk~d~~~ 201 (364)
..++| ++...+++.|++. ++|+||+.|+.....-=+| ......+|.+|++||-|++.
T Consensus 228 ~~liDTAGiRrk~ki~e~~E~~Sv~rt~~aI~~a~vvllviDa~~~~~~qD~~ia~----~i~~~g~~~vIvvNKWDl~~ 303 (444)
T COG1160 228 YVLIDTAGIRRKGKITESVEKYSVARTLKAIERADVVLLVIDATEGISEQDLRIAG----LIEEAGRGIVIVVNKWDLVE 303 (444)
T ss_pred EEEEECCCCCcccccccceEEEeehhhHhHHhhcCEEEEEEECCCCchHHHHHHHH----HHHHcCCCeEEEEEccccCC
Confidence 67777 4555555555544 6889999987542111122 13467899999999999876
Q ss_pred h--hhhHHHHHHHHh
Q 017904 202 E--QNLKDIELEMRD 214 (364)
Q Consensus 202 ~--~~~~~i~~~l~~ 214 (364)
+ ..++.+++.++.
T Consensus 304 ~~~~~~~~~k~~i~~ 318 (444)
T COG1160 304 EDEATMEEFKKKLRR 318 (444)
T ss_pred chhhHHHHHHHHHHH
Confidence 5 556666666664
No 433
>COG1806 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=72.42 E-value=3.6 Score=39.84 Aligned_cols=35 Identities=29% Similarity=0.195 Sum_probs=27.9
Q ss_pred HhcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHH
Q 017904 49 YRFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHC 86 (364)
Q Consensus 49 y~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~ 86 (364)
||-|.-...-...-||.|| |-=|||||+.+|||-+
T Consensus 133 hDDG~~~~~l~~ADvILvG---VSRtsKTPtS~YLA~q 167 (273)
T COG1806 133 HDDGQSPRNLDEADVILVG---VSRTSKTPTSLYLALQ 167 (273)
T ss_pred ccCCCCccccCccCEEEEe---eccCCCCchHHHHHHh
Confidence 4667665555567899999 6799999999999864
No 434
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=72.32 E-value=1.2e+02 Score=31.05 Aligned_cols=59 Identities=12% Similarity=0.222 Sum_probs=40.3
Q ss_pred CCCeEEEEe-cCCChHHHHHHHHHhCCcccccccCCCCCCCCHHHHHHHHHHHHhhhcCCCCCCeEEecc
Q 017904 247 CNANVLCVS-AIGSANAFVQSLQKLGPCSVNRLDFNDHHSFQARDIEMIKKKLEELEGKFNPKPIVVVTE 315 (364)
Q Consensus 247 ~~~~v~a~s-GIg~P~~F~~~L~~~G~~~~~~~~f~DHh~yt~~dl~~l~~~~~~~~~~~~~~~~ivtTE 315 (364)
.+.++++|| ....-+.+.+.|++.|..+. .=|-..+.++-+.+.+.+++ +...++|||.
T Consensus 241 ~~~~~lVF~~t~~~~~~l~~~L~~~~~~v~-----~~hg~~~~~eR~~~l~~F~~-----g~~~vLVaTd 300 (460)
T PRK11776 241 QPESCVVFCNTKKECQEVADALNAQGFSAL-----ALHGDLEQRDRDQVLVRFAN-----RSCSVLVATD 300 (460)
T ss_pred CCCceEEEECCHHHHHHHHHHHHhCCCcEE-----EEeCCCCHHHHHHHHHHHHc-----CCCcEEEEec
Confidence 345677777 44556777888888886443 22677888888888877764 2346899994
No 435
>PRK00421 murC UDP-N-acetylmuramate--L-alanine ligase; Provisional
Probab=72.31 E-value=5.2 Score=41.18 Aligned_cols=32 Identities=41% Similarity=0.679 Sum_probs=27.1
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
|||.|. |-.||||++..+...|++.|+++..+
T Consensus 108 ~~I~IT----GTnGKTTTt~ll~~iL~~~g~~~~~~ 139 (461)
T PRK00421 108 TSIAVA----GTHGKTTTTSLLAHVLAEAGLDPTFL 139 (461)
T ss_pred cEEEEE----CCCCHHHHHHHHHHHHHhcCCCCeEE
Confidence 788887 77899999999999999999764444
No 436
>TIGR02759 TraD_Ftype type IV conjugative transfer system coupling protein TraD. The TraD protein performs an essential coupling function in conjugative type IV secretion systems. This protein sits at the inner membrane in contact with the assembled pilus and its scaffold as well as the relaxosome-plasmid DNA complex (through TraM).
Probab=72.31 E-value=4.9 Score=42.99 Aligned_cols=34 Identities=18% Similarity=0.342 Sum_probs=28.6
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
++++|.- |||||.++..|+.++.++|.++.|+=.
T Consensus 179 ~li~G~t---GsGKs~~i~~ll~~~~~~g~~~ii~D~ 212 (566)
T TIGR02759 179 ILIHGTT---GSGKSVAIRKLLRWIRQRGDRAIIYDK 212 (566)
T ss_pred eEEEcCC---CCCHHHHHHHHHHHHHhcCCeEEEEEC
Confidence 5667754 999999999999999999999888744
No 437
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=72.23 E-value=8.7 Score=38.22 Aligned_cols=35 Identities=23% Similarity=0.281 Sum_probs=26.9
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
.|-|-+- -||||||++..++.++.++ ..--||+=.
T Consensus 127 LILVTGp--TGSGKSTTlAamId~iN~~-~~~HIlTIE 161 (353)
T COG2805 127 LILVTGP--TGSGKSTTLAAMIDYINKH-KAKHILTIE 161 (353)
T ss_pred eEEEeCC--CCCcHHHHHHHHHHHHhcc-CCcceEEec
Confidence 3566665 4999999999999999764 566677654
No 438
>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=72.18 E-value=3.4 Score=33.85 Aligned_cols=22 Identities=23% Similarity=0.468 Sum_probs=17.5
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHH
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAH 85 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~ 85 (364)
..|..+|. .|+|||+++..+..
T Consensus 2 ~ki~~~G~---~~~GKstl~~~l~~ 23 (161)
T TIGR00231 2 IKIVIVGD---PNVGKSTLLNRLLG 23 (161)
T ss_pred eEEEEECC---CCCCHHHHHHHHhC
Confidence 35788896 59999999887753
No 439
>COG1348 NifH Nitrogenase subunit NifH (ATPase) [Inorganic ion transport and metabolism]
Probab=72.16 E-value=3.7 Score=39.30 Aligned_cols=31 Identities=32% Similarity=0.328 Sum_probs=27.5
Q ss_pred CCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 72 GGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
||-||+|++..++..|.+.|+||-++-=.=+
T Consensus 10 GGIGKSTts~N~aAAla~~GkkVl~vGCDPK 40 (278)
T COG1348 10 GGIGKSTTSQNLAAALAELGKKVLIVGCDPK 40 (278)
T ss_pred CCcCcchhHHHHHHHHHHcCCeEEEEcCCCC
Confidence 8999999999999999999999999854433
No 440
>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=72.12 E-value=3.4 Score=35.08 Aligned_cols=20 Identities=45% Similarity=0.735 Sum_probs=17.1
Q ss_pred cEEEEcCcccCCCCchHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.|++||+ .|+|||+++..+.
T Consensus 2 kv~~vG~---~~~GKTsl~~~~~ 21 (162)
T cd04106 2 KVIVVGN---GNVGKSSMIQRFV 21 (162)
T ss_pred EEEEECC---CCCCHHHHHHHHh
Confidence 5889997 5999999998765
No 441
>cd04150 Arf1_5_like Arf1-Arf5-like subfamily. This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents
Probab=72.11 E-value=3.2 Score=35.83 Aligned_cols=20 Identities=30% Similarity=0.421 Sum_probs=16.8
Q ss_pred cEEEEcCcccCCCCchHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.|+.+|+ +|+|||+++..+.
T Consensus 2 kv~~~G~---~~~GKTsli~~l~ 21 (159)
T cd04150 2 RILMVGL---DAAGKTTILYKLK 21 (159)
T ss_pred EEEEECC---CCCCHHHHHHHHh
Confidence 5889996 7999999988763
No 442
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=72.08 E-value=2.7 Score=44.99 Aligned_cols=37 Identities=22% Similarity=0.175 Sum_probs=30.7
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
|.++=| .-|||||.++..++.+|.++|.+|.|+.--.
T Consensus 203 l~~I~G---PPGTGKT~TlvEiI~qlvk~~k~VLVcaPSn 239 (649)
T KOG1803|consen 203 LLIIHG---PPGTGKTRTLVEIISQLVKQKKRVLVCAPSN 239 (649)
T ss_pred ceEeeC---CCCCCceeeHHHHHHHHHHcCCeEEEEcCch
Confidence 556666 4799999999999999999999999985443
No 443
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=72.07 E-value=3.4 Score=36.59 Aligned_cols=22 Identities=32% Similarity=0.451 Sum_probs=18.7
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHH
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
|+++|. -|||||++...|++.+
T Consensus 2 I~i~G~---pGsGKst~a~~La~~~ 23 (194)
T cd01428 2 ILLLGP---PGSGKGTQAERLAKKY 23 (194)
T ss_pred EEEECC---CCCCHHHHHHHHHHHc
Confidence 577785 5999999999999876
No 444
>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family. This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.
Probab=72.07 E-value=2.8 Score=36.40 Aligned_cols=16 Identities=44% Similarity=0.710 Sum_probs=14.8
Q ss_pred CCCCchHHHHHHHHHH
Q 017904 72 GGNGKTPMVEFLAHCL 87 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L 87 (364)
-|||||++...|++.+
T Consensus 7 ~GsGKSTla~~l~~~l 22 (163)
T TIGR01313 7 AGSGKSTIASALAHRL 22 (163)
T ss_pred CCCCHHHHHHHHHHhc
Confidence 5999999999999988
No 445
>KOG2749 consensus mRNA cleavage and polyadenylation factor IA/II complex, subunit CLP1 [RNA processing and modification]
Probab=71.97 E-value=11 Score=38.29 Aligned_cols=55 Identities=18% Similarity=0.159 Sum_probs=38.2
Q ss_pred HHHHHHHHhHhcCCCccCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCC
Q 017904 40 ISLFLRHSFYRFGFFSKHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYA 102 (364)
Q Consensus 40 ~~~~~R~~~y~~gi~~~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg 102 (364)
++-..|+.... .+.+.| -|++||.. -+|||++..-|+.+..++|++|..+-=+-|
T Consensus 88 ale~~R~~~e~----~~~~GP-rv~vVGp~---d~GKsTl~r~L~nyavk~gr~Plfv~LDvg 142 (415)
T KOG2749|consen 88 ALEKRRMQAEE----ESSYGP-RVMVVGPT---DVGKSTLCRILLNYAVKQGRRPLFVELDVG 142 (415)
T ss_pred HHHHHhhhhhh----hhccCC-EEEEECCC---ccchHHHHHHHHHHHHHcCCcceEEEcCCC
Confidence 34455554433 233332 47788854 579999999999999999999988755443
No 446
>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]
Probab=71.85 E-value=7.6 Score=38.57 Aligned_cols=48 Identities=25% Similarity=0.394 Sum_probs=32.6
Q ss_pred CCCCcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCC-------CchHHHHHHHh
Q 017904 58 RLPVPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAG-------GDEVRMLERHL 114 (364)
Q Consensus 58 ~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~-------GDE~~lla~~~ 114 (364)
+.|.=||.-|- -|||||-+..++|..-.+- ..|--|+ ||-|.|..+.|
T Consensus 217 kpPKGVIlyG~---PGTGKTLLAKAVANqTSAT------FlRvvGseLiQkylGdGpklvRqlF 271 (440)
T KOG0726|consen 217 KPPKGVILYGE---PGTGKTLLAKAVANQTSAT------FLRVVGSELIQKYLGDGPKLVRELF 271 (440)
T ss_pred CCCCeeEEeCC---CCCchhHHHHHHhcccchh------hhhhhhHHHHHHHhccchHHHHHHH
Confidence 34556999994 6999999998888765432 2243343 78787766655
No 447
>cd01127 TrwB Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria.
Probab=71.83 E-value=9 Score=39.05 Aligned_cols=33 Identities=21% Similarity=0.334 Sum_probs=27.0
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
-+.++|. -|||||.++..++..+.++|.++.|+
T Consensus 44 h~~i~g~---tGsGKt~~i~~l~~~~~~~~~~~vi~ 76 (410)
T cd01127 44 HTMIIGT---TGTGKTTQIRELLASIRARGDRAIIY 76 (410)
T ss_pred cEEEEcC---CCCCHHHHHHHHHHHHHhcCCCEEEE
Confidence 3678885 49999999998888888888777776
No 448
>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=71.76 E-value=3.6 Score=35.42 Aligned_cols=20 Identities=30% Similarity=0.531 Sum_probs=16.7
Q ss_pred cEEEEcCcccCCCCchHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.|+.||+ .|+|||+++..+.
T Consensus 2 ki~vvG~---~~vGKTsli~~~~ 21 (161)
T cd04124 2 KIILLGD---SAVGKSKLVERFL 21 (161)
T ss_pred EEEEECC---CCCCHHHHHHHHH
Confidence 5789996 6999999987665
No 449
>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=71.76 E-value=3.6 Score=35.00 Aligned_cols=20 Identities=35% Similarity=0.685 Sum_probs=16.1
Q ss_pred cEEEEcCcccCCCCchHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.|++||+ +|+|||+++..+.
T Consensus 1 Ki~vvG~---~~vGKtsl~~~~~ 20 (162)
T PF00071_consen 1 KIVVVGD---SGVGKTSLINRLI 20 (162)
T ss_dssp EEEEEES---TTSSHHHHHHHHH
T ss_pred CEEEECC---CCCCHHHHHHHHH
Confidence 3789997 7999999987553
No 450
>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=71.75 E-value=2.8 Score=36.19 Aligned_cols=19 Identities=32% Similarity=0.525 Sum_probs=15.5
Q ss_pred EEEEcCcccCCCCchHHHHHHH
Q 017904 63 VISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~ 84 (364)
|+++|+ .|+|||+++..++
T Consensus 1 i~i~G~---~~vGKTsli~~~~ 19 (174)
T smart00174 1 LVVVGD---GAVGKTCLLISYT 19 (174)
T ss_pred CEEECC---CCCCHHHHHHHHH
Confidence 478896 6999999987664
No 451
>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight
Probab=71.65 E-value=3.4 Score=37.11 Aligned_cols=22 Identities=27% Similarity=0.545 Sum_probs=18.2
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHH
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~ 84 (364)
...|++||+ +|+|||.++..++
T Consensus 5 ~~KivvvGd---~~vGKTsli~~~~ 26 (182)
T cd04172 5 KCKIVVVGD---SQCGKTALLHVFA 26 (182)
T ss_pred eEEEEEECC---CCCCHHHHHHHHH
Confidence 357999997 7999999987664
No 452
>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=71.56 E-value=3.4 Score=34.89 Aligned_cols=20 Identities=40% Similarity=0.614 Sum_probs=17.0
Q ss_pred cEEEEcCcccCCCCchHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.|+++|+ +|+|||+++..+.
T Consensus 2 ki~~~G~---~~~GKTsl~~~l~ 21 (164)
T cd04139 2 KVIVVGA---GGVGKSALTLQFM 21 (164)
T ss_pred EEEEECC---CCCCHHHHHHHHH
Confidence 4788996 8999999988777
No 453
>COG3451 VirB4 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]
Probab=71.53 E-value=5.3 Score=44.46 Aligned_cols=31 Identities=19% Similarity=0.243 Sum_probs=28.2
Q ss_pred CCCCchHHHHHHHHHHHhCC-CceEEEecCCC
Q 017904 72 GGNGKTPMVEFLAHCLADSE-ISPLILTRGYA 102 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~g-~kvaIlsRGYg 102 (364)
.|+|||+++..++....+.+ -++.++-++.|
T Consensus 445 tGaGKTvLl~~llaq~~k~~~~~iv~fDk~~g 476 (796)
T COG3451 445 TGAGKTVLLSFLLAQALKYGNPQIVAFDKDNG 476 (796)
T ss_pred CCCCHHHHHHHHHHHHHHhcCCcEEEEcCCCc
Confidence 59999999999999998887 89999999887
No 454
>KOG0635 consensus Adenosine 5'-phosphosulfate kinase [Inorganic ion transport and metabolism]
Probab=71.46 E-value=6.5 Score=35.41 Aligned_cols=34 Identities=29% Similarity=0.381 Sum_probs=28.8
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
=||=+-+|| |+||+++.-+|-++|.++|.-.-++
T Consensus 32 cviWiTGLS--gSGKStlACaL~q~L~qrgkl~Y~L 65 (207)
T KOG0635|consen 32 CVIWITGLS--GSGKSTLACALSQALLQRGKLTYIL 65 (207)
T ss_pred cEEEEeccC--CCCchhHHHHHHHHHHhcCceEEEe
Confidence 588888884 9999999999999999998655555
No 455
>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.
Probab=71.45 E-value=4.7 Score=34.73 Aligned_cols=24 Identities=29% Similarity=0.509 Sum_probs=19.3
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLA 88 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~ 88 (364)
-+..+|. -|+|||++...++..+.
T Consensus 28 ~~~i~G~---nGsGKStLl~~l~G~~~ 51 (144)
T cd03221 28 RIGLVGR---NGAGKSTLLKLIAGELE 51 (144)
T ss_pred EEEEECC---CCCCHHHHHHHHcCCCC
Confidence 4567774 59999999999988774
No 456
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein. It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication
Probab=71.32 E-value=3.2 Score=45.92 Aligned_cols=36 Identities=28% Similarity=0.474 Sum_probs=25.8
Q ss_pred cEEEEcCcccCCCCchH-HHHHHHHHHHhCCCceEEEec
Q 017904 62 PVISVGNLTWGGNGKTP-MVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP-~v~~L~~~L~~~g~kvaIlsR 99 (364)
+|.+|= +.=|||||+ +..||-..+...+.++.+||.
T Consensus 50 ~V~vVR--SpMGTGKTtaLi~wLk~~l~~~~~~VLvVSh 86 (824)
T PF02399_consen 50 GVLVVR--SPMGTGKTTALIRWLKDALKNPDKSVLVVSH 86 (824)
T ss_pred CeEEEE--CCCCCCcHHHHHHHHHHhccCCCCeEEEEEh
Confidence 355554 236999998 666666667777899999964
No 457
>PRK05632 phosphate acetyltransferase; Reviewed
Probab=71.28 E-value=4 Score=44.55 Aligned_cols=28 Identities=18% Similarity=0.120 Sum_probs=26.2
Q ss_pred CCCCchHHHHHHHHHHHhCCCceEEEec
Q 017904 72 GGNGKTPMVEFLAHCLADSEISPLILTR 99 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~g~kvaIlsR 99 (364)
.|+|||.++..|++.|+++|++|+...-
T Consensus 12 t~~GKT~vslgL~~~L~~~G~~Vg~fKP 39 (684)
T PRK05632 12 TGVGLTSVSLGLMRALERKGVKVGFFKP 39 (684)
T ss_pred CCCCHHHHHHHHHHHHHhCCCeEEEeCC
Confidence 7899999999999999999999999865
No 458
>cd04132 Rho4_like Rho4-like subfamily. Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.
Probab=71.10 E-value=3.7 Score=36.11 Aligned_cols=20 Identities=35% Similarity=0.675 Sum_probs=17.4
Q ss_pred cEEEEcCcccCCCCchHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.|++||+ .|+|||+++..++
T Consensus 2 ki~vvG~---~~vGKTsli~~l~ 21 (187)
T cd04132 2 KIVVVGD---GGCGKTCLLIVYS 21 (187)
T ss_pred eEEEECC---CCCCHHHHHHHHH
Confidence 5889997 5999999998875
No 459
>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []. In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....
Probab=71.09 E-value=11 Score=37.58 Aligned_cols=77 Identities=14% Similarity=0.113 Sum_probs=45.1
Q ss_pred cEE-EEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCCC---EEEeccccchhH----HHh
Q 017904 62 PVI-SVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLERP---AKIGKNCINPKV----GSH 133 (364)
Q Consensus 62 PVI-sVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~~---v~v~~~~~~~~~----~~~ 133 (364)
.|| +.|. -|+|||++...++..++++|..++.+--... -|.+ +++.+ |+. +.+..-.....+ ..+
T Consensus 54 ~ivEi~G~---~ssGKttLaL~~ia~~q~~g~~~a~ID~e~~-ld~~--~a~~l-Gvdl~rllv~~P~~~E~al~~~e~l 126 (322)
T PF00154_consen 54 RIVEIYGP---ESSGKTTLALHAIAEAQKQGGICAFIDAEHA-LDPE--YAESL-GVDLDRLLVVQPDTGEQALWIAEQL 126 (322)
T ss_dssp SEEEEEES---TTSSHHHHHHHHHHHHHHTT-EEEEEESSS----HH--HHHHT-T--GGGEEEEE-SSHHHHHHHHHHH
T ss_pred ceEEEeCC---CCCchhhhHHHHHHhhhcccceeEEecCccc-chhh--HHHhc-CccccceEEecCCcHHHHHHHHHHH
Confidence 355 5554 5899999999999999989988998877654 4666 33444 442 333221001111 223
Q ss_pred hhcCCCCEEEEc
Q 017904 134 LKSGKIGAVILD 145 (364)
Q Consensus 134 ~~~~~~dviIlD 145 (364)
+++..+|+||+|
T Consensus 127 irsg~~~lVVvD 138 (322)
T PF00154_consen 127 IRSGAVDLVVVD 138 (322)
T ss_dssp HHTTSESEEEEE
T ss_pred hhcccccEEEEe
Confidence 455568888888
No 460
>PRK13949 shikimate kinase; Provisional
Probab=71.08 E-value=3.8 Score=36.49 Aligned_cols=24 Identities=38% Similarity=0.519 Sum_probs=20.5
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLA 88 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~ 88 (364)
.|+.|| .-|+|||++...|++.+.
T Consensus 3 ~I~liG---~~GsGKstl~~~La~~l~ 26 (169)
T PRK13949 3 RIFLVG---YMGAGKTTLGKALARELG 26 (169)
T ss_pred EEEEEC---CCCCCHHHHHHHHHHHcC
Confidence 477888 469999999999999983
No 461
>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=70.99 E-value=3.4 Score=35.06 Aligned_cols=21 Identities=19% Similarity=0.406 Sum_probs=17.7
Q ss_pred CcEEEEcCcccCCCCchHHHHHHH
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~ 84 (364)
..|+++|. +|+|||+++..+.
T Consensus 2 ~ki~v~G~---~~~GKSsli~~l~ 22 (163)
T cd01860 2 FKLVLLGD---SSVGKSSLVLRFV 22 (163)
T ss_pred eEEEEECC---CCCCHHHHHHHHH
Confidence 35789996 8999999998875
No 462
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=70.97 E-value=3.4 Score=35.42 Aligned_cols=24 Identities=21% Similarity=0.379 Sum_probs=19.8
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLA 88 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~ 88 (364)
+++++|- -|+|||+++..|++.+.
T Consensus 1 ~i~i~Gp---sGsGKstl~~~L~~~~~ 24 (137)
T cd00071 1 LIVLSGP---SGVGKSTLLKRLLEEFD 24 (137)
T ss_pred CEEEECC---CCCCHHHHHHHHHhcCC
Confidence 5678884 69999999999988774
No 463
>cd04103 Centaurin_gamma Centaurin gamma. The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.
Probab=70.96 E-value=3.8 Score=35.64 Aligned_cols=20 Identities=30% Similarity=0.301 Sum_probs=16.2
Q ss_pred cEEEEcCcccCCCCchHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.|++||+ .|+|||+++..++
T Consensus 2 ki~vvG~---~gvGKTsli~~~~ 21 (158)
T cd04103 2 KLGIVGN---LQSGKSALVHRYL 21 (158)
T ss_pred EEEEECC---CCCcHHHHHHHHH
Confidence 4789996 7999999987553
No 464
>TIGR01143 murF UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase. This family consists of the strictly bacterial MurF gene of peptidoglycan biosynthesis. This enzyme is almost always UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate--D-alanyl-D-alanyl ligase, but in a few species, MurE adds lysine rather than diaminopimelate. This enzyme acts on the product from MurE activity, and so is also subfamily rather than equivalog. Staphylococcus aureus is an example of species in this MurF protein would differ.
Probab=70.88 E-value=5.3 Score=40.58 Aligned_cols=28 Identities=36% Similarity=0.411 Sum_probs=24.9
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCC
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEI 92 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~ 92 (364)
.|||.|. |-.|||+++.++...|.+.|.
T Consensus 74 ~~vI~VT----GTnGKTTt~~ll~~iL~~~g~ 101 (417)
T TIGR01143 74 GKVIGIT----GSSGKTTTKEMLAAILSHKYK 101 (417)
T ss_pred CCEEEEc----CCCchhHHHHHHHHHHhccCc
Confidence 5888887 788999999999999998876
No 465
>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=70.88 E-value=4 Score=36.96 Aligned_cols=22 Identities=23% Similarity=0.360 Sum_probs=18.4
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHH
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.+.|+.||+ +|+|||+++..++
T Consensus 6 ~~KivviG~---~~vGKTsll~~~~ 27 (189)
T cd04121 6 LLKFLLVGD---SDVGKGEILASLQ 27 (189)
T ss_pred eeEEEEECC---CCCCHHHHHHHHH
Confidence 468999997 6999999987664
No 466
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=70.79 E-value=15 Score=38.74 Aligned_cols=31 Identities=29% Similarity=0.607 Sum_probs=24.5
Q ss_pred cCCCCCcEEEEcCcccCCCCchHHHHHHHHHHHh
Q 017904 56 KHRLPVPVISVGNLTWGGNGKTPMVEFLAHCLAD 89 (364)
Q Consensus 56 ~~~~~vPVIsVGNltvGGtGKTP~v~~L~~~L~~ 89 (364)
..+++-..+.-|. =|+|||+++..+|+.|.-
T Consensus 31 ~~ri~ha~Lf~Gp---~G~GKTT~ArilAk~LnC 61 (491)
T PRK14964 31 LNKIPQSILLVGA---SGVGKTTCARIISLCLNC 61 (491)
T ss_pred cCCCCceEEEECC---CCccHHHHHHHHHHHHcC
Confidence 4455556788886 599999999999998853
No 467
>PF13173 AAA_14: AAA domain
Probab=70.77 E-value=5.9 Score=33.18 Aligned_cols=34 Identities=26% Similarity=0.307 Sum_probs=23.4
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
++++|-+. =|+|||+++..+++.+. ...++..++
T Consensus 3 ~~~~l~G~--R~vGKTtll~~~~~~~~-~~~~~~yi~ 36 (128)
T PF13173_consen 3 KIIILTGP--RGVGKTTLLKQLAKDLL-PPENILYIN 36 (128)
T ss_pred CeEEEECC--CCCCHHHHHHHHHHHhc-ccccceeec
Confidence 34444444 59999999999998886 234555554
No 468
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=70.76 E-value=3.5 Score=41.30 Aligned_cols=32 Identities=22% Similarity=0.372 Sum_probs=23.3
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEE
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLI 96 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaI 96 (364)
.-++++|. -||||||++.+|+..+.. +.++..
T Consensus 163 ~nilI~G~---tGSGKTTll~aLl~~i~~-~~rivt 194 (344)
T PRK13851 163 LTMLLCGP---TGSGKTTMSKTLISAIPP-QERLIT 194 (344)
T ss_pred CeEEEECC---CCccHHHHHHHHHcccCC-CCCEEE
Confidence 35777775 499999999999988754 344433
No 469
>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=70.73 E-value=3.6 Score=35.33 Aligned_cols=19 Identities=26% Similarity=0.487 Sum_probs=15.9
Q ss_pred EEEEcCcccCCCCchHHHHHHH
Q 017904 63 VISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~ 84 (364)
|++||+ .|+|||+++..++
T Consensus 2 i~vvG~---~~~GKtsli~~~~ 20 (165)
T cd04146 2 IAVLGA---SGVGKSALVVRFL 20 (165)
T ss_pred EEEECC---CCCcHHHHHHHHH
Confidence 788997 6999999986664
No 470
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=70.71 E-value=7.1 Score=36.27 Aligned_cols=34 Identities=24% Similarity=0.299 Sum_probs=26.4
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhC--CCceEEE
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADS--EISPLIL 97 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~--g~kvaIl 97 (364)
-|+.+-|+= |+|||-++..++..+.++ +.+|.-+
T Consensus 35 ~~l~l~G~~---G~GKTHLL~Ai~~~~~~~~~~~~v~y~ 70 (219)
T PF00308_consen 35 NPLFLYGPS---GLGKTHLLQAIANEAQKQHPGKRVVYL 70 (219)
T ss_dssp SEEEEEEST---TSSHHHHHHHHHHHHHHHCTTS-EEEE
T ss_pred CceEEECCC---CCCHHHHHHHHHHHHHhccccccceee
Confidence 378888874 999999999999998763 5666555
No 471
>KOG0394 consensus Ras-related GTPase [General function prediction only]
Probab=70.66 E-value=4.4 Score=37.44 Aligned_cols=31 Identities=26% Similarity=0.479 Sum_probs=23.2
Q ss_pred cCCCCCcEEEEcCcccCCCCchHHHHHHHH-HHHh
Q 017904 56 KHRLPVPVISVGNLTWGGNGKTPMVEFLAH-CLAD 89 (364)
Q Consensus 56 ~~~~~vPVIsVGNltvGGtGKTP~v~~L~~-~L~~ 89 (364)
.++....||+.|| +|.|||.+...++. .+.+
T Consensus 5 ~K~~lLKViiLGD---sGVGKtSLmn~yv~~kF~~ 36 (210)
T KOG0394|consen 5 RKRTLLKVIILGD---SGVGKTSLMNQYVNKKFSQ 36 (210)
T ss_pred CcccceEEEEeCC---CCccHHHHHHHHHHHHHHH
Confidence 3456789999998 79999998766554 4544
No 472
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=70.66 E-value=9.6 Score=37.42 Aligned_cols=75 Identities=13% Similarity=0.121 Sum_probs=40.2
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCCCCCchHHHHHHHhCCCCE---EEeccccchh-HHHhhhcC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGYAGGDEVRMLERHLLERPA---KIGKNCINPK-VGSHLKSG 137 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~GDE~~lla~~~~~~~v---~v~~~~~~~~-~~~~~~~~ 137 (364)
-||+||. -||||++....+..+=.++ --=-|++- ..|..+-.+...|.| .||+|..... +..-...+
T Consensus 129 LviiVGa---TGSGKSTtmAaMi~yRN~~-s~gHIiTI-----EDPIEfih~h~~CIvTQREvGvDTesw~~AlkNtlRQ 199 (375)
T COG5008 129 LVIIVGA---TGSGKSTTMAAMIGYRNKN-STGHIITI-----EDPIEFIHKHKRCIVTQREVGVDTESWEVALKNTLRQ 199 (375)
T ss_pred eEEEECC---CCCCchhhHHHHhcccccC-CCCceEEe-----cChHHHHhcccceeEEeeeeccchHHHHHHHHHHHhc
Confidence 4899995 6999999888777664332 11113322 335555555556655 4555432221 11111233
Q ss_pred CCCEEEEc
Q 017904 138 KIGAVILD 145 (364)
Q Consensus 138 ~~dviIlD 145 (364)
.||||++-
T Consensus 200 apDvI~IG 207 (375)
T COG5008 200 APDVILIG 207 (375)
T ss_pred CCCeEEEe
Confidence 57887764
No 473
>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=70.58 E-value=3.5 Score=37.78 Aligned_cols=20 Identities=35% Similarity=0.605 Sum_probs=17.0
Q ss_pred cEEEEcCcccCCCCchHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~ 84 (364)
-|++||+ +|+|||.++..++
T Consensus 2 ~vvvlG~---~gVGKTSli~r~~ 21 (202)
T cd04120 2 QVIIIGS---RGVGKTSLMRRFT 21 (202)
T ss_pred EEEEECc---CCCCHHHHHHHHH
Confidence 4889997 7999999988765
No 474
>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=70.57 E-value=3.7 Score=35.24 Aligned_cols=21 Identities=29% Similarity=0.466 Sum_probs=17.4
Q ss_pred CcEEEEcCcccCCCCchHHHHHHH
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~ 84 (364)
..|++||. .|+|||+++..+.
T Consensus 4 ~kv~vvG~---~~~GKTsli~~l~ 24 (165)
T cd01864 4 FKIILIGD---SNVGKTCVVQRFK 24 (165)
T ss_pred eEEEEECC---CCCCHHHHHHHHh
Confidence 36889996 7999999998763
No 475
>KOG1533 consensus Predicted GTPase [General function prediction only]
Probab=70.44 E-value=5.1 Score=38.49 Aligned_cols=36 Identities=14% Similarity=0.185 Sum_probs=30.9
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRGY 101 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRGY 101 (364)
.++|| .-|+||||.+.-.-+.|.+.|.+++|+-=.=
T Consensus 5 qvVIG---PPgSGKsTYc~g~~~fls~~gr~~~vVNLDP 40 (290)
T KOG1533|consen 5 QVVIG---PPGSGKSTYCNGMSQFLSAIGRPVAVVNLDP 40 (290)
T ss_pred eEEEc---CCCCCccchhhhHHHHHHHhCCceEEEecCC
Confidence 56778 4799999999999999999999999996543
No 476
>PRK05595 replicative DNA helicase; Provisional
Probab=70.18 E-value=6.5 Score=40.54 Aligned_cols=39 Identities=18% Similarity=0.113 Sum_probs=31.0
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHH-HhCCCceEEEecCCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCL-ADSEISPLILTRGYA 102 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L-~~~g~kvaIlsRGYg 102 (364)
-+|+||.- -|.|||.++..++..+ .++|.+|++.|=+-.
T Consensus 202 ~liviaar--pg~GKT~~al~ia~~~a~~~g~~vl~fSlEms 241 (444)
T PRK05595 202 DMILIAAR--PSMGKTTFALNIAEYAALREGKSVAIFSLEMS 241 (444)
T ss_pred cEEEEEec--CCCChHHHHHHHHHHHHHHcCCcEEEEecCCC
Confidence 46666755 4889999999999875 467999999988763
No 477
>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=70.16 E-value=3.7 Score=35.92 Aligned_cols=20 Identities=20% Similarity=0.456 Sum_probs=16.8
Q ss_pred cEEEEcCcccCCCCchHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.|++||+ .|+|||+++..+.
T Consensus 6 kv~~vG~---~~vGKTsli~~~~ 25 (169)
T cd01892 6 LCFVLGA---KGSGKSALLRAFL 25 (169)
T ss_pred EEEEECC---CCCcHHHHHHHHh
Confidence 5888996 7999999988664
No 478
>TIGR02173 cyt_kin_arch cytidylate kinase, putative. Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.
Probab=70.15 E-value=4.1 Score=35.24 Aligned_cols=23 Identities=35% Similarity=0.586 Sum_probs=17.9
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHH
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCL 87 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L 87 (364)
+|.|.+. -|||||++...|++.|
T Consensus 2 iI~i~G~--~GSGKstia~~la~~l 24 (171)
T TIGR02173 2 IITISGP--PGSGKTTVAKILAEKL 24 (171)
T ss_pred EEEEECC--CCCCHHHHHHHHHHHc
Confidence 4555544 4999999999998877
No 479
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=70.12 E-value=7.9 Score=40.48 Aligned_cols=100 Identities=20% Similarity=0.235 Sum_probs=53.1
Q ss_pred EEEcCcccCCCCchH-HHHHHHHHH--HhCCCceE-----EEe--cCCCC-Cch-HHHHHHHhCC--CCEEEeccccchh
Q 017904 64 ISVGNLTWGGNGKTP-MVEFLAHCL--ADSEISPL-----ILT--RGYAG-GDE-VRMLERHLLE--RPAKIGKNCINPK 129 (364)
Q Consensus 64 IsVGNltvGGtGKTP-~v~~L~~~L--~~~g~kva-----Ils--RGYg~-GDE-~~lla~~~~~--~~v~v~~~~~~~~ 129 (364)
++|-.. -|||||- ++.=+.+.+ ++...+++ ||| |.-.+ =+| ...+...++. |.+.||...+..+
T Consensus 46 Vvveav--TGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~~~F~~~l~~l~~~l~vGG~~v~~D 123 (567)
T KOG0345|consen 46 VVVEAV--TGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVAQPFLEHLPNLNCELLVGGRSVEED 123 (567)
T ss_pred eEEEcC--CCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHHHHHHHhhhccceEEEecCccHHHH
Confidence 445544 6999995 555555555 22223333 443 22211 011 1112233443 4457776433322
Q ss_pred HHHhhhcCCCCEEEEc-----CCCCCccc---cCceeEEEEeCCC
Q 017904 130 VGSHLKSGKIGAVILD-----DGMQHWSL---RRDLEIVMVNGLM 166 (364)
Q Consensus 130 ~~~~~~~~~~dviIlD-----DgfQh~~L---~rdl~Ivl~Da~~ 166 (364)
.+.+.+..++++|-- |=|||..- -|.++|+|+|-.+
T Consensus 124 -i~~fkee~~nIlVgTPGRL~di~~~~~~~l~~rsLe~LVLDEAD 167 (567)
T KOG0345|consen 124 -IKTFKEEGPNILVGTPGRLLDILQREAEKLSFRSLEILVLDEAD 167 (567)
T ss_pred -HHHHHHhCCcEEEeCchhHHHHHhchhhhccccccceEEecchH
Confidence 334556678999966 66888321 4689999999543
No 480
>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=70.09 E-value=3.8 Score=35.56 Aligned_cols=20 Identities=25% Similarity=0.411 Sum_probs=17.3
Q ss_pred cEEEEcCcccCCCCchHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.|++||+ .|+|||+++..++
T Consensus 4 ki~vvG~---~~vGKTsli~~~~ 23 (170)
T cd04115 4 KIIVIGD---SNVGKTCLTYRFC 23 (170)
T ss_pred EEEEECC---CCCCHHHHHHHHH
Confidence 5889997 6999999998875
No 481
>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=70.07 E-value=4 Score=36.11 Aligned_cols=20 Identities=35% Similarity=0.509 Sum_probs=17.3
Q ss_pred cEEEEcCcccCCCCchHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.|++||+ .|+|||+++..++
T Consensus 2 ki~vvG~---~~vGKSsLi~~~~ 21 (193)
T cd04118 2 KVVMLGK---ESVGKTSLVERYV 21 (193)
T ss_pred EEEEECC---CCCCHHHHHHHHH
Confidence 5889997 7999999998875
No 482
>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=70.05 E-value=4 Score=34.61 Aligned_cols=22 Identities=27% Similarity=0.533 Sum_probs=17.9
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHH
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAH 85 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~ 85 (364)
..|++||+ +|+|||+++..++.
T Consensus 3 ~ki~i~G~---~~~GKtsl~~~~~~ 24 (164)
T cd04145 3 YKLVVVGG---GGVGKSALTIQFIQ 24 (164)
T ss_pred eEEEEECC---CCCcHHHHHHHHHh
Confidence 46889997 69999999887653
No 483
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=69.92 E-value=3.6 Score=39.70 Aligned_cols=37 Identities=24% Similarity=0.435 Sum_probs=27.1
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
.||+.||. -|||||.++..+.+.+....+-+..+.-.
T Consensus 34 ~pvLl~G~---~GtGKT~li~~~l~~l~~~~~~~~~~~~s 70 (272)
T PF12775_consen 34 RPVLLVGP---SGTGKTSLIQNFLSSLDSDKYLVITINFS 70 (272)
T ss_dssp EEEEEESS---TTSSHHHHHHHHHHCSTTCCEEEEEEES-
T ss_pred CcEEEECC---CCCchhHHHHhhhccCCccccceeEeecc
Confidence 49999997 59999999999888776554444444433
No 484
>PRK13700 conjugal transfer protein TraD; Provisional
Probab=69.88 E-value=5.7 Score=43.59 Aligned_cols=26 Identities=23% Similarity=0.254 Sum_probs=23.4
Q ss_pred CCCCchHHHHHHHHHHHhCCCceEEE
Q 017904 72 GGNGKTPMVEFLAHCLADSEISPLIL 97 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~g~kvaIl 97 (364)
-|||||.++..++++.+++|.+..|.
T Consensus 194 tGSGKS~~i~~LL~~ir~RGdrAIIy 219 (732)
T PRK13700 194 VGAGKSEVIRRLANYARQRGDMVVIY 219 (732)
T ss_pred CCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 49999999999999999999887776
No 485
>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=69.86 E-value=4.1 Score=34.53 Aligned_cols=20 Identities=30% Similarity=0.620 Sum_probs=16.6
Q ss_pred cEEEEcCcccCCCCchHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.|++||+ .|+|||+++..++
T Consensus 3 ki~i~G~---~~vGKTsl~~~~~ 22 (163)
T cd04136 3 KVVVLGS---GGVGKSALTVQFV 22 (163)
T ss_pred EEEEECC---CCCCHHHHHHHHH
Confidence 5889997 6999999977665
No 486
>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.
Probab=69.86 E-value=4.9 Score=35.87 Aligned_cols=20 Identities=25% Similarity=0.569 Sum_probs=16.1
Q ss_pred EEEEcCcccCCCCchHHHHHHHH
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAH 85 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~ 85 (364)
|...|.+ |||||+++..+.+
T Consensus 2 i~itG~~---gsGKst~~~~l~~ 21 (179)
T cd02022 2 IGLTGGI---GSGKSTVAKLLKE 21 (179)
T ss_pred EEEECCC---CCCHHHHHHHHHH
Confidence 4466766 9999999988877
No 487
>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases. Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.
Probab=69.78 E-value=5.1 Score=35.58 Aligned_cols=22 Identities=23% Similarity=0.451 Sum_probs=18.1
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHH
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~ 84 (364)
...|+.||. .|+|||+++..+.
T Consensus 17 ~~~i~ivG~---~~~GKTsli~~l~ 38 (184)
T smart00178 17 HAKILFLGL---DNAGKTTLLHMLK 38 (184)
T ss_pred cCEEEEECC---CCCCHHHHHHHHh
Confidence 357899995 7999999988764
No 488
>PRK14738 gmk guanylate kinase; Provisional
Probab=69.77 E-value=4.7 Score=36.97 Aligned_cols=25 Identities=24% Similarity=0.345 Sum_probs=19.5
Q ss_pred CCCcEEEEcCcccCCCCchHHHHHHHHH
Q 017904 59 LPVPVISVGNLTWGGNGKTPMVEFLAHC 86 (364)
Q Consensus 59 ~~vPVIsVGNltvGGtGKTP~v~~L~~~ 86 (364)
-+..+|++| .-|+|||+++.+|.+.
T Consensus 12 ~~~~ivi~G---psG~GK~tl~~~L~~~ 36 (206)
T PRK14738 12 KPLLVVISG---PSGVGKDAVLARMRER 36 (206)
T ss_pred CCeEEEEEC---cCCCCHHHHHHHHHhc
Confidence 456788888 4799999998887644
No 489
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=69.73 E-value=5.4 Score=36.39 Aligned_cols=31 Identities=23% Similarity=0.335 Sum_probs=22.0
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEe
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILT 98 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIls 98 (364)
|.|+|-+- -||||||+...|. +.|+++.-++
T Consensus 1 m~I~ITGT--PGvGKTT~~~~L~----~lg~~~i~l~ 31 (180)
T COG1936 1 MLIAITGT--PGVGKTTVCKLLR----ELGYKVIELN 31 (180)
T ss_pred CeEEEeCC--CCCchHHHHHHHH----HhCCceeeHH
Confidence 34666665 7999999988776 3377776553
No 490
>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=69.58 E-value=3.9 Score=36.24 Aligned_cols=22 Identities=23% Similarity=0.380 Sum_probs=18.4
Q ss_pred CCcEEEEcCcccCCCCchHHHHHHH
Q 017904 60 PVPVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 60 ~vPVIsVGNltvGGtGKTP~v~~L~ 84 (364)
++.|+.||+ .|+|||+++..+.
T Consensus 3 ~~kv~~vG~---~~~GKTsli~~~~ 24 (183)
T cd04152 3 SLHIVMLGL---DSAGKTTVLYRLK 24 (183)
T ss_pred ceEEEEECC---CCCCHHHHHHHHh
Confidence 357899996 7999999988875
No 491
>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=69.58 E-value=3.6 Score=35.81 Aligned_cols=19 Identities=32% Similarity=0.644 Sum_probs=16.4
Q ss_pred EEEEcCcccCCCCchHHHHHHH
Q 017904 63 VISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~ 84 (364)
|++||. +|+|||+++..+.
T Consensus 2 i~ivG~---~~vGKTsli~~~~ 20 (164)
T cd04162 2 ILVLGL---DGAGKTSLLHSLS 20 (164)
T ss_pred EEEECC---CCCCHHHHHHHHh
Confidence 678996 7999999998875
No 492
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=69.39 E-value=4.7 Score=36.20 Aligned_cols=25 Identities=24% Similarity=0.465 Sum_probs=20.4
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHh
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLAD 89 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~ 89 (364)
-++.+|. -|+|||++...|+..+..
T Consensus 27 ~i~I~G~---tGSGKTTll~aL~~~i~~ 51 (186)
T cd01130 27 NILISGG---TGSGKTTLLNALLAFIPP 51 (186)
T ss_pred EEEEECC---CCCCHHHHHHHHHhhcCC
Confidence 5677774 599999999999988753
No 493
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=69.36 E-value=6.8 Score=39.96 Aligned_cols=38 Identities=16% Similarity=0.102 Sum_probs=30.4
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHH-hCCCceEEEecCCC
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLA-DSEISPLILTRGYA 102 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~-~~g~kvaIlsRGYg 102 (364)
+++||.- -|+|||.++..++.... ++|.+|+++|=+-.
T Consensus 197 l~vi~g~--pg~GKT~~~l~~a~~~a~~~g~~vl~~SlEm~ 235 (434)
T TIGR00665 197 LIILAAR--PSMGKTAFALNIAENAAIKEGKPVAFFSLEMS 235 (434)
T ss_pred EEEEEeC--CCCChHHHHHHHHHHHHHhCCCeEEEEeCcCC
Confidence 5666654 49999999999998764 46999999998864
No 494
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=69.34 E-value=4.6 Score=34.77 Aligned_cols=33 Identities=30% Similarity=0.231 Sum_probs=25.6
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEEEecC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLILTRG 100 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaIlsRG 100 (364)
-+++.+ .-|||||-++..++..+.. ++.+++..
T Consensus 27 ~~ll~~---~tGsGKT~~~~~~~~~l~~---~~l~~~p~ 59 (184)
T PF04851_consen 27 RVLLNA---PTGSGKTIIALALILELAR---KVLIVAPN 59 (184)
T ss_dssp EEEEEE---STTSSHHHHHHHHHHHHHC---EEEEEESS
T ss_pred CEEEEE---CCCCCcChhhhhhhhcccc---ceeEecCH
Confidence 456666 3599999999998888865 88888744
No 495
>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.
Probab=69.09 E-value=3.5 Score=39.82 Aligned_cols=31 Identities=19% Similarity=0.369 Sum_probs=22.2
Q ss_pred CCCCchHHHHHHHHHHHhCCCceEEEecCCCC
Q 017904 72 GGNGKTPMVEFLAHCLADSEISPLILTRGYAG 103 (364)
Q Consensus 72 GGtGKTP~v~~L~~~L~~~g~kvaIlsRGYg~ 103 (364)
.|+||||++..|+..+...|. ..|...+|..
T Consensus 8 sGsGKSTl~~~L~~ll~~~~~-~vi~~Dd~~~ 38 (273)
T cd02026 8 SGCGKSTFLRRLTSLFGSDLV-TVICLDDYHS 38 (273)
T ss_pred CCCCHHHHHHHHHHhhCCCce-EEEECccccc
Confidence 599999999999999976542 2333456643
No 496
>TIGR01082 murC UDP-N-acetylmuramate--alanine ligase. UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-diaminopimelate ligase (murein tripeptide ligase) is described by TIGR01081.
Probab=69.00 E-value=7 Score=40.06 Aligned_cols=32 Identities=28% Similarity=0.484 Sum_probs=26.9
Q ss_pred CcEEEEcCcccCCCCchHHHHHHHHHHHhCCCceEE
Q 017904 61 VPVISVGNLTWGGNGKTPMVEFLAHCLADSEISPLI 96 (364)
Q Consensus 61 vPVIsVGNltvGGtGKTP~v~~L~~~L~~~g~kvaI 96 (364)
.|+|.|. |-.||||++..++..|++.|+++.+
T Consensus 99 ~~~IaIT----GTnGKTTTt~ll~~iL~~~g~~~~~ 130 (448)
T TIGR01082 99 RHSIAVA----GTHGKTTTTAMIAVILKEAGLDPTV 130 (448)
T ss_pred CcEEEEE----CCCChHHHHHHHHHHHHHcCCCCeE
Confidence 3788887 7789999999999999999985444
No 497
>PLN03025 replication factor C subunit; Provisional
Probab=69.00 E-value=11 Score=36.97 Aligned_cols=28 Identities=36% Similarity=0.428 Sum_probs=22.9
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHHhCCCc
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLADSEIS 93 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~~~g~k 93 (364)
++..|. -|||||+++.++++.+...+++
T Consensus 37 lll~Gp---~G~GKTtla~~la~~l~~~~~~ 64 (319)
T PLN03025 37 LILSGP---PGTGKTTSILALAHELLGPNYK 64 (319)
T ss_pred EEEECC---CCCCHHHHHHHHHHHHhcccCc
Confidence 677886 5999999999999998655443
No 498
>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=68.97 E-value=3.9 Score=36.48 Aligned_cols=20 Identities=30% Similarity=0.695 Sum_probs=16.9
Q ss_pred cEEEEcCcccCCCCchHHHHHHH
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLA 84 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~ 84 (364)
.|+.||+ .|+|||+++..+.
T Consensus 2 kivivG~---~~vGKTsli~~~~ 21 (189)
T cd04134 2 KVVVLGD---GACGKTSLLNVFT 21 (189)
T ss_pred EEEEECC---CCCCHHHHHHHHh
Confidence 4789997 7999999988764
No 499
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=68.94 E-value=7.4 Score=36.28 Aligned_cols=23 Identities=35% Similarity=0.531 Sum_probs=18.5
Q ss_pred EEEEcCcccCCCCchHHHHHHHHHHH
Q 017904 63 VISVGNLTWGGNGKTPMVEFLAHCLA 88 (364)
Q Consensus 63 VIsVGNltvGGtGKTP~v~~L~~~L~ 88 (364)
.+.+|. ||+|||.++..++-...
T Consensus 4 ~ll~g~---~G~GKS~lal~la~~va 26 (239)
T cd01125 4 SALVAP---GGTGKSSLLLVLALAMA 26 (239)
T ss_pred eEEEcC---CCCCHHHHHHHHHHHHh
Confidence 456664 89999999999988764
No 500
>PRK12608 transcription termination factor Rho; Provisional
Probab=68.90 E-value=15 Score=37.48 Aligned_cols=51 Identities=20% Similarity=0.234 Sum_probs=35.0
Q ss_pred cEEEEcCcccCCCCchHHHHHHHHHHHhCC--CceEEEecCCCCCchHHHHHHHhCC
Q 017904 62 PVISVGNLTWGGNGKTPMVEFLAHCLADSE--ISPLILTRGYAGGDEVRMLERHLLE 116 (364)
Q Consensus 62 PVIsVGNltvGGtGKTP~v~~L~~~L~~~g--~kvaIlsRGYg~GDE~~lla~~~~~ 116 (364)
-+.++|.- |||||+++..+++.+.++. ..+.++.=|-. +-|+..+.+...+
T Consensus 135 R~LIvG~p---GtGKTTLl~~la~~i~~~~~dv~~vv~lIgER-~~EV~df~~~i~~ 187 (380)
T PRK12608 135 RGLIVAPP---RAGKTVLLQQIAAAVAANHPEVHLMVLLIDER-PEEVTDMRRSVKG 187 (380)
T ss_pred eEEEECCC---CCCHHHHHHHHHHHHHhcCCCceEEEEEecCC-CCCHHHHHHHHhh
Confidence 45788875 9999999999999997752 33445555543 4666656555533
Done!