Query psy3261
Match_columns 342
No_of_seqs 128 out of 256
Neff 7.2
Searched_HMMs 46136
Date Fri Aug 16 20:32:48 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3261.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3261hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3928|consensus 100.0 5.7E-82 1.2E-86 602.2 24.7 337 2-342 116-460 (461)
2 PF10236 DAP3: Mitochondrial r 100.0 6.3E-76 1.4E-80 561.9 25.8 289 44-338 1-309 (309)
3 PF01637 Arch_ATPase: Archaeal 99.3 1.2E-10 2.5E-15 105.1 14.7 211 65-338 18-234 (234)
4 PF14516 AAA_35: AAA-like doma 99.1 1.6E-08 3.6E-13 97.9 22.5 224 41-340 10-241 (331)
5 TIGR03015 pepcterm_ATPase puta 98.7 6.5E-07 1.4E-11 83.4 17.2 50 291-340 186-240 (269)
6 PRK00411 cdc6 cell division co 98.7 1.9E-06 4.1E-11 84.9 20.6 216 43-340 31-256 (394)
7 TIGR02928 orc1/cdc6 family rep 98.5 1E-05 2.2E-10 78.9 19.9 216 44-340 17-248 (365)
8 PF05729 NACHT: NACHT domain 98.4 9E-06 1.9E-10 69.3 14.1 83 203-310 80-163 (166)
9 TIGR03420 DnaA_homol_Hda DnaA 98.3 9.5E-06 2.1E-10 73.6 12.5 49 291-339 153-202 (226)
10 COG1474 CDC6 Cdc6-related prot 98.2 0.00011 2.4E-09 72.3 19.2 209 44-340 19-239 (366)
11 PTZ00112 origin recognition co 98.2 9.4E-05 2E-09 79.0 19.1 213 43-340 756-983 (1164)
12 PF07693 KAP_NTPase: KAP famil 98.1 7.4E-05 1.6E-09 71.5 14.7 53 50-104 5-61 (325)
13 PRK04841 transcriptional regul 98.1 0.00018 3.8E-09 78.2 19.2 117 186-338 107-225 (903)
14 PF13191 AAA_16: AAA ATPase do 98.1 6E-06 1.3E-10 72.0 6.3 42 62-103 19-60 (185)
15 PF00931 NB-ARC: NB-ARC domain 98.1 9.6E-05 2.1E-09 69.3 14.7 50 290-339 150-203 (287)
16 TIGR00635 ruvB Holliday juncti 98.0 0.00013 2.8E-09 69.4 14.2 49 292-340 154-203 (305)
17 PF05673 DUF815: Protein of un 98.0 0.00091 2E-08 62.0 19.0 169 64-339 49-242 (249)
18 PRK05896 DNA polymerase III su 98.0 0.00028 6E-09 73.3 17.3 118 186-338 102-220 (605)
19 PRK00080 ruvB Holliday junctio 98.0 0.00026 5.6E-09 68.5 16.1 75 251-340 149-224 (328)
20 TIGR01241 FtsH_fam ATP-depende 98.0 0.00036 7.9E-09 71.3 17.9 122 203-340 146-269 (495)
21 PRK06645 DNA polymerase III su 98.0 0.00022 4.7E-09 73.0 16.0 118 186-338 111-229 (507)
22 PRK00440 rfc replication facto 97.9 0.00039 8.5E-09 66.2 16.1 47 292-338 156-203 (319)
23 PRK03992 proteasome-activating 97.9 0.00052 1.1E-08 68.1 17.5 119 203-340 223-346 (389)
24 TIGR01242 26Sp45 26S proteasom 97.9 0.00038 8.1E-09 68.3 16.2 119 203-340 214-337 (364)
25 PRK14960 DNA polymerase III su 97.9 0.00019 4.2E-09 74.9 14.7 103 202-339 117-220 (702)
26 PRK12402 replication factor C 97.9 0.00047 1E-08 66.2 16.6 49 291-339 178-227 (337)
27 PRK07003 DNA polymerase III su 97.9 0.00031 6.7E-09 74.3 15.7 102 202-338 118-220 (830)
28 PRK14963 DNA polymerase III su 97.9 0.00048 1E-08 70.6 16.6 118 186-338 99-217 (504)
29 CHL00176 ftsH cell division pr 97.9 0.00063 1.4E-08 71.5 17.5 122 203-340 274-397 (638)
30 PRK14949 DNA polymerase III su 97.9 0.00055 1.2E-08 73.7 17.0 101 205-339 120-221 (944)
31 PRK09112 DNA polymerase III su 97.8 0.00064 1.4E-08 66.6 15.6 119 184-339 122-241 (351)
32 PRK14958 DNA polymerase III su 97.8 0.00063 1.4E-08 69.8 16.3 116 189-339 105-221 (509)
33 PRK14956 DNA polymerase III su 97.8 0.00097 2.1E-08 67.6 17.1 101 204-338 121-222 (484)
34 PTZ00454 26S protease regulato 97.8 0.0012 2.5E-08 65.8 16.8 119 203-340 237-360 (398)
35 TIGR03689 pup_AAA proteasome A 97.8 0.00068 1.5E-08 69.4 15.1 94 203-314 288-382 (512)
36 PRK13342 recombination factor 97.8 0.00073 1.6E-08 67.5 14.9 49 291-339 145-197 (413)
37 PRK08691 DNA polymerase III su 97.7 0.00082 1.8E-08 70.8 15.6 85 239-339 136-221 (709)
38 PF13401 AAA_22: AAA domain; P 97.7 0.00033 7.2E-09 57.6 10.2 27 67-93 4-30 (131)
39 TIGR00678 holB DNA polymerase 97.7 0.00084 1.8E-08 59.4 13.4 109 186-334 79-187 (188)
40 PRK07994 DNA polymerase III su 97.7 0.0012 2.6E-08 69.4 16.4 117 188-339 104-221 (647)
41 PRK14964 DNA polymerase III su 97.7 0.0015 3.2E-08 66.7 16.5 118 187-339 100-218 (491)
42 PRK14961 DNA polymerase III su 97.7 0.0015 3.3E-08 64.1 16.1 119 186-339 102-221 (363)
43 CHL00195 ycf46 Ycf46; Provisio 97.6 0.0017 3.7E-08 66.3 15.8 119 203-340 317-438 (489)
44 PRK12323 DNA polymerase III su 97.6 0.0013 2.8E-08 68.8 15.1 117 188-339 109-226 (700)
45 COG2812 DnaX DNA polymerase II 97.6 0.00053 1.1E-08 70.0 11.2 118 185-338 101-220 (515)
46 TIGR02880 cbbX_cfxQ probable R 97.6 0.0016 3.5E-08 61.9 13.6 112 207-339 124-246 (284)
47 PRK07471 DNA polymerase III su 97.5 0.0066 1.4E-07 59.8 17.9 120 183-340 121-240 (365)
48 PRK14970 DNA polymerase III su 97.5 0.0035 7.6E-08 61.4 15.7 98 205-337 109-208 (367)
49 PRK05563 DNA polymerase III su 97.5 0.0059 1.3E-07 63.5 18.1 119 186-339 102-221 (559)
50 TIGR02397 dnaX_nterm DNA polym 97.5 0.0053 1.1E-07 59.5 16.8 119 186-339 100-219 (355)
51 PRK14965 DNA polymerase III su 97.5 0.0035 7.5E-08 65.4 15.8 116 188-338 104-220 (576)
52 PRK14971 DNA polymerase III su 97.5 0.0074 1.6E-07 63.4 18.2 118 186-338 104-222 (614)
53 PRK04195 replication factor C 97.5 0.0094 2E-07 60.8 18.4 103 204-337 98-201 (482)
54 PLN03025 replication factor C 97.4 0.0027 5.8E-08 61.2 13.7 47 292-338 153-200 (319)
55 PRK14959 DNA polymerase III su 97.4 0.0064 1.4E-07 63.6 17.1 100 205-338 120-220 (624)
56 PRK14951 DNA polymerase III su 97.4 0.0053 1.2E-07 64.3 16.6 117 188-339 109-226 (618)
57 TIGR01243 CDC48 AAA family ATP 97.4 0.0069 1.5E-07 65.0 17.8 129 188-340 535-666 (733)
58 PRK07133 DNA polymerase III su 97.4 0.0047 1E-07 65.6 16.0 120 185-339 100-220 (725)
59 PRK07764 DNA polymerase III su 97.4 0.0051 1.1E-07 66.5 16.1 101 202-337 119-220 (824)
60 PRK05707 DNA polymerase III su 97.3 0.019 4.1E-07 55.8 17.8 119 183-339 86-204 (328)
61 KOG2228|consensus 97.3 0.0079 1.7E-07 58.1 14.6 149 48-263 31-182 (408)
62 PRK14952 DNA polymerase III su 97.3 0.011 2.3E-07 61.7 16.9 113 190-337 105-218 (584)
63 cd00009 AAA The AAA+ (ATPases 97.3 0.00053 1.1E-08 56.1 6.0 38 65-102 17-54 (151)
64 PRK14962 DNA polymerase III su 97.3 0.0087 1.9E-07 61.0 15.7 100 204-337 117-217 (472)
65 PRK14087 dnaA chromosomal repl 97.3 0.0077 1.7E-07 61.0 15.2 49 291-339 269-320 (450)
66 PTZ00361 26 proteosome regulat 97.3 0.0037 8.1E-08 62.9 12.7 118 203-340 275-398 (438)
67 PRK14957 DNA polymerase III su 97.3 0.011 2.4E-07 61.2 16.4 116 189-339 105-221 (546)
68 PRK14969 DNA polymerase III su 97.3 0.0059 1.3E-07 63.0 14.4 119 186-339 102-221 (527)
69 PRK14953 DNA polymerase III su 97.2 0.014 3.1E-07 59.6 16.8 116 189-339 105-221 (486)
70 PRK08903 DnaA regulatory inact 97.2 0.0006 1.3E-08 62.1 6.2 51 52-102 27-77 (227)
71 PRK09111 DNA polymerase III su 97.2 0.0085 1.8E-07 62.7 14.9 116 188-338 117-233 (598)
72 PRK08084 DNA replication initi 97.2 0.00066 1.4E-08 62.7 6.0 38 66-103 44-81 (235)
73 PRK14950 DNA polymerase III su 97.2 0.014 3E-07 61.1 16.3 100 205-338 121-221 (585)
74 PRK06835 DNA replication prote 97.2 0.0011 2.3E-08 64.5 7.4 92 13-104 117-220 (329)
75 PRK14948 DNA polymerase III su 97.2 0.015 3.2E-07 61.2 16.2 118 186-338 104-222 (620)
76 PRK06647 DNA polymerase III su 97.1 0.021 4.5E-07 59.4 16.7 116 189-339 105-221 (563)
77 PF13245 AAA_19: Part of AAA d 97.1 0.00082 1.8E-08 51.1 4.8 35 67-101 10-48 (76)
78 PRK07940 DNA polymerase III su 97.1 0.02 4.4E-07 57.0 15.9 113 188-339 102-214 (394)
79 PRK14955 DNA polymerase III su 97.1 0.009 2E-07 59.4 13.4 84 239-338 144-228 (397)
80 cd01393 recA_like RecA is a b 97.1 0.0057 1.2E-07 55.4 10.7 39 64-102 16-60 (226)
81 PF10923 DUF2791: P-loop Domai 97.0 0.0052 1.1E-07 61.3 10.7 243 45-306 28-342 (416)
82 KOG0731|consensus 97.0 0.016 3.5E-07 61.6 14.6 124 202-339 401-526 (774)
83 COG2804 PulE Type II secretory 97.0 0.0037 7.9E-08 63.3 9.3 117 65-187 256-385 (500)
84 PRK12377 putative replication 97.0 0.0016 3.4E-08 60.8 6.4 38 67-104 101-138 (248)
85 PRK08116 hypothetical protein; 96.9 0.0024 5.2E-08 60.2 7.3 79 19-102 66-149 (268)
86 COG2607 Predicted ATPase (AAA+ 96.9 0.05 1.1E-06 50.5 15.5 98 190-315 129-244 (287)
87 PF05621 TniB: Bacterial TniB 96.9 0.074 1.6E-06 50.9 17.3 228 33-339 25-262 (302)
88 TIGR03345 VI_ClpV1 type VI sec 96.9 0.013 2.8E-07 63.8 13.7 95 188-309 268-362 (852)
89 PF03266 NTPase_1: NTPase; In 96.9 0.001 2.2E-08 58.4 4.1 30 69-98 1-30 (168)
90 PF01580 FtsK_SpoIIIE: FtsK/Sp 96.9 0.0048 1E-07 55.2 8.5 69 67-139 38-113 (205)
91 PF13173 AAA_14: AAA domain 96.9 0.0013 2.9E-08 54.6 4.5 25 68-92 3-27 (128)
92 PRK08451 DNA polymerase III su 96.9 0.077 1.7E-06 54.8 18.1 101 205-339 118-219 (535)
93 PRK08181 transposase; Validate 96.9 0.0023 5.1E-08 60.4 6.5 37 66-102 105-141 (269)
94 PRK06305 DNA polymerase III su 96.8 0.042 9.1E-07 55.7 15.8 101 204-338 121-222 (451)
95 PRK08058 DNA polymerase III su 96.8 0.095 2.1E-06 50.8 17.4 114 185-339 92-205 (329)
96 PRK06921 hypothetical protein; 96.8 0.0032 6.8E-08 59.4 6.9 85 18-103 64-154 (266)
97 PLN03210 Resistant to P. syrin 96.8 0.095 2.1E-06 59.1 19.8 49 291-339 345-396 (1153)
98 COG2909 MalT ATP-dependent tra 96.8 0.017 3.7E-07 61.6 12.9 49 42-98 19-67 (894)
99 PRK13341 recombination factor 96.8 0.021 4.6E-07 61.1 13.6 48 292-339 163-218 (725)
100 PRK06851 hypothetical protein; 96.8 0.0022 4.8E-08 63.0 5.8 39 66-104 213-251 (367)
101 PF13207 AAA_17: AAA domain; P 96.8 0.0021 4.5E-08 52.2 4.8 32 69-103 1-32 (121)
102 smart00382 AAA ATPases associa 96.8 0.0014 3.1E-08 52.8 3.7 29 67-95 2-30 (148)
103 COG3267 ExeA Type II secretory 96.8 0.18 4E-06 47.0 17.8 114 202-340 129-247 (269)
104 PRK09183 transposase/IS protei 96.7 0.0028 6.1E-08 59.4 5.9 50 52-102 88-137 (259)
105 COG2805 PilT Tfp pilus assembl 96.7 0.0034 7.4E-08 59.7 6.1 61 65-133 123-184 (353)
106 KOG1970|consensus 96.7 0.012 2.6E-07 60.0 10.2 141 50-216 91-240 (634)
107 PF01695 IstB_IS21: IstB-like 96.7 0.0037 7.9E-08 55.3 5.9 48 54-102 35-82 (178)
108 TIGR01243 CDC48 AAA family ATP 96.7 0.064 1.4E-06 57.6 16.5 118 203-339 270-389 (733)
109 PRK14954 DNA polymerase III su 96.7 0.06 1.3E-06 56.7 15.8 82 239-337 144-227 (620)
110 cd01123 Rad51_DMC1_radA Rad51_ 96.7 0.0095 2.1E-07 54.3 8.8 37 65-101 17-59 (235)
111 TIGR00763 lon ATP-dependent pr 96.7 0.036 7.9E-07 59.9 14.6 31 66-97 346-376 (775)
112 PRK12608 transcription termina 96.7 0.045 9.8E-07 54.0 13.9 187 65-306 131-343 (380)
113 PRK06871 DNA polymerase III su 96.7 0.069 1.5E-06 51.8 15.0 183 65-339 22-204 (325)
114 CHL00206 ycf2 Ycf2; Provisiona 96.6 0.074 1.6E-06 61.6 17.0 122 188-339 1721-1850(2281)
115 PRK06526 transposase; Provisio 96.6 0.0021 4.6E-08 60.1 4.3 39 62-100 93-131 (254)
116 PRK05642 DNA replication initi 96.6 0.0053 1.2E-07 56.6 6.7 37 67-103 45-81 (234)
117 PRK10733 hflB ATP-dependent me 96.6 0.054 1.2E-06 57.3 15.1 122 203-340 243-366 (644)
118 PRK11034 clpA ATP-dependent Cl 96.6 0.026 5.7E-07 60.6 12.5 96 187-309 266-361 (758)
119 PRK07993 DNA polymerase III su 96.6 0.23 5E-06 48.4 18.1 185 64-339 21-205 (334)
120 TIGR00362 DnaA chromosomal rep 96.5 0.0051 1.1E-07 61.2 6.6 37 66-102 135-173 (405)
121 cd01120 RecA-like_NTPases RecA 96.5 0.0033 7.2E-08 52.8 4.5 34 70-103 2-35 (165)
122 PRK08727 hypothetical protein; 96.5 0.0051 1.1E-07 56.7 5.8 37 66-102 40-76 (233)
123 PRK06893 DNA replication initi 96.5 0.0054 1.2E-07 56.3 5.9 37 66-102 38-74 (229)
124 PF13086 AAA_11: AAA domain; P 96.5 0.0035 7.7E-08 56.0 4.5 23 69-91 19-41 (236)
125 cd01124 KaiC KaiC is a circadi 96.4 0.0037 8E-08 54.7 4.4 32 70-101 2-33 (187)
126 PF00308 Bac_DnaA: Bacterial d 96.4 0.0097 2.1E-07 54.4 7.3 52 49-102 18-71 (219)
127 KOG0734|consensus 96.4 0.048 1E-06 55.7 12.6 126 189-338 386-513 (752)
128 KOG2543|consensus 96.4 0.058 1.2E-06 53.0 12.7 48 42-91 6-54 (438)
129 PRK07952 DNA replication prote 96.4 0.0087 1.9E-07 55.7 6.9 36 67-102 99-134 (244)
130 TIGR02639 ClpA ATP-dependent C 96.4 0.087 1.9E-06 56.6 15.4 95 187-308 262-356 (731)
131 PF07728 AAA_5: AAA domain (dy 96.4 0.0049 1.1E-07 51.5 4.8 34 69-103 1-34 (139)
132 COG1484 DnaC DNA replication p 96.4 0.0087 1.9E-07 56.0 6.8 73 26-104 68-142 (254)
133 cd01128 rho_factor Transcripti 96.4 0.058 1.3E-06 50.4 12.3 29 65-93 14-42 (249)
134 PRK07399 DNA polymerase III su 96.4 0.17 3.6E-06 48.9 15.8 119 183-339 104-222 (314)
135 COG3899 Predicted ATPase [Gene 96.3 0.04 8.7E-07 60.1 12.1 123 186-340 140-262 (849)
136 PTZ00202 tuzin; Provisional 96.3 0.023 5E-07 57.2 9.3 48 43-92 263-311 (550)
137 CHL00095 clpC Clp protease ATP 96.2 0.052 1.1E-06 59.1 12.7 92 187-307 259-351 (821)
138 COG1618 Predicted nucleotide k 96.2 0.0074 1.6E-07 52.5 5.0 41 65-105 3-45 (179)
139 COG4619 ABC-type uncharacteriz 96.2 0.0041 8.9E-08 54.7 3.2 26 65-90 27-52 (223)
140 TIGR00750 lao LAO/AO transport 96.2 0.0049 1.1E-07 59.0 3.9 38 64-101 31-68 (300)
141 PRK08939 primosomal protein Dn 96.1 0.011 2.3E-07 57.0 6.1 75 25-101 114-190 (306)
142 PF00004 AAA: ATPase family as 96.1 0.005 1.1E-07 50.2 3.4 65 187-262 45-111 (132)
143 PRK08533 flagellar accessory p 96.1 0.0084 1.8E-07 55.2 5.2 38 65-102 22-59 (230)
144 PF03205 MobB: Molybdopterin g 96.1 0.0094 2E-07 50.7 4.9 34 68-101 1-34 (140)
145 PF13604 AAA_30: AAA domain; P 96.1 0.019 4.1E-07 51.5 7.0 36 66-101 17-52 (196)
146 PRK00149 dnaA chromosomal repl 96.0 0.016 3.5E-07 58.5 7.0 38 66-103 147-186 (450)
147 PF13521 AAA_28: AAA domain; P 96.0 0.0073 1.6E-07 52.1 3.9 27 69-99 1-27 (163)
148 COG0467 RAD55 RecA-superfamily 96.0 0.0094 2E-07 55.6 4.9 38 65-102 21-58 (260)
149 TIGR03878 thermo_KaiC_2 KaiC d 96.0 0.0094 2E-07 55.8 4.9 38 65-102 34-71 (259)
150 cd00984 DnaB_C DnaB helicase C 96.0 0.011 2.4E-07 54.1 5.2 38 65-102 11-49 (242)
151 PRK08769 DNA polymerase III su 96.0 0.48 1E-05 45.9 16.7 118 183-340 93-210 (319)
152 KOG2859|consensus 95.9 0.038 8.3E-07 50.4 8.2 162 66-263 37-210 (293)
153 PRK04296 thymidine kinase; Pro 95.9 0.011 2.3E-07 52.8 4.7 33 69-101 4-36 (190)
154 cd01122 GP4d_helicase GP4d_hel 95.9 0.011 2.5E-07 55.1 5.0 38 65-102 28-66 (271)
155 PLN00020 ribulose bisphosphate 95.9 0.29 6.3E-06 48.4 14.7 24 65-88 146-169 (413)
156 COG0464 SpoVK ATPases of the A 95.8 0.3 6.5E-06 49.8 15.5 119 203-340 334-456 (494)
157 TIGR03881 KaiC_arch_4 KaiC dom 95.8 0.02 4.3E-07 52.1 6.1 39 64-102 17-55 (229)
158 COG1066 Sms Predicted ATP-depe 95.8 0.011 2.5E-07 58.4 4.5 37 65-102 91-127 (456)
159 cd04155 Arl3 Arl3 subfamily. 95.8 0.0096 2.1E-07 51.1 3.6 25 65-89 12-36 (173)
160 cd03115 SRP The signal recogni 95.8 0.014 3E-07 50.8 4.6 34 69-102 2-35 (173)
161 TIGR02237 recomb_radB DNA repa 95.7 0.017 3.6E-07 51.8 5.2 38 65-102 10-47 (209)
162 PRK12422 chromosomal replicati 95.7 0.012 2.7E-07 59.4 4.7 37 66-102 140-176 (445)
163 TIGR03880 KaiC_arch_3 KaiC dom 95.7 0.017 3.7E-07 52.5 5.2 37 65-101 14-50 (224)
164 cd01394 radB RadB. The archaea 95.7 0.024 5.1E-07 51.2 6.0 37 65-101 17-53 (218)
165 TIGR03877 thermo_KaiC_1 KaiC d 95.6 0.022 4.8E-07 52.5 5.7 38 65-102 19-56 (237)
166 PRK09435 membrane ATPase/prote 95.6 0.033 7.2E-07 54.2 6.8 47 50-99 42-88 (332)
167 PRK07667 uridine kinase; Provi 95.6 0.041 9E-07 49.0 7.0 51 50-103 3-55 (193)
168 PRK13695 putative NTPase; Prov 95.5 0.021 4.5E-07 49.8 5.0 30 69-98 2-31 (174)
169 PRK06964 DNA polymerase III su 95.5 1.3 2.8E-05 43.4 17.8 115 183-339 112-226 (342)
170 PRK09087 hypothetical protein; 95.5 0.033 7.1E-07 51.2 6.4 47 291-337 147-194 (226)
171 cd01129 PulE-GspE PulE/GspE Th 95.5 0.034 7.3E-07 52.3 6.6 42 66-107 79-120 (264)
172 CHL00181 cbbX CbbX; Provisiona 95.5 0.019 4E-07 54.8 4.9 114 207-339 125-247 (287)
173 cd03281 ABC_MSH5_euk MutS5 hom 95.5 0.017 3.7E-07 52.5 4.5 33 67-99 29-63 (213)
174 PF13479 AAA_24: AAA domain 95.5 0.029 6.2E-07 50.9 5.9 35 66-106 2-36 (213)
175 PF00448 SRP54: SRP54-type pro 95.5 0.02 4.3E-07 51.5 4.8 35 68-102 2-36 (196)
176 PRK09361 radB DNA repair and r 95.5 0.023 4.9E-07 51.6 5.2 38 65-102 21-58 (225)
177 PRK14088 dnaA chromosomal repl 95.5 0.027 5.8E-07 56.9 6.2 37 67-103 130-168 (440)
178 PRK04328 hypothetical protein; 95.5 0.021 4.6E-07 53.1 5.0 38 65-102 21-58 (249)
179 PRK05973 replicative DNA helic 95.4 0.024 5.3E-07 52.5 5.3 37 65-101 62-98 (237)
180 PF12846 AAA_10: AAA-like doma 95.4 0.02 4.4E-07 53.3 4.8 35 67-101 1-35 (304)
181 PF08423 Rad51: Rad51; InterP 95.4 0.025 5.5E-07 52.9 5.3 37 65-101 36-78 (256)
182 PF13481 AAA_25: AAA domain; P 95.4 0.025 5.5E-07 49.7 5.0 28 66-93 31-58 (193)
183 cd01672 TMPK Thymidine monopho 95.4 0.024 5.2E-07 49.6 4.8 35 70-104 3-37 (200)
184 COG0541 Ffh Signal recognition 95.4 0.06 1.3E-06 53.7 8.0 145 65-263 98-266 (451)
185 TIGR02012 tigrfam_recA protein 95.4 0.022 4.7E-07 55.1 4.8 37 65-101 53-89 (321)
186 PHA03133 thymidine kinase; Pro 95.4 0.017 3.6E-07 56.4 3.9 41 66-107 39-79 (368)
187 PRK06067 flagellar accessory p 95.3 0.036 7.9E-07 50.7 6.0 39 65-103 23-61 (234)
188 PRK14974 cell division protein 95.3 0.025 5.5E-07 55.1 5.1 36 66-101 139-174 (336)
189 PF13671 AAA_33: AAA domain; P 95.3 0.023 5E-07 47.3 4.3 31 70-103 2-32 (143)
190 TIGR00064 ftsY signal recognit 95.3 0.027 5.9E-07 53.2 5.2 36 66-101 71-106 (272)
191 PF03215 Rad17: Rad17 cell cyc 95.3 0.024 5.2E-07 58.4 5.1 50 47-99 25-74 (519)
192 PRK06696 uridine kinase; Valid 95.3 0.05 1.1E-06 49.6 6.7 38 65-102 20-57 (223)
193 PF10443 RNA12: RNA12 protein; 95.3 0.025 5.5E-07 56.4 5.0 55 54-113 5-59 (431)
194 PF13555 AAA_29: P-loop contai 95.2 0.013 2.9E-07 42.8 2.2 22 68-89 24-45 (62)
195 PF03193 DUF258: Protein of un 95.2 0.028 6E-07 49.0 4.6 57 31-91 3-59 (161)
196 KOG0780|consensus 95.2 0.13 2.9E-06 50.6 9.6 145 66-263 100-267 (483)
197 PF08477 Miro: Miro-like prote 95.2 0.019 4.2E-07 46.1 3.4 25 69-93 1-25 (119)
198 COG4088 Predicted nucleotide k 95.2 0.016 3.5E-07 52.5 3.0 35 69-103 3-37 (261)
199 cd02027 APSK Adenosine 5'-phos 95.2 0.027 5.9E-07 48.1 4.3 32 70-101 2-33 (149)
200 PRK06851 hypothetical protein; 95.1 0.029 6.2E-07 55.3 4.9 36 66-101 29-64 (367)
201 PRK06620 hypothetical protein; 95.1 0.028 6E-07 51.2 4.5 48 291-338 141-189 (214)
202 cd00046 DEXDc DEAD-like helica 95.1 0.039 8.4E-07 44.3 4.8 26 69-94 2-27 (144)
203 PRK13764 ATPase; Provisional 95.0 0.034 7.4E-07 58.1 5.5 43 67-109 257-299 (602)
204 cd01121 Sms Sms (bacterial rad 95.0 0.031 6.7E-07 55.2 4.9 38 65-102 80-117 (372)
205 PHA03135 thymidine kinase; Pro 95.0 0.025 5.5E-07 54.8 4.1 42 65-107 8-49 (343)
206 TIGR02881 spore_V_K stage V sp 95.0 0.026 5.7E-07 52.7 4.2 48 291-338 172-230 (261)
207 cd01131 PilT Pilus retraction 95.0 0.039 8.4E-07 49.5 5.1 33 69-101 3-36 (198)
208 KOG0743|consensus 95.0 0.015 3.2E-07 58.1 2.5 60 240-312 322-385 (457)
209 PF06745 KaiC: KaiC; InterPro 95.0 0.033 7.1E-07 50.6 4.6 37 65-101 17-54 (226)
210 cd03114 ArgK-like The function 95.0 0.039 8.5E-07 47.2 4.8 33 69-101 1-33 (148)
211 cd00983 recA RecA is a bacter 95.0 0.034 7.3E-07 53.9 4.8 38 65-102 53-90 (325)
212 TIGR00235 udk uridine kinase. 94.9 0.028 6.1E-07 50.5 4.0 37 65-101 4-40 (207)
213 TIGR02640 gas_vesic_GvpN gas v 94.9 0.051 1.1E-06 50.9 5.8 34 67-101 21-54 (262)
214 PRK00889 adenylylsulfate kinas 94.9 0.046 9.9E-07 47.6 5.2 36 66-101 3-38 (175)
215 PF00910 RNA_helicase: RNA hel 94.9 0.033 7.1E-07 44.8 3.9 23 70-92 1-23 (107)
216 smart00763 AAA_PrkA PrkA AAA d 94.9 0.045 9.7E-07 53.7 5.5 48 46-93 56-104 (361)
217 PF13476 AAA_23: AAA domain; P 94.9 0.022 4.9E-07 49.8 3.2 25 67-92 19-43 (202)
218 PF05496 RuvB_N: Holliday junc 94.9 0.059 1.3E-06 49.5 5.9 72 253-339 150-222 (233)
219 PF03308 ArgK: ArgK protein; 94.9 0.053 1.2E-06 50.8 5.7 85 49-137 14-106 (266)
220 PF04851 ResIII: Type III rest 94.9 0.072 1.6E-06 45.7 6.3 28 66-93 24-51 (184)
221 TIGR03499 FlhF flagellar biosy 94.9 0.039 8.4E-07 52.4 4.9 37 66-102 193-231 (282)
222 PRK10263 DNA translocase FtsK; 94.9 0.35 7.6E-06 54.4 12.7 67 67-137 1010-1082(1355)
223 PF00158 Sigma54_activat: Sigm 94.9 0.049 1.1E-06 47.7 5.2 51 49-102 7-59 (168)
224 PRK09270 nucleoside triphospha 94.8 0.045 9.8E-07 50.1 5.1 46 49-94 15-60 (229)
225 PF05970 PIF1: PIF1-like helic 94.8 0.056 1.2E-06 53.2 6.0 40 65-104 20-60 (364)
226 PRK06090 DNA polymerase III su 94.8 1.7 3.6E-05 42.2 16.0 113 185-339 90-202 (319)
227 PRK09354 recA recombinase A; P 94.8 0.04 8.7E-07 53.9 4.9 38 65-102 58-95 (349)
228 PRK09519 recA DNA recombinatio 94.8 0.2 4.3E-06 54.0 10.4 37 65-101 58-94 (790)
229 PF12775 AAA_7: P-loop contain 94.8 0.029 6.3E-07 53.0 3.8 37 66-102 32-68 (272)
230 cd02019 NK Nucleoside/nucleoti 94.8 0.053 1.2E-06 40.1 4.4 22 70-91 2-23 (69)
231 PRK01184 hypothetical protein; 94.8 0.032 6.9E-07 49.0 3.8 30 69-102 3-32 (184)
232 TIGR02655 circ_KaiC circadian 94.7 0.055 1.2E-06 55.3 6.0 37 65-101 261-297 (484)
233 PHA03138 thymidine kinase; Pro 94.7 0.035 7.6E-07 53.8 4.2 40 66-105 11-50 (340)
234 KOG0735|consensus 94.7 0.25 5.4E-06 52.2 10.5 96 204-315 494-591 (952)
235 PRK11823 DNA repair protein Ra 94.7 0.042 9.1E-07 55.6 4.9 38 65-102 78-115 (446)
236 PRK14086 dnaA chromosomal repl 94.7 0.04 8.7E-07 57.6 4.8 39 66-104 313-353 (617)
237 PF00437 T2SE: Type II/IV secr 94.7 0.048 1.1E-06 50.9 4.9 42 66-107 126-167 (270)
238 KOG1514|consensus 94.6 2.1 4.5E-05 45.4 17.0 209 46-340 400-622 (767)
239 TIGR01313 therm_gnt_kin carboh 94.6 0.033 7.2E-07 47.8 3.5 29 70-101 1-29 (163)
240 TIGR00176 mobB molybdopterin-g 94.6 0.053 1.2E-06 46.8 4.8 32 70-101 2-33 (155)
241 PRK10787 DNA-binding ATP-depen 94.6 0.99 2.1E-05 49.0 15.3 25 65-89 347-371 (784)
242 cd02021 GntK Gluconate kinase 94.6 0.043 9.4E-07 46.3 4.1 28 70-100 2-29 (150)
243 PRK07261 topology modulation p 94.6 0.032 6.9E-07 48.9 3.3 31 68-101 1-31 (171)
244 PRK00771 signal recognition pa 94.6 0.05 1.1E-06 54.9 5.1 37 66-102 94-130 (437)
245 TIGR00416 sms DNA repair prote 94.6 0.043 9.3E-07 55.7 4.7 38 65-102 92-129 (454)
246 cd01983 Fer4_NifH The Fer4_Nif 94.6 0.067 1.5E-06 40.6 4.8 33 70-102 2-34 (99)
247 PHA00729 NTP-binding motif con 94.6 0.077 1.7E-06 48.8 5.9 25 68-92 18-42 (226)
248 PRK10416 signal recognition pa 94.5 0.056 1.2E-06 52.3 5.2 36 66-101 113-148 (318)
249 PRK14532 adenylate kinase; Pro 94.5 0.044 9.6E-07 48.2 4.2 30 69-101 2-31 (188)
250 TIGR02533 type_II_gspE general 94.5 0.063 1.4E-06 54.9 5.7 42 66-107 241-282 (486)
251 cd01428 ADK Adenylate kinase ( 94.5 0.043 9.3E-07 48.2 4.0 31 69-102 1-31 (194)
252 PF13238 AAA_18: AAA domain; P 94.5 0.036 7.9E-07 44.8 3.3 22 70-91 1-22 (129)
253 PHA03134 thymidine kinase; Pro 94.5 0.04 8.7E-07 53.4 4.0 42 65-107 11-52 (340)
254 cd03238 ABC_UvrA The excision 94.5 0.031 6.7E-07 49.4 3.0 23 65-87 19-41 (176)
255 PRK12726 flagellar biosynthesi 94.5 0.058 1.2E-06 53.5 5.1 36 66-101 205-240 (407)
256 PF02492 cobW: CobW/HypB/UreG, 94.4 0.05 1.1E-06 47.8 4.3 34 69-102 2-36 (178)
257 PRK08118 topology modulation p 94.4 0.039 8.4E-07 48.2 3.4 31 68-101 2-32 (167)
258 KOG0736|consensus 94.4 1.6 3.5E-05 46.8 15.6 114 203-340 489-607 (953)
259 PRK14738 gmk guanylate kinase; 94.3 0.039 8.4E-07 49.8 3.3 26 65-90 11-36 (206)
260 TIGR02322 phosphon_PhnN phosph 94.3 0.04 8.7E-07 48.0 3.4 23 68-90 2-24 (179)
261 PF00005 ABC_tran: ABC transpo 94.3 0.043 9.3E-07 45.4 3.3 35 65-99 9-44 (137)
262 KOG0727|consensus 94.3 0.034 7.4E-07 51.9 2.9 27 64-90 186-212 (408)
263 PRK05480 uridine/cytidine kina 94.3 0.07 1.5E-06 47.9 4.9 37 65-101 4-40 (209)
264 PRK10536 hypothetical protein; 94.3 0.15 3.3E-06 47.8 7.2 38 67-104 74-112 (262)
265 COG3839 MalK ABC-type sugar tr 94.3 0.039 8.5E-07 53.7 3.4 35 65-99 27-62 (338)
266 TIGR00041 DTMP_kinase thymidyl 94.2 0.071 1.5E-06 47.0 4.8 36 67-102 3-38 (195)
267 PRK11889 flhF flagellar biosyn 94.2 0.095 2.1E-06 52.2 6.0 36 66-101 240-275 (436)
268 PRK05537 bifunctional sulfate 94.2 0.19 4.1E-06 52.5 8.5 78 10-101 349-427 (568)
269 TIGR01359 UMP_CMP_kin_fam UMP- 94.2 0.056 1.2E-06 47.2 4.0 29 70-101 2-30 (183)
270 KOG0741|consensus 94.2 0.03 6.6E-07 57.0 2.6 57 25-90 223-279 (744)
271 TIGR03238 dnd_assoc_3 dnd syst 94.2 0.052 1.1E-06 55.1 4.2 40 45-85 10-50 (504)
272 PRK05541 adenylylsulfate kinas 94.2 0.094 2E-06 45.7 5.4 37 65-101 5-41 (176)
273 TIGR01360 aden_kin_iso1 adenyl 94.2 0.062 1.3E-06 46.9 4.3 30 67-99 3-32 (188)
274 PF00270 DEAD: DEAD/DEAH box h 94.2 0.17 3.6E-06 43.0 6.9 38 67-104 14-54 (169)
275 PRK13900 type IV secretion sys 94.2 0.15 3.2E-06 49.6 7.2 42 66-108 159-200 (332)
276 cd00820 PEPCK_HprK Phosphoenol 94.1 0.045 9.8E-07 44.5 3.0 23 66-88 14-36 (107)
277 PLN03187 meiotic recombination 94.1 0.19 4.2E-06 49.1 8.0 27 66-92 125-151 (344)
278 COG1116 TauB ABC-type nitrate/ 94.1 0.04 8.6E-07 51.2 3.0 28 65-92 27-54 (248)
279 TIGR01420 pilT_fam pilus retra 94.1 0.11 2.3E-06 50.8 6.1 43 66-108 121-164 (343)
280 PRK00279 adk adenylate kinase; 94.1 0.061 1.3E-06 48.6 4.1 31 69-102 2-32 (215)
281 KOG0741|consensus 94.1 0.41 8.8E-06 49.2 10.1 122 50-208 523-644 (744)
282 PF06414 Zeta_toxin: Zeta toxi 94.0 0.064 1.4E-06 47.9 4.1 40 65-104 13-52 (199)
283 COG1136 SalX ABC-type antimicr 94.0 0.048 1E-06 50.2 3.3 28 65-92 29-56 (226)
284 KOG2749|consensus 94.0 0.073 1.6E-06 51.8 4.7 38 64-101 100-137 (415)
285 PF05127 Helicase_RecD: Helica 94.0 0.016 3.6E-07 51.2 0.3 36 71-106 1-38 (177)
286 TIGR02782 TrbB_P P-type conjug 94.0 0.11 2.4E-06 49.8 6.0 42 66-107 131-174 (299)
287 TIGR02238 recomb_DMC1 meiotic 94.0 0.2 4.4E-06 48.3 7.8 37 65-101 94-136 (313)
288 PRK10436 hypothetical protein; 94.0 0.12 2.6E-06 52.6 6.4 43 65-107 216-258 (462)
289 COG1703 ArgK Putative periplas 94.0 0.16 3.5E-06 48.5 6.9 84 50-137 37-128 (323)
290 PHA02544 44 clamp loader, smal 94.0 0.094 2E-06 50.0 5.5 23 67-89 43-65 (316)
291 PRK14530 adenylate kinase; Pro 94.0 0.071 1.5E-06 48.2 4.4 31 67-100 3-33 (215)
292 TIGR02236 recomb_radA DNA repa 94.0 0.073 1.6E-06 50.9 4.7 37 65-102 93-136 (310)
293 TIGR00665 DnaB replicative DNA 94.0 0.097 2.1E-06 52.5 5.7 38 65-102 193-231 (434)
294 PRK00131 aroK shikimate kinase 94.0 0.077 1.7E-06 45.5 4.4 33 66-101 3-35 (175)
295 TIGR01618 phage_P_loop phage n 94.0 0.11 2.4E-06 47.6 5.6 32 67-103 12-43 (220)
296 TIGR00231 small_GTP small GTP- 94.0 0.049 1.1E-06 44.7 3.0 22 68-89 2-23 (161)
297 PRK03846 adenylylsulfate kinas 93.9 0.084 1.8E-06 47.1 4.7 37 65-101 22-58 (198)
298 PHA02244 ATPase-like protein 93.9 0.13 2.7E-06 50.8 6.2 32 67-99 119-150 (383)
299 TIGR02538 type_IV_pilB type IV 93.9 0.22 4.8E-06 51.9 8.5 122 66-194 315-449 (564)
300 cd03283 ABC_MutS-like MutS-lik 93.9 0.042 9.2E-07 49.4 2.7 25 67-91 25-49 (199)
301 PRK06547 hypothetical protein; 93.8 0.11 2.4E-06 45.7 5.2 34 65-101 13-46 (172)
302 PF09820 AAA-ATPase_like: Pred 93.8 1 2.2E-05 42.8 12.1 146 35-219 6-158 (284)
303 PF08433 KTI12: Chromatin asso 93.8 0.087 1.9E-06 49.8 4.8 35 70-104 4-38 (270)
304 TIGR03574 selen_PSTK L-seryl-t 93.8 0.078 1.7E-06 49.1 4.4 32 70-101 2-33 (249)
305 PF04665 Pox_A32: Poxvirus A32 93.8 0.087 1.9E-06 48.9 4.6 36 67-102 13-49 (241)
306 cd03243 ABC_MutS_homologs The 93.8 0.054 1.2E-06 48.5 3.2 26 66-91 28-53 (202)
307 cd01130 VirB11-like_ATPase Typ 93.8 0.12 2.6E-06 45.7 5.4 27 66-92 24-50 (186)
308 cd02023 UMPK Uridine monophosp 93.8 0.083 1.8E-06 46.9 4.3 32 70-101 2-33 (198)
309 TIGR03263 guanyl_kin guanylate 93.8 0.058 1.2E-06 47.0 3.2 23 68-90 2-24 (180)
310 PF01926 MMR_HSR1: 50S ribosom 93.7 0.06 1.3E-06 43.3 3.1 21 69-89 1-21 (116)
311 cd01673 dNK Deoxyribonucleosid 93.7 0.055 1.2E-06 47.8 3.1 31 70-103 2-32 (193)
312 TIGR00376 DNA helicase, putati 93.7 0.075 1.6E-06 56.2 4.5 34 68-101 174-207 (637)
313 smart00487 DEXDc DEAD-like hel 93.7 0.17 3.6E-06 43.2 6.1 28 68-95 25-52 (201)
314 PRK06762 hypothetical protein; 93.7 0.092 2E-06 45.1 4.4 32 68-100 3-34 (166)
315 TIGR01425 SRP54_euk signal rec 93.7 0.096 2.1E-06 52.7 5.0 36 66-101 99-134 (429)
316 COG1126 GlnQ ABC-type polar am 93.7 0.055 1.2E-06 49.4 2.9 35 65-99 26-61 (240)
317 PRK00698 tmk thymidylate kinas 93.6 0.1 2.2E-06 46.2 4.7 33 67-99 3-35 (205)
318 TIGR02525 plasmid_TraJ plasmid 93.6 0.096 2.1E-06 51.8 4.9 42 67-108 149-192 (372)
319 TIGR00455 apsK adenylylsulfate 93.6 0.12 2.5E-06 45.5 4.9 37 65-101 16-52 (184)
320 TIGR02788 VirB11 P-type DNA tr 93.6 0.17 3.8E-06 48.5 6.5 26 66-91 143-168 (308)
321 cd03250 ABCC_MRP_domain1 Domai 93.6 0.089 1.9E-06 47.0 4.2 40 65-104 29-74 (204)
322 PRK00300 gmk guanylate kinase; 93.6 0.074 1.6E-06 47.4 3.7 25 66-90 4-28 (205)
323 PRK10078 ribose 1,5-bisphospho 93.6 0.064 1.4E-06 47.4 3.2 22 68-89 3-24 (186)
324 COG0468 RecA RecA/RadA recombi 93.5 0.074 1.6E-06 50.5 3.8 121 67-247 60-180 (279)
325 PRK02496 adk adenylate kinase; 93.5 0.068 1.5E-06 46.9 3.4 31 68-101 2-32 (184)
326 PRK10751 molybdopterin-guanine 93.4 0.12 2.5E-06 45.7 4.6 35 67-101 6-40 (173)
327 TIGR00150 HI0065_YjeE ATPase, 93.4 0.16 3.6E-06 42.8 5.3 39 49-90 7-45 (133)
328 PRK09825 idnK D-gluconate kina 93.4 0.082 1.8E-06 46.6 3.7 24 67-90 3-26 (176)
329 COG0593 DnaA ATPase involved i 93.4 0.19 4.1E-06 50.1 6.6 38 66-103 112-151 (408)
330 PF09848 DUF2075: Uncharacteri 93.4 0.082 1.8E-06 51.6 4.0 33 69-101 3-37 (352)
331 COG3911 Predicted ATPase [Gene 93.4 0.064 1.4E-06 46.3 2.8 31 68-102 10-40 (183)
332 cd00071 GMPK Guanosine monopho 93.4 0.066 1.4E-06 45.1 2.9 32 70-101 2-34 (137)
333 COG1122 CbiO ABC-type cobalt t 93.4 0.071 1.5E-06 49.4 3.3 28 65-92 28-55 (235)
334 COG4778 PhnL ABC-type phosphon 93.4 0.092 2E-06 46.5 3.7 35 65-99 35-70 (235)
335 PF01583 APS_kinase: Adenylyls 93.4 0.13 2.8E-06 44.6 4.7 35 68-102 3-37 (156)
336 PRK14531 adenylate kinase; Pro 93.3 0.079 1.7E-06 46.7 3.4 22 68-89 3-24 (183)
337 TIGR01351 adk adenylate kinase 93.3 0.079 1.7E-06 47.7 3.5 30 69-101 1-30 (210)
338 PRK13700 conjugal transfer pro 93.3 0.14 3.1E-06 54.3 5.8 53 51-104 157-223 (732)
339 PRK03839 putative kinase; Prov 93.3 0.074 1.6E-06 46.5 3.2 30 69-101 2-31 (180)
340 PRK05439 pantothenate kinase; 93.3 0.48 1E-05 45.7 9.0 88 5-92 4-111 (311)
341 PRK13768 GTPase; Provisional 93.3 0.1 2.2E-06 48.7 4.3 33 69-101 4-38 (253)
342 COG1222 RPT1 ATP-dependent 26S 93.3 0.072 1.6E-06 52.0 3.2 119 202-340 242-366 (406)
343 PHA03136 thymidine kinase; Pro 93.3 0.081 1.7E-06 52.1 3.6 38 66-106 35-74 (378)
344 PRK12724 flagellar biosynthesi 93.3 0.13 2.8E-06 51.7 5.1 35 67-101 223-258 (432)
345 cd00154 Rab Rab family. Rab G 93.3 0.075 1.6E-06 43.9 3.0 21 68-88 1-21 (159)
346 cd03280 ABC_MutS2 MutS2 homolo 93.3 0.066 1.4E-06 47.9 2.8 22 68-89 29-50 (200)
347 PTZ00088 adenylate kinase 1; P 93.3 0.093 2E-06 48.4 3.9 35 67-104 6-40 (229)
348 PRK04301 radA DNA repair and r 93.2 0.12 2.5E-06 49.9 4.7 38 65-102 100-143 (317)
349 cd04154 Arl2 Arl2 subfamily. 93.2 0.079 1.7E-06 45.7 3.2 25 65-89 12-36 (173)
350 PRK10867 signal recognition pa 93.2 0.12 2.6E-06 52.1 4.9 36 66-101 99-135 (433)
351 cd02034 CooC The accessory pro 93.2 0.14 3E-06 42.0 4.5 33 69-101 1-33 (116)
352 PF05707 Zot: Zonular occluden 93.2 0.11 2.3E-06 46.4 4.1 31 70-100 3-34 (193)
353 cd04137 RheB Rheb (Ras Homolog 93.2 0.077 1.7E-06 45.8 3.1 22 68-89 2-23 (180)
354 PRK08233 hypothetical protein; 93.2 0.087 1.9E-06 45.6 3.4 24 67-90 3-26 (182)
355 TIGR00764 lon_rel lon-related 93.1 0.12 2.5E-06 54.4 4.9 39 68-106 38-77 (608)
356 KOG0989|consensus 93.1 0.085 1.8E-06 50.5 3.4 32 53-85 44-75 (346)
357 cd00879 Sar1 Sar1 subfamily. 93.1 0.16 3.4E-06 44.4 5.0 26 64-89 16-41 (190)
358 cd01861 Rab6 Rab6 subfamily. 93.1 0.08 1.7E-06 44.6 3.0 21 69-89 2-22 (161)
359 cd04160 Arfrp1 Arfrp1 subfamil 93.1 0.072 1.6E-06 45.2 2.8 21 69-89 1-21 (167)
360 PF00025 Arf: ADP-ribosylation 93.1 0.11 2.4E-06 45.3 4.0 24 65-88 12-35 (175)
361 TIGR02655 circ_KaiC circadian 93.1 0.12 2.6E-06 52.9 4.7 37 65-101 19-56 (484)
362 PRK08099 bifunctional DNA-bind 93.1 0.06 1.3E-06 53.7 2.4 48 42-90 195-242 (399)
363 PF03796 DnaB_C: DnaB-like hel 93.0 0.18 3.9E-06 46.9 5.4 38 65-102 17-55 (259)
364 PRK04040 adenylate kinase; Pro 93.0 0.094 2E-06 46.7 3.4 24 68-91 3-26 (188)
365 TIGR03600 phage_DnaB phage rep 92.9 0.16 3.5E-06 50.7 5.4 38 65-102 192-230 (421)
366 PF00580 UvrD-helicase: UvrD/R 92.9 0.12 2.7E-06 48.4 4.2 30 66-95 12-41 (315)
367 PRK05703 flhF flagellar biosyn 92.9 0.16 3.4E-06 51.1 5.2 35 67-101 221-257 (424)
368 PF14532 Sigma54_activ_2: Sigm 92.9 0.088 1.9E-06 44.1 2.9 40 49-92 6-45 (138)
369 cd00157 Rho Rho (Ras homology) 92.9 0.093 2E-06 44.6 3.1 22 69-90 2-23 (171)
370 PHA02774 E1; Provisional 92.9 0.23 5E-06 51.6 6.4 49 52-102 419-467 (613)
371 cd04138 H_N_K_Ras_like H-Ras/N 92.8 0.097 2.1E-06 43.8 3.1 22 68-89 2-23 (162)
372 KOG0781|consensus 92.7 0.16 3.4E-06 51.3 4.8 51 50-101 362-412 (587)
373 TIGR02524 dot_icm_DotB Dot/Icm 92.7 0.17 3.7E-06 49.7 5.1 42 66-107 133-177 (358)
374 smart00173 RAS Ras subfamily o 92.7 0.1 2.3E-06 44.0 3.2 21 69-89 2-22 (164)
375 TIGR03575 selen_PSTK_euk L-ser 92.7 0.15 3.2E-06 49.8 4.5 38 70-107 2-40 (340)
376 cd04145 M_R_Ras_like M-Ras/R-R 92.7 0.11 2.5E-06 43.7 3.3 24 67-90 2-25 (164)
377 cd01853 Toc34_like Toc34-like 92.7 0.16 3.6E-06 47.3 4.6 37 50-89 17-53 (249)
378 TIGR02903 spore_lon_C ATP-depe 92.6 0.23 5.1E-06 52.3 6.3 36 66-101 174-218 (615)
379 cd03234 ABCG_White The White s 92.6 0.11 2.3E-06 47.2 3.3 35 65-99 31-69 (226)
380 cd02022 DPCK Dephospho-coenzym 92.6 0.13 2.8E-06 45.2 3.7 28 70-101 2-29 (179)
381 PF03029 ATP_bind_1: Conserved 92.6 0.16 3.4E-06 47.1 4.4 39 72-110 1-41 (238)
382 TIGR02768 TraA_Ti Ti-type conj 92.6 0.15 3.2E-06 55.0 4.7 38 67-104 368-406 (744)
383 PRK06217 hypothetical protein; 92.6 0.12 2.5E-06 45.6 3.3 33 68-103 2-34 (183)
384 cd04156 ARLTS1 ARLTS1 subfamil 92.5 0.097 2.1E-06 44.1 2.7 21 69-89 1-21 (160)
385 PLN02200 adenylate kinase fami 92.5 0.16 3.5E-06 46.9 4.4 31 66-99 42-72 (234)
386 PRK14528 adenylate kinase; Pro 92.5 0.13 2.8E-06 45.6 3.6 31 68-101 2-32 (186)
387 TIGR01166 cbiO cobalt transpor 92.5 0.12 2.6E-06 45.6 3.4 35 65-99 16-51 (190)
388 PF01443 Viral_helicase1: Vira 92.5 0.085 1.8E-06 47.7 2.5 22 70-91 1-22 (234)
389 cd03226 ABC_cobalt_CbiO_domain 92.5 0.12 2.6E-06 46.2 3.4 35 65-99 24-59 (205)
390 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 92.5 0.11 2.4E-06 44.1 3.0 22 68-89 3-24 (166)
391 cd00876 Ras Ras family. The R 92.4 0.11 2.3E-06 43.5 2.8 20 69-88 1-20 (160)
392 CHL00081 chlI Mg-protoporyphyr 92.4 0.23 4.9E-06 48.7 5.5 31 65-95 36-66 (350)
393 cd04139 RalA_RalB RalA/RalB su 92.4 0.12 2.5E-06 43.4 3.1 21 69-89 2-22 (164)
394 smart00175 RAB Rab subfamily o 92.4 0.11 2.5E-06 43.6 3.0 21 68-88 1-21 (164)
395 PF09439 SRPRB: Signal recogni 92.4 0.12 2.7E-06 45.9 3.3 25 66-90 2-26 (181)
396 COG4136 ABC-type uncharacteriz 92.4 0.13 2.8E-06 44.7 3.2 25 65-89 26-50 (213)
397 PF01935 DUF87: Domain of unkn 92.4 0.2 4.3E-06 45.5 4.8 38 67-104 23-62 (229)
398 cd00227 CPT Chloramphenicol (C 92.4 0.14 3E-06 44.7 3.6 30 67-97 2-31 (175)
399 cd04163 Era Era subfamily. Er 92.4 0.12 2.5E-06 43.1 3.0 22 67-88 3-24 (168)
400 COG1119 ModF ABC-type molybden 92.3 0.11 2.4E-06 48.3 2.9 29 65-93 55-83 (257)
401 TIGR03743 SXT_TraD conjugative 92.3 0.41 9E-06 50.6 7.6 74 66-139 175-270 (634)
402 cd03269 ABC_putative_ATPase Th 92.3 0.13 2.8E-06 46.1 3.4 35 65-99 24-59 (210)
403 PRK11608 pspF phage shock prot 92.3 0.24 5.2E-06 47.9 5.5 51 49-102 14-66 (326)
404 cd03260 ABC_PstB_phosphate_tra 92.3 0.17 3.7E-06 45.9 4.2 35 65-99 24-64 (227)
405 TIGR01650 PD_CobS cobaltochela 92.3 0.19 4.2E-06 48.7 4.7 42 42-90 45-87 (327)
406 PF06309 Torsin: Torsin; Inte 92.3 0.28 6.1E-06 41.0 5.0 39 65-103 51-93 (127)
407 cd04119 RJL RJL (RabJ-Like) su 92.3 0.12 2.7E-06 43.4 3.0 20 69-88 2-21 (168)
408 cd01863 Rab18 Rab18 subfamily. 92.2 0.12 2.7E-06 43.5 3.0 20 69-88 2-21 (161)
409 KOG0730|consensus 92.2 0.12 2.6E-06 54.0 3.4 27 65-91 466-492 (693)
410 cd00464 SK Shikimate kinase (S 92.2 0.15 3.3E-06 42.8 3.6 30 69-101 1-30 (154)
411 PRK14526 adenylate kinase; Pro 92.2 0.13 2.9E-06 46.7 3.4 20 69-88 2-21 (211)
412 PRK13833 conjugal transfer pro 92.2 0.32 6.8E-06 47.2 6.1 41 67-107 144-186 (323)
413 cd01867 Rab8_Rab10_Rab13_like 92.2 0.12 2.7E-06 44.1 3.0 23 67-89 3-25 (167)
414 PRK08154 anaerobic benzoate ca 92.2 0.26 5.7E-06 47.3 5.6 34 63-99 129-162 (309)
415 TIGR00960 3a0501s02 Type II (G 92.2 0.14 3E-06 46.1 3.4 35 65-99 27-62 (216)
416 PRK09302 circadian clock prote 92.2 0.18 4E-06 51.7 4.7 47 55-101 18-66 (509)
417 cd04136 Rap_like Rap-like subf 92.2 0.13 2.9E-06 43.2 3.1 21 68-88 2-22 (163)
418 PRK06761 hypothetical protein; 92.1 0.2 4.4E-06 47.6 4.6 32 68-99 4-35 (282)
419 PRK15177 Vi polysaccharide exp 92.1 0.14 3E-06 46.3 3.4 34 65-98 11-45 (213)
420 TIGR00959 ffh signal recogniti 92.1 0.22 4.8E-06 50.1 5.1 35 67-101 99-134 (428)
421 PRK14527 adenylate kinase; Pro 92.1 0.16 3.5E-06 44.9 3.8 32 65-99 4-35 (191)
422 cd03223 ABCD_peroxisomal_ALDP 92.1 0.15 3.3E-06 44.2 3.5 35 65-99 25-60 (166)
423 PRK14722 flhF flagellar biosyn 92.1 0.23 5E-06 49.1 5.1 31 65-95 135-166 (374)
424 PTZ00132 GTP-binding nuclear p 92.1 0.16 3.6E-06 45.5 3.8 25 65-89 7-31 (215)
425 PF01745 IPT: Isopentenyl tran 92.1 0.19 4.1E-06 45.9 4.1 37 69-108 3-39 (233)
426 KOG0090|consensus 92.1 0.48 1.1E-05 43.2 6.6 69 65-141 36-106 (238)
427 cd02024 NRK1 Nicotinamide ribo 92.1 0.33 7.2E-06 43.3 5.6 31 70-102 2-32 (187)
428 PRK08506 replicative DNA helic 92.1 0.28 6.1E-06 50.0 5.9 37 65-101 190-226 (472)
429 PRK05416 glmZ(sRNA)-inactivati 92.1 0.18 3.9E-06 48.1 4.2 32 67-102 6-37 (288)
430 PRK13973 thymidylate kinase; P 92.1 0.24 5.1E-06 44.9 4.8 38 67-104 3-40 (213)
431 cd04159 Arl10_like Arl10-like 92.1 0.12 2.5E-06 42.8 2.6 20 70-89 2-21 (159)
432 cd01134 V_A-ATPase_A V/A-type 92.0 0.16 3.4E-06 49.8 3.8 39 65-105 155-193 (369)
433 PHA02624 large T antigen; Prov 92.0 0.23 4.9E-06 51.9 5.1 41 51-91 415-455 (647)
434 PRK13539 cytochrome c biogenes 92.0 0.15 3.3E-06 45.7 3.5 35 65-99 26-61 (207)
435 COG1125 OpuBA ABC-type proline 92.0 0.12 2.5E-06 48.6 2.6 35 65-99 25-60 (309)
436 cd03247 ABCC_cytochrome_bd The 92.0 0.16 3.4E-06 44.4 3.5 26 65-90 26-51 (178)
437 cd01878 HflX HflX subfamily. 92.0 0.15 3.3E-06 45.2 3.4 25 65-89 39-63 (204)
438 cd01862 Rab7 Rab7 subfamily. 92.0 0.13 2.8E-06 43.7 2.8 22 69-90 2-23 (172)
439 cd03219 ABC_Mj1267_LivG_branch 91.9 0.14 3E-06 46.7 3.1 35 65-99 24-59 (236)
440 cd03246 ABCC_Protease_Secretio 91.9 0.17 3.6E-06 44.1 3.5 27 65-91 26-52 (173)
441 PRK07429 phosphoribulokinase; 91.9 0.26 5.6E-06 47.9 5.1 39 65-103 6-44 (327)
442 PRK14730 coaE dephospho-CoA ki 91.9 0.21 4.6E-06 44.7 4.2 37 68-110 2-38 (195)
443 PRK10463 hydrogenase nickel in 91.9 0.35 7.7E-06 46.1 5.9 35 65-99 102-137 (290)
444 cd03265 ABC_DrrA DrrA is the A 91.9 0.16 3.4E-06 45.9 3.5 35 65-99 24-59 (220)
445 cd03224 ABC_TM1139_LivF_branch 91.9 0.14 3.1E-06 46.1 3.2 35 65-99 24-59 (222)
446 PTZ00133 ADP-ribosylation fact 91.9 0.21 4.5E-06 43.8 4.1 24 65-88 15-38 (182)
447 TIGR00602 rad24 checkpoint pro 91.9 0.24 5.3E-06 52.2 5.3 42 49-90 92-133 (637)
448 cd03235 ABC_Metallic_Cations A 91.9 0.14 3.1E-06 45.9 3.1 35 65-99 23-58 (213)
449 cd03292 ABC_FtsE_transporter F 91.9 0.16 3.4E-06 45.5 3.4 35 65-99 25-60 (214)
450 KOG0086|consensus 91.8 0.14 3E-06 44.2 2.8 42 68-109 10-52 (214)
451 PRK13540 cytochrome c biogenes 91.8 0.16 3.6E-06 45.2 3.5 35 65-99 25-60 (200)
452 cd04113 Rab4 Rab4 subfamily. 91.8 0.15 3.2E-06 43.1 3.0 21 69-89 2-22 (161)
453 cd03264 ABC_drug_resistance_li 91.8 0.15 3.2E-06 45.7 3.2 33 66-99 25-58 (211)
454 PRK10247 putative ABC transpor 91.8 0.16 3.5E-06 46.1 3.5 35 65-99 31-66 (225)
455 TIGR02211 LolD_lipo_ex lipopro 91.8 0.16 3.5E-06 45.8 3.4 35 65-99 29-64 (221)
456 cd03261 ABC_Org_Solvent_Resist 91.8 0.16 3.5E-06 46.4 3.4 35 65-99 24-59 (235)
457 PRK12723 flagellar biosynthesi 91.8 0.25 5.5E-06 49.1 5.0 26 67-92 174-199 (388)
458 cd04124 RabL2 RabL2 subfamily. 91.8 0.15 3.3E-06 43.4 3.1 21 69-89 2-22 (161)
459 cd03218 ABC_YhbG The ABC trans 91.8 0.16 3.5E-06 46.2 3.4 35 65-99 24-59 (232)
460 PHA02530 pseT polynucleotide k 91.8 0.16 3.5E-06 48.0 3.5 32 69-102 4-35 (300)
461 cd03301 ABC_MalK_N The N-termi 91.8 0.17 3.6E-06 45.4 3.5 35 65-99 24-59 (213)
462 cd02025 PanK Pantothenate kina 91.8 0.22 4.7E-06 45.5 4.2 23 70-92 2-24 (220)
463 cd02026 PRK Phosphoribulokinas 91.7 0.21 4.5E-06 47.2 4.2 33 70-102 2-34 (273)
464 PRK14493 putative bifunctional 91.7 0.22 4.9E-06 47.1 4.4 32 69-101 3-34 (274)
465 cd04129 Rho2 Rho2 subfamily. 91.7 0.15 3.2E-06 44.8 3.0 21 68-88 2-22 (187)
466 cd03268 ABC_BcrA_bacitracin_re 91.7 0.17 3.6E-06 45.3 3.4 34 65-98 24-58 (208)
467 TIGR00767 rho transcription te 91.7 0.23 5E-06 49.5 4.6 86 203-289 254-358 (415)
468 cd01866 Rab2 Rab2 subfamily. 91.7 0.15 3.3E-06 43.6 3.0 21 68-88 5-25 (168)
469 cd01868 Rab11_like Rab11-like. 91.7 0.15 3.4E-06 43.1 3.0 22 68-89 4-25 (165)
470 cd03116 MobB Molybdenum is an 91.7 0.27 5.9E-06 42.7 4.5 33 69-101 3-35 (159)
471 TIGR00991 3a0901s02IAP34 GTP-b 91.7 0.24 5.3E-06 47.7 4.6 38 49-89 23-60 (313)
472 cd01860 Rab5_related Rab5-rela 91.7 0.16 3.4E-06 42.8 3.0 22 68-89 2-23 (163)
473 cd03255 ABC_MJ0796_Lo1CDE_FtsE 91.7 0.17 3.7E-06 45.5 3.4 35 65-99 28-63 (218)
474 cd04114 Rab30 Rab30 subfamily. 91.7 0.16 3.4E-06 43.2 3.1 25 65-89 5-29 (169)
475 COG1117 PstB ABC-type phosphat 91.7 0.17 3.6E-06 46.3 3.3 24 65-88 31-54 (253)
476 COG1643 HrpA HrpA-like helicas 91.6 0.29 6.3E-06 53.1 5.6 46 51-103 56-103 (845)
477 cd03216 ABC_Carb_Monos_I This 91.6 0.18 3.8E-06 43.6 3.4 25 65-89 24-48 (163)
478 cd03257 ABC_NikE_OppD_transpor 91.6 0.17 3.6E-06 45.8 3.3 35 65-99 29-64 (228)
479 PLN02674 adenylate kinase 91.6 0.28 6.1E-06 45.7 4.9 32 65-99 29-60 (244)
480 PF02456 Adeno_IVa2: Adenoviru 91.6 0.24 5.3E-06 47.5 4.4 63 66-143 86-148 (369)
481 PRK09302 circadian clock prote 91.6 0.32 7E-06 49.9 5.8 37 65-101 271-307 (509)
482 cd03230 ABC_DR_subfamily_A Thi 91.6 0.18 3.9E-06 43.9 3.4 25 65-89 24-48 (173)
483 cd01864 Rab19 Rab19 subfamily. 91.6 0.16 3.5E-06 43.1 3.0 23 67-89 3-25 (165)
484 COG3842 PotA ABC-type spermidi 91.6 0.16 3.6E-06 49.7 3.4 35 65-99 29-64 (352)
485 KOG0733|consensus 91.6 0.14 2.9E-06 53.3 2.9 20 65-84 221-240 (802)
486 PRK11629 lolD lipoprotein tran 91.6 0.18 3.8E-06 46.1 3.4 35 65-99 33-68 (233)
487 PRK14235 phosphate transporter 91.6 0.23 5E-06 46.4 4.3 35 65-99 43-83 (267)
488 PF02562 PhoH: PhoH-like prote 91.5 0.3 6.5E-06 44.3 4.8 39 67-105 19-60 (205)
489 PRK14731 coaE dephospho-CoA ki 91.5 0.22 4.9E-06 44.9 4.0 30 68-101 6-35 (208)
490 cd03256 ABC_PhnC_transporter A 91.5 0.18 3.8E-06 46.1 3.4 35 65-99 25-60 (241)
491 cd03266 ABC_NatA_sodium_export 91.5 0.18 3.9E-06 45.4 3.4 35 65-99 29-64 (218)
492 cd03221 ABCF_EF-3 ABCF_EF-3 E 91.5 0.17 3.7E-06 42.9 3.0 25 65-89 24-48 (144)
493 PRK13541 cytochrome c biogenes 91.5 0.18 4E-06 44.7 3.4 34 65-98 24-58 (195)
494 PRK13949 shikimate kinase; Pro 91.5 0.18 3.9E-06 44.0 3.3 31 68-101 2-32 (169)
495 PRK05595 replicative DNA helic 91.5 0.37 8.1E-06 48.6 6.0 37 65-101 199-236 (444)
496 COG0563 Adk Adenylate kinase a 91.5 0.19 4.1E-06 44.5 3.4 23 68-90 1-23 (178)
497 PRK05748 replicative DNA helic 91.5 0.37 8E-06 48.7 6.0 37 65-101 201-238 (448)
498 cd03298 ABC_ThiQ_thiamine_tran 91.5 0.18 4E-06 45.1 3.4 35 65-99 22-57 (211)
499 cd03225 ABC_cobalt_CbiO_domain 91.5 0.18 3.9E-06 45.1 3.4 35 65-99 25-60 (211)
500 cd03215 ABC_Carb_Monos_II This 91.5 0.18 3.9E-06 44.3 3.3 26 65-90 24-49 (182)
No 1
>KOG3928|consensus
Probab=100.00 E-value=5.7e-82 Score=602.17 Aligned_cols=337 Identities=33% Similarity=0.575 Sum_probs=321.1
Q ss_pred CCCccCcceEEEeCHHHHHHhhhcCCCChhhHHhhhhcCCceEEechhHHHHHHHHHhccCCCCCCCeEEEEccCCCcHH
Q psy3261 2 KHSKQDLYKFYTLPDEVRSAIFELGGITRVFNEQTQIFNESSILIRNCMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKS 81 (342)
Q Consensus 2 ~h~~~~~g~~~~~~~~~~~~l~~~g~l~~~~~~~~~~~~~~~~lvR~~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS 81 (342)
.|+..++|++|+||++++++++++ |+|..+.|++++|.|+++|||++++|+.++++. .+...|..||||||+.|||||
T Consensus 116 ~~ssk~~gk~~~i~~~~lk~l~~~-G~p~~~~~q~~tf~ea~lLVRkpalel~~~~r~-~d~~~P~~r~vL~Ge~GtGKS 193 (461)
T KOG3928|consen 116 FHSSKTEGKVFKISEEQLKQLNPL-GLPFKKSQQFKTFTEAVLLVRKPALELLLYKRL-VDPMHPVKRFVLDGEPGTGKS 193 (461)
T ss_pred ccccccccceeecCHHHHHhhccC-CCchHHHHHHHhhhcchheechHHHHHHHHhhh-ccccCcceEEEEeCCCCCchh
Confidence 489999999999999999999999 559999999999999999999999999999777 888889999999999999999
Q ss_pred HHHHHHHHHHHhCCeEEEEeCCccccccCCcceeccCCCCCccccHHHHHHHHHHHHHhCccccCCCCcccccceecCCC
Q psy3261 82 MALVYALQYAHENNYLLVHIPWVLRWFAYPKEVSHSLTKEGMVDLNIDAAMWLRHFQKQNTKWLEDPRLTTSQEYVWSPR 161 (342)
Q Consensus 82 ~~L~q~~~~A~~~gwiVl~vP~~~~~~~~~~~~~~s~~~~~~~~qP~~a~~~L~~~~~~N~~~L~~~~l~~s~~~~~~~~ 161 (342)
++|+|++|||..++|||||||+|..|++++++|.++....|+||||++|+.||++|+++|++.|++ +|+++++|+|+++
T Consensus 194 iaL~qa~h~a~~~~wlIlhip~a~~w~~~~~~~~y~~~~kg~~dqP~~a~~~L~~fkk~N~~~L~~-~lkt~~~yvwsk~ 272 (461)
T KOG3928|consen 194 IALAQAVHYAADQKWLILHIPYAELWTNGRKDYSYDSDLKGLWDQPLYAKKILKNFKKTNEPALKK-QLKTSKDYVWSKR 272 (461)
T ss_pred hHHHHHHHHHhcCCeEEEECCcHHHhhhccccccccccccccccChhHHHHHHHHHHhhccHHHHH-Hhccccceeeccc
Confidence 999999999999999999999999999999999999988999999999999999999999999984 5999999999999
Q ss_pred CCCCCCCCHHHHHHhhcccccchhHHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHH
Q psy3261 162 EKSEANIPLAALIEHGITRVKYASDVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRS 241 (342)
Q Consensus 162 e~~~~g~tL~dlv~~gi~~~~~a~~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~ 241 (342)
|++++|++|.+|++.||.+...|++++++|++||+.++..+++|||||||+||+||+.+. |++.++++|+|.+|+++++
T Consensus 273 e~t~kG~pl~ei~e~gI~~i~~a~~~vg~llrelk~~s~~~~~kVLvaID~~n~l~~~T~-~k~~~~~~v~P~dl~li~~ 351 (461)
T KOG3928|consen 273 ESTLKGKPLVEIVETGIASIKNAPDAVGILLRELKRLSVQSKVKVLVAIDNFNSLFTVTA-YKSEDNKPVTPLDLTLIHL 351 (461)
T ss_pred CCccCCCcchhhHHhhhhhhccchHHHHHHHHHHHHhhhhcCccEEEEEcCcchheeeee-eeccccCcCCchhhhHHHH
Confidence 999999999999999999999999999999999999999999999999999999999766 9999999999999999999
Q ss_pred HHHhhcCCCCCeEEEEEeC--CCCCCCCCc--cCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCcc-
Q psy3261 242 VINLVQSDWNNGAIVLALS--PRANLPDRR--ESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQ- 316 (342)
Q Consensus 242 ~~~~~~~~~~~G~vv~AtS--~~~~~~~~~--~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~- 316 (342)
++++++|+|.+|+||+|+| ...+..... ..+.|++++|+.|||.+|||+||+|++|+++|++++++||.+++|+.
T Consensus 352 ~~~~i~ndwt~g~vi~a~s~~~~~~a~~h~gv~~y~pr~llg~egfe~lqpf~pi~v~nYt~~E~~~~i~YYl~~nwl~k 431 (461)
T KOG3928|consen 352 LRDIISNDWTFGSVIMAISGVTTPSAFGHLGVAPYVPRKLLGEEGFEALQPFVPIEVENYTLDEFEALIDYYLQSNWLLK 431 (461)
T ss_pred HHHHHhcccccceEEEEecccccchhccccccccCCchHhcCccchhhccCcCccccCCCCHHHHHHHHHHHHHhhHHHh
Confidence 9999999999999999999 554444444 58899999999999999999999999999999999999999999998
Q ss_pred ---CcchHHHHHHhhCCCHHHHhhhccCC
Q psy3261 317 ---TSEGREEIAFLTKRVPQKMYEFCSFK 342 (342)
Q Consensus 317 ---~e~~~~el~~lSgGNP~~l~~lc~~~ 342 (342)
+|++..|++|||||||..++++|+++
T Consensus 432 kv~~Ee~~kql~fLSngNP~l~~~lca~~ 460 (461)
T KOG3928|consen 432 KVPGEENIKQLYFLSNGNPSLMERLCAFL 460 (461)
T ss_pred hcCcccchhhhhhhcCCCHHHHHHHHHhc
Confidence 57789999999999999999999974
No 2
>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).
Probab=100.00 E-value=6.3e-76 Score=561.86 Aligned_cols=289 Identities=34% Similarity=0.583 Sum_probs=267.8
Q ss_pred EEechhHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccccccCCcceeccCCCCCc
Q psy3261 44 ILIRNCMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWFAYPKEVSHSLTKEGM 123 (342)
Q Consensus 44 ~lvR~~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~~~~~~~~~s~~~~~~ 123 (342)
+|||++|+||+++|++ ++.+++..|++|||++|||||++|+|+++||+++||||+|||++++|++++++|.+++.++|+
T Consensus 1 ~lvR~~t~el~~~l~~-~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~~wiVl~vp~a~~~~~~~~~~~~~~~~~~~ 79 (309)
T PF10236_consen 1 SLVRKPTLELINKLKE-ADKSSKNNRYVLTGERGSGKSVLLAQAVHYARENGWIVLYVPSAQDWVNGTTDYAPSPYNPGL 79 (309)
T ss_pred CccchHHHHHHHHHHH-hcccCCceEEEEECCCCCCHHHHHHHHHHHHHhCCEEEEEcCCHHHHhhCCeeEeeCCCCCCe
Confidence 5899999999999999 788899999999999999999999999999999999999999999999999999999888999
Q ss_pred cccHHHHHHHHHHHHHhCccccCCCCcccccceecCCCCCCCCCCCHHHHHHhhcccccchhHHHHHHHHHHhccccCCC
Q psy3261 124 VDLNIDAAMWLRHFQKQNTKWLEDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKYASDVVDVLFTEIKKLSTEGV 203 (342)
Q Consensus 124 ~~qP~~a~~~L~~~~~~N~~~L~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~~~~l~~EL~~~~~~~~ 203 (342)
||||++|++||++|+++|+++|+ +|+++++|+|++++.+++|+||+||+++|++++++|++||++||+||++|+ .+
T Consensus 80 ~~qP~~a~~~L~~~~~~N~~~L~--~i~~s~~~~~~~~~~~~~g~tL~dLv~~g~~~~~~a~~~~~~l~~EL~~~~--~~ 155 (309)
T PF10236_consen 80 YDQPMYAAKWLKKFLKANEELLK--KIKLSKDYKWSKRESTPKGSTLLDLVEQGINDPKYAWDVFQALIRELKAQS--KR 155 (309)
T ss_pred eecHHHHHHHHHHHHHHhHHHHH--hccccccccccccccCCCCCCHHHHHHhhcccchhHHHHHHHHHHHHHhcc--cC
Confidence 99999999999999999999999 999999999999889999999999999999999999999999999999997 24
Q ss_pred ceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcC--CCCCeEEEEEeCCCCCCCCCccCcchhHHhhhc
Q psy3261 204 CRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQS--DWNNGAIVLALSPRANLPDRRESHLPLYMLKKA 281 (342)
Q Consensus 204 ~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~--~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~ 281 (342)
+||||||||||+||++|. |+++++++|||++|+|+++|++++++ +|+||++|+|.+.+.....++...+|..+.++.
T Consensus 156 ~PVL~avD~~n~l~~~S~-Y~~~~~~~I~~~~L~l~~~f~~~~s~~~~~~nG~~v~~l~~t~~~~~~~~~~l~~~L~~~~ 234 (309)
T PF10236_consen 156 PPVLVAVDGFNALFGPSA-YRDPDFKPIHPHDLTLVRLFLDLLSGKRDFKNGAVVTALAATSVSNAPKSPTLPVALGGKE 234 (309)
T ss_pred CceEEEehhhHHhhCCcc-ccCCCCccccHHHhhHHHHHHHHhcCccccCCCeEEEEEeccccccccCCccchhhhcccc
Confidence 999999999999999966 99999999999999999999999765 699999975555544334555567999999999
Q ss_pred CCCCCCCcc--------------eeecCCCCHHHHHHHHHHHHhCCCcc---Ccc-hHHHHHHhhCCCHHHHhhh
Q psy3261 282 GFESIDPFV--------------PIHVPELNDEEFHNLLNLYESKKWLQ---TSE-GREEIAFLTKRVPQKMYEF 338 (342)
Q Consensus 282 g~~~~dP~~--------------~i~v~~~s~~E~~~ll~yy~~~~~l~---~e~-~~~el~~lSgGNP~~l~~l 338 (342)
+++.+|||+ ||+|++||++|++++|+||.++||++ +++ +.+++.++|||||++|+|+
T Consensus 235 ~~~~~dPy~~~d~~~~~~l~~~~~i~v~~~s~~E~~~ll~yy~~~~~l~~~~~~~~~~e~~~~~s~GNp~el~k~ 309 (309)
T PF10236_consen 235 GFPHLDPYVKRDPRVAESLKGVKPIEVPRLSKEEARSLLEYYADSGWLRSRVDEELVLEKLFLSSNGNPRELEKL 309 (309)
T ss_pred CCCCCCCcccccHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHCCccccCCCCHHHHHHHHHhcCCCHHHhccC
Confidence 999999999 99999999999999999999999997 233 5566777889999999985
No 3
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=99.27 E-value=1.2e-10 Score=105.10 Aligned_cols=211 Identities=20% Similarity=0.236 Sum_probs=108.2
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccccccCCcceeccCCCCCccccHHHHHHHHHHHHHhCccc
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWFAYPKEVSHSLTKEGMVDLNIDAAMWLRHFQKQNTKW 144 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~~~~~~~~~s~~~~~~~~qP~~a~~~L~~~~~~N~~~ 144 (342)
.+...++|+|++|+|||++|.+++....+.+..++|+-......... ...+.+ ....-+.+...=...
T Consensus 18 ~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~~~~---------~~~~~~---~~~~~~~l~~~~~~~ 85 (234)
T PF01637_consen 18 GPSQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESNESS---------LRSFIE---ETSLADELSEALGIS 85 (234)
T ss_dssp --SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSHHHH---------HHHHHH---HHHHHCHCHHHHHHH
T ss_pred hcCcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchhhhH---------HHHHHH---HHHHHHHHHHHHhhh
Confidence 45789999999999999999999999877787666663322211110 000000 000000110000111
Q ss_pred cCCCCcccccceecCCCCCCCCCCCHHHHHHhhcccccchhHHHHHHHHHHhccccCCCceEEEEEeCccccc-cCCCcC
Q psy3261 145 LEDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKYASDVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFF-AEKTNC 223 (342)
Q Consensus 145 L~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~-~~s~~y 223 (342)
+. +..+.. +.+ .....+...+..+++.|.... .+++|.+||++.+. ...
T Consensus 86 ~~--~~~~~~---------------~~~------~~~~~~~~~l~~~~~~l~~~~----~~~iiviDe~~~~~~~~~--- 135 (234)
T PF01637_consen 86 IP--SITLEK---------------ISK------DLSEDSFSALERLLEKLKKKG----KKVIIVIDEFQYLAIASE--- 135 (234)
T ss_dssp CC--TSTTEE---------------EEC------TS-GG-G--HHHHHHHHHHCH----CCEEEEEETGGGGGBCTT---
T ss_pred cc--cccchh---------------hhh------cchhhHHHHHHHHHHHHHhcC----CcEEEEEecHHHHhhccc---
Confidence 11 111000 000 112345666777888888753 34999999999888 222
Q ss_pred CCCCCCcccCCccchHHHHHHhhcC--CCCCeEEEEEeCCCCCCCCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHH
Q psy3261 224 KPEDKSKVLPSRVTLTRSVINLVQS--DWNNGAIVLALSPRANLPDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEE 301 (342)
Q Consensus 224 ~~~~~~~I~~~~l~l~~~~~~~~~~--~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E 301 (342)
..-.+.+.|++++.. .-.+..+|.+.|... +...+.+..+ +...-+..+.++.|+++|
T Consensus 136 ----------~~~~~~~~l~~~~~~~~~~~~~~~v~~~S~~~---------~~~~~~~~~~-~~~~~~~~~~l~~l~~~e 195 (234)
T PF01637_consen 136 ----------EDKDFLKSLRSLLDSLLSQQNVSIVITGSSDS---------LMEEFLDDKS-PLFGRFSHIELKPLSKEE 195 (234)
T ss_dssp ----------TTHHHHHHHHHHHHH----TTEEEEEEESSHH---------HHHHTT-TTS-TTTT---EEEE----HHH
T ss_pred ----------chHHHHHHHHHHHhhccccCCceEEEECCchH---------HHHHhhcccC-ccccccceEEEeeCCHHH
Confidence 114677777777765 234555666555421 1111111110 111222359999999999
Q ss_pred HHHHHHHHHhCCCcc---CcchHHHHHHhhCCCHHHHhhh
Q psy3261 302 FHNLLNLYESKKWLQ---TSEGREEIAFLTKRVPQKMYEF 338 (342)
Q Consensus 302 ~~~ll~yy~~~~~l~---~e~~~~el~~lSgGNP~~l~~l 338 (342)
+..++...-... .. +++...+++-+|||||+.|..+
T Consensus 196 ~~~~~~~~~~~~-~~~~~~~~~~~~i~~~~gG~P~~l~~~ 234 (234)
T PF01637_consen 196 AREFLKELFKEL-IKLPFSDEDIEEIYSLTGGNPRYLQEL 234 (234)
T ss_dssp HHHHHHHHHHCC-------HHHHHHHHHHHTT-HHHHHHH
T ss_pred HHHHHHHHHHHh-hcccCCHHHHHHHHHHhCCCHHHHhcC
Confidence 999998865554 31 4666778999999999998653
No 4
>PF14516 AAA_35: AAA-like domain
Probab=99.12 E-value=1.6e-08 Score=97.95 Aligned_cols=224 Identities=20% Similarity=0.229 Sum_probs=132.2
Q ss_pred CceEEech-hHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccccccCCcceeccCC
Q psy3261 41 ESSILIRN-CMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWFAYPKEVSHSLT 119 (342)
Q Consensus 41 ~~~~lvR~-~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~~~~~~~~~s~~ 119 (342)
.|..+-|. .-.++.+.|.+ ++.-+.|.|+|.+|||++|.+++..+.++|..+++|.--. . +...
T Consensus 10 ~~~Yi~R~~~e~~~~~~i~~------~G~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~-~--~~~~------ 74 (331)
T PF14516_consen 10 SPFYIERPPAEQECYQEIVQ------PGSYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQ-L--GSAI------ 74 (331)
T ss_pred CCcccCchHHHHHHHHHHhc------CCCEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeec-C--CCcc------
Confidence 46677788 55566667755 4678899999999999999999999999999999984221 1 1100
Q ss_pred CCCccccHHHHHHHHHHHHHhCccccCCCCcccccceecCCCCCCCCCCCHHHHHHhhcccccchhHHHHHHHHH-Hhcc
Q psy3261 120 KEGMVDLNIDAAMWLRHFQKQNTKWLEDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKYASDVVDVLFTE-IKKL 198 (342)
Q Consensus 120 ~~~~~~qP~~a~~~L~~~~~~N~~~L~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~~~~l~~E-L~~~ 198 (342)
+. .--+|++.|.. .+-+ ++.+.. .+.+..+..+. +..-+...++| |..+
T Consensus 75 ----~~---~~~~f~~~~~~---~i~~--~L~l~~--------------~l~~~w~~~~~----~~~~~~~~~~~~ll~~ 124 (331)
T PF14516_consen 75 ----FS---DLEQFLRWFCE---EISR--QLKLDE--------------KLDEYWDEEIG----SKISCTEYFEEYLLKQ 124 (331)
T ss_pred ----cC---CHHHHHHHHHH---HHHH--HcCCCh--------------hHHHHHHHhcC----ChhhHHHHHHHHHHhc
Confidence 11 11223444411 1122 233221 22233332222 12222344444 3332
Q ss_pred ccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCc-cchHHHHHHhhc--CCCCCeEEEEEeCCCCCCCCCccCcchh
Q psy3261 199 STEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSR-VTLTRSVINLVQ--SDWNNGAIVLALSPRANLPDRRESHLPL 275 (342)
Q Consensus 199 ~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~-l~l~~~~~~~~~--~~~~~G~vv~AtS~~~~~~~~~~~~~p~ 275 (342)
.+.|+++++|++.+++.... .. .+ +.+.|....--. ..|++-.+|++-|.... ++.
T Consensus 125 ---~~~~lVL~iDEiD~l~~~~~-~~---------~dF~~~LR~~~~~~~~~~~~~~L~li~~~~t~~~--------~~~ 183 (331)
T PF14516_consen 125 ---IDKPLVLFIDEIDRLFEYPQ-IA---------DDFFGLLRSWYEQRKNNPIWQKLRLILAGSTEDY--------IIL 183 (331)
T ss_pred ---CCCCEEEEEechhhhccCcc-hH---------HHHHHHHHHHHHhcccCcccceEEEEEecCcccc--------ccc
Confidence 26899999999999987543 00 01 133333332111 24777777777653221 110
Q ss_pred HHhhhcCCCCCCCc---ceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHHhhCCCHHHHhhhcc
Q psy3261 276 YMLKKAGFESIDPF---VPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAFLTKRVPQKMYEFCS 340 (342)
Q Consensus 276 ~llg~~g~~~~dP~---~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~lSgGNP~~l~~lc~ 340 (342)
. . ...|| .++++++||.+|+..|++-|... | ++....+++-++||.|+...++|.
T Consensus 184 ~---~----~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~-~--~~~~~~~l~~~tgGhP~Lv~~~~~ 241 (331)
T PF14516_consen 184 D---I----NQSPFNIGQPIELPDFTPEEVQELAQRYGLE-F--SQEQLEQLMDWTGGHPYLVQKACY 241 (331)
T ss_pred C---C----CCCCcccccceeCCCCCHHHHHHHHHhhhcc-C--CHHHHHHHHHHHCCCHHHHHHHHH
Confidence 0 0 12333 36999999999999999887433 2 344467799999999999999985
No 5
>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=98.73 E-value=6.5e-07 Score=83.42 Aligned_cols=50 Identities=14% Similarity=0.232 Sum_probs=38.4
Q ss_pred eeecCCCCHHHHHHHHHHHHh-CCCc---c-CcchHHHHHHhhCCCHHHHhhhcc
Q psy3261 291 PIHVPELNDEEFHNLLNLYES-KKWL---Q-TSEGREEIAFLTKRVPQKMYEFCS 340 (342)
Q Consensus 291 ~i~v~~~s~~E~~~ll~yy~~-~~~l---~-~e~~~~el~~lSgGNP~~l~~lc~ 340 (342)
++++++|+.+|++.++..... .|+- . +++....+.-.|+|+|+.+..+|.
T Consensus 186 ~~~l~~l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~ 240 (269)
T TIGR03015 186 SCHLGPLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCD 240 (269)
T ss_pred eeeCCCCCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHH
Confidence 478999999999999876543 3331 1 555666788899999999998884
No 6
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=98.71 E-value=1.9e-06 Score=84.91 Aligned_cols=216 Identities=14% Similarity=0.127 Sum_probs=116.7
Q ss_pred eEEech-hHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhC--CeEEEEeCCccccccCCcceeccCC
Q psy3261 43 SILIRN-CMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHEN--NYLLVHIPWVLRWFAYPKEVSHSLT 119 (342)
Q Consensus 43 ~~lvR~-~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~--gwiVl~vP~~~~~~~~~~~~~~s~~ 119 (342)
.+.-|+ +..+|...|+. .-.+.....++|+|++|+|||+++..+...+.+. ++.++||.....
T Consensus 31 ~l~~Re~e~~~l~~~l~~-~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~------------- 96 (394)
T PRK00411 31 NLPHREEQIEELAFALRP-ALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQID------------- 96 (394)
T ss_pred CCCCHHHHHHHHHHHHHH-HhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcC-------------
Confidence 445577 55667777766 3223445668999999999999999999988765 477777743211
Q ss_pred CCCccccHHHHHHHHHHHHHhCccccCCCCcccccceecCCCCCCCCCCCHHHHHHhhcccccchhHHHHHHHHHHhccc
Q psy3261 120 KEGMVDLNIDAAMWLRHFQKQNTKWLEDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKYASDVVDVLFTEIKKLS 199 (342)
Q Consensus 120 ~~~~~~qP~~a~~~L~~~~~~N~~~L~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~~~~l~~EL~~~~ 199 (342)
.. ...++..+ ++ ++.-. +....+.+. ...+..+++.+..
T Consensus 97 -~~-------~~~~~~~i-------~~--~l~~~--------~~~~~~~~~--------------~~~~~~~~~~l~~-- 135 (394)
T PRK00411 97 -RT-------RYAIFSEI-------AR--QLFGH--------PPPSSGLSF--------------DELFDKIAEYLDE-- 135 (394)
T ss_pred -CC-------HHHHHHHH-------HH--HhcCC--------CCCCCCCCH--------------HHHHHHHHHHHHh--
Confidence 00 11334444 22 22100 000112121 2344455555554
Q ss_pred cCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCC-CeEEEEEeCCCCCCCCCccCcchhHHh
Q psy3261 200 TEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWN-NGAIVLALSPRANLPDRRESHLPLYML 278 (342)
Q Consensus 200 ~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~-~G~vv~AtS~~~~~~~~~~~~~p~~ll 278 (342)
.+.+++|.+|++..+..... -.+...|.++...--. +-.+|++++... .... +...+.
T Consensus 136 --~~~~~viviDE~d~l~~~~~--------------~~~l~~l~~~~~~~~~~~v~vI~i~~~~~-~~~~----l~~~~~ 194 (394)
T PRK00411 136 --RDRVLIVALDDINYLFEKEG--------------NDVLYSLLRAHEEYPGARIGVIGISSDLT-FLYI----LDPRVK 194 (394)
T ss_pred --cCCEEEEEECCHhHhhccCC--------------chHHHHHHHhhhccCCCeEEEEEEECCcc-hhhh----cCHHHH
Confidence 26789999999987762211 1234444444322111 333455544332 1110 111111
Q ss_pred hhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCcc---CcchHHHHHHhh---CCCHHHHhhhcc
Q psy3261 279 KKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQ---TSEGREEIAFLT---KRVPQKMYEFCS 340 (342)
Q Consensus 279 g~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~---~e~~~~el~~lS---gGNP~~l~~lc~ 340 (342)
...+ | ..+.+++|+.+|...+++.....++-. .++....+.-.+ .|+++...++|.
T Consensus 195 s~~~-----~-~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~ 256 (394)
T PRK00411 195 SVFR-----P-EEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLR 256 (394)
T ss_pred hcCC-----c-ceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHH
Confidence 1111 1 237899999999999998877654321 333333344455 788887777763
No 7
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=98.54 E-value=1e-05 Score=78.85 Aligned_cols=216 Identities=13% Similarity=0.171 Sum_probs=112.9
Q ss_pred EEech-hHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHh--CC----eEEEEeCCccccccCCcceec
Q psy3261 44 ILIRN-CMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHE--NN----YLLVHIPWVLRWFAYPKEVSH 116 (342)
Q Consensus 44 ~lvR~-~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~--~g----wiVl~vP~~~~~~~~~~~~~~ 116 (342)
+.-|+ +..+|...|+. ...+.....++|+|++|||||+++..+.....+ .+ |.++||...... .
T Consensus 17 l~gRe~e~~~l~~~l~~-~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~--~------ 87 (365)
T TIGR02928 17 IVHRDEQIEELAKALRP-ILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILD--T------ 87 (365)
T ss_pred CCCcHHHHHHHHHHHHH-HHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCC--C------
Confidence 44577 44566677776 322345567999999999999999888876542 22 677776533110 0
Q ss_pred cCCCCCccccHHHHHHHHHHHHHhCccccCCCCcccccceecCCCCCCCCCCCHHHHHHhhcccccchhHHHHHHHHHHh
Q psy3261 117 SLTKEGMVDLNIDAAMWLRHFQKQNTKWLEDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKYASDVVDVLFTEIK 196 (342)
Q Consensus 117 s~~~~~~~~qP~~a~~~L~~~~~~N~~~L~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~~~~l~~EL~ 196 (342)
.+ ....++++.+.. . +.+. -..+.+ ....+..+++.|.
T Consensus 88 ------~~---~~~~~i~~~l~~------~--~~~~-----------~~~~~~--------------~~~~~~~l~~~l~ 125 (365)
T TIGR02928 88 ------LY---QVLVELANQLRG------S--GEEV-----------PTTGLS--------------TSEVFRRLYKELN 125 (365)
T ss_pred ------HH---HHHHHHHHHHhh------c--CCCC-----------CCCCCC--------------HHHHHHHHHHHHH
Confidence 00 122233333311 1 1110 001111 2234556666665
Q ss_pred ccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhc-CCCC--CeEEEEEeCCCCCCCCCccCcc
Q psy3261 197 KLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQ-SDWN--NGAIVLALSPRANLPDRRESHL 273 (342)
Q Consensus 197 ~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~-~~~~--~G~vv~AtS~~~~~~~~~~~~~ 273 (342)
.. ..|++|.||++..+.+... .+...|.++.. .... +-.+|++++... ... .+
T Consensus 126 ~~----~~~~vlvIDE~d~L~~~~~---------------~~L~~l~~~~~~~~~~~~~v~lI~i~n~~~-~~~----~l 181 (365)
T TIGR02928 126 ER----GDSLIIVLDEIDYLVGDDD---------------DLLYQLSRARSNGDLDNAKVGVIGISNDLK-FRE----NL 181 (365)
T ss_pred hc----CCeEEEEECchhhhccCCc---------------HHHHhHhccccccCCCCCeEEEEEEECCcc-hHh----hc
Confidence 42 5789999999988863221 12333444421 2222 233444443321 100 01
Q ss_pred hhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCcc---CcchHHH---HHHhhCCCHHHHhhhcc
Q psy3261 274 PLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQ---TSEGREE---IAFLTKRVPQKMYEFCS 340 (342)
Q Consensus 274 p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~---~e~~~~e---l~~lSgGNP~~l~~lc~ 340 (342)
...+. ..| .| ..+.++.|+.+|...++....+.++-. .++.... +-..++|++|...++|.
T Consensus 182 ~~~~~--s~~---~~-~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~ 248 (365)
T TIGR02928 182 DPRVK--SSL---CE-EEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLR 248 (365)
T ss_pred CHHHh--ccC---Cc-ceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHH
Confidence 11111 111 11 247899999999999998877633211 2322222 22356899999888773
No 8
>PF05729 NACHT: NACHT domain
Probab=98.41 E-value=9e-06 Score=69.28 Aligned_cols=83 Identities=16% Similarity=0.304 Sum_probs=48.8
Q ss_pred CceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCC-CCCeEEEEEeCCCCCCCCCccCcchhHHhhhc
Q psy3261 203 VCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSD-WNNGAIVLALSPRANLPDRRESHLPLYMLKKA 281 (342)
Q Consensus 203 ~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~-~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~ 281 (342)
..+++|.+|++..+...... ...-.+...|..++... ..+.-+++++.... .+ .+ .+
T Consensus 80 ~~~~llilDglDE~~~~~~~----------~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~---------~~-~~-~~- 137 (166)
T PF05729_consen 80 NKRVLLILDGLDELEEQDQS----------QERQRLLDLLSQLLPQALPPGVKLIITSRPRA---------FP-DL-RR- 137 (166)
T ss_pred CCceEEEEechHhcccchhh----------hHHHHHHHHHHHHhhhccCCCCeEEEEEcCCh---------HH-HH-HH-
Confidence 67999999999888775430 11234555666666653 33444444443322 11 11 11
Q ss_pred CCCCCCCcceeecCCCCHHHHHHHHHHHH
Q psy3261 282 GFESIDPFVPIHVPELNDEEFHNLLNLYE 310 (342)
Q Consensus 282 g~~~~dP~~~i~v~~~s~~E~~~ll~yy~ 310 (342)
.+ .....++|.+|+.+|.+.+++-|-
T Consensus 138 ~~---~~~~~~~l~~~~~~~~~~~~~~~f 163 (166)
T PF05729_consen 138 RL---KQAQILELEPFSEEDIKQYLRKYF 163 (166)
T ss_pred hc---CCCcEEEECCCCHHHHHHHHHHHh
Confidence 11 111358999999999999996553
No 9
>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=98.31 E-value=9.5e-06 Score=73.56 Aligned_cols=49 Identities=20% Similarity=0.182 Sum_probs=36.8
Q ss_pred eeecCCCCHHHHHHHHHHHHhCCCcc-CcchHHHHHHhhCCCHHHHhhhc
Q psy3261 291 PIHVPELNDEEFHNLLNLYESKKWLQ-TSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 291 ~i~v~~~s~~E~~~ll~yy~~~~~l~-~e~~~~el~~lSgGNP~~l~~lc 339 (342)
.++++.++.+|...++..+....-+. +++..+.|..-++||+++|+++.
T Consensus 153 ~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~l~~L~~~~~gn~r~L~~~l 202 (226)
T TIGR03420 153 VFQLPPLSDEEKIAALQSRAARRGLQLPDEVADYLLRHGSRDMGSLMALL 202 (226)
T ss_pred eEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHH
Confidence 48999999999999998876543333 45444455568999999998763
No 10
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=98.24 E-value=0.00011 Score=72.26 Aligned_cols=209 Identities=16% Similarity=0.256 Sum_probs=122.3
Q ss_pred EEech-hHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhC--CeEEEEeCCccccccCCcceeccCCC
Q psy3261 44 ILIRN-CMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHEN--NYLLVHIPWVLRWFAYPKEVSHSLTK 120 (342)
Q Consensus 44 ~lvR~-~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~--gwiVl~vP~~~~~~~~~~~~~~s~~~ 120 (342)
+-.|+ +-.++...|..+...+.|.+ ++|||++|||||++...++....+. +--++||-.- .
T Consensus 19 l~~Re~ei~~l~~~l~~~~~~~~p~n-~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~-~-------------- 82 (366)
T COG1474 19 LPHREEEINQLASFLAPALRGERPSN-IIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCL-E-------------- 82 (366)
T ss_pred ccccHHHHHHHHHHHHHHhcCCCCcc-EEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeee-e--------------
Confidence 44555 55566667766444444554 9999999999999999999887754 2224554211 1
Q ss_pred CCccccHHHH-HHHHHHHHHhCccccCCCCcccccceecCCCCCCCCCCCHHHHHHhhcccccchhHHHHHHHHHHhccc
Q psy3261 121 EGMVDLNIDA-AMWLRHFQKQNTKWLEDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKYASDVVDVLFTEIKKLS 199 (342)
Q Consensus 121 ~~~~~qP~~a-~~~L~~~~~~N~~~L~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~~~~l~~EL~~~~ 199 (342)
+.+|... .+++++|. + ++. - |. .+.+++..+++.+..+
T Consensus 83 ---~~t~~~i~~~i~~~~~-------~---~p~-------------~----------g~----~~~~~~~~l~~~~~~~- 121 (366)
T COG1474 83 ---LRTPYQVLSKILNKLG-------K---VPL-------------T----------GD----SSLEILKRLYDNLSKK- 121 (366)
T ss_pred ---CCCHHHHHHHHHHHcC-------C---CCC-------------C----------CC----chHHHHHHHHHHHHhc-
Confidence 2222222 22223331 1 110 0 22 4567777888888774
Q ss_pred cCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcC--CCCCeEEEEEeCCCCCCCCCccCcchhHH
Q psy3261 200 TEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQS--DWNNGAIVLALSPRANLPDRRESHLPLYM 277 (342)
Q Consensus 200 ~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~--~~~~G~vv~AtS~~~~~~~~~~~~~p~~l 277 (342)
+..++|+.|+++.+..... ..+..++.- .....+.|.+.+.... + .+.
T Consensus 122 ---~~~~IvvLDEid~L~~~~~------------------~~LY~L~r~~~~~~~~v~vi~i~n~~~--------~-~~~ 171 (366)
T COG1474 122 ---GKTVIVILDEVDALVDKDG------------------EVLYSLLRAPGENKVKVSIIAVSNDDK--------F-LDY 171 (366)
T ss_pred ---CCeEEEEEcchhhhccccc------------------hHHHHHHhhccccceeEEEEEEeccHH--------H-HHH
Confidence 7899999999999987642 233333331 1244455666554431 0 111
Q ss_pred hhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCcc--CcchHHH----HHHhhCCCHHHHhhhcc
Q psy3261 278 LKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQ--TSEGREE----IAFLTKRVPQKMYEFCS 340 (342)
Q Consensus 278 lg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~--~e~~~~e----l~~lSgGNP~~l~~lc~ 340 (342)
+...=.....|.. |.++.|+.+|+..++..-.+.++-. .+++..+ +-...+|..|...++|.
T Consensus 172 ld~rv~s~l~~~~-I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr 239 (366)
T COG1474 172 LDPRVKSSLGPSE-IVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILR 239 (366)
T ss_pred hhhhhhhccCcce-eeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHH
Confidence 1110000112222 7899999999999999888877544 2333333 23377889998888875
No 11
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=98.22 E-value=9.4e-05 Score=79.00 Aligned_cols=213 Identities=15% Similarity=0.241 Sum_probs=115.8
Q ss_pred eEEech-hHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHH----hC---CeEEEEeCCccccccCCcce
Q psy3261 43 SILIRN-CMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAH----EN---NYLLVHIPWVLRWFAYPKEV 114 (342)
Q Consensus 43 ~~lvR~-~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~----~~---gwiVl~vP~~~~~~~~~~~~ 114 (342)
.+.-|+ +..+|...|..+.....++..++|+|++|||||++...++.... +. ++.++||-.-
T Consensus 756 ~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm---------- 825 (1164)
T PTZ00112 756 YLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGM---------- 825 (1164)
T ss_pred cCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCC----------
Confidence 556788 77777788887344344555567999999999999999876543 22 2455555211
Q ss_pred eccCCCCCccccHHHHHHHH-HHHHHhCccccCCCCcccccceecCCCCCCCCCCCHHHHHHhhcccccchhHHHHHHHH
Q psy3261 115 SHSLTKEGMVDLNIDAAMWL-RHFQKQNTKWLEDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKYASDVVDVLFT 193 (342)
Q Consensus 115 ~~s~~~~~~~~qP~~a~~~L-~~~~~~N~~~L~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~~~~l~~ 193 (342)
.+..|..+...| +++ .. ..+ +.|. .+..++..+++
T Consensus 826 --------~Lstp~sIYqvI~qqL-------~g--~~P-------------~~Gl--------------sS~evLerLF~ 861 (1164)
T PTZ00112 826 --------NVVHPNAAYQVLYKQL-------FN--KKP-------------PNAL--------------NSFKILDRLFN 861 (1164)
T ss_pred --------ccCCHHHHHHHHHHHH-------cC--CCC-------------Cccc--------------cHHHHHHHHHh
Confidence 122222222222 222 12 110 1111 23356677777
Q ss_pred HHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcc
Q psy3261 194 EIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESHL 273 (342)
Q Consensus 194 EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~ 273 (342)
++... .+..++|++||+..|..... -.| ..|.++.. .-...++|.+++.....+.+ .+
T Consensus 862 ~L~k~---~r~v~IIILDEID~L~kK~Q--------------DVL-YnLFR~~~-~s~SKLiLIGISNdlDLper---Ld 919 (1164)
T PTZ00112 862 QNKKD---NRNVSILIIDEIDYLITKTQ--------------KVL-FTLFDWPT-KINSKLVLIAISNTMDLPER---LI 919 (1164)
T ss_pred hhhcc---cccceEEEeehHhhhCccHH--------------HHH-HHHHHHhh-ccCCeEEEEEecCchhcchh---hh
Confidence 77442 25567999999987754321 112 22222221 12234556565543211211 11
Q ss_pred hhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhC--CCccCcchHHHHHH----hhCCCHHHHhhhcc
Q psy3261 274 PLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESK--KWLQTSEGREEIAF----LTKRVPQKMYEFCS 340 (342)
Q Consensus 274 p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~--~~l~~e~~~~el~~----lSgGNP~~l~~lc~ 340 (342)
| .+..+.+++. +.++.|+.+|...++..-.+. +.+ +++..++-. ..+|+-|...++|.
T Consensus 920 P-RLRSRLg~ee------IvF~PYTaEQL~dILk~RAe~A~gVL--dDdAIELIArkVAq~SGDARKALDILR 983 (1164)
T PTZ00112 920 P-RCRSRLAFGR------LVFSPYKGDEIEKIIKERLENCKEII--DHTAIQLCARKVANVSGDIRKALQICR 983 (1164)
T ss_pred h-hhhhcccccc------ccCCCCCHHHHHHHHHHHHHhCCCCC--CHHHHHHHHHhhhhcCCHHHHHHHHHH
Confidence 2 1222223322 566899999999999887664 344 333333222 55799999998884
No 12
>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals. Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].
Probab=98.11 E-value=7.4e-05 Score=71.50 Aligned_cols=53 Identities=26% Similarity=0.376 Sum_probs=41.3
Q ss_pred HHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhC---CeEEEEe-CCc
Q psy3261 50 MLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHEN---NYLLVHI-PWV 104 (342)
Q Consensus 50 t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~---gwiVl~v-P~~ 104 (342)
+..|.+.|.+ . ......-+-|+|+.|||||+.|.++...-.++ +++++++ |+.
T Consensus 5 a~~la~~I~~-~-~~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~~~~~~~~i~fn~w~ 61 (325)
T PF07693_consen 5 AKALAEIIKN-P-DSDDPFVIGLYGEWGSGKSSFLNMLKEELKEDNKEKYIFIYFNAWE 61 (325)
T ss_pred HHHHHHHHhc-c-CCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccceeeEEEcccc
Confidence 3455666655 1 12567889999999999999999999998877 8999998 444
No 13
>PRK04841 transcriptional regulator MalT; Provisional
Probab=98.11 E-value=0.00018 Score=78.19 Aligned_cols=117 Identities=13% Similarity=0.200 Sum_probs=68.9
Q ss_pred HHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCC
Q psy3261 186 DVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANL 265 (342)
Q Consensus 186 ~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~ 265 (342)
..+..++.+|... ..|++|+|||+..+ ... ++...+..++.....+..+|+ +|+.. +
T Consensus 107 ~~~~~~~~~l~~~----~~~~~lvlDD~h~~-~~~----------------~~~~~l~~l~~~~~~~~~lv~-~sR~~-~ 163 (903)
T PRK04841 107 SLFAQLFIELADW----HQPLYLVIDDYHLI-TNP----------------EIHEAMRFFLRHQPENLTLVV-LSRNL-P 163 (903)
T ss_pred HHHHHHHHHHhcC----CCCEEEEEeCcCcC-CCh----------------HHHHHHHHHHHhCCCCeEEEE-EeCCC-C
Confidence 4566777888652 57999999999444 321 234455555555555666666 45542 1
Q ss_pred CCCccCcchhHHhhhcCCCCCCCcceeecC--CCCHHHHHHHHHHHHhCCCccCcchHHHHHHhhCCCHHHHhhh
Q psy3261 266 PDRRESHLPLYMLKKAGFESIDPFVPIHVP--ELNDEEFHNLLNLYESKKWLQTSEGREEIAFLTKRVPQKMYEF 338 (342)
Q Consensus 266 ~~~~~~~~p~~llg~~g~~~~dP~~~i~v~--~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~lSgGNP~~l~~l 338 (342)
+ ++...+...| -...+... .||.+|+..++.-..... + +++...+++-.|+|||.-+.-+
T Consensus 164 ~------~~~~~l~~~~-----~~~~l~~~~l~f~~~e~~~ll~~~~~~~-~-~~~~~~~l~~~t~Gwp~~l~l~ 225 (903)
T PRK04841 164 P------LGIANLRVRD-----QLLEIGSQQLAFDHQEAQQFFDQRLSSP-I-EAAESSRLCDDVEGWATALQLI 225 (903)
T ss_pred C------CchHhHHhcC-----cceecCHHhCCCCHHHHHHHHHhccCCC-C-CHHHHHHHHHHhCChHHHHHHH
Confidence 1 1111111111 11123334 899999999886433322 3 4555678999999999887644
No 14
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=98.10 E-value=6e-06 Score=71.97 Aligned_cols=42 Identities=24% Similarity=0.270 Sum_probs=27.7
Q ss_pred CCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCC
Q psy3261 62 NFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPW 103 (342)
Q Consensus 62 ~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~ 103 (342)
..+....-++|+|++|||||++|.+++..+...+++++++..
T Consensus 19 ~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~~~~~ 60 (185)
T PF13191_consen 19 AQSGSPRNLLLTGESGSGKTSLLRALLDRLAERGGYVISINC 60 (185)
T ss_dssp TSS-----EEE-B-TTSSHHHHHHHHHHHHHHHT--EEEEEE
T ss_pred HHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEEE
Confidence 344556889999999999999999999999888766777643
No 15
>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=98.09 E-value=9.6e-05 Score=69.29 Aligned_cols=50 Identities=18% Similarity=0.135 Sum_probs=34.4
Q ss_pred ceeecCCCCHHHHHHHHHHHHhCCCc-c---CcchHHHHHHhhCCCHHHHhhhc
Q psy3261 290 VPIHVPELNDEEFHNLLNLYESKKWL-Q---TSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 290 ~~i~v~~~s~~E~~~ll~yy~~~~~l-~---~e~~~~el~~lSgGNP~~l~~lc 339 (342)
.+++|..|+.+|+..++..+....-. . .++-..++--.++|+|..+.-++
T Consensus 150 ~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a 203 (287)
T PF00931_consen 150 KVIELEPLSEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIA 203 (287)
T ss_dssp EEEECSS--HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHH
T ss_pred cccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 35899999999999999888655441 1 33344577889999999886654
No 16
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=98.01 E-value=0.00013 Score=69.39 Aligned_cols=49 Identities=14% Similarity=0.135 Sum_probs=37.6
Q ss_pred eecCCCCHHHHHHHHHHHHhCCCcc-CcchHHHHHHhhCCCHHHHhhhcc
Q psy3261 292 IHVPELNDEEFHNLLNLYESKKWLQ-TSEGREEIAFLTKRVPQKMYEFCS 340 (342)
Q Consensus 292 i~v~~~s~~E~~~ll~yy~~~~~l~-~e~~~~el~~lSgGNP~~l~~lc~ 340 (342)
+++..++.+|...+++......-+. +++....+--.|+|+||.+.++|.
T Consensus 154 ~~l~~l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~~G~pR~~~~ll~ 203 (305)
T TIGR00635 154 LRLEFYTVEELAEIVSRSAGLLNVEIEPEAALEIARRSRGTPRIANRLLR 203 (305)
T ss_pred EEeCCCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhCCCcchHHHHHH
Confidence 6888999999999998876643233 455555677799999999887773
No 17
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=98.01 E-value=0.00091 Score=61.98 Aligned_cols=169 Identities=18% Similarity=0.258 Sum_probs=100.6
Q ss_pred CCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccccccCCcceeccCCCCCccccHHHHHHHHHHHHHhCcc
Q psy3261 64 DRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWFAYPKEVSHSLTKEGMVDLNIDAAMWLRHFQKQNTK 143 (342)
Q Consensus 64 ~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~~~~~~~~~s~~~~~~~~qP~~a~~~L~~~~~~N~~ 143 (342)
..+++.++|+|.+|||||.++..+......+|-=+|.|+...
T Consensus 49 G~pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~-------------------------------------- 90 (249)
T PF05673_consen 49 GLPANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKED-------------------------------------- 90 (249)
T ss_pred CCCCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHH--------------------------------------
Confidence 368999999999999999999998887777774344332210
Q ss_pred ccCCCCcccccceecCCCCCCCCCCCHHHHHHhhcccccchhHHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcC
Q psy3261 144 WLEDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKYASDVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNC 223 (342)
Q Consensus 144 ~L~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y 223 (342)
|. .|.+|+ ++|+.. ..+.+|.+||+ + |...+
T Consensus 91 -L~----------------------~l~~l~------------------~~l~~~----~~kFIlf~DDL-s-Fe~~d-- 121 (249)
T PF05673_consen 91 -LG----------------------DLPELL------------------DLLRDR----PYKFILFCDDL-S-FEEGD-- 121 (249)
T ss_pred -hc----------------------cHHHHH------------------HHHhcC----CCCEEEEecCC-C-CCCCc--
Confidence 11 122333 355543 57999999998 3 33322
Q ss_pred CCCCCCcccCCccchHHHHHHhhcCC---CCCeEEEEEeCCCCCCCCCccCcchhHHhhhcC--CCCCCC----------
Q psy3261 224 KPEDKSKVLPSRVTLTRSVINLVQSD---WNNGAIVLALSPRANLPDRRESHLPLYMLKKAG--FESIDP---------- 288 (342)
Q Consensus 224 ~~~~~~~I~~~~l~l~~~~~~~~~~~---~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~g--~~~~dP---------- 288 (342)
-+ -+.|+.++.|. ++.-++|.|||...++-.... -...+ -+.+.|
T Consensus 122 ------------~~-yk~LKs~LeGgle~~P~NvliyATSNRRHLv~E~~-------~d~~~~~~~eih~~d~~eEklSL 181 (249)
T PF05673_consen 122 ------------TE-YKALKSVLEGGLEARPDNVLIYATSNRRHLVPESF-------SDREDIQDDEIHPSDTIEEKLSL 181 (249)
T ss_pred ------------HH-HHHHHHHhcCccccCCCcEEEEEecchhhccchhh-------hhccCCCccccCcchHHHHHHhH
Confidence 11 27788888874 455577888886553322111 11111 001111
Q ss_pred ---c-ceeecCCCCHHHHHHHHHHHHhC-CCccCcc---hHHHHHHhhC--CCHHHHhhhc
Q psy3261 289 ---F-VPIHVPELNDEEFHNLLNLYESK-KWLQTSE---GREEIAFLTK--RVPQKMYEFC 339 (342)
Q Consensus 289 ---~-~~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~---~~~el~~lSg--GNP~~l~~lc 339 (342)
| ..+....++.++.-.++++|... |+-..++ .++.-|-+.. .+||..+..|
T Consensus 182 sDRFGL~l~F~~~~q~~YL~IV~~~~~~~g~~~~~e~l~~~Al~wa~~rg~RSGRtA~QF~ 242 (249)
T PF05673_consen 182 SDRFGLWLSFYPPDQEEYLAIVRHYAERYGLELDEEELRQEALQWALRRGGRSGRTARQFI 242 (249)
T ss_pred HHhCCcEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence 2 14778899999999999999864 4442222 2223343333 3677666554
No 18
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=98.01 E-value=0.00028 Score=73.28 Aligned_cols=118 Identities=15% Similarity=0.202 Sum_probs=71.1
Q ss_pred HHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCC
Q psy3261 186 DVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANL 265 (342)
Q Consensus 186 ~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~ 265 (342)
+.+..+++++...+..++.+| +.||++..+ .. +-...|++++.....+.++|++|+....
T Consensus 102 d~IReIi~~~~~~P~~~~~KV-IIIDEad~L-t~-----------------~A~NaLLKtLEEPp~~tvfIL~Tt~~~K- 161 (605)
T PRK05896 102 DEIRNIIDNINYLPTTFKYKV-YIIDEAHML-ST-----------------SAWNALLKTLEEPPKHVVFIFATTEFQK- 161 (605)
T ss_pred HHHHHHHHHHHhchhhCCcEE-EEEechHhC-CH-----------------HHHHHHHHHHHhCCCcEEEEEECCChHh-
Confidence 344555555554332345666 889998544 21 2346788888766667777777754321
Q ss_pred CCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhhh
Q psy3261 266 PDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYEF 338 (342)
Q Consensus 266 ~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~l 338 (342)
++..+..+ + ..+++..++.+|+...+...... |.--.++....+.-+|+|+++.+..+
T Consensus 162 -------Ll~TI~SR-c-------q~ieF~~Ls~~eL~~~L~~il~kegi~Is~eal~~La~lS~GdlR~Alnl 220 (605)
T PRK05896 162 -------IPLTIISR-C-------QRYNFKKLNNSELQELLKSIAKKEKIKIEDNAIDKIADLADGSLRDGLSI 220 (605)
T ss_pred -------hhHHHHhh-h-------hhcccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHH
Confidence 22222222 1 12788999999999888765443 43114444455666999999966544
No 19
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=98.00 E-value=0.00026 Score=68.48 Aligned_cols=75 Identities=15% Similarity=0.095 Sum_probs=49.5
Q ss_pred CCeEEEEEeCCCCCCCCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCcc-CcchHHHHHHhhC
Q psy3261 251 NNGAIVLALSPRANLPDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQ-TSEGREEIAFLTK 329 (342)
Q Consensus 251 ~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~-~e~~~~el~~lSg 329 (342)
+..++|+||+.... ++..+..+-|+ .++++.++.+|...+++......-+. +++...++--.|+
T Consensus 149 ~~~~li~at~~~~~--------l~~~L~sRf~~-------~~~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~~~ 213 (328)
T PRK00080 149 PPFTLIGATTRAGL--------LTSPLRDRFGI-------VQRLEFYTVEELEKIVKRSARILGVEIDEEGALEIARRSR 213 (328)
T ss_pred CCceEEeecCCccc--------CCHHHHHhcCe-------eeecCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHcC
Confidence 34567777765432 22233333222 36888999999999998776554333 5555666777999
Q ss_pred CCHHHHhhhcc
Q psy3261 330 RVPQKMYEFCS 340 (342)
Q Consensus 330 GNP~~l~~lc~ 340 (342)
|+|+.+..+|.
T Consensus 214 G~pR~a~~~l~ 224 (328)
T PRK00080 214 GTPRIANRLLR 224 (328)
T ss_pred CCchHHHHHHH
Confidence 99998877763
No 20
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=97.99 E-value=0.00036 Score=71.31 Aligned_cols=122 Identities=15% Similarity=0.122 Sum_probs=67.2
Q ss_pred CceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCC-CCCeEEEEEeCCCCCCCCCccCcchhHHhhhc
Q psy3261 203 VCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSD-WNNGAIVLALSPRANLPDRRESHLPLYMLKKA 281 (342)
Q Consensus 203 ~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~-~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~ 281 (342)
..|.+|.|||+.+++.... .. ....+...-..+..|+..+.+- -+++++|.++|... + .+...+++.-
T Consensus 146 ~~p~Il~iDEid~l~~~r~-~~---~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn~~---~----~ld~al~r~g 214 (495)
T TIGR01241 146 NAPCIIFIDEIDAVGRQRG-AG---LGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRP---D----VLDPALLRPG 214 (495)
T ss_pred cCCCEEEEechhhhhhccc-cC---cCCccHHHHHHHHHHHhhhccccCCCCeEEEEecCCh---h----hcCHHHhcCC
Confidence 3577899999988875422 10 1111111124445555555442 24456555555332 1 1223444332
Q ss_pred CCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHHhhC-CCHHHHhhhcc
Q psy3261 282 GFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAFLTK-RVPQKMYEFCS 340 (342)
Q Consensus 282 g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~lSg-GNP~~l~~lc~ 340 (342)
.|+. .+.|+..+.++-..+++.+....-+..+....++-..+. -+|.++..+|.
T Consensus 215 Rfd~-----~i~i~~Pd~~~R~~il~~~l~~~~~~~~~~l~~la~~t~G~sgadl~~l~~ 269 (495)
T TIGR01241 215 RFDR-----QVVVDLPDIKGREEILKVHAKNKKLAPDVDLKAVARRTPGFSGADLANLLN 269 (495)
T ss_pred cceE-----EEEcCCCCHHHHHHHHHHHHhcCCCCcchhHHHHHHhCCCCCHHHHHHHHH
Confidence 3432 378888889999999988876543422222334544554 48999998884
No 21
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=97.99 E-value=0.00022 Score=73.03 Aligned_cols=118 Identities=11% Similarity=0.165 Sum_probs=70.0
Q ss_pred HHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCC
Q psy3261 186 DVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANL 265 (342)
Q Consensus 186 ~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~ 265 (342)
+-+..++++.......++++| |.||++..+ .. .-...|++.+........+|++|++...
T Consensus 111 d~Ir~iie~a~~~P~~~~~KV-vIIDEa~~L-s~-----------------~a~naLLk~LEepp~~~vfI~aTte~~k- 170 (507)
T PRK06645 111 DDIRRIIESAEYKPLQGKHKI-FIIDEVHML-SK-----------------GAFNALLKTLEEPPPHIIFIFATTEVQK- 170 (507)
T ss_pred HHHHHHHHHHHhccccCCcEE-EEEEChhhc-CH-----------------HHHHHHHHHHhhcCCCEEEEEEeCChHH-
Confidence 344455555443322245554 669998433 21 2245677777765566777888764321
Q ss_pred CCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhhh
Q psy3261 266 PDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYEF 338 (342)
Q Consensus 266 ~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~l 338 (342)
++..+..+ . ..+++..++.+|....+++.... |.-.+++....+-..|+|++|.+..+
T Consensus 171 -------I~~tI~SR-c-------~~~ef~~ls~~el~~~L~~i~~~egi~ie~eAL~~Ia~~s~GslR~al~~ 229 (507)
T PRK06645 171 -------IPATIISR-C-------QRYDLRRLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEGSARDAVSI 229 (507)
T ss_pred -------hhHHHHhc-c-------eEEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence 22222222 1 13788999999999999776654 44324444455666999999987654
No 22
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=97.95 E-value=0.00039 Score=66.16 Aligned_cols=47 Identities=15% Similarity=0.210 Sum_probs=35.7
Q ss_pred eecCCCCHHHHHHHHHHHHhCCCcc-CcchHHHHHHhhCCCHHHHhhh
Q psy3261 292 IHVPELNDEEFHNLLNLYESKKWLQ-TSEGREEIAFLTKRVPQKMYEF 338 (342)
Q Consensus 292 i~v~~~s~~E~~~ll~yy~~~~~l~-~e~~~~el~~lSgGNP~~l~~l 338 (342)
++++.++.+|....++.+....-+. +++....+...++||++.+...
T Consensus 156 ~~~~~l~~~ei~~~l~~~~~~~~~~i~~~al~~l~~~~~gd~r~~~~~ 203 (319)
T PRK00440 156 FRFSPLKKEAVAERLRYIAENEGIEITDDALEAIYYVSEGDMRKAINA 203 (319)
T ss_pred eeeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence 7888999999999998776543332 5656666777999999986554
No 23
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=97.95 E-value=0.00052 Score=68.13 Aligned_cols=119 Identities=19% Similarity=0.290 Sum_probs=66.6
Q ss_pred CceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhh---cC-CCCCeEEEEEeCCCCCCCCCccCcchhHHh
Q psy3261 203 VCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLV---QS-DWNNGAIVLALSPRANLPDRRESHLPLYML 278 (342)
Q Consensus 203 ~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~---~~-~~~~G~vv~AtS~~~~~~~~~~~~~p~~ll 278 (342)
..|.+|.+|++.+++.... .+... .+-.+.+.+..++ .+ +..++++|.+++... + .++..++
T Consensus 223 ~~p~IlfiDEiD~l~~~r~--~~~~~-----~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~~---~----~ld~all 288 (389)
T PRK03992 223 KAPSIIFIDEIDAIAAKRT--DSGTS-----GDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRI---D----ILDPAIL 288 (389)
T ss_pred cCCeEEEEechhhhhcccc--cCCCC-----ccHHHHHHHHHHHHhccccCCCCCEEEEEecCCh---h----hCCHHHc
Confidence 4588899999988876422 11100 1122334444444 22 233445444444332 1 1334454
Q ss_pred hhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHH-hhCCCHHHHhhhcc
Q psy3261 279 KKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAF-LTKRVPQKMYEFCS 340 (342)
Q Consensus 279 g~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~-lSgGNP~~l~~lc~ 340 (342)
+...|+. .|+|+..+.+|-..++..+....-+..+....++-. ..|-+|.++..+|.
T Consensus 289 RpgRfd~-----~I~v~~P~~~~R~~Il~~~~~~~~~~~~~~~~~la~~t~g~sgadl~~l~~ 346 (389)
T PRK03992 289 RPGRFDR-----IIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICT 346 (389)
T ss_pred CCccCce-----EEEECCCCHHHHHHHHHHHhccCCCCCcCCHHHHHHHcCCCCHHHHHHHHH
Confidence 3333432 389999999999999998866544421122334433 56779999999885
No 24
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=97.94 E-value=0.00038 Score=68.34 Aligned_cols=119 Identities=20% Similarity=0.278 Sum_probs=66.7
Q ss_pred CceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhc---C-CCCCeEEEEEeCCCCCCCCCccCcchhHHh
Q psy3261 203 VCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQ---S-DWNNGAIVLALSPRANLPDRRESHLPLYML 278 (342)
Q Consensus 203 ~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~---~-~~~~G~vv~AtS~~~~~~~~~~~~~p~~ll 278 (342)
..|.+|.+|++.+++.... .+... .+-.+.+.+..++. + +..++++|.+++.... .++..++
T Consensus 214 ~~p~il~iDEiD~l~~~~~--~~~~~-----~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~-------~ld~al~ 279 (364)
T TIGR01242 214 KAPSIIFIDEIDAIAAKRT--DSGTS-----GDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPD-------ILDPALL 279 (364)
T ss_pred cCCcEEEhhhhhhhccccc--cCCCC-----ccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChh-------hCChhhc
Confidence 4688999999988865421 11111 11122333444332 2 3344555555443321 1333444
Q ss_pred hhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHHhh-CCCHHHHhhhcc
Q psy3261 279 KKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAFLT-KRVPQKMYEFCS 340 (342)
Q Consensus 279 g~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~lS-gGNP~~l~~lc~ 340 (342)
+...|+. .+.|+.++.+|-..+++.+....-+..+....++-..| |-+++++..+|.
T Consensus 280 r~grfd~-----~i~v~~P~~~~r~~Il~~~~~~~~l~~~~~~~~la~~t~g~sg~dl~~l~~ 337 (364)
T TIGR01242 280 RPGRFDR-----IIEVPLPDFEGRLEILKIHTRKMKLAEDVDLEAIAKMTEGASGADLKAICT 337 (364)
T ss_pred CcccCce-----EEEeCCcCHHHHHHHHHHHHhcCCCCccCCHHHHHHHcCCCCHHHHHHHHH
Confidence 3333432 37899999999999999887654442122344555544 668889988885
No 25
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.94 E-value=0.00019 Score=74.93 Aligned_cols=103 Identities=11% Similarity=0.154 Sum_probs=66.4
Q ss_pred CCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhc
Q psy3261 202 GVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKA 281 (342)
Q Consensus 202 ~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~ 281 (342)
++++| +.||++..+ .. .-...|++.+.....+..+|++++.... +|.-++.+-
T Consensus 117 gk~KV-~IIDEVh~L-S~-----------------~A~NALLKtLEEPP~~v~FILaTtd~~k--------Ip~TIlSRC 169 (702)
T PRK14960 117 GRFKV-YLIDEVHML-ST-----------------HSFNALLKTLEEPPEHVKFLFATTDPQK--------LPITVISRC 169 (702)
T ss_pred CCcEE-EEEechHhc-CH-----------------HHHHHHHHHHhcCCCCcEEEEEECChHh--------hhHHHHHhh
Confidence 45555 559999543 22 2356788888776667778888754321 222232221
Q ss_pred CCCCCCCcceeecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 282 GFESIDPFVPIHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 282 g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
..+++..++.+|+...+...... |+-..++....+-..|+|++|.+..+|
T Consensus 170 --------q~feFkpLs~eEI~k~L~~Il~kEgI~id~eAL~~IA~~S~GdLRdALnLL 220 (702)
T PRK14960 170 --------LQFTLRPLAVDEITKHLGAILEKEQIAADQDAIWQIAESAQGSLRDALSLT 220 (702)
T ss_pred --------heeeccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 13789999999999998776554 443245445556679999999987764
No 26
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=97.94 E-value=0.00047 Score=66.21 Aligned_cols=49 Identities=18% Similarity=0.173 Sum_probs=35.5
Q ss_pred eeecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 291 PIHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 291 ~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
.+++..++.+|+..++.....+ |+--+++..+.+-..++||++++...+
T Consensus 178 ~v~~~~~~~~~~~~~l~~~~~~~~~~~~~~al~~l~~~~~gdlr~l~~~l 227 (337)
T PRK12402 178 PLFFRAPTDDELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAILTL 227 (337)
T ss_pred EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 3788899999999999775543 432155555667778999999986543
No 27
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=97.91 E-value=0.00031 Score=74.33 Aligned_cols=102 Identities=7% Similarity=0.145 Sum_probs=66.4
Q ss_pred CCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhc
Q psy3261 202 GVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKA 281 (342)
Q Consensus 202 ~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~ 281 (342)
++++|+| ||++..+ .. .-...|++.+.....+..+|++|+....+ +.-++.+
T Consensus 118 gr~KVII-IDEah~L-T~-----------------~A~NALLKtLEEPP~~v~FILaTtd~~KI--------p~TIrSR- 169 (830)
T PRK07003 118 ARFKVYM-IDEVHML-TN-----------------HAFNAMLKTLEEPPPHVKFILATTDPQKI--------PVTVLSR- 169 (830)
T ss_pred CCceEEE-EeChhhC-CH-----------------HHHHHHHHHHHhcCCCeEEEEEECChhhc--------cchhhhh-
Confidence 4667655 9999544 21 23567788887666777788888764422 2222222
Q ss_pred CCCCCCCcceeecCCCCHHHHHHHHHHHHh-CCCccCcchHHHHHHhhCCCHHHHhhh
Q psy3261 282 GFESIDPFVPIHVPELNDEEFHNLLNLYES-KKWLQTSEGREEIAFLTKRVPQKMYEF 338 (342)
Q Consensus 282 g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~-~~~l~~e~~~~el~~lSgGNP~~l~~l 338 (342)
...+++..++.+|+...|+.... .|+-..++....|-..++|+.|....+
T Consensus 170 -------Cq~f~Fk~Ls~eeIv~~L~~Il~~EgI~id~eAL~lIA~~A~GsmRdALsL 220 (830)
T PRK07003 170 -------CLQFNLKQMPAGHIVSHLERILGEERIAFEPQALRLLARAAQGSMRDALSL 220 (830)
T ss_pred -------eEEEecCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence 12378899999999999977544 454324444555667999999987765
No 28
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.90 E-value=0.00048 Score=70.59 Aligned_cols=118 Identities=13% Similarity=0.113 Sum_probs=69.8
Q ss_pred HHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCC
Q psy3261 186 DVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANL 265 (342)
Q Consensus 186 ~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~ 265 (342)
+.+..+.+++......++++ +|.||+...+ + -.....|++.+.....+..+|++++....
T Consensus 99 d~iR~l~~~~~~~p~~~~~k-VVIIDEad~l----s--------------~~a~naLLk~LEep~~~t~~Il~t~~~~k- 158 (504)
T PRK14963 99 EDVRDLREKVLLAPLRGGRK-VYILDEAHMM----S--------------KSAFNALLKTLEEPPEHVIFILATTEPEK- 158 (504)
T ss_pred HHHHHHHHHHhhccccCCCe-EEEEECcccc----C--------------HHHHHHHHHHHHhCCCCEEEEEEcCChhh-
Confidence 34444544554332223445 5559998422 1 12345667777665566677777643221
Q ss_pred CCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhhh
Q psy3261 266 PDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYEF 338 (342)
Q Consensus 266 ~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~l 338 (342)
++..+..+ ...+++..++.+|+...+.+.... |+-.+++....+-..|+|+++.+...
T Consensus 159 -------l~~~I~SR--------c~~~~f~~ls~~el~~~L~~i~~~egi~i~~~Al~~ia~~s~GdlR~aln~ 217 (504)
T PRK14963 159 -------MPPTILSR--------TQHFRFRRLTEEEIAGKLRRLLEAEGREAEPEALQLVARLADGAMRDAESL 217 (504)
T ss_pred -------CChHHhcc--------eEEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence 11112111 113889999999999999886654 54325555666778999999988644
No 29
>CHL00176 ftsH cell division protein; Validated
Probab=97.88 E-value=0.00063 Score=71.54 Aligned_cols=122 Identities=18% Similarity=0.139 Sum_probs=66.3
Q ss_pred CceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCC-CCCeEEEEEeCCCCCCCCCccCcchhHHhhhc
Q psy3261 203 VCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSD-WNNGAIVLALSPRANLPDRRESHLPLYMLKKA 281 (342)
Q Consensus 203 ~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~-~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~ 281 (342)
..|.+|.|||+.++...-..-.. .-+...-.....|+..+.+- -+.+++|.+++... + .+...+++.-
T Consensus 274 ~~P~ILfIDEID~l~~~r~~~~~----~~~~e~~~~L~~LL~~~dg~~~~~~ViVIaaTN~~---~----~LD~ALlRpG 342 (638)
T CHL00176 274 NSPCIVFIDEIDAVGRQRGAGIG----GGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRV---D----ILDAALLRPG 342 (638)
T ss_pred CCCcEEEEecchhhhhcccCCCC----CCcHHHHHHHHHHHhhhccccCCCCeeEEEecCch---H----hhhhhhhccc
Confidence 56899999999888643210000 01111123344455545442 24456555555332 1 1223444332
Q ss_pred CCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHHh-hCCCHHHHhhhcc
Q psy3261 282 GFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAFL-TKRVPQKMYEFCS 340 (342)
Q Consensus 282 g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~l-SgGNP~~l~~lc~ 340 (342)
.|+. .+.++..+.++-..++..+....-+..+.....+-.. .|.++++|..+|.
T Consensus 343 RFd~-----~I~v~lPd~~~R~~IL~~~l~~~~~~~d~~l~~lA~~t~G~sgaDL~~lvn 397 (638)
T CHL00176 343 RFDR-----QITVSLPDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLLN 397 (638)
T ss_pred cCce-----EEEECCCCHHHHHHHHHHHHhhcccchhHHHHHHHhcCCCCCHHHHHHHHH
Confidence 3432 3778888899999999888776443222222333334 4559999998873
No 30
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.87 E-value=0.00055 Score=73.66 Aligned_cols=101 Identities=12% Similarity=0.155 Sum_probs=67.3
Q ss_pred eEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhcCCC
Q psy3261 205 RTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKAGFE 284 (342)
Q Consensus 205 pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~g~~ 284 (342)
..++.||++..+ . -.....|++.+..-..+..+|++|+.... ++.-++-+-
T Consensus 120 ~KViIIDEAh~L-T-----------------~eAqNALLKtLEEPP~~vrFILaTTe~~k--------Ll~TIlSRC--- 170 (944)
T PRK14949 120 FKVYLIDEVHML-S-----------------RSSFNALLKTLEEPPEHVKFLLATTDPQK--------LPVTVLSRC--- 170 (944)
T ss_pred cEEEEEechHhc-C-----------------HHHHHHHHHHHhccCCCeEEEEECCCchh--------chHHHHHhh---
Confidence 456889999555 2 23456788888765666677777665432 222222221
Q ss_pred CCCCcceeecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 285 SIDPFVPIHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 285 ~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
..+++.+++.+|++..+.+.... ++...++....+..+|+|++|....+|
T Consensus 171 -----q~f~fkpLs~eEI~~~L~~il~~EgI~~edeAL~lIA~~S~Gd~R~ALnLL 221 (944)
T PRK14949 171 -----LQFNLKSLTQDEIGTQLNHILTQEQLPFEAEALTLLAKAANGSMRDALSLT 221 (944)
T ss_pred -----eEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 23789999999999999876554 544244445556779999999988876
No 31
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=97.83 E-value=0.00064 Score=66.57 Aligned_cols=119 Identities=18% Similarity=0.222 Sum_probs=71.2
Q ss_pred hhHHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCC
Q psy3261 184 ASDVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRA 263 (342)
Q Consensus 184 a~~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~ 263 (342)
..+.+-.+.+.+...+..++.+ +|.||+...+- -.-...+++.+.....+..+|+.++...
T Consensus 122 ~vd~iR~l~~~l~~~~~~g~~r-VviIDeAd~l~------------------~~aanaLLk~LEEpp~~~~fiLit~~~~ 182 (351)
T PRK09112 122 TVDEIRRVGHFLSQTSGDGNWR-IVIIDPADDMN------------------RNAANAILKTLEEPPARALFILISHSSG 182 (351)
T ss_pred CHHHHHHHHHHhhhccccCCce-EEEEEchhhcC------------------HHHHHHHHHHHhcCCCCceEEEEECChh
Confidence 3444555555555433234555 68899996552 2234668888876666777666654432
Q ss_pred CCCCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHh-CCCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 264 NLPDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYES-KKWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 264 ~~~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~-~~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
.+ +|. +..+ ...++++.++.+|+..+++.... .+ + +++....+..+|+|+|+....+.
T Consensus 183 ~l-------lpt-IrSR--------c~~i~l~pl~~~~~~~~L~~~~~~~~-~-~~~~~~~i~~~s~G~pr~Al~ll 241 (351)
T PRK09112 183 RL-------LPT-IRSR--------CQPISLKPLDDDELKKALSHLGSSQG-S-DGEITEALLQRSKGSVRKALLLL 241 (351)
T ss_pred hc-------cHH-HHhh--------ccEEEecCCCHHHHHHHHHHhhcccC-C-CHHHHHHHHHHcCCCHHHHHHHH
Confidence 11 121 1111 11489999999999999987321 11 2 23334456679999999887765
No 32
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.83 E-value=0.00063 Score=69.79 Aligned_cols=116 Identities=11% Similarity=0.163 Sum_probs=70.3
Q ss_pred HHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCC
Q psy3261 189 DVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDR 268 (342)
Q Consensus 189 ~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~ 268 (342)
..+++.+......++++|+| ||++..+ .. .-...|++.+.....+..+|++|+....
T Consensus 105 R~l~~~~~~~p~~~~~kV~i-IDE~~~l-s~-----------------~a~naLLk~LEepp~~~~fIlattd~~k---- 161 (509)
T PRK14958 105 RELLDNIPYAPTKGRFKVYL-IDEVHML-SG-----------------HSFNALLKTLEEPPSHVKFILATTDHHK---- 161 (509)
T ss_pred HHHHHHHhhccccCCcEEEE-EEChHhc-CH-----------------HHHHHHHHHHhccCCCeEEEEEECChHh----
Confidence 33444433323345777755 9999544 22 2346788888776677778888754321
Q ss_pred ccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 269 RESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 269 ~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
+|.-+..+ .. .+++..++.+|+...+...... |.-..++....+-..++|++|.+..++
T Consensus 162 ----l~~tI~SR-c~-------~~~f~~l~~~~i~~~l~~il~~egi~~~~~al~~ia~~s~GslR~al~lL 221 (509)
T PRK14958 162 ----LPVTVLSR-CL-------QFHLAQLPPLQIAAHCQHLLKEENVEFENAALDLLARAANGSVRDALSLL 221 (509)
T ss_pred ----chHHHHHH-hh-------hhhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHH
Confidence 22222222 11 2688899999999888766554 433134334456669999999987765
No 33
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.82 E-value=0.00097 Score=67.61 Aligned_cols=101 Identities=11% Similarity=0.070 Sum_probs=66.1
Q ss_pred ceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhcCC
Q psy3261 204 CRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKAGF 283 (342)
Q Consensus 204 ~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~g~ 283 (342)
...++.||++..+ .. .....|++.+.....+..+|+||+.... ++..+..+-
T Consensus 121 ~~KV~IIDEah~L-s~-----------------~A~NALLKtLEEPp~~viFILaTte~~k--------I~~TI~SRC-- 172 (484)
T PRK14956 121 KYKVYIIDEVHML-TD-----------------QSFNALLKTLEEPPAHIVFILATTEFHK--------IPETILSRC-- 172 (484)
T ss_pred CCEEEEEechhhc-CH-----------------HHHHHHHHHhhcCCCceEEEeecCChhh--------ccHHHHhhh--
Confidence 3456889999655 21 2356677777665667777888876432 333333321
Q ss_pred CCCCCcceeecCCCCHHHHHHHHHHHHh-CCCccCcchHHHHHHhhCCCHHHHhhh
Q psy3261 284 ESIDPFVPIHVPELNDEEFHNLLNLYES-KKWLQTSEGREEIAFLTKRVPQKMYEF 338 (342)
Q Consensus 284 ~~~dP~~~i~v~~~s~~E~~~ll~yy~~-~~~l~~e~~~~el~~lSgGNP~~l~~l 338 (342)
..+.+.+++.+++...+++... .|+-..++....+-..|+|++|....+
T Consensus 173 ------q~~~f~~ls~~~i~~~L~~i~~~Egi~~e~eAL~~Ia~~S~Gd~RdAL~l 222 (484)
T PRK14956 173 ------QDFIFKKVPLSVLQDYSEKLCKIENVQYDQEGLFWIAKKGDGSVRDMLSF 222 (484)
T ss_pred ------heeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCChHHHHHHH
Confidence 1268889999999999987755 344324444455667999999987654
No 34
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=97.78 E-value=0.0012 Score=65.82 Aligned_cols=119 Identities=15% Similarity=0.216 Sum_probs=65.2
Q ss_pred CceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHh---hcCC-CCCeEEEEEeCCCCCCCCCccCcchhHHh
Q psy3261 203 VCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINL---VQSD-WNNGAIVLALSPRANLPDRRESHLPLYML 278 (342)
Q Consensus 203 ~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~---~~~~-~~~G~vv~AtS~~~~~~~~~~~~~p~~ll 278 (342)
..|.+|.+|++.+++... +..... .+-.+.+.+..+ +.+- -..+++|.++|... + .++..++
T Consensus 237 ~~P~ILfIDEID~i~~~r--~~~~~~-----~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~---d----~LDpAll 302 (398)
T PTZ00454 237 NAPSIIFIDEVDSIATKR--FDAQTG-----ADREVQRILLELLNQMDGFDQTTNVKVIMATNRA---D----TLDPALL 302 (398)
T ss_pred cCCeEEEEECHhhhcccc--ccccCC-----ccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCc---h----hCCHHHc
Confidence 468899999998887542 111111 112223333333 3332 23345444444321 1 1333454
Q ss_pred hhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHH-HhhCCCHHHHhhhcc
Q psy3261 279 KKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIA-FLTKRVPQKMYEFCS 340 (342)
Q Consensus 279 g~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~-~lSgGNP~~l~~lc~ 340 (342)
+...|+. .|+++..+.++-+.+++.+....-+..+....++- ...|-+|.++..+|.
T Consensus 303 R~GRfd~-----~I~~~~P~~~~R~~Il~~~~~~~~l~~dvd~~~la~~t~g~sgaDI~~l~~ 360 (398)
T PTZ00454 303 RPGRLDR-----KIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISAADIAAICQ 360 (398)
T ss_pred CCCcccE-----EEEeCCcCHHHHHHHHHHHHhcCCCCcccCHHHHHHHcCCCCHHHHHHHHH
Confidence 3323432 37888899999999998887654342122233333 356889999999985
No 35
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=97.77 E-value=0.00068 Score=69.39 Aligned_cols=94 Identities=16% Similarity=0.220 Sum_probs=55.9
Q ss_pred CceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCC-CCeEEEEEeCCCCCCCCCccCcchhHHhhhc
Q psy3261 203 VCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDW-NNGAIVLALSPRANLPDRRESHLPLYMLKKA 281 (342)
Q Consensus 203 ~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~-~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~ 281 (342)
..|++|.+|++.+++..-. - . .... .+-+++..|+..+.|-. .++++|.++|... + .+...+++.-
T Consensus 288 g~p~IIfIDEiD~L~~~R~-~-~-~s~d---~e~~il~~LL~~LDgl~~~~~ViVI~ATN~~---d----~LDpALlRpG 354 (512)
T TIGR03689 288 GRPVIVFFDEMDSIFRTRG-S-G-VSSD---VETTVVPQLLSELDGVESLDNVIVIGASNRE---D----MIDPAILRPG 354 (512)
T ss_pred CCCceEEEehhhhhhcccC-C-C-ccch---HHHHHHHHHHHHhcccccCCceEEEeccCCh---h----hCCHhhcCcc
Confidence 5799999999999986421 0 0 0000 11246667777776643 2345444444321 1 1334454432
Q ss_pred CCCCCCCcceeecCCCCHHHHHHHHHHHHhCCC
Q psy3261 282 GFESIDPFVPIHVPELNDEEFHNLLNLYESKKW 314 (342)
Q Consensus 282 g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~ 314 (342)
.|+. .|+++..+.++.+.++..|.....
T Consensus 355 RfD~-----~I~~~~Pd~e~r~~Il~~~l~~~l 382 (512)
T TIGR03689 355 RLDV-----KIRIERPDAEAAADIFSKYLTDSL 382 (512)
T ss_pred ccce-----EEEeCCCCHHHHHHHHHHHhhccC
Confidence 3432 489999999999999988876543
No 36
>PRK13342 recombination factor protein RarA; Reviewed
Probab=97.75 E-value=0.00073 Score=67.52 Aligned_cols=49 Identities=14% Similarity=0.234 Sum_probs=36.5
Q ss_pred eeecCCCCHHHHHHHHHHHHhC---CCcc-CcchHHHHHHhhCCCHHHHhhhc
Q psy3261 291 PIHVPELNDEEFHNLLNLYESK---KWLQ-TSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 291 ~i~v~~~s~~E~~~ll~yy~~~---~~l~-~e~~~~el~~lSgGNP~~l~~lc 339 (342)
.+.+..++.+|+..+++..... +.+. +++....+..+|+||++.+..++
T Consensus 145 ~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~L 197 (413)
T PRK13342 145 VFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLL 197 (413)
T ss_pred eeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHH
Confidence 4789999999999999876543 4312 45555567779999999987654
No 37
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=97.75 E-value=0.00082 Score=70.76 Aligned_cols=85 Identities=7% Similarity=0.104 Sum_probs=55.6
Q ss_pred HHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhC-CCccC
Q psy3261 239 TRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESK-KWLQT 317 (342)
Q Consensus 239 ~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~l~~ 317 (342)
...|++.+.....+..+|++++.... ++.-++++- ..+.+..++.+|+...+...... |+-..
T Consensus 136 ~NALLKtLEEPp~~v~fILaTtd~~k--------L~~TIrSRC--------~~f~f~~Ls~eeI~~~L~~Il~kEgi~id 199 (709)
T PRK08691 136 FNAMLKTLEEPPEHVKFILATTDPHK--------VPVTVLSRC--------LQFVLRNMTAQQVADHLAHVLDSEKIAYE 199 (709)
T ss_pred HHHHHHHHHhCCCCcEEEEEeCCccc--------cchHHHHHH--------hhhhcCCCCHHHHHHHHHHHHHHcCCCcC
Confidence 45678888765566677777754321 222233321 12678899999999988766554 44324
Q ss_pred cchHHHHHHhhCCCHHHHhhhc
Q psy3261 318 SEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 318 e~~~~el~~lSgGNP~~l~~lc 339 (342)
++....|...++|++|.+..++
T Consensus 200 ~eAL~~Ia~~A~GslRdAlnLL 221 (709)
T PRK08691 200 PPALQLLGRAAAGSMRDALSLL 221 (709)
T ss_pred HHHHHHHHHHhCCCHHHHHHHH
Confidence 4455667789999999988765
No 38
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=97.73 E-value=0.00033 Score=57.58 Aligned_cols=27 Identities=19% Similarity=0.249 Sum_probs=20.6
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHh
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHE 93 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~ 93 (342)
..-++|+|++|||||+++.++......
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~ 30 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNA 30 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHH
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHH
Confidence 567899999999999999999987653
No 39
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=97.72 E-value=0.00084 Score=59.42 Aligned_cols=109 Identities=16% Similarity=0.173 Sum_probs=68.2
Q ss_pred HHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCC
Q psy3261 186 DVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANL 265 (342)
Q Consensus 186 ~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~ 265 (342)
+.+..+++++...+..+.++ +|.||++..+-. .....|++++.....+..+|+.++....
T Consensus 79 ~~i~~i~~~~~~~~~~~~~k-viiide~~~l~~------------------~~~~~Ll~~le~~~~~~~~il~~~~~~~- 138 (188)
T TIGR00678 79 DQVRELVEFLSRTPQESGRR-VVIIEDAERMNE------------------AAANALLKTLEEPPPNTLFILITPSPEK- 138 (188)
T ss_pred HHHHHHHHHHccCcccCCeE-EEEEechhhhCH------------------HHHHHHHHHhcCCCCCeEEEEEECChHh-
Confidence 55556666665543223444 566999844422 1345688888776667777777653211
Q ss_pred CCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHHhhCCCHHH
Q psy3261 266 PDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAFLTKRVPQK 334 (342)
Q Consensus 266 ~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~lSgGNP~~ 334 (342)
+...+..+ + ..+++..++.+|....+... | + +++....+.-.+||+|+.
T Consensus 139 -------l~~~i~sr-~-------~~~~~~~~~~~~~~~~l~~~---g-i-~~~~~~~i~~~~~g~~r~ 187 (188)
T TIGR00678 139 -------LLPTIRSR-C-------QVLPFPPLSEEALLQWLIRQ---G-I-SEEAAELLLALAGGSPGA 187 (188)
T ss_pred -------ChHHHHhh-c-------EEeeCCCCCHHHHHHHHHHc---C-C-CHHHHHHHHHHcCCCccc
Confidence 22222211 1 13889999999998888776 5 4 465566677799999974
No 40
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=97.72 E-value=0.0012 Score=69.40 Aligned_cols=117 Identities=11% Similarity=0.174 Sum_probs=72.8
Q ss_pred HHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCC
Q psy3261 188 VDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPD 267 (342)
Q Consensus 188 ~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~ 267 (342)
+..+++++......++++ ++.||++..+ .. .-...|++.+.....+..+|++|+....
T Consensus 104 iR~li~~~~~~p~~g~~K-V~IIDEah~L-s~-----------------~a~NALLKtLEEPp~~v~FIL~Tt~~~k--- 161 (647)
T PRK07994 104 TRELLDNVQYAPARGRFK-VYLIDEVHML-SR-----------------HSFNALLKTLEEPPEHVKFLLATTDPQK--- 161 (647)
T ss_pred HHHHHHHHHhhhhcCCCE-EEEEechHhC-CH-----------------HHHHHHHHHHHcCCCCeEEEEecCCccc---
Confidence 344444443322224444 5789999544 22 3457788888776677778888765432
Q ss_pred CccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHH-hCCCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 268 RRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYE-SKKWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 268 ~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~-~~~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
++.-+.-+ -..+.+..++.+|+...+.+.. ..|+-..++....+-.+|+|++|....+|
T Consensus 162 -----Ll~TI~SR--------C~~~~f~~Ls~~ei~~~L~~il~~e~i~~e~~aL~~Ia~~s~Gs~R~Al~ll 221 (647)
T PRK07994 162 -----LPVTILSR--------CLQFHLKALDVEQIRQQLEHILQAEQIPFEPRALQLLARAADGSMRDALSLT 221 (647)
T ss_pred -----cchHHHhh--------heEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 22222222 1137899999999999987754 34554233334456679999999888876
No 41
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.71 E-value=0.0015 Score=66.67 Aligned_cols=118 Identities=9% Similarity=0.114 Sum_probs=71.0
Q ss_pred HHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCC
Q psy3261 187 VVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLP 266 (342)
Q Consensus 187 ~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~ 266 (342)
-+..++++.......++++ ++.||++..+ .. .-...|++.+........+|++|++...
T Consensus 100 dIR~Iie~~~~~P~~~~~K-VvIIDEah~L-s~-----------------~A~NaLLK~LEePp~~v~fIlatte~~K-- 158 (491)
T PRK14964 100 DIKVILENSCYLPISSKFK-VYIIDEVHML-SN-----------------SAFNALLKTLEEPAPHVKFILATTEVKK-- 158 (491)
T ss_pred HHHHHHHHHHhccccCCce-EEEEeChHhC-CH-----------------HHHHHHHHHHhCCCCCeEEEEEeCChHH--
Confidence 3444444443322123444 5789998333 21 2346788888877677778888764321
Q ss_pred CCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 267 DRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 267 ~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
++..+..+ . ..+++..++.+|....+.....+ |.-.+++....+...++|+++.+..++
T Consensus 159 ------l~~tI~SR-c-------~~~~f~~l~~~el~~~L~~ia~~Egi~i~~eAL~lIa~~s~GslR~alslL 218 (491)
T PRK14964 159 ------IPVTIISR-C-------QRFDLQKIPTDKLVEHLVDIAKKENIEHDEESLKLIAENSSGSMRNALFLL 218 (491)
T ss_pred ------HHHHHHHh-h-------eeeecccccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 33323222 1 13788899999999888776554 443245445556679999999766543
No 42
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.70 E-value=0.0015 Score=64.14 Aligned_cols=119 Identities=10% Similarity=0.112 Sum_probs=69.3
Q ss_pred HHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCC
Q psy3261 186 DVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANL 265 (342)
Q Consensus 186 ~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~ 265 (342)
+.+..+++.+.... .....-++.||++..+-. .-...|++.+.....+..+|++++....
T Consensus 102 ~~ir~i~~~~~~~p-~~~~~kviIIDEa~~l~~------------------~a~naLLk~lEe~~~~~~fIl~t~~~~~- 161 (363)
T PRK14961 102 EEMREILDNIYYSP-SKSRFKVYLIDEVHMLSR------------------HSFNALLKTLEEPPQHIKFILATTDVEK- 161 (363)
T ss_pred HHHHHHHHHHhcCc-ccCCceEEEEEChhhcCH------------------HHHHHHHHHHhcCCCCeEEEEEcCChHh-
Confidence 33445555543321 112345788999754311 1234577777655556566777654221
Q ss_pred CCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 266 PDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 266 ~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
++..+..+- ..++++.++.+|+...+...... |.-.+++....+-..|+|+||.+..+|
T Consensus 162 -------l~~tI~SRc--------~~~~~~~l~~~el~~~L~~~~~~~g~~i~~~al~~ia~~s~G~~R~al~~l 221 (363)
T PRK14961 162 -------IPKTILSRC--------LQFKLKIISEEKIFNFLKYILIKESIDTDEYALKLIAYHAHGSMRDALNLL 221 (363)
T ss_pred -------hhHHHHhhc--------eEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 222333221 24899999999999988775544 542245444556669999999877665
No 43
>CHL00195 ycf46 Ycf46; Provisional
Probab=97.64 E-value=0.0017 Score=66.31 Aligned_cols=119 Identities=13% Similarity=0.152 Sum_probs=70.9
Q ss_pred CceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhcC
Q psy3261 203 VCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKAG 282 (342)
Q Consensus 203 ~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~g 282 (342)
..|.+|.||++-.+|.....-.+. ...-.+...|+..+... +++++|.||+... ..+|.++++...
T Consensus 317 ~~P~IL~IDEID~~~~~~~~~~d~------~~~~rvl~~lL~~l~~~-~~~V~vIaTTN~~-------~~Ld~allR~GR 382 (489)
T CHL00195 317 LSPCILWIDEIDKAFSNSESKGDS------GTTNRVLATFITWLSEK-KSPVFVVATANNI-------DLLPLEILRKGR 382 (489)
T ss_pred cCCcEEEehhhhhhhccccCCCCc------hHHHHHHHHHHHHHhcC-CCceEEEEecCCh-------hhCCHHHhCCCc
Confidence 469999999999888653211111 11124555666666543 4556666666532 125556665444
Q ss_pred CCCCCCcceeecCCCCHHHHHHHHHHHHhCCCcc--CcchHHHHH-HhhCCCHHHHhhhcc
Q psy3261 283 FESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQ--TSEGREEIA-FLTKRVPQKMYEFCS 340 (342)
Q Consensus 283 ~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~--~e~~~~el~-~lSgGNP~~l~~lc~ 340 (342)
|+. .+.|+.-+.+|-..+++.|..+.-.. .+.....|- ...|-++.++..+|.
T Consensus 383 FD~-----~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl~~La~~T~GfSGAdI~~lv~ 438 (489)
T CHL00195 383 FDE-----IFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKFSGAEIEQSII 438 (489)
T ss_pred CCe-----EEEeCCcCHHHHHHHHHHHHhhcCCCcccccCHHHHHhhcCCCCHHHHHHHHH
Confidence 643 36777778899999998887664321 122222333 355888999988874
No 44
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.64 E-value=0.0013 Score=68.80 Aligned_cols=117 Identities=9% Similarity=0.128 Sum_probs=71.2
Q ss_pred HHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCC
Q psy3261 188 VDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPD 267 (342)
Q Consensus 188 ~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~ 267 (342)
+..+++.+......++++ ++.||++..+-. .-...|++.+.....+..+|++|++...
T Consensus 109 IReLie~~~~~P~~gr~K-ViIIDEah~Ls~------------------~AaNALLKTLEEPP~~v~FILaTtep~k--- 166 (700)
T PRK12323 109 MAQLLDKAVYAPTAGRFK-VYMIDEVHMLTN------------------HAFNAMLKTLEEPPEHVKFILATTDPQK--- 166 (700)
T ss_pred HHHHHHHHHhchhcCCce-EEEEEChHhcCH------------------HHHHHHHHhhccCCCCceEEEEeCChHh---
Confidence 334444443322234555 577999965522 2346788888766677788888875432
Q ss_pred CccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHh-CCCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 268 RRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYES-KKWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 268 ~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~-~~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
++.-+..+- ..+.+..++.+++...+.+... .|+-..++....+-..++|++|....++
T Consensus 167 -----LlpTIrSRC--------q~f~f~~ls~eei~~~L~~Il~~Egi~~d~eAL~~IA~~A~Gs~RdALsLL 226 (700)
T PRK12323 167 -----IPVTVLSRC--------LQFNLKQMPPGHIVSHLDAILGEEGIAHEVNALRLLAQAAQGSMRDALSLT 226 (700)
T ss_pred -----hhhHHHHHH--------HhcccCCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 222222221 1268888999999988876644 3544233334456679999999987765
No 45
>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]
Probab=97.59 E-value=0.00053 Score=69.98 Aligned_cols=118 Identities=14% Similarity=0.220 Sum_probs=79.9
Q ss_pred hHHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCC
Q psy3261 185 SDVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRAN 264 (342)
Q Consensus 185 ~~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~ 264 (342)
.+=+..++++..-....++++|.+ ||++ ++++. .--.+|++-+...+.+-.+|+||++-..
T Consensus 101 VddiR~i~e~v~y~P~~~ryKVyi-IDEv-HMLS~-----------------~afNALLKTLEEPP~hV~FIlATTe~~K 161 (515)
T COG2812 101 VDDIREIIEKVNYAPSEGRYKVYI-IDEV-HMLSK-----------------QAFNALLKTLEEPPSHVKFILATTEPQK 161 (515)
T ss_pred hHHHHHHHHHhccCCccccceEEE-EecH-HhhhH-----------------HHHHHHhcccccCccCeEEEEecCCcCc
Confidence 344555666666555567777765 8998 55443 3456777777777888899999998664
Q ss_pred CCCCccCcchhHHhh-hcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHH-HHHhhCCCHHHHhhh
Q psy3261 265 LPDRRESHLPLYMLK-KAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREE-IAFLTKRVPQKMYEF 338 (342)
Q Consensus 265 ~~~~~~~~~p~~llg-~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~e-l~~lSgGNP~~l~~l 338 (342)
++. -.+- .+- +.+.+++.+++...+++....-++..|+.... +...++|..|+...+
T Consensus 162 ip~--------TIlSRcq~---------f~fkri~~~~I~~~L~~i~~~E~I~~e~~aL~~ia~~a~Gs~RDalsl 220 (515)
T COG2812 162 IPN--------TILSRCQR---------FDFKRLDLEEIAKHLAAILDKEGINIEEDALSLIARAAEGSLRDALSL 220 (515)
T ss_pred Cch--------hhhhcccc---------ccccCCCHHHHHHHHHHHHHhcCCccCHHHHHHHHHHcCCChhhHHHH
Confidence 332 2222 222 57889999999999999999888874443322 445888888876543
No 46
>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=97.57 E-value=0.0016 Score=61.90 Aligned_cols=112 Identities=9% Similarity=0.103 Sum_probs=60.3
Q ss_pred EEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCc--chhHHhhhcCCC
Q psy3261 207 FVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESH--LPLYMLKKAGFE 284 (342)
Q Consensus 207 LvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~--~p~~llg~~g~~ 284 (342)
++.||++..+..... + .+..-.+...|+.++.....+-.||+|++... .... +...+..+ |.
T Consensus 124 vL~iDEi~~L~~~~~---~------~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~-----~~~~~~~np~L~sR--~~ 187 (284)
T TIGR02880 124 VLFIDEAYYLYRPDN---E------RDYGQEAIEILLQVMENQRDDLVVILAGYKDR-----MDSFFESNPGFSSR--VA 187 (284)
T ss_pred EEEEechhhhccCCC---c------cchHHHHHHHHHHHHhcCCCCEEEEEeCCcHH-----HHHHHhhCHHHHhh--CC
Confidence 677899976653311 0 01112456677777765444445555544221 0000 00111111 11
Q ss_pred CCCCcceeecCCCCHHHHHHHHHHHHhCCCcc-CcchHHHHHHh--------hCCCHHHHhhhc
Q psy3261 285 SIDPFVPIHVPELNDEEFHNLLNLYESKKWLQ-TSEGREEIAFL--------TKRVPQKMYEFC 339 (342)
Q Consensus 285 ~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~-~e~~~~el~~l--------SgGNP~~l~~lc 339 (342)
..|+++.|+.+|...+++++....-.. +++....+.-. .-||.|+++.+.
T Consensus 188 -----~~i~fp~l~~edl~~I~~~~l~~~~~~l~~~a~~~L~~~l~~~~~~~~~GN~R~lrn~v 246 (284)
T TIGR02880 188 -----HHVDFPDYSEAELLVIAGLMLKEQQYRFSAEAEEAFADYIALRRTQPHFANARSIRNAI 246 (284)
T ss_pred -----cEEEeCCcCHHHHHHHHHHHHHHhccccCHHHHHHHHHHHHHhCCCCCCChHHHHHHHH
Confidence 248999999999999999988764222 34333333221 249999998654
No 47
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=97.54 E-value=0.0066 Score=59.81 Aligned_cols=120 Identities=15% Similarity=0.156 Sum_probs=73.3
Q ss_pred chhHHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCC
Q psy3261 183 YASDVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPR 262 (342)
Q Consensus 183 ~a~~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~ 262 (342)
+..+.+..+.+.+...+ ....|.+|.||+...+ + ..-...|++.+.....+..+|+.+...
T Consensus 121 I~VdqiR~l~~~~~~~~-~~~~~kVviIDead~m----~--------------~~aanaLLK~LEepp~~~~~IL~t~~~ 181 (365)
T PRK07471 121 ITVDEVRELISFFGLTA-AEGGWRVVIVDTADEM----N--------------ANAANALLKVLEEPPARSLFLLVSHAP 181 (365)
T ss_pred ccHHHHHHHHHHhCcCc-ccCCCEEEEEechHhc----C--------------HHHHHHHHHHHhcCCCCeEEEEEECCc
Confidence 34455556666655433 3456778999997543 2 345678888887666667677765543
Q ss_pred CCCCCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHHhhCCCHHHHhhhcc
Q psy3261 263 ANLPDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAFLTKRVPQKMYEFCS 340 (342)
Q Consensus 263 ~~~~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~lSgGNP~~l~~lc~ 340 (342)
..+ +|. +. .-...+.++.++.+|+..+++... +.. .++....+..+|||||+....++.
T Consensus 182 ~~l-------lpt-i~--------SRc~~i~l~~l~~~~i~~~L~~~~--~~~-~~~~~~~l~~~s~Gsp~~Al~ll~ 240 (365)
T PRK07471 182 ARL-------LPT-IR--------SRCRKLRLRPLAPEDVIDALAAAG--PDL-PDDPRAALAALAEGSVGRALRLAG 240 (365)
T ss_pred hhc-------hHH-hh--------ccceEEECCCCCHHHHHHHHHHhc--ccC-CHHHHHHHHHHcCCCHHHHHHHhc
Confidence 311 111 10 001248999999999998886531 111 222223566699999998877753
No 48
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.52 E-value=0.0035 Score=61.44 Aligned_cols=98 Identities=7% Similarity=0.064 Sum_probs=59.3
Q ss_pred eEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhcCCC
Q psy3261 205 RTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKAGFE 284 (342)
Q Consensus 205 pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~g~~ 284 (342)
+-+|.||++..+-. .....|++.+........+|++++.... +...+..+ +
T Consensus 109 ~kiviIDE~~~l~~------------------~~~~~ll~~le~~~~~~~~Il~~~~~~k--------l~~~l~sr-~-- 159 (367)
T PRK14970 109 YKIYIIDEVHMLSS------------------AAFNAFLKTLEEPPAHAIFILATTEKHK--------IIPTILSR-C-- 159 (367)
T ss_pred cEEEEEeChhhcCH------------------HHHHHHHHHHhCCCCceEEEEEeCCccc--------CCHHHHhc-c--
Confidence 34689999854311 1256677777665556666777654221 11122211 1
Q ss_pred CCCCcceeecCCCCHHHHHHHHHHHHh-CCC-ccCcchHHHHHHhhCCCHHHHhh
Q psy3261 285 SIDPFVPIHVPELNDEEFHNLLNLYES-KKW-LQTSEGREEIAFLTKRVPQKMYE 337 (342)
Q Consensus 285 ~~dP~~~i~v~~~s~~E~~~ll~yy~~-~~~-l~~e~~~~el~~lSgGNP~~l~~ 337 (342)
..++++.++.+|+...+.-... .|. + +++..+.+-..++||++.+..
T Consensus 160 -----~~v~~~~~~~~~l~~~l~~~~~~~g~~i-~~~al~~l~~~~~gdlr~~~~ 208 (367)
T PRK14970 160 -----QIFDFKRITIKDIKEHLAGIAVKEGIKF-EDDALHIIAQKADGALRDALS 208 (367)
T ss_pred -----eeEecCCccHHHHHHHHHHHHHHcCCCC-CHHHHHHHHHhCCCCHHHHHH
Confidence 1378889999999988765544 454 3 455555566699999996544
No 49
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=97.52 E-value=0.0059 Score=63.49 Aligned_cols=119 Identities=13% Similarity=0.125 Sum_probs=71.5
Q ss_pred HHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCC
Q psy3261 186 DVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANL 265 (342)
Q Consensus 186 ~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~ 265 (342)
+.+..+++++......++++ ++.||++..+ . + .-...|++.+...+.+.++|++|+....
T Consensus 102 d~ir~i~~~v~~~p~~~~~k-ViIIDE~~~L-t--~---------------~a~naLLKtLEepp~~~ifIlatt~~~k- 161 (559)
T PRK05563 102 DEIRDIRDKVKYAPSEAKYK-VYIIDEVHML-S--T---------------GAFNALLKTLEEPPAHVIFILATTEPHK- 161 (559)
T ss_pred HHHHHHHHHHhhCcccCCeE-EEEEECcccC-C--H---------------HHHHHHHHHhcCCCCCeEEEEEeCChhh-
Confidence 44445555554332223444 5579998433 1 1 2355778888776677778888764321
Q ss_pred CCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 266 PDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 266 ~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
++..+..+. ..+++.+++.+|+...+++.... |+-..++....+-..++|+++.+..++
T Consensus 162 -------i~~tI~SRc--------~~~~f~~~~~~ei~~~L~~i~~~egi~i~~~al~~ia~~s~G~~R~al~~L 221 (559)
T PRK05563 162 -------IPATILSRC--------QRFDFKRISVEDIVERLKYILDKEGIEYEDEALRLIARAAEGGMRDALSIL 221 (559)
T ss_pred -------CcHHHHhHh--------eEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 222232221 12678889999999999887665 432144444456669999999876554
No 50
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=97.51 E-value=0.0053 Score=59.49 Aligned_cols=119 Identities=13% Similarity=0.136 Sum_probs=66.9
Q ss_pred HHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCC
Q psy3261 186 DVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANL 265 (342)
Q Consensus 186 ~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~ 265 (342)
+.+..+++++...+.-++.+ +|.||++..+-. .....|++.+.....+..+|++++...
T Consensus 100 ~~~~~l~~~~~~~p~~~~~~-vviidea~~l~~------------------~~~~~Ll~~le~~~~~~~lIl~~~~~~-- 158 (355)
T TIGR02397 100 DDIREILDNVKYAPSSGKYK-VYIIDEVHMLSK------------------SAFNALLKTLEEPPEHVVFILATTEPH-- 158 (355)
T ss_pred HHHHHHHHHHhcCcccCCce-EEEEeChhhcCH------------------HHHHHHHHHHhCCccceeEEEEeCCHH--
Confidence 33445566654332122333 666999854411 124567777755445555566653211
Q ss_pred CCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 266 PDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 266 ~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
+ ++..+..+ . ..++++.++.+|....+..+... |+--+++....+.-.++|+|+.+...+
T Consensus 159 -~-----l~~~l~sr-~-------~~~~~~~~~~~~l~~~l~~~~~~~g~~i~~~a~~~l~~~~~g~~~~a~~~l 219 (355)
T TIGR02397 159 -K-----IPATILSR-C-------QRFDFKRIPLEDIVERLKKILDKEGIKIEDEALELIARAADGSLRDALSLL 219 (355)
T ss_pred -H-----HHHHHHhh-e-------eEEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCChHHHHHHH
Confidence 0 11122211 1 13788899999999888766554 542145445556679999999887654
No 51
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.48 E-value=0.0035 Score=65.39 Aligned_cols=116 Identities=9% Similarity=0.123 Sum_probs=70.1
Q ss_pred HHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCC
Q psy3261 188 VDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPD 267 (342)
Q Consensus 188 ~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~ 267 (342)
+..+++.++.....++++|+| ||++..+ +. .-...|++++..-..+..+|++|+....
T Consensus 104 ir~l~~~~~~~p~~~~~KVvI-Idev~~L-t~-----------------~a~naLLk~LEepp~~~~fIl~t~~~~k--- 161 (576)
T PRK14965 104 IRELRENVKYLPSRSRYKIFI-IDEVHML-ST-----------------NAFNALLKTLEEPPPHVKFIFATTEPHK--- 161 (576)
T ss_pred HHHHHHHHHhccccCCceEEE-EEChhhC-CH-----------------HHHHHHHHHHHcCCCCeEEEEEeCChhh---
Confidence 444555554433345677755 9998332 21 2356888888776677888888865332
Q ss_pred CccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHh-CCCccCcchHHHHHHhhCCCHHHHhhh
Q psy3261 268 RRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYES-KKWLQTSEGREEIAFLTKRVPQKMYEF 338 (342)
Q Consensus 268 ~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~-~~~l~~e~~~~el~~lSgGNP~~l~~l 338 (342)
++.-+..+ . ..+++..++.+|+...+..... .|+--.++....+-..++|+.+.+..+
T Consensus 162 -----l~~tI~SR-c-------~~~~f~~l~~~~i~~~L~~i~~~egi~i~~~al~~la~~a~G~lr~al~~ 220 (576)
T PRK14965 162 -----VPITILSR-C-------QRFDFRRIPLQKIVDRLRYIADQEGISISDAALALVARKGDGSMRDSLST 220 (576)
T ss_pred -----hhHHHHHh-h-------hhhhcCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence 23222222 1 1267888999999888866544 454324544555666999999976543
No 52
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.47 E-value=0.0074 Score=63.39 Aligned_cols=118 Identities=14% Similarity=0.175 Sum_probs=71.2
Q ss_pred HHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCC
Q psy3261 186 DVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANL 265 (342)
Q Consensus 186 ~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~ 265 (342)
+.+..+++++......++++ +|.||+...+ + -.-...|++++..-..+..+|++++....+
T Consensus 104 d~Ir~li~~~~~~P~~~~~K-VvIIdea~~L----s--------------~~a~naLLK~LEepp~~tifIL~tt~~~kI 164 (614)
T PRK14971 104 DDIRNLIEQVRIPPQIGKYK-IYIIDEVHML----S--------------QAAFNAFLKTLEEPPSYAIFILATTEKHKI 164 (614)
T ss_pred HHHHHHHHHHhhCcccCCcE-EEEEECcccC----C--------------HHHHHHHHHHHhCCCCCeEEEEEeCCchhc
Confidence 44445556665432223445 4578886433 1 134678889988766677778877643211
Q ss_pred CCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCcc-CcchHHHHHHhhCCCHHHHhhh
Q psy3261 266 PDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQ-TSEGREEIAFLTKRVPQKMYEF 338 (342)
Q Consensus 266 ~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~-~e~~~~el~~lSgGNP~~l~~l 338 (342)
+| .+..+ +. .+++..++.+|+...+.+.....-+. .++....+-..+||+.+.+...
T Consensus 165 -------l~-tI~SR-c~-------iv~f~~ls~~ei~~~L~~ia~~egi~i~~~al~~La~~s~gdlr~al~~ 222 (614)
T PRK14971 165 -------LP-TILSR-CQ-------IFDFNRIQVADIVNHLQYVASKEGITAEPEALNVIAQKADGGMRDALSI 222 (614)
T ss_pred -------hH-HHHhh-hh-------eeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence 11 12211 11 37889999999999998766553343 4444555667999999966543
No 53
>PRK04195 replication factor C large subunit; Provisional
Probab=97.46 E-value=0.0094 Score=60.81 Aligned_cols=103 Identities=15% Similarity=0.155 Sum_probs=57.3
Q ss_pred ceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhcCC
Q psy3261 204 CRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKAGF 283 (342)
Q Consensus 204 ~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~g~ 283 (342)
.+-+|.||++..+....+ -.....|++++... +. .+|+++...... . +..+ ...
T Consensus 98 ~~kvIiIDEaD~L~~~~d--------------~~~~~aL~~~l~~~-~~-~iIli~n~~~~~-~------~k~L-rsr-- 151 (482)
T PRK04195 98 RRKLILLDEVDGIHGNED--------------RGGARAILELIKKA-KQ-PIILTANDPYDP-S------LREL-RNA-- 151 (482)
T ss_pred CCeEEEEecCcccccccc--------------hhHHHHHHHHHHcC-CC-CEEEeccCcccc-c------hhhH-hcc--
Confidence 466899999977654322 34456677777532 23 344433322110 1 0111 111
Q ss_pred CCCCCcceeecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhh
Q psy3261 284 ESIDPFVPIHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYE 337 (342)
Q Consensus 284 ~~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~ 337 (342)
...++++.++.+++...+...... |+--.++....+--.++|+.|.+..
T Consensus 152 -----~~~I~f~~~~~~~i~~~L~~i~~~egi~i~~eaL~~Ia~~s~GDlR~ain 201 (482)
T PRK04195 152 -----CLMIEFKRLSTRSIVPVLKRICRKEGIECDDEALKEIAERSGGDLRSAIN 201 (482)
T ss_pred -----ceEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHH
Confidence 124899999999999988765543 4321444444555688888876643
No 54
>PLN03025 replication factor C subunit; Provisional
Probab=97.45 E-value=0.0027 Score=61.19 Aligned_cols=47 Identities=21% Similarity=0.184 Sum_probs=34.5
Q ss_pred eecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhhh
Q psy3261 292 IHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYEF 338 (342)
Q Consensus 292 i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~l 338 (342)
++++.++.+|....+..-..+ |.--+++....+-..++|+.|.+...
T Consensus 153 i~f~~l~~~~l~~~L~~i~~~egi~i~~~~l~~i~~~~~gDlR~aln~ 200 (319)
T PLN03025 153 VRFSRLSDQEILGRLMKVVEAEKVPYVPEGLEAIIFTADGDMRQALNN 200 (319)
T ss_pred ccCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence 788999999999988776544 54325555566667899999887643
No 55
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.44 E-value=0.0064 Score=63.58 Aligned_cols=100 Identities=9% Similarity=0.071 Sum_probs=60.7
Q ss_pred eEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhcCCC
Q psy3261 205 RTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKAGFE 284 (342)
Q Consensus 205 pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~g~~ 284 (342)
..+|.||++..+- . .....|++++.....+..+|++|+.... ++..+..+-
T Consensus 120 ~kVIIIDEad~Lt-~-----------------~a~naLLk~LEEP~~~~ifILaTt~~~k--------ll~TI~SRc--- 170 (624)
T PRK14959 120 YKVFIIDEAHMLT-R-----------------EAFNALLKTLEEPPARVTFVLATTEPHK--------FPVTIVSRC--- 170 (624)
T ss_pred ceEEEEEChHhCC-H-----------------HHHHHHHHHhhccCCCEEEEEecCChhh--------hhHHHHhhh---
Confidence 3467799996552 1 2246678888765456667776654321 222222221
Q ss_pred CCCCcceeecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhhh
Q psy3261 285 SIDPFVPIHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYEF 338 (342)
Q Consensus 285 ~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~l 338 (342)
..+++..++.+|+...+...... |+-.+++....+-.+|+|+.+....+
T Consensus 171 -----q~i~F~pLs~~eL~~~L~~il~~egi~id~eal~lIA~~s~GdlR~Al~l 220 (624)
T PRK14959 171 -----QHFTFTRLSEAGLEAHLTKVLGREGVDYDPAAVRLIARRAAGSVRDSMSL 220 (624)
T ss_pred -----hccccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence 12788999999999888665443 54214544445556999999966554
No 56
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.44 E-value=0.0053 Score=64.31 Aligned_cols=117 Identities=10% Similarity=0.129 Sum_probs=69.3
Q ss_pred HHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCC
Q psy3261 188 VDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPD 267 (342)
Q Consensus 188 ~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~ 267 (342)
+..+++.+......++++ ++.||++..+- ... ...|++.+..-.....+|++|+....
T Consensus 109 iReli~~~~~~p~~g~~K-V~IIDEvh~Ls-~~a-----------------~NaLLKtLEEPP~~~~fIL~Ttd~~k--- 166 (618)
T PRK14951 109 VQQLLEQAVYKPVQGRFK-VFMIDEVHMLT-NTA-----------------FNAMLKTLEEPPEYLKFVLATTDPQK--- 166 (618)
T ss_pred HHHHHHHHHhCcccCCce-EEEEEChhhCC-HHH-----------------HHHHHHhcccCCCCeEEEEEECCchh---
Confidence 344444443322234455 56899995542 211 34677777665666677777754221
Q ss_pred CccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHH-hCCCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 268 RRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYE-SKKWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 268 ~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~-~~~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
++.-++.+ + ..+++..++.+|+...+.... ..|+-.+++....+...++|+++.+..++
T Consensus 167 -----il~TIlSR-c-------~~~~f~~Ls~eei~~~L~~i~~~egi~ie~~AL~~La~~s~GslR~al~lL 226 (618)
T PRK14951 167 -----VPVTVLSR-C-------LQFNLRPMAPETVLEHLTQVLAAENVPAEPQALRLLARAARGSMRDALSLT 226 (618)
T ss_pred -----hhHHHHHh-c-------eeeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 22222222 1 137899999999998887654 44544234344556679999999988764
No 57
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=97.43 E-value=0.0069 Score=64.96 Aligned_cols=129 Identities=12% Similarity=0.202 Sum_probs=71.6
Q ss_pred HHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcC--CCCCeEEEEEeCCCCCC
Q psy3261 188 VDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQS--DWNNGAIVLALSPRANL 265 (342)
Q Consensus 188 ~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~--~~~~G~vv~AtS~~~~~ 265 (342)
+..+++..++ ..|.+|.+|++.+++..-. - ... ....=.++..|+..+.| +-.+.+||+||+....
T Consensus 535 i~~~f~~A~~-----~~p~iifiDEid~l~~~r~-~---~~~--~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~- 602 (733)
T TIGR01243 535 IREIFRKARQ-----AAPAIIFFDEIDAIAPARG-A---RFD--TSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDI- 602 (733)
T ss_pred HHHHHHHHHh-----cCCEEEEEEChhhhhccCC-C---CCC--ccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhh-
Confidence 3445555444 4688999999998876422 0 000 00011355555555554 2344455555543221
Q ss_pred CCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHH-hhCCCHHHHhhhcc
Q psy3261 266 PDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAF-LTKRVPQKMYEFCS 340 (342)
Q Consensus 266 ~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~-lSgGNP~~l~~lc~ 340 (342)
+...+++.-.|+. .+.|+..+.++-..++..+....-+..+....++-- ..|-++.++..+|.
T Consensus 603 -------ld~allRpgRfd~-----~i~v~~Pd~~~R~~i~~~~~~~~~~~~~~~l~~la~~t~g~sgadi~~~~~ 666 (733)
T TIGR01243 603 -------LDPALLRPGRFDR-----LILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCR 666 (733)
T ss_pred -------CCHhhcCCCccce-----EEEeCCcCHHHHHHHHHHHhcCCCCCccCCHHHHHHHcCCCCHHHHHHHHH
Confidence 2234443223543 378888899999999887765443422222334443 45668888888884
No 58
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=97.42 E-value=0.0047 Score=65.56 Aligned_cols=120 Identities=13% Similarity=0.219 Sum_probs=72.4
Q ss_pred hHHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCC
Q psy3261 185 SDVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRAN 264 (342)
Q Consensus 185 ~~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~ 264 (342)
.+.+..+++++...+..++++ ++.||++..+ .. .-..+|++.+...+...++|++|+....
T Consensus 100 vd~IReLie~~~~~P~~g~~K-V~IIDEa~~L-T~-----------------~A~NALLKtLEEPP~~tifILaTte~~K 160 (725)
T PRK07133 100 VDEIRELIENVKNLPTQSKYK-IYIIDEVHML-SK-----------------SAFNALLKTLEEPPKHVIFILATTEVHK 160 (725)
T ss_pred HHHHHHHHHHHHhchhcCCCE-EEEEEChhhC-CH-----------------HHHHHHHHHhhcCCCceEEEEEcCChhh
Confidence 344556666665443234555 5579998433 21 2366788888776677777888754321
Q ss_pred CCCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHH-hCCCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 265 LPDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYE-SKKWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 265 ~~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~-~~~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
++..+..+- .++++.+++.+|+...+.... ..|+-..++....+-.+|+|++|.+..++
T Consensus 161 --------Ll~TI~SRc--------q~ieF~~L~~eeI~~~L~~il~kegI~id~eAl~~LA~lS~GslR~AlslL 220 (725)
T PRK07133 161 --------IPLTILSRV--------QRFNFRRISEDEIVSRLEFILEKENISYEKNALKLIAKLSSGSLRDALSIA 220 (725)
T ss_pred --------hhHHHHhhc--------eeEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 222232221 138899999999998886543 44543233334446669999999776543
No 59
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=97.38 E-value=0.0051 Score=66.51 Aligned_cols=101 Identities=6% Similarity=-0.022 Sum_probs=62.7
Q ss_pred CCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhc
Q psy3261 202 GVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKA 281 (342)
Q Consensus 202 ~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~ 281 (342)
++++|+| ||++..+- -.-.+.|++++..-..+..+|++|+.... +...+ ...
T Consensus 119 ~~~KV~I-IDEad~lt------------------~~a~NaLLK~LEEpP~~~~fIl~tt~~~k--------Ll~TI-rSR 170 (824)
T PRK07764 119 SRYKIFI-IDEAHMVT------------------PQGFNALLKIVEEPPEHLKFIFATTEPDK--------VIGTI-RSR 170 (824)
T ss_pred CCceEEE-EechhhcC------------------HHHHHHHHHHHhCCCCCeEEEEEeCChhh--------hhHHH-Hhh
Confidence 5677765 99995552 23456899999887778888888754321 11111 111
Q ss_pred CCCCCCCcceeecCCCCHHHHHHHHHH-HHhCCCccCcchHHHHHHhhCCCHHHHhh
Q psy3261 282 GFESIDPFVPIHVPELNDEEFHNLLNL-YESKKWLQTSEGREEIAFLTKRVPQKMYE 337 (342)
Q Consensus 282 g~~~~dP~~~i~v~~~s~~E~~~ll~y-y~~~~~l~~e~~~~el~~lSgGNP~~l~~ 337 (342)
.. .+++..++.+++...+.. +...|+-..++....+-.++||+++.+..
T Consensus 171 c~-------~v~F~~l~~~~l~~~L~~il~~EGv~id~eal~lLa~~sgGdlR~Al~ 220 (824)
T PRK07764 171 TH-------HYPFRLVPPEVMRGYLERICAQEGVPVEPGVLPLVIRAGGGSVRDSLS 220 (824)
T ss_pred ee-------EEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHH
Confidence 11 267888999999887755 44556432333334455599999975543
No 60
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=97.32 E-value=0.019 Score=55.76 Aligned_cols=119 Identities=13% Similarity=0.154 Sum_probs=74.2
Q ss_pred chhHHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCC
Q psy3261 183 YASDVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPR 262 (342)
Q Consensus 183 ~a~~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~ 262 (342)
...+.+..+++++...+..+..+|+| ||+...+ + .+-...|++.+.....+..+|++|+..
T Consensus 86 i~id~iR~l~~~~~~~~~~~~~kv~i-I~~a~~m----~--------------~~aaNaLLK~LEEPp~~~~fiL~t~~~ 146 (328)
T PRK05707 86 IKVDQVRELVSFVVQTAQLGGRKVVL-IEPAEAM----N--------------RNAANALLKSLEEPSGDTVLLLISHQP 146 (328)
T ss_pred CCHHHHHHHHHHHhhccccCCCeEEE-ECChhhC----C--------------HHHHHHHHHHHhCCCCCeEEEEEECCh
Confidence 33566666777776544356788885 7998555 2 456789999998777778888777664
Q ss_pred CCCCCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 263 ANLPDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 263 ~~~~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
..+ +| -+.-+- ..+.++..+.+|+...+..-. +-. .++....+..+++|+|....+++
T Consensus 147 ~~l-------l~-TI~SRc--------~~~~~~~~~~~~~~~~L~~~~--~~~-~~~~~~~~l~la~Gsp~~A~~l~ 204 (328)
T PRK05707 147 SRL-------LP-TIKSRC--------QQQACPLPSNEESLQWLQQAL--PES-DERERIELLTLAGGSPLRALQLH 204 (328)
T ss_pred hhC-------cH-HHHhhc--------eeeeCCCcCHHHHHHHHHHhc--ccC-ChHHHHHHHHHcCCCHHHHHHHH
Confidence 321 11 111110 126778889998877775321 112 23333456679999998776654
No 61
>KOG2228|consensus
Probab=97.32 E-value=0.0079 Score=58.11 Aligned_cols=149 Identities=19% Similarity=0.248 Sum_probs=91.8
Q ss_pred hhHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhC--CeEEEEeCCccccccCCcceeccCCCCCccc
Q psy3261 48 NCMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHEN--NYLLVHIPWVLRWFAYPKEVSHSLTKEGMVD 125 (342)
Q Consensus 48 ~~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~--gwiVl~vP~~~~~~~~~~~~~~s~~~~~~~~ 125 (342)
++-.+|-..+++ +.--+..+.++|.||+|||||+++.++..-+.++ +.++++.. |.+.
T Consensus 31 ~~~~~l~~~lkq-t~~~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Ln-------------------g~~~ 90 (408)
T KOG2228|consen 31 DEQKHLSELLKQ-TILHGESNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLN-------------------GELQ 90 (408)
T ss_pred HHHHHHHHHHHH-HHHhcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEEC-------------------ccch
Confidence 345566667766 4344678899999999999999999999986654 56666651 1121
Q ss_pred c-HHHHHHHHHHHHHhCccccCCCCcccccceecCCCCCCCCCCCHHHHHHhhcccccchhHHHHHHHHHHhccccCCCc
Q psy3261 126 L-NIDAAMWLRHFQKQNTKWLEDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKYASDVVDVLFTEIKKLSTEGVC 204 (342)
Q Consensus 126 q-P~~a~~~L~~~~~~N~~~L~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~~~~l~~EL~~~~~~~~~ 204 (342)
. -..-..+-+++...|....+ . .-.-++.+..++.-|++-....+.
T Consensus 91 ~dk~al~~I~rql~~e~~~~~k--------------------------------~-~gsfte~l~~lL~~L~~~~~~t~~ 137 (408)
T KOG2228|consen 91 TDKIALKGITRQLALELNRIVK--------------------------------S-FGSFTENLSKLLEALKKGDETTSG 137 (408)
T ss_pred hhHHHHHHHHHHHHHHHhhhhe--------------------------------e-ecccchhHHHHHHHHhcCCCCCCc
Confidence 1 01222222233222211111 0 001123344455555553334578
Q ss_pred eEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCC
Q psy3261 205 RTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRA 263 (342)
Q Consensus 205 pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~ 263 (342)
||++..|+|.-|.+.+- =++...+.++....-.-.+|++.|++-.
T Consensus 138 ~ViFIldEfDlf~~h~r--------------QtllYnlfDisqs~r~Piciig~Ttrld 182 (408)
T KOG2228|consen 138 KVIFILDEFDLFAPHSR--------------QTLLYNLFDISQSARAPICIIGVTTRLD 182 (408)
T ss_pred eEEEEeehhhccccchh--------------hHHHHHHHHHHhhcCCCeEEEEeecccc
Confidence 99999999955555444 6888899999887667788888888755
No 62
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.31 E-value=0.011 Score=61.73 Aligned_cols=113 Identities=8% Similarity=0.003 Sum_probs=67.9
Q ss_pred HHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCc
Q psy3261 190 VLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRR 269 (342)
Q Consensus 190 ~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~ 269 (342)
.+++++......++++ ++.||++..+ .. .-...|++.+.....+-.+|++|++...
T Consensus 105 el~~~~~~~P~~~~~K-VvIIDEah~L-t~-----------------~A~NALLK~LEEpp~~~~fIL~tte~~k----- 160 (584)
T PRK14952 105 ELRDRAFYAPAQSRYR-IFIVDEAHMV-TT-----------------AGFNALLKIVEEPPEHLIFIFATTEPEK----- 160 (584)
T ss_pred HHHHHHHhhhhcCCce-EEEEECCCcC-CH-----------------HHHHHHHHHHhcCCCCeEEEEEeCChHh-----
Confidence 3444443322223555 5689998433 21 2456788888877778888888865321
Q ss_pred cCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhh
Q psy3261 270 ESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYE 337 (342)
Q Consensus 270 ~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~ 337 (342)
++..+..+ +. .+++..++.+|+...+.+.... |.-.+++....+...++|++|....
T Consensus 161 ---ll~TI~SR-c~-------~~~F~~l~~~~i~~~L~~i~~~egi~i~~~al~~Ia~~s~GdlR~aln 218 (584)
T PRK14952 161 ---VLPTIRSR-TH-------HYPFRLLPPRTMRALIARICEQEGVVVDDAVYPLVIRAGGGSPRDTLS 218 (584)
T ss_pred ---hHHHHHHh-ce-------EEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHH
Confidence 22222222 21 3788899999999888776554 5432343334455699999995543
No 63
>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=97.31 E-value=0.00053 Score=56.13 Aligned_cols=38 Identities=18% Similarity=0.280 Sum_probs=30.3
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.....++|+|++|||||+++.++.......+.-|++++
T Consensus 17 ~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~ 54 (151)
T cd00009 17 PPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLN 54 (151)
T ss_pred CCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEe
Confidence 35678999999999999999999888775566666553
No 64
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.29 E-value=0.0087 Score=60.95 Aligned_cols=100 Identities=12% Similarity=0.057 Sum_probs=62.1
Q ss_pred ceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhcCC
Q psy3261 204 CRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKAGF 283 (342)
Q Consensus 204 ~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~g~ 283 (342)
.+-+|.||++..+- .. ....|++.+.....+.++|+||+.... ++..+..+
T Consensus 117 ~~kVvIIDE~h~Lt-~~-----------------a~~~LLk~LE~p~~~vv~Ilattn~~k--------l~~~L~SR--- 167 (472)
T PRK14962 117 KYKVYIIDEVHMLT-KE-----------------AFNALLKTLEEPPSHVVFVLATTNLEK--------VPPTIISR--- 167 (472)
T ss_pred CeEEEEEEChHHhH-HH-----------------HHHHHHHHHHhCCCcEEEEEEeCChHh--------hhHHHhcC---
Confidence 34578899995542 11 235667777665555666777763211 23333222
Q ss_pred CCCCCcceeecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhh
Q psy3261 284 ESIDPFVPIHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYE 337 (342)
Q Consensus 284 ~~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~ 337 (342)
+..+++.+++.+|....++..... |+--+++....+-..++|+.|.+..
T Consensus 168 -----~~vv~f~~l~~~el~~~L~~i~~~egi~i~~eal~~Ia~~s~GdlR~aln 217 (472)
T PRK14962 168 -----CQVIEFRNISDELIIKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALT 217 (472)
T ss_pred -----cEEEEECCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCHHHHHH
Confidence 124888999999999999887643 5432555555666689999986543
No 65
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=97.28 E-value=0.0077 Score=60.97 Aligned_cols=49 Identities=12% Similarity=0.079 Sum_probs=36.7
Q ss_pred eeecCCCCHHHHHHHHHHHHhC-CC-cc-CcchHHHHHHhhCCCHHHHhhhc
Q psy3261 291 PIHVPELNDEEFHNLLNLYESK-KW-LQ-TSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 291 ~i~v~~~s~~E~~~ll~yy~~~-~~-l~-~e~~~~el~~lSgGNP~~l~~lc 339 (342)
.+.+..++.++...+++...+. |+ +. +++....+...++||+|.|..+|
T Consensus 269 ~~~L~~pd~e~r~~iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL 320 (450)
T PRK14087 269 SIAIQKLDNKTATAIIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSV 320 (450)
T ss_pred eeccCCcCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHH
Confidence 3678899999999999877765 53 12 45444446668999999998877
No 66
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=97.27 E-value=0.0037 Score=62.94 Aligned_cols=118 Identities=13% Similarity=0.242 Sum_probs=64.1
Q ss_pred CceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhh---cC-CCCCeE-EEEEeCCCCCCCCCccCcchhHH
Q psy3261 203 VCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLV---QS-DWNNGA-IVLALSPRANLPDRRESHLPLYM 277 (342)
Q Consensus 203 ~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~---~~-~~~~G~-vv~AtS~~~~~~~~~~~~~p~~l 277 (342)
..|.++.+|++.+++.... ...... +-.+.+.++.++ .+ +-..++ ||+||..-. .++..+
T Consensus 275 ~~P~ILfIDEID~l~~kR~--~~~sgg-----~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATNr~d--------~LDpaL 339 (438)
T PTZ00361 275 NAPSIVFIDEIDAIGTKRY--DATSGG-----EKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIE--------SLDPAL 339 (438)
T ss_pred CCCcEEeHHHHHHHhccCC--CCCCcc-----cHHHHHHHHHHHHHHhhhcccCCeEEEEecCChH--------HhhHHh
Confidence 4688999999988875421 111111 112223333333 22 223344 455543211 133344
Q ss_pred hhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHH-HhhCCCHHHHhhhcc
Q psy3261 278 LKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIA-FLTKRVPQKMYEFCS 340 (342)
Q Consensus 278 lg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~-~lSgGNP~~l~~lc~ 340 (342)
++...|+. .|+++..+.++-..+++.|...--+..+....++- ...|-++.++..+|.
T Consensus 340 lRpGRfd~-----~I~~~~Pd~~~R~~Il~~~~~k~~l~~dvdl~~la~~t~g~sgAdI~~i~~ 398 (438)
T PTZ00361 340 IRPGRIDR-----KIEFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICT 398 (438)
T ss_pred ccCCeeEE-----EEEeCCCCHHHHHHHHHHHHhcCCCCcCcCHHHHHHhcCCCCHHHHHHHHH
Confidence 43222321 48999999999999999887654442121223333 466889999999884
No 67
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.27 E-value=0.011 Score=61.17 Aligned_cols=116 Identities=11% Similarity=0.232 Sum_probs=67.9
Q ss_pred HHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCC
Q psy3261 189 DVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDR 268 (342)
Q Consensus 189 ~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~ 268 (342)
..+++++......++ .-++.||+...+ + -.-...|++++..-.....+|++|+....
T Consensus 105 r~ii~~~~~~p~~g~-~kViIIDEa~~l----s--------------~~a~naLLK~LEepp~~v~fIL~Ttd~~k---- 161 (546)
T PRK14957 105 KEILDNIQYMPSQGR-YKVYLIDEVHML----S--------------KQSFNALLKTLEEPPEYVKFILATTDYHK---- 161 (546)
T ss_pred HHHHHHHHhhhhcCC-cEEEEEechhhc----c--------------HHHHHHHHHHHhcCCCCceEEEEECChhh----
Confidence 344445443221233 457889998333 1 23456888888765667777888754321
Q ss_pred ccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHh-CCCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 269 RESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYES-KKWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 269 ~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~-~~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
++.-+..+ . ..+++..++.+|+...+..-.. .|+-..++....+-..|+|++|.+..++
T Consensus 162 ----il~tI~SR-c-------~~~~f~~Ls~~eI~~~L~~il~~egi~~e~~Al~~Ia~~s~GdlR~alnlL 221 (546)
T PRK14957 162 ----IPVTILSR-C-------IQLHLKHISQADIKDQLKIILAKENINSDEQSLEYIAYHAKGSLRDALSLL 221 (546)
T ss_pred ----hhhhHHHh-e-------eeEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 12122211 1 1378999999999977766433 3543244444556669999999665543
No 68
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.27 E-value=0.0059 Score=63.00 Aligned_cols=119 Identities=10% Similarity=0.137 Sum_probs=67.8
Q ss_pred HHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCC
Q psy3261 186 DVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANL 265 (342)
Q Consensus 186 ~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~ 265 (342)
+.+..+++++......+++ -++.||+...+ . -.-...|++.+.....+..+|++|+....
T Consensus 102 d~ir~l~~~~~~~p~~~~~-kVvIIDEad~l-s-----------------~~a~naLLK~LEepp~~~~fIL~t~d~~k- 161 (527)
T PRK14969 102 DAMRELLDNAQYAPTRGRF-KVYIIDEVHML-S-----------------KSAFNAMLKTLEEPPEHVKFILATTDPQK- 161 (527)
T ss_pred HHHHHHHHHHhhCcccCCc-eEEEEcCcccC-C-----------------HHHHHHHHHHHhCCCCCEEEEEEeCChhh-
Confidence 3344444444322212333 46889998433 1 12345788888776667778888754321
Q ss_pred CCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHH-HHhCCCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 266 PDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNL-YESKKWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 266 ~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~y-y~~~~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
++.-+..+ . ..+++..++.+|+...+.. ....|+-..++....+-..|+|+++....+|
T Consensus 162 -------il~tI~SR-c-------~~~~f~~l~~~~i~~~L~~il~~egi~~~~~al~~la~~s~Gslr~al~ll 221 (527)
T PRK14969 162 -------IPVTVLSR-C-------LQFNLKQMPPPLIVSHLQHILEQENIPFDATALQLLARAAAGSMRDALSLL 221 (527)
T ss_pred -------CchhHHHH-H-------HHHhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 11112211 1 1268888999999977754 4445643233333445569999999877665
No 69
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.24 E-value=0.014 Score=59.56 Aligned_cols=116 Identities=9% Similarity=0.075 Sum_probs=67.4
Q ss_pred HHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCC
Q psy3261 189 DVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDR 268 (342)
Q Consensus 189 ~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~ 268 (342)
..+.+.+......++ +-++.||++..+- . .....|++++.......++|++|+....
T Consensus 105 r~I~~~~~~~P~~~~-~KVvIIDEad~Lt-~-----------------~a~naLLk~LEepp~~~v~Il~tt~~~k---- 161 (486)
T PRK14953 105 RALRDAVSYTPIKGK-YKVYIIDEAHMLT-K-----------------EAFNALLKTLEEPPPRTIFILCTTEYDK---- 161 (486)
T ss_pred HHHHHHHHhCcccCC-eeEEEEEChhhcC-H-----------------HHHHHHHHHHhcCCCCeEEEEEECCHHH----
Confidence 344444443321223 4477899985331 1 2245677888766667777777754221
Q ss_pred ccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 269 RESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 269 ~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
++..+..+ + ..+.++.++.+|+...+...... |+-..++....+-..++||++.+..++
T Consensus 162 ----l~~tI~SR-c-------~~i~f~~ls~~el~~~L~~i~k~egi~id~~al~~La~~s~G~lr~al~~L 221 (486)
T PRK14953 162 ----IPPTILSR-C-------QRFIFSKPTKEQIKEYLKRICNEEKIEYEEKALDLLAQASEGGMRDAASLL 221 (486)
T ss_pred ----HHHHHHHh-c-------eEEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 22222222 1 13788899999999888765544 543233334445569999999766554
No 70
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=97.24 E-value=0.0006 Score=62.14 Aligned_cols=51 Identities=25% Similarity=0.241 Sum_probs=38.8
Q ss_pred HHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 52 ELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 52 el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
+++..++++.........++|+|++|||||.++..+...+...|+-+++|.
T Consensus 27 ~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~ 77 (227)
T PRK08903 27 ELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLD 77 (227)
T ss_pred HHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence 345555553333345678999999999999999999988888888877764
No 71
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=97.21 E-value=0.0085 Score=62.69 Aligned_cols=116 Identities=8% Similarity=0.103 Sum_probs=69.3
Q ss_pred HHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCC
Q psy3261 188 VDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPD 267 (342)
Q Consensus 188 ~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~ 267 (342)
+..+++.+......++++| |.||+...+ . -.-...|++.+..-.....+|+++++...
T Consensus 117 IReIie~~~~~P~~a~~KV-vIIDEad~L-s-----------------~~a~naLLKtLEePp~~~~fIl~tte~~k--- 174 (598)
T PRK09111 117 IREIIESVRYRPVSARYKV-YIIDEVHML-S-----------------TAAFNALLKTLEEPPPHVKFIFATTEIRK--- 174 (598)
T ss_pred HHHHHHHHHhchhcCCcEE-EEEEChHhC-C-----------------HHHHHHHHHHHHhCCCCeEEEEEeCChhh---
Confidence 3444444433222235555 789997333 1 12357888888776677777888754321
Q ss_pred CccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhhh
Q psy3261 268 RRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYEF 338 (342)
Q Consensus 268 ~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~l 338 (342)
++.-+..+ . ..+++..++.+|+...+.-.... |.-.+++....+...++|+++.+..+
T Consensus 175 -----ll~tI~SR-c-------q~~~f~~l~~~el~~~L~~i~~kegi~i~~eAl~lIa~~a~Gdlr~al~~ 233 (598)
T PRK09111 175 -----VPVTVLSR-C-------QRFDLRRIEADVLAAHLSRIAAKEGVEVEDEALALIARAAEGSVRDGLSL 233 (598)
T ss_pred -----hhHHHHhh-e-------eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence 22122211 1 13789999999999888665443 43224555555677999999987654
No 72
>PRK08084 DNA replication initiation factor; Provisional
Probab=97.20 E-value=0.00066 Score=62.65 Aligned_cols=38 Identities=21% Similarity=0.218 Sum_probs=31.4
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCC
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPW 103 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~ 103 (342)
....++|+|++|||||.++..+.+.+..+|.=|+|++-
T Consensus 44 ~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~ 81 (235)
T PRK08084 44 HSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPL 81 (235)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEH
Confidence 34689999999999999999888888877877777643
No 73
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.18 E-value=0.014 Score=61.08 Aligned_cols=100 Identities=9% Similarity=0.055 Sum_probs=59.8
Q ss_pred eEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhcCCC
Q psy3261 205 RTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKAGFE 284 (342)
Q Consensus 205 pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~g~~ 284 (342)
.-+|.||++..+ .. .-...|++++.....+..+|++++.... +...+. ...
T Consensus 121 ~kVvIIDEa~~L-~~-----------------~a~naLLk~LEepp~~tv~Il~t~~~~k--------ll~tI~-SR~-- 171 (585)
T PRK14950 121 YKVYIIDEVHML-ST-----------------AAFNALLKTLEEPPPHAIFILATTEVHK--------VPATIL-SRC-- 171 (585)
T ss_pred eEEEEEeChHhC-CH-----------------HHHHHHHHHHhcCCCCeEEEEEeCChhh--------hhHHHH-hcc--
Confidence 346789998433 11 2345678888766566677776643221 111111 111
Q ss_pred CCCCcceeecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhhh
Q psy3261 285 SIDPFVPIHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYEF 338 (342)
Q Consensus 285 ~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~l 338 (342)
..+++..++..|+...+...... |+--+++....+-.+++||++.+...
T Consensus 172 -----~~i~f~~l~~~el~~~L~~~a~~egl~i~~eal~~La~~s~Gdlr~al~~ 221 (585)
T PRK14950 172 -----QRFDFHRHSVADMAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAENL 221 (585)
T ss_pred -----ceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence 13778889999999888766544 44214444555666999999977653
No 74
>PRK06835 DNA replication protein DnaC; Validated
Probab=97.18 E-value=0.0011 Score=64.48 Aligned_cols=92 Identities=15% Similarity=0.265 Sum_probs=61.5
Q ss_pred EeCHHHHHHhhhcCCCChhhHHh-hhhcCCc----------eEEechhHHHHHHHHHhcc-CCCCCCCeEEEEccCCCcH
Q psy3261 13 TLPDEVRSAIFELGGITRVFNEQ-TQIFNES----------SILIRNCMLELVGYLKSMT-NFDRPSPRFVLYGEHGVGK 80 (342)
Q Consensus 13 ~~~~~~~~~l~~~g~l~~~~~~~-~~~~~~~----------~~lvR~~t~el~~~l~~~~-~~~~~~~r~vL~G~~GsGK 80 (342)
.+-...++.++..-++++.+.+. |+.|.-- ..--|+...++++...+++ ++......++|+|+.|+||
T Consensus 117 C~~q~~i~~~~~~S~i~~~~~~~~F~nf~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~f~~~f~~~~~~Lll~G~~GtGK 196 (329)
T PRK06835 117 CYKQKLINLYYKQSNLKEILKEENFSNFNLNYYSDEKDDDEPLSPRKNMEKILEKCKNFIENFDKNNENLLFYGNTGTGK 196 (329)
T ss_pred chhHHHHHHHHHHcCCchHHHhCChhhCCccccCccccccCCCCHHHHHHHHHHHHHHHHHHHhccCCcEEEECCCCCcH
Confidence 34455677777777899877654 7777522 1134555445554333211 1223447799999999999
Q ss_pred HHHHHHHHHHHHhCCeEEEEeCCc
Q psy3261 81 SMALVYALQYAHENNYLLVHIPWV 104 (342)
Q Consensus 81 S~~L~q~~~~A~~~gwiVl~vP~~ 104 (342)
|.++.-+...+..+|.-|+|++..
T Consensus 197 ThLa~aIa~~l~~~g~~V~y~t~~ 220 (329)
T PRK06835 197 TFLSNCIAKELLDRGKSVIYRTAD 220 (329)
T ss_pred HHHHHHHHHHHHHCCCeEEEEEHH
Confidence 998888888888889989888654
No 75
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.16 E-value=0.015 Score=61.17 Aligned_cols=118 Identities=11% Similarity=0.094 Sum_probs=67.5
Q ss_pred HHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCC
Q psy3261 186 DVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANL 265 (342)
Q Consensus 186 ~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~ 265 (342)
+.+..+++.+......++.+ +|.||++..+ . -.....|++++.....+.++|++|+...
T Consensus 104 d~IReii~~a~~~p~~~~~K-ViIIDEad~L-t-----------------~~a~naLLK~LEePp~~tvfIL~t~~~~-- 162 (620)
T PRK14948 104 DNIRELIERAQFAPVQARWK-VYVIDECHML-S-----------------TAAFNALLKTLEEPPPRVVFVLATTDPQ-- 162 (620)
T ss_pred HHHHHHHHHHhhChhcCCce-EEEEECcccc-C-----------------HHHHHHHHHHHhcCCcCeEEEEEeCChh--
Confidence 34444554443221123444 5679997444 1 1345678888887666777777775321
Q ss_pred CCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhC-CCccCcchHHHHHHhhCCCHHHHhhh
Q psy3261 266 PDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESK-KWLQTSEGREEIAFLTKRVPQKMYEF 338 (342)
Q Consensus 266 ~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~l~~e~~~~el~~lSgGNP~~l~~l 338 (342)
. -+| .+..+- ..+++..++.+|+...+...... |.-..++....+-..++|+++.+..+
T Consensus 163 ----~-llp-TIrSRc--------~~~~f~~l~~~ei~~~L~~ia~kegi~is~~al~~La~~s~G~lr~A~~l 222 (620)
T PRK14948 163 ----R-VLP-TIISRC--------QRFDFRRIPLEAMVQHLSEIAEKESIEIEPEALTLVAQRSQGGLRDAESL 222 (620)
T ss_pred ----h-hhH-HHHhhe--------eEEEecCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence 1 112 222121 13678889999998887766554 43213444445666999999977654
No 76
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=97.12 E-value=0.021 Score=59.44 Aligned_cols=116 Identities=13% Similarity=0.119 Sum_probs=68.2
Q ss_pred HHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCC
Q psy3261 189 DVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDR 268 (342)
Q Consensus 189 ~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~ 268 (342)
..+++++......++++| +.||++..+ .. .....|++.+...+.+..+|++++.-..
T Consensus 105 r~l~e~~~~~p~~~~~KV-vIIDEa~~L-s~-----------------~a~naLLK~LEepp~~~vfI~~tte~~k---- 161 (563)
T PRK06647 105 RQIKEEIMFPPASSRYRV-YIIDEVHML-SN-----------------SAFNALLKTIEEPPPYIVFIFATTEVHK---- 161 (563)
T ss_pred HHHHHHHHhchhcCCCEE-EEEEChhhc-CH-----------------HHHHHHHHhhccCCCCEEEEEecCChHH----
Confidence 344445443322345565 559997433 11 2356788888766667777887754221
Q ss_pred ccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHH-hCCCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 269 RESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYE-SKKWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 269 ~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~-~~~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
++..+..+ . ..+++..++.+|....+.... ..|+-.+++....+-..++|+++.+..++
T Consensus 162 ----L~~tI~SR-c-------~~~~f~~l~~~el~~~L~~i~~~egi~id~eAl~lLa~~s~GdlR~alslL 221 (563)
T PRK06647 162 ----LPATIKSR-C-------QHFNFRLLSLEKIYNMLKKVCLEDQIKYEDEALKWIAYKSTGSVRDAYTLF 221 (563)
T ss_pred ----hHHHHHHh-c-------eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 22223222 1 126788899999988886654 34433245445556679999999776543
No 77
>PF13245 AAA_19: Part of AAA domain
Probab=97.11 E-value=0.00082 Score=51.15 Aligned_cols=35 Identities=26% Similarity=0.375 Sum_probs=28.1
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhC----CeEEEEe
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHEN----NYLLVHI 101 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~----gwiVl~v 101 (342)
...++|.|++|||||+++.+++.+...+ +.=|+.+
T Consensus 10 ~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~ 48 (76)
T PF13245_consen 10 SPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVL 48 (76)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEE
Confidence 4567779999999999999999988854 5555555
No 78
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=97.11 E-value=0.02 Score=56.97 Aligned_cols=113 Identities=11% Similarity=0.096 Sum_probs=65.1
Q ss_pred HHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCC
Q psy3261 188 VDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPD 267 (342)
Q Consensus 188 ~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~ 267 (342)
+..+++++...+..+.++ ++.||++..+-. .-...|++.+.....+..+|++|+....
T Consensus 102 iR~l~~~~~~~p~~~~~k-ViiIDead~m~~------------------~aanaLLk~LEep~~~~~fIL~a~~~~~--- 159 (394)
T PRK07940 102 VRELVTIAARRPSTGRWR-IVVIEDADRLTE------------------RAANALLKAVEEPPPRTVWLLCAPSPED--- 159 (394)
T ss_pred HHHHHHHHHhCcccCCcE-EEEEechhhcCH------------------HHHHHHHHHhhcCCCCCeEEEEECChHH---
Confidence 445555554332223444 566799966622 2346688888766667777777665321
Q ss_pred CccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 268 RRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 268 ~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
++.-+..+ ...+.++..+.+|+...+.- ..| + .++....+-.+|+|+|....+++
T Consensus 160 -----llpTIrSR--------c~~i~f~~~~~~~i~~~L~~--~~~-~-~~~~a~~la~~s~G~~~~A~~l~ 214 (394)
T PRK07940 160 -----VLPTIRSR--------CRHVALRTPSVEAVAEVLVR--RDG-V-DPETARRAARASQGHIGRARRLA 214 (394)
T ss_pred -----ChHHHHhh--------CeEEECCCCCHHHHHHHHHH--hcC-C-CHHHHHHHHHHcCCCHHHHHHHh
Confidence 11112111 12478888999998777751 224 3 24333345569999998776654
No 79
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=97.10 E-value=0.009 Score=59.43 Aligned_cols=84 Identities=7% Similarity=0.030 Sum_probs=50.7
Q ss_pred HHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHh-CCCccC
Q psy3261 239 TRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYES-KKWLQT 317 (342)
Q Consensus 239 ~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~-~~~l~~ 317 (342)
...|++++........+|++++.... +...+. ..+. .+++..++.+|+...+..... .|.--+
T Consensus 144 ~~~LLk~LEep~~~t~~Il~t~~~~k--------l~~tl~-sR~~-------~v~f~~l~~~ei~~~l~~~~~~~g~~i~ 207 (397)
T PRK14955 144 FNAFLKTLEEPPPHAIFIFATTELHK--------IPATIA-SRCQ-------RFNFKRIPLEEIQQQLQGICEAEGISVD 207 (397)
T ss_pred HHHHHHHHhcCCCCeEEEEEeCChHH--------hHHHHH-HHHH-------HhhcCCCCHHHHHHHHHHHHHHcCCCCC
Confidence 45677887765556667777653211 111121 1111 267888999999988765543 343214
Q ss_pred cchHHHHHHhhCCCHHHHhhh
Q psy3261 318 SEGREEIAFLTKRVPQKMYEF 338 (342)
Q Consensus 318 e~~~~el~~lSgGNP~~l~~l 338 (342)
++....+-.+|||+++.+...
T Consensus 208 ~~al~~l~~~s~g~lr~a~~~ 228 (397)
T PRK14955 208 ADALQLIGRKAQGSMRDAQSI 228 (397)
T ss_pred HHHHHHHHHHcCCCHHHHHHH
Confidence 555556777999999976654
No 80
>cd01393 recA_like 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. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=97.06 E-value=0.0057 Score=55.41 Aligned_cols=39 Identities=21% Similarity=0.118 Sum_probs=33.4
Q ss_pred CCCCCeEEEEccCCCcHHHHHHHHHHHHHhCC------eEEEEeC
Q psy3261 64 DRPSPRFVLYGEHGVGKSMALVYALQYAHENN------YLLVHIP 102 (342)
Q Consensus 64 ~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~g------wiVl~vP 102 (342)
-.+..-+.|+|++|||||+++.|++..+...+ .-|+||.
T Consensus 16 ~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~ 60 (226)
T cd01393 16 IPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYID 60 (226)
T ss_pred CcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEe
Confidence 35678899999999999999999999887776 7788874
No 81
>PF10923 DUF2791: P-loop Domain of unknown function (DUF2791); InterPro: IPR021228 This is a family of proteins found in archaea and bacteria. Some of the proteins in this family are annotated as being methyl-accepting chemotaxis proteins and ATP/GTP binding proteins.
Probab=97.02 E-value=0.0052 Score=61.31 Aligned_cols=243 Identities=19% Similarity=0.189 Sum_probs=124.4
Q ss_pred Eech-hHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC-CccccccCC--------cce
Q psy3261 45 LIRN-CMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP-WVLRWFAYP--------KEV 114 (342)
Q Consensus 45 lvR~-~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP-~~~~~~~~~--------~~~ 114 (342)
+=|+ ..-.|.+.|+..++ ..+.--++.|+-|||||.+|..+...|+++|++|.+|- ++....+++ .++
T Consensus 28 VGr~~e~~~l~~~l~~v~~--G~s~~kfi~G~YGsGKTf~l~~i~~~A~~~~fvvs~v~ls~e~~lh~~~g~~~~~Yr~l 105 (416)
T PF10923_consen 28 VGREREIEALDRDLDRVAD--GGSSFKFIRGEYGSGKTFFLRLIRERALEKGFVVSEVDLSPERPLHGTGGQLEALYREL 105 (416)
T ss_pred echHHHHHHHHHHHHHHhC--CCCeEEEEEeCCCCcHHHHHHHHHHHHHHcCCEEEEEecCCCcccccccccHHHHHHHH
Confidence 4455 45566667776332 33444556699999999999999999999999999982 334444421 111
Q ss_pred eccCC---C-CCccccHHHHHHHHHHHHHhCcccc---------CC--CCc----c-ccc---ce---------------
Q psy3261 115 SHSLT---K-EGMVDLNIDAAMWLRHFQKQNTKWL---------ED--PRL----T-TSQ---EY--------------- 156 (342)
Q Consensus 115 ~~s~~---~-~~~~~qP~~a~~~L~~~~~~N~~~L---------~~--~~l----~-~s~---~~--------------- 156 (342)
..+-. . +| =-.+....+|+..+.....+.- +. ..| . +++ .+
T Consensus 106 ~~nL~t~~~p~G-~al~~ild~wi~~~~~~~~~~~~~~~~~~~~~~v~~~I~~~L~~l~~~~~~~~Fa~~l~~Y~~a~~~ 184 (416)
T PF10923_consen 106 MRNLSTKTKPEG-GALRSILDRWIYNLEEEVAAEGGIEPDEGFEEAVEELIEERLASLSELVHGPDFAAALRAYYRAYVE 184 (416)
T ss_pred HHhcCCCCCCCc-hHHHHHHHHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHHHHHHcccCChhHHHHHHHHHHHHhc
Confidence 11110 1 11 0123344555555532111100 00 000 0 010 11
Q ss_pred ----------ecCCCCCCCCCCCHHHHH-Hhhcccc---cchhHHHHHHHHHHhccccCCCceEEEEEeCccccccCCCc
Q psy3261 157 ----------VWSPREKSEANIPLAALI-EHGITRV---KYASDVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTN 222 (342)
Q Consensus 157 ----------~~~~~e~~~~g~tL~dlv-~~gi~~~---~~a~~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~ 222 (342)
.|-.. +..+-.+.- +.|+... ..+.+-+..+.+=++. . +-.-++|.+|++=.++.....
T Consensus 185 gd~~~~~~~l~WL~G----e~~~kt~ar~~lGV~~~Idd~~~~~~Lk~L~~~lr~-a--Gy~GLlI~lDE~e~l~kl~~~ 257 (416)
T PF10923_consen 185 GDEELADAALRWLRG----EYNTKTEARRALGVRGIIDDDNAYDFLKGLARFLRD-A--GYKGLLILLDELENLYKLRND 257 (416)
T ss_pred CCHHHHHHHHHHHcC----CCccHHHHHHHcCCCeeeCchHHHHHHHHHHHHHHH-c--CCCceEEEEechHHHHhcCCh
Confidence 12222 223334444 3566533 2233334434433433 2 566799999999777766431
Q ss_pred C-CCCCCCcccCCcc-chHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCcc---Ccchh-HHhhhcCC---CCCCCcc-ee
Q psy3261 223 C-KPEDKSKVLPSRV-TLTRSVINLVQSDWNNGAIVLALSPRANLPDRRE---SHLPL-YMLKKAGF---ESIDPFV-PI 292 (342)
Q Consensus 223 y-~~~~~~~I~~~~l-~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~---~~~p~-~llg~~g~---~~~dP~~-~i 292 (342)
- |+ ..+ .|=+++-++.+|..++-.+|.+-+... .-+++. +|-|. ..+....+ ...||.. .|
T Consensus 258 ~~R~--------~~ye~lr~lidd~~~G~~~gL~~~~~gTPef-~eD~rrGv~sY~AL~~RL~~~~~~~~~~~n~~~pvI 328 (416)
T PF10923_consen 258 QARE--------KNYEALRQLIDDIDQGRAPGLYFVFAGTPEF-FEDGRRGVYSYEALAQRLAEEFFADDGFDNLRAPVI 328 (416)
T ss_pred HHHH--------HHHHHHHHHHHHHhcCCCCceEEEEeeCHHH-hhCccccccccHHHHHHHhccccccccccCccCcee
Confidence 2 11 123 233344455568888888877766543 212222 33221 11221111 1345544 47
Q ss_pred ecCCCCHHHHHHHH
Q psy3261 293 HVPELNDEEFHNLL 306 (342)
Q Consensus 293 ~v~~~s~~E~~~ll 306 (342)
++.+|+.+|+..++
T Consensus 329 rL~~l~~eel~~l~ 342 (416)
T PF10923_consen 329 RLQPLTPEELLELL 342 (416)
T ss_pred cCCCCCHHHHHHHH
Confidence 89999999998776
No 82
>KOG0731|consensus
Probab=97.01 E-value=0.016 Score=61.56 Aligned_cols=124 Identities=18% Similarity=0.223 Sum_probs=77.0
Q ss_pred CCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhc
Q psy3261 202 GVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKA 281 (342)
Q Consensus 202 ~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~ 281 (342)
...|.+|.||++.++-..-. ..-.+..=.-.+.++-.++.++..-....|+||.|.+... +- +-.+|++.-
T Consensus 401 ~~aP~iifideida~~~~r~--G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~a~tnr~---d~----ld~allrpG 471 (774)
T KOG0731|consen 401 KNAPSIIFIDEIDAVGRKRG--GKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVLAATNRP---DI----LDPALLRPG 471 (774)
T ss_pred ccCCeEEEeccccccccccc--ccccCCCChHHHHHHHHHHHHhcCCcCCCcEEEEeccCCc---cc----cCHHhcCCC
Confidence 37899999999977654421 0011223344567999999999987777888888877643 21 123455443
Q ss_pred CCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcc-hHHHHHHhhCC-CHHHHhhhc
Q psy3261 282 GFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSE-GREEIAFLTKR-VPQKMYEFC 339 (342)
Q Consensus 282 g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~-~~~el~~lSgG-NP~~l~~lc 339 (342)
.|+. .|.++-=+..+=+++++++.+..-+..|+ .-..+-.+|-| .+.+|..+|
T Consensus 472 Rfdr-----~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~~a~~t~gf~gadl~n~~ 526 (774)
T KOG0731|consen 472 RFDR-----QIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSKLASLTPGFSGADLANLC 526 (774)
T ss_pred cccc-----ceeccCCchhhhHHHHHHHhhccCCCcchhhHHHHHhcCCCCcHHHHHhhh
Confidence 3542 26666667788889999998887773111 11224444444 456676666
No 83
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=96.98 E-value=0.0037 Score=63.26 Aligned_cols=117 Identities=21% Similarity=0.235 Sum_probs=79.2
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccccc-cCCcceeccCCCCCccccHHHHHHHHHHHHHhCcc
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWF-AYPKEVSHSLTKEGMVDLNIDAAMWLRHFQKQNTK 143 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~-~~~~~~~~s~~~~~~~~qP~~a~~~L~~~~~~N~~ 143 (342)
.+.-=++++||.||||||+|..++.+....+--|+.|-++-++. .+..-+.-++ +-|+ .-+..|+.|+...-+
T Consensus 256 ~p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI~TiEDPVE~~~~gI~Q~qVN~-k~gl-----tfa~~LRa~LRqDPD 329 (500)
T COG2804 256 RPQGLILVTGPTGSGKTTTLYAALSELNTPERNIITIEDPVEYQLPGINQVQVNP-KIGL-----TFARALRAILRQDPD 329 (500)
T ss_pred CCCeEEEEeCCCCCCHHHHHHHHHHHhcCCCceEEEeeCCeeeecCCcceeeccc-ccCC-----CHHHHHHHHhccCCC
Confidence 46778899999999999999999999998777799997777763 3444444443 3333 235667888554444
Q ss_pred ccCCCCc------------ccccceecCCCCCCCCCCCHHHHHHhhcccccchhHH
Q psy3261 144 WLEDPRL------------TTSQEYVWSPREKSEANIPLAALIEHGITRVKYASDV 187 (342)
Q Consensus 144 ~L~~~~l------------~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~ 187 (342)
++==+.| .++...+++--....+..++..|.++|+..-..+...
T Consensus 330 vImVGEIRD~ETAeiavqAalTGHLVlSTlHtnda~~ai~RL~~mGv~~~~l~s~l 385 (500)
T COG2804 330 VIMVGEIRDLETAEIAVQAALTGHLVLSTLHTNDAPGAITRLLEMGVEPYLLASSL 385 (500)
T ss_pred eEEEeccCCHHHHHHHHHHHhcCCeEeeecccCchHHHHHHHHHcCCCHHHHHHHH
Confidence 3310001 2355566665555567789999999999865555543
No 84
>PRK12377 putative replication protein; Provisional
Probab=96.98 E-value=0.0016 Score=60.79 Aligned_cols=38 Identities=16% Similarity=0.167 Sum_probs=33.2
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCc
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWV 104 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~ 104 (342)
...++|+|++|||||.++.-+...+.++|.-|++++-.
T Consensus 101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~ 138 (248)
T PRK12377 101 CTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVP 138 (248)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHH
Confidence 46799999999999999999999999999888877543
No 85
>PRK08116 hypothetical protein; Validated
Probab=96.95 E-value=0.0024 Score=60.22 Aligned_cols=79 Identities=13% Similarity=0.199 Sum_probs=48.7
Q ss_pred HHHhhhcCCCChhhHH-hhhhcCCceEEechhH---HHHH-HHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHh
Q psy3261 19 RSAIFELGGITRVFNE-QTQIFNESSILIRNCM---LELV-GYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHE 93 (342)
Q Consensus 19 ~~~l~~~g~l~~~~~~-~~~~~~~~~~lvR~~t---~el~-~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~ 93 (342)
++.++...++|+++.+ .|+.|.. .+.. ...+ ++++++......+..++|+|+.|||||.++..+...+.+
T Consensus 66 ~~~l~~~s~i~~~~~~~tFdnf~~-----~~~~~~a~~~a~~y~~~~~~~~~~~~gl~l~G~~GtGKThLa~aia~~l~~ 140 (268)
T PRK08116 66 IERLKSNSLLDEKFRNSTFENFLF-----DKGSEKAYKIARKYVKKFEEMKKENVGLLLWGSVGTGKTYLAACIANELIE 140 (268)
T ss_pred HHHHHHhcCCCHHHHhcchhcccC-----ChHHHHHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHH
Confidence 4455656567766543 3555542 1222 2222 233332222234567999999999999999998888888
Q ss_pred CCeEEEEeC
Q psy3261 94 NNYLLVHIP 102 (342)
Q Consensus 94 ~gwiVl~vP 102 (342)
+|--|++++
T Consensus 141 ~~~~v~~~~ 149 (268)
T PRK08116 141 KGVPVIFVN 149 (268)
T ss_pred cCCeEEEEE
Confidence 787777764
No 86
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=96.94 E-value=0.05 Score=50.46 Aligned_cols=98 Identities=18% Similarity=0.241 Sum_probs=60.9
Q ss_pred HHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCC---CCCeEEEEEeCCCCCCC
Q psy3261 190 VLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSD---WNNGAIVLALSPRANLP 266 (342)
Q Consensus 190 ~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~---~~~G~vv~AtS~~~~~~ 266 (342)
.++++|+.. ..+++|.+||+ +|=.-.+ --+.++.++.|. .+.-+++.|||.+.++
T Consensus 129 ~l~~~Lr~~----~~kFIlFcDDL-SFe~gd~----------------~yK~LKs~LeG~ve~rP~NVl~YATSNRRHL- 186 (287)
T COG2607 129 DLVELLRAR----PEKFILFCDDL-SFEEGDD----------------AYKALKSALEGGVEGRPANVLFYATSNRRHL- 186 (287)
T ss_pred HHHHHHhcC----CceEEEEecCC-CCCCCch----------------HHHHHHHHhcCCcccCCCeEEEEEecCCccc-
Confidence 355678764 68999999999 4433222 235677888775 3556788898876532
Q ss_pred CCccCcchhHHhhhcCCC-CCCC-------------cc-eeecCCCCHHHHHHHHHHHHhCCCc
Q psy3261 267 DRRESHLPLYMLKKAGFE-SIDP-------------FV-PIHVPELNDEEFHNLLNLYESKKWL 315 (342)
Q Consensus 267 ~~~~~~~p~~llg~~g~~-~~dP-------------~~-~i~v~~~s~~E~~~ll~yy~~~~~l 315 (342)
+|.......++. .+.| |- -+.....+.+|.-.+++.|.+.=-|
T Consensus 187 ------l~e~~~dn~~~~~eih~~eaveEKlSlSDRFGLwL~F~~~~Q~~YL~~V~~~a~~~~l 244 (287)
T COG2607 187 ------LPEDMKDNEGSTGEIHPSEAVEEKLSLSDRFGLWLSFYPCDQDEYLKIVDHYAKHFGL 244 (287)
T ss_pred ------ccHhhhhCCCcccccChhHHHHHhhchhhhcceeecccCCCHHHHHHHHHHHHHHcCC
Confidence 222222222221 2222 21 2556689999999999999876544
No 87
>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].
Probab=96.94 E-value=0.074 Score=50.89 Aligned_cols=228 Identities=14% Similarity=0.137 Sum_probs=117.5
Q ss_pred HHhhhhcCCceEEechhHHHHHHHHHhccCC--CCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccccccC
Q psy3261 33 NEQTQIFNESSILIRNCMLELVGYLKSMTNF--DRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWFAY 110 (342)
Q Consensus 33 ~~~~~~~~~~~~lvR~~t~el~~~l~~~~~~--~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~~~ 110 (342)
..-.....++.++-=..+.++++.|+..... ...-..++|+|+.|.|||+++.+... ... |. .+.-..
T Consensus 25 ~eRI~~i~~~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~---~hp------~~-~d~~~~ 94 (302)
T PF05621_consen 25 EERIAYIRADRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRR---LHP------PQ-SDEDAE 94 (302)
T ss_pred HHHHHHHhcCCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHH---HCC------CC-CCCCCc
Confidence 3344566678888888888999998873332 23446799999999999998866553 211 10 010000
Q ss_pred CcceeccCCCCCccccHHHHHHHHHHHHHhCccccCCCCcccccceecCCCCCCCCCCCHHHHHHhhcccccchhHHHHH
Q psy3261 111 PKEVSHSLTKEGMVDLNIDAAMWLRHFQKQNTKWLEDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKYASDVVDV 190 (342)
Q Consensus 111 ~~~~~~s~~~~~~~~qP~~a~~~L~~~~~~N~~~L~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~~~~ 190 (342)
...+.+-. -+..=+...+-..+|..+ ..+. ....+..++-...+ .
T Consensus 95 ~~PVv~vq-~P~~p~~~~~Y~~IL~~l-----------gaP~------------~~~~~~~~~~~~~~-----------~ 139 (302)
T PF05621_consen 95 RIPVVYVQ-MPPEPDERRFYSAILEAL-----------GAPY------------RPRDRVAKLEQQVL-----------R 139 (302)
T ss_pred cccEEEEe-cCCCCChHHHHHHHHHHh-----------Cccc------------CCCCCHHHHHHHHH-----------H
Confidence 00000000 011112222334444444 2321 11122222221111 2
Q ss_pred HHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCC-CCCCCc
Q psy3261 191 LFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRA-NLPDRR 269 (342)
Q Consensus 191 l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~-~~~~~~ 269 (342)
+++++ + +=++.||+++.+..-+. + +=.-+-.++++++++++=..|.+-|.... +..+
T Consensus 140 llr~~-------~-vrmLIIDE~H~lLaGs~--~----------~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~-- 197 (302)
T PF05621_consen 140 LLRRL-------G-VRMLIIDEFHNLLAGSY--R----------KQREFLNALKFLGNELQIPIVGVGTREAYRALRT-- 197 (302)
T ss_pred HHHHc-------C-CcEEEeechHHHhcccH--H----------HHHHHHHHHHHHhhccCCCeEEeccHHHHHHhcc--
Confidence 33322 2 23677999988766542 1 12333444555567776666544443221 0000
Q ss_pred cCcchhHHhhhcCCCCCCCcceeecCCCC-HHHHHHHHHHHHhCCCcc------CcchHHHHHHhhCCCHHHHhhhc
Q psy3261 270 ESHLPLYMLKKAGFESIDPFVPIHVPELN-DEEFHNLLNLYESKKWLQ------TSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 270 ~~~~p~~llg~~g~~~~dP~~~i~v~~~s-~~E~~~ll~yy~~~~~l~------~e~~~~el~~lSgGNP~~l~~lc 339 (342)
. .++..+ | .|+.+++.. .+||+.++.-+...=-|+ .++-...++-+|+|+-.++.++.
T Consensus 198 ---D-~QLa~R--F------~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~ll 262 (302)
T PF05621_consen 198 ---D-PQLASR--F------EPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRLL 262 (302)
T ss_pred ---C-HHHHhc--c------CCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHHH
Confidence 1 123333 3 345555332 458999998887766666 22223457779999999998864
No 88
>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=96.92 E-value=0.013 Score=63.82 Aligned_cols=95 Identities=9% Similarity=0.069 Sum_probs=53.2
Q ss_pred HHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCC
Q psy3261 188 VDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPD 267 (342)
Q Consensus 188 ~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~ 267 (342)
+..+++|++.. ..++++.||++..+.+... -. .. ......|+.++... .-.+|+||+...- .
T Consensus 268 lk~ii~e~~~~----~~~~ILfIDEih~l~~~g~-~~----~~-----~d~~n~Lkp~l~~G--~l~~IgaTT~~e~--~ 329 (852)
T TIGR03345 268 LKSVIDEVKAS----PQPIILFIDEAHTLIGAGG-QA----GQ-----GDAANLLKPALARG--ELRTIAATTWAEY--K 329 (852)
T ss_pred HHHHHHHHHhc----CCCeEEEEeChHHhccCCC-cc----cc-----ccHHHHhhHHhhCC--CeEEEEecCHHHH--h
Confidence 44566677642 4689999999988876532 10 01 12334455555421 2346888775321 1
Q ss_pred CccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHH
Q psy3261 268 RRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLY 309 (342)
Q Consensus 268 ~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy 309 (342)
+. ......+.++ | .+|.|+..|.+|...++.-+
T Consensus 330 ~~-~~~d~AL~rR--f------~~i~v~eps~~~~~~iL~~~ 362 (852)
T TIGR03345 330 KY-FEKDPALTRR--F------QVVKVEEPDEETAIRMLRGL 362 (852)
T ss_pred hh-hhccHHHHHh--C------eEEEeCCCCHHHHHHHHHHH
Confidence 00 0111233332 3 35999999999988886433
No 89
>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=96.89 E-value=0.001 Score=58.37 Aligned_cols=30 Identities=20% Similarity=0.340 Sum_probs=25.2
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEE
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLL 98 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiV 98 (342)
+++|||++|+||||++..++..+..+|.-|
T Consensus 1 ~i~iTG~pG~GKTTll~k~i~~l~~~~~~v 30 (168)
T PF03266_consen 1 HIFITGPPGVGKTTLLKKVIEELKKKGLPV 30 (168)
T ss_dssp EEEEES-TTSSHHHHHHHHHHHHHHTCGGE
T ss_pred CEEEECcCCCCHHHHHHHHHHHhhccCCcc
Confidence 689999999999999999999998765443
No 90
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=96.88 E-value=0.0048 Score=55.25 Aligned_cols=69 Identities=17% Similarity=0.132 Sum_probs=41.3
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHh----CCeEEEEe-CCccccccCCcceeccCCCC--CccccHHHHHHHHHHHHH
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHE----NNYLLVHI-PWVLRWFAYPKEVSHSLTKE--GMVDLNIDAAMWLRHFQK 139 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~----~gwiVl~v-P~~~~~~~~~~~~~~s~~~~--~~~~qP~~a~~~L~~~~~ 139 (342)
...+++.|..|||||++|..++..+.. .++-|.-| |...+|..- ...+... -.-+.+..+.++|+.+..
T Consensus 38 ~~h~li~G~tgsGKS~~l~~ll~~l~~~~~p~~~~l~iiD~k~~~l~~~----~~~~~~~~~~~~~~~~~~~~~l~~l~~ 113 (205)
T PF01580_consen 38 NPHLLIAGATGSGKSTLLRTLLLSLALTYSPDDVQLYIIDPKGSDLAPL----ADLPHVAAVAVATDPEEILRLLEELVE 113 (205)
T ss_dssp S-SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE-TTSSCCGGG----TT-TTBSS-S-B-SHHHHHHHHHHHHH
T ss_pred CceEEEEcCCCCCccHHHHHHHHHHHHHhcCCccEEEEEcCCccccchh----hhhhhhccccccccHHHHHHHHHHHHH
Confidence 458999999999999999998888777 45444433 443333222 1111111 145688899999988843
No 91
>PF13173 AAA_14: AAA domain
Probab=96.88 E-value=0.0013 Score=54.57 Aligned_cols=25 Identities=28% Similarity=0.311 Sum_probs=22.0
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAH 92 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~ 92 (342)
.-++|+|+||||||+++.|++..-.
T Consensus 3 ~~~~l~G~R~vGKTtll~~~~~~~~ 27 (128)
T PF13173_consen 3 KIIILTGPRGVGKTTLLKQLAKDLL 27 (128)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHhc
Confidence 4689999999999999999987655
No 92
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=96.88 E-value=0.077 Score=54.84 Aligned_cols=101 Identities=11% Similarity=0.077 Sum_probs=64.3
Q ss_pred eEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhcCCC
Q psy3261 205 RTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKAGFE 284 (342)
Q Consensus 205 pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~g~~ 284 (342)
.-+|.||+...+ + -....+|++.+.....+..+|++++.... ++..+.-+ .
T Consensus 118 ~KVvIIDEad~L----t--------------~~A~NALLK~LEEpp~~t~FIL~ttd~~k--------L~~tI~SR-c-- 168 (535)
T PRK08451 118 FKIFIIDEVHML----T--------------KEAFNALLKTLEEPPSYVKFILATTDPLK--------LPATILSR-T-- 168 (535)
T ss_pred eEEEEEECcccC----C--------------HHHHHHHHHHHhhcCCceEEEEEECChhh--------CchHHHhh-c--
Confidence 346689998333 1 23356788888776677777777743221 22222222 1
Q ss_pred CCCCcceeecCCCCHHHHHHHHHHHH-hCCCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 285 SIDPFVPIHVPELNDEEFHNLLNLYE-SKKWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 285 ~~dP~~~i~v~~~s~~E~~~ll~yy~-~~~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
..+++..++.+++...+..-. ..|+-.+++....+-..++|++|.+..+|
T Consensus 169 -----~~~~F~~Ls~~ei~~~L~~Il~~EGi~i~~~Al~~Ia~~s~GdlR~alnlL 219 (535)
T PRK08451 169 -----QHFRFKQIPQNSIISHLKTILEKEGVSYEPEALEILARSGNGSLRDTLTLL 219 (535)
T ss_pred -----eeEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHH
Confidence 137889999999988886654 44554245445556679999999887765
No 93
>PRK08181 transposase; Validated
Probab=96.86 E-value=0.0023 Score=60.37 Aligned_cols=37 Identities=22% Similarity=0.246 Sum_probs=32.9
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
....++|+|++|||||.++.-+...|.++|+-|+|++
T Consensus 105 ~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~ 141 (269)
T PRK08181 105 KGANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTR 141 (269)
T ss_pred cCceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeee
Confidence 3556999999999999999999999999999998885
No 94
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=96.85 E-value=0.042 Score=55.70 Aligned_cols=101 Identities=13% Similarity=0.114 Sum_probs=61.4
Q ss_pred ceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhcCC
Q psy3261 204 CRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKAGF 283 (342)
Q Consensus 204 ~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~g~ 283 (342)
.+-+|.||+...+-. .....|++++.....+..+|+++++... +...+..+ ..
T Consensus 121 ~~kvvIIdead~lt~------------------~~~n~LLk~lEep~~~~~~Il~t~~~~k--------l~~tI~sR-c~ 173 (451)
T PRK06305 121 RYKIYIIDEVHMLTK------------------EAFNSLLKTLEEPPQHVKFFLATTEIHK--------IPGTILSR-CQ 173 (451)
T ss_pred CCEEEEEecHHhhCH------------------HHHHHHHHHhhcCCCCceEEEEeCChHh--------cchHHHHh-ce
Confidence 344678999844421 1246788888765556667777643221 11112211 11
Q ss_pred CCCCCcceeecCCCCHHHHHHHHHHH-HhCCCccCcchHHHHHHhhCCCHHHHhhh
Q psy3261 284 ESIDPFVPIHVPELNDEEFHNLLNLY-ESKKWLQTSEGREEIAFLTKRVPQKMYEF 338 (342)
Q Consensus 284 ~~~dP~~~i~v~~~s~~E~~~ll~yy-~~~~~l~~e~~~~el~~lSgGNP~~l~~l 338 (342)
.+++..++.+|+...+.-. ...|+-..++....+-..++||.+.+..+
T Consensus 174 -------~v~f~~l~~~el~~~L~~~~~~eg~~i~~~al~~L~~~s~gdlr~a~~~ 222 (451)
T PRK06305 174 -------KMHLKRIPEETIIDKLALIAKQEGIETSREALLPIARAAQGSLRDAESL 222 (451)
T ss_pred -------EEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence 3889999999999877655 44465324545556777999999976554
No 95
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=96.81 E-value=0.095 Score=50.83 Aligned_cols=114 Identities=12% Similarity=0.164 Sum_probs=63.6
Q ss_pred hHHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCC
Q psy3261 185 SDVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRAN 264 (342)
Q Consensus 185 ~~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~ 264 (342)
.+.+..+++++...+..+.++| +.||+...+ + -.-...|++.+...+.+..+|+.|+....
T Consensus 92 id~ir~l~~~~~~~~~~~~~kv-viI~~a~~~----~--------------~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ 152 (329)
T PRK08058 92 KDQIRYLKEEFSKSGVESNKKV-YIIEHADKM----T--------------ASAANSLLKFLEEPSGGTTAILLTENKHQ 152 (329)
T ss_pred HHHHHHHHHHHhhCCcccCceE-EEeehHhhh----C--------------HHHHHHHHHHhcCCCCCceEEEEeCChHh
Confidence 4455556666654332345555 778887333 2 34567899999887778877877664321
Q ss_pred CCCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 265 LPDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 265 ~~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
+ +| -+.-+ . ..+++..++.+|+...+ .+.|+- ++ ...+....+|+|....++.
T Consensus 153 l-------l~-TIrSR-c-------~~i~~~~~~~~~~~~~L---~~~gi~--~~-~~~~l~~~~g~~~~A~~l~ 205 (329)
T PRK08058 153 I-------LP-TILSR-C-------QVVEFRPLPPESLIQRL---QEEGIS--ES-LATLLAGLTNSVEEALALS 205 (329)
T ss_pred C-------cH-HHHhh-c-------eeeeCCCCCHHHHHHHH---HHcCCC--hH-HHHHHHHHcCCHHHHHHHh
Confidence 1 11 11111 1 13778888888875555 345532 22 2233333356787776654
No 96
>PRK06921 hypothetical protein; Provisional
Probab=96.81 E-value=0.0032 Score=59.36 Aligned_cols=85 Identities=20% Similarity=0.302 Sum_probs=52.7
Q ss_pred HHHHhhhcCCCChhhH-HhhhhcCCce--EEechhHHHH-HHHHHhccC-CCCCCCeEEEEccCCCcHHHHHHHHHHHHH
Q psy3261 18 VRSAIFELGGITRVFN-EQTQIFNESS--ILIRNCMLEL-VGYLKSMTN-FDRPSPRFVLYGEHGVGKSMALVYALQYAH 92 (342)
Q Consensus 18 ~~~~l~~~g~l~~~~~-~~~~~~~~~~--~lvR~~t~el-~~~l~~~~~-~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~ 92 (342)
....++..-++|..+. ..|+.|.... -.++. +.+. .+++++... .......++|+|++|+|||.++.-+...+.
T Consensus 64 ~~~~~~~~s~i~~~~~~~~F~nf~~~~~~~~~~~-~~~~~~~~~~~f~~~~~~~~~~l~l~G~~G~GKThLa~aia~~l~ 142 (266)
T PRK06921 64 KIERLLKASEITEAFRKLTFKNFKTEGKPQAIKD-AYECAVEYVKDFEKIQESRKNSIALLGQPGSGKTHLLTAAANELM 142 (266)
T ss_pred HHHHHHHHcCCCHHHHhhhhhcCccCCccHHHHH-HHHHHHHHHHHHHHhcccCCCeEEEECCCCCcHHHHHHHHHHHHh
Confidence 4555555568888653 3466666321 01111 1111 234444111 112467899999999999999988888888
Q ss_pred hC-CeEEEEeCC
Q psy3261 93 EN-NYLLVHIPW 103 (342)
Q Consensus 93 ~~-gwiVl~vP~ 103 (342)
++ |.-|+|++.
T Consensus 143 ~~~g~~v~y~~~ 154 (266)
T PRK06921 143 RKKGVPVLYFPF 154 (266)
T ss_pred hhcCceEEEEEH
Confidence 77 899999874
No 97
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=96.81 E-value=0.095 Score=59.15 Aligned_cols=49 Identities=16% Similarity=-0.000 Sum_probs=33.4
Q ss_pred eeecCCCCHHHHHHHHHHHHhCCCcc---CcchHHHHHHhhCCCHHHHhhhc
Q psy3261 291 PIHVPELNDEEFHNLLNLYESKKWLQ---TSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 291 ~i~v~~~s~~E~~~ll~yy~~~~~l~---~e~~~~el~~lSgGNP~~l~~lc 339 (342)
.++|+.++.+|+..++..++-.+-.. .++-..++--.+||.|-.+.-+.
T Consensus 345 ~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlg 396 (1153)
T PLN03210 345 IYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLG 396 (1153)
T ss_pred EEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHH
Confidence 47899999999999998876543221 11123345568999998876554
No 98
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=96.80 E-value=0.017 Score=61.56 Aligned_cols=49 Identities=14% Similarity=0.219 Sum_probs=34.9
Q ss_pred ceEEechhHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEE
Q psy3261 42 SSILIRNCMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLL 98 (342)
Q Consensus 42 ~~~lvR~~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiV 98 (342)
...++|. .|++.|.+ + ....-++|.-|.|.||||+++|... -...||-|
T Consensus 19 ~~~v~R~---rL~~~L~~-~---~~~RL~li~APAGfGKttl~aq~~~-~~~~~~~v 67 (894)
T COG2909 19 DNYVVRP---RLLDRLRR-A---NDYRLILISAPAGFGKTTLLAQWRE-LAADGAAV 67 (894)
T ss_pred ccccccH---HHHHHHhc-C---CCceEEEEeCCCCCcHHHHHHHHHH-hcCcccce
Confidence 3667777 56788877 1 2245678889999999999999876 23445444
No 99
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=96.78 E-value=0.021 Score=61.06 Aligned_cols=48 Identities=15% Similarity=0.263 Sum_probs=35.9
Q ss_pred eecCCCCHHHHHHHHHHHHh-------CCCcc-CcchHHHHHHhhCCCHHHHhhhc
Q psy3261 292 IHVPELNDEEFHNLLNLYES-------KKWLQ-TSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 292 i~v~~~s~~E~~~ll~yy~~-------~~~l~-~e~~~~el~~lSgGNP~~l~~lc 339 (342)
+.++.++.++...+++.... ..-+. +++....|...++||.|++..+.
T Consensus 163 ~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~lln~L 218 (725)
T PRK13341 163 FRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLLNAL 218 (725)
T ss_pred eecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHHHHHH
Confidence 78999999999999988765 11122 45555667778999999987753
No 100
>PRK06851 hypothetical protein; Provisional
Probab=96.78 E-value=0.0022 Score=63.03 Aligned_cols=39 Identities=26% Similarity=0.257 Sum_probs=34.3
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCc
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWV 104 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~ 104 (342)
-..+|+|.|++|+|||+++.++...|.++|+-|.+..++
T Consensus 213 ~~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~ 251 (367)
T PRK06851 213 VKNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCG 251 (367)
T ss_pred cceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCC
Confidence 356899999999999999999999999999988766443
No 101
>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=96.78 E-value=0.0021 Score=52.23 Aligned_cols=32 Identities=16% Similarity=0.200 Sum_probs=27.1
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCC
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPW 103 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~ 103 (342)
+++|.|++||||||+..++.... |+.++++.+
T Consensus 1 vI~I~G~~gsGKST~a~~La~~~---~~~~i~~d~ 32 (121)
T PF13207_consen 1 VIIISGPPGSGKSTLAKELAERL---GFPVISMDD 32 (121)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHH---TCEEEEEHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHH---CCeEEEecc
Confidence 48999999999999999987643 888888755
No 102
>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=96.76 E-value=0.0014 Score=52.82 Aligned_cols=29 Identities=14% Similarity=0.116 Sum_probs=26.0
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCC
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENN 95 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~g 95 (342)
...++|+|++|||||+++..+.......+
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~ 30 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPPG 30 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhccCCCC
Confidence 56899999999999999999988887776
No 103
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=96.75 E-value=0.18 Score=47.04 Aligned_cols=114 Identities=18% Similarity=0.226 Sum_probs=72.6
Q ss_pred CCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCC-eEEEEEeCCCCCCCCCccCcchhHHhhh
Q psy3261 202 GVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNN-GAIVLALSPRANLPDRRESHLPLYMLKK 280 (342)
Q Consensus 202 ~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~-G~vv~AtS~~~~~~~~~~~~~p~~llg~ 280 (342)
++.||.+.||+. ...+.++ +.--|.|.+.....-+. ++|+.+-.+-. ++.+ .| .+.+
T Consensus 129 g~r~v~l~vdEa-h~L~~~~--------------le~Lrll~nl~~~~~~~l~ivL~Gqp~L~--~~lr---~~--~l~e 186 (269)
T COG3267 129 GKRPVVLMVDEA-HDLNDSA--------------LEALRLLTNLEEDSSKLLSIVLIGQPKLR--PRLR---LP--VLRE 186 (269)
T ss_pred CCCCeEEeehhH-hhhChhH--------------HHHHHHHHhhcccccCceeeeecCCcccc--hhhc---hH--HHHh
Confidence 589999999999 4455566 88888888887643222 23332211111 1111 11 1222
Q ss_pred cCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCcc----CcchHHHHHHhhCCCHHHHhhhcc
Q psy3261 281 AGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQ----TSEGREEIAFLTKRVPQKMYEFCS 340 (342)
Q Consensus 281 ~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~----~e~~~~el~~lSgGNP~~l~~lc~ 340 (342)
.+... + +.|++++|+.+|.+.++.+--+.+-.. +++....++.-|.|=|+..-.+|.
T Consensus 187 ~~~R~-~--ir~~l~P~~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~ 247 (269)
T COG3267 187 LEQRI-D--IRIELPPLTEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLAT 247 (269)
T ss_pred hhheE-E--EEEecCCcChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHH
Confidence 11110 1 237899999999999999887766322 555677899999999999888774
No 104
>PRK09183 transposase/IS protein; Provisional
Probab=96.73 E-value=0.0028 Score=59.42 Aligned_cols=50 Identities=22% Similarity=0.205 Sum_probs=38.7
Q ss_pred HHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 52 ELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 52 el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
+.+..|.. ..+-.....++|+|++|||||+++..+...|..+|.=|++++
T Consensus 88 ~~i~~L~~-~~~i~~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~ 137 (259)
T PRK09183 88 KQLQSLRS-LSFIERNENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTT 137 (259)
T ss_pred HHHHHHhc-CCchhcCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 45555654 333445678999999999999999999888888888887774
No 105
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=96.69 E-value=0.0034 Score=59.73 Aligned_cols=61 Identities=16% Similarity=0.247 Sum_probs=47.5
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHh-CCeEEEEeCCccccccCCcceeccCCCCCccccHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHE-NNYLLVHIPWVLRWFAYPKEVSHSLTKEGMVDLNIDAAMW 133 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~-~gwiVl~vP~~~~~~~~~~~~~~s~~~~~~~~qP~~a~~~ 133 (342)
.+.-=++++||.||||||+|+-.+.|--+ ..-.|+.|-++.++++.+ +..+..|-+....-
T Consensus 123 ~~~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlTIEDPIE~vh~s--------kkslI~QREvG~dT 184 (353)
T COG2805 123 SPRGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILTIEDPIEYVHES--------KKSLINQREVGRDT 184 (353)
T ss_pred CCCceEEEeCCCCCcHHHHHHHHHHHHhccCCcceEEecCchHhhhcc--------hHhhhhHHHhcccH
Confidence 46778899999999999999999999864 588899999998888774 33455555544443
No 106
>KOG1970|consensus
Probab=96.69 E-value=0.012 Score=60.04 Aligned_cols=141 Identities=15% Similarity=0.074 Sum_probs=76.7
Q ss_pred HHHHHHHHHh--ccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccccccCCcceeccCCC-----CC
Q psy3261 50 MLELVGYLKS--MTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWFAYPKEVSHSLTK-----EG 122 (342)
Q Consensus 50 t~el~~~l~~--~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~~~~~~~~~s~~~-----~~ 122 (342)
--|+-.+|+. +....-++.-++|+||.||||||++.-+ |.+.|. ...+|.|....-.+...+ -+
T Consensus 91 I~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvL---skelg~------~~~Ew~Npi~~~~~~~~h~~t~~~~ 161 (634)
T KOG1970|consen 91 ISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVL---SKELGY------QLIEWSNPINLKEPENLHNETSFLM 161 (634)
T ss_pred HHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHH---HHhhCc------eeeeecCCccccccccccccchhcc
Confidence 4466667773 2334456678999999999999997543 455554 345777665544444211 12
Q ss_pred ccccHHHH--HHHHHHHHHhCccccCCCCcccccceecCCCCCCCCCCCHHHHHHhhcccccchhHHHHHHHHHHhcccc
Q psy3261 123 MVDLNIDA--AMWLRHFQKQNTKWLEDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKYASDVVDVLFTEIKKLST 200 (342)
Q Consensus 123 ~~~qP~~a--~~~L~~~~~~N~~~L~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~~~~l~~EL~~~~~ 200 (342)
.+++...+ ..+|.+..+-|.=... +.++..+-++- =+-||=++... -+...|+.+++++...
T Consensus 162 ~~~~s~L~~fesFler~~kyg~l~~~--g~~~~~~~~li---------LveDLPn~~~~---d~~~~f~evL~~y~s~-- 225 (634)
T KOG1970|consen 162 FPYQSQLAVFESFLLRATKYGSLQMS--GDDLRTDKKLI---------LVEDLPNQFYR---DDSETFREVLRLYVSI-- 225 (634)
T ss_pred cchhhHHHHHHHHHHHHHhhchhhhc--ccccccCceEE---------Eeeccchhhhh---hhHHHHHHHHHHHHhc--
Confidence 22333332 3455555333332222 22222111110 01122222221 1567888899987765
Q ss_pred CCCceEEEEEeCcccc
Q psy3261 201 EGVCRTFVCVDGYNSF 216 (342)
Q Consensus 201 ~~~~pVLvavD~~n~~ 216 (342)
+.+|+++.|=|.++-
T Consensus 226 -g~~PlIf~iTd~~~~ 240 (634)
T KOG1970|consen 226 -GRCPLIFIITDSLSN 240 (634)
T ss_pred -CCCcEEEEEeccccC
Confidence 699999999888764
No 107
>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=96.68 E-value=0.0037 Score=55.34 Aligned_cols=48 Identities=25% Similarity=0.400 Sum_probs=33.6
Q ss_pred HHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 54 VGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 54 ~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
++.+.. ..+-.....++|+|+.|+|||.+..-+...|..+|.-|+|+.
T Consensus 35 ~~~l~~-~~~~~~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~ 82 (178)
T PF01695_consen 35 IAQLAA-LEFIENGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFIT 82 (178)
T ss_dssp HHHHHH-H-S-SC--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred HHHHhc-CCCcccCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEee
Confidence 444433 333445678999999999999999999988989998888874
No 108
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=96.67 E-value=0.064 Score=57.58 Aligned_cols=118 Identities=13% Similarity=0.174 Sum_probs=60.1
Q ss_pred CceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCC-CCeEEEEEeCCCCCCCCCccCcchhHHhhhc
Q psy3261 203 VCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDW-NNGAIVLALSPRANLPDRRESHLPLYMLKKA 281 (342)
Q Consensus 203 ~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~-~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~ 281 (342)
..|.++.+|++.++..... .... ..+-.++..|+.++.+-. .+.++|.+++... . .++..+....
T Consensus 270 ~~p~il~iDEid~l~~~r~----~~~~---~~~~~~~~~Ll~~ld~l~~~~~vivI~atn~~---~----~ld~al~r~g 335 (733)
T TIGR01243 270 NAPSIIFIDEIDAIAPKRE----EVTG---EVEKRVVAQLLTLMDGLKGRGRVIVIGATNRP---D----ALDPALRRPG 335 (733)
T ss_pred cCCcEEEeehhhhhccccc----CCcc---hHHHHHHHHHHHHhhccccCCCEEEEeecCCh---h----hcCHHHhCch
Confidence 3577888999988765421 0001 112356777888876643 2344455444321 1 1222232222
Q ss_pred CCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHHhh-CCCHHHHhhhc
Q psy3261 282 GFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAFLT-KRVPQKMYEFC 339 (342)
Q Consensus 282 g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~lS-gGNP~~l~~lc 339 (342)
.|+. .+.++..+.++-..++..+...--+..+....++--.+ |-.+.++..+|
T Consensus 336 Rfd~-----~i~i~~P~~~~R~~Il~~~~~~~~l~~d~~l~~la~~t~G~~gadl~~l~ 389 (733)
T TIGR01243 336 RFDR-----EIVIRVPDKRARKEILKVHTRNMPLAEDVDLDKLAEVTHGFVGADLAALA 389 (733)
T ss_pred hccE-----EEEeCCcCHHHHHHHHHHHhcCCCCccccCHHHHHHhCCCCCHHHHHHHH
Confidence 2322 26677778888888888665433332222233444333 33455555554
No 109
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.67 E-value=0.06 Score=56.65 Aligned_cols=82 Identities=7% Similarity=0.078 Sum_probs=52.3
Q ss_pred HHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhC-CC-cc
Q psy3261 239 TRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESK-KW-LQ 316 (342)
Q Consensus 239 ~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~-~~-l~ 316 (342)
...|++++..-....++|++++.... +...+. ..+. .+++..++.+|+...+...... |. +
T Consensus 144 ~naLLK~LEePp~~tv~IL~t~~~~k--------Ll~TI~-SRc~-------~vef~~l~~~ei~~~L~~i~~~egi~I- 206 (620)
T PRK14954 144 FNAFLKTLEEPPPHAIFIFATTELHK--------IPATIA-SRCQ-------RFNFKRIPLDEIQSQLQMICRAEGIQI- 206 (620)
T ss_pred HHHHHHHHhCCCCCeEEEEEeCChhh--------hhHHHH-hhce-------EEecCCCCHHHHHHHHHHHHHHcCCCC-
Confidence 56788888776666777777654221 111121 2221 3788999999999888765544 54 3
Q ss_pred CcchHHHHHHhhCCCHHHHhh
Q psy3261 317 TSEGREEIAFLTKRVPQKMYE 337 (342)
Q Consensus 317 ~e~~~~el~~lSgGNP~~l~~ 337 (342)
+++....+-.++||+.+.+..
T Consensus 207 ~~eal~~La~~s~Gdlr~al~ 227 (620)
T PRK14954 207 DADALQLIARKAQGSMRDAQS 227 (620)
T ss_pred CHHHHHHHHHHhCCCHHHHHH
Confidence 455455566699999996554
No 110
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=96.66 E-value=0.0095 Score=54.27 Aligned_cols=37 Identities=19% Similarity=0.118 Sum_probs=29.9
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhC------CeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHEN------NYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~------gwiVl~v 101 (342)
.+..-+.|+|++|||||+++.|+...+... +.-|+||
T Consensus 17 ~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi 59 (235)
T cd01123 17 ETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYI 59 (235)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEE
Confidence 567889999999999999999999876543 2556666
No 111
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=96.66 E-value=0.036 Score=59.86 Aligned_cols=31 Identities=26% Similarity=0.423 Sum_probs=21.4
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeE
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYL 97 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwi 97 (342)
+...++|+|++|||||++ +++++.+.....+
T Consensus 346 ~~~~lll~GppG~GKT~l-Ak~iA~~l~~~~~ 376 (775)
T TIGR00763 346 KGPILCLVGPPGVGKTSL-GKSIAKALNRKFV 376 (775)
T ss_pred CCceEEEECCCCCCHHHH-HHHHHHHhcCCeE
Confidence 455799999999999854 5555555543333
No 112
>PRK12608 transcription termination factor Rho; Provisional
Probab=96.66 E-value=0.045 Score=53.96 Aligned_cols=187 Identities=13% Similarity=0.075 Sum_probs=97.5
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCC----eEEEEeCCccccccCCcceeccCCCCCccccHHHHHHHHHHHHHh
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENN----YLLVHIPWVLRWFAYPKEVSHSLTKEGMVDLNIDAAMWLRHFQKQ 140 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~g----wiVl~vP~~~~~~~~~~~~~~s~~~~~~~~qP~~a~~~L~~~~~~ 140 (342)
.+..|.+|+|++|||||++|.++......+. .+++.|.+... ...++++.++.
T Consensus 131 GkGQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~----------------------EV~df~~~i~~- 187 (380)
T PRK12608 131 GKGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPE----------------------EVTDMRRSVKG- 187 (380)
T ss_pred CCCceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCC----------------------CHHHHHHHHhh-
Confidence 4678999999999999999999777655442 45556654322 11234444421
Q ss_pred CccccCCCCcccccceecCCCCCCCCCCCHHHHHHhhcccccchhHHHHHHHHHHhccccCCCceEEEEEeCccccccCC
Q psy3261 141 NTKWLEDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKYASDVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEK 220 (342)
Q Consensus 141 N~~~L~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s 220 (342)
.+-.+ +....+... + .+..++....+.+..+ ...|+|.+|++..+-.--
T Consensus 188 --------~Vvas----------t~de~~~~~-~--------~v~~~~~~~Ae~f~~~----GkdVVLvlDsltr~A~A~ 236 (380)
T PRK12608 188 --------EVYAS----------TFDRPPDEH-I--------RVAELVLERAKRLVEQ----GKDVVILLDSLTRLARAY 236 (380)
T ss_pred --------hEEee----------cCCCCHHHH-H--------HHHHHHHHHHHHHHHc----CCCEEEEEeCcHHHHHHH
Confidence 11100 000111110 0 1113344455566654 689999999997664421
Q ss_pred C-----cCCCCCCCcccCCccchHHHHHHhhcCCCCCeEE---EEEeCCCCCCC-CC----------ccCcchhHHhhhc
Q psy3261 221 T-----NCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAI---VLALSPRANLP-DR----------RESHLPLYMLKKA 281 (342)
Q Consensus 221 ~-----~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~v---v~AtS~~~~~~-~~----------~~~~~p~~llg~~ 281 (342)
- .=+.+. +=++|.-|..++-|..-.++--.+|.+ -++.-.+++.- ++ -...|.+.|+.+.
T Consensus 237 rei~~~~G~~~s-~G~~~s~~~~~~rl~~~A~~~~~~GSiT~i~TvLvetg~~mdd~I~ee~kg~~dg~ivLsR~lA~~~ 315 (380)
T PRK12608 237 NNEVESSGRTLS-GGVDARALQRPKRLFGAARNIEEGGSLTIIATALVDTGSRMDEVIFEEFKGTGNMEIVLDRELADKR 315 (380)
T ss_pred HhhhcccCCCCC-CCcChHHHhhhHHHHHhcCCCCCCcchhheEEEEEecCCCCCcchHHHhcccCCCeEEECHHHHhCC
Confidence 0 023344 457777777777777666543224432 11112212111 11 1155667777776
Q ss_pred CCCCCCCcce--eecC-CCCHHHHHHHH
Q psy3261 282 GFESIDPFVP--IHVP-ELNDEEFHNLL 306 (342)
Q Consensus 282 g~~~~dP~~~--i~v~-~~s~~E~~~ll 306 (342)
-|..+|+..- -.++ -++++|.+.+.
T Consensus 316 ~fPAIDi~~S~sR~~~~l~~~~~~~~~~ 343 (380)
T PRK12608 316 VFPAIDIAKSGTRREELLLDSKELEKVR 343 (380)
T ss_pred CCCccCcccccCcchhhcCCHHHHHHHH
Confidence 6777777531 1222 45556655443
No 113
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=96.65 E-value=0.069 Score=51.81 Aligned_cols=183 Identities=12% Similarity=0.105 Sum_probs=104.5
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccccccCCcceeccCCCCCccccHHHHHHHHHHHHHhCccc
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWFAYPKEVSHSLTKEGMVDLNIDAAMWLRHFQKQNTKW 144 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~~~~~~~~~s~~~~~~~~qP~~a~~~L~~~~~~N~~~ 144 (342)
.-..-++++|++|+||+++..++..+....+ |.... ++ -...-.+.+...|..-
T Consensus 22 rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~------~~~~~---------~C-----------g~C~sC~~~~~g~HPD 75 (325)
T PRK06871 22 LGHHALLFKADSGLGTEQLIRALAQWLMCQT------PQGDQ---------PC-----------GQCHSCHLFQAGNHPD 75 (325)
T ss_pred CcceeEEeECCCCCCHHHHHHHHHHHHcCCC------CCCCC---------CC-----------CCCHHHHHHhcCCCCC
Confidence 4467899999999999999998888766543 11100 11 1112244444434333
Q ss_pred cCCCCcccccceecCCCCCCCCCCCHHHHHHhhcccccchhHHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCC
Q psy3261 145 LEDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKYASDVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCK 224 (342)
Q Consensus 145 L~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~ 224 (342)
+- -+. + ..|. ....+.+-.+.+++...+..+..+|.| ||+...+-
T Consensus 76 ~~--~i~-----------p-~~~~-------------~I~id~iR~l~~~~~~~~~~g~~KV~i-I~~a~~m~------- 120 (325)
T PRK06871 76 FH--ILE-----------P-IDNK-------------DIGVDQVREINEKVSQHAQQGGNKVVY-IQGAERLT------- 120 (325)
T ss_pred EE--EEc-----------c-ccCC-------------CCCHHHHHHHHHHHhhccccCCceEEE-EechhhhC-------
Confidence 33 221 0 0121 134566667777776655456777776 88885542
Q ss_pred CCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHH
Q psy3261 225 PEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHN 304 (342)
Q Consensus 225 ~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ 304 (342)
-.-...|++.+...+.+..+|+.++....+ +| -+.-+- ..+.+..++.+++..
T Consensus 121 -----------~~AaNaLLKtLEEPp~~~~fiL~t~~~~~l-------lp-TI~SRC--------~~~~~~~~~~~~~~~ 173 (325)
T PRK06871 121 -----------EAAANALLKTLEEPRPNTYFLLQADLSAAL-------LP-TIYSRC--------QTWLIHPPEEQQALD 173 (325)
T ss_pred -----------HHHHHHHHHHhcCCCCCeEEEEEECChHhC-------ch-HHHhhc--------eEEeCCCCCHHHHHH
Confidence 345689999998888888888877654321 11 111110 126777888888876
Q ss_pred HHHHHHhCCCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 305 LLNLYESKKWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 305 ll~yy~~~~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
.++- .+.. .++....+..+++|+|....++.
T Consensus 174 ~L~~---~~~~-~~~~~~~~~~l~~g~p~~A~~~~ 204 (325)
T PRK06871 174 WLQA---QSSA-EISEILTALRINYGRPLLALTFL 204 (325)
T ss_pred HHHH---Hhcc-ChHHHHHHHHHcCCCHHHHHHHh
Confidence 6642 2222 12112234458888887655543
No 114
>CHL00206 ycf2 Ycf2; Provisional
Probab=96.63 E-value=0.074 Score=61.57 Aligned_cols=122 Identities=7% Similarity=0.114 Sum_probs=63.2
Q ss_pred HHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCC----CCCeEEEEEeCCCC
Q psy3261 188 VDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSD----WNNGAIVLALSPRA 263 (342)
Q Consensus 188 ~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~----~~~G~vv~AtS~~~ 263 (342)
+..+++.-++ ..|.+|-||++-++.... ...+++ ..|++.++|+ -.+|++|.|+|...
T Consensus 1721 Ir~lFelARk-----~SPCIIFIDEIDaL~~~d------------s~~ltL-~qLLneLDg~~~~~s~~~VIVIAATNRP 1782 (2281)
T CHL00206 1721 ITLQFELAKA-----MSPCIIWIPNIHDLNVNE------------SNYLSL-GLLVNSLSRDCERCSTRNILVIASTHIP 1782 (2281)
T ss_pred HHHHHHHHHH-----CCCeEEEEEchhhcCCCc------------cceehH-HHHHHHhccccccCCCCCEEEEEeCCCc
Confidence 3445555444 569999999998775431 222344 4455556553 24677666655432
Q ss_pred CCCCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHH-HhCCCccCcc--hHHHHHH-hhCCCHHHHhhhc
Q psy3261 264 NLPDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLY-ESKKWLQTSE--GREEIAF-LTKRVPQKMYEFC 339 (342)
Q Consensus 264 ~~~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy-~~~~~l~~e~--~~~el~~-lSgGNP~~l~~lc 339 (342)
+ .+..+|++.-.|+. -|.|+..+..+=+..+.-. ..+|+-..++ ...++-. ..|-++++|..+|
T Consensus 1783 ---D----~LDPALLRPGRFDR-----~I~Ir~Pd~p~R~kiL~ILl~tkg~~L~~~~vdl~~LA~~T~GfSGADLanLv 1850 (2281)
T CHL00206 1783 ---Q----KVDPALIAPNKLNT-----CIKIRRLLIPQQRKHFFTLSYTRGFHLEKKMFHTNGFGSITMGSNARDLVALT 1850 (2281)
T ss_pred ---c----cCCHhHcCCCCCCe-----EEEeCCCCchhHHHHHHHHHhhcCCCCCcccccHHHHHHhCCCCCHHHHHHHH
Confidence 1 13345665444543 2566655544333333321 2233211111 1223333 5688899998887
No 115
>PRK06526 transposase; Provisional
Probab=96.63 E-value=0.0021 Score=60.14 Aligned_cols=39 Identities=18% Similarity=0.180 Sum_probs=32.7
Q ss_pred CCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEE
Q psy3261 62 NFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVH 100 (342)
Q Consensus 62 ~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~ 100 (342)
++-.....++|+|++|||||.++..+...|...|+-|++
T Consensus 93 ~fi~~~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f 131 (254)
T PRK06526 93 DFVTGKENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLF 131 (254)
T ss_pred chhhcCceEEEEeCCCCchHHHHHHHHHHHHHCCCchhh
Confidence 333456789999999999999999999998888887766
No 116
>PRK05642 DNA replication initiation factor; Validated
Probab=96.60 E-value=0.0053 Score=56.59 Aligned_cols=37 Identities=27% Similarity=0.331 Sum_probs=28.5
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCC
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPW 103 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~ 103 (342)
.+.++|+|++|||||.+|.-+.+.+.++|--|+|++-
T Consensus 45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~ 81 (234)
T PRK05642 45 ESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPL 81 (234)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeH
Confidence 4789999999999999977666666666666677753
No 117
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=96.60 E-value=0.054 Score=57.34 Aligned_cols=122 Identities=14% Similarity=0.084 Sum_probs=64.5
Q ss_pred CceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCC-CCCeEEEEEeCCCCCCCCCccCcchhHHhhhc
Q psy3261 203 VCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSD-WNNGAIVLALSPRANLPDRRESHLPLYMLKKA 281 (342)
Q Consensus 203 ~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~-~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~ 281 (342)
..|.+|.||++.++...-..... .-+...-.....|+.-+.+- -+.+++|.+++... + .+...+++..
T Consensus 243 ~~P~IifIDEiD~l~~~r~~~~~----g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p---~----~lD~Al~Rpg 311 (644)
T PRK10733 243 AAPCIIFIDEIDAVGRQRGAGLG----GGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRP---D----VLDPALLRPG 311 (644)
T ss_pred cCCcEEEehhHhhhhhccCCCCC----CCchHHHHHHHHHHHhhhcccCCCCeeEEEecCCh---h----hcCHHHhCCc
Confidence 46888899999888654221110 00111123334444334432 23455555555432 1 1223343322
Q ss_pred CCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHH-HhhCCCHHHHhhhcc
Q psy3261 282 GFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIA-FLTKRVPQKMYEFCS 340 (342)
Q Consensus 282 g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~-~lSgGNP~~l~~lc~ 340 (342)
.|+. .+.|+.-+.++-..++..|....-+..+.....+- ...|-+|.++..+|.
T Consensus 312 Rfdr-----~i~v~~Pd~~~R~~Il~~~~~~~~l~~~~d~~~la~~t~G~sgadl~~l~~ 366 (644)
T PRK10733 312 RFDR-----QVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVN 366 (644)
T ss_pred ccce-----EEEcCCCCHHHHHHHHHHHhhcCCCCCcCCHHHHHhhCCCCCHHHHHHHHH
Confidence 2432 36777778889999999887765443121112222 356778889998884
No 118
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=96.56 E-value=0.026 Score=60.64 Aligned_cols=96 Identities=11% Similarity=0.160 Sum_probs=54.8
Q ss_pred HHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCC
Q psy3261 187 VVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLP 266 (342)
Q Consensus 187 ~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~ 266 (342)
.+..+++++.+ ..++++.||++..+++... . ... ...+...++.++... .-.||+||+...- .
T Consensus 266 rl~~l~~~l~~-----~~~~ILfIDEIh~L~g~g~-~---~~g-----~~d~~nlLkp~L~~g--~i~vIgATt~~E~-~ 328 (758)
T PRK11034 266 RFKALLKQLEQ-----DTNSILFIDEIHTIIGAGA-A---SGG-----QVDAANLIKPLLSSG--KIRVIGSTTYQEF-S 328 (758)
T ss_pred HHHHHHHHHHh-----cCCCEEEeccHHHHhccCC-C---CCc-----HHHHHHHHHHHHhCC--CeEEEecCChHHH-H
Confidence 45567777764 3477888999988877532 1 111 234556666666421 2345666664320 0
Q ss_pred CCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHH
Q psy3261 267 DRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLY 309 (342)
Q Consensus 267 ~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy 309 (342)
+ -......+.++ | .+|.|+..|.+|...++.-+
T Consensus 329 ~--~~~~D~AL~rR--F------q~I~v~ePs~~~~~~IL~~~ 361 (758)
T PRK11034 329 N--IFEKDRALARR--F------QKIDITEPSIEETVQIINGL 361 (758)
T ss_pred H--HhhccHHHHhh--C------cEEEeCCCCHHHHHHHHHHH
Confidence 0 00011233332 3 35999999999999998743
No 119
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=96.56 E-value=0.23 Score=48.35 Aligned_cols=185 Identities=11% Similarity=0.061 Sum_probs=106.3
Q ss_pred CCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccccccCCcceeccCCCCCccccHHHHHHHHHHHHHhCcc
Q psy3261 64 DRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWFAYPKEVSHSLTKEGMVDLNIDAAMWLRHFQKQNTK 143 (342)
Q Consensus 64 ~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~~~~~~~~~s~~~~~~~~qP~~a~~~L~~~~~~N~~ 143 (342)
+.-..-++++|+.|+||+++......+-.-.+ |.... ++ -...=.+.+...|..
T Consensus 21 ~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~------~~~~~---------~C-----------g~C~sC~~~~~g~HP 74 (334)
T PRK07993 21 GRGHHALLIQALPGMGDDALIYALSRWLMCQQ------PQGHK---------SC-----------GHCRGCQLMQAGTHP 74 (334)
T ss_pred CCcceEEeeECCCCCCHHHHHHHHHHHHcCCC------CCCCC---------CC-----------CCCHHHHHHHcCCCC
Confidence 35567899999999999999888877654321 11100 01 001113444444444
Q ss_pred ccCCCCcccccceecCCCCCCCCCCCHHHHHHhhcccccchhHHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcC
Q psy3261 144 WLEDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKYASDVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNC 223 (342)
Q Consensus 144 ~L~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y 223 (342)
-+. -+. |.+. ......+.+..+.+.+...+..+..+|. .||+...+ +
T Consensus 75 D~~--~i~-------------p~~~-----------~~~I~idqiR~l~~~~~~~~~~g~~kV~-iI~~ae~m----~-- 121 (334)
T PRK07993 75 DYY--TLT-------------PEKG-----------KSSLGVDAVREVTEKLYEHARLGGAKVV-WLPDAALL----T-- 121 (334)
T ss_pred CEE--EEe-------------cccc-----------cccCCHHHHHHHHHHHhhccccCCceEE-EEcchHhh----C--
Confidence 443 221 1111 0124567777778887765545666664 46766443 2
Q ss_pred CCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHH
Q psy3261 224 KPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFH 303 (342)
Q Consensus 224 ~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~ 303 (342)
-+-...|++.+...+.+..+|+.++....+ +| -+.-+- ..+.++..+.+++.
T Consensus 122 ------------~~AaNaLLKtLEEPp~~t~fiL~t~~~~~l-------Lp-TIrSRC--------q~~~~~~~~~~~~~ 173 (334)
T PRK07993 122 ------------DAAANALLKTLEEPPENTWFFLACREPARL-------LA-TLRSRC--------RLHYLAPPPEQYAL 173 (334)
T ss_pred ------------HHHHHHHHHHhcCCCCCeEEEEEECChhhC-------hH-HHHhcc--------ccccCCCCCHHHHH
Confidence 456789999998888888888887764321 11 111110 02677778888888
Q ss_pred HHHHHHHhCCCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 304 NLLNLYESKKWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 304 ~ll~yy~~~~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
..+.- ..+ + .++....+..+++|+|....++.
T Consensus 174 ~~L~~--~~~-~-~~~~a~~~~~la~G~~~~Al~l~ 205 (334)
T PRK07993 174 TWLSR--EVT-M-SQDALLAALRLSAGAPGAALALL 205 (334)
T ss_pred HHHHH--ccC-C-CHHHHHHHHHHcCCCHHHHHHHh
Confidence 76642 113 3 23323345569999998766553
No 120
>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=96.54 E-value=0.0051 Score=61.22 Aligned_cols=37 Identities=27% Similarity=0.304 Sum_probs=31.1
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhC--CeEEEEeC
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHEN--NYLLVHIP 102 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~--gwiVl~vP 102 (342)
..+.++|+|++|+|||.++..+...+.++ |+-|+|++
T Consensus 135 ~~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~ 173 (405)
T TIGR00362 135 AYNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVS 173 (405)
T ss_pred cCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEE
Confidence 35679999999999999998887777766 78888884
No 121
>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=96.53 E-value=0.0033 Score=52.83 Aligned_cols=34 Identities=15% Similarity=0.209 Sum_probs=29.7
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCC
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAHENNYLLVHIPW 103 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~ 103 (342)
++|+|++|||||+++.+++..+..+|--|+++.-
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~ 35 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDI 35 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEEC
Confidence 6899999999999999999998887777777753
No 122
>PRK08727 hypothetical protein; Validated
Probab=96.48 E-value=0.0051 Score=56.66 Aligned_cols=37 Identities=22% Similarity=0.220 Sum_probs=32.3
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
....++|+|+.|||||.++.-+.+.+.++|--|+|+|
T Consensus 40 ~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~ 76 (233)
T PRK08727 40 SSDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLP 76 (233)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence 3456999999999999999988888888888888886
No 123
>PRK06893 DNA replication initiation factor; Validated
Probab=96.47 E-value=0.0054 Score=56.28 Aligned_cols=37 Identities=27% Similarity=0.316 Sum_probs=29.2
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
..+.++|+|++|||||.++.-+.+.+.++|-=|+|++
T Consensus 38 ~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~ 74 (229)
T PRK06893 38 QQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIP 74 (229)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEee
Confidence 3456899999999999999888888777665555554
No 124
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=96.46 E-value=0.0035 Score=56.04 Aligned_cols=23 Identities=22% Similarity=0.325 Sum_probs=20.3
Q ss_pred eEEEEccCCCcHHHHHHHHHHHH
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYA 91 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A 91 (342)
-.+|.||+|||||++++.+++.+
T Consensus 19 ~~~i~GpPGTGKT~~l~~~i~~~ 41 (236)
T PF13086_consen 19 ITLIQGPPGTGKTTTLASIIAQL 41 (236)
T ss_dssp -EEEE-STTSSHHHHHHHHHHHH
T ss_pred CEEEECCCCCChHHHHHHHHHHh
Confidence 48999999999999999999998
No 125
>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=96.45 E-value=0.0037 Score=54.65 Aligned_cols=32 Identities=19% Similarity=0.113 Sum_probs=28.7
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
++|.|++|||||++..|+++.+.++|==|+|+
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~ 33 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYV 33 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence 68999999999999999999888887777777
No 126
>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=96.44 E-value=0.0097 Score=54.36 Aligned_cols=52 Identities=19% Similarity=0.203 Sum_probs=34.3
Q ss_pred hHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHh--CCeEEEEeC
Q psy3261 49 CMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHE--NNYLLVHIP 102 (342)
Q Consensus 49 ~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~--~gwiVl~vP 102 (342)
.+...++.+-+ +.....+.++|+|+.|+|||-+|..+.+.+.+ .+--|+|++
T Consensus 18 ~a~~~~~~ia~--~~~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~ 71 (219)
T PF00308_consen 18 LAYAAAKAIAE--NPGERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS 71 (219)
T ss_dssp HHHHHHHHHHH--STTTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE
T ss_pred HHHHHHHHHHh--cCCCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeec
Confidence 44455555544 22234567999999999999987777777664 355666664
No 127
>KOG0734|consensus
Probab=96.44 E-value=0.048 Score=55.73 Aligned_cols=126 Identities=17% Similarity=0.200 Sum_probs=73.3
Q ss_pred HHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCC
Q psy3261 189 DVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDR 268 (342)
Q Consensus 189 ~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~ 268 (342)
-.|+.+-++ +-|.+|.||++.+.=+.-. .+..|--+-+|-.++.++..-.-+-|+||.+.+... +
T Consensus 386 RdLF~aAk~-----~APcIIFIDEiDavG~kR~------~~~~~y~kqTlNQLLvEmDGF~qNeGiIvigATNfp---e- 450 (752)
T KOG0734|consen 386 RDLFAAAKA-----RAPCIIFIDEIDAVGGKRN------PSDQHYAKQTLNQLLVEMDGFKQNEGIIVIGATNFP---E- 450 (752)
T ss_pred HHHHHHHHh-----cCCeEEEEechhhhcccCC------ccHHHHHHHHHHHHHHHhcCcCcCCceEEEeccCCh---h-
Confidence 345555554 6799999999977654422 233433334788888888765666677655544321 1
Q ss_pred ccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHH--hhCCCHHHHhhh
Q psy3261 269 RESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAF--LTKRVPQKMYEF 338 (342)
Q Consensus 269 ~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~--lSgGNP~~l~~l 338 (342)
.|-..|.+.-.|+. .|.||.=+-..=..++++|...-.+ .++-...+.. .+|-++.+|..+
T Consensus 451 ---~LD~AL~RPGRFD~-----~v~Vp~PDv~GR~eIL~~yl~ki~~-~~~VD~~iiARGT~GFsGAdLaNl 513 (752)
T KOG0734|consen 451 ---ALDKALTRPGRFDR-----HVTVPLPDVRGRTEILKLYLSKIPL-DEDVDPKIIARGTPGFSGADLANL 513 (752)
T ss_pred ---hhhHHhcCCCccce-----eEecCCCCcccHHHHHHHHHhcCCc-ccCCCHhHhccCCCCCchHHHHHH
Confidence 12234444444542 2777777777777888888764444 3321222222 566677776654
No 128
>KOG2543|consensus
Probab=96.42 E-value=0.058 Score=53.03 Aligned_cols=48 Identities=21% Similarity=0.244 Sum_probs=30.8
Q ss_pred ceEEechhH-HHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHH
Q psy3261 42 SSILIRNCM-LELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYA 91 (342)
Q Consensus 42 ~~~lvR~~t-~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A 91 (342)
|-+.-|+.. ..+...|-+ +...-..-++|+|..|||||.++.|+.-..
T Consensus 6 ~~v~~Re~qi~~L~~Llg~--~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~ 54 (438)
T KOG2543|consen 6 PNVPCRESQIRRLKSLLGN--NSCTIPSIVHIYGHSGTGKTYLVRQLLRKL 54 (438)
T ss_pred cCccchHHHHHHHHHHhCC--CCcccceeEEEeccCCCchhHHHHHHHhhc
Confidence 445567744 334444433 111223445999999999999999998765
No 129
>PRK07952 DNA replication protein DnaC; Validated
Probab=96.42 E-value=0.0087 Score=55.71 Aligned_cols=36 Identities=17% Similarity=0.173 Sum_probs=31.7
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
...++|+|++|||||.++..+..++...|--|++++
T Consensus 99 ~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it 134 (244)
T PRK07952 99 IASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT 134 (244)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 358999999999999999999999988887777773
No 130
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=96.41 E-value=0.087 Score=56.61 Aligned_cols=95 Identities=13% Similarity=0.102 Sum_probs=52.6
Q ss_pred HHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCC
Q psy3261 187 VVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLP 266 (342)
Q Consensus 187 ~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~ 266 (342)
-+..+++|++. ..|+++.||++-.+++... . ... .......|+..+.. ..-.+|+||+... .
T Consensus 262 ~l~~i~~~~~~-----~~~~ILfiDEih~l~~~g~-~---~~~-----~~~~~~~L~~~l~~--g~i~~IgaTt~~e--~ 323 (731)
T TIGR02639 262 RLKAVVSEIEK-----EPNAILFIDEIHTIVGAGA-T---SGG-----SMDASNLLKPALSS--GKLRCIGSTTYEE--Y 323 (731)
T ss_pred HHHHHHHHHhc-----cCCeEEEEecHHHHhccCC-C---CCc-----cHHHHHHHHHHHhC--CCeEEEEecCHHH--H
Confidence 34456667754 2488899999988876421 0 011 12234556555542 1234678877532 0
Q ss_pred CCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHH
Q psy3261 267 DRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNL 308 (342)
Q Consensus 267 ~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~y 308 (342)
.+. ......+..+ | .+|+|+..|.+|...+++-
T Consensus 324 ~~~-~~~d~al~rR--f------~~i~v~~p~~~~~~~il~~ 356 (731)
T TIGR02639 324 KNH-FEKDRALSRR--F------QKIDVGEPSIEETVKILKG 356 (731)
T ss_pred HHH-hhhhHHHHHh--C------ceEEeCCCCHHHHHHHHHH
Confidence 100 0011233332 3 2489999999999999973
No 131
>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=96.41 E-value=0.0049 Score=51.50 Aligned_cols=34 Identities=15% Similarity=0.136 Sum_probs=25.5
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCC
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPW 103 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~ 103 (342)
.++|+|++|||||++..++.+.. ...+++++++.
T Consensus 1 ~vlL~G~~G~GKt~l~~~la~~~-~~~~~~i~~~~ 34 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLARELAALL-GRPVIRINCSS 34 (139)
T ss_dssp EEEEEESSSSSHHHHHHHHHHHH-TCEEEEEE-TT
T ss_pred CEEEECCCCCCHHHHHHHHHHHh-hcceEEEEecc
Confidence 37999999999999988877766 55666666543
No 132
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=96.39 E-value=0.0087 Score=56.00 Aligned_cols=73 Identities=16% Similarity=0.160 Sum_probs=50.0
Q ss_pred CCCChhhHHhhhhcC-CceEEech-hHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCC
Q psy3261 26 GGITRVFNEQTQIFN-ESSILIRN-CMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPW 103 (342)
Q Consensus 26 g~l~~~~~~~~~~~~-~~~~lvR~-~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~ 103 (342)
.++|.. +.++.|. +....+++ .-.++....+. .+ ....++|+|++|+|||.++.-+...+...||=|++++-
T Consensus 68 a~~p~~--k~~~~~d~~~~~~~~~~~l~~~~~~~~~-~~---~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~ 141 (254)
T COG1484 68 ASFPAK--KTFEEFDFEFQPGIDKKALEDLASLVEF-FE---RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITA 141 (254)
T ss_pred hcCCcc--CCcccccccCCcchhHHHHHHHHHHHHH-hc---cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEH
Confidence 467774 5555554 12222444 33334444434 22 68899999999999999999999988888999999865
Q ss_pred c
Q psy3261 104 V 104 (342)
Q Consensus 104 ~ 104 (342)
+
T Consensus 142 ~ 142 (254)
T COG1484 142 P 142 (254)
T ss_pred H
Confidence 5
No 133
>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=96.39 E-value=0.058 Score=50.37 Aligned_cols=29 Identities=14% Similarity=0.074 Sum_probs=24.1
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHh
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHE 93 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~ 93 (342)
.++.|.+|.|++|||||+++..+......
T Consensus 14 ~~Gqr~~I~G~~G~GKTTLlr~I~n~l~~ 42 (249)
T cd01128 14 GKGQRGLIVAPPKAGKTTLLQSIANAITK 42 (249)
T ss_pred CCCCEEEEECCCCCCHHHHHHHHHhcccc
Confidence 46889999999999999988777765544
No 134
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=96.38 E-value=0.17 Score=48.89 Aligned_cols=119 Identities=13% Similarity=0.202 Sum_probs=70.4
Q ss_pred chhHHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCC
Q psy3261 183 YASDVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPR 262 (342)
Q Consensus 183 ~a~~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~ 262 (342)
...+-+..+.+.+...+..++++| +.||+...+ + -.-...|++.+...+ ++.+|+.++..
T Consensus 104 I~id~ir~i~~~l~~~p~~~~~kV-vII~~ae~m----~--------------~~aaNaLLK~LEEPp-~~~fILi~~~~ 163 (314)
T PRK07399 104 IRLEQIREIKRFLSRPPLEAPRKV-VVIEDAETM----N--------------EAAANALLKTLEEPG-NGTLILIAPSP 163 (314)
T ss_pred CcHHHHHHHHHHHccCcccCCceE-EEEEchhhc----C--------------HHHHHHHHHHHhCCC-CCeEEEEECCh
Confidence 445556666666665443345554 556776222 2 345778999997655 77777776543
Q ss_pred CCCCCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 263 ANLPDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 263 ~~~~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
.. -+| -+.-+ . ..+.++.++.+++...++......-. +.....+..+++|+|+....+.
T Consensus 164 ~~-------Ll~-TI~SR-c-------q~i~f~~l~~~~~~~~L~~~~~~~~~--~~~~~~l~~~a~Gs~~~al~~l 222 (314)
T PRK07399 164 ES-------LLP-TIVSR-C-------QIIPFYRLSDEQLEQVLKRLGDEEIL--NINFPELLALAQGSPGAAIANI 222 (314)
T ss_pred Hh-------CcH-HHHhh-c-------eEEecCCCCHHHHHHHHHHhhccccc--hhHHHHHHHHcCCCHHHHHHHH
Confidence 21 122 11111 1 13788999999998888754221111 1113467889999999887654
No 135
>COG3899 Predicted ATPase [General function prediction only]
Probab=96.28 E-value=0.04 Score=60.09 Aligned_cols=123 Identities=14% Similarity=0.063 Sum_probs=73.2
Q ss_pred HHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCC
Q psy3261 186 DVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANL 265 (342)
Q Consensus 186 ~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~ 265 (342)
-++...+..... .+.|+++.+||+ +|....+ |.+.+.+++-+. .|+. .......
T Consensus 140 ~~~~~~i~~~~~----~~~plVi~leDl-hWaD~~S--------------L~lL~~lm~~~~----~~~~---~~n~v~~ 193 (849)
T COG3899 140 LAFLRFIQVFTA----EEHPLVIVLEDL-HWADSAS--------------LKLLQLLMDRIA----IGAY---RDNEVLL 193 (849)
T ss_pred HHHHHHHHHHHh----ccCCeEEEEecc-cccChhH--------------HHHHHHHHHhcc----hhhh---hcccccc
Confidence 455556666554 367999999999 8888877 888888888876 1221 0100001
Q ss_pred CCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHHhhCCCHHHHhhhcc
Q psy3261 266 PDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAFLTKRVPQKMYEFCS 340 (342)
Q Consensus 266 ~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~lSgGNP~~l~~lc~ 340 (342)
..|....++.-. + +. .....|.+.+||..+...++.---.+........-.++.-.|.|||.=+.++|.
T Consensus 194 ~h~~~~~~~~~~--~-~~---~~i~~I~L~PL~~~d~~~lV~~~l~~~~~~~~p~~~~i~~kt~GnPfFi~e~lk 262 (849)
T COG3899 194 LHPLRPTLGEIL--K-SA---TNITTITLAPLSRADTNQLVAATLGCTKLLPAPLLELIFEKTKGNPFFIEEFLK 262 (849)
T ss_pred CCCccchhhHHh--h-cC---CceeEEecCcCchhhHHHHHHHHhCCcccccchHHHHHHHHhcCCCccHHHHHH
Confidence 111111111111 1 11 112248999999999999996555554332222333566689999988777764
No 136
>PTZ00202 tuzin; Provisional
Probab=96.27 E-value=0.023 Score=57.18 Aligned_cols=48 Identities=19% Similarity=0.129 Sum_probs=31.2
Q ss_pred eEEechhHH-HHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHH
Q psy3261 43 SILIRNCML-ELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAH 92 (342)
Q Consensus 43 ~~lvR~~t~-el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~ 92 (342)
.+.=|+.-+ +|...|.. .+... ..-.+|+|+.|||||+++..++..+.
T Consensus 263 ~FVGReaEla~Lr~VL~~-~d~~~-privvLtG~~G~GKTTLlR~~~~~l~ 311 (550)
T PTZ00202 263 QFVSREAEESWVRQVLRR-LDTAH-PRIVVFTGFRGCGKSSLCRSAVRKEG 311 (550)
T ss_pred CCCCcHHHHHHHHHHHhc-cCCCC-ceEEEEECCCCCCHHHHHHHHHhcCC
Confidence 445566333 34444444 33222 24678999999999999999997654
No 137
>CHL00095 clpC Clp protease ATP binding subunit
Probab=96.24 E-value=0.052 Score=59.06 Aligned_cols=92 Identities=13% Similarity=0.169 Sum_probs=52.0
Q ss_pred HHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhc-CCCCCeEEEEEeCCCCCC
Q psy3261 187 VVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQ-SDWNNGAIVLALSPRANL 265 (342)
Q Consensus 187 ~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~-~~~~~G~vv~AtS~~~~~ 265 (342)
-+..+++|++. ..|+++.||++-.+++... . ++ ...+...|+.++. |+ -.+|+||+...-
T Consensus 259 rl~~i~~~~~~-----~~~~ILfiDEih~l~~~g~--~--~g------~~~~a~lLkp~l~rg~---l~~IgaTt~~ey- 319 (821)
T CHL00095 259 RLKRIFDEIQE-----NNNIILVIDEVHTLIGAGA--A--EG------AIDAANILKPALARGE---LQCIGATTLDEY- 319 (821)
T ss_pred HHHHHHHHHHh-----cCCeEEEEecHHHHhcCCC--C--CC------cccHHHHhHHHHhCCC---cEEEEeCCHHHH-
Confidence 35566777754 4689999999988876532 1 11 1245666666664 32 346777764320
Q ss_pred CCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHH
Q psy3261 266 PDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLN 307 (342)
Q Consensus 266 ~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~ 307 (342)
... ......+..+ |.++.+...+.+|...++.
T Consensus 320 -~~~-ie~D~aL~rR--------f~~I~v~ep~~~e~~aILr 351 (821)
T CHL00095 320 -RKH-IEKDPALERR--------FQPVYVGEPSVEETIEILF 351 (821)
T ss_pred -HHH-HhcCHHHHhc--------ceEEecCCCCHHHHHHHHH
Confidence 000 0000111111 3358888899999877774
No 138
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=96.24 E-value=0.0074 Score=52.54 Aligned_cols=41 Identities=22% Similarity=0.340 Sum_probs=34.8
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEE--EEeCCcc
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLL--VHIPWVL 105 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiV--l~vP~~~ 105 (342)
+...|+.++|++|+||||++.-+....+++|+=| ++.|...
T Consensus 3 ~~~mki~ITG~PGvGKtTl~~ki~e~L~~~g~kvgGf~t~EVR 45 (179)
T COG1618 3 KMAMKIFITGRPGVGKTTLVLKIAEKLREKGYKVGGFITPEVR 45 (179)
T ss_pred CcceEEEEeCCCCccHHHHHHHHHHHHHhcCceeeeEEeeeee
Confidence 3467999999999999999999999999998777 5556654
No 139
>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]
Probab=96.20 E-value=0.0041 Score=54.72 Aligned_cols=26 Identities=27% Similarity=0.349 Sum_probs=23.1
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
.++-++.|+||.|||||++|.++...
T Consensus 27 ~~Ge~iaitGPSG~GKStllk~va~L 52 (223)
T COG4619 27 RAGEFIAITGPSGCGKSTLLKIVASL 52 (223)
T ss_pred cCCceEEEeCCCCccHHHHHHHHHhc
Confidence 46889999999999999999998764
No 140
>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=96.15 E-value=0.0049 Score=58.96 Aligned_cols=38 Identities=21% Similarity=0.140 Sum_probs=32.8
Q ss_pred CCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 64 DRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 64 ~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
..+...+.|.|++|||||+++..+..++.+.|+-|..|
T Consensus 31 ~~~~~~i~i~G~~G~GKttl~~~l~~~~~~~~~~v~~i 68 (300)
T TIGR00750 31 TGNAHRVGITGTPGAGKSTLLEALGMELRRRGLKVAVI 68 (300)
T ss_pred cCCceEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence 35688999999999999999999999998888766554
No 141
>PRK08939 primosomal protein DnaI; Reviewed
Probab=96.15 E-value=0.011 Score=56.97 Aligned_cols=75 Identities=16% Similarity=0.092 Sum_probs=46.0
Q ss_pred cCCCChhhH-HhhhhcCCceEEechhHHHH-HHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 25 LGGITRVFN-EQTQIFNESSILIRNCMLEL-VGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 25 ~g~l~~~~~-~~~~~~~~~~~lvR~~t~el-~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.-+||+.+. ..++.|.-.. .-|..+.+. .+++++ .........++|+|+.|+|||.++.-+...+.++|+=|.++
T Consensus 114 ~a~~p~~~~~atf~~~~~~~-~~~~~~~~~~~~fi~~-~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~ 190 (306)
T PRK08939 114 SIYMPKDLLQASLADIDLDD-RDRLDALMAALDFLEA-YPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLL 190 (306)
T ss_pred HcCCCHhHhcCcHHHhcCCC-hHHHHHHHHHHHHHHH-hhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 347887554 2344443111 123322222 334444 22223457899999999999999999999988888766554
No 142
>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=96.14 E-value=0.005 Score=50.24 Aligned_cols=65 Identities=15% Similarity=0.242 Sum_probs=38.0
Q ss_pred HHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCC--CeEEEEEeCCC
Q psy3261 187 VVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWN--NGAIVLALSPR 262 (342)
Q Consensus 187 ~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~--~G~vv~AtS~~ 262 (342)
.+..++++.+.. ..|.++.+||+-.++...+ ..-...+-.+.+.|++.+..... +.++|.+|+..
T Consensus 45 ~i~~~~~~~~~~----~~~~vl~iDe~d~l~~~~~-------~~~~~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn~ 111 (132)
T PF00004_consen 45 KIRDFFKKAKKS----AKPCVLFIDEIDKLFPKSQ-------PSSSSFEQRLLNQLLSLLDNPSSKNSRVIVIATTNS 111 (132)
T ss_dssp HHHHHHHHHHHT----STSEEEEEETGGGTSHHCS-------TSSSHHHHHHHHHHHHHHHTTTTTSSSEEEEEEESS
T ss_pred cccccccccccc----ccceeeeeccchhcccccc-------cccccccccccceeeecccccccccccceeEEeeCC
Confidence 344455555442 2489999999988877641 11222334677788888876543 44555555543
No 143
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=96.13 E-value=0.0084 Score=55.17 Aligned_cols=38 Identities=16% Similarity=0.180 Sum_probs=33.4
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.+...++|.|+.|||||++..|++.-+.++|+-++||.
T Consensus 22 ~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~ 59 (230)
T PRK08533 22 PAGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVS 59 (230)
T ss_pred CCCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence 45779999999999999999999988878898887775
No 144
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=96.10 E-value=0.0094 Score=50.68 Aligned_cols=34 Identities=18% Similarity=0.284 Sum_probs=29.0
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
+++.+.|+.|||||+++..++.++.++|+=|.+|
T Consensus 1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~i 34 (140)
T PF03205_consen 1 PVVQVVGPKNSGKTTLIRKLINELKRRGYRVAVI 34 (140)
T ss_dssp -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEE
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhHcCCceEEE
Confidence 3688999999999999999999999999988766
No 145
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=96.06 E-value=0.019 Score=51.45 Aligned_cols=36 Identities=19% Similarity=0.176 Sum_probs=29.3
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
...-.+|.|++|||||++|..+.......|+-|+.+
T Consensus 17 ~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~ 52 (196)
T PF13604_consen 17 GDRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGL 52 (196)
T ss_dssp TCSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEE
T ss_pred CCeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEE
Confidence 456688899999999999999998888888777666
No 146
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=96.01 E-value=0.016 Score=58.55 Aligned_cols=38 Identities=26% Similarity=0.330 Sum_probs=31.1
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhC--CeEEEEeCC
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHEN--NYLLVHIPW 103 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~--gwiVl~vP~ 103 (342)
..+.++|+|++|||||.++..+...+.++ +.-|+|++.
T Consensus 147 ~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~ 186 (450)
T PRK00149 147 AYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTS 186 (450)
T ss_pred cCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 44679999999999999998888888776 566777743
No 147
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=96.01 E-value=0.0073 Score=52.06 Aligned_cols=27 Identities=26% Similarity=0.372 Sum_probs=21.0
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEEE
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLV 99 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl 99 (342)
|++|+|..||||||++.++..+ |+.++
T Consensus 1 rI~i~G~~stGKTTL~~~L~~~----g~~~v 27 (163)
T PF13521_consen 1 RIVITGGPSTGKTTLIEALAAR----GYPVV 27 (163)
T ss_dssp -EEEE--TTSHHHHHHHHHHHH----T-EEE
T ss_pred CEEEECCCCCCHHHHHHHHHHc----CCeEE
Confidence 7899999999999999999877 88876
No 148
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=96.01 E-value=0.0094 Score=55.59 Aligned_cols=38 Identities=13% Similarity=0.181 Sum_probs=35.4
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.+...++++|++|||||++..|.+.-..+.|+-|+||.
T Consensus 21 p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs 58 (260)
T COG0467 21 PRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVS 58 (260)
T ss_pred cCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEE
Confidence 56889999999999999999999999999999999993
No 149
>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=95.99 E-value=0.0094 Score=55.83 Aligned_cols=38 Identities=11% Similarity=0.077 Sum_probs=33.8
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.+..-++|.|++|||||++..|++..+.++|.=|+||.
T Consensus 34 p~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis 71 (259)
T TIGR03878 34 PAYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVT 71 (259)
T ss_pred ECCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEE
Confidence 46788999999999999999999888878899888884
No 150
>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=95.99 E-value=0.011 Score=54.14 Aligned_cols=38 Identities=8% Similarity=0.179 Sum_probs=33.5
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhC-CeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHEN-NYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~-gwiVl~vP 102 (342)
.++.-++|.|++|+|||+++.|++..+..+ |+-|+|+.
T Consensus 11 ~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s 49 (242)
T cd00984 11 QPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFS 49 (242)
T ss_pred CCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEe
Confidence 567789999999999999999998877766 99999985
No 151
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=95.98 E-value=0.48 Score=45.86 Aligned_cols=118 Identities=10% Similarity=0.061 Sum_probs=71.3
Q ss_pred chhHHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCC
Q psy3261 183 YASDVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPR 262 (342)
Q Consensus 183 ~a~~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~ 262 (342)
...+.+..+.+.+...+..++.+ ++.||+...+ + .+-...|++.+.....+..+|+.++..
T Consensus 93 I~idqIR~l~~~~~~~p~~g~~k-V~iI~~ae~m----~--------------~~AaNaLLKtLEEPp~~~~fiL~~~~~ 153 (319)
T PRK08769 93 IVIEQVREISQKLALTPQYGIAQ-VVIVDPADAI----N--------------RAACNALLKTLEEPSPGRYLWLISAQP 153 (319)
T ss_pred ccHHHHHHHHHHHhhCcccCCcE-EEEeccHhhh----C--------------HHHHHHHHHHhhCCCCCCeEEEEECCh
Confidence 44555666666665543334445 4557777544 2 456789999998877888787777654
Q ss_pred CCCCCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHHhhCCCHHHHhhhcc
Q psy3261 263 ANLPDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAFLTKRVPQKMYEFCS 340 (342)
Q Consensus 263 ~~~~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~lSgGNP~~l~~lc~ 340 (342)
..+ +|- +.-+ -..+.++..+.+|+...+. +.|.- ++...++..+++|+|....+++.
T Consensus 154 ~~l-------LpT-IrSR--------Cq~i~~~~~~~~~~~~~L~---~~~~~--~~~a~~~~~l~~G~p~~A~~~~~ 210 (319)
T PRK08769 154 ARL-------PAT-IRSR--------CQRLEFKLPPAHEALAWLL---AQGVS--ERAAQEALDAARGHPGLAAQWLR 210 (319)
T ss_pred hhC-------chH-HHhh--------heEeeCCCcCHHHHHHHHH---HcCCC--hHHHHHHHHHcCCCHHHHHHHhc
Confidence 321 111 1111 0126777788888776664 34432 33344667799999988777653
No 152
>KOG2859|consensus
Probab=95.94 E-value=0.038 Score=50.42 Aligned_cols=162 Identities=12% Similarity=0.137 Sum_probs=92.3
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHh------CCeEEEEeCCccccccCCcceeccCCCCCccccHHHHHHHHHHHHH
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHE------NNYLLVHIPWVLRWFAYPKEVSHSLTKEGMVDLNIDAAMWLRHFQK 139 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~------~gwiVl~vP~~~~~~~~~~~~~~s~~~~~~~~qP~~a~~~L~~~~~ 139 (342)
.+.-+=++||.|||||..|.|++++|.- -+|.|+.|.--.+ ||--..++.+=.++++
T Consensus 37 aG~~vEi~Gp~~sgKt~vL~ql~a~CilPk~~GGl~~~VLfidld~~-----------------fd~lrL~~~l~hrL~q 99 (293)
T KOG2859|consen 37 AGTLVEISGPGNSGKTLVLQQLVAHCILPKKFGGLQWSVLFIDLDHK-----------------FDRLRLAKSLRHRLKQ 99 (293)
T ss_pred cCcEEEEeCCCCccHHHHHHHHHHHeecccccCCceeEEEEEecccc-----------------ccHHHHHHHHHHHHHH
Confidence 4567889999999999999999999973 3899998843222 5555667666667777
Q ss_pred hCccccCCCCcccccceecCCCCCCCCCCCHHHHHHhhcccccc----hh-HHHHHHHHHHhccccCCCceEEEEEeCcc
Q psy3261 140 QNTKWLEDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKY----AS-DVVDVLFTEIKKLSTEGVCRTFVCVDGYN 214 (342)
Q Consensus 140 ~N~~~L~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~----a~-~~~~~l~~EL~~~~~~~~~pVLvavD~~n 214 (342)
.| +. +.-+.+ -|..+.+.||+..++.+-.+ ++ +.+.-++.-=..-. ++.--.|+++|.+.
T Consensus 100 ~~---~~--e~~~~~---------c~te~~~eEi~~~Cm~Rf~~v~C~~s~~ll~sL~~l~y~i~-~~p~~cll~~Dsls 164 (293)
T KOG2859|consen 100 YS---VG--EVIAAK---------CPTEEQLEEIAGECMSRFRFVNCFASDDLLTSLIDLRYAII-NDPGICLLAMDSLS 164 (293)
T ss_pred hh---hh--hhhhhc---------CCcHhHHHHHHHHHHhhEEEEEeeccHHHHHHHHHHHHHHh-cCCceeEEeecchh
Confidence 66 44 222111 12344788999888877543 22 33333332211111 01113499999998
Q ss_pred ccccCCCcCCCCCCCcccCCcc-chHHHHHHhhcCCCCCeEEEEEeCCCC
Q psy3261 215 SFFAEKTNCKPEDKSKVLPSRV-TLTRSVINLVQSDWNNGAIVLALSPRA 263 (342)
Q Consensus 215 ~~~~~s~~y~~~~~~~I~~~~l-~l~~~~~~~~~~~~~~G~vv~AtS~~~ 263 (342)
+|+=... .+.-+..+-...++ .+..-+.++... -..|++||.++.
T Consensus 165 aFyW~Dr-~~~le~~n~~~~~lr~~~q~LeKL~~d---~~lv~~aT~~ti 210 (293)
T KOG2859|consen 165 AFYWLDR-PKILEKRNSMYRHLRLLQQRLEKLCKD---AILVGMATVETI 210 (293)
T ss_pred hheeecc-cchHhhhhhHHHHHHHHHHHHHHHHhh---heeeeeeehhHH
Confidence 7765432 33211112112222 233333333322 347788888754
No 153
>PRK04296 thymidine kinase; Provisional
Probab=95.93 E-value=0.011 Score=52.81 Aligned_cols=33 Identities=21% Similarity=0.231 Sum_probs=28.9
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
-.+++|+.|+|||+++.+.+..+...|--|+.+
T Consensus 4 i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~ 36 (190)
T PRK04296 4 LEFIYGAMNSGKSTELLQRAYNYEERGMKVLVF 36 (190)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEE
Confidence 468999999999999999999988888777766
No 154
>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=95.91 E-value=0.011 Score=55.08 Aligned_cols=38 Identities=21% Similarity=0.127 Sum_probs=33.0
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhC-CeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHEN-NYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~-gwiVl~vP 102 (342)
.+..-++|.|++|+|||+++.|+...+..+ |+-|+|+.
T Consensus 28 ~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS 66 (271)
T cd01122 28 RKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTIS 66 (271)
T ss_pred cCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEE
Confidence 467789999999999999999998877655 99999984
No 155
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=95.90 E-value=0.29 Score=48.39 Aligned_cols=24 Identities=21% Similarity=0.360 Sum_probs=19.5
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYAL 88 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~ 88 (342)
++...++|+||+|||||.+...+.
T Consensus 146 k~PlgllL~GPPGcGKTllAraiA 169 (413)
T PLN00020 146 KVPLILGIWGGKGQGKSFQCELVF 169 (413)
T ss_pred CCCeEEEeeCCCCCCHHHHHHHHH
Confidence 677889999999999998755443
No 156
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=95.84 E-value=0.3 Score=49.84 Aligned_cols=119 Identities=17% Similarity=0.208 Sum_probs=69.4
Q ss_pred CceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcC-CCCCeEEEEEeCCCCCCCCCccCcchhHHhhhc
Q psy3261 203 VCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQS-DWNNGAIVLALSPRANLPDRRESHLPLYMLKKA 281 (342)
Q Consensus 203 ~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~-~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~ 281 (342)
..|..|.+|++-+++..-+ .... .....++..|+..+.| +-..+++|.+++... + .+...+++.-
T Consensus 334 ~~p~iiFiDEiDs~~~~r~-~~~~------~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p---~----~ld~a~lR~g 399 (494)
T COG0464 334 LAPSIIFIDEIDSLASGRG-PSED------GSGRRVVGQLLTELDGIEKAEGVLVIAATNRP---D----DLDPALLRPG 399 (494)
T ss_pred CCCcEEEEEchhhhhccCC-CCCc------hHHHHHHHHHHHHhcCCCccCceEEEecCCCc---c----ccCHhhcccC
Confidence 5689999999999987733 1100 0004677778877765 344555555544432 1 1223444432
Q ss_pred CCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCcc--CcchHHHHHH-hhCCCHHHHhhhcc
Q psy3261 282 GFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQ--TSEGREEIAF-LTKRVPQKMYEFCS 340 (342)
Q Consensus 282 g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~--~e~~~~el~~-lSgGNP~~l~~lc~ 340 (342)
.|+. .+.|+.-+.+|-..++..+....-.. .+-...++-- ..|-.+.++..+|.
T Consensus 400 Rfd~-----~i~v~~pd~~~r~~i~~~~~~~~~~~~~~~~~~~~l~~~t~~~sgadi~~i~~ 456 (494)
T COG0464 400 RFDR-----LIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVR 456 (494)
T ss_pred ccce-----EeecCCCCHHHHHHHHHHHhcccCCcchhhhhHHHHHHHhcCCCHHHHHHHHH
Confidence 3443 37899999999999998888743321 1222223333 44556777776663
No 157
>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=95.80 E-value=0.02 Score=52.12 Aligned_cols=39 Identities=13% Similarity=0.073 Sum_probs=33.2
Q ss_pred CCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 64 DRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 64 ~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
-.+..-++|.|++|||||+++.|++..+.++|.=|+||.
T Consensus 17 i~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is 55 (229)
T TIGR03881 17 IPRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVT 55 (229)
T ss_pred CcCCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEE
Confidence 357889999999999999999998877777888778774
No 158
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=95.78 E-value=0.011 Score=58.40 Aligned_cols=37 Identities=19% Similarity=0.342 Sum_probs=33.3
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
-+..-++|-|++|.||||+|+|+.+-..+++ =||||.
T Consensus 91 V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~-~vLYVs 127 (456)
T COG1066 91 VPGSVILIGGDPGIGKSTLLLQVAARLAKRG-KVLYVS 127 (456)
T ss_pred ccccEEEEccCCCCCHHHHHHHHHHHHHhcC-cEEEEe
Confidence 3678899999999999999999999887777 999995
No 159
>cd04155 Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.
Probab=95.75 E-value=0.0096 Score=51.08 Aligned_cols=25 Identities=24% Similarity=0.406 Sum_probs=22.1
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
.+..+++|.|+.|||||+++.++..
T Consensus 12 ~~~~~v~i~G~~g~GKStLl~~l~~ 36 (173)
T cd04155 12 SEEPRILILGLDNAGKTTILKQLAS 36 (173)
T ss_pred CCccEEEEEccCCCCHHHHHHHHhc
Confidence 4578999999999999999998854
No 160
>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=95.75 E-value=0.014 Score=50.78 Aligned_cols=34 Identities=21% Similarity=0.328 Sum_probs=28.9
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.+++.|++|+|||++...+...+.++|.-|+.|.
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~ 35 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVA 35 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence 4689999999999999999988888887666664
No 161
>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=95.73 E-value=0.017 Score=51.78 Aligned_cols=38 Identities=21% Similarity=0.201 Sum_probs=32.8
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.++.-+.|+|++|||||++..|+...+..+|-=|+||.
T Consensus 10 ~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~ 47 (209)
T TIGR02237 10 ERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYID 47 (209)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence 45778899999999999999999998887787777774
No 162
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=95.71 E-value=0.012 Score=59.41 Aligned_cols=37 Identities=22% Similarity=0.344 Sum_probs=31.2
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
..+.++|+|++|+|||.++..+...+.++|.-|+|++
T Consensus 140 ~~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~ 176 (445)
T PRK12422 140 PFNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVR 176 (445)
T ss_pred CCceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEee
Confidence 3478999999999999998888888877787777775
No 163
>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=95.70 E-value=0.017 Score=52.50 Aligned_cols=37 Identities=24% Similarity=0.201 Sum_probs=33.9
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.+..-++|.|++|+|||++..|++..+.++|.-|+||
T Consensus 14 ~~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~ 50 (224)
T TIGR03880 14 PEGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYI 50 (224)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEE
Confidence 4678899999999999999999999998889999988
No 164
>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=95.69 E-value=0.024 Score=51.20 Aligned_cols=37 Identities=16% Similarity=0.155 Sum_probs=32.3
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.+..-++|+|++|||||++..|++..+..+|-=|+||
T Consensus 17 ~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi 53 (218)
T cd01394 17 ERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYI 53 (218)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence 4567788999999999999999999888777777777
No 165
>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=95.63 E-value=0.022 Score=52.45 Aligned_cols=38 Identities=18% Similarity=0.079 Sum_probs=33.2
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.++.-++|.|++|||||++..|++..+..+|==++||.
T Consensus 19 ~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs 56 (237)
T TIGR03877 19 PERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVA 56 (237)
T ss_pred cCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEE
Confidence 57888999999999999999999988778887777773
No 166
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=95.56 E-value=0.033 Score=54.18 Aligned_cols=47 Identities=23% Similarity=0.136 Sum_probs=36.6
Q ss_pred HHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEE
Q psy3261 50 MLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLV 99 (342)
Q Consensus 50 t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl 99 (342)
+.+|++.+.. ...+..++-|+|++||||||++..++.+....||=|.
T Consensus 42 ~~~l~~~~~~---~~~~~~~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~ 88 (332)
T PRK09435 42 AQELLDALLP---HTGNALRIGITGVPGVGKSTFIEALGMHLIEQGHKVA 88 (332)
T ss_pred HHHHHHHHhh---cCCCcEEEEEECCCCCCHHHHHHHHHHHHHHCCCeEE
Confidence 4456665543 2356789999999999999999999999998877443
No 167
>PRK07667 uridine kinase; Provisional
Probab=95.56 E-value=0.041 Score=49.04 Aligned_cols=51 Identities=16% Similarity=0.162 Sum_probs=37.1
Q ss_pred HHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhC--CeEEEEeCC
Q psy3261 50 MLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHEN--NYLLVHIPW 103 (342)
Q Consensus 50 t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~--gwiVl~vP~ 103 (342)
+-+|++.|.+ .. .....+-|+|..|||||++...+...-... ++.+++.++
T Consensus 3 ~~~~~~~~~~-~~--~~~~iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~~Dd 55 (193)
T PRK07667 3 TNELINIMKK-HK--ENRFILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFHIDD 55 (193)
T ss_pred HHHHHHHHHh-cC--CCCEEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEEcCc
Confidence 4466777765 22 233677899999999999998888776655 477887765
No 168
>PRK13695 putative NTPase; Provisional
Probab=95.54 E-value=0.021 Score=49.82 Aligned_cols=30 Identities=23% Similarity=0.432 Sum_probs=25.4
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEE
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLL 98 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiV 98 (342)
+++|+|+.|||||+++.++.......|.-+
T Consensus 2 ~i~ltG~~G~GKTTll~~i~~~l~~~G~~~ 31 (174)
T PRK13695 2 KIGITGPPGVGKTTLVLKIAELLKEEGYKV 31 (174)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCeE
Confidence 689999999999999999888776666543
No 169
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=95.53 E-value=1.3 Score=43.36 Aligned_cols=115 Identities=12% Similarity=0.112 Sum_probs=72.5
Q ss_pred chhHHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCC
Q psy3261 183 YASDVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPR 262 (342)
Q Consensus 183 ~a~~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~ 262 (342)
+..+-+..+.+.+...+..++.+|+| ||+...+ + .+-...|++.+...+.+..+|+.|+..
T Consensus 112 I~idqiR~l~~~~~~~~~~~~~kV~i-I~~ae~m----~--------------~~AaNaLLKtLEEPp~~t~fiL~t~~~ 172 (342)
T PRK06964 112 IKIEQVRALLDFCGVGTHRGGARVVV-LYPAEAL----N--------------VAAANALLKTLEEPPPGTVFLLVSARI 172 (342)
T ss_pred cCHHHHHHHHHHhccCCccCCceEEE-Eechhhc----C--------------HHHHHHHHHHhcCCCcCcEEEEEECCh
Confidence 44566777777776544345666554 6777444 2 456789999998777888888888764
Q ss_pred CCCCCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 263 ANLPDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 263 ~~~~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
..+ +| -+..+- ..+.++..+.+|+...+.- .|.- + ...+..+++|+|....++.
T Consensus 173 ~~L-------Lp-TI~SRc--------q~i~~~~~~~~~~~~~L~~---~~~~--~--~~~~l~~~~Gsp~~Al~~~ 226 (342)
T PRK06964 173 DRL-------LP-TILSRC--------RQFPMTVPAPEAAAAWLAA---QGVA--D--ADALLAEAGGAPLAALALA 226 (342)
T ss_pred hhC-------cH-HHHhcC--------EEEEecCCCHHHHHHHHHH---cCCC--h--HHHHHHHcCCCHHHHHHHH
Confidence 421 11 111110 1278888999888877753 3432 2 2245668999998776654
No 170
>PRK09087 hypothetical protein; Validated
Probab=95.53 E-value=0.033 Score=51.18 Aligned_cols=47 Identities=9% Similarity=-0.033 Sum_probs=31.6
Q ss_pred eeecCCCCHHHHHHHHHHHHhCCCcc-CcchHHHHHHhhCCCHHHHhh
Q psy3261 291 PIHVPELNDEEFHNLLNLYESKKWLQ-TSEGREEIAFLTKRVPQKMYE 337 (342)
Q Consensus 291 ~i~v~~~s~~E~~~ll~yy~~~~~l~-~e~~~~el~~lSgGNP~~l~~ 337 (342)
.+++..++.++...+++...+..-+. .++-...|---+.|+.+.+..
T Consensus 147 ~~~l~~pd~e~~~~iL~~~~~~~~~~l~~ev~~~La~~~~r~~~~l~~ 194 (226)
T PRK09087 147 VVEIGEPDDALLSQVIFKLFADRQLYVDPHVVYYLVSRMERSLFAAQT 194 (226)
T ss_pred eeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhhhHHHHHH
Confidence 37889999999999997776654333 454333344466777777764
No 171
>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=95.53 E-value=0.034 Score=52.32 Aligned_cols=42 Identities=19% Similarity=0.287 Sum_probs=32.3
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCcccc
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRW 107 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~ 107 (342)
+..-+++.|+.||||||+|..++.+-...+.-|+.|-+..++
T Consensus 79 ~~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~ 120 (264)
T cd01129 79 PHGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEY 120 (264)
T ss_pred CCCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCcee
Confidence 345689999999999999998887765566677777555444
No 172
>CHL00181 cbbX CbbX; Provisional
Probab=95.53 E-value=0.019 Score=54.77 Aligned_cols=114 Identities=8% Similarity=0.111 Sum_probs=63.0
Q ss_pred EEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhcCCCCC
Q psy3261 207 FVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLKKAGFESI 286 (342)
Q Consensus 207 LvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~g~~~~ 286 (342)
++.||++-.++.... +. ...-.....|+.++.....+-+||+|++... -+.. ......+..+ |..
T Consensus 125 VLfIDE~~~l~~~~~---~~------~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~--~~~~-~~~np~L~sR--~~~- 189 (287)
T CHL00181 125 VLFIDEAYYLYKPDN---ER------DYGSEAIEILLQVMENQRDDLVVIFAGYKDR--MDKF-YESNPGLSSR--IAN- 189 (287)
T ss_pred EEEEEccchhccCCC---cc------chHHHHHHHHHHHHhcCCCCEEEEEeCCcHH--HHHH-HhcCHHHHHh--CCc-
Confidence 677999976654311 00 0112566777777765555556666654321 0000 0001123332 211
Q ss_pred CCcceeecCCCCHHHHHHHHHHHHhCCCcc-CcchHHHHHH-h-------hCCCHHHHhhhc
Q psy3261 287 DPFVPIHVPELNDEEFHNLLNLYESKKWLQ-TSEGREEIAF-L-------TKRVPQKMYEFC 339 (342)
Q Consensus 287 dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~-~e~~~~el~~-l-------SgGNP~~l~~lc 339 (342)
.++++.|+.+|...+++.+....-.. ++++...+.- + .-||.|++++++
T Consensus 190 ----~i~F~~~t~~el~~I~~~~l~~~~~~l~~~~~~~L~~~i~~~~~~~~~GNaR~vrn~v 247 (287)
T CHL00181 190 ----HVDFPDYTPEELLQIAKIMLEEQQYQLTPEAEKALLDYIKKRMEQPLFANARSVRNAL 247 (287)
T ss_pred ----eEEcCCcCHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHhCCCCCCccHHHHHHHH
Confidence 38999999999999998887654322 4544433332 1 228999998875
No 173
>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c
Probab=95.51 E-value=0.017 Score=52.47 Aligned_cols=33 Identities=18% Similarity=0.174 Sum_probs=27.1
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHH--HhCCeEEE
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYA--HENNYLLV 99 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A--~~~gwiVl 99 (342)
..+++|+|+.|+|||++|.++..-+ .+.||.|.
T Consensus 29 ~~~~~itGpNg~GKStlLk~i~~~~~la~~G~~v~ 63 (213)
T cd03281 29 PSIMVITGPNSSGKSVYLKQVALIVFLAHIGSFVP 63 (213)
T ss_pred ceEEEEECCCCCChHHHHHHHHHHHHHHhCCCeeE
Confidence 3889999999999999999998544 45688664
No 174
>PF13479 AAA_24: AAA domain
Probab=95.51 E-value=0.029 Score=50.92 Aligned_cols=35 Identities=17% Similarity=0.241 Sum_probs=29.7
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccc
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLR 106 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~ 106 (342)
...+++|||++|+|||+++..+ .+.++|.+-....
T Consensus 2 ~~~~~lIyG~~G~GKTt~a~~~------~k~l~id~E~g~~ 36 (213)
T PF13479_consen 2 KPIKILIYGPPGSGKTTLAASL------PKPLFIDTENGSD 36 (213)
T ss_pred CceEEEEECCCCCCHHHHHHhC------CCeEEEEeCCCcc
Confidence 4679999999999999999888 8888888855533
No 175
>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=95.50 E-value=0.02 Score=51.48 Aligned_cols=35 Identities=20% Similarity=0.220 Sum_probs=29.1
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.-++|.|+.|+||||+++-+.++...+|+=|.-|.
T Consensus 2 ~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis 36 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAKLAARLKLKGKKVALIS 36 (196)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred EEEEEECCCCCchHhHHHHHHHHHhhccccceeec
Confidence 35789999999999999999999998898887773
No 176
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=95.49 E-value=0.023 Score=51.64 Aligned_cols=38 Identities=21% Similarity=0.214 Sum_probs=33.7
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.++.-+.|+|++|+|||++..|++..+..+|.-|+||.
T Consensus 21 ~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~ 58 (225)
T PRK09361 21 ERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYID 58 (225)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence 45778899999999999999999998888888888884
No 177
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=95.49 E-value=0.027 Score=56.90 Aligned_cols=37 Identities=24% Similarity=0.357 Sum_probs=29.3
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhC--CeEEEEeCC
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHEN--NYLLVHIPW 103 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~--gwiVl~vP~ 103 (342)
.+.++|||+.|||||.++..+.+.+.++ +.-|+|++.
T Consensus 130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 4679999999999999887777776664 567788753
No 178
>PRK04328 hypothetical protein; Provisional
Probab=95.47 E-value=0.021 Score=53.10 Aligned_cols=38 Identities=21% Similarity=0.081 Sum_probs=34.0
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.++.-++|.|++|||||++..|.+..+.++|.-++||.
T Consensus 21 p~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis 58 (249)
T PRK04328 21 PERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVA 58 (249)
T ss_pred cCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence 56888999999999999999999998888898888883
No 179
>PRK05973 replicative DNA helicase; Provisional
Probab=95.44 E-value=0.024 Score=52.50 Aligned_cols=37 Identities=19% Similarity=0.142 Sum_probs=32.7
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.++.-++|.|++|+|||++..|++..+.++|-=|+|+
T Consensus 62 ~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyf 98 (237)
T PRK05973 62 KPGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFF 98 (237)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence 4678899999999999999999999888888777777
No 180
>PF12846 AAA_10: AAA-like domain
Probab=95.44 E-value=0.02 Score=53.34 Aligned_cols=35 Identities=23% Similarity=0.327 Sum_probs=31.3
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
+...++.|+.|||||+++..++..+...|.-|+.+
T Consensus 1 n~h~~i~G~tGsGKT~~~~~l~~~~~~~g~~~~i~ 35 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLKNLLEQLIRRGPRVVIF 35 (304)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHHHcCCCEEEE
Confidence 35689999999999999999999999988888777
No 181
>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51. It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....
Probab=95.41 E-value=0.025 Score=52.93 Aligned_cols=37 Identities=19% Similarity=0.092 Sum_probs=27.9
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHh------CCeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHE------NNYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~------~gwiVl~v 101 (342)
....-.=|+|++|||||.++.|+...+.. .+--|+||
T Consensus 36 ~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyi 78 (256)
T PF08423_consen 36 PTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYI 78 (256)
T ss_dssp ETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEE
T ss_pred CCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEE
Confidence 34566679999999999999999887642 24456666
No 182
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=95.40 E-value=0.025 Score=49.71 Aligned_cols=28 Identities=14% Similarity=0.111 Sum_probs=24.2
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHh
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHE 93 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~ 93 (342)
+..-.+|.|++|+|||+++.|++.....
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~ 58 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALAT 58 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHHT
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence 5678999999999999999999886553
No 183
>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=95.37 E-value=0.024 Score=49.64 Aligned_cols=35 Identities=20% Similarity=0.223 Sum_probs=30.1
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCc
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWV 104 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~ 104 (342)
++|.|+.||||||++..+..+....|+-|+.++..
T Consensus 3 I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~~~~ 37 (200)
T cd01672 3 IVFEGIDGAGKTTLIELLAERLEARGYEVVLTREP 37 (200)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCC
Confidence 68999999999999999998888888888777543
No 184
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=95.37 E-value=0.06 Score=53.70 Aligned_cols=145 Identities=14% Similarity=0.239 Sum_probs=90.9
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccccccCCcceeccCCCCCccccHHHHHHHHHHH-HHhCcc
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWFAYPKEVSHSLTKEGMVDLNIDAAMWLRHF-QKQNTK 143 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~~~~~~~~~s~~~~~~~~qP~~a~~~L~~~-~~~N~~ 143 (342)
.+...+++.|=.||||||+..-+..|-.+.|.=|+-|..- .++|.-|+| |+.+ .+.+-+
T Consensus 98 ~~P~vImmvGLQGsGKTTt~~KLA~~lkk~~~kvllVaaD-------------~~RpAA~eQ-------L~~La~q~~v~ 157 (451)
T COG0541 98 KPPTVILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLVAAD-------------TYRPAAIEQ-------LKQLAEQVGVP 157 (451)
T ss_pred CCCeEEEEEeccCCChHhHHHHHHHHHHHcCCceEEEecc-------------cCChHHHHH-------HHHHHHHcCCc
Confidence 3567799999999999999999999999988877766321 124544544 6666 222322
Q ss_pred ccCCCCcccccceecCCCCCCCCCCCHHHHHHhhcccccch------------hHHHHHHHHHHhccccC-CCceEEEEE
Q psy3261 144 WLEDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKYA------------SDVVDVLFTEIKKLSTE-GVCRTFVCV 210 (342)
Q Consensus 144 ~L~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a------------~~~~~~l~~EL~~~~~~-~~~pVLvav 210 (342)
++. ...+.+-.+++..|+...+.. -..=..+|+||++-... .-.-+|++|
T Consensus 158 ~f~-----------------~~~~~~Pv~Iak~al~~ak~~~~DvvIvDTAGRl~ide~Lm~El~~Ik~~~~P~E~llVv 220 (451)
T COG0541 158 FFG-----------------SGTEKDPVEIAKAALEKAKEEGYDVVIVDTAGRLHIDEELMDELKEIKEVINPDETLLVV 220 (451)
T ss_pred eec-----------------CCCCCCHHHHHHHHHHHHHHcCCCEEEEeCCCcccccHHHHHHHHHHHhhcCCCeEEEEE
Confidence 222 123445667888887754322 12225688888765421 123489999
Q ss_pred eCccccccCCCcCCCCCCCcccCCccchHHHHHHhhc----------CCCCCeEEEEEeCCCC
Q psy3261 211 DGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQ----------SDWNNGAIVLALSPRA 263 (342)
Q Consensus 211 D~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~----------~~~~~G~vv~AtS~~~ 263 (342)
|.. .+..- ...++.|.+.+. |+-++|+.+.+.+.++
T Consensus 221 Dam---~GQdA--------------~~~A~aF~e~l~itGvIlTKlDGdaRGGaALS~~~~tg 266 (451)
T COG0541 221 DAM---IGQDA--------------VNTAKAFNEALGITGVILTKLDGDARGGAALSARAITG 266 (451)
T ss_pred ecc---cchHH--------------HHHHHHHhhhcCCceEEEEcccCCCcchHHHhhHHHHC
Confidence 954 66665 677888887774 4445565555544443
No 185
>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=95.37 E-value=0.022 Score=55.14 Aligned_cols=37 Identities=19% Similarity=0.214 Sum_probs=32.4
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.+..-+.|+|++|||||++..|++..+..+|=-|+||
T Consensus 53 p~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yI 89 (321)
T TIGR02012 53 PRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFI 89 (321)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 5667888999999999999999999888877777788
No 186
>PHA03133 thymidine kinase; Provisional
Probab=95.35 E-value=0.017 Score=56.37 Aligned_cols=41 Identities=17% Similarity=0.248 Sum_probs=32.8
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCcccc
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRW 107 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~ 107 (342)
...|++|+|+-|.||||++.++...+...+= |+|||++-.+
T Consensus 39 ~~~rvYlDG~~GvGKTTt~~~l~~a~~~~~~-vl~~pEPM~Y 79 (368)
T PHA03133 39 ALLRIYVDGPHGLGKTTTAAALAAALGRRDD-IEYVPEPMAY 79 (368)
T ss_pred eEEEEEEeCCCcCCHHHHHHHHHHhhCCCCC-eEEecCcHHH
Confidence 5679999999999999999888886543322 8999987653
No 187
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=95.32 E-value=0.036 Score=50.70 Aligned_cols=39 Identities=21% Similarity=0.152 Sum_probs=34.1
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPW 103 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~ 103 (342)
.+..-++|+|++|||||++..|+++-+..+|-=|+|+.-
T Consensus 23 ~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~ 61 (234)
T PRK06067 23 PFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITT 61 (234)
T ss_pred cCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEc
Confidence 567889999999999999999998887778888888854
No 188
>PRK14974 cell division protein FtsY; Provisional
Probab=95.31 E-value=0.025 Score=55.08 Aligned_cols=36 Identities=22% Similarity=0.368 Sum_probs=31.2
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
+...+++.|+.|+||||+++.+.++...+|+-|+.+
T Consensus 139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li 174 (336)
T PRK14974 139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIA 174 (336)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEe
Confidence 356899999999999999999999999988766555
No 189
>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=95.30 E-value=0.023 Score=47.28 Aligned_cols=31 Identities=23% Similarity=0.224 Sum_probs=22.7
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCC
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAHENNYLLVHIPW 103 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~ 103 (342)
+++.|++|||||++..++ +...++.++....
T Consensus 2 ii~~G~pgsGKSt~a~~l---~~~~~~~~i~~D~ 32 (143)
T PF13671_consen 2 IILCGPPGSGKSTLAKRL---AKRLGAVVISQDE 32 (143)
T ss_dssp EEEEESTTSSHHHHHHHH---HHHSTEEEEEHHH
T ss_pred EEEECCCCCCHHHHHHHH---HHHCCCEEEeHHH
Confidence 689999999999997665 4455666655433
No 190
>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=95.30 E-value=0.027 Score=53.24 Aligned_cols=36 Identities=14% Similarity=0.217 Sum_probs=31.2
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
+...+++.|+.|+||||+++.+..++.+.|+=|+-|
T Consensus 71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li 106 (272)
T TIGR00064 71 KPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLA 106 (272)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEE
Confidence 456788999999999999999999998888877666
No 191
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=95.29 E-value=0.024 Score=58.38 Aligned_cols=50 Identities=22% Similarity=0.339 Sum_probs=34.8
Q ss_pred chhHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEE
Q psy3261 47 RNCMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLV 99 (342)
Q Consensus 47 R~~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl 99 (342)
.+-..||-++|+.+....++..-++|+||.|||||+++.- .|.+.|+=|+
T Consensus 25 kkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~---La~elg~~v~ 74 (519)
T PF03215_consen 25 KKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKV---LAKELGFEVQ 74 (519)
T ss_pred HHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHH---HHHHhCCeeE
Confidence 3456688888887434444456788899999999998854 3456666554
No 192
>PRK06696 uridine kinase; Validated
Probab=95.28 E-value=0.05 Score=49.59 Aligned_cols=38 Identities=11% Similarity=0.054 Sum_probs=30.1
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.....+.|.|..||||||+..++.......|.-|++++
T Consensus 20 ~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~ 57 (223)
T PRK06696 20 TRPLRVAIDGITASGKTTFADELAEEIKKRGRPVIRAS 57 (223)
T ss_pred CCceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEec
Confidence 45678899999999999999888877666676665544
No 193
>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]. It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].
Probab=95.27 E-value=0.025 Score=56.36 Aligned_cols=55 Identities=22% Similarity=0.275 Sum_probs=35.0
Q ss_pred HHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccccccCCcc
Q psy3261 54 VGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWFAYPKE 113 (342)
Q Consensus 54 ~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~~~~~~ 113 (342)
++.|+.|.. +.++.-+|+.||+||||+.+..+-+-.-+.+ ||+|. |..+++..+|
T Consensus 5 ~~~L~~wL~-e~~~TFIvV~GPrGSGK~elV~d~~L~~r~~---vL~ID-C~~i~~ar~D 59 (431)
T PF10443_consen 5 IEQLKSWLN-ENPNTFIVVQGPRGSGKRELVMDHVLKDRKN---VLVID-CDQIVKARGD 59 (431)
T ss_pred HHHHHHHHh-cCCCeEEEEECCCCCCccHHHHHHHHhCCCC---EEEEE-ChHhhhccCh
Confidence 344444322 2567899999999999999984433333555 77774 4466665433
No 194
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=95.25 E-value=0.013 Score=42.82 Aligned_cols=22 Identities=27% Similarity=0.265 Sum_probs=17.9
Q ss_pred CeEEEEccCCCcHHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
...+|+|+.|||||++|--+..
T Consensus 24 ~~tli~G~nGsGKSTllDAi~~ 45 (62)
T PF13555_consen 24 DVTLITGPNGSGKSTLLDAIQT 45 (62)
T ss_pred cEEEEECCCCCCHHHHHHHHHH
Confidence 4699999999999999864443
No 195
>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis. RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.
Probab=95.22 E-value=0.028 Score=49.04 Aligned_cols=57 Identities=28% Similarity=0.226 Sum_probs=41.1
Q ss_pred hhHHhhhhcCCceEEechhHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHH
Q psy3261 31 VFNEQTQIFNESSILIRNCMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYA 91 (342)
Q Consensus 31 ~~~~~~~~~~~~~~lvR~~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A 91 (342)
++.+..+.++-+.+.+...+-+-++.|+... ++...+|.|+.|+|||++++.++-.+
T Consensus 3 ~~~~~y~~~gy~v~~~S~~~~~g~~~l~~~l----~~k~~vl~G~SGvGKSSLiN~L~~~~ 59 (161)
T PF03193_consen 3 ELLEQYEKLGYPVFFISAKTGEGIEELKELL----KGKTSVLLGQSGVGKSSLINALLPEA 59 (161)
T ss_dssp HHHHHHHHTTSEEEE-BTTTTTTHHHHHHHH----TTSEEEEECSTTSSHHHHHHHHHTSS
T ss_pred HHHHHHHHcCCcEEEEeCCCCcCHHHHHHHh----cCCEEEEECCCCCCHHHHHHHHHhhc
Confidence 3455666677777777766666666665522 24789999999999999999988764
No 196
>KOG0780|consensus
Probab=95.22 E-value=0.13 Score=50.61 Aligned_cols=145 Identities=17% Similarity=0.215 Sum_probs=85.8
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccccccCCcceeccCCCCCccccHHHHHHHHHHHHHhCcccc
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWFAYPKEVSHSLTKEGMVDLNIDAAMWLRHFQKQNTKWL 145 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~~~~~~~~~s~~~~~~~~qP~~a~~~L~~~~~~N~~~L 145 (342)
+..-+++.|=.|+||||++.-..+|-..+||=+.-|- - ++.++|-|||- + .|+...
T Consensus 100 kpsVimfVGLqG~GKTTtc~KlA~y~kkkG~K~~Lvc--a-----------DTFRagAfDQL-------k----qnA~k~ 155 (483)
T KOG0780|consen 100 KPSVIMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVC--A-----------DTFRAGAFDQL-------K----QNATKA 155 (483)
T ss_pred CCcEEEEEeccCCCcceeHHHHHHHHHhcCCceeEEe--e-----------cccccchHHHH-------H----HHhHhh
Confidence 5678889999999999999999999999999887661 1 12256667662 1 222222
Q ss_pred CCCCcccccceecCCCCCCCCCCCHHHHHHhhccccc------------chhHHHHHHHHHHhccccCCC-ceEEEEEeC
Q psy3261 146 EDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVK------------YASDVVDVLFTEIKKLSTEGV-CRTFVCVDG 212 (342)
Q Consensus 146 ~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~------------~a~~~~~~l~~EL~~~~~~~~-~pVLvavD~ 212 (342)
+++.--.|.- .--..++..|+.+-+ -+-..=..+++|+++-+..-+ --|++++|.
T Consensus 156 ---~iP~ygsyte---------~dpv~ia~egv~~fKke~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDa 223 (483)
T KOG0780|consen 156 ---RVPFYGSYTE---------ADPVKIASEGVDRFKKENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDA 223 (483)
T ss_pred ---CCeeEecccc---------cchHHHHHHHHHHHHhcCCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEec
Confidence 2443333221 112355555554321 122223457788777653222 237888885
Q ss_pred ccccccCCCcCCCCCCCcccCCccchHHHHHHhhc----------CCCCCeEEEEEeCCCC
Q psy3261 213 YNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQ----------SDWNNGAIVLALSPRA 263 (342)
Q Consensus 213 ~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~----------~~~~~G~vv~AtS~~~ 263 (342)
- .+... ...+++|..-+. |.-++|..+.|.--+.
T Consensus 224 s---iGQaa--------------e~Qa~aFk~~vdvg~vIlTKlDGhakGGgAlSaVaaTk 267 (483)
T KOG0780|consen 224 S---IGQAA--------------EAQARAFKETVDVGAVILTKLDGHAKGGGALSAVAATK 267 (483)
T ss_pred c---ccHhH--------------HHHHHHHHHhhccceEEEEecccCCCCCceeeehhhhC
Confidence 3 44444 567777777664 4456776655554443
No 197
>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=95.19 E-value=0.019 Score=46.09 Aligned_cols=25 Identities=24% Similarity=0.367 Sum_probs=20.5
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHh
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHE 93 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~ 93 (342)
|+++.|++|||||+++.+++..-..
T Consensus 1 kI~V~G~~g~GKTsLi~~l~~~~~~ 25 (119)
T PF08477_consen 1 KIVVLGDSGVGKTSLIRRLCGGEFP 25 (119)
T ss_dssp EEEEECSTTSSHHHHHHHHHHSS--
T ss_pred CEEEECcCCCCHHHHHHHHhcCCCc
Confidence 6899999999999999998865433
No 198
>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=95.18 E-value=0.016 Score=52.50 Aligned_cols=35 Identities=17% Similarity=0.215 Sum_probs=32.1
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCC
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPW 103 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~ 103 (342)
-++|+|.+|||||+.-.+++.--++++|-|+++-.
T Consensus 3 LiIlTGyPgsGKTtfakeLak~L~~~i~~vi~l~k 37 (261)
T COG4088 3 LIILTGYPGSGKTTFAKELAKELRQEIWRVIHLEK 37 (261)
T ss_pred eEEEecCCCCCchHHHHHHHHHHHHhhhhccccch
Confidence 37899999999999999999999999999999854
No 199
>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=95.16 E-value=0.027 Score=48.13 Aligned_cols=32 Identities=19% Similarity=0.096 Sum_probs=27.5
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
++|.|.+|||||++...+..+....|+-++++
T Consensus 2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i 33 (149)
T cd02027 2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVL 33 (149)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 68999999999999999999888888766655
No 200
>PRK06851 hypothetical protein; Provisional
Probab=95.13 E-value=0.029 Score=55.27 Aligned_cols=36 Identities=25% Similarity=0.290 Sum_probs=30.7
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
....++|+|++|+|||+++.++...+.+.|+-|-++
T Consensus 29 ~~~~~il~G~pGtGKStl~~~i~~~~~~~g~~Ve~~ 64 (367)
T PRK06851 29 ANRIFILKGGPGTGKSTLMKKIGEEFLEKGYDVEFL 64 (367)
T ss_pred cceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 456799999999999999999999988888876443
No 201
>PRK06620 hypothetical protein; Validated
Probab=95.12 E-value=0.028 Score=51.22 Aligned_cols=48 Identities=17% Similarity=0.010 Sum_probs=31.7
Q ss_pred eeecCCCCHHHHHHHHHHHHh-CCCccCcchHHHHHHhhCCCHHHHhhh
Q psy3261 291 PIHVPELNDEEFHNLLNLYES-KKWLQTSEGREEIAFLTKRVPQKMYEF 338 (342)
Q Consensus 291 ~i~v~~~s~~E~~~ll~yy~~-~~~l~~e~~~~el~~lSgGNP~~l~~l 338 (342)
.+++...+.++...++..... .|+--.++-..-|---++|+.+.+...
T Consensus 141 ~~~l~~pd~~~~~~~l~k~~~~~~l~l~~ev~~~L~~~~~~d~r~l~~~ 189 (214)
T PRK06620 141 SILLNSPDDELIKILIFKHFSISSVTISRQIIDFLLVNLPREYSKIIEI 189 (214)
T ss_pred eEeeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHccCCHHHHHHH
Confidence 378899999999999966655 554214443333444677887777654
No 202
>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=95.07 E-value=0.039 Score=44.31 Aligned_cols=26 Identities=19% Similarity=0.323 Sum_probs=23.2
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhC
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHEN 94 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~ 94 (342)
.++|.|+.|+|||+++...+.+....
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~ 27 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDS 27 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhc
Confidence 57999999999999999999988754
No 203
>PRK13764 ATPase; Provisional
Probab=95.05 E-value=0.034 Score=58.09 Aligned_cols=43 Identities=12% Similarity=0.106 Sum_probs=36.6
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCcccccc
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWFA 109 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~~ 109 (342)
...++++|++||||||+|..++.+.-.++-+|+.+=++.++..
T Consensus 257 ~~~ILIsG~TGSGKTTll~AL~~~i~~~~riV~TiEDp~El~~ 299 (602)
T PRK13764 257 AEGILIAGAPGAGKSTFAQALAEFYADMGKIVKTMESPRDLQV 299 (602)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHhhCCCEEEEECCCccccC
Confidence 4569999999999999999988888888999988876666643
No 204
>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=95.05 E-value=0.031 Score=55.25 Aligned_cols=38 Identities=18% Similarity=0.298 Sum_probs=33.1
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.+..-++|+|++|+|||+++.|+.+....+|.=|+||.
T Consensus 80 ~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs 117 (372)
T cd01121 80 VPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVS 117 (372)
T ss_pred cCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 45678899999999999999999988877877888884
No 205
>PHA03135 thymidine kinase; Provisional
Probab=95.03 E-value=0.025 Score=54.82 Aligned_cols=42 Identities=17% Similarity=0.203 Sum_probs=31.3
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCcccc
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRW 107 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~ 107 (342)
..-.|++|+|+-|+||||++.++..... +|--|+|||++-.+
T Consensus 8 ~~~~rIYlDG~~GvGKTT~~~~l~~~~~-~~~~vl~vpEPM~Y 49 (343)
T PHA03135 8 AQLIRVYLDGPFGIGKTSMLNEMPDHSP-DGVPVLKVFEPMKY 49 (343)
T ss_pred ceEEEEEEECCCCCCHHHHHHHHHHhcC-CCCceEEecCcHHH
Confidence 4567999999999999999966665433 33338888876543
No 206
>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=95.03 E-value=0.026 Score=52.68 Aligned_cols=48 Identities=13% Similarity=0.135 Sum_probs=32.7
Q ss_pred eeecCCCCHHHHHHHHHHHHhCCCcc-CcchHHHHHH----------hhCCCHHHHhhh
Q psy3261 291 PIHVPELNDEEFHNLLNLYESKKWLQ-TSEGREEIAF----------LTKRVPQKMYEF 338 (342)
Q Consensus 291 ~i~v~~~s~~E~~~ll~yy~~~~~l~-~e~~~~el~~----------lSgGNP~~l~~l 338 (342)
.++++.|+.+|...+++.+....-.. +++....+.- -+.||.|.++.+
T Consensus 172 ~i~f~~~~~~el~~Il~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~~~~gn~R~~~n~ 230 (261)
T TIGR02881 172 SIDFPDYTVEELMEIAERMVKEREYKLTEEAKWKLREHLYKVDQLSSREFSNARYVRNI 230 (261)
T ss_pred EEEECCCCHHHHHHHHHHHHHHcCCccCHHHHHHHHHHHHHHHhccCCCCchHHHHHHH
Confidence 37899999999999998887754333 4443333311 246898888765
No 207
>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=95.02 E-value=0.039 Score=49.45 Aligned_cols=33 Identities=27% Similarity=0.464 Sum_probs=24.3
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhC-CeEEEEe
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHEN-NYLLVHI 101 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~-gwiVl~v 101 (342)
-++|.|+.||||||+|..++.+.... +--|+.+
T Consensus 3 lilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~ 36 (198)
T cd01131 3 LVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTI 36 (198)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEE
Confidence 47899999999999998887776543 3334444
No 208
>KOG0743|consensus
Probab=95.01 E-value=0.015 Score=58.13 Aligned_cols=60 Identities=18% Similarity=0.324 Sum_probs=36.3
Q ss_pred HHHHHhhcCCCCCe----EEEEEeCCCCCCCCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhC
Q psy3261 240 RSVINLVQSDWNNG----AIVLALSPRANLPDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESK 312 (342)
Q Consensus 240 ~~~~~~~~~~~~~G----~vv~AtS~~~~~~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~ 312 (342)
..|++++.|=|... .||.+|..-. + |-..|++.-..+ .-|+|+.=+.+.|+.|...|-..
T Consensus 322 SGLLNfiDGlwSscg~ERIivFTTNh~E----k----LDPALlRpGRmD-----mhI~mgyCtf~~fK~La~nYL~~ 385 (457)
T KOG0743|consen 322 SGLLNFLDGLWSSCGDERIIVFTTNHKE----K----LDPALLRPGRMD-----MHIYMGYCTFEAFKTLASNYLGI 385 (457)
T ss_pred HHhhhhhccccccCCCceEEEEecCChh----h----cCHhhcCCCcce-----eEEEcCCCCHHHHHHHHHHhcCC
Confidence 45778888877543 4566654422 1 123455432222 13889999999999999655544
No 209
>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=94.98 E-value=0.033 Score=50.60 Aligned_cols=37 Identities=16% Similarity=0.195 Sum_probs=30.7
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhC-CeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHEN-NYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~-gwiVl~v 101 (342)
.++.-++|.|++|||||++..|.+..+.++ |==|+||
T Consensus 17 p~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyv 54 (226)
T PF06745_consen 17 PKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYV 54 (226)
T ss_dssp ETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEE
T ss_pred CCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEE
Confidence 567889999999999999999999887776 7777776
No 210
>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=94.97 E-value=0.039 Score=47.24 Aligned_cols=33 Identities=15% Similarity=0.130 Sum_probs=27.6
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
++.+.|+.|||||+++.++..+..+.|+=|+.+
T Consensus 1 ~i~~~G~~GsGKTt~~~~l~~~~~~~g~~v~ii 33 (148)
T cd03114 1 VIGITGVPGAGKSTLIDALITALRARGKRVAVL 33 (148)
T ss_pred CEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEE
Confidence 367889999999999999999888887755544
No 211
>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=94.95 E-value=0.034 Score=53.93 Aligned_cols=38 Identities=18% Similarity=0.207 Sum_probs=32.2
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.+..-+.|+|++|||||++..|++..+..+|=.++||.
T Consensus 53 p~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId 90 (325)
T cd00983 53 PKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFID 90 (325)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEC
Confidence 45667789999999999999999998887776777874
No 212
>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=94.94 E-value=0.028 Score=50.52 Aligned_cols=37 Identities=11% Similarity=0.072 Sum_probs=26.9
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
+++..+.|.|+.||||||++..+.......++.+++.
T Consensus 4 ~~g~vi~I~G~sGsGKSTl~~~l~~~l~~~~~~~i~~ 40 (207)
T TIGR00235 4 PKGIIIGIGGGSGSGKTTVARKIYEQLGKLEIVIISQ 40 (207)
T ss_pred CCeEEEEEECCCCCCHHHHHHHHHHHhcccCCeEecc
Confidence 3456778999999999999988877654444545443
No 213
>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=94.94 E-value=0.051 Score=50.93 Aligned_cols=34 Identities=18% Similarity=0.210 Sum_probs=26.0
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
+..++|.|++|||||++..++. .+....++.++.
T Consensus 21 g~~vLL~G~~GtGKT~lA~~la-~~lg~~~~~i~~ 54 (262)
T TIGR02640 21 GYPVHLRGPAGTGKTTLAMHVA-RKRDRPVMLING 54 (262)
T ss_pred CCeEEEEcCCCCCHHHHHHHHH-HHhCCCEEEEeC
Confidence 6789999999999999887664 355556666655
No 214
>PRK00889 adenylylsulfate kinase; Provisional
Probab=94.92 E-value=0.046 Score=47.62 Aligned_cols=36 Identities=17% Similarity=0.154 Sum_probs=30.4
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
++.-++|.|.+|||||++..++.......|+=|++|
T Consensus 3 ~g~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~i 38 (175)
T PRK00889 3 RGVTVWFTGLSGAGKTTIARALAEKLREAGYPVEVL 38 (175)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 456789999999999999999999888888656555
No 215
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=94.91 E-value=0.033 Score=44.83 Aligned_cols=23 Identities=26% Similarity=0.313 Sum_probs=20.0
Q ss_pred EEEEccCCCcHHHHHHHHHHHHH
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAH 92 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~ 92 (342)
+.|+|++|+|||++...+.....
T Consensus 1 I~i~G~~G~GKS~l~~~l~~~l~ 23 (107)
T PF00910_consen 1 IWIYGPPGIGKSTLAKELAKDLL 23 (107)
T ss_pred CEEECCCCCCHHHHHHHHHHHHH
Confidence 47999999999999999777665
No 216
>smart00763 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.
Probab=94.91 E-value=0.045 Score=53.70 Aligned_cols=48 Identities=23% Similarity=0.270 Sum_probs=34.0
Q ss_pred echhHHHHHHHHHhccCC-CCCCCeEEEEccCCCcHHHHHHHHHHHHHh
Q psy3261 46 IRNCMLELVGYLKSMTNF-DRPSPRFVLYGEHGVGKSMALVYALQYAHE 93 (342)
Q Consensus 46 vR~~t~el~~~l~~~~~~-~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~ 93 (342)
..+.-.+++++++.++.. ..+..-++|.||+|||||++...+......
T Consensus 56 ~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~ 104 (361)
T smart00763 56 MEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEE 104 (361)
T ss_pred cHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence 445667788888874433 234455699999999999988777665543
No 217
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=94.90 E-value=0.022 Score=49.75 Aligned_cols=25 Identities=44% Similarity=0.631 Sum_probs=21.5
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHH
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAH 92 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~ 92 (342)
..-.+|+|+.|+|||++| .++.||.
T Consensus 19 ~g~~vi~G~Ng~GKStil-~ai~~~L 43 (202)
T PF13476_consen 19 PGLNVIYGPNGSGKSTIL-EAIRYAL 43 (202)
T ss_dssp SEEEEEEESTTSSHHHHH-HHHHHHH
T ss_pred CCcEEEECCCCCCHHHHH-HHHHHHH
Confidence 357799999999999999 7778876
No 218
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=94.89 E-value=0.059 Score=49.54 Aligned_cols=72 Identities=14% Similarity=0.156 Sum_probs=45.3
Q ss_pred eEEEEEeCCCCCCCCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCcc-CcchHHHHHHhhCCC
Q psy3261 253 GAIVLALSPRANLPDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQ-TSEGREEIAFLTKRV 331 (342)
Q Consensus 253 G~vv~AtS~~~~~~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~-~e~~~~el~~lSgGN 331 (342)
=.+|+||++.+.+..|. ..+-|+ ..++.-|+.+|...++..-...--+. .+++..|+-.-|.|.
T Consensus 150 FTligATTr~g~ls~pL--------rdRFgi-------~~~l~~Y~~~el~~Iv~r~a~~l~i~i~~~~~~~Ia~rsrGt 214 (233)
T PF05496_consen 150 FTLIGATTRAGLLSSPL--------RDRFGI-------VLRLEFYSEEELAKIVKRSARILNIEIDEDAAEEIARRSRGT 214 (233)
T ss_dssp -EEEEEESSGCCTSHCC--------CTTSSE-------EEE----THHHHHHHHHHCCHCTT-EE-HHHHHHHHHCTTTS
T ss_pred ceEeeeeccccccchhH--------Hhhcce-------ecchhcCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHhcCCC
Confidence 36799999877433321 112121 24788899999999998765443332 777888899999999
Q ss_pred HHHHhhhc
Q psy3261 332 PQKMYEFC 339 (342)
Q Consensus 332 P~~l~~lc 339 (342)
||-.-+++
T Consensus 215 PRiAnrll 222 (233)
T PF05496_consen 215 PRIANRLL 222 (233)
T ss_dssp HHHHHHHH
T ss_pred hHHHHHHH
Confidence 99877764
No 219
>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=94.88 E-value=0.053 Score=50.75 Aligned_cols=85 Identities=14% Similarity=0.095 Sum_probs=49.6
Q ss_pred hHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCC--eEEEEe-CCccccccCC-----cceeccCCC
Q psy3261 49 CMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHENN--YLLVHI-PWVLRWFAYP-----KEVSHSLTK 120 (342)
Q Consensus 49 ~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~g--wiVl~v-P~~~~~~~~~-----~~~~~s~~~ 120 (342)
...+|++.+-. .+.++.++=|||++|+|||+++..++.+.++.| --||-| |+. .++-|. .-...-..+
T Consensus 14 ~~~~ll~~l~~---~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSS-p~tGGAlLGDRiRM~~~~~d 89 (266)
T PF03308_consen 14 EARELLKRLYP---HTGRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSS-PFTGGALLGDRIRMQELSRD 89 (266)
T ss_dssp HHHHHHHHHGG---GTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGG-GCC---SS--GGGCHHHHTS
T ss_pred HHHHHHHHHHh---hcCCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCC-CCCCCcccccHHHhcCcCCC
Confidence 45566666644 335678999999999999999999999888765 556777 543 333321 111111125
Q ss_pred CCccccHHHHHHHHHHH
Q psy3261 121 EGMVDLNIDAAMWLRHF 137 (342)
Q Consensus 121 ~~~~~qP~~a~~~L~~~ 137 (342)
++.|.-|+.++--|=-+
T Consensus 90 ~~vfIRS~atRG~lGGl 106 (266)
T PF03308_consen 90 PGVFIRSMATRGSLGGL 106 (266)
T ss_dssp TTEEEEEE---SSHHHH
T ss_pred CCEEEeecCcCCCCCCc
Confidence 67776666655544444
No 220
>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=94.88 E-value=0.072 Score=45.68 Aligned_cols=28 Identities=18% Similarity=0.245 Sum_probs=24.7
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHh
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHE 93 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~ 93 (342)
...+++|.++.|||||.++..++.....
T Consensus 24 ~~~~~ll~~~tGsGKT~~~~~~~~~l~~ 51 (184)
T PF04851_consen 24 EERRVLLNAPTGSGKTIIALALILELAR 51 (184)
T ss_dssp GCSEEEEEESTTSSHHHHHHHHHHHHHC
T ss_pred CCCCEEEEECCCCCcChhhhhhhhcccc
Confidence 5789999999999999999987776666
No 221
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=94.87 E-value=0.039 Score=52.39 Aligned_cols=37 Identities=22% Similarity=0.177 Sum_probs=29.8
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhC-C-eEEEEeC
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHEN-N-YLLVHIP 102 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~-g-wiVl~vP 102 (342)
....++|.|+.|+||||+++.+..++..+ | +=|..|.
T Consensus 193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~ 231 (282)
T TIGR03499 193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALIT 231 (282)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEE
Confidence 35578899999999999999999988764 4 6666553
No 222
>PRK10263 DNA translocase FtsK; Provisional
Probab=94.86 E-value=0.35 Score=54.40 Aligned_cols=67 Identities=22% Similarity=0.206 Sum_probs=40.8
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHH-Hh--CCeEEEEe--CCccccccCCcceeccCC-CCCccccHHHHHHHHHHH
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYA-HE--NNYLLVHI--PWVLRWFAYPKEVSHSLT-KEGMVDLNIDAAMWLRHF 137 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A-~~--~gwiVl~v--P~~~~~~~~~~~~~~s~~-~~~~~~qP~~a~~~L~~~ 137 (342)
..+++|.|-.|||||++|..++.-. .. -+-+=+++ |..-++... .--+. -....+.+..+.+.|+.+
T Consensus 1010 ~PHLLIAGaTGSGKSv~LntLIlSLl~~~sPeeVrl~LIDPK~vELs~y----e~LPHl~~~VvtD~eka~~aLr~l 1082 (1355)
T PRK10263 1010 MPHLLVAGTTGSGKSVGVNAMILSMLYKAQPEDVRFIMIDPKMLELSVY----EGIPHLLTEVVTDMKDAANALRWC 1082 (1355)
T ss_pred CCcEEEecCCCCCHHHHHHHHHHHHHHhCCccceEEEEECCCccchhhh----ccCccccceeecCHHHHHHHHHHH
Confidence 4799999999999999999988733 22 24555555 333222221 11111 112345577888888877
No 223
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=94.86 E-value=0.049 Score=47.71 Aligned_cols=51 Identities=18% Similarity=0.223 Sum_probs=34.3
Q ss_pred hHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHH--hCCeEEEEeC
Q psy3261 49 CMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAH--ENNYLLVHIP 102 (342)
Q Consensus 49 ~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~--~~gwiVl~vP 102 (342)
...++++.+++++ .....++|+|++||||+.+...+..... ...+|.|+-.
T Consensus 7 ~m~~~~~~~~~~a---~~~~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~ 59 (168)
T PF00158_consen 7 AMKRLREQAKRAA---SSDLPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCA 59 (168)
T ss_dssp HHHHHHHHHHHHT---TSTS-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETT
T ss_pred HHHHHHHHHHHHh---CCCCCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehh
Confidence 4567777777733 3458999999999999987555555443 3457777774
No 224
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=94.83 E-value=0.045 Score=50.08 Aligned_cols=46 Identities=15% Similarity=0.153 Sum_probs=35.0
Q ss_pred hHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhC
Q psy3261 49 CMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHEN 94 (342)
Q Consensus 49 ~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~ 94 (342)
-...|.+.|.+......+...+.|.|+.||||||+...+...-...
T Consensus 15 ~~~~l~~~~~~~~~~~~~~~iigi~G~~GsGKTTl~~~L~~~l~~~ 60 (229)
T PRK09270 15 VHKPLLRRLAALQAEPQRRTIVGIAGPPGAGKSTLAEFLEALLQQD 60 (229)
T ss_pred HHHHHHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence 4456667776644444667889999999999999999888776654
No 225
>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=94.82 E-value=0.056 Score=53.18 Aligned_cols=40 Identities=20% Similarity=0.311 Sum_probs=33.6
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe-CCc
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI-PWV 104 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v-P~~ 104 (342)
.....++|+|+.|||||+++..+.++++..+=.|+.+ |.+
T Consensus 20 ~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~~~~~~~~a~tg 60 (364)
T PF05970_consen 20 EEGLNFFVTGPAGTGKSFLIKAIIDYLRSRGKKVLVTAPTG 60 (364)
T ss_pred cCCcEEEEEcCCCCChhHHHHHHHHHhccccceEEEecchH
Confidence 5678999999999999999999999999876666655 543
No 226
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=94.81 E-value=1.7 Score=42.18 Aligned_cols=113 Identities=11% Similarity=0.091 Sum_probs=66.4
Q ss_pred hHHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCC
Q psy3261 185 SDVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRAN 264 (342)
Q Consensus 185 ~~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~ 264 (342)
.+.+..+.+.+...+..+..+| +.||+...+ + .+-...|++.+...+.+..+|+.++....
T Consensus 90 vdqiR~l~~~~~~~~~~~~~kV-~iI~~ae~m----~--------------~~AaNaLLKtLEEPp~~t~fiL~t~~~~~ 150 (319)
T PRK06090 90 VEQIRQCNRLAQESSQLNGYRL-FVIEPADAM----N--------------ESASNALLKTLEEPAPNCLFLLVTHNQKR 150 (319)
T ss_pred HHHHHHHHHHHhhCcccCCceE-EEecchhhh----C--------------HHHHHHHHHHhcCCCCCeEEEEEECChhh
Confidence 4444444445443322345565 456777444 2 45678999999988888888888775432
Q ss_pred CCCCccCcchhHHhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHHhhCCCHHHHhhhc
Q psy3261 265 LPDRRESHLPLYMLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAFLTKRVPQKMYEFC 339 (342)
Q Consensus 265 ~~~~~~~~~p~~llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~lSgGNP~~l~~lc 339 (342)
+ +|- +.-+- ..+.++..+.+++...+. +.|.- . ...+..+++|+|....++.
T Consensus 151 l-------LpT-I~SRC--------q~~~~~~~~~~~~~~~L~---~~~~~--~--~~~~l~l~~G~p~~A~~~~ 202 (319)
T PRK06090 151 L-------LPT-IVSRC--------QQWVVTPPSTAQAMQWLK---GQGIT--V--PAYALKLNMGSPLKTLAMM 202 (319)
T ss_pred C-------hHH-HHhcc--------eeEeCCCCCHHHHHHHHH---HcCCc--h--HHHHHHHcCCCHHHHHHHh
Confidence 1 121 11110 126777888888776553 44432 1 2356668999998877664
No 227
>PRK09354 recA recombinase A; Provisional
Probab=94.79 E-value=0.04 Score=53.88 Aligned_cols=38 Identities=18% Similarity=0.194 Sum_probs=32.7
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.+..-+.|+|+.|||||++..|++.-|...|=.++||.
T Consensus 58 p~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId 95 (349)
T PRK09354 58 PRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFID 95 (349)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEC
Confidence 45667779999999999999999999888887888883
No 228
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=94.79 E-value=0.2 Score=53.98 Aligned_cols=37 Identities=19% Similarity=0.249 Sum_probs=31.5
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.+..-+.|+|+.|||||+++.|++.-|...|=-|+||
T Consensus 58 p~GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yI 94 (790)
T PRK09519 58 PRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFI 94 (790)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 4577788999999999999999998887777667776
No 229
>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=94.78 E-value=0.029 Score=53.03 Aligned_cols=37 Identities=24% Similarity=0.411 Sum_probs=29.0
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
....++|.|+.|||||+++.+.+.--....|++..++
T Consensus 32 ~~~pvLl~G~~GtGKT~li~~~l~~l~~~~~~~~~~~ 68 (272)
T PF12775_consen 32 NGRPVLLVGPSGTGKTSLIQNFLSSLDSDKYLVITIN 68 (272)
T ss_dssp CTEEEEEESSTTSSHHHHHHHHHHCSTTCCEEEEEEE
T ss_pred cCCcEEEECCCCCchhHHHHhhhccCCccccceeEee
Confidence 3678999999999999999998864445567766653
No 230
>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=94.76 E-value=0.053 Score=40.06 Aligned_cols=22 Identities=23% Similarity=0.246 Sum_probs=19.6
Q ss_pred EEEEccCCCcHHHHHHHHHHHH
Q psy3261 70 FVLYGEHGVGKSMALVYALQYA 91 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A 91 (342)
+.|.|++|||||++...+...-
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l 23 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL 23 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6789999999999999888775
No 231
>PRK01184 hypothetical protein; Provisional
Probab=94.76 E-value=0.032 Score=48.99 Aligned_cols=30 Identities=23% Similarity=0.148 Sum_probs=23.8
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.++|+|++||||||+ +. .|.+.|+-++...
T Consensus 3 ~i~l~G~~GsGKsT~-a~---~~~~~g~~~i~~~ 32 (184)
T PRK01184 3 IIGVVGMPGSGKGEF-SK---IAREMGIPVVVMG 32 (184)
T ss_pred EEEEECCCCCCHHHH-HH---HHHHcCCcEEEhh
Confidence 578999999999995 44 4677888777663
No 232
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=94.75 E-value=0.055 Score=55.27 Aligned_cols=37 Identities=19% Similarity=0.206 Sum_probs=33.5
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.+..-++|.|++|+|||+++.|.+..+.++|==++||
T Consensus 261 ~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~ 297 (484)
T TIGR02655 261 FKDSIILATGATGTGKTLLVSKFLENACANKERAILF 297 (484)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence 5788999999999999999999999998888777776
No 233
>PHA03138 thymidine kinase; Provisional
Probab=94.73 E-value=0.035 Score=53.85 Aligned_cols=40 Identities=28% Similarity=0.153 Sum_probs=29.4
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCcc
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVL 105 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~ 105 (342)
...|++|+|+-|+||||++.+.+++....+=-|++||++-
T Consensus 11 ~~~riYleG~~GvGKTT~~~~~l~~~~~~~~~vl~vpEPm 50 (340)
T PHA03138 11 CILRIYLDGAFGIGKTTAAEAFLHGFAINPNRIFFIGEPL 50 (340)
T ss_pred cEEEEEEECCCCcCHHhHHHHHHHhhhcCCCceEEeeCch
Confidence 4579999999999999999988777655432244555443
No 234
>KOG0735|consensus
Probab=94.71 E-value=0.25 Score=52.23 Aligned_cols=96 Identities=13% Similarity=0.151 Sum_probs=55.4
Q ss_pred ceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhc--CCCCCeEEEEEeCCCCCCCCCccCcchhHHhhhc
Q psy3261 204 CRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQ--SDWNNGAIVLALSPRANLPDRRESHLPLYMLKKA 281 (342)
Q Consensus 204 ~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~--~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg~~ 281 (342)
-|-+|..||+-.+++-+. .++.+-.-..=.|..++-+++. ++.++-+.+.||.++-. .+++.|...+
T Consensus 494 ~PSiIvLDdld~l~~~s~----~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~q-------tl~~~L~s~~ 562 (952)
T KOG0735|consen 494 APSIIVLDDLDCLASASS----NENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQ-------TLNPLLVSPL 562 (952)
T ss_pred CCcEEEEcchhhhhccCc----ccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhh-------hcChhhcCcc
Confidence 488999999999998322 2233322222234444445543 34456656667665531 1222232222
Q ss_pred CCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCc
Q psy3261 282 GFESIDPFVPIHVPELNDEEFHNLLNLYESKKWL 315 (342)
Q Consensus 282 g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l 315 (342)
-|. ..+.+++....+=..++.+.-+.+.+
T Consensus 563 ~Fq-----~~~~L~ap~~~~R~~IL~~~~s~~~~ 591 (952)
T KOG0735|consen 563 LFQ-----IVIALPAPAVTRRKEILTTIFSKNLS 591 (952)
T ss_pred ceE-----EEEecCCcchhHHHHHHHHHHHhhhh
Confidence 221 24778888898888899888777763
No 235
>PRK11823 DNA repair protein RadA; Provisional
Probab=94.70 E-value=0.042 Score=55.61 Aligned_cols=38 Identities=18% Similarity=0.274 Sum_probs=32.8
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.+..-++|+|++|+|||+++.|+.+.+.++|-=|+||.
T Consensus 78 ~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs 115 (446)
T PRK11823 78 VPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVS 115 (446)
T ss_pred cCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 45678899999999999999999987777787888884
No 236
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=94.68 E-value=0.04 Score=57.59 Aligned_cols=39 Identities=23% Similarity=0.299 Sum_probs=33.0
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHh--CCeEEEEeCCc
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHE--NNYLLVHIPWV 104 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~--~gwiVl~vP~~ 104 (342)
..+.++|+|+.|||||.+|.-+.+++.+ .|.-|+|++..
T Consensus 313 ~~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitae 353 (617)
T PRK14086 313 AYNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSE 353 (617)
T ss_pred cCCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHH
Confidence 3456999999999999999999998875 48889999754
No 237
>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=94.65 E-value=0.048 Score=50.94 Aligned_cols=42 Identities=19% Similarity=0.149 Sum_probs=32.6
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCcccc
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRW 107 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~ 107 (342)
....+++.|+.||||||+|..++.+.-..+.-|+.|=+..++
T Consensus 126 ~~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~~E~ 167 (270)
T PF00437_consen 126 GRGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDPPEL 167 (270)
T ss_dssp TTEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESSS-S
T ss_pred cceEEEEECCCccccchHHHHHhhhccccccceEEeccccce
Confidence 367899999999999999999988777775777777444333
No 238
>KOG1514|consensus
Probab=94.64 E-value=2.1 Score=45.36 Aligned_cols=209 Identities=12% Similarity=0.158 Sum_probs=113.0
Q ss_pred ech-hHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHH---hCCeEEEEeCCccccccCCcceeccCCCC
Q psy3261 46 IRN-CMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAH---ENNYLLVHIPWVLRWFAYPKEVSHSLTKE 121 (342)
Q Consensus 46 vR~-~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~---~~gwiVl~vP~~~~~~~~~~~~~~s~~~~ 121 (342)
-|+ +-.+|-++++........+..++|.|-+|||||.+..-+|---. ++|= ...|.|-..+.
T Consensus 400 cRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e--------------~p~f~yveINg 465 (767)
T KOG1514|consen 400 CRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKE--------------LPKFDYVEING 465 (767)
T ss_pred chhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcC--------------CCCccEEEEcc
Confidence 355 66677788877333334556899999999999999988876322 1110 00111111122
Q ss_pred CccccHHHHHHHHHHHHHhCccccCCCCcccccceecCCCCCCCCCCCHHHHHHhhcccccchhHH-HHHHHHHHhcccc
Q psy3261 122 GMVDLNIDAAMWLRHFQKQNTKWLEDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKYASDV-VDVLFTEIKKLST 200 (342)
Q Consensus 122 ~~~~qP~~a~~~L~~~~~~N~~~L~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~-~~~l~~EL~~~~~ 200 (342)
....-|..+..|+..= + .-....+.+ +.+|-.-.. ...
T Consensus 466 m~l~~~~~~Y~~I~~~------------l----------------------------sg~~~~~~~al~~L~~~f~-~~k 504 (767)
T KOG1514|consen 466 LRLASPREIYEKIWEA------------L----------------------------SGERVTWDAALEALNFRFT-VPK 504 (767)
T ss_pred eeecCHHHHHHHHHHh------------c----------------------------ccCcccHHHHHHHHHHhhc-cCC
Confidence 2233344444444322 2 111111111 111111111 223
Q ss_pred CCCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCCCCCeEEEEEeCCCCCCCCCccCcchhHHhh-
Q psy3261 201 EGVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAIVLALSPRANLPDRRESHLPLYMLK- 279 (342)
Q Consensus 201 ~~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~vv~AtS~~~~~~~~~~~~~p~~llg- 279 (342)
+.+.|.+|.||+.-.+.+.+. .+...|.++..-. +--.+|.++..+- .||..++.
T Consensus 505 ~~~~~~VvLiDElD~Lvtr~Q---------------dVlYn~fdWpt~~-~sKLvvi~IaNTm--------dlPEr~l~n 560 (767)
T KOG1514|consen 505 PKRSTTVVLIDELDILVTRSQ---------------DVLYNIFDWPTLK-NSKLVVIAIANTM--------DLPERLLMN 560 (767)
T ss_pred CCCCCEEEEeccHHHHhcccH---------------HHHHHHhcCCcCC-CCceEEEEecccc--------cCHHHHhcc
Confidence 568999999999999988865 3344444444322 2335666666543 25655554
Q ss_pred ----hcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHH----hhCCCHHHHhhhcc
Q psy3261 280 ----KAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAF----LTKRVPQKMYEFCS 340 (342)
Q Consensus 280 ----~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~----lSgGNP~~l~~lc~ 340 (342)
+.|+. .+.+..|+..|...++.-=.. |.-.++.+.-||-- .-.|.-+...++|.
T Consensus 561 rvsSRlg~t------Ri~F~pYth~qLq~Ii~~RL~-~~~~f~~~aielvarkVAavSGDaRraldic~ 622 (767)
T KOG1514|consen 561 RVSSRLGLT------RICFQPYTHEQLQEIISARLK-GLDAFENKAIELVARKVAAVSGDARRALDICR 622 (767)
T ss_pred chhhhccce------eeecCCCCHHHHHHHHHHhhc-chhhcchhHHHHHHHHHHhccccHHHHHHHHH
Confidence 34553 378889999999888743221 22114554444332 55677787778774
No 239
>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=94.63 E-value=0.033 Score=47.81 Aligned_cols=29 Identities=28% Similarity=0.264 Sum_probs=21.5
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
++|.|++|||||++...+.... |+.++..
T Consensus 1 i~l~G~~GsGKSTla~~l~~~l---~~~~v~~ 29 (163)
T TIGR01313 1 FVLMGVAGSGKSTIASALAHRL---GAKFIEG 29 (163)
T ss_pred CEEECCCCCCHHHHHHHHHHhc---CCeEEeC
Confidence 4789999999998877766553 5655543
No 240
>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=94.62 E-value=0.053 Score=46.83 Aligned_cols=32 Identities=16% Similarity=0.294 Sum_probs=29.2
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
+.|.|+.|||||+++..++......|+=|..|
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~~~G~~V~vi 33 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALKARGYRVATI 33 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence 56889999999999999999999999988777
No 241
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=94.60 E-value=0.99 Score=48.99 Aligned_cols=25 Identities=28% Similarity=0.307 Sum_probs=19.8
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
.+...++|.|++|||||++...+..
T Consensus 347 ~~g~~i~l~GppG~GKTtl~~~ia~ 371 (784)
T PRK10787 347 IKGPILCLVGPPGVGKTSLGQSIAK 371 (784)
T ss_pred CCCceEEEECCCCCCHHHHHHHHHH
Confidence 3567899999999999976665554
No 242
>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.
Probab=94.60 E-value=0.043 Score=46.33 Aligned_cols=28 Identities=21% Similarity=0.183 Sum_probs=22.1
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCeEEEE
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAHENNYLLVH 100 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~ 100 (342)
++|+|++|||||++..++... .|+.++.
T Consensus 2 i~l~G~~GsGKST~a~~l~~~---~~~~~i~ 29 (150)
T cd02021 2 IVVMGVSGSGKSTVGKALAER---LGAPFID 29 (150)
T ss_pred EEEEcCCCCCHHHHHHHHHhh---cCCEEEe
Confidence 689999999999999887554 4665553
No 243
>PRK07261 topology modulation protein; Provisional
Probab=94.58 E-value=0.032 Score=48.87 Aligned_cols=31 Identities=26% Similarity=0.319 Sum_probs=23.9
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.|++|.|+.||||||+..++.. ..|.-+++.
T Consensus 1 ~ri~i~G~~GsGKSTla~~l~~---~~~~~~i~~ 31 (171)
T PRK07261 1 MKIAIIGYSGSGKSTLARKLSQ---HYNCPVLHL 31 (171)
T ss_pred CEEEEEcCCCCCHHHHHHHHHH---HhCCCeEec
Confidence 3799999999999999988743 345555555
No 244
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=94.58 E-value=0.05 Score=54.87 Aligned_cols=37 Identities=16% Similarity=0.264 Sum_probs=32.8
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
+...++++|+.||||||+++.+..+..++|+=|+.|.
T Consensus 94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~ 130 (437)
T PRK00771 94 KPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVA 130 (437)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEec
Confidence 4568899999999999999999999999998887773
No 245
>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=94.58 E-value=0.043 Score=55.66 Aligned_cols=38 Identities=21% Similarity=0.344 Sum_probs=32.4
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.+..-++|.|++|+|||+++.|+...+..+|-=|+||.
T Consensus 92 ~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs 129 (454)
T TIGR00416 92 VPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVS 129 (454)
T ss_pred cCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence 56778999999999999999999887777766677873
No 246
>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=94.58 E-value=0.067 Score=40.59 Aligned_cols=33 Identities=21% Similarity=0.239 Sum_probs=29.0
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
+++.|..|+|||++..++.....+.|.=|+.+.
T Consensus 2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~~v~~~~ 34 (99)
T cd01983 2 IVVTGKGGVGKTTLAANLAAALAKRGKRVLLID 34 (99)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEC
Confidence 578899999999999999999888887777776
No 247
>PHA00729 NTP-binding motif containing protein
Probab=94.57 E-value=0.077 Score=48.82 Aligned_cols=25 Identities=20% Similarity=0.351 Sum_probs=20.9
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAH 92 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~ 92 (342)
..++|+|++|+|||++...+...+.
T Consensus 18 ~nIlItG~pGvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 18 VSAVIFGKQGSGKTTYALKVARDVF 42 (226)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHH
Confidence 4799999999999998877776543
No 248
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=94.54 E-value=0.056 Score=52.29 Aligned_cols=36 Identities=14% Similarity=0.141 Sum_probs=30.9
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
+...+.|.|+.|+||||++..+..+....|.=|+-+
T Consensus 113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li 148 (318)
T PRK10416 113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLA 148 (318)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEE
Confidence 456888999999999999999999998888766555
No 249
>PRK14532 adenylate kinase; Provisional
Probab=94.54 E-value=0.044 Score=48.23 Aligned_cols=30 Identities=17% Similarity=0.328 Sum_probs=23.7
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
+++|.|++||||||....+ |...||..+..
T Consensus 2 ~i~~~G~pGsGKsT~a~~l---a~~~g~~~is~ 31 (188)
T PRK14532 2 NLILFGPPAAGKGTQAKRL---VEERGMVQLST 31 (188)
T ss_pred EEEEECCCCCCHHHHHHHH---HHHcCCeEEeC
Confidence 5899999999999987666 45568777654
No 250
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=94.52 E-value=0.063 Score=54.94 Aligned_cols=42 Identities=19% Similarity=0.284 Sum_probs=31.7
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCcccc
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRW 107 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~ 107 (342)
+..-++++|+.||||||+|..++..-...+--|+.|-++.++
T Consensus 241 ~~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiTiEDpvE~ 282 (486)
T TIGR02533 241 PHGIILVTGPTGSGKTTTLYAALSRLNTPERNILTVEDPVEY 282 (486)
T ss_pred CCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEEEcCCeee
Confidence 344689999999999999988877665556667777555544
No 251
>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=94.52 E-value=0.043 Score=48.20 Aligned_cols=31 Identities=19% Similarity=0.243 Sum_probs=23.9
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
|++|.|++|||||++...+.. .-|+.++.+.
T Consensus 1 ~I~i~G~pGsGKst~a~~La~---~~~~~~i~~~ 31 (194)
T cd01428 1 RILLLGPPGSGKGTQAERLAK---KYGLPHISTG 31 (194)
T ss_pred CEEEECCCCCCHHHHHHHHHH---HcCCeEEECc
Confidence 589999999999988777654 3477776653
No 252
>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=94.51 E-value=0.036 Score=44.85 Aligned_cols=22 Identities=18% Similarity=0.117 Sum_probs=20.1
Q ss_pred EEEEccCCCcHHHHHHHHHHHH
Q psy3261 70 FVLYGEHGVGKSMALVYALQYA 91 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A 91 (342)
++|.|.+||||||++..+....
T Consensus 1 I~i~G~~GsGKtTia~~L~~~~ 22 (129)
T PF13238_consen 1 IGISGIPGSGKTTIAKELAERL 22 (129)
T ss_dssp EEEEESTTSSHHHHHHHHHHHH
T ss_pred CEEECCCCCCHHHHHHHHHHHH
Confidence 5899999999999999998876
No 253
>PHA03134 thymidine kinase; Provisional
Probab=94.49 E-value=0.04 Score=53.41 Aligned_cols=42 Identities=21% Similarity=0.143 Sum_probs=32.3
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCcccc
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRW 107 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~ 107 (342)
..-.|++|+|+-|.||||++.++.+.+. .|--|+|||++-.+
T Consensus 11 ~~~~rvYlDG~~GvGKTT~~~~l~~~~~-~~~~vl~~pEPM~Y 52 (340)
T PHA03134 11 VRIVRIYLDGAYGIGKSTTGRVMASAAS-GGGPTLYFPEPMAY 52 (340)
T ss_pred ccEEEEEEeCCCcCCHHHHHHHHHHhcc-CCCceEEecCcHHH
Confidence 4567999999999999999966666544 44448888887653
No 254
>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=94.49 E-value=0.031 Score=49.38 Aligned_cols=23 Identities=26% Similarity=0.216 Sum_probs=20.5
Q ss_pred CCCCeEEEEccCCCcHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYA 87 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~ 87 (342)
.++.++.|.|+.||||||+|.-+
T Consensus 19 ~~G~~~~l~G~nG~GKSTLl~~i 41 (176)
T cd03238 19 PLNVLVVVTGVSGSGKSTLVNEG 41 (176)
T ss_pred cCCCEEEEECCCCCCHHHHHHHH
Confidence 56889999999999999999754
No 255
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.46 E-value=0.058 Score=53.45 Aligned_cols=36 Identities=28% Similarity=0.237 Sum_probs=30.6
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
+...++|.|+.||||||+++.+.+++..+|.=|..|
T Consensus 205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lI 240 (407)
T PRK12726 205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFI 240 (407)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEE
Confidence 466788999999999999999999998888655555
No 256
>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=94.44 E-value=0.05 Score=47.81 Aligned_cols=34 Identities=15% Similarity=0.183 Sum_probs=26.3
Q ss_pred eEEEEccCCCcHHHHHHHHHH-HHHhCCeEEEEeC
Q psy3261 69 RFVLYGEHGVGKSMALVYALQ-YAHENNYLLVHIP 102 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~-~A~~~gwiVl~vP 102 (342)
-++|+|--|||||++|.+++. ......|.||--.
T Consensus 2 v~ii~GfLGsGKTTli~~ll~~~~~~~~~~vI~ne 36 (178)
T PF02492_consen 2 VIIITGFLGSGKTTLINHLLKRNRQGERVAVIVNE 36 (178)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHTTTS-EEEEECS
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhcCCceeEEEEcc
Confidence 579999999999999999995 4445567776543
No 257
>PRK08118 topology modulation protein; Reviewed
Probab=94.42 E-value=0.039 Score=48.20 Aligned_cols=31 Identities=26% Similarity=0.283 Sum_probs=22.3
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.|++|.|++||||||+..++... .|.-++++
T Consensus 2 ~rI~I~G~~GsGKSTlak~L~~~---l~~~~~~l 32 (167)
T PRK08118 2 KKIILIGSGGSGKSTLARQLGEK---LNIPVHHL 32 (167)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH---hCCCceec
Confidence 48999999999999877666543 34444444
No 258
>KOG0736|consensus
Probab=94.39 E-value=1.6 Score=46.75 Aligned_cols=114 Identities=14% Similarity=0.140 Sum_probs=68.3
Q ss_pred CceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhcCC-C---CCeEEEEEeCCCCCCCCCccCcchhHHh
Q psy3261 203 VCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQSD-W---NNGAIVLALSPRANLPDRRESHLPLYML 278 (342)
Q Consensus 203 ~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~~~-~---~~G~vv~AtS~~~~~~~~~~~~~p~~ll 278 (342)
..|.++.+-+++-+- - |.++ +.++.+.+.|...++++ + ..+.+|.++..+. ..+|....
T Consensus 489 ~~pavifl~~~dvl~-i-----d~dg----ged~rl~~~i~~~ls~e~~~~~~~~~ivv~t~~s~-------~~lp~~i~ 551 (953)
T KOG0736|consen 489 CSPAVLFLRNLDVLG-I-----DQDG----GEDARLLKVIRHLLSNEDFKFSCPPVIVVATTSSI-------EDLPADIQ 551 (953)
T ss_pred cCceEEEEeccceee-e-----cCCC----chhHHHHHHHHHHHhcccccCCCCceEEEEecccc-------ccCCHHHH
Confidence 356666666664443 1 1122 56677778888777743 2 3444444444332 11443333
Q ss_pred hhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcc-hHHHHHHhhCCCHHHHhhhcc
Q psy3261 279 KKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSE-GREEIAFLTKRVPQKMYEFCS 340 (342)
Q Consensus 279 g~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~-~~~el~~lSgGNP~~l~~lc~ 340 (342)
+.--| -|.|+-+|++|=-.++++|...-.+..+. -+.-...++|-.+++|..+.+
T Consensus 552 ~~f~~-------ei~~~~lse~qRl~iLq~y~~~~~~n~~v~~k~~a~~t~gfs~~~L~~l~~ 607 (953)
T KOG0736|consen 552 SLFLH-------EIEVPALSEEQRLEILQWYLNHLPLNQDVNLKQLARKTSGFSFGDLEALVA 607 (953)
T ss_pred Hhhhh-------hccCCCCCHHHHHHHHHHHHhccccchHHHHHHHHHhcCCCCHHHHHHHhc
Confidence 22112 17899999999999999999988875222 223355688888888877654
No 259
>PRK14738 gmk guanylate kinase; Provisional
Probab=94.32 E-value=0.039 Score=49.79 Aligned_cols=26 Identities=27% Similarity=0.309 Sum_probs=21.6
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
.....++|.|+.|||||+++.++...
T Consensus 11 ~~~~~ivi~GpsG~GK~tl~~~L~~~ 36 (206)
T PRK14738 11 AKPLLVVISGPSGVGKDAVLARMRER 36 (206)
T ss_pred CCCeEEEEECcCCCCHHHHHHHHHhc
Confidence 45678889999999999998887544
No 260
>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=94.32 E-value=0.04 Score=48.04 Aligned_cols=23 Identities=30% Similarity=0.374 Sum_probs=19.8
Q ss_pred CeEEEEccCCCcHHHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
..++|.|+.|||||+++.++...
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~ 24 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARAR 24 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH
Confidence 35899999999999999987664
No 261
>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....
Probab=94.30 E-value=0.043 Score=45.42 Aligned_cols=35 Identities=23% Similarity=0.375 Sum_probs=26.5
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.|||||++|.-+.-... ..|-|.+
T Consensus 9 ~~g~~~~i~G~nGsGKStLl~~l~g~~~~~~G~i~~ 44 (137)
T PF00005_consen 9 KPGEIVAIVGPNGSGKSTLLKALAGLLPPDSGSILI 44 (137)
T ss_dssp ETTSEEEEEESTTSSHHHHHHHHTTSSHESEEEEEE
T ss_pred cCCCEEEEEccCCCccccceeeeccccccccccccc
Confidence 4578899999999999999986665544 4466543
No 262
>KOG0727|consensus
Probab=94.28 E-value=0.034 Score=51.93 Aligned_cols=27 Identities=30% Similarity=0.421 Sum_probs=22.0
Q ss_pred CCCCCeEEEEccCCCcHHHHHHHHHHH
Q psy3261 64 DRPSPRFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 64 ~~~~~r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
-.+...++||||+|||||++..-+.++
T Consensus 186 idpprgvllygppg~gktml~kava~~ 212 (408)
T KOG0727|consen 186 IDPPRGVLLYGPPGTGKTMLAKAVANH 212 (408)
T ss_pred CCCCcceEEeCCCCCcHHHHHHHHhhc
Confidence 357889999999999999987655443
No 263
>PRK05480 uridine/cytidine kinase; Provisional
Probab=94.28 E-value=0.07 Score=47.88 Aligned_cols=37 Identities=11% Similarity=0.126 Sum_probs=26.2
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.+...+.|.|+.||||||+...+...-....+.+++.
T Consensus 4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l~~~~~~~i~~ 40 (209)
T PRK05480 4 KKPIIIGIAGGSGSGKTTVASTIYEELGDESIAVIPQ 40 (209)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHHhCCCceEEEeC
Confidence 4567899999999999999877776532223444444
No 264
>PRK10536 hypothetical protein; Provisional
Probab=94.27 E-value=0.15 Score=47.81 Aligned_cols=38 Identities=16% Similarity=0.088 Sum_probs=29.2
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEEEeCCc
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLVHIPWV 104 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl~vP~~ 104 (342)
..-++++|+.|||||++...+...+. ....-.++|.++
T Consensus 74 ~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP 112 (262)
T PRK10536 74 KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRP 112 (262)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCC
Confidence 34889999999999999999888766 444555666544
No 265
>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
Probab=94.25 E-value=0.039 Score=53.69 Aligned_cols=35 Identities=26% Similarity=0.327 Sum_probs=26.3
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
..+--++|-||.||||||+|.-+.-.-. ..|-|.+
T Consensus 27 ~~Gef~vllGPSGcGKSTlLr~IAGLe~~~~G~I~i 62 (338)
T COG3839 27 EDGEFVVLLGPSGCGKSTLLRMIAGLEEPTSGEILI 62 (338)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence 3467899999999999999987765433 4565554
No 266
>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=94.23 E-value=0.071 Score=47.04 Aligned_cols=36 Identities=22% Similarity=0.272 Sum_probs=29.6
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
+.-++|.|..||||||....+.......|+-|+.++
T Consensus 3 g~~IvieG~~GsGKsT~~~~L~~~l~~~g~~v~~~~ 38 (195)
T TIGR00041 3 GMFIVIEGIDGAGKTTQANLLKKLLQENGYDVLFTR 38 (195)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence 345899999999999999999888777787776553
No 267
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.21 E-value=0.095 Score=52.23 Aligned_cols=36 Identities=25% Similarity=0.268 Sum_probs=30.5
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
+...+.|.|+.||||||+++.+..+...+|.=|..|
T Consensus 240 ~~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI 275 (436)
T PRK11889 240 EVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFI 275 (436)
T ss_pred CCcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEE
Confidence 346889999999999999999999888888766555
No 268
>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated
Probab=94.20 E-value=0.19 Score=52.47 Aligned_cols=78 Identities=10% Similarity=-0.018 Sum_probs=53.5
Q ss_pred eEEEeCHHHHHHhhhcCCCChhhHHhhhhcCCceEEechhHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHH
Q psy3261 10 KFYTLPDEVRSAIFELGGITRVFNEQTQIFNESSILIRNCMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 10 ~~~~~~~~~~~~l~~~g~l~~~~~~~~~~~~~~~~lvR~~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
....++...+..+...|..| |..+.|++..+++...-. ...++..-++|+|..||||||+...+..
T Consensus 349 ~~~~~sgt~ir~~l~~G~~p------------P~~f~rpeV~~iL~~~~~--~r~~~g~~Ivl~Gl~GSGKSTia~~La~ 414 (568)
T PRK05537 349 TVLTISGTELRRRLREGLEI------------PEWFSFPEVVAELRRTYP--PRHKQGFTVFFTGLSGAGKSTIAKALMV 414 (568)
T ss_pred ceeccCHHHHHHHHHCCCCC------------ChhhcHHHHHHHHHHHhc--cccCCCeEEEEECCCCChHHHHHHHHHH
Confidence 37788888888888885555 455778876655554422 2335566899999999999999888877
Q ss_pred HHHh-CCeEEEEe
Q psy3261 90 YAHE-NNYLLVHI 101 (342)
Q Consensus 90 ~A~~-~gwiVl~v 101 (342)
.-.. .|--+.++
T Consensus 415 ~L~~~~g~~~~~l 427 (568)
T PRK05537 415 KLMEMRGRPVTLL 427 (568)
T ss_pred HhhhccCceEEEe
Confidence 6544 45434444
No 269
>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=94.20 E-value=0.056 Score=47.17 Aligned_cols=29 Identities=14% Similarity=0.252 Sum_probs=22.5
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
++|.|++||||||+...+.. ..|+..+.+
T Consensus 2 i~i~G~pGsGKst~a~~la~---~~~~~~is~ 30 (183)
T TIGR01359 2 VFVLGGPGSGKGTQCAKIVE---NFGFTHLSA 30 (183)
T ss_pred EEEECCCCCCHHHHHHHHHH---HcCCeEEEC
Confidence 68999999999998777643 457766665
No 270
>KOG0741|consensus
Probab=94.20 E-value=0.03 Score=57.04 Aligned_cols=57 Identities=21% Similarity=0.354 Sum_probs=40.6
Q ss_pred cCCCChhhHHhhhhcCCceEEechhHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHH
Q psy3261 25 LGGITRVFNEQTQIFNESSILIRNCMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 25 ~g~l~~~~~~~~~~~~~~~~lvR~~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
.|||.++|.+-|+ +++--|---=++++.|-- +-...++||||+|||||....|+=.+
T Consensus 223 IGGLd~EFs~IFR----RAFAsRvFpp~vie~lGi-----~HVKGiLLyGPPGTGKTLiARqIGkM 279 (744)
T KOG0741|consen 223 IGGLDKEFSDIFR----RAFASRVFPPEVIEQLGI-----KHVKGILLYGPPGTGKTLIARQIGKM 279 (744)
T ss_pred cccchHHHHHHHH----HHHHhhcCCHHHHHHcCc-----cceeeEEEECCCCCChhHHHHHHHHH
Confidence 4888887776554 333444422356776633 56889999999999999999998543
No 271
>TIGR03238 dnd_assoc_3 dnd system-associated protein 3. cereus E33L, Hahella chejuensis KCTC 2396, Pseudoalteromonas haloplanktis TAC12, and Escherichia coli B7A.
Probab=94.19 E-value=0.052 Score=55.11 Aligned_cols=40 Identities=30% Similarity=0.313 Sum_probs=31.0
Q ss_pred EechhHHHHHHHHHhccCCC-CCCCeEEEEccCCCcHHHHHH
Q psy3261 45 LIRNCMLELVGYLKSMTNFD-RPSPRFVLYGEHGVGKSMALV 85 (342)
Q Consensus 45 lvR~~t~el~~~l~~~~~~~-~~~~r~vL~G~~GsGKS~~L~ 85 (342)
+=|+.-.++...|+. .+.+ .++..+.|.|+.||||||+|.
T Consensus 10 i~r~Ie~~l~~vL~~-Vsl~i~~GEiv~L~G~SGsGKSTLLr 50 (504)
T TIGR03238 10 VKRKIQTDLERILVK-FNKELPSSSLLFLCGSSGDGKSEILA 50 (504)
T ss_pred echHHHHHHHHHHhC-CceeecCCCEEEEECCCCCCHHHHHh
Confidence 345656677777776 3333 678899999999999999999
No 272
>PRK05541 adenylylsulfate kinase; Provisional
Probab=94.18 E-value=0.094 Score=45.65 Aligned_cols=37 Identities=11% Similarity=0.016 Sum_probs=27.8
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.+..-++|.|..|||||++...+.......+.-++++
T Consensus 5 ~~~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~ 41 (176)
T PRK05541 5 PNGYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYL 41 (176)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 4567899999999999999988887776554333333
No 273
>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=94.18 E-value=0.062 Score=46.88 Aligned_cols=30 Identities=13% Similarity=0.195 Sum_probs=23.3
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEE
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNYLLV 99 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl 99 (342)
...++|.|++||||||++..+... .|+..+
T Consensus 3 ~~ii~i~G~~GsGKsTl~~~l~~~---~g~~~~ 32 (188)
T TIGR01360 3 CKIIFIVGGPGSGKGTQCEKIVEK---YGFTHL 32 (188)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHH---hCCcEE
Confidence 457899999999999999888764 265444
No 274
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=94.16 E-value=0.17 Score=43.02 Aligned_cols=38 Identities=16% Similarity=0.244 Sum_probs=27.5
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCe--EEEEe-CCc
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNY--LLVHI-PWV 104 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gw--iVl~v-P~~ 104 (342)
+..+++.|+.|+|||.+..-.+.....++. .++++ |..
T Consensus 14 ~~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~ 54 (169)
T PF00270_consen 14 GKNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTR 54 (169)
T ss_dssp TSEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSH
T ss_pred CCCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeecc
Confidence 456999999999999999977766554433 44444 655
No 275
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=94.15 E-value=0.15 Score=49.63 Aligned_cols=42 Identities=14% Similarity=0.086 Sum_probs=31.7
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccccc
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWF 108 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~ 108 (342)
....+++.|+.||||||+|.-++.+. -.++-|+.|-+..++.
T Consensus 159 ~~~nili~G~tgSGKTTll~aL~~~i-p~~~ri~tiEd~~El~ 200 (332)
T PRK13900 159 SKKNIIISGGTSTGKTTFTNAALREI-PAIERLITVEDAREIV 200 (332)
T ss_pred cCCcEEEECCCCCCHHHHHHHHHhhC-CCCCeEEEecCCCccc
Confidence 35679999999999999998776654 4467777775555553
No 276
>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural
Probab=94.14 E-value=0.045 Score=44.48 Aligned_cols=23 Identities=17% Similarity=0.362 Sum_probs=20.3
Q ss_pred CCCeEEEEccCCCcHHHHHHHHH
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYAL 88 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~ 88 (342)
+...+.|.|+.|||||++|.-+.
T Consensus 14 ~ge~v~I~GpSGsGKSTLl~~l~ 36 (107)
T cd00820 14 GKVGVLITGDSGIGKTELALELI 36 (107)
T ss_pred CCEEEEEEcCCCCCHHHHHHHhh
Confidence 45678999999999999999876
No 277
>PLN03187 meiotic recombination protein DMC1 homolog; Provisional
Probab=94.13 E-value=0.19 Score=49.12 Aligned_cols=27 Identities=15% Similarity=0.027 Sum_probs=22.7
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHH
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAH 92 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~ 92 (342)
...-..|+|++|||||.+..|+...+.
T Consensus 125 ~G~ItEI~G~~GsGKTql~lqlav~~q 151 (344)
T PLN03187 125 TRCITEAFGEFRSGKTQLAHTLCVTTQ 151 (344)
T ss_pred CCeEEEEecCCCCChhHHHHHHHHHHh
Confidence 456677999999999999999977664
No 278
>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=94.13 E-value=0.04 Score=51.19 Aligned_cols=28 Identities=21% Similarity=0.261 Sum_probs=22.9
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH 92 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~ 92 (342)
.++--+.|-|+.||||||+|.=+.-.-.
T Consensus 27 ~~GEfvsilGpSGcGKSTLLriiAGL~~ 54 (248)
T COG1116 27 EKGEFVAILGPSGCGKSTLLRLIAGLEK 54 (248)
T ss_pred CCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence 4678899999999999999987665443
No 279
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=94.08 E-value=0.11 Score=50.82 Aligned_cols=43 Identities=23% Similarity=0.400 Sum_probs=31.3
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhC-CeEEEEeCCccccc
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHEN-NYLLVHIPWVLRWF 108 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~-gwiVl~vP~~~~~~ 108 (342)
+..-++|.|+.||||||+|..++.+..+. +--|+.+-+..++.
T Consensus 121 ~~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiEdp~E~~ 164 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITIEDPIEYV 164 (343)
T ss_pred cCcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEcCChhhh
Confidence 35678999999999999999888765532 34566665555543
No 280
>PRK00279 adk adenylate kinase; Reviewed
Probab=94.06 E-value=0.061 Score=48.65 Aligned_cols=31 Identities=23% Similarity=0.379 Sum_probs=24.6
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
|++|.|++|||||++-..+ |...||..+.+.
T Consensus 2 ~I~v~G~pGsGKsT~a~~l---a~~~~~~~is~~ 32 (215)
T PRK00279 2 RLILLGPPGAGKGTQAKFI---AEKYGIPHISTG 32 (215)
T ss_pred EEEEECCCCCCHHHHHHHH---HHHhCCcEEECC
Confidence 7999999999999876554 555688888754
No 281
>KOG0741|consensus
Probab=94.05 E-value=0.41 Score=49.15 Aligned_cols=122 Identities=17% Similarity=0.172 Sum_probs=76.0
Q ss_pred HHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccccccCCcceeccCCCCCccccHHH
Q psy3261 50 MLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWFAYPKEVSHSLTKEGMVDLNID 129 (342)
Q Consensus 50 t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~~~~~~~~~s~~~~~~~~qP~~ 129 (342)
..-+++++++ ...++-..++|.|++|||||.+.+++ |+.+++=-+-|=++++.+--+ |++ -
T Consensus 523 G~llv~qvk~--s~~s~lvSvLl~Gp~~sGKTaLAA~i---A~~S~FPFvKiiSpe~miG~s-Esa-------------K 583 (744)
T KOG0741|consen 523 GKLLVQQVKN--SERSPLVSVLLEGPPGSGKTALAAKI---ALSSDFPFVKIISPEDMIGLS-ESA-------------K 583 (744)
T ss_pred HHHHHHHhhc--cccCcceEEEEecCCCCChHHHHHHH---HhhcCCCeEEEeChHHccCcc-HHH-------------H
Confidence 3344555554 23356788999999999999997765 678888777776666654332 211 2
Q ss_pred HHHHHHHHHHhCccccCCCCcccccceecCCCCCCCCCCCHHHHHHhhcccccchhHHHHHHHHHHhccccCCCceEEE
Q psy3261 130 AAMWLRHFQKQNTKWLEDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKYASDVVDVLFTEIKKLSTEGVCRTFV 208 (342)
Q Consensus 130 a~~~L~~~~~~N~~~L~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~~~~l~~EL~~~~~~~~~pVLv 208 (342)
.+.+=+.|..+-+.-|. +-+-. .+..|+++.---|+++..++++|+=-|+++.+ ...+.||
T Consensus 584 c~~i~k~F~DAYkS~ls---iivvD--------------diErLiD~vpIGPRfSN~vlQaL~VllK~~pp-kg~kLli 644 (744)
T KOG0741|consen 584 CAHIKKIFEDAYKSPLS---IIVVD--------------DIERLLDYVPIGPRFSNLVLQALLVLLKKQPP-KGRKLLI 644 (744)
T ss_pred HHHHHHHHHHhhcCcce---EEEEc--------------chhhhhcccccCchhhHHHHHHHHHHhccCCC-CCceEEE
Confidence 33344455555555454 22211 13344444444477999999999999999873 4445554
No 282
>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []. It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.
Probab=94.04 E-value=0.064 Score=47.94 Aligned_cols=40 Identities=15% Similarity=0.166 Sum_probs=26.7
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCc
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWV 104 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~ 104 (342)
....-++|-|++|||||+++.++.......|.++|.-..-
T Consensus 13 ~~P~~~i~aG~~GsGKSt~~~~~~~~~~~~~~v~i~~D~~ 52 (199)
T PF06414_consen 13 EKPTLIIIAGQPGSGKSTLARQLLEEFGGGGIVVIDADEF 52 (199)
T ss_dssp SS-EEEEEES-TTSTTHHHHHHHHHHT-TT-SEEE-GGGG
T ss_pred cCCEEEEEeCCCCCCHHHHHHHhhhhccCCCeEEEehHHH
Confidence 3455677779999999999999977544678888875433
No 283
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=94.03 E-value=0.048 Score=50.15 Aligned_cols=28 Identities=21% Similarity=0.198 Sum_probs=23.0
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH 92 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~ 92 (342)
.++--+.|.||.||||||+|.-+-....
T Consensus 29 ~~Ge~vaI~GpSGSGKSTLLniig~ld~ 56 (226)
T COG1136 29 EAGEFVAIVGPSGSGKSTLLNLLGGLDK 56 (226)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHhcccC
Confidence 4677899999999999999987765444
No 284
>KOG2749|consensus
Probab=94.03 E-value=0.073 Score=51.81 Aligned_cols=38 Identities=26% Similarity=0.353 Sum_probs=35.8
Q ss_pred CCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 64 DRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 64 ~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
++..+|+++.|+.-||||++..-+..||.++||=.+||
T Consensus 100 ~~~GPrv~vVGp~d~GKsTl~r~L~nyavk~gr~Plfv 137 (415)
T KOG2749|consen 100 SSYGPRVMVVGPTDVGKSTLCRILLNYAVKQGRRPLFV 137 (415)
T ss_pred hccCCEEEEECCCccchHHHHHHHHHHHHHcCCcceEE
Confidence 46789999999999999999999999999999999888
No 285
>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.
Probab=94.02 E-value=0.016 Score=51.25 Aligned_cols=36 Identities=33% Similarity=0.313 Sum_probs=24.7
Q ss_pred EEEccCCCcHHHHHHHHHHHHHhCCe--EEEEeCCccc
Q psy3261 71 VLYGEHGVGKSMALVYALQYAHENNY--LLVHIPWVLR 106 (342)
Q Consensus 71 vL~G~~GsGKS~~L~q~~~~A~~~gw--iVl~vP~~~~ 106 (342)
||+++||.|||++|-.+++.+...|- |+|.-|+..+
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~ 38 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPEN 38 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHH
Confidence 68999999999999999999988876 6666676643
No 286
>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=94.02 E-value=0.11 Score=49.75 Aligned_cols=42 Identities=19% Similarity=0.128 Sum_probs=32.5
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhC--CeEEEEeCCcccc
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHEN--NYLLVHIPWVLRW 107 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~--gwiVl~vP~~~~~ 107 (342)
....+++.|+.||||||+|..++.+..++ +.-|+.|=+..++
T Consensus 131 ~~~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El 174 (299)
T TIGR02782 131 ARKNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTREL 174 (299)
T ss_pred cCCeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhh
Confidence 35679999999999999999998877654 6677777555443
No 287
>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1. This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.
Probab=94.02 E-value=0.2 Score=48.34 Aligned_cols=37 Identities=19% Similarity=0.082 Sum_probs=27.9
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHh------CCeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHE------NNYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~------~gwiVl~v 101 (342)
.+..-..|+|++|||||++..|+...+.. .|--|+||
T Consensus 94 ~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYI 136 (313)
T TIGR02238 94 ESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYI 136 (313)
T ss_pred cCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEE
Confidence 45667779999999999999998865542 23466777
No 288
>PRK10436 hypothetical protein; Provisional
Probab=94.01 E-value=0.12 Score=52.58 Aligned_cols=43 Identities=21% Similarity=0.285 Sum_probs=33.2
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCcccc
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRW 107 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~ 107 (342)
.+..-++++|+.||||||+|..++.+....+--|+.|=++.++
T Consensus 216 ~~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~TiEDPvE~ 258 (462)
T PRK10436 216 QPQGLILVTGPTGSGKTVTLYSALQTLNTAQINICSVEDPVEI 258 (462)
T ss_pred hcCCeEEEECCCCCChHHHHHHHHHhhCCCCCEEEEecCCccc
Confidence 3566799999999999999988888865555567777555554
No 289
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=94.00 E-value=0.16 Score=48.47 Aligned_cols=84 Identities=14% Similarity=0.044 Sum_probs=54.3
Q ss_pred HHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEE--EEe-CCccccccCC-----cceeccCCCC
Q psy3261 50 MLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLL--VHI-PWVLRWFAYP-----KEVSHSLTKE 121 (342)
Q Consensus 50 t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiV--l~v-P~~~~~~~~~-----~~~~~s~~~~ 121 (342)
+.+|+..+.- .+..+.++=|||.+|+||||++--+....++.|--| |-| |+. -++-|+ .-...-..++
T Consensus 37 a~~ll~~l~p---~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSS-p~TGGsiLGDRiRM~~~~~~~ 112 (323)
T COG1703 37 ARELLRALYP---RTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSS-PFTGGSILGDRIRMQRLAVDP 112 (323)
T ss_pred HHHHHHHHhh---cCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCC-CCCCccccccHhhHHhhccCC
Confidence 5567776644 335677999999999999999999999999998744 666 443 333331 0001111256
Q ss_pred CccccHHHHHHHHHHH
Q psy3261 122 GMVDLNIDAAMWLRHF 137 (342)
Q Consensus 122 ~~~~qP~~a~~~L~~~ 137 (342)
+.|.-|+.+.--|--+
T Consensus 113 ~vFiRs~~srG~lGGl 128 (323)
T COG1703 113 GVFIRSSPSRGTLGGL 128 (323)
T ss_pred CeEEeecCCCccchhh
Confidence 6776666555544444
No 290
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=94.00 E-value=0.094 Score=50.04 Aligned_cols=23 Identities=13% Similarity=0.083 Sum_probs=17.5
Q ss_pred CCeEEEEccCCCcHHHHHHHHHH
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
..-++|+|++|+|||+++..+..
T Consensus 43 ~~~lll~G~~G~GKT~la~~l~~ 65 (316)
T PHA02544 43 PNMLLHSPSPGTGKTTVAKALCN 65 (316)
T ss_pred CeEEEeeCcCCCCHHHHHHHHHH
Confidence 45566699999999998766543
No 291
>PRK14530 adenylate kinase; Provisional
Probab=93.99 E-value=0.071 Score=48.21 Aligned_cols=31 Identities=29% Similarity=0.352 Sum_probs=23.5
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEE
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNYLLVH 100 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~ 100 (342)
..+++|.|++||||||+...+. ...|+..+.
T Consensus 3 ~~~I~i~G~pGsGKsT~~~~La---~~~~~~~i~ 33 (215)
T PRK14530 3 QPRILLLGAPGAGKGTQSSNLA---EEFGVEHVT 33 (215)
T ss_pred CCEEEEECCCCCCHHHHHHHHH---HHhCCeEEe
Confidence 4589999999999999888774 334655443
No 292
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=93.99 E-value=0.073 Score=50.93 Aligned_cols=37 Identities=19% Similarity=0.151 Sum_probs=29.3
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHh-------CCeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHE-------NNYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~-------~gwiVl~vP 102 (342)
....-+.|+|++|||||+++.|+...+.. +| -|+||.
T Consensus 93 ~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~-~~~yi~ 136 (310)
T TIGR02236 93 ETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGG-KAVYID 136 (310)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcc-eEEEEE
Confidence 34666789999999999999999877652 34 777774
No 293
>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=93.97 E-value=0.097 Score=52.54 Aligned_cols=38 Identities=16% Similarity=0.207 Sum_probs=31.8
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHH-HhCCeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYA-HENNYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A-~~~gwiVl~vP 102 (342)
.++.-++|.|.+|+|||+++.|++..+ ..+|+-|+++.
T Consensus 193 ~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~S 231 (434)
T TIGR00665 193 QPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFS 231 (434)
T ss_pred CCCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEe
Confidence 356678999999999999999998874 56798888883
No 294
>PRK00131 aroK shikimate kinase; Reviewed
Probab=93.97 E-value=0.077 Score=45.47 Aligned_cols=33 Identities=27% Similarity=0.334 Sum_probs=25.0
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
+...++|+|++|||||++...+.... |+.++..
T Consensus 3 ~~~~i~l~G~~GsGKstla~~La~~l---~~~~~d~ 35 (175)
T PRK00131 3 KGPNIVLIGFMGAGKSTIGRLLAKRL---GYDFIDT 35 (175)
T ss_pred CCCeEEEEcCCCCCHHHHHHHHHHHh---CCCEEEC
Confidence 45689999999999999977765543 6655543
No 295
>TIGR01618 phage_P_loop phage nucleotide-binding protein. This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.
Probab=93.96 E-value=0.11 Score=47.58 Aligned_cols=32 Identities=22% Similarity=0.545 Sum_probs=26.5
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCC
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPW 103 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~ 103 (342)
...++|||++|+|||++..++ ....+++....
T Consensus 12 ~~~~liyG~~G~GKtt~a~~~-----~~~~~~~~~d~ 43 (220)
T TIGR01618 12 PNMYLIYGKPGTGKTSTIKYL-----PGKTLVLSFDM 43 (220)
T ss_pred CcEEEEECCCCCCHHHHHHhc-----CCCCEEEeccc
Confidence 567999999999999998876 35688888754
No 296
>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=93.95 E-value=0.049 Score=44.66 Aligned_cols=22 Identities=36% Similarity=0.459 Sum_probs=19.6
Q ss_pred CeEEEEccCCCcHHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
.+++|.|.+|+|||+++.++..
T Consensus 2 ~ki~~~G~~~~GKstl~~~l~~ 23 (161)
T TIGR00231 2 IKIVIVGDPNVGKSTLLNRLLG 23 (161)
T ss_pred eEEEEECCCCCCHHHHHHHHhC
Confidence 5899999999999999988864
No 297
>PRK03846 adenylylsulfate kinase; Provisional
Probab=93.94 E-value=0.084 Score=47.13 Aligned_cols=37 Identities=19% Similarity=0.063 Sum_probs=29.4
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.+..-+.|+|..|||||++...+.......|+-++++
T Consensus 22 ~~~~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~l 58 (198)
T PRK03846 22 HKGVVLWFTGLSGSGKSTVAGALEEALHELGVSTYLL 58 (198)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEE
Confidence 4567899999999999998888887777666655555
No 298
>PHA02244 ATPase-like protein
Probab=93.93 E-value=0.13 Score=50.82 Aligned_cols=32 Identities=19% Similarity=0.259 Sum_probs=23.2
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEE
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNYLLV 99 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl 99 (342)
...++|.|++|||||++..++.+ +....|+.+
T Consensus 119 ~~PVLL~GppGtGKTtLA~aLA~-~lg~pfv~I 150 (383)
T PHA02244 119 NIPVFLKGGAGSGKNHIAEQIAE-ALDLDFYFM 150 (383)
T ss_pred CCCEEEECCCCCCHHHHHHHHHH-HhCCCEEEE
Confidence 66899999999999998766644 444444444
No 299
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=93.93 E-value=0.22 Score=51.89 Aligned_cols=122 Identities=21% Similarity=0.255 Sum_probs=64.4
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCcccccc-CCcceeccCCCCCccccHHHHHHHHHHHHHhCccc
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWFA-YPKEVSHSLTKEGMVDLNIDAAMWLRHFQKQNTKW 144 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~~-~~~~~~~s~~~~~~~~qP~~a~~~L~~~~~~N~~~ 144 (342)
+..-++++|+.||||||+|..++.+.-..+--|+.|=++.++.. +...+..+. +.| + .-...|+.++..+-++
T Consensus 315 ~~Glilv~G~tGSGKTTtl~a~l~~~~~~~~~i~tiEdpvE~~~~~~~q~~v~~-~~g-~----~~~~~l~~~LR~dPDv 388 (564)
T TIGR02538 315 PQGMVLVTGPTGSGKTVSLYTALNILNTEEVNISTAEDPVEINLPGINQVNVNP-KIG-L----TFAAALRSFLRQDPDI 388 (564)
T ss_pred cCCeEEEECCCCCCHHHHHHHHHHhhCCCCceEEEecCCceecCCCceEEEecc-ccC-C----CHHHHHHHHhccCCCE
Confidence 45678899999999999998888876544445666644444432 221111111 111 1 2355677776655544
Q ss_pred cCCCCcc------------cccceecCCCCCCCCCCCHHHHHHhhcccccchhHHHHHHHHH
Q psy3261 145 LEDPRLT------------TSQEYVWSPREKSEANIPLAALIEHGITRVKYASDVVDVLFTE 194 (342)
Q Consensus 145 L~~~~l~------------~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~~~~l~~E 194 (342)
+==+.|. .+...+++--....+...+..|++.|+.....| .++..++.+
T Consensus 389 I~vGEiRd~eta~~a~~aa~tGHlv~tTlHa~~a~~~i~Rl~~lg~~~~~la-~~l~~vi~Q 449 (564)
T TIGR02538 389 IMVGEIRDLETAEIAIKAAQTGHLVLSTLHTNDAPETLARLVNMGIAPFNIA-SSVNLIMAQ 449 (564)
T ss_pred EEeCCCCCHHHHHHHHHHHHcCCcEEEEeccCCHHHHHHHHHHcCCCHHHHH-HHHHHhhee
Confidence 3200111 122222322222344567788888887644443 334444444
No 300
>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid
Probab=93.90 E-value=0.042 Score=49.39 Aligned_cols=25 Identities=20% Similarity=0.090 Sum_probs=21.5
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHH
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYA 91 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A 91 (342)
..-++|+|+.||||||+|.++....
T Consensus 25 g~~~~ltGpNg~GKSTllr~i~~~~ 49 (199)
T cd03283 25 KNGILITGSNMSGKSTFLRTIGVNV 49 (199)
T ss_pred CcEEEEECCCCCChHHHHHHHHHHH
Confidence 4788999999999999999996543
No 301
>PRK06547 hypothetical protein; Provisional
Probab=93.84 E-value=0.11 Score=45.67 Aligned_cols=34 Identities=21% Similarity=0.261 Sum_probs=26.2
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.....++|+|+.|||||++...+... .|..+++.
T Consensus 13 ~~~~~i~i~G~~GsGKTt~a~~l~~~---~~~~~~~~ 46 (172)
T PRK06547 13 GGMITVLIDGRSGSGKTTLAGALAAR---TGFQLVHL 46 (172)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHH---hCCCeecc
Confidence 45778999999999999998777654 45666654
No 302
>PF09820 AAA-ATPase_like: Predicted AAA-ATPase; InterPro: IPR018631 This entry is predicted to be an AAA-ATPase domain []. It is usually found together with IPR012547 from INTERPRO.
Probab=93.83 E-value=1 Score=42.79 Aligned_cols=146 Identities=14% Similarity=0.063 Sum_probs=75.2
Q ss_pred hhhhcCCc-eEEechhHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEE--EEeCCcc-cc--
Q psy3261 35 QTQIFNES-SILIRNCMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLL--VHIPWVL-RW-- 107 (342)
Q Consensus 35 ~~~~~~~~-~~lvR~~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiV--l~vP~~~-~~-- 107 (342)
.|+..++. ..-|-| |.- |..|.+ ....++|.=||.=|||++|.-+-+|.. .+.-+. +.|-... .|
T Consensus 6 ~F~~i~~~~~~yVDK-T~~-I~~l~~------~~~~~~~~RPRRFGKSl~lsmL~~~f~~~~~~LF~~L~I~~~~~~~~~ 77 (284)
T PF09820_consen 6 DFKKIREENYYYVDK-TMF-IKELLD------SGKYVFLSRPRRFGKSLNLSMLEAYFDDDSKELFKGLKISKHPTYWKH 77 (284)
T ss_pred HHHHHHHCCeEEEEC-HHH-HHHHHh------cCCEEEEecccchhhhHHHHHHHHHHhhhhhhhcCCcccccccccccc
Confidence 34334333 445555 533 444433 144669999999999999999999877 222221 3332211 11
Q ss_pred ccCCcceeccCCCCCccccHHHHHHHHHHHHHhCccccCCCCcccccceecCCCCCCCCCCCHHHHHHhhcccccchhHH
Q psy3261 108 FAYPKEVSHSLTKEGMVDLNIDAAMWLRHFQKQNTKWLEDPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKYASDV 187 (342)
Q Consensus 108 ~~~~~~~~~s~~~~~~~~qP~~a~~~L~~~~~~N~~~L~~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~ 187 (342)
.+. ..+..-.........+....+.|+......-..+. .. .+. .+......+
T Consensus 78 ~~~-YpVI~ldfs~~~~~~~~~~~~~l~~~l~~~~~~~~--~~-------------~~~------------~~~~~~~~~ 129 (284)
T PF09820_consen 78 MNK-YPVIFLDFSGVKGSSFEELEESLKEILSDIFKEHR--YL-------------YES------------VEEIDLADS 129 (284)
T ss_pred ccc-ceEEEehhhhhccccHHHHHHHHHHHHHHHHHHHh--HH-------------hcc------------cccCCHHHH
Confidence 111 11111111111223333444444443221111111 00 000 013355677
Q ss_pred HHHHHHHHhccccCCCceEEEEEeCccccccC
Q psy3261 188 VDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAE 219 (342)
Q Consensus 188 ~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~ 219 (342)
+..+++-|..+. ..||.|-||+|-..+..
T Consensus 130 l~~li~~l~~~~---~~kvvlLIDEYD~p~~~ 158 (284)
T PF09820_consen 130 LKDLIEYLYEKY---GKKVVLLIDEYDKPIND 158 (284)
T ss_pred HHHHHHHHHHHh---CCceEEEecCccHHHHH
Confidence 888888888775 89999999999777665
No 303
>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=93.83 E-value=0.087 Score=49.78 Aligned_cols=35 Identities=23% Similarity=0.156 Sum_probs=27.7
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCc
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWV 104 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~ 104 (342)
++|+|-+|||||+.-.++..+..+.+|=|..|.+.
T Consensus 4 iil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~~~ 38 (270)
T PF08433_consen 4 IILCGLPCSGKTTRAKELKKYLEEKGKEVVIISDD 38 (270)
T ss_dssp EEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-TH
T ss_pred EEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEccc
Confidence 78999999999999999999999999999999744
No 304
>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=93.81 E-value=0.078 Score=49.07 Aligned_cols=32 Identities=28% Similarity=0.273 Sum_probs=26.9
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
++|.|.+|||||+...++..+....|+=|+++
T Consensus 2 Ivl~G~pGSGKST~a~~La~~l~~~~~~v~~i 33 (249)
T TIGR03574 2 IILTGLPGVGKSTFSKELAKKLSEKNIDVIIL 33 (249)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcCCceEEE
Confidence 68999999999999999999887777655555
No 305
>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=93.80 E-value=0.087 Score=48.94 Aligned_cols=36 Identities=25% Similarity=0.439 Sum_probs=26.7
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHh-CCeEEEEeC
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHE-NNYLLVHIP 102 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~-~gwiVl~vP 102 (342)
.-|+++-|++|||||+++..++.+-.. -..|++--|
T Consensus 13 ~fr~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t~ 49 (241)
T PF04665_consen 13 PFRMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLITP 49 (241)
T ss_pred CceEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEec
Confidence 459999999999999999999876443 244443334
No 306
>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru
Probab=93.79 E-value=0.054 Score=48.49 Aligned_cols=26 Identities=19% Similarity=0.045 Sum_probs=22.6
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHH
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYA 91 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A 91 (342)
+..+++|+|+.|||||++|..+..-.
T Consensus 28 ~~~~~~l~G~Ng~GKStll~~i~~~~ 53 (202)
T cd03243 28 SGRLLLITGPNMGGKSTYLRSIGLAV 53 (202)
T ss_pred CCeEEEEECCCCCccHHHHHHHHHHH
Confidence 45799999999999999999998544
No 307
>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=93.79 E-value=0.12 Score=45.70 Aligned_cols=27 Identities=22% Similarity=0.365 Sum_probs=22.5
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHH
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAH 92 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~ 92 (342)
....++|.|+.||||||++..++..-.
T Consensus 24 ~g~~i~I~G~tGSGKTTll~aL~~~i~ 50 (186)
T cd01130 24 ARKNILISGGTGSGKTTLLNALLAFIP 50 (186)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence 367899999999999999988776543
No 308
>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=93.76 E-value=0.083 Score=46.94 Aligned_cols=32 Identities=13% Similarity=0.202 Sum_probs=23.2
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
+.|.|+.||||||+...+...-...+..|++.
T Consensus 2 igi~G~~GsGKSTl~~~l~~~l~~~~~~v~~~ 33 (198)
T cd02023 2 IGIAGGSGSGKTTVAEEIIEQLGNPKVVIISQ 33 (198)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCCCeEEEEe
Confidence 56899999999999988877652223444444
No 309
>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=93.75 E-value=0.058 Score=46.97 Aligned_cols=23 Identities=35% Similarity=0.387 Sum_probs=19.8
Q ss_pred CeEEEEccCCCcHHHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
..++|.|+.|||||+++..+...
T Consensus 2 ~ii~l~G~~GsGKsTl~~~L~~~ 24 (180)
T TIGR03263 2 LLIVISGPSGVGKSTLVKALLEE 24 (180)
T ss_pred cEEEEECCCCCCHHHHHHHHHcc
Confidence 46899999999999998887763
No 310
>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....
Probab=93.75 E-value=0.06 Score=43.34 Aligned_cols=21 Identities=29% Similarity=0.347 Sum_probs=19.3
Q ss_pred eEEEEccCCCcHHHHHHHHHH
Q psy3261 69 RFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~ 89 (342)
|++|.|.+|+|||+++..+..
T Consensus 1 ~V~iiG~~~~GKSTlin~l~~ 21 (116)
T PF01926_consen 1 RVAIIGRPNVGKSTLINALTG 21 (116)
T ss_dssp EEEEEESTTSSHHHHHHHHHT
T ss_pred CEEEECCCCCCHHHHHHHHhc
Confidence 689999999999999999983
No 311
>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=93.73 E-value=0.055 Score=47.78 Aligned_cols=31 Identities=29% Similarity=0.281 Sum_probs=25.5
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCC
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAHENNYLLVHIPW 103 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~ 103 (342)
+++.|..||||||++..+..+ .|+.++.-|.
T Consensus 2 I~ieG~~GsGKSTl~~~L~~~---~~~~~~~Ep~ 32 (193)
T cd01673 2 IVVEGNIGAGKSTLAKELAEH---LGYEVVPEPV 32 (193)
T ss_pred EEEECCCCCCHHHHHHHHHHH---hCCccccccc
Confidence 689999999999999988876 4777766664
No 312
>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=93.71 E-value=0.075 Score=56.20 Aligned_cols=34 Identities=21% Similarity=0.314 Sum_probs=29.3
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
..++|.|++|||||+++..++..+.++|--|+..
T Consensus 174 ~~~lI~GpPGTGKT~t~~~ii~~~~~~g~~VLv~ 207 (637)
T TIGR00376 174 DLFLIHGPPGTGKTRTLVELIRQLVKRGLRVLVT 207 (637)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 5688999999999999999999988877766555
No 313
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=93.71 E-value=0.17 Score=43.25 Aligned_cols=28 Identities=21% Similarity=0.280 Sum_probs=24.6
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHHhCC
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAHENN 95 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~~~g 95 (342)
..+++.|+.|||||+++...+.++..++
T Consensus 25 ~~~~i~~~~GsGKT~~~~~~~~~~~~~~ 52 (201)
T smart00487 25 RDVILAAPTGSGKTLAALLPALEALKRG 52 (201)
T ss_pred CcEEEECCCCCchhHHHHHHHHHHhccc
Confidence 7899999999999999888888877654
No 314
>PRK06762 hypothetical protein; Provisional
Probab=93.68 E-value=0.092 Score=45.15 Aligned_cols=32 Identities=22% Similarity=0.276 Sum_probs=23.4
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEE
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAHENNYLLVH 100 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~ 100 (342)
.-++|+|.+||||||+...+.... ..+++++.
T Consensus 3 ~li~i~G~~GsGKST~A~~L~~~l-~~~~~~i~ 34 (166)
T PRK06762 3 TLIIIRGNSGSGKTTIAKQLQERL-GRGTLLVS 34 (166)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHh-CCCeEEec
Confidence 457899999999999887776553 23555553
No 315
>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=93.66 E-value=0.096 Score=52.66 Aligned_cols=36 Identities=14% Similarity=0.230 Sum_probs=30.7
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
+...++|.|+.||||||+.+.+.+++.++|+=|+-|
T Consensus 99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV 134 (429)
T TIGR01425 99 KQNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLV 134 (429)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEE
Confidence 346788999999999999999999999888755555
No 316
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=93.66 E-value=0.055 Score=49.44 Aligned_cols=35 Identities=23% Similarity=0.275 Sum_probs=25.5
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++-.++|.||.||||||+|.-+-..=. ..|-|.+
T Consensus 26 ~~Gevv~iiGpSGSGKSTlLRclN~LE~~~~G~I~i 61 (240)
T COG1126 26 EKGEVVVIIGPSGSGKSTLLRCLNGLEEPDSGSITV 61 (240)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHHCCcCCCCceEEE
Confidence 4678999999999999999986654322 3454443
No 317
>PRK00698 tmk thymidylate kinase; Validated
Probab=93.65 E-value=0.1 Score=46.21 Aligned_cols=33 Identities=18% Similarity=0.192 Sum_probs=26.7
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEE
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNYLLV 99 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl 99 (342)
+.-++|.|+.||||||++..+..+....|.-++
T Consensus 3 ~~~I~ieG~~gsGKsT~~~~L~~~l~~~~~~~~ 35 (205)
T PRK00698 3 GMFITIEGIDGAGKSTQIELLKELLEQQGRDVV 35 (205)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCcee
Confidence 467899999999999999999887766654333
No 318
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=93.63 E-value=0.096 Score=51.76 Aligned_cols=42 Identities=21% Similarity=0.209 Sum_probs=31.7
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhC--CeEEEEeCCccccc
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHEN--NYLLVHIPWVLRWF 108 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~--gwiVl~vP~~~~~~ 108 (342)
..-+++.|+.||||||+|..++.+..++ +.-|+.|=++.++.
T Consensus 149 ~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~IvtiEdp~E~~ 192 (372)
T TIGR02525 149 AGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTYEDPIEYI 192 (372)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecCchhc
Confidence 4568999999999999999988887643 45667775555543
No 319
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=93.60 E-value=0.12 Score=45.46 Aligned_cols=37 Identities=19% Similarity=0.129 Sum_probs=29.8
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.+...++|.|.+|||||++...+...-...|+-++++
T Consensus 16 ~~~~~i~i~G~~GsGKstla~~l~~~l~~~~~~~~~l 52 (184)
T TIGR00455 16 HRGVVIWLTGLSGSGKSTIANALEKKLESKGYRVYVL 52 (184)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 4577999999999999999988888777777544444
No 320
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=93.60 E-value=0.17 Score=48.52 Aligned_cols=26 Identities=19% Similarity=0.294 Sum_probs=22.5
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHH
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYA 91 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A 91 (342)
....+++.|+.||||||+|..++.+.
T Consensus 143 ~~~~ili~G~tGsGKTTll~al~~~~ 168 (308)
T TIGR02788 143 SRKNIIISGGTGSGKTTFLKSLVDEI 168 (308)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHccC
Confidence 46799999999999999998877654
No 321
>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C. This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.
Probab=93.59 E-value=0.089 Score=46.96 Aligned_cols=40 Identities=18% Similarity=0.121 Sum_probs=30.8
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeE-----EEEeCCc
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYL-----LVHIPWV 104 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwi-----Vl~vP~~ 104 (342)
.++..+.|.|+.||||||+|.-+.-... ..|.| |-|+|..
T Consensus 29 ~~G~~~~i~G~nG~GKSTLl~~i~G~~~~~~G~i~~~g~i~~~~q~ 74 (204)
T cd03250 29 PKGELVAIVGPVGSGKSSLLSALLGELEKLSGSVSVPGSIAYVSQE 74 (204)
T ss_pred CCCCEEEEECCCCCCHHHHHHHHhCcCCCCCCeEEEcCEEEEEecC
Confidence 5788999999999999999988766543 56877 4455444
No 322
>PRK00300 gmk guanylate kinase; Provisional
Probab=93.57 E-value=0.074 Score=47.35 Aligned_cols=25 Identities=32% Similarity=0.333 Sum_probs=22.0
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHH
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
++.-++|.|+.|||||+++..+...
T Consensus 4 ~g~~i~i~G~sGsGKstl~~~l~~~ 28 (205)
T PRK00300 4 RGLLIVLSGPSGAGKSTLVKALLER 28 (205)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHhh
Confidence 5678999999999999998888775
No 323
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=93.56 E-value=0.064 Score=47.36 Aligned_cols=22 Identities=32% Similarity=0.302 Sum_probs=19.4
Q ss_pred CeEEEEccCCCcHHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
..++|.|+.||||||++..+..
T Consensus 3 ~~i~l~G~sGsGKsTl~~~l~~ 24 (186)
T PRK10078 3 KLIWLMGPSGSGKDSLLAALRQ 24 (186)
T ss_pred cEEEEECCCCCCHHHHHHHHhc
Confidence 4689999999999999999844
No 324
>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]
Probab=93.55 E-value=0.074 Score=50.49 Aligned_cols=121 Identities=13% Similarity=0.040 Sum_probs=72.6
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccccccCCcceeccCCCCCccccHHHHHHHHHHHHHhCccccC
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWFAYPKEVSHSLTKEGMVDLNIDAAMWLRHFQKQNTKWLE 146 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~~~~~~~~~s~~~~~~~~qP~~a~~~L~~~~~~N~~~L~ 146 (342)
..-.=++|+.|||||++..|++..|...|=.++||.-- +.+ -|.++.++...+ +.
T Consensus 60 g~ItEiyG~~gsGKT~lal~~~~~aq~~g~~a~fIDtE-----------------~~l-~p~r~~~l~~~~-------~d 114 (279)
T COG0468 60 GRITEIYGPESSGKTTLALQLVANAQKPGGKAAFIDTE-----------------HAL-DPERAKQLGVDL-------LD 114 (279)
T ss_pred ceEEEEecCCCcchhhHHHHHHHHhhcCCCeEEEEeCC-----------------CCC-CHHHHHHHHHhh-------hc
Confidence 34445899999999999999999999998888777321 112 356777777766 66
Q ss_pred CCCcccccceecCCCCCCCCCCCHHHHHHhhcccccchhHHHHHHHHHHhccccCCCceEEEEEeCccccccCCCcCCCC
Q psy3261 147 DPRLTTSQEYVWSPREKSEANIPLAALIEHGITRVKYASDVVDVLFTEIKKLSTEGVCRTFVCVDGYNSFFAEKTNCKPE 226 (342)
Q Consensus 147 ~~~l~~s~~~~~~~~e~~~~g~tL~dlv~~gi~~~~~a~~~~~~l~~EL~~~~~~~~~pVLvavD~~n~~~~~s~~y~~~ 226 (342)
++.+++.+... .-.++++.- +... .+..=||.||.+.++|... |-+
T Consensus 115 --~l~v~~~~~~e---------~q~~i~~~~-----------------~~~~---~~~i~LvVVDSvaa~~r~~--~~~- 160 (279)
T COG0468 115 --NLLVSQPDTGE---------QQLEIAEKL-----------------ARSG---AEKIDLLVVDSVAALVRAE--EIE- 160 (279)
T ss_pred --ceeEecCCCHH---------HHHHHHHHH-----------------HHhc---cCCCCEEEEecCcccchhh--hcC-
Confidence 67766654321 112222211 1111 1224499999999888863 222
Q ss_pred CCCcccCCccchHHHHHHhhc
Q psy3261 227 DKSKVLPSRVTLTRSVINLVQ 247 (342)
Q Consensus 227 ~~~~I~~~~l~l~~~~~~~~~ 247 (342)
...+....--|-+++..+.+
T Consensus 161 -d~~~~~~~r~ls~~l~~L~~ 180 (279)
T COG0468 161 -DGHLGLRARLLSKALRKLTR 180 (279)
T ss_pred -cchHHHHHHHHHHHHHHHHH
Confidence 13333333445555555554
No 325
>PRK02496 adk adenylate kinase; Provisional
Probab=93.54 E-value=0.068 Score=46.89 Aligned_cols=31 Identities=19% Similarity=0.290 Sum_probs=22.8
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.|++|.|++|||||++...+... .|+.++.+
T Consensus 2 ~~i~i~G~pGsGKst~a~~la~~---~~~~~i~~ 32 (184)
T PRK02496 2 TRLIFLGPPGAGKGTQAVVLAEH---LHIPHIST 32 (184)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH---hCCcEEEh
Confidence 47999999999999988877543 25544443
No 326
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=93.45 E-value=0.12 Score=45.70 Aligned_cols=35 Identities=17% Similarity=0.094 Sum_probs=29.4
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
..-+.+.|+.||||||++..++..-...|+-|-.|
T Consensus 6 ~~ii~ivG~sgsGKTTLi~~li~~l~~~g~~vg~I 40 (173)
T PRK10751 6 IPLLAIAAWSGTGKTTLLKKLIPALCARGIRPGLI 40 (173)
T ss_pred ceEEEEECCCCChHHHHHHHHHHHHhhcCCeEEEE
Confidence 44678999999999999999999988878766544
No 327
>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=93.44 E-value=0.16 Score=42.81 Aligned_cols=39 Identities=21% Similarity=0.095 Sum_probs=29.0
Q ss_pred hHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHH
Q psy3261 49 CMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 49 ~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
.|.++.+.|-+ .-.+...++|.|+-|+|||++...++..
T Consensus 7 ~t~~l~~~l~~---~l~~~~~i~l~G~lGaGKTtl~~~l~~~ 45 (133)
T TIGR00150 7 AMDKFGKAFAK---PLDFGTVVLLKGDLGAGKTTLVQGLLQG 45 (133)
T ss_pred HHHHHHHHHHH---hCCCCCEEEEEcCCCCCHHHHHHHHHHH
Confidence 56667776654 1145678999999999999988776664
No 328
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=93.44 E-value=0.082 Score=46.58 Aligned_cols=24 Identities=25% Similarity=0.364 Sum_probs=21.0
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHH
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
+..++|.|+.||||||++..+...
T Consensus 3 ge~i~l~G~sGsGKSTl~~~la~~ 26 (176)
T PRK09825 3 GESYILMGVSGSGKSLIGSKIAAL 26 (176)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHh
Confidence 457899999999999999988775
No 329
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=93.44 E-value=0.19 Score=50.13 Aligned_cols=38 Identities=24% Similarity=0.224 Sum_probs=32.7
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCe--EEEEeCC
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNY--LLVHIPW 103 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gw--iVl~vP~ 103 (342)
..+.++|+|+.|+|||-+|.-+-+++.+.+- .|+|+..
T Consensus 112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~s 151 (408)
T COG0593 112 AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTS 151 (408)
T ss_pred cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccH
Confidence 6899999999999999999999999988765 6777743
No 330
>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=93.43 E-value=0.082 Score=51.62 Aligned_cols=33 Identities=15% Similarity=0.245 Sum_probs=27.0
Q ss_pred eEEEEccCCCcHHHHHHHHHHHH--HhCCeEEEEe
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYA--HENNYLLVHI 101 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A--~~~gwiVl~v 101 (342)
-++|.|.+|||||+++.+++... ...+.-++++
T Consensus 3 v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l 37 (352)
T PF09848_consen 3 VILITGGAGTGKTVLALNLAKELQNSEEGKKVLYL 37 (352)
T ss_pred EEEEEecCCcCHHHHHHHHHHHhhccccCCceEEE
Confidence 47999999999999999999988 5555555555
No 331
>COG3911 Predicted ATPase [General function prediction only]
Probab=93.41 E-value=0.064 Score=46.26 Aligned_cols=31 Identities=29% Similarity=0.444 Sum_probs=24.4
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.++||+|-+|+|||++|+-+. ..|+.++..+
T Consensus 10 ~~fIltGgpGaGKTtLL~aLa----~~Gfatvee~ 40 (183)
T COG3911 10 KRFILTGGPGAGKTTLLAALA----RAGFATVEEA 40 (183)
T ss_pred eEEEEeCCCCCcHHHHHHHHH----HcCceeeccc
Confidence 589999999999999998653 4477666554
No 332
>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=93.40 E-value=0.066 Score=45.11 Aligned_cols=32 Identities=34% Similarity=0.422 Sum_probs=22.6
Q ss_pred EEEEccCCCcHHHHHHHHHHHHH-hCCeEEEEe
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAH-ENNYLLVHI 101 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl~v 101 (342)
++|.|+.|||||+++..++..-. ..++++-+.
T Consensus 2 i~i~GpsGsGKstl~~~L~~~~~~~~~~~v~~t 34 (137)
T cd00071 2 IVLSGPSGVGKSTLLKRLLEEFDPNFGFSVSHT 34 (137)
T ss_pred EEEECCCCCCHHHHHHHHHhcCCccceeccccc
Confidence 68899999999998888876532 224544443
No 333
>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=93.40 E-value=0.071 Score=49.38 Aligned_cols=28 Identities=29% Similarity=0.349 Sum_probs=23.6
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH 92 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~ 92 (342)
.+..+++|.|+.||||||++.++--...
T Consensus 28 ~~Ge~~~i~G~nGsGKSTL~~~l~GLl~ 55 (235)
T COG1122 28 EKGERVLLIGPNGSGKSTLLKLLNGLLK 55 (235)
T ss_pred CCCCEEEEECCCCCCHHHHHHHHcCcCc
Confidence 4678999999999999999998765443
No 334
>COG4778 PhnL ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=93.36 E-value=0.092 Score=46.47 Aligned_cols=35 Identities=31% Similarity=0.401 Sum_probs=27.5
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHH-HHHhCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQ-YAHENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~-~A~~~gwiVl 99 (342)
+.+-.++|+|+.|+|||++|..+-. |+-..|-|.+
T Consensus 35 ~aGECvvL~G~SG~GKStllr~LYaNY~~d~G~I~v 70 (235)
T COG4778 35 NAGECVVLHGPSGSGKSTLLRSLYANYLPDEGQILV 70 (235)
T ss_pred cCccEEEeeCCCCCcHHHHHHHHHhccCCCCceEEE
Confidence 4578999999999999999998876 4445565543
No 335
>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=93.36 E-value=0.13 Score=44.61 Aligned_cols=35 Identities=14% Similarity=0.014 Sum_probs=29.6
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.-+.|+|-+||||||+-..+....++.|+-|.++-
T Consensus 3 ~vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LD 37 (156)
T PF01583_consen 3 FVIWLTGLSGSGKTTLARALERRLFARGIKVYLLD 37 (156)
T ss_dssp EEEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEec
Confidence 45789999999999988888889999998888873
No 336
>PRK14531 adenylate kinase; Provisional
Probab=93.34 E-value=0.079 Score=46.68 Aligned_cols=22 Identities=23% Similarity=0.389 Sum_probs=18.6
Q ss_pred CeEEEEccCCCcHHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
.|+++.|++||||||+-..+..
T Consensus 3 ~~i~i~G~pGsGKsT~~~~la~ 24 (183)
T PRK14531 3 QRLLFLGPPGAGKGTQAARLCA 24 (183)
T ss_pred cEEEEECCCCCCHHHHHHHHHH
Confidence 5899999999999998666644
No 337
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=93.33 E-value=0.079 Score=47.70 Aligned_cols=30 Identities=23% Similarity=0.292 Sum_probs=23.1
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
|++|.|++|||||++-.++. ...|+.+|..
T Consensus 1 rI~i~G~pGsGKsT~a~~La---~~~g~~~is~ 30 (210)
T TIGR01351 1 RLVLLGPPGSGKGTQAKRIA---EKYGLPHIST 30 (210)
T ss_pred CEEEECCCCCCHHHHHHHHH---HHcCCCeeeh
Confidence 58999999999999876654 4457766664
No 338
>PRK13700 conjugal transfer protein TraD; Provisional
Probab=93.32 E-value=0.14 Score=54.35 Aligned_cols=53 Identities=23% Similarity=0.253 Sum_probs=40.6
Q ss_pred HHHHHHHHhccCC-------------CCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEE-EEeCCc
Q psy3261 51 LELVGYLKSMTNF-------------DRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLL-VHIPWV 104 (342)
Q Consensus 51 ~el~~~l~~~~~~-------------~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiV-l~vP~~ 104 (342)
.+|.+.|++ ... +.....++|+|-.|||||++|.+++.++++.|.-+ ||=|.+
T Consensus 157 ~~l~k~lk~-~~~~s~i~I~gvPip~~~E~~H~li~GttGSGKS~~i~~LL~~ir~RGdrAIIyD~~G 223 (732)
T PRK13700 157 KDVARMLKK-DGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYARQRGDMVVIYDRSG 223 (732)
T ss_pred HHHHHHHHh-cCCCCCeeEccccCCcchhhcceEEeCCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCC
Confidence 467777776 221 13567999999999999999999999999886655 444666
No 339
>PRK03839 putative kinase; Provisional
Probab=93.32 E-value=0.074 Score=46.49 Aligned_cols=30 Identities=23% Similarity=0.351 Sum_probs=21.5
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
+++|.|.+||||||+..++.. .-|+-++.+
T Consensus 2 ~I~l~G~pGsGKsT~~~~La~---~~~~~~id~ 31 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLLAE---KLGYEYVDL 31 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHH---HhCCcEEeh
Confidence 689999999999997666533 335554443
No 340
>PRK05439 pantothenate kinase; Provisional
Probab=93.32 E-value=0.48 Score=45.71 Aligned_cols=88 Identities=15% Similarity=0.115 Sum_probs=48.8
Q ss_pred ccCcceEEEeCHHHHHHhhhcCCCCh--hhHHhhhhcCCceEE--ech---hHHHHHH-----------HHHhccC--CC
Q psy3261 5 KQDLYKFYTLPDEVRSAIFELGGITR--VFNEQTQIFNESSIL--IRN---CMLELVG-----------YLKSMTN--FD 64 (342)
Q Consensus 5 ~~~~g~~~~~~~~~~~~l~~~g~l~~--~~~~~~~~~~~~~~l--vR~---~t~el~~-----------~l~~~~~--~~ 64 (342)
.....-++.|+.+.+.+|....-+|- .-.++.+-++++..| |++ |-..+|+ .++.+.. ..
T Consensus 4 ~~~~~~~~~~~r~~w~~l~~~~~~~l~~~~~~~l~~~~~~~~~~~v~~iy~plarli~~~~~~~~~~~~~~~~fl~~~~~ 83 (311)
T PRK05439 4 SNEFSPYLEFSREQWAALRDSTPLTLTEEELERLRGLNDPISLEEVAEIYLPLSRLLNLYVAANQRLQAALEQFLGKNGQ 83 (311)
T ss_pred CcCCCCceeECHHHHHHHHhcCCCCCCHHHHHHhhcCCCCCCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhcccCC
Confidence 34566789999999999986433332 112233344444322 111 1222222 2222111 22
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH 92 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~ 92 (342)
+...-+-|.|++||||||+...+.....
T Consensus 84 ~~~~iIgIaG~~gsGKSTla~~L~~~l~ 111 (311)
T PRK05439 84 KVPFIIGIAGSVAVGKSTTARLLQALLS 111 (311)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence 3344567899999999999987777554
No 341
>PRK13768 GTPase; Provisional
Probab=93.30 E-value=0.1 Score=48.65 Aligned_cols=33 Identities=21% Similarity=0.383 Sum_probs=27.2
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCe--EEEEe
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNY--LLVHI 101 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gw--iVl~v 101 (342)
-+++.|+.|||||++..+++.++..+|- +|+.+
T Consensus 4 ~i~v~G~~G~GKTt~~~~~~~~l~~~g~~v~~i~~ 38 (253)
T PRK13768 4 IVFFLGTAGSGKTTLTKALSDWLEEQGYDVAIVNL 38 (253)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHhcCCceEEEEC
Confidence 5788999999999999999999887654 44554
No 342
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=93.27 E-value=0.072 Score=52.00 Aligned_cols=119 Identities=16% Similarity=0.213 Sum_probs=68.2
Q ss_pred CCceEEEEEeCccccccCCCcCCCCCCCcccCCccchHHHHHHhhc----CCC-CCeEEEEEeCCCCCCCCCccCcchhH
Q psy3261 202 GVCRTFVCVDGYNSFFAEKTNCKPEDKSKVLPSRVTLTRSVINLVQ----SDW-NNGAIVLALSPRANLPDRRESHLPLY 276 (342)
Q Consensus 202 ~~~pVLvavD~~n~~~~~s~~y~~~~~~~I~~~~l~l~~~~~~~~~----~~~-~~G~vv~AtS~~~~~~~~~~~~~p~~ 276 (342)
.+-|-.|.||++.++-+. ++.+... .+=.+=|.++.++. -|. .|-=||+||.+-.. |-..
T Consensus 242 ekaPsIIFiDEIDAIg~k--R~d~~t~-----gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATNR~D~--------LDPA 306 (406)
T COG1222 242 EKAPSIIFIDEIDAIGAK--RFDSGTS-----GDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDI--------LDPA 306 (406)
T ss_pred hcCCeEEEEechhhhhcc--cccCCCC-----chHHHHHHHHHHHHhccCCCCCCCeEEEEecCCccc--------cChh
Confidence 378999999999887554 2333222 22345556666654 244 34456777765432 2235
Q ss_pred HhhhcCCCCCCCcceeecCCCCHHHHHHHHHHHHhCCCccCcchHHHHHH-hhCCCHHHHhhhcc
Q psy3261 277 MLKKAGFESIDPFVPIHVPELNDEEFHNLLNLYESKKWLQTSEGREEIAF-LTKRVPQKMYEFCS 340 (342)
Q Consensus 277 llg~~g~~~~dP~~~i~v~~~s~~E~~~ll~yy~~~~~l~~e~~~~el~~-lSgGNP~~l~~lc~ 340 (342)
|++.-.|+. .|++|.=+.+.=+.++.-+..+--+..+-...+|-. ..|-|+.++.-+|+
T Consensus 307 LLRPGR~DR-----kIEfplPd~~gR~~Il~IHtrkM~l~~dvd~e~la~~~~g~sGAdlkaict 366 (406)
T COG1222 307 LLRPGRFDR-----KIEFPLPDEEGRAEILKIHTRKMNLADDVDLELLARLTEGFSGADLKAICT 366 (406)
T ss_pred hcCCCcccc-----eeecCCCCHHHHHHHHHHHhhhccCccCcCHHHHHHhcCCCchHHHHHHHH
Confidence 554433442 378885555555566676666555531223334443 66778999988885
No 343
>PHA03136 thymidine kinase; Provisional
Probab=93.27 E-value=0.081 Score=52.09 Aligned_cols=38 Identities=16% Similarity=0.170 Sum_probs=30.2
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeE--EEEeCCccc
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYL--LVHIPWVLR 106 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwi--Vl~vP~~~~ 106 (342)
+..|+.|+|+-|+||||++..+... .+|. |++||++-.
T Consensus 35 ~~~rvyieG~~gvGKTT~~~~l~~~---~~~~~~vl~v~EPm~ 74 (378)
T PHA03136 35 RLVLLYLDGPFGTGKTTTAKLLMEM---PDTLAARLYLAEPMA 74 (378)
T ss_pred eeEEEEEECCCcCCHHHHHHHHHhc---cccCCCeeeecCchH
Confidence 4569999999999999999887762 4565 788887654
No 344
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.27 E-value=0.13 Score=51.65 Aligned_cols=35 Identities=11% Similarity=0.060 Sum_probs=28.2
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHH-HhCCeEEEEe
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYA-HENNYLLVHI 101 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A-~~~gwiVl~v 101 (342)
...+++.|+.||||||++.++.+.+ ...|.-|..+
T Consensus 223 ~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Li 258 (432)
T PRK12724 223 RKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLY 258 (432)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEe
Confidence 3458899999999999999999754 6778766555
No 345
>cd00154 Rab Rab family. Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di
Probab=93.27 E-value=0.075 Score=43.90 Aligned_cols=21 Identities=38% Similarity=0.602 Sum_probs=18.9
Q ss_pred CeEEEEccCCCcHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYAL 88 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~ 88 (342)
.|+++.|++|+|||+++.++.
T Consensus 1 ~~i~~~G~~~~GKStl~~~l~ 21 (159)
T cd00154 1 FKIVLIGDSGVGKTSLLLRFV 21 (159)
T ss_pred CeEEEECCCCCCHHHHHHHHH
Confidence 378999999999999999875
No 346
>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a
Probab=93.27 E-value=0.066 Score=47.88 Aligned_cols=22 Identities=23% Similarity=0.223 Sum_probs=19.8
Q ss_pred CeEEEEccCCCcHHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
.+++|+|+.|+|||++|..+..
T Consensus 29 ~~~~ltG~Ng~GKStll~~i~~ 50 (200)
T cd03280 29 RVLVITGPNAGGKTVTLKTLGL 50 (200)
T ss_pred eEEEEECCCCCChHHHHHHHHH
Confidence 4699999999999999999773
No 347
>PTZ00088 adenylate kinase 1; Provisional
Probab=93.25 E-value=0.093 Score=48.36 Aligned_cols=35 Identities=23% Similarity=0.386 Sum_probs=27.0
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCc
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWV 104 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~ 104 (342)
..|++|.|++||||||.-..+ |...|+.++.+-+.
T Consensus 6 ~mrIvl~G~PGsGK~T~a~~L---a~~~g~~~is~gdl 40 (229)
T PTZ00088 6 PLKIVLFGAPGVGKGTFAEIL---SKKENLKHINMGNI 40 (229)
T ss_pred CceEEEECCCCCCHHHHHHHH---HHHhCCcEEECChH
Confidence 467999999999999887766 44558877777544
No 348
>PRK04301 radA DNA repair and recombination protein RadA; Validated
Probab=93.24 E-value=0.12 Score=49.86 Aligned_cols=38 Identities=21% Similarity=0.132 Sum_probs=29.5
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCC------eEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENN------YLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~g------wiVl~vP 102 (342)
.+..-+.|+|++|||||++..|+...+...+ --|+||.
T Consensus 100 ~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~ 143 (317)
T PRK04301 100 ETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYID 143 (317)
T ss_pred cCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEe
Confidence 4567788999999999999999998775432 2566663
No 349
>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=93.24 E-value=0.079 Score=45.67 Aligned_cols=25 Identities=24% Similarity=0.324 Sum_probs=21.5
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
....++++.|+.|||||+++.+++.
T Consensus 12 ~~~~kv~ivG~~~~GKTsL~~~l~~ 36 (173)
T cd04154 12 EREMRILILGLDNAGKTTILKKLLG 36 (173)
T ss_pred CCccEEEEECCCCCCHHHHHHHHcc
Confidence 3568999999999999999988764
No 350
>PRK10867 signal recognition particle protein; Provisional
Probab=93.23 E-value=0.12 Score=52.14 Aligned_cols=36 Identities=17% Similarity=0.339 Sum_probs=30.2
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhC-CeEEEEe
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHEN-NYLLVHI 101 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~-gwiVl~v 101 (342)
+...+++.|+.||||||+.+.+..++.++ |.=|+-|
T Consensus 99 ~p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV 135 (433)
T PRK10867 99 PPTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLV 135 (433)
T ss_pred CCEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEE
Confidence 35678899999999999999999988877 8755555
No 351
>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=93.23 E-value=0.14 Score=42.02 Aligned_cols=33 Identities=24% Similarity=0.425 Sum_probs=26.3
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
++++.|+.|+|||++...+..+..+.|.=|+-|
T Consensus 1 ~i~~~GkgG~GKTt~a~~la~~l~~~g~~V~~i 33 (116)
T cd02034 1 KIAITGKGGVGKTTIAALLARYLAEKGKPVLAI 33 (116)
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence 478999999999999999988777676544433
No 352
>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot). Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.
Probab=93.22 E-value=0.11 Score=46.41 Aligned_cols=31 Identities=23% Similarity=0.268 Sum_probs=20.6
Q ss_pred EEEEccCCCcHHHHHHHH-HHHHHhCCeEEEE
Q psy3261 70 FVLYGEHGVGKSMALVYA-LQYAHENNYLLVH 100 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~-~~~A~~~gwiVl~ 100 (342)
++++|.+|+|||....+. +..|.+.|..|+.
T Consensus 3 ~~~~G~pGsGKS~~av~~~i~~~l~~gr~V~t 34 (193)
T PF05707_consen 3 YLITGKPGSGKSYYAVSYVIIPALKKGRPVYT 34 (193)
T ss_dssp EEEE--TTSSHHHHHHHHHHH-GGGS---EEE
T ss_pred EEEEcCCCCcHhHHHHHHHHHHHHhCCCEEEE
Confidence 689999999999988777 7777788887654
No 353
>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily. Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le
Probab=93.19 E-value=0.077 Score=45.83 Aligned_cols=22 Identities=27% Similarity=0.409 Sum_probs=19.9
Q ss_pred CeEEEEccCCCcHHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
.+++|.|.+|+|||+++.++..
T Consensus 2 ~kv~l~G~~g~GKTtl~~~~~~ 23 (180)
T cd04137 2 RKIAVLGSRSVGKSSLTVQFVE 23 (180)
T ss_pred eEEEEECCCCCCHHHHHHHHHh
Confidence 6899999999999999998873
No 354
>PRK08233 hypothetical protein; Provisional
Probab=93.19 E-value=0.087 Score=45.65 Aligned_cols=24 Identities=13% Similarity=0.043 Sum_probs=20.5
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHH
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
..-+.|.|.+||||||+..++...
T Consensus 3 ~~iI~I~G~~GsGKtTla~~L~~~ 26 (182)
T PRK08233 3 TKIITIAAVSGGGKTTLTERLTHK 26 (182)
T ss_pred ceEEEEECCCCCCHHHHHHHHHhh
Confidence 356788999999999999888875
No 355
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=93.14 E-value=0.12 Score=54.43 Aligned_cols=39 Identities=26% Similarity=0.258 Sum_probs=30.5
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHHhCC-eEEEEeCCccc
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAHENN-YLLVHIPWVLR 106 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~~~g-wiVl~vP~~~~ 106 (342)
..++|+|++|||||+++..+....-... ..++|+|++..
T Consensus 38 ~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~~~ 77 (608)
T TIGR00764 38 RNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNPED 77 (608)
T ss_pred CCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCCCC
Confidence 4889999999999999888776655544 55678888744
No 356
>KOG0989|consensus
Probab=93.13 E-value=0.085 Score=50.49 Aligned_cols=32 Identities=31% Similarity=0.606 Sum_probs=22.9
Q ss_pred HHHHHHhccCCCCCCCeEEEEccCCCcHHHHHH
Q psy3261 53 LVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALV 85 (342)
Q Consensus 53 l~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~ 85 (342)
+++.|.+ +-...-.+.|++|||+|+|||.+..
T Consensus 44 vV~~L~~-a~~~~~lp~~LFyGPpGTGKTStal 75 (346)
T KOG0989|consen 44 VVQVLKN-ALLRRILPHYLFYGPPGTGKTSTAL 75 (346)
T ss_pred HHHHHHH-HHhhcCCceEEeeCCCCCcHhHHHH
Confidence 4555655 3222457899999999999998743
No 357
>cd00879 Sar1 Sar1 subfamily. Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.
Probab=93.13 E-value=0.16 Score=44.36 Aligned_cols=26 Identities=15% Similarity=0.239 Sum_probs=22.4
Q ss_pred CCCCCeEEEEccCCCcHHHHHHHHHH
Q psy3261 64 DRPSPRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 64 ~~~~~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
..+..+++|.|+.|||||+++.++..
T Consensus 16 ~~~~~ki~ilG~~~~GKStLi~~l~~ 41 (190)
T cd00879 16 YNKEAKILFLGLDNAGKTTLLHMLKD 41 (190)
T ss_pred ccCCCEEEEECCCCCCHHHHHHHHhc
Confidence 35678999999999999999998754
No 358
>cd01861 Rab6 Rab6 subfamily. Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate
Probab=93.13 E-value=0.08 Score=44.56 Aligned_cols=21 Identities=24% Similarity=0.529 Sum_probs=19.1
Q ss_pred eEEEEccCCCcHHHHHHHHHH
Q psy3261 69 RFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~ 89 (342)
+++|.|++|||||+++.+++.
T Consensus 2 ki~liG~~~~GKSsli~~l~~ 22 (161)
T cd01861 2 KLVFLGDQSVGKTSIITRFMY 22 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHc
Confidence 789999999999999998863
No 359
>cd04160 Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.
Probab=93.12 E-value=0.072 Score=45.21 Aligned_cols=21 Identities=19% Similarity=0.235 Sum_probs=18.9
Q ss_pred eEEEEccCCCcHHHHHHHHHH
Q psy3261 69 RFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~ 89 (342)
+++|.|++|||||+++.++..
T Consensus 1 ~i~~vG~~~~GKstLi~~l~~ 21 (167)
T cd04160 1 SVLILGLDNAGKTTFLEQLKT 21 (167)
T ss_pred CEEEEecCCCCHHHHHHHHhh
Confidence 478999999999999999875
No 360
>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases. This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....
Probab=93.09 E-value=0.11 Score=45.33 Aligned_cols=24 Identities=21% Similarity=0.335 Sum_probs=22.0
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYAL 88 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~ 88 (342)
.+..++++.|..|||||++|.++.
T Consensus 12 ~~~~~ililGl~~sGKTtll~~l~ 35 (175)
T PF00025_consen 12 KKEIKILILGLDGSGKTTLLNRLK 35 (175)
T ss_dssp TSEEEEEEEESTTSSHHHHHHHHH
T ss_pred CcEEEEEEECCCccchHHHHHHhh
Confidence 678899999999999999999875
No 361
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=93.06 E-value=0.12 Score=52.85 Aligned_cols=37 Identities=16% Similarity=0.127 Sum_probs=29.6
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhC-CeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHEN-NYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~-gwiVl~v 101 (342)
.++.-++|.|++|||||++..|.+..+..+ |==++||
T Consensus 19 p~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyv 56 (484)
T TIGR02655 19 PIGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFV 56 (484)
T ss_pred CCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEE
Confidence 568899999999999999999998765443 5555555
No 362
>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional
Probab=93.05 E-value=0.06 Score=53.71 Aligned_cols=48 Identities=17% Similarity=0.106 Sum_probs=35.9
Q ss_pred ceEEechhHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHH
Q psy3261 42 SSILIRNCMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 42 ~~~lvR~~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
-++.||+.-..-.++|-. .-..--..+++|.|..||||||+...+..+
T Consensus 195 SaT~IR~~p~~~w~~i~~-~vr~~~~~~IvI~G~~gsGKTTL~~~La~~ 242 (399)
T PRK08099 195 SGTQIRENPFRYWEYIPT-EVRPFFVRTVAILGGESSGKSTLVNKLANI 242 (399)
T ss_pred CHHHHhhCHHHHHHhcCH-HHhhCCCcEEEEEcCCCCCHHHHHHHHHHH
Confidence 477888876666666654 222245789999999999999999777754
No 363
>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=92.99 E-value=0.18 Score=46.86 Aligned_cols=38 Identities=26% Similarity=0.309 Sum_probs=31.9
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhC-CeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHEN-NYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~-gwiVl~vP 102 (342)
.++.=++|-|.+|+|||+++.|++..+..+ |.=|+|+.
T Consensus 17 ~~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~S 55 (259)
T PF03796_consen 17 RPGELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFS 55 (259)
T ss_dssp -TT-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEE
T ss_pred CcCcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEc
Confidence 567789999999999999999999988776 68888884
No 364
>PRK04040 adenylate kinase; Provisional
Probab=92.97 E-value=0.094 Score=46.74 Aligned_cols=24 Identities=38% Similarity=0.414 Sum_probs=20.8
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYA 91 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A 91 (342)
..++|+|.+|||||+++..+....
T Consensus 3 ~~i~v~G~pG~GKtt~~~~l~~~l 26 (188)
T PRK04040 3 KVVVVTGVPGVGKTTVLNKALEKL 26 (188)
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHh
Confidence 578999999999999998887653
No 365
>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=92.94 E-value=0.16 Score=50.75 Aligned_cols=38 Identities=11% Similarity=0.086 Sum_probs=32.1
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHH-HHhCCeEEEEeC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQY-AHENNYLLVHIP 102 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~-A~~~gwiVl~vP 102 (342)
.++.-++|.|.+|+|||+++.+++.. |..+|+=|+++.
T Consensus 192 ~~g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fS 230 (421)
T TIGR03600 192 VKGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFS 230 (421)
T ss_pred CCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEE
Confidence 35678899999999999999999954 558899888884
No 366
>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=92.90 E-value=0.12 Score=48.37 Aligned_cols=30 Identities=17% Similarity=0.293 Sum_probs=24.2
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCC
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENN 95 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~g 95 (342)
....++|.|.+|||||++|.+-+.|....+
T Consensus 12 ~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~ 41 (315)
T PF00580_consen 12 TEGPLLVNAGAGSGKTTTLLERIAYLLYEG 41 (315)
T ss_dssp -SSEEEEEE-TTSSHHHHHHHHHHHHHHTS
T ss_pred CCCCEEEEeCCCCCchHHHHHHHHHhhccc
Confidence 456788889999999999999999887654
No 367
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=92.89 E-value=0.16 Score=51.14 Aligned_cols=35 Identities=23% Similarity=0.191 Sum_probs=27.9
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHH--hCCeEEEEe
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAH--ENNYLLVHI 101 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~--~~gwiVl~v 101 (342)
...++|.|+.|+||||+++.+.+++. ..|.=|..|
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li 257 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALI 257 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEE
Confidence 45789999999999999999988775 455555555
No 368
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=92.88 E-value=0.088 Score=44.11 Aligned_cols=40 Identities=30% Similarity=0.401 Sum_probs=26.8
Q ss_pred hHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHH
Q psy3261 49 CMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAH 92 (342)
Q Consensus 49 ~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~ 92 (342)
...++.+.++..+ .....++|+|++||||+.+. +++|...
T Consensus 6 ~~~~l~~~l~~~a---~~~~pvli~GE~GtGK~~~A-~~lh~~~ 45 (138)
T PF14532_consen 6 AMRRLRRQLERLA---KSSSPVLITGEPGTGKSLLA-RALHRYS 45 (138)
T ss_dssp HHHHHHHHHHHHH---CSSS-EEEECCTTSSHHHHH-HCCHHTT
T ss_pred HHHHHHHHHHHHh---CCCCcEEEEcCCCCCHHHHH-HHHHhhc
Confidence 3456667776622 45678999999999999964 4554433
No 369
>cd00157 Rho Rho (Ras homology) family. Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho protein
Probab=92.88 E-value=0.093 Score=44.56 Aligned_cols=22 Identities=27% Similarity=0.403 Sum_probs=19.8
Q ss_pred eEEEEccCCCcHHHHHHHHHHH
Q psy3261 69 RFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
++++.|++|||||+++.++...
T Consensus 2 ki~i~G~~~~GKSsli~~l~~~ 23 (171)
T cd00157 2 KIVVVGDGAVGKTCLLISYTTG 23 (171)
T ss_pred EEEEECCCCCCHHHHHHHHHhC
Confidence 7899999999999999988764
No 370
>PHA02774 E1; Provisional
Probab=92.87 E-value=0.23 Score=51.62 Aligned_cols=49 Identities=18% Similarity=0.281 Sum_probs=36.1
Q ss_pred HHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 52 ELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 52 el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
.++..|+.+....++.+.++|+||+|+|||.+...++.+. +|-++.+|.
T Consensus 419 ~fl~~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L--~G~vi~fvN 467 (613)
T PHA02774 419 SFLTALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFL--KGKVISFVN 467 (613)
T ss_pred HHHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHh--CCCEEEEEE
Confidence 4555566644444556899999999999999988888875 466666664
No 371
>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.
Probab=92.84 E-value=0.097 Score=43.77 Aligned_cols=22 Identities=36% Similarity=0.537 Sum_probs=19.5
Q ss_pred CeEEEEccCCCcHHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
.|+++.|.+|||||+++.+.+.
T Consensus 2 ~ki~iiG~~~vGKTsl~~~~~~ 23 (162)
T cd04138 2 YKLVVVGAGGVGKSALTIQLIQ 23 (162)
T ss_pred eEEEEECCCCCCHHHHHHHHHh
Confidence 4789999999999999988874
No 372
>KOG0781|consensus
Probab=92.73 E-value=0.16 Score=51.28 Aligned_cols=51 Identities=20% Similarity=0.264 Sum_probs=41.5
Q ss_pred HHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 50 MLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 50 t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.++|..-+.. +.......-+++.|-.|+||||-|+-+..|-.+|++=|+-.
T Consensus 362 sVDlLRdI~s-ar~~krPYVi~fvGVNGVGKSTNLAKIayWLlqNkfrVLIA 412 (587)
T KOG0781|consen 362 SVDLLRDIMS-ARRRKRPYVISFVGVNGVGKSTNLAKIAYWLLQNKFRVLIA 412 (587)
T ss_pred hhhHHHHHHH-HHhcCCCeEEEEEeecCccccchHHHHHHHHHhCCceEEEE
Confidence 5566666666 44445677888999999999999999999999999987654
No 373
>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB. Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.
Probab=92.72 E-value=0.17 Score=49.73 Aligned_cols=42 Identities=17% Similarity=0.210 Sum_probs=29.5
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHh---CCeEEEEeCCcccc
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHE---NNYLLVHIPWVLRW 107 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~---~gwiVl~vP~~~~~ 107 (342)
+.--+++.|+.||||||+|.-++.+-.. .+=.|+.+=++.++
T Consensus 133 ~~glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt~EdpiE~ 177 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILTYEAPIEF 177 (358)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEEeCCCceE
Confidence 5678999999999999999887776532 23345555444444
No 374
>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=92.68 E-value=0.1 Score=44.05 Aligned_cols=21 Identities=38% Similarity=0.599 Sum_probs=19.2
Q ss_pred eEEEEccCCCcHHHHHHHHHH
Q psy3261 69 RFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~ 89 (342)
++++.|++|+|||+++.+++.
T Consensus 2 ki~v~G~~~~GKTsli~~~~~ 22 (164)
T smart00173 2 KLVVLGSGGVGKSALTIQFVQ 22 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 789999999999999999874
No 375
>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=92.67 E-value=0.15 Score=49.84 Aligned_cols=38 Identities=21% Similarity=0.114 Sum_probs=30.8
Q ss_pred EEEEccCCCcHHHHHHHHHHHHH-hCCeEEEEeCCcccc
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAH-ENNYLLVHIPWVLRW 107 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl~vP~~~~~ 107 (342)
.+|.|..||||||+...+..+.. ..||-|..+.--..+
T Consensus 2 ~~l~Gl~GaGKST~~~~l~~~l~~~~g~~v~~~~~Dd~i 40 (340)
T TIGR03575 2 CVLCGLPAAGKSTLARSLSATLRRERGWAVAVITYDDII 40 (340)
T ss_pred eEEECCCCCCHHHHHHHHHHHHHhccCCeEEEEcccccc
Confidence 47999999999999999998876 689988777544333
No 376
>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=92.66 E-value=0.11 Score=43.70 Aligned_cols=24 Identities=33% Similarity=0.461 Sum_probs=20.9
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHH
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
..++++.|++|+|||+++...+..
T Consensus 2 ~~ki~i~G~~~~GKtsl~~~~~~~ 25 (164)
T cd04145 2 TYKLVVVGGGGVGKSALTIQFIQS 25 (164)
T ss_pred ceEEEEECCCCCcHHHHHHHHHhC
Confidence 468999999999999999987653
No 377
>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts). This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.
Probab=92.66 E-value=0.16 Score=47.31 Aligned_cols=37 Identities=30% Similarity=0.239 Sum_probs=27.2
Q ss_pred HHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHH
Q psy3261 50 MLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 50 t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
..|+...++. ......+++|.|+.|+|||++...+..
T Consensus 17 ~~~~~~~~~~---~~~~~~~IllvG~tGvGKSSliNaLlg 53 (249)
T cd01853 17 ALELEAKGKE---ELDFSLTILVLGKTGVGKSSTINSIFG 53 (249)
T ss_pred HHHHHHHhhh---hccCCeEEEEECCCCCcHHHHHHHHhC
Confidence 3444444433 345688999999999999999888764
No 378
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.
Probab=92.64 E-value=0.23 Score=52.28 Aligned_cols=36 Identities=33% Similarity=0.474 Sum_probs=26.7
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHH---------hCCeEEEEe
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAH---------ENNYLLVHI 101 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~---------~~gwiVl~v 101 (342)
....++|+|++|||||+++.-+...+. ...|+.+.-
T Consensus 174 ~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~ 218 (615)
T TIGR02903 174 FPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDG 218 (615)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEec
Confidence 345799999999999998877766553 245777653
No 379
>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors. The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in
Probab=92.62 E-value=0.11 Score=47.23 Aligned_cols=35 Identities=17% Similarity=0.243 Sum_probs=28.0
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH----hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH----ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~----~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-... ..|-|.+
T Consensus 31 ~~Ge~~~l~G~nGsGKSTLlk~l~G~~~~~~~~~G~i~~ 69 (226)
T cd03234 31 ESGQVMAILGSSGSGKTTLLDAISGRVEGGGTTSGQILF 69 (226)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHhCccCCCCCCceEEEE
Confidence 5678999999999999999988776644 4676654
No 380
>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=92.62 E-value=0.13 Score=45.16 Aligned_cols=28 Identities=21% Similarity=0.179 Sum_probs=23.4
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
+.|+|..|||||++...+.. .|..|+..
T Consensus 2 i~itG~~gsGKst~~~~l~~----~g~~~i~~ 29 (179)
T cd02022 2 IGLTGGIGSGKSTVAKLLKE----LGIPVIDA 29 (179)
T ss_pred EEEECCCCCCHHHHHHHHHH----CCCCEEec
Confidence 68999999999999988776 47777665
No 381
>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=92.59 E-value=0.16 Score=47.12 Aligned_cols=39 Identities=18% Similarity=0.286 Sum_probs=26.6
Q ss_pred EEccCCCcHHHHHHHHHHHHHhC--CeEEEEeCCccccccC
Q psy3261 72 LYGEHGVGKSMALVYALQYAHEN--NYLLVHIPWVLRWFAY 110 (342)
Q Consensus 72 L~G~~GsGKS~~L~q~~~~A~~~--gwiVl~vP~~~~~~~~ 110 (342)
+.|+.||||||...-...|...+ .-.+|+..-|.+.+.+
T Consensus 1 ViGpaGSGKTT~~~~~~~~~~~~~~~~~~vNLDPa~~~~~y 41 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSEWLESNGRDVYIVNLDPAVENLPY 41 (238)
T ss_dssp -EESTTSSHHHHHHHHHHHHTTT-S-EEEEE--TT-S--SS
T ss_pred CCCCCCCCHHHHHHHHHHHHHhccCCceEEEcchHhccccc
Confidence 46999999999999999999877 6777888444444443
No 382
>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=92.57 E-value=0.15 Score=54.99 Aligned_cols=38 Identities=24% Similarity=0.166 Sum_probs=32.8
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe-CCc
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI-PWV 104 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v-P~~ 104 (342)
..-++|+|..|||||++|..++..+...|+-|+.+ |.+
T Consensus 368 ~~~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ApTg 406 (744)
T TIGR02768 368 GDIAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAALSG 406 (744)
T ss_pred CCEEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEeCcH
Confidence 35789999999999999999999888889888777 654
No 383
>PRK06217 hypothetical protein; Validated
Probab=92.56 E-value=0.12 Score=45.58 Aligned_cols=33 Identities=12% Similarity=0.037 Sum_probs=24.9
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCC
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPW 103 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~ 103 (342)
.+++|.|..||||||+-.++.... |+-+++...
T Consensus 2 ~~I~i~G~~GsGKSTla~~L~~~l---~~~~~~~D~ 34 (183)
T PRK06217 2 MRIHITGASGSGTTTLGAALAERL---DIPHLDTDD 34 (183)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHc---CCcEEEcCc
Confidence 379999999999999988877543 655555443
No 384
>cd04156 ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h
Probab=92.54 E-value=0.097 Score=44.06 Aligned_cols=21 Identities=29% Similarity=0.335 Sum_probs=18.8
Q ss_pred eEEEEccCCCcHHHHHHHHHH
Q psy3261 69 RFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~ 89 (342)
|++|.|++|||||+++..+..
T Consensus 1 ~i~i~G~~~~GKTsl~~~~~~ 21 (160)
T cd04156 1 QVLLLGLDSAGKSTLLYKLKH 21 (160)
T ss_pred CEEEEcCCCCCHHHHHHHHhc
Confidence 588999999999999998864
No 385
>PLN02200 adenylate kinase family protein
Probab=92.52 E-value=0.16 Score=46.87 Aligned_cols=31 Identities=13% Similarity=0.106 Sum_probs=23.0
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEE
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLV 99 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl 99 (342)
....++|.|++||||||....+. ...|+..|
T Consensus 42 ~~~ii~I~G~PGSGKsT~a~~La---~~~g~~hi 72 (234)
T PLN02200 42 TPFITFVLGGPGSGKGTQCEKIV---ETFGFKHL 72 (234)
T ss_pred CCEEEEEECCCCCCHHHHHHHHH---HHhCCeEE
Confidence 34578999999999999877764 34466533
No 386
>PRK14528 adenylate kinase; Provisional
Probab=92.52 E-value=0.13 Score=45.59 Aligned_cols=31 Identities=13% Similarity=0.196 Sum_probs=22.0
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.+++|.|++|||||++...+.. ..|+.++.+
T Consensus 2 ~~i~i~G~pGsGKtt~a~~la~---~~~~~~is~ 32 (186)
T PRK14528 2 KNIIFMGPPGAGKGTQAKILCE---RLSIPQIST 32 (186)
T ss_pred cEEEEECCCCCCHHHHHHHHHH---HhCCCeeeC
Confidence 4789999999999998766633 335544443
No 387
>TIGR01166 cbiO cobalt transport protein ATP-binding subunit. This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.
Probab=92.52 E-value=0.12 Score=45.56 Aligned_cols=35 Identities=23% Similarity=0.341 Sum_probs=26.4
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-.-. ..|-|.+
T Consensus 16 ~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G~i~~ 51 (190)
T TIGR01166 16 ERGEVLALLGANGAGKSTLLLHLNGLLRPQSGAVLI 51 (190)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHhCCCCCCceeEEE
Confidence 4678999999999999999987665432 4566544
No 388
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=92.49 E-value=0.085 Score=47.69 Aligned_cols=22 Identities=32% Similarity=0.354 Sum_probs=19.8
Q ss_pred EEEEccCCCcHHHHHHHHHHHH
Q psy3261 70 FVLYGEHGVGKSMALVYALQYA 91 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A 91 (342)
++++|.+|||||+.+..++...
T Consensus 1 ~vv~G~pGsGKSt~i~~~~~~~ 22 (234)
T PF01443_consen 1 IVVHGVPGSGKSTLIKKLLKDR 22 (234)
T ss_pred CEEEcCCCCCHHHHHHHHHHhc
Confidence 4799999999999999998875
No 389
>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=92.47 E-value=0.12 Score=46.17 Aligned_cols=35 Identities=17% Similarity=0.244 Sum_probs=26.8
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-... ..|-|.+
T Consensus 24 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~ 59 (205)
T cd03226 24 YAGEIIALTGKNGAGKTTLAKILAGLIKESSGSILL 59 (205)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEEE
Confidence 4678999999999999999987765433 4566543
No 390
>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t
Probab=92.46 E-value=0.11 Score=44.14 Aligned_cols=22 Identities=36% Similarity=0.552 Sum_probs=19.5
Q ss_pred CeEEEEccCCCcHHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
.++++.|++|||||+++.+++.
T Consensus 3 ~ki~i~G~~~vGKSsli~~~~~ 24 (166)
T cd01869 3 FKLLLIGDSGVGKSCLLLRFAD 24 (166)
T ss_pred EEEEEECCCCCCHHHHHHHHhc
Confidence 5789999999999999988863
No 391
>cd00876 Ras Ras family. The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m
Probab=92.44 E-value=0.11 Score=43.45 Aligned_cols=20 Identities=35% Similarity=0.556 Sum_probs=18.2
Q ss_pred eEEEEccCCCcHHHHHHHHH
Q psy3261 69 RFVLYGEHGVGKSMALVYAL 88 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~ 88 (342)
++++.|++|||||+++..+.
T Consensus 1 ki~i~G~~~~GKTsli~~l~ 20 (160)
T cd00876 1 KVVVLGAGGVGKSAITIQFV 20 (160)
T ss_pred CEEEECCCCCCHHHHHHHHH
Confidence 57899999999999998886
No 392
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=92.44 E-value=0.23 Score=48.75 Aligned_cols=31 Identities=19% Similarity=0.285 Sum_probs=26.6
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENN 95 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~g 95 (342)
..-..++|.|++|||||++...+..++-..+
T Consensus 36 p~~~~vli~G~~GtGKs~~ar~~~~~l~~~~ 66 (350)
T CHL00081 36 PKIGGVMIMGDRGTGKSTTIRALVDLLPEIE 66 (350)
T ss_pred CCCCeEEEEcCCCCCHHHHHHHHHHHHhhcC
Confidence 4456899999999999999999999887655
No 393
>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=92.41 E-value=0.12 Score=43.44 Aligned_cols=21 Identities=29% Similarity=0.469 Sum_probs=19.3
Q ss_pred eEEEEccCCCcHHHHHHHHHH
Q psy3261 69 RFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~ 89 (342)
++++.|++|+|||+++.++++
T Consensus 2 ki~~~G~~~~GKTsl~~~l~~ 22 (164)
T cd04139 2 KVIVVGAGGVGKSALTLQFMY 22 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 789999999999999998884
No 394
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=92.40 E-value=0.11 Score=43.58 Aligned_cols=21 Identities=38% Similarity=0.515 Sum_probs=19.0
Q ss_pred CeEEEEccCCCcHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYAL 88 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~ 88 (342)
.|+++.|++|||||+++..+.
T Consensus 1 ~kv~v~G~~~~GKTtli~~l~ 21 (164)
T smart00175 1 FKIILIGDSGVGKSSLLSRFT 21 (164)
T ss_pred CEEEEECCCCCCHHHHHHHHh
Confidence 378999999999999999876
No 395
>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.
Probab=92.39 E-value=0.12 Score=45.85 Aligned_cols=25 Identities=24% Similarity=0.386 Sum_probs=19.6
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHH
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
+.+.++|.|+.|||||.++.++++-
T Consensus 2 k~~~vlL~Gps~SGKTaLf~~L~~~ 26 (181)
T PF09439_consen 2 KRPTVLLVGPSGSGKTALFSQLVNG 26 (181)
T ss_dssp ---EEEEE-STTSSHHHHHHHHHHS
T ss_pred CCceEEEEcCCCCCHHHHHHHHhcC
Confidence 4678999999999999999999875
No 396
>COG4136 ABC-type uncharacterized transport system, ATPase component [General function prediction only]
Probab=92.39 E-value=0.13 Score=44.72 Aligned_cols=25 Identities=28% Similarity=0.416 Sum_probs=20.1
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
.+.--+-|.||.||||||+|.-+.-
T Consensus 26 a~GeivtlMGPSGcGKSTLls~~~G 50 (213)
T COG4136 26 AKGEIVTLMGPSGCGKSTLLSWMIG 50 (213)
T ss_pred cCCcEEEEECCCCccHHHHHHHHHh
Confidence 3566788999999999999976553
No 397
>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=92.39 E-value=0.2 Score=45.47 Aligned_cols=38 Identities=18% Similarity=0.307 Sum_probs=30.5
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEEEe-CCc
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLVHI-PWV 104 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl~v-P~~ 104 (342)
..++.+.|.+|||||.++..++.... ..|--|+=+ |.+
T Consensus 23 ~~H~~I~G~TGsGKS~~~~~ll~~l~~~~~~~~ii~D~~G 62 (229)
T PF01935_consen 23 NRHIAIFGTTGSGKSNTVKVLLEELLKKKGAKVIIFDPHG 62 (229)
T ss_pred cceEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEcCCC
Confidence 56889999999999999999999888 555544444 555
No 398
>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=92.36 E-value=0.14 Score=44.68 Aligned_cols=30 Identities=20% Similarity=0.196 Sum_probs=23.0
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCeE
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNYL 97 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwi 97 (342)
+.-++|.|.+||||||+...+.... ...|+
T Consensus 2 ~~~i~l~G~~gsGKst~a~~l~~~~-~~~~~ 31 (175)
T cd00227 2 GRIIILNGGSSAGKSSIARALQSVL-AEPWL 31 (175)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHhh-CCCcc
Confidence 4568999999999999998886653 23354
No 399
>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=92.36 E-value=0.12 Score=43.06 Aligned_cols=22 Identities=32% Similarity=0.295 Sum_probs=19.8
Q ss_pred CCeEEEEccCCCcHHHHHHHHH
Q psy3261 67 SPRFVLYGEHGVGKSMALVYAL 88 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~ 88 (342)
..++++.|+.|+|||+++.++.
T Consensus 3 ~~~i~~~G~~g~GKttl~~~l~ 24 (168)
T cd04163 3 SGFVAIVGRPNVGKSTLLNALV 24 (168)
T ss_pred eeEEEEECCCCCCHHHHHHHHh
Confidence 4679999999999999999975
No 400
>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]
Probab=92.34 E-value=0.11 Score=48.28 Aligned_cols=29 Identities=21% Similarity=0.366 Sum_probs=25.7
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHh
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHE 93 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~ 93 (342)
.+.-+++|+|+.|+|||++|.-+..+-..
T Consensus 55 ~~ge~W~I~G~NGsGKTTLL~ll~~~~~p 83 (257)
T COG1119 55 NPGEHWAIVGPNGAGKTTLLSLLTGEHPP 83 (257)
T ss_pred cCCCcEEEECCCCCCHHHHHHHHhcccCC
Confidence 57899999999999999999998887554
No 401
>TIGR03743 SXT_TraD conjugative coupling factor TraD, SXT/TOL subfamily. Members of this protein family are the putative conjugative coupling factor, TraD (or TraG), rather distantly related to the well-characterized TraD of the F plasmid. Members are associated with conjugative-transposon-like mobile genetic elements of the class that includes SXT, an antibiotic resistance transfer element in some Vibrio cholerae strains.
Probab=92.33 E-value=0.41 Score=50.61 Aligned_cols=74 Identities=14% Similarity=0.059 Sum_probs=51.5
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe-CCccc-c-------c--cCCc-cee-ccC--------CCC-Cc
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI-PWVLR-W-------F--AYPK-EVS-HSL--------TKE-GM 123 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v-P~~~~-~-------~--~~~~-~~~-~s~--------~~~-~~ 123 (342)
.....++.|..|+|||+++..++..+...|.-|+.+ |.+.. + + .|.. +|. .+. .++ ..
T Consensus 175 ~~~H~lv~G~TGsGKT~l~~~l~~q~i~~g~~viv~DpKgD~~l~~~~~~~~~~~G~~dd~~~f~~~~p~~S~~~NPl~~ 254 (634)
T TIGR03743 175 RVGHTLVLGTTGVGKTRLAELLITQDIRRGDVVIVIDPKGDADLKRRMRAEAKRAGRPDRFYYFHPAFPEISVRYNPLGN 254 (634)
T ss_pred CCCcEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCCchHHHHHHHHHHHHhCCCceEEEEecCCCCcCcCcChhhh
Confidence 356889999999999999999999999888888888 77641 0 0 0111 111 111 133 34
Q ss_pred cccHHHHHHHHHHHHH
Q psy3261 124 VDLNIDAAMWLRHFQK 139 (342)
Q Consensus 124 ~~qP~~a~~~L~~~~~ 139 (342)
|+++...+.|+..+..
T Consensus 255 ~~~~~eva~~i~~ll~ 270 (634)
T TIGR03743 255 FSRISEVASRIAQLLP 270 (634)
T ss_pred cCChHHHHHHHHHhcc
Confidence 8899888899988865
No 402
>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=92.33 E-value=0.13 Score=46.07 Aligned_cols=35 Identities=23% Similarity=0.353 Sum_probs=25.7
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-.-. ..|=|.+
T Consensus 24 ~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~ 59 (210)
T cd03269 24 EKGEIFGLLGPNGAGKTTTIRMILGIILPDSGEVLF 59 (210)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence 4678899999999999999887775432 3454433
No 403
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=92.31 E-value=0.24 Score=47.95 Aligned_cols=51 Identities=14% Similarity=0.270 Sum_probs=36.5
Q ss_pred hHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHH--hCCeEEEEeC
Q psy3261 49 CMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAH--ENNYLLVHIP 102 (342)
Q Consensus 49 ~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~--~~gwiVl~vP 102 (342)
...++++.+++ +. .....++|+|++||||+++...+..... ...|++|+-.
T Consensus 14 ~~~~~~~~i~~-~a--~~~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~ 66 (326)
T PRK11608 14 SFLEVLEQVSR-LA--PLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCA 66 (326)
T ss_pred HHHHHHHHHHH-Hh--CCCCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCC
Confidence 56667777777 32 4467899999999999988765554443 3468888764
No 404
>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).
Probab=92.31 E-value=0.17 Score=45.86 Aligned_cols=35 Identities=23% Similarity=0.256 Sum_probs=28.6
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHH------HhCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYA------HENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A------~~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-.- -..|-|.+
T Consensus 24 ~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~~~~~~G~i~~ 64 (227)
T cd03260 24 PKGEITALIGPSGCGKSTLLRLLNRLNDLIPGAPDEGEVLL 64 (227)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHHhhcccccCCCCCeEEEE
Confidence 467899999999999999999887664 35687765
No 405
>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=92.30 E-value=0.19 Score=48.71 Aligned_cols=42 Identities=19% Similarity=0.267 Sum_probs=30.3
Q ss_pred ceEEechhHHH-HHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHH
Q psy3261 42 SSILIRNCMLE-LVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 42 ~~~lvR~~t~e-l~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
|....+.++.. ++..|.. ..+++|.|++|||||++..++...
T Consensus 45 ~~y~f~~~~~~~vl~~l~~-------~~~ilL~G~pGtGKTtla~~lA~~ 87 (327)
T TIGR01650 45 PAYLFDKATTKAICAGFAY-------DRRVMVQGYHGTGKSTHIEQIAAR 87 (327)
T ss_pred CCccCCHHHHHHHHHHHhc-------CCcEEEEeCCCChHHHHHHHHHHH
Confidence 46778876644 4444422 568999999999999998876554
No 406
>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins. Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor
Probab=92.25 E-value=0.28 Score=41.03 Aligned_cols=39 Identities=15% Similarity=0.151 Sum_probs=28.2
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHh----CCeEEEEeCC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHE----NNYLLVHIPW 103 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~----~gwiVl~vP~ 103 (342)
.++.-+-++|++|||||.+-..++..-+. +..+-.+++.
T Consensus 51 ~KpLVlSfHG~tGtGKn~v~~liA~~ly~~G~~S~~V~~f~~~ 93 (127)
T PF06309_consen 51 RKPLVLSFHGWTGTGKNFVSRLIAEHLYKSGMKSPFVHQFIAT 93 (127)
T ss_pred CCCEEEEeecCCCCcHHHHHHHHHHHHHhcccCCCceeeeccc
Confidence 44566669999999999988887777554 4555555553
No 407
>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=92.25 E-value=0.12 Score=43.40 Aligned_cols=20 Identities=30% Similarity=0.448 Sum_probs=18.3
Q ss_pred eEEEEccCCCcHHHHHHHHH
Q psy3261 69 RFVLYGEHGVGKSMALVYAL 88 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~ 88 (342)
++++.|++|||||+++.++.
T Consensus 2 ki~~vG~~~vGKTsli~~l~ 21 (168)
T cd04119 2 KVISMGNSGVGKSCIIKRYC 21 (168)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 78999999999999998775
No 408
>cd01863 Rab18 Rab18 subfamily. Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos
Probab=92.25 E-value=0.12 Score=43.46 Aligned_cols=20 Identities=40% Similarity=0.629 Sum_probs=18.3
Q ss_pred eEEEEccCCCcHHHHHHHHH
Q psy3261 69 RFVLYGEHGVGKSMALVYAL 88 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~ 88 (342)
++++.|++|||||+++.++.
T Consensus 2 ki~v~G~~~~GKSsli~~l~ 21 (161)
T cd01863 2 KILLIGDSGVGKSSLLLRFT 21 (161)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 78999999999999998875
No 409
>KOG0730|consensus
Probab=92.25 E-value=0.12 Score=53.96 Aligned_cols=27 Identities=30% Similarity=0.461 Sum_probs=22.1
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYA 91 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A 91 (342)
++..++++|||+|||||++..-+...|
T Consensus 466 ~ppkGVLlyGPPGC~KT~lAkalAne~ 492 (693)
T KOG0730|consen 466 SPPKGVLLYGPPGCGKTLLAKALANEA 492 (693)
T ss_pred CCCceEEEECCCCcchHHHHHHHhhhh
Confidence 688999999999999998866554444
No 410
>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=92.24 E-value=0.15 Score=42.80 Aligned_cols=30 Identities=23% Similarity=0.257 Sum_probs=23.1
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.++|.|++|||||++...+... .||..+..
T Consensus 1 ~i~l~G~~GsGKstla~~la~~---l~~~~~~~ 30 (154)
T cd00464 1 NIVLIGMMGAGKTTVGRLLAKA---LGLPFVDL 30 (154)
T ss_pred CEEEEcCCCCCHHHHHHHHHHH---hCCCEEEc
Confidence 3789999999999998887543 37766644
No 411
>PRK14526 adenylate kinase; Provisional
Probab=92.23 E-value=0.13 Score=46.71 Aligned_cols=20 Identities=25% Similarity=0.378 Sum_probs=17.4
Q ss_pred eEEEEccCCCcHHHHHHHHH
Q psy3261 69 RFVLYGEHGVGKSMALVYAL 88 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~ 88 (342)
+++|.|++||||||+...+.
T Consensus 2 ~i~l~G~pGsGKsT~a~~La 21 (211)
T PRK14526 2 KLVFLGPPGSGKGTIAKILS 21 (211)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 68999999999999976654
No 412
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=92.22 E-value=0.32 Score=47.22 Aligned_cols=41 Identities=17% Similarity=0.084 Sum_probs=29.7
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHh--CCeEEEEeCCcccc
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHE--NNYLLVHIPWVLRW 107 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~--~gwiVl~vP~~~~~ 107 (342)
...+++.|+.||||||+|..++.+..+ .+.-++-|=+..++
T Consensus 144 ~~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivtiEd~~El 186 (323)
T PRK13833 144 RLNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVILEDTAEI 186 (323)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEEecCCccc
Confidence 446899999999999999888876542 35566666444443
No 413
>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhi
Probab=92.22 E-value=0.12 Score=44.10 Aligned_cols=23 Identities=35% Similarity=0.496 Sum_probs=20.5
Q ss_pred CCeEEEEccCCCcHHHHHHHHHH
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
..|+++.|++|+|||+++.++..
T Consensus 3 ~~ki~vvG~~~~GKSsl~~~~~~ 25 (167)
T cd01867 3 LFKLLLIGDSGVGKSCLLLRFSE 25 (167)
T ss_pred ceEEEEECCCCCCHHHHHHHHhh
Confidence 46899999999999999998864
No 414
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=92.18 E-value=0.26 Score=47.30 Aligned_cols=34 Identities=24% Similarity=0.142 Sum_probs=25.8
Q ss_pred CCCCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEE
Q psy3261 63 FDRPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLV 99 (342)
Q Consensus 63 ~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl 99 (342)
.-.+...++|+|.+|||||++...+. ..-||-++
T Consensus 129 ~~~~~~~I~l~G~~GsGKStvg~~La---~~Lg~~~i 162 (309)
T PRK08154 129 RAARRRRIALIGLRGAGKSTLGRMLA---ARLGVPFV 162 (309)
T ss_pred hccCCCEEEEECCCCCCHHHHHHHHH---HHcCCCEE
Confidence 34578899999999999999987763 33466555
No 415
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein.
Probab=92.18 E-value=0.14 Score=46.12 Aligned_cols=35 Identities=23% Similarity=0.256 Sum_probs=27.5
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-.-. ..|-|.+
T Consensus 27 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~ 62 (216)
T TIGR00960 27 TKGEMVFLVGHSGAGKSTFLKLILGIEKPTRGKIRF 62 (216)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence 4678999999999999999888776533 4576655
No 416
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=92.17 E-value=0.18 Score=51.68 Aligned_cols=47 Identities=15% Similarity=0.092 Sum_probs=34.4
Q ss_pred HHHHhccC-CCCCCCeEEEEccCCCcHHHHHHHHHHHHHhC-CeEEEEe
Q psy3261 55 GYLKSMTN-FDRPSPRFVLYGEHGVGKSMALVYALQYAHEN-NYLLVHI 101 (342)
Q Consensus 55 ~~l~~~~~-~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~-gwiVl~v 101 (342)
.-|+.+.. .-.++.-++|.|++|+|||++..|.+..+..+ |==|+||
T Consensus 18 ~~LD~~l~GG~p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyi 66 (509)
T PRK09302 18 EGFDDITHGGLPKGRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFV 66 (509)
T ss_pred hhHHHhhcCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEE
Confidence 34444332 33568889999999999999999998876665 6555555
No 417
>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=92.16 E-value=0.13 Score=43.23 Aligned_cols=21 Identities=38% Similarity=0.482 Sum_probs=18.8
Q ss_pred CeEEEEccCCCcHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYAL 88 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~ 88 (342)
.++++.|.+|+|||+++.+.+
T Consensus 2 ~ki~i~G~~~vGKTsl~~~~~ 22 (163)
T cd04136 2 YKVVVLGSGGVGKSALTVQFV 22 (163)
T ss_pred eEEEEECCCCCCHHHHHHHHH
Confidence 478999999999999988776
No 418
>PRK06761 hypothetical protein; Provisional
Probab=92.15 E-value=0.2 Score=47.59 Aligned_cols=32 Identities=19% Similarity=0.175 Sum_probs=27.1
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHHhCCeEEE
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAHENNYLLV 99 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl 99 (342)
.-++|.|++||||||++.++.......|.=|.
T Consensus 4 ~lIvI~G~~GsGKTTla~~L~~~L~~~g~~v~ 35 (282)
T PRK06761 4 KLIIIEGLPGFGKSTTAKMLNDILSQNGIEVE 35 (282)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhcCcCceEEE
Confidence 46899999999999999999998876665443
No 419
>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional
Probab=92.14 E-value=0.14 Score=46.33 Aligned_cols=34 Identities=9% Similarity=0.085 Sum_probs=27.1
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHH-HhCCeEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYA-HENNYLL 98 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A-~~~gwiV 98 (342)
.++..+.|.|+.||||||+|.-+.-.. -..|-|.
T Consensus 11 ~~Ge~~~l~G~NGsGKSTLlk~i~Gl~~~~sG~i~ 45 (213)
T PRK15177 11 GYHEHIGILAAPGSGKTTLTRLLCGLDAPDEGDFI 45 (213)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHhCCccCCCCCEE
Confidence 457889999999999999998877653 3567764
No 420
>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=92.14 E-value=0.22 Score=50.11 Aligned_cols=35 Identities=14% Similarity=0.230 Sum_probs=29.2
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEEEe
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLVHI 101 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl~v 101 (342)
..-+++.|+.|+||||+.+.+..++. +.|.=|+.|
T Consensus 99 p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV 134 (428)
T TIGR00959 99 PTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLV 134 (428)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEE
Confidence 45788999999999999999999876 567766555
No 421
>PRK14527 adenylate kinase; Provisional
Probab=92.13 E-value=0.16 Score=44.91 Aligned_cols=32 Identities=16% Similarity=0.172 Sum_probs=23.7
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl 99 (342)
++...+++.|++||||||+..++. .+.|+..+
T Consensus 4 ~~~~~i~i~G~pGsGKsT~a~~La---~~~~~~~i 35 (191)
T PRK14527 4 TKNKVVIFLGPPGAGKGTQAERLA---QELGLKKL 35 (191)
T ss_pred CCCcEEEEECCCCCCHHHHHHHHH---HHhCCCCC
Confidence 356789999999999999887763 33455443
No 422
>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt
Probab=92.11 E-value=0.15 Score=44.19 Aligned_cols=35 Identities=20% Similarity=0.284 Sum_probs=27.2
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.|||||++|.-+.-... ..|-|.+
T Consensus 25 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~ 60 (166)
T cd03223 25 KPGDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGM 60 (166)
T ss_pred CCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEE
Confidence 5688999999999999999988776533 4566543
No 423
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=92.11 E-value=0.23 Score=49.09 Aligned_cols=31 Identities=23% Similarity=0.247 Sum_probs=26.0
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENN 95 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~g 95 (342)
....-++|.|+.|+||||+++.+.+++. ..|
T Consensus 135 ~~g~ii~lvGptGvGKTTtiakLA~~~~~~~G 166 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTTTTAKLAARCVMRFG 166 (374)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHHHHHHHhcC
Confidence 3467899999999999999999999864 444
No 424
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=92.11 E-value=0.16 Score=45.51 Aligned_cols=25 Identities=32% Similarity=0.541 Sum_probs=21.2
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
....+++|.|+.|||||+++.+.+.
T Consensus 7 ~~~~kv~liG~~g~GKTtLi~~~~~ 31 (215)
T PTZ00132 7 VPEFKLILVGDGGVGKTTFVKRHLT 31 (215)
T ss_pred CCCceEEEECCCCCCHHHHHHHHHh
Confidence 4568999999999999999976553
No 425
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=92.10 E-value=0.19 Score=45.90 Aligned_cols=37 Identities=16% Similarity=0.367 Sum_probs=27.1
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccccc
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWF 108 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~ 108 (342)
-++|.||.|+|||. .++..|.+.||=||...+.+-+-
T Consensus 3 v~~i~GpT~tGKt~---~ai~lA~~~g~pvI~~Driq~y~ 39 (233)
T PF01745_consen 3 VYLIVGPTGTGKTA---LAIALAQKTGAPVISLDRIQCYP 39 (233)
T ss_dssp EEEEE-STTSSHHH---HHHHHHHHH--EEEEE-SGGG-G
T ss_pred EEEEECCCCCChhH---HHHHHHHHhCCCEEEecceeccc
Confidence 37899999999995 57889999999999998776643
No 426
>KOG0090|consensus
Probab=92.08 E-value=0.48 Score=43.17 Aligned_cols=69 Identities=16% Similarity=0.100 Sum_probs=45.8
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccccccCCcceeccCCCCCccccH--HHHHHHHHHHHHhC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWFAYPKEVSHSLTKEGMVDLN--IDAAMWLRHFQKQN 141 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~~~~~~~~~s~~~~~~~~qP--~~a~~~L~~~~~~N 141 (342)
+..++++|.|+.+||||+++.|+.+- .-.+-++=-.|+.-.|.-+... .-+.|-| ...+.+|......|
T Consensus 36 s~~~~Vll~Gl~dSGKT~LF~qL~~g-s~~~TvtSiepn~a~~r~gs~~-------~~LVD~PGH~rlR~kl~e~~~~~ 106 (238)
T KOG0090|consen 36 SKQNAVLLVGLSDSGKTSLFTQLITG-SHRGTVTSIEPNEATYRLGSEN-------VTLVDLPGHSRLRRKLLEYLKHN 106 (238)
T ss_pred ccCCcEEEEecCCCCceeeeeehhcC-CccCeeeeeccceeeEeecCcc-------eEEEeCCCcHHHHHHHHHHcccc
Confidence 44589999999999999999999876 4445555555777777666543 1223333 25566666664544
No 427
>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=92.07 E-value=0.33 Score=43.34 Aligned_cols=31 Identities=16% Similarity=0.154 Sum_probs=24.0
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
+.|.|.+|||||++..++.... .+..+++..
T Consensus 2 i~i~G~sgsGKTtla~~l~~~~--~~~~~i~~D 32 (187)
T cd02024 2 VGISGVTNSGKTTLAKLLQRIL--PNCCVIHQD 32 (187)
T ss_pred EEEECCCCCCHHHHHHHHHHHc--CCCeEEccc
Confidence 5788999999999998888764 356666543
No 428
>PRK08506 replicative DNA helicase; Provisional
Probab=92.06 E-value=0.28 Score=50.00 Aligned_cols=37 Identities=8% Similarity=0.066 Sum_probs=32.8
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.++.-++|-|.+|.|||+++.+++..|..+|+-|+++
T Consensus 190 ~~G~LivIaarpg~GKT~fal~ia~~~~~~g~~V~~f 226 (472)
T PRK08506 190 NKGDLIIIAARPSMGKTTLCLNMALKALNQDKGVAFF 226 (472)
T ss_pred CCCceEEEEcCCCCChHHHHHHHHHHHHhcCCcEEEE
Confidence 4677889999999999999999999988888888777
No 429
>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional
Probab=92.06 E-value=0.18 Score=48.13 Aligned_cols=32 Identities=28% Similarity=0.270 Sum_probs=25.7
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
...++|+|..|||||+++..+- ..||.++.-+
T Consensus 6 ~~~i~i~G~~GsGKtt~~~~l~----~~g~~~~d~~ 37 (288)
T PRK05416 6 MRLVIVTGLSGAGKSVALRALE----DLGYYCVDNL 37 (288)
T ss_pred ceEEEEECCCCCcHHHHHHHHH----HcCCeEECCc
Confidence 4579999999999999998884 5588776543
No 430
>PRK13973 thymidylate kinase; Provisional
Probab=92.06 E-value=0.24 Score=44.86 Aligned_cols=38 Identities=16% Similarity=0.145 Sum_probs=32.0
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCc
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWV 104 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~ 104 (342)
+.=++|-|..||||||....+..+....|.-|++.+.+
T Consensus 3 g~~IviEG~dGsGKtTq~~~l~~~l~~~g~~~~~~~~p 40 (213)
T PRK13973 3 GRFITFEGGEGAGKSTQIRLLAERLRAAGYDVLVTREP 40 (213)
T ss_pred ceEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence 34578999999999999999999998888888777444
No 431
>cd04159 Arl10_like Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.
Probab=92.05 E-value=0.12 Score=42.79 Aligned_cols=20 Identities=20% Similarity=0.223 Sum_probs=17.7
Q ss_pred EEEEccCCCcHHHHHHHHHH
Q psy3261 70 FVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~ 89 (342)
++|.|+.|||||+++.++..
T Consensus 2 i~i~G~~~~GKssl~~~l~~ 21 (159)
T cd04159 2 ITLVGLQNSGKTTLVNVIAG 21 (159)
T ss_pred EEEEcCCCCCHHHHHHHHcc
Confidence 67899999999999998854
No 432
>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.
Probab=92.03 E-value=0.16 Score=49.79 Aligned_cols=39 Identities=13% Similarity=0.205 Sum_probs=31.6
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCcc
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVL 105 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~ 105 (342)
.+.-|..|.|+.|||||+++.|++.++... +|||+--++
T Consensus 155 ~kGqr~~I~G~~G~GKT~L~~~Iak~~~~d--vvVyv~iGE 193 (369)
T cd01134 155 VKGGTAAIPGPFGCGKTVIQQSLSKYSNSD--IVIYVGCGE 193 (369)
T ss_pred cCCCEEEEECCCCCChHHHHHHHHhCCCCC--EEEEEEeCC
Confidence 467899999999999999999988886543 677775553
No 433
>PHA02624 large T antigen; Provisional
Probab=92.00 E-value=0.23 Score=51.88 Aligned_cols=41 Identities=15% Similarity=0.104 Sum_probs=31.6
Q ss_pred HHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHH
Q psy3261 51 LELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYA 91 (342)
Q Consensus 51 ~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A 91 (342)
.++.+.++.+....++.+-++|+||.|||||++...++...
T Consensus 415 ~~~~~~lk~~l~giPKk~~il~~GPpnTGKTtf~~sLl~~L 455 (647)
T PHA02624 415 DVIYDILKLIVENVPKRRYWLFKGPVNSGKTTLAAALLDLC 455 (647)
T ss_pred HHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHc
Confidence 55566666645555778899999999999999988877664
No 434
>PRK13539 cytochrome c biogenesis protein CcmA; Provisional
Probab=92.00 E-value=0.15 Score=45.70 Aligned_cols=35 Identities=20% Similarity=0.252 Sum_probs=27.6
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-.-. ..|-|.+
T Consensus 26 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~ 61 (207)
T PRK13539 26 AAGEALVLTGPNGSGKTTLLRLIAGLLPPAAGTIKL 61 (207)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence 5688999999999999999888776533 4576654
No 435
>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=91.98 E-value=0.12 Score=48.57 Aligned_cols=35 Identities=23% Similarity=0.343 Sum_probs=25.5
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.+..-++|-|+.||||||+|.-+--.-. ..|-|.+
T Consensus 25 ~~gef~vliGpSGsGKTTtLkMINrLiept~G~I~i 60 (309)
T COG1125 25 EEGEFLVLIGPSGSGKTTTLKMINRLIEPTSGEILI 60 (309)
T ss_pred cCCeEEEEECCCCCcHHHHHHHHhcccCCCCceEEE
Confidence 3567789999999999999998765432 3454443
No 436
>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.
Probab=91.97 E-value=0.16 Score=44.41 Aligned_cols=26 Identities=27% Similarity=0.373 Sum_probs=22.0
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
.++..+.|.|+.|||||++|.-+.-.
T Consensus 26 ~~Ge~~~i~G~nGsGKStLl~~l~G~ 51 (178)
T cd03247 26 KQGEKIALLGRSGSGKSTLLQLLTGD 51 (178)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHhcc
Confidence 46789999999999999998877643
No 437
>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=91.96 E-value=0.15 Score=45.16 Aligned_cols=25 Identities=24% Similarity=0.206 Sum_probs=21.7
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
++..+++|.|+.|||||+++..++.
T Consensus 39 ~~~~~I~iiG~~g~GKStLl~~l~~ 63 (204)
T cd01878 39 SGIPTVALVGYTNAGKSTLFNALTG 63 (204)
T ss_pred cCCCeEEEECCCCCCHHHHHHHHhc
Confidence 3458999999999999999988765
No 438
>cd01862 Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-
Probab=91.96 E-value=0.13 Score=43.73 Aligned_cols=22 Identities=23% Similarity=0.510 Sum_probs=19.5
Q ss_pred eEEEEccCCCcHHHHHHHHHHH
Q psy3261 69 RFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
++++.|++|||||+++..+...
T Consensus 2 ki~viG~~~~GKSsl~~~l~~~ 23 (172)
T cd01862 2 KVIILGDSGVGKTSLMNQYVNK 23 (172)
T ss_pred EEEEECCCCCCHHHHHHHHhcC
Confidence 7899999999999999887653
No 439
>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).
Probab=91.92 E-value=0.14 Score=46.72 Aligned_cols=35 Identities=23% Similarity=0.371 Sum_probs=27.0
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-... ..|-|.+
T Consensus 24 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i~~ 59 (236)
T cd03219 24 RPGEIHGLIGPNGAGKTTLFNLISGFLRPTSGSVLF 59 (236)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHcCCCCCCCceEEE
Confidence 4678999999999999999987765432 4576654
No 440
>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra
Probab=91.91 E-value=0.17 Score=44.09 Aligned_cols=27 Identities=26% Similarity=0.389 Sum_probs=22.7
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYA 91 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A 91 (342)
.++..+.|.|+.|||||++|.-+.-..
T Consensus 26 ~~Ge~~~i~G~nGsGKStLl~~l~G~~ 52 (173)
T cd03246 26 EPGESLAIIGPSGSGKSTLARLILGLL 52 (173)
T ss_pred CCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence 467899999999999999998776543
No 441
>PRK07429 phosphoribulokinase; Provisional
Probab=91.91 E-value=0.26 Score=47.91 Aligned_cols=39 Identities=15% Similarity=0.068 Sum_probs=30.8
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCC
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPW 103 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~ 103 (342)
.+...+-|+|+.||||||++..+.......++.|+...+
T Consensus 6 ~~~~IIgI~G~SGSGKSTla~~L~~ll~~~~~~vi~~Dd 44 (327)
T PRK07429 6 DRPVLLGVAGDSGCGKTTFLRGLADLLGEELVTVICTDD 44 (327)
T ss_pred CCCEEEEEECCCCCCHHHHHHHHHhHhccCceEEEEecc
Confidence 455678899999999999998888766666777877743
No 442
>PRK14730 coaE dephospho-CoA kinase; Provisional
Probab=91.90 E-value=0.21 Score=44.71 Aligned_cols=37 Identities=22% Similarity=0.073 Sum_probs=27.1
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccccccC
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWFAY 110 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~~~ 110 (342)
.++.|+|+.|||||++..++... -|+.|+ ++..+.+.
T Consensus 2 ~~i~itG~~gsGKst~~~~l~~~---~g~~~i---~~D~~~~~ 38 (195)
T PRK14730 2 RRIGLTGGIASGKSTVGNYLAQQ---KGIPIL---DADIYARE 38 (195)
T ss_pred cEEEEECCCCCCHHHHHHHHHHh---hCCeEe---eCcHHHHH
Confidence 36899999999999998887643 288777 35555444
No 443
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=91.89 E-value=0.35 Score=46.14 Aligned_cols=35 Identities=20% Similarity=0.193 Sum_probs=27.9
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.....+-|.|.+|||||++|..++.... ..+..|+
T Consensus 102 ~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~~~~~VI 137 (290)
T PRK10463 102 RKQLVLNLVSSPGSGKTTLLTETLMRLKDSVPCAVI 137 (290)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHhccCCCEEEE
Confidence 4577888999999999999999998754 3455555
No 444
>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin. In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=91.89 E-value=0.16 Score=45.88 Aligned_cols=35 Identities=23% Similarity=0.310 Sum_probs=27.1
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-... ..|.|.+
T Consensus 24 ~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G~i~~ 59 (220)
T cd03265 24 RRGEIFGLLGPNGAGKTTTIKMLTTLLKPTSGRATV 59 (220)
T ss_pred CCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence 4678999999999999999987765432 4577655
No 445
>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.
Probab=91.87 E-value=0.14 Score=46.10 Aligned_cols=35 Identities=17% Similarity=0.233 Sum_probs=25.7
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-... ..|=|.+
T Consensus 24 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~ 59 (222)
T cd03224 24 PEGEIVALLGRNGAGKTTLLKTIMGLLPPRSGSIRF 59 (222)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence 4688999999999999999976554332 3465544
No 446
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=91.86 E-value=0.21 Score=43.84 Aligned_cols=24 Identities=21% Similarity=0.306 Sum_probs=21.3
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYAL 88 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~ 88 (342)
++..+++|.|+.|||||+++.++.
T Consensus 15 ~~~~kv~lvG~~~vGKTsli~~~~ 38 (182)
T PTZ00133 15 KKEVRILMVGLDAAGKTTILYKLK 38 (182)
T ss_pred CCccEEEEEcCCCCCHHHHHHHHh
Confidence 556899999999999999998874
No 447
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.86 E-value=0.24 Score=52.23 Aligned_cols=42 Identities=21% Similarity=0.279 Sum_probs=29.0
Q ss_pred hHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHH
Q psy3261 49 CMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 49 ~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
...+|...++.......+...++|+|++|||||+++.-+...
T Consensus 92 ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~ 133 (637)
T TIGR00602 92 KIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKE 133 (637)
T ss_pred HHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence 444566677662222344556999999999999998877643
No 448
>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.
Probab=91.86 E-value=0.14 Score=45.87 Aligned_cols=35 Identities=26% Similarity=0.382 Sum_probs=26.2
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-.-. ..|-|.+
T Consensus 23 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~~p~~G~i~~ 58 (213)
T cd03235 23 KPGEFLAIVGPNGAGKSTLLKAILGLLKPTSGSIRV 58 (213)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHcCCCCCCCCEEEE
Confidence 4678999999999999999987755432 3465543
No 449
>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane. The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.
Probab=91.86 E-value=0.16 Score=45.52 Aligned_cols=35 Identities=23% Similarity=0.234 Sum_probs=26.2
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-... ..|=|.+
T Consensus 25 ~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~ 60 (214)
T cd03292 25 SAGEFVFLVGPSGAGKSTLLKLIYKEELPTSGTIRV 60 (214)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEEE
Confidence 4678999999999999998887766543 3454443
No 450
>KOG0086|consensus
Probab=91.85 E-value=0.14 Score=44.22 Aligned_cols=42 Identities=19% Similarity=0.290 Sum_probs=28.8
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHHhC-CeEEEEeCCcccccc
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAHEN-NYLLVHIPWVLRWFA 109 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~~~-gwiVl~vP~~~~~~~ 109 (342)
.++++.|+.|+|||.+|.|.+.--+.. --..+-|--+.+.++
T Consensus 10 fKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIin 52 (214)
T KOG0086|consen 10 FKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVN 52 (214)
T ss_pred heeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeee
Confidence 478999999999999999999865532 223334444444444
No 451
>PRK13540 cytochrome c biogenesis protein CcmA; Provisional
Probab=91.84 E-value=0.16 Score=45.17 Aligned_cols=35 Identities=23% Similarity=0.291 Sum_probs=27.0
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-... ..|-|.+
T Consensus 25 ~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G~v~~ 60 (200)
T PRK13540 25 PAGGLLHLKGSNGAGKTTLLKLIAGLLNPEKGEILF 60 (200)
T ss_pred CCCCEEEEECCCCCCHHHHHHHHhcCCCCCCeeEEE
Confidence 4788999999999999999997665432 4566544
No 452
>cd04113 Rab4 Rab4 subfamily. Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p
Probab=91.84 E-value=0.15 Score=43.07 Aligned_cols=21 Identities=33% Similarity=0.626 Sum_probs=19.1
Q ss_pred eEEEEccCCCcHHHHHHHHHH
Q psy3261 69 RFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~ 89 (342)
++++.|+.|+|||+++.+++.
T Consensus 2 ki~v~G~~~vGKTsli~~l~~ 22 (161)
T cd04113 2 KFIIIGSSGTGKSCLLHRFVE 22 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 789999999999999999863
No 453
>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=91.83 E-value=0.15 Score=45.72 Aligned_cols=33 Identities=18% Similarity=0.366 Sum_probs=24.8
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
++ .+.|.|+.||||||+|.-+.-... ..|-|.+
T Consensus 25 ~g-~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~ 58 (211)
T cd03264 25 PG-MYGLLGPNGAGKTTLMRILATLTPPSSGTIRI 58 (211)
T ss_pred CC-cEEEECCCCCCHHHHHHHHhCCCCCCccEEEE
Confidence 46 999999999999998877764322 4576654
No 454
>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional
Probab=91.82 E-value=0.16 Score=46.14 Aligned_cols=35 Identities=26% Similarity=0.296 Sum_probs=26.8
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-... ..|=|.+
T Consensus 31 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~ 66 (225)
T PRK10247 31 RAGEFKLITGPSGCGKSTLLKIVASLISPTSGTLLF 66 (225)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHhcccCCCCCeEEE
Confidence 4688999999999999999987765432 4565544
No 455
>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein. This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.
Probab=91.81 E-value=0.16 Score=45.77 Aligned_cols=35 Identities=20% Similarity=0.201 Sum_probs=27.1
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-... ..|-|.+
T Consensus 29 ~~G~~~~i~G~nGsGKSTLl~~i~G~~~~~~G~i~~ 64 (221)
T TIGR02211 29 GKGEIVAIVGSSGSGKSTLLHLLGGLDNPTSGEVLF 64 (221)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEE
Confidence 4678999999999999999988765433 4566554
No 456
>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=91.80 E-value=0.16 Score=46.36 Aligned_cols=35 Identities=23% Similarity=0.371 Sum_probs=27.2
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-.-. ..|-|.+
T Consensus 24 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~~p~~G~i~~ 59 (235)
T cd03261 24 RRGEILAIIGPSGSGKSTLLRLIVGLLRPDSGEVLI 59 (235)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence 4688999999999999999888875543 4566554
No 457
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=91.80 E-value=0.25 Score=49.10 Aligned_cols=26 Identities=27% Similarity=0.401 Sum_probs=23.4
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHH
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAH 92 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~ 92 (342)
...+++.|+.|+||||+++.+.++..
T Consensus 174 ~~vi~lvGptGvGKTTT~aKLA~~~~ 199 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIAKLAAIYG 199 (388)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHH
Confidence 46789999999999999999998776
No 458
>cd04124 RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b
Probab=91.80 E-value=0.15 Score=43.36 Aligned_cols=21 Identities=33% Similarity=0.509 Sum_probs=19.0
Q ss_pred eEEEEccCCCcHHHHHHHHHH
Q psy3261 69 RFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~ 89 (342)
++++.|.+|||||+++.+.+.
T Consensus 2 ki~vvG~~~vGKTsli~~~~~ 22 (161)
T cd04124 2 KIILLGDSAVGKSKLVERFLM 22 (161)
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 689999999999999988874
No 459
>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.
Probab=91.78 E-value=0.16 Score=46.16 Aligned_cols=35 Identities=17% Similarity=0.363 Sum_probs=27.1
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-... ..|-|.+
T Consensus 24 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~ 59 (232)
T cd03218 24 KQGEIVGLLGPNGAGKTTTFYMIVGLVKPDSGKILL 59 (232)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEE
Confidence 4678999999999999999888875543 4566544
No 460
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=91.76 E-value=0.16 Score=48.00 Aligned_cols=32 Identities=19% Similarity=0.013 Sum_probs=24.4
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
-++|.|++||||||+-.++...- .+|+.+..-
T Consensus 4 liil~G~pGSGKSTla~~L~~~~--~~~~~l~~D 35 (300)
T PHA02530 4 IILTVGVPGSGKSTWAREFAAKN--PKAVNVNRD 35 (300)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHC--CCCEEEecc
Confidence 57889999999999988865432 288877653
No 461
>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.
Probab=91.75 E-value=0.17 Score=45.38 Aligned_cols=35 Identities=20% Similarity=0.299 Sum_probs=26.6
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-... ..|=|.+
T Consensus 24 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G~v~~ 59 (213)
T cd03301 24 ADGEFVVLLGPSGCGKTTTLRMIAGLEEPTSGRIYI 59 (213)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEEE
Confidence 4678999999999999999977776533 4455443
No 462
>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=91.75 E-value=0.22 Score=45.52 Aligned_cols=23 Identities=22% Similarity=0.151 Sum_probs=19.3
Q ss_pred EEEEccCCCcHHHHHHHHHHHHH
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAH 92 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~ 92 (342)
+-|.|+.||||||+...+.....
T Consensus 2 igI~G~sGSGKTTla~~L~~~l~ 24 (220)
T cd02025 2 IGIAGSVAVGKSTTARVLQALLS 24 (220)
T ss_pred EEeeCCCCCCHHHHHHHHHHHHh
Confidence 45789999999999988887654
No 463
>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=91.74 E-value=0.21 Score=47.25 Aligned_cols=33 Identities=18% Similarity=0.194 Sum_probs=27.2
Q ss_pred EEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeC
Q psy3261 70 FVLYGEHGVGKSMALVYALQYAHENNYLLVHIP 102 (342)
Q Consensus 70 ~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP 102 (342)
+-|.|+.||||||++..+...-...+..|+...
T Consensus 2 igI~G~sGsGKSTl~~~L~~ll~~~~~~vi~~D 34 (273)
T cd02026 2 IGVAGDSGCGKSTFLRRLTSLFGSDLVTVICLD 34 (273)
T ss_pred EEEECCCCCCHHHHHHHHHHhhCCCceEEEECc
Confidence 568999999999999988877666677777764
No 464
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=91.73 E-value=0.22 Score=47.11 Aligned_cols=32 Identities=9% Similarity=0.113 Sum_probs=28.6
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
-+-+.|.+||||||++.+++....+.| -|..|
T Consensus 3 ~i~i~G~~gSGKTTLi~~Li~~L~~~G-~V~~I 34 (274)
T PRK14493 3 VLSIVGYKATGKTTLVERLVDRLSGRG-RVGTV 34 (274)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCC-CEEEE
Confidence 367899999999999999999999999 67777
No 465
>cd04129 Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors).
Probab=91.73 E-value=0.15 Score=44.77 Aligned_cols=21 Identities=24% Similarity=0.387 Sum_probs=19.2
Q ss_pred CeEEEEccCCCcHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYAL 88 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~ 88 (342)
.+++|.|+.|+|||+++.++.
T Consensus 2 ~Ki~ivG~~g~GKStLl~~l~ 22 (187)
T cd04129 2 RKLVIVGDGACGKTSLLSVFT 22 (187)
T ss_pred eEEEEECCCCCCHHHHHHHHH
Confidence 478999999999999999886
No 466
>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.
Probab=91.73 E-value=0.17 Score=45.27 Aligned_cols=34 Identities=15% Similarity=0.334 Sum_probs=25.3
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLL 98 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiV 98 (342)
.++..+.|.|+.||||||+|.-+.-.-. ..|=|.
T Consensus 24 ~~G~~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~ 58 (208)
T cd03268 24 KKGEIYGFLGPNGAGKTTTMKIILGLIKPDSGEIT 58 (208)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHhCCcCCCceEEE
Confidence 4688999999999999999988764322 345443
No 467
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=91.72 E-value=0.23 Score=49.53 Aligned_cols=86 Identities=15% Similarity=0.103 Sum_probs=46.9
Q ss_pred CceEEEEEeCccccccCCCc-----CCCCCCCcccCCccchHHHHHHhhcCCCCCeEE--E-EEeCCCCCCCC-C-----
Q psy3261 203 VCRTFVCVDGYNSFFAEKTN-----CKPEDKSKVLPSRVTLTRSVINLVQSDWNNGAI--V-LALSPRANLPD-R----- 268 (342)
Q Consensus 203 ~~pVLvavD~~n~~~~~s~~-----y~~~~~~~I~~~~l~l~~~~~~~~~~~~~~G~v--v-~AtS~~~~~~~-~----- 268 (342)
...|+|.||++..|-.---. =+.+. +=++|.-|..++-|....++--.+|.+ + ++.-.+++.-+ +
T Consensus 254 GkdVVLlIDEitR~arAqrei~~~~G~~~s-~G~~~~~~~~~~~~~~~a~~~~~~GSiT~~~TvLvetg~~mdd~i~~e~ 332 (415)
T TIGR00767 254 KKDVVILLDSITRLARAYNTVTPASGKVLS-GGVDANALHRPKRFFGAARNIEEGGSLTIIATALIDTGSRMDEVIFEEF 332 (415)
T ss_pred CCCeEEEEEChhHHHHHHHHhHhhcCCCCC-CCcChhhhcccHHHHhhcCCCCCCcchhheEEEEeccCCCCCcchHHHh
Confidence 67999999999666332100 12333 556777787777777666542245532 2 22223222212 1
Q ss_pred -----ccCcchhHHhhhcCCCCCCCc
Q psy3261 269 -----RESHLPLYMLKKAGFESIDPF 289 (342)
Q Consensus 269 -----~~~~~p~~llg~~g~~~~dP~ 289 (342)
-...|.+.+..+.-|+.+|+.
T Consensus 333 kg~~~~~ivL~r~la~~~~fPAidi~ 358 (415)
T TIGR00767 333 KGTGNMELHLDRKLADRRIFPAIDIK 358 (415)
T ss_pred ccccCCeEEECHHHHhCCCCCCcCcc
Confidence 114566667766667776764
No 468
>cd01866 Rab2 Rab2 subfamily. Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur
Probab=91.70 E-value=0.15 Score=43.59 Aligned_cols=21 Identities=33% Similarity=0.613 Sum_probs=19.3
Q ss_pred CeEEEEccCCCcHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYAL 88 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~ 88 (342)
.++++.|.+|+|||+++.++.
T Consensus 5 ~ki~vvG~~~vGKSsLl~~l~ 25 (168)
T cd01866 5 FKYIIIGDTGVGKSCLLLQFT 25 (168)
T ss_pred eEEEEECCCCCCHHHHHHHHH
Confidence 689999999999999999875
No 469
>cd01868 Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP
Probab=91.69 E-value=0.15 Score=43.11 Aligned_cols=22 Identities=41% Similarity=0.507 Sum_probs=19.8
Q ss_pred CeEEEEccCCCcHHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
.++++.|++|||||+++.++..
T Consensus 4 ~ki~vvG~~~~GKSsli~~l~~ 25 (165)
T cd01868 4 FKIVLIGDSGVGKSNLLSRFTR 25 (165)
T ss_pred eEEEEECCCCCCHHHHHHHHhc
Confidence 5899999999999999999863
No 470
>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=91.69 E-value=0.27 Score=42.69 Aligned_cols=33 Identities=18% Similarity=0.160 Sum_probs=28.3
Q ss_pred eEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 69 RFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 69 r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
-+.+.|..|||||+++..++......|+-|-.|
T Consensus 3 vi~i~G~~gsGKTTli~~L~~~l~~~g~~V~~i 35 (159)
T cd03116 3 VIGFVGYSGSGKTTLLEKLIPALSARGLRVAVI 35 (159)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 467899999999999999999988888866555
No 471
>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase).
Probab=91.69 E-value=0.24 Score=47.70 Aligned_cols=38 Identities=37% Similarity=0.482 Sum_probs=29.1
Q ss_pred hHHHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHH
Q psy3261 49 CMLELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 49 ~t~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
.-+|++..|++ .+....+++|.|..|+|||++.+.++-
T Consensus 23 ~l~~~l~~l~~---~~~~~~rIllvGktGVGKSSliNsIlG 60 (313)
T TIGR00991 23 KLLELLGKLKE---EDVSSLTILVMGKGGVGKSSTVNSIIG 60 (313)
T ss_pred HHHHHHHhccc---ccccceEEEEECCCCCCHHHHHHHHhC
Confidence 34455555555 335678999999999999999999874
No 472
>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=91.68 E-value=0.16 Score=42.85 Aligned_cols=22 Identities=32% Similarity=0.507 Sum_probs=19.6
Q ss_pred CeEEEEccCCCcHHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
.++++.|+.|||||+++.++..
T Consensus 2 ~ki~v~G~~~~GKSsli~~l~~ 23 (163)
T cd01860 2 FKLVLLGDSSVGKSSLVLRFVK 23 (163)
T ss_pred eEEEEECCCCCCHHHHHHHHHc
Confidence 4789999999999999988864
No 473
>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.
Probab=91.68 E-value=0.17 Score=45.52 Aligned_cols=35 Identities=20% Similarity=0.158 Sum_probs=26.8
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-... ..|-|.+
T Consensus 28 ~~G~~~~l~G~nGsGKSTLl~~i~Gl~~~~~G~i~~ 63 (218)
T cd03255 28 EKGEFVAIVGPSGSGKSTLLNILGGLDRPTSGEVRV 63 (218)
T ss_pred cCCCEEEEEcCCCCCHHHHHHHHhCCcCCCceeEEE
Confidence 4678999999999999998887765432 4576654
No 474
>cd04114 Rab30 Rab30 subfamily. Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=91.66 E-value=0.16 Score=43.16 Aligned_cols=25 Identities=32% Similarity=0.313 Sum_probs=21.7
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
+...++++.|+.|||||+++.++..
T Consensus 5 ~~~~~v~v~G~~~~GKSsli~~l~~ 29 (169)
T cd04114 5 DFLFKIVLIGNAGVGKTCLVRRFTQ 29 (169)
T ss_pred CceeEEEEECCCCCCHHHHHHHHHh
Confidence 3457899999999999999999864
No 475
>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=91.65 E-value=0.17 Score=46.33 Aligned_cols=24 Identities=29% Similarity=0.252 Sum_probs=19.1
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYAL 88 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~ 88 (342)
.++.-.-|.||.||||||+|.-+=
T Consensus 31 ~~~~VTAlIGPSGcGKST~LR~lN 54 (253)
T COG1117 31 PKNKVTALIGPSGCGKSTLLRCLN 54 (253)
T ss_pred cCCceEEEECCCCcCHHHHHHHHH
Confidence 455666788999999999997653
No 476
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=91.64 E-value=0.29 Score=53.13 Aligned_cols=46 Identities=20% Similarity=0.209 Sum_probs=31.8
Q ss_pred HHHHHHHHhccCCCCCCCeEEEEccCCCcHHHHHHHHHHHHHh--CCeEEEEeCC
Q psy3261 51 LELVGYLKSMTNFDRPSPRFVLYGEHGVGKSMALVYALQYAHE--NNYLLVHIPW 103 (342)
Q Consensus 51 ~el~~~l~~~~~~~~~~~r~vL~G~~GsGKS~~L~q~~~~A~~--~gwiVl~vP~ 103 (342)
-+|++.+++ +..+||.|++||||||-+-|.+.-+-- .|-|++.=|+
T Consensus 56 ~~i~~ai~~-------~~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPR 103 (845)
T COG1643 56 DEILKAIEQ-------NQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPR 103 (845)
T ss_pred HHHHHHHHh-------CCEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCch
Confidence 366777766 889999999999999977766554431 2344444453
No 477
>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.
Probab=91.64 E-value=0.18 Score=43.61 Aligned_cols=25 Identities=32% Similarity=0.402 Sum_probs=21.7
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
.++..+.|.|+.|||||++|.-+.-
T Consensus 24 ~~Ge~~~l~G~nGsGKSTLl~~i~G 48 (163)
T cd03216 24 RRGEVHALLGENGAGKSTLMKILSG 48 (163)
T ss_pred eCCCEEEEECCCCCCHHHHHHHHhC
Confidence 4688999999999999999986653
No 478
>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.
Probab=91.63 E-value=0.17 Score=45.78 Aligned_cols=35 Identities=23% Similarity=0.291 Sum_probs=26.9
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-... ..|-|.+
T Consensus 29 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~ 64 (228)
T cd03257 29 KKGETLGLVGESGSGKSTLARAILGLLKPTSGSIIF 64 (228)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence 4688999999999999998887765432 4566544
No 479
>PLN02674 adenylate kinase
Probab=91.63 E-value=0.28 Score=45.69 Aligned_cols=32 Identities=25% Similarity=0.385 Sum_probs=23.3
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl 99 (342)
++..+++|.|++||||+|.-.. .|...||..|
T Consensus 29 ~~~~~i~l~G~PGsGKgT~a~~---La~~~~~~hi 60 (244)
T PLN02674 29 KPDKRLILIGPPGSGKGTQSPI---IKDEYCLCHL 60 (244)
T ss_pred ccCceEEEECCCCCCHHHHHHH---HHHHcCCcEE
Confidence 5578999999999999976443 3455565443
No 480
>PF02456 Adeno_IVa2: Adenovirus IVa2 protein; InterPro: IPR003389 Va2 protein can interact with the adenoviral packaging signal and this interaction involves DNA sequences that have previously been demonstrated to be required for packaging []. During the course of lytic infection, the adenovirus major late promoter (MLP) is induced to high levels after replication of viral DNA has started. IVa2 is a transcriptional activator of the major late promoter [].; GO: 0019083 viral transcription
Probab=91.61 E-value=0.24 Score=47.51 Aligned_cols=63 Identities=19% Similarity=0.208 Sum_probs=41.2
Q ss_pred CCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEeCCccccccCCcceeccCCCCCccccHHHHHHHHHHHHHhCcc
Q psy3261 66 PSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHIPWVLRWFAYPKEVSHSLTKEGMVDLNIDAAMWLRHFQKQNTK 143 (342)
Q Consensus 66 ~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~vP~~~~~~~~~~~~~~s~~~~~~~~qP~~a~~~L~~~~~~N~~ 143 (342)
...=-++|||.|||||-+|..++.- =++-.+|+.--++.-. -+ -.-|..-..|=-++.+.|=+
T Consensus 86 qP~I~~VYGPTG~GKSqLlRNLis~-----~lI~P~PETVfFItP~---------~~-mIpp~E~~aW~~Ql~EgNY~ 148 (369)
T PF02456_consen 86 QPFIGVVYGPTGSGKSQLLRNLISC-----QLIQPPPETVFFITPQ---------KD-MIPPQEITAWETQLCEGNYD 148 (369)
T ss_pred CceEEEEECCCCCCHHHHHHHhhhc-----CcccCCCCceEEECCC---------CC-CCCHHHHHHHHHHHHhcCCC
Confidence 3445678999999999999987753 3444445443332221 12 34677888888888777743
No 481
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=91.60 E-value=0.32 Score=49.90 Aligned_cols=37 Identities=14% Similarity=0.103 Sum_probs=32.3
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.+..-++|.|++|||||+++.|++..+..+|==|+||
T Consensus 271 ~~g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yi 307 (509)
T PRK09302 271 FRGSIILVSGATGTGKTLLASKFAEAACRRGERCLLF 307 (509)
T ss_pred CCCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEE
Confidence 5677889999999999999999999887777777776
No 482
>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=91.57 E-value=0.18 Score=43.87 Aligned_cols=25 Identities=24% Similarity=0.390 Sum_probs=21.3
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
.++..+.|.|+.|||||++|.-+.-
T Consensus 24 ~~Ge~~~i~G~nGsGKStLl~~l~G 48 (173)
T cd03230 24 EKGEIYGLLGPNGAGKTTLIKIILG 48 (173)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHhC
Confidence 4678999999999999999886643
No 483
>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=91.57 E-value=0.16 Score=43.12 Aligned_cols=23 Identities=22% Similarity=0.319 Sum_probs=20.2
Q ss_pred CCeEEEEccCCCcHHHHHHHHHH
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
..++++.|+.|+|||+++.+...
T Consensus 3 ~~kv~vvG~~~~GKTsli~~l~~ 25 (165)
T cd01864 3 LFKIILIGDSNVGKTCVVQRFKS 25 (165)
T ss_pred eeEEEEECCCCCCHHHHHHHHhh
Confidence 46899999999999999998754
No 484
>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]
Probab=91.56 E-value=0.16 Score=49.66 Aligned_cols=35 Identities=20% Similarity=0.357 Sum_probs=25.3
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++.-+.|-||.||||||+|.-+.-.-. ..|-|.+
T Consensus 29 ~~Gef~~lLGPSGcGKTTlLR~IAGfe~p~~G~I~l 64 (352)
T COG3842 29 KKGEFVTLLGPSGCGKTTLLRMIAGFEQPSSGEILL 64 (352)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence 3456677999999999999998876543 3454443
No 485
>KOG0733|consensus
Probab=91.56 E-value=0.14 Score=53.29 Aligned_cols=20 Identities=35% Similarity=0.561 Sum_probs=17.7
Q ss_pred CCCCeEEEEccCCCcHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMAL 84 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L 84 (342)
.|...++|+||+|||||++.
T Consensus 221 ~PprGvLlHGPPGCGKT~lA 240 (802)
T KOG0733|consen 221 RPPRGVLLHGPPGCGKTSLA 240 (802)
T ss_pred CCCCceeeeCCCCccHHHHH
Confidence 58899999999999999763
No 486
>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional
Probab=91.55 E-value=0.18 Score=46.07 Aligned_cols=35 Identities=17% Similarity=0.196 Sum_probs=27.0
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-... ..|-|.+
T Consensus 33 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i~~ 68 (233)
T PRK11629 33 GEGEMMAIVGSSGSGKSTLLHLLGGLDTPTSGDVIF 68 (233)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHhcCCCCCceEEEE
Confidence 4678999999999999999888876543 4566544
No 487
>PRK14235 phosphate transporter ATP-binding protein; Provisional
Probab=91.55 E-value=0.23 Score=46.43 Aligned_cols=35 Identities=17% Similarity=0.159 Sum_probs=28.9
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH------hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH------ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~------~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-... ..|-|.+
T Consensus 43 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~~~~~~G~I~~ 83 (267)
T PRK14235 43 PEKTVTAFIGPSGCGKSTFLRCLNRMNDTIDGCRVTGKITL 83 (267)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHHhhcccccCCCCceEEEE
Confidence 5788999999999999999998887653 4687765
No 488
>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=91.55 E-value=0.3 Score=44.31 Aligned_cols=39 Identities=18% Similarity=0.247 Sum_probs=25.8
Q ss_pred CCeEEEEccCCCcHHHHHHHHHHHHHhC---CeEEEEeCCcc
Q psy3261 67 SPRFVLYGEHGVGKSMALVYALQYAHEN---NYLLVHIPWVL 105 (342)
Q Consensus 67 ~~r~vL~G~~GsGKS~~L~q~~~~A~~~---gwiVl~vP~~~ 105 (342)
...+++.|+.|||||++...+......+ .=||+.-|...
T Consensus 19 ~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~ 60 (205)
T PF02562_consen 19 NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVE 60 (205)
T ss_dssp -SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCC
Confidence 6699999999999999988888777665 34555556553
No 489
>PRK14731 coaE dephospho-CoA kinase; Provisional
Probab=91.55 E-value=0.22 Score=44.91 Aligned_cols=30 Identities=20% Similarity=0.123 Sum_probs=24.3
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
..+.|+|..|||||+++..+.. .|+-|+.-
T Consensus 6 ~~igitG~igsGKSt~~~~l~~----~g~~v~d~ 35 (208)
T PRK14731 6 FLVGVTGGIGSGKSTVCRFLAE----MGCELFEA 35 (208)
T ss_pred EEEEEECCCCCCHHHHHHHHHH----CCCeEEec
Confidence 4567999999999999888764 58888773
No 490
>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=91.54 E-value=0.18 Score=46.09 Aligned_cols=35 Identities=26% Similarity=0.343 Sum_probs=27.3
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-... ..|-|.+
T Consensus 25 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~ 60 (241)
T cd03256 25 NPGEFVALIGPSGAGKSTLLRCLNGLVEPTSGSVLI 60 (241)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHhCCcCCCCceEEE
Confidence 4688999999999999999888775432 4576654
No 491
>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake. NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.
Probab=91.53 E-value=0.18 Score=45.36 Aligned_cols=35 Identities=23% Similarity=0.367 Sum_probs=25.9
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-... ..|=|.+
T Consensus 29 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~ 64 (218)
T cd03266 29 KPGEVTGLLGPNGAGKTTTLRMLAGLLEPDAGFATV 64 (218)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHhCCcCCCCceEEE
Confidence 4678899999999999999977765432 4565544
No 492
>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=91.52 E-value=0.17 Score=42.88 Aligned_cols=25 Identities=36% Similarity=0.498 Sum_probs=20.9
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQ 89 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~ 89 (342)
.++..+.|.|+.|||||+++.-+.-
T Consensus 24 ~~Ge~~~i~G~nGsGKStLl~~l~G 48 (144)
T cd03221 24 NPGDRIGLVGRNGAGKSTLLKLIAG 48 (144)
T ss_pred CCCCEEEEECCCCCCHHHHHHHHcC
Confidence 5678999999999999998876543
No 493
>PRK13541 cytochrome c biogenesis protein CcmA; Provisional
Probab=91.52 E-value=0.18 Score=44.67 Aligned_cols=34 Identities=24% Similarity=0.278 Sum_probs=25.8
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLL 98 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiV 98 (342)
.++..+.|.|+.||||||+|.-+.-... ..|=+.
T Consensus 24 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i~ 58 (195)
T PRK13541 24 LPSAITYIKGANGCGKSSLLRMIAGIMQPSSGNIY 58 (195)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHhcCCCCCCcEEE
Confidence 4678999999999999999887765432 345544
No 494
>PRK13949 shikimate kinase; Provisional
Probab=91.52 E-value=0.18 Score=44.04 Aligned_cols=31 Identities=19% Similarity=0.211 Sum_probs=22.5
Q ss_pred CeEEEEccCCCcHHHHHHHHHHHHHhCCeEEEEe
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQYAHENNYLLVHI 101 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~A~~~gwiVl~v 101 (342)
.+++|.|++|||||++...+... -||-++..
T Consensus 2 ~~I~liG~~GsGKstl~~~La~~---l~~~~id~ 32 (169)
T PRK13949 2 ARIFLVGYMGAGKTTLGKALARE---LGLSFIDL 32 (169)
T ss_pred cEEEEECCCCCCHHHHHHHHHHH---cCCCeecc
Confidence 37999999999999998865543 35544443
No 495
>PRK05595 replicative DNA helicase; Provisional
Probab=91.51 E-value=0.37 Score=48.65 Aligned_cols=37 Identities=11% Similarity=0.163 Sum_probs=31.4
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHH-HHhCCeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQY-AHENNYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~-A~~~gwiVl~v 101 (342)
.++.-++|-|.+|+|||++..|++.. |..+|+=|+++
T Consensus 199 ~~g~liviaarpg~GKT~~al~ia~~~a~~~g~~vl~f 236 (444)
T PRK05595 199 QKGDMILIAARPSMGKTTFALNIAEYAALREGKSVAIF 236 (444)
T ss_pred CCCcEEEEEecCCCChHHHHHHHHHHHHHHcCCcEEEE
Confidence 35677889999999999999999975 67788888777
No 496
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=91.51 E-value=0.19 Score=44.49 Aligned_cols=23 Identities=26% Similarity=0.317 Sum_probs=20.1
Q ss_pred CeEEEEccCCCcHHHHHHHHHHH
Q psy3261 68 PRFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 68 ~r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
.|++|-|++|+||||.-..+...
T Consensus 1 ~riiilG~pGaGK~T~A~~La~~ 23 (178)
T COG0563 1 MRILILGPPGAGKSTLAKKLAKK 23 (178)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH
Confidence 37899999999999998887766
No 497
>PRK05748 replicative DNA helicase; Provisional
Probab=91.50 E-value=0.37 Score=48.71 Aligned_cols=37 Identities=14% Similarity=0.187 Sum_probs=31.5
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHH-HhCCeEEEEe
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYA-HENNYLLVHI 101 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A-~~~gwiVl~v 101 (342)
.++.-++|-|.+|+|||++..|++..+ .+.|+-|+++
T Consensus 201 ~~G~livIaarpg~GKT~~al~ia~~~a~~~g~~v~~f 238 (448)
T PRK05748 201 QPNDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIF 238 (448)
T ss_pred CCCceEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEE
Confidence 466789999999999999999999875 4668888777
No 498
>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP. Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=91.50 E-value=0.18 Score=45.10 Aligned_cols=35 Identities=20% Similarity=0.303 Sum_probs=27.7
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-... ..|.|.+
T Consensus 22 ~~Ge~~~l~G~nGsGKSTLl~~l~gl~~~~~G~i~~ 57 (211)
T cd03298 22 AQGEITAIVGPSGSGKSTLLNLIAGFETPQSGRVLI 57 (211)
T ss_pred cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEE
Confidence 5688999999999999999977765543 4577655
No 499
>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=91.50 E-value=0.18 Score=45.09 Aligned_cols=35 Identities=23% Similarity=0.263 Sum_probs=26.9
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHHHH-hCCeEEE
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQYAH-ENNYLLV 99 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~A~-~~gwiVl 99 (342)
.++..+.|.|+.||||||+|.-+.-.-. ..|-|.+
T Consensus 25 ~~G~~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i~~ 60 (211)
T cd03225 25 KKGEFVLIVGPNGSGKSTLLRLLNGLLGPTSGEVLV 60 (211)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHhcCCCCCCceEEE
Confidence 4678899999999999999887665432 4677665
No 500
>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.
Probab=91.49 E-value=0.18 Score=44.26 Aligned_cols=26 Identities=15% Similarity=0.092 Sum_probs=22.1
Q ss_pred CCCCeEEEEccCCCcHHHHHHHHHHH
Q psy3261 65 RPSPRFVLYGEHGVGKSMALVYALQY 90 (342)
Q Consensus 65 ~~~~r~vL~G~~GsGKS~~L~q~~~~ 90 (342)
.++..+.|.|+.||||||+|.-+.-.
T Consensus 24 ~~G~~~~i~G~nGsGKSTLl~~l~G~ 49 (182)
T cd03215 24 RAGEIVGIAGLVGNGQTELAEALFGL 49 (182)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHhCC
Confidence 46789999999999999988876644
Done!