Query psy8456
Match_columns 353
No_of_seqs 236 out of 1346
Neff 5.0
Searched_HMMs 46136
Date Fri Aug 16 19:20:22 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8456.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8456hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00293 thymidine kinase; Pro 100.0 3.5E-50 7.5E-55 372.4 13.5 141 10-150 14-155 (211)
2 PF00265 TK: Thymidine kinase; 100.0 1.2E-49 2.5E-54 359.1 14.4 140 10-149 11-154 (176)
3 PTZ00293 thymidine kinase; Pro 100.0 7.1E-49 1.5E-53 363.6 15.2 157 149-351 3-160 (211)
4 COG1435 Tdk Thymidine kinase [ 100.0 8.1E-50 1.8E-54 365.0 8.5 142 10-151 14-163 (201)
5 PF00265 TK: Thymidine kinase; 100.0 6.3E-48 1.4E-52 347.8 15.5 154 150-349 1-158 (176)
6 COG1435 Tdk Thymidine kinase [ 100.0 1.8E-48 3.9E-53 356.2 9.2 156 149-348 3-164 (201)
7 KOG3125|consensus 100.0 4.1E-47 9E-52 346.4 11.9 160 147-352 24-189 (234)
8 KOG3125|consensus 100.0 5.1E-47 1.1E-51 345.8 10.0 142 10-151 37-184 (234)
9 PRK04296 thymidine kinase; Pro 100.0 5.6E-38 1.2E-42 283.9 13.2 141 10-150 12-158 (190)
10 PRK04296 thymidine kinase; Pro 100.0 1.7E-34 3.7E-39 261.2 15.1 154 150-347 2-159 (190)
11 PF13604 AAA_30: AAA domain; P 97.8 3.1E-05 6.6E-10 70.8 5.9 78 150-234 18-105 (196)
12 PF13173 AAA_14: AAA domain 97.5 0.00027 5.8E-09 59.8 6.4 34 150-184 2-35 (128)
13 PRK07413 hypothetical protein; 97.3 0.0037 8E-08 63.5 13.6 170 11-191 30-247 (382)
14 COG1618 Predicted nucleotide k 97.3 0.0014 3.1E-08 59.8 8.9 81 153-235 8-113 (179)
15 cd01121 Sms Sms (bacterial rad 97.3 0.0011 2.5E-08 66.8 9.0 142 150-328 82-232 (372)
16 PF13604 AAA_30: AAA domain; P 97.1 0.0003 6.4E-09 64.3 3.0 91 10-105 28-128 (196)
17 cd01120 RecA-like_NTPases RecA 97.0 0.0034 7.4E-08 52.6 8.4 36 153-188 2-37 (165)
18 PF05707 Zot: Zonular occluden 97.0 0.001 2.2E-08 60.5 4.9 32 152-183 2-34 (193)
19 PRK08084 DNA replication initi 97.0 0.0014 3E-08 61.5 6.0 63 152-234 47-109 (235)
20 PF01443 Viral_helicase1: Vira 96.9 0.0028 6E-08 57.6 7.5 21 154-174 2-22 (234)
21 PF00308 Bac_DnaA: Bacterial d 96.9 0.00085 1.8E-08 62.5 4.0 71 152-234 36-109 (219)
22 PF09848 DUF2075: Uncharacteri 96.9 0.0013 2.8E-08 65.1 5.1 83 152-234 3-95 (352)
23 smart00382 AAA ATPases associa 96.9 0.00064 1.4E-08 54.2 2.3 38 151-188 3-40 (148)
24 PF07652 Flavi_DEAD: Flaviviru 96.9 0.0021 4.6E-08 57.4 5.8 38 150-187 4-42 (148)
25 PF07652 Flavi_DEAD: Flaviviru 96.9 0.0039 8.6E-08 55.8 7.5 89 10-102 14-130 (148)
26 PRK11823 DNA repair protein Ra 96.9 0.0034 7.5E-08 64.6 8.2 81 150-234 80-168 (446)
27 cd01124 KaiC KaiC is a circadi 96.8 0.0089 1.9E-07 52.5 9.5 138 153-330 2-165 (187)
28 TIGR00416 sms DNA repair prote 96.8 0.0034 7.5E-08 64.9 7.7 143 150-329 94-245 (454)
29 PF13401 AAA_22: AAA domain; P 96.8 0.00043 9.4E-09 57.2 0.8 38 150-187 4-46 (131)
30 PRK08727 hypothetical protein; 96.7 0.0037 8E-08 58.6 6.5 63 152-234 43-105 (233)
31 PRK14087 dnaA chromosomal repl 96.7 0.001 2.3E-08 68.5 3.1 73 152-234 143-218 (450)
32 PF02399 Herpes_ori_bp: Origin 96.6 0.0032 7E-08 69.0 5.9 83 150-232 49-152 (824)
33 PRK05642 DNA replication initi 96.6 0.0043 9.4E-08 58.2 6.0 62 152-234 47-109 (234)
34 PRK06893 DNA replication initi 96.6 0.0053 1.1E-07 57.3 6.5 62 153-234 42-103 (229)
35 smart00487 DEXDc DEAD-like hel 96.5 0.0031 6.7E-08 53.7 4.4 37 151-187 25-63 (201)
36 cd00009 AAA The AAA+ (ATPases 96.5 0.0037 8E-08 50.5 4.2 37 150-186 19-55 (151)
37 cd00561 CobA_CobO_BtuR ATP:cor 96.4 0.023 5.1E-07 51.2 9.1 132 150-330 3-155 (159)
38 PRK12422 chromosomal replicati 96.4 0.0041 9E-08 64.1 4.8 72 152-234 143-214 (445)
39 PRK14086 dnaA chromosomal repl 96.3 0.0036 7.8E-08 67.1 4.4 70 153-234 317-389 (617)
40 PF03266 NTPase_1: NTPase; In 96.3 0.0082 1.8E-07 54.0 6.0 30 153-182 2-31 (168)
41 TIGR00708 cobA cob(I)alamin ad 96.2 0.023 5E-07 52.0 8.5 131 152-330 7-157 (173)
42 COG1373 Predicted ATPase (AAA+ 96.2 0.01 2.2E-07 60.3 6.8 67 152-234 39-106 (398)
43 TIGR00708 cobA cob(I)alamin ad 96.2 0.038 8.3E-07 50.5 9.6 114 11-134 16-157 (173)
44 PRK05703 flhF flagellar biosyn 96.1 0.023 4.9E-07 58.4 8.5 143 150-318 221-380 (424)
45 PF13245 AAA_19: Part of AAA d 96.1 0.0098 2.1E-07 46.9 4.5 38 150-187 10-51 (76)
46 PRK00149 dnaA chromosomal repl 96.0 0.0067 1.4E-07 62.1 4.2 72 152-234 150-223 (450)
47 TIGR03420 DnaA_homol_Hda DnaA 95.9 0.027 5.9E-07 51.1 7.2 64 151-234 39-102 (226)
48 cd01131 PilT Pilus retraction 95.9 0.052 1.1E-06 49.6 9.0 35 151-185 2-37 (198)
49 PRK12723 flagellar biosynthesi 95.9 0.022 4.8E-07 58.0 7.2 83 150-234 174-266 (388)
50 COG1066 Sms Predicted ATP-depe 95.8 0.055 1.2E-06 55.9 9.8 117 150-302 93-218 (456)
51 TIGR00176 mobB molybdopterin-g 95.8 0.036 7.8E-07 49.1 7.6 35 153-187 2-36 (155)
52 TIGR00362 DnaA chromosomal rep 95.8 0.0082 1.8E-07 60.4 3.9 72 152-234 138-211 (405)
53 PRK06526 transposase; Provisio 95.7 0.011 2.4E-07 56.7 4.2 72 152-234 100-171 (254)
54 PRK08903 DnaA regulatory inact 95.7 0.065 1.4E-06 49.2 9.2 60 151-234 43-102 (227)
55 cd01120 RecA-like_NTPases RecA 95.7 0.079 1.7E-06 44.2 8.8 123 10-132 9-164 (165)
56 PF00437 T2SE: Type II/IV secr 95.7 0.043 9.4E-07 51.8 8.0 79 150-233 127-208 (270)
57 TIGR02768 TraA_Ti Ti-type conj 95.7 0.03 6.4E-07 61.4 7.7 78 150-234 368-451 (744)
58 PRK05973 replicative DNA helic 95.6 0.054 1.2E-06 51.7 8.4 89 91-189 14-103 (237)
59 cd01129 PulE-GspE PulE/GspE Th 95.6 0.042 9.1E-07 52.8 7.5 79 150-233 80-160 (264)
60 TIGR01618 phage_P_loop phage n 95.5 0.04 8.7E-07 52.1 7.1 147 151-328 13-181 (220)
61 TIGR02525 plasmid_TraJ plasmid 95.5 0.069 1.5E-06 54.2 9.2 83 150-233 149-236 (372)
62 TIGR03499 FlhF flagellar biosy 95.4 0.01 2.2E-07 57.4 2.8 80 150-231 194-281 (282)
63 cd01121 Sms Sms (bacterial rad 95.4 0.04 8.7E-07 55.7 7.2 118 9-132 91-232 (372)
64 PF13173 AAA_14: AAA domain 95.4 0.025 5.3E-07 47.8 4.8 85 8-107 10-98 (128)
65 PF02702 KdpD: Osmosensitive K 95.4 0.082 1.8E-06 49.9 8.5 35 150-184 4-39 (211)
66 TIGR00595 priA primosomal prot 95.4 0.028 6.1E-07 58.9 6.1 80 154-233 1-104 (505)
67 PRK08116 hypothetical protein; 95.4 0.036 7.7E-07 53.4 6.3 73 152-233 116-189 (268)
68 PHA00350 putative assembly pro 95.3 0.042 9.1E-07 56.3 7.0 31 152-182 3-34 (399)
69 cd00561 CobA_CobO_BtuR ATP:cor 95.3 0.069 1.5E-06 48.2 7.4 114 10-134 12-155 (159)
70 PRK06921 hypothetical protein; 95.3 0.032 6.9E-07 53.7 5.5 70 151-233 118-188 (266)
71 COG0593 DnaA ATPase involved i 95.2 0.012 2.7E-07 60.3 2.9 71 151-234 114-187 (408)
72 PRK14974 cell division protein 95.2 0.036 7.8E-07 55.5 6.0 81 150-234 140-234 (336)
73 PRK06620 hypothetical protein; 95.2 0.045 9.9E-07 50.9 6.3 18 153-171 47-64 (214)
74 PF02562 PhoH: PhoH-like prote 95.2 0.14 3.1E-06 48.0 9.4 40 150-189 19-60 (205)
75 TIGR01420 pilT_fam pilus retra 95.1 0.1 2.2E-06 51.9 8.7 80 150-232 122-205 (343)
76 COG0552 FtsY Signal recognitio 95.1 0.032 6.8E-07 56.0 5.1 79 151-234 140-233 (340)
77 PRK11889 flhF flagellar biosyn 95.0 0.051 1.1E-06 56.1 6.6 142 151-318 242-400 (436)
78 cd03283 ABC_MutS-like MutS-lik 95.0 0.26 5.6E-06 45.3 10.6 21 150-170 25-45 (199)
79 PRK05986 cob(I)alamin adenolsy 95.0 0.1 2.2E-06 48.5 7.8 115 11-134 33-175 (191)
80 PRK06067 flagellar accessory p 95.0 0.11 2.3E-06 48.2 8.0 38 150-187 25-62 (234)
81 PRK14722 flhF flagellar biosyn 94.9 0.07 1.5E-06 54.3 7.1 82 150-233 137-226 (374)
82 PRK12727 flagellar biosynthesi 94.9 0.097 2.1E-06 55.7 8.2 144 150-319 350-508 (559)
83 PRK10436 hypothetical protein; 94.8 0.079 1.7E-06 55.2 7.4 80 149-233 217-298 (462)
84 PRK13889 conjugal transfer rel 94.8 0.067 1.5E-06 60.5 7.4 78 150-234 362-445 (988)
85 TIGR00635 ruvB Holliday juncti 94.8 0.065 1.4E-06 51.2 6.4 61 153-234 33-93 (305)
86 PF02572 CobA_CobO_BtuR: ATP:c 94.8 0.035 7.6E-07 50.7 4.2 115 11-134 14-156 (172)
87 PRK14088 dnaA chromosomal repl 94.8 0.039 8.4E-07 56.8 4.9 71 152-234 132-206 (440)
88 PF09848 DUF2075: Uncharacteri 94.7 0.032 7E-07 55.2 4.1 116 8-124 9-145 (352)
89 COG3854 SpoIIIAA ncharacterize 94.7 0.15 3.3E-06 49.6 8.3 36 149-184 135-176 (308)
90 PRK12726 flagellar biosynthesi 94.7 0.2 4.3E-06 51.6 9.6 144 149-318 205-365 (407)
91 COG1763 MobB Molybdopterin-gua 94.7 0.15 3.2E-06 46.2 7.8 37 154-190 6-42 (161)
92 PRK00411 cdc6 cell division co 94.6 0.024 5.1E-07 56.1 2.8 32 153-184 58-91 (394)
93 PRK10416 signal recognition pa 94.6 0.05 1.1E-06 53.9 4.9 37 150-186 114-150 (318)
94 PF13479 AAA_24: AAA domain 94.5 0.08 1.7E-06 48.9 6.0 71 152-234 5-80 (213)
95 PF01443 Viral_helicase1: Vira 94.5 0.11 2.3E-06 47.3 6.6 97 10-119 8-106 (234)
96 PRK13695 putative NTPase; Prov 94.4 0.29 6.2E-06 43.2 9.1 30 153-182 3-32 (174)
97 cd03282 ABC_MSH4_euk MutS4 hom 94.4 0.78 1.7E-05 42.5 12.2 82 150-233 29-119 (204)
98 PRK10536 hypothetical protein; 94.4 0.18 3.8E-06 49.2 8.1 42 150-191 74-117 (262)
99 PRK05986 cob(I)alamin adenolsy 94.4 0.24 5.2E-06 46.1 8.7 132 151-330 23-175 (191)
100 PRK00771 signal recognition pa 94.3 0.075 1.6E-06 55.0 5.8 82 150-233 95-186 (437)
101 TIGR03015 pepcterm_ATPase puta 94.3 0.017 3.8E-07 53.8 1.0 27 149-175 42-68 (269)
102 cd01672 TMPK Thymidine monopho 94.3 0.068 1.5E-06 46.8 4.7 39 152-190 2-40 (200)
103 PRK13826 Dtr system oriT relax 94.3 0.1 2.2E-06 59.6 7.1 78 150-234 397-480 (1102)
104 PHA00012 I assembly protein 94.2 0.35 7.6E-06 48.9 10.0 31 152-182 3-33 (361)
105 PRK00080 ruvB Holliday junctio 94.2 0.14 2.9E-06 50.2 7.1 62 152-234 53-114 (328)
106 PF00448 SRP54: SRP54-type pro 94.2 0.067 1.5E-06 49.3 4.6 80 152-233 3-94 (196)
107 PRK07414 cob(I)yrinic acid a,c 94.1 0.49 1.1E-05 43.7 10.1 114 11-133 32-174 (178)
108 PRK08084 DNA replication initi 94.1 0.14 3.1E-06 48.0 6.6 37 70-106 95-139 (235)
109 cd00046 DEXDc DEAD-like helica 94.0 0.069 1.5E-06 42.5 3.9 37 153-189 3-41 (144)
110 TIGR00064 ftsY signal recognit 94.0 0.08 1.7E-06 51.2 5.0 36 150-185 72-107 (272)
111 cd01124 KaiC KaiC is a circadi 94.0 0.4 8.8E-06 41.9 9.0 124 9-134 8-165 (187)
112 PRK12724 flagellar biosynthesi 94.0 0.1 2.2E-06 54.1 5.9 142 150-317 223-381 (432)
113 TIGR02538 type_IV_pilB type IV 93.9 0.16 3.4E-06 54.0 7.3 80 149-233 315-396 (564)
114 PRK08181 transposase; Validate 93.8 0.061 1.3E-06 52.1 3.8 71 153-234 109-179 (269)
115 PF05496 RuvB_N: Holliday junc 93.8 0.17 3.7E-06 48.5 6.6 60 153-234 53-113 (233)
116 PRK14494 putative molybdopteri 93.7 0.2 4.3E-06 47.7 7.0 36 153-188 4-39 (229)
117 TIGR01448 recD_rel helicase, p 93.7 0.16 3.5E-06 55.6 7.1 39 149-187 337-377 (720)
118 TIGR02524 dot_icm_DotB Dot/Icm 93.5 0.25 5.5E-06 49.8 7.7 37 149-185 133-172 (358)
119 PRK12377 putative replication 93.5 0.089 1.9E-06 50.5 4.3 72 152-233 103-174 (248)
120 PRK07952 DNA replication prote 93.5 0.057 1.2E-06 51.6 2.9 73 152-233 101-173 (244)
121 TIGR00041 DTMP_kinase thymidyl 93.5 0.1 2.2E-06 46.5 4.3 41 150-190 3-43 (195)
122 TIGR00595 priA primosomal prot 93.4 2.3 4.9E-05 44.8 14.9 162 9-187 6-207 (505)
123 TIGR02533 type_II_gspE general 93.3 0.16 3.6E-06 53.1 6.1 77 149-233 241-322 (486)
124 TIGR02655 circ_KaiC circadian 93.2 0.41 9E-06 49.8 9.0 36 152-187 265-300 (484)
125 PRK08727 hypothetical protein; 93.2 0.27 5.8E-06 46.1 6.9 39 68-106 89-134 (233)
126 PRK09183 transposase/IS protei 93.2 0.1 2.2E-06 50.0 4.1 114 91-234 60-176 (259)
127 COG1618 Predicted nucleotide k 93.2 0.5 1.1E-05 43.5 8.3 95 9-106 14-137 (179)
128 PHA00547 hypothetical protein 93.1 0.37 8.1E-06 47.6 7.8 30 149-178 74-103 (337)
129 COG1419 FlhF Flagellar GTP-bin 93.1 0.081 1.8E-06 54.3 3.5 132 150-304 203-350 (407)
130 cd01983 Fer4_NifH The Fer4_Nif 93.1 0.24 5.2E-06 37.6 5.4 32 154-185 3-34 (99)
131 PRK05580 primosome assembly pr 93.0 0.21 4.6E-06 54.2 6.8 83 151-233 163-269 (679)
132 PF02399 Herpes_ori_bp: Origin 93.0 0.24 5.1E-06 54.9 7.0 112 9-122 58-202 (824)
133 KOG0922|consensus 92.9 0.18 3.8E-06 54.6 5.8 84 150-233 66-174 (674)
134 COG2804 PulE Type II secretory 92.9 0.17 3.6E-06 53.3 5.5 79 149-233 257-338 (500)
135 PF02572 CobA_CobO_BtuR: ATP:c 92.9 0.3 6.6E-06 44.6 6.5 132 150-330 4-156 (172)
136 PF03205 MobB: Molybdopterin g 92.9 0.16 3.4E-06 44.4 4.5 36 153-188 3-38 (140)
137 PF13401 AAA_22: AAA domain; P 92.8 0.028 6.1E-07 46.3 -0.2 100 9-111 13-128 (131)
138 PRK13900 type IV secretion sys 92.8 0.2 4.4E-06 49.9 5.7 78 152-233 162-246 (332)
139 PRK06835 DNA replication prote 92.8 0.35 7.6E-06 48.2 7.4 73 151-233 184-257 (329)
140 TIGR02788 VirB11 P-type DNA tr 92.6 0.2 4.4E-06 49.0 5.4 83 150-233 144-229 (308)
141 PRK14087 dnaA chromosomal repl 92.6 0.091 2E-06 54.3 3.0 87 9-105 150-246 (450)
142 cd03112 CobW_like The function 92.4 0.26 5.6E-06 43.4 5.3 35 152-188 2-36 (158)
143 cd00046 DEXDc DEAD-like helica 92.4 0.067 1.5E-06 42.6 1.4 32 8-39 8-41 (144)
144 PF13086 AAA_11: AAA domain; P 92.4 0.11 2.3E-06 46.2 2.9 37 152-188 19-63 (236)
145 PRK11823 DNA repair protein Ra 92.4 0.36 7.9E-06 49.9 7.1 118 9-132 89-230 (446)
146 PF12846 AAA_10: AAA-like doma 92.3 0.15 3.2E-06 47.4 3.8 37 153-189 4-40 (304)
147 TIGR01447 recD exodeoxyribonuc 92.3 0.23 5E-06 53.2 5.7 39 149-187 159-202 (586)
148 COG0467 RAD55 RecA-superfamily 92.3 0.21 4.5E-06 47.1 4.8 39 150-188 23-61 (260)
149 cd01130 VirB11-like_ATPase Typ 92.2 0.32 6.9E-06 43.8 5.8 34 150-184 25-58 (186)
150 PF00488 MutS_V: MutS domain V 92.2 0.66 1.4E-05 43.9 8.1 81 151-233 44-133 (235)
151 TIGR01425 SRP54_euk signal rec 92.1 0.24 5.1E-06 51.4 5.4 36 151-186 101-136 (429)
152 PF00308 Bac_DnaA: Bacterial d 92.1 0.14 3.1E-06 47.7 3.4 44 63-106 88-138 (219)
153 PRK14723 flhF flagellar biosyn 92.1 0.089 1.9E-06 58.0 2.4 82 150-233 185-274 (767)
154 cd03114 ArgK-like The function 92.1 0.51 1.1E-05 41.4 6.7 39 154-192 3-41 (148)
155 cd03115 SRP The signal recogni 92.1 0.23 5E-06 43.6 4.6 81 152-234 2-94 (173)
156 PF02492 cobW: CobW/HypB/UreG, 92.0 0.19 4.2E-06 44.9 4.1 36 152-188 2-37 (178)
157 TIGR02782 TrbB_P P-type conjug 91.9 0.36 7.8E-06 47.3 6.2 77 152-233 134-215 (299)
158 COG2256 MGS1 ATPase related to 91.8 0.35 7.6E-06 49.9 6.0 44 122-166 12-64 (436)
159 COG0378 HypB Ni2+-binding GTPa 91.7 0.21 4.5E-06 46.9 4.1 38 155-193 18-55 (202)
160 TIGR01970 DEAH_box_HrpB ATP-de 91.7 0.23 5.1E-06 55.2 5.1 39 150-188 17-55 (819)
161 TIGR00416 sms DNA repair prote 91.7 0.36 7.9E-06 50.1 6.2 119 9-133 103-245 (454)
162 PRK10751 molybdopterin-guanine 91.6 0.29 6.3E-06 44.7 4.8 36 152-187 8-43 (173)
163 TIGR02881 spore_V_K stage V sp 91.6 0.48 1E-05 44.9 6.5 20 153-172 45-64 (261)
164 TIGR00073 hypB hydrogenase acc 91.6 0.55 1.2E-05 42.9 6.7 33 154-187 26-58 (207)
165 PRK04195 replication factor C 91.6 0.33 7.1E-06 50.3 5.8 33 151-186 40-72 (482)
166 PRK00889 adenylylsulfate kinas 91.4 0.29 6.4E-06 43.1 4.5 36 150-185 4-39 (175)
167 TIGR02768 TraA_Ti Ti-type conj 91.3 0.41 8.9E-06 52.6 6.5 91 10-105 378-474 (744)
168 PRK05541 adenylylsulfate kinas 91.3 0.29 6.4E-06 43.1 4.4 35 150-184 7-41 (176)
169 PRK12422 chromosomal replicati 91.2 0.26 5.7E-06 51.0 4.6 86 9-105 150-242 (445)
170 smart00487 DEXDc DEAD-like hel 91.1 0.51 1.1E-05 40.0 5.6 31 7-37 31-63 (201)
171 PRK00698 tmk thymidylate kinas 91.1 0.26 5.6E-06 43.9 3.9 37 150-186 3-39 (205)
172 PRK14738 gmk guanylate kinase; 90.9 0.61 1.3E-05 42.8 6.3 29 143-172 6-34 (206)
173 PF00004 AAA: ATPase family as 90.9 0.086 1.9E-06 43.0 0.6 65 154-234 2-70 (132)
174 cd01394 radB RadB. The archaea 90.7 0.4 8.6E-06 43.7 4.8 36 150-185 19-54 (218)
175 PRK09087 hypothetical protein; 90.7 0.56 1.2E-05 44.0 5.9 19 152-171 46-64 (226)
176 KOG0953|consensus 90.6 0.25 5.4E-06 52.8 3.8 149 151-336 192-365 (700)
177 TIGR02237 recomb_radB DNA repa 90.5 0.42 9.1E-06 43.1 4.8 38 150-187 12-49 (209)
178 TIGR02760 TraI_TIGR conjugativ 90.5 0.78 1.7E-05 55.6 8.2 38 150-187 446-483 (1960)
179 PRK06893 DNA replication initi 90.4 0.86 1.9E-05 42.5 6.9 38 69-106 88-132 (229)
180 cd03243 ABC_MutS_homologs The 90.4 0.45 9.8E-06 43.2 4.9 79 150-232 29-118 (202)
181 PF06745 KaiC: KaiC; InterPro 90.4 0.42 9.1E-06 43.8 4.7 38 150-187 19-57 (226)
182 PHA02558 uvsW UvsW helicase; P 90.3 2.1 4.6E-05 44.6 10.4 82 153-234 132-234 (501)
183 PRK10490 sensor protein KdpD; 90.3 1.5 3.3E-05 49.1 9.8 35 149-183 22-57 (895)
184 COG1484 DnaC DNA replication p 90.2 0.23 5E-06 47.6 2.9 72 151-233 106-178 (254)
185 PF01695 IstB_IS21: IstB-like 90.2 0.14 3E-06 46.4 1.4 70 153-233 50-119 (178)
186 PRK07414 cob(I)yrinic acid a,c 90.2 2 4.2E-05 39.7 8.8 132 149-329 21-174 (178)
187 PRK08939 primosomal protein Dn 90.1 0.21 4.6E-06 49.2 2.7 71 152-233 158-228 (306)
188 PRK05642 DNA replication initi 90.1 0.8 1.7E-05 43.0 6.5 39 68-106 93-138 (234)
189 TIGR03574 selen_PSTK L-seryl-t 90.1 0.36 7.8E-06 45.3 4.1 33 153-185 2-34 (249)
190 COG1373 Predicted ATPase (AAA+ 90.0 0.55 1.2E-05 47.8 5.6 82 8-105 45-128 (398)
191 PRK09361 radB DNA repair and r 90.0 0.49 1.1E-05 43.4 4.8 38 150-187 23-60 (225)
192 KOG0923|consensus 89.9 0.12 2.6E-06 56.2 0.8 80 151-233 281-389 (902)
193 PF13207 AAA_17: AAA domain; P 89.9 0.5 1.1E-05 38.5 4.3 27 153-182 2-28 (121)
194 cd00544 CobU Adenosylcobinamid 89.9 0.53 1.1E-05 42.5 4.8 78 152-234 1-85 (169)
195 TIGR02880 cbbX_cfxQ probable R 89.9 0.74 1.6E-05 44.6 6.2 26 153-178 61-86 (284)
196 PRK00091 miaA tRNA delta(2)-is 89.8 0.58 1.3E-05 46.3 5.5 24 151-174 5-28 (307)
197 cd03284 ABC_MutS1 MutS1 homolo 89.8 4.8 0.0001 37.4 11.3 21 150-170 30-50 (216)
198 cd03281 ABC_MSH5_euk MutS5 hom 89.8 0.44 9.5E-06 44.2 4.3 79 151-233 30-119 (213)
199 KOG1533|consensus 89.8 0.35 7.6E-06 47.1 3.7 39 153-191 5-45 (290)
200 COG1198 PriA Primosomal protei 89.6 1.5 3.2E-05 48.5 8.8 82 152-233 219-324 (730)
201 PRK14491 putative bifunctional 89.6 1.5 3.3E-05 47.2 8.8 35 152-186 12-46 (597)
202 cd02019 NK Nucleoside/nucleoti 89.5 0.47 1E-05 36.1 3.7 31 153-185 2-32 (69)
203 PRK13833 conjugal transfer pro 89.5 0.5 1.1E-05 47.1 4.8 75 152-233 146-226 (323)
204 cd00268 DEADc DEAD-box helicas 89.5 0.99 2.1E-05 40.1 6.2 38 150-187 36-78 (203)
205 PRK13764 ATPase; Provisional 89.4 1.2 2.6E-05 48.1 7.8 34 151-184 258-291 (602)
206 PRK13342 recombination factor 89.4 0.84 1.8E-05 46.4 6.4 19 153-171 39-57 (413)
207 cd00984 DnaB_C DnaB helicase C 89.2 0.58 1.3E-05 43.0 4.7 41 149-189 12-53 (242)
208 TIGR02928 orc1/cdc6 family rep 89.1 0.21 4.5E-06 48.9 1.7 24 152-175 42-65 (365)
209 PRK01184 hypothetical protein; 89.1 0.27 5.9E-06 43.5 2.4 27 152-182 3-29 (184)
210 TIGR01070 mutS1 DNA mismatch r 89.1 4.4 9.6E-05 45.4 12.2 81 151-233 593-682 (840)
211 PRK09435 membrane ATPase/prote 89.0 0.9 2E-05 45.5 6.1 35 152-186 58-92 (332)
212 cd00009 AAA The AAA+ (ATPases 88.8 1.7 3.8E-05 34.7 6.7 94 9-109 28-131 (151)
213 PRK10078 ribose 1,5-bisphospho 88.8 0.24 5.3E-06 44.4 1.8 20 150-169 2-21 (186)
214 PRK05399 DNA mismatch repair p 88.8 4.7 0.0001 45.2 12.2 82 150-233 607-697 (854)
215 PF05970 PIF1: PIF1-like helic 88.7 0.74 1.6E-05 46.1 5.4 84 150-234 22-114 (364)
216 smart00534 MUTSac ATPase domai 88.6 0.59 1.3E-05 42.1 4.2 79 153-233 2-89 (185)
217 PRK13826 Dtr system oriT relax 88.6 0.75 1.6E-05 52.8 5.9 108 10-122 407-524 (1102)
218 PF13555 AAA_29: P-loop contai 88.6 0.4 8.7E-06 36.9 2.6 18 150-167 23-40 (62)
219 TIGR03877 thermo_KaiC_1 KaiC d 88.6 0.66 1.4E-05 43.4 4.6 39 150-188 21-59 (237)
220 COG4098 comFA Superfamily II D 88.5 1.6 3.4E-05 44.7 7.4 80 151-233 117-213 (441)
221 cd03287 ABC_MSH3_euk MutS3 hom 88.5 3.5 7.6E-05 38.8 9.4 81 150-232 31-120 (222)
222 PF00580 UvrD-helicase: UvrD/R 88.4 0.58 1.3E-05 43.7 4.2 40 149-188 12-55 (315)
223 cd03109 DTBS Dethiobiotin synt 88.1 1.1 2.4E-05 38.4 5.4 35 154-189 4-38 (134)
224 PRK13894 conjugal transfer ATP 88.0 1.2 2.5E-05 44.3 6.2 77 151-233 149-230 (319)
225 PRK13889 conjugal transfer rel 88.0 0.76 1.6E-05 52.3 5.4 105 10-120 372-487 (988)
226 TIGR02012 tigrfam_recA protein 87.9 0.65 1.4E-05 46.4 4.3 37 150-186 55-91 (321)
227 TIGR03881 KaiC_arch_4 KaiC dom 87.8 0.87 1.9E-05 41.7 4.8 38 150-187 20-57 (229)
228 TIGR03420 DnaA_homol_Hda DnaA 87.7 1.6 3.4E-05 39.6 6.4 95 7-106 15-131 (226)
229 PRK12402 replication factor C 87.6 0.83 1.8E-05 43.9 4.8 23 153-175 39-61 (337)
230 PRK09519 recA DNA recombinatio 87.6 4.3 9.4E-05 45.3 10.8 82 150-234 60-150 (790)
231 smart00072 GuKc Guanylate kina 87.6 2 4.3E-05 38.4 6.9 19 151-169 3-21 (184)
232 COG0194 Gmk Guanylate kinase [ 87.6 0.68 1.5E-05 43.2 3.9 25 149-173 3-27 (191)
233 TIGR02322 phosphon_PhnN phosph 87.5 0.29 6.3E-06 43.1 1.5 24 151-174 2-25 (179)
234 cd00071 GMPK Guanosine monopho 87.4 1.9 4.1E-05 37.2 6.4 20 153-173 2-21 (137)
235 PRK03839 putative kinase; Prov 87.2 0.44 9.5E-06 42.1 2.5 22 153-174 3-24 (180)
236 PRK13851 type IV secretion sys 87.2 0.85 1.8E-05 45.9 4.7 79 151-233 163-247 (344)
237 cd03227 ABC_Class2 ABC-type Cl 87.0 1.1 2.3E-05 39.5 4.7 27 151-177 22-48 (162)
238 COG0703 AroK Shikimate kinase 87.0 0.28 6.1E-06 45.0 1.1 13 153-165 5-17 (172)
239 TIGR02760 TraI_TIGR conjugativ 86.9 1.3 2.7E-05 53.9 6.7 38 150-187 1036-1077(1960)
240 cd03286 ABC_MSH6_euk MutS6 hom 86.9 11 0.00024 35.4 11.7 80 150-231 30-118 (218)
241 cd00983 recA RecA is a bacter 86.8 0.8 1.7E-05 45.8 4.3 37 150-186 55-91 (325)
242 CHL00181 cbbX CbbX; Provisiona 86.8 1.3 2.9E-05 43.1 5.8 24 153-176 62-85 (287)
243 PTZ00424 helicase 45; Provisio 86.7 0.56 1.2E-05 46.4 3.2 36 153-188 68-106 (401)
244 cd01122 GP4d_helicase GP4d_hel 86.7 1 2.2E-05 42.3 4.7 40 149-188 29-69 (271)
245 COG1763 MobB Molybdopterin-gua 86.7 3.3 7.1E-05 37.6 7.8 31 10-40 12-42 (161)
246 PRK13768 GTPase; Provisional 86.6 0.86 1.9E-05 43.4 4.2 34 152-185 4-37 (253)
247 smart00382 AAA ATPases associa 86.6 1.3 2.8E-05 34.9 4.7 98 9-107 11-125 (148)
248 PRK10917 ATP-dependent DNA hel 86.6 12 0.00025 40.9 13.3 159 11-190 293-483 (681)
249 PF13481 AAA_25: AAA domain; P 86.5 0.9 2E-05 40.1 4.1 41 149-189 31-81 (193)
250 PRK14532 adenylate kinase; Pro 86.5 0.46 1E-05 42.2 2.2 22 153-174 3-24 (188)
251 TIGR03878 thermo_KaiC_2 KaiC d 86.5 1 2.2E-05 43.0 4.6 39 150-188 36-74 (259)
252 PRK05580 primosome assembly pr 86.5 13 0.00029 40.5 13.7 169 9-187 171-375 (679)
253 COG1643 HrpA HrpA-like helicas 86.2 0.85 1.9E-05 51.0 4.5 36 151-186 66-102 (845)
254 PRK00149 dnaA chromosomal repl 86.1 0.65 1.4E-05 47.6 3.3 37 69-105 208-251 (450)
255 PRK08903 DnaA regulatory inact 86.0 3.1 6.7E-05 38.1 7.5 36 70-105 88-129 (227)
256 PRK14962 DNA polymerase III su 86.0 0.98 2.1E-05 47.2 4.6 22 153-174 39-60 (472)
257 PRK08533 flagellar accessory p 86.0 1.2 2.6E-05 41.8 4.8 38 150-187 24-61 (230)
258 cd03116 MobB Molybdenum is an 86.0 1 2.2E-05 40.3 4.1 35 153-187 4-38 (159)
259 PRK09354 recA recombinase A; P 86.0 0.97 2.1E-05 45.7 4.4 38 150-187 60-97 (349)
260 PRK07933 thymidylate kinase; V 85.9 1.1 2.3E-05 41.7 4.4 34 153-186 3-36 (213)
261 PF03029 ATP_bind_1: Conserved 85.8 0.64 1.4E-05 44.1 2.9 31 155-185 1-31 (238)
262 PRK11664 ATP-dependent RNA hel 85.7 0.81 1.7E-05 50.9 4.0 37 151-187 21-57 (812)
263 TIGR00362 DnaA chromosomal rep 85.6 0.83 1.8E-05 46.0 3.7 86 9-105 145-239 (405)
264 PF00625 Guanylate_kin: Guanyl 85.6 1.8 3.8E-05 38.6 5.5 23 150-172 2-24 (183)
265 cd03280 ABC_MutS2 MutS2 homolo 85.5 1.5 3.2E-05 39.9 5.0 21 151-171 29-49 (200)
266 TIGR00376 DNA helicase, putati 85.4 0.95 2.1E-05 49.0 4.3 37 151-187 174-210 (637)
267 COG2109 BtuR ATP:corrinoid ade 85.4 2.9 6.2E-05 39.3 6.8 115 11-134 39-182 (198)
268 PRK14495 putative molybdopteri 85.3 0.98 2.1E-05 47.2 4.2 34 154-187 5-38 (452)
269 COG0249 MutS Mismatch repair A 85.2 1.1 2.5E-05 50.0 4.9 82 150-233 607-697 (843)
270 PRK10867 signal recognition pa 85.1 1.1 2.5E-05 46.4 4.5 134 151-307 101-255 (433)
271 TIGR01448 recD_rel helicase, p 85.1 1.1 2.3E-05 49.2 4.6 90 10-105 348-450 (720)
272 PF10412 TrwB_AAD_bind: Type I 85.1 1 2.2E-05 45.6 4.1 37 153-189 18-54 (386)
273 PLN02840 tRNA dimethylallyltra 85.0 2.1 4.5E-05 44.5 6.3 29 146-174 17-45 (421)
274 cd02021 GntK Gluconate kinase 85.0 0.43 9.4E-06 40.7 1.2 21 152-172 1-21 (150)
275 PRK13938 phosphoheptose isomer 84.9 4.7 0.0001 37.4 8.1 43 149-191 111-153 (196)
276 COG0630 VirB11 Type IV secreto 84.9 1.6 3.4E-05 43.2 5.2 79 152-233 145-228 (312)
277 PF03266 NTPase_1: NTPase; In 84.8 3.2 6.9E-05 37.4 6.8 98 9-108 8-134 (168)
278 PRK00440 rfc replication facto 84.8 1.3 2.9E-05 42.0 4.6 22 153-174 41-62 (319)
279 KOG0924|consensus 84.8 0.84 1.8E-05 50.2 3.5 33 150-182 371-403 (1042)
280 PRK04328 hypothetical protein; 84.8 1.4 3E-05 41.8 4.6 38 150-187 23-60 (249)
281 PF00154 RecA: recA bacterial 84.7 1.7 3.6E-05 43.6 5.4 38 150-187 53-90 (322)
282 PRK13695 putative NTPase; Prov 84.7 9.7 0.00021 33.5 9.8 37 70-106 94-134 (174)
283 PHA00729 NTP-binding motif con 84.7 1.4 3E-05 42.1 4.5 22 153-174 20-41 (226)
284 PF00270 DEAD: DEAD/DEAH box h 84.5 1.9 4.2E-05 36.6 5.1 39 150-188 14-54 (169)
285 TIGR03880 KaiC_arch_3 KaiC dom 84.5 1.6 3.4E-05 40.1 4.7 39 150-188 16-54 (224)
286 PRK14489 putative bifunctional 84.3 1.3 2.7E-05 44.6 4.4 37 152-188 207-243 (366)
287 PLN03025 replication factor C 84.3 1.9 4.1E-05 42.1 5.4 23 153-175 37-59 (319)
288 PRK14493 putative bifunctional 84.2 1.2 2.5E-05 43.5 3.9 35 153-188 4-38 (274)
289 TIGR00174 miaA tRNA isopenteny 84.1 1.8 4E-05 42.6 5.3 22 153-174 2-23 (287)
290 PF05707 Zot: Zonular occluden 84.0 1.5 3.2E-05 39.8 4.3 24 10-33 10-34 (193)
291 PRK14964 DNA polymerase III su 83.8 2.4 5.3E-05 44.7 6.3 15 220-234 114-128 (491)
292 PRK06921 hypothetical protein; 83.8 1.4 2.9E-05 42.6 4.2 85 9-106 126-223 (266)
293 PRK05800 cobU adenosylcobinami 83.8 3.2 6.8E-05 37.4 6.3 138 152-327 3-161 (170)
294 PRK14949 DNA polymerase III su 83.7 2.6 5.7E-05 47.7 6.8 23 151-173 39-61 (944)
295 TIGR01359 UMP_CMP_kin_fam UMP- 83.7 0.84 1.8E-05 40.1 2.5 22 153-174 2-23 (183)
296 PRK13709 conjugal transfer nic 83.7 2.2 4.8E-05 51.3 6.6 38 150-187 984-1025(1747)
297 TIGR00767 rho transcription te 83.5 0.96 2.1E-05 46.8 3.2 42 150-191 168-209 (415)
298 PRK10875 recD exonuclease V su 83.5 1.6 3.4E-05 47.3 4.9 39 149-187 166-208 (615)
299 PHA00350 putative assembly pro 83.4 2.4 5.1E-05 43.7 5.9 24 9-32 10-34 (399)
300 COG3972 Superfamily I DNA and 83.3 1.2 2.5E-05 47.5 3.7 35 70-104 293-328 (660)
301 PRK07413 hypothetical protein; 83.2 4.2 9.1E-05 41.7 7.6 138 146-332 16-187 (382)
302 PRK11131 ATP-dependent RNA hel 83.0 1.4 3.1E-05 51.4 4.6 25 150-174 89-113 (1294)
303 PF02702 KdpD: Osmosensitive K 82.9 7.6 0.00016 36.9 8.6 142 10-173 15-174 (211)
304 COG1126 GlnQ ABC-type polar am 82.9 0.73 1.6E-05 44.3 1.9 63 254-327 134-209 (240)
305 COG2255 RuvB Holliday junction 82.9 3.5 7.6E-05 41.3 6.6 61 153-234 55-115 (332)
306 PRK14712 conjugal transfer nic 82.8 2.7 5.8E-05 50.2 6.8 38 150-187 852-893 (1623)
307 cd01393 recA_like RecA is a b 82.7 1.7 3.7E-05 39.5 4.2 38 150-187 19-62 (226)
308 TIGR02858 spore_III_AA stage I 82.7 1.4 2.9E-05 42.9 3.7 22 153-174 114-135 (270)
309 PRK14961 DNA polymerase III su 82.7 2.5 5.4E-05 42.3 5.7 23 152-174 40-62 (363)
310 PRK13973 thymidylate kinase; P 82.6 1.9 4.2E-05 39.6 4.6 43 150-192 3-45 (213)
311 TIGR00750 lao LAO/AO transport 82.6 2 4.3E-05 41.8 4.8 36 150-185 34-69 (300)
312 TIGR03575 selen_PSTK_euk L-ser 82.6 1.5 3.2E-05 44.2 4.0 34 153-186 2-36 (340)
313 PF13671 AAA_33: AAA domain; P 82.3 0.69 1.5E-05 38.6 1.4 15 153-167 2-16 (143)
314 PF13238 AAA_18: AAA domain; P 82.2 1.2 2.5E-05 36.1 2.6 20 154-173 2-21 (129)
315 PF00005 ABC_tran: ABC transpo 82.2 0.85 1.9E-05 38.0 1.9 23 149-172 10-32 (137)
316 cd03279 ABC_sbcCD SbcCD and ot 82.2 0.81 1.8E-05 41.9 1.9 21 150-171 28-48 (213)
317 PRK14530 adenylate kinase; Pro 82.1 1.2 2.6E-05 40.9 2.9 23 152-174 5-27 (215)
318 PF04851 ResIII: Type III rest 82.0 1.5 3.3E-05 37.4 3.5 36 150-188 25-60 (184)
319 cd00227 CPT Chloramphenicol (C 82.0 0.76 1.7E-05 40.7 1.6 20 150-169 2-21 (175)
320 PRK14956 DNA polymerase III su 82.0 1 2.2E-05 47.5 2.7 22 152-173 42-63 (484)
321 PF05729 NACHT: NACHT domain 81.9 2.7 5.9E-05 35.3 4.9 27 152-178 2-28 (166)
322 PRK06217 hypothetical protein; 81.9 0.64 1.4E-05 41.5 1.1 21 153-173 4-24 (183)
323 TIGR01360 aden_kin_iso1 adenyl 81.8 1.3 2.7E-05 38.8 2.9 23 152-174 5-27 (188)
324 PRK14088 dnaA chromosomal repl 81.6 2.1 4.5E-05 44.3 4.8 35 71-105 193-234 (440)
325 cd01127 TrwB Bacterial conjuga 81.6 1.7 3.8E-05 44.2 4.2 38 153-190 45-82 (410)
326 TIGR00176 mobB molybdopterin-g 81.5 6.1 0.00013 35.0 7.1 28 10-37 9-36 (155)
327 PRK10744 pstB phosphate transp 81.4 1.6 3.5E-05 41.1 3.6 54 118-172 3-60 (260)
328 PRK14737 gmk guanylate kinase; 81.4 3.4 7.3E-05 37.6 5.6 21 150-171 4-24 (186)
329 COG1120 FepC ABC-type cobalami 81.1 0.89 1.9E-05 44.2 1.8 48 272-329 160-214 (258)
330 PRK00625 shikimate kinase; Pro 81.1 0.71 1.5E-05 41.8 1.1 17 153-169 3-19 (173)
331 cd03238 ABC_UvrA The excision 81.1 0.98 2.1E-05 41.0 2.0 25 145-169 15-40 (176)
332 PRK14721 flhF flagellar biosyn 81.0 4.7 0.0001 41.8 7.1 84 149-233 190-280 (420)
333 COG4098 comFA Superfamily II D 81.0 5.8 0.00013 40.7 7.5 159 10-190 126-317 (441)
334 PTZ00088 adenylate kinase 1; P 81.0 1.2 2.5E-05 42.2 2.5 22 153-174 9-30 (229)
335 PF02223 Thymidylate_kin: Thym 80.9 2 4.4E-05 38.0 4.0 38 156-193 2-39 (186)
336 TIGR00347 bioD dethiobiotin sy 80.9 2.1 4.6E-05 37.2 3.9 34 155-188 2-36 (166)
337 PRK14086 dnaA chromosomal repl 80.8 1.4 3E-05 47.8 3.3 38 68-105 373-417 (617)
338 PHA02653 RNA helicase NPH-II; 80.8 2.4 5.3E-05 46.3 5.2 29 219-249 288-316 (675)
339 PRK14273 phosphate ABC transpo 80.7 1.6 3.4E-05 40.8 3.3 48 125-173 4-55 (254)
340 PRK08116 hypothetical protein; 80.6 2.5 5.4E-05 40.7 4.7 88 9-105 123-218 (268)
341 PF03796 DnaB_C: DnaB-like hel 80.5 3 6.5E-05 39.2 5.1 41 149-189 18-59 (259)
342 PRK14494 putative molybdopteri 80.5 6.1 0.00013 37.7 7.2 28 10-37 11-38 (229)
343 KOG0926|consensus 80.5 1.4 3.1E-05 49.2 3.2 28 152-179 273-300 (1172)
344 PF02562 PhoH: PhoH-like prote 80.4 5.7 0.00012 37.3 6.9 30 10-39 29-60 (205)
345 TIGR03263 guanyl_kin guanylate 80.4 1.2 2.6E-05 39.0 2.3 21 150-170 1-21 (180)
346 PF04665 Pox_A32: Poxvirus A32 80.3 1.9 4.2E-05 41.5 3.8 40 153-192 16-55 (241)
347 TIGR01967 DEAH_box_HrpA ATP-de 80.3 2.5 5.4E-05 49.4 5.3 24 150-173 82-105 (1283)
348 PF00580 UvrD-helicase: UvrD/R 80.2 2 4.3E-05 40.2 3.8 35 71-105 255-290 (315)
349 COG1136 SalX ABC-type antimicr 80.2 1 2.2E-05 43.0 1.8 65 252-328 138-216 (226)
350 PHA02544 44 clamp loader, smal 80.2 1.6 3.4E-05 42.0 3.2 66 151-234 44-112 (316)
351 TIGR03819 heli_sec_ATPase heli 80.1 2.6 5.7E-05 42.2 4.8 81 151-233 179-264 (340)
352 TIGR00959 ffh signal recogniti 80.1 2.3 5E-05 44.0 4.5 135 151-308 100-255 (428)
353 COG1875 NYN ribonuclease and A 79.9 5.8 0.00013 41.0 7.1 39 152-190 247-288 (436)
354 cd03109 DTBS Dethiobiotin synt 79.9 19 0.0004 30.8 9.4 89 11-102 10-100 (134)
355 PRK13948 shikimate kinase; Pro 79.9 1.1 2.4E-05 40.9 1.9 23 151-173 11-33 (182)
356 TIGR02655 circ_KaiC circadian 79.8 2.4 5.2E-05 44.2 4.6 38 150-187 21-59 (484)
357 COG0529 CysC Adenylylsulfate k 79.7 8.7 0.00019 36.1 7.6 32 154-185 27-58 (197)
358 PF02367 UPF0079: Uncharacteri 79.7 0.99 2.2E-05 39.1 1.5 37 149-188 14-50 (123)
359 PRK12723 flagellar biosynthesi 79.5 3.6 7.8E-05 42.2 5.6 82 10-95 184-281 (388)
360 PRK13648 cbiO cobalt transport 79.5 1.8 4E-05 41.0 3.3 50 124-174 3-58 (269)
361 TIGR00614 recQ_fam ATP-depende 79.4 6.1 0.00013 40.7 7.4 15 220-234 125-139 (470)
362 PRK11382 frlB fructoselysine-6 79.4 6.3 0.00014 39.1 7.2 110 86-203 31-147 (340)
363 PRK14958 DNA polymerase III su 79.3 4.1 8.8E-05 43.1 6.1 21 152-172 40-60 (509)
364 COG0396 sufC Cysteine desulfur 79.2 1.1 2.3E-05 43.5 1.6 23 144-166 23-46 (251)
365 PHA03333 putative ATPase subun 79.2 9.4 0.0002 42.3 8.9 34 71-104 293-328 (752)
366 PRK08118 topology modulation p 79.1 1.5 3.3E-05 39.1 2.5 19 153-172 4-22 (167)
367 PRK02496 adk adenylate kinase; 78.9 1.6 3.4E-05 38.8 2.5 22 153-174 4-25 (184)
368 COG0468 RecA RecA/RadA recombi 78.9 8.5 0.00018 37.8 7.8 92 151-310 61-158 (279)
369 TIGR01313 therm_gnt_kin carboh 78.9 1.4 3E-05 38.2 2.1 20 154-173 2-21 (163)
370 PRK06851 hypothetical protein; 78.8 3.1 6.6E-05 42.4 4.8 40 151-190 215-254 (367)
371 cd03115 SRP The signal recogni 78.8 4.1 8.9E-05 35.6 5.1 32 9-42 9-40 (173)
372 PRK14531 adenylate kinase; Pro 78.7 1.6 3.5E-05 39.0 2.6 22 153-174 5-26 (183)
373 PRK13947 shikimate kinase; Pro 78.6 0.97 2.1E-05 39.3 1.1 21 153-173 4-24 (171)
374 PRK07994 DNA polymerase III su 78.4 4.2 9E-05 44.4 6.0 23 152-174 40-62 (647)
375 PRK10865 protein disaggregatio 78.4 4.3 9.4E-05 45.5 6.3 74 151-234 200-283 (857)
376 TIGR03345 VI_ClpV1 type VI sec 78.2 3.5 7.6E-05 46.2 5.5 21 153-174 211-231 (852)
377 COG2109 BtuR ATP:corrinoid ade 78.2 10 0.00023 35.6 7.7 40 150-190 29-68 (198)
378 PRK06762 hypothetical protein; 78.1 2.5 5.4E-05 36.7 3.5 31 152-185 4-34 (166)
379 TIGR00678 holB DNA polymerase 78.1 4.3 9.4E-05 36.1 5.1 24 151-174 15-38 (188)
380 PRK10892 D-arabinose 5-phospha 78.0 7.5 0.00016 37.8 7.2 100 86-193 35-136 (326)
381 PRK11057 ATP-dependent DNA hel 78.0 5.4 0.00012 42.8 6.7 16 150-165 40-55 (607)
382 PRK14963 DNA polymerase III su 77.9 3.7 8.1E-05 43.3 5.3 25 151-175 37-61 (504)
383 PRK13975 thymidylate kinase; P 77.8 2 4.3E-05 38.2 2.9 23 152-174 4-26 (196)
384 KOG0780|consensus 77.6 3 6.6E-05 43.3 4.4 95 138-234 89-195 (483)
385 TIGR02475 CobW cobalamin biosy 77.5 2.1 4.5E-05 42.8 3.2 34 152-187 6-39 (341)
386 PRK11543 gutQ D-arabinose 5-ph 77.5 7.7 0.00017 37.5 7.1 98 86-191 30-129 (321)
387 PRK13949 shikimate kinase; Pro 77.4 1.7 3.6E-05 38.9 2.3 22 153-174 4-25 (169)
388 TIGR01650 PD_CobS cobaltochela 77.3 18 0.00038 36.5 9.6 25 151-175 65-89 (327)
389 PRK08356 hypothetical protein; 77.3 1.2 2.6E-05 40.2 1.4 17 152-168 7-23 (195)
390 PRK06645 DNA polymerase III su 77.2 3.7 8.1E-05 43.5 5.1 23 152-174 45-67 (507)
391 PRK03846 adenylylsulfate kinas 77.0 3.4 7.3E-05 37.4 4.2 35 150-185 24-59 (198)
392 PRK09302 circadian clock prote 77.0 3.2 7E-05 43.2 4.6 39 150-188 31-70 (509)
393 PF02463 SMC_N: RecF/RecN/SMC 77.0 2.5 5.4E-05 38.4 3.4 28 144-172 18-45 (220)
394 TIGR02236 recomb_radA DNA repa 77.0 2.5 5.5E-05 40.9 3.6 39 150-188 95-139 (310)
395 COG0470 HolB ATPase involved i 77.0 3.2 7E-05 39.4 4.2 24 152-175 26-49 (325)
396 PRK06995 flhF flagellar biosyn 76.9 3.5 7.6E-05 43.5 4.8 36 150-185 256-293 (484)
397 cd00268 DEADc DEAD-box helicas 76.9 11 0.00024 33.4 7.3 29 9-37 45-78 (203)
398 cd03285 ABC_MSH2_euk MutS2 hom 76.8 2.8 6E-05 39.2 3.7 23 149-171 29-51 (222)
399 PF13476 AAA_23: AAA domain; P 76.8 1.5 3.3E-05 38.1 1.8 25 148-173 17-41 (202)
400 PRK14527 adenylate kinase; Pro 76.8 2.2 4.8E-05 38.3 2.9 25 150-174 6-30 (191)
401 cd03226 ABC_cobalt_CbiO_domain 76.8 1.5 3.3E-05 39.5 1.8 23 149-172 25-47 (205)
402 COG3839 MalK ABC-type sugar tr 76.8 2.1 4.5E-05 43.2 3.0 43 129-172 4-50 (338)
403 cd01428 ADK Adenylate kinase ( 76.7 1.8 4E-05 38.1 2.3 22 153-174 2-23 (194)
404 TIGR00150 HI0065_YjeE ATPase, 76.7 1.4 3.1E-05 38.6 1.6 24 150-173 22-45 (133)
405 TIGR02639 ClpA ATP-dependent C 76.7 3.7 8E-05 45.0 5.1 22 153-175 487-508 (731)
406 PF13245 AAA_19: Part of AAA d 76.6 3.3 7.2E-05 32.5 3.5 29 9-37 19-51 (76)
407 PF09818 ABC_ATPase: Predicted 76.6 15 0.00033 38.5 9.2 54 150-210 244-302 (448)
408 cd02042 ParA ParA and ParB of 76.5 20 0.00044 28.4 8.2 32 155-186 4-36 (104)
409 cd05005 SIS_PHI Hexulose-6-pho 76.5 16 0.00035 32.5 8.3 92 86-191 22-115 (179)
410 PRK13341 recombination factor 76.5 3.1 6.8E-05 45.9 4.5 19 154-173 56-74 (725)
411 PF13191 AAA_16: AAA ATPase do 76.4 5.2 0.00011 34.5 5.1 37 150-186 24-60 (185)
412 cd02027 APSK Adenosine 5'-phos 76.3 3.6 7.9E-05 35.8 4.0 32 153-184 2-33 (149)
413 PRK00411 cdc6 cell division co 76.3 2.5 5.5E-05 41.8 3.4 43 71-113 137-188 (394)
414 PTZ00112 origin recognition co 76.1 5.9 0.00013 45.3 6.4 51 121-176 757-807 (1164)
415 PRK06761 hypothetical protein; 76.0 3 6.6E-05 40.9 3.8 34 151-184 4-37 (282)
416 PF06414 Zeta_toxin: Zeta toxi 76.0 2.4 5.1E-05 38.5 2.9 34 151-186 16-49 (199)
417 cd01128 rho_factor Transcripti 76.0 12 0.00027 35.8 7.9 26 150-176 16-41 (249)
418 PRK06526 transposase; Provisio 75.9 2.2 4.9E-05 40.9 2.8 86 10-106 108-200 (254)
419 TIGR01166 cbiO cobalt transpor 75.9 1.7 3.6E-05 38.8 1.8 24 149-173 17-40 (190)
420 PRK02362 ski2-like helicase; P 75.9 7.3 0.00016 42.6 7.1 39 150-188 39-77 (737)
421 PRK14970 DNA polymerase III su 75.7 8.6 0.00019 38.0 7.0 22 152-173 41-62 (367)
422 PRK14971 DNA polymerase III su 75.7 6.4 0.00014 42.6 6.4 24 151-175 40-63 (614)
423 PLN02748 tRNA dimethylallyltra 75.6 2.5 5.3E-05 44.4 3.2 29 146-174 18-46 (468)
424 PRK06547 hypothetical protein; 75.5 1.5 3.2E-05 39.6 1.4 22 151-172 16-37 (172)
425 PF03308 ArgK: ArgK protein; 75.5 3.3 7.1E-05 40.6 3.8 33 155-187 34-68 (266)
426 PRK14490 putative bifunctional 75.5 3.3 7.1E-05 41.6 4.0 36 150-186 5-40 (369)
427 COG1703 ArgK Putative periplas 75.4 5.1 0.00011 40.2 5.2 31 155-185 56-86 (323)
428 TIGR00635 ruvB Holliday juncti 75.4 6.7 0.00015 37.4 6.0 33 70-102 79-113 (305)
429 TIGR00643 recG ATP-dependent D 75.4 34 0.00074 36.9 11.8 161 11-190 267-460 (630)
430 PRK09302 circadian clock prote 75.3 3.9 8.4E-05 42.6 4.6 176 9-188 40-311 (509)
431 PRK14974 cell division protein 75.3 5.2 0.00011 40.2 5.3 74 10-85 150-235 (336)
432 PRK14960 DNA polymerase III su 75.2 7.3 0.00016 43.0 6.7 23 151-173 38-60 (702)
433 TIGR03345 VI_ClpV1 type VI sec 75.1 4.7 0.0001 45.2 5.5 27 152-179 598-624 (852)
434 TIGR03127 RuMP_HxlB 6-phospho 75.1 12 0.00025 33.2 7.0 94 86-191 19-112 (179)
435 COG1066 Sms Predicted ATP-depe 75.0 7.7 0.00017 40.6 6.5 94 8-106 101-218 (456)
436 cd03257 ABC_NikE_OppD_transpor 74.9 1.8 3.9E-05 39.4 1.8 24 149-173 30-53 (228)
437 cd03269 ABC_putative_ATPase Th 74.9 1.9 4.1E-05 39.0 1.9 20 149-168 25-44 (210)
438 TIGR03346 chaperone_ClpB ATP-d 74.8 3.7 8E-05 45.9 4.5 74 151-234 195-278 (852)
439 TIGR00960 3a0501s02 Type II (G 74.8 1.9 4.1E-05 39.1 1.9 24 149-173 28-51 (216)
440 PRK06620 hypothetical protein; 74.7 4.8 0.0001 37.5 4.6 36 71-106 84-121 (214)
441 COG4674 Uncharacterized ABC-ty 74.6 1.6 3.4E-05 41.8 1.4 19 149-167 30-48 (249)
442 PRK11701 phnK phosphonate C-P 74.5 2.9 6.3E-05 39.2 3.2 48 126-174 4-55 (258)
443 cd03272 ABC_SMC3_euk Eukaryoti 74.5 2 4.2E-05 39.7 2.0 20 149-168 22-41 (243)
444 PF09439 SRPRB: Signal recogni 74.4 2.2 4.8E-05 39.3 2.3 22 152-173 5-26 (181)
445 TIGR02673 FtsE cell division A 74.4 1.9 4.1E-05 39.0 1.8 24 149-173 27-50 (214)
446 cd02034 CooC The accessory pro 74.3 4.7 0.0001 34.1 4.1 35 154-188 3-37 (116)
447 COG5008 PilU Tfp pilus assembl 74.3 12 0.00026 37.5 7.3 21 151-171 128-148 (375)
448 cd01122 GP4d_helicase GP4d_hel 74.3 5.4 0.00012 37.4 4.9 29 10-38 40-69 (271)
449 cd03265 ABC_DrrA DrrA is the A 74.3 2 4.3E-05 39.2 1.9 23 149-172 25-47 (220)
450 cd03225 ABC_cobalt_CbiO_domain 74.2 1.9 4.2E-05 38.9 1.8 24 149-173 26-49 (211)
451 PRK05057 aroK shikimate kinase 74.2 2.3 5E-05 38.0 2.3 22 152-173 6-27 (172)
452 cd03240 ABC_Rad50 The catalyti 74.1 2.2 4.7E-05 39.2 2.2 25 146-171 18-42 (204)
453 KOG0744|consensus 74.0 1.9 4.1E-05 44.0 1.8 86 150-256 177-275 (423)
454 TIGR03015 pepcterm_ATPase puta 74.0 1.5 3.2E-05 40.8 1.1 25 70-94 121-146 (269)
455 COG1061 SSL2 DNA or RNA helica 74.0 15 0.00033 37.9 8.5 36 150-188 55-90 (442)
456 cd02023 UMPK Uridine monophosp 73.8 3.9 8.4E-05 36.7 3.7 31 153-185 2-32 (198)
457 PRK00771 signal recognition pa 73.8 6.2 0.00014 41.0 5.6 75 9-85 104-190 (437)
458 PRK14235 phosphate transporter 73.8 3 6.4E-05 39.6 3.0 47 126-173 17-67 (267)
459 TIGR02211 LolD_lipo_ex lipopro 73.6 2 4.4E-05 39.0 1.8 23 149-172 30-52 (221)
460 cd03268 ABC_BcrA_bacitracin_re 73.6 2.1 4.6E-05 38.6 1.9 23 149-172 25-47 (208)
461 cd03255 ABC_MJ0796_Lo1CDE_FtsE 73.6 2.1 4.6E-05 38.8 1.9 25 149-174 29-53 (218)
462 PF07015 VirC1: VirC1 protein; 73.5 7.8 0.00017 37.3 5.8 67 11-79 13-90 (231)
463 TIGR03499 FlhF flagellar biosy 73.5 2 4.4E-05 41.5 1.9 68 10-81 204-281 (282)
464 PHA02558 uvsW UvsW helicase; P 73.5 16 0.00034 38.2 8.6 99 9-110 138-259 (501)
465 COG2805 PilT Tfp pilus assembl 73.5 3.9 8.5E-05 41.2 3.9 28 149-176 124-151 (353)
466 COG0523 Putative GTPases (G3E 73.4 2.7 5.9E-05 42.0 2.8 40 294-333 224-265 (323)
467 cd03259 ABC_Carb_Solutes_like 73.4 2.1 4.5E-05 38.8 1.8 24 149-173 25-48 (213)
468 cd03219 ABC_Mj1267_LivG_branch 73.4 2.1 4.6E-05 39.3 1.9 23 149-172 25-47 (236)
469 cd01123 Rad51_DMC1_radA Rad51_ 73.4 3.2 6.9E-05 38.0 3.1 38 150-187 19-62 (235)
470 PRK05973 replicative DNA helic 73.3 22 0.00049 34.0 8.9 108 10-121 74-209 (237)
471 COG0541 Ffh Signal recognition 73.3 19 0.00042 37.7 9.0 37 150-186 100-136 (451)
472 PRK14274 phosphate ABC transpo 73.3 3.1 6.8E-05 39.0 3.1 45 128-173 12-60 (259)
473 PRK11634 ATP-dependent RNA hel 73.2 12 0.00025 40.7 7.7 38 150-187 43-83 (629)
474 cd03292 ABC_FtsE_transporter F 73.1 2.2 4.8E-05 38.5 1.9 24 149-173 26-49 (214)
475 TIGR01243 CDC48 AAA family ATP 73.1 6.3 0.00014 43.1 5.7 67 152-234 214-283 (733)
476 cd03273 ABC_SMC2_euk Eukaryoti 73.0 3.4 7.5E-05 38.7 3.3 27 147-174 22-48 (251)
477 PRK07952 DNA replication prote 72.8 4.6 0.0001 38.7 4.1 68 8-84 107-174 (244)
478 PF02456 Adeno_IVa2: Adenoviru 72.8 3.5 7.7E-05 41.7 3.4 106 78-191 6-130 (369)
479 TIGR01978 sufC FeS assembly AT 72.8 2.3 5E-05 39.2 2.0 24 149-173 25-48 (243)
480 TIGR00665 DnaB replicative DNA 72.6 5.9 0.00013 40.3 5.0 40 150-189 195-235 (434)
481 TIGR01241 FtsH_fam ATP-depende 72.5 2.6 5.5E-05 43.9 2.5 67 153-234 91-159 (495)
482 cd02038 FleN-like FleN is a me 72.5 13 0.00028 31.8 6.5 34 153-186 3-36 (139)
483 PRK11448 hsdR type I restricti 72.3 7.7 0.00017 45.0 6.4 36 152-187 435-472 (1123)
484 TIGR02759 TraD_Ftype type IV c 72.2 4.9 0.00011 43.0 4.6 37 153-189 179-215 (566)
485 TIGR03608 L_ocin_972_ABC putat 72.0 2.3 5.1E-05 38.1 1.8 23 149-172 23-45 (206)
486 cd03261 ABC_Org_Solvent_Resist 72.0 2.3 5E-05 39.2 1.8 24 149-173 25-48 (235)
487 PRK04182 cytidylate kinase; Pr 72.0 3 6.5E-05 36.1 2.4 22 153-174 3-24 (180)
488 cd03264 ABC_drug_resistance_li 72.0 2.4 5.2E-05 38.3 1.9 29 142-173 19-47 (211)
489 PRK06647 DNA polymerase III su 71.9 8.2 0.00018 41.4 6.1 24 151-174 39-62 (563)
490 COG1474 CDC6 Cdc6-related prot 71.9 6.5 0.00014 39.8 5.1 82 153-234 45-135 (366)
491 cd03293 ABC_NrtD_SsuB_transpor 71.9 2.4 5.1E-05 38.7 1.8 24 149-173 29-52 (220)
492 cd03256 ABC_PhnC_transporter A 71.9 2.4 5.3E-05 38.9 1.9 23 149-172 26-48 (241)
493 PF00406 ADK: Adenylate kinase 71.8 3.1 6.7E-05 35.7 2.4 20 155-174 1-20 (151)
494 KOG0354|consensus 71.7 5 0.00011 44.4 4.5 158 150-315 76-279 (746)
495 cd01983 Fer4_NifH The Fer4_Nif 71.7 8.9 0.00019 28.8 4.8 26 10-35 9-34 (99)
496 PLN02924 thymidylate kinase 71.7 5 0.00011 37.7 4.0 36 150-185 16-51 (220)
497 cd03218 ABC_YhbG The ABC trans 71.6 2.5 5.4E-05 38.8 1.9 24 149-173 25-48 (232)
498 cd03224 ABC_TM1139_LivF_branch 71.6 2.5 5.3E-05 38.4 1.9 24 149-173 25-48 (222)
499 PRK07667 uridine kinase; Provi 71.6 6.1 0.00013 35.8 4.4 34 152-185 19-52 (193)
500 PRK07003 DNA polymerase III su 71.5 9.9 0.00022 42.6 6.7 24 151-174 39-62 (830)
No 1
>PTZ00293 thymidine kinase; Provisional
Probab=100.00 E-value=3.5e-50 Score=372.35 Aligned_cols=141 Identities=51% Similarity=0.898 Sum_probs=135.0
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEeeccCCCC-CCCceeeccCCceeeeecCChhhhcccCCCccEEEEccccChHHHH
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVRYAKDDRY-DTEKVATHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEGQFFPDVV 88 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy-~~~~I~Sr~G~~~~Ai~i~~l~ei~~~~~~~dvV~IDEaQFF~dIv 88 (353)
-||||||||++++||.++|+++++|||++|||| +.+.|+||+|+.++|+.++++.++.....++|||+|||||||++|+
T Consensus 14 fSGKTteLLr~i~~y~~ag~kv~~~kp~~DtR~~~~~~I~Sh~g~~~~a~~v~~~~e~~~~~~~~dvI~IDEaQFf~~i~ 93 (211)
T PTZ00293 14 FSGKTTELMRLVKRFTYSEKKCVVIKYSKDTRYSDEQNISSHDKQMLKAIKVSKLKEVLETAKNYDVIAIDEGQFFPDLV 93 (211)
T ss_pred CChHHHHHHHHHHHHHHcCCceEEEEecccccCCCCCcEEecCCCcceeEEcCCHHHHHHhccCCCEEEEEchHhhHhHH
Confidence 489999999999999999999999999999999 7788999999999999999998887656789999999999999999
Q ss_pred HHHHHHHhCCCEEEEEecccccccCCchhHhhhhccccceEeccceeccccccccccccccc
Q psy8456 89 SFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCMSCFRDAAFTKRIGQ 150 (353)
Q Consensus 89 ~l~~~l~~~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~AvC~~CG~~A~f~~Ri~g 150 (353)
++++.+++.|++|||||||+||+++||+++++||++||+|+||+|+|++||++|+||+|+++
T Consensus 94 ~~~~~l~~~g~~VivaGLd~Df~~~~F~~~~~Ll~~AD~V~kl~aiC~~CG~~A~~t~R~~~ 155 (211)
T PTZ00293 94 EFSEAAANLGKIVIVAALDGTFQRKPFGQILNLIPLAERVTKLTAVCMFCGKEASFSKRIVQ 155 (211)
T ss_pred HHHHHHHHCCCeEEEEecCcccccCcCccHHHHHHhhCEEEEcceEchhhCCcceeEEEEcC
Confidence 99999999999999999999999999999999999999999999999999999999999754
No 2
>PF00265 TK: Thymidine kinase; InterPro: IPR001267 Thymidine kinase (TK) (2.7.1.21 from EC) is an ubiquitous enzyme that catalyzes the ATP-dependent phosphorylation of thymidine. Two different families of Thymidine kinase have been identified [, ] and are represented in this entry; one groups together Thymidine kinase from herpesviruses, as well as cytosolic thymidylate kinases and the second family groups Thymidine kinase from various sources that include, vertebrates, bacteria, the Bacteriophage T4, poxviruses, African swine fever virus (ASFV) and Fish lymphocystis disease virus (FLDV). The major capsid protein of insect iridescent viruses also belongs to this family.; GO: 0004797 thymidine kinase activity, 0005524 ATP binding; PDB: 1XX6_B 2J9R_A 2J87_B 3E2I_A 2JA1_A 2UZ3_B 2B8T_B 2WVJ_A 1W4R_F 1XBT_F ....
Probab=100.00 E-value=1.2e-49 Score=359.05 Aligned_cols=140 Identities=39% Similarity=0.616 Sum_probs=125.3
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCceeeccCCceeee--ecCChhhhcccC-CCccEEEEccccChH-
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAV--SAVELNKLIPHT-KDIDVIGIDEGQFFP- 85 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai--~i~~l~ei~~~~-~~~dvV~IDEaQFF~- 85 (353)
-|||||+||++++||+.+|++|++|||++||||+.++|+||+|.+.+|. .++++.++.... .++|+|+|||||||+
T Consensus 11 ~sGKS~eLi~~~~~~~~~~~~v~~~kp~~D~R~~~~~I~s~~g~~~~~~~~~~~~~~~~~~~~~~~~dvI~IDEaQFf~~ 90 (176)
T PF00265_consen 11 FSGKSTELIRRIHRYEIAGKKVLVFKPAIDTRYGEDKIVSHDGISLEAIVDPIDNLFEIIDILENDYDVIGIDEAQFFDE 90 (176)
T ss_dssp TSSHHHHHHHHHHHHHHTT-EEEEEEESTSCCCCSSEEEHTTSCEEEEESSEESSGGGGGGGCCTTCSEEEESSGGGSTT
T ss_pred CChhHHHHHHHHHHHHhCCCeEEEEEecccCcCCCCeEEecCCCcccccccchhhHHHHHHHhccCCCEEEEechHhhHH
Confidence 5999999999999999999999999999999999889999999999999 788888887544 449999999999998
Q ss_pred HHHHHHHHHHhCCCEEEEEecccccccCCchhHhhhhccccceEeccceecccccccccccccc
Q psy8456 86 DVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCMSCFRDAAFTKRIG 149 (353)
Q Consensus 86 dIv~l~~~l~~~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~AvC~~CG~~A~f~~Ri~ 149 (353)
||+++++.++++|++|+|||||+||+++||+++++||++||+|+||+|+|++||++|++|+|++
T Consensus 91 ~i~~l~~~~~~~g~~Vi~~GL~~df~~~~F~~~~~Ll~~Ad~i~kl~avC~~Cg~~A~~t~R~~ 154 (176)
T PF00265_consen 91 QIVQLVEILANKGIPVICAGLDTDFRGEPFGGSPRLLPLADKITKLKAVCEVCGRKATFTQRIV 154 (176)
T ss_dssp THHHHHHHHHHTT-EEEEEEESB-TTSSB-TTHHHHHHH-SEEEEE-EE-TTTSSEE-EEEEEE
T ss_pred HHHHHHHHHHhCCCeEEEEeeCCccccCcchhHHHHHhhCCeEEEeccEECCCCCceeEEEEEc
Confidence 9999999999999999999999999999999999999999999999999999999999999975
No 3
>PTZ00293 thymidine kinase; Provisional
Probab=100.00 E-value=7.1e-49 Score=363.59 Aligned_cols=157 Identities=55% Similarity=0.949 Sum_probs=148.9
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCC-CCCceeeccCcccceeecccHhhhcccCCCccEEE
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRY-DTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIG 227 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~-~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~ 227 (353)
.|++++|+|||||||||||||+++||..+|++|+++||+.|+|| +.+.|+||+|..++|+.+.++.++.....++|||+
T Consensus 3 ~G~i~vi~GpMfSGKTteLLr~i~~y~~ag~kv~~~kp~~DtR~~~~~~I~Sh~g~~~~a~~v~~~~e~~~~~~~~dvI~ 82 (211)
T PTZ00293 3 RGTISVIIGPMFSGKTTELMRLVKRFTYSEKKCVVIKYSKDTRYSDEQNISSHDKQMLKAIKVSKLKEVLETAKNYDVIA 82 (211)
T ss_pred ceEEEEEECCCCChHHHHHHHHHHHHHHcCCceEEEEecccccCCCCCcEEecCCCcceeEEcCCHHHHHHhccCCCEEE
Confidence 47899999999999999999999999999999999999999999 77889999999999999998888876667899999
Q ss_pred EecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCCCCCCccHHHHHHHHHhCCCEEEEEecccccc
Q psy8456 228 IDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPPPPEFPDVVSFAESMANAGKIVVVAALDGTFQ 307 (353)
Q Consensus 228 IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~g~~Vi~~gLd~df~ 307 (353)
|||+|| |++|+++++.+++.|++|||||||+||+
T Consensus 83 IDEaQF----------------------------------------------f~~i~~~~~~l~~~g~~VivaGLd~Df~ 116 (211)
T PTZ00293 83 IDEGQF----------------------------------------------FPDLVEFSEAAANLGKIVIVAALDGTFQ 116 (211)
T ss_pred EEchHh----------------------------------------------hHhHHHHHHHHHHCCCeEEEEecCcccc
Confidence 999999 6789999999999999999999999999
Q ss_pred CCCchhHHhhhhcccceEEeeeeccccccccceeEEeeCCeeEE
Q psy8456 308 RTGFNDILSLIPLAECVEKLTAVCMSCFRDAAFTKRIGQEKEVR 351 (353)
Q Consensus 308 ~~~F~~~~~L~~~ad~v~kl~a~C~~Cg~~A~~~~R~~~~~~~~ 351 (353)
++||+++++|||+||+|+||+|+|+.||++|+||+|+++++++.
T Consensus 117 ~~~F~~~~~Ll~~AD~V~kl~aiC~~CG~~A~~t~R~~~~~~~v 160 (211)
T PTZ00293 117 RKPFGQILNLIPLAERVTKLTAVCMFCGKEASFSKRIVQSEQIE 160 (211)
T ss_pred cCcCccHHHHHHhhCEEEEcceEchhhCCcceeEEEEcCCCCEE
Confidence 99999999999999999999999999999999999999876663
No 4
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=100.00 E-value=8.1e-50 Score=365.01 Aligned_cols=142 Identities=29% Similarity=0.405 Sum_probs=130.4
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCceeeccCCceeeeecCChhhhccc---C---CCccEEEEccccC
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIPH---T---KDIDVIGIDEGQF 83 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai~i~~l~ei~~~---~---~~~dvV~IDEaQF 83 (353)
-||||+|||++++||+++|++|++|||++|+||+.+.|+||.|++.+|+.+.+..++... . ..+|||+||||||
T Consensus 14 ~SGKT~eLl~r~~~~~~~g~~v~vfkp~iD~R~~~~~V~Sr~G~~~~A~~i~~~~~i~~~i~~~~~~~~~~~v~IDEaQF 93 (201)
T COG1435 14 FSGKTEELLRRARRYKEAGMKVLVFKPAIDTRYGVGKVSSRIGLSSEAVVIPSDTDIFDEIAALHEKPPVDCVLIDEAQF 93 (201)
T ss_pred cCcchHHHHHHHHHHHHcCCeEEEEecccccccccceeeeccCCcccceecCChHHHHHHHHhcccCCCcCEEEEehhHh
Confidence 599999999999999999999999999999999999999999999999999887777632 1 2279999999999
Q ss_pred hH-HHHHHHHHHHhC-CCEEEEEecccccccCCchhHhhhhccccceEeccceecccccccccccccccc
Q psy8456 84 FP-DVVSFAESMANA-GKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCMSCFRDAAFTKRIGQE 151 (353)
Q Consensus 84 F~-dIv~l~~~l~~~-G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~AvC~~CG~~A~f~~Ri~ge 151 (353)
|+ ++++.++.+++. |++|||||||+|||+|||+++++||++||+|+||+|||.+||++|++++|+.++
T Consensus 94 ~~~~~v~~l~~lad~lgi~Vi~~GL~~DFrgepFe~s~~Lla~ADkv~kL~aIC~~Cg~~At~~~Rl~~~ 163 (201)
T COG1435 94 FDEELVYVLNELADRLGIPVICYGLDTDFRGEPFEGSKYLLAIADKVTKLKAICNVCGRKATRTLRLING 163 (201)
T ss_pred CCHHHHHHHHHHHhhcCCEEEEeccccccccCCCccHHHHHHHHHHHHHHHHHHHHhCCcceEEEEecCC
Confidence 97 777777777766 999999999999999999999999999999999999999999999999999764
No 5
>PF00265 TK: Thymidine kinase; InterPro: IPR001267 Thymidine kinase (TK) (2.7.1.21 from EC) is an ubiquitous enzyme that catalyzes the ATP-dependent phosphorylation of thymidine. Two different families of Thymidine kinase have been identified [, ] and are represented in this entry; one groups together Thymidine kinase from herpesviruses, as well as cytosolic thymidylate kinases and the second family groups Thymidine kinase from various sources that include, vertebrates, bacteria, the Bacteriophage T4, poxviruses, African swine fever virus (ASFV) and Fish lymphocystis disease virus (FLDV). The major capsid protein of insect iridescent viruses also belongs to this family.; GO: 0004797 thymidine kinase activity, 0005524 ATP binding; PDB: 1XX6_B 2J9R_A 2J87_B 3E2I_A 2JA1_A 2UZ3_B 2B8T_B 2WVJ_A 1W4R_F 1XBT_F ....
Probab=100.00 E-value=6.3e-48 Score=347.83 Aligned_cols=154 Identities=45% Similarity=0.700 Sum_probs=134.8
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCccccee--ecccHhhhcccC-CCccEE
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAV--SAVELNKLIPHT-KDIDVI 226 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~--~~~~~~~~~~~~-~~~~~i 226 (353)
|++++|+|||||||||+||+++++|+.+|++|+++||++|+||+.++|+||+|...+|+ ...++.++.... .++|+|
T Consensus 1 g~l~~i~GpM~sGKS~eLi~~~~~~~~~~~~v~~~kp~~D~R~~~~~I~s~~g~~~~~~~~~~~~~~~~~~~~~~~~dvI 80 (176)
T PF00265_consen 1 GKLEFITGPMFSGKSTELIRRIHRYEIAGKKVLVFKPAIDTRYGEDKIVSHDGISLEAIVDPIDNLFEIIDILENDYDVI 80 (176)
T ss_dssp -EEEEEEESTTSSHHHHHHHHHHHHHHTT-EEEEEEESTSCCCCSSEEEHTTSCEEEEESSEESSGGGGGGGCCTTCSEE
T ss_pred CEEEEEECCcCChhHHHHHHHHHHHHhCCCeEEEEEecccCcCCCCeEEecCCCcccccccchhhHHHHHHHhccCCCEE
Confidence 57899999999999999999999999999999999999999999999999999999999 778888887664 349999
Q ss_pred EEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCCCCCCc-cHHHHHHHHHhCCCEEEEEecccc
Q psy8456 227 GIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPPPPEFP-DVVSFAESMANAGKIVVVAALDGT 305 (353)
Q Consensus 227 ~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~-~~~~~~~~~~~~g~~Vi~~gLd~d 305 (353)
+|||+|| |+ +|+++++.+++.|++|+|||||+|
T Consensus 81 ~IDEaQF----------------------------------------------f~~~i~~l~~~~~~~g~~Vi~~GL~~d 114 (176)
T PF00265_consen 81 GIDEAQF----------------------------------------------FDEQIVQLVEILANKGIPVICAGLDTD 114 (176)
T ss_dssp EESSGGG----------------------------------------------STTTHHHHHHHHHHTT-EEEEEEESB-
T ss_pred EEechHh----------------------------------------------hHHHHHHHHHHHHhCCCeEEEEeeCCc
Confidence 9999999 54 788888888899999999999999
Q ss_pred ccCCCchhHHhhhhcccceEEeeeeccccccccceeEEeeCCee
Q psy8456 306 FQRTGFNDILSLIPLAECVEKLTAVCMSCFRDAAFTKRIGQEKE 349 (353)
Q Consensus 306 f~~~~F~~~~~L~~~ad~v~kl~a~C~~Cg~~A~~~~R~~~~~~ 349 (353)
|+++||+++.+|||+||+|+||+|+|+.||++|+||+|++.+++
T Consensus 115 f~~~~F~~~~~Ll~~Ad~i~kl~avC~~Cg~~A~~t~R~~~~~~ 158 (176)
T PF00265_consen 115 FRGEPFGGSPRLLPLADKITKLKAVCEVCGRKATFTQRIVDDGE 158 (176)
T ss_dssp TTSSB-TTHHHHHHH-SEEEEE-EE-TTTSSEE-EEEEEETTSS
T ss_pred cccCcchhHHHHHhhCCeEEEeccEECCCCCceeEEEEEcCCCC
Confidence 99999999999999999999999999999999999999986543
No 6
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=100.00 E-value=1.8e-48 Score=356.16 Aligned_cols=156 Identities=33% Similarity=0.430 Sum_probs=141.0
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhccc---C---CC
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPH---T---KD 222 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~---~---~~ 222 (353)
.++++|++|||||||||||||+++||+++|++|+++||++|+||+.+.|+||.|.+.+|+.+.+-.++..+ . .+
T Consensus 3 ~g~l~~i~gpM~SGKT~eLl~r~~~~~~~g~~v~vfkp~iD~R~~~~~V~Sr~G~~~~A~~i~~~~~i~~~i~~~~~~~~ 82 (201)
T COG1435 3 MGWLEFIYGPMFSGKTEELLRRARRYKEAGMKVLVFKPAIDTRYGVGKVSSRIGLSSEAVVIPSDTDIFDEIAALHEKPP 82 (201)
T ss_pred eEEEEEEEccCcCcchHHHHHHHHHHHHcCCeEEEEecccccccccceeeeccCCcccceecCChHHHHHHHHhcccCCC
Confidence 47899999999999999999999999999999999999999999999999999999999998765555432 1 22
Q ss_pred ccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCCCCCCccHHHHHHHHHhCCCEEEEEec
Q psy8456 223 IDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPPPPEFPDVVSFAESMANAGKIVVVAAL 302 (353)
Q Consensus 223 ~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~g~~Vi~~gL 302 (353)
+|||+|||+||| +++||++|+++++ +.|++|+||||
T Consensus 83 ~~~v~IDEaQF~-----------------------~~~~v~~l~~lad---------------------~lgi~Vi~~GL 118 (201)
T COG1435 83 VDCVLIDEAQFF-----------------------DEELVYVLNELAD---------------------RLGIPVICYGL 118 (201)
T ss_pred cCEEEEehhHhC-----------------------CHHHHHHHHHHHh---------------------hcCCEEEEecc
Confidence 899999999997 5667777766666 56999999999
Q ss_pred cccccCCCchhHHhhhhcccceEEeeeeccccccccceeEEeeCCe
Q psy8456 303 DGTFQRTGFNDILSLIPLAECVEKLTAVCMSCFRDAAFTKRIGQEK 348 (353)
Q Consensus 303 d~df~~~~F~~~~~L~~~ad~v~kl~a~C~~Cg~~A~~~~R~~~~~ 348 (353)
|+|||++||+++..||++||+|+||+|+|+.||++|++|+|+.+|+
T Consensus 119 ~~DFrgepFe~s~~Lla~ADkv~kL~aIC~~Cg~~At~~~Rl~~~~ 164 (201)
T COG1435 119 DTDFRGEPFEGSKYLLAIADKVTKLKAICNVCGRKATRTLRLINGG 164 (201)
T ss_pred ccccccCCCccHHHHHHHHHHHHHHHHHHHHhCCcceEEEEecCCC
Confidence 9999999999999999999999999999999999999999999864
No 7
>KOG3125|consensus
Probab=100.00 E-value=4.1e-47 Score=346.42 Aligned_cols=160 Identities=49% Similarity=0.762 Sum_probs=147.8
Q ss_pred ccccceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecc---cHhhhcc--cCC
Q psy8456 147 RIGQEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAV---ELNKLIP--HTK 221 (353)
Q Consensus 147 Ri~geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~---~~~~~~~--~~~ 221 (353)
+..|.++||+|||||||||+||||+++.+.+|++|+++||+.||||..+.|+||+|...++-... .+.++-. ...
T Consensus 24 ~t~G~i~vI~gPMfSGKTt~LLrr~r~~~~~grrv~liK~~kDTRy~~~si~Thdg~~~~c~~lp~a~~~s~f~~d~~~~ 103 (234)
T KOG3125|consen 24 MTRGTIHVILGPMFSGKTTELLRRIRREIIAGRRVLLIKYAKDTRYESSSIVTHDGIEMPCWALPDASFLSEFGKDALNG 103 (234)
T ss_pred CCCceEEEEeccccCcchHHHHHHHHHHHhcCceEEEEEecCCcccchheeEeccCCcccccccCCchhHHHHHHHHhcC
Confidence 45689999999999999999999999999999999999999999999999999999988776543 3443332 257
Q ss_pred CccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCCCCCCccHHHHHHHHHh-CCCEEEEE
Q psy8456 222 DIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPPPPEFPDVVSFAESMAN-AGKIVVVA 300 (353)
Q Consensus 222 ~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~~~~~~~~-~g~~Vi~~ 300 (353)
++|||+|||||| |+||++||+++|+ .||+|+||
T Consensus 104 ~vdVigIDEaQF----------------------------------------------f~dl~efc~evAd~~Gk~Viva 137 (234)
T KOG3125|consen 104 DVDVIGIDEAQF----------------------------------------------FGDLYEFCREVADVHGKTVIVA 137 (234)
T ss_pred cceEEEecHHHH----------------------------------------------hHHHHHHHHHHHhccCCEEEEE
Confidence 899999999999 8999999999998 99999999
Q ss_pred eccccccCCCchhHHhhhhcccceEEeeeeccccccccceeEEeeCCeeEEe
Q psy8456 301 ALDGTFQRTGFNDILSLIPLAECVEKLTAVCMSCFRDAAFTKRIGQEKEVRI 352 (353)
Q Consensus 301 gLd~df~~~~F~~~~~L~~~ad~v~kl~a~C~~Cg~~A~~~~R~~~~~~~~~ 352 (353)
||||||+|+||++++.|+|+||+|+||+++|+.||++|.||.|..++|++++
T Consensus 138 gLdgdF~Rk~Fg~il~Lvplad~v~kLtavC~~Cg~~a~Ft~R~~~~K~ve~ 189 (234)
T KOG3125|consen 138 GLDGDFKRKPFGAILDLVPLADSVTKLTAVCEECGADARFTLRKTNDKEVEV 189 (234)
T ss_pred ecCCchhhCcchhhhhhHhhhhhhhhhhhhhhhhcccceeEeeecCCceeEE
Confidence 9999999999999999999999999999999999999999999999999986
No 8
>KOG3125|consensus
Probab=100.00 E-value=5.1e-47 Score=345.80 Aligned_cols=142 Identities=43% Similarity=0.706 Sum_probs=130.6
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCceeeccCCceeeeecCC---hhhhc--ccCCCccEEEEccccCh
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVE---LNKLI--PHTKDIDVIGIDEGQFF 84 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai~i~~---l~ei~--~~~~~~dvV~IDEaQFF 84 (353)
.|||||+||||+++...+|++|+++||+.||||..+.|+||+|+++++..+.+ +.++- ..++++|||+|||||||
T Consensus 37 fSGKTt~LLrr~r~~~~~grrv~liK~~kDTRy~~~si~Thdg~~~~c~~lp~a~~~s~f~~d~~~~~vdVigIDEaQFf 116 (234)
T KOG3125|consen 37 FSGKTTELLRRIRREIIAGRRVLLIKYAKDTRYESSSIVTHDGIEMPCWALPDASFLSEFGKDALNGDVDVIGIDEAQFF 116 (234)
T ss_pred cCcchHHHHHHHHHHHhcCceEEEEEecCCcccchheeEeccCCcccccccCCchhHHHHHHHHhcCcceEEEecHHHHh
Confidence 59999999999999999999999999999999998899999999999876553 22232 24678999999999999
Q ss_pred HHHHHHHHHHHh-CCCEEEEEecccccccCCchhHhhhhccccceEeccceecccccccccccccccc
Q psy8456 85 PDVVSFAESMAN-AGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCMSCFRDAAFTKRIGQE 151 (353)
Q Consensus 85 ~dIv~l~~~l~~-~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~AvC~~CG~~A~f~~Ri~ge 151 (353)
+|++++|+.+++ +||+|||||||+||+++||+++..|+|+||+|+||+|+|+.||++|.|++|.+.+
T Consensus 117 ~dl~efc~evAd~~Gk~VivagLdgdF~Rk~Fg~il~Lvplad~v~kLtavC~~Cg~~a~Ft~R~~~~ 184 (234)
T KOG3125|consen 117 GDLYEFCREVADVHGKTVIVAGLDGDFKRKPFGAILDLVPLADSVTKLTAVCEECGADARFTLRKTND 184 (234)
T ss_pred HHHHHHHHHHHhccCCEEEEEecCCchhhCcchhhhhhHhhhhhhhhhhhhhhhhcccceeEeeecCC
Confidence 999999999998 9999999999999999999999999999999999999999999999999997653
No 9
>PRK04296 thymidine kinase; Provisional
Probab=100.00 E-value=5.6e-38 Score=283.93 Aligned_cols=141 Identities=27% Similarity=0.413 Sum_probs=128.9
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCceeeccCCceeeeecCChhhhcc----cCCCccEEEEccccChH
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIP----HTKDIDVIGIDEGQFFP 85 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai~i~~l~ei~~----~~~~~dvV~IDEaQFF~ 85 (353)
-+||||+|++.+.|+..+|++|+++||.+|+|++...+.+|.|..+++..+....++.. ...++|+|+|||+|||+
T Consensus 12 GsGKTT~~l~~~~~~~~~g~~v~i~k~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~dvviIDEaq~l~ 91 (190)
T PRK04296 12 NSGKSTELLQRAYNYEERGMKVLVFKPAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEEEGEKIDCVLIDEAQFLD 91 (190)
T ss_pred CCHHHHHHHHHHHHHHHcCCeEEEEeccccccccCCcEecCCCCcccceEeCChHHHHHHHHhhCCCCCEEEEEccccCC
Confidence 58999999999999999999999999999999998889999999888866655555542 23479999999999995
Q ss_pred --HHHHHHHHHHhCCCEEEEEecccccccCCchhHhhhhccccceEeccceeccccccccccccccc
Q psy8456 86 --DVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCMSCFRDAAFTKRIGQ 150 (353)
Q Consensus 86 --dIv~l~~~l~~~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~AvC~~CG~~A~f~~Ri~g 150 (353)
++.++++.+++.|++|+++||++||+++||+++.+|+++||.|++|+++|++||++|+||+|+++
T Consensus 92 ~~~v~~l~~~l~~~g~~vi~tgl~~~~~~~~f~~~~~L~~~aD~V~~l~~vC~~Cg~~a~~~~r~~~ 158 (190)
T PRK04296 92 KEQVVQLAEVLDDLGIPVICYGLDTDFRGEPFEGSPYLLALADKVTELKAICVHCGRKATMNQRLID 158 (190)
T ss_pred HHHHHHHHHHHHHcCCeEEEEecCcccccCcCchHHHHHHhcCeEEEeeEEccccCCccceEEEEeC
Confidence 69999999999999999999999999999999999999999999999999999999999999874
No 10
>PRK04296 thymidine kinase; Provisional
Probab=100.00 E-value=1.7e-34 Score=261.22 Aligned_cols=154 Identities=31% Similarity=0.478 Sum_probs=134.5
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhccc----CCCccE
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPH----TKDIDV 225 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~----~~~~~~ 225 (353)
|.+++++|||||||||+|++.+.++..+|++|+++||.+|+|++...+.+|.|..+++.......+++.. ..++|+
T Consensus 2 g~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~dv 81 (190)
T PRK04296 2 AKLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKPAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEEEGEKIDC 81 (190)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEeccccccccCCcEecCCCCcccceEeCChHHHHHHHHhhCCCCCE
Confidence 5688999999999999999999999999999999999999999988899999987777555444444322 347999
Q ss_pred EEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCCCCCCccHHHHHHHHHhCCCEEEEEecccc
Q psy8456 226 IGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPPPPEFPDVVSFAESMANAGKIVVVAALDGT 305 (353)
Q Consensus 226 i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~~~~~~~~~g~~Vi~~gLd~d 305 (353)
|+|||+||+ +.+| ++++++.|++.|+.|+++||++|
T Consensus 82 viIDEaq~l-----------------------~~~~---------------------v~~l~~~l~~~g~~vi~tgl~~~ 117 (190)
T PRK04296 82 VLIDEAQFL-----------------------DKEQ---------------------VVQLAEVLDDLGIPVICYGLDTD 117 (190)
T ss_pred EEEEccccC-----------------------CHHH---------------------HHHHHHHHHHcCCeEEEEecCcc
Confidence 999999996 2233 55566667799999999999999
Q ss_pred ccCCCchhHHhhhhcccceEEeeeeccccccccceeEEeeCC
Q psy8456 306 FQRTGFNDILSLIPLAECVEKLTAVCMSCFRDAAFTKRIGQE 347 (353)
Q Consensus 306 f~~~~F~~~~~L~~~ad~v~kl~a~C~~Cg~~A~~~~R~~~~ 347 (353)
|++++|+.+..|+++||.|++|+++|+.||++|+||+|+++|
T Consensus 118 ~~~~~f~~~~~L~~~aD~V~~l~~vC~~Cg~~a~~~~r~~~~ 159 (190)
T PRK04296 118 FRGEPFEGSPYLLALADKVTELKAICVHCGRKATMNQRLIDG 159 (190)
T ss_pred cccCcCchHHHHHHhcCeEEEeeEEccccCCccceEEEEeCC
Confidence 999999999999999999999999999999999999999953
No 11
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=97.82 E-value=3.1e-05 Score=70.79 Aligned_cols=78 Identities=24% Similarity=0.257 Sum_probs=48.5
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCc--ccceeecccHhhhccc--------
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQ--KLTAVSAVELNKLIPH-------- 219 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~--~~~a~~~~~~~~~~~~-------- 219 (353)
+...++.||-|+|||+-|-.....+..+|++|+++.|+. +....... ..++..+..+......
T Consensus 18 ~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT~-------~Aa~~L~~~~~~~a~Ti~~~l~~~~~~~~~~~~~ 90 (196)
T PF13604_consen 18 DRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPTN-------KAAKELREKTGIEAQTIHSFLYRIPNGDDEGRPE 90 (196)
T ss_dssp CSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESSH-------HHHHHHHHHHTS-EEEHHHHTTEECCEECCSSCC
T ss_pred CeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCcH-------HHHHHHHHhhCcchhhHHHHHhcCCccccccccc
Confidence 457889999999999988777777888899999999854 22111111 1233333332222211
Q ss_pred CCCccEEEEeccccc
Q psy8456 220 TKDIDVIGIDEGQFV 234 (353)
Q Consensus 220 ~~~~~~i~IDE~QF~ 234 (353)
..+.++|+|||+..+
T Consensus 91 ~~~~~vliVDEasmv 105 (196)
T PF13604_consen 91 LPKKDVLIVDEASMV 105 (196)
T ss_dssp -TSTSEEEESSGGG-
T ss_pred CCcccEEEEeccccc
Confidence 355689999999996
No 12
>PF13173 AAA_14: AAA domain
Probab=97.49 E-value=0.00027 Score=59.78 Aligned_cols=34 Identities=21% Similarity=0.228 Sum_probs=25.8
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEE
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIV 184 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~ 184 (353)
+.+.++.||.++||||-+.+.++.+. ...+++.+
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi 35 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKDLL-PPENILYI 35 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhc-ccccceee
Confidence 35678999999999999999887776 34444433
No 13
>PRK07413 hypothetical protein; Validated
Probab=97.35 E-value=0.0037 Score=63.55 Aligned_cols=170 Identities=14% Similarity=0.097 Sum_probs=114.1
Q ss_pred CchHHHHHHHHHHHHHcCc------eEEEEeeccC-C-CCCCCceeeccC------Cceee------eec-CCh-hhh--
Q psy8456 11 NPYIVHFCRRIRRYQYANY------RCMIVRYAKD-D-RYDTEKVATHDQ------QKLTA------VSA-VEL-NKL-- 66 (353)
Q Consensus 11 ~GKSteLLrr~~ry~~agk------kvlv~Kp~iD-t-Ry~~~~I~Sr~G------~~~~A------i~i-~~l-~ei-- 66 (353)
-||||..|..+-|.-=+|+ +|+++.--.. . .|++..+..+.+ +.+.. ..- ... .+.
T Consensus 30 KGKTTAAlGlalRA~G~G~~~~~~~rV~ivQFlKg~~~~~GE~~~l~~l~~~~~~~i~~~~~g~~~~~~~~~~~~~~~~~ 109 (382)
T PRK07413 30 KGKSQAALGVVLRTIGLGICEKRQTRVLLLRFLKGPGRAYDEDAAIEALQRGFPHLIDQVRTGRAEFFGADEITKFDRQE 109 (382)
T ss_pred CCHHHHHHHHHHHHhcCCCCcCCCCeEEEEEEEcCCCCCCcHHHHHHhccccCCCceEEEECCCCCeeeCCCCcHHHHHH
Confidence 4999999999999999998 9999887776 2 355433222221 11111 110 111 111
Q ss_pred ----c----c--cCCCccEEEEccccCh-H----HHHHHHHHHHhC--CCEEEEEecccccccCCchhHhhhhccccceE
Q psy8456 67 ----I----P--HTKDIDVIGIDEGQFF-P----DVVSFAESMANA--GKIVVVAALDGTFQRTGFNDILSLIPLAECVE 129 (353)
Q Consensus 67 ----~----~--~~~~~dvV~IDEaQFF-~----dIv~l~~~l~~~--G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~ 129 (353)
. . ..+.||.|+.||+--- . +..++.+.+.++ +..||+-|=+ ....|+++||-|+
T Consensus 110 a~~~~~~a~~~i~sg~ydlvILDEi~~Al~~gll~~eevl~~L~~rP~~~evVLTGR~---------ap~~Lie~ADlVT 180 (382)
T PRK07413 110 AQRGWDIAKGAIASGLYSVVVLDELNPVLDLGLLPVDEVVNTLKSRPEGLEIIITGRA---------APQSLLDIADLHS 180 (382)
T ss_pred HHHHHHHHHHHHhCCCCCEEEEehhHHHHHCCCccHHHHHHHHHhCCCCCEEEEeCCC---------CCHHHHHhCCeeE
Confidence 0 0 2468999999998654 1 445556666654 7899999974 3577999999999
Q ss_pred eccceecccccccc-cccccccceeeeeccCCCCchhHHHHHHHHHHHhCC------EEEEEeeecCCC
Q psy8456 130 KLTAVCMSCFRDAA-FTKRIGQEKEVILGPMFSGKTTELIRRIRRYQYANY------RCMIVRYAKDDR 191 (353)
Q Consensus 130 kL~AvC~~CG~~A~-f~~Ri~geI~vi~G~M~sGKt~~Li~~~~~~~~~~~------~~~~~k~~~D~R 191 (353)
+++.+=+- ..+.. ..+-..+.+++++|. +=||||..+-.+-|..-+|+ +|+++.--+..+
T Consensus 181 Em~~iKHp-~~~~~~~~~~~~g~i~VYTG~-GKGKTTAAlGlAlRA~G~G~~~~~~~rV~ivQFlKg~~ 247 (382)
T PRK07413 181 EMRPHRRP-TASELGVPFNSSGGIEIYTGE-GKGKSTSALGKALQAIGRGISQDKSHRVLILQWLKGGS 247 (382)
T ss_pred EeceecCC-CcCCCCcccCCCCeEEEEeCC-CCCchHHHHHHHHHHhcCCCCcccCceEEEEEECCCCC
Confidence 99766532 11111 112234678888885 78999999999999999997 999888777663
No 14
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=97.29 E-value=0.0014 Score=59.83 Aligned_cols=81 Identities=22% Similarity=0.160 Sum_probs=54.2
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEE-EEeeecCCCCCC----Cceee----------ccCccc-----ceeeccc
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCM-IVRYAKDDRYDT----EKVST----------HDQQKL-----TAVSAVE 212 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~-~~k~~~D~R~~~----~~i~s----------~~g~~~-----~a~~~~~ 212 (353)
-+|+|+.++||||-+++.+...+..|++|- ++.|.. |.+. -+|++ +.|... -++....
T Consensus 8 i~ITG~PGvGKtTl~~ki~e~L~~~g~kvgGf~t~EV--R~gGkR~GF~Ivdl~tg~~~~la~~~~~~~rvGkY~V~v~~ 85 (179)
T COG1618 8 IFITGRPGVGKTTLVLKIAEKLREKGYKVGGFITPEV--REGGKRIGFKIVDLATGEEGILARVGFSRPRVGKYGVNVEG 85 (179)
T ss_pred EEEeCCCCccHHHHHHHHHHHHHhcCceeeeEEeeee--ecCCeEeeeEEEEccCCceEEEEEcCCCCcccceEEeeHHH
Confidence 478999999999999999999999999998 777765 3221 12222 222211 1233445
Q ss_pred Hhhhcc-----cCCCccEEEEecccccc
Q psy8456 213 LNKLIP-----HTKDIDVIGIDEGQFVE 235 (353)
Q Consensus 213 ~~~~~~-----~~~~~~~i~IDE~QF~~ 235 (353)
++++.. .....|+|+|||+==+|
T Consensus 86 le~i~~~al~rA~~~aDvIIIDEIGpME 113 (179)
T COG1618 86 LEEIAIPALRRALEEADVIIIDEIGPME 113 (179)
T ss_pred HHHHhHHHHHHHhhcCCEEEEecccchh
Confidence 555432 24678999999998764
No 15
>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=97.27 E-value=0.0011 Score=66.80 Aligned_cols=142 Identities=15% Similarity=0.079 Sum_probs=83.3
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCcee---eccCccccee---ecccHhhhccc--CC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVS---THDQQKLTAV---SAVELNKLIPH--TK 221 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~---s~~g~~~~a~---~~~~~~~~~~~--~~ 221 (353)
+.+.++.|++++||||-+++.+.++...|.+|+.+..... .+.+. .+.|...+.+ ...++.++... ..
T Consensus 82 GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EEs----~~qi~~Ra~rlg~~~~~l~l~~e~~le~I~~~i~~~ 157 (372)
T cd01121 82 GSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEES----PEQIKLRADRLGISTENLYLLAETNLEDILASIEEL 157 (372)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCcC----HHHHHHHHHHcCCCcccEEEEccCcHHHHHHHHHhc
Confidence 4678899999999999999999999888889998865321 11121 1223221111 12334444332 35
Q ss_pred CccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCCCCCCccHHHHHHHHH-hCCCEEEEE
Q psy8456 222 DIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPPPPEFPDVVSFAESMA-NAGKIVVVA 300 (353)
Q Consensus 222 ~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~~~~~~~-~~g~~Vi~~ 300 (353)
++++|+||+.|++.. --.+.+|-+..|+..++. ....+| +.|+.|++.
T Consensus 158 ~~~lVVIDSIq~l~~-------------~~~~~~~g~~~qvr~~~~------------------~L~~lak~~~itvilv 206 (372)
T cd01121 158 KPDLVIIDSIQTVYS-------------SELTSAPGSVSQVRECTA------------------ELMRFAKERNIPIFIV 206 (372)
T ss_pred CCcEEEEcchHHhhc-------------cccccCCCCHHHHHHHHH------------------HHHHHHHHcCCeEEEE
Confidence 799999999998510 001122334455544321 112222 689999999
Q ss_pred eccccccCCCchhHHhhhhcccceEEee
Q psy8456 301 ALDGTFQRTGFNDILSLIPLAECVEKLT 328 (353)
Q Consensus 301 gLd~df~~~~F~~~~~L~~~ad~v~kl~ 328 (353)
|--+. .+. +.+...|--++|.|..+.
T Consensus 207 ghvtk-~g~-~aG~~~leh~vD~Vi~le 232 (372)
T cd01121 207 GHVTK-EGS-IAGPKVLEHMVDTVLYFE 232 (372)
T ss_pred eeccC-CCc-ccCcccchhhceEEEEEE
Confidence 85432 111 333345666888888765
No 16
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=97.14 E-value=0.0003 Score=64.32 Aligned_cols=91 Identities=11% Similarity=0.110 Sum_probs=56.3
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCceeeccCCceeeeecCChhhhcc--------cCCCccEEEEccc
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIP--------HTKDIDVIGIDEG 81 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai~i~~l~ei~~--------~~~~~dvV~IDEa 81 (353)
=+|||+-|-..+..+..+|.+|+++.|.--.. ..+....| .+|..+.++..... ...+.++|+||||
T Consensus 28 GtGKT~~l~~~~~~~~~~g~~v~~~apT~~Aa---~~L~~~~~--~~a~Ti~~~l~~~~~~~~~~~~~~~~~~vliVDEa 102 (196)
T PF13604_consen 28 GTGKTTLLKALAEALEAAGKRVIGLAPTNKAA---KELREKTG--IEAQTIHSFLYRIPNGDDEGRPELPKKDVLIVDEA 102 (196)
T ss_dssp TSTHHHHHHHHHHHHHHTT--EEEEESSHHHH---HHHHHHHT--S-EEEHHHHTTEECCEECCSSCC-TSTSEEEESSG
T ss_pred CCCHHHHHHHHHHHHHhCCCeEEEECCcHHHH---HHHHHhhC--cchhhHHHHHhcCCcccccccccCCcccEEEEecc
Confidence 47999988777788888999999999953111 12222223 34444433322211 1356789999999
Q ss_pred cChH--HHHHHHHHHHhCCCEEEEEe
Q psy8456 82 QFFP--DVVSFAESMANAGKIVVVAA 105 (353)
Q Consensus 82 QFF~--dIv~l~~~l~~~G~~VivaG 105 (353)
...+ ++..+.+.+...|..|++.|
T Consensus 103 smv~~~~~~~ll~~~~~~~~klilvG 128 (196)
T PF13604_consen 103 SMVDSRQLARLLRLAKKSGAKLILVG 128 (196)
T ss_dssp GG-BHHHHHHHHHHS-T-T-EEEEEE
T ss_pred cccCHHHHHHHHHHHHhcCCEEEEEC
Confidence 9996 77788887778899999998
No 17
>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=97.05 E-value=0.0034 Score=52.56 Aligned_cols=36 Identities=22% Similarity=0.237 Sum_probs=30.7
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
.+++||.++|||+-+..-+......|.+++++....
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~ 37 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEE 37 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCc
Confidence 478999999999999999888888888888776643
No 18
>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=96.98 E-value=0.001 Score=60.47 Aligned_cols=32 Identities=19% Similarity=-0.016 Sum_probs=22.2
Q ss_pred eeeeeccCCCCchhHHHHH-HHHHHHhCCEEEE
Q psy8456 152 KEVILGPMFSGKTTELIRR-IRRYQYANYRCMI 183 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~-~~~~~~~~~~~~~ 183 (353)
|.+++|.||||||...+.. +..+..+|++|+.
T Consensus 2 I~~~~G~pGsGKS~~av~~~i~~~l~~gr~V~t 34 (193)
T PF05707_consen 2 IYLITGKPGSGKSYYAVSYVIIPALKKGRPVYT 34 (193)
T ss_dssp EEEEE--TTSSHHHHHHHHHHH-GGGS---EEE
T ss_pred EEEEEcCCCCcHhHHHHHHHHHHHHhCCCEEEE
Confidence 5789999999999999998 7777777887775
No 19
>PRK08084 DNA replication initiation factor; Provisional
Probab=96.98 E-value=0.0014 Score=61.49 Aligned_cols=63 Identities=10% Similarity=0.041 Sum_probs=41.1
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEecc
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEG 231 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~IDE~ 231 (353)
.-+++||-|+|||+-+....+.....|++|..+....-. + ...++......+|+++|||+
T Consensus 47 ~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~--------~------------~~~~~~~~~~~~dlliiDdi 106 (235)
T PRK08084 47 YIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRA--------W------------FVPEVLEGMEQLSLVCIDNI 106 (235)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHh--------h------------hhHHHHHHhhhCCEEEEeCh
Confidence 458999999999976655566566678887766543200 0 01122223345789999999
Q ss_pred ccc
Q psy8456 232 QFV 234 (353)
Q Consensus 232 QF~ 234 (353)
|++
T Consensus 107 ~~~ 109 (235)
T PRK08084 107 ECI 109 (235)
T ss_pred hhh
Confidence 996
No 20
>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=96.95 E-value=0.0028 Score=57.65 Aligned_cols=21 Identities=29% Similarity=0.312 Sum_probs=17.9
Q ss_pred eeeccCCCCchhHHHHHHHHH
Q psy8456 154 VILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 154 vi~G~M~sGKt~~Li~~~~~~ 174 (353)
+|.|+.||||||.+.+.+...
T Consensus 2 vv~G~pGsGKSt~i~~~~~~~ 22 (234)
T PF01443_consen 2 VVHGVPGSGKSTLIKKLLKDR 22 (234)
T ss_pred EEEcCCCCCHHHHHHHHHHhc
Confidence 689999999999888777664
No 21
>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=96.92 E-value=0.00085 Score=62.52 Aligned_cols=71 Identities=21% Similarity=0.286 Sum_probs=43.1
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHH---hCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEE
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQY---ANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGI 228 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~---~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~I 228 (353)
.-+|+||-|+|||. |++.+.++-. .+.+|+.+.... + ..+ -..++....+.++......+|+++|
T Consensus 36 ~l~l~G~~G~GKTH-LL~Ai~~~~~~~~~~~~v~y~~~~~---f-----~~~---~~~~~~~~~~~~~~~~~~~~DlL~i 103 (219)
T PF00308_consen 36 PLFLYGPSGLGKTH-LLQAIANEAQKQHPGKRVVYLSAEE---F-----IRE---FADALRDGEIEEFKDRLRSADLLII 103 (219)
T ss_dssp EEEEEESTTSSHHH-HHHHHHHHHHHHCTTS-EEEEEHHH---H-----HHH---HHHHHHTTSHHHHHHHHCTSSEEEE
T ss_pred ceEEECCCCCCHHH-HHHHHHHHHHhccccccceeecHHH---H-----HHH---HHHHHHcccchhhhhhhhcCCEEEE
Confidence 35899999999986 7777766533 367777655321 0 000 0011111334444444578999999
Q ss_pred eccccc
Q psy8456 229 DEGQFV 234 (353)
Q Consensus 229 DE~QF~ 234 (353)
|..|++
T Consensus 104 DDi~~l 109 (219)
T PF00308_consen 104 DDIQFL 109 (219)
T ss_dssp ETGGGG
T ss_pred ecchhh
Confidence 999996
No 22
>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=96.88 E-value=0.0013 Score=65.09 Aligned_cols=83 Identities=19% Similarity=0.173 Sum_probs=47.5
Q ss_pred eeeeeccCCCCchhHHHHHHHHH--HHhCCEEEEEeeecCCCCC-CCceeeccCcccceeecccHhhhcc-------cCC
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRY--QYANYRCMIVRYAKDDRYD-TEKVSTHDQQKLTAVSAVELNKLIP-------HTK 221 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~--~~~~~~~~~~k~~~D~R~~-~~~i~s~~g~~~~a~~~~~~~~~~~-------~~~ 221 (353)
+.+|.|..|||||.-++..++.+ ...+.+++++.+...-+.. ...+.........-..+.....++. ..+
T Consensus 3 v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ 82 (352)
T PF09848_consen 3 VILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKLREQLAKKYNPKLKKSDFRKPTSFINNYSESDKEKN 82 (352)
T ss_pred EEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHHHHHHhhhcccchhhhhhhhhHHHHhhcccccccCC
Confidence 46899999999999999999998 6666666655543322210 0011111100000001112222222 246
Q ss_pred CccEEEEeccccc
Q psy8456 222 DIDVIGIDEGQFV 234 (353)
Q Consensus 222 ~~~~i~IDE~QF~ 234 (353)
++|+|+|||||.+
T Consensus 83 ~~DviivDEAqrl 95 (352)
T PF09848_consen 83 KYDVIIVDEAQRL 95 (352)
T ss_pred cCCEEEEehhHhh
Confidence 8999999999986
No 23
>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=96.87 E-value=0.00064 Score=54.18 Aligned_cols=38 Identities=26% Similarity=0.162 Sum_probs=29.6
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
...+++||+||||||-+...++.+...+..++.+....
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~ 40 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGED 40 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEE
Confidence 45689999999999999888887766665677666654
No 24
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=96.87 E-value=0.0021 Score=57.44 Aligned_cols=38 Identities=21% Similarity=0.120 Sum_probs=28.6
Q ss_pred cceeeeeccCCCCchhH-HHHHHHHHHHhCCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTE-LIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~-Li~~~~~~~~~~~~~~~~k~~ 187 (353)
+++.++.-..|||||+. |-+.++.+..++.+|+++.|.
T Consensus 4 g~~~~~d~hpGaGKTr~vlp~~~~~~i~~~~rvLvL~PT 42 (148)
T PF07652_consen 4 GELTVLDLHPGAGKTRRVLPEIVREAIKRRLRVLVLAPT 42 (148)
T ss_dssp TEEEEEE--TTSSTTTTHHHHHHHHHHHTT--EEEEESS
T ss_pred CceeEEecCCCCCCcccccHHHHHHHHHccCeEEEeccc
Confidence 56788888899999998 556677788899999999995
No 25
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=96.87 E-value=0.0039 Score=55.75 Aligned_cols=89 Identities=18% Similarity=0.218 Sum_probs=45.0
Q ss_pred CCchHHHH-HHHHHHHHHcCceEEEEeeccCCC----------CCCCceee--------ccCCce-eeeecCChhh-hc-
Q psy8456 10 INPYIVHF-CRRIRRYQYANYRCMIVRYAKDDR----------YDTEKVAT--------HDQQKL-TAVSAVELNK-LI- 67 (353)
Q Consensus 10 ~~GKSteL-Lrr~~ry~~agkkvlv~Kp~iDtR----------y~~~~I~S--------r~G~~~-~Ai~i~~l~e-i~- 67 (353)
-||||+.. =+.++.+..++.+|||+.| || .+.. +.- +.|... ....-..... +.
T Consensus 14 GaGKTr~vlp~~~~~~i~~~~rvLvL~P---TRvva~em~~aL~~~~-~~~~t~~~~~~~~g~~~i~vMc~at~~~~~~~ 89 (148)
T PF07652_consen 14 GAGKTRRVLPEIVREAIKRRLRVLVLAP---TRVVAEEMYEALKGLP-VRFHTNARMRTHFGSSIIDVMCHATYGHFLLN 89 (148)
T ss_dssp TSSTTTTHHHHHHHHHHHTT--EEEEES---SHHHHHHHHHHTTTSS-EEEESTTSS----SSSSEEEEEHHHHHHHHHT
T ss_pred CCCCcccccHHHHHHHHHccCeEEEecc---cHHHHHHHHHHHhcCC-cccCceeeeccccCCCcccccccHHHHHHhcC
Confidence 48999984 4556777889999999999 45 0111 111 111111 1110001111 11
Q ss_pred -ccCCCccEEEEccccChH--HHH--HHHHHHHhCC-CEEE
Q psy8456 68 -PHTKDIDVIGIDEGQFFP--DVV--SFAESMANAG-KIVV 102 (353)
Q Consensus 68 -~~~~~~dvV~IDEaQFF~--dIv--~l~~~l~~~G-~~Vi 102 (353)
....+||+|++||+||.+ .|. -+...++..| ..|+
T Consensus 90 p~~~~~yd~II~DEcH~~Dp~sIA~rg~l~~~~~~g~~~~i 130 (148)
T PF07652_consen 90 PCRLKNYDVIIMDECHFTDPTSIAARGYLRELAESGEAKVI 130 (148)
T ss_dssp SSCTTS-SEEEECTTT--SHHHHHHHHHHHHHHHTTS-EEE
T ss_pred cccccCccEEEEeccccCCHHHHhhheeHHHhhhccCeeEE
Confidence 234679999999999996 443 4556666676 3343
No 26
>PRK11823 DNA repair protein RadA; Provisional
Probab=96.86 E-value=0.0034 Score=64.64 Aligned_cols=81 Identities=17% Similarity=0.160 Sum_probs=53.4
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCcee---eccCccccee---ecccHhhhccc--CC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVS---THDQQKLTAV---SAVELNKLIPH--TK 221 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~---s~~g~~~~a~---~~~~~~~~~~~--~~ 221 (353)
+.+.++.|++++||||-+++.+.+....|.+|+.+..... .+.+. .+.|.....+ ...++.+++.. ..
T Consensus 80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees----~~qi~~ra~rlg~~~~~l~~~~e~~l~~i~~~i~~~ 155 (446)
T PRK11823 80 GSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEES----ASQIKLRAERLGLPSDNLYLLAETNLEAILATIEEE 155 (446)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEcccc----HHHHHHHHHHcCCChhcEEEeCCCCHHHHHHHHHhh
Confidence 4578899999999999999999998878999998875321 11121 1222211111 12344444432 35
Q ss_pred CccEEEEeccccc
Q psy8456 222 DIDVIGIDEGQFV 234 (353)
Q Consensus 222 ~~~~i~IDE~QF~ 234 (353)
++++|+||+.|++
T Consensus 156 ~~~lVVIDSIq~l 168 (446)
T PRK11823 156 KPDLVVIDSIQTM 168 (446)
T ss_pred CCCEEEEechhhh
Confidence 7899999999975
No 27
>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=96.83 E-value=0.0089 Score=52.46 Aligned_cols=138 Identities=12% Similarity=0.038 Sum_probs=79.8
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCC--------CCCCceee--ccCc-cc-ce----eecc-----
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDR--------YDTEKVST--HDQQ-KL-TA----VSAV----- 211 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R--------~~~~~i~s--~~g~-~~-~a----~~~~----- 211 (353)
.++.||.++|||+-.++-++.....|.+|+++......+ .+-+ +.- ..|. .. .. .+..
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e~~~~~~~~~~~~~g~~-~~~l~~~g~l~~~d~~~~~~s~~~~~~~ 80 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEESPEELIENAESLGWD-LERLEDEGLLAIVDADPDEIGPAESSLR 80 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECCCCHHHHHHHHHHcCCC-hHHHHhcCCeEEEecCccccchhhhhhh
Confidence 578999999999999999999888999999987643221 1110 000 0010 00 00 0000
Q ss_pred -c-Hhhhcc--cCCCccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCCCCCC-ccHHHH
Q psy8456 212 -E-LNKLIP--HTKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPPPPEF-PDVVSF 286 (353)
Q Consensus 212 -~-~~~~~~--~~~~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f-~~~~~~ 286 (353)
+ +..+.. ...++++++|||.+-+. ..+. +.. ..+.++
T Consensus 81 ~~~~~~i~~~~~~~~~~~lviD~~~~~~----------------------~~~~----------------~~~~~~i~~l 122 (187)
T cd01124 81 LELIQRLKDAIEEFKAKRVVIDSVSGLL----------------------LMEQ----------------STARLEIRRL 122 (187)
T ss_pred HHHHHHHHHHHHHhCCCEEEEeCcHHHh----------------------hcCh----------------HHHHHHHHHH
Confidence 0 111211 13578999999999530 0000 001 234556
Q ss_pred HHHHHhCCCEEEEEeccccccCCCchhHHhhhhcccceEEeeee
Q psy8456 287 AESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAV 330 (353)
Q Consensus 287 ~~~~~~~g~~Vi~~gLd~df~~~~F~~~~~L~~~ad~v~kl~a~ 330 (353)
...+++.|+.|++..=+...... ......+-.+||.|..|...
T Consensus 123 ~~~l~~~g~tvi~v~~~~~~~~~-~~~~~~~~~~aD~ii~l~~~ 165 (187)
T cd01124 123 LFALKRFGVTTLLTSEQSGLEGT-GFGGGDVEYLVDGVIRLRLD 165 (187)
T ss_pred HHHHHHCCCEEEEEeccccCCCc-ccCcCceeEeeeEEEEEEEE
Confidence 66777889998887655544322 12234567889999888765
No 28
>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=96.81 E-value=0.0034 Score=64.85 Aligned_cols=143 Identities=13% Similarity=0.054 Sum_probs=82.6
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceee---ccCcccc---eeecccHhhhccc--CC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVST---HDQQKLT---AVSAVELNKLIPH--TK 221 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s---~~g~~~~---a~~~~~~~~~~~~--~~ 221 (353)
+.+.++.|++++||||-+++.+.+....|.+|+.+.... ++ ..+.. +.|...+ .....++.++... ..
T Consensus 94 GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EE-s~---~qi~~ra~rlg~~~~~l~~~~e~~~~~I~~~i~~~ 169 (454)
T TIGR00416 94 GSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEE-SL---QQIKMRAIRLGLPEPNLYVLSETNWEQICANIEEE 169 (454)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcC-CH---HHHHHHHHHcCCChHHeEEcCCCCHHHHHHHHHhc
Confidence 467899999999999999999999888888999887542 11 11211 1222111 1112344444322 35
Q ss_pred CccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCCCCCCccHHHHHHHHH-hCCCEEEEE
Q psy8456 222 DIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPPPPEFPDVVSFAESMA-NAGKIVVVA 300 (353)
Q Consensus 222 ~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~~~~~~~-~~g~~Vi~~ 300 (353)
++++|+||..|.+.. . -...+|-+..|+..++. ....+| ..|+.|++.
T Consensus 170 ~~~~vVIDSIq~l~~-~------------~~~~~~g~~~q~r~~~~------------------~L~~~ak~~giTvllt 218 (454)
T TIGR00416 170 NPQACVIDSIQTLYS-P------------DISSAPGSVSQVRECTA------------------ELMRLAKTRGIAIFIV 218 (454)
T ss_pred CCcEEEEecchhhcc-c------------ccccCCCCHHHHHHHHH------------------HHHHHHHHhCCEEEEE
Confidence 789999999997510 0 00122334445544321 122222 689999998
Q ss_pred eccccccCCCchhHHhhhhcccceEEeee
Q psy8456 301 ALDGTFQRTGFNDILSLIPLAECVEKLTA 329 (353)
Q Consensus 301 gLd~df~~~~F~~~~~L~~~ad~v~kl~a 329 (353)
|=.+. .+ .+.+...|--++|.|..|..
T Consensus 219 ~hvtk-eg-~~aG~~~le~lvD~VI~Le~ 245 (454)
T TIGR00416 219 GHVTK-EG-SIAGPKVLEHMVDTVLYFEG 245 (454)
T ss_pred ecccc-CC-ccCCcccEeeeceEEEEEec
Confidence 74322 11 12233345567898888864
No 29
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=96.79 E-value=0.00043 Score=57.19 Aligned_cols=38 Identities=34% Similarity=0.304 Sum_probs=26.1
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHh-----CCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYA-----NYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~-----~~~~~~~k~~ 187 (353)
+..-+++||-|+|||+-+-+.++.+... +.+++.+...
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 46 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCP 46 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHH
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeC
Confidence 3456899999999999988888887654 5666644443
No 30
>PRK08727 hypothetical protein; Validated
Probab=96.71 E-value=0.0037 Score=58.56 Aligned_cols=63 Identities=14% Similarity=0.090 Sum_probs=42.5
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEecc
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEG 231 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~IDE~ 231 (353)
.-+++||-|+|||.-+--..+.....|+++..+.... . ...+.+++....++|+++|||+
T Consensus 43 ~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~---~-----------------~~~~~~~~~~l~~~dlLiIDDi 102 (233)
T PRK08727 43 WLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQA---A-----------------AGRLRDALEALEGRSLVALDGL 102 (233)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHH---h-----------------hhhHHHHHHHHhcCCEEEEeCc
Confidence 3689999999999655555666677788777665311 0 0112233344567899999999
Q ss_pred ccc
Q psy8456 232 QFV 234 (353)
Q Consensus 232 QF~ 234 (353)
|++
T Consensus 103 ~~l 105 (233)
T PRK08727 103 ESI 105 (233)
T ss_pred ccc
Confidence 986
No 31
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=96.71 E-value=0.001 Score=68.48 Aligned_cols=73 Identities=22% Similarity=0.282 Sum_probs=43.9
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHH---hCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEE
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQY---ANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGI 228 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~---~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~I 228 (353)
.-+++|+.|+||| .|++.+.++-. .+.+|+.+.+.. +. ..+....+. ....+.++.....++|+++|
T Consensus 143 pl~i~G~~G~GKT-HLl~Ai~~~l~~~~~~~~v~yv~~~~---f~-~~~~~~l~~-----~~~~~~~~~~~~~~~dvLiI 212 (450)
T PRK14087 143 PLFIYGESGMGKT-HLLKAAKNYIESNFSDLKVSYMSGDE---FA-RKAVDILQK-----THKEIEQFKNEICQNDVLII 212 (450)
T ss_pred ceEEECCCCCcHH-HHHHHHHHHHHHhCCCCeEEEEEHHH---HH-HHHHHHHHH-----hhhHHHHHHHHhccCCEEEE
Confidence 3579999999999 67788777533 367777655421 00 011110000 00223344444678999999
Q ss_pred eccccc
Q psy8456 229 DEGQFV 234 (353)
Q Consensus 229 DE~QF~ 234 (353)
||+||+
T Consensus 213 DDiq~l 218 (450)
T PRK14087 213 DDVQFL 218 (450)
T ss_pred eccccc
Confidence 999996
No 32
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein. It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication
Probab=96.59 E-value=0.0032 Score=69.05 Aligned_cols=83 Identities=27% Similarity=0.290 Sum_probs=53.1
Q ss_pred cceeeeeccCCCCchhHHHHHHHHH-HHhCCEEEEEeee------cCCCCCCC----ceeecc--Cc-------ccceee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRY-QYANYRCMIVRYA------KDDRYDTE----KVSTHD--QQ-------KLTAVS 209 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~-~~~~~~~~~~k~~------~D~R~~~~----~i~s~~--g~-------~~~a~~ 209 (353)
..+.++=.||||||||.|++-++.+ ...+.+|+++... +-.|+... -+...+ +. ..-++.
T Consensus 49 ~~V~vVRSpMGTGKTtaLi~wLk~~l~~~~~~VLvVShRrSL~~sL~~rf~~~~l~gFv~Y~d~~~~~i~~~~~~rLivq 128 (824)
T PF02399_consen 49 RGVLVVRSPMGTGKTTALIRWLKDALKNPDKSVLVVSHRRSLTKSLAERFKKAGLSGFVNYLDSDDYIIDGRPYDRLIVQ 128 (824)
T ss_pred CCeEEEECCCCCCcHHHHHHHHHHhccCCCCeEEEEEhHHHHHHHHHHHHhhcCCCcceeeeccccccccccccCeEEEE
Confidence 3567899999999999999988887 5678999988653 22232211 111111 11 122344
Q ss_pred cccHhhhccc-CCCccEEEEeccc
Q psy8456 210 AVELNKLIPH-TKDIDVIGIDEGQ 232 (353)
Q Consensus 210 ~~~~~~~~~~-~~~~~~i~IDE~Q 232 (353)
++++..+... .++||+|+|||+-
T Consensus 129 IdSL~R~~~~~l~~yDvVIIDEv~ 152 (824)
T PF02399_consen 129 IDSLHRLDGSLLDRYDVVIIDEVM 152 (824)
T ss_pred ehhhhhcccccccccCEEEEehHH
Confidence 5566555433 5679999999984
No 33
>PRK05642 DNA replication initiation factor; Validated
Probab=96.57 E-value=0.0043 Score=58.22 Aligned_cols=62 Identities=10% Similarity=0.176 Sum_probs=40.4
Q ss_pred eeeeeccCCCCchhHHHHHHHH-HHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEec
Q psy8456 152 KEVILGPMFSGKTTELIRRIRR-YQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGIDE 230 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~-~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~IDE 230 (353)
.-+++||-|+|||. |++.+.+ +...|.+|+.+.... ..++ ..+++....++|+++||+
T Consensus 47 ~l~l~G~~G~GKTH-Ll~a~~~~~~~~~~~v~y~~~~~--------~~~~------------~~~~~~~~~~~d~LiiDD 105 (234)
T PRK05642 47 LIYLWGKDGVGRSH-LLQAACLRFEQRGEPAVYLPLAE--------LLDR------------GPELLDNLEQYELVCLDD 105 (234)
T ss_pred eEEEECCCCCCHHH-HHHHHHHHHHhCCCcEEEeeHHH--------HHhh------------hHHHHHhhhhCCEEEEec
Confidence 45799999999985 5555544 455678887665421 1111 123334456789999999
Q ss_pred cccc
Q psy8456 231 GQFV 234 (353)
Q Consensus 231 ~QF~ 234 (353)
.|++
T Consensus 106 i~~~ 109 (234)
T PRK05642 106 LDVI 109 (234)
T ss_pred hhhh
Confidence 9995
No 34
>PRK06893 DNA replication initiation factor; Validated
Probab=96.57 E-value=0.0053 Score=57.29 Aligned_cols=62 Identities=19% Similarity=0.181 Sum_probs=41.3
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEeccc
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEGQ 232 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~IDE~Q 232 (353)
-+++||.|+|||+-+--..+.+..+|.++..+.... .. ....+++....++|+++|||+|
T Consensus 42 l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~---~~-----------------~~~~~~~~~~~~~dlLilDDi~ 101 (229)
T PRK06893 42 FYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSK---SQ-----------------YFSPAVLENLEQQDLVCLDDLQ 101 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHH---hh-----------------hhhHHHHhhcccCCEEEEeChh
Confidence 478999999999766666666667777776665421 00 0001233334678999999999
Q ss_pred cc
Q psy8456 233 FV 234 (353)
Q Consensus 233 F~ 234 (353)
++
T Consensus 102 ~~ 103 (229)
T PRK06893 102 AV 103 (229)
T ss_pred hh
Confidence 95
No 35
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=96.55 E-value=0.0031 Score=53.66 Aligned_cols=37 Identities=16% Similarity=0.135 Sum_probs=30.3
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhC--CEEEEEeee
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYAN--YRCMIVRYA 187 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~--~~~~~~k~~ 187 (353)
...++.||+|||||+.++..+.+....+ ++++++.|.
T Consensus 25 ~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~ 63 (201)
T smart00487 25 RDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPT 63 (201)
T ss_pred CcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCC
Confidence 4568999999999998888877775554 889999984
No 36
>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=96.45 E-value=0.0037 Score=50.53 Aligned_cols=37 Identities=16% Similarity=0.105 Sum_probs=26.3
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRY 186 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~ 186 (353)
+..-+++||.|+|||+-+...++.+...+..++.+..
T Consensus 19 ~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~ 55 (151)
T cd00009 19 PKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNA 55 (151)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEeh
Confidence 3456899999999998665555555555666666554
No 37
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=96.36 E-value=0.023 Score=51.17 Aligned_cols=132 Identities=18% Similarity=0.160 Sum_probs=77.0
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCC-CCCCCceeecc--------Cccccee---ecc---cHh
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDD-RYDTEKVSTHD--------QQKLTAV---SAV---ELN 214 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~-R~~~~~i~s~~--------g~~~~a~---~~~---~~~ 214 (353)
|-+++++|+ +.||||..+-.+.+..-+|++|+++.--+.. .+|+..+-.+- |....-. ... ...
T Consensus 3 G~i~vy~g~-G~Gkt~~a~g~~~ra~~~g~~v~~vQFlKg~~~~gE~~~l~~l~~v~~~~~g~~~~~~~~~~~~~~~~a~ 81 (159)
T cd00561 3 GLIQVYTGN-GKGKTTAALGLALRALGHGYRVGVVQFLKGGWKYGELKALERLPNIEIHRMGRGFFWTTENDEEDIAAAA 81 (159)
T ss_pred CEEEEECCC-CCCHHHHHHHHHHHHHHCCCeEEEEEEeCCCCccCHHHHHHhCCCcEEEECCCCCccCCCChHHHHHHHH
Confidence 445666666 9999999999999999999999995555443 33432222221 1110000 000 000
Q ss_pred hhc------ccCCCccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCCCCCCccHHHHHH
Q psy8456 215 KLI------PHTKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPPPPEFPDVVSFAE 288 (353)
Q Consensus 215 ~~~------~~~~~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~~~~ 288 (353)
+.. -...++|++++||+=..- ....++. .+|+++++
T Consensus 82 ~~~~~a~~~~~~~~~dLlVLDEi~~a~-----------------~~gli~~---------------------~~v~~ll~ 123 (159)
T cd00561 82 EGWAFAKEAIASGEYDLVILDEINYAL-----------------GYGLLDV---------------------EEVVDLLK 123 (159)
T ss_pred HHHHHHHHHHhcCCCCEEEEechHhHh-----------------hCCCCCH---------------------HHHHHHHH
Confidence 111 124789999999987620 0011111 23444333
Q ss_pred HHHhCCCEEEEEeccccccCCCchhHHhhhhcccceEEeeee
Q psy8456 289 SMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAV 330 (353)
Q Consensus 289 ~~~~~g~~Vi~~gLd~df~~~~F~~~~~L~~~ad~v~kl~a~ 330 (353)
+ .-.+..||+-|=+ ....|+++||-|++++.+
T Consensus 124 ~-rp~~~evIlTGr~---------~p~~l~e~AD~VTEm~~v 155 (159)
T cd00561 124 A-KPEDLELVLTGRN---------APKELIEAADLVTEMREV 155 (159)
T ss_pred c-CCCCCEEEEECCC---------CCHHHHHhCceeeeccee
Confidence 2 2346789998853 346799999999998754
No 38
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=96.35 E-value=0.0041 Score=64.12 Aligned_cols=72 Identities=17% Similarity=0.242 Sum_probs=42.3
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEecc
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEG 231 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~IDE~ 231 (353)
.-+++||-|+|||+-+-...+.+...|.+|+.+....=.+ .+. .+........+.....++|+++|||+
T Consensus 143 pl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~----~~~-------~~l~~~~~~~f~~~~~~~dvLiIDDi 211 (445)
T PRK12422 143 PIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTE----HLV-------SAIRSGEMQRFRQFYRNVDALFIEDI 211 (445)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHH----HHH-------HHHhcchHHHHHHHcccCCEEEEcch
Confidence 3589999999997655444444556788887666421000 000 00001112223233567899999999
Q ss_pred ccc
Q psy8456 232 QFV 234 (353)
Q Consensus 232 QF~ 234 (353)
||+
T Consensus 212 q~l 214 (445)
T PRK12422 212 EVF 214 (445)
T ss_pred hhh
Confidence 996
No 39
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=96.35 E-value=0.0036 Score=67.11 Aligned_cols=70 Identities=20% Similarity=0.314 Sum_probs=41.8
Q ss_pred eeeeccCCCCchhHHHHHHHHHHH---hCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEe
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQY---ANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGID 229 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~---~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~ID 229 (353)
-+|+|+-|+||| .|++.+-++-. .|++|+.+.... +. +... .++......++.....++|+++||
T Consensus 317 L~LyG~sGsGKT-HLL~AIa~~a~~~~~g~~V~Yitaee---f~-~el~-------~al~~~~~~~f~~~y~~~DLLlID 384 (617)
T PRK14086 317 LFIYGESGLGKT-HLLHAIGHYARRLYPGTRVRYVSSEE---FT-NEFI-------NSIRDGKGDSFRRRYREMDILLVD 384 (617)
T ss_pred EEEECCCCCCHH-HHHHHHHHHHHHhCCCCeEEEeeHHH---HH-HHHH-------HHHHhccHHHHHHHhhcCCEEEEe
Confidence 489999999998 56666655533 377887666421 00 0000 001111223333445779999999
Q ss_pred ccccc
Q psy8456 230 EGQFV 234 (353)
Q Consensus 230 E~QF~ 234 (353)
+.||+
T Consensus 385 DIq~l 389 (617)
T PRK14086 385 DIQFL 389 (617)
T ss_pred hhccc
Confidence 99996
No 40
>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=96.32 E-value=0.0082 Score=54.03 Aligned_cols=30 Identities=30% Similarity=0.225 Sum_probs=25.3
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEE
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCM 182 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~ 182 (353)
-+|+|+.++||||-|.+.+..++..|.++-
T Consensus 2 i~iTG~pG~GKTTll~k~i~~l~~~~~~v~ 31 (168)
T PF03266_consen 2 IFITGPPGVGKTTLLKKVIEELKKKGLPVG 31 (168)
T ss_dssp EEEES-TTSSHHHHHHHHHHHHHHTCGGEE
T ss_pred EEEECcCCCCHHHHHHHHHHHhhccCCccc
Confidence 378999999999999999999988777664
No 41
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=96.25 E-value=0.023 Score=51.96 Aligned_cols=131 Identities=15% Similarity=0.095 Sum_probs=77.2
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCC-CCCCcee-------eccCcccceee---------cccHh
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDR-YDTEKVS-------THDQQKLTAVS---------AVELN 214 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R-~~~~~i~-------s~~g~~~~a~~---------~~~~~ 214 (353)
...++++-+-||||..+-.+.|...+|++|+++.--+..+ +++..+. .+.|..+.-.. +.+..
T Consensus 7 li~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~~~ 86 (173)
T TIGR00708 7 IIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIAKAAW 86 (173)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHHHHHH
Confidence 3445555899999999999999999999998776666553 4432111 11121111000 00111
Q ss_pred hhc-c--cCCCccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCCCCCCccHHHHHHHHH
Q psy8456 215 KLI-P--HTKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPPPPEFPDVVSFAESMA 291 (353)
Q Consensus 215 ~~~-~--~~~~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~~~~~~~ 291 (353)
+.. . ...++|+|++||+=-.- ...-++. .+|++++++ .
T Consensus 87 ~~a~~~l~~~~~DlvVLDEi~~A~-----------------~~gli~~---------------------~~v~~lL~~-r 127 (173)
T TIGR00708 87 QHAKEMLADPELDLVLLDELTYAL-----------------KYGYLDV---------------------EEVVEALQE-R 127 (173)
T ss_pred HHHHHHHhcCCCCEEEehhhHHHH-----------------HCCCcCH---------------------HHHHHHHHh-C
Confidence 111 1 14789999999987410 0000111 244444432 3
Q ss_pred hCCCEEEEEeccccccCCCchhHHhhhhcccceEEeeee
Q psy8456 292 NAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAV 330 (353)
Q Consensus 292 ~~g~~Vi~~gLd~df~~~~F~~~~~L~~~ad~v~kl~a~ 330 (353)
..+..||+-|=+ ....|+++||.|++++.+
T Consensus 128 p~~~evVlTGR~---------~p~~l~e~AD~VTEm~~v 157 (173)
T TIGR00708 128 PGHQHVIITGRG---------CPQDLLELADLVTEMRPV 157 (173)
T ss_pred CCCCEEEEECCC---------CCHHHHHhCceeeeeccc
Confidence 457889998853 357899999999998764
No 42
>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=96.24 E-value=0.01 Score=60.33 Aligned_cols=67 Identities=30% Similarity=0.205 Sum_probs=40.6
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhccc-CCCccEEEEec
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPH-TKDIDVIGIDE 230 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~-~~~~~~i~IDE 230 (353)
+.+++||+.+||||-| ..+...+.+..++-...|.|...... .+.+..+... ..+-..|++||
T Consensus 39 i~~i~GpR~~GKTtll----~~l~~~~~~~~iy~~~~d~~~~~~~l------------~d~~~~~~~~~~~~~~yifLDE 102 (398)
T COG1373 39 IILILGPRQVGKTTLL----KLLIKGLLEEIIYINFDDLRLDRIEL------------LDLLRAYIELKEREKSYIFLDE 102 (398)
T ss_pred EEEEECCccccHHHHH----HHHHhhCCcceEEEEecchhcchhhH------------HHHHHHHHHhhccCCceEEEec
Confidence 7899999999999998 33444454445555556666543211 1112222111 11457999999
Q ss_pred cccc
Q psy8456 231 GQFV 234 (353)
Q Consensus 231 ~QF~ 234 (353)
+|++
T Consensus 103 Iq~v 106 (398)
T COG1373 103 IQNV 106 (398)
T ss_pred ccCc
Confidence 9995
No 43
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=96.19 E-value=0.038 Score=50.54 Aligned_cols=114 Identities=11% Similarity=0.115 Sum_probs=70.6
Q ss_pred CchHHHHHHHHHHHHHcCceEEEEeeccCC-CCCCCceeeccCCceeeee-----c-CCh----------hhhc-c--cC
Q psy8456 11 NPYIVHFCRRIRRYQYANYRCMIVRYAKDD-RYDTEKVATHDQQKLTAVS-----A-VEL----------NKLI-P--HT 70 (353)
Q Consensus 11 ~GKSteLLrr~~ry~~agkkvlv~Kp~iDt-Ry~~~~I~Sr~G~~~~Ai~-----i-~~l----------~ei~-~--~~ 70 (353)
-||||..+..+.|..-+|++|+++.--.-. .+++..+-.+.+..+.... . .+. .+.. . ..
T Consensus 16 kGKtt~a~g~a~ra~~~g~~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~~~~~a~~~l~~ 95 (173)
T TIGR00708 16 KGKTTAAFGMALRALGHGKKVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIAKAAWQHAKEMLAD 95 (173)
T ss_pred CChHHHHHHHHHHHHHCCCeEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHHHHHHHHHHHHHhc
Confidence 599999999999999999999655443333 2343212111122111100 0 111 1110 1 24
Q ss_pred CCccEEEEcccc------ChH--HHHHHHHHHHhCCCEEEEEecccccccCCchhHhhhhccccceEeccce
Q psy8456 71 KDIDVIGIDEGQ------FFP--DVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAV 134 (353)
Q Consensus 71 ~~~dvV~IDEaQ------FF~--dIv~l~~~l~~~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~Av 134 (353)
+.+|+|++||+- +++ ++.++.+. .-.+..||+-|=+ ....|+++||.|++++.+
T Consensus 96 ~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~-rp~~~evVlTGR~---------~p~~l~e~AD~VTEm~~v 157 (173)
T TIGR00708 96 PELDLVLLDELTYALKYGYLDVEEVVEALQE-RPGHQHVIITGRG---------CPQDLLELADLVTEMRPV 157 (173)
T ss_pred CCCCEEEehhhHHHHHCCCcCHHHHHHHHHh-CCCCCEEEEECCC---------CCHHHHHhCceeeeeccc
Confidence 689999999998 554 45554421 3457899999973 357799999999998754
No 44
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.08 E-value=0.023 Score=58.40 Aligned_cols=143 Identities=23% Similarity=0.310 Sum_probs=82.1
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHH--HhCCEEEEEeeecCC-CCCC-Cceeec---cCccc-ceeecccHhhhcccCC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQ--YANYRCMIVRYAKDD-RYDT-EKVSTH---DQQKL-TAVSAVELNKLIPHTK 221 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~--~~~~~~~~~k~~~D~-R~~~-~~i~s~---~g~~~-~a~~~~~~~~~~~~~~ 221 (353)
+...+++||-|+||||-+..-+..+. ..|++|.++.- |+ |.+. +.+.+. .|..+ .+....++...+....
T Consensus 221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~--D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~~ 298 (424)
T PRK05703 221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITL--DTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQLR 298 (424)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEEC--CccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHhC
Confidence 45778999999999999999988886 46789998863 43 2110 111111 11111 0111233444444456
Q ss_pred CccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhc--------cCCCCCCCCccHHHHHHHHHhC
Q psy8456 222 DIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAA--------LNVPPPPEFPDVVSFAESMANA 293 (353)
Q Consensus 222 ~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--------~~~~~~~~f~~~~~~~~~~~~~ 293 (353)
++|+|+||-+=+. +....++.+|..+.+. |-++...-..++.+++..+...
T Consensus 299 ~~DlVlIDt~G~~---------------------~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~~~~l~~~~~~f~~~ 357 (424)
T PRK05703 299 DCDVILIDTAGRS---------------------QRDKRLIEELKALIEFSGEPIDVYLVLSATTKYEDLKDIYKHFSRL 357 (424)
T ss_pred CCCEEEEeCCCCC---------------------CCCHHHHHHHHHHHhccCCCCeEEEEEECCCCHHHHHHHHHHhCCC
Confidence 7999999988552 2244556666555541 1122222224666666666655
Q ss_pred CC-EEEEEeccccccCCCchhHHhhh
Q psy8456 294 GK-IVVVAALDGTFQRTGFNDILSLI 318 (353)
Q Consensus 294 g~-~Vi~~gLd~df~~~~F~~~~~L~ 318 (353)
+. .||+-=||.+ ..|+.+..++
T Consensus 358 ~~~~vI~TKlDet---~~~G~i~~~~ 380 (424)
T PRK05703 358 PLDGLIFTKLDET---SSLGSILSLL 380 (424)
T ss_pred CCCEEEEeccccc---ccccHHHHHH
Confidence 55 5677777763 4566555543
No 45
>PF13245 AAA_19: Part of AAA domain
Probab=96.07 E-value=0.0098 Score=46.94 Aligned_cols=38 Identities=32% Similarity=0.341 Sum_probs=33.3
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHh----CCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYA----NYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~----~~~~~~~k~~ 187 (353)
+..-++.||.|||||+-+++++..+..+ +++|+++.|.
T Consensus 10 ~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t 51 (76)
T PF13245_consen 10 SPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPT 51 (76)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCC
Confidence 5566779999999999999999999876 8999998875
No 46
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=95.99 E-value=0.0067 Score=62.07 Aligned_cols=72 Identities=22% Similarity=0.179 Sum_probs=40.3
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHh--CCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEe
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYA--NYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGID 229 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~--~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~ID 229 (353)
.-+++||-|+|||.-+-...+..... +.+|+.+.... -. ..+.. ++......++......+|+++||
T Consensus 150 ~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~-~~---~~~~~-------~~~~~~~~~~~~~~~~~dlLiiD 218 (450)
T PRK00149 150 PLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEK-FT---NDFVN-------ALRNNTMEEFKEKYRSVDVLLID 218 (450)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHH-HH---HHHHH-------HHHcCcHHHHHHHHhcCCEEEEe
Confidence 35899999999986554444444444 56666655421 00 00000 00001223333334579999999
Q ss_pred ccccc
Q psy8456 230 EGQFV 234 (353)
Q Consensus 230 E~QF~ 234 (353)
|+||+
T Consensus 219 Di~~l 223 (450)
T PRK00149 219 DIQFL 223 (450)
T ss_pred hhhhh
Confidence 99996
No 47
>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=95.87 E-value=0.027 Score=51.09 Aligned_cols=64 Identities=13% Similarity=0.089 Sum_probs=39.1
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEec
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGIDE 230 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~IDE 230 (353)
..-+++||-|+|||+-+...++.....+..++.+.-..-. . ...+++......++++|||
T Consensus 39 ~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~--------~------------~~~~~~~~~~~~~lLvIDd 98 (226)
T TIGR03420 39 RFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELA--------Q------------ADPEVLEGLEQADLVCLDD 98 (226)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHHH--------H------------hHHHHHhhcccCCEEEEeC
Confidence 4567999999999987666555555556665544321100 0 0012222234568999999
Q ss_pred cccc
Q psy8456 231 GQFV 234 (353)
Q Consensus 231 ~QF~ 234 (353)
+|.+
T Consensus 99 i~~l 102 (226)
T TIGR03420 99 VEAI 102 (226)
T ss_pred hhhh
Confidence 9986
No 48
>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=95.87 E-value=0.052 Score=49.55 Aligned_cols=35 Identities=23% Similarity=0.259 Sum_probs=23.9
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHh-CCEEEEEe
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYA-NYRCMIVR 185 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~-~~~~~~~k 185 (353)
++.+|.||++|||||-|-.-++..... +.+++.+.
T Consensus 2 GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e 37 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIE 37 (198)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEc
Confidence 467899999999999886555554433 34555443
No 49
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.86 E-value=0.022 Score=57.99 Aligned_cols=83 Identities=22% Similarity=0.303 Sum_probs=53.4
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHH----hCCEEEEEeeecCC-CCCC-Cceeec---cCcccceee-cccHhhhccc
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQY----ANYRCMIVRYAKDD-RYDT-EKVSTH---DQQKLTAVS-AVELNKLIPH 219 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~----~~~~~~~~k~~~D~-R~~~-~~i~s~---~g~~~~a~~-~~~~~~~~~~ 219 (353)
..+.+++||.|+||||-+...+.+|.. .|++|.++.- |+ |.+. +...+. .|..+.... ...+.+.+..
T Consensus 174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~--Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~ 251 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITI--DNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQ 251 (388)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEec--cCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHH
Confidence 457789999999999999999988864 4788988764 33 4332 122221 122221111 1234443445
Q ss_pred CCCccEEEEeccccc
Q psy8456 220 TKDIDVIGIDEGQFV 234 (353)
Q Consensus 220 ~~~~~~i~IDE~QF~ 234 (353)
..++|+|+||++-..
T Consensus 252 ~~~~DlVLIDTaGr~ 266 (388)
T PRK12723 252 SKDFDLVLVDTIGKS 266 (388)
T ss_pred hCCCCEEEEcCCCCC
Confidence 678999999999884
No 50
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=95.84 E-value=0.055 Score=55.87 Aligned_cols=117 Identities=19% Similarity=0.210 Sum_probs=75.7
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCcee---eccCcc---cceeecccHhhhccc--CC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVS---THDQQK---LTAVSAVELNKLIPH--TK 221 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~---s~~g~~---~~a~~~~~~~~~~~~--~~ 221 (353)
+...+|-|..+-||||-|+|.+.++..++ +|+.+.-.. +..+|. .|.|.. +.-....++.+|+.+ ..
T Consensus 93 Gs~iLIgGdPGIGKSTLLLQva~~lA~~~-~vLYVsGEE----S~~QiklRA~RL~~~~~~l~l~aEt~~e~I~~~l~~~ 167 (456)
T COG1066 93 GSVILIGGDPGIGKSTLLLQVAARLAKRG-KVLYVSGEE----SLQQIKLRADRLGLPTNNLYLLAETNLEDIIAELEQE 167 (456)
T ss_pred ccEEEEccCCCCCHHHHHHHHHHHHHhcC-cEEEEeCCc----CHHHHHHHHHHhCCCccceEEehhcCHHHHHHHHHhc
Confidence 34678899999999999999999998888 898876422 111121 122321 222234567777654 58
Q ss_pred CccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCCCCCCccHHHHHHHHH-hCCCEEEEE
Q psy8456 222 DIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPPPPEFPDVVSFAESMA-NAGKIVVVA 300 (353)
Q Consensus 222 ~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~~~~~~~-~~g~~Vi~~ 300 (353)
++++++||=+|=+ |.+ -.+.+|-+-+||.+-+.. |+ ++| ..|+.+++.
T Consensus 168 ~p~lvVIDSIQT~--------~s~-----~~~SapGsVsQVRe~t~~--------------L~----~~AK~~~i~~fiV 216 (456)
T COG1066 168 KPDLVVIDSIQTL--------YSE-----EITSAPGSVSQVREVAAE--------------LM----RLAKTKNIAIFIV 216 (456)
T ss_pred CCCEEEEecccee--------ecc-----cccCCCCcHHHHHHHHHH--------------HH----HHHHHcCCeEEEE
Confidence 8999999999953 100 124566788888776532 22 233 478888877
Q ss_pred ec
Q psy8456 301 AL 302 (353)
Q Consensus 301 gL 302 (353)
|=
T Consensus 217 GH 218 (456)
T COG1066 217 GH 218 (456)
T ss_pred EE
Confidence 74
No 51
>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=95.83 E-value=0.036 Score=49.15 Aligned_cols=35 Identities=31% Similarity=0.447 Sum_probs=30.9
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
..++|+.+|||||-+.+.+.....+|++|-++|+.
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l~~~G~~V~viK~~ 36 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKALKARGYRVATIKHD 36 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecc
Confidence 35789999999999888888888889999999974
No 52
>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=95.82 E-value=0.0082 Score=60.39 Aligned_cols=72 Identities=19% Similarity=0.154 Sum_probs=39.6
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHh--CCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEe
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYA--NYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGID 229 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~--~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~ID 229 (353)
.-+++||-|+|||.-+-...+..... +.+|+.+.... -. ..+....+ .....++.....++|+++||
T Consensus 138 ~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~-~~---~~~~~~~~-------~~~~~~~~~~~~~~dlLiiD 206 (405)
T TIGR00362 138 PLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEK-FT---NDFVNALR-------NNKMEEFKEKYRSVDLLLID 206 (405)
T ss_pred eEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHH-HH---HHHHHHHH-------cCCHHHHHHHHHhCCEEEEe
Confidence 45899999999986554444444433 56677665321 00 00100000 01122333334568999999
Q ss_pred ccccc
Q psy8456 230 EGQFV 234 (353)
Q Consensus 230 E~QF~ 234 (353)
|+|++
T Consensus 207 Di~~l 211 (405)
T TIGR00362 207 DIQFL 211 (405)
T ss_pred hhhhh
Confidence 99996
No 53
>PRK06526 transposase; Provisional
Probab=95.74 E-value=0.011 Score=56.68 Aligned_cols=72 Identities=24% Similarity=0.158 Sum_probs=45.4
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEecc
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEG 231 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~IDE~ 231 (353)
--+++||.|+|||+-+....+....+|++|.++.... +...... +.....+...+....++|+++|||.
T Consensus 100 nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~~~--------l~~~l~~---~~~~~~~~~~l~~l~~~dlLIIDD~ 168 (254)
T PRK06526 100 NVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAAQ--------WVARLAA---AHHAGRLQAELVKLGRYPLLIVDEV 168 (254)
T ss_pred eEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhHHH--------HHHHHHH---HHhcCcHHHHHHHhccCCEEEEccc
Confidence 3589999999999887777777788899887654320 0000000 0011122333344567899999999
Q ss_pred ccc
Q psy8456 232 QFV 234 (353)
Q Consensus 232 QF~ 234 (353)
+.+
T Consensus 169 g~~ 171 (254)
T PRK06526 169 GYI 171 (254)
T ss_pred ccC
Confidence 984
No 54
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=95.73 E-value=0.065 Score=49.23 Aligned_cols=60 Identities=12% Similarity=0.092 Sum_probs=39.0
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEec
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGIDE 230 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~IDE 230 (353)
..-+++||-|+|||+-+-...+.....|..+.++...... +........++++|||
T Consensus 43 ~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~~~------------------------~~~~~~~~~~~liiDd 98 (227)
T PRK08903 43 RFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAASPL------------------------LAFDFDPEAELYAVDD 98 (227)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHHhH------------------------HHHhhcccCCEEEEeC
Confidence 4568999999999975555445445667777666543211 0011234578999999
Q ss_pred cccc
Q psy8456 231 GQFV 234 (353)
Q Consensus 231 ~QF~ 234 (353)
+|.+
T Consensus 99 i~~l 102 (227)
T PRK08903 99 VERL 102 (227)
T ss_pred hhhc
Confidence 9996
No 55
>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=95.69 E-value=0.079 Score=44.24 Aligned_cols=123 Identities=11% Similarity=0.004 Sum_probs=69.9
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCc--eeeccCCceee-e--e---cCChhh------hcccCCCccE
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEK--VATHDQQKLTA-V--S---AVELNK------LIPHTKDIDV 75 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~--I~Sr~G~~~~A-i--~---i~~l~e------i~~~~~~~dv 75 (353)
=+|||+-+...+......|.+++++......+..... ...+.+..-.. . . ...... ......++++
T Consensus 9 G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (165)
T cd01120 9 GSGKTTLALQLALNIATKGGKVVYVDIEEEIEELTERLIGESLKGALDNLIIVFATADDPAAARLLSKAERLRERGGDDL 88 (165)
T ss_pred CCCHHHHHHHHHHHHHhcCCEEEEEECCcchHHHHHHHhhhhhccccccEEEEEcCCCCCcHHHHHHHHHHHHhCCCCEE
Confidence 4899999999999888888999888764332200000 00000100000 0 0 011111 1123467999
Q ss_pred EEEccccCh---------------H-HHHHHHHHHHhCCCEEEEEecccccccCCc---hhHhhhhccccceEecc
Q psy8456 76 IGIDEGQFF---------------P-DVVSFAESMANAGKIVVVAALDGTFQRTGF---NDILSLIPLAECVEKLT 132 (353)
Q Consensus 76 V~IDEaQFF---------------~-dIv~l~~~l~~~G~~VivaGLd~DFr~~pF---~~~~~Ll~lAD~I~kL~ 132 (353)
++|||.|.+ . .+.++.+.+.+.|++|++.+=........+ .+...|.-+||.+..|.
T Consensus 89 lviDe~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~vv~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~l~ 164 (165)
T cd01120 89 IILDELTRLVRALREIREGYPGELDEELRELLERARKGGVTVIFTLQVPSGDKGDPRLTRGAQNLEDIADTVIVLS 164 (165)
T ss_pred EEEEcHHHHHHHHHHHHhcCChHHHHHHHHHHHHHhcCCceEEEEEecCCccccCcccccCccceeeecceEEEEe
Confidence 999999966 1 344556666667888887776555443333 13355667777776654
No 56
>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=95.68 E-value=0.043 Score=51.80 Aligned_cols=79 Identities=24% Similarity=0.242 Sum_probs=43.4
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCccccee-ecccHhhhccc--CCCccEE
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAV-SAVELNKLIPH--TKDIDVI 226 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~-~~~~~~~~~~~--~~~~~~i 226 (353)
+...++.|+++|||||-|-.-+......+.+++.+-....-+.... +...+... ...+..+++.. -.++|+|
T Consensus 127 ~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~~E~~l~~~-----~~~~~~~~~~~~~~~~~l~~~LR~~pD~i 201 (270)
T PF00437_consen 127 RGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDPPELRLPGP-----NQIQIQTRRDEISYEDLLKSALRQDPDVI 201 (270)
T ss_dssp TEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESSS-S--SCS-----SEEEEEEETTTBSHHHHHHHHTTS--SEE
T ss_pred ceEEEEECCCccccchHHHHHhhhccccccceEEeccccceeeccc-----ceEEEEeecCcccHHHHHHHHhcCCCCcc
Confidence 4567899999999999986555544444478887764433332211 01111111 12234444432 3689999
Q ss_pred EEecccc
Q psy8456 227 GIDEGQF 233 (353)
Q Consensus 227 ~IDE~QF 233 (353)
+|+|..=
T Consensus 202 iigEiR~ 208 (270)
T PF00437_consen 202 IIGEIRD 208 (270)
T ss_dssp EESCE-S
T ss_pred cccccCC
Confidence 9999986
No 57
>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=95.68 E-value=0.03 Score=61.37 Aligned_cols=78 Identities=23% Similarity=0.265 Sum_probs=50.0
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeecc--CcccceeecccH-hhhc---ccCCCc
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHD--QQKLTAVSAVEL-NKLI---PHTKDI 223 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~--g~~~~a~~~~~~-~~~~---~~~~~~ 223 (353)
+++.++.|+-|+||||-|-....-++..|++|+++-|+- +..-+. ....++..+..+ ...- ....+.
T Consensus 368 ~~~~il~G~aGTGKTtll~~i~~~~~~~g~~V~~~ApTg-------~Aa~~L~~~~g~~a~Ti~~~~~~~~~~~~~~~~~ 440 (744)
T TIGR02768 368 GDIAVVVGRAGTGKSTMLKAAREAWEAAGYRVIGAALSG-------KAAEGLQAESGIESRTLASLEYAWANGRDLLSDK 440 (744)
T ss_pred CCEEEEEecCCCCHHHHHHHHHHHHHhCCCeEEEEeCcH-------HHHHHHHhccCCceeeHHHHHhhhccCcccCCCC
Confidence 457899999999999887777677788899999998852 111111 111222232222 1111 113578
Q ss_pred cEEEEeccccc
Q psy8456 224 DVIGIDEGQFV 234 (353)
Q Consensus 224 ~~i~IDE~QF~ 234 (353)
|+++|||+..+
T Consensus 441 ~llIvDEasMv 451 (744)
T TIGR02768 441 DVLVIDEAGMV 451 (744)
T ss_pred cEEEEECcccC
Confidence 99999999997
No 58
>PRK05973 replicative DNA helicase; Provisional
Probab=95.61 E-value=0.054 Score=51.73 Aligned_cols=89 Identities=13% Similarity=0.038 Sum_probs=59.7
Q ss_pred HHHHH-hCCCEEEEEecccccccCCchhHhhhhccccceEeccceecccccccccccccccceeeeeccCCCCchhHHHH
Q psy8456 91 AESMA-NAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCMSCFRDAAFTKRIGQEKEVILGPMFSGKTTELIR 169 (353)
Q Consensus 91 ~~~l~-~~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~AvC~~CG~~A~f~~Ri~geI~vi~G~M~sGKt~~Li~ 169 (353)
++.+. ..|++-. -+||.=-..+-|...+.|-+-+...+....+ ..-=..+.+.+|.|+.++|||+-.++
T Consensus 14 a~~~~~~~~~~~~-~~~~~~a~~~g~~~w~~~~~~~~~~~p~~~l---------~GGl~~Gsl~LIaG~PG~GKT~lalq 83 (237)
T PRK05973 14 AKLLSRAQNIPLH-EALDRIAAEEGFSSWSLLAAKAAATTPAEEL---------FSQLKPGDLVLLGARPGHGKTLLGLE 83 (237)
T ss_pred HHHHHHhcCCcHH-HHHHHHHHHhccchHHHHHHhccCCCCHHHh---------cCCCCCCCEEEEEeCCCCCHHHHHHH
Confidence 44444 3455533 3567777788888888776644333332110 00001356889999999999999999
Q ss_pred HHHHHHHhCCEEEEEeeecC
Q psy8456 170 RIRRYQYANYRCMIVRYAKD 189 (353)
Q Consensus 170 ~~~~~~~~~~~~~~~k~~~D 189 (353)
-+.+...+|++|++|....+
T Consensus 84 fa~~~a~~Ge~vlyfSlEes 103 (237)
T PRK05973 84 LAVEAMKSGRTGVFFTLEYT 103 (237)
T ss_pred HHHHHHhcCCeEEEEEEeCC
Confidence 99998888999999987654
No 59
>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=95.56 E-value=0.042 Score=52.80 Aligned_cols=79 Identities=18% Similarity=0.183 Sum_probs=44.0
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhccc--CCCccEEE
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPH--TKDIDVIG 227 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~--~~~~~~i~ 227 (353)
.++.+|+||++|||||-|-..+......+.+++.+--...-+.. +...+..... .-....+.+.. -.++|+|+
T Consensus 80 ~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~~~~-~~~q~~v~~~----~~~~~~~~l~~~lR~~PD~i~ 154 (264)
T cd01129 80 HGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQIP-GINQVQVNEK----AGLTFARGLRAILRQDPDIIM 154 (264)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCceecCC-CceEEEeCCc----CCcCHHHHHHHHhccCCCEEE
Confidence 46789999999999998865555443346677665432222221 1110000000 00123333322 36899999
Q ss_pred Eecccc
Q psy8456 228 IDEGQF 233 (353)
Q Consensus 228 IDE~QF 233 (353)
|+|+.=
T Consensus 155 vgEiR~ 160 (264)
T cd01129 155 VGEIRD 160 (264)
T ss_pred eccCCC
Confidence 999875
No 60
>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=95.52 E-value=0.04 Score=52.06 Aligned_cols=147 Identities=16% Similarity=0.167 Sum_probs=71.1
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec-CCCCC-CCce--eeccCcccceeecccHhhhcccCCCccEE
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK-DDRYD-TEKV--STHDQQKLTAVSAVELNKLIPHTKDIDVI 226 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~-D~R~~-~~~i--~s~~g~~~~a~~~~~~~~~~~~~~~~~~i 226 (353)
...+++|++|+||||-.-. + ++ +.+++..-. ..+.. ...+ ...+--.......+.+..+-....+|+.|
T Consensus 13 ~~~liyG~~G~GKtt~a~~-~-----~~-~~~~~~~d~~~~~l~g~~~~~v~~~d~~~~~~~~~d~l~~~~~~~~~ydtV 85 (220)
T TIGR01618 13 NMYLIYGKPGTGKTSTIKY-L-----PG-KTLVLSFDMSSKVLIGDENVDIADHDDMPPIQAMVEFYVMQNIQAVKYDNI 85 (220)
T ss_pred cEEEEECCCCCCHHHHHHh-c-----CC-CCEEEeccccchhccCCCCCceeecCCCCCHHHHHHHHHHHHhccccCCEE
Confidence 4589999999999984332 2 34 344444321 22211 1111 00000000000011122222345789999
Q ss_pred EEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCCCCCC----ccHHHHHHHHHhCCCEEEEEec
Q psy8456 227 GIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPPPPEF----PDVVSFAESMANAGKIVVVAAL 302 (353)
Q Consensus 227 ~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f----~~~~~~~~~~~~~g~~Vi~~gL 302 (353)
+||.+.-++- .-+...||++ ++ ..|+.+.| ..+.+++..|.+.|+.|++.|-
T Consensus 86 VIDsI~~l~~----~~~~~~~r~~---k~-----------------~~~~~~~yg~~~~~fl~~l~~L~~~g~nII~tAh 141 (220)
T TIGR01618 86 VIDNISALQN----LWLENIGRAA---KN-----------------GQPELQHYQKLDLWFLDLLTVLKESNKNIYATAW 141 (220)
T ss_pred EEecHHHHHH----HHHHHHhhhc---CC-----------------CCcccccHHHHHHHHHHHHHHHHhCCCcEEEEEe
Confidence 9999997620 1111222221 11 11222223 2366677788889999998886
Q ss_pred ccc-----ccCCCch--------hHH-hhhhcccceEEee
Q psy8456 303 DGT-----FQRTGFN--------DIL-SLIPLAECVEKLT 328 (353)
Q Consensus 303 d~d-----f~~~~F~--------~~~-~L~~~ad~v~kl~ 328 (353)
..+ ..+.++. .+. .++.++|-|-++.
T Consensus 142 e~~~~~~de~G~~~~r~~P~i~~K~~n~l~G~~DvV~rl~ 181 (220)
T TIGR01618 142 ELTNQSSGESGQIYNRYQPDIREKVLNAFLGLTDVVGRIV 181 (220)
T ss_pred eccccccCCCCCCcceechhhhhhHHHhhcccccEEEEEE
Confidence 532 2233221 112 2666788887774
No 61
>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=95.51 E-value=0.069 Score=54.16 Aligned_cols=83 Identities=13% Similarity=0.082 Sum_probs=42.2
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHH--hCCEEEEEeeecCCCCC-CCceeeccCcccceeecccHhhhccc--CCCcc
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQY--ANYRCMIVRYAKDDRYD-TEKVSTHDQQKLTAVSAVELNKLIPH--TKDID 224 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~--~~~~~~~~k~~~D~R~~-~~~i~s~~g~~~~a~~~~~~~~~~~~--~~~~~ 224 (353)
+++.+++||++|||||-|-.-+..... .+.+++.+-....-... .+.+..-.+... ........+.+.. -.++|
T Consensus 149 ~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~IvtiEdp~E~~~~~~~~~~~~~q~ev-g~~~~~~~~~l~~aLR~~PD 227 (372)
T TIGR02525 149 AGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTYEDPIEYILGSPDDLLPPAQSQI-GRDVDSFANGIRLALRRAPK 227 (372)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecCchhccCCCceeeccccccc-CCCccCHHHHHHHhhccCCC
Confidence 457799999999999988554444332 24566655322221111 111110000000 0011123333322 36899
Q ss_pred EEEEecccc
Q psy8456 225 VIGIDEGQF 233 (353)
Q Consensus 225 ~i~IDE~QF 233 (353)
+|+|.|..=
T Consensus 228 ~I~vGEiRd 236 (372)
T TIGR02525 228 IIGVGEIRD 236 (372)
T ss_pred EEeeCCCCC
Confidence 999999885
No 62
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=95.44 E-value=0.01 Score=57.43 Aligned_cols=80 Identities=25% Similarity=0.326 Sum_probs=50.1
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHh-C-CEEEEEeeecCC-CCCC-Cceeec---cCcccce-eecccHhhhcccCC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYA-N-YRCMIVRYAKDD-RYDT-EKVSTH---DQQKLTA-VSAVELNKLIPHTK 221 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~-~-~~~~~~k~~~D~-R~~~-~~i~s~---~g~~~~a-~~~~~~~~~~~~~~ 221 (353)
+.+..++||-||||||-+...+..+... | ++|.++. .|+ |.+. +.+.+. .|..+.. ....++.+.+....
T Consensus 194 ~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~--~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~~~~ 271 (282)
T TIGR03499 194 GGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALIT--TDTYRIGAVEQLKTYAKILGVPVKVARDPKELRKALDRLR 271 (282)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEE--CCccchhHHHHHHHHHHHhCCceeccCCHHHHHHHHHHcc
Confidence 4577899999999999999999988776 5 8999887 344 2111 111111 1211111 11123445555557
Q ss_pred CccEEEEecc
Q psy8456 222 DIDVIGIDEG 231 (353)
Q Consensus 222 ~~~~i~IDE~ 231 (353)
++|+|+||.+
T Consensus 272 ~~d~vliDt~ 281 (282)
T TIGR03499 272 DKDLILIDTA 281 (282)
T ss_pred CCCEEEEeCC
Confidence 7999999964
No 63
>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=95.43 E-value=0.04 Score=55.75 Aligned_cols=118 Identities=9% Similarity=0.010 Sum_probs=73.7
Q ss_pred CCCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCcee---eccCCceeeee---cCChhhhcc--cCCCccEEEEcc
Q psy8456 9 RINPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVA---THDQQKLTAVS---AVELNKLIP--HTKDIDVIGIDE 80 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~---Sr~G~~~~Ai~---i~~l~ei~~--~~~~~dvV~IDE 80 (353)
.=+|||+-+++.+.++...|.+|+.+...- +.+.+. .|.|...+.+. ..++.++.. ...++++|+||+
T Consensus 91 pG~GKStLllq~a~~~a~~g~~VlYvs~EE----s~~qi~~Ra~rlg~~~~~l~l~~e~~le~I~~~i~~~~~~lVVIDS 166 (372)
T cd01121 91 PGIGKSTLLLQVAARLAKRGGKVLYVSGEE----SPEQIKLRADRLGISTENLYLLAETNLEDILASIEELKPDLVIIDS 166 (372)
T ss_pred CCCCHHHHHHHHHHHHHhcCCeEEEEECCc----CHHHHHHHHHHcCCCcccEEEEccCcHHHHHHHHHhcCCcEEEEcc
Confidence 457999999999999988888999886531 111222 23444333321 223444432 234799999999
Q ss_pred ccChH------------HHH----HHHHHHHhCCCEEEEEecccccccCCchhHhhhhccccceEecc
Q psy8456 81 GQFFP------------DVV----SFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLT 132 (353)
Q Consensus 81 aQFF~------------dIv----~l~~~l~~~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~ 132 (353)
+|++- |+. ++.+.+.+.|++|++.|--+. .+. +.+...|--++|.|..+.
T Consensus 167 Iq~l~~~~~~~~~g~~~qvr~~~~~L~~lak~~~itvilvghvtk-~g~-~aG~~~leh~vD~Vi~le 232 (372)
T cd01121 167 IQTVYSSELTSAPGSVSQVRECTAELMRFAKERNIPIFIVGHVTK-EGS-IAGPKVLEHMVDTVLYFE 232 (372)
T ss_pred hHHhhccccccCCCCHHHHHHHHHHHHHHHHHcCCeEEEEeeccC-CCc-ccCcccchhhceEEEEEE
Confidence 99872 222 244556678999999986432 122 333345556788888664
No 64
>PF13173 AAA_14: AAA domain
Probab=95.42 E-value=0.025 Score=47.76 Aligned_cols=85 Identities=15% Similarity=0.162 Sum_probs=51.8
Q ss_pred CCCCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCceeeccCCceeeeecCChhhh-ccc-CCCccEEEEccccChH
Q psy8456 8 DRINPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKL-IPH-TKDIDVIGIDEGQFFP 85 (353)
Q Consensus 8 ~~~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai~i~~l~ei-~~~-~~~~dvV~IDEaQFF~ 85 (353)
.|-+||||-|.+.++.+. .+.+++.+.= -|.+... ... .++.+. ... .++..+|+|||+|..+
T Consensus 10 ~R~vGKTtll~~~~~~~~-~~~~~~yi~~-~~~~~~~--~~~-----------~~~~~~~~~~~~~~~~~i~iDEiq~~~ 74 (128)
T PF13173_consen 10 PRGVGKTTLLKQLAKDLL-PPENILYINF-DDPRDRR--LAD-----------PDLLEYFLELIKPGKKYIFIDEIQYLP 74 (128)
T ss_pred CCCCCHHHHHHHHHHHhc-ccccceeecc-CCHHHHH--Hhh-----------hhhHHHHHHhhccCCcEEEEehhhhhc
Confidence 477999999999988776 4444444432 1222200 000 001111 111 2356789999999999
Q ss_pred HHHHHHHHHHhCC--CEEEEEecc
Q psy8456 86 DVVSFAESMANAG--KIVVVAALD 107 (353)
Q Consensus 86 dIv~l~~~l~~~G--~~VivaGLd 107 (353)
+..+.++.+.+.+ ..|++.|=.
T Consensus 75 ~~~~~lk~l~d~~~~~~ii~tgS~ 98 (128)
T PF13173_consen 75 DWEDALKFLVDNGPNIKIILTGSS 98 (128)
T ss_pred cHHHHHHHHHHhccCceEEEEccc
Confidence 7777777777665 788888753
No 65
>PF02702 KdpD: Osmosensitive K+ channel His kinase sensor domain; InterPro: IPR003852 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents the N-terminal domain found in KdpD sensor kinase proteins, which regulate the kdpFABC operon responsible for potassium transport []. The N-terminal domain forms part of the cytoplasmic region of the protein, which may be the sensor domain responsible for sensing turgor pressure [].; GO: 0000155 two-component sensor activity, 0004673 protein histidine kinase activity, 0000160 two-component signal transduction system (phosphorelay), 0016020 membrane; PDB: 2R8R_B.
Probab=95.39 E-value=0.082 Score=49.87 Aligned_cols=35 Identities=20% Similarity=0.261 Sum_probs=28.7
Q ss_pred cceeeeecc-CCCCchhHHHHHHHHHHHhCCEEEEE
Q psy8456 150 QEKEVILGP-MFSGKTTELIRRIRRYQYANYRCMIV 184 (353)
Q Consensus 150 geI~vi~G~-M~sGKt~~Li~~~~~~~~~~~~~~~~ 184 (353)
|.+.+++|. .|.|||-.+|+.++....+|..|++=
T Consensus 4 GrLkIflG~apGVGKTy~ML~ea~~l~~~G~DVViG 39 (211)
T PF02702_consen 4 GRLKIFLGAAPGVGKTYAMLQEAHRLKEQGVDVVIG 39 (211)
T ss_dssp --EEEEEESSTTSSHHHHHHHHHHHHHHTT--EEEE
T ss_pred ccEEEEEecCCCCCHHHHHHHHHHHHHHCCCCEEEE
Confidence 678889998 99999999999999999999999863
No 66
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.38 E-value=0.028 Score=58.89 Aligned_cols=80 Identities=18% Similarity=0.171 Sum_probs=53.2
Q ss_pred eeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecC----------CCCCCCceeeccCcccc--------------eee
Q psy8456 154 VILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKD----------DRYDTEKVSTHDQQKLT--------------AVS 209 (353)
Q Consensus 154 vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D----------~R~~~~~i~s~~g~~~~--------------a~~ 209 (353)
++.||.|||||.-.++.+......|++++++-|.+. .+++.....-|.+..-. -+.
T Consensus 1 LL~g~TGsGKT~v~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~f~~~v~vlhs~~~~~er~~~~~~~~~g~~~IV 80 (505)
T TIGR00595 1 LLFGVTGSGKTEVYLQAIEKVLALGKSVLVLVPEIALTPQMIQRFKYRFGSQVAVLHSGLSDSEKLQAWRKVKNGEILVV 80 (505)
T ss_pred CccCCCCCCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCcEEEEECCCCHHHHHHHHHHHHcCCCCEE
Confidence 468999999999999988888888999999999753 23443333445433110 011
Q ss_pred cccHhhhcccCCCccEEEEecccc
Q psy8456 210 AVELNKLIPHTKDIDVIGIDEGQF 233 (353)
Q Consensus 210 ~~~~~~~~~~~~~~~~i~IDE~QF 233 (353)
+..-..+....++.+.|+|||.|-
T Consensus 81 VGTrsalf~p~~~l~lIIVDEeh~ 104 (505)
T TIGR00595 81 IGTRSALFLPFKNLGLIIVDEEHD 104 (505)
T ss_pred ECChHHHcCcccCCCEEEEECCCc
Confidence 222222333357899999999985
No 67
>PRK08116 hypothetical protein; Validated
Probab=95.38 E-value=0.036 Score=53.39 Aligned_cols=73 Identities=14% Similarity=0.141 Sum_probs=41.6
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCcee-eccCcccceeecccHhhhcccCCCccEEEEec
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVS-THDQQKLTAVSAVELNKLIPHTKDIDVIGIDE 230 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~-s~~g~~~~a~~~~~~~~~~~~~~~~~~i~IDE 230 (353)
.-+++|+.|+|||.-+.-.++....+|+.|+++.... - -..+. +.++. .-....+++....++|+++||+
T Consensus 116 gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~-l---l~~i~~~~~~~-----~~~~~~~~~~~l~~~dlLviDD 186 (268)
T PRK08116 116 GLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQ-L---LNRIKSTYKSS-----GKEDENEIIRSLVNADLLILDD 186 (268)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHH-H---HHHHHHHHhcc-----ccccHHHHHHHhcCCCEEEEec
Confidence 3589999999997655555555566688887665311 0 00010 00000 0012233444567889999999
Q ss_pred ccc
Q psy8456 231 GQF 233 (353)
Q Consensus 231 ~QF 233 (353)
.+.
T Consensus 187 lg~ 189 (268)
T PRK08116 187 LGA 189 (268)
T ss_pred ccC
Confidence 975
No 68
>PHA00350 putative assembly protein
Probab=95.35 E-value=0.042 Score=56.32 Aligned_cols=31 Identities=19% Similarity=0.030 Sum_probs=26.8
Q ss_pred eeeeeccCCCCchhHHHH-HHHHHHHhCCEEE
Q psy8456 152 KEVILGPMFSGKTTELIR-RIRRYQYANYRCM 182 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~-~~~~~~~~~~~~~ 182 (353)
+.+++|.+|||||.+.+. .+..+..+|++|+
T Consensus 3 I~l~tG~pGSGKT~~aV~~~i~palk~GR~V~ 34 (399)
T PHA00350 3 IYAIVGRPGSYKSYEAVVYHIIPALKDGRKVI 34 (399)
T ss_pred eEEEecCCCCchhHHHHHHHHHHHHHCCCEEE
Confidence 678999999999999998 6788888898664
No 69
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=95.27 E-value=0.069 Score=48.16 Aligned_cols=114 Identities=14% Similarity=0.121 Sum_probs=74.6
Q ss_pred CCchHHHHHHHHHHHHHcCceEEE---EeeccCCCCCCCceeecc-CCceeeee------cCChhh-hc------c----
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMI---VRYAKDDRYDTEKVATHD-QQKLTAVS------AVELNK-LI------P---- 68 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv---~Kp~iDtRy~~~~I~Sr~-G~~~~Ai~------i~~l~e-i~------~---- 68 (353)
-.|||+..+..+.|.--+|++|++ +|... .+|+..+-.+. +...-... -.+..+ .. .
T Consensus 12 G~Gkt~~a~g~~~ra~~~g~~v~~vQFlKg~~--~~gE~~~l~~l~~v~~~~~g~~~~~~~~~~~~~~~~a~~~~~~a~~ 89 (159)
T cd00561 12 GKGKTTAALGLALRALGHGYRVGVVQFLKGGW--KYGELKALERLPNIEIHRMGRGFFWTTENDEEDIAAAAEGWAFAKE 89 (159)
T ss_pred CCCHHHHHHHHHHHHHHCCCeEEEEEEeCCCC--ccCHHHHHHhCCCcEEEECCCCCccCCCChHHHHHHHHHHHHHHHH
Confidence 469999999999999999999999 66531 23432222222 22111100 011111 10 0
Q ss_pred --cCCCccEEEEccccCh-H----HHHHHHHHHHhC--CCEEEEEecccccccCCchhHhhhhccccceEeccce
Q psy8456 69 --HTKDIDVIGIDEGQFF-P----DVVSFAESMANA--GKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAV 134 (353)
Q Consensus 69 --~~~~~dvV~IDEaQFF-~----dIv~l~~~l~~~--G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~Av 134 (353)
....||.|++||+=.- + +..++.+.+.++ +..||+-|=+ ....|+++||-|++++.+
T Consensus 90 ~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~---------~p~~l~e~AD~VTEm~~v 155 (159)
T cd00561 90 AIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRN---------APKELIEAADLVTEMREV 155 (159)
T ss_pred HHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCC---------CCHHHHHhCceeeeccee
Confidence 2468999999998776 3 455666666654 7889999974 357799999999998754
No 70
>PRK06921 hypothetical protein; Provisional
Probab=95.26 E-value=0.032 Score=53.75 Aligned_cols=70 Identities=17% Similarity=0.096 Sum_probs=44.0
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHh-CCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEe
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYA-NYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGID 229 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~-~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~ID 229 (353)
.--+++||.|+|||.-+...++....+ |..|+.+.... ...+... + .....+.+....+.|+++||
T Consensus 118 ~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~--------l~~~l~~---~--~~~~~~~~~~~~~~dlLiID 184 (266)
T PRK06921 118 NSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVE--------GFGDLKD---D--FDLLEAKLNRMKKVEVLFID 184 (266)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHH--------HHHHHHH---H--HHHHHHHHHHhcCCCEEEEe
Confidence 345899999999997776666666666 88888766411 0000000 0 01222333445789999999
Q ss_pred cccc
Q psy8456 230 EGQF 233 (353)
Q Consensus 230 E~QF 233 (353)
+.|+
T Consensus 185 Dl~~ 188 (266)
T PRK06921 185 DLFK 188 (266)
T ss_pred cccc
Confidence 9977
No 71
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=95.25 E-value=0.012 Score=60.28 Aligned_cols=71 Identities=25% Similarity=0.336 Sum_probs=42.0
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCC---EEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEE
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANY---RCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIG 227 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~---~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~ 227 (353)
+.-+|+||-|+||| +|++.+-++..+.. +++-+.+. .+. ...+ ++.......++-... ..|+++
T Consensus 114 nplfi~G~~GlGKT-HLl~Aign~~~~~~~~a~v~y~~se---~f~-~~~v-------~a~~~~~~~~Fk~~y-~~dlll 180 (408)
T COG0593 114 NPLFIYGGVGLGKT-HLLQAIGNEALANGPNARVVYLTSE---DFT-NDFV-------KALRDNEMEKFKEKY-SLDLLL 180 (408)
T ss_pred CcEEEECCCCCCHH-HHHHHHHHHHHhhCCCceEEeccHH---HHH-HHHH-------HHHHhhhHHHHHHhh-ccCeee
Confidence 45689999999997 88999988865533 23322211 110 0001 111112333343445 799999
Q ss_pred Eeccccc
Q psy8456 228 IDEGQFV 234 (353)
Q Consensus 228 IDE~QF~ 234 (353)
||-+||+
T Consensus 181 IDDiq~l 187 (408)
T COG0593 181 IDDIQFL 187 (408)
T ss_pred echHhHh
Confidence 9999995
No 72
>PRK14974 cell division protein FtsY; Provisional
Probab=95.23 E-value=0.036 Score=55.46 Aligned_cols=81 Identities=21% Similarity=0.253 Sum_probs=50.9
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCC-CCCC-Cceeec---cCcccceeec---ccHh----hhc
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDD-RYDT-EKVSTH---DQQKLTAVSA---VELN----KLI 217 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~-R~~~-~~i~s~---~g~~~~a~~~---~~~~----~~~ 217 (353)
....+++||.|+||||-+...++.+...|.+|.++. .|+ |.+. +...++ .|. +.+.. .++. +.+
T Consensus 140 ~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~--~Dt~R~~a~eqL~~~a~~lgv--~v~~~~~g~dp~~v~~~ai 215 (336)
T PRK14974 140 PVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAA--GDTFRAGAIEQLEEHAERLGV--KVIKHKYGADPAAVAYDAI 215 (336)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEec--CCcCcHHHHHHHHHHHHHcCC--ceecccCCCCHHHHHHHHH
Confidence 346788999999999999999999988899998865 453 3221 122211 121 11111 1111 211
Q ss_pred c--cCCCccEEEEeccccc
Q psy8456 218 P--HTKDIDVIGIDEGQFV 234 (353)
Q Consensus 218 ~--~~~~~~~i~IDE~QF~ 234 (353)
. ...++|+|+||.++.+
T Consensus 216 ~~~~~~~~DvVLIDTaGr~ 234 (336)
T PRK14974 216 EHAKARGIDVVLIDTAGRM 234 (336)
T ss_pred HHHHhCCCCEEEEECCCcc
Confidence 1 2467899999999985
No 73
>PRK06620 hypothetical protein; Validated
Probab=95.21 E-value=0.045 Score=50.93 Aligned_cols=18 Identities=44% Similarity=0.471 Sum_probs=14.0
Q ss_pred eeeeccCCCCchhHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRI 171 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~ 171 (353)
-+++||-|||||+ |++.+
T Consensus 47 l~l~Gp~G~GKTh-Ll~a~ 64 (214)
T PRK06620 47 LLIKGPSSSGKTY-LTKIW 64 (214)
T ss_pred EEEECCCCCCHHH-HHHHH
Confidence 4899999999985 44543
No 74
>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=95.17 E-value=0.14 Score=47.96 Aligned_cols=40 Identities=18% Similarity=0.189 Sum_probs=27.9
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhC--CEEEEEeeecC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYAN--YRCMIVRYAKD 189 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~--~~~~~~k~~~D 189 (353)
..+.++.||.|+|||.-.+..+...-..| .++++++|...
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 45788999999999988887777665555 58999999885
No 75
>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=95.11 E-value=0.1 Score=51.90 Aligned_cols=80 Identities=20% Similarity=0.191 Sum_probs=42.2
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHH-hCCEEEEEeeecCCCCC-CCceeeccCcccceeecccHhhhccc--CCCccE
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQY-ANYRCMIVRYAKDDRYD-TEKVSTHDQQKLTAVSAVELNKLIPH--TKDIDV 225 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~-~~~~~~~~k~~~D~R~~-~~~i~s~~g~~~~a~~~~~~~~~~~~--~~~~~~ 225 (353)
+++-++.||++|||||-|-.-++.... .+.+++.+.....-.+. ...+.++...... .....+.+.. -.++|+
T Consensus 122 ~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiEdp~E~~~~~~~~~i~q~evg~~---~~~~~~~l~~~lr~~pd~ 198 (343)
T TIGR01420 122 RGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITIEDPIEYVHRNKRSLINQREVGLD---TLSFANALRAALREDPDV 198 (343)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEcCChhhhccCccceEEccccCCC---CcCHHHHHHHhhccCCCE
Confidence 567899999999999988655544432 24566655332211111 0111111100000 1123333322 378999
Q ss_pred EEEeccc
Q psy8456 226 IGIDEGQ 232 (353)
Q Consensus 226 i~IDE~Q 232 (353)
|++||.-
T Consensus 199 i~vgEir 205 (343)
T TIGR01420 199 ILIGEMR 205 (343)
T ss_pred EEEeCCC
Confidence 9999984
No 76
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=95.08 E-value=0.032 Score=56.01 Aligned_cols=79 Identities=22% Similarity=0.170 Sum_probs=56.0
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCC-CCCC-C-----------ceeeccCcccceeecccHhhhc
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDD-RYDT-E-----------KVSTHDQQKLTAVSAVELNKLI 217 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~-R~~~-~-----------~i~s~~g~~~~a~~~~~~~~~~ 217 (353)
...+++|..|+||||-+-.-++.|+..|++|++.- -|| |.+. + .+.+|. .-+.++.-.++-+
T Consensus 140 ~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA--~DTFRAaAiEQL~~w~er~gv~vI~~~---~G~DpAaVafDAi 214 (340)
T COG0552 140 FVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAA--GDTFRAAAIEQLEVWGERLGVPVISGK---EGADPAAVAFDAI 214 (340)
T ss_pred EEEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEe--cchHHHHHHHHHHHHHHHhCCeEEccC---CCCCcHHHHHHHH
Confidence 35578999999999999999999999999999864 355 6441 1 234432 1233343344444
Q ss_pred cc--CCCccEEEEeccccc
Q psy8456 218 PH--TKDIDVIGIDEGQFV 234 (353)
Q Consensus 218 ~~--~~~~~~i~IDE~QF~ 234 (353)
.+ ..++|+++||=|=.+
T Consensus 215 ~~Akar~~DvvliDTAGRL 233 (340)
T COG0552 215 QAAKARGIDVVLIDTAGRL 233 (340)
T ss_pred HHHHHcCCCEEEEeCcccc
Confidence 33 588999999999876
No 77
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=95.04 E-value=0.051 Score=56.11 Aligned_cols=142 Identities=13% Similarity=0.178 Sum_probs=83.2
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCC-CCC-CCceeecc-Ccccceeecc---cHhhhcccC---C
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDD-RYD-TEKVSTHD-QQKLTAVSAV---ELNKLIPHT---K 221 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~-R~~-~~~i~s~~-g~~~~a~~~~---~~~~~~~~~---~ 221 (353)
....++||.||||||-+..-+..+..+|++|.++.. |+ |.+ .+...+.. -..++.+... .+.+.+... .
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~a--Dt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~ 319 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITT--DHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEA 319 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEec--CCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhcc
Confidence 466899999999999999999999888999998764 33 322 12222210 0112222222 233333222 3
Q ss_pred CccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccC-------CCCCCCCccHHHHHHHHHhCC
Q psy8456 222 DIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALN-------VPPPPEFPDVVSFAESMANAG 294 (353)
Q Consensus 222 ~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-------~~~~~~f~~~~~~~~~~~~~g 294 (353)
++|+|+||-+=.. +....++.+|..+..+.. ++..---.|+.++++.....|
T Consensus 320 ~~DvVLIDTaGRs---------------------~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~~d~~~i~~~F~~~~ 378 (436)
T PRK11889 320 RVDYILIDTAGKN---------------------YRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFKDIH 378 (436)
T ss_pred CCCEEEEeCcccc---------------------CcCHHHHHHHHHHHhhcCCCeEEEEECCccChHHHHHHHHHhcCCC
Confidence 6899999988552 124556677766554311 111111136777777777666
Q ss_pred CE-EEEEeccccccCCCchhHHhhh
Q psy8456 295 KI-VVVAALDGTFQRTGFNDILSLI 318 (353)
Q Consensus 295 ~~-Vi~~gLd~df~~~~F~~~~~L~ 318 (353)
+. +|+-=||.+- .+|.+..++
T Consensus 379 idglI~TKLDET~---k~G~iLni~ 400 (436)
T PRK11889 379 IDGIVFTKFDETA---SSGELLKIP 400 (436)
T ss_pred CCEEEEEcccCCC---CccHHHHHH
Confidence 54 6777788765 355555543
No 78
>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=95.03 E-value=0.26 Score=45.30 Aligned_cols=21 Identities=33% Similarity=0.328 Sum_probs=17.1
Q ss_pred cceeeeeccCCCCchhHHHHH
Q psy8456 150 QEKEVILGPMFSGKTTELIRR 170 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~ 170 (353)
+++.+++||.+|||||-|=..
T Consensus 25 g~~~~ltGpNg~GKSTllr~i 45 (199)
T cd03283 25 KNGILITGSNMSGKSTFLRTI 45 (199)
T ss_pred CcEEEEECCCCCChHHHHHHH
Confidence 468899999999999876443
No 79
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=94.97 E-value=0.1 Score=48.51 Aligned_cols=115 Identities=14% Similarity=0.136 Sum_probs=75.8
Q ss_pred CchHHHHHHHHHHHHHcCceEEEEeeccCC-CCCCCceeecc-CCceeeee-----c-CCh-hhhc----------c--c
Q psy8456 11 NPYIVHFCRRIRRYQYANYRCMIVRYAKDD-RYDTEKVATHD-QQKLTAVS-----A-VEL-NKLI----------P--H 69 (353)
Q Consensus 11 ~GKSteLLrr~~ry~~agkkvlv~Kp~iDt-Ry~~~~I~Sr~-G~~~~Ai~-----i-~~l-~ei~----------~--~ 69 (353)
-|||+..+..+.|.--+|.+|+++.--... .+|+...-++. +..+.... . .+. .+.. . .
T Consensus 33 kGKtt~a~g~a~ra~g~G~~V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~~~~~~~~~a~~~l~ 112 (191)
T PRK05986 33 KGKSTAAFGMALRAVGHGKKVGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTGFTWETQDRERDIAAAREGWEEAKRMLA 112 (191)
T ss_pred CChHHHHHHHHHHHHHCCCeEEEEEEecCCCccCHHHHHhcCCCcEEEECCCCCcccCCCcHHHHHHHHHHHHHHHHHHh
Confidence 599999999999999999999998887766 34443333332 22222110 0 111 1111 0 2
Q ss_pred CCCccEEEEccccCh-H----HHHHHHHHHHh--CCCEEEEEecccccccCCchhHhhhhccccceEeccce
Q psy8456 70 TKDIDVIGIDEGQFF-P----DVVSFAESMAN--AGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAV 134 (353)
Q Consensus 70 ~~~~dvV~IDEaQFF-~----dIv~l~~~l~~--~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~Av 134 (353)
.+.||+|+.||+--- . +..++.+.+.+ .+..||+-|=+ ....|+++||-|++++.+
T Consensus 113 ~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~---------~p~~Lie~ADlVTEm~~v 175 (191)
T PRK05986 113 DESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRG---------APRELIEAADLVTEMRPV 175 (191)
T ss_pred CCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCC---------CCHHHHHhCchheecccc
Confidence 468999999998654 1 34455555554 47899999974 356799999999998764
No 80
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=94.97 E-value=0.11 Score=48.15 Aligned_cols=38 Identities=11% Similarity=0.011 Sum_probs=33.6
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
+.+.++.|+.+||||+-..+-+.....+|.+|+++.-.
T Consensus 25 g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e 62 (234)
T PRK06067 25 PSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTE 62 (234)
T ss_pred CcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcC
Confidence 46788999999999999999988887889999988864
No 81
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.91 E-value=0.07 Score=54.25 Aligned_cols=82 Identities=18% Similarity=0.191 Sum_probs=51.3
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHh-C-CEEEEEeeecCC-CCCC-Cceee---ccCcccceee-cccHhhhcccCC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYA-N-YRCMIVRYAKDD-RYDT-EKVST---HDQQKLTAVS-AVELNKLIPHTK 221 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~-~-~~~~~~k~~~D~-R~~~-~~i~s---~~g~~~~a~~-~~~~~~~~~~~~ 221 (353)
+++.+++||.|+||||-+.+-+.++... | ++|.++.. |+ |.+. +.+.+ .-|..+..+. ..++...+....
T Consensus 137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~--D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~ 214 (374)
T PRK14722 137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTT--DSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELR 214 (374)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEec--ccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhc
Confidence 5678899999999999999999988644 5 57877763 33 5432 11211 1122211111 123444445567
Q ss_pred CccEEEEecccc
Q psy8456 222 DIDVIGIDEGQF 233 (353)
Q Consensus 222 ~~~~i~IDE~QF 233 (353)
+.|+|+||++=+
T Consensus 215 ~~DlVLIDTaG~ 226 (374)
T PRK14722 215 NKHMVLIDTIGM 226 (374)
T ss_pred CCCEEEEcCCCC
Confidence 889999999965
No 82
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.87 E-value=0.097 Score=55.75 Aligned_cols=144 Identities=24% Similarity=0.275 Sum_probs=83.5
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHh--CCEEEEEeeecCC-CCCC-Cceeec---cCcccce-eecccHhhhcccCC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYA--NYRCMIVRYAKDD-RYDT-EKVSTH---DQQKLTA-VSAVELNKLIPHTK 221 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~--~~~~~~~k~~~D~-R~~~-~~i~s~---~g~~~~a-~~~~~~~~~~~~~~ 221 (353)
+++..++||-|+||||-+..-+..+... +++|.++.- |+ |-+. +...+. .|..+.. .....+.+++....
T Consensus 350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdt--DtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l~ 427 (559)
T PRK12727 350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTT--DTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERLR 427 (559)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEec--ccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHhc
Confidence 5677899999999999998888877554 578887763 43 3221 111111 1211111 11234555555567
Q ss_pred CccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHh------hccCCCCCCCCccHHHHHHHHHhCC-
Q psy8456 222 DIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANEN------AALNVPPPPEFPDVVSFAESMANAG- 294 (353)
Q Consensus 222 ~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~------~~~~~~~~~~f~~~~~~~~~~~~~g- 294 (353)
++|+|+||.+=.. +.......+|..+. .-|-+|..+.+.++.++++.+...+
T Consensus 428 ~~DLVLIDTaG~s---------------------~~D~~l~eeL~~L~aa~~~a~lLVLpAtss~~Dl~eii~~f~~~~~ 486 (559)
T PRK12727 428 DYKLVLIDTAGMG---------------------QRDRALAAQLNWLRAARQVTSLLVLPANAHFSDLDEVVRRFAHAKP 486 (559)
T ss_pred cCCEEEecCCCcc---------------------hhhHHHHHHHHHHHHhhcCCcEEEEECCCChhHHHHHHHHHHhhCC
Confidence 8999999998762 11223333333222 1234455555667777777776543
Q ss_pred CEEEEEeccccccCCCchhHHhhhh
Q psy8456 295 KIVVVAALDGTFQRTGFNDILSLIP 319 (353)
Q Consensus 295 ~~Vi~~gLd~df~~~~F~~~~~L~~ 319 (353)
.-+|+-.||.+ ..++.++.++.
T Consensus 487 ~gvILTKlDEt---~~lG~aLsv~~ 508 (559)
T PRK12727 487 QGVVLTKLDET---GRFGSALSVVV 508 (559)
T ss_pred eEEEEecCcCc---cchhHHHHHHH
Confidence 34777778774 34566666543
No 83
>PRK10436 hypothetical protein; Provisional
Probab=94.84 E-value=0.079 Score=55.20 Aligned_cols=80 Identities=20% Similarity=0.229 Sum_probs=45.0
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhccc--CCCccEE
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPH--TKDIDVI 226 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~--~~~~~~i 226 (353)
..++-++.||+||||||-|-..+......+++++-+-.-..-+.. .+. +..+....-.+..+.+.. -.++|+|
T Consensus 217 ~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i~TiEDPvE~~l~--gi~---Q~~v~~~~g~~f~~~lr~~LR~dPDvI 291 (462)
T PRK10436 217 PQGLILVTGPTGSGKTVTLYSALQTLNTAQINICSVEDPVEIPLA--GIN---QTQIHPKAGLTFQRVLRALLRQDPDVI 291 (462)
T ss_pred cCCeEEEECCCCCChHHHHHHHHHhhCCCCCEEEEecCCccccCC--Ccc---eEeeCCccCcCHHHHHHHHhcCCCCEE
Confidence 467889999999999999866665544445666654433322211 110 001100000123333332 3789999
Q ss_pred EEecccc
Q psy8456 227 GIDEGQF 233 (353)
Q Consensus 227 ~IDE~QF 233 (353)
.|.|+-=
T Consensus 292 ~vGEIRD 298 (462)
T PRK10436 292 MVGEIRD 298 (462)
T ss_pred EECCCCC
Confidence 9999875
No 84
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=94.84 E-value=0.067 Score=60.48 Aligned_cols=78 Identities=18% Similarity=0.170 Sum_probs=46.4
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccC--cccceeecccHhhhc----ccCCCc
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQ--QKLTAVSAVELNKLI----PHTKDI 223 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g--~~~~a~~~~~~~~~~----~~~~~~ 223 (353)
.++.++.|+-|+||||-|-....-++..|++|+.+-|+- +...+.+ ...++..+..+..-. ....+.
T Consensus 362 ~~v~vv~G~AGTGKTT~l~~~~~~~e~~G~~V~~~ApTG-------kAA~~L~e~tGi~a~TI~sll~~~~~~~~~l~~~ 434 (988)
T PRK13889 362 RDLGVVVGYAGTGKSAMLGVAREAWEAAGYEVRGAALSG-------IAAENLEGGSGIASRTIASLEHGWGQGRDLLTSR 434 (988)
T ss_pred CCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEecCcH-------HHHHHHhhccCcchhhHHHHHhhhcccccccccC
Confidence 357889999999999965444444577799999988842 2111111 111122221211000 113567
Q ss_pred cEEEEeccccc
Q psy8456 224 DVIGIDEGQFV 234 (353)
Q Consensus 224 ~~i~IDE~QF~ 234 (353)
++++|||+-.+
T Consensus 435 ~vlIVDEASMv 445 (988)
T PRK13889 435 DVLVIDEAGMV 445 (988)
T ss_pred cEEEEECcccC
Confidence 89999999996
No 85
>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=94.83 E-value=0.065 Score=51.24 Aligned_cols=61 Identities=21% Similarity=0.121 Sum_probs=34.5
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEeccc
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEGQ 232 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~IDE~Q 232 (353)
-+++||.|+|||+-+...++.. +..+........ .....+.+.+......++++|||+|
T Consensus 33 ~ll~Gp~G~GKT~la~~ia~~~---~~~~~~~~~~~~------------------~~~~~l~~~l~~~~~~~vl~iDEi~ 91 (305)
T TIGR00635 33 LLLYGPPGLGKTTLAHIIANEM---GVNLKITSGPAL------------------EKPGDLAAILTNLEEGDVLFIDEIH 91 (305)
T ss_pred EEEECCCCCCHHHHHHHHHHHh---CCCEEEeccchh------------------cCchhHHHHHHhcccCCEEEEehHh
Confidence 5899999999997665554432 222222111000 0112233333334567899999999
Q ss_pred cc
Q psy8456 233 FV 234 (353)
Q Consensus 233 F~ 234 (353)
++
T Consensus 92 ~l 93 (305)
T TIGR00635 92 RL 93 (305)
T ss_pred hh
Confidence 96
No 86
>PF02572 CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; InterPro: IPR003724 ATP:cob(I)alamin (or ATP:corrinoid) adenosyltransferases (2.5.1.17 from EC), catalyse the conversion of cobalamin (vitamin B12) into its coenzyme form, adenosylcobalamin (coenzyme B12) []. Adenosylcobalamin (AdoCbl) is required for the ativity of certain enzymes. AdoCbl contains an adenosyl moiety liganded to the cobalt ion of cobalamin via a covalent Co-C bond, and its synthesis is unique to certain prokaryotes. ATP:cob(I)alamin adenosyltransferases are classed into three groups: CobA-type [], EutT-type [] and PduO-type []. Each of the three enzyme types appears to be specialised for particular AdoCbl-dependent enzymes or for the de novo synthesis AdoCbl. PduO and EutT are distantly related, sharing short conserved motifs, while CobA is evolutionarily unrelated and is an example of convergent evolution. This entry represents the ATP:cob(I)alamin adenosyltransferases CobA (Salmonella typhimurium), CobO (Pseudomonas denitrificans), and ButR (Escherichia coli). There is a high degree of sequence identity between these proteins []. CobA is responsible for attaching the adenosyl moiety from ATP to the cobalt ion of the corrin ring, necessary for the convertion of cobalamin to adenosylcobalamin [, ]. ; GO: 0005524 ATP binding, 0008817 cob(I)yrinic acid a,c-diamide adenosyltransferase activity, 0009236 cobalamin biosynthetic process; PDB: 1G64_A 1G5T_A 1G5R_A.
Probab=94.78 E-value=0.035 Score=50.71 Aligned_cols=115 Identities=17% Similarity=0.170 Sum_probs=63.4
Q ss_pred CchHHHHHHHHHHHHHcCceEEEEeeccCCCC-CCCceeeccC-Cceee-----eecCChh--hh------cc------c
Q psy8456 11 NPYIVHFCRRIRRYQYANYRCMIVRYAKDDRY-DTEKVATHDQ-QKLTA-----VSAVELN--KL------IP------H 69 (353)
Q Consensus 11 ~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy-~~~~I~Sr~G-~~~~A-----i~i~~l~--ei------~~------~ 69 (353)
-||||..+..+-|.--.|++|+++.--...++ ++-..-.+.+ ..... +.-.+.. +. .. .
T Consensus 14 KGKTTAAlGlalRA~G~G~rV~ivQFlKg~~~~GE~~~l~~l~~~~~~~~g~~f~~~~~~~~~~~~~~~~~~~~a~~~i~ 93 (172)
T PF02572_consen 14 KGKTTAALGLALRAAGHGMRVLIVQFLKGGRYSGELKALKKLPNVEIERFGKGFVWRMNEEEEDRAAAREGLEEAKEAIS 93 (172)
T ss_dssp S-HHHHHHHHHHHHHCTT--EEEEESS--SS--HHHHHHGGGT--EEEE--TT----GGGHHHHHHHHHHHHHHHHHHTT
T ss_pred CCchHHHHHHHHHHHhCCCEEEEEEEecCCCCcCHHHHHHhCCeEEEEEcCCcccccCCCcHHHHHHHHHHHHHHHHHHh
Confidence 49999999999999999999999988777443 3322222222 22211 1111111 11 00 2
Q ss_pred CCCccEEEEccccCh-H----HHHHHHHHHHh--CCCEEEEEecccccccCCchhHhhhhccccceEeccce
Q psy8456 70 TKDIDVIGIDEGQFF-P----DVVSFAESMAN--AGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAV 134 (353)
Q Consensus 70 ~~~~dvV~IDEaQFF-~----dIv~l~~~l~~--~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~Av 134 (353)
...+|+|++||+=-- . +..++.+.+.+ .+..|++-|=+ ....|+++||-|++++.+
T Consensus 94 ~~~~dlvILDEi~~a~~~gll~~~~v~~~l~~rp~~~evVlTGR~---------~~~~l~e~ADlVTem~~v 156 (172)
T PF02572_consen 94 SGEYDLVILDEINYAVDYGLLSEEEVLDLLENRPESLEVVLTGRN---------APEELIEAADLVTEMREV 156 (172)
T ss_dssp -TT-SEEEEETHHHHHHTTSS-HHHHHHHHHTS-TT-EEEEE-SS-----------HHHHHH-SEEEEEEEC
T ss_pred CCCCCEEEEcchHHHhHCCCccHHHHHHHHHcCCCCeEEEEECCC---------CCHHHHHhCCeeeeecee
Confidence 468999999998432 1 33344444554 68899999973 357899999999998765
No 87
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=94.77 E-value=0.039 Score=56.79 Aligned_cols=71 Identities=28% Similarity=0.399 Sum_probs=38.8
Q ss_pred eeeeeccCCCCchhHHHHHHHHH-HHh--CCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccC-CCccEEE
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRY-QYA--NYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHT-KDIDVIG 227 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~-~~~--~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~-~~~~~i~ 227 (353)
.-+++||-|+|||. |++.+.++ ... +.+|+.+...- +- ..+.+. +......++.... .++|+++
T Consensus 132 ~l~lyG~~G~GKTH-Ll~ai~~~l~~~~~~~~v~yi~~~~---f~-~~~~~~-------~~~~~~~~f~~~~~~~~dvLl 199 (440)
T PRK14088 132 PLFIYGGVGLGKTH-LLQSIGNYVVQNEPDLRVMYITSEK---FL-NDLVDS-------MKEGKLNEFREKYRKKVDVLL 199 (440)
T ss_pred eEEEEcCCCCcHHH-HHHHHHHHHHHhCCCCeEEEEEHHH---HH-HHHHHH-------HhcccHHHHHHHHHhcCCEEE
Confidence 35899999999985 55555544 333 56777665421 00 001000 0001122222222 3689999
Q ss_pred Eeccccc
Q psy8456 228 IDEGQFV 234 (353)
Q Consensus 228 IDE~QF~ 234 (353)
|||+||+
T Consensus 200 IDDi~~l 206 (440)
T PRK14088 200 IDDVQFL 206 (440)
T ss_pred Eechhhh
Confidence 9999995
No 88
>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=94.73 E-value=0.032 Score=55.24 Aligned_cols=116 Identities=13% Similarity=0.078 Sum_probs=63.5
Q ss_pred CCCCchHHHHHHHHHHH--HHcCceEEEEeeccCCCCC-CCceeecc-CCceeeeecCChhhhcc-------cCCCccEE
Q psy8456 8 DRINPYIVHFCRRIRRY--QYANYRCMIVRYAKDDRYD-TEKVATHD-QQKLTAVSAVELNKLIP-------HTKDIDVI 76 (353)
Q Consensus 8 ~~~~GKSteLLrr~~ry--~~agkkvlv~Kp~iDtRy~-~~~I~Sr~-G~~~~Ai~i~~l~ei~~-------~~~~~dvV 76 (353)
..=+|||.-++..++.+ ...+.+++++.+..--+.. ...+.... +..... .+..+..++. ....+|+|
T Consensus 9 ~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~~~~~~~~~-~~~~~~~~i~~~~~~~~~~~~~Dvi 87 (352)
T PF09848_consen 9 GAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKLREQLAKKYNPKLKKS-DFRKPTSFINNYSESDKEKNKYDVI 87 (352)
T ss_pred cCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHHHHHHhhhcccchhhh-hhhhhHHHHhhcccccccCCcCCEE
Confidence 45689999999999999 6677777777664322210 01121111 000000 0112222221 23679999
Q ss_pred EEccccChHH----------HHHHHHHHHhCCCEEEEEecccccccCCchhHhhhhcc
Q psy8456 77 GIDEGQFFPD----------VVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPL 124 (353)
Q Consensus 77 ~IDEaQFF~d----------Iv~l~~~l~~~G~~VivaGLd~DFr~~pF~~~~~Ll~l 124 (353)
+|||||-+.+ ..++-+.+....+.|++++=....+..-.+....|-.+
T Consensus 88 ivDEAqrl~~~~~~~~~~~~~~~L~~i~~~~kv~v~f~D~~Q~i~~~e~~~~~~l~~~ 145 (352)
T PF09848_consen 88 IVDEAQRLRTKGDQYNNFSEPNQLDEIIKRAKVVVFFYDENQSIRPSEIGTLENLEEI 145 (352)
T ss_pred EEehhHhhhhccccccccccHHHHHHHHhcCCEEEEEEccccEeecccCCCHHHHHHH
Confidence 9999999953 23444555555566666766666655554444433333
No 89
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=94.67 E-value=0.15 Score=49.58 Aligned_cols=36 Identities=28% Similarity=0.204 Sum_probs=25.5
Q ss_pred ccce-eeeeccCCCCchhHHHHHHHHHHH-----hCCEEEEE
Q psy8456 149 GQEK-EVILGPMFSGKTTELIRRIRRYQY-----ANYRCMIV 184 (353)
Q Consensus 149 ~geI-~vi~G~M~sGKt~~Li~~~~~~~~-----~~~~~~~~ 184 (353)
.+++ .+++||.++||||.|-.-++.... .++||.++
T Consensus 135 ~g~lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~Ii 176 (308)
T COG3854 135 NGWLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGII 176 (308)
T ss_pred cCceeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEE
Confidence 3566 889999999999977555554432 35677765
No 90
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=94.66 E-value=0.2 Score=51.56 Aligned_cols=144 Identities=16% Similarity=0.173 Sum_probs=84.9
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCC-CCCC-CceeeccC-cccceeeccc---Hhhhccc---
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDD-RYDT-EKVSTHDQ-QKLTAVSAVE---LNKLIPH--- 219 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~-R~~~-~~i~s~~g-~~~~a~~~~~---~~~~~~~--- 219 (353)
.+.+.+++||-||||||-+...+..+..+|++|.++.- |+ |.+. +...++.. ..++-....+ +.+.+..
T Consensus 205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lIta--DtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~~ 282 (407)
T PRK12726 205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITT--DTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMTY 282 (407)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeC--CccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHHh
Confidence 35678899999999999999999888888999998764 44 4321 12222111 1122222223 3332322
Q ss_pred CCCccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCC------C-CCCccHHHHHHHHHh
Q psy8456 220 TKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPP------P-PEFPDVVSFAESMAN 292 (353)
Q Consensus 220 ~~~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~------~-~~f~~~~~~~~~~~~ 292 (353)
..++|+|+||=+-.. |...+++.+|..+.+.++.+. | .-..|+.++++....
T Consensus 283 ~~~~D~VLIDTAGr~---------------------~~d~~~l~EL~~l~~~~~p~~~~LVLsag~~~~d~~~i~~~f~~ 341 (407)
T PRK12726 283 VNCVDHILIDTVGRN---------------------YLAEESVSEISAYTDVVHPDLTCFTFSSGMKSADVMTILPKLAE 341 (407)
T ss_pred cCCCCEEEEECCCCC---------------------ccCHHHHHHHHHHhhccCCceEEEECCCcccHHHHHHHHHhcCc
Confidence 257999999988772 335677777777666432211 1 111355555544443
Q ss_pred CCC-EEEEEeccccccCCCchhHHhhh
Q psy8456 293 AGK-IVVVAALDGTFQRTGFNDILSLI 318 (353)
Q Consensus 293 ~g~-~Vi~~gLd~df~~~~F~~~~~L~ 318 (353)
.+. -+|+-=||.+ ..||.+..++
T Consensus 342 l~i~glI~TKLDET---~~~G~~Lsv~ 365 (407)
T PRK12726 342 IPIDGFIITKMDET---TRIGDLYTVM 365 (407)
T ss_pred CCCCEEEEEcccCC---CCccHHHHHH
Confidence 333 3677777776 4466666554
No 91
>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]
Probab=94.65 E-value=0.15 Score=46.17 Aligned_cols=37 Identities=35% Similarity=0.443 Sum_probs=33.8
Q ss_pred eeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCC
Q psy8456 154 VILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDD 190 (353)
Q Consensus 154 vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~ 190 (353)
=|+|+-+|||||-+-+.+.+...+|++|-++|.+-.+
T Consensus 6 ~ivG~k~SGKTTLie~lv~~L~~~G~rVa~iKH~hh~ 42 (161)
T COG1763 6 GIVGYKNSGKTTLIEKLVRKLKARGYRVATVKHAHHD 42 (161)
T ss_pred EEEecCCCChhhHHHHHHHHHHhCCcEEEEEEecCCC
Confidence 3799999999999999999999999999999988765
No 92
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=94.59 E-value=0.024 Score=56.11 Aligned_cols=32 Identities=22% Similarity=0.285 Sum_probs=24.4
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhC--CEEEEE
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYAN--YRCMIV 184 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~--~~~~~~ 184 (353)
-+|+||-|+|||+-+-..++.....+ ..++.+
T Consensus 58 ~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~i 91 (394)
T PRK00411 58 VLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYI 91 (394)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEE
Confidence 48999999999998888888776655 344444
No 93
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=94.56 E-value=0.05 Score=53.89 Aligned_cols=37 Identities=16% Similarity=0.178 Sum_probs=33.0
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRY 186 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~ 186 (353)
+.+..++||.||||||-+..-+..+...|++|+++.-
T Consensus 114 ~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~ 150 (318)
T PRK10416 114 PFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAG 150 (318)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEec
Confidence 5677889999999999999999999989999998863
No 94
>PF13479 AAA_24: AAA domain
Probab=94.53 E-value=0.08 Score=48.88 Aligned_cols=71 Identities=23% Similarity=0.227 Sum_probs=41.5
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeec-cCcccceeecccHhhhc----ccCCCccEE
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTH-DQQKLTAVSAVELNKLI----PHTKDIDVI 226 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~-~g~~~~a~~~~~~~~~~----~~~~~~~~i 226 (353)
.-+|+|+.++||||-+... .+++++....-+. .+... ++...+..+..++.+.+ ....+|++|
T Consensus 5 ~~lIyG~~G~GKTt~a~~~--------~k~l~id~E~g~~----~~~~~~~~~~i~i~s~~~~~~~~~~l~~~~~~y~ti 72 (213)
T PF13479_consen 5 KILIYGPPGSGKTTLAASL--------PKPLFIDTENGSD----SLKFLDDGDVIPITSWEDFLEALDELEEDEADYDTI 72 (213)
T ss_pred EEEEECCCCCCHHHHHHhC--------CCeEEEEeCCCcc----chhhhcCCCeeCcCCHHHHHHHHHHHHhccCCCCEE
Confidence 4589999999999876654 6677666533211 11111 22222222333333322 235799999
Q ss_pred EEeccccc
Q psy8456 227 GIDEGQFV 234 (353)
Q Consensus 227 ~IDE~QF~ 234 (353)
+||-+..+
T Consensus 73 VIDsis~~ 80 (213)
T PF13479_consen 73 VIDSISWL 80 (213)
T ss_pred EEECHHHH
Confidence 99988875
No 95
>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=94.49 E-value=0.11 Score=47.27 Aligned_cols=97 Identities=12% Similarity=0.090 Sum_probs=49.5
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCceeeccCCceeeeecCChhhhcccCCCccEEEEccccChH-HHH
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEGQFFP-DVV 88 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai~i~~l~ei~~~~~~~dvV~IDEaQFF~-dIv 88 (353)
-||||+.+.+.+... ..+...+|...-.-.. . ..........+++...-......++.++|||+|-++ .-.
T Consensus 8 GsGKSt~i~~~~~~~----~~~~~~~~~~~~~~~~--~--~~~~~~~~~~v~s~~~~~~~~~~~~~liiDE~~~~~~g~l 79 (234)
T PF01443_consen 8 GSGKSTLIKKLLKDR----LVVTVISPTIELYTEW--L--PDPPSKSVRTVDSFLKALVKPKSYDTLIIDEAQLLPPGYL 79 (234)
T ss_pred CCCHHHHHHHHHHhc----cccccccccceecccc--c--cccCCccccEEeEhhhcccccCcCCEEEEeccccCChHHH
Confidence 489999888887765 3334445533322110 0 011111111122221110011358999999999997 333
Q ss_pred HHHHHHHhCC-CEEEEEecccccccCCchhHh
Q psy8456 89 SFAESMANAG-KIVVVAALDGTFQRTGFNDIL 119 (353)
Q Consensus 89 ~l~~~l~~~G-~~VivaGLd~DFr~~pF~~~~ 119 (353)
.++ +...+ ..++++ +|..+-+|....
T Consensus 80 ~~l--~~~~~~~~~~l~---GDp~Q~~~~~~~ 106 (234)
T PF01443_consen 80 LLL--LSLSPAKNVILF---GDPLQIPYISRN 106 (234)
T ss_pred HHH--HhhccCcceEEE---ECchhccCCccc
Confidence 332 22222 467776 588777777543
No 96
>PRK13695 putative NTPase; Provisional
Probab=94.43 E-value=0.29 Score=43.25 Aligned_cols=30 Identities=27% Similarity=0.255 Sum_probs=23.9
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEE
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCM 182 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~ 182 (353)
.+++|+.+|||||-|-..++.+...|.++.
T Consensus 3 i~ltG~~G~GKTTll~~i~~~l~~~G~~~~ 32 (174)
T PRK13695 3 IGITGPPGVGKTTLVLKIAELLKEEGYKVG 32 (174)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCeEE
Confidence 468999999999998877777666677654
No 97
>cd03282 ABC_MSH4_euk MutS4 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=94.40 E-value=0.78 Score=42.47 Aligned_cols=82 Identities=20% Similarity=0.174 Sum_probs=44.6
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCC-CceeeccCcccc---eee-----cccHhhhcccC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDT-EKVSTHDQQKLT---AVS-----AVELNKLIPHT 220 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~-~~i~s~~g~~~~---a~~-----~~~~~~~~~~~ 220 (353)
++..+++||.+|||||-|-........++.-+.+ |+.-.+.+. +.+.++-+..-. ..+ ...+..++...
T Consensus 29 ~~~~~l~G~n~~GKstll~~i~~~~~la~~G~~v--pa~~~~l~~~d~I~~~~~~~d~~~~~~S~fs~e~~~~~~il~~~ 106 (204)
T cd03282 29 SRFHIITGPNMSGKSTYLKQIALLAIMAQIGCFV--PAEYATLPIFNRLLSRLSNDDSMERNLSTFASEMSETAYILDYA 106 (204)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHHHcCCCc--chhhcCccChhheeEecCCccccchhhhHHHHHHHHHHHHHHhc
Confidence 4788999999999998654433333333322222 555444432 356666543211 111 11233333334
Q ss_pred CCccEEEEecccc
Q psy8456 221 KDIDVIGIDEGQF 233 (353)
Q Consensus 221 ~~~~~i~IDE~QF 233 (353)
.+.+++++||.--
T Consensus 107 ~~~~lvllDE~~~ 119 (204)
T cd03282 107 DGDSLVLIDELGR 119 (204)
T ss_pred CCCcEEEeccccC
Confidence 6678999999754
No 98
>PRK10536 hypothetical protein; Provisional
Probab=94.38 E-value=0.18 Score=49.16 Aligned_cols=42 Identities=14% Similarity=0.027 Sum_probs=30.1
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHH-HhC-CEEEEEeeecCCC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQ-YAN-YRCMIVRYAKDDR 191 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~-~~~-~~~~~~k~~~D~R 191 (353)
..+.+++||-|+|||+-.+......- ... .++++.+|...-.
T Consensus 74 ~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~g 117 (262)
T PRK10536 74 KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQAD 117 (262)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCch
Confidence 35788999999999988777666433 222 5677888887543
No 99
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=94.36 E-value=0.24 Score=46.09 Aligned_cols=132 Identities=14% Similarity=0.083 Sum_probs=82.4
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCC-CCCCCceeecc--------Ccccceeecc------cHhh
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDD-RYDTEKVSTHD--------QQKLTAVSAV------ELNK 215 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~-R~~~~~i~s~~--------g~~~~a~~~~------~~~~ 215 (353)
+.-.++++-+-||||..+-.+.|..-+|.+|+++.--+.. .+|+..+..+. |....-.... ...+
T Consensus 23 g~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~~~~~ 102 (191)
T PRK05986 23 GLLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTGFTWETQDRERDIAAARE 102 (191)
T ss_pred CeEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCCccCHHHHHhcCCCcEEEECCCCCcccCCCcHHHHHHHHH
Confidence 4556777789999999999999999999999999888877 45543332221 2111100000 0111
Q ss_pred hc----c--cCCCccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCCCCCCccHHHHHHH
Q psy8456 216 LI----P--HTKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPPPPEFPDVVSFAES 289 (353)
Q Consensus 216 ~~----~--~~~~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~~~~~ 289 (353)
.+ . ...++|+|+.||.=..- ..--++. .+|++++++
T Consensus 103 ~~~~a~~~l~~~~ydlvVLDEi~~Al-----------------~~gli~~---------------------eevi~~L~~ 144 (191)
T PRK05986 103 GWEEAKRMLADESYDLVVLDELTYAL-----------------KYGYLDV---------------------EEVLEALNA 144 (191)
T ss_pred HHHHHHHHHhCCCCCEEEEehhhHHH-----------------HCCCccH---------------------HHHHHHHHc
Confidence 11 1 14789999999987520 0000111 345555533
Q ss_pred HHhCCCEEEEEeccccccCCCchhHHhhhhcccceEEeeee
Q psy8456 290 MANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAV 330 (353)
Q Consensus 290 ~~~~g~~Vi~~gLd~df~~~~F~~~~~L~~~ad~v~kl~a~ 330 (353)
.-.+..||+-|=+ ....|+++||-|++++.+
T Consensus 145 -rp~~~evVlTGR~---------~p~~Lie~ADlVTEm~~v 175 (191)
T PRK05986 145 -RPGMQHVVITGRG---------APRELIEAADLVTEMRPV 175 (191)
T ss_pred -CCCCCEEEEECCC---------CCHHHHHhCchheecccc
Confidence 3457889998853 346799999999998764
No 100
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=94.31 E-value=0.075 Score=54.99 Aligned_cols=82 Identities=17% Similarity=0.164 Sum_probs=50.3
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCC-C-Cce---eeccCcccceee-ccc----Hhhhccc
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYD-T-EKV---STHDQQKLTAVS-AVE----LNKLIPH 219 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~-~-~~i---~s~~g~~~~a~~-~~~----~~~~~~~ 219 (353)
....+++|+.||||||-+..-++.+...|++|.++.. |+.-. . +.. ..+.|....... ..+ +.+.+..
T Consensus 95 p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~--D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~~ 172 (437)
T PRK00771 95 PQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAA--DTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEK 172 (437)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecC--CCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHH
Confidence 4567889999999999999999999888999998854 44311 0 111 111122111110 112 2233334
Q ss_pred CCCccEEEEecccc
Q psy8456 220 TKDIDVIGIDEGQF 233 (353)
Q Consensus 220 ~~~~~~i~IDE~QF 233 (353)
..+.|+|+||.+=.
T Consensus 173 ~~~~DvVIIDTAGr 186 (437)
T PRK00771 173 FKKADVIIVDTAGR 186 (437)
T ss_pred hhcCCEEEEECCCc
Confidence 45679999999943
No 101
>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=94.30 E-value=0.017 Score=53.76 Aligned_cols=27 Identities=26% Similarity=0.293 Sum_probs=20.9
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQ 175 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~ 175 (353)
..+.-+++||.||||||-+-..++.+.
T Consensus 42 ~~~~~~l~G~~G~GKTtl~~~l~~~l~ 68 (269)
T TIGR03015 42 REGFILITGEVGAGKTTLIRNLLKRLD 68 (269)
T ss_pred CCCEEEEEcCCCCCHHHHHHHHHHhcC
Confidence 355778999999999988776665544
No 102
>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).
Probab=94.28 E-value=0.068 Score=46.79 Aligned_cols=39 Identities=23% Similarity=0.153 Sum_probs=31.3
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCC
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDD 190 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~ 190 (353)
+.++.|+++|||||.+=+-...+...|.+|..+.....+
T Consensus 2 ~I~ieG~~GsGKtT~~~~L~~~l~~~g~~v~~~~~~~~~ 40 (200)
T cd01672 2 FIVFEGIDGAGKTTLIELLAERLEARGYEVVLTREPGGT 40 (200)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCCCC
Confidence 357899999999998888888888889999877654433
No 103
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=94.26 E-value=0.1 Score=59.64 Aligned_cols=78 Identities=18% Similarity=0.172 Sum_probs=50.6
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccC--cccceeecccH-hhhc---ccCCCc
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQ--QKLTAVSAVEL-NKLI---PHTKDI 223 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g--~~~~a~~~~~~-~~~~---~~~~~~ 223 (353)
+.+.++.|+-|+||||-|-....-++..|++|+..-|+- +.....+ .-+++..+..+ ...- .....-
T Consensus 397 ~r~~~v~G~AGTGKTt~l~~~~~~~e~~G~~V~g~ApTg-------kAA~~L~e~~Gi~a~TIas~ll~~~~~~~~l~~~ 469 (1102)
T PRK13826 397 ARIAAVVGRAGAGKTTMMKAAREAWEAAGYRVVGGALAG-------KAAEGLEKEAGIQSRTLSSWELRWNQGRDQLDNK 469 (1102)
T ss_pred CCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEcCcH-------HHHHHHHHhhCCCeeeHHHHHhhhccCccCCCCC
Confidence 568899999999999998888888889999999888842 2211110 01122222221 1110 113456
Q ss_pred cEEEEeccccc
Q psy8456 224 DVIGIDEGQFV 234 (353)
Q Consensus 224 ~~i~IDE~QF~ 234 (353)
++++|||+-.+
T Consensus 470 ~vlVIDEAsMv 480 (1102)
T PRK13826 470 TVFVLDEAGMV 480 (1102)
T ss_pred cEEEEECcccC
Confidence 89999999996
No 104
>PHA00012 I assembly protein
Probab=94.21 E-value=0.35 Score=48.87 Aligned_cols=31 Identities=23% Similarity=0.193 Sum_probs=28.2
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEE
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCM 182 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~ 182 (353)
+++|.|-++||||-+.+..+..+..+|++|.
T Consensus 3 iylITGkPGSGKSl~aV~~I~~~L~~Gr~Va 33 (361)
T PHA00012 3 VYVVTGKLGAGKTLVAVSRIQDKLVKGCIVA 33 (361)
T ss_pred eEEEecCCCCCchHHHHHHHHHHHHcCCEEE
Confidence 6789999999999999999999999998665
No 105
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=94.21 E-value=0.14 Score=50.19 Aligned_cols=62 Identities=21% Similarity=0.149 Sum_probs=36.7
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEecc
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEG 231 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~IDE~ 231 (353)
--+++||-|+|||+-+...++.. |.++......... ....+..++......++++|||+
T Consensus 53 ~~ll~GppG~GKT~la~~ia~~l---~~~~~~~~~~~~~------------------~~~~l~~~l~~l~~~~vl~IDEi 111 (328)
T PRK00080 53 HVLLYGPPGLGKTTLANIIANEM---GVNIRITSGPALE------------------KPGDLAAILTNLEEGDVLFIDEI 111 (328)
T ss_pred cEEEECCCCccHHHHHHHHHHHh---CCCeEEEeccccc------------------ChHHHHHHHHhcccCCEEEEecH
Confidence 35889999999998766554443 3333222111000 01233444444567889999999
Q ss_pred ccc
Q psy8456 232 QFV 234 (353)
Q Consensus 232 QF~ 234 (353)
|.+
T Consensus 112 ~~l 114 (328)
T PRK00080 112 HRL 114 (328)
T ss_pred hhc
Confidence 986
No 106
>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=94.15 E-value=0.067 Score=49.27 Aligned_cols=80 Identities=19% Similarity=0.242 Sum_probs=47.7
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCC-CCCC-Cceeec---cCcccceee-cccHhh----hcc--c
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDD-RYDT-EKVSTH---DQQKLTAVS-AVELNK----LIP--H 219 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~-R~~~-~~i~s~---~g~~~~a~~-~~~~~~----~~~--~ 219 (353)
..+++||-|+||||-+.+-+.+|...|++|.++.- |+ |-+. +++.+. .|..+.... ..+..+ .+. .
T Consensus 3 vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~--D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~ 80 (196)
T PF00448_consen 3 VIALVGPTGVGKTTTIAKLAARLKLKGKKVALISA--DTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKFR 80 (196)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEE--STSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHH
T ss_pred EEEEECCCCCchHhHHHHHHHHHhhccccceeecC--CCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHh
Confidence 46789999999999999999999988999999884 54 4331 112111 121111110 111222 222 2
Q ss_pred CCCccEEEEecccc
Q psy8456 220 TKDIDVIGIDEGQF 233 (353)
Q Consensus 220 ~~~~~~i~IDE~QF 233 (353)
.+++|+|+||-+=.
T Consensus 81 ~~~~D~vlIDT~Gr 94 (196)
T PF00448_consen 81 KKGYDLVLIDTAGR 94 (196)
T ss_dssp HTTSSEEEEEE-SS
T ss_pred hcCCCEEEEecCCc
Confidence 46799999999865
No 107
>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated
Probab=94.14 E-value=0.49 Score=43.65 Aligned_cols=114 Identities=11% Similarity=0.131 Sum_probs=75.4
Q ss_pred CchHHHHHHHHHHHHHcCceEEEEeeccCCC-CCCCceeecc-CCceee------eecCChh--hh------cc------
Q psy8456 11 NPYIVHFCRRIRRYQYANYRCMIVRYAKDDR-YDTEKVATHD-QQKLTA------VSAVELN--KL------IP------ 68 (353)
Q Consensus 11 ~GKSteLLrr~~ry~~agkkvlv~Kp~iDtR-y~~~~I~Sr~-G~~~~A------i~i~~l~--ei------~~------ 68 (353)
-||||..+..+-|.-=+|++|+++.--...+ +|+..+..+. +..+.. ..-.++. +. ..
T Consensus 32 KGKTTAAlGlalRAaG~G~rV~iiQFlKg~~~~GE~~~l~~~~~v~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~a~~~l 111 (178)
T PRK07414 32 RNFFTSVMAQALRIAGQGTPVLIVQFLKGGIQQGPDRPIQLGQNLDWVRCDLPRCLDTPHLDESEKKALQELWQYTQAVV 111 (178)
T ss_pred CCchHHHHHHHHHHhcCCCEEEEEEEecCCCcchHHHHHHhCCCcEEEECCCCCeeeCCCcCHHHHHHHHHHHHHHHHHH
Confidence 4999999999999999999999998877764 4543222222 222211 1111211 11 00
Q ss_pred cCCCccEEEEccccCh-H----HHHHHHHHHHh--CCCEEEEEecccccccCCchhHhhhhccccceEeccc
Q psy8456 69 HTKDIDVIGIDEGQFF-P----DVVSFAESMAN--AGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTA 133 (353)
Q Consensus 69 ~~~~~dvV~IDEaQFF-~----dIv~l~~~l~~--~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~A 133 (353)
....||.|+.||+-.- . +..++.+.+.+ .+..||+-|=+ ..+.|+++||.|++++.
T Consensus 112 ~~~~~dlvVLDEi~~Al~~gli~~eeVl~~L~~rp~~~evILTGR~---------~p~~Lie~AD~VTEm~~ 174 (178)
T PRK07414 112 DEGRYSLVVLDELSLAIQFGLIPETEVLEFLEKRPSHVDVILTGPE---------MPESLLAIADQITELRR 174 (178)
T ss_pred hCCCCCEEEEehhHHHHHCCCccHHHHHHHHHhCCCCCEEEEECCC---------CCHHHHHhCCeeeeeec
Confidence 1367999999998654 1 34455555554 47899999963 45789999999999863
No 108
>PRK08084 DNA replication initiation factor; Provisional
Probab=94.06 E-value=0.14 Score=48.00 Aligned_cols=37 Identities=8% Similarity=0.298 Sum_probs=26.6
Q ss_pred CCCccEEEEccccChH-------HHHHHHHHHHhCCC-EEEEEec
Q psy8456 70 TKDIDVIGIDEGQFFP-------DVVSFAESMANAGK-IVVVAAL 106 (353)
Q Consensus 70 ~~~~dvV~IDEaQFF~-------dIv~l~~~l~~~G~-~VivaGL 106 (353)
...+|+++|||+|+++ .+.++.+.+.+.|+ .++++|=
T Consensus 95 ~~~~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~ 139 (235)
T PRK08084 95 MEQLSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGD 139 (235)
T ss_pred hhhCCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCC
Confidence 3457899999999994 24466666666775 7887764
No 109
>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=94.02 E-value=0.069 Score=42.53 Aligned_cols=37 Identities=16% Similarity=0.189 Sum_probs=30.7
Q ss_pred eeeeccCCCCchhHHHHHHHHHHH--hCCEEEEEeeecC
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQY--ANYRCMIVRYAKD 189 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~--~~~~~~~~k~~~D 189 (353)
-++.||+|||||+.++..+.+... ..++++++-|..+
T Consensus 3 ~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~ 41 (144)
T cd00046 3 VLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRE 41 (144)
T ss_pred EEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHH
Confidence 478999999999999999888765 5678888888653
No 110
>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=94.00 E-value=0.08 Score=51.19 Aligned_cols=36 Identities=14% Similarity=0.179 Sum_probs=31.9
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEe
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVR 185 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k 185 (353)
.....++||.|+||||-+..-+..+...|++|+++.
T Consensus 72 ~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~ 107 (272)
T TIGR00064 72 PNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAA 107 (272)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEe
Confidence 346677899999999999999999999999999986
No 111
>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=93.99 E-value=0.4 Score=41.93 Aligned_cols=124 Identities=10% Similarity=-0.008 Sum_probs=74.4
Q ss_pred CCCchHHHHHHHHHHHHHcCceEEEEeeccCCC--------CCCCceee--ccCCc-e-eeee--cC--C-------hhh
Q psy8456 9 RINPYIVHFCRRIRRYQYANYRCMIVRYAKDDR--------YDTEKVAT--HDQQK-L-TAVS--AV--E-------LNK 65 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtR--------y~~~~I~S--r~G~~-~-~Ai~--i~--~-------l~e 65 (353)
.-+|||+-.++-++.....|.+|+++...-+.+ .+-+ +.- ..|.. . +..+ .. . ...
T Consensus 8 ~G~GKT~l~~~~~~~~~~~g~~v~~~s~e~~~~~~~~~~~~~g~~-~~~l~~~g~l~~~d~~~~~~s~~~~~~~~~~~~~ 86 (187)
T cd01124 8 PGTGKTTFALQFLYAGLARGEPGLYVTLEESPEELIENAESLGWD-LERLEDEGLLAIVDADPDEIGPAESSLRLELIQR 86 (187)
T ss_pred CCCCHHHHHHHHHHHHHHCCCcEEEEECCCCHHHHHHHHHHcCCC-hHHHHhcCCeEEEecCccccchhhhhhhHHHHHH
Confidence 458999999999999989999999997643221 1111 000 01110 0 0000 00 0 011
Q ss_pred hcc--cCCCccEEEEccccCh-H--------HHHHHHHHHHhCCCEEEEEecccccccCCchhHhhhhccccceEeccce
Q psy8456 66 LIP--HTKDIDVIGIDEGQFF-P--------DVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAV 134 (353)
Q Consensus 66 i~~--~~~~~dvV~IDEaQFF-~--------dIv~l~~~l~~~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~Av 134 (353)
+.. ...++++|+|||.+-+ + .+.++...+...|++|++..=.....+.+ .....+-.+||.|..|...
T Consensus 87 i~~~~~~~~~~~lviD~~~~~~~~~~~~~~~~i~~l~~~l~~~g~tvi~v~~~~~~~~~~-~~~~~~~~~aD~ii~l~~~ 165 (187)
T cd01124 87 LKDAIEEFKAKRVVIDSVSGLLLMEQSTARLEIRRLLFALKRFGVTTLLTSEQSGLEGTG-FGGGDVEYLVDGVIRLRLD 165 (187)
T ss_pred HHHHHHHhCCCEEEEeCcHHHhhcChHHHHHHHHHHHHHHHHCCCEEEEEeccccCCCcc-cCcCceeEeeeEEEEEEEE
Confidence 111 2347899999999965 2 34567777778899988887655443322 2335567889999888755
No 112
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=93.95 E-value=0.1 Score=54.07 Aligned_cols=142 Identities=14% Similarity=0.210 Sum_probs=82.1
Q ss_pred cceeeeeccCCCCchhHHHHHHHHH-HHhCCEEEEEeeecCC-CCCC-Cceeec-cCcccceeecccHhhhccc--CCCc
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRY-QYANYRCMIVRYAKDD-RYDT-EKVSTH-DQQKLTAVSAVELNKLIPH--TKDI 223 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~-~~~~~~~~~~k~~~D~-R~~~-~~i~s~-~g~~~~a~~~~~~~~~~~~--~~~~ 223 (353)
+.+.+++||.||||||-+.+-+..+ ...|++|.++.- |+ |-+. +...+. ....++......+.++... ..++
T Consensus 223 ~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~--Dt~R~aA~eQLk~yAe~lgvp~~~~~~~~~l~~~l~~~~~ 300 (432)
T PRK12724 223 RKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTT--DNYRIAAIEQLKRYADTMGMPFYPVKDIKKFKETLARDGS 300 (432)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecc--cchhhhHHHHHHHHHHhcCCCeeehHHHHHHHHHHHhCCC
Confidence 3467899999999999999999877 567899998873 44 2221 111111 1111222333333333322 3689
Q ss_pred cEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCCC--CCC--------ccHHHHHHHHHhC
Q psy8456 224 DVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPPP--PEF--------PDVVSFAESMANA 293 (353)
Q Consensus 224 ~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~--~~f--------~~~~~~~~~~~~~ 293 (353)
|+|+||=+=+. +-...|++.|.++.+..+-+.| .++ .++.+++......
T Consensus 301 D~VLIDTaGr~---------------------~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~~~~~~~~~~f~~~ 359 (432)
T PRK12724 301 ELILIDTAGYS---------------------HRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHTLTVLKAYESL 359 (432)
T ss_pred CEEEEeCCCCC---------------------ccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCHHHHHHHHHHhcCC
Confidence 99999976552 2356788888777664322221 112 2555655555545
Q ss_pred CCE-EEEEeccccccCCCchhHHhh
Q psy8456 294 GKI-VVVAALDGTFQRTGFNDILSL 317 (353)
Q Consensus 294 g~~-Vi~~gLd~df~~~~F~~~~~L 317 (353)
|.. +|+-=||.+ ..++.+..+
T Consensus 360 ~~~glIlTKLDEt---~~~G~il~i 381 (432)
T PRK12724 360 NYRRILLTKLDEA---DFLGSFLEL 381 (432)
T ss_pred CCCEEEEEcccCC---CCccHHHHH
Confidence 543 677777776 334444444
No 113
>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=93.88 E-value=0.16 Score=54.01 Aligned_cols=80 Identities=16% Similarity=0.155 Sum_probs=43.7
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhccc--CCCccEE
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPH--TKDIDVI 226 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~--~~~~~~i 226 (353)
..++-+++||+||||||-|-..++.....+++++-+-.-..-+.. + +. +.......-.+..+.+.. -.++|+|
T Consensus 315 ~~Glilv~G~tGSGKTTtl~a~l~~~~~~~~~i~tiEdpvE~~~~-~-~~---q~~v~~~~g~~~~~~l~~~LR~dPDvI 389 (564)
T TIGR02538 315 PQGMVLVTGPTGSGKTVSLYTALNILNTEEVNISTAEDPVEINLP-G-IN---QVNVNPKIGLTFAAALRSFLRQDPDII 389 (564)
T ss_pred cCCeEEEECCCCCCHHHHHHHHHHhhCCCCceEEEecCCceecCC-C-ce---EEEeccccCCCHHHHHHHHhccCCCEE
Confidence 356889999999999999866665543334555543332222221 0 10 000000000122333322 3789999
Q ss_pred EEecccc
Q psy8456 227 GIDEGQF 233 (353)
Q Consensus 227 ~IDE~QF 233 (353)
.|.|.-=
T Consensus 390 ~vGEiRd 396 (564)
T TIGR02538 390 MVGEIRD 396 (564)
T ss_pred EeCCCCC
Confidence 9999875
No 114
>PRK08181 transposase; Validated
Probab=93.81 E-value=0.061 Score=52.14 Aligned_cols=71 Identities=18% Similarity=0.240 Sum_probs=44.8
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEeccc
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEGQ 232 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~IDE~Q 232 (353)
-+++||.|+|||.-+.-..+....+|++|+.++... +..... .+.....+.+++....++|+++|||.+
T Consensus 109 lll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~--------L~~~l~---~a~~~~~~~~~l~~l~~~dLLIIDDlg 177 (269)
T PRK08181 109 LLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTD--------LVQKLQ---VARRELQLESAIAKLDKFDLLILDDLA 177 (269)
T ss_pred EEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHH--------HHHHHH---HHHhCCcHHHHHHHHhcCCEEEEeccc
Confidence 589999999999766666666677899887765311 111000 000112233444456789999999999
Q ss_pred cc
Q psy8456 233 FV 234 (353)
Q Consensus 233 F~ 234 (353)
..
T Consensus 178 ~~ 179 (269)
T PRK08181 178 YV 179 (269)
T ss_pred cc
Confidence 84
No 115
>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=93.79 E-value=0.17 Score=48.51 Aligned_cols=60 Identities=28% Similarity=0.278 Sum_probs=31.2
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceee-cccHhhhcccCCCccEEEEecc
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVS-AVELNKLIPHTKDIDVIGIDEG 231 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~-~~~~~~~~~~~~~~~~i~IDE~ 231 (353)
-+.+||.|.||||- .+.+.+. -|.....+. | +++. ..++..++...++-++++|||+
T Consensus 53 ~lf~GPPG~GKTTL-A~IIA~e--~~~~~~~~s----------------g---~~i~k~~dl~~il~~l~~~~ILFIDEI 110 (233)
T PF05496_consen 53 MLFYGPPGLGKTTL-ARIIANE--LGVNFKITS----------------G---PAIEKAGDLAAILTNLKEGDILFIDEI 110 (233)
T ss_dssp EEEESSTTSSHHHH-HHHHHHH--CT--EEEEE----------------C---CC--SCHHHHHHHHT--TT-EEEECTC
T ss_pred EEEECCCccchhHH-HHHHHhc--cCCCeEecc----------------c---hhhhhHHHHHHHHHhcCCCcEEEEech
Confidence 36799999999864 4444333 222222111 1 0111 2344455555567789999999
Q ss_pred ccc
Q psy8456 232 QFV 234 (353)
Q Consensus 232 QF~ 234 (353)
|.|
T Consensus 111 HRl 113 (233)
T PF05496_consen 111 HRL 113 (233)
T ss_dssp CC-
T ss_pred hhc
Confidence 986
No 116
>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional
Probab=93.74 E-value=0.2 Score=47.69 Aligned_cols=36 Identities=22% Similarity=0.268 Sum_probs=32.1
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
-.++|+-+|||||-+.+.+.++..+|++|.++|+..
T Consensus 4 i~ivG~~gsGKTtl~~~l~~~L~~~G~~V~viK~~~ 39 (229)
T PRK14494 4 IGVIGFKDSGKTTLIEKILKNLKERGYRVATAKHTH 39 (229)
T ss_pred EEEECCCCChHHHHHHHHHHHHHhCCCeEEEEEecc
Confidence 357899999999999999999999999999999744
No 117
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=93.66 E-value=0.16 Score=55.55 Aligned_cols=39 Identities=15% Similarity=0.005 Sum_probs=32.0
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHHhC--CEEEEEeee
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQYAN--YRCMIVRYA 187 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~~~--~~~~~~k~~ 187 (353)
.+...++.|+.|+||||-+-..+.-++..| .++++.-|+
T Consensus 337 ~~~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApT 377 (720)
T TIGR01448 337 QHKVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPT 377 (720)
T ss_pred hCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCc
Confidence 356889999999999998777777777777 788888875
No 118
>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=93.52 E-value=0.25 Score=49.76 Aligned_cols=37 Identities=24% Similarity=0.209 Sum_probs=24.9
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHH---hCCEEEEEe
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQY---ANYRCMIVR 185 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~---~~~~~~~~k 185 (353)
.+++.+++||+||||||-|---++.+.. .+.+++.+.
T Consensus 133 ~~glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt~E 172 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILTYE 172 (358)
T ss_pred cCCEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEEeC
Confidence 4678899999999999977444443322 345666543
No 119
>PRK12377 putative replication protein; Provisional
Probab=93.51 E-value=0.089 Score=50.46 Aligned_cols=72 Identities=17% Similarity=0.135 Sum_probs=44.9
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEecc
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEG 231 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~IDE~ 231 (353)
--+++||.|+|||.-+...++.....|+.|+++... | +......... .-....+++....++|+++|||.
T Consensus 103 ~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~-~-------l~~~l~~~~~--~~~~~~~~l~~l~~~dLLiIDDl 172 (248)
T PRK12377 103 NFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVP-D-------VMSRLHESYD--NGQSGEKFLQELCKVDLLVLDEI 172 (248)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHH-H-------HHHHHHHHHh--ccchHHHHHHHhcCCCEEEEcCC
Confidence 347899999999987777777777788888765432 1 1111100000 00112344555688999999999
Q ss_pred cc
Q psy8456 232 QF 233 (353)
Q Consensus 232 QF 233 (353)
.-
T Consensus 173 g~ 174 (248)
T PRK12377 173 GI 174 (248)
T ss_pred CC
Confidence 54
No 120
>PRK07952 DNA replication protein DnaC; Validated
Probab=93.49 E-value=0.057 Score=51.62 Aligned_cols=73 Identities=15% Similarity=0.165 Sum_probs=46.1
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEecc
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEG 231 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~IDE~ 231 (353)
.-+++|+.|+|||+-+...++.+...|++|+++... .+.++...... .......+++....++|+++|||.
T Consensus 101 ~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~--------~l~~~l~~~~~-~~~~~~~~~l~~l~~~dlLvIDDi 171 (244)
T PRK07952 101 SFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVA--------DIMSAMKDTFS-NSETSEEQLLNDLSNVDLLVIDEI 171 (244)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHH--------HHHHHHHHHHh-hccccHHHHHHHhccCCEEEEeCC
Confidence 458999999999988777777777789999877431 11111100000 001122344445678999999999
Q ss_pred cc
Q psy8456 232 QF 233 (353)
Q Consensus 232 QF 233 (353)
.-
T Consensus 172 g~ 173 (244)
T PRK07952 172 GV 173 (244)
T ss_pred CC
Confidence 87
No 121
>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=93.46 E-value=0.1 Score=46.47 Aligned_cols=41 Identities=24% Similarity=0.097 Sum_probs=32.3
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDD 190 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~ 190 (353)
+.+-++.|+++|||||..-+-...+...|++|.++....++
T Consensus 3 g~~IvieG~~GsGKsT~~~~L~~~l~~~g~~v~~~~~~~~~ 43 (195)
T TIGR00041 3 GMFIVIEGIDGAGKTTQANLLKKLLQENGYDVLFTREPGGT 43 (195)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCCCC
Confidence 45678999999999998888888888889999866543333
No 122
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.44 E-value=2.3 Score=44.79 Aligned_cols=162 Identities=16% Similarity=0.045 Sum_probs=87.5
Q ss_pred CCCchHHHHHHHHHHHHHcCceEEEEeeccC----------CCCCCCceeeccCCcee-------------e-eecCChh
Q psy8456 9 RINPYIVHFCRRIRRYQYANYRCMIVRYAKD----------DRYDTEKVATHDQQKLT-------------A-VSAVELN 64 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~agkkvlv~Kp~iD----------tRy~~~~I~Sr~G~~~~-------------A-i~i~~l~ 64 (353)
.-||||+-.++.+.....+|++++++-|.+. .+++....+-|.+..-. + +.+....
T Consensus 6 TGsGKT~v~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~f~~~v~vlhs~~~~~er~~~~~~~~~g~~~IVVGTrs 85 (505)
T TIGR00595 6 TGSGKTEVYLQAIEKVLALGKSVLVLVPEIALTPQMIQRFKYRFGSQVAVLHSGLSDSEKLQAWRKVKNGEILVVIGTRS 85 (505)
T ss_pred CCCCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCcEEEEECCCCHHHHHHHHHHHHcCCCCEEECChH
Confidence 4599999999999888889999999999642 23443333445443211 1 1222222
Q ss_pred hhcccCCCccEEEEccccChH---------HHHHHHHHHH-hCCCEEEEEecccccccCCchhHhhhhcccc-ceEeccc
Q psy8456 65 KLIPHTKDIDVIGIDEGQFFP---------DVVSFAESMA-NAGKIVVVAALDGTFQRTGFNDILSLIPLAE-CVEKLTA 133 (353)
Q Consensus 65 ei~~~~~~~dvV~IDEaQFF~---------dIv~l~~~l~-~~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD-~I~kL~A 133 (353)
-+..-..+.+.|+|||.|=++ +..+++...+ ..|.+|+...= .|-..+..+...-. ....|+.
T Consensus 86 alf~p~~~l~lIIVDEeh~~sykq~~~p~y~ar~~a~~ra~~~~~~vil~SA------TPsles~~~~~~g~~~~~~l~~ 159 (505)
T TIGR00595 86 ALFLPFKNLGLIIVDEEHDSSYKQEEGPRYHARDVAVYRAKKFNCPVVLGSA------TPSLESYHNAKQKAYRLLVLTR 159 (505)
T ss_pred HHcCcccCCCEEEEECCCccccccccCCCCcHHHHHHHHHHhcCCCEEEEeC------CCCHHHHHHHhcCCeEEeechh
Confidence 222234678999999997764 2344444444 35777765432 12222222211000 0111110
Q ss_pred eecccccccccccccccceeeeeccCC-----CCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 134 VCMSCFRDAAFTKRIGQEKEVILGPMF-----SGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 134 vC~~CG~~A~f~~Ri~geI~vi~G~M~-----sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
. ++.+....++++ .|. +.=|.+|++.+++...+|+.|++|-+.
T Consensus 160 r---------~~~~~~p~v~vi--d~~~~~~~~~ls~~l~~~i~~~l~~g~qvLvflnr 207 (505)
T TIGR00595 160 R---------VSGRKPPEVKLI--DMRKEPRQSFLSPELITAIEQTLAAGEQSILFLNR 207 (505)
T ss_pred h---------hcCCCCCeEEEE--ecccccccCCccHHHHHHHHHHHHcCCcEEEEEeC
Confidence 0 000000112221 121 234678999999999999999998764
No 123
>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=93.27 E-value=0.16 Score=53.07 Aligned_cols=77 Identities=19% Similarity=0.201 Sum_probs=43.5
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCC-CCc--eeeccCcccceeecccHhhhccc--CCCc
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYD-TEK--VSTHDQQKLTAVSAVELNKLIPH--TKDI 223 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~-~~~--i~s~~g~~~~a~~~~~~~~~~~~--~~~~ 223 (353)
..++.+++||+||||||-|-..++.....+++++.+--...-+.. ... +..+.| .+..+.+.. -.++
T Consensus 241 ~~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiTiEDpvE~~~~~~~q~~v~~~~g--------~~f~~~lr~~LR~dP 312 (486)
T TIGR02533 241 PHGIILVTGPTGSGKTTTLYAALSRLNTPERNILTVEDPVEYQIEGIGQIQVNPKIG--------LTFAAGLRAILRQDP 312 (486)
T ss_pred CCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEEEcCCeeeecCCCceEEEccccC--------ccHHHHHHHHHhcCC
Confidence 346789999999999999866666554445666644322211111 000 000111 122222222 3789
Q ss_pred cEEEEecccc
Q psy8456 224 DVIGIDEGQF 233 (353)
Q Consensus 224 ~~i~IDE~QF 233 (353)
|+|.|.|..=
T Consensus 313 DvI~vGEiRd 322 (486)
T TIGR02533 313 DIIMVGEIRD 322 (486)
T ss_pred CEEEEeCCCC
Confidence 9999999875
No 124
>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=93.22 E-value=0.41 Score=49.78 Aligned_cols=36 Identities=17% Similarity=0.164 Sum_probs=32.8
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
..++.||.++||||-+++-+++...+|.+|+++.-.
T Consensus 265 ~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~e 300 (484)
T TIGR02655 265 IILATGATGTGKTLLVSKFLENACANKERAILFAYE 300 (484)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEee
Confidence 678999999999999999999998899999988754
No 125
>PRK08727 hypothetical protein; Validated
Probab=93.20 E-value=0.27 Score=46.09 Aligned_cols=39 Identities=15% Similarity=0.230 Sum_probs=28.8
Q ss_pred ccCCCccEEEEccccChH----H---HHHHHHHHHhCCCEEEEEec
Q psy8456 68 PHTKDIDVIGIDEGQFFP----D---VVSFAESMANAGKIVVVAAL 106 (353)
Q Consensus 68 ~~~~~~dvV~IDEaQFF~----d---Iv~l~~~l~~~G~~VivaGL 106 (353)
....++|+|+|||+|++. + +.++.+...+.|+.|++.+=
T Consensus 89 ~~l~~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~ 134 (233)
T PRK08727 89 EALEGRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTAR 134 (233)
T ss_pred HHHhcCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECC
Confidence 345678999999999984 1 44556666677888888775
No 126
>PRK09183 transposase/IS protein; Provisional
Probab=93.18 E-value=0.1 Score=50.03 Aligned_cols=114 Identities=19% Similarity=0.071 Sum_probs=62.6
Q ss_pred HHHHHhCCCEEEEEecc-cccccCCchhHhhhhccccceEeccceecccccccccccccccceeeeeccCCCCchhHHHH
Q psy8456 91 AESMANAGKIVVVAALD-GTFQRTGFNDILSLIPLAECVEKLTAVCMSCFRDAAFTKRIGQEKEVILGPMFSGKTTELIR 169 (353)
Q Consensus 91 ~~~l~~~G~~VivaGLd-~DFr~~pF~~~~~Ll~lAD~I~kL~AvC~~CG~~A~f~~Ri~geI~vi~G~M~sGKt~~Li~ 169 (353)
...+...+.|+. ..|+ -||.-.|...-..+..+++ |. | .. .+..-+++||.|+|||+-+.-
T Consensus 60 ~~~~k~a~~p~~-~~l~~fd~~~~~~~~~~~i~~L~~--------~~-------~-i~-~~~~v~l~Gp~GtGKThLa~a 121 (259)
T PRK09183 60 AMYTRMAAFPAV-KTFEEYDFTFATGAPQKQLQSLRS--------LS-------F-IE-RNENIVLLGPSGVGKTHLAIA 121 (259)
T ss_pred HHHHHhCCCCCC-CcHhhcccccCCCCCHHHHHHHhc--------CC-------c-hh-cCCeEEEEeCCCCCHHHHHHH
Confidence 334445677765 4442 4555555555444444432 21 1 10 134567999999999987777
Q ss_pred HHHHHHHhCCEEEEEeee-cCCCCCCCceeeccCcccceeecccHhhhccc-CCCccEEEEeccccc
Q psy8456 170 RIRRYQYANYRCMIVRYA-KDDRYDTEKVSTHDQQKLTAVSAVELNKLIPH-TKDIDVIGIDEGQFV 234 (353)
Q Consensus 170 ~~~~~~~~~~~~~~~k~~-~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~-~~~~~~i~IDE~QF~ 234 (353)
..+.+..+|++|.++... .-... ..++.. ..+..++.. ...+|+++|||.++.
T Consensus 122 l~~~a~~~G~~v~~~~~~~l~~~l----~~a~~~--------~~~~~~~~~~~~~~dlLiiDdlg~~ 176 (259)
T PRK09183 122 LGYEAVRAGIKVRFTTAADLLLQL----STAQRQ--------GRYKTTLQRGVMAPRLLIIDEIGYL 176 (259)
T ss_pred HHHHHHHcCCeEEEEeHHHHHHHH----HHHHHC--------CcHHHHHHHHhcCCCEEEEcccccC
Confidence 666667789999876521 10000 000100 112222222 356799999999984
No 127
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=93.16 E-value=0.5 Score=43.52 Aligned_cols=95 Identities=17% Similarity=0.137 Sum_probs=62.6
Q ss_pred CCCchHHHHHHHHHHHHHcCceEE-EEeeccCCCCCCC----cee----------eccCCcee-----eeecCChhhhc-
Q psy8456 9 RINPYIVHFCRRIRRYQYANYRCM-IVRYAKDDRYDTE----KVA----------THDQQKLT-----AVSAVELNKLI- 67 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~agkkvl-v~Kp~iDtRy~~~----~I~----------Sr~G~~~~-----Ai~i~~l~ei~- 67 (353)
.=+||||-+++.+..++..|.+|- ++.|.+ |.+.. .|+ ++.|.+.+ .+.++.++++.
T Consensus 14 PGvGKtTl~~ki~e~L~~~g~kvgGf~t~EV--R~gGkR~GF~Ivdl~tg~~~~la~~~~~~~rvGkY~V~v~~le~i~~ 91 (179)
T COG1618 14 PGVGKTTLVLKIAEKLREKGYKVGGFITPEV--REGGKRIGFKIVDLATGEEGILARVGFSRPRVGKYGVNVEGLEEIAI 91 (179)
T ss_pred CCccHHHHHHHHHHHHHhcCceeeeEEeeee--ecCCeEeeeEEEEccCCceEEEEEcCCCCcccceEEeeHHHHHHHhH
Confidence 348999999999999999998876 455654 43211 122 22222221 12345566554
Q ss_pred ----ccCCCccEEEEccccCh---H-HHHHHHHHHHhCCCEEEEEec
Q psy8456 68 ----PHTKDIDVIGIDEGQFF---P-DVVSFAESMANAGKIVVVAAL 106 (353)
Q Consensus 68 ----~~~~~~dvV~IDEaQFF---~-dIv~l~~~l~~~G~~VivaGL 106 (353)
......|+|+|||+==. + .+.+.++.+.+.++|+ ++.|
T Consensus 92 ~al~rA~~~aDvIIIDEIGpMElks~~f~~~ve~vl~~~kpl-iatl 137 (179)
T COG1618 92 PALRRALEEADVIIIDEIGPMELKSKKFREAVEEVLKSGKPL-IATL 137 (179)
T ss_pred HHHHHHhhcCCEEEEecccchhhccHHHHHHHHHHhcCCCcE-EEEE
Confidence 12356899999999654 3 7888899999999994 4555
No 128
>PHA00547 hypothetical protein
Probab=93.12 E-value=0.37 Score=47.55 Aligned_cols=30 Identities=23% Similarity=0.239 Sum_probs=24.5
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHHhC
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQYAN 178 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~~~ 178 (353)
.+-+.++.||||||||+-+---++.|+..+
T Consensus 74 ~spis~i~G~LGsGKTlLMT~LA~~~K~K~ 103 (337)
T PHA00547 74 DNPLSVIIGKLGTGKTLLLTYLSQTMKLLT 103 (337)
T ss_pred cCCceEEeccCCCchhHHHHHHHHHHHhhh
Confidence 356899999999999988777777777655
No 129
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=93.09 E-value=0.081 Score=54.34 Aligned_cols=132 Identities=19% Similarity=0.219 Sum_probs=75.3
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHH--HhCCEEEEEeeecCC-CCCC-Cceeecc-CcccceeecccHhh---hcccCC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQ--YANYRCMIVRYAKDD-RYDT-EKVSTHD-QQKLTAVSAVELNK---LIPHTK 221 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~--~~~~~~~~~k~~~D~-R~~~-~~i~s~~-g~~~~a~~~~~~~~---~~~~~~ 221 (353)
+++-.++||-|.||||-|..-+.+|. ...++|-+++- |+ |-|. +.+.+-. -..++-..+....+ -+....
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITt--DtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~ 280 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITT--DTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALR 280 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEe--ccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhh
Confidence 56778999999999999999999997 56677877764 33 3221 2222211 01122222333333 344568
Q ss_pred CccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhcc-------CCCCCCCCccHHHHHHHHHhCC
Q psy8456 222 DIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAAL-------NVPPPPEFPDVVSFAESMANAG 294 (353)
Q Consensus 222 ~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------~~~~~~~f~~~~~~~~~~~~~g 294 (353)
++|+|+||=+=. .|. ...++++|....+.. -++----..|+-+..+..+.-+
T Consensus 281 ~~d~ILVDTaGr------------------s~~---D~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~f~~~~ 339 (407)
T COG1419 281 DCDVILVDTAGR------------------SQY---DKEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQFSLFP 339 (407)
T ss_pred cCCEEEEeCCCC------------------Ccc---CHHHHHHHHHHHhccccceEEEEEecCcchHHHHHHHHHhccCC
Confidence 899999997754 122 344444444444321 1111111246777777777655
Q ss_pred CE-EEEEeccc
Q psy8456 295 KI-VVVAALDG 304 (353)
Q Consensus 295 ~~-Vi~~gLd~ 304 (353)
+. +|+-=||-
T Consensus 340 i~~~I~TKlDE 350 (407)
T COG1419 340 IDGLIFTKLDE 350 (407)
T ss_pred cceeEEEcccc
Confidence 54 55556663
No 130
>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=93.06 E-value=0.24 Score=37.60 Aligned_cols=32 Identities=22% Similarity=0.170 Sum_probs=29.0
Q ss_pred eeeccCCCCchhHHHHHHHHHHHhCCEEEEEe
Q psy8456 154 VILGPMFSGKTTELIRRIRRYQYANYRCMIVR 185 (353)
Q Consensus 154 vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k 185 (353)
++.|..++||||-....+..+...|++++++.
T Consensus 3 ~~~g~~G~Gktt~~~~l~~~l~~~g~~v~~~~ 34 (99)
T cd01983 3 VVTGKGGVGKTTLAANLAAALAKRGKRVLLID 34 (99)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHCCCeEEEEC
Confidence 56788899999999999999998999999988
No 131
>PRK05580 primosome assembly protein PriA; Validated
Probab=93.05 E-value=0.21 Score=54.17 Aligned_cols=83 Identities=17% Similarity=0.099 Sum_probs=54.2
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCC----------CCCCCceeeccCcccc--------------
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDD----------RYDTEKVSTHDQQKLT-------------- 206 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~----------R~~~~~i~s~~g~~~~-------------- 206 (353)
...++.||.|||||.-.+..+.....+|++++++-|...- +++.....-|.|....
T Consensus 163 ~~~Ll~~~TGSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~~s~~s~~~r~~~~~~~~~g~~ 242 (679)
T PRK05580 163 SPFLLDGVTGSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRARFGAPVAVLHSGLSDGERLDEWRKAKRGEA 242 (679)
T ss_pred CcEEEECCCCChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCCEEEEECCCCHHHHHHHHHHHHcCCC
Confidence 4568899999999999998888888889999999997543 2333233344432210
Q ss_pred eeecccHhhhcccCCCccEEEEecccc
Q psy8456 207 AVSAVELNKLIPHTKDIDVIGIDEGQF 233 (353)
Q Consensus 207 a~~~~~~~~~~~~~~~~~~i~IDE~QF 233 (353)
-+.+..-..+....++...|+|||+|-
T Consensus 243 ~IVVgTrsal~~p~~~l~liVvDEeh~ 269 (679)
T PRK05580 243 KVVIGARSALFLPFKNLGLIIVDEEHD 269 (679)
T ss_pred CEEEeccHHhcccccCCCEEEEECCCc
Confidence 111221222222357889999999995
No 132
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein. It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication
Probab=92.97 E-value=0.24 Score=54.92 Aligned_cols=112 Identities=18% Similarity=0.193 Sum_probs=67.2
Q ss_pred CCCchHHHHHHHHHHH-HHcCceEEEEeec------cCCCCCCC---ceee-c--cCCc-------eeeeecCChhhhcc
Q psy8456 9 RINPYIVHFCRRIRRY-QYANYRCMIVRYA------KDDRYDTE---KVAT-H--DQQK-------LTAVSAVELNKLIP 68 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry-~~agkkvlv~Kp~------iDtRy~~~---~I~S-r--~G~~-------~~Ai~i~~l~ei~~ 68 (353)
--+||||.|++-++.+ ...+.+|+++.+. +-.|.... ..++ . .+.. .=++-++++.-+..
T Consensus 58 MGTGKTtaLi~wLk~~l~~~~~~VLvVShRrSL~~sL~~rf~~~~l~gFv~Y~d~~~~~i~~~~~~rLivqIdSL~R~~~ 137 (824)
T PF02399_consen 58 MGTGKTTALIRWLKDALKNPDKSVLVVSHRRSLTKSLAERFKKAGLSGFVNYLDSDDYIIDGRPYDRLIVQIDSLHRLDG 137 (824)
T ss_pred CCCCcHHHHHHHHHHhccCCCCeEEEEEhHHHHHHHHHHHHhhcCCCcceeeeccccccccccccCeEEEEehhhhhccc
Confidence 3589999999988776 4778999999872 22232111 0111 1 1111 11244667655542
Q ss_pred -cCCCccEEEEccc-----cChH-------HHHHHHHHHHhCCCEEEEEecccccccCCchhHhhhh
Q psy8456 69 -HTKDIDVIGIDEG-----QFFP-------DVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLI 122 (353)
Q Consensus 69 -~~~~~dvV~IDEa-----QFF~-------dIv~l~~~l~~~G~~VivaGLd~DFr~~pF~~~~~Ll 122 (353)
..++||+|+|||+ |||+ ++.++...+...-+.||++ |.|-....++-+..+-
T Consensus 138 ~~l~~yDvVIIDEv~svL~qL~S~Tm~~~~~v~~~L~~lI~~ak~VI~~--DA~ln~~tvdFl~~~R 202 (824)
T PF02399_consen 138 SLLDRYDVVIIDEVMSVLNQLFSPTMRQREEVDNLLKELIRNAKTVIVM--DADLNDQTVDFLASCR 202 (824)
T ss_pred ccccccCEEEEehHHHHHHHHhHHHHhhHHHHHHHHHHHHHhCCeEEEe--cCCCCHHHHHHHHHhC
Confidence 3456999999997 8884 3445455555667777774 5555555565555543
No 133
>KOG0922|consensus
Probab=92.94 E-value=0.18 Score=54.58 Aligned_cols=84 Identities=19% Similarity=0.232 Sum_probs=49.8
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCE-EEEEeee--------------cCCCCCCCc---eeeccCc-ccceee-
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYR-CMIVRYA--------------KDDRYDTEK---VSTHDQQ-KLTAVS- 209 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~-~~~~k~~--------------~D~R~~~~~---i~s~~g~-~~~a~~- 209 (353)
++.-+++|..||||||++=+-+...-++.+. +-+..|. ...++|++. |---|-. +-+-+.
T Consensus 66 nqvlIviGeTGsGKSTQipQyL~eaG~~~~g~I~~TQPRRVAavslA~RVAeE~~~~lG~~VGY~IRFed~ts~~Triky 145 (674)
T KOG0922|consen 66 NQVLIVIGETGSGKSTQIPQYLAEAGFASSGKIACTQPRRVAAVSLAKRVAEEMGCQLGEEVGYTIRFEDSTSKDTRIKY 145 (674)
T ss_pred CCEEEEEcCCCCCccccHhHHHHhcccccCCcEEeecCchHHHHHHHHHHHHHhCCCcCceeeeEEEecccCCCceeEEE
Confidence 4577899999999999999999887555432 4455553 122233211 0000000 011111
Q ss_pred cc---cHhhhc--ccCCCccEEEEecccc
Q psy8456 210 AV---ELNKLI--PHTKDIDVIGIDEGQF 233 (353)
Q Consensus 210 ~~---~~~~~~--~~~~~~~~i~IDE~QF 233 (353)
.+ -|.+++ +...+|+||+|||||-
T Consensus 146 mTDG~LLRE~l~Dp~LskYsvIIlDEAHE 174 (674)
T KOG0922|consen 146 MTDGMLLREILKDPLLSKYSVIILDEAHE 174 (674)
T ss_pred ecchHHHHHHhcCCccccccEEEEechhh
Confidence 11 266665 4578999999999996
No 134
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=92.91 E-value=0.17 Score=53.30 Aligned_cols=79 Identities=22% Similarity=0.221 Sum_probs=48.6
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCC-C--ceeeccCcccceeecccHhhhcccCCCccE
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDT-E--KVSTHDQQKLTAVSAVELNKLIPHTKDIDV 225 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~-~--~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~ 225 (353)
..++.+++||.||||||-|-..+.......++++-+---+.-.... . .|....|..+ +.-+..++ -.|+|+
T Consensus 257 p~GliLvTGPTGSGKTTTLY~~L~~ln~~~~nI~TiEDPVE~~~~gI~Q~qVN~k~gltf----a~~LRa~L--RqDPDv 330 (500)
T COG2804 257 PQGLILVTGPTGSGKTTTLYAALSELNTPERNIITIEDPVEYQLPGINQVQVNPKIGLTF----ARALRAIL--RQDPDV 330 (500)
T ss_pred CCeEEEEeCCCCCCHHHHHHHHHHHhcCCCceEEEeeCCeeeecCCcceeecccccCCCH----HHHHHHHh--ccCCCe
Confidence 5678999999999999999999999888888766443222111110 0 1111112111 11122222 368999
Q ss_pred EEEecccc
Q psy8456 226 IGIDEGQF 233 (353)
Q Consensus 226 i~IDE~QF 233 (353)
|.|.|..=
T Consensus 331 ImVGEIRD 338 (500)
T COG2804 331 IMVGEIRD 338 (500)
T ss_pred EEEeccCC
Confidence 99999986
No 135
>PF02572 CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; InterPro: IPR003724 ATP:cob(I)alamin (or ATP:corrinoid) adenosyltransferases (2.5.1.17 from EC), catalyse the conversion of cobalamin (vitamin B12) into its coenzyme form, adenosylcobalamin (coenzyme B12) []. Adenosylcobalamin (AdoCbl) is required for the ativity of certain enzymes. AdoCbl contains an adenosyl moiety liganded to the cobalt ion of cobalamin via a covalent Co-C bond, and its synthesis is unique to certain prokaryotes. ATP:cob(I)alamin adenosyltransferases are classed into three groups: CobA-type [], EutT-type [] and PduO-type []. Each of the three enzyme types appears to be specialised for particular AdoCbl-dependent enzymes or for the de novo synthesis AdoCbl. PduO and EutT are distantly related, sharing short conserved motifs, while CobA is evolutionarily unrelated and is an example of convergent evolution. This entry represents the ATP:cob(I)alamin adenosyltransferases CobA (Salmonella typhimurium), CobO (Pseudomonas denitrificans), and ButR (Escherichia coli). There is a high degree of sequence identity between these proteins []. CobA is responsible for attaching the adenosyl moiety from ATP to the cobalt ion of the corrin ring, necessary for the convertion of cobalamin to adenosylcobalamin [, ]. ; GO: 0005524 ATP binding, 0008817 cob(I)yrinic acid a,c-diamide adenosyltransferase activity, 0009236 cobalamin biosynthetic process; PDB: 1G64_A 1G5T_A 1G5R_A.
Probab=92.87 E-value=0.3 Score=44.63 Aligned_cols=132 Identities=20% Similarity=0.199 Sum_probs=68.1
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCC-CCceeecc--------Ccccceeecc------cHh
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYD-TEKVSTHD--------QQKLTAVSAV------ELN 214 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~-~~~i~s~~--------g~~~~a~~~~------~~~ 214 (353)
|-+++++|+ +=||||..+-.+-|..-.|++|+++.--+..++. +-.+..+. |..+.-..-. ...
T Consensus 4 G~i~vytG~-GKGKTTAAlGlalRA~G~G~rV~ivQFlKg~~~~GE~~~l~~l~~~~~~~~g~~f~~~~~~~~~~~~~~~ 82 (172)
T PF02572_consen 4 GLIQVYTGD-GKGKTTAALGLALRAAGHGMRVLIVQFLKGGRYSGELKALKKLPNVEIERFGKGFVWRMNEEEEDRAAAR 82 (172)
T ss_dssp --EEEEESS-SS-HHHHHHHHHHHHHCTT--EEEEESS--SS--HHHHHHGGGT--EEEE--TT----GGGHHHHHHHHH
T ss_pred cEEEEEeCC-CCCchHHHHHHHHHHHhCCCEEEEEEEecCCCCcCHHHHHHhCCeEEEEEcCCcccccCCCcHHHHHHHH
Confidence 457888886 6699999999999999999999999988885533 22221111 1111000000 011
Q ss_pred hhc----c--cCCCccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCCCCCCccHHHHHH
Q psy8456 215 KLI----P--HTKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPPPPEFPDVVSFAE 288 (353)
Q Consensus 215 ~~~----~--~~~~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~~~~ 288 (353)
+.+ . ....+|+|++||+=-.- ..--++. .+|+++++
T Consensus 83 ~~~~~a~~~i~~~~~dlvILDEi~~a~-----------------~~gll~~---------------------~~v~~~l~ 124 (172)
T PF02572_consen 83 EGLEEAKEAISSGEYDLVILDEINYAV-----------------DYGLLSE---------------------EEVLDLLE 124 (172)
T ss_dssp HHHHHHHHHTT-TT-SEEEEETHHHHH-----------------HTTSS-H---------------------HHHHHHHH
T ss_pred HHHHHHHHHHhCCCCCEEEEcchHHHh-----------------HCCCccH---------------------HHHHHHHH
Confidence 111 1 14789999999986410 0000122 23444443
Q ss_pred HHHhCCCEEEEEeccccccCCCchhHHhhhhcccceEEeeee
Q psy8456 289 SMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAV 330 (353)
Q Consensus 289 ~~~~~g~~Vi~~gLd~df~~~~F~~~~~L~~~ad~v~kl~a~ 330 (353)
+ ...+..||+-|=+ ....|+++||.|++++.+
T Consensus 125 ~-rp~~~evVlTGR~---------~~~~l~e~ADlVTem~~v 156 (172)
T PF02572_consen 125 N-RPESLEVVLTGRN---------APEELIEAADLVTEMREV 156 (172)
T ss_dssp T-S-TT-EEEEE-SS-----------HHHHHH-SEEEEEEEC
T ss_pred c-CCCCeEEEEECCC---------CCHHHHHhCCeeeeecee
Confidence 1 2467889998853 257899999999999765
No 136
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=92.86 E-value=0.16 Score=44.43 Aligned_cols=36 Identities=28% Similarity=0.465 Sum_probs=29.4
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
-.++|+-+|||||-+-.-++.+..+|++|.++|..-
T Consensus 3 v~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~ik~~~ 38 (140)
T PF03205_consen 3 VQVVGPKNSGKTTLIRKLINELKRRGYRVAVIKHTD 38 (140)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEE-S
T ss_pred EEEECCCCCCHHHHHHHHHHHHhHcCCceEEEEEcc
Confidence 368999999999999888999999999999888754
No 137
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=92.84 E-value=0.028 Score=46.31 Aligned_cols=100 Identities=14% Similarity=0.186 Sum_probs=54.4
Q ss_pred CCCchHHHHHHHHHHHHHc-----CceEEEEeeccCCCCCCC----ceeeccCCceee-eecCChhhhc-c--cCCCccE
Q psy8456 9 RINPYIVHFCRRIRRYQYA-----NYRCMIVRYAKDDRYDTE----KVATHDQQKLTA-VSAVELNKLI-P--HTKDIDV 75 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~a-----gkkvlv~Kp~iDtRy~~~----~I~Sr~G~~~~A-i~i~~l~ei~-~--~~~~~dv 75 (353)
.-+|||+-+-+-++.+... +.+++.+.-.-.. +.. .+..-.|..... .....+.+.. . ......+
T Consensus 13 ~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l~~~~~~~ 90 (131)
T PF13401_consen 13 PGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSR--TPRDFAQEILEALGLPLKSRQTSDELRSLLIDALDRRRVVL 90 (131)
T ss_dssp TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHS--SHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHHHHCTEEE
T ss_pred CCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCC--CHHHHHHHHHHHhCccccccCCHHHHHHHHHHHHHhcCCeE
Confidence 3489999988888887654 5666655543322 111 122222222211 1111111111 1 1123469
Q ss_pred EEEccccCh-H-HHHHHHHHH-HhCCCEEEEEecccccc
Q psy8456 76 IGIDEGQFF-P-DVVSFAESM-ANAGKIVVVAALDGTFQ 111 (353)
Q Consensus 76 V~IDEaQFF-~-dIv~l~~~l-~~~G~~VivaGLd~DFr 111 (353)
|+|||+|.+ + +..+....+ ...+++|+++|.. .++
T Consensus 91 lviDe~~~l~~~~~l~~l~~l~~~~~~~vvl~G~~-~l~ 128 (131)
T PF13401_consen 91 LVIDEADHLFSDEFLEFLRSLLNESNIKVVLVGTP-ELE 128 (131)
T ss_dssp EEEETTHHHHTHHHHHHHHHHTCSCBEEEEEEESS-TTT
T ss_pred EEEeChHhcCCHHHHHHHHHHHhCCCCeEEEEECh-hhH
Confidence 999999999 7 444444444 4679999999986 443
No 138
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=92.79 E-value=0.2 Score=49.93 Aligned_cols=78 Identities=24% Similarity=0.113 Sum_probs=44.1
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCC--CCCce--ee-ccCcccceeecccHhhhccc--CCCcc
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRY--DTEKV--ST-HDQQKLTAVSAVELNKLIPH--TKDID 224 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~--~~~~i--~s-~~g~~~~a~~~~~~~~~~~~--~~~~~ 224 (353)
.-+|.|+++|||||-| +.+-++-..+.+++.+--...-.. ..+.+ .+ ..+... ......+++.. -.++|
T Consensus 162 nili~G~tgSGKTTll-~aL~~~ip~~~ri~tiEd~~El~l~~~~n~~~~~~~~~~~~~---~~~~~~~ll~~~LR~~PD 237 (332)
T PRK13900 162 NIIISGGTSTGKTTFT-NAALREIPAIERLITVEDAREIVLSNHPNRVHLLASKGGQGR---AKVTTQDLIEACLRLRPD 237 (332)
T ss_pred cEEEECCCCCCHHHHH-HHHHhhCCCCCeEEEecCCCccccccCCCEEEEEecCCCCCc---CcCcHHHHHHHHhccCCC
Confidence 4589999999999877 556666666777776532221111 11211 11 111111 11234444432 36799
Q ss_pred EEEEecccc
Q psy8456 225 VIGIDEGQF 233 (353)
Q Consensus 225 ~i~IDE~QF 233 (353)
+|+|.|..=
T Consensus 238 ~IivGEiR~ 246 (332)
T PRK13900 238 RIIVGELRG 246 (332)
T ss_pred eEEEEecCC
Confidence 999999874
No 139
>PRK06835 DNA replication protein DnaC; Validated
Probab=92.76 E-value=0.35 Score=48.22 Aligned_cols=73 Identities=14% Similarity=0.055 Sum_probs=43.5
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCc-ccceeecccHhhhcccCCCccEEEEe
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQ-KLTAVSAVELNKLIPHTKDIDVIGID 229 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~-~~~a~~~~~~~~~~~~~~~~~~i~ID 229 (353)
.--+++||.|+|||.-+.-.++.+...|++|+.+.... +...... .... ..+....+....++|+++||
T Consensus 184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~--------l~~~l~~~~~~~--~~~~~~~~~~l~~~DLLIID 253 (329)
T PRK06835 184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADE--------LIEILREIRFNN--DKELEEVYDLLINCDLLIID 253 (329)
T ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHH--------HHHHHHHHHhcc--chhHHHHHHHhccCCEEEEe
Confidence 34589999999999866666666777888887665421 0000000 0000 00111113345688999999
Q ss_pred cccc
Q psy8456 230 EGQF 233 (353)
Q Consensus 230 E~QF 233 (353)
+.+.
T Consensus 254 DlG~ 257 (329)
T PRK06835 254 DLGT 257 (329)
T ss_pred ccCC
Confidence 9987
No 140
>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=92.60 E-value=0.2 Score=48.95 Aligned_cols=83 Identities=18% Similarity=0.073 Sum_probs=41.0
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCC-CceeeccCcccceeecccHhhhccc--CCCccEE
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDT-EKVSTHDQQKLTAVSAVELNKLIPH--TKDIDVI 226 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~-~~i~s~~g~~~~a~~~~~~~~~~~~--~~~~~~i 226 (353)
+...+|+||++|||||-|-- +-.+.....+++.+.....-.... +.+.-..+............+++.. ..++|+|
T Consensus 144 ~~~ili~G~tGsGKTTll~a-l~~~~~~~~~iv~ied~~El~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~Lr~~pd~i 222 (308)
T TIGR02788 144 RKNIIISGGTGSGKTTFLKS-LVDEIPKDERIITIEDTREIFLPHPNYVHLFYSKGGQGLAKVTPKDLLQSCLRMRPDRI 222 (308)
T ss_pred CCEEEEECCCCCCHHHHHHH-HHccCCccccEEEEcCccccCCCCCCEEEEEecCCCCCcCccCHHHHHHHHhcCCCCeE
Confidence 45678999999999997643 333333444555553211111111 1111000000011111234444432 4689999
Q ss_pred EEecccc
Q psy8456 227 GIDEGQF 233 (353)
Q Consensus 227 ~IDE~QF 233 (353)
++||..=
T Consensus 223 i~gE~r~ 229 (308)
T TIGR02788 223 ILGELRG 229 (308)
T ss_pred EEeccCC
Confidence 9999874
No 141
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=92.57 E-value=0.091 Score=54.35 Aligned_cols=87 Identities=14% Similarity=0.177 Sum_probs=51.2
Q ss_pred CCCchHHHHHHHHHHHHH---cCceEEEEeeccCCCCCCCceeeccCCceeeeecCChhhhcccCCCccEEEEccccChH
Q psy8456 9 RINPYIVHFCRRIRRYQY---ANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEGQFFP 85 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~---agkkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai~i~~l~ei~~~~~~~dvV~IDEaQFF~ 85 (353)
.-.||| .|++.+-++-. .+.+|+.+.+. | .. ..+....+.. ...+.++.....++|+++|||+||+.
T Consensus 150 ~G~GKT-HLl~Ai~~~l~~~~~~~~v~yv~~~-~--f~-~~~~~~l~~~-----~~~~~~~~~~~~~~dvLiIDDiq~l~ 219 (450)
T PRK14087 150 SGMGKT-HLLKAAKNYIESNFSDLKVSYMSGD-E--FA-RKAVDILQKT-----HKEIEQFKNEICQNDVLIIDDVQFLS 219 (450)
T ss_pred CCCcHH-HHHHHHHHHHHHhCCCCeEEEEEHH-H--HH-HHHHHHHHHh-----hhHHHHHHHHhccCCEEEEecccccc
Confidence 347999 66677766432 45777655542 1 10 1122111100 01233343445679999999999994
Q ss_pred -------HHHHHHHHHHhCCCEEEEEe
Q psy8456 86 -------DVVSFAESMANAGKIVVVAA 105 (353)
Q Consensus 86 -------dIv~l~~~l~~~G~~VivaG 105 (353)
.+..+.+.+.+.|+.+++.+
T Consensus 220 ~k~~~~e~lf~l~N~~~~~~k~iIlts 246 (450)
T PRK14087 220 YKEKTNEIFFTIFNNFIENDKQLFFSS 246 (450)
T ss_pred CCHHHHHHHHHHHHHHHHcCCcEEEEC
Confidence 25666777788899887774
No 142
>cd03112 CobW_like The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.
Probab=92.40 E-value=0.26 Score=43.45 Aligned_cols=35 Identities=20% Similarity=0.172 Sum_probs=25.6
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
..+++|+++|||||-+-+.+... .+.++.++....
T Consensus 2 ~~~l~G~~GsGKTtl~~~l~~~~--~~~~~~~i~~~~ 36 (158)
T cd03112 2 VTVLTGFLGAGKTTLLNHILTEQ--HGRKIAVIENEF 36 (158)
T ss_pred EEEEEECCCCCHHHHHHHHHhcc--cCCcEEEEecCC
Confidence 45789999999998776665542 477777766554
No 143
>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=92.37 E-value=0.067 Score=42.59 Aligned_cols=32 Identities=3% Similarity=-0.095 Sum_probs=25.6
Q ss_pred CCCCchHHHHHHHHHHHHH--cCceEEEEeeccC
Q psy8456 8 DRINPYIVHFCRRIRRYQY--ANYRCMIVRYAKD 39 (353)
Q Consensus 8 ~~~~GKSteLLrr~~ry~~--agkkvlv~Kp~iD 39 (353)
..-+|||+.++..+.+... ..++++++-|..+
T Consensus 8 ~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~ 41 (144)
T cd00046 8 PTGSGKTLAALLPILELLDSLKGGQVLVLAPTRE 41 (144)
T ss_pred CCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHH
Confidence 3458999999999988776 5689999999643
No 144
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=92.36 E-value=0.11 Score=46.18 Aligned_cols=37 Identities=27% Similarity=0.312 Sum_probs=27.8
Q ss_pred eeeeeccCCCCchhHHHHHHHHH--------HHhCCEEEEEeeec
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRY--------QYANYRCMIVRYAK 188 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~--------~~~~~~~~~~k~~~ 188 (353)
+.+|.||.|+|||+-|...+... ...+.+++++.|+.
T Consensus 19 ~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN 63 (236)
T PF13086_consen 19 ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSN 63 (236)
T ss_dssp -EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSH
T ss_pred CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCc
Confidence 68999999999999999888887 45577777777643
No 145
>PRK11823 DNA repair protein RadA; Provisional
Probab=92.35 E-value=0.36 Score=49.90 Aligned_cols=118 Identities=12% Similarity=0.045 Sum_probs=71.7
Q ss_pred CCCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCce---eeccCCceeeee---cCChhhhccc--CCCccEEEEcc
Q psy8456 9 RINPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKV---ATHDQQKLTAVS---AVELNKLIPH--TKDIDVIGIDE 80 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I---~Sr~G~~~~Ai~---i~~l~ei~~~--~~~~dvV~IDE 80 (353)
.=+|||+-+++.+.++..+|.+|+.+.-.- +...+ ..|.|...+.+. ..++.++... ..++++|+||+
T Consensus 89 pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ee----s~~qi~~ra~rlg~~~~~l~~~~e~~l~~i~~~i~~~~~~lVVIDS 164 (446)
T PRK11823 89 PGIGKSTLLLQVAARLAAAGGKVLYVSGEE----SASQIKLRAERLGLPSDNLYLLAETNLEAILATIEEEKPDLVVIDS 164 (446)
T ss_pred CCCCHHHHHHHHHHHHHhcCCeEEEEEccc----cHHHHHHHHHHcCCChhcEEEeCCCCHHHHHHHHHhhCCCEEEEec
Confidence 347999999999999887899999887532 11223 223443333222 2344444422 34789999999
Q ss_pred ccChH------------HHH----HHHHHHHhCCCEEEEEecccccccCCchhHhhhhccccceEecc
Q psy8456 81 GQFFP------------DVV----SFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLT 132 (353)
Q Consensus 81 aQFF~------------dIv----~l~~~l~~~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~ 132 (353)
.|++- ++. +|.+.+.+.|++|++.|--+. .+. +.+...|--++|.|..+.
T Consensus 165 Iq~l~~~~~~~~~g~~~qvr~~~~~L~~~ak~~~itvilv~hvtk-~~~-~ag~~~lehlvD~Vi~le 230 (446)
T PRK11823 165 IQTMYSPELESAPGSVSQVRECAAELMRLAKQRGIAVFLVGHVTK-EGA-IAGPRVLEHMVDTVLYFE 230 (446)
T ss_pred hhhhccccccCCCCCHHHHHHHHHHHHHHHHHcCCEEEEEeeccC-CCC-cCCcchhhhhCeEEEEEE
Confidence 99762 233 345556688999999985321 111 222233445678877663
No 146
>PF12846 AAA_10: AAA-like domain
Probab=92.32 E-value=0.15 Score=47.38 Aligned_cols=37 Identities=32% Similarity=0.290 Sum_probs=32.7
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecC
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKD 189 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D 189 (353)
.+|+|++|||||+.+...+......|..++++-|.-|
T Consensus 4 ~~i~G~tGsGKT~~~~~l~~~~~~~g~~~~i~D~~g~ 40 (304)
T PF12846_consen 4 TLILGKTGSGKTTLLKNLLEQLIRRGPRVVIFDPKGD 40 (304)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHcCCCEEEEcCCch
Confidence 4799999999999999999999999999999976543
No 147
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=92.28 E-value=0.23 Score=53.21 Aligned_cols=39 Identities=21% Similarity=0.158 Sum_probs=30.2
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHHhC-----CEEEEEeee
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQYAN-----YRCMIVRYA 187 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~~~-----~~~~~~k~~ 187 (353)
.+...+|.|+.|+||||-+.+.+..+...+ .++.+.-|+
T Consensus 159 ~~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APT 202 (586)
T TIGR01447 159 KSNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPT 202 (586)
T ss_pred hCCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCc
Confidence 357899999999999998888777665432 468888874
No 148
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=92.25 E-value=0.21 Score=47.13 Aligned_cols=39 Identities=18% Similarity=0.111 Sum_probs=35.2
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
+...+|+|+++||||+-.++-+.+...+|.+|+.+....
T Consensus 23 g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e 61 (260)
T COG0467 23 GSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEE 61 (260)
T ss_pred CcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecC
Confidence 457899999999999999999999999999999988654
No 149
>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=92.22 E-value=0.32 Score=43.77 Aligned_cols=34 Identities=26% Similarity=0.297 Sum_probs=22.4
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEE
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIV 184 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~ 184 (353)
+...+++||++|||||-| +.+-.+.....+++.+
T Consensus 25 g~~i~I~G~tGSGKTTll-~aL~~~i~~~~~~i~i 58 (186)
T cd01130 25 RKNILISGGTGSGKTTLL-NALLAFIPPDERIITI 58 (186)
T ss_pred CCEEEEECCCCCCHHHHH-HHHHhhcCCCCCEEEE
Confidence 567799999999999865 4444443344444444
No 150
>PF00488 MutS_V: MutS domain V C-terminus.; InterPro: IPR000432 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication []. MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base []. MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch []. MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level []. Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure [], and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein [].This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions []. Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts []. This entry represents the C-terminal domain found in proteins in the MutS family of DNA mismatch repair proteins. The C-terminal region of MutS is comprised of the ATPase domain and the HTH (helix-turn-helix) domain, the latter being involved in dimer contacts. Yeast MSH3 [], bacterial proteins involved in DNA mismatch repair, and the predicted protein product of the Rep-3 gene of mouse share extensive sequence similarity. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein. ; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 1FW6_A 1EWQ_A 1EWR_B 1NNE_B 2WTU_A 1OH7_A 1OH5_B 1W7A_B 1NG9_A 1OH8_B ....
Probab=92.15 E-value=0.66 Score=43.89 Aligned_cols=81 Identities=20% Similarity=0.192 Sum_probs=44.7
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCC-CCceeeccCcccc---ee-----ecccHhhhcccCC
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYD-TEKVSTHDQQKLT---AV-----SAVELNKLIPHTK 221 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~-~~~i~s~~g~~~~---a~-----~~~~~~~~~~~~~ 221 (353)
+..+|+||..|||||-|=...-..-.|+.-+. -|+...+.+ -+.|-||.+..-. .. ....+..++....
T Consensus 44 ~~~iiTGpN~sGKSt~lk~i~~~~ilaq~G~~--VPA~~~~i~~~d~I~t~~~~~d~~~~~~S~F~~E~~~~~~il~~~~ 121 (235)
T PF00488_consen 44 RIIIITGPNMSGKSTFLKQIGLIVILAQIGCF--VPAESAEIPIFDRIFTRIGDDDSIESGLSTFMAEMKRLSSILRNAT 121 (235)
T ss_dssp SEEEEESSTTSSHHHHHHHHHHHHHHHTTT----BSSSEEEEE--SEEEEEES---SSTTSSSHHHHHHHHHHHHHHH--
T ss_pred eEEEEeCCCccchhhHHHHHHHHhhhhhcCce--eeecccccccccEEEeecccccccccccccHHHhHHHHHhhhhhcc
Confidence 57899999999999988777777666653222 233322222 1345555442211 11 1233444554444
Q ss_pred CccEEEEecccc
Q psy8456 222 DIDVIGIDEGQF 233 (353)
Q Consensus 222 ~~~~i~IDE~QF 233 (353)
+-..|+|||.=.
T Consensus 122 ~~sLvliDE~g~ 133 (235)
T PF00488_consen 122 EKSLVLIDELGR 133 (235)
T ss_dssp TTEEEEEESTTT
T ss_pred cceeeecccccC
Confidence 566899999766
No 151
>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=92.13 E-value=0.24 Score=51.37 Aligned_cols=36 Identities=25% Similarity=0.226 Sum_probs=32.2
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEee
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRY 186 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~ 186 (353)
....++|+-||||||-+..-+..+...|++|+++..
T Consensus 101 ~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~ 136 (429)
T TIGR01425 101 NVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCA 136 (429)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcC
Confidence 467899999999999999999999989999998853
No 152
>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=92.07 E-value=0.14 Score=47.70 Aligned_cols=44 Identities=16% Similarity=0.385 Sum_probs=33.5
Q ss_pred hhhhcccCCCccEEEEccccChH-------HHHHHHHHHHhCCCEEEEEec
Q psy8456 63 LNKLIPHTKDIDVIGIDEGQFFP-------DVVSFAESMANAGKIVVVAAL 106 (353)
Q Consensus 63 l~ei~~~~~~~dvV~IDEaQFF~-------dIv~l~~~l~~~G~~VivaGL 106 (353)
..++......+|+++||.+|++. .+..+.+.+.+.|+++++++=
T Consensus 88 ~~~~~~~~~~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~ 138 (219)
T PF00308_consen 88 IEEFKDRLRSADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSD 138 (219)
T ss_dssp HHHHHHHHCTSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEES
T ss_pred chhhhhhhhcCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeC
Confidence 34444445689999999999994 255777888889999998874
No 153
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=92.07 E-value=0.089 Score=57.99 Aligned_cols=82 Identities=20% Similarity=0.171 Sum_probs=50.8
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHH-HhC-CEEEEEeeecCC-CCCC-Cceee---ccCcccce-eecccHhhhcccCC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQ-YAN-YRCMIVRYAKDD-RYDT-EKVST---HDQQKLTA-VSAVELNKLIPHTK 221 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~-~~~-~~~~~~k~~~D~-R~~~-~~i~s---~~g~~~~a-~~~~~~~~~~~~~~ 221 (353)
+++..++||.|+||||-+..-+..|. ..| ++|.++.. |+ |-+. +...+ ..|..... ....++.+.+...+
T Consensus 185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~--Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~~ 262 (767)
T PRK14723 185 GGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTT--DSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAALG 262 (767)
T ss_pred CeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecC--cccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHHhc
Confidence 56788999999999999999999884 555 58877663 32 3211 11111 11221111 11223444455567
Q ss_pred CccEEEEecccc
Q psy8456 222 DIDVIGIDEGQF 233 (353)
Q Consensus 222 ~~~~i~IDE~QF 233 (353)
++|+|+||=+=.
T Consensus 263 ~~D~VLIDTAGR 274 (767)
T PRK14723 263 DKHLVLIDTVGM 274 (767)
T ss_pred CCCEEEEeCCCC
Confidence 889999998765
No 154
>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=92.06 E-value=0.51 Score=41.41 Aligned_cols=39 Identities=18% Similarity=0.147 Sum_probs=32.8
Q ss_pred eeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCC
Q psy8456 154 VILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRY 192 (353)
Q Consensus 154 vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~ 192 (353)
.++|+-+|||||-+..-...+...|.+++++.-....++
T Consensus 3 ~~~G~~GsGKTt~~~~l~~~~~~~g~~v~ii~~D~~~~~ 41 (148)
T cd03114 3 GITGVPGAGKSTLIDALITALRARGKRVAVLAIDPSSPF 41 (148)
T ss_pred EEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeCCCCCC
Confidence 468999999999999998889999999999886554444
No 155
>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=92.06 E-value=0.23 Score=43.59 Aligned_cols=81 Identities=15% Similarity=0.157 Sum_probs=49.9
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCC--Cce---eeccCccccee-ecccHhhh----cc--c
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDT--EKV---STHDQQKLTAV-SAVELNKL----IP--H 219 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~--~~i---~s~~g~~~~a~-~~~~~~~~----~~--~ 219 (353)
+.++.|+.+|||||-....+..+...|++|+++. .|.+... +.. ..+.|..+... ...++.++ +. .
T Consensus 2 ~~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~--~D~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVA--ADTYRPAAIEQLRVLGEQVGVPVFEEGEGKDPVSIAKRAIEHAR 79 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE--cCCCChHHHHHHHHhcccCCeEEEecCCCCCHHHHHHHHHHHHH
Confidence 4578999999999999999988888899999877 3544321 001 11222111110 01122222 11 2
Q ss_pred CCCccEEEEeccccc
Q psy8456 220 TKDIDVIGIDEGQFV 234 (353)
Q Consensus 220 ~~~~~~i~IDE~QF~ 234 (353)
..++|+|+||..+..
T Consensus 80 ~~~~d~viiDt~g~~ 94 (173)
T cd03115 80 EENFDVVIVDTAGRL 94 (173)
T ss_pred hCCCCEEEEECcccc
Confidence 468999999999873
No 156
>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=91.98 E-value=0.19 Score=44.92 Aligned_cols=36 Identities=22% Similarity=0.169 Sum_probs=29.2
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
+.++.|..+|||||-|.+.+. ....|.++.++.-..
T Consensus 2 v~ii~GfLGsGKTTli~~ll~-~~~~~~~~~vI~ne~ 37 (178)
T PF02492_consen 2 VIIITGFLGSGKTTLINHLLK-RNRQGERVAVIVNEF 37 (178)
T ss_dssp EEEEEESTTSSHHHHHHHHHH-HHTTTS-EEEEECST
T ss_pred EEEEEcCCCCCHHHHHHHHHH-HhcCCceeEEEEccc
Confidence 468999999999999988888 777889999887543
No 157
>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=91.89 E-value=0.36 Score=47.33 Aligned_cols=77 Identities=18% Similarity=0.177 Sum_probs=42.0
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHH--hCCEEEEEeeecCCCC-CCCceeeccCcccceeecccHhhhccc--CCCccEE
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQY--ANYRCMIVRYAKDDRY-DTEKVSTHDQQKLTAVSAVELNKLIPH--TKDIDVI 226 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~--~~~~~~~~k~~~D~R~-~~~~i~s~~g~~~~a~~~~~~~~~~~~--~~~~~~i 226 (353)
.-+|+|+++|||||-|-.-+..... .+.+++.+.....-.. ..+.+.-+.+. ....+.+++.. -.++|.|
T Consensus 134 ~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El~~~~~~~v~~~~~~-----~~~~~~~~l~~aLR~~pD~i 208 (299)
T TIGR02782 134 NILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTRELQCAAPNVVQLRTSD-----DAISMTRLLKATLRLRPDRI 208 (299)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhhcCCCCCEEEEEecC-----CCCCHHHHHHHHhcCCCCEE
Confidence 4589999999999987544443332 2567766543221111 11111111010 01245555432 3689999
Q ss_pred EEecccc
Q psy8456 227 GIDEGQF 233 (353)
Q Consensus 227 ~IDE~QF 233 (353)
++.|..=
T Consensus 209 ivGEiR~ 215 (299)
T TIGR02782 209 IVGEVRG 215 (299)
T ss_pred EEeccCC
Confidence 9999874
No 158
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=91.76 E-value=0.35 Score=49.93 Aligned_cols=44 Identities=25% Similarity=0.271 Sum_probs=24.3
Q ss_pred hccccceEeccceeccccccc-----cccccccc--ce--eeeeccCCCCchhH
Q psy8456 122 IPLAECVEKLTAVCMSCFRDA-----AFTKRIGQ--EK--EVILGPMFSGKTTE 166 (353)
Q Consensus 122 l~lAD~I~kL~AvC~~CG~~A-----~f~~Ri~g--eI--~vi~G~M~sGKt~~ 166 (353)
+|+|+++.. +.+=...|.+- -.-.|... .+ -+.+||.|+||||-
T Consensus 12 ~PLA~rmRP-~~lde~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTl 64 (436)
T COG2256 12 MPLAERLRP-KSLDEVVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTL 64 (436)
T ss_pred cChHHHhCC-CCHHHhcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHH
Confidence 677777663 34444555431 11122221 22 35799999999973
No 159
>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]
Probab=91.73 E-value=0.21 Score=46.92 Aligned_cols=38 Identities=24% Similarity=0.317 Sum_probs=31.5
Q ss_pred eeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCC
Q psy8456 155 ILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYD 193 (353)
Q Consensus 155 i~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~ 193 (353)
+.||.+||||+-|.+.++.++.. +++-+++--+-+..+
T Consensus 18 v~Gp~GSGKTaLie~~~~~L~~~-~~~aVI~~Di~t~~D 55 (202)
T COG0378 18 VGGPPGSGKTALIEKTLRALKDE-YKIAVITGDIYTKED 55 (202)
T ss_pred ecCCCCcCHHHHHHHHHHHHHhh-CCeEEEeceeechhh
Confidence 68999999999999999998777 888888876666444
No 160
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=91.72 E-value=0.23 Score=55.18 Aligned_cols=39 Identities=13% Similarity=0.111 Sum_probs=30.7
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
++..++.|+.||||||.+...+-.....+.+++++.|..
T Consensus 17 ~~~vIi~a~TGSGKTT~vpl~lL~~~~~~~~ilvlqPrR 55 (819)
T TIGR01970 17 HPQVVLEAPPGAGKSTAVPLALLDAPGIGGKIIMLEPRR 55 (819)
T ss_pred CCcEEEECCCCCCHHHHHHHHHHHhhccCCeEEEEeCcH
Confidence 446688999999999999988765544566888888853
No 161
>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=91.70 E-value=0.36 Score=50.09 Aligned_cols=119 Identities=7% Similarity=-0.014 Sum_probs=73.1
Q ss_pred CCCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCcee---eccCCceeeee---cCChhhhcc--cCCCccEEEEcc
Q psy8456 9 RINPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVA---THDQQKLTAVS---AVELNKLIP--HTKDIDVIGIDE 80 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~---Sr~G~~~~Ai~---i~~l~ei~~--~~~~~dvV~IDE 80 (353)
.=+||||-+++.+.+....|.+|+.+...- ++ ..+. .|.|...+... -.++.++.. ...++++|+||.
T Consensus 103 pGsGKTTL~lq~a~~~a~~g~kvlYvs~EE-s~---~qi~~ra~rlg~~~~~l~~~~e~~~~~I~~~i~~~~~~~vVIDS 178 (454)
T TIGR00416 103 PGIGKSTLLLQVACQLAKNQMKVLYVSGEE-SL---QQIKMRAIRLGLPEPNLYVLSETNWEQICANIEEENPQACVIDS 178 (454)
T ss_pred CCCCHHHHHHHHHHHHHhcCCcEEEEECcC-CH---HHHHHHHHHcCCChHHeEEcCCCCHHHHHHHHHhcCCcEEEEec
Confidence 357999999999999888888999887642 22 1222 23333222211 223444432 234789999999
Q ss_pred ccChH------------HHHH----HHHHHHhCCCEEEEEecccccccCCchhHhhhhccccceEeccc
Q psy8456 81 GQFFP------------DVVS----FAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTA 133 (353)
Q Consensus 81 aQFF~------------dIv~----l~~~l~~~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~A 133 (353)
.|.+. |+.+ |.+.+.+.|++|++.|=.+. .+ .+.+...|--++|.|..|.-
T Consensus 179 Iq~l~~~~~~~~~g~~~q~r~~~~~L~~~ak~~giTvllt~hvtk-eg-~~aG~~~le~lvD~VI~Le~ 245 (454)
T TIGR00416 179 IQTLYSPDISSAPGSVSQVRECTAELMRLAKTRGIAIFIVGHVTK-EG-SIAGPKVLEHMVDTVLYFEG 245 (454)
T ss_pred chhhcccccccCCCCHHHHHHHHHHHHHHHHHhCCEEEEEecccc-CC-ccCCcccEeeeceEEEEEec
Confidence 99862 2333 44455678999999984332 11 23333345568999988864
No 162
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=91.61 E-value=0.29 Score=44.71 Aligned_cols=36 Identities=22% Similarity=0.048 Sum_probs=30.9
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
+..++|+.+|||||-+-+.+......|.+|-.+|..
T Consensus 8 ii~ivG~sgsGKTTLi~~li~~l~~~g~~vg~Ik~~ 43 (173)
T PRK10751 8 LLAIAAWSGTGKTTLLKKLIPALCARGIRPGLIKHT 43 (173)
T ss_pred EEEEECCCCChHHHHHHHHHHHHhhcCCeEEEEEEc
Confidence 567899999999998888888888889999999873
No 163
>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=91.60 E-value=0.48 Score=44.87 Aligned_cols=20 Identities=25% Similarity=0.044 Sum_probs=14.4
Q ss_pred eeeeccCCCCchhHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIR 172 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~ 172 (353)
-+++||.|+||||-.--.++
T Consensus 45 vll~GppGtGKTtlA~~ia~ 64 (261)
T TIGR02881 45 MIFKGNPGTGKTTVARILGK 64 (261)
T ss_pred EEEEcCCCCCHHHHHHHHHH
Confidence 36899999999975433333
No 164
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=91.60 E-value=0.55 Score=42.87 Aligned_cols=33 Identities=18% Similarity=0.182 Sum_probs=25.6
Q ss_pred eeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 154 VILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 154 vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
.++|+++|||||-+-+.++++. .+.++.+++-.
T Consensus 26 ~~~G~~gsGKTTli~~l~~~~~-~~~~v~v~~~~ 58 (207)
T TIGR00073 26 NFMSSPGSGKTTLIEKLIDNLK-DEVKIAVIEGD 58 (207)
T ss_pred EEECCCCCCHHHHHHHHHHHHh-cCCeEEEEECC
Confidence 4899999999998888777653 35788877743
No 165
>PRK04195 replication factor C large subunit; Provisional
Probab=91.56 E-value=0.33 Score=50.34 Aligned_cols=33 Identities=18% Similarity=0.250 Sum_probs=22.5
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEee
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRY 186 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~ 186 (353)
..-+++||.|+||||-+-..++.+ |..++-+..
T Consensus 40 ~~lLL~GppG~GKTtla~ala~el---~~~~ielna 72 (482)
T PRK04195 40 KALLLYGPPGVGKTSLAHALANDY---GWEVIELNA 72 (482)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHc---CCCEEEEcc
Confidence 456899999999998665554443 555555543
No 166
>PRK00889 adenylylsulfate kinase; Provisional
Probab=91.40 E-value=0.29 Score=43.06 Aligned_cols=36 Identities=19% Similarity=0.098 Sum_probs=28.7
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEe
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVR 185 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k 185 (353)
+.+-++.|+|+|||||-.-.....+...|.++.++.
T Consensus 4 g~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~id 39 (175)
T PRK00889 4 GVTVWFTGLSGAGKTTIARALAEKLREAGYPVEVLD 39 (175)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEc
Confidence 567789999999999877666667777788887774
No 167
>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=91.30 E-value=0.41 Score=52.61 Aligned_cols=91 Identities=16% Similarity=0.183 Sum_probs=60.4
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCceeeccCCceeeeecCChh-hhc---ccCCCccEEEEccccChH
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELN-KLI---PHTKDIDVIGIDEGQFFP 85 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai~i~~l~-ei~---~~~~~~dvV~IDEaQFF~ 85 (353)
=.||||-|-...+-++..|.+|+++-|. .|.. ..+. ....++|..+.++. ... ....+.++|+|||+...+
T Consensus 378 GTGKTtll~~i~~~~~~~g~~V~~~ApT--g~Aa-~~L~--~~~g~~a~Ti~~~~~~~~~~~~~~~~~~llIvDEasMv~ 452 (744)
T TIGR02768 378 GTGKSTMLKAAREAWEAAGYRVIGAALS--GKAA-EGLQ--AESGIESRTLASLEYAWANGRDLLSDKDVLVIDEAGMVG 452 (744)
T ss_pred CCCHHHHHHHHHHHHHhCCCeEEEEeCc--HHHH-HHHH--hccCCceeeHHHHHhhhccCcccCCCCcEEEEECcccCC
Confidence 3799998777777788889999999884 2321 1111 11223344433331 111 123568999999999996
Q ss_pred --HHHHHHHHHHhCCCEEEEEe
Q psy8456 86 --DVVSFAESMANAGKIVVVAA 105 (353)
Q Consensus 86 --dIv~l~~~l~~~G~~VivaG 105 (353)
++.++.+.+...|..|++.|
T Consensus 453 ~~~~~~Ll~~~~~~~~kliLVG 474 (744)
T TIGR02768 453 SRQMARVLKEAEEAGAKVVLVG 474 (744)
T ss_pred HHHHHHHHHHHHhcCCEEEEEC
Confidence 67777777777899999999
No 168
>PRK05541 adenylylsulfate kinase; Provisional
Probab=91.28 E-value=0.29 Score=43.12 Aligned_cols=35 Identities=23% Similarity=0.047 Sum_probs=26.3
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEE
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIV 184 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~ 184 (353)
+...++.|+|+|||||-.-...+++...+..+.++
T Consensus 7 ~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~ 41 (176)
T PRK05541 7 GYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYL 41 (176)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEE
Confidence 44678999999999988766666666666666555
No 169
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=91.22 E-value=0.26 Score=50.97 Aligned_cols=86 Identities=13% Similarity=0.259 Sum_probs=47.7
Q ss_pred CCCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCceeeccCCceeeeecCChhhhcccCCCccEEEEccccChH---
Q psy8456 9 RINPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEGQFFP--- 85 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai~i~~l~ei~~~~~~~dvV~IDEaQFF~--- 85 (353)
.-+|||.-+-..++.+...|.+|+.+.+.- .. +.+.+. .......++......+|+++|||+||+.
T Consensus 150 ~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~---f~-~~~~~~-------l~~~~~~~f~~~~~~~dvLiIDDiq~l~~k~ 218 (445)
T PRK12422 150 EGSGKTHLMQAAVHALRESGGKILYVRSEL---FT-EHLVSA-------IRSGEMQRFRQFYRNVDALFIEDIEVFSGKG 218 (445)
T ss_pred CCCCHHHHHHHHHHHHHHcCCCEEEeeHHH---HH-HHHHHH-------HhcchHHHHHHHcccCCEEEEcchhhhcCCh
Confidence 346786655544555555666666555421 00 011110 0001122222335679999999999993
Q ss_pred ----HHHHHHHHHHhCCCEEEEEe
Q psy8456 86 ----DVVSFAESMANAGKIVVVAA 105 (353)
Q Consensus 86 ----dIv~l~~~l~~~G~~VivaG 105 (353)
++..+.+.+.+.|+.+++.+
T Consensus 219 ~~qeelf~l~N~l~~~~k~IIlts 242 (445)
T PRK12422 219 ATQEEFFHTFNSLHTEGKLIVISS 242 (445)
T ss_pred hhHHHHHHHHHHHHHCCCcEEEec
Confidence 24455566667899988887
No 170
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=91.13 E-value=0.51 Score=39.96 Aligned_cols=31 Identities=3% Similarity=-0.189 Sum_probs=24.6
Q ss_pred cCCCCchHHHHHHHHHHHHHcC--ceEEEEeec
Q psy8456 7 DDRINPYIVHFCRRIRRYQYAN--YRCMIVRYA 37 (353)
Q Consensus 7 ~~~~~GKSteLLrr~~ry~~ag--kkvlv~Kp~ 37 (353)
...-+|||+.++..+.+....+ ++++++.|.
T Consensus 31 ~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~ 63 (201)
T smart00487 31 APTGSGKTLAALLPALEALKRGKGKRVLVLVPT 63 (201)
T ss_pred CCCCCchhHHHHHHHHHHhcccCCCcEEEEeCC
Confidence 3456899998888887776655 889999994
No 171
>PRK00698 tmk thymidylate kinase; Validated
Probab=91.09 E-value=0.26 Score=43.92 Aligned_cols=37 Identities=16% Similarity=-0.006 Sum_probs=28.7
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRY 186 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~ 186 (353)
+.+.++.|+++|||||.+-.-...+...|..+.+.+.
T Consensus 3 ~~~I~ieG~~gsGKsT~~~~L~~~l~~~~~~~~~~~~ 39 (205)
T PRK00698 3 GMFITIEGIDGAGKSTQIELLKELLEQQGRDVVFTRE 39 (205)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHcCCceeEeeC
Confidence 4567899999999999877766777777877776544
No 172
>PRK14738 gmk guanylate kinase; Provisional
Probab=90.88 E-value=0.61 Score=42.79 Aligned_cols=29 Identities=34% Similarity=0.437 Sum_probs=21.3
Q ss_pred ccccccccceeeeeccCCCCchhHHHHHHH
Q psy8456 143 AFTKRIGQEKEVILGPMFSGKTTELIRRIR 172 (353)
Q Consensus 143 ~f~~Ri~geI~vi~G~M~sGKt~~Li~~~~ 172 (353)
-++..-.+.+.+++||.+||||| |++.+.
T Consensus 6 ~~~~~~~~~~ivi~GpsG~GK~t-l~~~L~ 34 (206)
T PRK14738 6 LFNKPAKPLLVVISGPSGVGKDA-VLARMR 34 (206)
T ss_pred ccCCCCCCeEEEEECcCCCCHHH-HHHHHH
Confidence 34544556778899999999998 555554
No 173
>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=90.86 E-value=0.086 Score=43.03 Aligned_cols=65 Identities=18% Similarity=0.154 Sum_probs=35.7
Q ss_pred eeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCC-CCCCCceeeccCcccceeecccHhhhccc--CC-CccEEEEe
Q psy8456 154 VILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDD-RYDTEKVSTHDQQKLTAVSAVELNKLIPH--TK-DIDVIGID 229 (353)
Q Consensus 154 vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~-R~~~~~i~s~~g~~~~a~~~~~~~~~~~~--~~-~~~~i~ID 229 (353)
+++||.|+|||+-+-..++.. +..++-+...... .+ .......+.+++.. .. ...+++||
T Consensus 2 ll~G~~G~GKT~l~~~la~~l---~~~~~~i~~~~~~~~~-------------~~~~~~~i~~~~~~~~~~~~~~vl~iD 65 (132)
T PF00004_consen 2 LLHGPPGTGKTTLARALAQYL---GFPFIEIDGSELISSY-------------AGDSEQKIRDFFKKAKKSAKPCVLFID 65 (132)
T ss_dssp EEESSTTSSHHHHHHHHHHHT---TSEEEEEETTHHHTSS-------------TTHHHHHHHHHHHHHHHTSTSEEEEEE
T ss_pred EEECcCCCCeeHHHHHHHhhc---cccccccccccccccc-------------ccccccccccccccccccccceeeeec
Confidence 689999999996554444433 5555544432211 10 00111233444332 12 36899999
Q ss_pred ccccc
Q psy8456 230 EGQFV 234 (353)
Q Consensus 230 E~QF~ 234 (353)
|++-+
T Consensus 66 e~d~l 70 (132)
T PF00004_consen 66 EIDKL 70 (132)
T ss_dssp TGGGT
T ss_pred cchhc
Confidence 99964
No 174
>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=90.67 E-value=0.4 Score=43.68 Aligned_cols=36 Identities=17% Similarity=0.120 Sum_probs=32.7
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEe
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVR 185 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k 185 (353)
+.+..++|+.+||||+-.++.+.+....|.+|+++.
T Consensus 19 g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~ 54 (218)
T cd01394 19 GTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYID 54 (218)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence 567889999999999999999999988899999885
No 175
>PRK09087 hypothetical protein; Validated
Probab=90.66 E-value=0.56 Score=44.00 Aligned_cols=19 Identities=37% Similarity=0.321 Sum_probs=14.4
Q ss_pred eeeeeccCCCCchhHHHHHH
Q psy8456 152 KEVILGPMFSGKTTELIRRI 171 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~ 171 (353)
.-+|+||-|||||+- ++.+
T Consensus 46 ~l~l~G~~GsGKThL-l~~~ 64 (226)
T PRK09087 46 VVVLAGPVGSGKTHL-ASIW 64 (226)
T ss_pred eEEEECCCCCCHHHH-HHHH
Confidence 358999999999854 4443
No 176
>KOG0953|consensus
Probab=90.60 E-value=0.25 Score=52.83 Aligned_cols=149 Identities=19% Similarity=0.291 Sum_probs=75.8
Q ss_pred ceeeeeccCCCCchhHHHHHHHH--------------------HHHhCCEEEEEeeecCCCCCCCceeeccCcccceeec
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRR--------------------YQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSA 210 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~--------------------~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~ 210 (353)
.+-+.+||.|||||-..|+++.. .+.+|-.|=+++-.. -|+. --+|. +|-..
T Consensus 192 kIi~H~GPTNSGKTy~ALqrl~~aksGvycGPLrLLA~EV~~r~na~gipCdL~TGeE-~~~~-----~~~~~--~a~hv 263 (700)
T KOG0953|consen 192 KIIMHVGPTNSGKTYRALQRLKSAKSGVYCGPLRLLAHEVYDRLNALGIPCDLLTGEE-RRFV-----LDNGN--PAQHV 263 (700)
T ss_pred eEEEEeCCCCCchhHHHHHHHhhhccceecchHHHHHHHHHHHhhhcCCCccccccce-eeec-----CCCCC--cccce
Confidence 46778999999999988876543 344555555544221 1111 01111 11000
Q ss_pred ccHhhhcccCCCccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCCCCCC---ccHHHHH
Q psy8456 211 VELNKLIPHTKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPPPPEF---PDVVSFA 287 (353)
Q Consensus 211 ~~~~~~~~~~~~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f---~~~~~~~ 287 (353)
.---+....+..|||..|||+|-+. -++-||.. |+.=+---|.++. . |.+++.+
T Consensus 264 ScTVEM~sv~~~yeVAViDEIQmm~--Dp~RGwAW------------TrALLGl~AdEiH---------LCGepsvldlV 320 (700)
T KOG0953|consen 264 SCTVEMVSVNTPYEVAVIDEIQMMR--DPSRGWAW------------TRALLGLAADEIH---------LCGEPSVLDLV 320 (700)
T ss_pred EEEEEEeecCCceEEEEehhHHhhc--CcccchHH------------HHHHHhhhhhhhh---------ccCCchHHHHH
Confidence 0001112234679999999999862 22223310 1111111122222 3 6788999
Q ss_pred HHHHh-CCCEEEEEeccccccCCCchhHHhhhhcccceEEe-eeecccccc
Q psy8456 288 ESMAN-AGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKL-TAVCMSCFR 336 (353)
Q Consensus 288 ~~~~~-~g~~Vi~~gLd~df~~~~F~~~~~L~~~ad~v~kl-~a~C~~Cg~ 336 (353)
+++.. -|=.|.|.- |.| +++..-+=.+-+++..| ++-|.+|+.
T Consensus 321 ~~i~k~TGd~vev~~----YeR--l~pL~v~~~~~~sl~nlk~GDCvV~FS 365 (700)
T KOG0953|consen 321 RKILKMTGDDVEVRE----YER--LSPLVVEETALGSLSNLKPGDCVVAFS 365 (700)
T ss_pred HHHHhhcCCeeEEEe----ecc--cCcceehhhhhhhhccCCCCCeEEEee
Confidence 88885 477777643 322 22222111334445555 566888874
No 177
>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=90.54 E-value=0.42 Score=43.13 Aligned_cols=38 Identities=18% Similarity=0.093 Sum_probs=34.0
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
+.+..|+||.+||||+-.++.+.+....|.+|+.+...
T Consensus 12 g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e 49 (209)
T TIGR02237 12 GTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTE 49 (209)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECC
Confidence 56788999999999999999999988889999988775
No 178
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=90.50 E-value=0.78 Score=55.60 Aligned_cols=38 Identities=16% Similarity=0.024 Sum_probs=33.8
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
+.+.++.|+-|+||||-|-..+.-++..|++|+++-|+
T Consensus 446 ~~v~ii~G~aGTGKTt~l~~l~~~~~~~G~~V~~lAPT 483 (1960)
T TIGR02760 446 KRFIIINGFGGTGSTEIAQLLLHLASEQGYEIQIITAG 483 (1960)
T ss_pred CCeEEEEECCCCCHHHHHHHHHHHHHhcCCeEEEEeCC
Confidence 46889999999999998888888888899999999885
No 179
>PRK06893 DNA replication initiation factor; Validated
Probab=90.41 E-value=0.86 Score=42.52 Aligned_cols=38 Identities=13% Similarity=0.280 Sum_probs=26.6
Q ss_pred cCCCccEEEEccccChH-------HHHHHHHHHHhCCCEEEEEec
Q psy8456 69 HTKDIDVIGIDEGQFFP-------DVVSFAESMANAGKIVVVAAL 106 (353)
Q Consensus 69 ~~~~~dvV~IDEaQFF~-------dIv~l~~~l~~~G~~VivaGL 106 (353)
...++|+++|||+|+.. .+.++.+.+.+.|.++++.+=
T Consensus 88 ~~~~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits 132 (229)
T PRK06893 88 NLEQQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISA 132 (229)
T ss_pred hcccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeC
Confidence 34568999999999973 244566666677877655443
No 180
>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=90.40 E-value=0.45 Score=43.18 Aligned_cols=79 Identities=19% Similarity=0.120 Sum_probs=42.7
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHH--HhCCEEEEEeeecCCCCCC-CceeeccCccc---ceee-----cccHhhhcc
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQ--YANYRCMIVRYAKDDRYDT-EKVSTHDQQKL---TAVS-----AVELNKLIP 218 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~--~~~~~~~~~k~~~D~R~~~-~~i~s~~g~~~---~a~~-----~~~~~~~~~ 218 (353)
++..+++||.+|||||-|-......- ..|. +.|+...+.+. +.+-+|-+..- ...+ ...+..++.
T Consensus 29 ~~~~~l~G~Ng~GKStll~~i~~~~~~~~~g~----~~~~~~~~i~~~dqi~~~~~~~d~i~~~~s~~~~e~~~l~~i~~ 104 (202)
T cd03243 29 GRLLLITGPNMGGKSTYLRSIGLAVLLAQIGC----FVPAESASIPLVDRIFTRIGAEDSISDGRSTFMAELLELKEILS 104 (202)
T ss_pred CeEEEEECCCCCccHHHHHHHHHHHHHHHcCC----CccccccccCCcCEEEEEecCcccccCCceeHHHHHHHHHHHHH
Confidence 46789999999999987766553332 2232 22333333331 23333332211 1111 122444444
Q ss_pred cCCCccEEEEeccc
Q psy8456 219 HTKDIDVIGIDEGQ 232 (353)
Q Consensus 219 ~~~~~~~i~IDE~Q 232 (353)
...+.+++++||.=
T Consensus 105 ~~~~~~llllDEp~ 118 (202)
T cd03243 105 LATPRSLVLIDELG 118 (202)
T ss_pred hccCCeEEEEecCC
Confidence 45789999999974
No 181
>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=90.35 E-value=0.42 Score=43.82 Aligned_cols=38 Identities=24% Similarity=0.213 Sum_probs=31.9
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHh-CCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYA-NYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~-~~~~~~~k~~ 187 (353)
+...++.||.+||||+-.++-+.+...+ |.+|+.+.-.
T Consensus 19 gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~e 57 (226)
T PF06745_consen 19 GSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFE 57 (226)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESS
T ss_pred CcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEec
Confidence 4578999999999999999999999888 9999988853
No 182
>PHA02558 uvsW UvsW helicase; Provisional
Probab=90.33 E-value=2.1 Score=44.61 Aligned_cols=82 Identities=12% Similarity=0.114 Sum_probs=45.1
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCC-EEEEEeeecCCC---------CCC---Cce-eeccCccc---ceeecccHhh
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANY-RCMIVRYAKDDR---------YDT---EKV-STHDQQKL---TAVSAVELNK 215 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~-~~~~~k~~~D~R---------~~~---~~i-~s~~g~~~---~a~~~~~~~~ 215 (353)
-++..|.+||||.-....++.+...+. +++++-|..+=- +.. ..+ .-..|... ..+.+.....
T Consensus 132 ~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~~~~~~~~~~~i~~g~~~~~~~~I~VaT~qs 211 (501)
T PHA02558 132 RLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDYRLFPREAMHKIYSGTAKDTDAPIVVSTWQS 211 (501)
T ss_pred eEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHhccccccceeEEecCcccCCCCCEEEeeHHH
Confidence 488999999999755444444444445 899988863211 110 111 01111111 1233333333
Q ss_pred hcc----cCCCccEEEEeccccc
Q psy8456 216 LIP----HTKDIDVIGIDEGQFV 234 (353)
Q Consensus 216 ~~~----~~~~~~~i~IDE~QF~ 234 (353)
+.. ..+++++|+|||+|-+
T Consensus 212 l~~~~~~~~~~~~~iIvDEaH~~ 234 (501)
T PHA02558 212 AVKQPKEWFDQFGMVIVDECHLF 234 (501)
T ss_pred HhhchhhhccccCEEEEEchhcc
Confidence 322 2478999999999974
No 183
>PRK10490 sensor protein KdpD; Provisional
Probab=90.28 E-value=1.5 Score=49.09 Aligned_cols=35 Identities=14% Similarity=0.314 Sum_probs=32.4
Q ss_pred ccceeeeecc-CCCCchhHHHHHHHHHHHhCCEEEE
Q psy8456 149 GQEKEVILGP-MFSGKTTELIRRIRRYQYANYRCMI 183 (353)
Q Consensus 149 ~geI~vi~G~-M~sGKt~~Li~~~~~~~~~~~~~~~ 183 (353)
.|.+.+++|. .|.|||..+|+.++....+|..|++
T Consensus 22 ~g~l~i~~g~~~gvgkt~~ml~~a~~~~~~g~dvv~ 57 (895)
T PRK10490 22 RGKLKIFFGACAGVGKTYAMLQEAQRLRAQGLDVLV 57 (895)
T ss_pred CCcEEEEeecCCCCCHHHHHHHHHHHHHhCCCcEEE
Confidence 4889999998 8999999999999999999999984
No 184
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=90.22 E-value=0.23 Score=47.58 Aligned_cols=72 Identities=24% Similarity=0.277 Sum_probs=46.4
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccH-hhhcccCCCccEEEEe
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVEL-NKLIPHTKDIDVIGID 229 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~-~~~~~~~~~~~~i~ID 229 (353)
.--+++||.|.|||.-+.--.++...+|.+|++++..- ..+....... .... .++......+|+++||
T Consensus 106 ~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~e--------l~~~Lk~~~~---~~~~~~~l~~~l~~~dlLIiD 174 (254)
T COG1484 106 ENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPD--------LLSKLKAAFD---EGRLEEKLLRELKKVDLLIID 174 (254)
T ss_pred CcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHH--------HHHHHHHHHh---cCchHHHHHHHhhcCCEEEEe
Confidence 34589999999999887777787787799999887531 1221111110 0111 2233336789999999
Q ss_pred cccc
Q psy8456 230 EGQF 233 (353)
Q Consensus 230 E~QF 233 (353)
|.=.
T Consensus 175 DlG~ 178 (254)
T COG1484 175 DIGY 178 (254)
T ss_pred cccC
Confidence 9765
No 185
>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=90.20 E-value=0.14 Score=46.36 Aligned_cols=70 Identities=17% Similarity=0.252 Sum_probs=44.4
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEeccc
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEGQ 232 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~IDE~Q 232 (353)
-+++||.|.|||.-..-.++.+...|++|+.++..- +..+.... ..-....+++....++|+++|||.=
T Consensus 50 l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~--------L~~~l~~~---~~~~~~~~~~~~l~~~dlLilDDlG 118 (178)
T PF01695_consen 50 LILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASD--------LLDELKQS---RSDGSYEELLKRLKRVDLLILDDLG 118 (178)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHH--------HHHHHHCC---HCCTTHCHHHHHHHTSSCEEEETCT
T ss_pred EEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCc--------eecccccc---ccccchhhhcCccccccEecccccc
Confidence 589999999999888888888888999999876531 11110000 0011233444455689999999964
Q ss_pred c
Q psy8456 233 F 233 (353)
Q Consensus 233 F 233 (353)
.
T Consensus 119 ~ 119 (178)
T PF01695_consen 119 Y 119 (178)
T ss_dssp S
T ss_pred e
Confidence 3
No 186
>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated
Probab=90.17 E-value=2 Score=39.71 Aligned_cols=132 Identities=15% Similarity=0.110 Sum_probs=82.1
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCC-CCCCceeec--------cCcccceee--cc-----c
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDR-YDTEKVSTH--------DQQKLTAVS--AV-----E 212 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R-~~~~~i~s~--------~g~~~~a~~--~~-----~ 212 (353)
.|-+++++|. |=||||..+-.+-|..-+|++|+++.--+..+ +|+..+..+ -|....-.. .. .
T Consensus 21 ~Gli~VYtGd-GKGKTTAAlGlalRAaG~G~rV~iiQFlKg~~~~GE~~~l~~~~~v~~~~~g~~~~~~~~~~~~~~~~~ 99 (178)
T PRK07414 21 EGLVQVFTSS-QRNFFTSVMAQALRIAGQGTPVLIVQFLKGGIQQGPDRPIQLGQNLDWVRCDLPRCLDTPHLDESEKKA 99 (178)
T ss_pred CCEEEEEeCC-CCCchHHHHHHHHHHhcCCCEEEEEEEecCCCcchHHHHHHhCCCcEEEECCCCCeeeCCCcCHHHHHH
Confidence 3567888886 77999999999999999999999998888874 553322222 221110000 00 0
Q ss_pred Hhhhcc------cCCCccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCCCCCCccHHHH
Q psy8456 213 LNKLIP------HTKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPPPPEFPDVVSF 286 (353)
Q Consensus 213 ~~~~~~------~~~~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~~~~~~ 286 (353)
..+.+. ...++|+|+.||+=..- ..--++. .+++++
T Consensus 100 ~~~~~~~a~~~l~~~~~dlvVLDEi~~Al-----------------~~gli~~---------------------eeVl~~ 141 (178)
T PRK07414 100 LQELWQYTQAVVDEGRYSLVVLDELSLAI-----------------QFGLIPE---------------------TEVLEF 141 (178)
T ss_pred HHHHHHHHHHHHhCCCCCEEEEehhHHHH-----------------HCCCccH---------------------HHHHHH
Confidence 111111 14789999999987520 0000011 245554
Q ss_pred HHHHHhCCCEEEEEeccccccCCCchhHHhhhhcccceEEeee
Q psy8456 287 AESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTA 329 (353)
Q Consensus 287 ~~~~~~~g~~Vi~~gLd~df~~~~F~~~~~L~~~ad~v~kl~a 329 (353)
.+. ...+..||+-|= +....|+++||.|++++.
T Consensus 142 L~~-rp~~~evILTGR---------~~p~~Lie~AD~VTEm~~ 174 (178)
T PRK07414 142 LEK-RPSHVDVILTGP---------EMPESLLAIADQITELRR 174 (178)
T ss_pred HHh-CCCCCEEEEECC---------CCCHHHHHhCCeeeeeec
Confidence 443 245788999874 245789999999999863
No 187
>PRK08939 primosomal protein DnaI; Reviewed
Probab=90.14 E-value=0.21 Score=49.20 Aligned_cols=71 Identities=13% Similarity=0.184 Sum_probs=47.4
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEecc
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEG 231 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~IDE~ 231 (353)
--+++||.|+|||.-+.-.++.+...|++|.++.... . -..+.. +.....+.+.+....++|+++|||.
T Consensus 158 gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~---l-~~~lk~-------~~~~~~~~~~l~~l~~~dlLiIDDi 226 (306)
T PRK08939 158 GLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPE---F-IRELKN-------SISDGSVKEKIDAVKEAPVLMLDDI 226 (306)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHH---H-HHHHHH-------HHhcCcHHHHHHHhcCCCEEEEecC
Confidence 4589999999999888877788888899988775421 0 000110 0011234455556789999999998
Q ss_pred cc
Q psy8456 232 QF 233 (353)
Q Consensus 232 QF 233 (353)
..
T Consensus 227 G~ 228 (306)
T PRK08939 227 GA 228 (306)
T ss_pred CC
Confidence 76
No 188
>PRK05642 DNA replication initiation factor; Validated
Probab=90.13 E-value=0.8 Score=42.98 Aligned_cols=39 Identities=10% Similarity=0.314 Sum_probs=29.2
Q ss_pred ccCCCccEEEEccccChH-------HHHHHHHHHHhCCCEEEEEec
Q psy8456 68 PHTKDIDVIGIDEGQFFP-------DVVSFAESMANAGKIVVVAAL 106 (353)
Q Consensus 68 ~~~~~~dvV~IDEaQFF~-------dIv~l~~~l~~~G~~VivaGL 106 (353)
....++|+++||++||+. .+.++.+.+.+.|+.+++.+=
T Consensus 93 ~~~~~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~ 138 (234)
T PRK05642 93 DNLEQYELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAAS 138 (234)
T ss_pred HhhhhCCEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCC
Confidence 344568999999999983 266677777778888777664
No 189
>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=90.07 E-value=0.36 Score=45.25 Aligned_cols=33 Identities=18% Similarity=0.136 Sum_probs=27.3
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEe
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVR 185 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k 185 (353)
.++.|+|+|||||-.-+-.+.+...|.++.++.
T Consensus 2 Ivl~G~pGSGKST~a~~La~~l~~~~~~v~~i~ 34 (249)
T TIGR03574 2 IILTGLPGVGKSTFSKELAKKLSEKNIDVIILG 34 (249)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcCCceEEEc
Confidence 578999999999988777777777788887764
No 190
>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=90.01 E-value=0.55 Score=47.84 Aligned_cols=82 Identities=18% Similarity=0.102 Sum_probs=50.4
Q ss_pred CCCCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCceeeccCCceeeeecCChhhhcc-cCCCccEEEEccccChHH
Q psy8456 8 DRINPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIP-HTKDIDVIGIDEGQFFPD 86 (353)
Q Consensus 8 ~~~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai~i~~l~ei~~-~~~~~dvV~IDEaQFF~d 86 (353)
.|-+||||-| +.+...+.+..++-..-|.|...... .+.+..... ...+-..|++||+|+.++
T Consensus 45 pR~~GKTtll----~~l~~~~~~~~iy~~~~d~~~~~~~l------------~d~~~~~~~~~~~~~~yifLDEIq~v~~ 108 (398)
T COG1373 45 PRQVGKTTLL----KLLIKGLLEEIIYINFDDLRLDRIEL------------LDLLRAYIELKEREKSYIFLDEIQNVPD 108 (398)
T ss_pred CccccHHHHH----HHHHhhCCcceEEEEecchhcchhhH------------HHHHHHHHHhhccCCceEEEecccCchh
Confidence 4679999998 44445555545665656666542211 111111111 111457999999999998
Q ss_pred HHHHHHHHHhCCC-EEEEEe
Q psy8456 87 VVSFAESMANAGK-IVVVAA 105 (353)
Q Consensus 87 Iv~l~~~l~~~G~-~VivaG 105 (353)
-...++.+.+.|. .|++.|
T Consensus 109 W~~~lk~l~d~~~~~v~itg 128 (398)
T COG1373 109 WERALKYLYDRGNLDVLITG 128 (398)
T ss_pred HHHHHHHHHccccceEEEEC
Confidence 7777888888877 466665
No 191
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=90.00 E-value=0.49 Score=43.38 Aligned_cols=38 Identities=18% Similarity=0.135 Sum_probs=34.1
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
+.+..++|+.+||||+-.++-+.+....|.+|+++.-.
T Consensus 23 g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e 60 (225)
T PRK09361 23 GTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE 60 (225)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence 56789999999999999999999998889999988754
No 192
>KOG0923|consensus
Probab=89.91 E-value=0.12 Score=56.15 Aligned_cols=80 Identities=21% Similarity=0.199 Sum_probs=50.2
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHH--HhCCEEEEEeeecCCCCCCCceeecc----Cccc--------c---eeec---
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQ--YANYRCMIVRYAKDDRYDTEKVSTHD----QQKL--------T---AVSA--- 210 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~--~~~~~~~~~k~~~D~R~~~~~i~s~~----g~~~--------~---a~~~--- 210 (353)
..-+|.|..||||||+|=+-++..- ..|+++-+..|. |-..-.|.+|. |.++ . |.+.
T Consensus 281 QVLiI~GeTGSGKTTQiPQyL~EaGytk~gk~IgcTQPR---RVAAmSVAaRVA~EMgvkLG~eVGYsIRFEdcTSekTv 357 (902)
T KOG0923|consen 281 QVLIIVGETGSGKTTQIPQYLYEAGYTKGGKKIGCTQPR---RVAAMSVAARVAEEMGVKLGHEVGYSIRFEDCTSEKTV 357 (902)
T ss_pred cEEEEEcCCCCCccccccHHHHhcccccCCceEeecCcc---hHHHHHHHHHHHHHhCcccccccceEEEeccccCccee
Confidence 4567999999999999999988764 445666666663 32223344443 1111 1 1110
Q ss_pred -------ccHhhhcc--cCCCccEEEEecccc
Q psy8456 211 -------VELNKLIP--HTKDIDVIGIDEGQF 233 (353)
Q Consensus 211 -------~~~~~~~~--~~~~~~~i~IDE~QF 233 (353)
.-+.+++. ....|.||+|||||-
T Consensus 358 lKYMTDGmLlREfL~epdLasYSViiiDEAHE 389 (902)
T KOG0923|consen 358 LKYMTDGMLLREFLSEPDLASYSVIIVDEAHE 389 (902)
T ss_pred eeeecchhHHHHHhccccccceeEEEeehhhh
Confidence 01555553 367899999999995
No 193
>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=89.90 E-value=0.5 Score=38.52 Aligned_cols=27 Identities=30% Similarity=0.352 Sum_probs=20.2
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEE
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCM 182 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~ 182 (353)
.+|.||++|||||-.-+-..++ |..++
T Consensus 2 I~I~G~~gsGKST~a~~La~~~---~~~~i 28 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAKELAERL---GFPVI 28 (121)
T ss_dssp EEEEESTTSSHHHHHHHHHHHH---TCEEE
T ss_pred EEEECCCCCCHHHHHHHHHHHH---CCeEE
Confidence 4789999999999776666655 55443
No 194
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=89.87 E-value=0.53 Score=42.49 Aligned_cols=78 Identities=18% Similarity=0.190 Sum_probs=46.1
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCC---CceeeccCcc---cceeec-ccHhhhcccCCCcc
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDT---EKVSTHDQQK---LTAVSA-VELNKLIPHTKDID 224 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~---~~i~s~~g~~---~~a~~~-~~~~~~~~~~~~~~ 224 (353)
+.+|+|+.+||||+--.+.+.. .+.+++.+..+. -++. ..|..|.... ...+.. .++.+.+...+..+
T Consensus 1 ~~li~G~~~sGKS~~a~~~~~~---~~~~~~y~at~~--~~d~em~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~~~~~ 75 (169)
T cd00544 1 IILVTGGARSGKSRFAERLAAE---LGGPVTYIATAE--AFDDEMAERIARHRKRRPAHWRTIETPRDLVSALKELDPGD 75 (169)
T ss_pred CEEEECCCCCCHHHHHHHHHHh---cCCCeEEEEccC--cCCHHHHHHHHHHHHhCCCCceEeecHHHHHHHHHhcCCCC
Confidence 4689999999999987777654 566777664432 2232 1233343222 222221 34555554444678
Q ss_pred EEEEeccccc
Q psy8456 225 VIGIDEGQFV 234 (353)
Q Consensus 225 ~i~IDE~QF~ 234 (353)
+|+||=.-.+
T Consensus 76 ~VLIDclt~~ 85 (169)
T cd00544 76 VVLIDCLTLW 85 (169)
T ss_pred EEEEEcHhHH
Confidence 9999987753
No 195
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=89.87 E-value=0.74 Score=44.61 Aligned_cols=26 Identities=23% Similarity=0.139 Sum_probs=17.0
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhC
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYAN 178 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~ 178 (353)
-+++||.|+|||+-.-...+.+...|
T Consensus 61 vll~G~pGTGKT~lA~~ia~~l~~~g 86 (284)
T TIGR02880 61 MSFTGNPGTGKTTVALRMAQILHRLG 86 (284)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcC
Confidence 57889999999975443334343333
No 196
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=89.81 E-value=0.58 Score=46.28 Aligned_cols=24 Identities=42% Similarity=0.517 Sum_probs=18.8
Q ss_pred ceeeeeccCCCCchhHHHHHHHHH
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
.+.+|+||++||||+-..+-+..+
T Consensus 5 ~~i~i~GptgsGKt~la~~la~~~ 28 (307)
T PRK00091 5 KVIVIVGPTASGKTALAIELAKRL 28 (307)
T ss_pred eEEEEECCCCcCHHHHHHHHHHhC
Confidence 367899999999998777665543
No 197
>cd03284 ABC_MutS1 MutS1 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 clam
Probab=89.78 E-value=4.8 Score=37.44 Aligned_cols=21 Identities=33% Similarity=0.472 Sum_probs=16.8
Q ss_pred cceeeeeccCCCCchhHHHHH
Q psy8456 150 QEKEVILGPMFSGKTTELIRR 170 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~ 170 (353)
.+..+++||.+|||||-|=..
T Consensus 30 ~~~~~l~Gpn~sGKstllr~i 50 (216)
T cd03284 30 RQILLITGPNMAGKSTYLRQV 50 (216)
T ss_pred ceEEEEECCCCCChHHHHHHH
Confidence 367799999999999865444
No 198
>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=89.77 E-value=0.44 Score=44.22 Aligned_cols=79 Identities=20% Similarity=0.083 Sum_probs=41.3
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHH--HhCCEEEEEeeecCCCCC-CCceeeccCccc---ceee-----cccHhhhccc
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQ--YANYRCMIVRYAKDDRYD-TEKVSTHDQQKL---TAVS-----AVELNKLIPH 219 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~--~~~~~~~~~k~~~D~R~~-~~~i~s~~g~~~---~a~~-----~~~~~~~~~~ 219 (353)
+..+++||.+|||||-|-....... ..|.- .|+...+.+ -+.+.++.+..- ...+ ...+..+...
T Consensus 30 ~~~~itGpNg~GKStlLk~i~~~~~la~~G~~----v~a~~~~~~~~d~i~~~l~~~~si~~~~S~f~~el~~l~~~l~~ 105 (213)
T cd03281 30 SIMVITGPNSSGKSVYLKQVALIVFLAHIGSF----VPADSATIGLVDKIFTRMSSRESVSSGQSAFMIDLYQVSKALRL 105 (213)
T ss_pred eEEEEECCCCCChHHHHHHHHHHHHHHhCCCe----eEcCCcEEeeeeeeeeeeCCccChhhccchHHHHHHHHHHHHHh
Confidence 5678999999999987766554332 23332 222222211 122333332211 1111 1122223333
Q ss_pred CCCccEEEEecccc
Q psy8456 220 TKDIDVIGIDEGQF 233 (353)
Q Consensus 220 ~~~~~~i~IDE~QF 233 (353)
..+..++++||..-
T Consensus 106 ~~~~slvllDE~~~ 119 (213)
T cd03281 106 ATRRSLVLIDEFGK 119 (213)
T ss_pred CCCCcEEEeccccC
Confidence 56789999999876
No 199
>KOG1533|consensus
Probab=89.76 E-value=0.35 Score=47.06 Aligned_cols=39 Identities=26% Similarity=0.226 Sum_probs=32.7
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEe--eecCCC
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVR--YAKDDR 191 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k--~~~D~R 191 (353)
++++||.+|||||.-.-...-+...|+++.++. |+.|+=
T Consensus 5 qvVIGPPgSGKsTYc~g~~~fls~~gr~~~vVNLDPaNd~~ 45 (290)
T KOG1533|consen 5 QVVIGPPGSGKSTYCNGMSQFLSAIGRPVAVVNLDPANDNL 45 (290)
T ss_pred eEEEcCCCCCccchhhhHHHHHHHhCCceEEEecCCcccCC
Confidence 689999999999999888888888999877764 777664
No 200
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=89.64 E-value=1.5 Score=48.51 Aligned_cols=82 Identities=17% Similarity=0.133 Sum_probs=57.1
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecC----------CCCCCCceeeccCcccce--------------
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKD----------DRYDTEKVSTHDQQKLTA-------------- 207 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D----------~R~~~~~i~s~~g~~~~a-------------- 207 (353)
-.++.|..|||||+-+++.+..+-.+|+.++++-|.+- .|++....+-|.|..-.-
T Consensus 219 ~~Ll~GvTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg~~v~vlHS~Ls~~er~~~W~~~~~G~~~ 298 (730)
T COG1198 219 PFLLDGVTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKARFGAKVAVLHSGLSPGERYRVWRRARRGEAR 298 (730)
T ss_pred ceeEeCCCCCcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHHHhCCChhhhcccCChHHHHHHHHHHhcCCce
Confidence 45789999999999999999999999999999999874 345544445555532110
Q ss_pred eecccHhhhcccCCCccEEEEecccc
Q psy8456 208 VSAVELNKLIPHTKDIDVIGIDEGQF 233 (353)
Q Consensus 208 ~~~~~~~~~~~~~~~~~~i~IDE~QF 233 (353)
+.+..=..+..-.++...|+|||-|=
T Consensus 299 vVIGtRSAlF~Pf~~LGLIIvDEEHD 324 (730)
T COG1198 299 VVIGTRSALFLPFKNLGLIIVDEEHD 324 (730)
T ss_pred EEEEechhhcCchhhccEEEEecccc
Confidence 11111111222257888999999996
No 201
>PRK14491 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional
Probab=89.64 E-value=1.5 Score=47.15 Aligned_cols=35 Identities=20% Similarity=0.076 Sum_probs=32.3
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEee
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRY 186 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~ 186 (353)
+--|+|+-+|||||-+-+-+.++..+|++|-++|.
T Consensus 12 vi~ivG~s~sGKTTlie~li~~L~~~G~rVavIKh 46 (597)
T PRK14491 12 LLGFCAYSGTGKTTLLEQLIPELNQRGLRLAVIKH 46 (597)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHhCCceEEEEEc
Confidence 45589999999999999999999999999999998
No 202
>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=89.54 E-value=0.47 Score=36.15 Aligned_cols=31 Identities=19% Similarity=0.174 Sum_probs=21.6
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEe
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVR 185 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k 185 (353)
-.+.|+++|||||-.-.-..++ .+.++.++.
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l--~~~~~~~i~ 32 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL--GGRSVVVLD 32 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh--cCCCEEEEe
Confidence 3679999999998766655555 455555554
No 203
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=89.49 E-value=0.5 Score=47.14 Aligned_cols=75 Identities=23% Similarity=0.180 Sum_probs=40.3
Q ss_pred eeeeeccCCCCchhHHHHHHHHHH---HhCCEEEEEeeecCCCC-CCCceeeccCcccceeecccHhhhccc--CCCccE
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQ---YANYRCMIVRYAKDDRY-DTEKVSTHDQQKLTAVSAVELNKLIPH--TKDIDV 225 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~---~~~~~~~~~k~~~D~R~-~~~~i~s~~g~~~~a~~~~~~~~~~~~--~~~~~~ 225 (353)
.-+|.|+++|||||-| +.+-.+. ..+.+++.+.....-.. ..+.+..+ .-...+..+++.. -.++|.
T Consensus 146 nilI~G~tGSGKTTll-~aL~~~i~~~~~~~rivtiEd~~El~~~~~n~v~l~------~~~~~~~~~lv~~aLR~~PD~ 218 (323)
T PRK13833 146 NIVISGGTGSGKTTLA-NAVIAEIVASAPEDRLVILEDTAEIQCAAENAVALH------TSDTVDMARLLKSTMRLRPDR 218 (323)
T ss_pred eEEEECCCCCCHHHHH-HHHHHHHhcCCCCceEEEecCCcccccCCCCEEEec------cCCCcCHHHHHHHHhCCCCCE
Confidence 3489999999999877 4444443 23556665442211111 11111111 1111235555432 378999
Q ss_pred EEEecccc
Q psy8456 226 IGIDEGQF 233 (353)
Q Consensus 226 i~IDE~QF 233 (353)
|++.|+.=
T Consensus 219 IivGEiRg 226 (323)
T PRK13833 219 IIVGEVRD 226 (323)
T ss_pred EEEeecCC
Confidence 99999863
No 204
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=89.47 E-value=0.99 Score=40.09 Aligned_cols=38 Identities=18% Similarity=0.155 Sum_probs=26.5
Q ss_pred cceeeeeccCCCCchhH-HHHHHHHHHH----hCCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTE-LIRRIRRYQY----ANYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~-Li~~~~~~~~----~~~~~~~~k~~ 187 (353)
++..++.+|-++|||.- ++-.+..... .+.+++++.|.
T Consensus 36 ~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~ 78 (203)
T cd00268 36 GRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPT 78 (203)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCC
Confidence 44568999999999966 3444444433 35688988884
No 205
>PRK13764 ATPase; Provisional
Probab=89.41 E-value=1.2 Score=48.14 Aligned_cols=34 Identities=21% Similarity=0.049 Sum_probs=24.7
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEE
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIV 184 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~ 184 (353)
..-+++||.+|||||-|-.-+..+...++.|..+
T Consensus 258 ~~ILIsG~TGSGKTTll~AL~~~i~~~~riV~Ti 291 (602)
T PRK13764 258 EGILIAGAPGAGKSTFAQALAEFYADMGKIVKTM 291 (602)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHhhCCCEEEEE
Confidence 3468999999999998766555556566655444
No 206
>PRK13342 recombination factor protein RarA; Reviewed
Probab=89.35 E-value=0.84 Score=46.36 Aligned_cols=19 Identities=32% Similarity=0.249 Sum_probs=14.3
Q ss_pred eeeeccCCCCchhHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRI 171 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~ 171 (353)
-+++||.|+||||-+-...
T Consensus 39 ilL~GppGtGKTtLA~~ia 57 (413)
T PRK13342 39 MILWGPPGTGKTTLARIIA 57 (413)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 4679999999997554443
No 207
>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=89.20 E-value=0.58 Score=43.04 Aligned_cols=41 Identities=10% Similarity=-0.002 Sum_probs=35.9
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHHh-CCEEEEEeeecC
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQYA-NYRCMIVRYAKD 189 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~~-~~~~~~~k~~~D 189 (353)
.+++.+|.|+.++|||+-+++-+.++... |.+|+++.....
T Consensus 12 ~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~ 53 (242)
T cd00984 12 PGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMS 53 (242)
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCC
Confidence 46789999999999999999999999777 999999986543
No 208
>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=89.11 E-value=0.21 Score=48.86 Aligned_cols=24 Identities=21% Similarity=0.221 Sum_probs=18.3
Q ss_pred eeeeeccCCCCchhHHHHHHHHHH
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQ 175 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~ 175 (353)
.-+|+||-|+|||+-+-..++...
T Consensus 42 ~i~I~G~~GtGKT~l~~~~~~~l~ 65 (365)
T TIGR02928 42 NVFIYGKTGTGKTAVTKYVMKELE 65 (365)
T ss_pred cEEEECCCCCCHHHHHHHHHHHHH
Confidence 458999999999977665555544
No 209
>PRK01184 hypothetical protein; Provisional
Probab=89.09 E-value=0.27 Score=43.54 Aligned_cols=27 Identities=15% Similarity=0.015 Sum_probs=18.6
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEE
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCM 182 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~ 182 (353)
+-+++|||+||||| +.+. .+..|..++
T Consensus 3 ~i~l~G~~GsGKsT-~a~~---~~~~g~~~i 29 (184)
T PRK01184 3 IIGVVGMPGSGKGE-FSKI---AREMGIPVV 29 (184)
T ss_pred EEEEECCCCCCHHH-HHHH---HHHcCCcEE
Confidence 45789999999999 5553 334465544
No 210
>TIGR01070 mutS1 DNA mismatch repair protein MutS.
Probab=89.08 E-value=4.4 Score=45.40 Aligned_cols=81 Identities=16% Similarity=0.112 Sum_probs=53.7
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCC-CCceeeccCcccce---ee-----cccHhhhcccCC
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYD-TEKVSTHDQQKLTA---VS-----AVELNKLIPHTK 221 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~-~~~i~s~~g~~~~a---~~-----~~~~~~~~~~~~ 221 (353)
...+|+||..+||||-|=+..-..-.|+.-+. -|+...+-+ -+.|-||.|..-.- .+ ..+...++....
T Consensus 593 ~~~iITGPNmgGKSt~lrqvali~imAq~G~~--VPA~~a~i~~~D~Iftrig~~d~i~~g~STF~~Em~e~a~IL~~at 670 (840)
T TIGR01070 593 RMLLITGPNMGGKSTYMRQTALIALLAQIGSF--VPAESAELPLFDRIFTRIGASDDLASGRSTFMVEMTEAANILHNAT 670 (840)
T ss_pred cEEEEECCCCCCchHHHHHHHHHHHHHhcCCC--ccchheEeccccEEEEecCcccchhcCcchHHHHHHHHHHHHhhCC
Confidence 46799999999999998887766655554333 355545544 35788887753211 11 234555666556
Q ss_pred CccEEEEecccc
Q psy8456 222 DIDVIGIDEGQF 233 (353)
Q Consensus 222 ~~~~i~IDE~QF 233 (353)
.-.+|++||.=.
T Consensus 671 ~~sLvllDE~Gr 682 (840)
T TIGR01070 671 ENSLVLFDEIGR 682 (840)
T ss_pred CCEEEEEccCCC
Confidence 778999999765
No 211
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=88.95 E-value=0.9 Score=45.53 Aligned_cols=35 Identities=14% Similarity=-0.037 Sum_probs=29.5
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEee
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRY 186 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~ 186 (353)
.--+.||.||||||-+-.-+..+...|.+|.++.-
T Consensus 58 ~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~~ 92 (332)
T PRK09435 58 RIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLAV 92 (332)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEe
Confidence 34579999999999888888888888999887765
No 212
>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=88.84 E-value=1.7 Score=34.75 Aligned_cols=94 Identities=12% Similarity=-0.081 Sum_probs=46.8
Q ss_pred CCCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCceeeccCCceeeeecCChhhhcccCCCccEEEEccccChH---
Q psy8456 9 RINPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEGQFFP--- 85 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai~i~~l~ei~~~~~~~dvV~IDEaQFF~--- 85 (353)
.=+|||+-+-..++.+...+.+++.+...-. ... .....-.+.. ............+..++++||+|.++
T Consensus 28 ~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~-~~~-~~~~~~~~~~-----~~~~~~~~~~~~~~~~lilDe~~~~~~~~ 100 (151)
T cd00009 28 PGTGKTTLARAIANELFRPGAPFLYLNASDL-LEG-LVVAELFGHF-----LVRLLFELAEKAKPGVLFIDEIDSLSRGA 100 (151)
T ss_pred CCCCHHHHHHHHHHHhhcCCCCeEEEehhhh-hhh-hHHHHHhhhh-----hHhHHHHhhccCCCeEEEEeChhhhhHHH
Confidence 4589998555555555555666666654221 111 0000000000 00000011223467899999999873
Q ss_pred --HHHHHHHHHHh-----CCCEEEEEecccc
Q psy8456 86 --DVVSFAESMAN-----AGKIVVVAALDGT 109 (353)
Q Consensus 86 --dIv~l~~~l~~-----~G~~VivaGLd~D 109 (353)
.+.++.+...+ .+..|++.+-+.+
T Consensus 101 ~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~ 131 (151)
T cd00009 101 QNALLRVLETLNDLRIDRENVRVIGATNRPL 131 (151)
T ss_pred HHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence 33444444332 4777877776544
No 213
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=88.79 E-value=0.24 Score=44.36 Aligned_cols=20 Identities=30% Similarity=0.323 Sum_probs=15.7
Q ss_pred cceeeeeccCCCCchhHHHH
Q psy8456 150 QEKEVILGPMFSGKTTELIR 169 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~ 169 (353)
+.+.+++|||+|||||-+-.
T Consensus 2 g~~i~l~G~sGsGKsTl~~~ 21 (186)
T PRK10078 2 GKLIWLMGPSGSGKDSLLAA 21 (186)
T ss_pred CcEEEEECCCCCCHHHHHHH
Confidence 45678999999999985433
No 214
>PRK05399 DNA mismatch repair protein MutS; Provisional
Probab=88.77 E-value=4.7 Score=45.20 Aligned_cols=82 Identities=17% Similarity=0.156 Sum_probs=52.8
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCC-CCceeeccCcccc---eee-----cccHhhhcccC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYD-TEKVSTHDQQKLT---AVS-----AVELNKLIPHT 220 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~-~~~i~s~~g~~~~---a~~-----~~~~~~~~~~~ 220 (353)
++..+|+||..+||||-|-+..-..-.|+.-+. -|+...+-+ -+.|-||.|..-. ..+ ..++..++...
T Consensus 607 ~~~~iiTGpN~~GKSt~lr~v~l~~ilAq~G~~--VPa~~a~i~~~d~I~triga~d~i~~g~STF~~E~~~~~~il~~a 684 (854)
T PRK05399 607 RRLLLITGPNMAGKSTYMRQVALIVLLAQIGSF--VPAESARIGIVDRIFTRIGASDDLASGRSTFMVEMTETANILNNA 684 (854)
T ss_pred CcEEEEECCCCCCcHHHHHHHHHHHHHHhcCCc--eeccceEecccCeeeeccCcccccccCcccHHHHHHHHHHHHHhC
Confidence 457899999999999998877766555544333 355544444 3567888774321 111 23444555555
Q ss_pred CCccEEEEecccc
Q psy8456 221 KDIDVIGIDEGQF 233 (353)
Q Consensus 221 ~~~~~i~IDE~QF 233 (353)
.+..+|++||.=.
T Consensus 685 t~~sLvllDE~Gr 697 (854)
T PRK05399 685 TERSLVLLDEIGR 697 (854)
T ss_pred CCCcEEEEecCCC
Confidence 5679999999755
No 215
>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=88.70 E-value=0.74 Score=46.10 Aligned_cols=84 Identities=18% Similarity=0.209 Sum_probs=45.5
Q ss_pred cceeeeeccCCCCchhHHHHHHHH-HHHhCCEEEEEeeecCCCCCC-Cceeecc--Ccccceee-----cccHhhhcccC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRR-YQYANYRCMIVRYAKDDRYDT-EKVSTHD--QQKLTAVS-----AVELNKLIPHT 220 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~-~~~~~~~~~~~k~~~D~R~~~-~~i~s~~--g~~~~a~~-----~~~~~~~~~~~ 220 (353)
+..-++.||-|+|||+ ||+.+.. +...++.|+++-|+-=.=..- +-..-|. +..+.-.. ......+....
T Consensus 22 ~~~~fv~G~~GtGKs~-l~~~i~~~~~~~~~~~~~~a~tg~AA~~i~~G~T~hs~f~i~~~~~~~~~~~~~~~~~~~~~l 100 (364)
T PF05970_consen 22 GLNFFVTGPAGTGKSF-LIKAIIDYLRSRGKKVLVTAPTGIAAFNIPGGRTIHSFFGIPINNNEKSQCKISKNSRLRERL 100 (364)
T ss_pred CcEEEEEcCCCCChhH-HHHHHHHHhccccceEEEecchHHHHHhccCCcchHHhcCccccccccccccccccchhhhhh
Confidence 4456899999999985 4555544 466678888887742110000 1112221 11111000 01111222335
Q ss_pred CCccEEEEeccccc
Q psy8456 221 KDIDVIGIDEGQFV 234 (353)
Q Consensus 221 ~~~~~i~IDE~QF~ 234 (353)
.+.++++|||+-.+
T Consensus 101 ~~~~~lIiDEism~ 114 (364)
T PF05970_consen 101 RKADVLIIDEISMV 114 (364)
T ss_pred hhheeeecccccch
Confidence 78899999999985
No 216
>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family.
Probab=88.62 E-value=0.59 Score=42.05 Aligned_cols=79 Identities=18% Similarity=0.124 Sum_probs=40.4
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCC-CCceeeccCccccee---e-----cccHhhhcccCCCc
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYD-TEKVSTHDQQKLTAV---S-----AVELNKLIPHTKDI 223 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~-~~~i~s~~g~~~~a~---~-----~~~~~~~~~~~~~~ 223 (353)
.+++||.+|||||-|-...-....++.-+ +.|+.-.+.+ .+.+.++-+..-... + ...+..++....+.
T Consensus 2 ~~ltG~N~~GKst~l~~i~~~~~la~~G~--~v~a~~~~~~~~d~il~~~~~~d~~~~~~s~fs~~~~~l~~~l~~~~~~ 79 (185)
T smart00534 2 VIITGPNMGGKSTYLRQVGLIVIMAQIGS--FVPAESAELPVFDRIFTRIGASDSLAQGLSTFMVEMKETANILKNATEN 79 (185)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHHHhCC--CeeehheEecccceEEEEeCCCCchhccccHHHHHHHHHHHHHHhCCCC
Confidence 36899999999998766664443332222 2222222222 123344433211110 0 11233334444578
Q ss_pred cEEEEecccc
Q psy8456 224 DVIGIDEGQF 233 (353)
Q Consensus 224 ~~i~IDE~QF 233 (353)
+++++||.--
T Consensus 80 ~llllDEp~~ 89 (185)
T smart00534 80 SLVLLDELGR 89 (185)
T ss_pred eEEEEecCCC
Confidence 9999999753
No 217
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=88.59 E-value=0.75 Score=52.82 Aligned_cols=108 Identities=15% Similarity=0.144 Sum_probs=70.5
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCceeeccCCceeeeecCCh-hhhc---ccCCCccEEEEccccChH
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVEL-NKLI---PHTKDIDVIGIDEGQFFP 85 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai~i~~l-~ei~---~~~~~~dvV~IDEaQFF~ 85 (353)
-+||||-|-....-++..|.+|+.+-|+ .|.. ..+..-.|+ ++..+.++ .... ......++|+|||+...+
T Consensus 407 GTGKTt~l~~~~~~~e~~G~~V~g~ApT--gkAA-~~L~e~~Gi--~a~TIas~ll~~~~~~~~l~~~~vlVIDEAsMv~ 481 (1102)
T PRK13826 407 GAGKTTMMKAAREAWEAAGYRVVGGALA--GKAA-EGLEKEAGI--QSRTLSSWELRWNQGRDQLDNKTVFVLDEAGMVA 481 (1102)
T ss_pred CCCHHHHHHHHHHHHHHcCCeEEEEcCc--HHHH-HHHHHhhCC--CeeeHHHHHhhhccCccCCCCCcEEEEECcccCC
Confidence 3799999888888888999999999884 2321 112222233 34434332 1111 123457899999999996
Q ss_pred --HHHHHHHHHHhCCCEEEEEeccccc----ccCCchhHhhhh
Q psy8456 86 --DVVSFAESMANAGKIVVVAALDGTF----QRTGFNDILSLI 122 (353)
Q Consensus 86 --dIv~l~~~l~~~G~~VivaGLd~DF----r~~pF~~~~~Ll 122 (353)
++..+.+.+...|..|++.|=..=. .|.||.....-+
T Consensus 482 ~~~m~~Ll~~~~~~garvVLVGD~~QL~~V~aG~~f~~l~~~i 524 (1102)
T PRK13826 482 SRQMALFVEAVTRAGAKLVLVGDPEQLQPIEAGAAFRAIADRI 524 (1102)
T ss_pred HHHHHHHHHHHHhcCCEEEEECCHHHcCCCCCCcHHHHHHhhc
Confidence 7778888888889999999821111 367776655433
No 218
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=88.56 E-value=0.4 Score=36.93 Aligned_cols=18 Identities=44% Similarity=0.527 Sum_probs=15.5
Q ss_pred cceeeeeccCCCCchhHH
Q psy8456 150 QEKEVILGPMFSGKTTEL 167 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~L 167 (353)
+...+|+|+.+|||||-|
T Consensus 23 g~~tli~G~nGsGKSTll 40 (62)
T PF13555_consen 23 GDVTLITGPNGSGKSTLL 40 (62)
T ss_pred CcEEEEECCCCCCHHHHH
Confidence 457999999999999854
No 219
>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=88.56 E-value=0.66 Score=43.36 Aligned_cols=39 Identities=10% Similarity=-0.037 Sum_probs=33.8
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
+...++.||.+||||+-.++-+.+...+|.+|+.+.-..
T Consensus 21 gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~ee 59 (237)
T TIGR03877 21 RNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALEE 59 (237)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEeeC
Confidence 457889999999999999999988878899999887543
No 220
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=88.54 E-value=1.6 Score=44.73 Aligned_cols=80 Identities=19% Similarity=0.193 Sum_probs=54.3
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccc----------------e-eecccH
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLT----------------A-VSAVEL 213 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~----------------a-~~~~~~ 213 (353)
+..++...-|||||+-+-+.+.....+|-+|.|..|..|-=- ++..|.++.+. + ..+..-
T Consensus 117 ~~~lv~AV~GaGKTEMif~~i~~al~~G~~vciASPRvDVcl---El~~Rlk~aF~~~~I~~Lyg~S~~~fr~plvVaTt 193 (441)
T COG4098 117 EDTLVWAVTGAGKTEMIFQGIEQALNQGGRVCIASPRVDVCL---ELYPRLKQAFSNCDIDLLYGDSDSYFRAPLVVATT 193 (441)
T ss_pred CcEEEEEecCCCchhhhHHHHHHHHhcCCeEEEecCcccchH---HHHHHHHHhhccCCeeeEecCCchhccccEEEEeh
Confidence 356788889999999999999999999999999999887521 12222222221 1 111122
Q ss_pred hhhcccCCCccEEEEecccc
Q psy8456 214 NKLIPHTKDIDVIGIDEGQF 233 (353)
Q Consensus 214 ~~~~~~~~~~~~i~IDE~QF 233 (353)
..++...+-+|+++|||+.=
T Consensus 194 HQLlrFk~aFD~liIDEVDA 213 (441)
T COG4098 194 HQLLRFKQAFDLLIIDEVDA 213 (441)
T ss_pred HHHHHHHhhccEEEEecccc
Confidence 23333457799999999983
No 221
>cd03287 ABC_MSH3_euk MutS3 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=88.45 E-value=3.5 Score=38.83 Aligned_cols=81 Identities=16% Similarity=0.129 Sum_probs=46.4
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCC-CCceeeccCcccc---eee-----cccHhhhcccC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYD-TEKVSTHDQQKLT---AVS-----AVELNKLIPHT 220 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~-~~~i~s~~g~~~~---a~~-----~~~~~~~~~~~ 220 (353)
++..+++||.++||||-|-...-....+..-+ +.|+...+.+ -+.|-||.|..-. ..+ ...+..++...
T Consensus 31 g~~~~itG~N~~GKStll~~i~~~~~la~~G~--~v~a~~~~~~~~~~i~~~~~~~d~~~~~~StF~~e~~~~~~il~~~ 108 (222)
T cd03287 31 GYCQIITGPNMGGKSSYIRQVALITIMAQIGS--FVPASSATLSIFDSVLTRMGASDSIQHGMSTFMVELSETSHILSNC 108 (222)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHHHhCCC--EEEcCceEEeccceEEEEecCccccccccchHHHHHHHHHHHHHhC
Confidence 56789999999999986655544343333322 3344333332 2356666543211 111 23355555555
Q ss_pred CCccEEEEeccc
Q psy8456 221 KDIDVIGIDEGQ 232 (353)
Q Consensus 221 ~~~~~i~IDE~Q 232 (353)
.+.+++++||.=
T Consensus 109 ~~~sLvllDE~~ 120 (222)
T cd03287 109 TSRSLVILDELG 120 (222)
T ss_pred CCCeEEEEccCC
Confidence 678999999953
No 222
>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=88.43 E-value=0.58 Score=43.71 Aligned_cols=40 Identities=25% Similarity=0.361 Sum_probs=30.6
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHHhC----CEEEEEeeec
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQYAN----YRCMIVRYAK 188 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~~~----~~~~~~k~~~ 188 (353)
..+..+|.|+-||||||-|+.|+...-..+ .++++++++.
T Consensus 12 ~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~ 55 (315)
T PF00580_consen 12 TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTN 55 (315)
T ss_dssp -SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSH
T ss_pred CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCH
Confidence 345678899999999999999998876655 6788887753
No 223
>cd03109 DTBS Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and carbon dioxide. The enzyme utilizes carbon dioxide instead of hydrogen carbonate as substrate and is dependent on ATP and divalent metal ions as cofactors.
Probab=88.07 E-value=1.1 Score=38.41 Aligned_cols=35 Identities=20% Similarity=0.134 Sum_probs=31.3
Q ss_pred eeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecC
Q psy8456 154 VILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKD 189 (353)
Q Consensus 154 vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D 189 (353)
|+.| .+||||+-.+.-++.++.+|.+|..+||..+
T Consensus 4 ~~~~-~~~Gkt~~~~~l~~~l~~~~~~v~~~kp~~~ 38 (134)
T cd03109 4 FGTG-TDIGKTVATAILARALKEKGYRVAPLKPVQT 38 (134)
T ss_pred EeCC-CCcCHHHHHHHHHHHHHHCCCeEEEEecCCC
Confidence 5566 5699999999999999999999999999875
No 224
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=87.98 E-value=1.2 Score=44.33 Aligned_cols=77 Identities=21% Similarity=0.172 Sum_probs=41.2
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHH--HhCCEEEEEeeecCCCCC-CCceeeccCcccceeecccHhhhccc--CCCccE
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQ--YANYRCMIVRYAKDDRYD-TEKVSTHDQQKLTAVSAVELNKLIPH--TKDIDV 225 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~--~~~~~~~~~k~~~D~R~~-~~~i~s~~g~~~~a~~~~~~~~~~~~--~~~~~~ 225 (353)
...+|+|+++|||||-|-.-+..+. ....+++.+.....-... .+.+..+.+ ....+.+++.. -.++|.
T Consensus 149 ~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~~El~~~~~~~v~~~~~------~~~~~~~ll~~aLR~~PD~ 222 (319)
T PRK13894 149 RNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDTGEIQCAAENYVQYHTS------IDVNMTALLKTTLRMRPDR 222 (319)
T ss_pred CeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCCCccccCCCCEEEEecC------CCCCHHHHHHHHhcCCCCE
Confidence 3568999999999976654444331 234566654432221111 111111111 11234555432 368999
Q ss_pred EEEecccc
Q psy8456 226 IGIDEGQF 233 (353)
Q Consensus 226 i~IDE~QF 233 (353)
|++.|..=
T Consensus 223 IivGEiR~ 230 (319)
T PRK13894 223 ILVGEVRG 230 (319)
T ss_pred EEEeccCC
Confidence 99999874
No 225
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=87.96 E-value=0.76 Score=52.27 Aligned_cols=105 Identities=16% Similarity=0.122 Sum_probs=63.5
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCceeeccCCceeeeecCChhhhc----ccCCCccEEEEccccChH
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLI----PHTKDIDVIGIDEGQFFP 85 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai~i~~l~ei~----~~~~~~dvV~IDEaQFF~ 85 (353)
=+||||-|-....-++..|.+|+++-|+ .+.. ..+. .+..++|..+.++..-. ....+.++|+|||+-..+
T Consensus 372 GTGKTT~l~~~~~~~e~~G~~V~~~ApT--GkAA-~~L~--e~tGi~a~TI~sll~~~~~~~~~l~~~~vlIVDEASMv~ 446 (988)
T PRK13889 372 GTGKSAMLGVAREAWEAAGYEVRGAALS--GIAA-ENLE--GGSGIASRTIASLEHGWGQGRDLLTSRDVLVIDEAGMVG 446 (988)
T ss_pred CCCHHHHHHHHHHHHHHcCCeEEEecCc--HHHH-HHHh--hccCcchhhHHHHHhhhcccccccccCcEEEEECcccCC
Confidence 3799996443444566779999999883 1211 1111 11222333333332100 123467899999999996
Q ss_pred --HHHHHHHHHHhCCCEEEEEecccc-----cccCCchhHhh
Q psy8456 86 --DVVSFAESMANAGKIVVVAALDGT-----FQRTGFNDILS 120 (353)
Q Consensus 86 --dIv~l~~~l~~~G~~VivaGLd~D-----Fr~~pF~~~~~ 120 (353)
++..+.+.+...|..|++.| |.+ =.|.+|.....
T Consensus 447 ~~~m~~LL~~a~~~garvVLVG-D~~QLpsV~aG~~f~~L~~ 487 (988)
T PRK13889 447 TRQLERVLSHAADAGAKVVLVG-DPQQLQAIEAGAAFRSIHE 487 (988)
T ss_pred HHHHHHHHHhhhhCCCEEEEEC-CHHHcCCCCCCchHHHHHH
Confidence 67788777778899999998 222 13667765533
No 226
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=87.87 E-value=0.65 Score=46.37 Aligned_cols=37 Identities=30% Similarity=0.219 Sum_probs=33.1
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRY 186 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~ 186 (353)
+.+..|+||.+|||||-.++.+...+..|.+|+++..
T Consensus 55 G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~ 91 (321)
T TIGR02012 55 GRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDA 91 (321)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcc
Confidence 4578899999999999999999999999999998744
No 227
>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=87.76 E-value=0.87 Score=41.74 Aligned_cols=38 Identities=13% Similarity=-0.081 Sum_probs=32.6
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
+...++.|+.+||||+-+++.+.+....|.+|+++...
T Consensus 20 G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e 57 (229)
T TIGR03881 20 GFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTE 57 (229)
T ss_pred CeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEcc
Confidence 56788999999999999999888777789999888753
No 228
>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=87.70 E-value=1.6 Score=39.59 Aligned_cols=95 Identities=12% Similarity=0.150 Sum_probs=48.4
Q ss_pred cCCCCchHHHHHHHHHHHHH--cCceEEEEeeccCCCCCCCc--eeeccC-----Cceeee--ecCCh----hhhcccCC
Q psy8456 7 DDRINPYIVHFCRRIRRYQY--ANYRCMIVRYAKDDRYDTEK--VATHDQ-----QKLTAV--SAVEL----NKLIPHTK 71 (353)
Q Consensus 7 ~~~~~GKSteLLrr~~ry~~--agkkvlv~Kp~iDtRy~~~~--I~Sr~G-----~~~~Ai--~i~~l----~ei~~~~~ 71 (353)
|+-+.|+..+++.+++++.. .+..++++-|. |.++ +..... ...+.+ ...++ .++.....
T Consensus 15 ~~~~~~~~~~~~~~l~~~~~~~~~~~lll~G~~-----G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~ 89 (226)
T TIGR03420 15 DNFYAGGNAELLAALRQLAAGKGDRFLYLWGES-----GSGKSHLLQAACAAAEERGKSAIYLPLAELAQADPEVLEGLE 89 (226)
T ss_pred cCcCcCCcHHHHHHHHHHHhcCCCCeEEEECCC-----CCCHHHHHHHHHHHHHhcCCcEEEEeHHHHHHhHHHHHhhcc
Confidence 34445667777777777632 33456666652 3331 111100 011121 11111 22223345
Q ss_pred CccEEEEccccChH--H-----HHHHHHHHHhCCCEEEEEec
Q psy8456 72 DIDVIGIDEGQFFP--D-----VVSFAESMANAGKIVVVAAL 106 (353)
Q Consensus 72 ~~dvV~IDEaQFF~--d-----Iv~l~~~l~~~G~~VivaGL 106 (353)
+.++++|||+|.++ . +..+.+.+...+..+++.+=
T Consensus 90 ~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~ 131 (226)
T TIGR03420 90 QADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGR 131 (226)
T ss_pred cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECC
Confidence 67899999999985 2 44444444556677776543
No 229
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=87.64 E-value=0.83 Score=43.89 Aligned_cols=23 Identities=30% Similarity=0.311 Sum_probs=17.8
Q ss_pred eeeeccCCCCchhHHHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQ 175 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~ 175 (353)
-+++||.|+||||-+...++.+.
T Consensus 39 lll~Gp~GtGKT~la~~~~~~l~ 61 (337)
T PRK12402 39 LLVQGPPGSGKTAAVRALARELY 61 (337)
T ss_pred EEEECCCCCCHHHHHHHHHHHhc
Confidence 47899999999987766655543
No 230
>PRK09519 recA DNA recombination protein RecA; Reviewed
Probab=87.61 E-value=4.3 Score=45.28 Aligned_cols=82 Identities=16% Similarity=0.102 Sum_probs=52.3
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceee---c---ccHhhhcc---cC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVS---A---VELNKLIP---HT 220 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~---~---~~~~~~~~---~~ 220 (353)
+.+..|+||.+||||+-+++.+.+.+.+|.+|+.+.....-+- ....+.|..+.-+. . .....++. ..
T Consensus 60 GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~E~t~~~---~~A~~lGvDl~~llv~~~~~~E~~l~~i~~lv~~ 136 (790)
T PRK09519 60 GRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDP---DYAKKLGVDTDSLLVSQPDTGEQALEIADMLIRS 136 (790)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchhH---HHHHHcCCChhHeEEecCCCHHHHHHHHHHHhhc
Confidence 4578899999999999999999999999999998876543220 11222232221111 1 11111111 13
Q ss_pred CCccEEEEeccccc
Q psy8456 221 KDIDVIGIDEGQFV 234 (353)
Q Consensus 221 ~~~~~i~IDE~QF~ 234 (353)
..+++|+||-++-+
T Consensus 137 ~~~~LVVIDSI~aL 150 (790)
T PRK09519 137 GALDIVVIDSVAAL 150 (790)
T ss_pred CCCeEEEEcchhhh
Confidence 57999999999954
No 231
>smart00072 GuKc Guanylate kinase homologues. Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.
Probab=87.58 E-value=2 Score=38.44 Aligned_cols=19 Identities=37% Similarity=0.349 Sum_probs=15.0
Q ss_pred ceeeeeccCCCCchhHHHH
Q psy8456 151 EKEVILGPMFSGKTTELIR 169 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~ 169 (353)
.+.+++||.+|||+|-.-+
T Consensus 3 r~ivl~Gpsg~GK~tl~~~ 21 (184)
T smart00072 3 RPIVLSGPSGVGKGTLLAE 21 (184)
T ss_pred cEEEEECCCCCCHHHHHHH
Confidence 4678999999999984333
No 232
>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]
Probab=87.57 E-value=0.68 Score=43.24 Aligned_cols=25 Identities=24% Similarity=0.159 Sum_probs=18.6
Q ss_pred ccceeeeeccCCCCchhHHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
.|.+.+++||.|+||||-+-.-+.+
T Consensus 3 ~G~l~vlsgPSG~GKsTl~k~L~~~ 27 (191)
T COG0194 3 KGLLIVLSGPSGVGKSTLVKALLED 27 (191)
T ss_pred CceEEEEECCCCCCHHHHHHHHHhh
Confidence 3678899999999999855444333
No 233
>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=87.52 E-value=0.29 Score=43.10 Aligned_cols=24 Identities=29% Similarity=0.239 Sum_probs=17.5
Q ss_pred ceeeeeccCCCCchhHHHHHHHHH
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
.+.+|+||++|||||-+=.-...+
T Consensus 2 ~~~~i~G~sGsGKttl~~~l~~~~ 25 (179)
T TIGR02322 2 RLIYVVGPSGAGKDTLLDYARARL 25 (179)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHc
Confidence 456899999999998665443443
No 234
>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=87.41 E-value=1.9 Score=37.16 Aligned_cols=20 Identities=40% Similarity=0.617 Sum_probs=15.4
Q ss_pred eeeeccCCCCchhHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~ 173 (353)
.+|+||.+||||| |++.+.+
T Consensus 2 i~i~GpsGsGKst-l~~~L~~ 21 (137)
T cd00071 2 IVLSGPSGVGKST-LLKRLLE 21 (137)
T ss_pred EEEECCCCCCHHH-HHHHHHh
Confidence 4789999999998 5555544
No 235
>PRK03839 putative kinase; Provisional
Probab=87.23 E-value=0.44 Score=42.15 Aligned_cols=22 Identities=27% Similarity=0.075 Sum_probs=17.0
Q ss_pred eeeeccCCCCchhHHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
-+++|+|||||||---+-++++
T Consensus 3 I~l~G~pGsGKsT~~~~La~~~ 24 (180)
T PRK03839 3 IAITGTPGVGKTTVSKLLAEKL 24 (180)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 4789999999999655555554
No 236
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=87.18 E-value=0.85 Score=45.87 Aligned_cols=79 Identities=20% Similarity=0.136 Sum_probs=40.6
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCC-CCce--e-eccCcccceeecccHhhhccc--CCCcc
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYD-TEKV--S-THDQQKLTAVSAVELNKLIPH--TKDID 224 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~-~~~i--~-s~~g~~~~a~~~~~~~~~~~~--~~~~~ 224 (353)
..-+|.||++|||||-| +.+-.+.-.+.+++.+.....-... .+.+ . +.++... ......+++.. -.++|
T Consensus 163 ~nilI~G~tGSGKTTll-~aLl~~i~~~~rivtiEd~~El~l~~~~~v~l~~~~~~~~~---~~~t~~~ll~~~LR~~pD 238 (344)
T PRK13851 163 LTMLLCGPTGSGKTTMS-KTLISAIPPQERLITIEDTLELVIPHENHVRLLYSKNGAGL---GAVTAEHLLQASLRMRPD 238 (344)
T ss_pred CeEEEECCCCccHHHHH-HHHHcccCCCCCEEEECCCccccCCCCCEEEEEeeccccCc---CccCHHHHHHHHhcCCCC
Confidence 34689999999999876 4444443345555554432211111 1111 1 1111111 11233344332 36799
Q ss_pred EEEEecccc
Q psy8456 225 VIGIDEGQF 233 (353)
Q Consensus 225 ~i~IDE~QF 233 (353)
.|++.|..=
T Consensus 239 ~IivGEiR~ 247 (344)
T PRK13851 239 RILLGEMRD 247 (344)
T ss_pred eEEEEeeCc
Confidence 999999864
No 237
>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport. These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.
Probab=86.99 E-value=1.1 Score=39.48 Aligned_cols=27 Identities=33% Similarity=0.140 Sum_probs=20.1
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHh
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYA 177 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~ 177 (353)
+..+|+||.+||||+-|=...-..-.+
T Consensus 22 ~~~~i~G~NgsGKS~~l~~i~~~~~~~ 48 (162)
T cd03227 22 SLTIITGPNGSGKSTILDAIGLALGGA 48 (162)
T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence 478999999999998776654444433
No 238
>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]
Probab=86.98 E-value=0.28 Score=44.99 Aligned_cols=13 Identities=46% Similarity=0.593 Sum_probs=11.8
Q ss_pred eeeeccCCCCchh
Q psy8456 153 EVILGPMFSGKTT 165 (353)
Q Consensus 153 ~vi~G~M~sGKt~ 165 (353)
-|.+|+|+|||||
T Consensus 5 IvLiG~mGaGKST 17 (172)
T COG0703 5 IVLIGFMGAGKST 17 (172)
T ss_pred EEEEcCCCCCHhH
Confidence 4789999999998
No 239
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=86.93 E-value=1.3 Score=53.89 Aligned_cols=38 Identities=18% Similarity=0.190 Sum_probs=28.7
Q ss_pred cceeeeeccCCCCchhHHHHH---H-HHHHHhCCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTELIRR---I-RRYQYANYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~---~-~~~~~~~~~~~~~k~~ 187 (353)
+...+|.|+-|+||||-|... + ..++..|++|+.+-|+
T Consensus 1036 ~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT 1077 (1960)
T TIGR02760 1036 DRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPT 1077 (1960)
T ss_pred CcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeCh
Confidence 356788999999999999432 2 2345678999988775
No 240
>cd03286 ABC_MSH6_euk MutS6 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=86.85 E-value=11 Score=35.38 Aligned_cols=80 Identities=21% Similarity=0.166 Sum_probs=44.2
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCC-CceeeccCccc---ce-----eecccHhhhcccC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDT-EKVSTHDQQKL---TA-----VSAVELNKLIPHT 220 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~-~~i~s~~g~~~---~a-----~~~~~~~~~~~~~ 220 (353)
++..+++||.++|||+-|-...-..-.++.-+ +-|+.-.+-+. +.|-||.|..- .. .....+..++...
T Consensus 30 ~~~~~itG~n~~gKs~~l~~i~~~~~la~~G~--~vpa~~~~i~~~~~i~~~~~~~d~~~~~~StF~~e~~~~~~il~~~ 107 (218)
T cd03286 30 PRILVLTGPNMGGKSTLLRTVCLAVIMAQMGM--DVPAKSMRLSLVDRIFTRIGARDDIMKGESTFMVELSETANILRHA 107 (218)
T ss_pred CcEEEEECCCCCchHHHHHHHHHHHHHHHcCC--ccCccccEeccccEEEEecCcccccccCcchHHHHHHHHHHHHHhC
Confidence 46779999999999986665555543332211 12222222221 34555543211 11 1123455566666
Q ss_pred CCccEEEEecc
Q psy8456 221 KDIDVIGIDEG 231 (353)
Q Consensus 221 ~~~~~i~IDE~ 231 (353)
.+..+|++||.
T Consensus 108 ~~~sLvLlDE~ 118 (218)
T cd03286 108 TPDSLVILDEL 118 (218)
T ss_pred CCCeEEEEecc
Confidence 77899999994
No 241
>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=86.84 E-value=0.8 Score=45.83 Aligned_cols=37 Identities=27% Similarity=0.182 Sum_probs=33.6
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRY 186 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~ 186 (353)
+.+..|+||.+|||||-.++.+.+++..|.+|+++..
T Consensus 55 G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~ 91 (325)
T cd00983 55 GRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDA 91 (325)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECc
Confidence 4578899999999999999999999999999998865
No 242
>CHL00181 cbbX CbbX; Provisional
Probab=86.81 E-value=1.3 Score=43.05 Aligned_cols=24 Identities=21% Similarity=0.083 Sum_probs=16.6
Q ss_pred eeeeccCCCCchhHHHHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQY 176 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~ 176 (353)
-+++||.|+|||+-.-..++.+..
T Consensus 62 ill~G~pGtGKT~lAr~la~~~~~ 85 (287)
T CHL00181 62 MSFTGSPGTGKTTVALKMADILYK 85 (287)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHH
Confidence 467899999999765554444433
No 243
>PTZ00424 helicase 45; Provisional
Probab=86.73 E-value=0.56 Score=46.35 Aligned_cols=36 Identities=11% Similarity=0.189 Sum_probs=24.0
Q ss_pred eeeeccCCCCchhHHH-HHHHHHH--HhCCEEEEEeeec
Q psy8456 153 EVILGPMFSGKTTELI-RRIRRYQ--YANYRCMIVRYAK 188 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li-~~~~~~~--~~~~~~~~~k~~~ 188 (353)
.++.+|.|||||.-.+ -.++... ..+.+++++-|..
T Consensus 68 ~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~ 106 (401)
T PTZ00424 68 TIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTR 106 (401)
T ss_pred EEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCH
Confidence 4688999999997543 3333332 2466788888853
No 244
>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=86.70 E-value=1 Score=42.31 Aligned_cols=40 Identities=18% Similarity=0.012 Sum_probs=34.4
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHHh-CCEEEEEeeec
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQYA-NYRCMIVRYAK 188 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~~-~~~~~~~k~~~ 188 (353)
.+++.++.|+.++|||+-+++-+.++... |.+|+++....
T Consensus 29 ~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~ 69 (271)
T cd01122 29 KGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEE 69 (271)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEccc
Confidence 35688999999999999999999988766 99999987644
No 245
>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]
Probab=86.68 E-value=3.3 Score=37.55 Aligned_cols=31 Identities=19% Similarity=0.251 Sum_probs=27.9
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEeeccCC
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVRYAKDD 40 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~Kp~iDt 40 (353)
=|||||-+=+.+.++..+|.+|.++|+.-..
T Consensus 12 ~SGKTTLie~lv~~L~~~G~rVa~iKH~hh~ 42 (161)
T COG1763 12 NSGKTTLIEKLVRKLKARGYRVATVKHAHHD 42 (161)
T ss_pred CCChhhHHHHHHHHHHhCCcEEEEEEecCCC
Confidence 4899999999999999999999999997554
No 246
>PRK13768 GTPase; Provisional
Probab=86.63 E-value=0.86 Score=43.40 Aligned_cols=34 Identities=29% Similarity=0.197 Sum_probs=30.4
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEe
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVR 185 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k 185 (353)
+.++.|+-||||||-.......+...|++|+++.
T Consensus 4 ~i~v~G~~G~GKTt~~~~~~~~l~~~g~~v~~i~ 37 (253)
T PRK13768 4 IVFFLGTAGSGKTTLTKALSDWLEEQGYDVAIVN 37 (253)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHhcCCceEEEE
Confidence 4688999999999999888888888999999875
No 247
>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=86.63 E-value=1.3 Score=34.89 Aligned_cols=98 Identities=8% Similarity=-0.098 Sum_probs=51.4
Q ss_pred CCCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCc---eeeccC--CceeeeecCChhhhcccCCCccEEEEccccC
Q psy8456 9 RINPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEK---VATHDQ--QKLTAVSAVELNKLIPHTKDIDVIGIDEGQF 83 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~---I~Sr~G--~~~~Ai~i~~l~ei~~~~~~~dvV~IDEaQF 83 (353)
.=+|||+-+...+..+...+..++.+.+.......... ...... ............+.. ....+++|+|||++-
T Consensus 11 ~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~viiiDei~~ 89 (148)
T smart00382 11 PGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALA-RKLKPDVLILDEITS 89 (148)
T ss_pred CCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHH-HhcCCCEEEEECCcc
Confidence 34899999999988877776677777775433221100 000000 000000011111111 123379999999999
Q ss_pred hH-H-HHH----------HHHHHHhCCCEEEEEecc
Q psy8456 84 FP-D-VVS----------FAESMANAGKIVVVAALD 107 (353)
Q Consensus 84 F~-d-Iv~----------l~~~l~~~G~~VivaGLd 107 (353)
+. . ... ........+..|+++...
T Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~ 125 (148)
T smart00382 90 LLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTND 125 (148)
T ss_pred cCCHHHHHHHHhhhhhHHHHHHHhcCCCEEEEEeCC
Confidence 95 1 111 122334567778887775
No 248
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=86.58 E-value=12 Score=40.91 Aligned_cols=159 Identities=12% Similarity=0.071 Sum_probs=0.0
Q ss_pred CchHHHHHHHHHHHHHcCceEEEEeeccCCC----------------CCCCceeeccCCc--------------eeeeec
Q psy8456 11 NPYIVHFCRRIRRYQYANYRCMIVRYAKDDR----------------YDTEKVATHDQQK--------------LTAVSA 60 (353)
Q Consensus 11 ~GKSteLLrr~~ry~~agkkvlv~Kp~iDtR----------------y~~~~I~Sr~G~~--------------~~Ai~i 60 (353)
||||.-.+-.+......|.+++++-| || .+.....-+.|.. -.-+.+
T Consensus 293 SGKT~va~~~il~~~~~g~q~lilaP---T~~LA~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~g~~~IvV 369 (681)
T PRK10917 293 SGKTVVAALAALAAIEAGYQAALMAP---TEILAEQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAIASGEADIVI 369 (681)
T ss_pred CcHHHHHHHHHHHHHHcCCeEEEEec---cHHHHHHHHHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhCCCCCEEE
Q ss_pred CChhhhccc--CCCccEEEEccccChHHHHHHHHHHHhCCCEEEEEecccccccCCchhHhhhhccccceEeccceeccc
Q psy8456 61 VELNKLIPH--TKDIDVIGIDEGQFFPDVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCMSC 138 (353)
Q Consensus 61 ~~l~ei~~~--~~~~dvV~IDEaQFF~dIv~l~~~l~~~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~AvC~~C 138 (353)
.+..-+... .++.++|+|||+|-| -+.....+...|...-+-++.. .|.+.+..+..+.+
T Consensus 370 gT~~ll~~~v~~~~l~lvVIDE~Hrf--g~~qr~~l~~~~~~~~iL~~SA----Tp~prtl~~~~~g~------------ 431 (681)
T PRK10917 370 GTHALIQDDVEFHNLGLVIIDEQHRF--GVEQRLALREKGENPHVLVMTA----TPIPRTLAMTAYGD------------ 431 (681)
T ss_pred chHHHhcccchhcccceEEEechhhh--hHHHHHHHHhcCCCCCEEEEeC----CCCHHHHHHHHcCC------------
Q ss_pred ccccccccccccceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCC
Q psy8456 139 FRDAAFTKRIGQEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDD 190 (353)
Q Consensus 139 G~~A~f~~Ri~geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~ 190 (353)
-........-.+...+..-.....+..+++..+.+....|++++++-|.++.
T Consensus 432 ~~~s~i~~~p~~r~~i~~~~~~~~~~~~~~~~i~~~~~~g~q~~v~~~~ie~ 483 (681)
T PRK10917 432 LDVSVIDELPPGRKPITTVVIPDSRRDEVYERIREEIAKGRQAYVVCPLIEE 483 (681)
T ss_pred CceEEEecCCCCCCCcEEEEeCcccHHHHHHHHHHHHHcCCcEEEEEccccc
No 249
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=86.52 E-value=0.9 Score=40.11 Aligned_cols=41 Identities=24% Similarity=0.220 Sum_probs=31.0
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHH----------hCCEEEEEeeecC
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQY----------ANYRCMIVRYAKD 189 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~----------~~~~~~~~k~~~D 189 (353)
.+++.++.||-++|||+-+++.+..+.. .+.+|+.+....+
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~ 81 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS 81 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC
Confidence 4678999999999999999999998865 5678888876554
No 250
>PRK14532 adenylate kinase; Provisional
Probab=86.52 E-value=0.46 Score=42.22 Aligned_cols=22 Identities=27% Similarity=0.454 Sum_probs=17.3
Q ss_pred eeeeccCCCCchhHHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
-+++|||+|||||.--+-+.+|
T Consensus 3 i~~~G~pGsGKsT~a~~la~~~ 24 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVEER 24 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHHc
Confidence 4789999999999866665554
No 251
>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=86.51 E-value=1 Score=43.04 Aligned_cols=39 Identities=13% Similarity=-0.022 Sum_probs=33.9
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
+...+|.|+.++|||+-.++-+.+...+|.+|+++....
T Consensus 36 gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~Ee 74 (259)
T TIGR03878 36 YSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVES 74 (259)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecC
Confidence 457899999999999999999888877899999888653
No 252
>PRK05580 primosome assembly protein PriA; Validated
Probab=86.50 E-value=13 Score=40.52 Aligned_cols=169 Identities=14% Similarity=0.010 Sum_probs=85.3
Q ss_pred CCCchHHHHHHHHHHHHHcCceEEEEeeccCC----------CCCCCceeeccCCcee-------------e-eecCChh
Q psy8456 9 RINPYIVHFCRRIRRYQYANYRCMIVRYAKDD----------RYDTEKVATHDQQKLT-------------A-VSAVELN 64 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~agkkvlv~Kp~iDt----------Ry~~~~I~Sr~G~~~~-------------A-i~i~~l~ 64 (353)
.-||||.-.+..+.....+|++++++-|.+.- +.+.....-|.|.... + +.+.+..
T Consensus 171 TGSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~~s~~s~~~r~~~~~~~~~g~~~IVVgTrs 250 (679)
T PRK05580 171 TGSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRARFGAPVAVLHSGLSDGERLDEWRKAKRGEAKVVIGARS 250 (679)
T ss_pred CCChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCCEEEEECCCCHHHHHHHHHHHHcCCCCEEEeccH
Confidence 35899999999888888889999999996532 2233223344443211 0 1222222
Q ss_pred hhcccCCCccEEEEccccChH---------HHHHHHHHHH-hCCCEEEEEecccccccCCchhHhhhhccccce--Eecc
Q psy8456 65 KLIPHTKDIDVIGIDEGQFFP---------DVVSFAESMA-NAGKIVVVAALDGTFQRTGFNDILSLIPLAECV--EKLT 132 (353)
Q Consensus 65 ei~~~~~~~dvV~IDEaQFF~---------dIv~l~~~l~-~~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I--~kL~ 132 (353)
.+..-..+...|+|||+|-+. +..+++...+ ..|.+++..+= .|-..+..+.. ..+. ..|.
T Consensus 251 al~~p~~~l~liVvDEeh~~s~~~~~~p~y~~r~va~~ra~~~~~~~il~SA------Tps~~s~~~~~-~g~~~~~~l~ 323 (679)
T PRK05580 251 ALFLPFKNLGLIIVDEEHDSSYKQQEGPRYHARDLAVVRAKLENIPVVLGSA------TPSLESLANAQ-QGRYRLLRLT 323 (679)
T ss_pred HhcccccCCCEEEEECCCccccccCcCCCCcHHHHHHHHhhccCCCEEEEcC------CCCHHHHHHHh-ccceeEEEec
Confidence 222224678899999998664 1334443333 45777776543 12222222211 1111 1111
Q ss_pred ceecccccccccccccccceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 133 AVCMSCFRDAAFTKRIGQEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 133 AvC~~CG~~A~f~~Ri~geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
... +.......++.+-..-.-+..++.=|..|++.+++...+|+.++++-+.
T Consensus 324 ~r~---~~~~~p~v~~id~~~~~~~~~~~~ls~~l~~~i~~~l~~g~qvll~~nr 375 (679)
T PRK05580 324 KRA---GGARLPEVEIIDMRELLRGENGSFLSPPLLEAIKQRLERGEQVLLFLNR 375 (679)
T ss_pred ccc---ccCCCCeEEEEechhhhhhcccCCCCHHHHHHHHHHHHcCCeEEEEEcC
Confidence 110 0111111111110000000011224578999999999999999988763
No 253
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=86.16 E-value=0.85 Score=51.03 Aligned_cols=36 Identities=22% Similarity=0.131 Sum_probs=27.1
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCC-EEEEEee
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANY-RCMIVRY 186 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~-~~~~~k~ 186 (353)
..-+|.|+.||||||.+=+.+...-..+. ++.+.-|
T Consensus 66 ~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQP 102 (845)
T COG1643 66 QVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQP 102 (845)
T ss_pred CEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCc
Confidence 46689999999999999988877765333 4445555
No 254
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=86.07 E-value=0.65 Score=47.63 Aligned_cols=37 Identities=27% Similarity=0.486 Sum_probs=26.9
Q ss_pred cCCCccEEEEccccChH-------HHHHHHHHHHhCCCEEEEEe
Q psy8456 69 HTKDIDVIGIDEGQFFP-------DVVSFAESMANAGKIVVVAA 105 (353)
Q Consensus 69 ~~~~~dvV~IDEaQFF~-------dIv~l~~~l~~~G~~VivaG 105 (353)
...++|+++|||+||+. ++..+.+.+.+.|+.+++.+
T Consensus 208 ~~~~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits 251 (450)
T PRK00149 208 KYRSVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTS 251 (450)
T ss_pred HHhcCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEEC
Confidence 34579999999999993 24455566667888777654
No 255
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=85.99 E-value=3.1 Score=38.13 Aligned_cols=36 Identities=11% Similarity=0.280 Sum_probs=24.0
Q ss_pred CCCccEEEEccccChH--H---HHHHHHHHHhCCCE-EEEEe
Q psy8456 70 TKDIDVIGIDEGQFFP--D---VVSFAESMANAGKI-VVVAA 105 (353)
Q Consensus 70 ~~~~dvV~IDEaQFF~--d---Iv~l~~~l~~~G~~-VivaG 105 (353)
..+.++|+|||+|.++ + +..+.+.....|.. |++++
T Consensus 88 ~~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~ 129 (227)
T PRK08903 88 DPEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAG 129 (227)
T ss_pred cccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeC
Confidence 4467899999999995 3 44445555567775 44443
No 256
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.99 E-value=0.98 Score=47.24 Aligned_cols=22 Identities=27% Similarity=0.235 Sum_probs=16.2
Q ss_pred eeeeccCCCCchhHHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
.+++||.|+||||-..-.++..
T Consensus 39 ~Lf~GPpGtGKTTlA~~lA~~l 60 (472)
T PRK14962 39 YIFAGPRGTGKTTVARILAKSL 60 (472)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 4789999999998655444443
No 257
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=85.98 E-value=1.2 Score=41.78 Aligned_cols=38 Identities=18% Similarity=0.101 Sum_probs=33.0
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
+...++.|+.+|||||-.++.+......|.+++.+...
T Consensus 24 g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e 61 (230)
T PRK08533 24 GSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQ 61 (230)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCC
Confidence 56889999999999999999999887789999887743
No 258
>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=85.97 E-value=1 Score=40.28 Aligned_cols=35 Identities=26% Similarity=0.196 Sum_probs=30.8
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
-.++|+-+|||||-+-+-+..+...|++|-++|+.
T Consensus 4 i~i~G~~gsGKTTli~~L~~~l~~~g~~V~~iK~~ 38 (159)
T cd03116 4 IGFVGYSGSGKTTLLEKLIPALSARGLRVAVIKHD 38 (159)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEec
Confidence 45899999999999999888888889999998864
No 259
>PRK09354 recA recombinase A; Provisional
Probab=85.96 E-value=0.97 Score=45.71 Aligned_cols=38 Identities=29% Similarity=0.220 Sum_probs=33.9
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
+.+..|+||.+|||||-.++.+.+++..|.+|+.+...
T Consensus 60 G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E 97 (349)
T PRK09354 60 GRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAE 97 (349)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCc
Confidence 45788999999999999999999999999999977654
No 260
>PRK07933 thymidylate kinase; Validated
Probab=85.91 E-value=1.1 Score=41.66 Aligned_cols=34 Identities=15% Similarity=-0.022 Sum_probs=29.5
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEee
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRY 186 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~ 186 (353)
-++-|+-||||||.+-.-.+.++.+|++|.+++-
T Consensus 3 IviEG~dGsGKST~~~~L~~~L~~~g~~v~~~~~ 36 (213)
T PRK07933 3 IAIEGVDGAGKRTLTEALRAALEARGRSVATLAF 36 (213)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEec
Confidence 4678999999999988888888999999997764
No 261
>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=85.81 E-value=0.64 Score=44.11 Aligned_cols=31 Identities=29% Similarity=0.247 Sum_probs=23.5
Q ss_pred eeccCCCCchhHHHHHHHHHHHhCCEEEEEe
Q psy8456 155 ILGPMFSGKTTELIRRIRRYQYANYRCMIVR 185 (353)
Q Consensus 155 i~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k 185 (353)
++||-||||||---...+.+...|+++.++.
T Consensus 1 ViGpaGSGKTT~~~~~~~~~~~~~~~~~~vN 31 (238)
T PF03029_consen 1 VIGPAGSGKTTFCKGLSEWLESNGRDVYIVN 31 (238)
T ss_dssp -EESTTSSHHHHHHHHHHHHTTT-S-EEEEE
T ss_pred CCCCCCCCHHHHHHHHHHHHHhccCCceEEE
Confidence 5899999999987777777777889998875
No 262
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=85.69 E-value=0.81 Score=50.95 Aligned_cols=37 Identities=16% Similarity=0.130 Sum_probs=27.7
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
..-++.|+.||||||.+..-+-.....+.+++++-|.
T Consensus 21 ~~vvv~A~TGSGKTt~~pl~lL~~~~~~~~ilvlqPr 57 (812)
T PRK11664 21 PQVLLKAPTGAGKSTWLPLQLLQHGGINGKIIMLEPR 57 (812)
T ss_pred CCEEEEcCCCCCHHHHHHHHHHHcCCcCCeEEEECCh
Confidence 4568899999999999987665433233478888884
No 263
>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=85.59 E-value=0.83 Score=46.03 Aligned_cols=86 Identities=12% Similarity=0.098 Sum_probs=46.4
Q ss_pred CCCchHHHHHHHHHHHHHc--CceEEEEeeccCCCCCCCceeeccCCceeeeecCChhhhcccCCCccEEEEccccChH-
Q psy8456 9 RINPYIVHFCRRIRRYQYA--NYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEGQFFP- 85 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~a--gkkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai~i~~l~ei~~~~~~~dvV~IDEaQFF~- 85 (353)
.-+|||.-+-...+.+..+ +.+|+.+... |- . ..+....+ -....++.....++|+++|||+|++.
T Consensus 145 ~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~-~~--~-~~~~~~~~-------~~~~~~~~~~~~~~dlLiiDDi~~l~~ 213 (405)
T TIGR00362 145 VGLGKTHLLHAIGNEILENNPNAKVVYVSSE-KF--T-NDFVNALR-------NNKMEEFKEKYRSVDLLLIDDIQFLAG 213 (405)
T ss_pred CCCcHHHHHHHHHHHHHHhCCCCcEEEEEHH-HH--H-HHHHHHHH-------cCCHHHHHHHHHhCCEEEEehhhhhcC
Confidence 4578887665555555444 5666665432 10 0 01111000 01122232234568999999999983
Q ss_pred ------HHHHHHHHHHhCCCEEEEEe
Q psy8456 86 ------DVVSFAESMANAGKIVVVAA 105 (353)
Q Consensus 86 ------dIv~l~~~l~~~G~~VivaG 105 (353)
.+..+.+.+.+.|+++++.+
T Consensus 214 ~~~~~~~l~~~~n~~~~~~~~iiits 239 (405)
T TIGR00362 214 KERTQEEFFHTFNALHENGKQIVLTS 239 (405)
T ss_pred CHHHHHHHHHHHHHHHHCCCCEEEec
Confidence 24455566667788777654
No 264
>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2.7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....
Probab=85.56 E-value=1.8 Score=38.64 Aligned_cols=23 Identities=39% Similarity=0.466 Sum_probs=16.5
Q ss_pred cceeeeeccCCCCchhHHHHHHH
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIR 172 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~ 172 (353)
+.+-+++||.+|||||-.-+-+.
T Consensus 2 ~r~ivl~Gpsg~GK~~l~~~L~~ 24 (183)
T PF00625_consen 2 RRPIVLVGPSGSGKSTLAKRLIQ 24 (183)
T ss_dssp SSEEEEESSTTSSHHHHHHHHHH
T ss_pred CCEEEEECCCCCCHHHHHHHHHH
Confidence 35678999999999865443333
No 265
>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=85.54 E-value=1.5 Score=39.85 Aligned_cols=21 Identities=38% Similarity=0.308 Sum_probs=16.8
Q ss_pred ceeeeeccCCCCchhHHHHHH
Q psy8456 151 EKEVILGPMFSGKTTELIRRI 171 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~ 171 (353)
+..+++||.+|||||-|-...
T Consensus 29 ~~~~ltG~Ng~GKStll~~i~ 49 (200)
T cd03280 29 RVLVITGPNAGGKTVTLKTLG 49 (200)
T ss_pred eEEEEECCCCCChHHHHHHHH
Confidence 368899999999998765543
No 266
>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=85.43 E-value=0.95 Score=49.00 Aligned_cols=37 Identities=27% Similarity=0.365 Sum_probs=33.5
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
+..+|.||.|+|||+-+...+.....+|++|++..|+
T Consensus 174 ~~~lI~GpPGTGKT~t~~~ii~~~~~~g~~VLv~a~s 210 (637)
T TIGR00376 174 DLFLIHGPPGTGKTRTLVELIRQLVKRGLRVLVTAPS 210 (637)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcCc
Confidence 6789999999999999999999888899999998864
No 267
>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]
Probab=85.38 E-value=2.9 Score=39.31 Aligned_cols=115 Identities=14% Similarity=0.113 Sum_probs=71.5
Q ss_pred CchHHHHHHHHHHHHHcCceEEEEeeccCC-CCCCCceeeccCCcee------eeecC--Ch-hhhc------------c
Q psy8456 11 NPYIVHFCRRIRRYQYANYRCMIVRYAKDD-RYDTEKVATHDQQKLT------AVSAV--EL-NKLI------------P 68 (353)
Q Consensus 11 ~GKSteLLrr~~ry~~agkkvlv~Kp~iDt-Ry~~~~I~Sr~G~~~~------Ai~i~--~l-~ei~------------~ 68 (353)
-||||..+-.+-|.-=.|++|.++.--.=. -+|+....+.-+..++ .+.-+ +. .|+. -
T Consensus 39 KGKTTAAlG~alRa~GhG~rv~vvQFiKg~~~~GE~~~~~~~~~~v~~~~~~~g~tw~~~~~~~d~~aa~~~w~~a~~~l 118 (198)
T COG2109 39 KGKTTAALGLALRALGHGLRVGVVQFIKGGWKYGEEAALEKFGLGVEFHGMGEGFTWETQDREADIAAAKAGWEHAKEAL 118 (198)
T ss_pred CChhHHHHHHHHHHhcCCCEEEEEEEeecCcchhHHHHHHhhccceeEEecCCceeCCCcCcHHHHHHHHHHHHHHHHHH
Confidence 489999999999999999999887653321 1233222222111111 11111 00 0111 0
Q ss_pred cCCCccEEEEccccCh---H--HHHHHHHHHHh--CCCEEEEEecccccccCCchhHhhhhccccceEeccce
Q psy8456 69 HTKDIDVIGIDEGQFF---P--DVVSFAESMAN--AGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAV 134 (353)
Q Consensus 69 ~~~~~dvV~IDEaQFF---~--dIv~l~~~l~~--~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~Av 134 (353)
..++||+|+.||.--- . ++.++...+.+ ....||+-|= +. -+.|+++||-|++++.+
T Consensus 119 ~~~~ydlviLDEl~~al~~g~l~~eeV~~~l~~kP~~~~vIiTGr-----~a----p~~lie~ADlVTEm~~v 182 (198)
T COG2109 119 ADGKYDLVILDELNYALRYGLLPLEEVVALLKARPEHTHVIITGR-----GA----PPELIELADLVTEMRLV 182 (198)
T ss_pred hCCCCCEEEEehhhHHHHcCCCCHHHHHHHHhcCCCCcEEEEECC-----CC----CHHHHHHHHHHhhcccc
Confidence 2467999999998653 2 56666666664 4888999992 22 35699999999999765
No 268
>PRK14495 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional
Probab=85.32 E-value=0.98 Score=47.19 Aligned_cols=34 Identities=21% Similarity=0.167 Sum_probs=31.3
Q ss_pred eeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 154 VILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 154 vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
-|+|.-||||||-+-+-+..+..+|++|-++|+.
T Consensus 5 ~IvG~sgSGKTTLiekLI~~L~~rG~rVavIKH~ 38 (452)
T PRK14495 5 GIIGWKDAGKTGLVERLVAAIAARGFSVSTVKHS 38 (452)
T ss_pred EEEecCCCCHHHHHHHHHHHHHhCCCeEEEEecc
Confidence 4789999999999999999999999999999964
No 269
>COG0249 MutS Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]
Probab=85.18 E-value=1.1 Score=50.04 Aligned_cols=82 Identities=18% Similarity=0.156 Sum_probs=57.2
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCC-CCceeeccCcccce---ee-----cccHhhhcccC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYD-TEKVSTHDQQKLTA---VS-----AVELNKLIPHT 220 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~-~~~i~s~~g~~~~a---~~-----~~~~~~~~~~~ 220 (353)
.++-+|+||..|||||-|-+..-..-.|+.-+. -|+.--+.+ -++|-||.|..-.- .+ ..+...|+.+.
T Consensus 607 ~~i~lITGPNM~GKSTylRQvali~imAQiGsf--VPA~~A~i~ivD~IfTRiGa~DDL~~G~STFMvEM~Eta~IL~~A 684 (843)
T COG0249 607 RRIILITGPNMGGKSTYLRQVALIVILAQIGSF--VPAEKARIGIVDRIFTRIGAADDLASGRSTFMVEMLETANILDNA 684 (843)
T ss_pred ceEEEEECCCCCccHHHHHHHHHHHHHHHcCCC--eeHHHccccccceeeecccccchhhccccHHHHHHHHHHHHHHhC
Confidence 367899999999999999998888777765544 466656666 36788998853221 11 12455556554
Q ss_pred CCccEEEEecccc
Q psy8456 221 KDIDVIGIDEGQF 233 (353)
Q Consensus 221 ~~~~~i~IDE~QF 233 (353)
.+=..|++||.=.
T Consensus 685 T~~SLvilDEiGR 697 (843)
T COG0249 685 TERSLVILDEIGR 697 (843)
T ss_pred CCCcEEEEecccC
Confidence 4445999999977
No 270
>PRK10867 signal recognition particle protein; Provisional
Probab=85.13 E-value=1.1 Score=46.40 Aligned_cols=134 Identities=18% Similarity=0.172 Sum_probs=74.9
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHh-CCEEEEEeeecCCCCCC--Ccee---eccCcccceee-cccHhhhc----c-
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYA-NYRCMIVRYAKDDRYDT--EKVS---THDQQKLTAVS-AVELNKLI----P- 218 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~-~~~~~~~k~~~D~R~~~--~~i~---s~~g~~~~a~~-~~~~~~~~----~- 218 (353)
.+.+++||-||||||-...-+..+... |++|+++.- |++-.. +... .+.|..+-... ..+..++. .
T Consensus 101 ~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~--D~~R~aa~eQL~~~a~~~gv~v~~~~~~~dp~~i~~~a~~~ 178 (433)
T PRK10867 101 TVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAA--DVYRPAAIEQLKTLGEQIGVPVFPSGDGQDPVDIAKAALEE 178 (433)
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEc--cccchHHHHHHHHHHhhcCCeEEecCCCCCHHHHHHHHHHH
Confidence 467889999999999999999999888 999998864 554221 1111 11221111110 11222222 2
Q ss_pred -cCCCccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCC------CCCCccHHHHHHHHH
Q psy8456 219 -HTKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPP------PPEFPDVVSFAESMA 291 (353)
Q Consensus 219 -~~~~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~------~~~f~~~~~~~~~~~ 291 (353)
...++|+|+||=+=.+ +.....+.+|..+.+.+..++ +-.-.+.++.++...
T Consensus 179 a~~~~~DvVIIDTaGrl---------------------~~d~~lm~eL~~i~~~v~p~evllVlda~~gq~av~~a~~F~ 237 (433)
T PRK10867 179 AKENGYDVVIVDTAGRL---------------------HIDEELMDELKAIKAAVNPDEILLVVDAMTGQDAVNTAKAFN 237 (433)
T ss_pred HHhcCCCEEEEeCCCCc---------------------ccCHHHHHHHHHHHHhhCCCeEEEEEecccHHHHHHHHHHHH
Confidence 2467999999987653 123445555555555332111 111135666665555
Q ss_pred h-CCC-EEEEEecccccc
Q psy8456 292 N-AGK-IVVVAALDGTFQ 307 (353)
Q Consensus 292 ~-~g~-~Vi~~gLd~df~ 307 (353)
+ .++ -+|+--||+|-+
T Consensus 238 ~~~~i~giIlTKlD~~~r 255 (433)
T PRK10867 238 EALGLTGVILTKLDGDAR 255 (433)
T ss_pred hhCCCCEEEEeCccCccc
Confidence 3 233 256666776644
No 271
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=85.13 E-value=1.1 Score=49.24 Aligned_cols=90 Identities=12% Similarity=0.034 Sum_probs=52.7
Q ss_pred CCchHHHHHHHHHHHHHcC--ceEEEEeeccCCCCCCCceeeccCCceeeeecCChhhhc---------ccCCCccEEEE
Q psy8456 10 INPYIVHFCRRIRRYQYAN--YRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLI---------PHTKDIDVIGI 78 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~ag--kkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai~i~~l~ei~---------~~~~~~dvV~I 78 (353)
=+||||-+-..+.-+...| .++++.-|.- |.. ..+.--.| .+|..+.++.... ......|+|+|
T Consensus 348 GTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg--~AA-~~L~e~~g--~~a~Tih~lL~~~~~~~~~~~~~~~~~~~llIv 422 (720)
T TIGR01448 348 GTGKTTITRAIIELAEELGGLLPVGLAAPTG--RAA-KRLGEVTG--LTASTIHRLLGYGPDTFRHNHLEDPIDCDLLIV 422 (720)
T ss_pred CCCHHHHHHHHHHHHHHcCCCceEEEEeCch--HHH-HHHHHhcC--CccccHHHHhhccCCccchhhhhccccCCEEEE
Confidence 4799998777777777777 8899988842 211 01110012 1232222221110 11235899999
Q ss_pred ccccChH--HHHHHHHHHHhCCCEEEEEe
Q psy8456 79 DEGQFFP--DVVSFAESMANAGKIVVVAA 105 (353)
Q Consensus 79 DEaQFF~--dIv~l~~~l~~~G~~VivaG 105 (353)
|||+.++ ....+.+.+ ..|..|++.|
T Consensus 423 DEaSMvd~~~~~~Ll~~~-~~~~rlilvG 450 (720)
T TIGR01448 423 DESSMMDTWLALSLLAAL-PDHARLLLVG 450 (720)
T ss_pred eccccCCHHHHHHHHHhC-CCCCEEEEEC
Confidence 9999997 444554433 4688898887
No 272
>PF10412 TrwB_AAD_bind: Type IV secretion-system coupling protein DNA-binding domain; InterPro: IPR019476 The plasmid conjugative coupling protein TraD (also known as TrwB) is a basic integral inner-membrane nucleoside-triphosphate-binding protein. It is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells []. This protein forms hexamers from six structurally very similar protomers []. This hexamer contains a central channel running from the cytosolic pole (formed by the all-alpha domains) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB all-alpha domain appears to be the DNA-binding domain of the structure. ; PDB: 1E9S_D 1E9R_F 1GKI_B 1GL7_G 1GL6_A.
Probab=85.06 E-value=1 Score=45.55 Aligned_cols=37 Identities=22% Similarity=0.257 Sum_probs=28.9
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecC
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKD 189 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D 189 (353)
.+++|.+|||||+-+-.-+.....+|.+++|+-|.-|
T Consensus 18 ~li~G~~GsGKT~~i~~ll~~~~~~g~~~iI~D~kg~ 54 (386)
T PF10412_consen 18 ILIIGATGSGKTQAIRHLLDQIRARGDRAIIYDPKGE 54 (386)
T ss_dssp EEEEE-TTSSHHHHHHHHHHHHHHTT-EEEEEEETTH
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCEEEEEECCch
Confidence 5789999999999777777777888999999988643
No 273
>PLN02840 tRNA dimethylallyltransferase
Probab=84.98 E-value=2.1 Score=44.47 Aligned_cols=29 Identities=28% Similarity=0.321 Sum_probs=22.0
Q ss_pred cccccceeeeeccCCCCchhHHHHHHHHH
Q psy8456 146 KRIGQEKEVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 146 ~Ri~geI~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
++..+.+.+|.||.+|||||-.++-+..+
T Consensus 17 ~~~~~~vi~I~GptgsGKTtla~~La~~~ 45 (421)
T PLN02840 17 KTKKEKVIVISGPTGAGKSRLALELAKRL 45 (421)
T ss_pred cccCCeEEEEECCCCCCHHHHHHHHHHHC
Confidence 33345578999999999999887766554
No 274
>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=84.97 E-value=0.43 Score=40.67 Aligned_cols=21 Identities=29% Similarity=0.115 Sum_probs=15.5
Q ss_pred eeeeeccCCCCchhHHHHHHH
Q psy8456 152 KEVILGPMFSGKTTELIRRIR 172 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~ 172 (353)
+.++.|+++|||||-.-....
T Consensus 1 li~l~G~~GsGKST~a~~l~~ 21 (150)
T cd02021 1 IIVVMGVSGSGKSTVGKALAE 21 (150)
T ss_pred CEEEEcCCCCCHHHHHHHHHh
Confidence 357899999999986544333
No 275
>PRK13938 phosphoheptose isomerase; Provisional
Probab=84.91 E-value=4.7 Score=37.38 Aligned_cols=43 Identities=7% Similarity=0.140 Sum_probs=35.8
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCC
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDR 191 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R 191 (353)
.....++++.-.||.|.++++.++..+..|-+++.+....++.
T Consensus 111 ~~~~DllI~iS~SG~t~~vi~a~~~Ak~~G~~vI~iT~~~~s~ 153 (196)
T PRK13938 111 ARPGDTLFAISTSGNSMSVLRAAKTARELGVTVVAMTGESGGQ 153 (196)
T ss_pred CCCCCEEEEEcCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCCh
Confidence 3445678888899999999999999999999999888755443
No 276
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=84.85 E-value=1.6 Score=43.23 Aligned_cols=79 Identities=22% Similarity=0.181 Sum_probs=45.2
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCC-CCC--ceeeccCcccceeecccHhhhccc--CCCccEE
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRY-DTE--KVSTHDQQKLTAVSAVELNKLIPH--TKDIDVI 226 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~-~~~--~i~s~~g~~~~a~~~~~~~~~~~~--~~~~~~i 226 (353)
--+++|++.|||||-|...+.-.- ...|++.+.-+-.-+- ..+ .+.++.+..- -...++.+++.. -.++|.|
T Consensus 145 siii~G~t~sGKTt~lnall~~Ip-~~~rivtIEdt~E~~~~~~n~~~l~~r~~~~~--~~~v~~~dll~aalR~rPd~I 221 (312)
T COG0630 145 SIIICGGTASGKTTLLNALLDFIP-PEERIVTIEDTPELKLPHENWVQLVTREGESG--SSEVSLEDLLRAALRQRPDYI 221 (312)
T ss_pred cEEEECCCCCCHHHHHHHHHHhCC-chhcEEEEeccccccCCCCCEEEEEecCCCCC--ccccCHHHHHHHHHhcCCCeE
Confidence 457899999999998877665432 3344554442222221 122 2345544321 112345555432 4678999
Q ss_pred EEecccc
Q psy8456 227 GIDEGQF 233 (353)
Q Consensus 227 ~IDE~QF 233 (353)
+++|.+=
T Consensus 222 ivgEvrg 228 (312)
T COG0630 222 IVGELRG 228 (312)
T ss_pred EEeeeec
Confidence 9999985
No 277
>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=84.84 E-value=3.2 Score=37.37 Aligned_cols=98 Identities=11% Similarity=0.048 Sum_probs=51.7
Q ss_pred CCCchHHHHHHHHHHHHHcCceEEEE-eeccC---CCCCCCceee-ccCCceeeee-------------c--CChhhhc-
Q psy8456 9 RINPYIVHFCRRIRRYQYANYRCMIV-RYAKD---DRYDTEKVAT-HDQQKLTAVS-------------A--VELNKLI- 67 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~agkkvlv~-Kp~iD---tRy~~~~I~S-r~G~~~~Ai~-------------i--~~l~ei~- 67 (353)
.-+||||-|.+.++.++..|.++--| +|..- .|.|- .+++ ++|....--. + +...++.
T Consensus 8 pG~GKTTll~k~i~~l~~~~~~v~Gf~t~evr~~g~r~GF-~iv~l~~g~~~~la~~~~~~~~~vgky~v~~e~fe~~~~ 86 (168)
T PF03266_consen 8 PGVGKTTLLKKVIEELKKKGLPVGGFYTEEVRENGRRIGF-DIVDLNSGEEAILARVDFRSGPRVGKYFVDLESFEEIGL 86 (168)
T ss_dssp TTSSHHHHHHHHHHHHHHTCGGEEEEEEEEEETTSSEEEE-EEEET-TS-EEEEEETTSS-SCECTTCEE-HHHHHCCCC
T ss_pred CCCCHHHHHHHHHHHhhccCCccceEEeecccCCCceEEE-EEEECcCCCccccccccccccccCCCEEEcHHHHHHHHH
Confidence 45799999999999998888776444 33321 11111 1222 2332221110 1 1111111
Q ss_pred c----cCCCccEEEEccccChH----HHHHHHHHHHhCCCEEEEEeccc
Q psy8456 68 P----HTKDIDVIGIDEGQFFP----DVVSFAESMANAGKIVVVAALDG 108 (353)
Q Consensus 68 ~----~~~~~dvV~IDEaQFF~----dIv~l~~~l~~~G~~VivaGLd~ 108 (353)
. ...+.|+++|||+=++. ...+.+..+.+.+++|+ +-+..
T Consensus 87 ~~L~~~~~~~~liviDEIG~mEl~~~~F~~~v~~~l~s~~~vi-~vv~~ 134 (168)
T PF03266_consen 87 PALRNALSSSDLIVIDEIGKMELKSPGFREAVEKLLDSNKPVI-GVVHK 134 (168)
T ss_dssp CCCHHHHHCCHEEEE---STTCCC-CHHHHHHHHHHCTTSEEE-EE--S
T ss_pred HHHHhhcCCCCEEEEeccchhhhcCHHHHHHHHHHHcCCCcEE-EEEec
Confidence 1 12578999999999984 67777777778888854 44544
No 278
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=84.83 E-value=1.3 Score=42.05 Aligned_cols=22 Identities=32% Similarity=0.377 Sum_probs=16.8
Q ss_pred eeeeccCCCCchhHHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
-+++||-|+||||-+-..++..
T Consensus 41 ~ll~G~~G~GKt~~~~~l~~~l 62 (319)
T PRK00440 41 LLFAGPPGTGKTTAALALAREL 62 (319)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 3899999999998765554443
No 279
>KOG0924|consensus
Probab=84.81 E-value=0.84 Score=50.18 Aligned_cols=33 Identities=33% Similarity=0.396 Sum_probs=26.7
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEE
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCM 182 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~ 182 (353)
++..+|+|-.||||||+|-+-++.--++.+..+
T Consensus 371 n~vvvivgETGSGKTTQl~QyL~edGY~~~GmI 403 (1042)
T KOG0924|consen 371 NQVVVIVGETGSGKTTQLAQYLYEDGYADNGMI 403 (1042)
T ss_pred CcEEEEEecCCCCchhhhHHHHHhcccccCCee
Confidence 356789999999999999998887766665544
No 280
>PRK04328 hypothetical protein; Provisional
Probab=84.79 E-value=1.4 Score=41.80 Aligned_cols=38 Identities=11% Similarity=-0.056 Sum_probs=33.4
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
+...++.|+.+||||+-.++-+.+....|.+++++.-.
T Consensus 23 gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~e 60 (249)
T PRK04328 23 RNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALE 60 (249)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEee
Confidence 56778999999999999999999988889999988753
No 281
>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []. In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....
Probab=84.74 E-value=1.7 Score=43.58 Aligned_cols=38 Identities=29% Similarity=0.274 Sum_probs=32.7
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
+.+.-|+||..|||||-++..+.+++..|..|+++.+.
T Consensus 53 G~ivEi~G~~ssGKttLaL~~ia~~q~~g~~~a~ID~e 90 (322)
T PF00154_consen 53 GRIVEIYGPESSGKTTLALHAIAEAQKQGGICAFIDAE 90 (322)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHHHHHTT-EEEEEESS
T ss_pred CceEEEeCCCCCchhhhHHHHHHhhhcccceeEEecCc
Confidence 34677899999999999999999999999999988763
No 282
>PRK13695 putative NTPase; Provisional
Probab=84.74 E-value=9.7 Score=33.49 Aligned_cols=37 Identities=27% Similarity=0.256 Sum_probs=26.8
Q ss_pred CCCccEEEEccccCh---H-HHHHHHHHHHhCCCEEEEEec
Q psy8456 70 TKDIDVIGIDEGQFF---P-DVVSFAESMANAGKIVVVAAL 106 (353)
Q Consensus 70 ~~~~dvV~IDEaQFF---~-dIv~l~~~l~~~G~~VivaGL 106 (353)
..+++++++||+..+ + +..+....+.+.|.++++.-=
T Consensus 94 l~~~~~lllDE~~~~e~~~~~~~~~l~~~~~~~~~~i~v~h 134 (174)
T PRK13695 94 LEEADVIIIDEIGKMELKSPKFVKAVEEVLDSEKPVIATLH 134 (174)
T ss_pred cCCCCEEEEECCCcchhhhHHHHHHHHHHHhCCCeEEEEEC
Confidence 467999999996544 3 556667677788998877643
No 283
>PHA00729 NTP-binding motif containing protein
Probab=84.72 E-value=1.4 Score=42.12 Aligned_cols=22 Identities=41% Similarity=0.430 Sum_probs=17.9
Q ss_pred eeeeccCCCCchhHHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
-+|+|+.|+||||-....+++.
T Consensus 20 IlItG~pGvGKT~LA~aLa~~l 41 (226)
T PHA00729 20 AVIFGKQGSGKTTYALKVARDV 41 (226)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 5899999999998777766653
No 284
>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=84.50 E-value=1.9 Score=36.59 Aligned_cols=39 Identities=23% Similarity=0.194 Sum_probs=30.4
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCC--EEEEEeeec
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANY--RCMIVRYAK 188 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~--~~~~~k~~~ 188 (353)
++--++.||.|||||+-.+-.+-+.-.+++ +++++-|..
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 344689999999999999877766555545 899999854
No 285
>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=84.46 E-value=1.6 Score=40.10 Aligned_cols=39 Identities=18% Similarity=0.169 Sum_probs=34.4
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
+.+.++.|+.++|||+-.++-+.+...+|.+|+++....
T Consensus 16 g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~ 54 (224)
T TIGR03880 16 GHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEE 54 (224)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence 567889999999999999999999888899999987654
No 286
>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional
Probab=84.34 E-value=1.3 Score=44.56 Aligned_cols=37 Identities=24% Similarity=0.219 Sum_probs=32.7
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
.--++|+-+|||||-+-+.+..+...|++|-++|...
T Consensus 207 ~~~~~g~~~~GKtt~~~~l~~~l~~~g~~v~~iKh~~ 243 (366)
T PRK14489 207 LLGVVGYSGTGKTTLLEKLIPELIARGYRIGLIKHSH 243 (366)
T ss_pred EEEEecCCCCCHHHHHHHHHHHHHHcCCEEEEEEECC
Confidence 3457999999999999999999999999999999643
No 287
>PLN03025 replication factor C subunit; Provisional
Probab=84.26 E-value=1.9 Score=42.14 Aligned_cols=23 Identities=26% Similarity=0.371 Sum_probs=18.0
Q ss_pred eeeeccCCCCchhHHHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQ 175 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~ 175 (353)
-+++||.|+||||-+.-.++...
T Consensus 37 lll~Gp~G~GKTtla~~la~~l~ 59 (319)
T PLN03025 37 LILSGPPGTGKTTSILALAHELL 59 (319)
T ss_pred EEEECCCCCCHHHHHHHHHHHHh
Confidence 36899999999987776666653
No 288
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=84.16 E-value=1.2 Score=43.46 Aligned_cols=35 Identities=29% Similarity=0.237 Sum_probs=30.8
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
--++|+-||||||-+.+-+..+..+| +|-++|..-
T Consensus 4 i~i~G~~gSGKTTLi~~Li~~L~~~G-~V~~IKhd~ 38 (274)
T PRK14493 4 LSIVGYKATGKTTLVERLVDRLSGRG-RVGTVKHMD 38 (274)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHhCC-CEEEEEEcC
Confidence 35789999999999999999999999 799999854
No 289
>TIGR00174 miaA tRNA isopentenyltransferase (miaA). Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.
Probab=84.12 E-value=1.8 Score=42.55 Aligned_cols=22 Identities=27% Similarity=0.451 Sum_probs=17.6
Q ss_pred eeeeccCCCCchhHHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
.+|+||.+||||+-.++-+..+
T Consensus 2 i~i~G~t~~GKs~la~~l~~~~ 23 (287)
T TIGR00174 2 IFIMGPTAVGKSQLAIQLAKKL 23 (287)
T ss_pred EEEECCCCCCHHHHHHHHHHhC
Confidence 4799999999998777765543
No 290
>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=84.00 E-value=1.5 Score=39.78 Aligned_cols=24 Identities=4% Similarity=-0.349 Sum_probs=17.2
Q ss_pred CCchHHHHHHH-HHHHHHcCceEEE
Q psy8456 10 INPYIVHFCRR-IRRYQYANYRCMI 33 (353)
Q Consensus 10 ~~GKSteLLrr-~~ry~~agkkvlv 33 (353)
=||||...+.. +..+..+|+.|+.
T Consensus 10 GsGKS~~av~~~i~~~l~~gr~V~t 34 (193)
T PF05707_consen 10 GSGKSYYAVSYVIIPALKKGRPVYT 34 (193)
T ss_dssp TSSHHHHHHHHHHH-GGGS---EEE
T ss_pred CCcHhHHHHHHHHHHHHhCCCEEEE
Confidence 48999999999 8887788888877
No 291
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.80 E-value=2.4 Score=44.72 Aligned_cols=15 Identities=27% Similarity=0.344 Sum_probs=13.4
Q ss_pred CCCccEEEEeccccc
Q psy8456 220 TKDIDVIGIDEGQFV 234 (353)
Q Consensus 220 ~~~~~~i~IDE~QF~ 234 (353)
..++.|++|||+|++
T Consensus 114 ~~~~KVvIIDEah~L 128 (491)
T PRK14964 114 SSKFKVYIIDEVHML 128 (491)
T ss_pred cCCceEEEEeChHhC
Confidence 468899999999997
No 292
>PRK06921 hypothetical protein; Provisional
Probab=83.79 E-value=1.4 Score=42.57 Aligned_cols=85 Identities=8% Similarity=-0.012 Sum_probs=46.8
Q ss_pred CCCchHHHHHHHHHHHHHc-CceEEEEeeccCCCCCCCceeeccCCceeeeecCChhhhcccCCCccEEEEccccC----
Q psy8456 9 RINPYIVHFCRRIRRYQYA-NYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEGQF---- 83 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~a-gkkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai~i~~l~ei~~~~~~~dvV~IDEaQF---- 83 (353)
.-+|||.-+...++....+ |.+|+.+... |-- ..+.. + .+...+......++|+++||+.|+
T Consensus 126 ~G~GKThLa~aia~~l~~~~g~~v~y~~~~-~l~---~~l~~-------~--~~~~~~~~~~~~~~dlLiIDDl~~~~~g 192 (266)
T PRK06921 126 PGSGKTHLLTAAANELMRKKGVPVLYFPFV-EGF---GDLKD-------D--FDLLEAKLNRMKKVEVLFIDDLFKPVNG 192 (266)
T ss_pred CCCcHHHHHHHHHHHHhhhcCceEEEEEHH-HHH---HHHHH-------H--HHHHHHHHHHhcCCCEEEEeccccccCC
Confidence 3467777666666666655 6666655531 100 00000 0 011122233456799999999976
Q ss_pred ---hH-----HHHHHHHHHHhCCCEEEEEec
Q psy8456 84 ---FP-----DVVSFAESMANAGKIVVVAAL 106 (353)
Q Consensus 84 ---F~-----dIv~l~~~l~~~G~~VivaGL 106 (353)
.+ .+.++++.--+.++++|+.+=
T Consensus 193 ~e~~t~~~~~~lf~iin~R~~~~k~tIitsn 223 (266)
T PRK06921 193 KPRATEWQIEQMYSVLNYRYLNHKPILISSE 223 (266)
T ss_pred CccCCHHHHHHHHHHHHHHHHCCCCEEEECC
Confidence 22 355555555566888887764
No 293
>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated
Probab=83.77 E-value=3.2 Score=37.40 Aligned_cols=138 Identities=12% Similarity=0.112 Sum_probs=74.7
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCC---CceeeccCc---ccceee-cccHhhhccc-CCCc
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDT---EKVSTHDQQ---KLTAVS-AVELNKLIPH-TKDI 223 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~---~~i~s~~g~---~~~a~~-~~~~~~~~~~-~~~~ 223 (353)
+.+|+|+.+||||+.-.+.+.++ +.+++.+.... -++. ..|.-|... ...-+. -.++.+++.. ..+.
T Consensus 3 ~ili~G~~~sGKS~~a~~l~~~~---~~~~~~iat~~--~~~~e~~~ri~~h~~~R~~~w~t~E~~~~l~~~i~~~~~~~ 77 (170)
T PRK05800 3 LILVTGGARSGKSRFAERLAAQS---GLQVLYIATAQ--PFDDEMAARIAHHRQRRPAHWQTVEEPLDLAELLRADAAPG 77 (170)
T ss_pred EEEEECCCCccHHHHHHHHHHHc---CCCcEeCcCCC--CChHHHHHHHHHHHhcCCCCCeEecccccHHHHHHhhcCCC
Confidence 46899999999999877765543 44554433322 1221 123333221 111111 1345555543 4557
Q ss_pred cEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCCCCCC-ccHHHHHHHHHhCCCEEEEEec
Q psy8456 224 DVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPPPPEF-PDVVSFAESMANAGKIVVVAAL 302 (353)
Q Consensus 224 ~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~f-~~~~~~~~~~~~~g~~Vi~~gL 302 (353)
++|+||=...+. +....+. + ...+ ..+.++++.|...|..+++-+-
T Consensus 78 ~~VlID~Lt~~~------------~n~l~~~-~--------------------~~~~~~~l~~li~~L~~~~~tvVlVs~ 124 (170)
T PRK05800 78 RCVLVDCLTTWV------------TNLLFEE-G--------------------EEAIAAEIDALLAALQQLPAKIILVTN 124 (170)
T ss_pred CEEEehhHHHHH------------HHHhccc-c--------------------hHHHHHHHHHHHHHHHcCCCCEEEEEc
Confidence 789999877641 0000000 0 0011 3455677888888988888776
Q ss_pred cccccCCCchhHHh------------hhhcccceEEe
Q psy8456 303 DGTFQRTGFNDILS------------LIPLAECVEKL 327 (353)
Q Consensus 303 d~df~~~~F~~~~~------------L~~~ad~v~kl 327 (353)
...+-.-|.+...+ |-..||.|...
T Consensus 125 Evg~g~vp~~~~~r~~~d~lG~lnq~la~~ad~V~~v 161 (170)
T PRK05800 125 EVGMGIVPEYRLGRHFRDIAGRLNQQLAAAADEVYLV 161 (170)
T ss_pred CCcccccCCCHHHHHHHHHHHHHHHHHHHHCCEEEEE
Confidence 66566666554433 44566766654
No 294
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.74 E-value=2.6 Score=47.68 Aligned_cols=23 Identities=17% Similarity=0.010 Sum_probs=17.0
Q ss_pred ceeeeeccCCCCchhHHHHHHHH
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
...+++||.|+||||-...-++.
T Consensus 39 HAyLFtGPpGtGKTTLARiLAk~ 61 (944)
T PRK14949 39 HAYLFTGTRGVGKTSLARLFAKG 61 (944)
T ss_pred eEEEEECCCCCCHHHHHHHHHHh
Confidence 44589999999999865554444
No 295
>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=83.72 E-value=0.84 Score=40.12 Aligned_cols=22 Identities=27% Similarity=0.375 Sum_probs=17.4
Q ss_pred eeeeccCCCCchhHHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
.+++||++|||||.--+-+.+|
T Consensus 2 i~i~G~pGsGKst~a~~la~~~ 23 (183)
T TIGR01359 2 VFVLGGPGSGKGTQCAKIVENF 23 (183)
T ss_pred EEEECCCCCCHHHHHHHHHHHc
Confidence 4789999999999766655555
No 296
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=83.66 E-value=2.2 Score=51.27 Aligned_cols=38 Identities=18% Similarity=0.086 Sum_probs=29.2
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHH----HhCCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQ----YANYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~----~~~~~~~~~k~~ 187 (353)
+.+.+|.|.-|+||||-|-..+.-++ ..|++|+.+-|+
T Consensus 984 dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPT 1025 (1747)
T PRK13709 984 DRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPT 1025 (1747)
T ss_pred CcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCc
Confidence 46889999999999998766555543 346788888774
No 297
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=83.55 E-value=0.96 Score=46.79 Aligned_cols=42 Identities=19% Similarity=0.256 Sum_probs=26.5
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDR 191 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R 191 (353)
|+...|+||.++||||-+....+.+......+.++-..++.|
T Consensus 168 Gq~~~IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgER 209 (415)
T TIGR00767 168 GQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDER 209 (415)
T ss_pred CCEEEEECCCCCChhHHHHHHHHhhcccCCceEEEEEEcCCC
Confidence 566789999999999854444444433323334444556676
No 298
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=83.45 E-value=1.6 Score=47.25 Aligned_cols=39 Identities=21% Similarity=0.152 Sum_probs=29.8
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHHh----CCEEEEEeee
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQYA----NYRCMIVRYA 187 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~~----~~~~~~~k~~ 187 (353)
.....+|.|+.|+||||-+.+.+..+... +.++.+..|+
T Consensus 166 ~~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APT 208 (615)
T PRK10875 166 TRRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPT 208 (615)
T ss_pred cCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCc
Confidence 45789999999999999887777766432 2467777774
No 299
>PHA00350 putative assembly protein
Probab=83.43 E-value=2.4 Score=43.74 Aligned_cols=24 Identities=4% Similarity=-0.241 Sum_probs=19.6
Q ss_pred CCCchHHHHHH-HHHHHHHcCceEE
Q psy8456 9 RINPYIVHFCR-RIRRYQYANYRCM 32 (353)
Q Consensus 9 ~~~GKSteLLr-r~~ry~~agkkvl 32 (353)
.=||||.+.+. .+..+..+|++|+
T Consensus 10 pGSGKT~~aV~~~i~palk~GR~V~ 34 (399)
T PHA00350 10 PGSYKSYEAVVYHIIPALKDGRKVI 34 (399)
T ss_pred CCCchhHHHHHHHHHHHHHCCCEEE
Confidence 34899999998 6788888998764
No 300
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=83.30 E-value=1.2 Score=47.53 Aligned_cols=35 Identities=34% Similarity=0.394 Sum_probs=28.1
Q ss_pred CCCccEEEEccccChH-HHHHHHHHHHhCCCEEEEE
Q psy8456 70 TKDIDVIGIDEGQFFP-DVVSFAESMANAGKIVVVA 104 (353)
Q Consensus 70 ~~~~dvV~IDEaQFF~-dIv~l~~~l~~~G~~Viva 104 (353)
.+-||+|+|||+|=|| ...++|..+..-.|+++.|
T Consensus 293 ~~~yD~ilIDE~QDFP~~F~~Lcf~~tkd~KrlvyA 328 (660)
T COG3972 293 KKAYDYILIDESQDFPQSFIDLCFMVTKDKKRLVYA 328 (660)
T ss_pred cccccEEEecccccCCHHHHHHHHHHhcCcceEEEe
Confidence 3569999999999998 7999999998755554444
No 301
>PRK07413 hypothetical protein; Validated
Probab=83.16 E-value=4.2 Score=41.74 Aligned_cols=138 Identities=16% Similarity=0.139 Sum_probs=84.0
Q ss_pred cccccceeeeeccCCCCchhHHHHHHHHHHHhCC------EEEEEeeecC-C-CCCCCceee-------------ccCcc
Q psy8456 146 KRIGQEKEVILGPMFSGKTTELIRRIRRYQYANY------RCMIVRYAKD-D-RYDTEKVST-------------HDQQK 204 (353)
Q Consensus 146 ~Ri~geI~vi~G~M~sGKt~~Li~~~~~~~~~~~------~~~~~k~~~D-~-R~~~~~i~s-------------~~g~~ 204 (353)
-|-.+-+++++|. +=||||..+-.+-|..-+|+ +|+++.--+. . .||+..+.. +-|..
T Consensus 16 ~~~~Gli~VytG~-GKGKTTAAlGlalRA~G~G~~~~~~~rV~ivQFlKg~~~~~GE~~~l~~l~~~~~~~i~~~~~g~~ 94 (382)
T PRK07413 16 ERSKGQLHVYDGE-GKGKSQAALGVVLRTIGLGICEKRQTRVLLLRFLKGPGRAYDEDAAIEALQRGFPHLIDQVRTGRA 94 (382)
T ss_pred cccCCeEEEEeCC-CCCHHHHHHHHHHHHhcCCCCcCCCCeEEEEEEEcCCCCCCcHHHHHHhccccCCCceEEEECCCC
Confidence 3444678889996 77999999999999999998 9999888887 3 455432211 11211
Q ss_pred cceee----ccc---Hhhhc----c--cCCCccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhc
Q psy8456 205 LTAVS----AVE---LNKLI----P--HTKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAA 271 (353)
Q Consensus 205 ~~a~~----~~~---~~~~~----~--~~~~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 271 (353)
..-.. ... ..+.+ . ...++|+|+.||.-..- +.--++.
T Consensus 95 ~~~~~~~~~~~~~~~a~~~~~~a~~~i~sg~ydlvILDEi~~Al-----------------~~gll~~------------ 145 (382)
T PRK07413 95 EFFGADEITKFDRQEAQRGWDIAKGAIASGLYSVVVLDELNPVL-----------------DLGLLPV------------ 145 (382)
T ss_pred CeeeCCCCcHHHHHHHHHHHHHHHHHHhCCCCCEEEEehhHHHH-----------------HCCCccH------------
Confidence 11010 000 00111 1 14789999999987520 0000111
Q ss_pred cCCCCCCCCccHHHHHHHHHhCCCEEEEEeccccccCCCchhHHhhhhcccceEEeeeecc
Q psy8456 272 LNVPPPPEFPDVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCM 332 (353)
Q Consensus 272 ~~~~~~~~f~~~~~~~~~~~~~g~~Vi~~gLd~df~~~~F~~~~~L~~~ad~v~kl~a~C~ 332 (353)
.+|++++++ .-.+..||+-|=+ ....|+++||-|++++.+=+
T Consensus 146 ---------eevl~~L~~-rP~~~evVLTGR~---------ap~~Lie~ADlVTEm~~iKH 187 (382)
T PRK07413 146 ---------DEVVNTLKS-RPEGLEIIITGRA---------APQSLLDIADLHSEMRPHRR 187 (382)
T ss_pred ---------HHHHHHHHh-CCCCCEEEEeCCC---------CCHHHHHhCCeeEEeceecC
Confidence 234444432 2357789988743 35789999999999976643
No 302
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=83.04 E-value=1.4 Score=51.36 Aligned_cols=25 Identities=28% Similarity=0.296 Sum_probs=19.3
Q ss_pred cceeeeeccCCCCchhHHHHHHHHH
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
+...++.|+.||||||.|=+-+...
T Consensus 89 ~~VviI~GeTGSGKTTqlPq~lle~ 113 (1294)
T PRK11131 89 HQVVIVAGETGSGKTTQLPKICLEL 113 (1294)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHc
Confidence 3466788999999999877665543
No 303
>PF02702 KdpD: Osmosensitive K+ channel His kinase sensor domain; InterPro: IPR003852 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents the N-terminal domain found in KdpD sensor kinase proteins, which regulate the kdpFABC operon responsible for potassium transport []. The N-terminal domain forms part of the cytoplasmic region of the protein, which may be the sensor domain responsible for sensing turgor pressure [].; GO: 0000155 two-component sensor activity, 0004673 protein histidine kinase activity, 0000160 two-component signal transduction system (phosphorelay), 0016020 membrane; PDB: 2R8R_B.
Probab=82.91 E-value=7.6 Score=36.90 Aligned_cols=142 Identities=18% Similarity=0.195 Sum_probs=74.6
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEeeccCCCC-------CCCcee----eccCCceeeeecCChhhhcccCCCccEEEE
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVRYAKDDRY-------DTEKVA----THDQQKLTAVSAVELNKLIPHTKDIDVIGI 78 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy-------~~~~I~----Sr~G~~~~Ai~i~~l~ei~~~~~~~dvV~I 78 (353)
-.|||-.+|+.+++...+|..|++=--.--.|- +-+.|. .+.|..++-. ++..+. ..++++|+|
T Consensus 15 GVGKTy~ML~ea~~l~~~G~DVViG~vethgR~et~~l~~gLe~iP~~~i~y~g~~~~E~---DldaiL--~R~P~vvLV 89 (211)
T PF02702_consen 15 GVGKTYAMLQEAHRLKEQGVDVVIGYVETHGRPETEALLEGLEVIPRKKIEYRGRTLEEM---DLDAIL--ARRPQVVLV 89 (211)
T ss_dssp TSSHHHHHHHHHHHHHHTT--EEEEE---TT-HHHHHHHCTS-B---EEEEETTEEEEE-----HHHHH--HH--SEEEE
T ss_pred CCCHHHHHHHHHHHHHHCCCCEEEEEecCCCcHHHHHHHcCCCcCCCeeEeeCCEecccC---CHHHHH--hcCCCEEEe
Confidence 369999999999999999999987443333331 111111 1112221111 233332 245899999
Q ss_pred ccccCh--H-----HHHHHHHHHHhCCCEEEEEecccccccCCchhHhhhhccccceEeccceecccccccccccccccc
Q psy8456 79 DEGQFF--P-----DVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCMSCFRDAAFTKRIGQE 151 (353)
Q Consensus 79 DEaQFF--~-----dIv~l~~~l~~~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~AvC~~CG~~A~f~~Ri~ge 151 (353)
||-=.- + .=+|-++.+.+.||.|+.. | .+..|=.+.|.|..++.+=...-=+..+ ++.-++
T Consensus 90 DELAHtN~pgsr~~kR~qDVeeLL~aGIdV~TT-l----------NvqHlESlnd~V~~iTgv~vrEtVPD~~-l~~Ade 157 (211)
T PF02702_consen 90 DELAHTNAPGSRHKKRYQDVEELLDAGIDVYTT-L----------NVQHLESLNDVVEQITGVRVRETVPDSV-LDRADE 157 (211)
T ss_dssp S-TT-B--TT-SSSBHHHHHHHHHHTT-EEEEE-E----------EGGGBGGGHHHHHHHHS----S-B-HHH-HHT-SC
T ss_pred CcccccCCCCCCCcccHHhHHHHHHCCCeEEEe-e----------eHHHhhhhHHHHHHHhCCeeeeeCCHHH-HhhcCe
Confidence 996554 1 3567788899999999853 3 3556667778888887776532223332 333467
Q ss_pred eeeeeccCCCCchhHHHHHHHH
Q psy8456 152 KEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~ 173 (353)
+++|--+ -.+|++|++.
T Consensus 158 v~lVDi~-----Pe~L~~RL~~ 174 (211)
T PF02702_consen 158 VELVDIT-----PEELLERLKE 174 (211)
T ss_dssp EEEB--------HHHHHHHHHT
T ss_pred EEEecCC-----HHHHHHHHHc
Confidence 7777554 3788887763
No 304
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=82.90 E-value=0.73 Score=44.28 Aligned_cols=63 Identities=22% Similarity=0.392 Sum_probs=41.4
Q ss_pred CCCCCcchHHHHHHHhhccCCCC-------C-----CCC-ccHHHHHHHHHhCCCEEEEEeccccccCCCchhHHhhhhc
Q psy8456 254 KAPIKRSPFKTLANENAALNVPP-------P-----PEF-PDVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPL 320 (353)
Q Consensus 254 ~~~~~~~~~~~l~~~~~~~~~~~-------~-----~~f-~~~~~~~~~~~~~g~~Vi~~gLd~df~~~~F~~~~~L~~~ 320 (353)
+++++--| +|=..|+.+|+..| | |+. .++.++..+||+.|...+|.-=++.|-+ ..
T Consensus 134 P~qLSGGQ-qQRVAIARALaM~P~vmLFDEPTSALDPElv~EVL~vm~~LA~eGmTMivVTHEM~FAr----------~V 202 (240)
T COG1126 134 PAQLSGGQ-QQRVAIARALAMDPKVMLFDEPTSALDPELVGEVLDVMKDLAEEGMTMIIVTHEMGFAR----------EV 202 (240)
T ss_pred ccccCcHH-HHHHHHHHHHcCCCCEEeecCCcccCCHHHHHHHHHHHHHHHHcCCeEEEEechhHHHH----------Hh
Confidence 44555555 33334666655543 2 333 4677888999999999999988888865 35
Q ss_pred ccceEEe
Q psy8456 321 AECVEKL 327 (353)
Q Consensus 321 ad~v~kl 327 (353)
||.|.-+
T Consensus 203 adrviFm 209 (240)
T COG1126 203 ADRVIFM 209 (240)
T ss_pred hheEEEe
Confidence 6666554
No 305
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=82.86 E-value=3.5 Score=41.26 Aligned_cols=61 Identities=21% Similarity=0.198 Sum_probs=36.7
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEeccc
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEGQ 232 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~IDE~Q 232 (353)
.+++||.|-||||-..=.++.. |-+ +.+-.|-.+ ....++..++...+.-||++|||+|
T Consensus 55 vLl~GPPGlGKTTLA~IIA~Em---gvn----------------~k~tsGp~l--eK~gDlaaiLt~Le~~DVLFIDEIH 113 (332)
T COG2255 55 VLLFGPPGLGKTTLAHIIANEL---GVN----------------LKITSGPAL--EKPGDLAAILTNLEEGDVLFIDEIH 113 (332)
T ss_pred EEeeCCCCCcHHHHHHHHHHHh---cCC----------------eEecccccc--cChhhHHHHHhcCCcCCeEEEehhh
Confidence 4689999999998543322221 111 111122110 1134566666667889999999999
Q ss_pred cc
Q psy8456 233 FV 234 (353)
Q Consensus 233 F~ 234 (353)
.+
T Consensus 114 rl 115 (332)
T COG2255 114 RL 115 (332)
T ss_pred hc
Confidence 96
No 306
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=82.82 E-value=2.7 Score=50.21 Aligned_cols=38 Identities=18% Similarity=0.105 Sum_probs=27.8
Q ss_pred cceeeeeccCCCCchhHHHHH---HHHH-HHhCCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTELIRR---IRRY-QYANYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~---~~~~-~~~~~~~~~~k~~ 187 (353)
+...+|.|+-|+||||-|-.. +..+ +..|.+|+.+-|+
T Consensus 852 dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPT 893 (1623)
T PRK14712 852 DRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPT 893 (1623)
T ss_pred CceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEech
Confidence 468899999999999986433 3333 2357888888874
No 307
>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=82.67 E-value=1.7 Score=39.49 Aligned_cols=38 Identities=18% Similarity=0.137 Sum_probs=32.3
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhC------CEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYAN------YRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~------~~~~~~k~~ 187 (353)
+++..|.||.+||||+-+++.+.+....+ .+|+.+...
T Consensus 19 g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e 62 (226)
T cd01393 19 GRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTE 62 (226)
T ss_pred CcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecC
Confidence 56889999999999999999998887776 788877653
No 308
>TIGR02858 spore_III_AA stage III sporulation protein AA. Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.
Probab=82.67 E-value=1.4 Score=42.92 Aligned_cols=22 Identities=36% Similarity=0.368 Sum_probs=16.7
Q ss_pred eeeeccCCCCchhHHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
..++||.+|||||-|---+...
T Consensus 114 ~~i~g~~g~GKttl~~~l~~~~ 135 (270)
T TIGR02858 114 TLIISPPQCGKTTLLRDLARIL 135 (270)
T ss_pred EEEEcCCCCCHHHHHHHHhCcc
Confidence 4799999999998765554444
No 309
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=82.65 E-value=2.5 Score=42.28 Aligned_cols=23 Identities=22% Similarity=0.037 Sum_probs=17.4
Q ss_pred eeeeeccCCCCchhHHHHHHHHH
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
..+++||-|+||||-....++..
T Consensus 40 ~~L~~Gp~G~GKTtla~~la~~l 62 (363)
T PRK14961 40 AWLLSGTRGVGKTTIARLLAKSL 62 (363)
T ss_pred EEEEecCCCCCHHHHHHHHHHHh
Confidence 45899999999998665555543
No 310
>PRK13973 thymidylate kinase; Provisional
Probab=82.57 E-value=1.9 Score=39.62 Aligned_cols=43 Identities=19% Similarity=0.147 Sum_probs=33.2
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRY 192 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~ 192 (353)
|..-++-|+-||||||..-+-...+..+|++|..++-.-+++.
T Consensus 3 g~~IviEG~dGsGKtTq~~~l~~~l~~~g~~~~~~~~p~~~~~ 45 (213)
T PRK13973 3 GRFITFEGGEGAGKSTQIRLLAERLRAAGYDVLVTREPGGSPG 45 (213)
T ss_pred ceEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEECCCCCch
Confidence 4466789999999999988877888889999987753334443
No 311
>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=82.57 E-value=2 Score=41.84 Aligned_cols=36 Identities=17% Similarity=0.108 Sum_probs=31.2
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEe
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVR 185 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k 185 (353)
+....++||.+|||||-+..-...+...|.+|.++.
T Consensus 34 ~~~i~i~G~~G~GKttl~~~l~~~~~~~~~~v~~i~ 69 (300)
T TIGR00750 34 AHRVGITGTPGAGKSTLLEALGMELRRRGLKVAVIA 69 (300)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence 455678999999999999888888888899998876
No 312
>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=82.56 E-value=1.5 Score=44.22 Aligned_cols=34 Identities=18% Similarity=0.198 Sum_probs=26.4
Q ss_pred eeeeccCCCCchhHHHHHHHHHH-HhCCEEEEEee
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQ-YANYRCMIVRY 186 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~-~~~~~~~~~k~ 186 (353)
-++.|+|||||||-.-....... ..|.+|.++..
T Consensus 2 ~~l~Gl~GaGKST~~~~l~~~l~~~~g~~v~~~~~ 36 (340)
T TIGR03575 2 CVLCGLPAAGKSTLARSLSATLRRERGWAVAVITY 36 (340)
T ss_pred eEEECCCCCCHHHHHHHHHHHHHhccCCeEEEEcc
Confidence 47899999999997655555665 57898888765
No 313
>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=82.33 E-value=0.69 Score=38.64 Aligned_cols=15 Identities=40% Similarity=0.452 Sum_probs=12.8
Q ss_pred eeeeccCCCCchhHH
Q psy8456 153 EVILGPMFSGKTTEL 167 (353)
Q Consensus 153 ~vi~G~M~sGKt~~L 167 (353)
.++.||.+|||||-.
T Consensus 2 ii~~G~pgsGKSt~a 16 (143)
T PF13671_consen 2 IILCGPPGSGKSTLA 16 (143)
T ss_dssp EEEEESTTSSHHHHH
T ss_pred EEEECCCCCCHHHHH
Confidence 578999999999863
No 314
>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=82.19 E-value=1.2 Score=36.12 Aligned_cols=20 Identities=40% Similarity=0.144 Sum_probs=14.8
Q ss_pred eeeccCCCCchhHHHHHHHH
Q psy8456 154 VILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 154 vi~G~M~sGKt~~Li~~~~~ 173 (353)
+|.|+|+|||||-+-.-..+
T Consensus 2 ~i~G~~GsGKtTia~~L~~~ 21 (129)
T PF13238_consen 2 GISGIPGSGKTTIAKELAER 21 (129)
T ss_dssp EEEESTTSSHHHHHHHHHHH
T ss_pred EEECCCCCCHHHHHHHHHHH
Confidence 68999999999855444444
No 315
>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=82.18 E-value=0.85 Score=37.98 Aligned_cols=23 Identities=39% Similarity=0.453 Sum_probs=18.2
Q ss_pred ccceeeeeccCCCCchhHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIR 172 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~ 172 (353)
.+++..|+|+.+|||||-| +.+.
T Consensus 10 ~g~~~~i~G~nGsGKStLl-~~l~ 32 (137)
T PF00005_consen 10 PGEIVAIVGPNGSGKSTLL-KALA 32 (137)
T ss_dssp TTSEEEEEESTTSSHHHHH-HHHT
T ss_pred CCCEEEEEccCCCccccce-eeec
Confidence 4778899999999999765 4443
No 316
>cd03279 ABC_sbcCD SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini.
Probab=82.17 E-value=0.81 Score=41.94 Aligned_cols=21 Identities=38% Similarity=0.412 Sum_probs=17.1
Q ss_pred cceeeeeccCCCCchhHHHHHH
Q psy8456 150 QEKEVILGPMFSGKTTELIRRI 171 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~ 171 (353)
++...++||++|||||-| +.+
T Consensus 28 ~~~~~i~G~NGsGKSTll-~~i 48 (213)
T cd03279 28 NGLFLICGPTGAGKSTIL-DAI 48 (213)
T ss_pred cCEEEEECCCCCCHHHHH-HHh
Confidence 568899999999999865 444
No 317
>PRK14530 adenylate kinase; Provisional
Probab=82.09 E-value=1.2 Score=40.86 Aligned_cols=23 Identities=22% Similarity=0.309 Sum_probs=18.9
Q ss_pred eeeeeccCCCCchhHHHHHHHHH
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
.-+++||++|||||-.-+-+++|
T Consensus 5 ~I~i~G~pGsGKsT~~~~La~~~ 27 (215)
T PRK14530 5 RILLLGAPGAGKGTQSSNLAEEF 27 (215)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 45889999999999877766666
No 318
>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=82.05 E-value=1.5 Score=37.38 Aligned_cols=36 Identities=22% Similarity=0.222 Sum_probs=27.8
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
...-++.+|+|||||--.+..+.++.. +++++-|..
T Consensus 25 ~~~~ll~~~tGsGKT~~~~~~~~~l~~---~~l~~~p~~ 60 (184)
T PF04851_consen 25 ERRVLLNAPTGSGKTIIALALILELAR---KVLIVAPNI 60 (184)
T ss_dssp CSEEEEEESTTSSHHHHHHHHHHHHHC---EEEEEESSH
T ss_pred CCCEEEEECCCCCcChhhhhhhhcccc---ceeEecCHH
Confidence 345688999999999888876666554 888888763
No 319
>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=82.00 E-value=0.76 Score=40.66 Aligned_cols=20 Identities=15% Similarity=0.091 Sum_probs=16.0
Q ss_pred cceeeeeccCCCCchhHHHH
Q psy8456 150 QEKEVILGPMFSGKTTELIR 169 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~ 169 (353)
+.+.++.|+++|||||-.-.
T Consensus 2 ~~~i~l~G~~gsGKst~a~~ 21 (175)
T cd00227 2 GRIIILNGGSSAGKSSIARA 21 (175)
T ss_pred CCEEEEECCCCCCHHHHHHH
Confidence 45788999999999985433
No 320
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=81.98 E-value=1 Score=47.52 Aligned_cols=22 Identities=32% Similarity=0.301 Sum_probs=16.8
Q ss_pred eeeeeccCCCCchhHHHHHHHH
Q psy8456 152 KEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~ 173 (353)
..+++||.|+||||-..--++.
T Consensus 42 a~Lf~GP~GtGKTTlAriLAk~ 63 (484)
T PRK14956 42 AYIFFGPRGVGKTTIARILAKR 63 (484)
T ss_pred EEEEECCCCCCHHHHHHHHHHh
Confidence 4589999999999865554443
No 321
>PF05729 NACHT: NACHT domain
Probab=81.93 E-value=2.7 Score=35.28 Aligned_cols=27 Identities=26% Similarity=0.111 Sum_probs=22.7
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhC
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYAN 178 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~ 178 (353)
.-+|+|+.|+||||-+.+.+..+...+
T Consensus 2 ~l~I~G~~G~GKStll~~~~~~~~~~~ 28 (166)
T PF05729_consen 2 VLWISGEPGSGKSTLLRKLAQQLAEEE 28 (166)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhcC
Confidence 347999999999999988888887665
No 322
>PRK06217 hypothetical protein; Validated
Probab=81.92 E-value=0.64 Score=41.55 Aligned_cols=21 Identities=33% Similarity=0.093 Sum_probs=15.6
Q ss_pred eeeeccCCCCchhHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~ 173 (353)
-+|+|+|+|||||---+-...
T Consensus 4 I~i~G~~GsGKSTla~~L~~~ 24 (183)
T PRK06217 4 IHITGASGSGTTTLGAALAER 24 (183)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 589999999999854444433
No 323
>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=81.76 E-value=1.3 Score=38.84 Aligned_cols=23 Identities=30% Similarity=0.345 Sum_probs=18.3
Q ss_pred eeeeeccCCCCchhHHHHHHHHH
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
+.++.||.||||||-+-+-+..|
T Consensus 5 ii~i~G~~GsGKsTl~~~l~~~~ 27 (188)
T TIGR01360 5 IIFIVGGPGSGKGTQCEKIVEKY 27 (188)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 56789999999999776665554
No 324
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=81.62 E-value=2.1 Score=44.26 Aligned_cols=35 Identities=29% Similarity=0.533 Sum_probs=25.9
Q ss_pred CCccEEEEccccChH-------HHHHHHHHHHhCCCEEEEEe
Q psy8456 71 KDIDVIGIDEGQFFP-------DVVSFAESMANAGKIVVVAA 105 (353)
Q Consensus 71 ~~~dvV~IDEaQFF~-------dIv~l~~~l~~~G~~VivaG 105 (353)
..+|+++|||+||+. .+..+.+.+.+.|+.+++.+
T Consensus 193 ~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIits 234 (440)
T PRK14088 193 KKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICS 234 (440)
T ss_pred hcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEEC
Confidence 368999999999982 25555666777888777654
No 325
>cd01127 TrwB Bacterial conjugation protein TrwB, ATP binding domain. TrwB is a homohexamer encoded by conjugative plasmids in Gram-negative bacteria. TrwB also has an all alpha domain which has been hypothesized to be responsible for DNA binding. TrwB is a component of Type IV secretion and is responsible for the horizontal transfer of DNA between bacteria.
Probab=81.61 E-value=1.7 Score=44.16 Aligned_cols=38 Identities=21% Similarity=0.219 Sum_probs=31.5
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCC
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDD 190 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~ 190 (353)
.+++|+++||||+-+-.-+.+....|.+++++-|.-+-
T Consensus 45 ~~i~g~tGsGKt~~i~~l~~~~~~~~~~~vi~D~kg~~ 82 (410)
T cd01127 45 TMIIGTTGTGKTTQIRELLASIRARGDRAIIYDPNGGF 82 (410)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCcch
Confidence 47899999999998766677777788999999987663
No 326
>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=81.45 E-value=6.1 Score=34.98 Aligned_cols=28 Identities=11% Similarity=0.135 Sum_probs=24.9
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEeec
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVRYA 37 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~Kp~ 37 (353)
=|||||-+-+.+.++..+|.+|.++|+.
T Consensus 9 gsGKTtl~~~l~~~l~~~G~~V~viK~~ 36 (155)
T TIGR00176 9 NSGKTTLIERLVKALKARGYRVATIKHD 36 (155)
T ss_pred CCCHHHHHHHHHHHHHhcCCeEEEEecc
Confidence 4899998888888888899999999984
No 327
>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional
Probab=81.40 E-value=1.6 Score=41.10 Aligned_cols=54 Identities=20% Similarity=0.256 Sum_probs=35.5
Q ss_pred HhhhhccccceEeccceecccccc-cc--ccccc-ccceeeeeccCCCCchhHHHHHHH
Q psy8456 118 ILSLIPLAECVEKLTAVCMSCFRD-AA--FTKRI-GQEKEVILGPMFSGKTTELIRRIR 172 (353)
Q Consensus 118 ~~~Ll~lAD~I~kL~AvC~~CG~~-A~--f~~Ri-~geI~vi~G~M~sGKt~~Li~~~~ 172 (353)
+..+++.+..+.+++.++...+.. .. .|..+ .|++..|+||.||||||-| +.+-
T Consensus 3 ~~~~~~~~~~~l~~~~l~~~~~~~~il~~isl~i~~Ge~~~i~G~nGsGKSTLl-~~l~ 60 (260)
T PRK10744 3 MMSMVATAPSKIQVRNLNFYYGKFHALKNINLDIAKNQVTAFIGPSGCGKSTLL-RTFN 60 (260)
T ss_pred hhhHhcCCCceEEEEEEEEEeCCeEEeeceeEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence 445677777777888777655532 11 12332 4678899999999999754 4443
No 328
>PRK14737 gmk guanylate kinase; Provisional
Probab=81.36 E-value=3.4 Score=37.65 Aligned_cols=21 Identities=24% Similarity=0.191 Sum_probs=15.9
Q ss_pred cceeeeeccCCCCchhHHHHHH
Q psy8456 150 QEKEVILGPMFSGKTTELIRRI 171 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~ 171 (353)
+.+-+++||.||||||- ++++
T Consensus 4 ~~~ivl~GpsG~GK~tl-~~~l 24 (186)
T PRK14737 4 PKLFIISSVAGGGKSTI-IQAL 24 (186)
T ss_pred CeEEEEECCCCCCHHHH-HHHH
Confidence 45678999999999864 4444
No 329
>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]
Probab=81.13 E-value=0.89 Score=44.19 Aligned_cols=48 Identities=19% Similarity=0.236 Sum_probs=32.7
Q ss_pred cCCCCCCCCc------cHHHHHHHHH-hCCCEEEEEeccccccCCCchhHHhhhhcccceEEeee
Q psy8456 272 LNVPPPPEFP------DVVSFAESMA-NAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTA 329 (353)
Q Consensus 272 ~~~~~~~~f~------~~~~~~~~~~-~~g~~Vi~~gLd~df~~~~F~~~~~L~~~ad~v~kl~a 329 (353)
+-.|||--|= ++.+.+.+++ ++|+.|++.==|-++ -..+||.+.-|+.
T Consensus 160 LLLDEPTs~LDi~~Q~evl~ll~~l~~~~~~tvv~vlHDlN~----------A~ryad~~i~lk~ 214 (258)
T COG1120 160 LLLDEPTSHLDIAHQIEVLELLRDLNREKGLTVVMVLHDLNL----------AARYADHLILLKD 214 (258)
T ss_pred EEeCCCccccCHHHHHHHHHHHHHHHHhcCCEEEEEecCHHH----------HHHhCCEEEEEEC
Confidence 4567776663 4778888888 568888776555432 3467888887764
No 330
>PRK00625 shikimate kinase; Provisional
Probab=81.08 E-value=0.71 Score=41.76 Aligned_cols=17 Identities=24% Similarity=0.006 Sum_probs=13.4
Q ss_pred eeeeccCCCCchhHHHH
Q psy8456 153 EVILGPMFSGKTTELIR 169 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~ 169 (353)
-+++|.|+|||||---.
T Consensus 3 I~LiG~pGsGKTT~~k~ 19 (173)
T PRK00625 3 IFLCGLPTVGKTSFGKA 19 (173)
T ss_pred EEEECCCCCCHHHHHHH
Confidence 47899999999985433
No 331
>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=81.05 E-value=0.98 Score=40.95 Aligned_cols=25 Identities=28% Similarity=0.115 Sum_probs=19.5
Q ss_pred cccc-ccceeeeeccCCCCchhHHHH
Q psy8456 145 TKRI-GQEKEVILGPMFSGKTTELIR 169 (353)
Q Consensus 145 ~~Ri-~geI~vi~G~M~sGKt~~Li~ 169 (353)
++++ .+++..++||.+|||||-|--
T Consensus 15 sl~i~~G~~~~l~G~nG~GKSTLl~~ 40 (176)
T cd03238 15 DVSIPLNVLVVVTGVSGSGKSTLVNE 40 (176)
T ss_pred EEEEcCCCEEEEECCCCCCHHHHHHH
Confidence 4444 467889999999999998743
No 332
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=81.04 E-value=4.7 Score=41.79 Aligned_cols=84 Identities=14% Similarity=0.159 Sum_probs=47.3
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHHh--CCEEEEEeeecCCCCCC-Cce---eeccCcccceee-cccHhhhcccCC
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQYA--NYRCMIVRYAKDDRYDT-EKV---STHDQQKLTAVS-AVELNKLIPHTK 221 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~~--~~~~~~~k~~~D~R~~~-~~i---~s~~g~~~~a~~-~~~~~~~~~~~~ 221 (353)
.+++..++||.|+||||-|..-+.++... +.++.++... ..|.+. +.. ...-|.....+. ..++...+....
T Consensus 190 ~g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d-~~rigalEQL~~~a~ilGvp~~~v~~~~dl~~al~~l~ 268 (420)
T PRK14721 190 QGGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTD-SYRIGGHEQLRIYGKLLGVSVRSIKDIADLQLMLHELR 268 (420)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecC-CcchhHHHHHHHHHHHcCCceecCCCHHHHHHHHHHhc
Confidence 35678899999999999998888776432 3566555431 234431 111 111122211111 112222234467
Q ss_pred CccEEEEecccc
Q psy8456 222 DIDVIGIDEGQF 233 (353)
Q Consensus 222 ~~~~i~IDE~QF 233 (353)
+.|+|+||.+=+
T Consensus 269 ~~d~VLIDTaGr 280 (420)
T PRK14721 269 GKHMVLIDTVGM 280 (420)
T ss_pred CCCEEEecCCCC
Confidence 899999999755
No 333
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=81.03 E-value=5.8 Score=40.73 Aligned_cols=159 Identities=16% Similarity=0.149 Sum_probs=89.9
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEeeccCCC----------CCCCceee-c-cC-Cceee-eecCChhhhcccCCCccE
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVRYAKDDR----------YDTEKVAT-H-DQ-QKLTA-VSAVELNKLIPHTKDIDV 75 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtR----------y~~~~I~S-r-~G-~~~~A-i~i~~l~ei~~~~~~~dv 75 (353)
-||||+-+.+.+.....+|-+|.+..|.+|-= ++.-.|.- | ++ -...| ..+.....++...+-+|+
T Consensus 126 GaGKTEMif~~i~~al~~G~~vciASPRvDVclEl~~Rlk~aF~~~~I~~Lyg~S~~~fr~plvVaTtHQLlrFk~aFD~ 205 (441)
T COG4098 126 GAGKTEMIFQGIEQALNQGGRVCIASPRVDVCLELYPRLKQAFSNCDIDLLYGDSDSYFRAPLVVATTHQLLRFKQAFDL 205 (441)
T ss_pred CCCchhhhHHHHHHHHhcCCeEEEecCcccchHHHHHHHHHhhccCCeeeEecCCchhccccEEEEehHHHHHHHhhccE
Confidence 48999999999999999999999999998852 12112221 1 11 01112 112222333334567999
Q ss_pred EEEccccChH----HHHHH-HHHHH-hCCCEEEEEeccccc-ccCCchhHhhhhccccceEeccc-----------eecc
Q psy8456 76 IGIDEGQFFP----DVVSF-AESMA-NAGKIVVVAALDGTF-QRTGFNDILSLIPLAECVEKLTA-----------VCMS 137 (353)
Q Consensus 76 V~IDEaQFF~----dIv~l-~~~l~-~~G~~VivaGLd~DF-r~~pF~~~~~Ll~lAD~I~kL~A-----------vC~~ 137 (353)
++|||+.=|| +-.++ ++... ..|-.+++.+-.++= .++.=.+-. ...+|.+ .|+
T Consensus 206 liIDEVDAFP~~~d~~L~~Av~~ark~~g~~IylTATp~k~l~r~~~~g~~-------~~~klp~RfH~~pLpvPkf~w- 277 (441)
T COG4098 206 LIIDEVDAFPFSDDQSLQYAVKKARKKEGATIYLTATPTKKLERKILKGNL-------RILKLPARFHGKPLPVPKFVW- 277 (441)
T ss_pred EEEeccccccccCCHHHHHHHHHhhcccCceEEEecCChHHHHHHhhhCCe-------eEeecchhhcCCCCCCCceEE-
Confidence 9999999997 33333 34444 457778777643310 011000000 1123322 232
Q ss_pred cccccccccccccceeeeeccCCCCc-hhHHHHHHHHHHHhCCEEEEEeeecCC
Q psy8456 138 CFRDAAFTKRIGQEKEVILGPMFSGK-TTELIRRIRRYQYANYRCMIVRYAKDD 190 (353)
Q Consensus 138 CG~~A~f~~Ri~geI~vi~G~M~sGK-t~~Li~~~~~~~~~~~~~~~~k~~~D~ 190 (353)
||.- +..+. -+| +..|.+.+......|+-+++|-|.+..
T Consensus 278 ~~~~---~k~l~-----------r~kl~~kl~~~lekq~~~~~P~liF~p~I~~ 317 (441)
T COG4098 278 IGNW---NKKLQ-----------RNKLPLKLKRWLEKQRKTGRPVLIFFPEIET 317 (441)
T ss_pred eccH---HHHhh-----------hccCCHHHHHHHHHHHhcCCcEEEEecchHH
Confidence 3321 11110 122 236888888888899999999998743
No 334
>PTZ00088 adenylate kinase 1; Provisional
Probab=80.96 E-value=1.2 Score=42.20 Aligned_cols=22 Identities=23% Similarity=0.055 Sum_probs=18.6
Q ss_pred eeeeccCCCCchhHHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
-+++|||+|||||.--+-+.+|
T Consensus 9 Ivl~G~PGsGK~T~a~~La~~~ 30 (229)
T PTZ00088 9 IVLFGAPGVGKGTFAEILSKKE 30 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5789999999999877776665
No 335
>PF02223 Thymidylate_kin: Thymidylate kinase; InterPro: IPR018094 Thymidylate kinase (2.7.4.9 from EC; dTMP kinase) catalyzes the phosphorylation of thymidine 5'-monophosphate (dTMP) to form thymidine 5'-diphosphate (dTDP) in the presence of ATP and magnesium: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate Thymidylate kinase is an ubiquitous enzyme of about 25 Kd and is important in the dTTP synthesis pathway for DNA synthesis. The function of dTMP kinase in eukaryotes comes from the study of a cell cycle mutant, cdc8, in Saccharomyces cerevisiae. Structural and functional analyses suggest that the cDNA codes for authentic human dTMP kinase. The mRNA levels and enzyme activities corresponded to cell cycle progression and cell growth stages[]. ; GO: 0004798 thymidylate kinase activity, 0005524 ATP binding, 0006233 dTDP biosynthetic process; PDB: 2PLR_B 1NMX_A 1NN0_A 2XX3_A 1NN3_A 1E9F_A 1E2Q_A 1E2D_A 1E9A_A 1E99_A ....
Probab=80.93 E-value=2 Score=38.00 Aligned_cols=38 Identities=21% Similarity=0.128 Sum_probs=30.7
Q ss_pred eccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCC
Q psy8456 156 LGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYD 193 (353)
Q Consensus 156 ~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~ 193 (353)
=|+=||||||..-...+.+...|.++++..|.-++..+
T Consensus 2 EGiDGsGKtT~~~~L~~~l~~~~~~~~~~~~~~~~~~g 39 (186)
T PF02223_consen 2 EGIDGSGKTTQIRLLAEALKEKGYKVIITFPPGSTPIG 39 (186)
T ss_dssp EESTTSSHHHHHHHHHHHHHHTTEEEEEEESSTSSHHH
T ss_pred CCCCCCCHHHHHHHHHHHHHHcCCcccccCCCCCChHH
Confidence 37889999999888888889999998888886655543
No 336
>TIGR00347 bioD dethiobiotin synthase. Dethiobiotin synthase is involved in biotin biosynthesis and catalyses the reaction (CO2 + 7,8-diaminononanoate + ATP = dethiobiotin + phosphate + ADP). The enzyme binds ATP (see motif in first 12 residues of the SEED alignment) and requires magnesium as a co-factor.
Probab=80.90 E-value=2.1 Score=37.22 Aligned_cols=34 Identities=18% Similarity=0.142 Sum_probs=29.6
Q ss_pred eecc-CCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 155 ILGP-MFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 155 i~G~-M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
|+|. .++|||+-.+--++.++.+|++|.++||..
T Consensus 2 I~~t~~~~GKT~va~~L~~~l~~~g~~V~~~kP~~ 36 (166)
T TIGR00347 2 VTGTDTGVGKTVASSALAAKLKKAGYSVGYYKPVQ 36 (166)
T ss_pred eecCCCCccHHHHHHHHHHHHHHCCCcEEEEEeee
Confidence 3444 689999999999999999999999999876
No 337
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=80.85 E-value=1.4 Score=47.83 Aligned_cols=38 Identities=21% Similarity=0.440 Sum_probs=29.7
Q ss_pred ccCCCccEEEEccccChH-------HHHHHHHHHHhCCCEEEEEe
Q psy8456 68 PHTKDIDVIGIDEGQFFP-------DVVSFAESMANAGKIVVVAA 105 (353)
Q Consensus 68 ~~~~~~dvV~IDEaQFF~-------dIv~l~~~l~~~G~~VivaG 105 (353)
..+.++|+++||++||+. .+..+.+.+.+.|+.|++.+
T Consensus 373 ~~y~~~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITS 417 (617)
T PRK14086 373 RRYREMDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSS 417 (617)
T ss_pred HHhhcCCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEec
Confidence 345679999999999993 36677788888899888754
No 338
>PHA02653 RNA helicase NPH-II; Provisional
Probab=80.80 E-value=2.4 Score=46.35 Aligned_cols=29 Identities=34% Similarity=0.362 Sum_probs=20.1
Q ss_pred cCCCccEEEEecccccceecCCccchhhhhh
Q psy8456 219 HTKDIDVIGIDEGQFVEVIGGSDKYMAVCRE 249 (353)
Q Consensus 219 ~~~~~~~i~IDE~QF~~~~~~~~~~~~~~~~ 249 (353)
..+++++|+|||+|-+...| |.-..++++
T Consensus 288 ~L~~v~~VVIDEaHEr~~~~--DllL~llk~ 316 (675)
T PHA02653 288 KLFDYGTVIIDEVHEHDQIG--DIIIAVARK 316 (675)
T ss_pred ccccCCEEEccccccCccch--hHHHHHHHH
Confidence 35789999999999765443 544555553
No 339
>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional
Probab=80.70 E-value=1.6 Score=40.83 Aligned_cols=48 Identities=21% Similarity=0.323 Sum_probs=29.5
Q ss_pred ccceEeccceecccccc-c--cccccc-ccceeeeeccCCCCchhHHHHHHHH
Q psy8456 125 AECVEKLTAVCMSCFRD-A--AFTKRI-GQEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 125 AD~I~kL~AvC~~CG~~-A--~f~~Ri-~geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
++.+.+++.++...+.. . ..|+.+ .|++..++||.|||||| |++.+..
T Consensus 4 ~~~~l~~~~l~~~~~~~~il~~vs~~i~~Ge~~~i~G~nGsGKST-Ll~~l~G 55 (254)
T PRK14273 4 NEAIIETENLNLFYTDFKALNNINIKILKNSITALIGPSGCGKST-FLRTLNR 55 (254)
T ss_pred CCceEEEeeeEEEeCCceeecceeeEEcCCCEEEEECCCCCCHHH-HHHHHhc
Confidence 34455566666544432 1 123444 57788999999999998 4555443
No 340
>PRK08116 hypothetical protein; Validated
Probab=80.63 E-value=2.5 Score=40.74 Aligned_cols=88 Identities=11% Similarity=0.056 Sum_probs=46.8
Q ss_pred CCCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCcee-eccCCceeeeecCChhhhcccCCCccEEEEccccCh--H
Q psy8456 9 RINPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVA-THDQQKLTAVSAVELNKLIPHTKDIDVIGIDEGQFF--P 85 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~-Sr~G~~~~Ai~i~~l~ei~~~~~~~dvV~IDEaQFF--~ 85 (353)
.-+|||.-+-..++.+..+|.+|+++... |- -..+. +..+. .-.+..+++....++|+++||+.+.- +
T Consensus 123 ~GtGKThLa~aia~~l~~~~~~v~~~~~~-~l---l~~i~~~~~~~-----~~~~~~~~~~~l~~~dlLviDDlg~e~~t 193 (268)
T PRK08116 123 VGTGKTYLAACIANELIEKGVPVIFVNFP-QL---LNRIKSTYKSS-----GKEDENEIIRSLVNADLLILDDLGAERDT 193 (268)
T ss_pred CCCCHHHHHHHHHHHHHHcCCeEEEEEHH-HH---HHHHHHHHhcc-----ccccHHHHHHHhcCCCEEEEecccCCCCC
Confidence 34788766666666666667776555421 10 00010 00000 00122234444567899999999653 2
Q ss_pred -----HHHHHHHHHHhCCCEEEEEe
Q psy8456 86 -----DVVSFAESMANAGKIVVVAA 105 (353)
Q Consensus 86 -----dIv~l~~~l~~~G~~VivaG 105 (353)
.+.++++...+.|+++|+.+
T Consensus 194 ~~~~~~l~~iin~r~~~~~~~IiTs 218 (268)
T PRK08116 194 EWAREKVYNIIDSRYRKGLPTIVTT 218 (268)
T ss_pred HHHHHHHHHHHHHHHHCCCCEEEEC
Confidence 34555555556788888776
No 341
>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=80.55 E-value=3 Score=39.21 Aligned_cols=41 Identities=17% Similarity=0.073 Sum_probs=35.3
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHHh-CCEEEEEeeecC
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQYA-NYRCMIVRYAKD 189 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~~-~~~~~~~k~~~D 189 (353)
.+++.+|-|..++|||+-+++.+.++... |.+|++|.....
T Consensus 18 ~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~ 59 (259)
T PF03796_consen 18 PGELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEMS 59 (259)
T ss_dssp TT-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS-
T ss_pred cCcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCCC
Confidence 36789999999999999999999999887 699999998653
No 342
>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional
Probab=80.55 E-value=6.1 Score=37.70 Aligned_cols=28 Identities=7% Similarity=0.074 Sum_probs=25.8
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEeec
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVRYA 37 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~Kp~ 37 (353)
=|||||-+-+.+.++..+|.+|.++||.
T Consensus 11 gsGKTtl~~~l~~~L~~~G~~V~viK~~ 38 (229)
T PRK14494 11 DSGKTTLIEKILKNLKERGYRVATAKHT 38 (229)
T ss_pred CChHHHHHHHHHHHHHhCCCeEEEEEec
Confidence 5899999999999999999999999974
No 343
>KOG0926|consensus
Probab=80.48 E-value=1.4 Score=49.20 Aligned_cols=28 Identities=29% Similarity=0.268 Sum_probs=23.4
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCC
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANY 179 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~ 179 (353)
..+|.|..||||||++=+-++.+-++..
T Consensus 273 vvIIcGeTGsGKTTQvPQFLYEAGf~s~ 300 (1172)
T KOG0926|consen 273 VVIICGETGSGKTTQVPQFLYEAGFASE 300 (1172)
T ss_pred eEEEecCCCCCccccchHHHHHcccCCc
Confidence 5678999999999999999988755543
No 344
>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=80.44 E-value=5.7 Score=37.30 Aligned_cols=30 Identities=7% Similarity=-0.138 Sum_probs=22.1
Q ss_pred CCchHHHHHHHHHHHHHcC--ceEEEEeeccC
Q psy8456 10 INPYIVHFCRRIRRYQYAN--YRCMIVRYAKD 39 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~ag--kkvlv~Kp~iD 39 (353)
=+|||.-.+..+...-..| +++++.+|...
T Consensus 29 GTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~ 60 (205)
T PF02562_consen 29 GTGKTFLALAAALELVKEGEYDKIIITRPPVE 60 (205)
T ss_dssp TSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--
T ss_pred CCcHHHHHHHHHHHHHHhCCCcEEEEEecCCC
Confidence 3799998888887776656 58999999885
No 345
>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=80.35 E-value=1.2 Score=39.01 Aligned_cols=21 Identities=33% Similarity=0.180 Sum_probs=16.1
Q ss_pred cceeeeeccCCCCchhHHHHH
Q psy8456 150 QEKEVILGPMFSGKTTELIRR 170 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~ 170 (353)
|.+.+++||.+|||||-+-.-
T Consensus 1 g~ii~l~G~~GsGKsTl~~~L 21 (180)
T TIGR03263 1 GLLIVISGPSGVGKSTLVKAL 21 (180)
T ss_pred CcEEEEECCCCCCHHHHHHHH
Confidence 356789999999999944333
No 346
>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=80.32 E-value=1.9 Score=41.47 Aligned_cols=40 Identities=23% Similarity=0.223 Sum_probs=30.1
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCC
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRY 192 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~ 192 (353)
-+++|+-||||||-++.-++.....=..++++.|....-|
T Consensus 16 ~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t~~~n~~~ 55 (241)
T PF04665_consen 16 MVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLITPEYNNEY 55 (241)
T ss_pred EEEECCCCCCHHHHHHHHHHhhcccCCEEEEEecCCchhh
Confidence 4799999999999888888765544467778888555444
No 347
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=80.32 E-value=2.5 Score=49.45 Aligned_cols=24 Identities=33% Similarity=0.314 Sum_probs=19.4
Q ss_pred cceeeeeccCCCCchhHHHHHHHH
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
+...++.|+.||||||.|=+.+..
T Consensus 82 ~~vvii~g~TGSGKTTqlPq~lle 105 (1283)
T TIGR01967 82 NQVVIIAGETGSGKTTQLPKICLE 105 (1283)
T ss_pred CceEEEeCCCCCCcHHHHHHHHHH
Confidence 356789999999999998766654
No 348
>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=80.19 E-value=2 Score=40.16 Aligned_cols=35 Identities=17% Similarity=0.068 Sum_probs=26.2
Q ss_pred CCccEEEEccccChH-HHHHHHHHHHhCCCEEEEEe
Q psy8456 71 KDIDVIGIDEGQFFP-DVVSFAESMANAGKIVVVAA 105 (353)
Q Consensus 71 ~~~dvV~IDEaQFF~-dIv~l~~~l~~~G~~VivaG 105 (353)
..++.|+|||+|=++ -...+...+...+..+++.|
T Consensus 255 ~~~~~i~IDE~QD~s~~Q~~il~~l~~~~~~~~~vG 290 (315)
T PF00580_consen 255 QRYDHILIDEFQDTSPLQLRILKKLFKNPENLFIVG 290 (315)
T ss_dssp HHSSEEEESSGGG-BHHHHHHHHHHHTTTTTEEEEE
T ss_pred hhCCeEEeEccccCCHHHHHHHHHHHHhhceeEEeC
Confidence 468999999999997 55678888887765566655
No 349
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=80.17 E-value=1 Score=42.99 Aligned_cols=65 Identities=18% Similarity=0.257 Sum_probs=41.0
Q ss_pred ccCCCCCcchHHHHHHHhhccCCCCCCCCc-------------cHHHHHHHHH-hCCCEEEEEeccccccCCCchhHHhh
Q psy8456 252 KQKAPIKRSPFKTLANENAALNVPPPPEFP-------------DVVSFAESMA-NAGKIVVVAALDGTFQRTGFNDILSL 317 (353)
Q Consensus 252 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~f~-------------~~~~~~~~~~-~~g~~Vi~~gLd~df~~~~F~~~~~L 317 (353)
+.+.+++--| +|=..++.++.-+|+-.+. .+++...+++ +.|+.|+++-=|. .|
T Consensus 138 ~~p~eLSGGq-qQRVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~~~g~tii~VTHd~-----------~l 205 (226)
T COG1136 138 KKPSELSGGQ-QQRVAIARALINNPKIILADEPTGNLDSKTAKEVLELLRELNKERGKTIIMVTHDP-----------EL 205 (226)
T ss_pred CCchhcCHHH-HHHHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHHHhcCCEEEEEcCCH-----------HH
Confidence 3455556555 3444566666655555441 3778888887 4588988886553 46
Q ss_pred hhcccceEEee
Q psy8456 318 IPLAECVEKLT 328 (353)
Q Consensus 318 ~~~ad~v~kl~ 328 (353)
..+||.+..+.
T Consensus 206 A~~~dr~i~l~ 216 (226)
T COG1136 206 AKYADRVIELK 216 (226)
T ss_pred HHhCCEEEEEe
Confidence 66778777664
No 350
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=80.16 E-value=1.6 Score=41.98 Aligned_cols=66 Identities=21% Similarity=0.070 Sum_probs=35.8
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhc---ccCCCccEEE
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLI---PHTKDIDVIG 227 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~---~~~~~~~~i~ 227 (353)
..-+++||-|+|||+-+-...+. .+..+..+.+.. .+. +.+ + ..+.+.. +...+.++|+
T Consensus 44 ~~lll~G~~G~GKT~la~~l~~~---~~~~~~~i~~~~-~~~--~~i--~----------~~l~~~~~~~~~~~~~~vli 105 (316)
T PHA02544 44 NMLLHSPSPGTGKTTVAKALCNE---VGAEVLFVNGSD-CRI--DFV--R----------NRLTRFASTVSLTGGGKVII 105 (316)
T ss_pred eEEEeeCcCCCCHHHHHHHHHHH---hCccceEeccCc-ccH--HHH--H----------HHHHHHHHhhcccCCCeEEE
Confidence 45667899999999754443332 245555555432 110 000 0 0111111 1224678999
Q ss_pred Eeccccc
Q psy8456 228 IDEGQFV 234 (353)
Q Consensus 228 IDE~QF~ 234 (353)
|||+|.+
T Consensus 106 iDe~d~l 112 (316)
T PHA02544 106 IDEFDRL 112 (316)
T ss_pred EECcccc
Confidence 9999985
No 351
>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase. Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.
Probab=80.15 E-value=2.6 Score=42.17 Aligned_cols=81 Identities=25% Similarity=0.197 Sum_probs=41.6
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCC-CC--ceeeccCcccceeecccHhhhccc--CCCccE
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYD-TE--KVSTHDQQKLTAVSAVELNKLIPH--TKDIDV 225 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~-~~--~i~s~~g~~~~a~~~~~~~~~~~~--~~~~~~ 225 (353)
...+++|+++|||||-| +.+-.+.....+.+.+.....-... .+ .+.++.... +......+.+++.. -.++|.
T Consensus 179 ~~ili~G~tGsGKTTll-~al~~~i~~~~riv~iEd~~El~~~~~~~~~l~~r~~~~-~g~~~~t~~~ll~~aLR~~PD~ 256 (340)
T TIGR03819 179 LAFLISGGTGSGKTTLL-SALLALVAPDERIVLVEDAAELRPDHPHVVRLEARPANV-EGAGAVTLTDLVRQALRMRPDR 256 (340)
T ss_pred CeEEEECCCCCCHHHHH-HHHHccCCCCCcEEEECCcceecCCCCCeeeEEeccccc-cCcCccCHHHHHHHHhccCCCe
Confidence 35689999999998865 4444443344555544322211111 11 112222110 00112234455432 368999
Q ss_pred EEEecccc
Q psy8456 226 IGIDEGQF 233 (353)
Q Consensus 226 i~IDE~QF 233 (353)
|+|.|+.=
T Consensus 257 IivGEiRg 264 (340)
T TIGR03819 257 IVVGEVRG 264 (340)
T ss_pred EEEeCcCc
Confidence 99999874
No 352
>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=80.10 E-value=2.3 Score=44.05 Aligned_cols=135 Identities=20% Similarity=0.183 Sum_probs=73.5
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHH-HhCCEEEEEeeecCCCCCC--Cce---eeccCcccceee-cccHhhh----cc-
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQ-YANYRCMIVRYAKDDRYDT--EKV---STHDQQKLTAVS-AVELNKL----IP- 218 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~-~~~~~~~~~k~~~D~R~~~--~~i---~s~~g~~~~a~~-~~~~~~~----~~- 218 (353)
.+.+++|+-||||||-...-+..+. ..|++|+++. .|++-.. +.. ..+.|...-... ..+..++ +.
T Consensus 100 ~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~--~D~~R~~a~~QL~~~a~~~gvp~~~~~~~~~P~~i~~~al~~ 177 (428)
T TIGR00959 100 TVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVA--CDLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRALEY 177 (428)
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEe--ccccchHHHHHHHHHHHhcCCceEecCCCCCHHHHHHHHHHH
Confidence 4678999999999999999988875 5799999884 4654321 111 111221111110 1122222 22
Q ss_pred -cCCCccEEEEecccccceecCCccchhhhhhhhccCCCCCcchHHHHHHHhhccCCCC------CCCCccHHHHHHHHH
Q psy8456 219 -HTKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANENAALNVPP------PPEFPDVVSFAESMA 291 (353)
Q Consensus 219 -~~~~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~------~~~f~~~~~~~~~~~ 291 (353)
..+++|+|+||=+=.+ +.....+.+|..+.+.++.++ +..-.+.++.+....
T Consensus 178 ~~~~~~DvVIIDTaGr~---------------------~~d~~l~~eL~~i~~~~~p~e~lLVvda~tgq~~~~~a~~f~ 236 (428)
T TIGR00959 178 AKENGFDVVIVDTAGRL---------------------QIDEELMEELAAIKEILNPDEILLVVDAMTGQDAVNTAKTFN 236 (428)
T ss_pred HHhcCCCEEEEeCCCcc---------------------ccCHHHHHHHHHHHHhhCCceEEEEEeccchHHHHHHHHHHH
Confidence 1467999999987653 123445555555555332211 111135666665554
Q ss_pred h-CCC-EEEEEeccccccC
Q psy8456 292 N-AGK-IVVVAALDGTFQR 308 (353)
Q Consensus 292 ~-~g~-~Vi~~gLd~df~~ 308 (353)
+ .++ -||+--||+|-++
T Consensus 237 ~~v~i~giIlTKlD~~~~~ 255 (428)
T TIGR00959 237 ERLGLTGVVLTKLDGDARG 255 (428)
T ss_pred hhCCCCEEEEeCccCcccc
Confidence 2 233 3556666665443
No 353
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=79.94 E-value=5.8 Score=41.01 Aligned_cols=39 Identities=13% Similarity=-0.038 Sum_probs=25.7
Q ss_pred eeeeeccCCCCchhHHHHHHHHH---HHhCCEEEEEeeecCC
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRY---QYANYRCMIVRYAKDD 190 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~---~~~~~~~~~~k~~~D~ 190 (353)
+..+.|+-|||||.-.+...-.. +..-+|+++++|...-
T Consensus 247 lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpv 288 (436)
T COG1875 247 LVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPV 288 (436)
T ss_pred eEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCc
Confidence 55679999999996544433222 2234788888887643
No 354
>cd03109 DTBS Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and carbon dioxide. The enzyme utilizes carbon dioxide instead of hydrogen carbonate as substrate and is dependent on ATP and divalent metal ions as cofactors.
Probab=79.92 E-value=19 Score=30.83 Aligned_cols=89 Identities=12% Similarity=0.038 Sum_probs=55.6
Q ss_pred CchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCceeeccCCceeeeecCChhhhcccCCCccEEEEccccChH--HHH
Q psy8456 11 NPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEGQFFP--DVV 88 (353)
Q Consensus 11 ~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai~i~~l~ei~~~~~~~dvV~IDEaQFF~--dIv 88 (353)
+|||+=.+.-++.++.+|.+|..|||..+ +.-=-|..--|...+...-.+..++.... +..+|+|--.+.-. +..
T Consensus 10 ~Gkt~~~~~l~~~l~~~~~~v~~~kp~~~--~d~vliEGaGg~~~p~~~~~~~~d~~~~~-~~~vllV~~~~~g~i~~a~ 86 (134)
T cd03109 10 IGKTVATAILARALKEKGYRVAPLKPVQT--YDFVLVEGAGGLCVPLKEDFTNADVAKEL-NLPAILVTSAGLGSINHAF 86 (134)
T ss_pred cCHHHHHHHHHHHHHHCCCeEEEEecCCC--CCEEEEECCCccccCCCCCCCHHHHHHHh-CCCEEEEEcCCCCcHhHHH
Confidence 99999999999999999999999999887 21001222223332222212333443333 45688888666653 455
Q ss_pred HHHHHHHhCCCEEE
Q psy8456 89 SFAESMANAGKIVV 102 (353)
Q Consensus 89 ~l~~~l~~~G~~Vi 102 (353)
-..+.+...|+++.
T Consensus 87 ~~~~~l~~~g~~i~ 100 (134)
T cd03109 87 LTIEAARIKGIILN 100 (134)
T ss_pred HHHHHHHhcCCcee
Confidence 55566677787754
No 355
>PRK13948 shikimate kinase; Provisional
Probab=79.86 E-value=1.1 Score=40.95 Aligned_cols=23 Identities=22% Similarity=0.036 Sum_probs=16.5
Q ss_pred ceeeeeccCCCCchhHHHHHHHH
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
..-+++|.|+|||||---....+
T Consensus 11 ~~I~LiG~~GsGKSTvg~~La~~ 33 (182)
T PRK13948 11 TWVALAGFMGTGKSRIGWELSRA 33 (182)
T ss_pred CEEEEECCCCCCHHHHHHHHHHH
Confidence 45688999999999865444333
No 356
>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=79.84 E-value=2.4 Score=44.20 Aligned_cols=38 Identities=16% Similarity=0.112 Sum_probs=32.6
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHh-CCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYA-NYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~-~~~~~~~k~~ 187 (353)
+...++.||.+|||||-.++-+.+...+ |.+|+.+.-.
T Consensus 21 g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~e 59 (484)
T TIGR02655 21 GRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFE 59 (484)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEe
Confidence 4678999999999999999999887555 8999988864
No 357
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=79.70 E-value=8.7 Score=36.07 Aligned_cols=32 Identities=19% Similarity=0.100 Sum_probs=25.9
Q ss_pred eeeccCCCCchhHHHHHHHHHHHhCCEEEEEe
Q psy8456 154 VILGPMFSGKTTELIRRIRRYQYANYRCMIVR 185 (353)
Q Consensus 154 vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k 185 (353)
-.+|..+|||||-.-...+.....|+++.++.
T Consensus 27 W~TGLSGsGKSTiA~ale~~L~~~G~~~y~LD 58 (197)
T COG0529 27 WFTGLSGSGKSTIANALEEKLFAKGYHVYLLD 58 (197)
T ss_pred EeecCCCCCHHHHHHHHHHHHHHcCCeEEEec
Confidence 46899999999976666667788899888764
No 358
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=79.69 E-value=0.99 Score=39.11 Aligned_cols=37 Identities=16% Similarity=0.045 Sum_probs=19.6
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
.+.+-+..|+|+|||||-.-.-++.. |..-.+..|+.
T Consensus 14 ~g~vi~L~GdLGaGKTtf~r~l~~~l---g~~~~V~SPTF 50 (123)
T PF02367_consen 14 PGDVILLSGDLGAGKTTFVRGLARAL---GIDEEVTSPTF 50 (123)
T ss_dssp S-EEEEEEESTTSSHHHHHHHHHHHT---T--S----TTT
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHc---CCCCCcCCCCe
Confidence 35677889999999997644443333 33224445543
No 359
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=79.51 E-value=3.6 Score=42.16 Aligned_cols=82 Identities=17% Similarity=0.197 Sum_probs=50.5
Q ss_pred CCchHHHHHHHHHHHHH----cCceEEEEeeccCC-CCCC-Cceee---ccCCceeeeecCChhhhc---ccCCCccEEE
Q psy8456 10 INPYIVHFCRRIRRYQY----ANYRCMIVRYAKDD-RYDT-EKVAT---HDQQKLTAVSAVELNKLI---PHTKDIDVIG 77 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~----agkkvlv~Kp~iDt-Ry~~-~~I~S---r~G~~~~Ai~i~~l~ei~---~~~~~~dvV~ 77 (353)
-+||||-+.+.+.+|.. .|++|.++.- |+ |.+. ....+ ..|..+.+ ..+..++. ....++|+|+
T Consensus 184 GvGKTTT~aKLA~~~~~~~~~~g~~V~lit~--Dt~R~aa~eQL~~~a~~lgvpv~~--~~~~~~l~~~L~~~~~~DlVL 259 (388)
T PRK12723 184 GVGKTTTIAKLAAIYGINSDDKSLNIKIITI--DNYRIGAKKQIQTYGDIMGIPVKA--IESFKDLKEEITQSKDFDLVL 259 (388)
T ss_pred CCCHHHHHHHHHHHHHhhhccCCCeEEEEec--cCccHHHHHHHHHHhhcCCcceEe--eCcHHHHHHHHHHhCCCCEEE
Confidence 47999999999998874 4789999875 44 3321 12222 23443322 23333332 3457899999
Q ss_pred EccccChH-H---HHHHHHHHH
Q psy8456 78 IDEGQFFP-D---VVSFAESMA 95 (353)
Q Consensus 78 IDEaQFF~-d---Iv~l~~~l~ 95 (353)
||++-..+ + +.++-+.+.
T Consensus 260 IDTaGr~~~~~~~l~el~~~l~ 281 (388)
T PRK12723 260 VDTIGKSPKDFMKLAEMKELLN 281 (388)
T ss_pred EcCCCCCccCHHHHHHHHHHHH
Confidence 99998875 3 345444444
No 360
>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=79.46 E-value=1.8 Score=40.97 Aligned_cols=50 Identities=18% Similarity=0.152 Sum_probs=30.8
Q ss_pred cccceEeccceecccccc---c--cccccc-ccceeeeeccCCCCchhHHHHHHHHH
Q psy8456 124 LAECVEKLTAVCMSCFRD---A--AFTKRI-GQEKEVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 124 lAD~I~kL~AvC~~CG~~---A--~f~~Ri-~geI~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
.++.+.++..++...+.. + ..|..+ .|++..|+||.|||||| |++.+-..
T Consensus 3 ~~~~~l~i~~l~~~~~~~~~~~l~~isl~i~~Ge~~~I~G~nGsGKST-Ll~~i~Gl 58 (269)
T PRK13648 3 DKNSIIVFKNVSFQYQSDASFTLKDVSFNIPKGQWTSIVGHNGSGKST-IAKLMIGI 58 (269)
T ss_pred CCCceEEEEEEEEEcCCCCCcceeeeEEEEcCCCEEEEECCCCCCHHH-HHHHHhcC
Confidence 344455666666554421 2 123333 57788999999999998 44555443
No 361
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=79.44 E-value=6.1 Score=40.74 Aligned_cols=15 Identities=33% Similarity=0.640 Sum_probs=13.2
Q ss_pred CCCccEEEEeccccc
Q psy8456 220 TKDIDVIGIDEGQFV 234 (353)
Q Consensus 220 ~~~~~~i~IDE~QF~ 234 (353)
..+++.|+|||+|.+
T Consensus 125 ~~~i~~iViDEaH~i 139 (470)
T TIGR00614 125 RKGITLIAVDEAHCI 139 (470)
T ss_pred cCCcCEEEEeCCccc
Confidence 578999999999985
No 362
>PRK11382 frlB fructoselysine-6-P-deglycase; Provisional
Probab=79.37 E-value=6.3 Score=39.10 Aligned_cols=110 Identities=14% Similarity=0.102 Sum_probs=66.2
Q ss_pred HHHHHHHHHHhCC-CEEEEEecccccccCCchhHhhhhccccceEeccceecccccccccccc---cccceeeeeccCCC
Q psy8456 86 DVVSFAESMANAG-KIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCMSCFRDAAFTKR---IGQEKEVILGPMFS 161 (353)
Q Consensus 86 dIv~l~~~l~~~G-~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~AvC~~CG~~A~f~~R---i~geI~vi~G~M~s 161 (353)
.+.++++.+.+++ ..|+++|--+.|.- ...+-.+..+..++.+.. ..+..+... ..++..+.++.-.|
T Consensus 31 ~l~~~~~~l~~~~~~~I~~~g~GsS~~a-----a~~~~~~~~k~~~i~v~~---~~~~~~~~~~~~~~~~~~lvI~iS~S 102 (340)
T PRK11382 31 LVHAIVEEMVKRDIDRIYFVACGSPLNA-----AQTAKHLADRFSDLQVYA---ISGWEFCDNTPYRLDDRCAVIGVSDY 102 (340)
T ss_pred HHHHHHHHHHhCCCCEEEEEEechHHHH-----HHHHHHHHHHHcCCCeEE---eccHHHHhcCCcCCCCCCEEEEEcCC
Confidence 4566777777654 46888888554421 111111123333333222 122222221 12445688999999
Q ss_pred CchhHHHHHHHHHHHhCCEEEEEeeecCC---CCCCCceeeccCc
Q psy8456 162 GKTTELIRRIRRYQYANYRCMIVRYAKDD---RYDTEKVSTHDQQ 203 (353)
Q Consensus 162 GKt~~Li~~~~~~~~~~~~~~~~k~~~D~---R~~~~~i~s~~g~ 203 (353)
|+|.+.++.++..+.+|-+++.++...++ |+.+..+..+.|.
T Consensus 103 GeT~e~i~al~~ak~~Ga~~I~IT~~~~S~L~~~ad~~l~~~ag~ 147 (340)
T PRK11382 103 GKTEEVIKALELGRACGALTAAFTKRADSPITSAAEFSIDYQADC 147 (340)
T ss_pred CCCHHHHHHHHHHHHcCCeEEEEECCCCChHHHhCCEEEEeCCCc
Confidence 99999999999999999999988776654 3444445555443
No 363
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=79.27 E-value=4.1 Score=43.07 Aligned_cols=21 Identities=24% Similarity=0.036 Sum_probs=15.5
Q ss_pred eeeeeccCCCCchhHHHHHHH
Q psy8456 152 KEVILGPMFSGKTTELIRRIR 172 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~ 172 (353)
-.+++||-|.||||-..--++
T Consensus 40 a~Lf~Gp~G~GKTt~A~~lAk 60 (509)
T PRK14958 40 AYLFTGTRGVGKTTISRILAK 60 (509)
T ss_pred eEEEECCCCCCHHHHHHHHHH
Confidence 458999999999975444333
No 364
>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=79.20 E-value=1.1 Score=43.49 Aligned_cols=23 Identities=35% Similarity=0.419 Sum_probs=18.9
Q ss_pred ccccc-ccceeeeeccCCCCchhH
Q psy8456 144 FTKRI-GQEKEVILGPMFSGKTTE 166 (353)
Q Consensus 144 f~~Ri-~geI~vi~G~M~sGKt~~ 166 (353)
.|+.+ .|+++.|.||.+|||||-
T Consensus 23 vnL~v~~GEvhaiMGPNGsGKSTL 46 (251)
T COG0396 23 VNLTVKEGEVHAIMGPNGSGKSTL 46 (251)
T ss_pred cceeEcCCcEEEEECCCCCCHHHH
Confidence 34555 578999999999999985
No 365
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=79.20 E-value=9.4 Score=42.29 Aligned_cols=34 Identities=24% Similarity=0.329 Sum_probs=23.3
Q ss_pred CCccEEEEccccChH--HHHHHHHHHHhCCCEEEEE
Q psy8456 71 KDIDVIGIDEGQFFP--DVVSFAESMANAGKIVVVA 104 (353)
Q Consensus 71 ~~~dvV~IDEaQFF~--dIv~l~~~l~~~G~~Viva 104 (353)
.++|.++||||||++ .+..+.=.+...|-++|++
T Consensus 293 ~~~DLLIVDEAAfI~~~~l~aIlP~l~~~~~k~IiI 328 (752)
T PHA03333 293 QNPDLVIVDEAAFVNPGALLSVLPLMAVKGTKQIHI 328 (752)
T ss_pred CCCCEEEEECcccCCHHHHHHHHHHHccCCCceEEE
Confidence 357999999999997 3455555555455555544
No 366
>PRK08118 topology modulation protein; Reviewed
Probab=79.09 E-value=1.5 Score=39.08 Aligned_cols=19 Identities=37% Similarity=0.553 Sum_probs=14.7
Q ss_pred eeeeccCCCCchhHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIR 172 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~ 172 (353)
.+|+||+|||||| |.+.+.
T Consensus 4 I~I~G~~GsGKST-lak~L~ 22 (167)
T PRK08118 4 IILIGSGGSGKST-LARQLG 22 (167)
T ss_pred EEEECCCCCCHHH-HHHHHH
Confidence 4799999999998 444444
No 367
>PRK02496 adk adenylate kinase; Provisional
Probab=78.94 E-value=1.6 Score=38.77 Aligned_cols=22 Identities=27% Similarity=0.362 Sum_probs=17.1
Q ss_pred eeeeccCCCCchhHHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
.+++||++|||||..-.-...|
T Consensus 4 i~i~G~pGsGKst~a~~la~~~ 25 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLAEHL 25 (184)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 4789999999998766555554
No 368
>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]
Probab=78.90 E-value=8.5 Score=37.84 Aligned_cols=92 Identities=24% Similarity=0.263 Sum_probs=61.9
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhcccCCCccEEEEec
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPHTKDIDVIGIDE 230 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~~~~~~~i~IDE 230 (353)
.+.=|+||-+||||+-.++.+-+.+.+|.+| ++||-
T Consensus 61 ~ItEiyG~~gsGKT~lal~~~~~aq~~g~~a--------------------------------------------~fIDt 96 (279)
T COG0468 61 RITEIYGPESSGKTTLALQLVANAQKPGGKA--------------------------------------------AFIDT 96 (279)
T ss_pred eEEEEecCCCcchhhHHHHHHHHhhcCCCeE--------------------------------------------EEEeC
Confidence 4566899999999999999999988877633 55665
Q ss_pred cc-ccceecCCccchhhhhhhhccCCCCCcchHHHHHHH-hhccCCCCCCCCccHHHHHHHHHhCCC----EEEEEeccc
Q psy8456 231 GQ-FVEVIGGSDKYMAVCRECYKQKAPIKRSPFKTLANE-NAALNVPPPPEFPDVVSFAESMANAGK----IVVVAALDG 304 (353)
Q Consensus 231 ~Q-F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~~~f~~~~~~~~~~~~~g~----~Vi~~gLd~ 304 (353)
-| | ..+-+++|+.- .+.+-|-.|+.+..-...++.++..+. .|+|=-+-.
T Consensus 97 E~~l------------------------~p~r~~~l~~~~~d~l~v~~~~~~e~q~~i~~~~~~~~~~~i~LvVVDSvaa 152 (279)
T COG0468 97 EHAL------------------------DPERAKQLGVDLLDNLLVSQPDTGEQQLEIAEKLARSGAEKIDLLVVDSVAA 152 (279)
T ss_pred CCCC------------------------CHHHHHHHHHhhhcceeEecCCCHHHHHHHHHHHHHhccCCCCEEEEecCcc
Confidence 55 4 55666677666 666666677667655555555554443 355555555
Q ss_pred cccCCC
Q psy8456 305 TFQRTG 310 (353)
Q Consensus 305 df~~~~ 310 (353)
.|+...
T Consensus 153 ~~r~~~ 158 (279)
T COG0468 153 LVRAEE 158 (279)
T ss_pred cchhhh
Confidence 555443
No 369
>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=78.86 E-value=1.4 Score=38.21 Aligned_cols=20 Identities=35% Similarity=0.333 Sum_probs=14.7
Q ss_pred eeeccCCCCchhHHHHHHHH
Q psy8456 154 VILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 154 vi~G~M~sGKt~~Li~~~~~ 173 (353)
+++||++|||||-.-.-.+.
T Consensus 2 ~l~G~~GsGKSTla~~l~~~ 21 (163)
T TIGR01313 2 VLMGVAGSGKSTIASALAHR 21 (163)
T ss_pred EEECCCCCCHHHHHHHHHHh
Confidence 57899999998765544433
No 370
>PRK06851 hypothetical protein; Provisional
Probab=78.81 E-value=3.1 Score=42.44 Aligned_cols=40 Identities=15% Similarity=0.163 Sum_probs=36.4
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCC
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDD 190 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~ 190 (353)
++.+|.|+.|+||||-+.+.+.....+|.+|.++--+.|.
T Consensus 215 ~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~~dP 254 (367)
T PRK06851 215 NRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCGFDP 254 (367)
T ss_pred eEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCC
Confidence 5688999999999999999999999999999998887765
No 371
>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=78.79 E-value=4.1 Score=35.63 Aligned_cols=32 Identities=6% Similarity=-0.068 Sum_probs=26.8
Q ss_pred CCCchHHHHHHHHHHHHHcCceEEEEeeccCCCC
Q psy8456 9 RINPYIVHFCRRIRRYQYANYRCMIVRYAKDDRY 42 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy 42 (353)
.-+||||-....+..+...|.+|+++. .|++.
T Consensus 9 ~G~GKTt~~~~la~~~~~~g~~v~~i~--~D~~~ 40 (173)
T cd03115 9 QGVGKTTTAAKLALYLKKKGKKVLLVA--ADTYR 40 (173)
T ss_pred CCCCHHHHHHHHHHHHHHCCCcEEEEE--cCCCC
Confidence 458999999999999999999999887 36554
No 372
>PRK14531 adenylate kinase; Provisional
Probab=78.74 E-value=1.6 Score=39.03 Aligned_cols=22 Identities=32% Similarity=0.313 Sum_probs=17.9
Q ss_pred eeeeccCCCCchhHHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
-+++||++|||||.--+-+..|
T Consensus 5 i~i~G~pGsGKsT~~~~la~~~ 26 (183)
T PRK14531 5 LLFLGPPGAGKGTQAARLCAAH 26 (183)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 4789999999999866666655
No 373
>PRK13947 shikimate kinase; Provisional
Probab=78.61 E-value=0.97 Score=39.27 Aligned_cols=21 Identities=38% Similarity=0.281 Sum_probs=15.3
Q ss_pred eeeeccCCCCchhHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~ 173 (353)
-+++|+|+|||||---..+++
T Consensus 4 I~l~G~~GsGKst~a~~La~~ 24 (171)
T PRK13947 4 IVLIGFMGTGKTTVGKRVATT 24 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHH
Confidence 478999999999765444443
No 374
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=78.45 E-value=4.2 Score=44.44 Aligned_cols=23 Identities=22% Similarity=0.023 Sum_probs=16.8
Q ss_pred eeeeeccCCCCchhHHHHHHHHH
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
-.+++||-|+||||-....++..
T Consensus 40 AyLf~Gp~GvGKTTlAr~lAk~L 62 (647)
T PRK07994 40 AYLFSGTRGVGKTTIARLLAKGL 62 (647)
T ss_pred EEEEECCCCCCHHHHHHHHHHhh
Confidence 36899999999998655444443
No 375
>PRK10865 protein disaggregation chaperone; Provisional
Probab=78.43 E-value=4.3 Score=45.51 Aligned_cols=74 Identities=16% Similarity=0.147 Sum_probs=38.5
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHH-------HhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhccc---C
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQ-------YANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPH---T 220 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~-------~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~---~ 220 (353)
+.-+++||.|+|||+-.-.-+++.. ..|++++.+.... +. .|.+..+.....+.+++.. .
T Consensus 200 ~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~--------l~--ag~~~~g~~e~~lk~~~~~~~~~ 269 (857)
T PRK10865 200 NNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA--------LV--AGAKYRGEFEERLKGVLNDLAKQ 269 (857)
T ss_pred CceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhh--------hh--hccchhhhhHHHHHHHHHHHHHc
Confidence 3458999999999976644444432 1245554433211 00 0111111112234444322 2
Q ss_pred CCccEEEEeccccc
Q psy8456 221 KDIDVIGIDEGQFV 234 (353)
Q Consensus 221 ~~~~~i~IDE~QF~ 234 (353)
....+++|||+|-+
T Consensus 270 ~~~~ILfIDEih~l 283 (857)
T PRK10865 270 EGNVILFIDELHTM 283 (857)
T ss_pred CCCeEEEEecHHHh
Confidence 34569999999975
No 376
>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=78.24 E-value=3.5 Score=46.25 Aligned_cols=21 Identities=19% Similarity=0.219 Sum_probs=15.4
Q ss_pred eeeeccCCCCchhHHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
-+++||.|+|||+-. +.+.+.
T Consensus 211 ~lLvG~pGvGKTal~-~~La~~ 231 (852)
T TIGR03345 211 PILTGEAGVGKTAVV-EGLALR 231 (852)
T ss_pred eeEECCCCCCHHHHH-HHHHHH
Confidence 479999999999755 444443
No 377
>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]
Probab=78.20 E-value=10 Score=35.65 Aligned_cols=40 Identities=25% Similarity=0.158 Sum_probs=32.4
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDD 190 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~ 190 (353)
|=+.+.+|+ +=||||..+-.+-|.--.|++|.++.--+-.
T Consensus 29 Gli~V~TG~-GKGKTTAAlG~alRa~GhG~rv~vvQFiKg~ 68 (198)
T COG2109 29 GLIIVFTGN-GKGKTTAALGLALRALGHGLRVGVVQFIKGG 68 (198)
T ss_pred CeEEEEecC-CCChhHHHHHHHHHHhcCCCEEEEEEEeecC
Confidence 336677775 7899999999999999999999987765543
No 378
>PRK06762 hypothetical protein; Provisional
Probab=78.15 E-value=2.5 Score=36.65 Aligned_cols=31 Identities=29% Similarity=0.202 Sum_probs=19.9
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEe
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVR 185 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k 185 (353)
+.++.|+++|||||-.-.-..++ +..+.++.
T Consensus 4 li~i~G~~GsGKST~A~~L~~~l---~~~~~~i~ 34 (166)
T PRK06762 4 LIIIRGNSGSGKTTIAKQLQERL---GRGTLLVS 34 (166)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh---CCCeEEec
Confidence 56789999999998654433443 33454443
No 379
>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=78.07 E-value=4.3 Score=36.12 Aligned_cols=24 Identities=17% Similarity=0.149 Sum_probs=18.2
Q ss_pred ceeeeeccCCCCchhHHHHHHHHH
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
...+++||-+.|||+-...-++..
T Consensus 15 ~~~L~~G~~G~gkt~~a~~~~~~l 38 (188)
T TIGR00678 15 HAYLFAGPEGVGKELLALALAKAL 38 (188)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHH
Confidence 456889999999997666555554
No 380
>PRK10892 D-arabinose 5-phosphate isomerase; Provisional
Probab=78.03 E-value=7.5 Score=37.82 Aligned_cols=100 Identities=13% Similarity=0.052 Sum_probs=61.4
Q ss_pred HHHHHHHHHHhCCCEEEEEecccccccCCchhHhhhhccccceEeccceecccccc--cccccccccceeeeeccCCCCc
Q psy8456 86 DVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCMSCFRD--AAFTKRIGQEKEVILGPMFSGK 163 (353)
Q Consensus 86 dIv~l~~~l~~~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~AvC~~CG~~--A~f~~Ri~geI~vi~G~M~sGK 163 (353)
++.+.++.+.+...+|+++|.-..+. .-. .++.+...+.--+..+... .....+......+.++.-.||.
T Consensus 35 ~l~~~~~~l~~a~~~I~i~G~G~S~~--~a~------~~~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~d~~I~iS~sG~ 106 (326)
T PRK10892 35 DFTLACEKMFWCKGKVVVMGMGKSGH--IGR------KMAATFASTGTPSFFVHPGEAAHGDLGMVTPQDVVIAISNSGE 106 (326)
T ss_pred HHHHHHHHHHhcCCeEEEEeCcHhHH--HHH------HHHHHHhcCCceeEEeChHHhhccccccCCCCCEEEEEeCCCC
Confidence 46677777777777899999964432 111 1111222222222211111 0101122233458888899999
Q ss_pred hhHHHHHHHHHHHhCCEEEEEeeecCCCCC
Q psy8456 164 TTELIRRIRRYQYANYRCMIVRYAKDDRYD 193 (353)
Q Consensus 164 t~~Li~~~~~~~~~~~~~~~~k~~~D~R~~ 193 (353)
|.++++.++.++..|-+++.+....++.-.
T Consensus 107 t~~~~~~~~~ak~~g~~vi~iT~~~~s~la 136 (326)
T PRK10892 107 SSEILALIPVLKRLHVPLICITGRPESSMA 136 (326)
T ss_pred CHHHHHHHHHHHHCCCcEEEEECCCCCccc
Confidence 999999999999999999999887766533
No 381
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=77.97 E-value=5.4 Score=42.75 Aligned_cols=16 Identities=19% Similarity=0.258 Sum_probs=13.1
Q ss_pred cceeeeeccCCCCchh
Q psy8456 150 QEKEVILGPMFSGKTT 165 (353)
Q Consensus 150 geI~vi~G~M~sGKt~ 165 (353)
++..++.+|.|||||.
T Consensus 40 g~dvlv~apTGsGKTl 55 (607)
T PRK11057 40 GRDCLVVMPTGGGKSL 55 (607)
T ss_pred CCCEEEEcCCCchHHH
Confidence 3456889999999996
No 382
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=77.90 E-value=3.7 Score=43.32 Aligned_cols=25 Identities=24% Similarity=0.100 Sum_probs=18.4
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHH
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQ 175 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~ 175 (353)
...+++||-|+||||-...-++...
T Consensus 37 ha~Lf~GppGtGKTTlA~~lA~~l~ 61 (504)
T PRK14963 37 HAYLFSGPRGVGKTTTARLIAMAVN 61 (504)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHh
Confidence 3458999999999998655555443
No 383
>PRK13975 thymidylate kinase; Provisional
Probab=77.76 E-value=2 Score=38.16 Aligned_cols=23 Identities=30% Similarity=0.070 Sum_probs=18.1
Q ss_pred eeeeeccCCCCchhHHHHHHHHH
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
.-++.|+|||||||..-.-..++
T Consensus 4 ~I~ieG~~GsGKtT~~~~L~~~l 26 (196)
T PRK13975 4 FIVFEGIDGSGKTTQAKLLAEKL 26 (196)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 45789999999998766655555
No 384
>KOG0780|consensus
Probab=77.56 E-value=3 Score=43.28 Aligned_cols=95 Identities=20% Similarity=0.166 Sum_probs=59.2
Q ss_pred cccccccccccccceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCC-CCCCC----ceeeccCccccee-ecc
Q psy8456 138 CFRDAAFTKRIGQEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDD-RYDTE----KVSTHDQQKLTAV-SAV 211 (353)
Q Consensus 138 CG~~A~f~~Ri~geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~-R~~~~----~i~s~~g~~~~a~-~~~ 211 (353)
+|.+|..-..-......++|--+|||||-.-.-++.|+..|++|.++-- || |.+.- .-.++.+..+-.- ...
T Consensus 89 p~~~~~~~~K~kpsVimfVGLqG~GKTTtc~KlA~y~kkkG~K~~Lvca--DTFRagAfDQLkqnA~k~~iP~ygsyte~ 166 (483)
T KOG0780|consen 89 PGKSALQPKKGKPSVIMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCA--DTFRAGAFDQLKQNATKARVPFYGSYTEA 166 (483)
T ss_pred CCCcccccccCCCcEEEEEeccCCCcceeHHHHHHHHHhcCCceeEEee--cccccchHHHHHHHhHhhCCeeEeccccc
Confidence 6776654333334567889999999999999999999999999998754 33 55421 1123333211110 111
Q ss_pred cHhhhc----c--cCCCccEEEEeccccc
Q psy8456 212 ELNKLI----P--HTKDIDVIGIDEGQFV 234 (353)
Q Consensus 212 ~~~~~~----~--~~~~~~~i~IDE~QF~ 234 (353)
+...+. . ..+++|+|++|=.=..
T Consensus 167 dpv~ia~egv~~fKke~fdvIIvDTSGRh 195 (483)
T KOG0780|consen 167 DPVKIASEGVDRFKKENFDVIIVDTSGRH 195 (483)
T ss_pred chHHHHHHHHHHHHhcCCcEEEEeCCCch
Confidence 222221 1 2578999999987653
No 385
>TIGR02475 CobW cobalamin biosynthesis protein CobW. A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).
Probab=77.50 E-value=2.1 Score=42.85 Aligned_cols=34 Identities=21% Similarity=0.242 Sum_probs=26.7
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA 187 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~ 187 (353)
+.+++|.++|||||-|-+.+.+ ..|+++.++--.
T Consensus 6 v~iltGFLGaGKTTll~~ll~~--~~~~~iavi~Ne 39 (341)
T TIGR02475 6 VTIVTGFLGAGKTTLIRHLLQN--AAGRRIAVIVNE 39 (341)
T ss_pred EEEEEECCCCCHHHHHHHHHhc--cCCCcEEEEECC
Confidence 6789999999999988877764 357778776643
No 386
>PRK11543 gutQ D-arabinose 5-phosphate isomerase; Provisional
Probab=77.48 E-value=7.7 Score=37.51 Aligned_cols=98 Identities=16% Similarity=0.109 Sum_probs=62.3
Q ss_pred HHHHHHHHHHhCCCEEEEEecccccccCCchhHhhhhccccceEeccceecccccccccc--cccccceeeeeccCCCCc
Q psy8456 86 DVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCMSCFRDAAFT--KRIGQEKEVILGPMFSGK 163 (353)
Q Consensus 86 dIv~l~~~l~~~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~AvC~~CG~~A~f~--~Ri~geI~vi~G~M~sGK 163 (353)
++.+.++.+.+....|+++|.-..+- -...++.+...+.--|..+.....+. ....+...++++.-+||.
T Consensus 30 ~~~~~~~~l~~~~~~I~i~G~G~S~~--------~A~~~~~~l~~~g~~~~~~~~~~~~~~~~~~~~~~d~~i~iS~sG~ 101 (321)
T PRK11543 30 DFVRAANIILHCEGKVVVSGIGKSGH--------IGKKIAATLASTGTPAFFVHPAEALHGDLGMIESRDVMLFISYSGG 101 (321)
T ss_pred HHHHHHHHHHhcCCcEEEEecChhHH--------HHHHHHHHHHcCCCceeecChHHHhhCCcCccCCCCEEEEEeCCCC
Confidence 56777777777777899999843221 00112333334444443332111111 112234457788889999
Q ss_pred hhHHHHHHHHHHHhCCEEEEEeeecCCC
Q psy8456 164 TTELIRRIRRYQYANYRCMIVRYAKDDR 191 (353)
Q Consensus 164 t~~Li~~~~~~~~~~~~~~~~k~~~D~R 191 (353)
|.++++.++..+.+|-+++.++...++.
T Consensus 102 t~~~~~~~~~ak~~g~~vI~iT~~~~s~ 129 (321)
T PRK11543 102 AKELDLIIPRLEDKSIALLAMTGKPTSP 129 (321)
T ss_pred cHHHHHHHHHHHHcCCeEEEEECCCCCh
Confidence 9999999999999999999998876654
No 387
>PRK13949 shikimate kinase; Provisional
Probab=77.43 E-value=1.7 Score=38.85 Aligned_cols=22 Identities=32% Similarity=0.194 Sum_probs=16.2
Q ss_pred eeeeccCCCCchhHHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
-+++|+|+|||||-.-...+.+
T Consensus 4 I~liG~~GsGKstl~~~La~~l 25 (169)
T PRK13949 4 IFLVGYMGAGKTTLGKALAREL 25 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHHc
Confidence 4789999999998655444443
No 388
>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=77.32 E-value=18 Score=36.52 Aligned_cols=25 Identities=20% Similarity=0.271 Sum_probs=19.6
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHH
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQ 175 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~ 175 (353)
+--++.||+|+||||-.-..+....
T Consensus 65 ~~ilL~G~pGtGKTtla~~lA~~l~ 89 (327)
T TIGR01650 65 RRVMVQGYHGTGKSTHIEQIAARLN 89 (327)
T ss_pred CcEEEEeCCCChHHHHHHHHHHHHC
Confidence 3468999999999988777666653
No 389
>PRK08356 hypothetical protein; Provisional
Probab=77.29 E-value=1.2 Score=40.22 Aligned_cols=17 Identities=29% Similarity=0.286 Sum_probs=14.0
Q ss_pred eeeeeccCCCCchhHHH
Q psy8456 152 KEVILGPMFSGKTTELI 168 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li 168 (353)
+.+++||++|||||-.-
T Consensus 7 ~i~~~G~~gsGK~t~a~ 23 (195)
T PRK08356 7 IVGVVGKIAAGKTTVAK 23 (195)
T ss_pred EEEEECCCCCCHHHHHH
Confidence 45789999999998653
No 390
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=77.17 E-value=3.7 Score=43.47 Aligned_cols=23 Identities=22% Similarity=0.037 Sum_probs=16.8
Q ss_pred eeeeeccCCCCchhHHHHHHHHH
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
-.+++||-|+||||-..--++..
T Consensus 45 a~Lf~Gp~G~GKTT~ArilAk~L 67 (507)
T PRK06645 45 GYLLTGIRGVGKTTSARIIAKAV 67 (507)
T ss_pred eEEEECCCCCCHHHHHHHHHHHh
Confidence 46899999999998654444433
No 391
>PRK03846 adenylylsulfate kinase; Provisional
Probab=77.04 E-value=3.4 Score=37.43 Aligned_cols=35 Identities=14% Similarity=0.054 Sum_probs=24.1
Q ss_pred cceeeeeccCCCCchhHHHHHH-HHHHHhCCEEEEEe
Q psy8456 150 QEKEVILGPMFSGKTTELIRRI-RRYQYANYRCMIVR 185 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~-~~~~~~~~~~~~~k 185 (353)
+...+++|+++||||| |.+.+ ..+...|..++++.
T Consensus 24 ~~~i~i~G~~GsGKST-la~~l~~~l~~~~~~~~~ld 59 (198)
T PRK03846 24 GVVLWFTGLSGSGKST-VAGALEEALHELGVSTYLLD 59 (198)
T ss_pred CEEEEEECCCCCCHHH-HHHHHHHHHHhCCCCEEEEc
Confidence 4577899999999998 44444 44455566666653
No 392
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=77.01 E-value=3.2 Score=43.22 Aligned_cols=39 Identities=13% Similarity=0.105 Sum_probs=33.7
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHh-CCEEEEEeeec
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYA-NYRCMIVRYAK 188 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~-~~~~~~~k~~~ 188 (353)
+...++.|+.+||||+-.++-+++...+ |.+|+.+.-..
T Consensus 31 Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee 70 (509)
T PRK09302 31 GRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFEE 70 (509)
T ss_pred CcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEccC
Confidence 5678999999999999999999888777 99998886654
No 393
>PF02463 SMC_N: RecF/RecN/SMC N terminal domain; InterPro: IPR003395 This domain is found at the N terminus of structural maintenance of chromosomes (SMC) proteins, which function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression []. The domain is also found in RecF and RecN proteins, which are involved in DNA metabolism and recombination.; PDB: 3HTK_A 1W1W_C 2WD5_A 3L51_A 1XEW_Y 3KTA_B 3NWC_B 1XEX_A 1GXL_C 1GXK_A ....
Probab=77.00 E-value=2.5 Score=38.38 Aligned_cols=28 Identities=29% Similarity=0.409 Sum_probs=20.8
Q ss_pred cccccccceeeeeccCCCCchhHHHHHHH
Q psy8456 144 FTKRIGQEKEVILGPMFSGKTTELIRRIR 172 (353)
Q Consensus 144 f~~Ri~geI~vi~G~M~sGKt~~Li~~~~ 172 (353)
.+..+..++.+++||.+||||+ |+..+.
T Consensus 18 ~~~~~~~~~~~i~G~NGsGKS~-ileAi~ 45 (220)
T PF02463_consen 18 AELSFSPGLNVIVGPNGSGKSN-ILEAIE 45 (220)
T ss_dssp EEEETTSSEEEEEESTTSSHHH-HHHHHH
T ss_pred EEEecCCCCEEEEcCCCCCHHH-HHHHHH
Confidence 3445567899999999999985 455553
No 394
>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=76.97 E-value=2.5 Score=40.93 Aligned_cols=39 Identities=18% Similarity=0.119 Sum_probs=30.5
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHH------hCCEEEEEeeec
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQY------ANYRCMIVRYAK 188 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~------~~~~~~~~k~~~ 188 (353)
+.+..|+||.+||||+-.++.+.+++. .+.+|+.+....
T Consensus 95 g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~ 139 (310)
T TIGR02236 95 QAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTEN 139 (310)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCC
Confidence 567889999999999999999988753 233777776543
No 395
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=76.96 E-value=3.2 Score=39.35 Aligned_cols=24 Identities=25% Similarity=0.272 Sum_probs=20.2
Q ss_pred eeeeeccCCCCchhHHHHHHHHHH
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQ 175 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~ 175 (353)
..+++||-|+||||....-++...
T Consensus 26 alL~~Gp~G~Gktt~a~~lA~~l~ 49 (325)
T COG0470 26 ALLFYGPPGVGKTTAALALAKELL 49 (325)
T ss_pred eeeeeCCCCCCHHHHHHHHHHHHh
Confidence 468999999999999888777664
No 396
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=76.94 E-value=3.5 Score=43.51 Aligned_cols=36 Identities=19% Similarity=0.209 Sum_probs=29.5
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHH-HhC-CEEEEEe
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQ-YAN-YRCMIVR 185 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~-~~~-~~~~~~k 185 (353)
+.+..++||.|+||||-+..-+..+. ..| ++|.++.
T Consensus 256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~ 293 (484)
T PRK06995 256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLT 293 (484)
T ss_pred CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 46788999999999999999998885 444 5787765
No 397
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=76.86 E-value=11 Score=33.39 Aligned_cols=29 Identities=3% Similarity=-0.032 Sum_probs=18.7
Q ss_pred CCCchHHH-HHHHHHHHHH----cCceEEEEeec
Q psy8456 9 RINPYIVH-FCRRIRRYQY----ANYRCMIVRYA 37 (353)
Q Consensus 9 ~~~GKSte-LLrr~~ry~~----agkkvlv~Kp~ 37 (353)
.-+|||.- ++-.+..... .|.+++++.|.
T Consensus 45 TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~ 78 (203)
T cd00268 45 TGSGKTAAFLIPILEKLDPSPKKDGPQALILAPT 78 (203)
T ss_pred CCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCC
Confidence 45899976 3333444443 35689999993
No 398
>cd03285 ABC_MSH2_euk MutS2 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=76.84 E-value=2.8 Score=39.21 Aligned_cols=23 Identities=26% Similarity=0.281 Sum_probs=17.9
Q ss_pred ccceeeeeccCCCCchhHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRI 171 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~ 171 (353)
.++..+++||.+|||||-|-...
T Consensus 29 ~~~~~~l~G~n~~GKstll~~i~ 51 (222)
T cd03285 29 KSRFLIITGPNMGGKSTYIRQIG 51 (222)
T ss_pred CCeEEEEECCCCCChHHHHHHHH
Confidence 35678999999999998654443
No 399
>PF13476 AAA_23: AAA domain; PDB: 3AV0_B 3AUY_B 3AUX_A 2O5V_A 3QG5_B 3QF7_A 3THO_A.
Probab=76.82 E-value=1.5 Score=38.12 Aligned_cols=25 Identities=44% Similarity=0.500 Sum_probs=19.0
Q ss_pred cccceeeeeccCCCCchhHHHHHHHH
Q psy8456 148 IGQEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 148 i~geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
+..++.+|+||.++||||-| ..+.-
T Consensus 17 f~~g~~vi~G~Ng~GKStil-~ai~~ 41 (202)
T PF13476_consen 17 FSPGLNVIYGPNGSGKSTIL-EAIRY 41 (202)
T ss_dssp --SEEEEEEESTTSSHHHHH-HHHHH
T ss_pred cCCCcEEEECCCCCCHHHHH-HHHHH
Confidence 35689999999999999876 55543
No 400
>PRK14527 adenylate kinase; Provisional
Probab=76.79 E-value=2.2 Score=38.27 Aligned_cols=25 Identities=28% Similarity=0.357 Sum_probs=20.0
Q ss_pred cceeeeeccCCCCchhHHHHHHHHH
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
+.+.+++||.+|||||..-+-..+|
T Consensus 6 ~~~i~i~G~pGsGKsT~a~~La~~~ 30 (191)
T PRK14527 6 NKVVIFLGPPGAGKGTQAERLAQEL 30 (191)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHh
Confidence 4577899999999999776665555
No 401
>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=76.78 E-value=1.5 Score=39.53 Aligned_cols=23 Identities=26% Similarity=0.189 Sum_probs=18.0
Q ss_pred ccceeeeeccCCCCchhHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIR 172 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~ 172 (353)
.|++..++||.+|||||-| +.+.
T Consensus 25 ~Ge~~~i~G~nGsGKSTLl-~~l~ 47 (205)
T cd03226 25 AGEIIALTGKNGAGKTTLA-KILA 47 (205)
T ss_pred CCCEEEEECCCCCCHHHHH-HHHh
Confidence 4678899999999999754 4443
No 402
>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
Probab=76.76 E-value=2.1 Score=43.21 Aligned_cols=43 Identities=35% Similarity=0.219 Sum_probs=27.2
Q ss_pred Eeccceecccccc-ccc--cccc-ccceeeeeccCCCCchhHHHHHHH
Q psy8456 129 EKLTAVCMSCFRD-AAF--TKRI-GQEKEVILGPMFSGKTTELIRRIR 172 (353)
Q Consensus 129 ~kL~AvC~~CG~~-A~f--~~Ri-~geI~vi~G~M~sGKt~~Li~~~~ 172 (353)
.+|+.+...-|.. +.. +..+ .|+.-+++||.||||||-| |.+.
T Consensus 4 i~l~~v~K~yg~~~~l~~i~l~i~~Gef~vllGPSGcGKSTlL-r~IA 50 (338)
T COG3839 4 LELKNVRKSFGSFEVLKDVNLDIEDGEFVVLLGPSGCGKSTLL-RMIA 50 (338)
T ss_pred EEEeeeEEEcCCceeeecceEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence 3455555545544 332 3444 4677889999999999865 4433
No 403
>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=76.73 E-value=1.8 Score=38.07 Aligned_cols=22 Identities=41% Similarity=0.585 Sum_probs=16.9
Q ss_pred eeeeccCCCCchhHHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
-+++||++|||||-.-+-..+|
T Consensus 2 I~i~G~pGsGKst~a~~La~~~ 23 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKKY 23 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHHc
Confidence 3789999999998765555544
No 404
>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=76.70 E-value=1.4 Score=38.58 Aligned_cols=24 Identities=21% Similarity=0.202 Sum_probs=17.8
Q ss_pred cceeeeeccCCCCchhHHHHHHHH
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
+.+-++.|+|+|||||-.-..++.
T Consensus 22 ~~~i~l~G~lGaGKTtl~~~l~~~ 45 (133)
T TIGR00150 22 GTVVLLKGDLGAGKTTLVQGLLQG 45 (133)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHH
Confidence 456789999999999765444443
No 405
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=76.69 E-value=3.7 Score=45.02 Aligned_cols=22 Identities=32% Similarity=0.412 Sum_probs=17.4
Q ss_pred eeeeccCCCCchhHHHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQ 175 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~ 175 (353)
-+++||-|+||| +|.+.+.++.
T Consensus 487 ~lf~Gp~GvGKT-~lA~~la~~l 508 (731)
T TIGR02639 487 FLFTGPTGVGKT-ELAKQLAEAL 508 (731)
T ss_pred EEEECCCCccHH-HHHHHHHHHh
Confidence 368999999998 6777776654
No 406
>PF13245 AAA_19: Part of AAA domain
Probab=76.63 E-value=3.3 Score=32.54 Aligned_cols=29 Identities=14% Similarity=0.084 Sum_probs=25.4
Q ss_pred CCCchHHHHHHHHHHHHHc----CceEEEEeec
Q psy8456 9 RINPYIVHFCRRIRRYQYA----NYRCMIVRYA 37 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~a----gkkvlv~Kp~ 37 (353)
.=+|||+-+++++.++-.+ +++|+++.|.
T Consensus 19 pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t 51 (76)
T PF13245_consen 19 PGTGKTTTLAARIAELLAARADPGKRVLVLAPT 51 (76)
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCC
Confidence 3489999999999999877 8999999884
No 407
>PF09818 ABC_ATPase: Predicted ATPase of the ABC class; InterPro: IPR019195 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). This entry consists of various predicted ABC transporter class ATPases.
Probab=76.58 E-value=15 Score=38.49 Aligned_cols=54 Identities=20% Similarity=0.364 Sum_probs=33.4
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHh-----CCEEEEEeeecCCCCCCCceeeccCcccceeec
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYA-----NYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSA 210 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~-----~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~ 210 (353)
.++++|+|.-|-|||| ||+.+.+=.+. |+..++..+. .-+|.+-||..++.+.+
T Consensus 244 ~GvTlIvGGGyHGKST-LL~Ale~GVYnHipGDGRE~VVT~~~------avkirAEDGR~V~~vDI 302 (448)
T PF09818_consen 244 KGVTLIVGGGYHGKST-LLEALERGVYNHIPGDGREFVVTDPD------AVKIRAEDGRSVEGVDI 302 (448)
T ss_pred CcEEEEECCCCccHHH-HHHHHHhcccCCCCCCCceEEEECCC------ceEEEecCCceEeCccc
Confidence 4699999999999998 45666553322 4544444432 23455556666665554
No 408
>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.
Probab=76.53 E-value=20 Score=28.38 Aligned_cols=32 Identities=16% Similarity=0.147 Sum_probs=24.9
Q ss_pred eecc-CCCCchhHHHHHHHHHHHhCCEEEEEee
Q psy8456 155 ILGP-MFSGKTTELIRRIRRYQYANYRCMIVRY 186 (353)
Q Consensus 155 i~G~-M~sGKt~~Li~~~~~~~~~~~~~~~~k~ 186 (353)
+.|+ -++||||--...+..+..+|++|+++.-
T Consensus 4 ~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~ 36 (104)
T cd02042 4 VANQKGGVGKTTTAVNLAAALARRGKRVLLIDL 36 (104)
T ss_pred EEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeC
Confidence 3443 5899999877777777779999998863
No 409
>cd05005 SIS_PHI Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with formadelhyde to become hexulose-6-phosphate, which is then isomerized to fructose-6-phosphate by PHI.
Probab=76.49 E-value=16 Score=32.45 Aligned_cols=92 Identities=13% Similarity=0.144 Sum_probs=57.2
Q ss_pred HHHHHHHHHHhCCCEEEEEecccccccCCchhHhhhhccccceEec--cceecccccccccccccccceeeeeccCCCCc
Q psy8456 86 DVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKL--TAVCMSCFRDAAFTKRIGQEKEVILGPMFSGK 163 (353)
Q Consensus 86 dIv~l~~~l~~~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL--~AvC~~CG~~A~f~~Ri~geI~vi~G~M~sGK 163 (353)
++.++++.+.+. ..|+++|....+- .+..+ +.+...+ .+.+. + +. ..+..+...++++-.+||.
T Consensus 22 ~l~~~~~~i~~a-~~I~i~G~G~S~~------~A~~~--~~~l~~~g~~~~~~--~-~~--~~~~~~~~D~vI~iS~sG~ 87 (179)
T cd05005 22 ELDKLISAILNA-KRIFVYGAGRSGL------VAKAF--AMRLMHLGLNVYVV--G-ET--TTPAIGPGDLLIAISGSGE 87 (179)
T ss_pred HHHHHHHHHHhC-CeEEEEecChhHH------HHHHH--HHHHHhCCCeEEEe--C-CC--CCCCCCCCCEEEEEcCCCC
Confidence 567777777766 5799999866531 11111 1122211 12221 1 11 1122234457788889999
Q ss_pred hhHHHHHHHHHHHhCCEEEEEeeecCCC
Q psy8456 164 TTELIRRIRRYQYANYRCMIVRYAKDDR 191 (353)
Q Consensus 164 t~~Li~~~~~~~~~~~~~~~~k~~~D~R 191 (353)
|.++++.++..+..|-+++.+....++.
T Consensus 88 t~~~i~~~~~ak~~g~~iI~IT~~~~s~ 115 (179)
T cd05005 88 TSSVVNAAEKAKKAGAKVVLITSNPDSP 115 (179)
T ss_pred cHHHHHHHHHHHHCCCeEEEEECCCCCc
Confidence 9999999999999999999888655443
No 410
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=76.49 E-value=3.1 Score=45.87 Aligned_cols=19 Identities=42% Similarity=0.504 Sum_probs=14.5
Q ss_pred eeeccCCCCchhHHHHHHHH
Q psy8456 154 VILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 154 vi~G~M~sGKt~~Li~~~~~ 173 (353)
+++||.|+||||- .+.+.+
T Consensus 56 LL~GPpGtGKTTL-A~aIA~ 74 (725)
T PRK13341 56 ILYGPPGVGKTTL-ARIIAN 74 (725)
T ss_pred EEECCCCCCHHHH-HHHHHH
Confidence 7899999999964 445444
No 411
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=76.38 E-value=5.2 Score=34.45 Aligned_cols=37 Identities=19% Similarity=0.136 Sum_probs=23.1
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRY 186 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~ 186 (353)
...-+++|+-|+|||+-|-+...++...+.-++.+..
T Consensus 24 ~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~~~~~ 60 (185)
T PF13191_consen 24 PRNLLLTGESGSGKTSLLRALLDRLAERGGYVISINC 60 (185)
T ss_dssp ---EEE-B-TTSSHHHHHHHHHHHHHHHT--EEEEEE
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEEE
Confidence 3567899999999999988888888777433443333
No 412
>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=76.34 E-value=3.6 Score=35.76 Aligned_cols=32 Identities=16% Similarity=-0.011 Sum_probs=22.4
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEE
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIV 184 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~ 184 (353)
.++.|+.+|||||-.-.-...+...|.+++++
T Consensus 2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i 33 (149)
T cd02027 2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVL 33 (149)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 46899999999876555555555567666554
No 413
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=76.34 E-value=2.5 Score=41.77 Aligned_cols=43 Identities=14% Similarity=0.118 Sum_probs=29.2
Q ss_pred CCccEEEEccccChH------HHHHHHHHHHhC---CCEEEEEecccccccC
Q psy8456 71 KDIDVIGIDEGQFFP------DVVSFAESMANA---GKIVVVAALDGTFQRT 113 (353)
Q Consensus 71 ~~~dvV~IDEaQFF~------dIv~l~~~l~~~---G~~VivaGLd~DFr~~ 113 (353)
+.+-+|+|||+|.+. .+..+.+.+... ++.||+.|.+.++...
T Consensus 137 ~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i~~~~~~~~~ 188 (394)
T PRK00411 137 DRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGISSDLTFLYI 188 (394)
T ss_pred CCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEEECCcchhhh
Confidence 456799999999983 355665554432 4558888888776543
No 414
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=76.11 E-value=5.9 Score=45.27 Aligned_cols=51 Identities=16% Similarity=0.021 Sum_probs=30.8
Q ss_pred hhccccceEeccceecccccccccccccccceeeeeccCCCCchhHHHHHHHHHHH
Q psy8456 121 LIPLAECVEKLTAVCMSCFRDAAFTKRIGQEKEVILGPMFSGKTTELIRRIRRYQY 176 (353)
Q Consensus 121 Ll~lAD~I~kL~AvC~~CG~~A~f~~Ri~geI~vi~G~M~sGKt~~Li~~~~~~~~ 176 (353)
|...-+++.+|..... ++... .-.+..-+|+|+.|.|||+-.-..++..+.
T Consensus 757 LPhREeEIeeLasfL~----paIkg-sgpnnvLYIyG~PGTGKTATVK~VLrELqe 807 (1164)
T PTZ00112 757 LPCREKEIKEVHGFLE----SGIKQ-SGSNQILYISGMPGTGKTATVYSVIQLLQH 807 (1164)
T ss_pred CCChHHHHHHHHHHHH----HHHhc-CCCCceEEEECCCCCCHHHHHHHHHHHHHH
Confidence 4444555555555443 22221 122344579999999999988777777643
No 415
>PRK06761 hypothetical protein; Provisional
Probab=76.02 E-value=3 Score=40.93 Aligned_cols=34 Identities=15% Similarity=-0.060 Sum_probs=27.6
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEE
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIV 184 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~ 184 (353)
.+.++.|+++|||||-+-...+.+...|.++-.+
T Consensus 4 ~lIvI~G~~GsGKTTla~~L~~~L~~~g~~v~~~ 37 (282)
T PRK06761 4 KLIIIEGLPGFGKSTTAKMLNDILSQNGIEVELY 37 (282)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhcCcCceEEEEE
Confidence 4678999999999998888887777777777654
No 416
>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=76.02 E-value=2.4 Score=38.45 Aligned_cols=34 Identities=18% Similarity=0.159 Sum_probs=20.7
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEee
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRY 186 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~ 186 (353)
...++-|+++|||||-+-.....+. +..++++.+
T Consensus 16 ~~~i~aG~~GsGKSt~~~~~~~~~~--~~~~v~i~~ 49 (199)
T PF06414_consen 16 TLIIIAGQPGSGKSTLARQLLEEFG--GGGIVVIDA 49 (199)
T ss_dssp EEEEEES-TTSTTHHHHHHHHHHT---TT-SEEE-G
T ss_pred EEEEEeCCCCCCHHHHHHHhhhhcc--CCCeEEEeh
Confidence 4667889999999987776655544 444444443
No 417
>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=75.99 E-value=12 Score=35.85 Aligned_cols=26 Identities=31% Similarity=0.441 Sum_probs=20.4
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHH
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQY 176 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~ 176 (353)
|+...|+||-++|||| |++.+.+...
T Consensus 16 Gqr~~I~G~~G~GKTT-Llr~I~n~l~ 41 (249)
T cd01128 16 GQRGLIVAPPKAGKTT-LLQSIANAIT 41 (249)
T ss_pred CCEEEEECCCCCCHHH-HHHHHHhccc
Confidence 5678999999999997 5676666543
No 418
>PRK06526 transposase; Provisional
Probab=75.91 E-value=2.2 Score=40.87 Aligned_cols=86 Identities=14% Similarity=0.041 Sum_probs=45.6
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCceeeccCCceeeeecCChhhhcccCCCccEEEEccccChH---H
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEGQFFP---D 86 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai~i~~l~ei~~~~~~~dvV~IDEaQFF~---d 86 (353)
-+|||.-+....+....+|++|+++... + +...... +.....+.+.+....++|+++|||++..+ +
T Consensus 108 GtGKThLa~al~~~a~~~g~~v~f~t~~---~-----l~~~l~~---~~~~~~~~~~l~~l~~~dlLIIDD~g~~~~~~~ 176 (254)
T PRK06526 108 GTGKTHLAIGLGIRACQAGHRVLFATAA---Q-----WVARLAA---AHHAGRLQAELVKLGRYPLLIVDEVGYIPFEPE 176 (254)
T ss_pred CCchHHHHHHHHHHHHHCCCchhhhhHH---H-----HHHHHHH---HHhcCcHHHHHHHhccCCEEEEcccccCCCCHH
Confidence 4788887777777777778777664332 0 1110000 00011222222334568999999999873 2
Q ss_pred ----HHHHHHHHHhCCCEEEEEec
Q psy8456 87 ----VVSFAESMANAGKIVVVAAL 106 (353)
Q Consensus 87 ----Iv~l~~~l~~~G~~VivaGL 106 (353)
+.++++...+.+..|+..-+
T Consensus 177 ~~~~L~~li~~r~~~~s~IitSn~ 200 (254)
T PRK06526 177 AANLFFQLVSSRYERASLIVTSNK 200 (254)
T ss_pred HHHHHHHHHHHHHhcCCEEEEcCC
Confidence 34555444445544444444
No 419
>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=75.87 E-value=1.7 Score=38.78 Aligned_cols=24 Identities=25% Similarity=0.264 Sum_probs=18.6
Q ss_pred ccceeeeeccCCCCchhHHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
.|++..|+||.||||||- ++.+..
T Consensus 17 ~Ge~~~i~G~nGsGKSTL-l~~i~G 40 (190)
T TIGR01166 17 RGEVLALLGANGAGKSTL-LLHLNG 40 (190)
T ss_pred CCCEEEEECCCCCCHHHH-HHHHhC
Confidence 467889999999999984 455443
No 420
>PRK02362 ski2-like helicase; Provisional
Probab=75.86 E-value=7.3 Score=42.64 Aligned_cols=39 Identities=13% Similarity=-0.004 Sum_probs=27.3
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
++--++..|.+||||.-..-.+-+.-..|.+++++-|..
T Consensus 39 g~nvlv~APTGSGKTlia~lail~~l~~~~kal~i~P~r 77 (737)
T PRK02362 39 GKNLLAAIPTASGKTLIAELAMLKAIARGGKALYIVPLR 77 (737)
T ss_pred CCcEEEECCCcchHHHHHHHHHHHHHhcCCcEEEEeChH
Confidence 445678899999999876444333334577888888764
No 421
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=75.73 E-value=8.6 Score=38.04 Aligned_cols=22 Identities=32% Similarity=0.223 Sum_probs=15.9
Q ss_pred eeeeeccCCCCchhHHHHHHHH
Q psy8456 152 KEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~ 173 (353)
..+++||-|+||||-...-++.
T Consensus 41 ~~L~~G~~G~GKt~~a~~la~~ 62 (367)
T PRK14970 41 ALLFCGPRGVGKTTCARILARK 62 (367)
T ss_pred EEEEECCCCCCHHHHHHHHHHH
Confidence 4678999999999655444333
No 422
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=75.66 E-value=6.4 Score=42.62 Aligned_cols=24 Identities=29% Similarity=0.265 Sum_probs=18.7
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHH
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQ 175 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~ 175 (353)
...+++||-|.|||| +.+.+.+.-
T Consensus 40 hayLf~Gp~G~GKtt-~A~~lAk~l 63 (614)
T PRK14971 40 HAYLFCGPRGVGKTT-CARIFAKTI 63 (614)
T ss_pred eeEEEECCCCCCHHH-HHHHHHHHh
Confidence 446899999999999 666666653
No 423
>PLN02748 tRNA dimethylallyltransferase
Probab=75.57 E-value=2.5 Score=44.44 Aligned_cols=29 Identities=21% Similarity=0.330 Sum_probs=22.2
Q ss_pred cccccceeeeeccCCCCchhHHHHHHHHH
Q psy8456 146 KRIGQEKEVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 146 ~Ri~geI~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
..-.+.+.+|+||.+||||+-.+..+.++
T Consensus 18 ~~~~~~~i~i~GptgsGKs~la~~la~~~ 46 (468)
T PLN02748 18 QKGKAKVVVVMGPTGSGKSKLAVDLASHF 46 (468)
T ss_pred cCCCCCEEEEECCCCCCHHHHHHHHHHhc
Confidence 33345678999999999999887776654
No 424
>PRK06547 hypothetical protein; Provisional
Probab=75.47 E-value=1.5 Score=39.64 Aligned_cols=22 Identities=32% Similarity=0.013 Sum_probs=15.7
Q ss_pred ceeeeeccCCCCchhHHHHHHH
Q psy8456 151 EKEVILGPMFSGKTTELIRRIR 172 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~ 172 (353)
.+..|.|+++|||||-.-.-..
T Consensus 16 ~~i~i~G~~GsGKTt~a~~l~~ 37 (172)
T PRK06547 16 ITVLIDGRSGSGKTTLAGALAA 37 (172)
T ss_pred EEEEEECCCCCCHHHHHHHHHH
Confidence 3557789999999986544333
No 425
>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=75.46 E-value=3.3 Score=40.58 Aligned_cols=33 Identities=30% Similarity=0.319 Sum_probs=24.7
Q ss_pred eeccCCCCchhHHHHHHHHHHHhCCEEEE--Eeee
Q psy8456 155 ILGPMFSGKTTELIRRIRRYQYANYRCMI--VRYA 187 (353)
Q Consensus 155 i~G~M~sGKt~~Li~~~~~~~~~~~~~~~--~k~~ 187 (353)
|+||.++||||-+-.-+..|...|++|-+ +.|+
T Consensus 34 iTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPS 68 (266)
T PF03308_consen 34 ITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPS 68 (266)
T ss_dssp EEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GG
T ss_pred eeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCC
Confidence 69999999999998888999889988765 4554
No 426
>PRK14490 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional
Probab=75.45 E-value=3.3 Score=41.57 Aligned_cols=36 Identities=22% Similarity=0.132 Sum_probs=31.3
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRY 186 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~ 186 (353)
+..--|+|+-+|||||-+-+.+.++... ++|-++|.
T Consensus 5 ~~~i~i~G~~gsGKTTl~~~l~~~l~~~-~~V~~ik~ 40 (369)
T PRK14490 5 PFEIAFCGYSGSGKTTLITALVRRLSER-FSVGYYKH 40 (369)
T ss_pred CEEEEEEeCCCCCHHHHHHHHHHHHhhC-ceEEEEEe
Confidence 3455689999999999999988899888 99999996
No 427
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=75.43 E-value=5.1 Score=40.20 Aligned_cols=31 Identities=23% Similarity=0.159 Sum_probs=27.4
Q ss_pred eeccCCCCchhHHHHHHHHHHHhCCEEEEEe
Q psy8456 155 ILGPMFSGKTTELIRRIRRYQYANYRCMIVR 185 (353)
Q Consensus 155 i~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k 185 (353)
|.|+.++||||-+=.-..++..+|.+|-++-
T Consensus 56 ITG~PGaGKSTli~~L~~~l~~~G~rVaVlA 86 (323)
T COG1703 56 ITGVPGAGKSTLIEALGRELRERGHRVAVLA 86 (323)
T ss_pred ecCCCCCchHHHHHHHHHHHHHCCcEEEEEE
Confidence 7999999999999999999999999877543
No 428
>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=75.40 E-value=6.7 Score=37.42 Aligned_cols=33 Identities=21% Similarity=0.103 Sum_probs=22.9
Q ss_pred CCCccEEEEccccChH-H-HHHHHHHHHhCCCEEE
Q psy8456 70 TKDIDVIGIDEGQFFP-D-VVSFAESMANAGKIVV 102 (353)
Q Consensus 70 ~~~~dvV~IDEaQFF~-d-Iv~l~~~l~~~G~~Vi 102 (353)
....++++|||+|+++ + ...+...+.+.+..|+
T Consensus 79 ~~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v 113 (305)
T TIGR00635 79 LEEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIV 113 (305)
T ss_pred cccCCEEEEehHhhhCHHHHHHhhHHHhhhheeee
Confidence 4557899999999996 3 3345556666666654
No 429
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=75.36 E-value=34 Score=36.93 Aligned_cols=161 Identities=11% Similarity=0.018 Sum_probs=0.0
Q ss_pred CchHHHHHHHHHHHHHcCceEEEEeeccCCC----------------CCCCceeeccCCcee--------------eeec
Q psy8456 11 NPYIVHFCRRIRRYQYANYRCMIVRYAKDDR----------------YDTEKVATHDQQKLT--------------AVSA 60 (353)
Q Consensus 11 ~GKSteLLrr~~ry~~agkkvlv~Kp~iDtR----------------y~~~~I~Sr~G~~~~--------------Ai~i 60 (353)
||||.-.+..+......|.+++++-| || .+.....-+.|.... -+.+
T Consensus 267 SGKT~va~l~il~~~~~g~qvlilaP---T~~LA~Q~~~~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i~~g~~~IiV 343 (630)
T TIGR00643 267 SGKTLVAALAMLAAIEAGYQVALMAP---TEILAEQHYNSLRNLLAPLGIEVALLTGSLKGKRRKELLETIASGQIHLVV 343 (630)
T ss_pred CcHHHHHHHHHHHHHHcCCcEEEECC---HHHHHHHHHHHHHHHhcccCcEEEEEecCCCHHHHHHHHHHHhCCCCCEEE
Q ss_pred CChhhhc--ccCCCccEEEEccccChH-HHHHHHHHHHhCCCEEEEEecccccccCCchhHhhhhccccceEeccceecc
Q psy8456 61 VELNKLI--PHTKDIDVIGIDEGQFFP-DVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCMS 137 (353)
Q Consensus 61 ~~l~ei~--~~~~~~dvV~IDEaQFF~-dIv~l~~~l~~~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~AvC~~ 137 (353)
....-+. ....+.++|+|||+|-|. ............+...-+.++..+ |.+.+..+..+.+
T Consensus 344 gT~~ll~~~~~~~~l~lvVIDEaH~fg~~qr~~l~~~~~~~~~~~~l~~SAT----p~prtl~l~~~~~----------- 408 (630)
T TIGR00643 344 GTHALIQEKVEFKRLALVIIDEQHRFGVEQRKKLREKGQGGFTPHVLVMSAT----PIPRTLALTVYGD----------- 408 (630)
T ss_pred ecHHHHhccccccccceEEEechhhccHHHHHHHHHhcccCCCCCEEEEeCC----CCcHHHHHHhcCC-----------
Q ss_pred cccccccccccccceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCC
Q psy8456 138 CFRDAAFTKRIGQEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDD 190 (353)
Q Consensus 138 CG~~A~f~~Ri~geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~ 190 (353)
-........-.+...+..-.+...+...++..+......|++++++-|.++.
T Consensus 409 -l~~~~i~~~p~~r~~i~~~~~~~~~~~~~~~~i~~~l~~g~q~~v~~~~i~~ 460 (630)
T TIGR00643 409 -LDTSIIDELPPGRKPITTVLIKHDEKDIVYEFIEEEIAKGRQAYVVYPLIEE 460 (630)
T ss_pred -cceeeeccCCCCCCceEEEEeCcchHHHHHHHHHHHHHhCCcEEEEEccccc
No 430
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=75.35 E-value=3.9 Score=42.65 Aligned_cols=176 Identities=12% Similarity=0.132 Sum_probs=99.4
Q ss_pred CCCchHHHHHHHHHHHHHc-CceEEEEeeccCCCC--------CC--------CceeeccCCceee----eecCChhhhc
Q psy8456 9 RINPYIVHFCRRIRRYQYA-NYRCMIVRYAKDDRY--------DT--------EKVATHDQQKLTA----VSAVELNKLI 67 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~a-gkkvlv~Kp~iDtRy--------~~--------~~I~Sr~G~~~~A----i~i~~l~ei~ 67 (353)
.=+|||+-.++-+++.-.+ |.+|+.+.-..+... +- +.+.-.+....+. ....++.++.
T Consensus 40 pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee~~~~i~~~~~~~g~d~~~~~~~g~l~~~~~~~~~~~~~~~~~~~~~~l~ 119 (509)
T PRK09302 40 AGTGKTLFALQFLVNGIKRFDEPGVFVTFEESPEDIIRNVASFGWDLQKLIDEGKLFILDASPDPSEQEEAGEYDLEALF 119 (509)
T ss_pred CCCCHHHHHHHHHHHHHHhcCCCEEEEEccCCHHHHHHHHHHcCCCHHHHhhCCeEEEEecCcccccccccccccHHHHH
Confidence 4589999999999887777 999988866543321 10 0111000000000 0001122221
Q ss_pred ----c--cCCCccEEEEccccC-hH----------HHHHHHHHHHhCCCEEEEEecccccccCCchhHhh--h-hccccc
Q psy8456 68 ----P--HTKDIDVIGIDEGQF-FP----------DVVSFAESMANAGKIVVVAALDGTFQRTGFNDILS--L-IPLAEC 127 (353)
Q Consensus 68 ----~--~~~~~dvV~IDEaQF-F~----------dIv~l~~~l~~~G~~VivaGLd~DFr~~pF~~~~~--L-l~lAD~ 127 (353)
. ...+++.|+||=..- +. .+.++...+.+.|+++++.+-... ..+.... + .-+||-
T Consensus 120 ~~l~~~i~~~~~~~vVIDSls~l~~~~d~~~~~r~~l~~L~~~Lk~~g~TvLlt~~~~~----~~~~~~~~~~~~~laDg 195 (509)
T PRK09302 120 IRIEYAIDKIGAKRVVLDSIEALFSGFSNEAVVRRELRRLFAWLKQKGVTAVITGERGD----EYGPLTRYGVEEFVSDC 195 (509)
T ss_pred HHHHHHHHhhCCCEEEECCHHHHHhhccCHHHHHHHHHHHHHHHHhCCCEEEEEECCcc----CcCCccccCceEEEeeE
Confidence 1 124678999998873 21 244556667788999998875432 1111111 1 236676
Q ss_pred eEeccce----------ec-c----cccccccc------------------------cccc----------------cce
Q psy8456 128 VEKLTAV----------CM-S----CFRDAAFT------------------------KRIG----------------QEK 152 (353)
Q Consensus 128 I~kL~Av----------C~-~----CG~~A~f~------------------------~Ri~----------------geI 152 (353)
|..|.-. .- + -.....+. .|+. +..
T Consensus 196 VI~L~~~~~~~~~~R~l~I~K~Rg~~~~~~~~~f~I~~~Gi~v~p~~~~~~~~~~~~~~~~tGi~~lD~~l~GG~~~g~~ 275 (509)
T PRK09302 196 VIILRNRLEGEKRTRTLRILKYRGTTHGKNEYPFTITEDGISVLPLTAMRLTQRSSNERISSGVPDLDEMLGGGFFRGSI 275 (509)
T ss_pred EEEEeEEccCCeEEEEEEEEECCCCCcCCccEEEEECCCcEEEEeccccccccccccccccCCcHHHHHhhcCCCCCCcE
Confidence 6665421 10 0 00011111 1221 135
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
.+|.|+.+||||+-+.+-+.+...+|.+|+++....
T Consensus 276 ~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e~ 311 (509)
T PRK09302 276 ILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEE 311 (509)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecC
Confidence 678999999999999999999988999999986643
No 431
>PRK14974 cell division protein FtsY; Provisional
Probab=75.33 E-value=5.2 Score=40.18 Aligned_cols=74 Identities=14% Similarity=0.125 Sum_probs=44.9
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEeeccCC-CCCC-Ccee---eccCCceeee-ecCChhhhc----c--cCCCccEEE
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVRYAKDD-RYDT-EKVA---THDQQKLTAV-SAVELNKLI----P--HTKDIDVIG 77 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~Kp~iDt-Ry~~-~~I~---Sr~G~~~~Ai-~i~~l~ei~----~--~~~~~dvV~ 77 (353)
-+||||-+-+.++.+...|.+|+++. .|+ |.+. .... .+.|...... .-.++.++. . ...++|+|+
T Consensus 150 GvGKTTtiakLA~~l~~~g~~V~li~--~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai~~~~~~~~DvVL 227 (336)
T PRK14974 150 GTGKTTTIAKLAYYLKKNGFSVVIAA--GDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAIEHAKARGIDVVL 227 (336)
T ss_pred CCCHHHHHHHHHHHHHHcCCeEEEec--CCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHHHHHHhCCCCEEE
Confidence 48999999999999999999999865 464 3221 1222 2233322111 111222221 1 235789999
Q ss_pred EccccChH
Q psy8456 78 IDEGQFFP 85 (353)
Q Consensus 78 IDEaQFF~ 85 (353)
||.++-..
T Consensus 228 IDTaGr~~ 235 (336)
T PRK14974 228 IDTAGRMH 235 (336)
T ss_pred EECCCccC
Confidence 99999984
No 432
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=75.24 E-value=7.3 Score=42.96 Aligned_cols=23 Identities=22% Similarity=0.020 Sum_probs=17.0
Q ss_pred ceeeeeccCCCCchhHHHHHHHH
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
.-.+++||-|.||||-..--++.
T Consensus 38 HAyLF~GPpGvGKTTlAriLAK~ 60 (702)
T PRK14960 38 HAYLFTGTRGVGKTTIARILAKC 60 (702)
T ss_pred eEEEEECCCCCCHHHHHHHHHHH
Confidence 45689999999999865544444
No 433
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=75.15 E-value=4.7 Score=45.24 Aligned_cols=27 Identities=26% Similarity=0.315 Sum_probs=20.4
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCC
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANY 179 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~ 179 (353)
.-++.||.|+||| +|.+.+.++-..+.
T Consensus 598 ~~lf~Gp~GvGKT-~lA~~La~~l~~~~ 624 (852)
T TIGR03345 598 VFLLVGPSGVGKT-ETALALAELLYGGE 624 (852)
T ss_pred EEEEECCCCCCHH-HHHHHHHHHHhCCC
Confidence 3578999999997 67777777765543
No 434
>TIGR03127 RuMP_HxlB 6-phospho 3-hexuloisomerase. Members of this protein family are 6-phospho 3-hexuloisomerase (PHI), or the PHI domain of a fusion protein. This enzyme is part of the ribulose monophosphate (RuMP) pathway, which in one direction removes the toxic metabolite formaldehyde by assimilation into fructose-6-phosphate. In the other direction, in species lacking a complete pentose phosphate pathway, the RuMP pathway yields ribulose-5-phosphate, necessary for nucleotide biosynthesis, at the cost of also yielding formaldehyde. These latter species tend usually have a formaldehyde-activating enzyme to attach formaldehyde to the C1 carrier tetrahydromethanopterin.
Probab=75.10 E-value=12 Score=33.21 Aligned_cols=94 Identities=12% Similarity=0.112 Sum_probs=56.6
Q ss_pred HHHHHHHHHHhCCCEEEEEecccccccCCchhHhhhhccccceEeccceecccccccccccccccceeeeeccCCCCchh
Q psy8456 86 DVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLTAVCMSCFRDAAFTKRIGQEKEVILGPMFSGKTT 165 (353)
Q Consensus 86 dIv~l~~~l~~~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~AvC~~CG~~A~f~~Ri~geI~vi~G~M~sGKt~ 165 (353)
++.++++.+.+. ..|+++|.-..+- ++. .++.+...+.-.|. +-.+.. ....+...++++.-+||.|.
T Consensus 19 ~~~~~~~~l~~a-~~I~i~G~G~S~~------~A~--~~~~~l~~~g~~~~-~~~~~~--~~~~~~~Dv~I~iS~sG~t~ 86 (179)
T TIGR03127 19 ELDKLADKIIKA-KRIFVAGAGRSGL------VGK--AFAMRLMHLGFNVY-VVGETT--TPSIKKGDLLIAISGSGETE 86 (179)
T ss_pred HHHHHHHHHHhC-CEEEEEecCHHHH------HHH--HHHHHHHhCCCeEE-EeCCcc--cCCCCCCCEEEEEeCCCCcH
Confidence 567777777664 4799999865431 111 12222222222221 111111 12223345677777999999
Q ss_pred HHHHHHHHHHHhCCEEEEEeeecCCC
Q psy8456 166 ELIRRIRRYQYANYRCMIVRYAKDDR 191 (353)
Q Consensus 166 ~Li~~~~~~~~~~~~~~~~k~~~D~R 191 (353)
++++.++..+..|-+++.+....++.
T Consensus 87 ~~i~~~~~ak~~g~~ii~IT~~~~s~ 112 (179)
T TIGR03127 87 SLVTVAKKAKEIGATVAAITTNPEST 112 (179)
T ss_pred HHHHHHHHHHHCCCeEEEEECCCCCc
Confidence 99999999999999999888655443
No 435
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=75.00 E-value=7.7 Score=40.56 Aligned_cols=94 Identities=12% Similarity=0.080 Sum_probs=61.4
Q ss_pred CCCCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCcee---eccCCceeee---ecCChhhhcc--cCCCccEEEEc
Q psy8456 8 DRINPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVA---THDQQKLTAV---SAVELNKLIP--HTKDIDVIGID 79 (353)
Q Consensus 8 ~~~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~---Sr~G~~~~Ai---~i~~l~ei~~--~~~~~dvV~ID 79 (353)
|.=-||||-|||.+.++..++ +||.+.=. .|...|. .|.|...+-+ .-+++++|.. ...++++++||
T Consensus 101 dPGIGKSTLLLQva~~lA~~~-~vLYVsGE----ES~~QiklRA~RL~~~~~~l~l~aEt~~e~I~~~l~~~~p~lvVID 175 (456)
T COG1066 101 DPGIGKSTLLLQVAARLAKRG-KVLYVSGE----ESLQQIKLRADRLGLPTNNLYLLAETNLEDIIAELEQEKPDLVVID 175 (456)
T ss_pred CCCCCHHHHHHHHHHHHHhcC-cEEEEeCC----cCHHHHHHHHHHhCCCccceEEehhcCHHHHHHHHHhcCCCEEEEe
Confidence 344699999999999999888 88877542 1222232 3445433332 2346777763 34689999999
Q ss_pred cccCh--H----------HHHHHH----HHHHhCCCEEEEEec
Q psy8456 80 EGQFF--P----------DVVSFA----ESMANAGKIVVVAAL 106 (353)
Q Consensus 80 EaQFF--~----------dIv~l~----~~l~~~G~~VivaGL 106 (353)
=+|=. + |+.+.. +.+...|+.+++.|=
T Consensus 176 SIQT~~s~~~~SapGsVsQVRe~t~~L~~~AK~~~i~~fiVGH 218 (456)
T COG1066 176 SIQTLYSEEITSAPGSVSQVREVAAELMRLAKTKNIAIFIVGH 218 (456)
T ss_pred ccceeecccccCCCCcHHHHHHHHHHHHHHHHHcCCeEEEEEE
Confidence 99975 2 344433 444467999998885
No 436
>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=74.93 E-value=1.8 Score=39.39 Aligned_cols=24 Identities=38% Similarity=0.331 Sum_probs=18.7
Q ss_pred ccceeeeeccCCCCchhHHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
.|++..|+||.|||||| |++.+..
T Consensus 30 ~Ge~~~i~G~nGsGKST-Ll~~l~G 53 (228)
T cd03257 30 KGETLGLVGESGSGKST-LARAILG 53 (228)
T ss_pred CCCEEEEECCCCCCHHH-HHHHHhC
Confidence 47789999999999997 4555443
No 437
>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=74.93 E-value=1.9 Score=39.01 Aligned_cols=20 Identities=40% Similarity=0.368 Sum_probs=16.6
Q ss_pred ccceeeeeccCCCCchhHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELI 168 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li 168 (353)
.|++..++||.||||||-|-
T Consensus 25 ~G~~~~i~G~nGsGKSTLl~ 44 (210)
T cd03269 25 KGEIFGLLGPNGAGKTTTIR 44 (210)
T ss_pred CCcEEEEECCCCCCHHHHHH
Confidence 46788999999999997543
No 438
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=74.84 E-value=3.7 Score=45.91 Aligned_cols=74 Identities=18% Similarity=0.156 Sum_probs=38.6
Q ss_pred ceeeeeccCCCCchhHHHHHHHHHHH-------hCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhccc---C
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRYQY-------ANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPH---T 220 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~~~-------~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~---~ 220 (353)
+--+++||.|.|||+-+-.-+++... .|++++.+.... +. .|.+........+..++.. .
T Consensus 195 ~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~--------l~--a~~~~~g~~e~~l~~~l~~~~~~ 264 (852)
T TIGR03346 195 NNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGA--------LI--AGAKYRGEFEERLKAVLNEVTKS 264 (852)
T ss_pred CceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHH--------Hh--hcchhhhhHHHHHHHHHHHHHhc
Confidence 34578999999999766544444322 355555443210 00 0111111111234444432 2
Q ss_pred CCccEEEEeccccc
Q psy8456 221 KDIDVIGIDEGQFV 234 (353)
Q Consensus 221 ~~~~~i~IDE~QF~ 234 (353)
....+++|||+|-+
T Consensus 265 ~~~~ILfIDEih~l 278 (852)
T TIGR03346 265 EGQIILFIDELHTL 278 (852)
T ss_pred CCCeEEEeccHHHh
Confidence 34679999999964
No 439
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein.
Probab=74.80 E-value=1.9 Score=39.14 Aligned_cols=24 Identities=25% Similarity=0.318 Sum_probs=18.7
Q ss_pred ccceeeeeccCCCCchhHHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
.|++..++||.|||||| |++.+..
T Consensus 28 ~Ge~~~i~G~nGsGKST-Ll~~l~G 51 (216)
T TIGR00960 28 KGEMVFLVGHSGAGKST-FLKLILG 51 (216)
T ss_pred CCCEEEEECCCCCCHHH-HHHHHhC
Confidence 46788999999999998 4555443
No 440
>PRK06620 hypothetical protein; Validated
Probab=74.69 E-value=4.8 Score=37.46 Aligned_cols=36 Identities=6% Similarity=0.158 Sum_probs=29.6
Q ss_pred CCccEEEEccccChH--HHHHHHHHHHhCCCEEEEEec
Q psy8456 71 KDIDVIGIDEGQFFP--DVVSFAESMANAGKIVVVAAL 106 (353)
Q Consensus 71 ~~~dvV~IDEaQFF~--dIv~l~~~l~~~G~~VivaGL 106 (353)
...|+++|||+|++. .+-.+.+.+.+.|+.+++.|=
T Consensus 84 ~~~d~lliDdi~~~~~~~lf~l~N~~~e~g~~ilits~ 121 (214)
T PRK06620 84 EKYNAFIIEDIENWQEPALLHIFNIINEKQKYLLLTSS 121 (214)
T ss_pred hcCCEEEEeccccchHHHHHHHHHHHHhcCCEEEEEcC
Confidence 456899999999996 477888888899998777764
No 441
>COG4674 Uncharacterized ABC-type transport system, ATPase component [General function prediction only]
Probab=74.64 E-value=1.6 Score=41.80 Aligned_cols=19 Identities=42% Similarity=0.545 Sum_probs=16.9
Q ss_pred ccceeeeeccCCCCchhHH
Q psy8456 149 GQEKEVILGPMFSGKTTEL 167 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~L 167 (353)
.|++.+++||.++||||-+
T Consensus 30 ~Gelr~lIGpNGAGKTT~m 48 (249)
T COG4674 30 PGELRVLIGPNGAGKTTLM 48 (249)
T ss_pred CCeEEEEECCCCCCceeee
Confidence 5889999999999999854
No 442
>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional
Probab=74.54 E-value=2.9 Score=39.21 Aligned_cols=48 Identities=19% Similarity=0.099 Sum_probs=29.6
Q ss_pred cceEeccceecccccc-c--cccccc-ccceeeeeccCCCCchhHHHHHHHHH
Q psy8456 126 ECVEKLTAVCMSCFRD-A--AFTKRI-GQEKEVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 126 D~I~kL~AvC~~CG~~-A--~f~~Ri-~geI~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
..+.++..++...+.. . ..++.+ .|++..|+||.|||||| |++.+...
T Consensus 4 ~~~l~~~~l~~~~~~~~il~~is~~i~~Ge~~~i~G~nGsGKST-Ll~~l~Gl 55 (258)
T PRK11701 4 QPLLSVRGLTKLYGPRKGCRDVSFDLYPGEVLGIVGESGSGKTT-LLNALSAR 55 (258)
T ss_pred CceEEEeeeEEEcCCceeeeeeeEEEeCCCEEEEECCCCCCHHH-HHHHHhCC
Confidence 3455666666544431 1 123333 57788999999999998 55555443
No 443
>cd03272 ABC_SMC3_euk Eukaryotic SMC3 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo
Probab=74.48 E-value=2 Score=39.72 Aligned_cols=20 Identities=25% Similarity=0.348 Sum_probs=16.4
Q ss_pred ccceeeeeccCCCCchhHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELI 168 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li 168 (353)
.+++..++||.||||||-|-
T Consensus 22 ~~~~~~i~GpNGsGKStll~ 41 (243)
T cd03272 22 SPKHNVVVGRNGSGKSNFFA 41 (243)
T ss_pred CCCcEEEECCCCCCHHHHHH
Confidence 46788999999999997543
No 444
>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=74.44 E-value=2.2 Score=39.31 Aligned_cols=22 Identities=27% Similarity=0.401 Sum_probs=16.6
Q ss_pred eeeeeccCCCCchhHHHHHHHH
Q psy8456 152 KEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~ 173 (353)
--+++||++||||+-+.+-.+.
T Consensus 5 ~vlL~Gps~SGKTaLf~~L~~~ 26 (181)
T PF09439_consen 5 TVLLVGPSGSGKTALFSQLVNG 26 (181)
T ss_dssp EEEEE-STTSSHHHHHHHHHHS
T ss_pred eEEEEcCCCCCHHHHHHHHhcC
Confidence 4579999999999877766554
No 445
>TIGR02673 FtsE cell division ATP-binding protein FtsE. This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.
Probab=74.44 E-value=1.9 Score=39.00 Aligned_cols=24 Identities=29% Similarity=0.293 Sum_probs=18.7
Q ss_pred ccceeeeeccCCCCchhHHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
.|++..++||.||||||- ++.+-.
T Consensus 27 ~G~~~~l~G~nGsGKSTL-l~~i~G 50 (214)
T TIGR02673 27 KGEFLFLTGPSGAGKTTL-LKLLYG 50 (214)
T ss_pred CCCEEEEECCCCCCHHHH-HHHHhC
Confidence 467889999999999984 455543
No 446
>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=74.35 E-value=4.7 Score=34.10 Aligned_cols=35 Identities=20% Similarity=0.028 Sum_probs=29.6
Q ss_pred eeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 154 VILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 154 vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
.+.|..++||||--......+..+|++|+++.--.
T Consensus 3 ~~~GkgG~GKTt~a~~la~~l~~~g~~V~~id~D~ 37 (116)
T cd02034 3 AITGKGGVGKTTIAALLARYLAEKGKPVLAIDADP 37 (116)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHCCCcEEEEECCc
Confidence 57899999999998888888888899999887533
No 447
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=74.30 E-value=12 Score=37.53 Aligned_cols=21 Identities=33% Similarity=0.395 Sum_probs=18.6
Q ss_pred ceeeeeccCCCCchhHHHHHH
Q psy8456 151 EKEVILGPMFSGKTTELIRRI 171 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~ 171 (353)
++.+++|+.||||||-+...+
T Consensus 128 GLviiVGaTGSGKSTtmAaMi 148 (375)
T COG5008 128 GLVIIVGATGSGKSTTMAAMI 148 (375)
T ss_pred ceEEEECCCCCCchhhHHHHh
Confidence 688999999999999987765
No 448
>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=74.30 E-value=5.4 Score=37.43 Aligned_cols=29 Identities=3% Similarity=-0.181 Sum_probs=24.9
Q ss_pred CCchHHHHHHHHHHHHHc-CceEEEEeecc
Q psy8456 10 INPYIVHFCRRIRRYQYA-NYRCMIVRYAK 38 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~a-gkkvlv~Kp~i 38 (353)
=+|||+-+++-+.++... |.+|++|.-..
T Consensus 40 G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~ 69 (271)
T cd01122 40 GVGKTTFLREYALDLITQHGVRVGTISLEE 69 (271)
T ss_pred CCCHHHHHHHHHHHHHHhcCceEEEEEccc
Confidence 479999999999988776 99999998754
No 449
>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=74.26 E-value=2 Score=39.20 Aligned_cols=23 Identities=35% Similarity=0.408 Sum_probs=18.0
Q ss_pred ccceeeeeccCCCCchhHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIR 172 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~ 172 (353)
.|++..|+||.||||||-| +.+.
T Consensus 25 ~Ge~~~i~G~nGsGKSTLl-~~i~ 47 (220)
T cd03265 25 RGEIFGLLGPNGAGKTTTI-KMLT 47 (220)
T ss_pred CCCEEEEECCCCCCHHHHH-HHHh
Confidence 4678899999999999754 4443
No 450
>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=74.21 E-value=1.9 Score=38.89 Aligned_cols=24 Identities=42% Similarity=0.530 Sum_probs=18.9
Q ss_pred ccceeeeeccCCCCchhHHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
.|++..++||.|||||| |++.+-.
T Consensus 26 ~G~~~~l~G~nGsGKST-Ll~~l~G 49 (211)
T cd03225 26 KGEFVLIVGPNGSGKST-LLRLLNG 49 (211)
T ss_pred CCcEEEEECCCCCCHHH-HHHHHhc
Confidence 46788999999999998 5555543
No 451
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=74.18 E-value=2.3 Score=37.98 Aligned_cols=22 Identities=27% Similarity=0.350 Sum_probs=17.1
Q ss_pred eeeeeccCCCCchhHHHHHHHH
Q psy8456 152 KEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~ 173 (353)
.-+++|+|+|||||-.-.....
T Consensus 6 ~I~liG~~GaGKStl~~~La~~ 27 (172)
T PRK05057 6 NIFLVGPMGAGKSTIGRQLAQQ 27 (172)
T ss_pred EEEEECCCCcCHHHHHHHHHHH
Confidence 4578999999999876665544
No 452
>cd03240 ABC_Rad50 The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains. The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.
Probab=74.06 E-value=2.2 Score=39.16 Aligned_cols=25 Identities=24% Similarity=0.226 Sum_probs=18.9
Q ss_pred cccccceeeeeccCCCCchhHHHHHH
Q psy8456 146 KRIGQEKEVILGPMFSGKTTELIRRI 171 (353)
Q Consensus 146 ~Ri~geI~vi~G~M~sGKt~~Li~~~ 171 (353)
..+..++.+++||.+|||||-| +.+
T Consensus 18 l~~~~g~~~i~G~NGsGKTTLl-~ai 42 (204)
T cd03240 18 IEFFSPLTLIVGQNGAGKTTII-EAL 42 (204)
T ss_pred EecCCCeEEEECCCCCCHHHHH-HHH
Confidence 3344558899999999999876 444
No 453
>KOG0744|consensus
Probab=74.04 E-value=1.9 Score=43.95 Aligned_cols=86 Identities=22% Similarity=0.369 Sum_probs=51.9
Q ss_pred cceeeeeccCCCCchhHHHHHH-HHHHHhCCEEEEEeeecCCCCCCC---ceeecc------C--cccceeecccHhhhc
Q psy8456 150 QEKEVILGPMFSGKTTELIRRI-RRYQYANYRCMIVRYAKDDRYDTE---KVSTHD------Q--QKLTAVSAVELNKLI 217 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~-~~~~~~~~~~~~~k~~~D~R~~~~---~i~s~~------g--~~~~a~~~~~~~~~~ 217 (353)
+++-+..||.|.|||+- -+.+ .....+ .-+||..+ .|.||. + -++-+.....+.+++
T Consensus 177 NRliLlhGPPGTGKTSL-CKaLaQkLSIR----------~~~~y~~~~liEinshsLFSKWFsESgKlV~kmF~kI~ELv 245 (423)
T KOG0744|consen 177 NRLILLHGPPGTGKTSL-CKALAQKLSIR----------TNDRYYKGQLIEINSHSLFSKWFSESGKLVAKMFQKIQELV 245 (423)
T ss_pred eeEEEEeCCCCCChhHH-HHHHHHhheee----------ecCccccceEEEEehhHHHHHHHhhhhhHHHHHHHHHHHHH
Confidence 46778899999999963 3322 221111 34566654 356665 1 133333345667776
Q ss_pred ccCCCccEEEEecccccceecCCccchhhhh-hhhccCCC
Q psy8456 218 PHTKDIDVIGIDEGQFVEVIGGSDKYMAVCR-ECYKQKAP 256 (353)
Q Consensus 218 ~~~~~~~~i~IDE~QF~~~~~~~~~~~~~~~-~~~~~~~~ 256 (353)
...+..=+|+|||+.=+ +-|| .|-....|
T Consensus 246 ~d~~~lVfvLIDEVESL----------a~aR~s~~S~~Ep 275 (423)
T KOG0744|consen 246 EDRGNLVFVLIDEVESL----------AAARTSASSRNEP 275 (423)
T ss_pred hCCCcEEEEEeHHHHHH----------HHHHHhhhcCCCC
Confidence 66667779999999986 5688 44443333
No 454
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=74.04 E-value=1.5 Score=40.82 Aligned_cols=25 Identities=12% Similarity=0.207 Sum_probs=16.6
Q ss_pred CCCccEEEEccccChH-HHHHHHHHH
Q psy8456 70 TKDIDVIGIDEGQFFP-DVVSFAESM 94 (353)
Q Consensus 70 ~~~~dvV~IDEaQFF~-dIv~l~~~l 94 (353)
.+..-+++|||+|.++ +..+....+
T Consensus 121 ~~~~~vliiDe~~~l~~~~~~~l~~l 146 (269)
T TIGR03015 121 AGKRALLVVDEAQNLTPELLEELRML 146 (269)
T ss_pred CCCCeEEEEECcccCCHHHHHHHHHH
Confidence 3456799999999996 434333333
No 455
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=73.99 E-value=15 Score=37.86 Aligned_cols=36 Identities=22% Similarity=0.265 Sum_probs=25.9
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeec
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAK 188 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~ 188 (353)
++.-+++-|.|||||.--+..+... +.+++++-|..
T Consensus 55 ~~~gvivlpTGaGKT~va~~~~~~~---~~~~Lvlv~~~ 90 (442)
T COG1061 55 ERRGVIVLPTGAGKTVVAAEAIAEL---KRSTLVLVPTK 90 (442)
T ss_pred CCceEEEeCCCCCHHHHHHHHHHHh---cCCEEEEECcH
Confidence 4455889999999997777766654 34488777643
No 456
>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=73.83 E-value=3.9 Score=36.68 Aligned_cols=31 Identities=32% Similarity=0.228 Sum_probs=19.6
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEe
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVR 185 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k 185 (353)
..|.||.+|||||-. +.+...- .+.++.++.
T Consensus 2 igi~G~~GsGKSTl~-~~l~~~l-~~~~~~v~~ 32 (198)
T cd02023 2 IGIAGGSGSGKTTVA-EEIIEQL-GNPKVVIIS 32 (198)
T ss_pred EEEECCCCCCHHHHH-HHHHHHh-CCCCeEEEE
Confidence 358999999999865 4444333 344555443
No 457
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=73.82 E-value=6.2 Score=41.05 Aligned_cols=75 Identities=12% Similarity=0.106 Sum_probs=45.1
Q ss_pred CCCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCC--C---ceeeccCCceeeee-cCChhhh----cccCCCccEEEE
Q psy8456 9 RINPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDT--E---KVATHDQQKLTAVS-AVELNKL----IPHTKDIDVIGI 78 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~--~---~I~Sr~G~~~~Ai~-i~~l~ei----~~~~~~~dvV~I 78 (353)
.=+||||-+...++.+...|++|+++.. |+.-.. + ....+.|...-... -.++.++ .....++|+|+|
T Consensus 104 ~GsGKTTtaakLA~~L~~~g~kV~lV~~--D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~~~~~~DvVII 181 (437)
T PRK00771 104 QGSGKTTTAAKLARYFKKKGLKVGLVAA--DTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKFKKADVIIV 181 (437)
T ss_pred CCCcHHHHHHHHHHHHHHcCCeEEEecC--CCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHHhhcCCEEEE
Confidence 3489999999999999999999999865 664221 1 11223333221111 1223332 223345799999
Q ss_pred ccc--cChH
Q psy8456 79 DEG--QFFP 85 (353)
Q Consensus 79 DEa--QFF~ 85 (353)
|.+ +..+
T Consensus 182 DTAGr~~~d 190 (437)
T PRK00771 182 DTAGRHALE 190 (437)
T ss_pred ECCCcccch
Confidence 999 5554
No 458
>PRK14235 phosphate transporter ATP-binding protein; Provisional
Probab=73.79 E-value=3 Score=39.58 Aligned_cols=47 Identities=23% Similarity=0.237 Sum_probs=29.7
Q ss_pred cceEeccceeccccccc---cccccc-ccceeeeeccCCCCchhHHHHHHHH
Q psy8456 126 ECVEKLTAVCMSCFRDA---AFTKRI-GQEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 126 D~I~kL~AvC~~CG~~A---~f~~Ri-~geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
+...++..++..-+... ..|..+ .|++..|+||.||||||-| +.+..
T Consensus 17 ~~~l~~~nl~~~~~~~~il~~isl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G 67 (267)
T PRK14235 17 EIKMRARDVSVFYGEKQALFDVDLDIPEKTVTAFIGPSGCGKSTFL-RCLNR 67 (267)
T ss_pred CceEEEEeEEEEECCEEEEEEEEEEEcCCCEEEEECCCCCCHHHHH-HHHHh
Confidence 34555666666555321 233444 5788899999999999754 44443
No 459
>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=73.63 E-value=2 Score=39.02 Aligned_cols=23 Identities=35% Similarity=0.390 Sum_probs=18.1
Q ss_pred ccceeeeeccCCCCchhHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIR 172 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~ 172 (353)
.|++..|+||.|||||| |++.+.
T Consensus 30 ~G~~~~i~G~nGsGKST-Ll~~i~ 52 (221)
T TIGR02211 30 KGEIVAIVGSSGSGKST-LLHLLG 52 (221)
T ss_pred CCcEEEEECCCCCCHHH-HHHHHh
Confidence 46788999999999998 455443
No 460
>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=73.61 E-value=2.1 Score=38.61 Aligned_cols=23 Identities=39% Similarity=0.377 Sum_probs=17.9
Q ss_pred ccceeeeeccCCCCchhHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIR 172 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~ 172 (353)
.|+...|+||.||||||-| +.+.
T Consensus 25 ~G~~~~i~G~nGsGKSTLl-~~l~ 47 (208)
T cd03268 25 KGEIYGFLGPNGAGKTTTM-KIIL 47 (208)
T ss_pred CCcEEEEECCCCCCHHHHH-HHHh
Confidence 4678899999999999754 4443
No 461
>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=73.57 E-value=2.1 Score=38.82 Aligned_cols=25 Identities=36% Similarity=0.418 Sum_probs=19.2
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
.|++..++||.|||||| |++.+...
T Consensus 29 ~G~~~~l~G~nGsGKST-Ll~~i~Gl 53 (218)
T cd03255 29 KGEFVAIVGPSGSGKST-LLNILGGL 53 (218)
T ss_pred CCCEEEEEcCCCCCHHH-HHHHHhCC
Confidence 46788999999999997 55555443
No 462
>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins. In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].
Probab=73.55 E-value=7.8 Score=37.26 Aligned_cols=67 Identities=9% Similarity=0.001 Sum_probs=0.0
Q ss_pred CchHHHHHHHHHHHHHcCceEEEEeeccCCC---------CCCCceeeccCCceeeeecCChhhhc--ccCCCccEEEEc
Q psy8456 11 NPYIVHFCRRIRRYQYANYRCMIVRYAKDDR---------YDTEKVATHDQQKLTAVSAVELNKLI--PHTKDIDVIGID 79 (353)
Q Consensus 11 ~GKSteLLrr~~ry~~agkkvlv~Kp~iDtR---------y~~~~I~Sr~G~~~~Ai~i~~l~ei~--~~~~~~dvV~ID 79 (353)
+||||-++--+--+..+|++|.+|-- |-+ .....-.+..-....+.....+.+++ ...+.+|+|+||
T Consensus 13 aGKTT~~~~LAs~la~~G~~V~lIDa--Dpn~pl~~W~~~a~~~~~~~~~~~V~~~~e~~~l~~~~e~a~~~~~d~VlvD 90 (231)
T PF07015_consen 13 AGKTTAAMALASELAARGARVALIDA--DPNQPLAKWAENAQRPGAWPDRIEVYEADELTILEDAYEAAEASGFDFVLVD 90 (231)
T ss_pred CcHHHHHHHHHHHHHHCCCeEEEEeC--CCCCcHHHHHHhccccCCCCCCeeEEeccchhhHHHHHHHHHhcCCCEEEEe
No 463
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=73.54 E-value=2 Score=41.53 Aligned_cols=68 Identities=18% Similarity=0.206 Sum_probs=41.0
Q ss_pred CCchHHHHHHHHHHHHHc-C-ceEEEEeeccCC-CCCC-Cceee---ccCCceeeeecCChhhh---cccCCCccEEEEc
Q psy8456 10 INPYIVHFCRRIRRYQYA-N-YRCMIVRYAKDD-RYDT-EKVAT---HDQQKLTAVSAVELNKL---IPHTKDIDVIGID 79 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~a-g-kkvlv~Kp~iDt-Ry~~-~~I~S---r~G~~~~Ai~i~~l~ei---~~~~~~~dvV~ID 79 (353)
-+||||-+...+..+... | ++|.+++ .|+ |.+. +.+.+ ..|..+ ..+.+..++ +....++|+|+||
T Consensus 204 GvGKTTt~~kLa~~~~~~~g~~~V~li~--~D~~r~~a~eql~~~~~~~~~p~--~~~~~~~~l~~~l~~~~~~d~vliD 279 (282)
T TIGR03499 204 GVGKTTTLAKLAARFVLEHGNKKVALIT--TDTYRIGAVEQLKTYAKILGVPV--KVARDPKELRKALDRLRDKDLILID 279 (282)
T ss_pred CCCHHHHHHHHHHHHHHHcCCCeEEEEE--CCccchhHHHHHHHHHHHhCCce--eccCCHHHHHHHHHHccCCCEEEEe
Confidence 489999999999999876 5 8999997 465 2111 11111 123222 222333333 3334679999999
Q ss_pred cc
Q psy8456 80 EG 81 (353)
Q Consensus 80 Ea 81 (353)
.+
T Consensus 280 t~ 281 (282)
T TIGR03499 280 TA 281 (282)
T ss_pred CC
Confidence 75
No 464
>PHA02558 uvsW UvsW helicase; Provisional
Probab=73.53 E-value=16 Score=38.20 Aligned_cols=99 Identities=11% Similarity=0.106 Sum_probs=52.5
Q ss_pred CCCchHHHHHHHHHHHHHcCc-eEEEEeeccCCC---------CCC---Cce-eeccCCce---eeeecCChhhhcc---
Q psy8456 9 RINPYIVHFCRRIRRYQYANY-RCMIVRYAKDDR---------YDT---EKV-ATHDQQKL---TAVSAVELNKLIP--- 68 (353)
Q Consensus 9 ~~~GKSteLLrr~~ry~~agk-kvlv~Kp~iDtR---------y~~---~~I-~Sr~G~~~---~Ai~i~~l~ei~~--- 68 (353)
.-+|||.-....+..+...++ ++|++-|..+=- ++. ..+ .-..|... ..+.+.....+..
T Consensus 138 TGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~~~~~~~~~~~i~~g~~~~~~~~I~VaT~qsl~~~~~ 217 (501)
T PHA02558 138 TSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDYRLFPREAMHKIYSGTAKDTDAPIVVSTWQSAVKQPK 217 (501)
T ss_pred CCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHhccccccceeEEecCcccCCCCCEEEeeHHHHhhchh
Confidence 348999865544444444555 899999952211 110 111 01112111 1133333333221
Q ss_pred -cCCCccEEEEccccChH--HHHHHHHHHHhCCCEEEEEeccccc
Q psy8456 69 -HTKDIDVIGIDEGQFFP--DVVSFAESMANAGKIVVVAALDGTF 110 (353)
Q Consensus 69 -~~~~~dvV~IDEaQFF~--dIv~l~~~l~~~G~~VivaGLd~DF 110 (353)
..+++++|+|||+|-+. ++.++...+. ..-.+.||..+.
T Consensus 218 ~~~~~~~~iIvDEaH~~~~~~~~~il~~~~---~~~~~lGLTATp 259 (501)
T PHA02558 218 EWFDQFGMVIVDECHLFTGKSLTSIITKLD---NCKFKFGLTGSL 259 (501)
T ss_pred hhccccCEEEEEchhcccchhHHHHHHhhh---ccceEEEEeccC
Confidence 24679999999999985 5555444432 233568887765
No 465
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=73.47 E-value=3.9 Score=41.22 Aligned_cols=28 Identities=29% Similarity=0.274 Sum_probs=23.2
Q ss_pred ccceeeeeccCCCCchhHHHHHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRRYQY 176 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~~~~ 176 (353)
..++.++.||.||||||-|...+.....
T Consensus 124 ~~GLILVTGpTGSGKSTTlAamId~iN~ 151 (353)
T COG2805 124 PRGLILVTGPTGSGKSTTLAAMIDYINK 151 (353)
T ss_pred CCceEEEeCCCCCcHHHHHHHHHHHHhc
Confidence 3578899999999999999888876543
No 466
>COG0523 Putative GTPases (G3E family) [General function prediction only]
Probab=73.45 E-value=2.7 Score=41.99 Aligned_cols=40 Identities=20% Similarity=0.202 Sum_probs=30.0
Q ss_pred CCEEEEEeccccccCCCchhHHhhhhcc--cceEEeeeeccc
Q psy8456 294 GKIVVVAALDGTFQRTGFNDILSLIPLA--ECVEKLTAVCMS 333 (353)
Q Consensus 294 g~~Vi~~gLd~df~~~~F~~~~~L~~~a--d~v~kl~a~C~~ 333 (353)
|+.-+.+..+..|....|.....+++-+ ..|.+.+++.+.
T Consensus 224 ~i~s~~~~~~~p~~~~~l~~~l~~l~~~~~~~v~R~KG~~~~ 265 (323)
T COG0523 224 GISSFSVRADRPFDPERLEAFLDLLLSARGEKVLRAKGILWI 265 (323)
T ss_pred CceEEEEecCCCCCHHHHHHHHHHHHhhccCceEEEeeEEec
Confidence 4666777777777777777777777665 578888888873
No 467
>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=73.41 E-value=2.1 Score=38.81 Aligned_cols=24 Identities=42% Similarity=0.407 Sum_probs=18.6
Q ss_pred ccceeeeeccCCCCchhHHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
.|++..++||.||||||- ++.+..
T Consensus 25 ~Ge~~~i~G~nGsGKSTL-l~~l~G 48 (213)
T cd03259 25 PGEFLALLGPSGCGKTTL-LRLIAG 48 (213)
T ss_pred CCcEEEEECCCCCCHHHH-HHHHhC
Confidence 467889999999999974 455543
No 468
>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=73.36 E-value=2.1 Score=39.30 Aligned_cols=23 Identities=35% Similarity=0.355 Sum_probs=18.0
Q ss_pred ccceeeeeccCCCCchhHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIR 172 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~ 172 (353)
.|+...++||.||||||- ++.+-
T Consensus 25 ~Ge~~~l~G~nGsGKSTL-l~~l~ 47 (236)
T cd03219 25 PGEIHGLIGPNGAGKTTL-FNLIS 47 (236)
T ss_pred CCcEEEEECCCCCCHHHH-HHHHc
Confidence 467888999999999984 44443
No 469
>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=73.35 E-value=3.2 Score=37.95 Aligned_cols=38 Identities=18% Similarity=0.105 Sum_probs=29.5
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHh------CCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYA------NYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~------~~~~~~~k~~ 187 (353)
+.+..|+||.+||||+-+++.+.+.... +.+|+.+...
T Consensus 19 g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e 62 (235)
T cd01123 19 GSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTE 62 (235)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCC
Confidence 5678999999999999999988765433 3677777653
No 470
>PRK05973 replicative DNA helicase; Provisional
Probab=73.30 E-value=22 Score=34.00 Aligned_cols=108 Identities=12% Similarity=0.086 Sum_probs=62.6
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCceeec---cCCcee----eeec-----CChhhhcc---cCCCcc
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVATH---DQQKLT----AVSA-----VELNKLIP---HTKDID 74 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~Sr---~G~~~~----Ai~i-----~~l~ei~~---~~~~~d 74 (353)
-+|||+-.++-+.+.-.+|.+|++|.-..+.. .|..| .|...+ -..+ ....++.. ...+.+
T Consensus 74 G~GKT~lalqfa~~~a~~Ge~vlyfSlEes~~----~i~~R~~s~g~d~~~~~~~~~~d~~d~~~~~~ii~~l~~~~~~~ 149 (237)
T PRK05973 74 GHGKTLLGLELAVEAMKSGRTGVFFTLEYTEQ----DVRDRLRALGADRAQFADLFEFDTSDAICADYIIARLASAPRGT 149 (237)
T ss_pred CCCHHHHHHHHHHHHHhcCCeEEEEEEeCCHH----HHHHHHHHcCCChHHhccceEeecCCCCCHHHHHHHHHHhhCCC
Confidence 47999999999998888899999998765421 11111 011100 0000 11222221 123578
Q ss_pred EEEEccccChH------HH----HHHHHHHHhCCCEEEE-EecccccccC--CchhHhhh
Q psy8456 75 VIGIDEGQFFP------DV----VSFAESMANAGKIVVV-AALDGTFQRT--GFNDILSL 121 (353)
Q Consensus 75 vV~IDEaQFF~------dI----v~l~~~l~~~G~~Viv-aGLd~DFr~~--pF~~~~~L 121 (353)
.|+||=.|.++ ++ ..+...+.+.|++|++ +=|+..|.++ +-|.+.+|
T Consensus 150 lVVIDsLq~l~~~~~~~el~~~~~~Lk~~Ak~~gitvIl~sQl~r~~e~~~~~~P~laDl 209 (237)
T PRK05973 150 LVVIDYLQLLDQRREKPDLSVQVRALKSFARERGLIIVFISQIDRSFDPSAKPLPDIRDV 209 (237)
T ss_pred EEEEEcHHHHhhcccchhHHHHHHHHHHHHHhCCCeEEEEecCccccccCCCCCCChhhc
Confidence 99999999883 22 2344556688999655 4556655433 45555544
No 471
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=73.30 E-value=19 Score=37.74 Aligned_cols=37 Identities=19% Similarity=0.160 Sum_probs=32.0
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEee
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRY 186 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~ 186 (353)
....+.+|-=||||||-.-.-++.|+..|++|+++.-
T Consensus 100 P~vImmvGLQGsGKTTt~~KLA~~lkk~~~kvllVaa 136 (451)
T COG0541 100 PTVILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLVAA 136 (451)
T ss_pred CeEEEEEeccCCChHhHHHHHHHHHHHcCCceEEEec
Confidence 3456779999999999999999999999999997753
No 472
>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional
Probab=73.30 E-value=3.1 Score=39.01 Aligned_cols=45 Identities=24% Similarity=0.338 Sum_probs=28.1
Q ss_pred eEeccceecccccc-cc--ccccc-ccceeeeeccCCCCchhHHHHHHHH
Q psy8456 128 VEKLTAVCMSCFRD-AA--FTKRI-GQEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 128 I~kL~AvC~~CG~~-A~--f~~Ri-~geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
+.+++.++...+.. +. .|+.+ .|++..++||.|||||| |++.+--
T Consensus 12 ~l~i~~l~~~~~~~~~l~~vs~~i~~Ge~~~l~G~nGsGKST-Ll~~l~G 60 (259)
T PRK14274 12 VYQINGMNLWYGQHHALKNINLSIPENEVTAIIGPSGCGKST-FIKTLNL 60 (259)
T ss_pred eEEEeeEEEEECCeeeEEeeEEEEcCCCEEEEECCCCCCHHH-HHHHHHh
Confidence 45666666544432 21 22333 46788999999999998 5555544
No 473
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=73.16 E-value=12 Score=40.66 Aligned_cols=38 Identities=11% Similarity=0.084 Sum_probs=25.2
Q ss_pred cceeeeeccCCCCchhHHHH-HHHHHH--HhCCEEEEEeee
Q psy8456 150 QEKEVILGPMFSGKTTELIR-RIRRYQ--YANYRCMIVRYA 187 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~-~~~~~~--~~~~~~~~~k~~ 187 (353)
+...++.+|.+||||...+- .+.... ..+.+++++-|.
T Consensus 43 g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PT 83 (629)
T PRK11634 43 GRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPT 83 (629)
T ss_pred CCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCc
Confidence 34568899999999987532 233332 234578888885
No 474
>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=73.12 E-value=2.2 Score=38.49 Aligned_cols=24 Identities=33% Similarity=0.519 Sum_probs=18.6
Q ss_pred ccceeeeeccCCCCchhHHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
.|++..|+||.|||||| |++.+..
T Consensus 26 ~G~~~~i~G~nGsGKST-Ll~~l~G 49 (214)
T cd03292 26 AGEFVFLVGPSGAGKST-LLKLIYK 49 (214)
T ss_pred CCCEEEEECCCCCCHHH-HHHHHhc
Confidence 46788899999999998 5555443
No 475
>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=73.09 E-value=6.3 Score=43.14 Aligned_cols=67 Identities=21% Similarity=0.239 Sum_probs=36.2
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeee-cCCCCCCCceeeccCcccceeecccHhhhccc--CCCccEEEE
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYA-KDDRYDTEKVSTHDQQKLTAVSAVELNKLIPH--TKDIDVIGI 228 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~-~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~--~~~~~~i~I 228 (353)
.-+++||.|+|||+ |++.+.+. .+...+.+... +-..| .|. ....+.+++.. ...+.+|+|
T Consensus 214 giLL~GppGtGKT~-laraia~~--~~~~~i~i~~~~i~~~~--------~g~-----~~~~l~~lf~~a~~~~p~il~i 277 (733)
T TIGR01243 214 GVLLYGPPGTGKTL-LAKAVANE--AGAYFISINGPEIMSKY--------YGE-----SEERLREIFKEAEENAPSIIFI 277 (733)
T ss_pred eEEEECCCCCChHH-HHHHHHHH--hCCeEEEEecHHHhccc--------ccH-----HHHHHHHHHHHHHhcCCcEEEe
Confidence 35799999999995 45555442 34444444321 11111 111 11223333321 345689999
Q ss_pred eccccc
Q psy8456 229 DEGQFV 234 (353)
Q Consensus 229 DE~QF~ 234 (353)
||++.+
T Consensus 278 DEid~l 283 (733)
T TIGR01243 278 DEIDAI 283 (733)
T ss_pred ehhhhh
Confidence 999975
No 476
>cd03273 ABC_SMC2_euk Eukaryotic SMC2 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo
Probab=73.00 E-value=3.4 Score=38.70 Aligned_cols=27 Identities=22% Similarity=0.188 Sum_probs=20.2
Q ss_pred ccccceeeeeccCCCCchhHHHHHHHHH
Q psy8456 147 RIGQEKEVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 147 Ri~geI~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
.+..+...|+||.|||||| |++.+.-.
T Consensus 22 ~~~~~~~~IvG~NGsGKSt-ll~Ai~~l 48 (251)
T cd03273 22 GFDPQFNAITGLNGSGKSN-ILDAICFV 48 (251)
T ss_pred cCCCCeEEEECCCCCCHHH-HHHHHHHH
Confidence 4456788999999999997 45555443
No 477
>PRK07952 DNA replication protein DnaC; Validated
Probab=72.83 E-value=4.6 Score=38.68 Aligned_cols=68 Identities=10% Similarity=0.059 Sum_probs=41.1
Q ss_pred CCCCchHHHHHHHHHHHHHcCceEEEEeeccCCCCCCCceeeccCCceeeeecCChhhhcccCCCccEEEEccccCh
Q psy8456 8 DRINPYIVHFCRRIRRYQYANYRCMIVRYAKDDRYDTEKVATHDQQKLTAVSAVELNKLIPHTKDIDVIGIDEGQFF 84 (353)
Q Consensus 8 ~~~~GKSteLLrr~~ry~~agkkvlv~Kp~iDtRy~~~~I~Sr~G~~~~Ai~i~~l~ei~~~~~~~dvV~IDEaQFF 84 (353)
..-+|||.-+...++.+...|++|+++.- ..+.++...... ....+..++.....++|+++|||+.-.
T Consensus 107 ~~GtGKThLa~aia~~l~~~g~~v~~it~--------~~l~~~l~~~~~-~~~~~~~~~l~~l~~~dlLvIDDig~~ 174 (244)
T PRK07952 107 KPGTGKNHLAAAICNELLLRGKSVLIITV--------ADIMSAMKDTFS-NSETSEEQLLNDLSNVDLLVIDEIGVQ 174 (244)
T ss_pred CCCCCHHHHHHHHHHHHHhcCCeEEEEEH--------HHHHHHHHHHHh-hccccHHHHHHHhccCCEEEEeCCCCC
Confidence 34589999888888888888999988732 111211111100 001122344444567999999999765
No 478
>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=72.81 E-value=3.5 Score=41.67 Aligned_cols=106 Identities=20% Similarity=0.233 Sum_probs=59.4
Q ss_pred EccccCh-HHHHHHHHHHHhCCCEEEEEecccccccCCchhHhhhhccccceEecc----ceecccccccccccc-----
Q psy8456 78 IDEGQFF-PDVVSFAESMANAGKIVVVAALDGTFQRTGFNDILSLIPLAECVEKLT----AVCMSCFRDAAFTKR----- 147 (353)
Q Consensus 78 IDEaQFF-~dIv~l~~~l~~~G~~VivaGLd~DFr~~pF~~~~~Ll~lAD~I~kL~----AvC~~CG~~A~f~~R----- 147 (353)
+||+..| +.+..+-+.+++... .-|| +.-+.|+.-.+|++++--..+|. .+...+ +.+..-++
T Consensus 6 ~~~~~e~~~r~~~w~~~~~~m~~---a~~l---~p~~~F~s~~e~~s~ggl~~~l~~~~~~~~~~~-~~~~~~L~~dG~~ 78 (369)
T PF02456_consen 6 YEELEEFWDRLQTWKQALDDMPM---AIGL---KPLKNFESFDELLSLGGLLNDLREIQRKVRKQM-NEASPYLRPDGSC 78 (369)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCc---ccCC---CcccccccHHHHhhhcchHHHHHHHHHHHHHHH-HHHHHhcCcCCcc
Confidence 4555555 566666666665432 2234 34466666666666554333332 111111 11111122
Q ss_pred ------cccceeeeeccCCCCchhHHHHHHHHH---HHhCCEEEEEeeecCCC
Q psy8456 148 ------IGQEKEVILGPMFSGKTTELIRRIRRY---QYANYRCMIVRYAKDDR 191 (353)
Q Consensus 148 ------i~geI~vi~G~M~sGKt~~Li~~~~~~---~~~~~~~~~~k~~~D~R 191 (353)
..--+-+++||.||||| +|||.+-.. +-.--.|+++.|.+|.=
T Consensus 79 ~SLN~~~qP~I~~VYGPTG~GKS-qLlRNLis~~lI~P~PETVfFItP~~~mI 130 (369)
T PF02456_consen 79 PSLNYGLQPFIGVVYGPTGSGKS-QLLRNLISCQLIQPPPETVFFITPQKDMI 130 (369)
T ss_pred cccccCCCceEEEEECCCCCCHH-HHHHHhhhcCcccCCCCceEEECCCCCCC
Confidence 22237789999999998 677755443 23456899999998875
No 479
>TIGR01978 sufC FeS assembly ATPase SufC. SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.
Probab=72.80 E-value=2.3 Score=39.17 Aligned_cols=24 Identities=42% Similarity=0.509 Sum_probs=19.0
Q ss_pred ccceeeeeccCCCCchhHHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
.|++..|+||.|||||| |++.+-.
T Consensus 25 ~Ge~~~i~G~nGsGKST-Ll~~l~G 48 (243)
T TIGR01978 25 KGEIHAIMGPNGSGKST-LSKTIAG 48 (243)
T ss_pred CCCEEEEECCCCCCHHH-HHHHHhC
Confidence 46788999999999998 5555544
No 480
>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=72.59 E-value=5.9 Score=40.28 Aligned_cols=40 Identities=8% Similarity=-0.027 Sum_probs=34.3
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHH-HhCCEEEEEeeecC
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQ-YANYRCMIVRYAKD 189 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~-~~~~~~~~~k~~~D 189 (353)
|++.+|.|+.++|||+-+++-+.+.. ..|.+|++|.....
T Consensus 195 G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlEm~ 235 (434)
T TIGR00665 195 SDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEMS 235 (434)
T ss_pred CeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCcCC
Confidence 57889999999999999999998875 46899999987653
No 481
>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=72.54 E-value=2.6 Score=43.91 Aligned_cols=67 Identities=24% Similarity=0.221 Sum_probs=35.1
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecCCCCCCCceeeccCcccceeecccHhhhccc--CCCccEEEEec
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKDDRYDTEKVSTHDQQKLTAVSAVELNKLIPH--TKDIDVIGIDE 230 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D~R~~~~~i~s~~g~~~~a~~~~~~~~~~~~--~~~~~~i~IDE 230 (353)
-+++||.|+|||+ |.+.+-+ ..+...+.+..+. -.....| .....+.+++.. ...+.+|+|||
T Consensus 91 iLL~GppGtGKT~-la~alA~--~~~~~~~~i~~~~-------~~~~~~g-----~~~~~l~~~f~~a~~~~p~Il~iDE 155 (495)
T TIGR01241 91 VLLVGPPGTGKTL-LAKAVAG--EAGVPFFSISGSD-------FVEMFVG-----VGASRVRDLFEQAKKNAPCIIFIDE 155 (495)
T ss_pred EEEECCCCCCHHH-HHHHHHH--HcCCCeeeccHHH-------HHHHHhc-----ccHHHHHHHHHHHHhcCCCEEEEec
Confidence 5889999999986 4555532 3444443332210 0000111 112233444322 34578999999
Q ss_pred cccc
Q psy8456 231 GQFV 234 (353)
Q Consensus 231 ~QF~ 234 (353)
++-+
T Consensus 156 id~l 159 (495)
T TIGR01241 156 IDAV 159 (495)
T ss_pred hhhh
Confidence 9753
No 482
>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.
Probab=72.48 E-value=13 Score=31.77 Aligned_cols=34 Identities=18% Similarity=0.033 Sum_probs=29.2
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEee
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRY 186 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~ 186 (353)
.+..+.-++||||--+..+..+..+|++|+++.-
T Consensus 3 ~~~~~kgg~gkt~~~~~~a~~~~~~~~~~~~vd~ 36 (139)
T cd02038 3 AVTSGKGGVGKTNISANLALALAKLGKRVLLLDA 36 (139)
T ss_pred EEEcCCCCCcHHHHHHHHHHHHHHCCCcEEEEEC
Confidence 4566778999999999999999999999998773
No 483
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=72.33 E-value=7.7 Score=44.95 Aligned_cols=36 Identities=19% Similarity=0.089 Sum_probs=25.1
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHh--CCEEEEEeee
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYA--NYRCMIVRYA 187 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~--~~~~~~~k~~ 187 (353)
.-++..|.|||||--.+..++++... .++|+++.+.
T Consensus 435 ~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR 472 (1123)
T PRK11448 435 EILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDR 472 (1123)
T ss_pred CeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecH
Confidence 45889999999996555555555332 3688888763
No 484
>TIGR02759 TraD_Ftype type IV conjugative transfer system coupling protein TraD. The TraD protein performs an essential coupling function in conjugative type IV secretion systems. This protein sits at the inner membrane in contact with the assembled pilus and its scaffold as well as the relaxosome-plasmid DNA complex (through TraM).
Probab=72.23 E-value=4.9 Score=43.04 Aligned_cols=37 Identities=22% Similarity=0.222 Sum_probs=30.1
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhCCEEEEEeeecC
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYANYRCMIVRYAKD 189 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k~~~D 189 (353)
.+++|+.+||||+-+-.-+.....+|.+++|+.+.-+
T Consensus 179 ~li~G~tGsGKs~~i~~ll~~~~~~g~~~ii~D~~g~ 215 (566)
T TIGR02759 179 ILIHGTTGSGKSVAIRKLLRWIRQRGDRAIIYDKGCT 215 (566)
T ss_pred eEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEECCCC
Confidence 4789999999998766666666778999999998654
No 485
>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group. A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.
Probab=72.04 E-value=2.3 Score=38.09 Aligned_cols=23 Identities=35% Similarity=0.365 Sum_probs=18.2
Q ss_pred ccceeeeeccCCCCchhHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIR 172 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~ 172 (353)
.|++..|+||.|||||| |++.+.
T Consensus 23 ~Ge~~~i~G~nGsGKST-Ll~~l~ 45 (206)
T TIGR03608 23 KGKMYAIIGESGSGKST-LLNIIG 45 (206)
T ss_pred CCcEEEEECCCCCCHHH-HHHHHh
Confidence 46788999999999997 455544
No 486
>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=72.04 E-value=2.3 Score=39.16 Aligned_cols=24 Identities=46% Similarity=0.522 Sum_probs=18.7
Q ss_pred ccceeeeeccCCCCchhHHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
.|++..++||.|||||| |++.+..
T Consensus 25 ~Ge~~~l~G~nGsGKST-Ll~~l~G 48 (235)
T cd03261 25 RGEILAIIGPSGSGKST-LLRLIVG 48 (235)
T ss_pred CCCEEEEECCCCCCHHH-HHHHHhC
Confidence 46788999999999997 4555543
No 487
>PRK04182 cytidylate kinase; Provisional
Probab=72.00 E-value=3 Score=36.10 Aligned_cols=22 Identities=36% Similarity=0.232 Sum_probs=16.4
Q ss_pred eeeeccCCCCchhHHHHHHHHH
Q psy8456 153 EVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
-+|+|+|+|||||-.-..+.++
T Consensus 3 I~i~G~~GsGKstia~~la~~l 24 (180)
T PRK04182 3 ITISGPPGSGKTTVARLLAEKL 24 (180)
T ss_pred EEEECCCCCCHHHHHHHHHHHc
Confidence 4789999999998655554443
No 488
>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=71.97 E-value=2.4 Score=38.34 Aligned_cols=29 Identities=34% Similarity=0.368 Sum_probs=20.0
Q ss_pred cccccccccceeeeeccCCCCchhHHHHHHHH
Q psy8456 142 AAFTKRIGQEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 142 A~f~~Ri~geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
.+++.+- + +..++||.|||||| |++.+..
T Consensus 19 vs~~i~~-g-~~~i~G~nGsGKST-Ll~~l~G 47 (211)
T cd03264 19 VSLTLGP-G-MYGLLGPNGAGKTT-LMRILAT 47 (211)
T ss_pred eeEEEcC-C-cEEEECCCCCCHHH-HHHHHhC
Confidence 3444433 4 88899999999998 4555443
No 489
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=71.93 E-value=8.2 Score=41.36 Aligned_cols=24 Identities=25% Similarity=0.202 Sum_probs=18.2
Q ss_pred ceeeeeccCCCCchhHHHHHHHHH
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
...+++||.|.||||-...-++..
T Consensus 39 hayLf~Gp~G~GKTt~Ar~lAk~L 62 (563)
T PRK06647 39 NAYIFSGPRGVGKTSSARAFARCL 62 (563)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhh
Confidence 456899999999998765555544
No 490
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=71.91 E-value=6.5 Score=39.85 Aligned_cols=82 Identities=17% Similarity=0.230 Sum_probs=46.1
Q ss_pred eeeeccCCCCchhHHHHHHHHHHHhC--CEEEEEe-eecCCCCCC-CceeeccCc-ccceeecccHh----hhcccCCCc
Q psy8456 153 EVILGPMFSGKTTELIRRIRRYQYAN--YRCMIVR-YAKDDRYDT-EKVSTHDQQ-KLTAVSAVELN----KLIPHTKDI 223 (353)
Q Consensus 153 ~vi~G~M~sGKt~~Li~~~~~~~~~~--~~~~~~k-~~~D~R~~~-~~i~s~~g~-~~~a~~~~~~~----~~~~~~~~~ 223 (353)
-+|+||.|+|||..+-..++..+..- ..+.-++ ...+++|.. .++..+.|. ..+..+..+.. +.+......
T Consensus 45 ~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~ 124 (366)
T COG1474 45 IIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKT 124 (366)
T ss_pred EEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCe
Confidence 58899999999999888888886552 2233222 233334431 122232221 12223322222 222334567
Q ss_pred cEEEEeccccc
Q psy8456 224 DVIGIDEGQFV 234 (353)
Q Consensus 224 ~~i~IDE~QF~ 234 (353)
-+|++||+.++
T Consensus 125 ~IvvLDEid~L 135 (366)
T COG1474 125 VIVILDEVDAL 135 (366)
T ss_pred EEEEEcchhhh
Confidence 79999999997
No 491
>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=71.88 E-value=2.4 Score=38.71 Aligned_cols=24 Identities=33% Similarity=0.383 Sum_probs=18.6
Q ss_pred ccceeeeeccCCCCchhHHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
.|++..++||.||||||- ++.+..
T Consensus 29 ~G~~~~i~G~nGsGKSTL-l~~l~G 52 (220)
T cd03293 29 EGEFVALVGPSGCGKSTL-LRIIAG 52 (220)
T ss_pred CCcEEEEECCCCCCHHHH-HHHHhC
Confidence 467889999999999984 455543
No 492
>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=71.87 E-value=2.4 Score=38.94 Aligned_cols=23 Identities=30% Similarity=0.430 Sum_probs=18.2
Q ss_pred ccceeeeeccCCCCchhHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIR 172 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~ 172 (353)
.|++..|+||.||||||- ++.+-
T Consensus 26 ~Ge~~~i~G~nGsGKSTL-l~~l~ 48 (241)
T cd03256 26 PGEFVALIGPSGAGKSTL-LRCLN 48 (241)
T ss_pred CCCEEEEECCCCCCHHHH-HHHHh
Confidence 477899999999999974 45444
No 493
>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....
Probab=71.75 E-value=3.1 Score=35.73 Aligned_cols=20 Identities=55% Similarity=0.722 Sum_probs=17.5
Q ss_pred eeccCCCCchhHHHHHHHHH
Q psy8456 155 ILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 155 i~G~M~sGKt~~Li~~~~~~ 174 (353)
|+||.+|||||.--+-+.+|
T Consensus 1 i~G~PgsGK~t~~~~la~~~ 20 (151)
T PF00406_consen 1 ILGPPGSGKGTQAKRLAKRY 20 (151)
T ss_dssp EEESTTSSHHHHHHHHHHHH
T ss_pred CcCCCCCChHHHHHHHHHhc
Confidence 68999999999888877776
No 494
>KOG0354|consensus
Probab=71.74 E-value=5 Score=44.43 Aligned_cols=158 Identities=18% Similarity=0.128 Sum_probs=79.9
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHH--hCCEEEEEeeecC------CC---CC---------CCceeeccCcc--cce
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQY--ANYRCMIVRYAKD------DR---YD---------TEKVSTHDQQK--LTA 207 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~--~~~~~~~~k~~~D------~R---~~---------~~~i~s~~g~~--~~a 207 (353)
+.-.++.-|+|||||-=.+-.+.+|-. -+-|++++.|..- .+ |+ .+.+ ++.+.. ..+
T Consensus 76 gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~~~~~~~T~~l~~~~-~~~~r~~i~~s 154 (746)
T KOG0354|consen 76 GKNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIYLIPYSVTGQLGDTV-PRSNRGEIVAS 154 (746)
T ss_pred cCCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhccCcccceeeccCcc-CCCchhhhhcc
Confidence 345689999999999888888888832 3456777777510 11 11 1111 111110 000
Q ss_pred --eeccc----Hhhhcc----cCCCccEEEEecccccceecCCccchhhhhhhhccCCCC------Ccc---hHHHHHHH
Q psy8456 208 --VSAVE----LNKLIP----HTKDIDVIGIDEGQFVEVIGGSDKYMAVCRECYKQKAPI------KRS---PFKTLANE 268 (353)
Q Consensus 208 --~~~~~----~~~~~~----~~~~~~~i~IDE~QF~~~~~~~~~~~~~~~~~~~~~~~~------~~~---~~~~l~~~ 268 (353)
+.+.. .++|.. ..+++.+++|||+|.- -|.-.|.-|=|+=-.+|..- |.+ -..+..+.
T Consensus 155 ~~vff~TpQil~ndL~~~~~~~ls~fs~iv~DE~Hra---~kn~~Y~~Vmr~~l~~k~~~~qILgLTASpG~~~~~v~~~ 231 (746)
T KOG0354|consen 155 KRVFFRTPQILENDLKSGLHDELSDFSLIVFDECHRT---SKNHPYNNIMREYLDLKNQGNQILGLTASPGSKLEQVQNV 231 (746)
T ss_pred cceEEeChHhhhhhcccccccccceEEEEEEcccccc---cccccHHHHHHHHHHhhhccccEEEEecCCCccHHHHHHH
Confidence 11111 222211 1367999999999984 35566655554332222211 211 12222222
Q ss_pred hhc----cCCCCCCCCccHHHHHHHHHh-CCCEEEEEeccccccCCCchhHH
Q psy8456 269 NAA----LNVPPPPEFPDVVSFAESMAN-AGKIVVVAALDGTFQRTGFNDIL 315 (353)
Q Consensus 269 ~~~----~~~~~~~~f~~~~~~~~~~~~-~g~~Vi~~gLd~df~~~~F~~~~ 315 (353)
.+. +.|.+ -..+++-..++.+ ..++|= .+|..+=...+|+...
T Consensus 232 I~~L~asldvr~---~ssi~~~y~~lr~~~~i~v~-~~~~~~~~~~~f~~~i 279 (746)
T KOG0354|consen 232 IDNLCASLDVRT---ESSIKSNYEELREHVQIPVD-LSLCERDIEDPFGMII 279 (746)
T ss_pred HHhhheecccch---hhhhhhhHHHHhccCcccCc-HHHhhhhhhhhHHHHH
Confidence 222 22221 1344554555554 355555 7777777777887644
No 495
>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=71.72 E-value=8.9 Score=28.78 Aligned_cols=26 Identities=4% Similarity=-0.127 Sum_probs=24.3
Q ss_pred CCchHHHHHHHHHHHHHcCceEEEEe
Q psy8456 10 INPYIVHFCRRIRRYQYANYRCMIVR 35 (353)
Q Consensus 10 ~~GKSteLLrr~~ry~~agkkvlv~K 35 (353)
=+||||-....+..+...|.+++++.
T Consensus 9 G~Gktt~~~~l~~~l~~~g~~v~~~~ 34 (99)
T cd01983 9 GVGKTTLAANLAAALAKRGKRVLLID 34 (99)
T ss_pred CCCHHHHHHHHHHHHHHCCCeEEEEC
Confidence 48999999999999999999999998
No 496
>PLN02924 thymidylate kinase
Probab=71.65 E-value=5 Score=37.67 Aligned_cols=36 Identities=19% Similarity=0.092 Sum_probs=30.9
Q ss_pred cceeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEe
Q psy8456 150 QEKEVILGPMFSGKTTELIRRIRRYQYANYRCMIVR 185 (353)
Q Consensus 150 geI~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k 185 (353)
+-+-++-|+-+|||||..-.-.+.++.+|.+|.+++
T Consensus 16 g~~IviEGiDGsGKsTq~~~L~~~l~~~g~~v~~~~ 51 (220)
T PLN02924 16 GALIVLEGLDRSGKSTQCAKLVSFLKGLGVAAELWR 51 (220)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhcCCCceeee
Confidence 456788999999999999888888899999987554
No 497
>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=71.64 E-value=2.5 Score=38.75 Aligned_cols=24 Identities=38% Similarity=0.293 Sum_probs=18.6
Q ss_pred ccceeeeeccCCCCchhHHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
.|++..++||.|||||| |++.+..
T Consensus 25 ~Ge~~~l~G~nGsGKST-Ll~~l~G 48 (232)
T cd03218 25 QGEIVGLLGPNGAGKTT-TFYMIVG 48 (232)
T ss_pred CCcEEEEECCCCCCHHH-HHHHHhC
Confidence 46788899999999998 5555543
No 498
>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=71.60 E-value=2.5 Score=38.42 Aligned_cols=24 Identities=33% Similarity=0.317 Sum_probs=18.7
Q ss_pred ccceeeeeccCCCCchhHHHHHHHH
Q psy8456 149 GQEKEVILGPMFSGKTTELIRRIRR 173 (353)
Q Consensus 149 ~geI~vi~G~M~sGKt~~Li~~~~~ 173 (353)
.|++..|+||.||||||- ++.+..
T Consensus 25 ~Ge~~~i~G~nGsGKSTL-l~~l~G 48 (222)
T cd03224 25 EGEIVALLGRNGAGKTTL-LKTIMG 48 (222)
T ss_pred CCeEEEEECCCCCCHHHH-HHHHhC
Confidence 477889999999999974 455543
No 499
>PRK07667 uridine kinase; Provisional
Probab=71.57 E-value=6.1 Score=35.80 Aligned_cols=34 Identities=24% Similarity=0.035 Sum_probs=24.8
Q ss_pred eeeeeccCCCCchhHHHHHHHHHHHhCCEEEEEe
Q psy8456 152 KEVILGPMFSGKTTELIRRIRRYQYANYRCMIVR 185 (353)
Q Consensus 152 I~vi~G~M~sGKt~~Li~~~~~~~~~~~~~~~~k 185 (353)
+--|.|+.+|||||-.-.-.......|.++.++.
T Consensus 19 iIgI~G~~gsGKStla~~L~~~l~~~~~~~~~i~ 52 (193)
T PRK07667 19 ILGIDGLSRSGKTTFVANLKENMKQEGIPFHIFH 52 (193)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEE
Confidence 4568999999999966555555566778877664
No 500
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=71.54 E-value=9.9 Score=42.61 Aligned_cols=24 Identities=21% Similarity=0.014 Sum_probs=17.4
Q ss_pred ceeeeeccCCCCchhHHHHHHHHH
Q psy8456 151 EKEVILGPMFSGKTTELIRRIRRY 174 (353)
Q Consensus 151 eI~vi~G~M~sGKt~~Li~~~~~~ 174 (353)
...+++||-|.||||-...-.+.+
T Consensus 39 HAyLFtGPpGvGKTTlAriLAKaL 62 (830)
T PRK07003 39 HAYLFTGTRGVGKTTLSRIFAKAL 62 (830)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHh
Confidence 345799999999998655544443
Done!