Query 011431
Match_columns 486
No_of_seqs 435 out of 3000
Neff 8.1
Searched_HMMs 46136
Date Fri Mar 29 01:17:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011431.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011431hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03210 Resistant to P. syrin 100.0 1.8E-69 3.8E-74 625.4 26.3 342 16-381 9-367 (1153)
2 PLN03194 putative disease resi 100.0 4.8E-44 1E-48 321.1 13.3 154 16-186 23-179 (187)
3 KOG4658 Apoptotic ATPase [Sign 99.9 2.6E-26 5.5E-31 255.6 10.9 187 213-412 166-355 (889)
4 PF01582 TIR: TIR domain; Int 99.9 2.4E-23 5.2E-28 184.9 3.9 130 24-153 1-140 (141)
5 PF00931 NB-ARC: NB-ARC domain 99.9 1.4E-22 3.1E-27 200.9 7.2 166 214-382 5-174 (287)
6 smart00255 TIR Toll - interleu 99.8 2.9E-19 6.4E-24 158.0 11.3 133 23-157 3-139 (140)
7 PF13676 TIR_2: TIR domain; PD 99.5 1.2E-14 2.5E-19 121.5 2.2 87 24-115 1-87 (102)
8 KOG1603 Copper chaperone [Inor 99.3 6.8E-12 1.5E-16 98.0 8.0 61 381-444 3-63 (73)
9 PF00403 HMA: Heavy-metal-asso 98.5 4E-07 8.7E-12 68.6 6.7 57 387-445 2-61 (62)
10 KOG3678 SARM protein (with ste 98.2 2.5E-06 5.5E-11 86.4 7.7 86 23-113 614-708 (832)
11 PF05729 NACHT: NACHT domain 98.0 7.4E-06 1.6E-10 73.6 5.9 140 228-377 1-162 (166)
12 PF08937 DUF1863: MTH538 TIR-l 97.8 4E-05 8.7E-10 66.9 5.3 89 22-114 1-107 (130)
13 PRK06893 DNA replication initi 97.7 3.5E-05 7.7E-10 74.0 3.7 120 228-380 40-176 (229)
14 KOG4656 Copper chaperone for s 97.4 0.00037 8E-09 63.5 6.6 67 384-453 8-75 (247)
15 PF13173 AAA_14: AAA domain 97.4 0.00038 8.3E-09 60.4 6.3 121 228-370 3-127 (128)
16 COG2608 CopZ Copper chaperone 97.4 0.00059 1.3E-08 52.8 6.5 60 384-445 3-65 (71)
17 TIGR03015 pepcterm_ATPase puta 97.1 0.00063 1.4E-08 66.6 5.7 145 227-378 43-205 (269)
18 PRK00411 cdc6 cell division co 96.9 0.0027 5.8E-08 65.9 8.4 149 228-378 56-220 (394)
19 cd01128 rho_factor Transcripti 96.6 0.001 2.2E-08 64.6 2.3 50 228-278 17-69 (249)
20 cd00009 AAA The AAA+ (ATPases 96.6 0.013 2.8E-07 50.6 9.1 26 227-253 19-44 (151)
21 PRK13342 recombination factor 96.5 0.0088 1.9E-07 62.6 8.2 125 226-378 35-164 (413)
22 COG2256 MGS1 ATPase related to 96.5 0.0099 2.1E-07 60.4 8.0 123 226-376 47-174 (436)
23 PRK09376 rho transcription ter 96.2 0.0056 1.2E-07 62.7 4.5 50 229-279 171-223 (416)
24 TIGR00635 ruvB Holliday juncti 96.1 0.0051 1.1E-07 61.5 4.0 140 227-379 30-173 (305)
25 PLN02957 copper, zinc superoxi 96.1 0.023 4.9E-07 54.9 8.3 70 383-455 6-76 (238)
26 PF08357 SEFIR: SEFIR domain; 96.1 0.0091 2E-07 53.1 4.9 65 22-86 1-70 (150)
27 TIGR02903 spore_lon_C ATP-depe 96.0 0.0062 1.4E-07 66.9 4.2 81 298-379 283-367 (615)
28 PRK00080 ruvB Holliday junctio 95.9 0.009 1.9E-07 60.6 4.6 143 226-380 50-195 (328)
29 TIGR01242 26Sp45 26S proteasom 95.9 0.011 2.3E-07 61.0 5.2 130 229-380 158-308 (364)
30 PRK09087 hypothetical protein; 95.8 0.0062 1.3E-07 58.4 2.9 111 228-380 45-168 (226)
31 PRK13341 recombination factor 95.8 0.017 3.6E-07 64.5 6.6 126 226-379 51-182 (725)
32 TIGR03420 DnaA_homol_Hda DnaA 95.8 0.02 4.3E-07 54.4 6.3 122 227-377 38-171 (226)
33 PF01637 Arch_ATPase: Archaeal 95.6 0.0097 2.1E-07 56.3 3.2 26 227-253 20-45 (234)
34 PRK08727 hypothetical protein; 95.1 0.031 6.7E-07 53.8 5.2 122 228-380 42-177 (233)
35 PRK05564 DNA polymerase III su 95.0 0.15 3.3E-06 51.2 9.9 141 217-377 16-164 (313)
36 PRK08116 hypothetical protein; 95.0 0.024 5.2E-07 55.8 3.9 25 230-255 117-141 (268)
37 PRK04841 transcriptional regul 95.0 0.094 2E-06 60.4 9.4 150 220-379 25-200 (903)
38 PF10137 TIR-like: Predicted n 94.9 0.069 1.5E-06 46.1 6.0 60 23-85 1-61 (125)
39 PF13401 AAA_22: AAA domain; P 94.7 0.015 3.3E-07 49.9 1.6 113 228-345 5-125 (131)
40 PF00308 Bac_DnaA: Bacterial d 94.7 0.02 4.3E-07 54.6 2.4 133 228-380 35-181 (219)
41 TIGR02928 orc1/cdc6 family rep 94.6 0.12 2.7E-06 52.9 8.1 151 228-379 41-213 (365)
42 PRK05642 DNA replication initi 94.5 0.065 1.4E-06 51.6 5.6 122 228-380 46-181 (234)
43 PLN03025 replication factor C 94.4 0.22 4.8E-06 50.2 9.5 132 228-379 35-172 (319)
44 PRK08084 DNA replication initi 94.4 0.05 1.1E-06 52.4 4.5 121 227-380 45-182 (235)
45 PF05673 DUF815: Protein of un 94.1 0.39 8.5E-06 46.2 9.9 51 193-253 27-77 (249)
46 PRK06620 hypothetical protein; 94.1 0.05 1.1E-06 51.7 3.7 110 228-379 45-161 (214)
47 TIGR00362 DnaA chromosomal rep 94.0 0.067 1.5E-06 55.9 4.9 133 228-380 137-283 (405)
48 TIGR00767 rho transcription te 93.8 0.079 1.7E-06 54.6 4.8 52 228-280 169-223 (415)
49 PRK14963 DNA polymerase III su 93.7 0.36 7.9E-06 51.8 9.8 71 308-379 116-189 (504)
50 PRK07003 DNA polymerase III su 93.7 0.4 8.6E-06 53.4 10.1 71 308-378 119-191 (830)
51 PHA02544 44 clamp loader, smal 93.5 0.35 7.6E-06 48.5 8.9 124 227-375 43-170 (316)
52 PF13207 AAA_17: AAA domain; P 93.4 0.06 1.3E-06 45.6 2.7 23 229-252 1-23 (121)
53 PRK08118 topology modulation p 93.4 0.058 1.3E-06 49.0 2.8 26 229-255 3-28 (167)
54 PRK14088 dnaA chromosomal repl 93.2 0.2 4.3E-06 53.0 6.7 134 228-380 131-278 (440)
55 PRK12402 replication factor C 93.1 0.64 1.4E-05 46.9 10.1 70 309-379 126-198 (337)
56 PRK12422 chromosomal replicati 93.0 0.17 3.6E-06 53.5 5.8 131 228-380 142-286 (445)
57 PRK14961 DNA polymerase III su 93.0 0.61 1.3E-05 48.0 9.8 69 308-377 119-190 (363)
58 PRK00149 dnaA chromosomal repl 92.7 0.14 3.1E-06 54.2 4.9 133 228-380 149-295 (450)
59 PRK09270 nucleoside triphospha 92.6 0.16 3.5E-06 48.6 4.7 35 219-254 25-59 (229)
60 PRK07667 uridine kinase; Provi 92.6 0.15 3.3E-06 47.4 4.4 29 224-253 14-42 (193)
61 PRK14086 dnaA chromosomal repl 92.5 0.17 3.7E-06 55.1 5.2 133 228-380 315-461 (617)
62 PRK14087 dnaA chromosomal repl 92.4 0.12 2.7E-06 54.6 3.8 134 229-380 143-290 (450)
63 PRK04195 replication factor C 92.3 0.88 1.9E-05 48.7 10.3 25 227-252 39-63 (482)
64 PRK07261 topology modulation p 92.2 0.092 2E-06 47.9 2.3 23 229-252 2-24 (171)
65 PF13238 AAA_18: AAA domain; P 92.0 0.11 2.4E-06 44.1 2.5 22 230-252 1-22 (129)
66 TIGR02881 spore_V_K stage V sp 92.0 0.27 5.8E-06 48.1 5.5 25 227-252 42-66 (261)
67 PRK06696 uridine kinase; Valid 92.0 0.21 4.5E-06 47.6 4.6 29 224-253 19-47 (223)
68 PRK05480 uridine/cytidine kina 91.9 0.13 2.8E-06 48.4 3.1 27 225-252 4-30 (209)
69 TIGR00678 holB DNA polymerase 91.9 1.3 2.8E-05 40.8 9.6 69 308-377 96-167 (188)
70 PF00485 PRK: Phosphoribulokin 91.8 0.13 2.8E-06 47.8 2.9 25 229-254 1-25 (194)
71 PRK12377 putative replication 91.8 0.3 6.6E-06 47.4 5.5 27 228-255 102-128 (248)
72 PRK06645 DNA polymerase III su 91.8 0.97 2.1E-05 48.6 9.7 72 308-380 128-202 (507)
73 PRK10671 copA copper exporting 91.7 0.36 7.8E-06 55.3 6.9 63 383-450 3-67 (834)
74 PRK03992 proteasome-activating 91.7 0.42 9.1E-06 49.7 6.8 46 335-380 269-317 (389)
75 TIGR01425 SRP54_euk signal rec 91.4 0.53 1.1E-05 49.3 7.1 25 226-251 99-123 (429)
76 PRK14949 DNA polymerase III su 91.2 1.4 3E-05 50.1 10.4 70 308-378 119-191 (944)
77 COG1373 Predicted ATPase (AAA+ 91.1 0.81 1.8E-05 47.7 8.2 65 308-373 94-162 (398)
78 PRK14951 DNA polymerase III su 91.1 1.1 2.4E-05 49.3 9.4 70 308-378 124-196 (618)
79 PRK08233 hypothetical protein; 91.1 0.16 3.5E-06 46.3 2.7 25 227-252 3-27 (182)
80 TIGR03689 pup_AAA proteasome A 90.8 0.57 1.2E-05 50.2 6.9 45 335-379 332-379 (512)
81 PRK12323 DNA polymerase III su 90.8 1.2 2.7E-05 48.8 9.3 70 308-378 124-196 (700)
82 PRK06921 hypothetical protein; 90.7 0.24 5.2E-06 48.6 3.7 27 228-255 118-144 (266)
83 PRK00440 rfc replication facto 90.6 2 4.3E-05 42.8 10.4 132 227-379 38-175 (319)
84 TIGR00235 udk uridine kinase. 90.4 0.2 4.3E-06 47.1 2.7 27 226-253 5-31 (207)
85 COG0572 Udk Uridine kinase [Nu 90.3 0.24 5.2E-06 46.8 3.1 30 225-255 6-35 (218)
86 cd01858 NGP_1 NGP-1. Autoanti 90.3 2.2 4.8E-05 37.9 9.3 22 228-250 103-124 (157)
87 PRK14957 DNA polymerase III su 89.9 1.9 4.1E-05 46.8 9.9 67 308-375 119-188 (546)
88 PRK14962 DNA polymerase III su 89.8 1.8 3.8E-05 46.2 9.5 69 308-378 117-189 (472)
89 PF13191 AAA_16: AAA ATPase do 89.7 0.36 7.8E-06 43.8 3.8 41 214-255 9-51 (185)
90 PTZ00301 uridine kinase; Provi 89.7 0.37 7.9E-06 45.6 3.8 29 227-256 3-31 (210)
91 TIGR00064 ftsY signal recognit 89.3 1.1 2.3E-05 44.2 6.9 27 225-252 70-96 (272)
92 PRK10416 signal recognition pa 89.2 1.7 3.6E-05 43.9 8.4 27 226-253 113-139 (318)
93 PRK06835 DNA replication prote 89.2 0.6 1.3E-05 47.3 5.2 26 228-254 184-209 (329)
94 COG1618 Predicted nucleotide k 89.0 0.45 9.7E-06 42.8 3.6 30 227-257 5-35 (179)
95 PRK06762 hypothetical protein; 88.4 0.36 7.9E-06 43.4 2.7 24 228-252 3-26 (166)
96 PRK14970 DNA polymerase III su 88.1 3.2 7E-05 42.6 9.9 70 308-378 108-180 (367)
97 TIGR02880 cbbX_cfxQ probable R 88.0 0.61 1.3E-05 46.2 4.3 24 357-380 187-210 (284)
98 PF13271 DUF4062: Domain of un 88.0 1.4 3E-05 35.0 5.5 67 23-90 1-68 (83)
99 PTZ00112 origin recognition co 87.7 1.8 3.9E-05 49.1 7.9 27 226-253 780-806 (1164)
100 PRK05541 adenylylsulfate kinas 87.5 0.51 1.1E-05 43.0 3.2 30 227-257 7-36 (176)
101 cd02023 UMPK Uridine monophosp 87.4 0.38 8.3E-06 44.7 2.3 23 229-252 1-23 (198)
102 PRK03839 putative kinase; Prov 87.4 0.44 9.6E-06 43.5 2.7 24 229-253 2-25 (180)
103 cd02024 NRK1 Nicotinamide ribo 87.2 0.4 8.8E-06 44.4 2.3 23 229-252 1-23 (187)
104 cd01857 HSR1_MMR1 HSR1/MMR1. 87.0 4.2 9.1E-05 35.5 8.6 51 66-117 3-53 (141)
105 PRK06547 hypothetical protein; 86.9 0.58 1.3E-05 42.7 3.2 27 225-252 13-39 (172)
106 PRK04040 adenylate kinase; Pro 86.8 0.51 1.1E-05 43.8 2.8 25 228-253 3-27 (188)
107 PRK14960 DNA polymerase III su 86.8 3.5 7.5E-05 45.5 9.4 70 308-378 118-190 (702)
108 PF04665 Pox_A32: Poxvirus A32 86.7 0.4 8.7E-06 46.2 2.0 27 230-257 16-42 (241)
109 PRK07994 DNA polymerase III su 86.7 3.8 8.3E-05 45.3 9.8 69 308-377 119-190 (647)
110 PF03205 MobB: Molybdopterin g 86.6 0.49 1.1E-05 41.7 2.4 26 228-254 1-26 (140)
111 cd02042 ParA ParA and ParB of 86.5 0.48 1E-05 38.9 2.2 24 229-252 1-24 (104)
112 cd02025 PanK Pantothenate kina 86.5 0.45 9.7E-06 45.3 2.2 24 229-253 1-24 (220)
113 CHL00181 cbbX CbbX; Provisiona 86.5 0.98 2.1E-05 44.9 4.7 46 335-380 160-211 (287)
114 PRK07940 DNA polymerase III su 86.5 4.4 9.5E-05 42.2 9.7 69 308-377 117-188 (394)
115 COG1428 Deoxynucleoside kinase 86.4 0.52 1.1E-05 44.2 2.5 26 227-253 4-29 (216)
116 KOG2028 ATPase related to the 86.1 2.6 5.6E-05 42.8 7.3 130 219-376 155-292 (554)
117 PF05496 RuvB_N: Holliday junc 86.0 0.8 1.7E-05 43.6 3.6 32 225-257 48-79 (233)
118 PRK07764 DNA polymerase III su 86.0 3.6 7.9E-05 46.9 9.5 68 308-376 120-190 (824)
119 PRK00771 signal recognition pa 85.9 2.3 5E-05 44.8 7.4 27 226-253 94-120 (437)
120 PF13604 AAA_30: AAA domain; P 85.9 1.9 4E-05 40.3 6.1 129 228-379 19-150 (196)
121 PRK00131 aroK shikimate kinase 85.7 0.69 1.5E-05 41.5 3.0 25 228-253 5-29 (175)
122 PRK12608 transcription termina 85.7 1 2.2E-05 46.2 4.5 86 230-319 136-231 (380)
123 PRK11889 flhF flagellar biosyn 85.6 1.6 3.4E-05 45.3 5.7 26 226-252 240-265 (436)
124 TIGR03596 GTPase_YlqF ribosome 85.6 10 0.00022 37.3 11.5 26 67-92 14-39 (276)
125 PRK11331 5-methylcytosine-spec 85.5 1.1 2.4E-05 47.0 4.8 38 229-267 196-233 (459)
126 COG1763 MobB Molybdopterin-gua 85.3 0.64 1.4E-05 42.0 2.5 28 227-255 2-29 (161)
127 cd02028 UMPK_like Uridine mono 85.2 0.59 1.3E-05 42.9 2.3 24 229-253 1-24 (179)
128 cd02019 NK Nucleoside/nucleoti 85.2 0.7 1.5E-05 35.2 2.3 23 229-252 1-23 (69)
129 PRK08691 DNA polymerase III su 85.1 2.9 6.3E-05 46.4 7.8 24 228-252 39-62 (709)
130 PRK05439 pantothenate kinase; 84.8 1.8 3.9E-05 43.4 5.7 29 224-253 83-111 (311)
131 COG4916 Uncharacterized protei 84.7 1.1 2.4E-05 42.8 3.8 99 16-121 174-281 (329)
132 PF13671 AAA_33: AAA domain; P 84.6 0.78 1.7E-05 39.8 2.7 23 229-252 1-23 (143)
133 PRK14964 DNA polymerase III su 84.4 4 8.7E-05 43.6 8.4 71 308-379 116-189 (491)
134 TIGR03156 GTP_HflX GTP-binding 84.4 3.8 8.3E-05 41.9 8.0 156 65-251 55-212 (351)
135 TIGR00554 panK_bact pantothena 84.3 1.1 2.4E-05 44.5 4.0 27 225-252 60-86 (290)
136 PTZ00454 26S protease regulato 84.3 2.4 5.2E-05 44.2 6.6 45 335-379 283-330 (398)
137 TIGR01360 aden_kin_iso1 adenyl 84.3 0.78 1.7E-05 41.9 2.7 26 226-252 2-27 (188)
138 COG4240 Predicted kinase [Gene 84.3 1.1 2.3E-05 42.6 3.5 32 224-256 47-78 (300)
139 PF13614 AAA_31: AAA domain; P 84.2 0.81 1.8E-05 40.5 2.7 28 228-255 1-28 (157)
140 COG1100 GTPase SAR1 and relate 84.1 0.66 1.4E-05 43.5 2.2 24 228-252 6-29 (219)
141 PRK00889 adenylylsulfate kinas 84.0 0.83 1.8E-05 41.5 2.7 24 228-252 5-28 (175)
142 PRK06217 hypothetical protein; 83.9 0.87 1.9E-05 41.8 2.8 24 229-253 3-26 (183)
143 CHL00176 ftsH cell division pr 83.8 3.1 6.7E-05 46.1 7.5 46 335-380 320-368 (638)
144 smart00382 AAA ATPases associa 83.5 0.9 2E-05 38.2 2.6 27 228-255 3-29 (148)
145 PF06564 YhjQ: YhjQ protein; 83.3 0.8 1.7E-05 44.2 2.4 25 228-252 2-26 (243)
146 TIGR00176 mobB molybdopterin-g 83.2 0.8 1.7E-05 41.1 2.2 25 229-254 1-25 (155)
147 PF08477 Miro: Miro-like prote 83.2 0.88 1.9E-05 38.0 2.4 22 230-252 2-23 (119)
148 cd01133 F1-ATPase_beta F1 ATP 82.8 1.8 3.9E-05 42.6 4.7 41 229-271 71-111 (274)
149 PRK10751 molybdopterin-guanine 82.7 0.98 2.1E-05 41.3 2.6 27 226-253 5-31 (173)
150 PRK10867 signal recognition pa 82.7 3.5 7.6E-05 43.4 7.0 24 226-250 99-122 (433)
151 PF01926 MMR_HSR1: 50S ribosom 82.6 0.97 2.1E-05 37.8 2.4 21 230-251 2-22 (116)
152 PF01656 CbiA: CobQ/CobB/MinD/ 82.6 0.89 1.9E-05 41.6 2.4 25 230-254 1-25 (195)
153 COG2019 AdkA Archaeal adenylat 82.6 1 2.2E-05 40.7 2.6 26 226-252 3-28 (189)
154 PRK14493 putative bifunctional 82.6 0.91 2E-05 44.8 2.5 28 228-256 2-29 (274)
155 PRK09563 rbgA GTPase YlqF; Rev 82.5 15 0.00032 36.5 11.1 23 228-251 122-144 (287)
156 TIGR00073 hypB hydrogenase acc 82.4 1.1 2.4E-05 42.1 2.9 27 225-252 20-46 (207)
157 cd04139 RalA_RalB RalA/RalB su 82.3 0.92 2E-05 39.9 2.3 21 230-251 3-23 (164)
158 cd01983 Fer4_NifH The Fer4_Nif 82.2 0.91 2E-05 35.9 2.0 23 230-253 2-24 (99)
159 PF02680 DUF211: Uncharacteriz 82.2 2.3 4.9E-05 34.5 4.1 58 384-444 6-71 (95)
160 PRK14956 DNA polymerase III su 82.1 6.9 0.00015 41.6 9.0 69 308-377 121-192 (484)
161 PF00004 AAA: ATPase family as 82.0 1.1 2.4E-05 38.0 2.6 21 232-253 3-23 (132)
162 smart00763 AAA_PrkA PrkA AAA d 81.9 2 4.2E-05 44.0 4.7 28 225-253 76-103 (361)
163 PRK03846 adenylylsulfate kinas 81.9 1 2.3E-05 41.9 2.6 26 226-252 23-48 (198)
164 PF00910 RNA_helicase: RNA hel 81.9 0.82 1.8E-05 38.1 1.7 24 231-255 2-25 (107)
165 TIGR02322 phosphon_PhnN phosph 81.9 1.1 2.3E-05 40.9 2.6 23 229-252 3-25 (179)
166 cd00227 CPT Chloramphenicol (C 81.8 1.2 2.5E-05 40.6 2.8 24 228-252 3-26 (175)
167 PRK08903 DnaA regulatory inact 81.7 2 4.3E-05 40.8 4.5 25 227-252 42-66 (227)
168 PF07726 AAA_3: ATPase family 81.6 0.96 2.1E-05 39.2 2.0 25 231-256 3-27 (131)
169 PHA00729 NTP-binding motif con 81.5 1.3 2.8E-05 42.3 3.0 27 226-253 16-42 (226)
170 PRK13975 thymidylate kinase; P 81.3 1.2 2.6E-05 41.2 2.7 26 228-254 3-28 (196)
171 PRK13947 shikimate kinase; Pro 81.1 1.2 2.6E-05 40.1 2.6 26 230-256 4-29 (171)
172 TIGR02397 dnaX_nterm DNA polym 81.1 7.7 0.00017 39.3 8.9 70 308-378 117-189 (355)
173 PF01583 APS_kinase: Adenylyls 81.1 1.2 2.7E-05 39.9 2.6 26 229-255 4-29 (156)
174 TIGR03263 guanyl_kin guanylate 81.1 1.1 2.4E-05 40.8 2.4 24 228-252 2-25 (180)
175 PRK00625 shikimate kinase; Pro 81.1 1.2 2.6E-05 40.7 2.6 23 230-253 3-25 (173)
176 PLN02348 phosphoribulokinase 81.0 1.8 3.8E-05 44.8 4.0 30 223-253 45-74 (395)
177 COG0593 DnaA ATPase involved i 81.0 2.1 4.5E-05 44.5 4.5 133 227-380 113-259 (408)
178 PRK07471 DNA polymerase III su 80.9 15 0.00033 37.8 10.9 71 308-379 141-214 (365)
179 PRK00300 gmk guanylate kinase; 80.9 1.2 2.5E-05 41.6 2.5 24 228-252 6-29 (205)
180 PRK13695 putative NTPase; Prov 80.4 1.3 2.8E-05 40.2 2.6 24 229-253 2-25 (174)
181 PHA02518 ParA-like protein; Pr 80.3 1.2 2.6E-05 41.5 2.4 23 228-250 1-23 (211)
182 cd02020 CMPK Cytidine monophos 80.3 1.3 2.9E-05 38.4 2.5 23 229-252 1-23 (147)
183 PRK13768 GTPase; Provisional 80.3 1.2 2.6E-05 43.4 2.4 25 228-253 3-27 (253)
184 cd04155 Arl3 Arl3 subfamily. 80.3 1.6 3.5E-05 39.0 3.1 25 226-251 13-37 (173)
185 cd00879 Sar1 Sar1 subfamily. 80.1 2 4.3E-05 39.3 3.7 23 228-251 20-42 (190)
186 TIGR00959 ffh signal recogniti 80.1 6.1 0.00013 41.6 7.7 25 226-251 98-122 (428)
187 TIGR01287 nifH nitrogenase iro 80.1 1.1 2.4E-05 44.0 2.1 22 228-250 1-22 (275)
188 cd00464 SK Shikimate kinase (S 79.9 1.4 3.1E-05 38.7 2.6 23 230-253 2-24 (154)
189 PRK08154 anaerobic benzoate ca 79.8 3.1 6.7E-05 41.7 5.3 28 225-253 131-158 (309)
190 PRK10078 ribose 1,5-bisphospho 79.5 1.4 3E-05 40.6 2.5 24 229-253 4-27 (186)
191 COG0003 ArsA Predicted ATPase 79.3 1.3 2.7E-05 44.8 2.3 20 227-247 2-21 (322)
192 cd00071 GMPK Guanosine monopho 79.3 1.4 3.1E-05 38.4 2.4 23 230-253 2-24 (137)
193 cd01131 PilT Pilus retraction 79.3 2.4 5.2E-05 39.5 4.0 110 229-349 3-112 (198)
194 PRK10463 hydrogenase nickel in 79.2 2.4 5.3E-05 42.0 4.2 30 225-255 102-131 (290)
195 PTZ00202 tuzin; Provisional 79.1 6.3 0.00014 41.5 7.2 64 213-283 270-335 (550)
196 cd03116 MobB Molybdenum is an 79.1 1.5 3.3E-05 39.5 2.5 26 228-254 2-27 (159)
197 cd00154 Rab Rab family. Rab G 79.0 1.4 3E-05 38.1 2.3 21 230-251 3-23 (159)
198 PRK13946 shikimate kinase; Pro 79.0 1.6 3.4E-05 40.2 2.7 28 228-256 11-38 (184)
199 PLN02796 D-glycerate 3-kinase 78.8 1.5 3.2E-05 44.5 2.6 28 226-254 99-126 (347)
200 cd01876 YihA_EngB The YihA (En 78.8 1.3 2.9E-05 38.8 2.1 19 230-249 2-20 (170)
201 PRK14969 DNA polymerase III su 78.7 7.5 0.00016 42.1 8.1 23 229-252 40-62 (527)
202 PRK13949 shikimate kinase; Pro 78.6 1.6 3.5E-05 39.6 2.6 25 229-254 3-27 (169)
203 COG1936 Predicted nucleotide k 78.6 1.4 3.1E-05 40.0 2.1 20 229-249 2-21 (180)
204 TIGR01968 minD_bact septum sit 78.2 1.5 3.3E-05 42.2 2.5 25 228-252 2-26 (261)
205 TIGR00231 small_GTP small GTP- 78.1 1.5 3.2E-05 37.7 2.1 22 229-251 3-24 (161)
206 PF13177 DNA_pol3_delta2: DNA 78.0 18 0.0004 32.4 9.3 59 308-366 102-162 (162)
207 cd03114 ArgK-like The function 77.9 1.4 3.1E-05 39.0 2.0 23 229-252 1-23 (148)
208 PLN02318 phosphoribulokinase/u 77.9 2.7 5.8E-05 45.8 4.3 28 224-252 62-89 (656)
209 COG2909 MalT ATP-dependent tra 77.7 4.6 9.9E-05 45.4 6.1 155 218-379 28-208 (894)
210 cd02117 NifH_like This family 77.6 1.5 3.3E-05 41.2 2.2 20 228-248 1-20 (212)
211 cd00878 Arf_Arl Arf (ADP-ribos 77.6 1.5 3.3E-05 38.5 2.1 21 230-251 2-22 (158)
212 cd01862 Rab7 Rab7 subfamily. 77.6 1.6 3.4E-05 38.9 2.2 21 230-251 3-23 (172)
213 PF00005 ABC_tran: ABC transpo 77.5 1.7 3.8E-05 37.3 2.4 24 228-252 12-35 (137)
214 PRK04182 cytidylate kinase; Pr 77.4 1.9 4.1E-05 38.9 2.7 23 229-252 2-24 (180)
215 cd00876 Ras Ras family. The R 77.3 1.6 3.6E-05 38.1 2.2 20 230-250 2-21 (160)
216 cd01672 TMPK Thymidine monopho 77.2 1.8 3.9E-05 39.6 2.5 24 229-253 2-25 (200)
217 cd02021 GntK Gluconate kinase 77.0 1.8 4E-05 38.0 2.5 22 230-252 2-23 (150)
218 TIGR01313 therm_gnt_kin carboh 76.9 1.6 3.6E-05 38.9 2.1 22 230-252 1-22 (163)
219 COG1888 Uncharacterized protei 76.9 4.4 9.6E-05 32.4 4.2 44 401-444 23-73 (97)
220 PRK05057 aroK shikimate kinase 76.9 2.2 4.7E-05 38.8 3.0 25 228-253 5-29 (172)
221 cd04119 RJL RJL (RabJ-Like) su 76.9 1.7 3.8E-05 38.3 2.3 21 230-251 3-23 (168)
222 TIGR01359 UMP_CMP_kin_fam UMP- 76.7 1.8 3.8E-05 39.5 2.3 23 229-252 1-23 (183)
223 PRK00454 engB GTP-binding prot 76.4 2 4.4E-05 39.3 2.6 26 225-251 22-47 (196)
224 smart00173 RAS Ras subfamily o 76.3 1.9 4E-05 38.2 2.3 20 230-250 3-22 (164)
225 PF13521 AAA_28: AAA domain; P 76.3 1.9 4E-05 38.7 2.3 21 230-251 2-22 (163)
226 PRK06761 hypothetical protein; 76.2 2.1 4.5E-05 42.3 2.8 26 228-254 4-29 (282)
227 PRK14490 putative bifunctional 76.1 1.9 4.2E-05 44.4 2.7 27 228-255 6-32 (369)
228 cd04123 Rab21 Rab21 subfamily. 76.1 1.9 4.1E-05 37.8 2.3 21 230-251 3-23 (162)
229 PRK12339 2-phosphoglycerate ki 76.0 2.1 4.6E-05 40.0 2.7 24 228-252 4-27 (197)
230 TIGR03499 FlhF flagellar biosy 75.9 1.8 4E-05 42.8 2.3 27 226-253 193-219 (282)
231 cd01878 HflX HflX subfamily. 75.9 2 4.4E-05 39.8 2.5 26 225-251 39-64 (204)
232 cd03111 CpaE_like This protein 75.8 1.9 4.2E-05 35.7 2.1 25 229-253 1-25 (106)
233 smart00175 RAB Rab subfamily o 75.7 1.9 4.1E-05 38.0 2.2 21 230-251 3-23 (164)
234 cd04159 Arl10_like Arl10-like 75.7 1.8 3.9E-05 37.5 2.0 21 230-251 2-22 (159)
235 TIGR02858 spore_III_AA stage I 75.7 4.5 9.8E-05 39.8 5.0 115 226-348 110-231 (270)
236 PRK13230 nitrogenase reductase 75.7 1.8 4E-05 42.5 2.3 22 228-250 2-23 (279)
237 TIGR01969 minD_arch cell divis 75.7 1.9 4.2E-05 41.3 2.4 24 228-251 1-24 (251)
238 cd04113 Rab4 Rab4 subfamily. 75.6 2 4.3E-05 37.9 2.3 21 230-251 3-23 (161)
239 PRK08099 bifunctional DNA-bind 75.6 2 4.3E-05 44.8 2.6 27 224-251 216-242 (399)
240 PRK13948 shikimate kinase; Pro 75.4 2.4 5.1E-05 39.1 2.8 30 226-256 9-38 (182)
241 cd01120 RecA-like_NTPases RecA 75.3 4.7 0.0001 35.2 4.6 24 230-254 2-25 (165)
242 PF00448 SRP54: SRP54-type pro 75.3 3.6 7.8E-05 38.4 4.0 36 228-266 2-37 (196)
243 TIGR00150 HI0065_YjeE ATPase, 75.2 2.4 5.1E-05 37.0 2.6 25 228-253 23-47 (133)
244 cd04163 Era Era subfamily. Er 75.1 2.2 4.7E-05 37.2 2.4 22 228-250 4-25 (168)
245 TIGR03018 pepcterm_TyrKin exop 75.1 3.7 8E-05 38.5 4.1 27 225-251 33-59 (207)
246 PRK13232 nifH nitrogenase redu 75.1 1.9 4.2E-05 42.2 2.2 22 228-250 2-23 (273)
247 cd01898 Obg Obg subfamily. Th 75.0 2 4.2E-05 38.2 2.1 20 230-250 3-22 (170)
248 PRK14738 gmk guanylate kinase; 75.0 2.3 5E-05 39.9 2.6 27 224-251 10-36 (206)
249 cd04138 H_N_K_Ras_like H-Ras/N 75.0 2.1 4.6E-05 37.4 2.3 20 230-250 4-23 (162)
250 cd02027 APSK Adenosine 5'-phos 74.8 2 4.3E-05 38.1 2.0 23 229-252 1-23 (149)
251 PRK08972 fliI flagellum-specif 74.7 5.9 0.00013 41.6 5.8 23 228-251 163-185 (444)
252 TIGR01007 eps_fam capsular exo 74.7 3.6 7.8E-05 38.3 3.9 28 225-252 15-42 (204)
253 cd02040 NifH NifH gene encodes 74.5 2.1 4.5E-05 41.7 2.3 23 228-251 2-24 (270)
254 cd04160 Arfrp1 Arfrp1 subfamil 74.5 2.3 4.9E-05 37.8 2.4 21 230-251 2-22 (167)
255 TIGR03815 CpaE_hom_Actino heli 74.5 2.2 4.7E-05 43.0 2.5 26 226-251 92-117 (322)
256 COG1474 CDC6 Cdc6-related prot 74.4 7.6 0.00017 40.0 6.4 88 230-320 45-135 (366)
257 cd01856 YlqF YlqF. Proteins o 74.3 33 0.00071 30.8 10.1 26 65-90 10-35 (171)
258 TIGR00101 ureG urease accessor 74.3 2.6 5.6E-05 39.4 2.8 25 229-254 3-27 (199)
259 cd02034 CooC The accessory pro 74.3 2.5 5.3E-05 35.9 2.4 24 230-254 2-25 (116)
260 COG2607 Predicted ATPase (AAA+ 74.3 40 0.00087 32.6 10.6 42 213-256 72-113 (287)
261 COG1484 DnaC DNA replication p 74.3 6.2 0.00013 38.4 5.5 23 230-253 108-130 (254)
262 PF00071 Ras: Ras family; Int 74.2 2.4 5.2E-05 37.4 2.5 21 230-251 2-22 (162)
263 PF03266 NTPase_1: NTPase; In 74.2 2.4 5.1E-05 38.6 2.4 24 230-254 2-25 (168)
264 PRK13233 nifH nitrogenase redu 74.1 2.2 4.7E-05 41.9 2.3 24 228-252 3-26 (275)
265 COG3640 CooC CO dehydrogenase 74.1 2.3 5.1E-05 40.6 2.4 55 360-415 134-188 (255)
266 PF02374 ArsA_ATPase: Anion-tr 74.0 2.2 4.8E-05 42.7 2.4 20 228-248 2-21 (305)
267 COG1192 Soj ATPases involved i 74.0 2.4 5.2E-05 41.1 2.6 26 228-253 3-28 (259)
268 cd02036 MinD Bacterial cell di 74.0 2.2 4.8E-05 38.4 2.2 23 230-252 2-24 (179)
269 PRK12337 2-phosphoglycerate ki 73.9 10 0.00023 40.1 7.3 27 225-252 253-279 (475)
270 cd02022 DPCK Dephospho-coenzym 73.9 2.1 4.5E-05 39.2 2.0 21 229-250 1-21 (179)
271 TIGR02173 cyt_kin_arch cytidyl 73.7 2.7 5.9E-05 37.6 2.7 23 229-252 2-24 (171)
272 PRK13235 nifH nitrogenase redu 73.6 2.2 4.7E-05 41.9 2.2 20 228-248 2-21 (274)
273 cd04150 Arf1_5_like Arf1-Arf5- 73.6 2.2 4.8E-05 37.9 2.1 19 230-249 3-21 (159)
274 COG2255 RuvB Holliday junction 73.5 2.5 5.5E-05 41.5 2.5 32 225-257 50-81 (332)
275 PF03193 DUF258: Protein of un 73.4 4.3 9.4E-05 36.6 3.9 34 213-251 25-58 (161)
276 cd01895 EngA2 EngA2 subfamily. 73.4 2.6 5.6E-05 37.2 2.5 23 228-251 3-25 (174)
277 cd04162 Arl9_Arfrp2_like Arl9/ 73.3 2.3 5E-05 38.1 2.1 21 230-251 2-22 (164)
278 PRK09825 idnK D-gluconate kina 73.2 2.7 5.9E-05 38.4 2.6 25 228-253 4-28 (176)
279 PRK03731 aroL shikimate kinase 73.2 2.9 6.2E-05 37.7 2.7 24 229-253 4-27 (171)
280 TIGR02528 EutP ethanolamine ut 73.1 2.2 4.9E-05 36.8 1.9 21 230-251 3-23 (142)
281 cd00880 Era_like Era (E. coli 73.1 1.8 3.9E-05 37.2 1.3 19 232-251 1-19 (163)
282 COG1124 DppF ABC-type dipeptid 73.1 2.5 5.3E-05 40.6 2.3 22 228-250 34-55 (252)
283 cd01864 Rab19 Rab19 subfamily. 73.0 2.5 5.4E-05 37.5 2.2 22 228-250 4-25 (165)
284 KOG1532 GTPase XAB1, interacts 73.0 3.6 7.9E-05 40.2 3.4 31 226-257 18-48 (366)
285 KOG0735 AAA+-type ATPase [Post 72.6 5.7 0.00012 43.8 5.1 24 230-254 434-457 (952)
286 PRK14974 cell division protein 72.6 2.8 6E-05 42.6 2.7 27 226-253 139-165 (336)
287 cd04177 RSR1 RSR1 subgroup. R 72.5 2.6 5.6E-05 37.6 2.3 21 230-251 4-24 (168)
288 cd02026 PRK Phosphoribulokinas 72.4 2.5 5.5E-05 41.6 2.3 23 229-252 1-23 (273)
289 PRK14489 putative bifunctional 72.4 3.5 7.7E-05 42.4 3.5 29 226-255 204-232 (366)
290 PRK09435 membrane ATPase/prote 72.3 3.9 8.4E-05 41.5 3.6 29 224-253 53-81 (332)
291 PRK00698 tmk thymidylate kinas 72.3 3 6.4E-05 38.6 2.7 24 228-252 4-27 (205)
292 cd04137 RheB Rheb (Ras Homolog 72.1 2.9 6.3E-05 37.7 2.5 21 229-250 3-23 (180)
293 PRK14952 DNA polymerase III su 72.1 20 0.00044 39.3 9.3 24 229-253 37-60 (584)
294 TIGR00455 apsK adenylylsulfate 72.0 3.1 6.7E-05 38.1 2.7 26 226-252 17-42 (184)
295 cd04140 ARHI_like ARHI subfami 72.0 2.7 5.9E-05 37.4 2.3 20 230-250 4-23 (165)
296 PF07728 AAA_5: AAA domain (dy 72.0 3.3 7.1E-05 35.8 2.7 20 232-252 4-23 (139)
297 cd03255 ABC_MJ0796_Lo1CDE_FtsE 71.9 2.7 5.8E-05 39.6 2.3 24 228-252 31-54 (218)
298 TIGR00450 mnmE_trmE_thdF tRNA 71.8 8.7 0.00019 40.7 6.3 22 229-251 205-226 (442)
299 PRK14530 adenylate kinase; Pro 71.8 3.1 6.8E-05 39.2 2.7 23 229-252 5-27 (215)
300 TIGR01281 DPOR_bchL light-inde 71.7 2.6 5.6E-05 41.1 2.2 20 229-249 2-21 (268)
301 cd00820 PEPCK_HprK Phosphoenol 71.7 3.1 6.7E-05 34.9 2.3 22 227-249 15-36 (107)
302 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 71.7 2.7 5.9E-05 37.3 2.2 21 229-250 4-24 (166)
303 PRK13231 nitrogenase reductase 71.6 2.7 5.9E-05 40.9 2.4 24 228-252 3-26 (264)
304 PLN03046 D-glycerate 3-kinase; 71.6 3.2 6.8E-05 43.4 2.8 26 226-252 211-236 (460)
305 PRK14494 putative molybdopteri 71.6 3 6.5E-05 39.9 2.5 26 228-254 2-27 (229)
306 COG0237 CoaE Dephospho-CoA kin 71.5 2.9 6.3E-05 39.2 2.4 23 227-250 2-24 (201)
307 TIGR02640 gas_vesic_GvpN gas v 71.5 5.4 0.00012 39.0 4.4 21 232-253 26-46 (262)
308 cd04124 RabL2 RabL2 subfamily. 71.5 2.9 6.2E-05 37.1 2.3 20 230-250 3-22 (161)
309 cd03225 ABC_cobalt_CbiO_domain 71.4 2.9 6.2E-05 39.1 2.4 24 228-252 28-51 (211)
310 COG0194 Gmk Guanylate kinase [ 71.4 4 8.8E-05 37.6 3.2 23 229-252 6-28 (191)
311 cd04161 Arl2l1_Arl13_like Arl2 71.4 2.7 5.8E-05 37.7 2.1 21 230-251 2-22 (167)
312 cd00157 Rho Rho (Ras homology) 71.4 2.9 6.2E-05 37.1 2.3 21 230-251 3-23 (171)
313 TIGR03574 selen_PSTK L-seryl-t 71.4 2.8 6E-05 40.5 2.3 23 230-253 2-24 (249)
314 PRK12597 F0F1 ATP synthase sub 71.3 6 0.00013 42.0 4.9 41 228-270 144-184 (461)
315 PHA02774 E1; Provisional 71.3 19 0.00042 39.2 8.7 40 212-252 419-458 (613)
316 cd04171 SelB SelB subfamily. 71.3 3 6.4E-05 36.6 2.3 21 229-250 2-22 (164)
317 PRK14959 DNA polymerase III su 71.3 21 0.00046 39.3 9.2 69 308-377 119-190 (624)
318 PRK06936 type III secretion sy 71.3 6.6 0.00014 41.3 5.2 38 228-270 163-200 (439)
319 COG4107 PhnK ABC-type phosphon 71.2 3.1 6.7E-05 38.0 2.3 24 228-252 33-56 (258)
320 PRK13236 nitrogenase reductase 71.1 3.1 6.8E-05 41.4 2.7 24 225-249 4-27 (296)
321 cd01861 Rab6 Rab6 subfamily. 71.0 2.9 6.3E-05 36.7 2.2 21 230-251 3-23 (161)
322 CHL00175 minD septum-site dete 71.0 3 6.5E-05 41.0 2.5 26 225-250 13-38 (281)
323 cd01860 Rab5_related Rab5-rela 70.8 2.9 6.4E-05 36.8 2.2 21 230-251 4-24 (163)
324 PRK10818 cell division inhibit 70.8 3.1 6.8E-05 40.6 2.6 23 228-250 3-25 (270)
325 PF00142 Fer4_NifH: 4Fe-4S iro 70.7 3.3 7.1E-05 40.4 2.6 23 228-251 1-23 (273)
326 cd01132 F1_ATPase_alpha F1 ATP 70.6 4.1 8.9E-05 40.1 3.3 22 229-251 71-93 (274)
327 TIGR02639 ClpA ATP-dependent C 70.6 6.7 0.00014 44.4 5.4 153 173-343 434-601 (731)
328 TIGR00960 3a0501s02 Type II (G 70.4 3 6.5E-05 39.2 2.3 24 228-252 30-53 (216)
329 TIGR02016 BchX chlorophyllide 70.4 2.9 6.3E-05 41.7 2.2 24 228-252 1-24 (296)
330 cd01897 NOG NOG1 is a nucleola 70.4 3.1 6.7E-05 36.9 2.3 22 229-251 2-23 (168)
331 cd03229 ABC_Class3 This class 70.3 3.1 6.8E-05 37.9 2.3 23 228-251 27-49 (178)
332 TIGR01166 cbiO cobalt transpor 70.3 3.1 6.7E-05 38.3 2.3 24 228-252 19-42 (190)
333 PRK08356 hypothetical protein; 70.3 3.2 7E-05 38.5 2.4 20 228-248 6-25 (195)
334 cd03259 ABC_Carb_Solutes_like 70.1 3.1 6.7E-05 39.0 2.3 23 228-251 27-49 (213)
335 COG1126 GlnQ ABC-type polar am 70.0 4.6 0.0001 38.2 3.3 23 228-252 29-51 (240)
336 TIGR00750 lao LAO/AO transport 70.0 4.9 0.00011 40.1 3.8 27 225-252 32-58 (300)
337 cd03297 ABC_ModC_molybdenum_tr 70.0 3.3 7.2E-05 38.8 2.5 26 225-252 22-47 (214)
338 cd04101 RabL4 RabL4 (Rab-like4 69.9 3 6.6E-05 36.8 2.1 19 230-249 3-21 (164)
339 PRK13185 chlL protochlorophyll 69.9 3.2 6.9E-05 40.6 2.4 22 228-250 3-24 (270)
340 TIGR03598 GTPase_YsxC ribosome 69.9 3.5 7.6E-05 37.4 2.5 25 226-251 17-41 (179)
341 PF00625 Guanylate_kin: Guanyl 69.8 3.8 8.2E-05 37.5 2.7 29 228-257 3-31 (183)
342 PLN00020 ribulose bisphosphate 69.7 3.7 7.9E-05 42.2 2.8 31 225-256 146-176 (413)
343 cd01888 eIF2_gamma eIF2-gamma 69.7 3 6.5E-05 38.9 2.1 19 229-248 2-20 (203)
344 cd04136 Rap_like Rap-like subf 69.6 3.3 7.2E-05 36.4 2.3 20 230-250 4-23 (163)
345 cd04103 Centaurin_gamma Centau 69.6 3.1 6.8E-05 37.0 2.1 18 230-248 3-20 (158)
346 PRK12727 flagellar biosynthesi 69.5 4.6 0.0001 43.5 3.6 27 227-254 350-376 (559)
347 PF03029 ATP_bind_1: Conserved 69.5 3.1 6.7E-05 40.1 2.2 22 232-254 1-22 (238)
348 cd03115 SRP The signal recogni 69.4 3.5 7.6E-05 37.2 2.4 24 229-253 2-25 (173)
349 cd01891 TypA_BipA TypA (tyrosi 69.3 3.9 8.4E-05 37.6 2.7 23 227-250 2-24 (194)
350 cd03269 ABC_putative_ATPase Th 69.2 3.3 7.2E-05 38.7 2.3 23 228-251 27-49 (210)
351 TIGR02673 FtsE cell division A 69.2 3.3 7.2E-05 38.8 2.3 23 228-251 29-51 (214)
352 cd03260 ABC_PstB_phosphate_tra 69.0 3.4 7.3E-05 39.2 2.3 24 228-252 27-50 (227)
353 cd02032 Bchl_like This family 68.9 3.3 7E-05 40.4 2.2 21 229-250 2-22 (267)
354 cd04115 Rab33B_Rab33A Rab33B/R 68.9 3.5 7.5E-05 36.9 2.3 21 229-250 4-24 (170)
355 cd01892 Miro2 Miro2 subfamily. 68.9 4 8.7E-05 36.7 2.7 24 226-250 3-26 (169)
356 cd04114 Rab30 Rab30 subfamily. 68.8 3.9 8.4E-05 36.3 2.6 23 227-250 7-29 (169)
357 TIGR01040 V-ATPase_V1_B V-type 68.7 8.2 0.00018 40.8 5.2 25 228-253 142-166 (466)
358 cd04151 Arl1 Arl1 subfamily. 68.6 3.3 7.2E-05 36.4 2.1 20 230-250 2-21 (158)
359 smart00178 SAR Sar1p-like memb 68.6 6.1 0.00013 36.1 3.9 22 228-250 18-39 (184)
360 cd03256 ABC_PhnC_transporter A 68.6 3.4 7.4E-05 39.5 2.3 23 228-251 28-50 (241)
361 PRK10584 putative ABC transpor 68.5 3.6 7.8E-05 39.0 2.4 24 228-252 37-60 (228)
362 PTZ00185 ATPase alpha subunit; 68.4 7.3 0.00016 41.7 4.8 88 229-321 191-302 (574)
363 cd01866 Rab2 Rab2 subfamily. 68.3 3.5 7.7E-05 36.8 2.2 22 229-251 6-27 (168)
364 PRK04213 GTP-binding protein; 68.3 4 8.7E-05 37.6 2.6 24 227-251 9-32 (201)
365 cd01887 IF2_eIF5B IF2/eIF5B (i 68.3 3.7 8.1E-05 36.2 2.3 21 229-250 2-22 (168)
366 cd03263 ABC_subfamily_A The AB 68.2 3.7 8E-05 38.7 2.4 24 228-252 29-52 (220)
367 PRK13541 cytochrome c biogenes 68.2 3.6 7.8E-05 38.0 2.3 23 228-251 27-49 (195)
368 PRK07429 phosphoribulokinase; 68.1 4.5 9.7E-05 41.0 3.1 29 224-253 5-33 (327)
369 cd04106 Rab23_lke Rab23-like s 68.1 3.6 7.8E-05 36.2 2.2 21 230-251 3-23 (162)
370 KOG0781 Signal recognition par 68.1 12 0.00026 39.5 6.0 43 224-267 375-418 (587)
371 cd04156 ARLTS1 ARLTS1 subfamil 68.0 3.6 7.8E-05 36.1 2.1 21 230-251 2-22 (160)
372 cd03235 ABC_Metallic_Cations A 68.0 3.6 7.8E-05 38.5 2.3 23 228-251 26-48 (213)
373 PRK04132 replication factor C 67.9 21 0.00046 40.8 8.6 122 236-377 574-701 (846)
374 PRK08451 DNA polymerase III su 67.9 28 0.00062 37.7 9.2 68 308-376 117-187 (535)
375 cd03261 ABC_Org_Solvent_Resist 67.9 3.6 7.8E-05 39.2 2.3 24 228-252 27-50 (235)
376 cd03293 ABC_NrtD_SsuB_transpor 67.9 3.8 8.1E-05 38.7 2.4 24 228-252 31-54 (220)
377 PRK08058 DNA polymerase III su 67.8 44 0.00096 33.8 10.3 69 308-377 110-181 (329)
378 PRK05707 DNA polymerase III su 67.8 15 0.00033 37.1 6.9 68 309-377 107-177 (328)
379 COG1120 FepC ABC-type cobalami 67.7 3.8 8.1E-05 40.0 2.3 24 228-252 29-52 (258)
380 cd03265 ABC_DrrA DrrA is the A 67.7 3.7 8E-05 38.7 2.3 23 228-251 27-49 (220)
381 TIGR03371 cellulose_yhjQ cellu 67.6 3.9 8.4E-05 39.1 2.5 25 228-252 2-26 (246)
382 cd03238 ABC_UvrA The excision 67.6 3.8 8.3E-05 37.5 2.2 21 228-249 22-42 (176)
383 cd03296 ABC_CysA_sulfate_impor 67.6 3.7 8E-05 39.3 2.3 23 228-251 29-51 (239)
384 PF00025 Arf: ADP-ribosylation 67.5 6.4 0.00014 35.7 3.7 23 227-250 14-36 (175)
385 TIGR00041 DTMP_kinase thymidyl 67.5 4.4 9.5E-05 37.3 2.7 25 228-253 4-28 (195)
386 cd03292 ABC_FtsE_transporter F 67.4 3.8 8.2E-05 38.3 2.3 23 228-251 28-50 (214)
387 cd04141 Rit_Rin_Ric Rit/Rin/Ri 67.4 3.9 8.5E-05 36.9 2.3 20 230-250 5-24 (172)
388 PRK14971 DNA polymerase III su 67.4 32 0.00069 38.1 9.7 68 308-376 121-191 (614)
389 TIGR03864 PQQ_ABC_ATP ABC tran 67.4 3.8 8.2E-05 39.2 2.3 23 228-251 28-50 (236)
390 cd02037 MRP-like MRP (Multiple 67.4 3.6 7.8E-05 37.0 2.1 23 230-252 2-24 (169)
391 cd04154 Arl2 Arl2 subfamily. 67.3 4.3 9.3E-05 36.4 2.5 22 229-251 16-37 (173)
392 cd03301 ABC_MalK_N The N-termi 67.3 3.8 8.3E-05 38.3 2.3 24 228-252 27-50 (213)
393 TIGR02315 ABC_phnC phosphonate 67.3 3.7 8.1E-05 39.3 2.3 23 228-251 29-51 (243)
394 COG3638 ABC-type phosphate/pho 67.2 3.9 8.5E-05 39.2 2.3 23 227-250 30-52 (258)
395 cd04145 M_R_Ras_like M-Ras/R-R 67.2 4 8.7E-05 35.8 2.3 21 229-250 4-24 (164)
396 cd01673 dNK Deoxyribonucleosid 67.2 3.9 8.5E-05 37.6 2.3 22 229-251 1-22 (193)
397 PRK01184 hypothetical protein; 67.2 3.5 7.6E-05 37.6 1.9 18 228-246 2-19 (184)
398 cd04158 ARD1 ARD1 subfamily. 67.1 3.7 8.1E-05 36.7 2.1 21 230-251 2-22 (169)
399 cd04146 RERG_RasL11_like RERG/ 67.1 4 8.6E-05 36.2 2.3 20 230-250 2-21 (165)
400 PTZ00132 GTP-binding nuclear p 67.0 3.9 8.6E-05 38.3 2.3 24 228-252 10-34 (215)
401 PRK14737 gmk guanylate kinase; 67.0 4.6 0.0001 37.3 2.7 25 227-252 4-28 (186)
402 cd01868 Rab11_like Rab11-like. 66.9 3.9 8.5E-05 36.1 2.2 22 229-251 5-26 (165)
403 KOG3308 Uncharacterized protei 66.8 4.9 0.00011 37.5 2.7 23 227-250 4-26 (225)
404 cd03222 ABC_RNaseL_inhibitor T 66.8 4 8.7E-05 37.4 2.2 23 228-251 26-48 (177)
405 cd03252 ABCC_Hemolysin The ABC 66.8 3.9 8.6E-05 39.0 2.3 23 228-251 29-51 (237)
406 cd03264 ABC_drug_resistance_li 66.7 3.9 8.4E-05 38.3 2.2 22 229-251 27-48 (211)
407 TIGR01184 ntrCD nitrate transp 66.7 4.1 8.9E-05 38.8 2.4 24 228-252 12-35 (230)
408 PRK07933 thymidylate kinase; V 66.6 4.2 9E-05 38.5 2.4 25 229-254 2-26 (213)
409 TIGR03608 L_ocin_972_ABC putat 66.6 4 8.7E-05 37.9 2.3 24 228-252 25-48 (206)
410 cd03257 ABC_NikE_OppD_transpor 66.6 4 8.6E-05 38.6 2.3 23 228-251 32-54 (228)
411 cd04118 Rab24 Rab24 subfamily. 66.4 4.1 9E-05 37.2 2.3 21 230-251 3-23 (193)
412 cd03237 ABC_RNaseL_inhibitor_d 66.4 4 8.7E-05 39.5 2.3 24 228-252 26-49 (246)
413 cd04110 Rab35 Rab35 subfamily. 66.4 3.9 8.4E-05 37.9 2.1 22 228-250 7-28 (199)
414 cd04122 Rab14 Rab14 subfamily. 66.4 4.1 8.8E-05 36.2 2.2 21 230-251 5-25 (166)
415 TIGR02770 nickel_nikD nickel i 66.4 4.1 8.9E-05 38.8 2.3 24 228-252 13-36 (230)
416 cd00877 Ran Ran (Ras-related n 66.3 4.2 9.2E-05 36.3 2.3 20 230-250 3-22 (166)
417 PRK10619 histidine/lysine/argi 66.2 4 8.8E-05 39.5 2.3 24 228-252 32-55 (257)
418 cd04117 Rab15 Rab15 subfamily. 66.2 4.1 9E-05 36.1 2.2 20 230-250 3-22 (161)
419 cd04149 Arf6 Arf6 subfamily. 66.2 3.9 8.5E-05 36.7 2.1 19 230-249 12-30 (168)
420 cd04175 Rap1 Rap1 subgroup. T 66.1 4.3 9.3E-05 35.9 2.3 20 230-250 4-23 (164)
421 cd01890 LepA LepA subfamily. 66.1 4.5 9.7E-05 36.3 2.4 22 229-251 2-23 (179)
422 PRK04220 2-phosphoglycerate ki 66.0 7.4 0.00016 38.8 4.1 26 226-252 91-116 (301)
423 PRK11629 lolD lipoprotein tran 66.0 4.3 9.4E-05 38.6 2.4 24 228-252 36-59 (233)
424 cd03258 ABC_MetN_methionine_tr 66.0 4.2 9.1E-05 38.7 2.3 24 228-252 32-55 (233)
425 cd03226 ABC_cobalt_CbiO_domain 65.9 4.3 9.4E-05 37.8 2.3 24 228-252 27-50 (205)
426 cd04125 RabA_like RabA-like su 65.9 4.1 8.8E-05 37.2 2.1 21 230-251 3-23 (188)
427 cd04104 p47_IIGP_like p47 (47- 65.8 4.1 9E-05 37.8 2.2 20 230-250 4-23 (197)
428 PRK15453 phosphoribulokinase; 65.8 5.3 0.00011 39.5 2.9 26 226-252 4-29 (290)
429 PRK13234 nifH nitrogenase redu 65.8 4.2 9.2E-05 40.5 2.4 21 227-248 4-24 (295)
430 cd04107 Rab32_Rab38 Rab38/Rab3 65.8 4.2 9E-05 37.7 2.2 20 230-250 3-22 (201)
431 TIGR03345 VI_ClpV1 type VI sec 65.8 19 0.0004 41.6 7.7 153 173-343 546-716 (852)
432 cd01865 Rab3 Rab3 subfamily. 65.7 4.3 9.2E-05 36.1 2.2 20 230-250 4-23 (165)
433 TIGR01978 sufC FeS assembly AT 65.7 4.2 9.1E-05 38.9 2.3 23 228-251 27-49 (243)
434 COG4608 AppF ABC-type oligopep 65.7 4.4 9.4E-05 39.6 2.3 25 227-252 39-63 (268)
435 TIGR03346 chaperone_ClpB ATP-d 65.7 23 0.00049 40.9 8.5 149 184-343 545-715 (852)
436 COG0563 Adk Adenylate kinase a 65.7 4.8 0.0001 37.0 2.5 21 230-251 3-23 (178)
437 PRK13540 cytochrome c biogenes 65.6 4.3 9.4E-05 37.7 2.3 23 228-251 28-50 (200)
438 cd04134 Rho3 Rho3 subfamily. 65.6 4.5 9.7E-05 37.1 2.3 21 229-250 2-22 (189)
439 TIGR02211 LolD_lipo_ex lipopro 65.6 4.5 9.7E-05 38.1 2.4 23 228-251 32-54 (221)
440 PTZ00133 ADP-ribosylation fact 65.5 4.1 9E-05 37.2 2.1 20 230-250 20-39 (182)
441 KOG4181 Uncharacterized conser 65.5 6.9 0.00015 39.5 3.6 34 214-248 175-208 (491)
442 PRK10733 hflB ATP-dependent me 65.5 12 0.00025 41.7 5.9 46 335-380 289-337 (644)
443 PRK09493 glnQ glutamine ABC tr 65.3 4.4 9.4E-05 38.8 2.3 23 228-251 28-50 (240)
444 TIGR00972 3a0107s01c2 phosphat 65.3 4.3 9.4E-05 39.0 2.3 24 228-252 28-51 (247)
445 PRK05703 flhF flagellar biosyn 65.2 4.2 9E-05 42.8 2.3 25 227-252 221-245 (424)
446 TIGR00017 cmk cytidylate kinas 65.2 5.5 0.00012 37.8 2.9 25 228-253 3-27 (217)
447 PRK10247 putative ABC transpor 65.2 4.4 9.6E-05 38.4 2.3 23 228-251 34-56 (225)
448 COG1116 TauB ABC-type nitrate/ 65.2 4.5 9.8E-05 39.0 2.3 22 228-250 30-51 (248)
449 cd04129 Rho2 Rho2 subfamily. 65.2 4.7 0.0001 36.9 2.4 21 229-250 3-23 (187)
450 PRK14722 flhF flagellar biosyn 65.2 6.6 0.00014 40.5 3.7 26 227-253 137-162 (374)
451 PRK06305 DNA polymerase III su 65.1 40 0.00086 35.8 9.6 24 228-252 40-63 (451)
452 PRK11124 artP arginine transpo 65.1 4.6 9.9E-05 38.7 2.4 23 228-251 29-51 (242)
453 PRK11248 tauB taurine transpor 65.1 4.4 9.6E-05 39.3 2.3 23 228-251 28-50 (255)
454 PRK12338 hypothetical protein; 65.0 4.6 0.0001 40.6 2.4 25 227-252 4-28 (319)
455 cd00882 Ras_like_GTPase Ras-li 65.0 3.4 7.4E-05 34.8 1.4 20 232-252 1-20 (157)
456 cd00881 GTP_translation_factor 65.0 4.9 0.00011 36.1 2.5 21 230-251 2-22 (189)
457 PRK14527 adenylate kinase; Pro 64.9 5.1 0.00011 36.9 2.6 25 227-252 6-30 (191)
458 PRK15467 ethanolamine utilizat 64.7 4.5 9.8E-05 36.1 2.1 22 229-251 3-24 (158)
459 PF03308 ArgK: ArgK protein; 64.7 7.9 0.00017 37.7 3.8 32 222-254 24-55 (266)
460 cd01854 YjeQ_engC YjeQ/EngC. 64.6 6.3 0.00014 39.1 3.3 23 228-251 162-184 (287)
461 PLN02200 adenylate kinase fami 64.6 5.7 0.00012 38.1 2.9 25 226-251 42-66 (234)
462 cd03295 ABC_OpuCA_Osmoprotecti 64.6 4.8 0.0001 38.6 2.4 23 228-251 28-50 (242)
463 cd03262 ABC_HisP_GlnQ_permease 64.5 4.6 0.0001 37.7 2.3 23 228-251 27-49 (213)
464 PRK13538 cytochrome c biogenes 64.5 4.7 0.0001 37.6 2.3 23 228-251 28-50 (204)
465 PRK14245 phosphate ABC transpo 64.4 4.6 0.0001 38.9 2.3 22 228-250 30-51 (250)
466 cd03246 ABCC_Protease_Secretio 64.4 4.8 0.0001 36.4 2.3 24 228-252 29-52 (173)
467 PRK11264 putative amino-acid A 64.3 4.6 0.0001 38.8 2.3 23 228-251 30-52 (250)
468 TIGR01277 thiQ thiamine ABC tr 64.3 4.9 0.00011 37.7 2.4 24 228-252 25-48 (213)
469 PRK10895 lipopolysaccharide AB 64.3 4.7 0.0001 38.6 2.3 23 228-251 30-52 (241)
470 cd03287 ABC_MSH3_euk MutS3 hom 64.3 2.9 6.3E-05 39.9 0.8 23 227-250 31-53 (222)
471 PRK15177 Vi polysaccharide exp 64.2 4.9 0.00011 37.9 2.4 23 228-251 14-36 (213)
472 cd03221 ABCF_EF-3 ABCF_EF-3 E 64.1 5 0.00011 35.2 2.2 24 228-252 27-50 (144)
473 TIGR03873 F420-0_ABC_ATP propo 64.1 4.7 0.0001 39.0 2.3 23 228-251 28-50 (256)
474 PF12775 AAA_7: P-loop contain 64.0 4.4 9.5E-05 39.9 2.0 21 231-252 37-57 (272)
475 cd03224 ABC_TM1139_LivF_branch 64.0 5 0.00011 37.8 2.4 23 228-251 27-49 (222)
476 PRK10908 cell division protein 64.0 4.8 0.0001 38.0 2.3 23 228-251 29-51 (222)
477 cd03240 ABC_Rad50 The catalyti 63.8 5.1 0.00011 37.5 2.4 20 229-249 24-43 (204)
478 TIGR02324 CP_lyasePhnL phospho 63.8 5 0.00011 37.9 2.4 24 228-252 35-58 (224)
479 cd04153 Arl5_Arl8 Arl5/Arl8 su 63.8 4.7 0.0001 36.3 2.1 23 227-250 15-37 (174)
480 cd04144 Ras2 Ras2 subfamily. 63.8 5 0.00011 36.8 2.3 20 230-250 2-21 (190)
481 cd03267 ABC_NatA_like Similar 63.7 4.9 0.00011 38.5 2.3 23 228-251 48-70 (236)
482 COG1419 FlhF Flagellar GTP-bin 63.7 4.2 9.2E-05 42.0 1.9 21 227-248 203-224 (407)
483 PF00009 GTP_EFTU: Elongation 63.7 6 0.00013 36.2 2.8 26 226-252 2-27 (188)
484 cd02029 PRK_like Phosphoribulo 63.7 5 0.00011 39.3 2.3 24 229-253 1-24 (277)
485 PF07693 KAP_NTPase: KAP famil 63.6 14 0.00031 36.8 5.8 30 225-255 18-47 (325)
486 smart00174 RHO Rho (Ras homolo 63.5 4.6 0.0001 36.0 2.0 20 230-250 1-20 (174)
487 cd03232 ABC_PDR_domain2 The pl 63.5 5.1 0.00011 37.0 2.3 23 228-251 34-56 (192)
488 PRK09280 F0F1 ATP synthase sub 63.5 11 0.00025 39.8 5.1 40 228-269 145-184 (463)
489 cd04135 Tc10 TC10 subfamily. 63.5 5.1 0.00011 35.7 2.2 20 230-250 3-22 (174)
490 PRK13539 cytochrome c biogenes 63.5 5 0.00011 37.5 2.3 23 228-251 29-51 (207)
491 PRK12724 flagellar biosynthesi 63.5 5 0.00011 42.0 2.4 23 227-250 223-245 (432)
492 smart00072 GuKc Guanylate kina 63.5 5.8 0.00013 36.3 2.7 28 228-256 3-30 (184)
493 PRK11300 livG leucine/isoleuci 63.5 5.1 0.00011 38.7 2.4 23 228-251 32-54 (255)
494 cd03110 Fer4_NifH_child This p 63.5 4.9 0.00011 36.4 2.2 20 230-249 2-21 (179)
495 PRK14247 phosphate ABC transpo 63.5 4.9 0.00011 38.7 2.3 24 228-252 30-53 (250)
496 cd04132 Rho4_like Rho4-like su 63.5 5.1 0.00011 36.4 2.3 21 230-251 3-23 (187)
497 cd03266 ABC_NatA_sodium_export 63.4 5 0.00011 37.7 2.3 23 228-251 32-54 (218)
498 PRK07133 DNA polymerase III su 63.4 40 0.00088 37.9 9.5 68 308-376 118-188 (725)
499 cd01428 ADK Adenylate kinase ( 63.3 4.8 0.0001 36.8 2.1 21 230-251 2-22 (194)
500 cd01893 Miro1 Miro1 subfamily. 63.3 5.3 0.00011 35.6 2.3 20 230-250 3-22 (166)
No 1
>PLN03210 Resistant to P. syringae 6; Provisional
Probab=100.00 E-value=1.8e-69 Score=625.38 Aligned_cols=342 Identities=27% Similarity=0.396 Sum_probs=289.4
Q ss_pred CCceecCceEEecccCccCcChHHHHHHHHhcCCCeEEEeCCcCCCCCchHHHHHHHhhccceEEEeecccccChhhHHH
Q 011431 16 DQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEE 95 (486)
Q Consensus 16 ~~~~y~~dVFis~~~~D~~~~f~~~L~~~L~~~gi~~~~d~~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S~wcl~E 95 (486)
+.|+| ||||||||+|+|++|++||+.||.++||++|+|+++.+|+.|++++.+||++|+++|||||++||+|+|||+|
T Consensus 9 ~~~~~--~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~~~~~g~~~~~~l~~~i~~s~~~ivv~s~~ya~s~wcl~e 86 (1153)
T PLN03210 9 RNWVY--DVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDNEIERSQSLDPELKQAIRDSRIAVVVFSKNYASSSWCLNE 86 (1153)
T ss_pred CCCCC--cEEeeCCCcccccCHHHHHHHHHHHCCCeEEccCCccCCCcccHHHHHHHHhCeEEEEEecCCcccchHHHHH
Confidence 46888 9999999999999999999999999999999998999999999999999999999999999999999999999
Q ss_pred HHHHHHH-hcCCCEEEEEEeeecCCccccccCchHHHHHHhHhhCCCchhhccHHHHHHHhhhccCCCCCCCCCcchhhh
Q 011431 96 LVKIIEC-NKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKSHDLRPKVGRWRDALREASDLAGWDSNVTRPESKLTD 174 (486)
Q Consensus 96 l~~i~~~-~~~~~~v~Pify~v~~s~vr~q~g~f~~~f~~~~~~~~~~e~i~~Wr~AL~eva~~~G~~~~~~~~E~~~I~ 174 (486)
|++|++| ++.++.|+||||+|+|++||+|+|.||++|.+++.+.. .+++++|++||++||+++||++..+++|+++|+
T Consensus 87 l~~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~~-~~~~~~w~~al~~~~~~~g~~~~~~~~E~~~i~ 165 (1153)
T PLN03210 87 LLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNKT-EDEKIQWKQALTDVANILGYHSQNWPNEAKMIE 165 (1153)
T ss_pred HHHHHHhhhhcCceEEEEEecccHHHHhhccchHHHHHHHHhcccc-hhHHHHHHHHHHHHhCcCceecCCCCCHHHHHH
Confidence 9999999 88999999999999999999999999999999987755 688999999999999999999999899999999
Q ss_pred hHHHhHHhhhhhhhhhhHHHHHHHhhhhhhccchhhhhhHHHHHHHhh-cCCCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 175 EIVNGVVENLKSFAELMEKELVVLFNRARDKLDNHASSLLDEVLSLLR-NAEGYRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 175 ~IV~~V~~~L~~~~~~~~~~lVgi~~~~~~~~~~~~~~~l~~v~~ll~-~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
+||++|..+|........+++||+.. .++++..++. ..+++++||||||| |+||||||+.+|+++.
T Consensus 166 ~Iv~~v~~~l~~~~~~~~~~~vG~~~------------~l~~l~~lL~l~~~~~~vvgI~G~g-GiGKTTLA~~l~~~l~ 232 (1153)
T PLN03210 166 EIANDVLGKLNLTPSNDFEDFVGIED------------HIAKMSSLLHLESEEVRMVGIWGSS-GIGKTTIARALFSRLS 232 (1153)
T ss_pred HHHHHHHHhhccccCcccccccchHH------------HHHHHHHHHccccCceEEEEEEcCC-CCchHHHHHHHHHHHh
Confidence 99999999998766665677888733 2345555553 35679999999999 9999999999999999
Q ss_pred cccccceEEE---Eeeec-----------c-HHHHHHHHhhhhcccccccccccccccccccccccccCcceeeceeccc
Q 011431 254 DNYENSDVTL---AKFEG-----------E-VKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTTSAAHPYVEDVI 318 (486)
Q Consensus 254 ~~F~~~~~~~---v~~~~-----------~-l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~tKr~LlVLDDVw 318 (486)
.+|++.++.. +.... . ...++++++..+...... .. .....++++|.+ +|+||||||||
T Consensus 233 ~~F~g~vfv~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~-~~----~~~~~~~~~L~~-krvLLVLDdv~ 306 (1153)
T PLN03210 233 RQFQSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDI-KI----YHLGAMEERLKH-RKVLIFIDDLD 306 (1153)
T ss_pred hcCCeEEEeeccccccchhhcccccccccchhHHHHHHHHHHHhCCCCc-cc----CCHHHHHHHHhC-CeEEEEEeCCC
Confidence 9998765532 11110 0 123566666555432111 00 011346778888 99999999999
Q ss_pred CHHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchhhhhhcccCCCc
Q 011431 319 DDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSSST 381 (486)
Q Consensus 319 ~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~~k 381 (486)
+..+|+.+.....++++|||||||||+++++. .++.+.+|+|+.|+++|||+||+++||..
T Consensus 307 ~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~--~~~~~~~~~v~~l~~~ea~~LF~~~Af~~ 367 (1153)
T PLN03210 307 DQDVLDALAGQTQWFGSGSRIIVITKDKHFLR--AHGIDHIYEVCLPSNELALEMFCRSAFKK 367 (1153)
T ss_pred CHHHHHHHHhhCccCCCCcEEEEEeCcHHHHH--hcCCCeEEEecCCCHHHHHHHHHHHhcCC
Confidence 99999998854334789999999999999984 34467899999999999999999999974
No 2
>PLN03194 putative disease resistance protein; Provisional
Probab=100.00 E-value=4.8e-44 Score=321.11 Aligned_cols=154 Identities=29% Similarity=0.477 Sum_probs=141.2
Q ss_pred CCceecCceEEecccCccCcChHHHHHHHHhcCCCeEEEeC-CcCCCCCchHHHHHHHhhccceEEEeecccccChhhHH
Q 011431 16 DQWRYKHDVFVTFSGEDIRENFGSYLFAALFRESVKTFRDE-QIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLE 94 (486)
Q Consensus 16 ~~~~y~~dVFis~~~~D~~~~f~~~L~~~L~~~gi~~~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S~wcl~ 94 (486)
.+..| ||||||||+|+|++|++||+.+|+++||++|+|+ ++.+|+.|.+.|.+||++|+++|+|||++|++|.|||+
T Consensus 23 ~~~~y--DVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WCLd 100 (187)
T PLN03194 23 SAKPC--DVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYFCLH 100 (187)
T ss_pred CCCCC--cEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchhHHH
Confidence 45668 9999999999999999999999999999999999 99999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCCCEEEEEEeeecCCccccc-cCchHHHHHHhHhhCCCchhhccHHHHHHHhhhccCCCCCC-CCCcchh
Q 011431 95 ELVKIIECNKLYQTVIPVFYKVLPSDVRNQ-LGSFGEAFLEHEKSHDLRPKVGRWRDALREASDLAGWDSNV-TRPESKL 172 (486)
Q Consensus 95 El~~i~~~~~~~~~v~Pify~v~~s~vr~q-~g~f~~~f~~~~~~~~~~e~i~~Wr~AL~eva~~~G~~~~~-~~~E~~~ 172 (486)
||++|++| +..||||||+|+|++||+| .|.+ . .+++++|++||++|++++||++.. .++|+++
T Consensus 101 EL~~I~e~---~~~ViPIFY~VdPsdVr~q~~~~~-----------~-~e~v~~Wr~AL~~va~l~G~~~~~~~~~e~e~ 165 (187)
T PLN03194 101 ELALIMES---KKRVIPIFCDVKPSQLRVVDNGTC-----------P-DEEIRRFNWALEEAKYTVGLTFDSLKGNWSEV 165 (187)
T ss_pred HHHHHHHc---CCEEEEEEecCCHHHhhccccCCC-----------C-HHHHHHHHHHHHHHhccccccCCCCCCCHHHH
Confidence 99999997 2479999999999999997 4431 1 578999999999999999998864 5789999
Q ss_pred hhhHHHhHHhhhhh
Q 011431 173 TDEIVNGVVENLKS 186 (486)
Q Consensus 173 I~~IV~~V~~~L~~ 186 (486)
|++||+.|.++|..
T Consensus 166 i~~iv~~v~k~l~~ 179 (187)
T PLN03194 166 VTMASDAVIKNLIE 179 (187)
T ss_pred HHHHHHHHHHHHHH
Confidence 99999999888753
No 3
>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]
Probab=99.93 E-value=2.6e-26 Score=255.55 Aligned_cols=187 Identities=13% Similarity=0.079 Sum_probs=145.4
Q ss_pred hHHHHHHHhhcCCCceeeeeeeccCccchhHHHHHHHhhh---ccccccceEEEEeeeccHHHHHHHHhhhhcccccccc
Q 011431 213 LLDEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQL---MDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVA 289 (486)
Q Consensus 213 ~l~~v~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~---~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~ 289 (486)
.++.+...|-.. +..++||+||| |+||||||+++||+. ..+|+...|+.|+.......+|++++..|+..+....
T Consensus 166 ~~~kl~~~L~~d-~~~iv~i~GMG-GvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~ 243 (889)
T KOG4658|consen 166 MLEKLWNRLMED-DVGIVGIYGMG-GVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWE 243 (889)
T ss_pred HHHHHHHHhccC-CCCEEEEECCC-cccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccc
Confidence 344444444333 44999999999 999999999999964 4678876666666666667799999998876443211
Q ss_pred cccccccccccccccccCcceeeceecccCHHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCch
Q 011431 290 SYDRYGSASFEQPRPQTTSAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSP 369 (486)
Q Consensus 290 ~~~~~g~~s~l~~~L~~tKr~LlVLDDVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~e 369 (486)
.......+..|.+.|.+ |||+|||||||+..+|+.+..+++...+||+|++|||++.|+.. .++++..+++++|..+|
T Consensus 244 ~~~~~~~~~~i~~~L~~-krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~-~m~~~~~~~v~~L~~~e 321 (889)
T KOG4658|consen 244 DKEEDELASKLLNLLEG-KRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGR-AMGVDYPIEVECLTPEE 321 (889)
T ss_pred hhhHHHHHHHHHHHhcc-CceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhc-cccCCccccccccCccc
Confidence 21113566789999999 99999999999999999999888766679999999999999843 25578899999999999
Q ss_pred hhhhhcccCCCcceeeeeeccccccchhhHHHHHHHhhcCCCe
Q 011431 370 SLNLSSCNSSSTFKEAIFKLEIHHDNLEAWRAAFSIVSEFIGI 412 (486)
Q Consensus 370 s~~LF~~~a~~k~~~~v~kv~~~~~~~~~~~~a~k~~~~~~Gv 412 (486)
||.||++.||.... . .++... .-|++++.+|.|.
T Consensus 322 aW~LF~~~v~~~~~------~-~~~~i~--~lak~v~~kC~GL 355 (889)
T KOG4658|consen 322 AWDLFQKKVGPNTL------G-SHPDIE--ELAKEVAEKCGGL 355 (889)
T ss_pred cHHHHHHhhccccc------c-ccccHH--HHHHHHHHHhCCh
Confidence 99999999997432 1 223355 7889999998884
No 4
>PF01582 TIR: TIR domain; InterPro: IPR000157 In Drosophila melanogaster the Toll protein is involved in establishment of dorso-ventral polarity in the embryo. In addition, members of the Toll family play a key role in innate antibacterial and antifungal immunity in insects as well as in mammals. These proteins are type-I transmembrane receptors that share an intracellular 200 residue domain with the interleukin-1 receptor (IL-1R), the Toll/IL-1R homologous region (TIR). The similarity between Toll-like receptors (LTRs) and IL-1R is not restricted to sequence homology since these proteins also share a similar signalling pathway. They both induce the activation of a Rel type transcription factor via an adaptor protein and a protein kinase []. Interestingly, MyD88, a cytoplasmic adaptor protein found in mammals, contains a TIR domain associated to a DEATH domain (see IPR000488 from INTERPRO) [, , ]. Besides the mammalian and Drosophila melanogaster proteins, a TIR domain is also found in a number of plant proteins implicated in host defence []. As MyD88, these proteins are cytoplasmic. Site directed mutagenesis and deletion analysis have shown that the TIR domain is essential for Toll and IL-1R activities. Sequence analysis have revealed the presence of three highly conserved regions among the different members of the family: box 1 (FDAFISY), box 2 (GYKLC-RD-PG), and box 3 (a conserved W surrounded by basic residues). It has been proposed that boxes 1 and 2 are involved in the binding of proteins involved in signalling, whereas box 3 is primarily involved in directing localization of receptor, perhaps through interactions with cytoskeletal elements [].; GO: 0005515 protein binding, 0007165 signal transduction, 0005622 intracellular; PDB: 3J0A_A 2J67_B 3JRN_A 1FYV_A 1O77_D 1FYX_A 1FYW_A 3OZI_B 1T3G_B 2JS7_A ....
Probab=99.87 E-value=2.4e-23 Score=184.87 Aligned_cols=130 Identities=35% Similarity=0.510 Sum_probs=114.0
Q ss_pred eEEecccCccCcChHHHHHHHHhcC--CCeEEEeC-CcCCCCCchHHHHHHHhhccceEEEeecccccChhhHHHHHHHH
Q 011431 24 VFVTFSGEDIRENFGSYLFAALFRE--SVKTFRDE-QIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKII 100 (486)
Q Consensus 24 VFis~~~~D~~~~f~~~L~~~L~~~--gi~~~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S~wcl~El~~i~ 100 (486)
|||||++.+.+..|+++|.++|++. |+++|+++ |+.+|..+.++|.++|++|+++|+|||++|+.|.||+.||..++
T Consensus 1 vfisy~~~~d~~~~~~~L~~~Le~~~~g~~~c~~~rD~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~s~wc~~el~~a~ 80 (141)
T PF01582_consen 1 VFISYSGKDDREWFVSHLLPELEERPYGYKLCLDERDFLPGESILDNIQEAIERSRRTIVVLSRNYLSSEWCLFELQEAL 80 (141)
T ss_dssp EEEEE-GHHGHHHHHHCHHHHHHCTSSTS-EEEHHHCTSSSSCHHHHHHHHHHTEEEEEEEESHHHHHHTHHHHHHHHHH
T ss_pred cEEEeCCCCcHHHHHHHHHHHHHhCCCCeEEEEechhhcccccccchhhHhhhhceeeEEEeecccccccchhhhhhhhh
Confidence 8999999445679999999999999 99999999 99999999999999999999999999999999999999999999
Q ss_pred HH-hcC--CCEEEEEEeeecCCccc-cccCchHHHHHHhHhhCCC---chhhccHHHHHH
Q 011431 101 EC-NKL--YQTVIPVFYKVLPSDVR-NQLGSFGEAFLEHEKSHDL---RPKVGRWRDALR 153 (486)
Q Consensus 101 ~~-~~~--~~~v~Pify~v~~s~vr-~q~g~f~~~f~~~~~~~~~---~e~i~~Wr~AL~ 153 (486)
++ .+. ...|+||||++.+++++ .+.+.|+..|..+..-... ..+...|++++.
T Consensus 81 ~~~~~~~~~~~Il~v~~~v~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~fW~~l~~ 140 (141)
T PF01582_consen 81 ERLLEEGRDKLILPVFYDVSPSDVRPDQSLRFLLRFLTYLRWPDDDSREDRSWFWKKLRY 140 (141)
T ss_dssp HHHHCSTCTTEEEEESSSS-CHHCHTHHHHHHHHHCTHCEETSSSGGGGGHHHHHHHHHH
T ss_pred hhccccccccceeeEeccCChhhcChhhhHHHHHHhhhheeCCCCCCccHHHHHHHHHhc
Confidence 99 543 48999999999999999 7999999888887766553 356789998875
No 5
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=99.87 E-value=1.4e-22 Score=200.88 Aligned_cols=166 Identities=13% Similarity=0.078 Sum_probs=113.8
Q ss_pred HHHHHHHhhc-CCCceeeeeeeccCccchhHHHHHHHhh--hccccccceEEEEeeeccHHHHHHHHhhhhccccccc-c
Q 011431 214 LDEVLSLLRN-AEGYRSYRCWLLCPLFSELRVLTNDVHQ--LMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHV-A 289 (486)
Q Consensus 214 l~~v~~ll~~-~~~~~vi~I~GmGgGvGKTTLa~~vy~~--~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~-~ 289 (486)
++++.+.|.. .++.++|+|+||| |+||||||.+++++ +..+|+...|+..........+.+.++..|....... .
T Consensus 5 ~~~l~~~L~~~~~~~~~v~I~G~~-G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~ 83 (287)
T PF00931_consen 5 IEKLKDWLLDNSNEVRVVAIVGMG-GIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSSISD 83 (287)
T ss_dssp HHHHHHHHHTTTTSSEEEEEEEST-TSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-STSSC
T ss_pred HHHHHHHhhCCCCCeEEEEEEcCC-cCCcceeeeeccccccccccccccccccccccccccccccccccccccccccccc
Confidence 3455554433 4789999999999 99999999999988 7788876555544444444556777888886542211 1
Q ss_pred cccccccccccccccccCcceeeceecccCHHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCch
Q 011431 290 SYDRYGSASFEQPRPQTTSAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSP 369 (486)
Q Consensus 290 ~~~~~g~~s~l~~~L~~tKr~LlVLDDVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~e 369 (486)
..+.......+++.|.+ +++||||||||+...|+.+....+.+..||+||||||+.+|+.... .....|+|++|+.+|
T Consensus 84 ~~~~~~~~~~l~~~L~~-~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~-~~~~~~~l~~L~~~e 161 (287)
T PF00931_consen 84 PKDIEELQDQLRELLKD-KRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLG-GTDKVIELEPLSEEE 161 (287)
T ss_dssp CSSHHHHHHHHHHHHCC-TSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHH-SCEEEEECSS--HHH
T ss_pred ccccccccccchhhhcc-ccceeeeeeecccccccccccccccccccccccccccccccccccc-ccccccccccccccc
Confidence 11221234667888888 8999999999999999888765544566999999999999974332 125789999999999
Q ss_pred hhhhhcccCCCcc
Q 011431 370 SLNLSSCNSSSTF 382 (486)
Q Consensus 370 s~~LF~~~a~~k~ 382 (486)
||+||++.|+...
T Consensus 162 a~~L~~~~~~~~~ 174 (287)
T PF00931_consen 162 ALELFKKRAGRKE 174 (287)
T ss_dssp HHHHHHHHHTSHS
T ss_pred ccccccccccccc
Confidence 9999999998644
No 6
>smart00255 TIR Toll - interleukin 1 - resistance.
Probab=99.80 E-value=2.9e-19 Score=158.00 Aligned_cols=133 Identities=36% Similarity=0.592 Sum_probs=111.1
Q ss_pred ceEEeccc-CccCcChHHHHHHHHhcCCCeEEEeCCcCCCCCchHHHHHHHhhccceEEEeecccccChhhHHHHHHHHH
Q 011431 23 DVFVTFSG-EDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIE 101 (486)
Q Consensus 23 dVFis~~~-~D~~~~f~~~L~~~L~~~gi~~~~d~~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S~wcl~El~~i~~ 101 (486)
||||||++ .+....|+.+|..+|...|+.+|.|+....|.... +|.++|++|++.|+|+|++|..|.||..|+..+.+
T Consensus 3 dvFISys~~~~~~~~~v~~L~~~l~~~~~~v~~d~~~~~~~~~~-~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~a~~ 81 (140)
T smart00255 3 DVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEPGGGDLE-EIDEAIEKSRIAIVVLSPNYAESEWCLDELVAALE 81 (140)
T ss_pred eEEEECCCCHHHHHHHHHHHHHHhhcCCcEEEecCcccccchHH-HHHHHHHHCcEEEEEECcccccChhHHHHHHHHHH
Confidence 99999999 45667999999999999999999998433333333 99999999999999999999999999999999999
Q ss_pred H-h-cCCCEEEEEEeeecCCccccccCchHHHHHHhHhhCCCchhh-ccHHHHHHHhhh
Q 011431 102 C-N-KLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKSHDLRPKV-GRWRDALREASD 157 (486)
Q Consensus 102 ~-~-~~~~~v~Pify~v~~s~vr~q~g~f~~~f~~~~~~~~~~e~i-~~Wr~AL~eva~ 157 (486)
+ . .....||||+|+..|+.+..+.+.++..+.....+... ... +.|++++..+++
T Consensus 82 ~~~~~~~~~iIPI~~~~~~~~~~~~~~~l~~~~~~~~~~w~~-~~~~~fW~~~~~~l~~ 139 (140)
T smart00255 82 NALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVLKKNYLKWPE-DEKERFWKKALYAVPS 139 (140)
T ss_pred HHHHcCCCeEEEEEEecChHHHHhcccHHHHHHHHHHhhcCC-chhHHHHHHHHHHhcc
Confidence 8 3 36789999999999999999999999998877444432 221 689999887653
No 7
>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A.
Probab=99.48 E-value=1.2e-14 Score=121.53 Aligned_cols=87 Identities=30% Similarity=0.486 Sum_probs=74.8
Q ss_pred eEEecccCccCcChHHHHHHHHhcCCCeEEEeCCcCCCCCchHHHHHHHhhccceEEEeecccccChhhHHHHHHHHHHh
Q 011431 24 VFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQIRRGDEIMPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECN 103 (486)
Q Consensus 24 VFis~~~~D~~~~f~~~L~~~L~~~gi~~~~d~~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S~wcl~El~~i~~~~ 103 (486)
|||||++.| ..++..|...|++.|+++|+|.++..|+++.+.|.++|++|+..|+++|++|..|.||..|+..+.+
T Consensus 1 VFIS~~~~D--~~~a~~l~~~L~~~g~~v~~d~~~~~g~~~~~~i~~~i~~s~~~i~~~S~~~~~s~~~~~E~~~a~~-- 76 (102)
T PF13676_consen 1 VFISYSSED--REFAERLAERLESAGIRVFLDRDIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAWK-- 76 (102)
T ss_dssp EEEEEEGGG--CCCHHHHHHHHHHTT--EE-GGEE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHHC--
T ss_pred eEEEecCCc--HHHHHHHHHHHhhcCCEEEEEEeCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHHH--
Confidence 899999999 4699999999999999999998889999999999999999999999999999999999999887743
Q ss_pred cCCCEEEEEEee
Q 011431 104 KLYQTVIPVFYK 115 (486)
Q Consensus 104 ~~~~~v~Pify~ 115 (486)
.+..|+||.++
T Consensus 77 -~~~~iipv~~~ 87 (102)
T PF13676_consen 77 -RGKPIIPVRLD 87 (102)
T ss_dssp -TSESEEEEECS
T ss_pred -CCCEEEEEEEC
Confidence 44579999954
No 8
>KOG1603 consensus Copper chaperone [Inorganic ion transport and metabolism]
Probab=99.31 E-value=6.8e-12 Score=98.04 Aligned_cols=61 Identities=23% Similarity=0.411 Sum_probs=58.4
Q ss_pred cceeeeeeccccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc
Q 011431 381 TFKEAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC 444 (486)
Q Consensus 381 k~~~~v~kv~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~ 444 (486)
.++..++++.|||++|+ .++.+.+.+++||+++.+|.++++|||+|+ +||..|+++|+|.+
T Consensus 3 ~~~~~v~kv~~~C~gc~--~kV~~~l~~~~GV~~v~id~~~~kvtV~g~-~~p~~vl~~l~k~~ 63 (73)
T KOG1603|consen 3 PIKTVVLKVNMHCEGCA--RKVKRVLQKLKGVESVDIDIKKQKVTVKGN-VDPVKLLKKLKKTG 63 (73)
T ss_pred CccEEEEEECcccccHH--HHHHHHhhccCCeEEEEecCCCCEEEEEEe-cCHHHHHHHHHhcC
Confidence 45788999999999999 999999999999999999999999999999 99999999999976
No 9
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=98.49 E-value=4e-07 Score=68.56 Aligned_cols=57 Identities=16% Similarity=0.226 Sum_probs=50.8
Q ss_pred eec-cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeec--cCHHHHHHHhhcccc
Q 011431 387 FKL-EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDN--FDVLSAGTKLNGLCR 445 (486)
Q Consensus 387 ~kv-~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~--~d~~~~~~~l~k~~~ 445 (486)
+++ .|+|.+|. +++.+.+.+++||.++.+|...++++|.++. +++.++.+.|++.|+
T Consensus 2 ~~v~~m~C~~C~--~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~~~Gy 61 (62)
T PF00403_consen 2 FKVPGMTCEGCA--KKVEKALSKLPGVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIEKAGY 61 (62)
T ss_dssp EEEESTTSHHHH--HHHHHHHHTSTTEEEEEEETTTTEEEEEESTTTSCHHHHHHHHHHTTS
T ss_pred EEECCcccHHHH--HHHHHHHhcCCCCcEEEEECCCCEEEEEEecCCCCHHHHHHHHHHhCc
Confidence 456 79999999 9999999999999999999999999999982 355899999998763
No 10
>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]
Probab=98.24 E-value=2.5e-06 Score=86.37 Aligned_cols=86 Identities=22% Similarity=0.408 Sum_probs=71.3
Q ss_pred ceEEecccCccCcChHHHHHHHHhcCCCeEEEeC-CcCCCCCchHHHHHHHhhccceEEEeeccccc--------ChhhH
Q 011431 23 DVFVTFSGEDIRENFGSYLFAALFRESVKTFRDE-QIRRGDEIMPALLQAIEESKISLVIFSKRFAF--------SRWCL 93 (486)
Q Consensus 23 dVFis~~~~D~~~~f~~~L~~~L~~~gi~~~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~--------S~wcl 93 (486)
|||||||.. +.+..++.|.-.|+-+|+++|+|- .+..|+ +.+.+.+.|...+.+|.|++||... -.|-.
T Consensus 614 DVFISYRRs-tGnQLASLiKV~LQL~GyrVFIDVdKL~AGK-FdssLlkni~aAkhFiLVLtP~sLDr~lnD~nCeDWVH 691 (832)
T KOG3678|consen 614 DVFISYRRS-TGNQLASLIKVLLQLRGYRVFIDVDKLYAGK-FDSSLLKNIQAAKHFILVLTPNSLDRLLNDDNCEDWVH 691 (832)
T ss_pred ceEEEeecc-ccHHHHHHHHHHHHhcCceEEEehhhhhccc-ccHHHHHHHHhhheeEEEeCcchHHHHhccccHHHHHH
Confidence 999999876 567889999999999999999997 777776 4568899999999999999998543 35667
Q ss_pred HHHHHHHHHhcCCCEEEEEE
Q 011431 94 EELVKIIECNKLYQTVIPVF 113 (486)
Q Consensus 94 ~El~~i~~~~~~~~~v~Pif 113 (486)
.||.-+++| +..|+|||
T Consensus 692 KEl~~Afe~---~KNIiPI~ 708 (832)
T KOG3678|consen 692 KELKCAFEH---QKNIIPIF 708 (832)
T ss_pred HHHHHHHHh---cCCeeeee
Confidence 788877776 33599999
No 11
>PF05729 NACHT: NACHT domain
Probab=98.04 E-value=7.4e-06 Score=73.61 Aligned_cols=140 Identities=10% Similarity=-0.080 Sum_probs=76.7
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccccc----eEEEEeeeccH-----HHHHHHHhhhhccccccccccccccccc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENS----DVTLAKFEGEV-----KKLDQRLLRFLESVDKHVASYDRYGSAS 298 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~----~~~~v~~~~~l-----~~lqk~ll~~L~~~d~~~~~~~~~g~~s 298 (486)
|++-|.|.+ |.||||+++.+...+....... ........... ..+...+...+.... ... . .
T Consensus 1 r~l~I~G~~-G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~---~~~-~----~ 71 (166)
T PF05729_consen 1 RVLWISGEP-GSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESI---API-E----E 71 (166)
T ss_pred CEEEEECCC-CCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccch---hhh-H----H
Confidence 467789999 9999999999988766544321 11111111100 012222222221100 000 0 0
Q ss_pred ccccccccCcceeeceecccCHHH---------HHHHhcCCC--CCCCCCEEEeeCCcccc--ccccccCCCceEecCCC
Q 011431 299 FEQPRPQTTSAAHPYVEDVIDDAY---------MEDITDDSS--PSLNLSRINSTSRFEQL--WPETISATDTCTEDVTV 365 (486)
Q Consensus 299 ~l~~~L~~tKr~LlVLDDVw~~~~---------~~~l~~~~~--~~~~GSrIIiTTR~~~V--~~~~~~~~~~~y~v~~L 365 (486)
.+...+...++++||+|.++.... +..++.... ...++.+||||||.... +.. .......+++.+|
T Consensus 72 ~~~~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~-~~~~~~~~~l~~~ 150 (166)
T PF05729_consen 72 LLQELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRR-RLKQAQILELEPF 150 (166)
T ss_pred HHHHHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHH-hcCCCcEEEECCC
Confidence 111122233799999999874322 111121111 13568999999999887 321 1223358999999
Q ss_pred CCchhhhhhccc
Q 011431 366 DNSPSLNLSSCN 377 (486)
Q Consensus 366 ~~~es~~LF~~~ 377 (486)
++++..+++.+.
T Consensus 151 ~~~~~~~~~~~~ 162 (166)
T PF05729_consen 151 SEEDIKQYLRKY 162 (166)
T ss_pred CHHHHHHHHHHH
Confidence 999999988654
No 12
>PF08937 DUF1863: MTH538 TIR-like domain (DUF1863); InterPro: IPR015032 This protein adopts the flavodoxin fold, that is, five parallel beta-strands and four helical segments. The structure is a three-layer sandwich with alpha-1 and alpha-4 on one side of the beta-sheet, and alpha-2 and alpha-3 on the other side. Probable role in signal transduction as a phosphorylation-independent conformational switch protein []. This domain is similar to the TIR domain [].; PDB: 3HYN_A.
Probab=97.76 E-value=4e-05 Score=66.85 Aligned_cols=89 Identities=19% Similarity=0.262 Sum_probs=47.3
Q ss_pred CceEEecccCccCcChHHHHHHHHhcC-------CCeE----------EEeC-CcCCCCCchHHHHHHHhhccceEEEee
Q 011431 22 HDVFVTFSGEDIRENFGSYLFAALFRE-------SVKT----------FRDE-QIRRGDEIMPALLQAIEESKISLVIFS 83 (486)
Q Consensus 22 ~dVFis~~~~D~~~~f~~~L~~~L~~~-------gi~~----------~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S 83 (486)
|.|||||+..|.. ..+..|...+... ++.. +.+. +......|...|.++|.+|.+.||+.|
T Consensus 1 ~~vFIS~~~~d~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ik~~I~~~i~~s~~~IVLig 79 (130)
T PF08937_consen 1 YKVFISYSHDDDD-WYYDQLKEWLENSYEIPRDKNFDFRFYDVSKWEPIRSRDDDSSSEYIKRKIRERIKNSSVTIVLIG 79 (130)
T ss_dssp ----------THH--HHHHHHHHHHH-------TTSS--BT---TTT---TTS---TTTTHHHHHHHHHHTEEEEEEE--
T ss_pred CCccccccccCcH-HHHHHHHHHhccccccccccccccCcccccccCcccCccccchHHHHHHHHHHHHhcCCEEEEEeC
Confidence 3899999999853 3677777777763 2211 1122 233445788999999999999999999
Q ss_pred cccccChhhHHHHHHHHHHhcCCCEEEEEEe
Q 011431 84 KRFAFSRWCLEELVKIIECNKLYQTVIPVFY 114 (486)
Q Consensus 84 ~~y~~S~wcl~El~~i~~~~~~~~~v~Pify 114 (486)
++...|.|+-.|+...++ .+..||-|.+
T Consensus 80 ~~T~~s~wV~~EI~~A~~---~~~~Ii~V~~ 107 (130)
T PF08937_consen 80 PNTAKSKWVNWEIEYALK---KGKPIIGVYL 107 (130)
T ss_dssp TT----HHHHHHHHHHTT---T---EEEEET
T ss_pred CCcccCcHHHHHHHHHHH---CCCCEEEEEC
Confidence 999999999999988776 4556777764
No 13
>PRK06893 DNA replication initiation factor; Validated
Probab=97.66 E-value=3.5e-05 Score=73.99 Aligned_cols=120 Identities=7% Similarity=-0.054 Sum_probs=70.7
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT 307 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t 307 (486)
+.+-+||-. |.|||+|++++.+....+... +....... ......++ .+.+.
T Consensus 40 ~~l~l~G~~-G~GKThL~~ai~~~~~~~~~~--~~y~~~~~-~~~~~~~~-----------------------~~~~~-- 90 (229)
T PRK06893 40 PFFYIWGGK-SSGKSHLLKAVSNHYLLNQRT--AIYIPLSK-SQYFSPAV-----------------------LENLE-- 90 (229)
T ss_pred CeEEEECCC-CCCHHHHHHHHHHHHHHcCCC--eEEeeHHH-hhhhhHHH-----------------------Hhhcc--
Confidence 456799999 999999999999876443221 12222110 00000000 11121
Q ss_pred cceeeceecccC---HHHHHHH----hcCCCCCCCCCEEEeeCCcc----------ccccccccCCCceEecCCCCCchh
Q 011431 308 SAAHPYVEDVID---DAYMEDI----TDDSSPSLNLSRINSTSRFE----------QLWPETISATDTCTEDVTVDNSPS 370 (486)
Q Consensus 308 Kr~LlVLDDVw~---~~~~~~l----~~~~~~~~~GSrIIiTTR~~----------~V~~~~~~~~~~~y~v~~L~~~es 370 (486)
+--+|++||+|. ...|+.. .+.. ...|+.+||||.+. ++... .....+++++++++++.
T Consensus 91 ~~dlLilDDi~~~~~~~~~~~~l~~l~n~~--~~~~~~illits~~~p~~l~~~~~~L~sR--l~~g~~~~l~~pd~e~~ 166 (229)
T PRK06893 91 QQDLVCLDDLQAVIGNEEWELAIFDLFNRI--KEQGKTLLLISADCSPHALSIKLPDLASR--LTWGEIYQLNDLTDEQK 166 (229)
T ss_pred cCCEEEEeChhhhcCChHHHHHHHHHHHHH--HHcCCcEEEEeCCCChHHccccchhHHHH--HhcCCeeeCCCCCHHHH
Confidence 235899999995 3344432 2211 12467776655544 44422 22356899999999999
Q ss_pred hhhhcccCCC
Q 011431 371 LNLSSCNSSS 380 (486)
Q Consensus 371 ~~LF~~~a~~ 380 (486)
|+++.++|+.
T Consensus 167 ~~iL~~~a~~ 176 (229)
T PRK06893 167 IIVLQRNAYQ 176 (229)
T ss_pred HHHHHHHHHH
Confidence 9999998874
No 14
>KOG4656 consensus Copper chaperone for superoxide dismutase [Inorganic ion transport and metabolism]
Probab=97.41 E-value=0.00037 Score=63.54 Aligned_cols=67 Identities=16% Similarity=0.201 Sum_probs=59.7
Q ss_pred eeeeeccccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc-ceeEEecCC
Q 011431 384 EAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC-RTELVSFGQ 453 (486)
Q Consensus 384 ~~v~kv~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~-~~~~~~~~~ 453 (486)
+..+-|.|+|+.|. ..++..+.+.+||++|++|.+++.|.|-+. +-+..+...|+..| .|-|.-.+.
T Consensus 8 ~~efaV~M~cescv--navk~~L~~V~Gi~~vevdle~q~v~v~ts-~p~s~i~~~le~tGr~Avl~G~G~ 75 (247)
T KOG4656|consen 8 EAEFAVQMTCESCV--NAVKACLKGVPGINSVEVDLEQQIVSVETS-VPPSEIQNTLENTGRDAVLRGAGK 75 (247)
T ss_pred eEEEEEechhHHHH--HHHHHHhccCCCcceEEEEhhhcEEEEEcc-CChHHHHHHHHhhChheEEecCCc
Confidence 55666899999999 999999999999999999999999999999 99999999999988 676665543
No 15
>PF13173 AAA_14: AAA domain
Probab=97.38 E-value=0.00038 Score=60.36 Aligned_cols=121 Identities=8% Similarity=-0.064 Sum_probs=70.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT 307 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t 307 (486)
+++-|.|.- |+|||||++++..... ....+..+...... ........ + ...+.+.+..
T Consensus 3 ~~~~l~G~R-~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~-~~~~~~~~-~---------------~~~~~~~~~~- 60 (128)
T PF13173_consen 3 KIIILTGPR-GVGKTTLLKQLAKDLL---PPENILYINFDDPR-DRRLADPD-L---------------LEYFLELIKP- 60 (128)
T ss_pred CeEEEECCC-CCCHHHHHHHHHHHhc---ccccceeeccCCHH-HHHHhhhh-h---------------HHHHHHhhcc-
Confidence 467789999 9999999999987664 11112222221111 00000000 0 0111112222
Q ss_pred cceeeceecccCHHHHHHHhcCCCCCCCCCEEEeeCCcccccccc----ccCCCceEecCCCCCchh
Q 011431 308 SAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPET----ISATDTCTEDVTVDNSPS 370 (486)
Q Consensus 308 Kr~LlVLDDVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~----~~~~~~~y~v~~L~~~es 370 (486)
+..+|++|++-....|...+....+..+..+|++|+.+...+... ..+.-..++|.+|+..|-
T Consensus 61 ~~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~ 127 (128)
T PF13173_consen 61 GKKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF 127 (128)
T ss_pred CCcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence 467899999988777777664333444568999999988876321 112224679999988763
No 16
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=97.37 E-value=0.00059 Score=52.81 Aligned_cols=60 Identities=10% Similarity=0.156 Sum_probs=50.2
Q ss_pred eeeeec-cccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEE--EEeeccCHHHHHHHhhcccc
Q 011431 384 EAIFKL-EIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMT--VVGDNFDVLSAGTKLNGLCR 445 (486)
Q Consensus 384 ~~v~kv-~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~--V~G~~~d~~~~~~~l~k~~~ 445 (486)
+..+++ .|+|..|. ..+.+.+.+++||.++.+|.+.++++ +.+..++...+.+.+.+.|+
T Consensus 3 ~~~l~v~~MtC~~C~--~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~~~~~~~~i~~ai~~aGy 65 (71)
T COG2608 3 KTTLKVEGMTCGHCV--KTVEKALEEVDGVASVDVDLEKGTATVTFDSNKVDIEAIIEAIEDAGY 65 (71)
T ss_pred eEEEEECCcCcHHHH--HHHHHHHhcCCCeeEEEEEcccCeEEEEEcCCcCCHHHHHHHHHHcCC
Confidence 455666 59999999 99999999999999999999996544 55534899999999998884
No 17
>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=97.15 E-value=0.00063 Score=66.60 Aligned_cols=145 Identities=8% Similarity=-0.084 Sum_probs=74.0
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhhccccccceEEE-EeeeccHHHHHHHHhhhhcccccccccccccccccccccc--
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTL-AKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPR-- 303 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~-v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~-- 303 (486)
-.++.++|.. |.|||||++.+++.+... .. .+.+ .........+...++..++. ... +. ........+...
T Consensus 43 ~~~~~l~G~~-G~GKTtl~~~l~~~l~~~-~~-~~~~~~~~~~~~~~~l~~i~~~lG~-~~~-~~-~~~~~~~~l~~~l~ 116 (269)
T TIGR03015 43 EGFILITGEV-GAGKTTLIRNLLKRLDQE-RV-VAAKLVNTRVDAEDLLRMVAADFGL-ETE-GR-DKAALLRELEDFLI 116 (269)
T ss_pred CCEEEEEcCC-CCCHHHHHHHHHHhcCCC-Ce-EEeeeeCCCCCHHHHHHHHHHHcCC-CCC-CC-CHHHHHHHHHHHHH
Confidence 4467899999 999999999999876521 11 1111 11122333445555544432 110 00 000000112211
Q ss_pred --c-ccCcceeeceecccCH--HHHHHHh---cCCCCCCCCCEEEeeCCccc--cccc-----cccCCCceEecCCCCCc
Q 011431 304 --P-QTTSAAHPYVEDVIDD--AYMEDIT---DDSSPSLNLSRINSTSRFEQ--LWPE-----TISATDTCTEDVTVDNS 368 (486)
Q Consensus 304 --L-~~tKr~LlVLDDVw~~--~~~~~l~---~~~~~~~~GSrIIiTTR~~~--V~~~-----~~~~~~~~y~v~~L~~~ 368 (486)
+ .+ ++.+||+||+|.. ..++.+. ........+..|++|....- .+.. ........+++++|+.+
T Consensus 117 ~~~~~~-~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~r~~~~~~l~~l~~~ 195 (269)
T TIGR03015 117 EQFAAG-KRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRIIASCHLGPLDRE 195 (269)
T ss_pred HHHhCC-CCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHHHHHHHcCchhHHHHhheeeeeeCCCCCHH
Confidence 2 33 6789999999863 3344433 11111122335566665321 1100 00011346789999999
Q ss_pred hhhhhhcccC
Q 011431 369 PSLNLSSCNS 378 (486)
Q Consensus 369 es~~LF~~~a 378 (486)
|...++...+
T Consensus 196 e~~~~l~~~l 205 (269)
T TIGR03015 196 ETREYIEHRL 205 (269)
T ss_pred HHHHHHHHHH
Confidence 9999887654
No 18
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=96.94 E-value=0.0027 Score=65.93 Aligned_cols=149 Identities=4% Similarity=-0.187 Sum_probs=79.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeee--ccHHHHHHHHhhhhcccccccccccccccccccccccc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFE--GEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQ 305 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~--~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~ 305 (486)
..+-|+|.. |.||||+++.+++.+........+..+... .....+..+++..|..................+.+.+.
T Consensus 56 ~~~lI~G~~-GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~ 134 (394)
T PRK00411 56 LNVLIYGPP-GTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLD 134 (394)
T ss_pred CeEEEECCC-CCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHH
Confidence 335599999 999999999999877544311112222211 22333455666666432111000000011123333443
Q ss_pred c-CcceeeceecccCHH------HHHHHhcCCCCCCCCCE--EEeeCCcccccccc-----ccCCCceEecCCCCCchhh
Q 011431 306 T-TSAAHPYVEDVIDDA------YMEDITDDSSPSLNLSR--INSTSRFEQLWPET-----ISATDTCTEDVTVDNSPSL 371 (486)
Q Consensus 306 ~-tKr~LlVLDDVw~~~------~~~~l~~~~~~~~~GSr--IIiTTR~~~V~~~~-----~~~~~~~y~v~~L~~~es~ 371 (486)
. .+..+|++|+++.-. .+..+.. .+....+++ +|.++.+.++.... +.-......+++++.++..
T Consensus 135 ~~~~~~viviDE~d~l~~~~~~~~l~~l~~-~~~~~~~~~v~vI~i~~~~~~~~~l~~~~~s~~~~~~i~f~py~~~e~~ 213 (394)
T PRK00411 135 ERDRVLIVALDDINYLFEKEGNDVLYSLLR-AHEEYPGARIGVIGISSDLTFLYILDPRVKSVFRPEEIYFPPYTADEIF 213 (394)
T ss_pred hcCCEEEEEECCHhHhhccCCchHHHHHHH-hhhccCCCeEEEEEEECCcchhhhcCHHHHhcCCcceeecCCCCHHHHH
Confidence 2 145789999998643 2333332 222234554 66776666543210 0001235689999999999
Q ss_pred hhhcccC
Q 011431 372 NLSSCNS 378 (486)
Q Consensus 372 ~LF~~~a 378 (486)
+++..++
T Consensus 214 ~il~~r~ 220 (394)
T PRK00411 214 DILKDRV 220 (394)
T ss_pred HHHHHHH
Confidence 9988765
No 19
>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.
Probab=96.65 E-value=0.001 Score=64.62 Aligned_cols=50 Identities=12% Similarity=-0.029 Sum_probs=37.7
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhcc-ccccceEEEEeee--ccHHHHHHHHh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMD-NYENSDVTLAKFE--GEVKKLDQRLL 278 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~-~F~~~~~~~v~~~--~~l~~lqk~ll 278 (486)
..++|.|.+ |.|||||++.+|+.+.. +|+..+|..+... .++..+++.+.
T Consensus 17 qr~~I~G~~-G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~er~~ev~el~~~I~ 69 (249)
T cd01128 17 QRGLIVAPP-KAGKTTLLQSIANAITKNHPEVYLIVLLIDERPEEVTDMQRSVK 69 (249)
T ss_pred CEEEEECCC-CCCHHHHHHHHHhccccccCCeEEEEEEccCCCccHHHHHHHhc
Confidence 456799999 99999999999998765 4666656555444 46667787773
No 20
>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=96.63 E-value=0.013 Score=50.56 Aligned_cols=26 Identities=4% Similarity=-0.132 Sum_probs=22.4
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
.+.+-|+|-. |.|||||++.+++...
T Consensus 19 ~~~v~i~G~~-G~GKT~l~~~i~~~~~ 44 (151)
T cd00009 19 PKNLLLYGPP-GTGKTTLARAIANELF 44 (151)
T ss_pred CCeEEEECCC-CCCHHHHHHHHHHHhh
Confidence 4567799999 9999999999998764
No 21
>PRK13342 recombination factor protein RarA; Reviewed
Probab=96.47 E-value=0.0088 Score=62.64 Aligned_cols=125 Identities=9% Similarity=-0.011 Sum_probs=69.0
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccc
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQ 305 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~ 305 (486)
....+-++|.. |.||||||+.+.+.....|..- .....+...++ .++..... . ...
T Consensus 35 ~~~~ilL~Gpp-GtGKTtLA~~ia~~~~~~~~~l----~a~~~~~~~ir-~ii~~~~~---------------~---~~~ 90 (413)
T PRK13342 35 RLSSMILWGPP-GTGKTTLARIIAGATDAPFEAL----SAVTSGVKDLR-EVIEEARQ---------------R---RSA 90 (413)
T ss_pred CCceEEEECCC-CCCHHHHHHHHHHHhCCCEEEE----ecccccHHHHH-HHHHHHHH---------------h---hhc
Confidence 34456689999 9999999999988765444211 11111221111 12111110 0 012
Q ss_pred cCcceeeceecccC--HHHHHHHhcCCCCCCCCCEEEe--eCCccccc-cccccCCCceEecCCCCCchhhhhhcccC
Q 011431 306 TTSAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINS--TSRFEQLW-PETISATDTCTEDVTVDNSPSLNLSSCNS 378 (486)
Q Consensus 306 ~tKr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIi--TTR~~~V~-~~~~~~~~~~y~v~~L~~~es~~LF~~~a 378 (486)
+ ++.+|++|+++. ..+.+.++... + .|+.++| ||.+.... .........++++++|+.++.+.++.+.+
T Consensus 91 g-~~~vL~IDEi~~l~~~~q~~LL~~l-e--~~~iilI~att~n~~~~l~~aL~SR~~~~~~~~ls~e~i~~lL~~~l 164 (413)
T PRK13342 91 G-RRTILFIDEIHRFNKAQQDALLPHV-E--DGTITLIGATTENPSFEVNPALLSRAQVFELKPLSEEDIEQLLKRAL 164 (413)
T ss_pred C-CceEEEEechhhhCHHHHHHHHHHh-h--cCcEEEEEeCCCChhhhccHHHhccceeeEeCCCCHHHHHHHHHHHH
Confidence 2 568899999985 34455555422 2 3555554 44443211 00111122578999999999999998754
No 22
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=96.45 E-value=0.0099 Score=60.41 Aligned_cols=123 Identities=11% Similarity=0.013 Sum_probs=74.5
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccc
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQ 305 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~ 305 (486)
.+...=.||.. |+||||||+.+-......|.. ...+..++..+++.+ ..-. .. ...
T Consensus 47 ~l~SmIl~GPP-G~GKTTlA~liA~~~~~~f~~----~sAv~~gvkdlr~i~-e~a~---------------~~---~~~ 102 (436)
T COG2256 47 HLHSMILWGPP-GTGKTTLARLIAGTTNAAFEA----LSAVTSGVKDLREII-EEAR---------------KN---RLL 102 (436)
T ss_pred CCceeEEECCC-CCCHHHHHHHHHHhhCCceEE----eccccccHHHHHHHH-HHHH---------------HH---Hhc
Confidence 34444489999 999999999997766666642 122233343333222 1100 00 222
Q ss_pred cCcceeeceeccc--CHHHHHHHhcCCCCCCCCCEEEe--eCCccccc-cccccCCCceEecCCCCCchhhhhhcc
Q 011431 306 TTSAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRINS--TSRFEQLW-PETISATDTCTEDVTVDNSPSLNLSSC 376 (486)
Q Consensus 306 ~tKr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrIIi--TTR~~~V~-~~~~~~~~~~y~v~~L~~~es~~LF~~ 376 (486)
+ |+.+|.+|.|- |..+-+.++.. -..|.-|+| ||-|-.-- ......-..+|++++|+.+|-.++..+
T Consensus 103 g-r~tiLflDEIHRfnK~QQD~lLp~---vE~G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L~~~di~~~l~r 174 (436)
T COG2256 103 G-RRTILFLDEIHRFNKAQQDALLPH---VENGTIILIGATTENPSFELNPALLSRARVFELKPLSSEDIKKLLKR 174 (436)
T ss_pred C-CceEEEEehhhhcChhhhhhhhhh---hcCCeEEEEeccCCCCCeeecHHHhhhhheeeeecCCHHHHHHHHHH
Confidence 4 78899999986 55666666642 235776666 55554421 111112346899999999999999877
No 23
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=96.17 E-value=0.0056 Score=62.70 Aligned_cols=50 Identities=14% Similarity=-0.029 Sum_probs=37.6
Q ss_pred eeeeeeccCccchhHHHHHHHhhhcc-ccccceEEEEeeec--cHHHHHHHHhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLMD-NYENSDVTLAKFEG--EVKKLDQRLLR 279 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~~-~F~~~~~~~v~~~~--~l~~lqk~ll~ 279 (486)
..+|+|.+ |+|||||+++||+.+.. +|+..+|+.+.-.+ .+..+++.++-
T Consensus 171 R~lIvgpp-GvGKTTLaK~Ian~I~~nhFDv~~~VvLIgER~~EVtdiqrsIlg 223 (416)
T PRK09376 171 RGLIVAPP-KAGKTVLLQNIANSITTNHPEVHLIVLLIDERPEEVTDMQRSVKG 223 (416)
T ss_pred eEEEeCCC-CCChhHHHHHHHHHHHhhcCCeEEEEEEeCCchhHHHHHHHHhcC
Confidence 35699999 99999999999998765 57776666654443 56667777763
No 24
>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=96.13 E-value=0.0051 Score=61.53 Aligned_cols=140 Identities=6% Similarity=-0.067 Sum_probs=72.5
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHH----Hhhhhccccccccccccccccccccc
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQR----LLRFLESVDKHVASYDRYGSASFEQP 302 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~----ll~~L~~~d~~~~~~~~~g~~s~l~~ 302 (486)
...+-++|.. |+|||+||+.+-+.+...+....-........+...... -+..||+.+.. . . .....++.
T Consensus 30 ~~~~ll~Gp~-G~GKT~la~~ia~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vl~iDEi~~l-~---~-~~~e~l~~ 103 (305)
T TIGR00635 30 LDHLLLYGPP-GLGKTTLAHIIANEMGVNLKITSGPALEKPGDLAAILTNLEEGDVLFIDEIHRL-S---P-AVEELLYP 103 (305)
T ss_pred CCeEEEECCC-CCCHHHHHHHHHHHhCCCEEEeccchhcCchhHHHHHHhcccCCEEEEehHhhh-C---H-HHHHHhhH
Confidence 4456689999 999999999998876543321100000000111110000 01111111110 0 0 11133444
Q ss_pred ccccCcceeeceecccCHHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431 303 RPQTTSAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSS 379 (486)
Q Consensus 303 ~L~~tKr~LlVLDDVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~ 379 (486)
.+.. .+..+|+++..+...+... ..+.+-|..|||...+...-...-..++++++++.+|..+++...+.
T Consensus 104 ~~~~-~~~~~v~~~~~~~~~~~~~------~~~~~li~~t~~~~~l~~~l~sR~~~~~~l~~l~~~e~~~il~~~~~ 173 (305)
T TIGR00635 104 AMED-FRLDIVIGKGPSARSVRLD------LPPFTLVGATTRAGMLTSPLRDRFGIILRLEFYTVEELAEIVSRSAG 173 (305)
T ss_pred HHhh-hheeeeeccCccccceeec------CCCeEEEEecCCccccCHHHHhhcceEEEeCCCCHHHHHHHHHHHHH
Confidence 5555 5666777766554433211 12356777788876654210001134689999999999999987765
No 25
>PLN02957 copper, zinc superoxide dismutase
Probab=96.12 E-value=0.023 Score=54.91 Aligned_cols=70 Identities=14% Similarity=0.238 Sum_probs=60.8
Q ss_pred eeeeeeccccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc-ceeEEecCCCC
Q 011431 383 KEAIFKLEIHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC-RTELVSFGQAK 455 (486)
Q Consensus 383 ~~~v~kv~~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~-~~~~~~~~~~~ 455 (486)
+++.+.+.|.|+.|. ..+.+.+...+||.++.++...++++|.+. .++..+...+++.+ .+++++..++.
T Consensus 6 ~~~~~~VgMsC~~Ca--~~Iek~L~~~~GV~~v~vn~~~~~v~V~~~-~~~~~I~~aIe~~Gy~a~~~~~~~~~ 76 (238)
T PLN02957 6 LLTEFMVDMKCEGCV--AAVKNKLETLEGVKAVEVDLSNQVVRVLGS-SPVKAMTAALEQTGRKARLIGQGDPE 76 (238)
T ss_pred EEEEEEECccCHHHH--HHHHHHHhcCCCeEEEEEEcCCCEEEEEec-CCHHHHHHHHHHcCCcEEEecCCCcc
Confidence 456677889999999 999999999999999999999999999997 89999999999988 57777765554
No 26
>PF08357 SEFIR: SEFIR domain; InterPro: IPR013568 This domain is found in IL17 receptors (IL17Rs, e.g. Q60943 from SWISSPROT) and SEF proteins (e.g. Q8QHJ9 from SWISSPROT). The latter are feedback inhibitors of FGF signalling and are also thought to be receptors. Due to its similarity to the TIR domain (IPR000157 from INTERPRO), the SEFIR region is thought to be involved in homotypic interactions with other SEFIR/TIR-domain-containing proteins. Thus, SEFs and IL17Rs may be involved in TOLL/IL1R-like signalling pathways [].
Probab=96.06 E-value=0.0091 Score=53.14 Aligned_cols=65 Identities=15% Similarity=0.257 Sum_probs=51.4
Q ss_pred CceEEecccCccCc-ChHHHHHHHHhcC-CCeEEEeC-CcCC--CCCchHHHHHHHhhccceEEEeeccc
Q 011431 22 HDVFVTFSGEDIRE-NFGSYLFAALFRE-SVKTFRDE-QIRR--GDEIMPALLQAIEESKISLVIFSKRF 86 (486)
Q Consensus 22 ~dVFis~~~~D~~~-~f~~~L~~~L~~~-gi~~~~d~-~~~~--g~~i~~~i~~~I~~s~~~ivv~S~~y 86 (486)
+.|||||+.....+ ..|..|...|++. |+.|.+|. +... +.....=+.+.|+++...|+|.|+.|
T Consensus 1 ~kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~i~~~g~~~W~~~~~~~ad~Vliv~S~~~ 70 (150)
T PF08357_consen 1 RKVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQWELNEIARQGPPRWMERQIREADKVLIVCSPGY 70 (150)
T ss_pred CeEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecHHhhcccccCCHHHHHHHHHhcCCEEEEEeccch
Confidence 36999998754322 5588999999999 99999998 6533 55566677888999999999999543
No 27
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.
Probab=95.98 E-value=0.0062 Score=66.89 Aligned_cols=81 Identities=5% Similarity=-0.221 Sum_probs=46.8
Q ss_pred cccccccccCcceeeceecccCH--HHHHHHhcCCCCCCCCCEEEe--eCCccccccccccCCCceEecCCCCCchhhhh
Q 011431 298 SFEQPRPQTTSAAHPYVEDVIDD--AYMEDITDDSSPSLNLSRINS--TSRFEQLWPETISATDTCTEDVTVDNSPSLNL 373 (486)
Q Consensus 298 s~l~~~L~~tKr~LlVLDDVw~~--~~~~~l~~~~~~~~~GSrIIi--TTR~~~V~~~~~~~~~~~y~v~~L~~~es~~L 373 (486)
..|.+.|.+ ++++++.|+.|.. ..|..+...+....+...|+| ||++...+..........+.+.+|+.+|.+.+
T Consensus 283 ~~Ll~~Le~-~~v~~~~~~~~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~I 361 (615)
T TIGR02903 283 NKLLKVLED-KRVEFSSSYYDPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALI 361 (615)
T ss_pred HHHHHHHhh-CeEEeecceeccCCcccchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHH
Confidence 456666666 6777777766643 234444432212233444555 67765543211111123568899999999999
Q ss_pred hcccCC
Q 011431 374 SSCNSS 379 (486)
Q Consensus 374 F~~~a~ 379 (486)
+.+.+.
T Consensus 362 l~~~a~ 367 (615)
T TIGR02903 362 VLNAAE 367 (615)
T ss_pred HHHHHH
Confidence 998654
No 28
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=95.90 E-value=0.009 Score=60.56 Aligned_cols=143 Identities=8% Similarity=-0.100 Sum_probs=67.3
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccc-ccccccc--cccccccc
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKH-VASYDRY--GSASFEQP 302 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~-~~~~~~~--g~~s~l~~ 302 (486)
....+-++|.. |.||||||+.+-+.+...+.... ......... ...++..+...+.. ++..+.. .....++.
T Consensus 50 ~~~~~ll~Gpp-G~GKT~la~~ia~~l~~~~~~~~---~~~~~~~~~-l~~~l~~l~~~~vl~IDEi~~l~~~~~e~l~~ 124 (328)
T PRK00080 50 ALDHVLLYGPP-GLGKTTLANIIANEMGVNIRITS---GPALEKPGD-LAAILTNLEEGDVLFIDEIHRLSPVVEEILYP 124 (328)
T ss_pred CCCcEEEECCC-CccHHHHHHHHHHHhCCCeEEEe---cccccChHH-HHHHHHhcccCCEEEEecHhhcchHHHHHHHH
Confidence 34556699999 99999999999887654332110 000001000 11122111110000 0000000 00112222
Q ss_pred ccccCcceeeceecccCHHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchhhhhhcccCCC
Q 011431 303 RPQTTSAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSSS 380 (486)
Q Consensus 303 ~L~~tKr~LlVLDDVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~~ 380 (486)
.+.. .+..+++|+..+...... ...+.+-|..|||...+...-...-...+++++++.++..+++.+.+..
T Consensus 125 ~~e~-~~~~~~l~~~~~~~~~~~------~l~~~~li~at~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~ 195 (328)
T PRK00080 125 AMED-FRLDIMIGKGPAARSIRL------DLPPFTLIGATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARI 195 (328)
T ss_pred HHHh-cceeeeeccCccccceee------cCCCceEEeecCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHH
Confidence 3333 344444444433221110 0112456777887665531100011346899999999999999987664
No 29
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=95.89 E-value=0.011 Score=60.96 Aligned_cols=130 Identities=5% Similarity=-0.032 Sum_probs=69.0
Q ss_pred eeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccCc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTTS 308 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~tK 308 (486)
-+-++|.. |.|||+||+++.+.....|-. +. ...+ ..... .. . .. .. ..+.+......
T Consensus 158 gvLL~Gpp-GtGKT~lakaia~~l~~~~~~-----v~-~~~l---~~~~~---g~-~------~~-~i-~~~f~~a~~~~ 215 (364)
T TIGR01242 158 GVLLYGPP-GTGKTLLAKAVAHETNATFIR-----VV-GSEL---VRKYI---GE-G------AR-LV-REIFELAKEKA 215 (364)
T ss_pred eEEEECCC-CCCHHHHHHHHHHhCCCCEEe-----cc-hHHH---HHHhh---hH-H------HH-HH-HHHHHHHHhcC
Confidence 36689999 999999999999877554421 11 0111 10000 00 0 00 00 00000011113
Q ss_pred ceeeceecccCH----------------HHHHHHhcCC--CCCCCCCEEEeeCCcccccccc---ccCCCceEecCCCCC
Q 011431 309 AAHPYVEDVIDD----------------AYMEDITDDS--SPSLNLSRINSTSRFEQLWPET---ISATDTCTEDVTVDN 367 (486)
Q Consensus 309 r~LlVLDDVw~~----------------~~~~~l~~~~--~~~~~GSrIIiTTR~~~V~~~~---~~~~~~~y~v~~L~~ 367 (486)
..+|++|+++.- ..+..++... .....+.+||.||..-+.+... ...-+..++++..+.
T Consensus 216 p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~ 295 (364)
T TIGR01242 216 PSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDF 295 (364)
T ss_pred CcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCH
Confidence 457888887632 1122233111 1123467888888754433211 112356789999999
Q ss_pred chhhhhhcccCCC
Q 011431 368 SPSLNLSSCNSSS 380 (486)
Q Consensus 368 ~es~~LF~~~a~~ 380 (486)
++.+++|..++..
T Consensus 296 ~~r~~Il~~~~~~ 308 (364)
T TIGR01242 296 EGRLEILKIHTRK 308 (364)
T ss_pred HHHHHHHHHHHhc
Confidence 9999999988754
No 30
>PRK09087 hypothetical protein; Validated
Probab=95.81 E-value=0.0062 Score=58.35 Aligned_cols=111 Identities=9% Similarity=-0.084 Sum_probs=64.5
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT 307 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t 307 (486)
+.+-|||.. |.|||+|++...+.....| + ... .....++ . .+
T Consensus 45 ~~l~l~G~~-GsGKThLl~~~~~~~~~~~-------i--~~~--~~~~~~~-------------------~----~~--- 86 (226)
T PRK09087 45 PVVVLAGPV-GSGKTHLASIWREKSDALL-------I--HPN--EIGSDAA-------------------N----AA--- 86 (226)
T ss_pred CeEEEECCC-CCCHHHHHHHHHHhcCCEE-------e--cHH--HcchHHH-------------------H----hh---
Confidence 457899999 9999999998876532111 1 000 0000000 0 11
Q ss_pred cceeeceeccc----CHHHHHHHhcCCCCCCCCCEEEeeCCc---------cccccccccCCCceEecCCCCCchhhhhh
Q 011431 308 SAAHPYVEDVI----DDAYMEDITDDSSPSLNLSRINSTSRF---------EQLWPETISATDTCTEDVTVDNSPSLNLS 374 (486)
Q Consensus 308 Kr~LlVLDDVw----~~~~~~~l~~~~~~~~~GSrIIiTTR~---------~~V~~~~~~~~~~~y~v~~L~~~es~~LF 374 (486)
..-+|++||+. +...+-.+.+.. ...|..||+|++. .++.. ......+++++++++++-.+++
T Consensus 87 ~~~~l~iDDi~~~~~~~~~lf~l~n~~--~~~g~~ilits~~~p~~~~~~~~dL~S--Rl~~gl~~~l~~pd~e~~~~iL 162 (226)
T PRK09087 87 AEGPVLIEDIDAGGFDETGLFHLINSV--RQAGTSLLMTSRLWPSSWNVKLPDLKS--RLKAATVVEIGEPDDALLSQVI 162 (226)
T ss_pred hcCeEEEECCCCCCCCHHHHHHHHHHH--HhCCCeEEEECCCChHHhccccccHHH--HHhCCceeecCCCCHHHHHHHH
Confidence 11367788884 223333333322 2347789998873 22321 1223468999999999999999
Q ss_pred cccCCC
Q 011431 375 SCNSSS 380 (486)
Q Consensus 375 ~~~a~~ 380 (486)
.+++..
T Consensus 163 ~~~~~~ 168 (226)
T PRK09087 163 FKLFAD 168 (226)
T ss_pred HHHHHH
Confidence 887754
No 31
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=95.81 E-value=0.017 Score=64.47 Aligned_cols=126 Identities=6% Similarity=-0.078 Sum_probs=69.3
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccc
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQ 305 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~ 305 (486)
....+-+||.. |+||||||+.+.+.....|..-+ .....+..+. .++.... ..+ ...
T Consensus 51 ~~~slLL~GPp-GtGKTTLA~aIA~~~~~~f~~ln----a~~~~i~dir-~~i~~a~---------------~~l--~~~ 107 (725)
T PRK13341 51 RVGSLILYGPP-GVGKTTLARIIANHTRAHFSSLN----AVLAGVKDLR-AEVDRAK---------------ERL--ERH 107 (725)
T ss_pred CCceEEEECCC-CCCHHHHHHHHHHHhcCcceeeh----hhhhhhHHHH-HHHHHHH---------------HHh--hhc
Confidence 34455689999 99999999999987655542210 0111111111 1111100 000 001
Q ss_pred cCcceeeceeccc--CHHHHHHHhcCCCCCCCCCEEEee--CCccc--cccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431 306 TTSAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRINST--SRFEQ--LWPETISATDTCTEDVTVDNSPSLNLSSCNSS 379 (486)
Q Consensus 306 ~tKr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrIIiT--TR~~~--V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~ 379 (486)
. +..+|++||++ +..+.+.++... ..|+.++|+ |.+.. +-. .......++++++|+.++-..++.+.+.
T Consensus 108 ~-~~~IL~IDEIh~Ln~~qQdaLL~~l---E~g~IiLI~aTTenp~~~l~~-aL~SR~~v~~l~pLs~edi~~IL~~~l~ 182 (725)
T PRK13341 108 G-KRTILFIDEVHRFNKAQQDALLPWV---ENGTITLIGATTENPYFEVNK-ALVSRSRLFRLKSLSDEDLHQLLKRALQ 182 (725)
T ss_pred C-CceEEEEeChhhCCHHHHHHHHHHh---cCceEEEEEecCCChHhhhhh-HhhccccceecCCCCHHHHHHHHHHHHH
Confidence 2 45789999996 455666666422 246666663 44421 110 0011134789999999999999887543
No 32
>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=95.79 E-value=0.02 Score=54.43 Aligned_cols=122 Identities=11% Similarity=-0.013 Sum_probs=63.8
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhccccccccccccccccccccccccc
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQT 306 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~ 306 (486)
...+-++|.. |+||||||+.+++...... ..+..+... .+ .......+ ..+.
T Consensus 38 ~~~lll~G~~-G~GKT~la~~~~~~~~~~~--~~~~~i~~~-~~---~~~~~~~~--------------------~~~~- 89 (226)
T TIGR03420 38 DRFLYLWGES-GSGKSHLLQAACAAAEERG--KSAIYLPLA-EL---AQADPEVL--------------------EGLE- 89 (226)
T ss_pred CCeEEEECCC-CCCHHHHHHHHHHHHHhcC--CcEEEEeHH-HH---HHhHHHHH--------------------hhcc-
Confidence 4456689999 9999999999988754321 112222111 11 11100000 0111
Q ss_pred CcceeeceecccCHH---HHH-HHhcCCCC-CCCCCEEEeeCCccccc-----cc-c-ccCCCceEecCCCCCchhhhhh
Q 011431 307 TSAAHPYVEDVIDDA---YME-DITDDSSP-SLNLSRINSTSRFEQLW-----PE-T-ISATDTCTEDVTVDNSPSLNLS 374 (486)
Q Consensus 307 tKr~LlVLDDVw~~~---~~~-~l~~~~~~-~~~GSrIIiTTR~~~V~-----~~-~-~~~~~~~y~v~~L~~~es~~LF 374 (486)
+.-+|++||+..-. .|. .+....-. ...+.++|+||+..-.. .. . .......+++++|+.++-..++
T Consensus 90 -~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l~~l~~~e~~~~l 168 (226)
T TIGR03420 90 -QADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSDEEKIAAL 168 (226)
T ss_pred -cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEecCCCCHHHHHHHH
Confidence 22478899997432 222 22211000 12345899988753210 00 0 1112357899999999989888
Q ss_pred ccc
Q 011431 375 SCN 377 (486)
Q Consensus 375 ~~~ 377 (486)
...
T Consensus 169 ~~~ 171 (226)
T TIGR03420 169 QSR 171 (226)
T ss_pred HHH
Confidence 654
No 33
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=95.58 E-value=0.0097 Score=56.26 Aligned_cols=26 Identities=8% Similarity=-0.074 Sum_probs=22.4
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
.+.+.|+|.. |+|||+|++.+.+...
T Consensus 20 ~~~~~l~G~r-g~GKTsLl~~~~~~~~ 45 (234)
T PF01637_consen 20 SQHILLYGPR-GSGKTSLLKEFINELK 45 (234)
T ss_dssp SSEEEEEEST-TSSHHHHHHHHHHHCT
T ss_pred CcEEEEEcCC-cCCHHHHHHHHHHHhh
Confidence 4677799999 9999999999988763
No 34
>PRK08727 hypothetical protein; Validated
Probab=95.15 E-value=0.031 Score=53.79 Aligned_cols=122 Identities=9% Similarity=-0.146 Sum_probs=68.1
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT 307 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t 307 (486)
..+-++|-. |.|||.|++++.+....+... +...... .....+...+. .+.
T Consensus 42 ~~l~l~G~~-G~GKThL~~a~~~~~~~~~~~--~~y~~~~----~~~~~~~~~~~--------------------~l~-- 92 (233)
T PRK08727 42 DWLYLSGPA-GTGKTHLALALCAAAEQAGRS--SAYLPLQ----AAAGRLRDALE--------------------ALE-- 92 (233)
T ss_pred CeEEEECCC-CCCHHHHHHHHHHHHHHcCCc--EEEEeHH----HhhhhHHHHHH--------------------HHh--
Confidence 457799999 999999999998876544211 1222211 11111111110 111
Q ss_pred cceeeceecccCH---HHHHHHhcCCCC--CCCCCEEEeeCCcc---------ccccccccCCCceEecCCCCCchhhhh
Q 011431 308 SAAHPYVEDVIDD---AYMEDITDDSSP--SLNLSRINSTSRFE---------QLWPETISATDTCTEDVTVDNSPSLNL 373 (486)
Q Consensus 308 Kr~LlVLDDVw~~---~~~~~l~~~~~~--~~~GSrIIiTTR~~---------~V~~~~~~~~~~~y~v~~L~~~es~~L 373 (486)
+--+|++||+... ..|...+-...+ ...|..||+||+.. ++.. .......+++++++.++-..+
T Consensus 93 ~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~S--Rl~~~~~~~l~~~~~e~~~~i 170 (233)
T PRK08727 93 GRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRS--RLAQCIRIGLPVLDDVARAAV 170 (233)
T ss_pred cCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHH--HHhcCceEEecCCCHHHHHHH
Confidence 2347899997621 223221111111 13467799999842 1111 111235789999999999999
Q ss_pred hcccCCC
Q 011431 374 SSCNSSS 380 (486)
Q Consensus 374 F~~~a~~ 380 (486)
+.++|..
T Consensus 171 L~~~a~~ 177 (233)
T PRK08727 171 LRERAQR 177 (233)
T ss_pred HHHHHHH
Confidence 9987754
No 35
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=94.99 E-value=0.15 Score=51.25 Aligned_cols=141 Identities=5% Similarity=-0.088 Sum_probs=73.7
Q ss_pred HHHHhhcCCCceeeeeeeccCccchhHHHHHHHhhhcccc---ccceE-EEEe-eec--cHHHHHHHHhhhhcccccccc
Q 011431 217 VLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNY---ENSDV-TLAK-FEG--EVKKLDQRLLRFLESVDKHVA 289 (486)
Q Consensus 217 v~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F---~~~~~-~~v~-~~~--~l~~lqk~ll~~L~~~d~~~~ 289 (486)
+...+.+..-...+-++|.. |.||||+|+.+...+.... ...++ .+.. .+. .+..++ .+...+..
T Consensus 16 l~~~~~~~~~~ha~Lf~G~~-G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~ir-~~~~~~~~------ 87 (313)
T PRK05564 16 IKNSIIKNRFSHAHIIVGED-GIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDDIR-NIIEEVNK------ 87 (313)
T ss_pred HHHHHHcCCCCceEEeECCC-CCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHHHH-HHHHHHhc------
Confidence 33334433334455688999 9999999999988653211 11122 1111 111 111111 11111100
Q ss_pred cccccccccccccccccCcceeecee-cccCHHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCc
Q 011431 290 SYDRYGSASFEQPRPQTTSAAHPYVE-DVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNS 368 (486)
Q Consensus 290 ~~~~~g~~s~l~~~L~~tKr~LlVLD-DVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~ 368 (486)
. .....+|+.||-+ |.++...+..++...-+-.+++.+|++|.+.+.+-........++++.+++.+
T Consensus 88 -----~-------p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~~~~ 155 (313)
T PRK05564 88 -----K-------PYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKE 155 (313)
T ss_pred -----C-------cccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCcCHH
Confidence 0 1112155655555 56677778777743322346899998887665431111112357899999999
Q ss_pred hhhhhhccc
Q 011431 369 PSLNLSSCN 377 (486)
Q Consensus 369 es~~LF~~~ 377 (486)
+........
T Consensus 156 ~~~~~l~~~ 164 (313)
T PRK05564 156 EIEKFISYK 164 (313)
T ss_pred HHHHHHHHH
Confidence 987666543
No 36
>PRK08116 hypothetical protein; Validated
Probab=94.96 E-value=0.024 Score=55.77 Aligned_cols=25 Identities=8% Similarity=0.062 Sum_probs=21.5
Q ss_pred eeeeeccCccchhHHHHHHHhhhccc
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQLMDN 255 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~~~~ 255 (486)
+-+||-. |.|||.||.++.+.+..+
T Consensus 117 l~l~G~~-GtGKThLa~aia~~l~~~ 141 (268)
T PRK08116 117 LLLWGSV-GTGKTYLAACIANELIEK 141 (268)
T ss_pred EEEECCC-CCCHHHHHHHHHHHHHHc
Confidence 5588988 999999999999987654
No 37
>PRK04841 transcriptional regulator MalT; Provisional
Probab=94.96 E-value=0.094 Score=60.41 Aligned_cols=150 Identities=9% Similarity=-0.041 Sum_probs=78.5
Q ss_pred HhhcCCCceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeee---ccHHHHHHHHhhhhcccccc--------c
Q 011431 220 LLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFE---GEVKKLDQRLLRFLESVDKH--------V 288 (486)
Q Consensus 220 ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~---~~l~~lqk~ll~~L~~~d~~--------~ 288 (486)
.+......+++-|.|.+ |.||||++.+...+ +. .+.|.+.. .+....-..++..|...... .
T Consensus 25 ~l~~~~~~~~~~v~apa-G~GKTtl~~~~~~~----~~--~~~w~~l~~~d~~~~~f~~~l~~~l~~~~~~~~~~~~~~~ 97 (903)
T PRK04841 25 KLSGANNYRLVLVTSPA-GYGKTTLISQWAAG----KN--NLGWYSLDESDNQPERFASYLIAALQQATNGHCSKSEALA 97 (903)
T ss_pred HHhcccCCCeEEEECCC-CCCHHHHHHHHHHh----CC--CeEEEecCcccCCHHHHHHHHHHHHHHhcCcccchhhhhh
Confidence 33444467788899999 99999999887643 22 35666654 22322333444444211100 0
Q ss_pred ccccccccc---ccccccccc-CcceeeceecccCH---H---HHHHHhcCCCCCCCCCEEEeeCCcccccccccc-CCC
Q 011431 289 ASYDRYGSA---SFEQPRPQT-TSAAHPYVEDVIDD---A---YMEDITDDSSPSLNLSRINSTSRFEQLWPETIS-ATD 357 (486)
Q Consensus 289 ~~~~~~g~~---s~l~~~L~~-tKr~LlVLDDVw~~---~---~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~-~~~ 357 (486)
......... +.+-..|.. .+.++||+||+-.. . .+..+... ...+-++|||||..--+.-... ...
T Consensus 98 ~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~---~~~~~~lv~~sR~~~~~~~~~l~~~~ 174 (903)
T PRK04841 98 QKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRH---QPENLTLVVLSRNLPPLGIANLRVRD 174 (903)
T ss_pred ccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHh---CCCCeEEEEEeCCCCCCchHhHHhcC
Confidence 000000000 111111111 26899999998542 1 22222321 2346788899998532210000 122
Q ss_pred ceEecC----CCCCchhhhhhcccCC
Q 011431 358 TCTEDV----TVDNSPSLNLSSCNSS 379 (486)
Q Consensus 358 ~~y~v~----~L~~~es~~LF~~~a~ 379 (486)
...++. +|+.+|+-+||.....
T Consensus 175 ~~~~l~~~~l~f~~~e~~~ll~~~~~ 200 (903)
T PRK04841 175 QLLEIGSQQLAFDHQEAQQFFDQRLS 200 (903)
T ss_pred cceecCHHhCCCCHHHHHHHHHhccC
Confidence 345566 8999999999976544
No 38
>PF10137 TIR-like: Predicted nucleotide-binding protein containing TIR-like domain; InterPro: IPR019302 This entry represents a TIR-like domain found in a family of prokaryotic predicted nucleotide-binding proteins. Their exact function has not, as yet, been defined.
Probab=94.90 E-value=0.069 Score=46.08 Aligned_cols=60 Identities=18% Similarity=0.264 Sum_probs=51.1
Q ss_pred ceEEecccCccCcChHHHHHHHHhcCCCeEEEeC-CcCCCCCchHHHHHHHhhccceEEEeecc
Q 011431 23 DVFVTFSGEDIRENFGSYLFAALFRESVKTFRDE-QIRRGDEIMPALLQAIEESKISLVIFSKR 85 (486)
Q Consensus 23 dVFis~~~~D~~~~f~~~L~~~L~~~gi~~~~d~-~~~~g~~i~~~i~~~I~~s~~~ivv~S~~ 85 (486)
.|||.|. +|. .....+...|+..|+.+..-. ....|..+.+.|.+...++..+|++|+|+
T Consensus 1 kVFIvhg-~~~--~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpD 61 (125)
T PF10137_consen 1 KVFIVHG-RDL--AAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPD 61 (125)
T ss_pred CEEEEeC-CCH--HHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEccc
Confidence 4899996 663 678889999998898877655 66889999999999999999999999984
No 39
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=94.70 E-value=0.015 Score=49.89 Aligned_cols=113 Identities=11% Similarity=-0.033 Sum_probs=60.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccc---cceEEEEeee--ccHHHHHHHHhhhhccccccccccccccccccccc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYE---NSDVTLAKFE--GEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQP 302 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~---~~~~~~v~~~--~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~ 302 (486)
+++-|+|-. |.|||++++.+.+.....+. ...+.++... .....+...++..+......... ...+.+.+.+
T Consensus 5 ~~~~i~G~~-G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~--~~~l~~~~~~ 81 (131)
T PF13401_consen 5 RILVISGPP-GSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQT--SDELRSLLID 81 (131)
T ss_dssp --EEEEE-T-TSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS---HHHHHHHHHH
T ss_pred cccEEEcCC-CCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCC--HHHHHHHHHH
Confidence 456689999 99999999999887643221 1122233222 33555677777777642211001 1112244555
Q ss_pred ccccCcceeeceecccCH---HHHHHHhcCCCCCCCCCEEEeeCCc
Q 011431 303 RPQTTSAAHPYVEDVIDD---AYMEDITDDSSPSLNLSRINSTSRF 345 (486)
Q Consensus 303 ~L~~tKr~LlVLDDVw~~---~~~~~l~~~~~~~~~GSrIIiTTR~ 345 (486)
.+...+..+||+|+...- ..++.+.. .. ...+.++|+..+.
T Consensus 82 ~l~~~~~~~lviDe~~~l~~~~~l~~l~~-l~-~~~~~~vvl~G~~ 125 (131)
T PF13401_consen 82 ALDRRRVVLLVIDEADHLFSDEFLEFLRS-LL-NESNIKVVLVGTP 125 (131)
T ss_dssp HHHHCTEEEEEEETTHHHHTHHHHHHHHH-HT-CSCBEEEEEEESS
T ss_pred HHHhcCCeEEEEeChHhcCCHHHHHHHHH-HH-hCCCCeEEEEECh
Confidence 666634569999998653 22333332 11 2446677766554
No 40
>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=94.68 E-value=0.02 Score=54.56 Aligned_cols=133 Identities=9% Similarity=-0.029 Sum_probs=71.3
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT 307 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t 307 (486)
.-+-|||-. |.|||.|++++++.+........+..... ..+ ...+...+.. +..+.+++.++.
T Consensus 35 ~~l~l~G~~-G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~-~~f---~~~~~~~~~~-----------~~~~~~~~~~~~- 97 (219)
T PF00308_consen 35 NPLFLYGPS-GLGKTHLLQAIANEAQKQHPGKRVVYLSA-EEF---IREFADALRD-----------GEIEEFKDRLRS- 97 (219)
T ss_dssp SEEEEEEST-TSSHHHHHHHHHHHHHHHCTTS-EEEEEH-HHH---HHHHHHHHHT-----------TSHHHHHHHHCT-
T ss_pred CceEEECCC-CCCHHHHHHHHHHHHHhccccccceeecH-HHH---HHHHHHHHHc-----------ccchhhhhhhhc-
Confidence 345689999 99999999999998765544332333321 122 2223222221 001223333433
Q ss_pred cceeeceecccCH---HHHHH----HhcCCCCCCCCCEEEeeCCcc-ccccc------cccCCCceEecCCCCCchhhhh
Q 011431 308 SAAHPYVEDVIDD---AYMED----ITDDSSPSLNLSRINSTSRFE-QLWPE------TISATDTCTEDVTVDNSPSLNL 373 (486)
Q Consensus 308 Kr~LlVLDDVw~~---~~~~~----l~~~~~~~~~GSrIIiTTR~~-~V~~~------~~~~~~~~y~v~~L~~~es~~L 373 (486)
--+|++||+..- ..|.. +.+.. ...|-+||+|++.. .-+.. .......+++++++++++-.++
T Consensus 98 -~DlL~iDDi~~l~~~~~~q~~lf~l~n~~--~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~i 174 (219)
T PF00308_consen 98 -ADLLIIDDIQFLAGKQRTQEELFHLFNRL--IESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRI 174 (219)
T ss_dssp -SSEEEEETGGGGTTHHHHHHHHHHHHHHH--HHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHH
T ss_pred -CCEEEEecchhhcCchHHHHHHHHHHHHH--HhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHH
Confidence 357889998742 22322 22221 23477999999543 11110 0112345899999999999999
Q ss_pred hcccCCC
Q 011431 374 SSCNSSS 380 (486)
Q Consensus 374 F~~~a~~ 380 (486)
+.+.|..
T Consensus 175 l~~~a~~ 181 (219)
T PF00308_consen 175 LQKKAKE 181 (219)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 9887765
No 41
>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=94.56 E-value=0.12 Score=52.87 Aligned_cols=151 Identities=7% Similarity=-0.061 Sum_probs=73.4
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhcccccc----ceEEEEeee--ccHHHHHHHHhhhhcc--cccccccccccccccc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYEN----SDVTLAKFE--GEVKKLDQRLLRFLES--VDKHVASYDRYGSASF 299 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~----~~~~~v~~~--~~l~~lqk~ll~~L~~--~d~~~~~~~~~g~~s~ 299 (486)
..+-|+|.. |.|||++++.+++++...... ..+..+... .....+...++..|.. .............-..
T Consensus 41 ~~i~I~G~~-GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~ 119 (365)
T TIGR02928 41 SNVFIYGKT-GTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRR 119 (365)
T ss_pred CcEEEECCC-CCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHH
Confidence 456789999 999999999999876432211 111222111 1223345566666631 1100000000000022
Q ss_pred cccccc-cCcceeeceecccCHH-----HHHHHhcC-CCCCCCCC--EEEeeCCccccccc----c-ccCCCceEecCCC
Q 011431 300 EQPRPQ-TTSAAHPYVEDVIDDA-----YMEDITDD-SSPSLNLS--RINSTSRFEQLWPE----T-ISATDTCTEDVTV 365 (486)
Q Consensus 300 l~~~L~-~tKr~LlVLDDVw~~~-----~~~~l~~~-~~~~~~GS--rIIiTTR~~~V~~~----~-~~~~~~~y~v~~L 365 (486)
+.+.+. ..+.++||||+++.-. .+..+... .+...+++ .+|.+|...+.... . .......++++++
T Consensus 120 l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i~n~~~~~~~l~~~~~s~~~~~~i~f~p~ 199 (365)
T TIGR02928 120 LYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISNDLKFRENLDPRVKSSLCEEEIIFPPY 199 (365)
T ss_pred HHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEEECCcchHhhcCHHHhccCCcceeeeCCC
Confidence 233332 2256889999988551 12222221 01122222 34445543432110 0 0001245789999
Q ss_pred CCchhhhhhcccCC
Q 011431 366 DNSPSLNLSSCNSS 379 (486)
Q Consensus 366 ~~~es~~LF~~~a~ 379 (486)
+.++-.+++..++.
T Consensus 200 ~~~e~~~il~~r~~ 213 (365)
T TIGR02928 200 DAEELRDILENRAE 213 (365)
T ss_pred CHHHHHHHHHHHHH
Confidence 99999999887653
No 42
>PRK05642 DNA replication initiation factor; Validated
Probab=94.53 E-value=0.065 Score=51.56 Aligned_cols=122 Identities=9% Similarity=-0.031 Sum_probs=66.3
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT 307 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t 307 (486)
.-+-|||-. |.|||.|++++.+....+ ...+..+.. ..+ ... . ..+.+.+..
T Consensus 46 ~~l~l~G~~-G~GKTHLl~a~~~~~~~~--~~~v~y~~~-~~~---~~~----~----------------~~~~~~~~~- 97 (234)
T PRK05642 46 SLIYLWGKD-GVGRSHLLQAACLRFEQR--GEPAVYLPL-AEL---LDR----G----------------PELLDNLEQ- 97 (234)
T ss_pred CeEEEECCC-CCCHHHHHHHHHHHHHhC--CCcEEEeeH-HHH---Hhh----h----------------HHHHHhhhh-
Confidence 456789999 999999999998865432 111222221 111 100 0 011112222
Q ss_pred cceeeceecccC---HHHHHH-H---hcCCCCCCCCCEEEeeCCcccc-ccc------cccCCCceEecCCCCCchhhhh
Q 011431 308 SAAHPYVEDVID---DAYMED-I---TDDSSPSLNLSRINSTSRFEQL-WPE------TISATDTCTEDVTVDNSPSLNL 373 (486)
Q Consensus 308 Kr~LlVLDDVw~---~~~~~~-l---~~~~~~~~~GSrIIiTTR~~~V-~~~------~~~~~~~~y~v~~L~~~es~~L 373 (486)
- -+|++||+.- ...|.. + .+.. ...|.+||+||+...- +.. .......+++++++++++-..+
T Consensus 98 ~-d~LiiDDi~~~~~~~~~~~~Lf~l~n~~--~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~i 174 (234)
T PRK05642 98 Y-ELVCLDDLDVIAGKADWEEALFHLFNRL--RDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRA 174 (234)
T ss_pred C-CEEEEechhhhcCChHHHHHHHHHHHHH--HhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHH
Confidence 1 2578899852 233333 2 2221 2347789998874321 100 0011235789999999999999
Q ss_pred hcccCCC
Q 011431 374 SSCNSSS 380 (486)
Q Consensus 374 F~~~a~~ 380 (486)
...+|..
T Consensus 175 l~~ka~~ 181 (234)
T PRK05642 175 LQLRASR 181 (234)
T ss_pred HHHHHHH
Confidence 8866544
No 43
>PLN03025 replication factor C subunit; Provisional
Probab=94.43 E-value=0.22 Score=50.24 Aligned_cols=132 Identities=8% Similarity=-0.005 Sum_probs=66.1
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhcc-ccccceEEEEee--eccHHHHHHHHhhhhccccccccccccccccccccccc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMD-NYENSDVTLAKF--EGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRP 304 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~-~F~~~~~~~v~~--~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L 304 (486)
..+=++|-. |.||||+|+.+-+.+.. .|... +..... ..+...++..+- .... . .. . .-
T Consensus 35 ~~lll~Gp~-G~GKTtla~~la~~l~~~~~~~~-~~eln~sd~~~~~~vr~~i~-~~~~------~----~~--~---~~ 96 (319)
T PLN03025 35 PNLILSGPP-GTGKTTSILALAHELLGPNYKEA-VLELNASDDRGIDVVRNKIK-MFAQ------K----KV--T---LP 96 (319)
T ss_pred ceEEEECCC-CCCHHHHHHHHHHHHhcccCccc-eeeecccccccHHHHHHHHH-HHHh------c----cc--c---CC
Confidence 335589999 99999999998876532 22211 111111 112222222211 1100 0 00 0 00
Q ss_pred ccCcceeeceecccCH--HHHHHHhcCCCCCCCCCEEEeeCCccc-cccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431 305 QTTSAAHPYVEDVIDD--AYMEDITDDSSPSLNLSRINSTSRFEQ-LWPETISATDTCTEDVTVDNSPSLNLSSCNSS 379 (486)
Q Consensus 305 ~~tKr~LlVLDDVw~~--~~~~~l~~~~~~~~~GSrIIiTTR~~~-V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~ 379 (486)
.. +..++++|++..- .....+....-.....+++|+||.... +... ......++++++|++++-...+.+.|.
T Consensus 97 ~~-~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~-L~SRc~~i~f~~l~~~~l~~~L~~i~~ 172 (319)
T PLN03025 97 PG-RHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEP-IQSRCAIVRFSRLSDQEILGRLMKVVE 172 (319)
T ss_pred CC-CeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchh-HHHhhhcccCCCCCHHHHHHHHHHHHH
Confidence 12 4568999998742 222333311101244677777774432 3210 001124789999999998877776554
No 44
>PRK08084 DNA replication initiation factor; Provisional
Probab=94.39 E-value=0.05 Score=52.38 Aligned_cols=121 Identities=7% Similarity=-0.059 Sum_probs=66.8
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhccccccccccccccccccccccccc
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQT 306 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~ 306 (486)
.+.+-+||.. |.|||+|++++.+....+ ...+......... ..... +.+.+..
T Consensus 45 ~~~l~l~Gp~-G~GKThLl~a~~~~~~~~--~~~v~y~~~~~~~-~~~~~-----------------------~~~~~~~ 97 (235)
T PRK08084 45 SGYIYLWSRE-GAGRSHLLHAACAELSQR--GRAVGYVPLDKRA-WFVPE-----------------------VLEGMEQ 97 (235)
T ss_pred CCeEEEECCC-CCCHHHHHHHHHHHHHhC--CCeEEEEEHHHHh-hhhHH-----------------------HHHHhhh
Confidence 3466799999 999999999998876432 1112222211100 00000 0111111
Q ss_pred CcceeeceecccCH---HHHHHH----hcCCCCCCCC-CEEEeeCCcc---------ccccccccCCCceEecCCCCCch
Q 011431 307 TSAAHPYVEDVIDD---AYMEDI----TDDSSPSLNL-SRINSTSRFE---------QLWPETISATDTCTEDVTVDNSP 369 (486)
Q Consensus 307 tKr~LlVLDDVw~~---~~~~~l----~~~~~~~~~G-SrIIiTTR~~---------~V~~~~~~~~~~~y~v~~L~~~e 369 (486)
--+|++||+... ..|+.. .+... ..| .++|+||+.- ++..+ .....+++++++++++
T Consensus 98 --~dlliiDdi~~~~~~~~~~~~lf~l~n~~~--e~g~~~li~ts~~~p~~l~~~~~~L~SR--l~~g~~~~l~~~~~~~ 171 (235)
T PRK08084 98 --LSLVCIDNIECIAGDELWEMAIFDLYNRIL--ESGRTRLLITGDRPPRQLNLGLPDLASR--LDWGQIYKLQPLSDEE 171 (235)
T ss_pred --CCEEEEeChhhhcCCHHHHHHHHHHHHHHH--HcCCCeEEEeCCCChHHcCcccHHHHHH--HhCCceeeecCCCHHH
Confidence 237889998532 334322 22221 124 4789999743 22211 1234689999999999
Q ss_pred hhhhhcccCCC
Q 011431 370 SLNLSSCNSSS 380 (486)
Q Consensus 370 s~~LF~~~a~~ 380 (486)
-.+++.++|..
T Consensus 172 ~~~~l~~~a~~ 182 (235)
T PRK08084 172 KLQALQLRARL 182 (235)
T ss_pred HHHHHHHHHHH
Confidence 99998776654
No 45
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=94.15 E-value=0.39 Score=46.22 Aligned_cols=51 Identities=8% Similarity=0.121 Sum_probs=34.1
Q ss_pred HHHHHHhhhhhhccchhhhhhHHHHHHHhhcCCCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 193 KELVVLFNRARDKLDNHASSLLDEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 193 ~~lVgi~~~~~~~~~~~~~~~l~~v~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
++++|+..+ ...++++...++... ...-+=+||.- |.|||+|++++.+...
T Consensus 27 ~~L~Gie~Q--------k~~l~~Nt~~Fl~G~-pannvLL~G~r-GtGKSSlVkall~~y~ 77 (249)
T PF05673_consen 27 DDLIGIERQ--------KEALIENTEQFLQGL-PANNVLLWGAR-GTGKSSLVKALLNEYA 77 (249)
T ss_pred HHhcCHHHH--------HHHHHHHHHHHHcCC-CCcceEEecCC-CCCHHHHHHHHHHHHh
Confidence 567787432 234556666666543 22334479999 9999999999988653
No 46
>PRK06620 hypothetical protein; Validated
Probab=94.07 E-value=0.05 Score=51.65 Aligned_cols=110 Identities=9% Similarity=-0.190 Sum_probs=62.4
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT 307 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t 307 (486)
+.+-+||.. |.|||+|++++.+.....| .. . . ...+ . .+.
T Consensus 45 ~~l~l~Gp~-G~GKThLl~a~~~~~~~~~-------~~--~-~-----------~~~~-------~---------~~~-- 84 (214)
T PRK06620 45 FTLLIKGPS-SSGKTYLTKIWQNLSNAYI-------IK--D-I-----------FFNE-------E---------ILE-- 84 (214)
T ss_pred ceEEEECCC-CCCHHHHHHHHHhccCCEE-------cc--h-h-----------hhch-------h---------HHh--
Confidence 456799999 9999999998766542111 00 0 0 0000 0 111
Q ss_pred cceeeceecccCH--HHHHHHhcCCCCCCCCCEEEeeCCccccc---cc--cccCCCceEecCCCCCchhhhhhcccCC
Q 011431 308 SAAHPYVEDVIDD--AYMEDITDDSSPSLNLSRINSTSRFEQLW---PE--TISATDTCTEDVTVDNSPSLNLSSCNSS 379 (486)
Q Consensus 308 Kr~LlVLDDVw~~--~~~~~l~~~~~~~~~GSrIIiTTR~~~V~---~~--~~~~~~~~y~v~~L~~~es~~LF~~~a~ 379 (486)
..-+|++||+... ..+-.+.+.. ...|..||+|++...-. .. .......+++++++++++-..+..+++.
T Consensus 85 ~~d~lliDdi~~~~~~~lf~l~N~~--~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~ 161 (214)
T PRK06620 85 KYNAFIIEDIENWQEPALLHIFNII--NEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFS 161 (214)
T ss_pred cCCEEEEeccccchHHHHHHHHHHH--HhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHH
Confidence 2246788999532 2222232222 13477999999744321 00 1112335899999999998888877665
No 47
>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=94.03 E-value=0.067 Score=55.86 Aligned_cols=133 Identities=11% Similarity=0.012 Sum_probs=70.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT 307 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t 307 (486)
.-+-++|.. |.|||.|++++.+.+..+.....+..+.. ..+...+...+... . ...+++.+..
T Consensus 137 n~l~l~G~~-G~GKThL~~ai~~~l~~~~~~~~v~yi~~----~~~~~~~~~~~~~~-----~------~~~~~~~~~~- 199 (405)
T TIGR00362 137 NPLFIYGGV-GLGKTHLLHAIGNEILENNPNAKVVYVSS----EKFTNDFVNALRNN-----K------MEEFKEKYRS- 199 (405)
T ss_pred CeEEEECCC-CCcHHHHHHHHHHHHHHhCCCCcEEEEEH----HHHHHHHHHHHHcC-----C------HHHHHHHHHh-
Confidence 345689999 99999999999998765433222233321 11222333333210 0 0122223332
Q ss_pred cceeeceecccCH---HHH-H---HHhcCCCCCCCCCEEEeeCCcc--ccc---cc--cccCCCceEecCCCCCchhhhh
Q 011431 308 SAAHPYVEDVIDD---AYM-E---DITDDSSPSLNLSRINSTSRFE--QLW---PE--TISATDTCTEDVTVDNSPSLNL 373 (486)
Q Consensus 308 Kr~LlVLDDVw~~---~~~-~---~l~~~~~~~~~GSrIIiTTR~~--~V~---~~--~~~~~~~~y~v~~L~~~es~~L 373 (486)
--+|++||+... ..+ + .+.+.. ...|..||+||... ++- .. .......+.++++.+.++-..+
T Consensus 200 -~dlLiiDDi~~l~~~~~~~~~l~~~~n~~--~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~i 276 (405)
T TIGR00362 200 -VDLLLIDDIQFLAGKERTQEEFFHTFNAL--HENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAI 276 (405)
T ss_pred -CCEEEEehhhhhcCCHHHHHHHHHHHHHH--HHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHH
Confidence 247889999631 111 1 122211 12356678877531 110 00 1111234688999999988888
Q ss_pred hcccCCC
Q 011431 374 SSCNSSS 380 (486)
Q Consensus 374 F~~~a~~ 380 (486)
+...+..
T Consensus 277 l~~~~~~ 283 (405)
T TIGR00362 277 LQKKAEE 283 (405)
T ss_pred HHHHHHH
Confidence 8877654
No 48
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=93.80 E-value=0.079 Score=54.64 Aligned_cols=52 Identities=13% Similarity=-0.047 Sum_probs=38.8
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccc-cccceEEEEeee--ccHHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDN-YENSDVTLAKFE--GEVKKLDQRLLRF 280 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~-F~~~~~~~v~~~--~~l~~lqk~ll~~ 280 (486)
+.++|+|.. |.|||||++.+++.+..+ |+..+|+.+.-. ..+..+++.++..
T Consensus 169 q~~~IvG~~-g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgER~~EVtDLqrsIlg~ 223 (415)
T TIGR00767 169 QRGLIVAPP-KAGKTVLLQKIAQAITRNHPEVELIVLLIDERPEEVTDMQRSVKGE 223 (415)
T ss_pred CEEEEECCC-CCChhHHHHHHHHhhcccCCceEEEEEEcCCCCccHHHHHHHhhce
Confidence 456799999 999999999999987665 776665555433 4666778887543
No 49
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.70 E-value=0.36 Score=51.80 Aligned_cols=71 Identities=4% Similarity=-0.117 Sum_probs=40.8
Q ss_pred cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEe-eCCccccccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431 308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINS-TSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSS 379 (486)
Q Consensus 308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIi-TTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~ 379 (486)
++.++|+|+++. ...+..++...-+......+|+ |++...+.... ......|++.+|+.++....+.+.+.
T Consensus 116 ~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I-~SRc~~~~f~~ls~~el~~~L~~i~~ 189 (504)
T PRK14963 116 GRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTI-LSRTQHFRFRRLTEEEIAGKLRRLLE 189 (504)
T ss_pred CCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHH-hcceEEEEecCCCHHHHHHHHHHHHH
Confidence 566888999874 3445555532211123445444 44444443111 11235789999999999888876543
No 50
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=93.67 E-value=0.4 Score=53.36 Aligned_cols=71 Identities=6% Similarity=-0.119 Sum_probs=42.8
Q ss_pred cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchhhhhhcccC
Q 011431 308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNS 378 (486)
Q Consensus 308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a 378 (486)
+..++|+|++.. ...+..|+...-+.....++|+||.+.+-+......-...|+++.|+.++-.+.+.+.+
T Consensus 119 r~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il 191 (830)
T PRK07003 119 RFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERIL 191 (830)
T ss_pred CceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhheEEEecCCcCHHHHHHHHHHHH
Confidence 556788999874 34455555322122346777777766553211111122578999999999887776654
No 51
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=93.51 E-value=0.35 Score=48.49 Aligned_cols=124 Identities=6% Similarity=-0.101 Sum_probs=60.7
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeee-ccHHHHHHHHhhhhcccccccccccccccccccccccc
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFE-GEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQ 305 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~-~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~ 305 (486)
...+=++|.. |.||||+|+.+++.....+. ..... .....++..+...... . .+.
T Consensus 43 ~~~lll~G~~-G~GKT~la~~l~~~~~~~~~-----~i~~~~~~~~~i~~~l~~~~~~-------~-----------~~~ 98 (316)
T PHA02544 43 PNMLLHSPSP-GTGKTTVAKALCNEVGAEVL-----FVNGSDCRIDFVRNRLTRFAST-------V-----------SLT 98 (316)
T ss_pred CeEEEeeCcC-CCCHHHHHHHHHHHhCccce-----EeccCcccHHHHHHHHHHHHHh-------h-----------ccc
Confidence 3455568999 99999999999887633221 11111 1122222222111100 0 011
Q ss_pred cCcceeeceecccCH---HHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchhhhhhc
Q 011431 306 TTSAAHPYVEDVIDD---AYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSS 375 (486)
Q Consensus 306 ~tKr~LlVLDDVw~~---~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~ 375 (486)
. ...+|++||+... .....+..-.-....+.++|+||...+-+..........++++..+.++...++.
T Consensus 99 ~-~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~~i~~~~p~~~~~~~il~ 170 (316)
T PHA02544 99 G-GGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVIDFGVPTKEEQIEMMK 170 (316)
T ss_pred C-CCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhceEEEeCCCCHHHHHHHHH
Confidence 2 3457889998643 1222222101012356789999865543211111112356777777777665543
No 52
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=93.43 E-value=0.06 Score=45.60 Aligned_cols=23 Identities=4% Similarity=-0.324 Sum_probs=20.1
Q ss_pred eeeeeeccCccchhHHHHHHHhhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
+|.|.|.. |.||||+|+.+-+++
T Consensus 1 vI~I~G~~-gsGKST~a~~La~~~ 23 (121)
T PF13207_consen 1 VIIISGPP-GSGKSTLAKELAERL 23 (121)
T ss_dssp EEEEEEST-TSSHHHHHHHHHHHH
T ss_pred CEEEECCC-CCCHHHHHHHHHHHH
Confidence 57899999 999999999986654
No 53
>PRK08118 topology modulation protein; Reviewed
Probab=93.42 E-value=0.058 Score=49.05 Aligned_cols=26 Identities=4% Similarity=-0.379 Sum_probs=22.1
Q ss_pred eeeeeeccCccchhHHHHHHHhhhccc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLMDN 255 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~~~ 255 (486)
.|-|+|.+ |.||||||+.+++.+...
T Consensus 3 rI~I~G~~-GsGKSTlak~L~~~l~~~ 28 (167)
T PRK08118 3 KIILIGSG-GSGKSTLARQLGEKLNIP 28 (167)
T ss_pred EEEEECCC-CCCHHHHHHHHHHHhCCC
Confidence 46799999 999999999999876543
No 54
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=93.17 E-value=0.2 Score=52.97 Aligned_cols=134 Identities=8% Similarity=-0.062 Sum_probs=71.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT 307 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t 307 (486)
.-+-+||-. |.|||+|++++.+.+........+..+.. .. +...+...+.. +.. ..+++.+..
T Consensus 131 n~l~lyG~~-G~GKTHLl~ai~~~l~~~~~~~~v~yi~~-~~---f~~~~~~~~~~-----~~~------~~f~~~~~~- 193 (440)
T PRK14088 131 NPLFIYGGV-GLGKTHLLQSIGNYVVQNEPDLRVMYITS-EK---FLNDLVDSMKE-----GKL------NEFREKYRK- 193 (440)
T ss_pred CeEEEEcCC-CCcHHHHHHHHHHHHHHhCCCCeEEEEEH-HH---HHHHHHHHHhc-----ccH------HHHHHHHHh-
Confidence 346689988 99999999999998765443322333322 11 22233322221 000 112222222
Q ss_pred cceeeceecccCH---H----HHHHHhcCCCCCCCCCEEEeeCC-ccccccc------cccCCCceEecCCCCCchhhhh
Q 011431 308 SAAHPYVEDVIDD---A----YMEDITDDSSPSLNLSRINSTSR-FEQLWPE------TISATDTCTEDVTVDNSPSLNL 373 (486)
Q Consensus 308 Kr~LlVLDDVw~~---~----~~~~l~~~~~~~~~GSrIIiTTR-~~~V~~~------~~~~~~~~y~v~~L~~~es~~L 373 (486)
.--+|++||+... . .+-.+.+.. ...|..||+||. .-.-+.. .......+.++++.+.+.-..+
T Consensus 194 ~~dvLlIDDi~~l~~~~~~q~elf~~~n~l--~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~I 271 (440)
T PRK14088 194 KVDVLLIDDVQFLIGKTGVQTELFHTFNEL--HDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKI 271 (440)
T ss_pred cCCEEEEechhhhcCcHHHHHHHHHHHHHH--HHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHH
Confidence 2357889999732 1 121222221 123557888885 2211110 0112235788999999998888
Q ss_pred hcccCCC
Q 011431 374 SSCNSSS 380 (486)
Q Consensus 374 F~~~a~~ 380 (486)
+.+.+..
T Consensus 272 L~~~~~~ 278 (440)
T PRK14088 272 ARKMLEI 278 (440)
T ss_pred HHHHHHh
Confidence 8877653
No 55
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=93.07 E-value=0.64 Score=46.86 Aligned_cols=70 Identities=7% Similarity=-0.057 Sum_probs=37.2
Q ss_pred ceeeceecccCH--HHHHHHhcCCCCCCCCCEEEeeCCcc-ccccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431 309 AAHPYVEDVIDD--AYMEDITDDSSPSLNLSRINSTSRFE-QLWPETISATDTCTEDVTVDNSPSLNLSSCNSS 379 (486)
Q Consensus 309 r~LlVLDDVw~~--~~~~~l~~~~~~~~~GSrIIiTTR~~-~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~ 379 (486)
+.+|++||+..- .....+....-......++|+||.+. .+.. ........+++.+++.++...++...+.
T Consensus 126 ~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~~-~L~sr~~~v~~~~~~~~~~~~~l~~~~~ 198 (337)
T PRK12402 126 YKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIP-PIRSRCLPLFFRAPTDDELVDVLESIAE 198 (337)
T ss_pred CcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCch-hhcCCceEEEecCCCHHHHHHHHHHHHH
Confidence 457999998632 22222221110123356788777443 2221 1111224678889999888777766543
No 56
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=92.97 E-value=0.17 Score=53.53 Aligned_cols=131 Identities=8% Similarity=0.001 Sum_probs=69.3
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT 307 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t 307 (486)
.-+-|+|.. |+|||+|++++.+.+... ...+..+.. . .+...+...+.. +....++..+..
T Consensus 142 npl~L~G~~-G~GKTHLl~Ai~~~l~~~--~~~v~yi~~-~---~f~~~~~~~l~~-----------~~~~~f~~~~~~- 202 (445)
T PRK12422 142 NPIYLFGPE-GSGKTHLMQAAVHALRES--GGKILYVRS-E---LFTEHLVSAIRS-----------GEMQRFRQFYRN- 202 (445)
T ss_pred ceEEEEcCC-CCCHHHHHHHHHHHHHHc--CCCEEEeeH-H---HHHHHHHHHHhc-----------chHHHHHHHccc-
Confidence 345689988 999999999999877532 111222221 1 122233333321 001123333333
Q ss_pred cceeeceecccCHH---H-HHH---HhcCCCCCCCCCEEEeeCCcc-----ccccc--cccCCCceEecCCCCCchhhhh
Q 011431 308 SAAHPYVEDVIDDA---Y-MED---ITDDSSPSLNLSRINSTSRFE-----QLWPE--TISATDTCTEDVTVDNSPSLNL 373 (486)
Q Consensus 308 Kr~LlVLDDVw~~~---~-~~~---l~~~~~~~~~GSrIIiTTR~~-----~V~~~--~~~~~~~~y~v~~L~~~es~~L 373 (486)
--+|++||+.... . .+. +.+.. ...|-.||+||... .+... .......++++++++.++-..+
T Consensus 203 -~dvLiIDDiq~l~~k~~~qeelf~l~N~l--~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~i 279 (445)
T PRK12422 203 -VDALFIEDIEVFSGKGATQEEFFHTFNSL--HTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSF 279 (445)
T ss_pred -CCEEEEcchhhhcCChhhHHHHHHHHHHH--HHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHH
Confidence 3477889975321 1 111 21211 12366788888542 11110 1112235789999999999999
Q ss_pred hcccCCC
Q 011431 374 SSCNSSS 380 (486)
Q Consensus 374 F~~~a~~ 380 (486)
+.+++-.
T Consensus 280 L~~k~~~ 286 (445)
T PRK12422 280 LERKAEA 286 (445)
T ss_pred HHHHHHH
Confidence 8877654
No 57
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.95 E-value=0.61 Score=47.97 Aligned_cols=69 Identities=6% Similarity=-0.103 Sum_probs=39.6
Q ss_pred cceeeceecccCH--HHHHHHhcCCCCCCCCCEEEeeCCccc-cccccccCCCceEecCCCCCchhhhhhccc
Q 011431 308 SAAHPYVEDVIDD--AYMEDITDDSSPSLNLSRINSTSRFEQ-LWPETISATDTCTEDVTVDNSPSLNLSSCN 377 (486)
Q Consensus 308 Kr~LlVLDDVw~~--~~~~~l~~~~~~~~~GSrIIiTTR~~~-V~~~~~~~~~~~y~v~~L~~~es~~LF~~~ 377 (486)
++.++++|++..- ..+..++...-+.....++|++|.+.+ +.. ........+++++|+.++-.......
T Consensus 119 ~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~-tI~SRc~~~~~~~l~~~el~~~L~~~ 190 (363)
T PRK14961 119 RFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPK-TILSRCLQFKLKIISEEKIFNFLKYI 190 (363)
T ss_pred CceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhH-HHHhhceEEeCCCCCHHHHHHHHHHH
Confidence 4568999998743 345555532211233567777665433 321 11112357899999999877666543
No 58
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=92.70 E-value=0.14 Score=54.22 Aligned_cols=133 Identities=9% Similarity=-0.008 Sum_probs=71.8
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT 307 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t 307 (486)
.-+-|+|-. |.|||+|++++.+.+..++....+..+... . +...+...+.+. . ...+++.++.
T Consensus 149 ~~l~l~G~~-G~GKThL~~ai~~~~~~~~~~~~v~yi~~~-~---~~~~~~~~~~~~-----~------~~~~~~~~~~- 211 (450)
T PRK00149 149 NPLFIYGGV-GLGKTHLLHAIGNYILEKNPNAKVVYVTSE-K---FTNDFVNALRNN-----T------MEEFKEKYRS- 211 (450)
T ss_pred CeEEEECCC-CCCHHHHHHHHHHHHHHhCCCCeEEEEEHH-H---HHHHHHHHHHcC-----c------HHHHHHHHhc-
Confidence 445689999 999999999999987665433222332221 1 222333333210 0 0112223332
Q ss_pred cceeeceecccCH---HHH-HH---HhcCCCCCCCCCEEEeeCCcc--ccc---cc--cccCCCceEecCCCCCchhhhh
Q 011431 308 SAAHPYVEDVIDD---AYM-ED---ITDDSSPSLNLSRINSTSRFE--QLW---PE--TISATDTCTEDVTVDNSPSLNL 373 (486)
Q Consensus 308 Kr~LlVLDDVw~~---~~~-~~---l~~~~~~~~~GSrIIiTTR~~--~V~---~~--~~~~~~~~y~v~~L~~~es~~L 373 (486)
--+|++||+... ..+ +. +.+.. ...|..||+||... ++. .. .......++++++++.++-..+
T Consensus 212 -~dlLiiDDi~~l~~~~~~~~~l~~~~n~l--~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~i 288 (450)
T PRK00149 212 -VDVLLIDDIQFLAGKERTQEEFFHTFNAL--HEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAI 288 (450)
T ss_pred -CCEEEEehhhhhcCCHHHHHHHHHHHHHH--HHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHH
Confidence 347889999531 111 12 22221 12355688887643 110 00 1112335789999999999999
Q ss_pred hcccCCC
Q 011431 374 SSCNSSS 380 (486)
Q Consensus 374 F~~~a~~ 380 (486)
+..++..
T Consensus 289 l~~~~~~ 295 (450)
T PRK00149 289 LKKKAEE 295 (450)
T ss_pred HHHHHHH
Confidence 9887753
No 59
>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed
Probab=92.63 E-value=0.16 Score=48.56 Aligned_cols=35 Identities=6% Similarity=-0.282 Sum_probs=27.4
Q ss_pred HHhhcCCCceeeeeeeccCccchhHHHHHHHhhhcc
Q 011431 219 SLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 219 ~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
.+........++||.|.. |.|||||++.+...+..
T Consensus 25 ~~~~~~~~~~iigi~G~~-GsGKTTl~~~L~~~l~~ 59 (229)
T PRK09270 25 ALQAEPQRRTIVGIAGPP-GAGKSTLAEFLEALLQQ 59 (229)
T ss_pred HHHhcCCCCEEEEEECCC-CCCHHHHHHHHHHHhhh
Confidence 333445678899999999 99999999998776543
No 60
>PRK07667 uridine kinase; Provisional
Probab=92.57 E-value=0.15 Score=47.39 Aligned_cols=29 Identities=10% Similarity=-0.142 Sum_probs=24.3
Q ss_pred CCCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 224 AEGYRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 224 ~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
.....+|||-|.. |.||||+|+.+...+.
T Consensus 14 ~~~~~iIgI~G~~-gsGKStla~~L~~~l~ 42 (193)
T PRK07667 14 KENRFILGIDGLS-RSGKTTFVANLKENMK 42 (193)
T ss_pred CCCCEEEEEECCC-CCCHHHHHHHHHHHHH
Confidence 3455899999999 9999999999987654
No 61
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=92.51 E-value=0.17 Score=55.06 Aligned_cols=133 Identities=11% Similarity=-0.004 Sum_probs=73.3
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccC
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTT 307 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~t 307 (486)
.-+-|||-. |.|||-|++++.+.....+....+..+... .+...+...+.+ +....+++.+..
T Consensus 315 NpL~LyG~s-GsGKTHLL~AIa~~a~~~~~g~~V~Yitae----ef~~el~~al~~-----------~~~~~f~~~y~~- 377 (617)
T PRK14086 315 NPLFIYGES-GLGKTHLLHAIGHYARRLYPGTRVRYVSSE----EFTNEFINSIRD-----------GKGDSFRRRYRE- 377 (617)
T ss_pred CcEEEECCC-CCCHHHHHHHHHHHHHHhCCCCeEEEeeHH----HHHHHHHHHHHh-----------ccHHHHHHHhhc-
Confidence 346689988 999999999999987654433323333221 122223222221 000112223333
Q ss_pred cceeeceecccCH---HHHH----HHhcCCCCCCCCCEEEeeCCcc--c---cccc--cccCCCceEecCCCCCchhhhh
Q 011431 308 SAAHPYVEDVIDD---AYME----DITDDSSPSLNLSRINSTSRFE--Q---LWPE--TISATDTCTEDVTVDNSPSLNL 373 (486)
Q Consensus 308 Kr~LlVLDDVw~~---~~~~----~l~~~~~~~~~GSrIIiTTR~~--~---V~~~--~~~~~~~~y~v~~L~~~es~~L 373 (486)
--+|++||+... ..|. .+.+.. ...|..|||||+.- + +... .......+++++.++.+.-..+
T Consensus 378 -~DLLlIDDIq~l~gke~tqeeLF~l~N~l--~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aI 454 (617)
T PRK14086 378 -MDILLVDDIQFLEDKESTQEEFFHTFNTL--HNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAI 454 (617)
T ss_pred -CCEEEEehhccccCCHHHHHHHHHHHHHH--HhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHH
Confidence 246888998632 2222 222221 23366788888752 1 1110 1122346899999999999999
Q ss_pred hcccCCC
Q 011431 374 SSCNSSS 380 (486)
Q Consensus 374 F~~~a~~ 380 (486)
+.++|..
T Consensus 455 L~kka~~ 461 (617)
T PRK14086 455 LRKKAVQ 461 (617)
T ss_pred HHHHHHh
Confidence 9888765
No 62
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=92.38 E-value=0.12 Score=54.64 Aligned_cols=134 Identities=10% Similarity=0.002 Sum_probs=71.5
Q ss_pred eeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccCc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTTS 308 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~tK 308 (486)
-+-|+|-. |.|||.|++++.+.+........+..+.. . .+...+...+..... .. ..+++.++.
T Consensus 143 pl~i~G~~-G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~-~---~f~~~~~~~l~~~~~--------~~-~~~~~~~~~-- 206 (450)
T PRK14087 143 PLFIYGES-GMGKTHLLKAAKNYIESNFSDLKVSYMSG-D---EFARKAVDILQKTHK--------EI-EQFKNEICQ-- 206 (450)
T ss_pred ceEEECCC-CCcHHHHHHHHHHHHHHhCCCCeEEEEEH-H---HHHHHHHHHHHHhhh--------HH-HHHHHHhcc--
Confidence 35588988 99999999999987654332222233222 1 223333333321000 01 112223332
Q ss_pred ceeeceecccCH---HHH-HHH---hcCCCCCCCCCEEEeeCCccc-ccc---c---cccCCCceEecCCCCCchhhhhh
Q 011431 309 AAHPYVEDVIDD---AYM-EDI---TDDSSPSLNLSRINSTSRFEQ-LWP---E---TISATDTCTEDVTVDNSPSLNLS 374 (486)
Q Consensus 309 r~LlVLDDVw~~---~~~-~~l---~~~~~~~~~GSrIIiTTR~~~-V~~---~---~~~~~~~~y~v~~L~~~es~~LF 374 (486)
--+|++||+... ..+ +.+ .+.. ...|..||+|+...- .+. . .......+.++++++.++-..++
T Consensus 207 ~dvLiIDDiq~l~~k~~~~e~lf~l~N~~--~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL 284 (450)
T PRK14087 207 NDVLIIDDVQFLSYKEKTNEIFFTIFNNF--IENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAII 284 (450)
T ss_pred CCEEEEeccccccCCHHHHHHHHHHHHHH--HHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHH
Confidence 347889998531 222 222 2322 234667888865321 110 0 01123457889999999999999
Q ss_pred cccCCC
Q 011431 375 SCNSSS 380 (486)
Q Consensus 375 ~~~a~~ 380 (486)
.+++-.
T Consensus 285 ~~~~~~ 290 (450)
T PRK14087 285 KKEIKN 290 (450)
T ss_pred HHHHHh
Confidence 887754
No 63
>PRK04195 replication factor C large subunit; Provisional
Probab=92.33 E-value=0.88 Score=48.70 Aligned_cols=25 Identities=0% Similarity=-0.180 Sum_probs=21.8
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhh
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+.+=++|.. |+||||+|+++.+.+
T Consensus 39 ~~~lLL~Gpp-G~GKTtla~ala~el 63 (482)
T PRK04195 39 KKALLLYGPP-GVGKTSLAHALANDY 63 (482)
T ss_pred CCeEEEECCC-CCCHHHHHHHHHHHc
Confidence 5567789999 999999999998876
No 64
>PRK07261 topology modulation protein; Provisional
Probab=92.16 E-value=0.092 Score=47.92 Aligned_cols=23 Identities=0% Similarity=-0.253 Sum_probs=19.7
Q ss_pred eeeeeeccCccchhHHHHHHHhhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.|.|+|++ |.||||||+.+-...
T Consensus 2 ri~i~G~~-GsGKSTla~~l~~~~ 24 (171)
T PRK07261 2 KIAIIGYS-GSGKSTLARKLSQHY 24 (171)
T ss_pred EEEEEcCC-CCCHHHHHHHHHHHh
Confidence 47899999 999999999986553
No 65
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=92.04 E-value=0.11 Score=44.08 Aligned_cols=22 Identities=5% Similarity=-0.194 Sum_probs=19.3
Q ss_pred eeeeeccCccchhHHHHHHHhhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
|+|.|.. |.||||||+.+..++
T Consensus 1 I~i~G~~-GsGKtTia~~L~~~~ 22 (129)
T PF13238_consen 1 IGISGIP-GSGKTTIAKELAERL 22 (129)
T ss_dssp EEEEEST-TSSHHHHHHHHHHHH
T ss_pred CEEECCC-CCCHHHHHHHHHHHH
Confidence 5788999 999999999997765
No 66
>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=92.03 E-value=0.27 Score=48.06 Aligned_cols=25 Identities=4% Similarity=-0.456 Sum_probs=20.0
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhh
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
..-+-++|-. |.||||+|+.+.+.+
T Consensus 42 ~~~vll~Gpp-GtGKTtlA~~ia~~l 66 (261)
T TIGR02881 42 VLHMIFKGNP-GTGKTTVARILGKLF 66 (261)
T ss_pred cceEEEEcCC-CCCHHHHHHHHHHHH
Confidence 3445578998 999999999997754
No 67
>PRK06696 uridine kinase; Validated
Probab=91.99 E-value=0.21 Score=47.60 Aligned_cols=29 Identities=0% Similarity=-0.254 Sum_probs=24.9
Q ss_pred CCCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 224 AEGYRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 224 ~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
..+..+|+|-|.+ |.||||||+.+-..+.
T Consensus 19 ~~~~~iI~I~G~s-gsGKSTlA~~L~~~l~ 47 (223)
T PRK06696 19 LTRPLRVAIDGIT-ASGKTTFADELAEEIK 47 (223)
T ss_pred CCCceEEEEECCC-CCCHHHHHHHHHHHHH
Confidence 4567899999999 9999999999977663
No 68
>PRK05480 uridine/cytidine kinase; Provisional
Probab=91.93 E-value=0.13 Score=48.36 Aligned_cols=27 Identities=7% Similarity=-0.293 Sum_probs=23.8
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhhh
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
....+|+|.|.. |.|||||++.+...+
T Consensus 4 ~~~~iI~I~G~s-GsGKTTl~~~l~~~l 30 (209)
T PRK05480 4 KKPIIIGIAGGS-GSGKTTVASTIYEEL 30 (209)
T ss_pred CCCEEEEEECCC-CCCHHHHHHHHHHHh
Confidence 356799999999 999999999998765
No 69
>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=91.89 E-value=1.3 Score=40.82 Aligned_cols=69 Identities=10% Similarity=-0.008 Sum_probs=39.3
Q ss_pred cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCcc-ccccccccCCCceEecCCCCCchhhhhhccc
Q 011431 308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFE-QLWPETISATDTCTEDVTVDNSPSLNLSSCN 377 (486)
Q Consensus 308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~-~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~ 377 (486)
.+.++|+|++.. ....+.++...-+..+.+.+|++|++. .+... .......+++.+++.++..+....+
T Consensus 96 ~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~-i~sr~~~~~~~~~~~~~~~~~l~~~ 167 (188)
T TIGR00678 96 GRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPT-IRSRCQVLPFPPLSEEALLQWLIRQ 167 (188)
T ss_pred CeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHH-HHhhcEEeeCCCCCHHHHHHHHHHc
Confidence 456788998764 333444553211123456677766654 33211 1112357899999999887776654
No 70
>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2.7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....
Probab=91.82 E-value=0.13 Score=47.82 Aligned_cols=25 Identities=4% Similarity=-0.306 Sum_probs=22.0
Q ss_pred eeeeeeccCccchhHHHHHHHhhhcc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
+|||.|.+ |.||||+|+.+...+..
T Consensus 1 IIgI~G~s-gSGKTTla~~L~~~L~~ 25 (194)
T PF00485_consen 1 IIGIAGPS-GSGKTTLAKRLAQILNK 25 (194)
T ss_dssp EEEEEEST-TSSHHHHHHHHHHHHTT
T ss_pred CEEEECCC-CCCHHHHHHHHHHHhCc
Confidence 68999999 99999999999877653
No 71
>PRK12377 putative replication protein; Provisional
Probab=91.79 E-value=0.3 Score=47.39 Aligned_cols=27 Identities=4% Similarity=-0.164 Sum_probs=22.3
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDN 255 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~ 255 (486)
.-+-++|-. |.|||.||.++.+.+..+
T Consensus 102 ~~l~l~G~~-GtGKThLa~AIa~~l~~~ 128 (248)
T PRK12377 102 TNFVFSGKP-GTGKNHLAAAIGNRLLAK 128 (248)
T ss_pred CeEEEECCC-CCCHHHHHHHHHHHHHHc
Confidence 456688888 999999999999987644
No 72
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=91.76 E-value=0.97 Score=48.55 Aligned_cols=72 Identities=6% Similarity=-0.051 Sum_probs=44.2
Q ss_pred cceeeceecccC--HHHHHHHhcCCCCCCCCCEEE-eeCCccccccccccCCCceEecCCCCCchhhhhhcccCCC
Q 011431 308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRIN-STSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSSS 380 (486)
Q Consensus 308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrII-iTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~~ 380 (486)
++.++++|+++. ...+..++...-+....+++| .||+...+... .......+++++++.++....+...+..
T Consensus 128 ~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~t-I~SRc~~~ef~~ls~~el~~~L~~i~~~ 202 (507)
T PRK06645 128 KHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPAT-IISRCQRYDLRRLSFEEIFKLLEYITKQ 202 (507)
T ss_pred CcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHH-HHhcceEEEccCCCHHHHHHHHHHHHHH
Confidence 567899999985 445666663221122345554 45555555421 1112347899999999999888766543
No 73
>PRK10671 copA copper exporting ATPase; Provisional
Probab=91.73 E-value=0.36 Score=55.33 Aligned_cols=63 Identities=5% Similarity=0.043 Sum_probs=54.3
Q ss_pred eeeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEeecCCCeEEEEeeccCHHHHHHHhhccc-ceeEEe
Q 011431 383 KEAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISFDFKVKKMTVVGDNFDVLSAGTKLNGLC-RTELVS 450 (486)
Q Consensus 383 ~~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~d~~~~~~~V~G~~~d~~~~~~~l~k~~-~~~~~~ 450 (486)
+++.++|. |+|..|. ..+.+.+.+.+||.++.+|.+ +.+|.+. .++..+...+++.| .+++.+
T Consensus 3 ~~~~l~V~gmtC~~C~--~~i~~al~~~~gv~~v~v~~~--~~~v~~~-~~~~~i~~~i~~~Gy~~~~~~ 67 (834)
T PRK10671 3 QTIDLTLDGLSCGHCV--KRVKESLEQRPDVEQADVSIT--EAHVTGT-ASAEALIETIKQAGYDASVSH 67 (834)
T ss_pred eEEEEEECCcccHHHH--HHHHHHHhcCCCcceEEEeee--EEEEEec-CCHHHHHHHHHhcCCcccccc
Confidence 46677774 9999999 999999999999999999984 6677787 89999999999988 677765
No 74
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=91.68 E-value=0.42 Score=49.66 Aligned_cols=46 Identities=13% Similarity=0.069 Sum_probs=31.7
Q ss_pred CCCEEEeeCCcccccccccc---CCCceEecCCCCCchhhhhhcccCCC
Q 011431 335 NLSRINSTSRFEQLWPETIS---ATDTCTEDVTVDNSPSLNLSSCNSSS 380 (486)
Q Consensus 335 ~GSrIIiTTR~~~V~~~~~~---~~~~~y~v~~L~~~es~~LF~~~a~~ 380 (486)
.+.+||.||...+.+..... .-+..++++..+.++-.++|..++..
T Consensus 269 ~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~ 317 (389)
T PRK03992 269 GNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRK 317 (389)
T ss_pred CCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhcc
Confidence 35678888876554422111 23567899999999999999987654
No 75
>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=91.38 E-value=0.53 Score=49.30 Aligned_cols=25 Identities=8% Similarity=-0.332 Sum_probs=20.5
Q ss_pred CceeeeeeeccCccchhHHHHHHHhh
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
...+|.++|.. |+||||++..+-..
T Consensus 99 ~~~vi~lvG~~-GvGKTTtaaKLA~~ 123 (429)
T TIGR01425 99 KQNVIMFVGLQ-GSGKTTTCTKLAYY 123 (429)
T ss_pred CCeEEEEECCC-CCCHHHHHHHHHHH
Confidence 36799999999 99999988776443
No 76
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.19 E-value=1.4 Score=50.13 Aligned_cols=70 Identities=4% Similarity=-0.115 Sum_probs=41.4
Q ss_pred cceeeceeccc--CHHHHHHHhcCCCCCCCCCEEEeeCCc-cccccccccCCCceEecCCCCCchhhhhhcccC
Q 011431 308 SAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRINSTSRF-EQLWPETISATDTCTEDVTVDNSPSLNLSSCNS 378 (486)
Q Consensus 308 Kr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrIIiTTR~-~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a 378 (486)
++.++|+|++. +......|+...-+.....++|++|.+ ..+.. ........|++++|+.++-...+.+.+
T Consensus 119 k~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~-TIlSRCq~f~fkpLs~eEI~~~L~~il 191 (944)
T PRK14949 119 RFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPV-TVLSRCLQFNLKSLTQDEIGTQLNHIL 191 (944)
T ss_pred CcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchH-HHHHhheEEeCCCCCHHHHHHHHHHHH
Confidence 67789999886 445566655322112234565555544 44431 111123579999999999887776543
No 77
>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=91.10 E-value=0.81 Score=47.67 Aligned_cols=65 Identities=14% Similarity=0.054 Sum_probs=47.3
Q ss_pred cceeeceecccCHHHHHHHhcCCCCCCCCCEEEeeCCccccccccc----cCCCceEecCCCCCchhhhh
Q 011431 308 SAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETI----SATDTCTEDVTVDNSPSLNL 373 (486)
Q Consensus 308 Kr~LlVLDDVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~----~~~~~~y~v~~L~~~es~~L 373 (486)
++..|+||-|-....|........+.++. +|+||+-+-.++.... .+-...+++-||+..|-..+
T Consensus 94 ~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~ 162 (398)
T COG1373 94 EKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKL 162 (398)
T ss_pred CCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhh
Confidence 46899999999999998766444344555 8999998877764321 23345789999999998763
No 78
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.09 E-value=1.1 Score=49.26 Aligned_cols=70 Identities=4% Similarity=-0.105 Sum_probs=39.3
Q ss_pred cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEe-eCCccccccccccCCCceEecCCCCCchhhhhhcccC
Q 011431 308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINS-TSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNS 378 (486)
Q Consensus 308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIi-TTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a 378 (486)
+..++++|++.. ......++...-+--...++|+ ||....++.. .......|+++.|+.++-...+.+.+
T Consensus 124 ~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~T-IlSRc~~~~f~~Ls~eei~~~L~~i~ 196 (618)
T PRK14951 124 RFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVT-VLSRCLQFNLRPMAPETVLEHLTQVL 196 (618)
T ss_pred CceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhHH-HHHhceeeecCCCCHHHHHHHHHHHH
Confidence 566889999883 4455555532211123445554 4444444421 11123578999999988776665543
No 79
>PRK08233 hypothetical protein; Provisional
Probab=91.08 E-value=0.16 Score=46.26 Aligned_cols=25 Identities=8% Similarity=-0.093 Sum_probs=21.8
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhh
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
..+|+|-|.. |.||||||+.+...+
T Consensus 3 ~~iI~I~G~~-GsGKtTla~~L~~~l 27 (182)
T PRK08233 3 TKIITIAAVS-GGGKTTLTERLTHKL 27 (182)
T ss_pred ceEEEEECCC-CCCHHHHHHHHHhhC
Confidence 4688999999 999999999997765
No 80
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=90.83 E-value=0.57 Score=50.19 Aligned_cols=45 Identities=13% Similarity=0.019 Sum_probs=30.5
Q ss_pred CCCEEEeeCCccccccccc---cCCCceEecCCCCCchhhhhhcccCC
Q 011431 335 NLSRINSTSRFEQLWPETI---SATDTCTEDVTVDNSPSLNLSSCNSS 379 (486)
Q Consensus 335 ~GSrIIiTTR~~~V~~~~~---~~~~~~y~v~~L~~~es~~LF~~~a~ 379 (486)
.+..||.||-..+.+.... ..-+..++++..+.++..++|..+..
T Consensus 332 ~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~ 379 (512)
T TIGR03689 332 DNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLT 379 (512)
T ss_pred CceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhh
Confidence 3556677775555542211 12356789999999999999988754
No 81
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.77 E-value=1.2 Score=48.83 Aligned_cols=70 Identities=4% Similarity=-0.095 Sum_probs=40.9
Q ss_pred cceeeceecccC--HHHHHHHhcCCCCCCCCCE-EEeeCCccccccccccCCCceEecCCCCCchhhhhhcccC
Q 011431 308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSR-INSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNS 378 (486)
Q Consensus 308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSr-IIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a 378 (486)
+..++|+|++.. ....+.|+...-+-....+ |++||....|+.. ...-...|+++.|+.++..+.+.+.+
T Consensus 124 r~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpT-IrSRCq~f~f~~ls~eei~~~L~~Il 196 (700)
T PRK12323 124 RFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVT-VLSRCLQFNLKQMPPGHIVSHLDAIL 196 (700)
T ss_pred CceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhH-HHHHHHhcccCCCChHHHHHHHHHHH
Confidence 567899999873 4556666632211123444 5566655556421 11112468999999998877766443
No 82
>PRK06921 hypothetical protein; Provisional
Probab=90.71 E-value=0.24 Score=48.64 Aligned_cols=27 Identities=19% Similarity=0.041 Sum_probs=22.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDN 255 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~ 255 (486)
.-+-++|-. |.|||.||.++.+.+..+
T Consensus 118 ~~l~l~G~~-G~GKThLa~aia~~l~~~ 144 (266)
T PRK06921 118 NSIALLGQP-GSGKTHLLTAAANELMRK 144 (266)
T ss_pred CeEEEECCC-CCcHHHHHHHHHHHHhhh
Confidence 446688888 999999999998877544
No 83
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=90.64 E-value=2 Score=42.84 Aligned_cols=132 Identities=3% Similarity=-0.040 Sum_probs=63.4
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhhccc-cccceEEEEee--eccHHHHHHHHhhhhcccccccccccccccccccccc
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQLMDN-YENSDVTLAKF--EGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPR 303 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~-F~~~~~~~v~~--~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~ 303 (486)
...+-++|-. |.||||+++.+.+.+... +... +..... ......++..+.. +.. . .+ .
T Consensus 38 ~~~~ll~G~~-G~GKt~~~~~l~~~l~~~~~~~~-~i~~~~~~~~~~~~~~~~i~~-~~~------~----~~------~ 98 (319)
T PRK00440 38 MPHLLFAGPP-GTGKTTAALALARELYGEDWREN-FLELNASDERGIDVIRNKIKE-FAR------T----AP------V 98 (319)
T ss_pred CCeEEEECCC-CCCHHHHHHHHHHHHcCCccccc-eEEeccccccchHHHHHHHHH-HHh------c----CC------C
Confidence 3345689999 999999999998876432 2111 111110 1111111211111 110 0 00 0
Q ss_pred cccCcceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCc-cccccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431 304 PQTTSAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRF-EQLWPETISATDTCTEDVTVDNSPSLNLSSCNSS 379 (486)
Q Consensus 304 L~~tKr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~-~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~ 379 (486)
-.. .+.+|++|++.. ......+....-.....+++|+|+.. ..+... .......+++++++.++........+.
T Consensus 99 ~~~-~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~-l~sr~~~~~~~~l~~~ei~~~l~~~~~ 175 (319)
T PRK00440 99 GGA-PFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDP-IQSRCAVFRFSPLKKEAVAERLRYIAE 175 (319)
T ss_pred CCC-CceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchh-HHHHhheeeeCCCCHHHHHHHHHHHHH
Confidence 001 345788898753 22233333111012234677776643 223211 011123678999999888777766554
No 84
>TIGR00235 udk uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below
Probab=90.43 E-value=0.2 Score=47.10 Aligned_cols=27 Identities=11% Similarity=-0.372 Sum_probs=22.9
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
.-.+|+|.|.. |.|||||++.+...+.
T Consensus 5 ~g~vi~I~G~s-GsGKSTl~~~l~~~l~ 31 (207)
T TIGR00235 5 KGIIIGIGGGS-GSGKTTVARKIYEQLG 31 (207)
T ss_pred CeEEEEEECCC-CCCHHHHHHHHHHHhc
Confidence 34689999999 9999999999977543
No 85
>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]
Probab=90.29 E-value=0.24 Score=46.81 Aligned_cols=30 Identities=13% Similarity=-0.276 Sum_probs=25.5
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhhhccc
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQLMDN 255 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~ 255 (486)
+.+.+|||-|-+ |-||||+|+.+++.+..+
T Consensus 6 ~~~iiIgIaG~S-gSGKTTva~~l~~~~~~~ 35 (218)
T COG0572 6 EKVIIIGIAGGS-GSGKTTVAKELSEQLGVE 35 (218)
T ss_pred CceEEEEEeCCC-CCCHHHHHHHHHHHhCcC
Confidence 356789999998 999999999999887644
No 86
>cd01858 NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.
Probab=90.25 E-value=2.2 Score=37.93 Aligned_cols=22 Identities=5% Similarity=-0.229 Sum_probs=19.1
Q ss_pred eeeeeeeccCccchhHHHHHHHh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
..++++|+. |+||+||...+..
T Consensus 103 ~~v~~~G~~-nvGKStliN~l~~ 124 (157)
T cd01858 103 ISVGFIGYP-NVGKSSIINTLRS 124 (157)
T ss_pred eEEEEEeCC-CCChHHHHHHHhc
Confidence 457799999 9999999998865
No 87
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.93 E-value=1.9 Score=46.77 Aligned_cols=67 Identities=4% Similarity=-0.006 Sum_probs=35.3
Q ss_pred cceeeceeccc--CHHHHHHHhcCCCCCCCCCEEE-eeCCccccccccccCCCceEecCCCCCchhhhhhc
Q 011431 308 SAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRIN-STSRFEQLWPETISATDTCTEDVTVDNSPSLNLSS 375 (486)
Q Consensus 308 Kr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrII-iTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~ 375 (486)
++.++++|++. +......++...-+....+++| +||....++.. ......++++++|+.++-...+.
T Consensus 119 ~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~kil~t-I~SRc~~~~f~~Ls~~eI~~~L~ 188 (546)
T PRK14957 119 RYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVT-ILSRCIQLHLKHISQADIKDQLK 188 (546)
T ss_pred CcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChhhhhhh-HHHheeeEEeCCCCHHHHHHHHH
Confidence 56689999986 3444555553221112355555 45544444311 11123568888888777554444
No 88
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.81 E-value=1.8 Score=46.23 Aligned_cols=69 Identities=9% Similarity=-0.034 Sum_probs=37.3
Q ss_pred cceeeceecccCH--HHHHHHhcCCCCCCC-CCEEEe-eCCccccccccccCCCceEecCCCCCchhhhhhcccC
Q 011431 308 SAAHPYVEDVIDD--AYMEDITDDSSPSLN-LSRINS-TSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNS 378 (486)
Q Consensus 308 Kr~LlVLDDVw~~--~~~~~l~~~~~~~~~-GSrIIi-TTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a 378 (486)
++.+|++|++..- .....++... +..+ ...+|+ ||....+... ......++++++|+.++-...+...+
T Consensus 117 ~~kVvIIDE~h~Lt~~a~~~LLk~L-E~p~~~vv~Ilattn~~kl~~~-L~SR~~vv~f~~l~~~el~~~L~~i~ 189 (472)
T PRK14962 117 KYKVYIIDEVHMLTKEAFNALLKTL-EEPPSHVVFVLATTNLEKVPPT-IISRCQVIEFRNISDELIIKRLQEVA 189 (472)
T ss_pred CeEEEEEEChHHhHHHHHHHHHHHH-HhCCCcEEEEEEeCChHhhhHH-HhcCcEEEEECCccHHHHHHHHHHHH
Confidence 4668899998642 3344444322 1222 344444 4433344211 11123578999999998777766544
No 89
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=89.73 E-value=0.36 Score=43.82 Aligned_cols=41 Identities=12% Similarity=0.061 Sum_probs=25.2
Q ss_pred HHHHHHHh--hcCCCceeeeeeeccCccchhHHHHHHHhhhccc
Q 011431 214 LDEVLSLL--RNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDN 255 (486)
Q Consensus 214 l~~v~~ll--~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~ 255 (486)
++.+...+ ......+.+-|.|.. |+|||+|++.++.++...
T Consensus 9 ~~~l~~~l~~~~~~~~~~~ll~G~~-G~GKT~ll~~~~~~~~~~ 51 (185)
T PF13191_consen 9 IERLRDLLDAAQSGSPRNLLLTGES-GSGKTSLLRALLDRLAER 51 (185)
T ss_dssp HHHHHHTTGGTSS-----EEE-B-T-TSSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCCcEEEEECCC-CCCHHHHHHHHHHHHHhc
Confidence 34444544 223455778899999 999999999998877665
No 90
>PTZ00301 uridine kinase; Provisional
Probab=89.65 E-value=0.37 Score=45.61 Aligned_cols=29 Identities=17% Similarity=-0.059 Sum_probs=23.5
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhhcccc
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNY 256 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F 256 (486)
..+|||-|-. |-||||||+.+.+++...+
T Consensus 3 ~~iIgIaG~S-gSGKTTla~~l~~~l~~~~ 31 (210)
T PTZ00301 3 CTVIGISGAS-GSGKSSLSTNIVSELMAHC 31 (210)
T ss_pred CEEEEEECCC-cCCHHHHHHHHHHHHHhhc
Confidence 3688999998 9999999999877764433
No 91
>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=89.30 E-value=1.1 Score=44.23 Aligned_cols=27 Identities=4% Similarity=-0.144 Sum_probs=21.9
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhhh
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
...+++.++|.+ |.||||++.++-..+
T Consensus 70 ~~~~vi~l~G~~-G~GKTTt~akLA~~l 96 (272)
T TIGR00064 70 NKPNVILFVGVN-GVGKTTTIAKLANKL 96 (272)
T ss_pred CCCeEEEEECCC-CCcHHHHHHHHHHHH
Confidence 456899999999 999999887775544
No 92
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=89.24 E-value=1.7 Score=43.91 Aligned_cols=27 Identities=4% Similarity=-0.217 Sum_probs=22.6
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
+..+++++|.. |.||||++.++-..+.
T Consensus 113 ~~~vi~lvGpn-GsGKTTt~~kLA~~l~ 139 (318)
T PRK10416 113 KPFVILVVGVN-GVGKTTTIGKLAHKYK 139 (318)
T ss_pred CCeEEEEECCC-CCcHHHHHHHHHHHHH
Confidence 46899999999 9999999988866544
No 93
>PRK06835 DNA replication protein DnaC; Validated
Probab=89.22 E-value=0.6 Score=47.29 Aligned_cols=26 Identities=8% Similarity=-0.081 Sum_probs=21.6
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhcc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
.-+-++|-. |.|||.||.++-+.+..
T Consensus 184 ~~Lll~G~~-GtGKThLa~aIa~~l~~ 209 (329)
T PRK06835 184 ENLLFYGNT-GTGKTFLSNCIAKELLD 209 (329)
T ss_pred CcEEEECCC-CCcHHHHHHHHHHHHHH
Confidence 456789988 99999999999887644
No 94
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=89.03 E-value=0.45 Score=42.76 Aligned_cols=30 Identities=7% Similarity=-0.109 Sum_probs=24.9
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhhccc-cc
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQLMDN-YE 257 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~-F~ 257 (486)
..-|+|-||. |+||||+++.+-+.+... |.
T Consensus 5 ~mki~ITG~P-GvGKtTl~~ki~e~L~~~g~k 35 (179)
T COG1618 5 AMKIFITGRP-GVGKTTLVLKIAEKLREKGYK 35 (179)
T ss_pred ceEEEEeCCC-CccHHHHHHHHHHHHHhcCce
Confidence 3457899999 999999999998887765 44
No 95
>PRK06762 hypothetical protein; Provisional
Probab=88.38 E-value=0.36 Score=43.40 Aligned_cols=24 Identities=4% Similarity=-0.266 Sum_probs=21.1
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
++|.|.|+. |.||||+|+.+.+.+
T Consensus 3 ~li~i~G~~-GsGKST~A~~L~~~l 26 (166)
T PRK06762 3 TLIIIRGNS-GSGKTTIAKQLQERL 26 (166)
T ss_pred eEEEEECCC-CCCHHHHHHHHHHHh
Confidence 578899999 999999999997765
No 96
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.11 E-value=3.2 Score=42.59 Aligned_cols=70 Identities=6% Similarity=-0.083 Sum_probs=37.1
Q ss_pred cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeC-CccccccccccCCCceEecCCCCCchhhhhhcccC
Q 011431 308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTS-RFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNS 378 (486)
Q Consensus 308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTT-R~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a 378 (486)
++.+|++|++.. ...+..++...-+......+|++| +...+... ......+++.++++.++-...+...|
T Consensus 108 ~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~-l~sr~~~v~~~~~~~~~l~~~l~~~~ 180 (367)
T PRK14970 108 KYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPT-ILSRCQIFDFKRITIKDIKEHLAGIA 180 (367)
T ss_pred CcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHH-HHhcceeEecCCccHHHHHHHHHHHH
Confidence 345788998753 333444442110112345555544 44444321 11123478999999888877776544
No 97
>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=87.98 E-value=0.61 Score=46.25 Aligned_cols=24 Identities=4% Similarity=-0.082 Sum_probs=19.3
Q ss_pred CceEecCCCCCchhhhhhcccCCC
Q 011431 357 DTCTEDVTVDNSPSLNLSSCNSSS 380 (486)
Q Consensus 357 ~~~y~v~~L~~~es~~LF~~~a~~ 380 (486)
...+++++|+.+|-..||...+-.
T Consensus 187 ~~~i~fp~l~~edl~~I~~~~l~~ 210 (284)
T TIGR02880 187 AHHVDFPDYSEAELLVIAGLMLKE 210 (284)
T ss_pred CcEEEeCCcCHHHHHHHHHHHHHH
Confidence 346899999999999998876543
No 98
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=87.97 E-value=1.4 Score=35.01 Aligned_cols=67 Identities=18% Similarity=0.269 Sum_probs=50.7
Q ss_pred ceEEecccCccCcChHHHHHHHHhcCCCeEEEeCCc-CCCCCchHHHHHHHhhccceEEEeecccccCh
Q 011431 23 DVFVTFSGEDIRENFGSYLFAALFRESVKTFRDEQI-RRGDEIMPALLQAIEESKISLVIFSKRFAFSR 90 (486)
Q Consensus 23 dVFis~~~~D~~~~f~~~L~~~L~~~gi~~~~d~~~-~~g~~i~~~i~~~I~~s~~~ivv~S~~y~~S~ 90 (486)
.||||-.-.|.. .--..|.+++.+.|..+..-+.+ ..+....+.+.+.|++|++.|.++-.+|-..+
T Consensus 1 rVFiSSt~~Dl~-~eR~~l~~~i~~~~~~~~~~e~~~a~~~~~~~~cl~~v~~cDifI~ilG~rYG~~~ 68 (83)
T PF13271_consen 1 RVFISSTFRDLK-EERDALIEAIRRLGCEPVGMEFFPASDQSPLEICLKEVDECDIFILILGNRYGSVP 68 (83)
T ss_pred CEEEecChhhHH-HHHHHHHHHHHHCCCeeeeeeeecCCCCCHHHHHHHHHhhCCEEEEeeccccCCCC
Confidence 489998878863 45568888888888765443312 33666777999999999999999999997643
No 99
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=87.73 E-value=1.8 Score=49.07 Aligned_cols=27 Identities=4% Similarity=-0.188 Sum_probs=22.6
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
.-.++-|+|.. |.|||+.++.|.+++.
T Consensus 780 pnnvLYIyG~P-GTGKTATVK~VLrELq 806 (1164)
T PTZ00112 780 SNQILYISGMP-GTGKTATVYSVIQLLQ 806 (1164)
T ss_pred CCceEEEECCC-CCCHHHHHHHHHHHHH
Confidence 33566799999 9999999999988764
No 100
>PRK05541 adenylylsulfate kinase; Provisional
Probab=87.51 E-value=0.51 Score=42.97 Aligned_cols=30 Identities=10% Similarity=-0.161 Sum_probs=24.9
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhhccccc
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNYE 257 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~ 257 (486)
..+|.+.|+- |.||||+|+.+++.+...+.
T Consensus 7 ~~~I~i~G~~-GsGKst~a~~l~~~l~~~~~ 36 (176)
T PRK05541 7 GYVIWITGLA-GSGKTTIAKALYERLKLKYS 36 (176)
T ss_pred CCEEEEEcCC-CCCHHHHHHHHHHHHHHcCC
Confidence 3478899999 99999999999988765543
No 101
>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=87.45 E-value=0.38 Score=44.70 Aligned_cols=23 Identities=13% Similarity=-0.208 Sum_probs=20.0
Q ss_pred eeeeeeccCccchhHHHHHHHhhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
+|||.|.. |.|||||++.+.+.+
T Consensus 1 iigi~G~~-GsGKSTl~~~l~~~l 23 (198)
T cd02023 1 IIGIAGGS-GSGKTTVAEEIIEQL 23 (198)
T ss_pred CEEEECCC-CCCHHHHHHHHHHHh
Confidence 57899999 999999999987654
No 102
>PRK03839 putative kinase; Provisional
Probab=87.43 E-value=0.44 Score=43.53 Aligned_cols=24 Identities=8% Similarity=-0.327 Sum_probs=20.6
Q ss_pred eeeeeeccCccchhHHHHHHHhhhc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
.|-|.||. |.||||+++.+.+++.
T Consensus 2 ~I~l~G~p-GsGKsT~~~~La~~~~ 25 (180)
T PRK03839 2 IIAITGTP-GVGKTTVSKLLAEKLG 25 (180)
T ss_pred EEEEECCC-CCCHHHHHHHHHHHhC
Confidence 36789999 9999999999988764
No 103
>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+). This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.
Probab=87.16 E-value=0.4 Score=44.43 Aligned_cols=23 Identities=4% Similarity=-0.318 Sum_probs=20.2
Q ss_pred eeeeeeccCccchhHHHHHHHhhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
+|+|.|.. |.||||||+.+...+
T Consensus 1 ii~i~G~s-gsGKTtla~~l~~~~ 23 (187)
T cd02024 1 IVGISGVT-NSGKTTLAKLLQRIL 23 (187)
T ss_pred CEEEECCC-CCCHHHHHHHHHHHc
Confidence 57888988 999999999998765
No 104
>cd01857 HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.
Probab=87.03 E-value=4.2 Score=35.46 Aligned_cols=51 Identities=18% Similarity=0.118 Sum_probs=31.7
Q ss_pred HHHHHHHhhccceEEEeecccccChhhHHHHHHHHHHhcCCCEEEEEEeeec
Q 011431 66 PALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIECNKLYQTVIPVFYKVL 117 (486)
Q Consensus 66 ~~i~~~I~~s~~~ivv~S~~y~~S~wcl~El~~i~~~~~~~~~v~Pify~v~ 117 (486)
.++.++|+++++.++|++-+...+.+.. ++...+.....+..++.|+=+.+
T Consensus 3 ~~~~~~i~~aD~vl~ViD~~~p~~~~~~-~l~~~l~~~~~~k~~iivlNK~D 53 (141)
T cd01857 3 RQLWRVVERSDIVVQIVDARNPLLFRPP-DLERYVKEVDPRKKNILLLNKAD 53 (141)
T ss_pred HHHHHHHhhCCEEEEEEEccCCcccCCH-HHHHHHHhccCCCcEEEEEechh
Confidence 3678899999999999997666555532 44444443112445555554444
No 105
>PRK06547 hypothetical protein; Provisional
Probab=86.89 E-value=0.58 Score=42.74 Aligned_cols=27 Identities=4% Similarity=-0.290 Sum_probs=23.4
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhhh
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
....+|+|.|.. |.||||+|+.+-+..
T Consensus 13 ~~~~~i~i~G~~-GsGKTt~a~~l~~~~ 39 (172)
T PRK06547 13 GGMITVLIDGRS-GSGKTTLAGALAART 39 (172)
T ss_pred CCCEEEEEECCC-CCCHHHHHHHHHHHh
Confidence 467889999999 999999999997654
No 106
>PRK04040 adenylate kinase; Provisional
Probab=86.83 E-value=0.51 Score=43.76 Aligned_cols=25 Identities=12% Similarity=0.001 Sum_probs=21.8
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
++|.|.|+. |.||||+++.+.+.+.
T Consensus 3 ~~i~v~G~p-G~GKtt~~~~l~~~l~ 27 (188)
T PRK04040 3 KVVVVTGVP-GVGKTTVLNKALEKLK 27 (188)
T ss_pred eEEEEEeCC-CCCHHHHHHHHHHHhc
Confidence 578899999 9999999999977763
No 107
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.83 E-value=3.5 Score=45.52 Aligned_cols=70 Identities=6% Similarity=-0.157 Sum_probs=39.8
Q ss_pred cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCccc-cccccccCCCceEecCCCCCchhhhhhcccC
Q 011431 308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFEQ-LWPETISATDTCTEDVTVDNSPSLNLSSCNS 378 (486)
Q Consensus 308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~~-V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a 378 (486)
+..++++|++.. ......++...-+...+.++|+||.+.. +.. ........+++++|+.++-...+.+.+
T Consensus 118 k~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~-TIlSRCq~feFkpLs~eEI~k~L~~Il 190 (702)
T PRK14960 118 RFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPI-TVISRCLQFTLRPLAVDEITKHLGAIL 190 (702)
T ss_pred CcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhH-HHHHhhheeeccCCCHHHHHHHHHHHH
Confidence 567888999874 3344445421111124567777775533 221 111123578999999988777665443
No 108
>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=86.68 E-value=0.4 Score=46.19 Aligned_cols=27 Identities=4% Similarity=-0.093 Sum_probs=22.9
Q ss_pred eeeeeccCccchhHHHHHHHhhhccccc
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQLMDNYE 257 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~~~~F~ 257 (486)
+.|+|.. |-|||||+..+...+...|.
T Consensus 16 ~viIG~s-GSGKT~li~~lL~~~~~~f~ 42 (241)
T PF04665_consen 16 MVIIGKS-GSGKTTLIKSLLYYLRHKFD 42 (241)
T ss_pred EEEECCC-CCCHHHHHHHHHHhhcccCC
Confidence 3488888 99999999999988877773
No 109
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=86.68 E-value=3.8 Score=45.27 Aligned_cols=69 Identities=9% Similarity=-0.089 Sum_probs=39.1
Q ss_pred cceeeceeccc--CHHHHHHHhcCCCCCCCCCEEEe-eCCccccccccccCCCceEecCCCCCchhhhhhccc
Q 011431 308 SAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRINS-TSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCN 377 (486)
Q Consensus 308 Kr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrIIi-TTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~ 377 (486)
++..+++|++. +......|+...-+.....++|+ ||....++. ....-...|+++.|+.++....+.+.
T Consensus 119 ~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~-TI~SRC~~~~f~~Ls~~ei~~~L~~i 190 (647)
T PRK07994 119 RFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPV-TILSRCLQFHLKALDVEQIRQQLEHI 190 (647)
T ss_pred CCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccch-HHHhhheEeeCCCCCHHHHHHHHHHH
Confidence 56788999987 44455555521101123445444 554444541 11112357899999998887766543
No 110
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=86.64 E-value=0.49 Score=41.70 Aligned_cols=26 Identities=4% Similarity=-0.123 Sum_probs=22.4
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhcc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
.+|+|+|-- |.|||||++.+.+.+..
T Consensus 1 pvv~VvG~~-~sGKTTl~~~Li~~l~~ 26 (140)
T PF03205_consen 1 PVVQVVGPK-NSGKTTLIRKLINELKR 26 (140)
T ss_dssp -EEEEEEST-TSSHHHHHHHHHHHHHH
T ss_pred CEEEEECCC-CCCHHHHHHHHHHHHhH
Confidence 378999999 99999999999988754
No 111
>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=86.50 E-value=0.48 Score=38.91 Aligned_cols=24 Identities=8% Similarity=-0.238 Sum_probs=18.6
Q ss_pred eeeeeeccCccchhHHHHHHHhhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
+|++.|..||+||||++..+-..+
T Consensus 1 ~i~~~~~kgG~Gkst~~~~la~~~ 24 (104)
T cd02042 1 VIAVANQKGGVGKTTTAVNLAAAL 24 (104)
T ss_pred CEEEEeCCCCcCHHHHHHHHHHHH
Confidence 467888777999999998775543
No 112
>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.
Probab=86.48 E-value=0.45 Score=45.35 Aligned_cols=24 Identities=4% Similarity=-0.349 Sum_probs=20.8
Q ss_pred eeeeeeccCccchhHHHHHHHhhhc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
+|||.|-. |-||||||+.+...+.
T Consensus 1 IigI~G~s-GSGKTTla~~L~~~l~ 24 (220)
T cd02025 1 IIGIAGSV-AVGKSTTARVLQALLS 24 (220)
T ss_pred CEEeeCCC-CCCHHHHHHHHHHHHh
Confidence 57899998 9999999999987664
No 113
>CHL00181 cbbX CbbX; Provisional
Probab=86.47 E-value=0.98 Score=44.89 Aligned_cols=46 Identities=4% Similarity=-0.119 Sum_probs=28.1
Q ss_pred CCCEEEeeCCcccccc---cc---ccCCCceEecCCCCCchhhhhhcccCCC
Q 011431 335 NLSRINSTSRFEQLWP---ET---ISATDTCTEDVTVDNSPSLNLSSCNSSS 380 (486)
Q Consensus 335 ~GSrIIiTTR~~~V~~---~~---~~~~~~~y~v~~L~~~es~~LF~~~a~~ 380 (486)
..-+||++|-...+.. .. .......++.++++.+|-.+++...+..
T Consensus 160 ~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l~~ 211 (287)
T CHL00181 160 DDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELLQIAKIMLEE 211 (287)
T ss_pred CCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHHHHHHHHHHH
Confidence 3457777775433210 00 0012457889999999999998776543
No 114
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=86.46 E-value=4.4 Score=42.17 Aligned_cols=69 Identities=9% Similarity=-0.078 Sum_probs=39.2
Q ss_pred cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCcc-ccccccccCCCceEecCCCCCchhhhhhccc
Q 011431 308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFE-QLWPETISATDTCTEDVTVDNSPSLNLSSCN 377 (486)
Q Consensus 308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~-~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~ 377 (486)
++..+++|++.. ......++...-+...+..+|++|.+. .++. ....-...+.+++++.++..+.+...
T Consensus 117 ~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llp-TIrSRc~~i~f~~~~~~~i~~~L~~~ 188 (394)
T PRK07940 117 RWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLP-TIRSRCRHVALRTPSVEAVAEVLVRR 188 (394)
T ss_pred CcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChH-HHHhhCeEEECCCCCHHHHHHHHHHh
Confidence 455777798873 334444442111123456666655554 4442 11112357899999999998888643
No 115
>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]
Probab=86.43 E-value=0.52 Score=44.22 Aligned_cols=26 Identities=4% Similarity=-0.312 Sum_probs=22.3
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
..+|.|=||- |.||||||+.+-+++.
T Consensus 4 ~~~IvI~G~I-G~GKSTLa~~La~~l~ 29 (216)
T COG1428 4 AMVIVIEGMI-GAGKSTLAQALAEHLG 29 (216)
T ss_pred ccEEEEeccc-ccCHHHHHHHHHHHhC
Confidence 3578889999 9999999999987765
No 116
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=86.10 E-value=2.6 Score=42.84 Aligned_cols=130 Identities=5% Similarity=-0.009 Sum_probs=71.1
Q ss_pred HHhhcCCCceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeee---ccHHHHHHHHhhhhcccccccccccccc
Q 011431 219 SLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFE---GEVKKLDQRLLRFLESVDKHVASYDRYG 295 (486)
Q Consensus 219 ~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~---~~l~~lqk~ll~~L~~~d~~~~~~~~~g 295 (486)
+++++ +....+-.||-. |.||||||+.+-+.-+.+- .+.+..+ -+...+ +.++.+-.+ .
T Consensus 155 s~ieq-~~ipSmIlWGpp-G~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dv-R~ife~aq~---------~-- 216 (554)
T KOG2028|consen 155 SLIEQ-NRIPSMILWGPP-GTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDV-RDIFEQAQN---------E-- 216 (554)
T ss_pred HHHHc-CCCCceEEecCC-CCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHH-HHHHHHHHH---------H--
Confidence 34444 455556689999 9999999999976543321 1222222 222222 222221111 0
Q ss_pred cccccccccccCcceeeceeccc--CHHHHHHHhcCCCCCCCCCEEEe--eCCcccc-ccccccCCCceEecCCCCCchh
Q 011431 296 SASFEQPRPQTTSAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRINS--TSRFEQL-WPETISATDTCTEDVTVDNSPS 370 (486)
Q Consensus 296 ~~s~l~~~L~~tKr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrIIi--TTR~~~V-~~~~~~~~~~~y~v~~L~~~es 370 (486)
. .+-. ||..|.+|.|- |..|-+.++. .-.+|+-++| ||-|-.. +.........++-++.|+.++-
T Consensus 217 ~------~l~k-rkTilFiDEiHRFNksQQD~fLP---~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v 286 (554)
T KOG2028|consen 217 K------SLTK-RKTILFIDEIHRFNKSQQDTFLP---HVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAV 286 (554)
T ss_pred H------hhhc-ceeEEEeHHhhhhhhhhhhcccc---eeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHH
Confidence 0 1122 67788888875 3444444443 2345776666 6665443 1111112335788999999887
Q ss_pred hhhhcc
Q 011431 371 LNLSSC 376 (486)
Q Consensus 371 ~~LF~~ 376 (486)
-.++.+
T Consensus 287 ~~iL~r 292 (554)
T KOG2028|consen 287 VTILMR 292 (554)
T ss_pred HHHHHH
Confidence 777765
No 117
>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=86.03 E-value=0.8 Score=43.59 Aligned_cols=32 Identities=9% Similarity=-0.030 Sum_probs=23.0
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhhhccccc
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYE 257 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~ 257 (486)
+.+..+=.||.. |+||||||+.+-+....+|.
T Consensus 48 ~~l~h~lf~GPP-G~GKTTLA~IIA~e~~~~~~ 79 (233)
T PF05496_consen 48 EALDHMLFYGPP-GLGKTTLARIIANELGVNFK 79 (233)
T ss_dssp S---EEEEESST-TSSHHHHHHHHHHHCT--EE
T ss_pred CCcceEEEECCC-ccchhHHHHHHHhccCCCeE
Confidence 345566689999 99999999999888776664
No 118
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=86.02 E-value=3.6 Score=46.88 Aligned_cols=68 Identities=4% Similarity=-0.129 Sum_probs=37.4
Q ss_pred cceeeceeccc--CHHHHHHHhcCCCCCCCCCEEEe-eCCccccccccccCCCceEecCCCCCchhhhhhcc
Q 011431 308 SAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRINS-TSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSC 376 (486)
Q Consensus 308 Kr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrIIi-TTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~ 376 (486)
+..++|+|++. +....+.|+...-+-...+.+|+ ||....|+.. ......+|+++.|+.++-..++.+
T Consensus 120 ~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl~T-IrSRc~~v~F~~l~~~~l~~~L~~ 190 (824)
T PRK07764 120 RYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIGT-IRSRTHHYPFRLVPPEVMRGYLER 190 (824)
T ss_pred CceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHH-HHhheeEEEeeCCCHHHHHHHHHH
Confidence 55677899877 34445555532211223555554 4444445421 111235789999988877666554
No 119
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=85.93 E-value=2.3 Score=44.81 Aligned_cols=27 Identities=4% Similarity=-0.266 Sum_probs=22.3
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
...+|-++|.. |.||||.+..+-..+.
T Consensus 94 ~p~vI~lvG~~-GsGKTTtaakLA~~L~ 120 (437)
T PRK00771 94 KPQTIMLVGLQ-GSGKTTTAAKLARYFK 120 (437)
T ss_pred CCeEEEEECCC-CCcHHHHHHHHHHHHH
Confidence 46788899999 9999999988866554
No 120
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=85.91 E-value=1.9 Score=40.26 Aligned_cols=129 Identities=9% Similarity=-0.032 Sum_probs=61.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeee-ccHHHHHHHHhhhhccccccccccccccccccccccccc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFE-GEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQT 306 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~-~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~ 306 (486)
++..|.|.. |.||||+++.+...+... ...+...... .....|.++.-..-..+......... .. ..-+..+ .
T Consensus 19 ~~~~l~G~a-GtGKT~~l~~~~~~~~~~--g~~v~~~apT~~Aa~~L~~~~~~~a~Ti~~~l~~~~~-~~-~~~~~~~-~ 92 (196)
T PF13604_consen 19 RVSVLQGPA-GTGKTTLLKALAEALEAA--GKRVIGLAPTNKAAKELREKTGIEAQTIHSFLYRIPN-GD-DEGRPEL-P 92 (196)
T ss_dssp SEEEEEEST-TSTHHHHHHHHHHHHHHT--T--EEEEESSHHHHHHHHHHHTS-EEEHHHHTTEECC-EE-CCSSCC--T
T ss_pred eEEEEEECC-CCCHHHHHHHHHHHHHhC--CCeEEEECCcHHHHHHHHHhhCcchhhHHHHHhcCCc-cc-ccccccC-C
Confidence 456688999 999999999987655443 1222333322 33333444432110000000000000 00 0000001 2
Q ss_pred Ccceeeceeccc--CHHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431 307 TSAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSS 379 (486)
Q Consensus 307 tKr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~ 379 (486)
+.-+||+|... +...+..++... ...|+|+|+.-= .+++++...-..+.++.....
T Consensus 93 -~~~vliVDEasmv~~~~~~~ll~~~--~~~~~klilvGD--------------~~QL~pV~~g~~~~~l~~~~~ 150 (196)
T PF13604_consen 93 -KKDVLIVDEASMVDSRQLARLLRLA--KKSGAKLILVGD--------------PNQLPPVGAGSPFADLQESGG 150 (196)
T ss_dssp -STSEEEESSGGG-BHHHHHHHHHHS---T-T-EEEEEE---------------TTSHHHCSTTCHHHHHCGCST
T ss_pred -cccEEEEecccccCHHHHHHHHHHH--HhcCCEEEEECC--------------cchhcCCcCCcHHHHHHhcCC
Confidence 45689999977 455666666432 125888886432 334555555555666555444
No 121
>PRK00131 aroK shikimate kinase; Reviewed
Probab=85.69 E-value=0.69 Score=41.54 Aligned_cols=25 Identities=4% Similarity=-0.297 Sum_probs=21.4
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
..|-+.|+. |.||||+|+.+-..+.
T Consensus 5 ~~i~l~G~~-GsGKstla~~La~~l~ 29 (175)
T PRK00131 5 PNIVLIGFM-GAGKSTIGRLLAKRLG 29 (175)
T ss_pred CeEEEEcCC-CCCHHHHHHHHHHHhC
Confidence 467799999 9999999999977763
No 122
>PRK12608 transcription termination factor Rho; Provisional
Probab=85.65 E-value=1 Score=46.18 Aligned_cols=86 Identities=8% Similarity=-0.048 Sum_probs=46.2
Q ss_pred eeeeeccCccchhHHHHHHHhhhccccccceEEEEeee---ccHHHHHHHHhhhhccc--cccccc-cc----ccccccc
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFE---GEVKKLDQRLLRFLESV--DKHVAS-YD----RYGSASF 299 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~---~~l~~lqk~ll~~L~~~--d~~~~~-~~----~~g~~s~ 299 (486)
+.|+|-. |.|||||++.+.+.+..+.....+.++.+. .....+.+.++..+... |..... .. -...+..
T Consensus 136 ~LIvG~p-GtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de~~~~~~~v~~~~~~~Ae~ 214 (380)
T PRK12608 136 GLIVAPP-RAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDRPPDEHIRVAELVLERAKR 214 (380)
T ss_pred EEEECCC-CCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCCCHHHHHHHHHHHHHHHHH
Confidence 4689888 999999999988877554322222343443 33445556655444321 010000 00 0011122
Q ss_pred cccccccCcceeeceecccC
Q 011431 300 EQPRPQTTSAAHPYVEDVID 319 (486)
Q Consensus 300 l~~~L~~tKr~LlVLDDVw~ 319 (486)
+++ .+ ++++||+|++-.
T Consensus 215 f~~--~G-kdVVLvlDsltr 231 (380)
T PRK12608 215 LVE--QG-KDVVILLDSLTR 231 (380)
T ss_pred HHH--cC-CCEEEEEeCcHH
Confidence 221 24 899999999864
No 123
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=85.59 E-value=1.6 Score=45.28 Aligned_cols=26 Identities=8% Similarity=-0.106 Sum_probs=21.8
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhh
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
+.++|+++|-+ |+||||++..+-..+
T Consensus 240 ~~~vI~LVGpt-GvGKTTTiaKLA~~L 265 (436)
T PRK11889 240 EVQTIALIGPT-GVGKTTTLAKMAWQF 265 (436)
T ss_pred CCcEEEEECCC-CCcHHHHHHHHHHHH
Confidence 45789999999 999999998886544
No 124
>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF. Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.
Probab=85.57 E-value=10 Score=37.32 Aligned_cols=26 Identities=8% Similarity=0.226 Sum_probs=20.9
Q ss_pred HHHHHHhhccceEEEeecccccChhh
Q 011431 67 ALLQAIEESKISLVIFSKRFAFSRWC 92 (486)
Q Consensus 67 ~i~~~I~~s~~~ivv~S~~y~~S~wc 92 (486)
.+.++++++.+.|.|+.-+...+..+
T Consensus 14 ~~~~~l~~aDvVl~V~Dar~p~~~~~ 39 (276)
T TIGR03596 14 EIKEKLKLVDVVIEVLDARIPLSSRN 39 (276)
T ss_pred HHHHHHhhCCEEEEEEeCCCCCCCCC
Confidence 77889999999999998776555555
No 125
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=85.52 E-value=1.1 Score=47.03 Aligned_cols=38 Identities=11% Similarity=-0.101 Sum_probs=26.2
Q ss_pred eeeeeeccCccchhHHHHHHHhhhccccccceEEEEeee
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFE 267 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~ 267 (486)
.|-+.|+. |.||||+|+.+.+.+........+.++.+.
T Consensus 196 ~iil~Gpp-GtGKT~lA~~la~~l~~~~~~~~v~~VtFH 233 (459)
T PRK11331 196 NIILQGPP-GVGKTFVARRLAYLLTGEKAPQRVNMVQFH 233 (459)
T ss_pred CEEEECCC-CCCHHHHHHHHHHHhcCCcccceeeEEeec
Confidence 45579999 999999999998877554332223444443
No 126
>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]
Probab=85.27 E-value=0.64 Score=41.97 Aligned_cols=28 Identities=7% Similarity=-0.086 Sum_probs=23.9
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhhccc
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQLMDN 255 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~ 255 (486)
.+++||+|.- +.|||||+..+-..++.+
T Consensus 2 ~~Il~ivG~k-~SGKTTLie~lv~~L~~~ 29 (161)
T COG1763 2 MKILGIVGYK-NSGKTTLIEKLVRKLKAR 29 (161)
T ss_pred CcEEEEEecC-CCChhhHHHHHHHHHHhC
Confidence 4689999999 999999999997776554
No 127
>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).
Probab=85.23 E-value=0.59 Score=42.92 Aligned_cols=24 Identities=8% Similarity=-0.281 Sum_probs=20.5
Q ss_pred eeeeeeccCccchhHHHHHHHhhhc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
+|+|.|.. |.||||||+.+...+.
T Consensus 1 ii~i~G~s-gsGKttla~~l~~~l~ 24 (179)
T cd02028 1 VVGIAGPS-GSGKTTFAKKLSNQLR 24 (179)
T ss_pred CEEEECCC-CCCHHHHHHHHHHHHH
Confidence 57899998 9999999999877654
No 128
>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=85.18 E-value=0.7 Score=35.19 Aligned_cols=23 Identities=13% Similarity=-0.257 Sum_probs=19.2
Q ss_pred eeeeeeccCccchhHHHHHHHhhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
+|.|.|.. |.||||+++.+-+.+
T Consensus 1 ~i~i~G~~-gsGKst~~~~l~~~l 23 (69)
T cd02019 1 IIAITGGS-GSGKSTVAKKLAEQL 23 (69)
T ss_pred CEEEECCC-CCCHHHHHHHHHHHh
Confidence 36778888 999999999987765
No 129
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=85.05 E-value=2.9 Score=46.37 Aligned_cols=24 Identities=8% Similarity=-0.136 Sum_probs=19.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
..+=++|.- |+||||+|+.+-+.+
T Consensus 39 Ha~Lf~GP~-GvGKTTlAriLAk~L 62 (709)
T PRK08691 39 HAYLLTGTR-GVGKTTIARILAKSL 62 (709)
T ss_pred eEEEEECCC-CCcHHHHHHHHHHHh
Confidence 345578998 999999999886654
No 130
>PRK05439 pantothenate kinase; Provisional
Probab=84.82 E-value=1.8 Score=43.41 Aligned_cols=29 Identities=3% Similarity=-0.396 Sum_probs=23.9
Q ss_pred CCCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 224 AEGYRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 224 ~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
....-+|||-|-. |.||||+|+.+-..+.
T Consensus 83 ~~~~~iIgIaG~~-gsGKSTla~~L~~~l~ 111 (311)
T PRK05439 83 QKVPFIIGIAGSV-AVGKSTTARLLQALLS 111 (311)
T ss_pred CCCCEEEEEECCC-CCCHHHHHHHHHHHHH
Confidence 4567789999999 9999999998866543
No 131
>COG4916 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]
Probab=84.65 E-value=1.1 Score=42.82 Aligned_cols=99 Identities=14% Similarity=0.118 Sum_probs=67.5
Q ss_pred CCceecCceEEecccCccCcChHHHHHHHHh--cCCCeEEEeCC----cCCCCCchHHHHHHHh--hccceEEEeecccc
Q 011431 16 DQWRYKHDVFVTFSGEDIRENFGSYLFAALF--RESVKTFRDEQ----IRRGDEIMPALLQAIE--ESKISLVIFSKRFA 87 (486)
Q Consensus 16 ~~~~y~~dVFis~~~~D~~~~f~~~L~~~L~--~~gi~~~~d~~----~~~g~~i~~~i~~~I~--~s~~~ivv~S~~y~ 87 (486)
.++.| |+=+||.|+- .+.+......++ ...+..|.|.+ +-+|+ +. .++.-+. .|++.+|....+|-
T Consensus 174 ~~~~~--DiG~SFaGEA--R~LVEqV~~E~~~~~~p~~~FYD~~~~~~L~~~s-L~-~~L~~~Y~~rC~~~~VF~~~~Y~ 247 (329)
T COG4916 174 SEKPV--DSGISFAGEA--RNLVEQVQTEHSGLDIPTRRFYDLLVAHPLYPGS-LV-STLDPGYDIRCVVTTVFNTGSYI 247 (329)
T ss_pred ccccc--ceeeEeehhh--hhHHHHHHHhhhcccCCceeeeechhhccccCcc-HH-HhcccccCceEEEEEEEeCCceE
Confidence 45678 9999999985 479999999998 33466777752 33443 22 3333333 58888999999999
Q ss_pred cChhhHHHHHHHHHHhcCCCEEEEEEe-eecCCcc
Q 011431 88 FSRWCLEELVKIIECNKLYQTVIPVFY-KVLPSDV 121 (486)
Q Consensus 88 ~S~wcl~El~~i~~~~~~~~~v~Pify-~v~~s~v 121 (486)
...||-.|...+-+. ..-+...||.| .++.+-+
T Consensus 248 ~K~~c~~E~~~~r~~-~~~d~~~rI~~~~~d~~a~ 281 (329)
T COG4916 248 CKSTCHIEGLEGRLN-PILDTGFRIKYLYADNIAI 281 (329)
T ss_pred Eeeeeccchhhcccc-ccccccceEEEEecCCccc
Confidence 999999998776553 11234567766 4554443
No 132
>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B ....
Probab=84.56 E-value=0.78 Score=39.82 Aligned_cols=23 Identities=4% Similarity=-0.318 Sum_probs=19.0
Q ss_pred eeeeeeccCccchhHHHHHHHhhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
+|=++|+. |.||||+|+.+....
T Consensus 1 lii~~G~p-gsGKSt~a~~l~~~~ 23 (143)
T PF13671_consen 1 LIILCGPP-GSGKSTLAKRLAKRL 23 (143)
T ss_dssp EEEEEEST-TSSHHHHHHHHHHHS
T ss_pred CEEEECCC-CCCHHHHHHHHHHHC
Confidence 35588999 999999999987654
No 133
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=84.39 E-value=4 Score=43.64 Aligned_cols=71 Identities=3% Similarity=-0.077 Sum_probs=38.6
Q ss_pred cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeC-CccccccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431 308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTS-RFEQLWPETISATDTCTEDVTVDNSPSLNLSSCNSS 379 (486)
Q Consensus 308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTT-R~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~ 379 (486)
+..++|+|++.. ....+.|+...-+-.+.+++|++| ....+... .......++++.++.++-...+.+.+.
T Consensus 116 ~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~Kl~~t-I~SRc~~~~f~~l~~~el~~~L~~ia~ 189 (491)
T PRK14964 116 KFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVT-IISRCQRFDLQKIPTDKLVEHLVDIAK 189 (491)
T ss_pred CceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHHHHHH-HHHhheeeecccccHHHHHHHHHHHHH
Confidence 566788998763 333444442110112356666555 44444321 111235688899988887777665443
No 134
>TIGR03156 GTP_HflX GTP-binding protein HflX. This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).
Probab=84.36 E-value=3.8 Score=41.94 Aligned_cols=156 Identities=17% Similarity=0.166 Sum_probs=76.0
Q ss_pred hHHHHHHHhhccceEEEeecccccChhhHHHHHHHHHH--hcCCCEEEEEEeeecCCccccccCchHHHHHHhHhhCCCc
Q 011431 65 MPALLQAIEESKISLVIFSKRFAFSRWCLEELVKIIEC--NKLYQTVIPVFYKVLPSDVRNQLGSFGEAFLEHEKSHDLR 142 (486)
Q Consensus 65 ~~~i~~~I~~s~~~ivv~S~~y~~S~wcl~El~~i~~~--~~~~~~v~Pify~v~~s~vr~q~g~f~~~f~~~~~~~~~~ 142 (486)
.++|...+++..+-+|||-..-..| =...|..++.+ -.+.+.||=||-. .-+...|...-++..+.-.. +
T Consensus 55 ~~e~~~~~~~~~~~~vi~~~~l~p~--q~~nl~~~~~~~v~Dr~~lil~iF~~----ra~t~e~klqv~la~l~~~l--~ 126 (351)
T TIGR03156 55 VEEIAELVEELEADLVIFDHELSPS--QERNLEKALGCRVIDRTGLILDIFAQ----RARTHEGKLQVELAQLKYLL--P 126 (351)
T ss_pred HHHHHHHHHhcCCCEEEECCCCCHH--HHHHHHHHhCCcccchHHHHHHHHHH----hccChHHHHHHHHHhccchh--h
Confidence 4577788888888888887655333 33455555555 3344556666632 11111223333444333322 3
Q ss_pred hhhccHHHHHHHhhhccCCCCCCCCCcchhhhhHHHhHHhhhhhhhhhhHHHHHHHhhhhhhccchhhhhhHHHHHHHhh
Q 011431 143 PKVGRWRDALREASDLAGWDSNVTRPESKLTDEIVNGVVENLKSFAELMEKELVVLFNRARDKLDNHASSLLDEVLSLLR 222 (486)
Q Consensus 143 e~i~~Wr~AL~eva~~~G~~~~~~~~E~~~I~~IV~~V~~~L~~~~~~~~~~lVgi~~~~~~~~~~~~~~~l~~v~~ll~ 222 (486)
..+..|+. |.....-.|+ . +..|.+. +.=...+..++... ...+-.+-. .. +......
T Consensus 127 r~~~~~~~-l~~~~~~i~~--~-g~gE~~~-~~~~~~i~~ri~~l----~~~L~~~~~-----------~~--~~~r~~r 184 (351)
T TIGR03156 127 RLVGGWTH-LSRQGGGIGT--R-GPGETQL-ETDRRLIRERIAQL----KKELEKVEK-----------QR--ERQRRRR 184 (351)
T ss_pred hhhhhHHH-HHhhcCCCCC--C-CCChhHH-HHHHHHHHHHHHHH----HHHHHHHHH-----------HH--HHHHhhh
Confidence 55667877 7665543443 1 1122221 11011222222211 111111100 00 0001112
Q ss_pred cCCCceeeeeeeccCccchhHHHHHHHhh
Q 011431 223 NAEGYRSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 223 ~~~~~~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
...+...|+|+|-. +.|||||...+.+.
T Consensus 185 ~~~~~~~ValvG~~-NvGKSSLln~L~~~ 212 (351)
T TIGR03156 185 KRADVPTVALVGYT-NAGKSTLFNALTGA 212 (351)
T ss_pred cccCCcEEEEECCC-CCCHHHHHHHHhCC
Confidence 22455678999999 99999999988764
No 135
>TIGR00554 panK_bact pantothenate kinase, bacterial type. Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.
Probab=84.34 E-value=1.1 Score=44.50 Aligned_cols=27 Identities=4% Similarity=-0.391 Sum_probs=22.1
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhhh
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
+...+|||.|-. |.||||+|+.+-..+
T Consensus 60 ~~p~IIGIaG~~-GSGKSTlar~L~~ll 86 (290)
T TIGR00554 60 KIPYIISIAGSV-AVGKSTTARILQALL 86 (290)
T ss_pred CCCEEEEEECCC-CCCHHHHHHHHHHHH
Confidence 456899999999 999999998774443
No 136
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=84.33 E-value=2.4 Score=44.18 Aligned_cols=45 Identities=9% Similarity=-0.054 Sum_probs=29.9
Q ss_pred CCCEEEeeCCccccccccc---cCCCceEecCCCCCchhhhhhcccCC
Q 011431 335 NLSRINSTSRFEQLWPETI---SATDTCTEDVTVDNSPSLNLSSCNSS 379 (486)
Q Consensus 335 ~GSrIIiTTR~~~V~~~~~---~~~~~~y~v~~L~~~es~~LF~~~a~ 379 (486)
.+-.||.||...+-+.... ..-+..++++..+.++...+|..+..
T Consensus 283 ~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~ 330 (398)
T PTZ00454 283 TNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITS 330 (398)
T ss_pred CCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHh
Confidence 3567888887666543211 12456788999998888888876543
No 137
>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=84.32 E-value=0.78 Score=41.89 Aligned_cols=26 Identities=4% Similarity=-0.396 Sum_probs=21.5
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhh
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+.+|.|.|.. |.||||+++.+....
T Consensus 2 ~~~ii~i~G~~-GsGKsTl~~~l~~~~ 27 (188)
T TIGR01360 2 KCKIIFIVGGP-GSGKGTQCEKIVEKY 27 (188)
T ss_pred CCcEEEEECCC-CCCHHHHHHHHHHHh
Confidence 35688899999 999999999886543
No 138
>COG4240 Predicted kinase [General function prediction only]
Probab=84.27 E-value=1.1 Score=42.62 Aligned_cols=32 Identities=6% Similarity=-0.385 Sum_probs=27.5
Q ss_pred CCCceeeeeeeccCccchhHHHHHHHhhhcccc
Q 011431 224 AEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNY 256 (486)
Q Consensus 224 ~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F 256 (486)
.+..-++||.|-. |.||||++-.+++.+..+.
T Consensus 47 ~grPli~gisGpQ-GSGKStls~~i~~~L~~kg 78 (300)
T COG4240 47 RGRPLIVGISGPQ-GSGKSTLSALIVRLLAAKG 78 (300)
T ss_pred cCCceEEEeecCC-CCchhhHHHHHHHHHHHhc
Confidence 4457899999999 9999999999999876655
No 139
>PF13614 AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ_A 3KB1_B 1ION_A 3LA6_H 3BFV_B 3CIO_D.
Probab=84.20 E-value=0.81 Score=40.46 Aligned_cols=28 Identities=11% Similarity=0.045 Sum_probs=22.6
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDN 255 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~ 255 (486)
++|++||..||.||||+|.++-..+...
T Consensus 1 k~i~v~s~~~g~G~t~~a~~lA~~la~~ 28 (157)
T PF13614_consen 1 KVIAVWSPKGGVGKTTLALNLAAALARK 28 (157)
T ss_dssp EEEEEEESSTTSSHHHHHHHHHHHHHHT
T ss_pred CEEEEECCCCCCCHHHHHHHHHHHHHhc
Confidence 5899999777999999998886655433
No 140
>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]
Probab=84.08 E-value=0.66 Score=43.49 Aligned_cols=24 Identities=8% Similarity=-0.252 Sum_probs=20.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.-|.++|.+ |.|||||+..+....
T Consensus 6 ~kivv~G~~-g~GKTtl~~~l~~~~ 29 (219)
T COG1100 6 FKIVVLGDG-GVGKTTLLNRLVGDE 29 (219)
T ss_pred EEEEEEcCC-CccHHHHHHHHhcCc
Confidence 456799999 999999999887644
No 141
>PRK00889 adenylylsulfate kinase; Provisional
Probab=83.95 E-value=0.83 Score=41.50 Aligned_cols=24 Identities=8% Similarity=-0.150 Sum_probs=21.3
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+|.+.|+. |.||||+|+.+...+
T Consensus 5 ~~i~~~G~~-GsGKST~a~~la~~l 28 (175)
T PRK00889 5 VTVWFTGLS-GAGKTTIARALAEKL 28 (175)
T ss_pred eEEEEECCC-CCCHHHHHHHHHHHH
Confidence 478899999 999999999998765
No 142
>PRK06217 hypothetical protein; Validated
Probab=83.90 E-value=0.87 Score=41.82 Aligned_cols=24 Identities=4% Similarity=-0.303 Sum_probs=20.2
Q ss_pred eeeeeeccCccchhHHHHHHHhhhc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
.|.|.|+. |.|||||++.+-..+.
T Consensus 3 ~I~i~G~~-GsGKSTla~~L~~~l~ 26 (183)
T PRK06217 3 RIHITGAS-GSGTTTLGAALAERLD 26 (183)
T ss_pred EEEEECCC-CCCHHHHHHHHHHHcC
Confidence 46789998 9999999999977653
No 143
>CHL00176 ftsH cell division protein; Validated
Probab=83.79 E-value=3.1 Score=46.08 Aligned_cols=46 Identities=7% Similarity=0.023 Sum_probs=29.6
Q ss_pred CCCEEEeeCCccccccccc---cCCCceEecCCCCCchhhhhhcccCCC
Q 011431 335 NLSRINSTSRFEQLWPETI---SATDTCTEDVTVDNSPSLNLSSCNSSS 380 (486)
Q Consensus 335 ~GSrIIiTTR~~~V~~~~~---~~~~~~y~v~~L~~~es~~LF~~~a~~ 380 (486)
.+-.||.||..-+.+.... ..-+...++...+.++-.++|..++..
T Consensus 320 ~~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~ 368 (638)
T CHL00176 320 KGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARN 368 (638)
T ss_pred CCeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhh
Confidence 4557777776655432211 123456788888888888888877654
No 144
>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=83.49 E-value=0.9 Score=38.23 Aligned_cols=27 Identities=4% Similarity=-0.326 Sum_probs=21.7
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDN 255 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~ 255 (486)
..+.+.|-. |.||||+++.+...+...
T Consensus 3 ~~~~l~G~~-G~GKTtl~~~l~~~~~~~ 29 (148)
T smart00382 3 EVILIVGPP-GSGKTTLARALARELGPP 29 (148)
T ss_pred CEEEEECCC-CCcHHHHHHHHHhccCCC
Confidence 356688988 999999999998766544
No 145
>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=83.29 E-value=0.8 Score=44.20 Aligned_cols=25 Identities=8% Similarity=-0.161 Sum_probs=20.4
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
++|+|+|.=||+|||||+-++--.+
T Consensus 2 ~~iai~s~kGGvG~TTltAnLA~aL 26 (243)
T PF06564_consen 2 KVIAIVSPKGGVGKTTLTANLAWAL 26 (243)
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHH
Confidence 5789999999999999987765433
No 146
>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=83.16 E-value=0.8 Score=41.07 Aligned_cols=25 Identities=8% Similarity=-0.150 Sum_probs=21.6
Q ss_pred eeeeeeccCccchhHHHHHHHhhhcc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
+++|+|.- |.|||||+..+...+..
T Consensus 1 vi~i~G~~-gsGKTtl~~~l~~~l~~ 25 (155)
T TIGR00176 1 VLQIVGPK-NSGKTTLIERLVKALKA 25 (155)
T ss_pred CEEEECCC-CCCHHHHHHHHHHHHHh
Confidence 57899999 99999999999887654
No 147
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=83.15 E-value=0.88 Score=38.02 Aligned_cols=22 Identities=0% Similarity=-0.306 Sum_probs=18.5
Q ss_pred eeeeeccCccchhHHHHHHHhhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
|.|+|-. |+|||||++.+.+..
T Consensus 2 I~V~G~~-g~GKTsLi~~l~~~~ 23 (119)
T PF08477_consen 2 IVVLGDS-GVGKTSLIRRLCGGE 23 (119)
T ss_dssp EEEECST-TSSHHHHHHHHHHSS
T ss_pred EEEECcC-CCCHHHHHHHHhcCC
Confidence 5588988 999999999987643
No 148
>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.
Probab=82.83 E-value=1.8 Score=42.56 Aligned_cols=41 Identities=2% Similarity=-0.048 Sum_probs=31.0
Q ss_pred eeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHH
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVK 271 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~ 271 (486)
-++|.|-. |+|||||++.+++++..+|... ++.+.+.+.-+
T Consensus 71 r~~If~~~-G~GKTtLa~~i~~~i~~~~~~~-~V~~~iGer~~ 111 (274)
T cd01133 71 KIGLFGGA-GVGKTVLIMELINNIAKAHGGY-SVFAGVGERTR 111 (274)
T ss_pred EEEEecCC-CCChhHHHHHHHHHHHhcCCCE-EEEEEeccCcH
Confidence 46789888 9999999999999988777554 34555554433
No 149
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=82.74 E-value=0.98 Score=41.32 Aligned_cols=27 Identities=7% Similarity=-0.160 Sum_probs=23.1
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
...+++|+|-. |.|||||++.+...+.
T Consensus 5 ~~~ii~ivG~s-gsGKTTLi~~li~~l~ 31 (173)
T PRK10751 5 MIPLLAIAAWS-GTGKTTLLKKLIPALC 31 (173)
T ss_pred CceEEEEECCC-CChHHHHHHHHHHHHh
Confidence 45689999999 9999999999977654
No 150
>PRK10867 signal recognition particle protein; Provisional
Probab=82.71 E-value=3.5 Score=43.40 Aligned_cols=24 Identities=4% Similarity=-0.357 Sum_probs=18.8
Q ss_pred CceeeeeeeccCccchhHHHHHHHh
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
...+|-++|.+ |.||||++-.+-.
T Consensus 99 ~p~vI~~vG~~-GsGKTTtaakLA~ 122 (433)
T PRK10867 99 PPTVIMMVGLQ-GAGKTTTAGKLAK 122 (433)
T ss_pred CCEEEEEECCC-CCcHHHHHHHHHH
Confidence 46788999999 9999996655433
No 151
>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....
Probab=82.64 E-value=0.97 Score=37.84 Aligned_cols=21 Identities=0% Similarity=-0.266 Sum_probs=18.9
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|++.|+. |.|||||.+.+.+.
T Consensus 2 V~iiG~~-~~GKSTlin~l~~~ 22 (116)
T PF01926_consen 2 VAIIGRP-NVGKSTLINALTGK 22 (116)
T ss_dssp EEEEEST-TSSHHHHHHHHHTS
T ss_pred EEEECCC-CCCHHHHHHHHhcc
Confidence 6799999 99999999999863
No 152
>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....
Probab=82.63 E-value=0.89 Score=41.64 Aligned_cols=25 Identities=8% Similarity=-0.177 Sum_probs=18.2
Q ss_pred eeeeeccCccchhHHHHHHHhhhcc
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
|.|.+..||+||||+|..+-..+..
T Consensus 1 I~v~~~kGG~GKTt~a~~la~~la~ 25 (195)
T PF01656_consen 1 IAVTSGKGGVGKTTIAANLAQALAR 25 (195)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHH
T ss_pred CEEEcCCCCccHHHHHHHHHhcccc
Confidence 4566666799999999887655443
No 153
>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]
Probab=82.58 E-value=1 Score=40.71 Aligned_cols=26 Identities=15% Similarity=0.020 Sum_probs=21.4
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhh
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
+.+++.|+|.. |+||||+.+..-..+
T Consensus 3 ~~kvvvitGVp-GvGKTTVl~~~~~~l 28 (189)
T COG2019 3 GRKVVVITGVP-GVGKTTVLKIALKEL 28 (189)
T ss_pred CceEEEEEcCC-CCChHHHHHHHHHHH
Confidence 35788899999 999999998775544
No 154
>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional
Probab=82.55 E-value=0.91 Score=44.78 Aligned_cols=28 Identities=7% Similarity=-0.099 Sum_probs=24.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhcccc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNY 256 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F 256 (486)
++|+|+|.+ |.|||||+..+-..+..+.
T Consensus 2 ~~i~i~G~~-gSGKTTLi~~Li~~L~~~G 29 (274)
T PRK14493 2 KVLSIVGYK-ATGKTTLVERLVDRLSGRG 29 (274)
T ss_pred cEEEEECCC-CCCHHHHHHHHHHHHHhCC
Confidence 579999998 9999999999988776653
No 155
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=82.46 E-value=15 Score=36.46 Aligned_cols=23 Identities=0% Similarity=-0.230 Sum_probs=19.7
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
..+.++|+. ++||+||...+.+.
T Consensus 122 ~~~~~~G~p-nvGKSsliN~l~~~ 144 (287)
T PRK09563 122 IRAMIIGIP-NVGKSTLINRLAGK 144 (287)
T ss_pred eEEEEECCC-CCCHHHHHHHHhcC
Confidence 457899999 99999999988663
No 156
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=82.42 E-value=1.1 Score=42.09 Aligned_cols=27 Identities=7% Similarity=-0.027 Sum_probs=24.0
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhhh
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.++++|+++|.- |.|||||+..+....
T Consensus 20 ~~~~~i~~~G~~-gsGKTTli~~l~~~~ 46 (207)
T TIGR00073 20 HGLVVLNFMSSP-GSGKTTLIEKLIDNL 46 (207)
T ss_pred cCcEEEEEECCC-CCCHHHHHHHHHHHH
Confidence 489999999999 999999999887654
No 157
>cd04139 RalA_RalB RalA/RalB subfamily. The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo
Probab=82.28 E-value=0.92 Score=39.95 Aligned_cols=21 Identities=0% Similarity=-0.368 Sum_probs=18.2
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|.+ |+|||||++.+.+.
T Consensus 3 i~~~G~~-~~GKTsl~~~l~~~ 23 (164)
T cd04139 3 VIVVGAG-GVGKSALTLQFMYD 23 (164)
T ss_pred EEEECCC-CCCHHHHHHHHHhC
Confidence 6799999 99999999988753
No 158
>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=82.25 E-value=0.91 Score=35.91 Aligned_cols=23 Identities=9% Similarity=-0.221 Sum_probs=18.9
Q ss_pred eeeeeccCccchhHHHHHHHhhhc
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
+.+.|.+ |.||||++..+-..+.
T Consensus 2 ~~~~g~~-G~Gktt~~~~l~~~l~ 24 (99)
T cd01983 2 IVVTGKG-GVGKTTLAANLAAALA 24 (99)
T ss_pred EEEECCC-CCCHHHHHHHHHHHHH
Confidence 5678888 9999999998876654
No 159
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=82.18 E-value=2.3 Score=34.49 Aligned_cols=58 Identities=19% Similarity=0.344 Sum_probs=39.8
Q ss_pred eeeeecc-ccccchhhHHHHHHHhhcCCCeeEEEe-----ecCCC--eEEEEeeccCHHHHHHHhhccc
Q 011431 384 EAIFKLE-IHHDNLEAWRAAFSIVSEFIGITKISF-----DFKVK--KMTVVGDNFDVLSAGTKLNGLC 444 (486)
Q Consensus 384 ~~v~kv~-~~~~~~~~~~~a~k~~~~~~Gv~~v~~-----d~~~~--~~~V~G~~~d~~~~~~~l~k~~ 444 (486)
.+||-|. .|....- ..-..+++++||+.|.+ |.+.. ++||.|+.+|-..+.+.+.+.|
T Consensus 6 RlVLDVlKP~~p~i~---e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie~~G 71 (95)
T PF02680_consen 6 RLVLDVLKPHEPSIV---ELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEELG 71 (95)
T ss_dssp EEEEEEEEESSS-HH---HHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHTT
T ss_pred EEEEEeecCCCCCHH---HHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHcC
Confidence 3444442 2444443 44566789999999876 44443 7999999999999999999977
No 160
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=82.10 E-value=6.9 Score=41.65 Aligned_cols=69 Identities=12% Similarity=-0.055 Sum_probs=38.9
Q ss_pred cceeeceeccc--CHHHHHHHhcCCCCCCCCCEE-EeeCCccccccccccCCCceEecCCCCCchhhhhhccc
Q 011431 308 SAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRI-NSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSCN 377 (486)
Q Consensus 308 Kr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrI-IiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~ 377 (486)
+...+++|.+. +...+..++...-+....... +.||....+... ...-...|.++.|+.++-.+.+.+.
T Consensus 121 ~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~T-I~SRCq~~~f~~ls~~~i~~~L~~i 192 (484)
T PRK14956 121 KYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPET-ILSRCQDFIFKKVPLSVLQDYSEKL 192 (484)
T ss_pred CCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHH-HHhhhheeeecCCCHHHHHHHHHHH
Confidence 56689999987 455666666322111123444 455555555321 1112246899999887776665544
No 161
>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=82.05 E-value=1.1 Score=38.00 Aligned_cols=21 Identities=5% Similarity=-0.352 Sum_probs=18.5
Q ss_pred eeeccCccchhHHHHHHHhhhc
Q 011431 232 CWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 232 I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
++|-. |.||||+|+.+.+.+.
T Consensus 3 l~G~~-G~GKT~l~~~la~~l~ 23 (132)
T PF00004_consen 3 LHGPP-GTGKTTLARALAQYLG 23 (132)
T ss_dssp EESST-TSSHHHHHHHHHHHTT
T ss_pred EECcC-CCCeeHHHHHHHhhcc
Confidence 67888 9999999999988874
No 162
>smart00763 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.
Probab=81.94 E-value=2 Score=43.96 Aligned_cols=28 Identities=7% Similarity=-0.273 Sum_probs=23.7
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
...+++.++|-. |.||||||+.+-+.+.
T Consensus 76 ~~r~il~L~GPP-GsGKStla~~La~~l~ 103 (361)
T smart00763 76 ERKQILYLLGPV-GGGKSSLVECLKRGLE 103 (361)
T ss_pred CCCcEEEEECCC-CCCHHHHHHHHHHHHh
Confidence 356888999999 9999999999977653
No 163
>PRK03846 adenylylsulfate kinase; Provisional
Probab=81.94 E-value=1 Score=41.88 Aligned_cols=26 Identities=12% Similarity=-0.292 Sum_probs=22.5
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhh
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
...+|.+.|+. |.||||||+.+...+
T Consensus 23 ~~~~i~i~G~~-GsGKSTla~~l~~~l 48 (198)
T PRK03846 23 KGVVLWFTGLS-GSGKSTVAGALEEAL 48 (198)
T ss_pred CCEEEEEECCC-CCCHHHHHHHHHHHH
Confidence 45688999999 999999999997765
No 164
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=81.89 E-value=0.82 Score=38.07 Aligned_cols=24 Identities=4% Similarity=-0.064 Sum_probs=19.0
Q ss_pred eeeeccCccchhHHHHHHHhhhccc
Q 011431 231 RCWLLCPLFSELRVLTNDVHQLMDN 255 (486)
Q Consensus 231 ~I~GmGgGvGKTTLa~~vy~~~~~~ 255 (486)
-|+|.. |+|||+||+.+-..+...
T Consensus 2 ~i~G~~-G~GKS~l~~~l~~~l~~~ 25 (107)
T PF00910_consen 2 WIYGPP-GIGKSTLAKELAKDLLKH 25 (107)
T ss_pred EEECCC-CCCHHHHHHHHHHHHHHH
Confidence 478999 999999999876655443
No 165
>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=81.87 E-value=1.1 Score=40.88 Aligned_cols=23 Identities=9% Similarity=-0.233 Sum_probs=19.9
Q ss_pred eeeeeeccCccchhHHHHHHHhhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
++.|.|.. |.|||||++.+...+
T Consensus 3 ~~~i~G~s-GsGKttl~~~l~~~~ 25 (179)
T TIGR02322 3 LIYVVGPS-GAGKDTLLDYARARL 25 (179)
T ss_pred EEEEECCC-CCCHHHHHHHHHHHc
Confidence 57799999 999999999986654
No 166
>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=81.83 E-value=1.2 Score=40.62 Aligned_cols=24 Identities=8% Similarity=-0.287 Sum_probs=20.5
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
++|-+.|+. |.||||+|+.+-...
T Consensus 3 ~~i~l~G~~-gsGKst~a~~l~~~~ 26 (175)
T cd00227 3 RIIILNGGS-SAGKSSIARALQSVL 26 (175)
T ss_pred CEEEEECCC-CCCHHHHHHHHHHhh
Confidence 467789999 999999999987654
No 167
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=81.72 E-value=2 Score=40.81 Aligned_cols=25 Identities=16% Similarity=0.060 Sum_probs=21.3
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhh
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+.+-++|-. |.|||+||+++++..
T Consensus 42 ~~~~~l~G~~-G~GKT~La~ai~~~~ 66 (227)
T PRK08903 42 DRFFYLWGEA-GSGRSHLLQALVADA 66 (227)
T ss_pred CCeEEEECCC-CCCHHHHHHHHHHHH
Confidence 3456699999 999999999998865
No 168
>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model. AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.
Probab=81.59 E-value=0.96 Score=39.17 Aligned_cols=25 Identities=4% Similarity=-0.238 Sum_probs=16.8
Q ss_pred eeeeccCccchhHHHHHHHhhhcccc
Q 011431 231 RCWLLCPLFSELRVLTNDVHQLMDNY 256 (486)
Q Consensus 231 ~I~GmGgGvGKTTLa~~vy~~~~~~F 256 (486)
=++|.. |+||||+|+++-..+...|
T Consensus 3 Lleg~P-G~GKT~la~~lA~~~~~~f 27 (131)
T PF07726_consen 3 LLEGVP-GVGKTTLAKALARSLGLSF 27 (131)
T ss_dssp EEES----HHHHHHHHHHHHHTT--E
T ss_pred eeECCC-ccHHHHHHHHHHHHcCCce
Confidence 378888 9999999999977766555
No 169
>PHA00729 NTP-binding motif containing protein
Probab=81.54 E-value=1.3 Score=42.30 Aligned_cols=27 Identities=7% Similarity=-0.077 Sum_probs=22.2
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
+...|.|.|-. |+||||||..+-+++.
T Consensus 16 ~f~nIlItG~p-GvGKT~LA~aLa~~l~ 42 (226)
T PHA00729 16 GFVSAVIFGKQ-GSGKTTYALKVARDVF 42 (226)
T ss_pred CeEEEEEECCC-CCCHHHHHHHHHHHHH
Confidence 44567799999 9999999999977653
No 170
>PRK13975 thymidylate kinase; Provisional
Probab=81.27 E-value=1.2 Score=41.16 Aligned_cols=26 Identities=4% Similarity=-0.328 Sum_probs=22.3
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhcc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
++|.|-|+- |.||||+++.+.+.+..
T Consensus 3 ~~I~ieG~~-GsGKtT~~~~L~~~l~~ 28 (196)
T PRK13975 3 KFIVFEGID-GSGKTTQAKLLAEKLNA 28 (196)
T ss_pred eEEEEECCC-CCCHHHHHHHHHHHhCC
Confidence 467899999 99999999999887753
No 171
>PRK13947 shikimate kinase; Provisional
Probab=81.14 E-value=1.2 Score=40.11 Aligned_cols=26 Identities=8% Similarity=-0.201 Sum_probs=21.3
Q ss_pred eeeeeccCccchhHHHHHHHhhhcccc
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQLMDNY 256 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~~~~F 256 (486)
|-++||. |.||||+++.+=+.+.-.|
T Consensus 4 I~l~G~~-GsGKst~a~~La~~lg~~~ 29 (171)
T PRK13947 4 IVLIGFM-GTGKTTVGKRVATTLSFGF 29 (171)
T ss_pred EEEEcCC-CCCHHHHHHHHHHHhCCCE
Confidence 5689999 9999999999977765444
No 172
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=81.14 E-value=7.7 Score=39.32 Aligned_cols=70 Identities=3% Similarity=-0.159 Sum_probs=37.7
Q ss_pred cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCccc-cccccccCCCceEecCCCCCchhhhhhcccC
Q 011431 308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFEQ-LWPETISATDTCTEDVTVDNSPSLNLSSCNS 378 (486)
Q Consensus 308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~~-V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a 378 (486)
.+.++++|++.. ......++...-+....+.+|++|.+.+ +... .......++.++++.++.-..+...+
T Consensus 117 ~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~~l~~~-l~sr~~~~~~~~~~~~~l~~~l~~~~ 189 (355)
T TIGR02397 117 KYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPAT-ILSRCQRFDFKRIPLEDIVERLKKIL 189 (355)
T ss_pred CceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCCHHHHHHH-HHhheeEEEcCCCCHHHHHHHHHHHH
Confidence 455788898753 3334444422211234567666665443 3211 11112467888888888777766544
No 173
>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....
Probab=81.10 E-value=1.2 Score=39.92 Aligned_cols=26 Identities=8% Similarity=-0.174 Sum_probs=21.3
Q ss_pred eeeeeeccCccchhHHHHHHHhhhccc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLMDN 255 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~~~ 255 (486)
+|=+.|+. |-||||||+.+..++...
T Consensus 4 vIwltGls-GsGKtTlA~~L~~~L~~~ 29 (156)
T PF01583_consen 4 VIWLTGLS-GSGKTTLARALERRLFAR 29 (156)
T ss_dssp EEEEESST-TSSHHHHHHHHHHHHHHT
T ss_pred EEEEECCC-CCCHHHHHHHHHHHHHHc
Confidence 45577898 999999999998887543
No 174
>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=81.08 E-value=1.1 Score=40.76 Aligned_cols=24 Identities=0% Similarity=-0.326 Sum_probs=20.6
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
++|.++|.. |.|||||++.+.+..
T Consensus 2 ~ii~l~G~~-GsGKsTl~~~L~~~~ 25 (180)
T TIGR03263 2 LLIVISGPS-GVGKSTLVKALLEED 25 (180)
T ss_pred cEEEEECCC-CCCHHHHHHHHHccC
Confidence 467899999 999999999997754
No 175
>PRK00625 shikimate kinase; Provisional
Probab=81.07 E-value=1.2 Score=40.68 Aligned_cols=23 Identities=9% Similarity=-0.269 Sum_probs=19.5
Q ss_pred eeeeeccCccchhHHHHHHHhhhc
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
|-++||. |.||||+++.+-+++.
T Consensus 3 I~LiG~p-GsGKTT~~k~La~~l~ 25 (173)
T PRK00625 3 IFLCGLP-TVGKTSFGKALAKFLS 25 (173)
T ss_pred EEEECCC-CCCHHHHHHHHHHHhC
Confidence 5689999 9999999999866653
No 176
>PLN02348 phosphoribulokinase
Probab=81.02 E-value=1.8 Score=44.78 Aligned_cols=30 Identities=3% Similarity=-0.199 Sum_probs=25.6
Q ss_pred cCCCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 223 NAEGYRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 223 ~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
..+...+|||-|-. |-||||+|+.+.+.+.
T Consensus 45 ~~~~p~IIGIaG~S-GSGKSTfA~~L~~~Lg 74 (395)
T PLN02348 45 ADDGTVVIGLAADS-GCGKSTFMRRLTSVFG 74 (395)
T ss_pred cCCCCEEEEEECCC-CCCHHHHHHHHHHHHh
Confidence 34567899999999 9999999999987664
No 177
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=80.99 E-value=2.1 Score=44.52 Aligned_cols=133 Identities=11% Similarity=0.016 Sum_probs=71.3
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhccccccccccccccccccccccccc
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQT 306 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~ 306 (486)
..-+=|||-- |+|||-|++++.|..........+..+.. ..+ -..+...+.+ +. ...+++.. .
T Consensus 113 ~nplfi~G~~-GlGKTHLl~Aign~~~~~~~~a~v~y~~s-e~f---~~~~v~a~~~-----~~------~~~Fk~~y-~ 175 (408)
T COG0593 113 YNPLFIYGGV-GLGKTHLLQAIGNEALANGPNARVVYLTS-EDF---TNDFVKALRD-----NE------MEKFKEKY-S 175 (408)
T ss_pred CCcEEEECCC-CCCHHHHHHHHHHHHHhhCCCceEEeccH-HHH---HHHHHHHHHh-----hh------HHHHHHhh-c
Confidence 4456689988 99999999999998765554332222221 111 1122222211 00 12223333 2
Q ss_pred CcceeeceecccC---HHHHH-HHh---cCCCCCCCCCEEEeeCCcccc----cc-c--cccCCCceEecCCCCCchhhh
Q 011431 307 TSAAHPYVEDVID---DAYME-DIT---DDSSPSLNLSRINSTSRFEQL----WP-E--TISATDTCTEDVTVDNSPSLN 372 (486)
Q Consensus 307 tKr~LlVLDDVw~---~~~~~-~l~---~~~~~~~~GSrIIiTTR~~~V----~~-~--~~~~~~~~y~v~~L~~~es~~ 372 (486)
--++++||++- ...++ .+. +.. ...|-.||+|++.--- +. . .......++++.+++.+....
T Consensus 176 --~dlllIDDiq~l~gk~~~qeefFh~FN~l--~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~a 251 (408)
T COG0593 176 --LDLLLIDDIQFLAGKERTQEEFFHTFNAL--LENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLA 251 (408)
T ss_pred --cCeeeechHhHhcCChhHHHHHHHHHHHH--HhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHH
Confidence 23788899873 11222 222 222 1234599999953211 00 0 011223589999999999988
Q ss_pred hhcccCCC
Q 011431 373 LSSCNSSS 380 (486)
Q Consensus 373 LF~~~a~~ 380 (486)
...++|..
T Consensus 252 iL~kka~~ 259 (408)
T COG0593 252 ILRKKAED 259 (408)
T ss_pred HHHHHHHh
Confidence 88875543
No 178
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=80.88 E-value=15 Score=37.77 Aligned_cols=71 Identities=10% Similarity=-0.047 Sum_probs=43.9
Q ss_pred cceeeceeccc--CHHHHHHHhcCCCCCCCCCEEEeeCCccc-cccccccCCCceEecCCCCCchhhhhhcccCC
Q 011431 308 SAAHPYVEDVI--DDAYMEDITDDSSPSLNLSRINSTSRFEQ-LWPETISATDTCTEDVTVDNSPSLNLSSCNSS 379 (486)
Q Consensus 308 Kr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrIIiTTR~~~-V~~~~~~~~~~~y~v~~L~~~es~~LF~~~a~ 379 (486)
...++++||+. +......++...-+-..++.+|++|.+.+ ++. ........+.+.+|+.++..+++..+..
T Consensus 141 ~~kVviIDead~m~~~aanaLLK~LEepp~~~~~IL~t~~~~~llp-ti~SRc~~i~l~~l~~~~i~~~L~~~~~ 214 (365)
T PRK07471 141 GWRVVIVDTADEMNANAANALLKVLEEPPARSLFLLVSHAPARLLP-TIRSRCRKLRLRPLAPEDVIDALAAAGP 214 (365)
T ss_pred CCEEEEEechHhcCHHHHHHHHHHHhcCCCCeEEEEEECCchhchH-HhhccceEEECCCCCHHHHHHHHHHhcc
Confidence 56688999986 34455555532211223566777666654 431 1111235789999999999999887643
No 179
>PRK00300 gmk guanylate kinase; Provisional
Probab=80.88 E-value=1.2 Score=41.55 Aligned_cols=24 Identities=0% Similarity=-0.367 Sum_probs=21.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+|+|+|.. |.|||||++.+....
T Consensus 6 ~~i~i~G~s-GsGKstl~~~l~~~~ 29 (205)
T PRK00300 6 LLIVLSGPS-GAGKSTLVKALLERD 29 (205)
T ss_pred CEEEEECCC-CCCHHHHHHHHHhhC
Confidence 578899999 999999999997764
No 180
>PRK13695 putative NTPase; Provisional
Probab=80.36 E-value=1.3 Score=40.25 Aligned_cols=24 Identities=4% Similarity=-0.266 Sum_probs=20.6
Q ss_pred eeeeeeccCccchhHHHHHHHhhhc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
.|.+.|.. |.|||||++.+++.+.
T Consensus 2 ~i~ltG~~-G~GKTTll~~i~~~l~ 25 (174)
T PRK13695 2 KIGITGPP-GVGKTTLVLKIAELLK 25 (174)
T ss_pred EEEEECCC-CCCHHHHHHHHHHHHH
Confidence 46789999 9999999999988764
No 181
>PHA02518 ParA-like protein; Provisional
Probab=80.32 E-value=1.2 Score=41.50 Aligned_cols=23 Identities=13% Similarity=-0.175 Sum_probs=18.1
Q ss_pred eeeeeeeccCccchhHHHHHHHh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
++|++++--||+||||++-++=.
T Consensus 1 ~ii~v~~~KGGvGKTT~a~~la~ 23 (211)
T PHA02518 1 KIIAVLNQKGGAGKTTVATNLAS 23 (211)
T ss_pred CEEEEEcCCCCCCHHHHHHHHHH
Confidence 36778877779999999987633
No 182
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=80.29 E-value=1.3 Score=38.42 Aligned_cols=23 Identities=9% Similarity=-0.315 Sum_probs=19.6
Q ss_pred eeeeeeccCccchhHHHHHHHhhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
+|.|.|.. |.||||+|+.+-...
T Consensus 1 ~I~i~G~~-GsGKst~a~~la~~~ 23 (147)
T cd02020 1 IIAIDGPA-GSGKSTVAKLLAKKL 23 (147)
T ss_pred CEEEECCC-CCCHHHHHHHHHHHh
Confidence 47789999 999999999886654
No 183
>PRK13768 GTPase; Provisional
Probab=80.28 E-value=1.2 Score=43.41 Aligned_cols=25 Identities=4% Similarity=-0.352 Sum_probs=20.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
.++.++|.| |.||||++..+-..+.
T Consensus 3 ~~i~v~G~~-G~GKTt~~~~~~~~l~ 27 (253)
T PRK13768 3 YIVFFLGTA-GSGKTTLTKALSDWLE 27 (253)
T ss_pred EEEEEECCC-CccHHHHHHHHHHHHH
Confidence 467789998 9999999988765543
No 184
>cd04155 Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.
Probab=80.28 E-value=1.6 Score=39.04 Aligned_cols=25 Identities=8% Similarity=-0.165 Sum_probs=21.0
Q ss_pred CceeeeeeeccCccchhHHHHHHHhh
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
+...|+|+|.. |.|||||++.+.+.
T Consensus 13 ~~~~v~i~G~~-g~GKStLl~~l~~~ 37 (173)
T cd04155 13 EEPRILILGLD-NAGKTTILKQLASE 37 (173)
T ss_pred CccEEEEEccC-CCCHHHHHHHHhcC
Confidence 34457899999 99999999999764
No 185
>cd00879 Sar1 Sar1 subfamily. Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.
Probab=80.12 E-value=2 Score=39.26 Aligned_cols=23 Identities=9% Similarity=-0.211 Sum_probs=19.4
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
..|.++|.+ |.|||||++.+.+.
T Consensus 20 ~ki~ilG~~-~~GKStLi~~l~~~ 42 (190)
T cd00879 20 AKILFLGLD-NAGKTTLLHMLKDD 42 (190)
T ss_pred CEEEEECCC-CCCHHHHHHHHhcC
Confidence 445899999 99999999988653
No 186
>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=80.07 E-value=6.1 Score=41.57 Aligned_cols=25 Identities=4% Similarity=-0.420 Sum_probs=19.6
Q ss_pred CceeeeeeeccCccchhHHHHHHHhh
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
...++-++|.. |.||||.+.++-..
T Consensus 98 ~p~vi~~vG~~-GsGKTTtaakLA~~ 122 (428)
T TIGR00959 98 PPTVILMVGLQ-GSGKTTTCGKLAYY 122 (428)
T ss_pred CCEEEEEECCC-CCcHHHHHHHHHHH
Confidence 35688899999 99999987665443
No 187
>TIGR01287 nifH nitrogenase iron protein. This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.
Probab=80.05 E-value=1.1 Score=43.97 Aligned_cols=22 Identities=9% Similarity=-0.118 Sum_probs=17.3
Q ss_pred eeeeeeeccCccchhHHHHHHHh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
+.|+|.|=| |+||||++-++=-
T Consensus 1 ~~ia~~gKG-GVGKTT~a~nLA~ 22 (275)
T TIGR01287 1 RQIAIYGKG-GIGKSTTTQNIAA 22 (275)
T ss_pred CeeEEeCCC-cCcHHHHHHHHHH
Confidence 468899977 9999998876643
No 188
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=79.91 E-value=1.4 Score=38.67 Aligned_cols=23 Identities=9% Similarity=-0.320 Sum_probs=19.3
Q ss_pred eeeeeccCccchhHHHHHHHhhhc
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
|.++|+. |-||||+|+.+-..+.
T Consensus 2 i~l~G~~-GsGKstla~~la~~l~ 24 (154)
T cd00464 2 IVLIGMM-GAGKTTVGRLLAKALG 24 (154)
T ss_pred EEEEcCC-CCCHHHHHHHHHHHhC
Confidence 5688999 9999999999976653
No 189
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=79.83 E-value=3.1 Score=41.75 Aligned_cols=28 Identities=11% Similarity=-0.242 Sum_probs=23.0
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
+.-..|.+.||. |-||||+++.+-..+.
T Consensus 131 ~~~~~I~l~G~~-GsGKStvg~~La~~Lg 158 (309)
T PRK08154 131 ARRRRIALIGLR-GAGKSTLGRMLAARLG 158 (309)
T ss_pred cCCCEEEEECCC-CCCHHHHHHHHHHHcC
Confidence 344678899999 9999999999877653
No 190
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=79.51 E-value=1.4 Score=40.56 Aligned_cols=24 Identities=4% Similarity=-0.334 Sum_probs=20.3
Q ss_pred eeeeeeccCccchhHHHHHHHhhhc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
++.|+|+. |.|||||++.+.....
T Consensus 4 ~i~l~G~s-GsGKsTl~~~l~~~~~ 27 (186)
T PRK10078 4 LIWLMGPS-GSGKDSLLAALRQREQ 27 (186)
T ss_pred EEEEECCC-CCCHHHHHHHHhccCC
Confidence 57789999 9999999999976543
No 191
>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=79.31 E-value=1.3 Score=44.76 Aligned_cols=20 Identities=5% Similarity=-0.298 Sum_probs=17.1
Q ss_pred ceeeeeeeccCccchhHHHHH
Q 011431 227 YRSYRCWLLCPLFSELRVLTN 247 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~ 247 (486)
.+++=..|.| |+||||+|-+
T Consensus 2 ~riv~f~GKG-GVGKTT~aaA 21 (322)
T COG0003 2 TRIVFFTGKG-GVGKTTIAAA 21 (322)
T ss_pred cEEEEEecCC-cccHHHHHHH
Confidence 4677788999 9999999877
No 192
>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=79.27 E-value=1.4 Score=38.43 Aligned_cols=23 Identities=4% Similarity=-0.200 Sum_probs=19.5
Q ss_pred eeeeeccCccchhHHHHHHHhhhc
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
|.|+|.. |.|||||++.+.....
T Consensus 2 i~i~Gps-GsGKstl~~~L~~~~~ 24 (137)
T cd00071 2 IVLSGPS-GVGKSTLLKRLLEEFD 24 (137)
T ss_pred EEEECCC-CCCHHHHHHHHHhcCC
Confidence 6789999 9999999999977543
No 193
>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=79.26 E-value=2.4 Score=39.55 Aligned_cols=110 Identities=8% Similarity=-0.064 Sum_probs=55.2
Q ss_pred eeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccCc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTTS 308 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~tK 308 (486)
+|.|.|-. |-||||++..+...+........+ .....+..........+...+ .+. +.......++..|+. .
T Consensus 3 lilI~Gpt-GSGKTTll~~ll~~~~~~~~~~i~---t~e~~~E~~~~~~~~~i~q~~--vg~-~~~~~~~~i~~aLr~-~ 74 (198)
T cd01131 3 LVLVTGPT-GSGKSTTLAAMIDYINKNKTHHIL---TIEDPIEFVHESKRSLINQRE--VGL-DTLSFENALKAALRQ-D 74 (198)
T ss_pred EEEEECCC-CCCHHHHHHHHHHHhhhcCCcEEE---EEcCCccccccCccceeeecc--cCC-CccCHHHHHHHHhcC-C
Confidence 46678888 999999999887765433222211 111111111100000000000 010 000112334555655 4
Q ss_pred ceeeceecccCHHHHHHHhcCCCCCCCCCEEEeeCCccccc
Q 011431 309 AAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQLW 349 (486)
Q Consensus 309 r~LlVLDDVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~ 349 (486)
--.|++|.+-+.......+.. ...|-.++.|+-..++.
T Consensus 75 pd~ii~gEird~e~~~~~l~~---a~~G~~v~~t~Ha~~~~ 112 (198)
T cd01131 75 PDVILVGEMRDLETIRLALTA---AETGHLVMSTLHTNSAA 112 (198)
T ss_pred cCEEEEcCCCCHHHHHHHHHH---HHcCCEEEEEecCCcHH
Confidence 568899999887766655532 23466678777665553
No 194
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=79.24 E-value=2.4 Score=42.01 Aligned_cols=30 Identities=13% Similarity=-0.046 Sum_probs=26.1
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhhhccc
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQLMDN 255 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~ 255 (486)
.+..++.|.|.. |.|||||+..+.+.+...
T Consensus 102 ~~~~~v~l~G~p-GsGKTTLl~~l~~~l~~~ 131 (290)
T PRK10463 102 RKQLVLNLVSSP-GSGKTTLLTETLMRLKDS 131 (290)
T ss_pred cCCeEEEEECCC-CCCHHHHHHHHHHHhccC
Confidence 578899999999 999999999998876554
No 195
>PTZ00202 tuzin; Provisional
Probab=79.08 E-value=6.3 Score=41.51 Aligned_cols=64 Identities=9% Similarity=-0.127 Sum_probs=41.3
Q ss_pred hHHHHHHHhhc-C-CCceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccHHHHHHHHhhhhcc
Q 011431 213 LLDEVLSLLRN-A-EGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLES 283 (486)
Q Consensus 213 ~l~~v~~ll~~-~-~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~ 283 (486)
-+..+..++.+ + ...+++.|.|+. |.|||||++....... + ........+...+.+.++..|+-
T Consensus 270 Ela~Lr~VL~~~d~~~privvLtG~~-G~GKTTLlR~~~~~l~--~----~qL~vNprg~eElLr~LL~ALGV 335 (550)
T PTZ00202 270 EESWVRQVLRRLDTAHPRIVVFTGFR-GCGKSSLCRSAVRKEG--M----PAVFVDVRGTEDTLRSVVKALGV 335 (550)
T ss_pred HHHHHHHHHhccCCCCceEEEEECCC-CCCHHHHHHHHHhcCC--c----eEEEECCCCHHHHHHHHHHHcCC
Confidence 34455555543 2 234588899999 9999999999876553 1 12222223666778888888873
No 196
>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=79.07 E-value=1.5 Score=39.49 Aligned_cols=26 Identities=8% Similarity=-0.102 Sum_probs=22.3
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhcc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
++++|+|-. |.|||||+..+...+..
T Consensus 2 ~vi~i~G~~-gsGKTTli~~L~~~l~~ 27 (159)
T cd03116 2 KVIGFVGYS-GSGKTTLLEKLIPALSA 27 (159)
T ss_pred eEEEEECCC-CCCHHHHHHHHHHHHHH
Confidence 578999999 99999999999876643
No 197
>cd00154 Rab Rab family. Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di
Probab=79.00 E-value=1.4 Score=38.15 Aligned_cols=21 Identities=10% Similarity=-0.241 Sum_probs=18.4
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|.. |+|||||+..+.+.
T Consensus 3 i~~~G~~-~~GKStl~~~l~~~ 23 (159)
T cd00154 3 IVLIGDS-GVGKTSLLLRFVDG 23 (159)
T ss_pred EEEECCC-CCCHHHHHHHHHhC
Confidence 5689999 99999999998764
No 198
>PRK13946 shikimate kinase; Provisional
Probab=79.00 E-value=1.6 Score=40.19 Aligned_cols=28 Identities=14% Similarity=-0.177 Sum_probs=22.9
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhcccc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNY 256 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F 256 (486)
+.|.+.||. |.||||+++.+-+++.-.|
T Consensus 11 ~~I~l~G~~-GsGKsti~~~LA~~Lg~~~ 38 (184)
T PRK13946 11 RTVVLVGLM-GAGKSTVGRRLATMLGLPF 38 (184)
T ss_pred CeEEEECCC-CCCHHHHHHHHHHHcCCCe
Confidence 467899999 9999999999987764443
No 199
>PLN02796 D-glycerate 3-kinase
Probab=78.77 E-value=1.5 Score=44.54 Aligned_cols=28 Identities=4% Similarity=-0.339 Sum_probs=23.8
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhhcc
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
..-+|||.|.. |-|||||++.+...+..
T Consensus 99 ~pliIGI~G~s-GSGKSTLa~~L~~lL~~ 126 (347)
T PLN02796 99 PPLVIGISAPQ-GCGKTTLVFALVYLFNA 126 (347)
T ss_pred CCEEEEEECCC-CCcHHHHHHHHHHHhcc
Confidence 45789999999 99999999999876643
No 200
>cd01876 YihA_EngB The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.
Probab=78.76 E-value=1.3 Score=38.80 Aligned_cols=19 Identities=0% Similarity=-0.260 Sum_probs=17.4
Q ss_pred eeeeeccCccchhHHHHHHH
Q 011431 230 YRCWLLCPLFSELRVLTNDV 249 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy 249 (486)
|+++|.. |.|||||.+.+.
T Consensus 2 i~l~G~~-g~GKTtL~~~l~ 20 (170)
T cd01876 2 IAFAGRS-NVGKSSLINALT 20 (170)
T ss_pred EEEEcCC-CCCHHHHHHHHh
Confidence 5789999 999999999987
No 201
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=78.71 E-value=7.5 Score=42.13 Aligned_cols=23 Identities=9% Similarity=-0.159 Sum_probs=18.3
Q ss_pred eeeeeeccCccchhHHHHHHHhhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+=++|-- |+||||+|+.+-..+
T Consensus 40 a~Lf~Gp~-G~GKTt~A~~lAk~l 62 (527)
T PRK14969 40 AYLFTGTR-GVGKTTLARILAKSL 62 (527)
T ss_pred EEEEECCC-CCCHHHHHHHHHHHh
Confidence 34478888 999999999886654
No 202
>PRK13949 shikimate kinase; Provisional
Probab=78.59 E-value=1.6 Score=39.63 Aligned_cols=25 Identities=4% Similarity=-0.370 Sum_probs=20.6
Q ss_pred eeeeeeccCccchhHHHHHHHhhhcc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
-|.++|+. |.||||+++.+-+.+.-
T Consensus 3 ~I~liG~~-GsGKstl~~~La~~l~~ 27 (169)
T PRK13949 3 RIFLVGYM-GAGKTTLGKALARELGL 27 (169)
T ss_pred EEEEECCC-CCCHHHHHHHHHHHcCC
Confidence 36789999 99999999998776543
No 203
>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]
Probab=78.58 E-value=1.4 Score=40.03 Aligned_cols=20 Identities=5% Similarity=-0.463 Sum_probs=17.6
Q ss_pred eeeeeeccCccchhHHHHHHH
Q 011431 229 SYRCWLLCPLFSELRVLTNDV 249 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy 249 (486)
.|.|-|.. |+||||+++.+-
T Consensus 2 ~I~ITGTP-GvGKTT~~~~L~ 21 (180)
T COG1936 2 LIAITGTP-GVGKTTVCKLLR 21 (180)
T ss_pred eEEEeCCC-CCchHHHHHHHH
Confidence 57899999 999999998874
No 204
>TIGR01968 minD_bact septum site-determining protein MinD. This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.
Probab=78.17 E-value=1.5 Score=42.21 Aligned_cols=25 Identities=12% Similarity=-0.255 Sum_probs=19.5
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
++|++.+.-||+||||++.++=..+
T Consensus 2 ~ii~v~s~kGGvGKTt~a~~lA~~l 26 (261)
T TIGR01968 2 RVIVITSGKGGVGKTTTTANLGTAL 26 (261)
T ss_pred eEEEEecCCCCccHHHHHHHHHHHH
Confidence 5788888878999999987764433
No 205
>TIGR00231 small_GTP small GTP-binding protein domain. This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.
Probab=78.06 E-value=1.5 Score=37.72 Aligned_cols=22 Identities=5% Similarity=-0.265 Sum_probs=18.7
Q ss_pred eeeeeeccCccchhHHHHHHHhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
-|.++|.. |.|||||+..+...
T Consensus 3 ki~~~G~~-~~GKstl~~~l~~~ 24 (161)
T TIGR00231 3 KIVIVGDP-NVGKSTLLNRLLGN 24 (161)
T ss_pred EEEEECCC-CCCHHHHHHHHhCC
Confidence 46799999 99999999888654
No 206
>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A ....
Probab=77.97 E-value=18 Score=32.40 Aligned_cols=59 Identities=3% Similarity=-0.111 Sum_probs=29.7
Q ss_pred cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCccccccccccCCCceEecCCCC
Q 011431 308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFEQLWPETISATDTCTEDVTVD 366 (486)
Q Consensus 308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~~~~~y~v~~L~ 366 (486)
....+|+|++.. ......|+-..-+-...+++|++|++.+-+-.....-...+.+++|+
T Consensus 102 ~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~SRc~~i~~~~ls 162 (162)
T PF13177_consen 102 KYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRSRCQVIRFRPLS 162 (162)
T ss_dssp SSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHTTSEEEEE----
T ss_pred CceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHhhceEEecCCCC
Confidence 466788999884 44555555211012358898888887774311111122356666654
No 207
>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=77.93 E-value=1.4 Score=39.03 Aligned_cols=23 Identities=4% Similarity=-0.192 Sum_probs=19.1
Q ss_pred eeeeeeccCccchhHHHHHHHhhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
++++.|-| |.||||++..+...+
T Consensus 1 ~i~~~G~~-GsGKTt~~~~l~~~~ 23 (148)
T cd03114 1 VIGITGVP-GAGKSTLIDALITAL 23 (148)
T ss_pred CEEEECCC-CCcHHHHHHHHHHHH
Confidence 36889999 999999998886554
No 208
>PLN02318 phosphoribulokinase/uridine kinase
Probab=77.89 E-value=2.7 Score=45.75 Aligned_cols=28 Identities=4% Similarity=-0.200 Sum_probs=24.1
Q ss_pred CCCceeeeeeeccCccchhHHHHHHHhhh
Q 011431 224 AEGYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 224 ~~~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
..++.+|||.|-. |-||||||+.+...+
T Consensus 62 ~~~riIIGIaGpS-GSGKTTLAk~LaglL 89 (656)
T PLN02318 62 NDGIILVGVAGPS-GAGKTVFTEKVLNFM 89 (656)
T ss_pred CCCeEEEEEECCC-CCcHHHHHHHHHhhC
Confidence 4578899999999 999999999997654
No 209
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=77.70 E-value=4.6 Score=45.36 Aligned_cols=155 Identities=14% Similarity=0.025 Sum_probs=78.7
Q ss_pred HHHhhcCCCceeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeec---cHHHHHHHHhhhhccccc-cccc---
Q 011431 218 LSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEG---EVKKLDQRLLRFLESVDK-HVAS--- 290 (486)
Q Consensus 218 ~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~---~l~~lqk~ll~~L~~~d~-~~~~--- 290 (486)
...|....+.|.+=|.-.. |.|||||+-+..... -+...+.|.+... ++......++..|...-. ..++
T Consensus 28 ~~~L~~~~~~RL~li~APA-GfGKttl~aq~~~~~---~~~~~v~Wlslde~dndp~rF~~yLi~al~~~~p~~~~~a~~ 103 (894)
T COG2909 28 LDRLRRANDYRLILISAPA-GFGKTTLLAQWRELA---ADGAAVAWLSLDESDNDPARFLSYLIAALQQATPTLGDEAQT 103 (894)
T ss_pred HHHHhcCCCceEEEEeCCC-CCcHHHHHHHHHHhc---CcccceeEeecCCccCCHHHHHHHHHHHHHHhCccccHHHHH
Confidence 3444545577888888888 999999998875522 1234567766642 233334444444431100 0000
Q ss_pred ----cccc---cccccccccccc-Ccceeeceeccc---CHH---HHHHHhcCCCCCCCCCEEEeeCCccccccccccC-
Q 011431 291 ----YDRY---GSASFEQPRPQT-TSAAHPYVEDVI---DDA---YMEDITDDSSPSLNLSRINSTSRFEQLWPETISA- 355 (486)
Q Consensus 291 ----~~~~---g~~s~l~~~L~~-tKr~LlVLDDVw---~~~---~~~~l~~~~~~~~~GSrIIiTTR~~~V~~~~~~~- 355 (486)
.... +.-+.+..-|.. .+...+||||-- +.. .+..+... ..++=..|+|||+.-=+.-....
T Consensus 104 l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~---~P~~l~lvv~SR~rP~l~la~lRl 180 (894)
T COG2909 104 LLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKH---APENLTLVVTSRSRPQLGLARLRL 180 (894)
T ss_pred HHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHh---CCCCeEEEEEeccCCCCcccceee
Confidence 0000 000111111110 145689999932 221 23333332 23578999999987543100000
Q ss_pred CCceEecC----CCCCchhhhhhcccCC
Q 011431 356 TDTCTEDV----TVDNSPSLNLSSCNSS 379 (486)
Q Consensus 356 ~~~~y~v~----~L~~~es~~LF~~~a~ 379 (486)
.+...|+. .++.+||-.+|..+-.
T Consensus 181 r~~llEi~~~~Lrf~~eE~~~fl~~~~~ 208 (894)
T COG2909 181 RDELLEIGSEELRFDTEEAAAFLNDRGS 208 (894)
T ss_pred hhhHHhcChHhhcCChHHHHHHHHHcCC
Confidence 12233333 3788999999887653
No 210
>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase. Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.
Probab=77.59 E-value=1.5 Score=41.18 Aligned_cols=20 Identities=10% Similarity=-0.135 Sum_probs=16.4
Q ss_pred eeeeeeeccCccchhHHHHHH
Q 011431 228 RSYRCWLLCPLFSELRVLTND 248 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~v 248 (486)
|+|++.|=| |+||||++-++
T Consensus 1 ~~iav~gKG-GvGKTt~~~nL 20 (212)
T cd02117 1 RQIAIYGKG-GIGKSTTSQNL 20 (212)
T ss_pred CEEEEECCC-cCcHHHHHHHH
Confidence 468888966 99999987665
No 211
>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu
Probab=77.56 E-value=1.5 Score=38.50 Aligned_cols=21 Identities=10% Similarity=-0.274 Sum_probs=18.5
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|.. |.|||||+..+.+.
T Consensus 2 i~iiG~~-~~GKssli~~~~~~ 22 (158)
T cd00878 2 ILILGLD-GAGKTTILYKLKLG 22 (158)
T ss_pred EEEEcCC-CCCHHHHHHHHhcC
Confidence 5789999 99999999998765
No 212
>cd01862 Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-
Probab=77.55 E-value=1.6 Score=38.92 Aligned_cols=21 Identities=5% Similarity=-0.135 Sum_probs=18.2
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|.+ |+|||||++.+.+.
T Consensus 3 i~viG~~-~~GKSsl~~~l~~~ 23 (172)
T cd01862 3 VIILGDS-GVGKTSLMNQYVNK 23 (172)
T ss_pred EEEECCC-CCCHHHHHHHHhcC
Confidence 6789999 99999999888664
No 213
>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=77.48 E-value=1.7 Score=37.34 Aligned_cols=24 Identities=8% Similarity=-0.281 Sum_probs=20.5
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|+|-- |.|||||++.+....
T Consensus 12 ~~~~i~G~n-GsGKStLl~~l~g~~ 35 (137)
T PF00005_consen 12 EIVAIVGPN-GSGKSTLLKALAGLL 35 (137)
T ss_dssp SEEEEEEST-TSSHHHHHHHHTTSS
T ss_pred CEEEEEccC-CCccccceeeecccc
Confidence 478899999 999999999987643
No 214
>PRK04182 cytidylate kinase; Provisional
Probab=77.36 E-value=1.9 Score=38.91 Aligned_cols=23 Identities=9% Similarity=-0.330 Sum_probs=20.4
Q ss_pred eeeeeeccCccchhHHHHHHHhhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
+|.|.|+- |-||||+++.+-+++
T Consensus 2 ~I~i~G~~-GsGKstia~~la~~l 24 (180)
T PRK04182 2 IITISGPP-GSGKTTVARLLAEKL 24 (180)
T ss_pred EEEEECCC-CCCHHHHHHHHHHHc
Confidence 67899999 999999999997765
No 215
>cd00876 Ras Ras family. The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m
Probab=77.35 E-value=1.6 Score=38.06 Aligned_cols=20 Identities=5% Similarity=-0.253 Sum_probs=17.7
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|.|+|.. |.|||||+..+.+
T Consensus 2 i~i~G~~-~~GKTsli~~l~~ 21 (160)
T cd00876 2 VVVLGAG-GVGKSAITIQFVK 21 (160)
T ss_pred EEEECCC-CCCHHHHHHHHHh
Confidence 5789999 9999999998865
No 216
>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=77.18 E-value=1.8 Score=39.63 Aligned_cols=24 Identities=4% Similarity=-0.281 Sum_probs=20.6
Q ss_pred eeeeeeccCccchhHHHHHHHhhhc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
+|.|-|.- |.||||+++.+.+.+.
T Consensus 2 ~I~ieG~~-GsGKtT~~~~L~~~l~ 25 (200)
T cd01672 2 FIVFEGID-GAGKTTLIELLAERLE 25 (200)
T ss_pred EEEEECCC-CCCHHHHHHHHHHHHH
Confidence 57788988 9999999999987763
No 217
>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=77.03 E-value=1.8 Score=37.97 Aligned_cols=22 Identities=9% Similarity=-0.198 Sum_probs=18.4
Q ss_pred eeeeeccCccchhHHHHHHHhhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
+-+.|.. |.||||+|+.+-...
T Consensus 2 i~l~G~~-GsGKST~a~~l~~~~ 23 (150)
T cd02021 2 IVVMGVS-GSGKSTVGKALAERL 23 (150)
T ss_pred EEEEcCC-CCCHHHHHHHHHhhc
Confidence 4578999 999999999986653
No 218
>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=76.94 E-value=1.6 Score=38.94 Aligned_cols=22 Identities=9% Similarity=0.022 Sum_probs=18.3
Q ss_pred eeeeeccCccchhHHHHHHHhhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
|.++|.. |.||||+|+.+-+.+
T Consensus 1 i~l~G~~-GsGKSTla~~l~~~l 22 (163)
T TIGR01313 1 FVLMGVA-GSGKSTIASALAHRL 22 (163)
T ss_pred CEEECCC-CCCHHHHHHHHHHhc
Confidence 3578998 999999999986664
No 219
>COG1888 Uncharacterized protein conserved in archaea [Function unknown]
Probab=76.92 E-value=4.4 Score=32.40 Aligned_cols=44 Identities=20% Similarity=0.280 Sum_probs=34.4
Q ss_pred HHHHHhhcCCCeeEEEe-----ecCC--CeEEEEeeccCHHHHHHHhhccc
Q 011431 401 AAFSIVSEFIGITKISF-----DFKV--KKMTVVGDNFDVLSAGTKLNGLC 444 (486)
Q Consensus 401 ~a~k~~~~~~Gv~~v~~-----d~~~--~~~~V~G~~~d~~~~~~~l~k~~ 444 (486)
..-+.+++++||+.|.+ |.+. =++||-|+++|-.++.+.|.+.|
T Consensus 23 e~A~~lskl~gVegVNItv~eiD~et~~~~itIeG~~ldydei~~~iE~~G 73 (97)
T COG1888 23 ELALELSKLEGVEGVNITVTEIDVETENLKITIEGTNLDYDEIEEVIEELG 73 (97)
T ss_pred HHHHHHhhcCCcceEEEEEEEeeehhcceEEEEEcCCCCHHHHHHHHHHcC
Confidence 34455678888887765 4433 38999999999999999999977
No 220
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=76.90 E-value=2.2 Score=38.84 Aligned_cols=25 Identities=12% Similarity=-0.215 Sum_probs=20.8
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
+.|.++|+. |.|||||++.+-+.+.
T Consensus 5 ~~I~liG~~-GaGKStl~~~La~~l~ 29 (172)
T PRK05057 5 RNIFLVGPM-GAGKSTIGRQLAQQLN 29 (172)
T ss_pred CEEEEECCC-CcCHHHHHHHHHHHcC
Confidence 357799999 9999999999977653
No 221
>cd04119 RJL RJL (RabJ-Like) subfamily. RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.
Probab=76.86 E-value=1.7 Score=38.26 Aligned_cols=21 Identities=0% Similarity=-0.247 Sum_probs=17.9
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|.+ |+|||||+..+.++
T Consensus 3 i~~vG~~-~vGKTsli~~l~~~ 23 (168)
T cd04119 3 VISMGNS-GVGKSCIIKRYCEG 23 (168)
T ss_pred EEEECCC-CCCHHHHHHHHHhC
Confidence 5688999 99999999988764
No 222
>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=76.73 E-value=1.8 Score=39.49 Aligned_cols=23 Identities=4% Similarity=-0.387 Sum_probs=18.9
Q ss_pred eeeeeeccCccchhHHHHHHHhhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
+|-|.|+. |.||||+|+.+-.+.
T Consensus 1 ~i~i~G~p-GsGKst~a~~la~~~ 23 (183)
T TIGR01359 1 VVFVLGGP-GSGKGTQCAKIVENF 23 (183)
T ss_pred CEEEECCC-CCCHHHHHHHHHHHc
Confidence 45688999 999999999886643
No 223
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=76.41 E-value=2 Score=39.31 Aligned_cols=26 Identities=0% Similarity=-0.179 Sum_probs=22.2
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhh
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
+...-|+++|.. |.|||||++.+.+.
T Consensus 22 ~~~~~v~ivG~~-~~GKSsli~~l~~~ 47 (196)
T PRK00454 22 DDGPEIAFAGRS-NVGKSSLINALTNR 47 (196)
T ss_pred CCCCEEEEEcCC-CCCHHHHHHHHhCC
Confidence 456678999999 99999999999764
No 224
>smart00173 RAS Ras subfamily of RAS small GTPases. Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades
Probab=76.33 E-value=1.9 Score=38.18 Aligned_cols=20 Identities=5% Similarity=-0.262 Sum_probs=17.4
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|.++|-+ |+|||||++.+.+
T Consensus 3 i~v~G~~-~~GKTsli~~~~~ 22 (164)
T smart00173 3 LVVLGSG-GVGKSALTIQFVQ 22 (164)
T ss_pred EEEECCC-CCCHHHHHHHHHh
Confidence 5688999 9999999988865
No 225
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=76.30 E-value=1.9 Score=38.65 Aligned_cols=21 Identities=0% Similarity=-0.352 Sum_probs=16.0
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.|.|-- |.|||||++.+..+
T Consensus 2 I~i~G~~-stGKTTL~~~L~~~ 22 (163)
T PF13521_consen 2 IVITGGP-STGKTTLIEALAAR 22 (163)
T ss_dssp EEEE--T-TSHHHHHHHHHHHH
T ss_pred EEEECCC-CCCHHHHHHHHHHc
Confidence 5677777 99999999998765
No 226
>PRK06761 hypothetical protein; Provisional
Probab=76.15 E-value=2.1 Score=42.35 Aligned_cols=26 Identities=12% Similarity=-0.215 Sum_probs=22.3
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhcc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
++|-|.|.. |.||||+++.+.+.+..
T Consensus 4 ~lIvI~G~~-GsGKTTla~~L~~~L~~ 29 (282)
T PRK06761 4 KLIIIEGLP-GFGKSTTAKMLNDILSQ 29 (282)
T ss_pred cEEEEECCC-CCCHHHHHHHHHHhcCc
Confidence 467789999 99999999999987754
No 227
>PRK14490 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MobA; Provisional
Probab=76.11 E-value=1.9 Score=44.36 Aligned_cols=27 Identities=11% Similarity=-0.042 Sum_probs=23.5
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDN 255 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~ 255 (486)
-+|+|+|.. |.|||||+..+...+...
T Consensus 6 ~~i~i~G~~-gsGKTTl~~~l~~~l~~~ 32 (369)
T PRK14490 6 FEIAFCGYS-GSGKTTLITALVRRLSER 32 (369)
T ss_pred EEEEEEeCC-CCCHHHHHHHHHHHHhhC
Confidence 578999999 999999999998877644
No 228
>cd04123 Rab21 Rab21 subfamily. The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site
Probab=76.08 E-value=1.9 Score=37.76 Aligned_cols=21 Identities=5% Similarity=-0.190 Sum_probs=18.1
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|-+ |+|||||+..+.+.
T Consensus 3 i~i~G~~-~~GKStli~~l~~~ 23 (162)
T cd04123 3 VVLLGEG-RVGKTSLVLRYVEN 23 (162)
T ss_pred EEEECCC-CCCHHHHHHHHHhC
Confidence 5789999 99999999888764
No 229
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=76.00 E-value=2.1 Score=39.97 Aligned_cols=24 Identities=0% Similarity=-0.371 Sum_probs=20.5
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+|-|.|+. |.||||+|+.+-.++
T Consensus 4 ~~i~i~G~~-G~GKst~a~~l~~~~ 27 (197)
T PRK12339 4 TIHFIGGIP-GVGKTSISGYIARHR 27 (197)
T ss_pred eEEEEECCC-CCCHHHHHHHHHHhc
Confidence 577899999 999999999887663
No 230
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=75.95 E-value=1.8 Score=42.80 Aligned_cols=27 Identities=4% Similarity=-0.219 Sum_probs=21.9
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
..+++.++|-. |+||||++..+-....
T Consensus 193 ~~~vi~~vGpt-GvGKTTt~~kLa~~~~ 219 (282)
T TIGR03499 193 QGGVIALVGPT-GVGKTTTLAKLAARFV 219 (282)
T ss_pred CCeEEEEECCC-CCCHHHHHHHHHHHHH
Confidence 35689999998 9999999988766543
No 231
>cd01878 HflX HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.
Probab=75.94 E-value=2 Score=39.82 Aligned_cols=26 Identities=4% Similarity=-0.146 Sum_probs=22.4
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhh
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
++...|+|+|-+ |.|||||.+.+.+.
T Consensus 39 ~~~~~I~iiG~~-g~GKStLl~~l~~~ 64 (204)
T cd01878 39 SGIPTVALVGYT-NAGKSTLFNALTGA 64 (204)
T ss_pred cCCCeEEEECCC-CCCHHHHHHHHhcc
Confidence 456788999999 99999999888764
No 232
>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.
Probab=75.85 E-value=1.9 Score=35.75 Aligned_cols=25 Identities=8% Similarity=-0.238 Sum_probs=18.6
Q ss_pred eeeeeeccCccchhHHHHHHHhhhc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
+|.+.|.-||+||||++.++-..+.
T Consensus 1 ~i~~~~~kgg~gkt~~~~~la~~~~ 25 (106)
T cd03111 1 VIAFIGAKGGVGATTLAANLAVALA 25 (106)
T ss_pred CEEEECCCCCCcHHHHHHHHHHHHH
Confidence 3567777789999999987755443
No 233
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=75.75 E-value=1.9 Score=37.97 Aligned_cols=21 Identities=5% Similarity=-0.270 Sum_probs=18.3
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|.. |.|||||++.+.+.
T Consensus 3 v~v~G~~-~~GKTtli~~l~~~ 23 (164)
T smart00175 3 IILIGDS-GVGKSSLLSRFTDG 23 (164)
T ss_pred EEEECCC-CCCHHHHHHHHhcC
Confidence 5689999 99999999998764
No 234
>cd04159 Arl10_like Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.
Probab=75.72 E-value=1.8 Score=37.51 Aligned_cols=21 Identities=5% Similarity=-0.277 Sum_probs=18.1
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|+++|-. |.|||||.+.+.+.
T Consensus 2 i~i~G~~-~~GKssl~~~l~~~ 22 (159)
T cd04159 2 ITLVGLQ-NSGKTTLVNVIAGG 22 (159)
T ss_pred EEEEcCC-CCCHHHHHHHHccC
Confidence 5789999 99999999988654
No 235
>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=75.70 E-value=4.5 Score=39.80 Aligned_cols=115 Identities=10% Similarity=-0.016 Sum_probs=58.0
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhhccc-----cccceEEEEeeeccHHHHHHHHhhhhccccc--cccccccccccc
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQLMDN-----YENSDVTLAKFEGEVKKLDQRLLRFLESVDK--HVASYDRYGSAS 298 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~-----F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~--~~~~~~~~g~~s 298 (486)
...-++|+|-- |-|||||++.+...+... |+...+..+ . ....+...+ ..+-..+. ..+..+....+.
T Consensus 110 ~~~~~~i~g~~-g~GKttl~~~l~~~~~~~~G~i~~~g~~v~~~--d-~~~ei~~~~-~~~~q~~~~~r~~v~~~~~k~~ 184 (270)
T TIGR02858 110 RVLNTLIISPP-QCGKTTLLRDLARILSTGISQLGLRGKKVGIV--D-ERSEIAGCV-NGVPQHDVGIRTDVLDGCPKAE 184 (270)
T ss_pred CeeEEEEEcCC-CCCHHHHHHHHhCccCCCCceEEECCEEeecc--h-hHHHHHHHh-cccccccccccccccccchHHH
Confidence 45667899998 999999999997765432 222222111 1 011111111 00000000 000000000111
Q ss_pred ccccccccCcceeeceecccCHHHHHHHhcCCCCCCCCCEEEeeCCcccc
Q 011431 299 FEQPRPQTTSAAHPYVEDVIDDAYMEDITDDSSPSLNLSRINSTSRFEQL 348 (486)
Q Consensus 299 ~l~~~L~~tKr~LlVLDDVw~~~~~~~l~~~~~~~~~GSrIIiTTR~~~V 348 (486)
-+...+.....-+|++|-+-.......+.... ..|..||+||-+.++
T Consensus 185 ~~~~~i~~~~P~villDE~~~~e~~~~l~~~~---~~G~~vI~ttH~~~~ 231 (270)
T TIGR02858 185 GMMMLIRSMSPDVIVVDEIGREEDVEALLEAL---HAGVSIIATAHGRDV 231 (270)
T ss_pred HHHHHHHhCCCCEEEEeCCCcHHHHHHHHHHH---hCCCEEEEEechhHH
Confidence 12223332256788999988776666665432 257889999987666
No 236
>PRK13230 nitrogenase reductase-like protein; Reviewed
Probab=75.69 E-value=1.8 Score=42.53 Aligned_cols=22 Identities=9% Similarity=-0.013 Sum_probs=17.2
Q ss_pred eeeeeeeccCccchhHHHHHHHh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
++|+|+|=| |+||||++-++=.
T Consensus 2 ~~i~~~gKG-GVGKTT~a~nLA~ 23 (279)
T PRK13230 2 RKFCFYGKG-GIGKSTTVCNIAA 23 (279)
T ss_pred cEEEEECCC-CCcHHHHHHHHHH
Confidence 467888977 9999998876533
No 237
>TIGR01969 minD_arch cell division ATPase MinD, archaeal. This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown.
Probab=75.68 E-value=1.9 Score=41.29 Aligned_cols=24 Identities=8% Similarity=-0.321 Sum_probs=18.1
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
++|++.+.-||+||||+|-++-..
T Consensus 1 ~ii~v~~~KGGvGKTt~a~~LA~~ 24 (251)
T TIGR01969 1 RIITIASGKGGTGKTTITANLGVA 24 (251)
T ss_pred CEEEEEcCCCCCcHHHHHHHHHHH
Confidence 467777777799999988766443
No 238
>cd04113 Rab4 Rab4 subfamily. Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p
Probab=75.61 E-value=2 Score=37.93 Aligned_cols=21 Identities=10% Similarity=-0.157 Sum_probs=17.8
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|.+ |+|||||++.+.+.
T Consensus 3 i~v~G~~-~vGKTsli~~l~~~ 23 (161)
T cd04113 3 FIIIGSS-GTGKSCLLHRFVEN 23 (161)
T ss_pred EEEECCC-CCCHHHHHHHHHhC
Confidence 5689999 99999999988653
No 239
>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional
Probab=75.59 E-value=2 Score=44.80 Aligned_cols=27 Identities=4% Similarity=-0.296 Sum_probs=23.0
Q ss_pred CCCceeeeeeeccCccchhHHHHHHHhh
Q 011431 224 AEGYRSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 224 ~~~~~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
..-++.|+|.|.. |.|||||++++.+.
T Consensus 216 ~~~~~~IvI~G~~-gsGKTTL~~~La~~ 242 (399)
T PRK08099 216 PFFVRTVAILGGE-SSGKSTLVNKLANI 242 (399)
T ss_pred hCCCcEEEEEcCC-CCCHHHHHHHHHHH
Confidence 3467889999999 99999999988765
No 240
>PRK13948 shikimate kinase; Provisional
Probab=75.40 E-value=2.4 Score=39.15 Aligned_cols=30 Identities=10% Similarity=-0.181 Sum_probs=23.5
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhhcccc
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQLMDNY 256 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F 256 (486)
..+.|.++||- |.||||+++.+-+++...|
T Consensus 9 ~~~~I~LiG~~-GsGKSTvg~~La~~lg~~~ 38 (182)
T PRK13948 9 PVTWVALAGFM-GTGKSRIGWELSRALMLHF 38 (182)
T ss_pred CCCEEEEECCC-CCCHHHHHHHHHHHcCCCE
Confidence 44567799999 9999999999977664443
No 241
>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=75.32 E-value=4.7 Score=35.18 Aligned_cols=24 Identities=0% Similarity=-0.227 Sum_probs=19.6
Q ss_pred eeeeeccCccchhHHHHHHHhhhcc
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
+.|.|.. |.||||++..+......
T Consensus 2 ~~i~G~~-G~GKT~l~~~i~~~~~~ 25 (165)
T cd01120 2 ILVFGPT-GSGKTTLALQLALNIAT 25 (165)
T ss_pred eeEeCCC-CCCHHHHHHHHHHHHHh
Confidence 5688888 99999999998776543
No 242
>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=75.32 E-value=3.6 Score=38.39 Aligned_cols=36 Identities=8% Similarity=-0.078 Sum_probs=23.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEee
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKF 266 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~ 266 (486)
+++.++|.. |+||||.+-++-.+...+ ...+..++.
T Consensus 2 ~vi~lvGpt-GvGKTTt~aKLAa~~~~~--~~~v~lis~ 37 (196)
T PF00448_consen 2 KVIALVGPT-GVGKTTTIAKLAARLKLK--GKKVALISA 37 (196)
T ss_dssp EEEEEEEST-TSSHHHHHHHHHHHHHHT--T--EEEEEE
T ss_pred EEEEEECCC-CCchHhHHHHHHHHHhhc--cccceeecC
Confidence 578899999 999988766665544433 333444444
No 243
>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=75.25 E-value=2.4 Score=37.03 Aligned_cols=25 Identities=4% Similarity=-0.310 Sum_probs=21.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
.+|.+.|.- |.||||+++.+...+.
T Consensus 23 ~~i~l~G~l-GaGKTtl~~~l~~~lg 47 (133)
T TIGR00150 23 TVVLLKGDL-GAGKTTLVQGLLQGLG 47 (133)
T ss_pred CEEEEEcCC-CCCHHHHHHHHHHHcC
Confidence 477888888 9999999999987653
No 244
>cd04163 Era Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.
Probab=75.14 E-value=2.2 Score=37.22 Aligned_cols=22 Identities=9% Similarity=-0.277 Sum_probs=19.0
Q ss_pred eeeeeeeccCccchhHHHHHHHh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
..|++.|.. |.|||||+..+..
T Consensus 4 ~~i~~~G~~-g~GKttl~~~l~~ 25 (168)
T cd04163 4 GFVAIVGRP-NVGKSTLLNALVG 25 (168)
T ss_pred eEEEEECCC-CCCHHHHHHHHhC
Confidence 468899999 9999999998754
No 245
>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase. Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.
Probab=75.06 E-value=3.7 Score=38.45 Aligned_cols=27 Identities=7% Similarity=-0.262 Sum_probs=20.7
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhh
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
...++|++.+.-||+||||++-++=..
T Consensus 33 ~~~~vi~v~s~kgG~GkSt~a~nLA~~ 59 (207)
T TIGR03018 33 KNNNLIMVTSSLPGEGKSFTAINLAIS 59 (207)
T ss_pred CCCeEEEEECCCCCCCHHHHHHHHHHH
Confidence 356889999766699999988766433
No 246
>PRK13232 nifH nitrogenase reductase; Reviewed
Probab=75.06 E-value=1.9 Score=42.23 Aligned_cols=22 Identities=9% Similarity=-0.123 Sum_probs=17.3
Q ss_pred eeeeeeeccCccchhHHHHHHHh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
++|++.|=| |+||||++-++=-
T Consensus 2 ~~iav~gKG-GVGKTT~a~nLA~ 23 (273)
T PRK13232 2 RQIAIYGKG-GIGKSTTTQNLTA 23 (273)
T ss_pred CEEEEECCC-CCcHHHHHHHHHH
Confidence 567888877 9999998876643
No 247
>cd01898 Obg Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.
Probab=75.02 E-value=2 Score=38.22 Aligned_cols=20 Identities=10% Similarity=-0.202 Sum_probs=17.8
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|+++|-. |.|||||++.+.+
T Consensus 3 v~ivG~~-~~GKStl~~~l~~ 22 (170)
T cd01898 3 VGLVGLP-NAGKSTLLSAISN 22 (170)
T ss_pred eEEECCC-CCCHHHHHHHHhc
Confidence 6789999 9999999999864
No 248
>PRK14738 gmk guanylate kinase; Provisional
Probab=74.96 E-value=2.3 Score=39.94 Aligned_cols=27 Identities=7% Similarity=-0.298 Sum_probs=21.8
Q ss_pred CCCceeeeeeeccCccchhHHHHHHHhh
Q 011431 224 AEGYRSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 224 ~~~~~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
....+.|-|.|.. |.|||||++.+.+.
T Consensus 10 ~~~~~~ivi~Gps-G~GK~tl~~~L~~~ 36 (206)
T PRK14738 10 PAKPLLVVISGPS-GVGKDAVLARMRER 36 (206)
T ss_pred CCCCeEEEEECcC-CCCHHHHHHHHHhc
Confidence 3456777789999 99999999998653
No 249
>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.
Probab=74.95 E-value=2.1 Score=37.42 Aligned_cols=20 Identities=0% Similarity=-0.275 Sum_probs=17.3
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|.++|.. |+|||||++.+.+
T Consensus 4 i~iiG~~-~vGKTsl~~~~~~ 23 (162)
T cd04138 4 LVVVGAG-GVGKSALTIQLIQ 23 (162)
T ss_pred EEEECCC-CCCHHHHHHHHHh
Confidence 5688999 9999999988765
No 250
>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=74.83 E-value=2 Score=38.10 Aligned_cols=23 Identities=9% Similarity=-0.215 Sum_probs=18.9
Q ss_pred eeeeeeccCccchhHHHHHHHhhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
+|-|.|.. |.||||||+.+-..+
T Consensus 1 ~i~i~G~~-GsGKSTla~~L~~~l 23 (149)
T cd02027 1 VIWLTGLS-GSGKSTIARALEEKL 23 (149)
T ss_pred CEEEEcCC-CCCHHHHHHHHHHHH
Confidence 35688998 999999999986654
No 251
>PRK08972 fliI flagellum-specific ATP synthase; Validated
Probab=74.72 E-value=5.9 Score=41.65 Aligned_cols=23 Identities=4% Similarity=-0.156 Sum_probs=19.6
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
..++|.|-. |.|||||++.+.+.
T Consensus 163 qrigI~G~s-G~GKSTLL~~I~~~ 185 (444)
T PRK08972 163 QRMGLFAGS-GVGKSVLLGMMTRG 185 (444)
T ss_pred CEEEEECCC-CCChhHHHHHhccC
Confidence 467899999 99999999888654
No 252
>TIGR01007 eps_fam capsular exopolysaccharide family. This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes.
Probab=74.66 E-value=3.6 Score=38.29 Aligned_cols=28 Identities=7% Similarity=-0.148 Sum_probs=23.0
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhhh
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+.++|.|.+..||.||||++.++-..+
T Consensus 15 ~~~kvI~v~s~kgG~GKTt~a~~LA~~l 42 (204)
T TIGR01007 15 AEIKVLLITSVKPGEGKSTTSANIAVAF 42 (204)
T ss_pred CCCcEEEEecCCCCCCHHHHHHHHHHHH
Confidence 3588999998888999999998775544
No 253
>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.
Probab=74.54 E-value=2.1 Score=41.67 Aligned_cols=23 Identities=9% Similarity=-0.135 Sum_probs=17.3
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
++|.+.|=| |+||||++-++=..
T Consensus 2 ~~iav~~KG-GvGKTT~~~nLA~~ 24 (270)
T cd02040 2 RQIAIYGKG-GIGKSTTTQNLSAA 24 (270)
T ss_pred cEEEEEeCC-cCCHHHHHHHHHHH
Confidence 467778866 99999988766443
No 254
>cd04160 Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.
Probab=74.52 E-value=2.3 Score=37.75 Aligned_cols=21 Identities=10% Similarity=-0.263 Sum_probs=17.6
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|.. |.|||||...+...
T Consensus 2 i~~vG~~-~~GKstLi~~l~~~ 22 (167)
T cd04160 2 VLILGLD-NAGKTTFLEQLKTL 22 (167)
T ss_pred EEEEecC-CCCHHHHHHHHhhh
Confidence 5689999 99999999987543
No 255
>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein. Members of this protein family belong to the MinD/ParA family of P-loop NTPases, and in particular show homology to the CpaE family of pilus assembly proteins (see PubMed:12370432). Nearly all members are found, not only in a gene context consistent with pilus biogenesis or a pilus-like secretion apparatus, but also near a DEAD/DEAH-box helicase, suggesting an involvement in DNA transfer activity. The model describes a clade restricted to the Actinobacteria.
Probab=74.51 E-value=2.2 Score=43.03 Aligned_cols=26 Identities=0% Similarity=-0.480 Sum_probs=21.3
Q ss_pred CceeeeeeeccCccchhHHHHHHHhh
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.-++|+++|.-||+||||+|-++=..
T Consensus 92 ~~~vIav~~~KGGvGkTT~a~nLA~~ 117 (322)
T TIGR03815 92 RGVVVAVIGGRGGAGASTLAAALALA 117 (322)
T ss_pred CceEEEEEcCCCCCcHHHHHHHHHHH
Confidence 56899999988899999998776443
No 256
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=74.38 E-value=7.6 Score=39.99 Aligned_cols=88 Identities=8% Similarity=-0.074 Sum_probs=47.3
Q ss_pred eeeeeccCccchhHHHHHHHhhhccccccceEEEE-ee-eccHHHHHHHHhhhhccccccccccccccccccccccccc-
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLA-KF-EGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQT- 306 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v-~~-~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~- 306 (486)
+-|+|-- |.|||+.++.+.+++........+..+ .. -.....+-.+++..+..+.. .+.... ..-.++.+.+..
T Consensus 45 ~~iyG~~-GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~~~~p~-~g~~~~-~~~~~l~~~~~~~ 121 (366)
T COG1474 45 IIIYGPT-GTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLGKVPL-TGDSSL-EILKRLYDNLSKK 121 (366)
T ss_pred EEEECCC-CCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHHcCCCCC-CCCchH-HHHHHHHHHHHhc
Confidence 5588999 999999999999988765333211111 11 12233345556655543211 111000 111233344432
Q ss_pred CcceeeceecccCH
Q 011431 307 TSAAHPYVEDVIDD 320 (486)
Q Consensus 307 tKr~LlVLDDVw~~ 320 (486)
.+.+.||||++..-
T Consensus 122 ~~~~IvvLDEid~L 135 (366)
T COG1474 122 GKTVIVILDEVDAL 135 (366)
T ss_pred CCeEEEEEcchhhh
Confidence 25788999998853
No 257
>cd01856 YlqF YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.
Probab=74.34 E-value=33 Score=30.82 Aligned_cols=26 Identities=8% Similarity=0.221 Sum_probs=20.5
Q ss_pred hHHHHHHHhhccceEEEeecccccCh
Q 011431 65 MPALLQAIEESKISLVIFSKRFAFSR 90 (486)
Q Consensus 65 ~~~i~~~I~~s~~~ivv~S~~y~~S~ 90 (486)
..++.++|+++.+.+.|+..+...+.
T Consensus 10 ~~~~~~~i~~aD~il~v~D~~~~~~~ 35 (171)
T cd01856 10 LRQIKEKLKLVDLVIEVRDARIPLSS 35 (171)
T ss_pred HHHHHHHHhhCCEEEEEeeccCccCc
Confidence 45788999999999999987654443
No 258
>TIGR00101 ureG urease accessory protein UreG. This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.
Probab=74.31 E-value=2.6 Score=39.41 Aligned_cols=25 Identities=4% Similarity=-0.205 Sum_probs=21.3
Q ss_pred eeeeeeccCccchhHHHHHHHhhhcc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
.|+|.|.. |.|||||++.+.+.+..
T Consensus 3 ~i~i~G~~-GsGKTTll~~l~~~l~~ 27 (199)
T TIGR00101 3 KIGVAGPV-GSGKTALIEALTRALRQ 27 (199)
T ss_pred EEEEECCC-CCCHHHHHHHHHHhhCc
Confidence 57899999 99999999999876643
No 259
>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=74.30 E-value=2.5 Score=35.92 Aligned_cols=24 Identities=4% Similarity=-0.248 Sum_probs=19.7
Q ss_pred eeeeeccCccchhHHHHHHHhhhcc
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
|.+.|-| |.||||++..+...+..
T Consensus 2 i~~~Gkg-G~GKTt~a~~la~~l~~ 25 (116)
T cd02034 2 IAITGKG-GVGKTTIAALLARYLAE 25 (116)
T ss_pred EEEECCC-CCCHHHHHHHHHHHHHH
Confidence 5688998 99999999988776543
No 260
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=74.29 E-value=40 Score=32.61 Aligned_cols=42 Identities=7% Similarity=0.010 Sum_probs=28.2
Q ss_pred hHHHHHHHhhcCCCceeeeeeeccCccchhHHHHHHHhhhcccc
Q 011431 213 LLDEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMDNY 256 (486)
Q Consensus 213 ~l~~v~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F 256 (486)
++++-+.++... .-.-|=.||.- |.||+.|++++++......
T Consensus 72 L~~NT~~F~~G~-pANnVLLwGaR-GtGKSSLVKA~~~e~~~~g 113 (287)
T COG2607 72 LVRNTEQFAEGL-PANNVLLWGAR-GTGKSSLVKALLNEYADEG 113 (287)
T ss_pred HHHHHHHHHcCC-cccceEEecCC-CCChHHHHHHHHHHHHhcC
Confidence 445555555432 22234489999 9999999999999875544
No 261
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=74.28 E-value=6.2 Score=38.44 Aligned_cols=23 Identities=4% Similarity=-0.216 Sum_probs=19.7
Q ss_pred eeeeeccCccchhHHHHHHHhhhc
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
+-++|-. |+|||-||-++-+.+.
T Consensus 108 l~l~G~~-G~GKThLa~Ai~~~l~ 130 (254)
T COG1484 108 LVLLGPP-GVGKTHLAIAIGNELL 130 (254)
T ss_pred EEEECCC-CCcHHHHHHHHHHHHH
Confidence 4567777 9999999999999887
No 262
>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases. This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....
Probab=74.24 E-value=2.4 Score=37.35 Aligned_cols=21 Identities=0% Similarity=-0.205 Sum_probs=17.9
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|-++|-+ |+|||||++.+.+.
T Consensus 2 i~vvG~~-~vGKtsl~~~~~~~ 22 (162)
T PF00071_consen 2 IVVVGDS-GVGKTSLINRLING 22 (162)
T ss_dssp EEEEEST-TSSHHHHHHHHHHS
T ss_pred EEEECCC-CCCHHHHHHHHHhh
Confidence 5689999 99999999887764
No 263
>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=74.18 E-value=2.4 Score=38.60 Aligned_cols=24 Identities=8% Similarity=-0.141 Sum_probs=18.7
Q ss_pred eeeeeccCccchhHHHHHHHhhhcc
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
|-|-|.. |+|||||++.+.+.+..
T Consensus 2 i~iTG~p-G~GKTTll~k~i~~l~~ 25 (168)
T PF03266_consen 2 IFITGPP-GVGKTTLLKKVIEELKK 25 (168)
T ss_dssp EEEES-T-TSSHHHHHHHHHHHHHH
T ss_pred EEEECcC-CCCHHHHHHHHHHHhhc
Confidence 3466787 99999999999987743
No 264
>PRK13233 nifH nitrogenase reductase; Reviewed
Probab=74.12 E-value=2.2 Score=41.89 Aligned_cols=24 Identities=8% Similarity=-0.021 Sum_probs=17.7
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
++|+|.|=| |+||||++-++=..+
T Consensus 3 ~vIav~~KG-GVGKTT~a~nLA~~L 26 (275)
T PRK13233 3 RKIAIYGKG-GIGKSTTTQNTAAAM 26 (275)
T ss_pred eEEEEEcCC-CCcHHHHHHHHHHHH
Confidence 578888755 999999887654333
No 265
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=74.09 E-value=2.3 Score=40.59 Aligned_cols=55 Identities=16% Similarity=0.129 Sum_probs=39.2
Q ss_pred EecCCCCCchhhhhhcccCCCcceeeeeeccccccchhhHHHHHHHhhcCCCeeEE
Q 011431 360 TEDVTVDNSPSLNLSSCNSSSTFKEAIFKLEIHHDNLEAWRAAFSIVSEFIGITKI 415 (486)
Q Consensus 360 y~v~~L~~~es~~LF~~~a~~k~~~~v~kv~~~~~~~~~~~~a~k~~~~~~Gv~~v 415 (486)
|++--++-+--.+-|.+..-.....+++=++..-+..+...++.+.+.++. |..+
T Consensus 134 ~e~VivDtEAGiEHfgRg~~~~vD~vivVvDpS~~sl~taeri~~L~~elg-~k~i 188 (255)
T COG3640 134 YEVVIVDTEAGIEHFGRGTIEGVDLVIVVVDPSYKSLRTAERIKELAEELG-IKRI 188 (255)
T ss_pred CcEEEEecccchhhhccccccCCCEEEEEeCCcHHHHHHHHHHHHHHHHhC-CceE
Confidence 666667777778888888877777777767777666665577777777765 4433
No 266
>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B ....
Probab=74.05 E-value=2.2 Score=42.74 Aligned_cols=20 Identities=10% Similarity=-0.318 Sum_probs=16.0
Q ss_pred eeeeeeeccCccchhHHHHHH
Q 011431 228 RSYRCWLLCPLFSELRVLTND 248 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~v 248 (486)
+++=+.|=| |+||||+|-+.
T Consensus 2 r~~~~~GKG-GVGKTT~aaA~ 21 (305)
T PF02374_consen 2 RILFFGGKG-GVGKTTVAAAL 21 (305)
T ss_dssp SEEEEEEST-TSSHHHHHHHH
T ss_pred eEEEEecCC-CCCcHHHHHHH
Confidence 566678888 99999998554
No 267
>COG1192 Soj ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=74.02 E-value=2.4 Score=41.10 Aligned_cols=26 Identities=8% Similarity=-0.204 Sum_probs=20.6
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
.+|+|...=||+||||+|-++-..+.
T Consensus 3 ~iI~v~n~KGGvGKTT~a~nLa~~La 28 (259)
T COG1192 3 KIIAVANQKGGVGKTTTAVNLAAALA 28 (259)
T ss_pred EEEEEEecCCCccHHHHHHHHHHHHH
Confidence 57788888889999999987755543
No 268
>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.
Probab=73.96 E-value=2.2 Score=38.40 Aligned_cols=23 Identities=9% Similarity=-0.315 Sum_probs=16.5
Q ss_pred eeeeeccCccchhHHHHHHHhhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
|.+.+--||+||||++-++-..+
T Consensus 2 i~v~~~kgG~GKtt~a~~la~~l 24 (179)
T cd02036 2 IVVTSGKGGVGKTTTTANLGTAL 24 (179)
T ss_pred EEEeeCCCCCCHHHHHHHHHHHH
Confidence 45555555999999998775544
No 269
>PRK12337 2-phosphoglycerate kinase; Provisional
Probab=73.89 E-value=10 Score=40.08 Aligned_cols=27 Identities=4% Similarity=-0.287 Sum_probs=23.1
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhhh
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
....+|-+.|.. |.||||+|..+-.++
T Consensus 253 k~p~vil~~G~~-G~GKSt~a~~LA~~l 279 (475)
T PRK12337 253 PRPLHVLIGGVS-GVGKSVLASALAYRL 279 (475)
T ss_pred CCCeEEEEECCC-CCCHHHHHHHHHHHc
Confidence 357888899999 999999999987765
No 270
>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.
Probab=73.89 E-value=2.1 Score=39.15 Aligned_cols=21 Identities=5% Similarity=-0.508 Sum_probs=18.4
Q ss_pred eeeeeeccCccchhHHHHHHHh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
+|+|.|+. |.||||+++.+-+
T Consensus 1 ii~itG~~-gsGKst~~~~l~~ 21 (179)
T cd02022 1 IIGLTGGI-GSGKSTVAKLLKE 21 (179)
T ss_pred CEEEECCC-CCCHHHHHHHHHH
Confidence 47899999 9999999998855
No 271
>TIGR02173 cyt_kin_arch cytidylate kinase, putative. Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.
Probab=73.71 E-value=2.7 Score=37.56 Aligned_cols=23 Identities=9% Similarity=-0.323 Sum_probs=19.8
Q ss_pred eeeeeeccCccchhHHHHHHHhhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
+|.|.|.. |.||||+|+.+-+++
T Consensus 2 iI~i~G~~-GSGKstia~~la~~l 24 (171)
T TIGR02173 2 IITISGPP-GSGKTTVAKILAEKL 24 (171)
T ss_pred EEEEECCC-CCCHHHHHHHHHHHc
Confidence 68899999 999999999986554
No 272
>PRK13235 nifH nitrogenase reductase; Reviewed
Probab=73.63 E-value=2.2 Score=41.87 Aligned_cols=20 Identities=10% Similarity=-0.064 Sum_probs=16.0
Q ss_pred eeeeeeeccCccchhHHHHHH
Q 011431 228 RSYRCWLLCPLFSELRVLTND 248 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~v 248 (486)
++|++.|=| |+||||++-++
T Consensus 2 ~~iav~~KG-GVGKTT~~~nL 21 (274)
T PRK13235 2 RKVAIYGKG-GIGKSTTTQNT 21 (274)
T ss_pred CEEEEeCCC-CccHHHHHHHH
Confidence 578888866 99999977655
No 273
>cd04150 Arf1_5_like Arf1-Arf5-like subfamily. This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents
Probab=73.59 E-value=2.2 Score=37.90 Aligned_cols=19 Identities=11% Similarity=-0.227 Sum_probs=16.7
Q ss_pred eeeeeccCccchhHHHHHHH
Q 011431 230 YRCWLLCPLFSELRVLTNDV 249 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy 249 (486)
|.++|.+ |+|||||+..+.
T Consensus 3 v~~~G~~-~~GKTsli~~l~ 21 (159)
T cd04150 3 ILMVGLD-AAGKTTILYKLK 21 (159)
T ss_pred EEEECCC-CCCHHHHHHHHh
Confidence 5689999 999999998874
No 274
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=73.50 E-value=2.5 Score=41.53 Aligned_cols=32 Identities=9% Similarity=-0.106 Sum_probs=25.9
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhhhccccc
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQLMDNYE 257 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~ 257 (486)
..+-.+=++|.. |+||||||.-+-|.+..++.
T Consensus 50 e~lDHvLl~GPP-GlGKTTLA~IIA~Emgvn~k 81 (332)
T COG2255 50 EALDHVLLFGPP-GLGKTTLAHIIANELGVNLK 81 (332)
T ss_pred CCcCeEEeeCCC-CCcHHHHHHHHHHHhcCCeE
Confidence 345567789999 99999999999888766654
No 275
>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis. RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.
Probab=73.41 E-value=4.3 Score=36.62 Aligned_cols=34 Identities=12% Similarity=0.123 Sum_probs=24.9
Q ss_pred hHHHHHHHhhcCCCceeeeeeeccCccchhHHHHHHHhh
Q 011431 213 LLDEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 213 ~l~~v~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.++++...+. + +++.++|-. |+||+||+..+...
T Consensus 25 g~~~l~~~l~---~-k~~vl~G~S-GvGKSSLiN~L~~~ 58 (161)
T PF03193_consen 25 GIEELKELLK---G-KTSVLLGQS-GVGKSSLINALLPE 58 (161)
T ss_dssp THHHHHHHHT---T-SEEEEECST-TSSHHHHHHHHHTS
T ss_pred CHHHHHHHhc---C-CEEEEECCC-CCCHHHHHHHHHhh
Confidence 3445555553 2 567789999 99999999988664
No 276
>cd01895 EngA2 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=73.36 E-value=2.6 Score=37.19 Aligned_cols=23 Identities=0% Similarity=-0.260 Sum_probs=19.4
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
..|+++|.. |.|||||+.++.+.
T Consensus 3 ~~i~i~G~~-~~GKstli~~l~~~ 25 (174)
T cd01895 3 IRIAIIGRP-NVGKSSLVNALLGE 25 (174)
T ss_pred cEEEEEcCC-CCCHHHHHHHHhCc
Confidence 457899999 99999999988653
No 277
>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.
Probab=73.28 E-value=2.3 Score=38.06 Aligned_cols=21 Identities=10% Similarity=-0.170 Sum_probs=17.5
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|.+ |+|||||+....+.
T Consensus 2 i~ivG~~-~vGKTsli~~~~~~ 22 (164)
T cd04162 2 ILVLGLD-GAGKTSLLHSLSSE 22 (164)
T ss_pred EEEECCC-CCCHHHHHHHHhcC
Confidence 4588999 99999999887653
No 278
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=73.21 E-value=2.7 Score=38.42 Aligned_cols=25 Identities=8% Similarity=-0.149 Sum_probs=21.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
.++.+.|.. |-|||||++.+...+.
T Consensus 4 e~i~l~G~s-GsGKSTl~~~la~~l~ 28 (176)
T PRK09825 4 ESYILMGVS-GSGKSLIGSKIAALFS 28 (176)
T ss_pred cEEEEECCC-CCCHHHHHHHHHHhcC
Confidence 367899999 9999999999987653
No 279
>PRK03731 aroL shikimate kinase II; Reviewed
Probab=73.16 E-value=2.9 Score=37.68 Aligned_cols=24 Identities=8% Similarity=-0.331 Sum_probs=19.9
Q ss_pred eeeeeeccCccchhHHHHHHHhhhc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
.|-++|+. |.||||+++.+-+++.
T Consensus 4 ~i~~~G~~-GsGKst~~~~la~~lg 27 (171)
T PRK03731 4 PLFLVGAR-GCGKTTVGMALAQALG 27 (171)
T ss_pred eEEEECCC-CCCHHHHHHHHHHHhC
Confidence 46688999 9999999999876653
No 280
>TIGR02528 EutP ethanolamine utilization protein, EutP. This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.
Probab=73.12 E-value=2.2 Score=36.75 Aligned_cols=21 Identities=0% Similarity=-0.339 Sum_probs=17.6
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|-+ |+|||||+..+.+.
T Consensus 3 v~liG~~-~vGKSsL~~~l~~~ 23 (142)
T TIGR02528 3 IMFIGSV-GCGKTTLTQALQGE 23 (142)
T ss_pred EEEECCC-CCCHHHHHHHHcCC
Confidence 6789999 99999999877543
No 281
>cd00880 Era_like Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se
Probab=73.09 E-value=1.8 Score=37.19 Aligned_cols=19 Identities=11% Similarity=-0.101 Sum_probs=16.1
Q ss_pred eeeccCccchhHHHHHHHhh
Q 011431 232 CWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 232 I~GmGgGvGKTTLa~~vy~~ 251 (486)
|+|.. |.|||||++.+++.
T Consensus 1 i~G~~-gsGKstl~~~l~~~ 19 (163)
T cd00880 1 LFGRT-NAGKSSLLNALLGQ 19 (163)
T ss_pred CcCCC-CCCHHHHHHHHhCc
Confidence 46788 99999999999764
No 282
>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=73.09 E-value=2.5 Score=40.63 Aligned_cols=22 Identities=0% Similarity=-0.386 Sum_probs=19.4
Q ss_pred eeeeeeeccCccchhHHHHHHHh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
..+||+|-. |-|||||++.+-.
T Consensus 34 e~lgivGeS-GsGKSTL~r~l~G 55 (252)
T COG1124 34 ETLGIVGES-GSGKSTLARLLAG 55 (252)
T ss_pred CEEEEEcCC-CCCHHHHHHHHhc
Confidence 478999999 9999999999854
No 283
>cd01864 Rab19 Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=73.00 E-value=2.5 Score=37.55 Aligned_cols=22 Identities=5% Similarity=-0.352 Sum_probs=18.3
Q ss_pred eeeeeeeccCccchhHHHHHHHh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
.-|.++|.. |.|||||+..+..
T Consensus 4 ~kv~vvG~~-~~GKTsli~~l~~ 25 (165)
T cd01864 4 FKIILIGDS-NVGKTCVVQRFKS 25 (165)
T ss_pred eEEEEECCC-CCCHHHHHHHHhh
Confidence 346789999 9999999988754
No 284
>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]
Probab=73.00 E-value=3.6 Score=40.21 Aligned_cols=31 Identities=3% Similarity=-0.240 Sum_probs=24.4
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhhccccc
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQLMDNYE 257 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~ 257 (486)
...+|-++||. |.||||..+.++..+..++.
T Consensus 18 ~p~~ilVvGMA-GSGKTTF~QrL~~hl~~~~~ 48 (366)
T KOG1532|consen 18 RPVIILVVGMA-GSGKTTFMQRLNSHLHAKKT 48 (366)
T ss_pred CCcEEEEEecC-CCCchhHHHHHHHHHhhccC
Confidence 34456689999 99999999999887765543
No 285
>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=72.62 E-value=5.7 Score=43.84 Aligned_cols=24 Identities=0% Similarity=-0.368 Sum_probs=19.6
Q ss_pred eeeeeccCccchhHHHHHHHhhhcc
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
|-+.|-. |.|||+|++++++....
T Consensus 434 Ill~G~~-GsGKT~L~kal~~~~~k 457 (952)
T KOG0735|consen 434 ILLNGPK-GSGKTNLVKALFDYYSK 457 (952)
T ss_pred EEEeCCC-CCCHhHHHHHHHHHhcc
Confidence 3366777 99999999999998753
No 286
>PRK14974 cell division protein FtsY; Provisional
Probab=72.57 E-value=2.8 Score=42.62 Aligned_cols=27 Identities=4% Similarity=-0.308 Sum_probs=21.9
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
+..+|.++|+. |.||||++..+...+.
T Consensus 139 ~~~vi~~~G~~-GvGKTTtiakLA~~l~ 165 (336)
T PRK14974 139 KPVVIVFVGVN-GTGKTTTIAKLAYYLK 165 (336)
T ss_pred CCeEEEEEcCC-CCCHHHHHHHHHHHHH
Confidence 46799999999 9999997777765543
No 287
>cd04177 RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu
Probab=72.52 E-value=2.6 Score=37.63 Aligned_cols=21 Identities=5% Similarity=-0.225 Sum_probs=17.8
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|.+ |.|||||++...+.
T Consensus 4 i~liG~~-~~GKTsli~~~~~~ 24 (168)
T cd04177 4 IVVLGAG-GVGKSALTVQFVQN 24 (168)
T ss_pred EEEECCC-CCCHHHHHHHHHhC
Confidence 5799999 99999999887543
No 288
>cd02026 PRK Phosphoribulokinase (PRK) is an enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. This enzyme catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.
Probab=72.43 E-value=2.5 Score=41.62 Aligned_cols=23 Identities=4% Similarity=-0.299 Sum_probs=19.7
Q ss_pred eeeeeeccCccchhHHHHHHHhhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
+|||.|-. |.|||||++.+...+
T Consensus 1 iigI~G~s-GsGKSTl~~~L~~ll 23 (273)
T cd02026 1 IIGVAGDS-GCGKSTFLRRLTSLF 23 (273)
T ss_pred CEEEECCC-CCCHHHHHHHHHHhh
Confidence 57899988 999999999997654
No 289
>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional
Probab=72.43 E-value=3.5 Score=42.42 Aligned_cols=29 Identities=7% Similarity=-0.081 Sum_probs=25.0
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhhccc
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQLMDN 255 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~ 255 (486)
..++|+|+|.. |.|||||+..+...++.+
T Consensus 204 ~~~~~~~~g~~-~~GKtt~~~~l~~~l~~~ 232 (366)
T PRK14489 204 APPLLGVVGYS-GTGKTTLLEKLIPELIAR 232 (366)
T ss_pred CccEEEEecCC-CCCHHHHHHHHHHHHHHc
Confidence 46799999999 999999999998877553
No 290
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=72.32 E-value=3.9 Score=41.51 Aligned_cols=29 Identities=3% Similarity=-0.224 Sum_probs=24.3
Q ss_pred CCCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 224 AEGYRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 224 ~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
.....+|||.|.. |.|||||+..+...+.
T Consensus 53 ~~~~~~igi~G~~-GaGKSTl~~~l~~~l~ 81 (332)
T PRK09435 53 TGNALRIGITGVP-GVGKSTFIEALGMHLI 81 (332)
T ss_pred CCCcEEEEEECCC-CCCHHHHHHHHHHHHH
Confidence 3467899999999 9999999998866654
No 291
>PRK00698 tmk thymidylate kinase; Validated
Probab=72.26 E-value=3 Score=38.62 Aligned_cols=24 Identities=4% Similarity=-0.381 Sum_probs=21.1
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
++|.|.|.- |.||||+++.+.+.+
T Consensus 4 ~~I~ieG~~-gsGKsT~~~~L~~~l 27 (205)
T PRK00698 4 MFITIEGID-GAGKSTQIELLKELL 27 (205)
T ss_pred eEEEEECCC-CCCHHHHHHHHHHHH
Confidence 578899999 999999999998765
No 292
>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily. Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le
Probab=72.14 E-value=2.9 Score=37.69 Aligned_cols=21 Identities=5% Similarity=-0.200 Sum_probs=17.9
Q ss_pred eeeeeeccCccchhHHHHHHHh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
-|.++|-. |+|||||+..+.+
T Consensus 3 kv~l~G~~-g~GKTtl~~~~~~ 23 (180)
T cd04137 3 KIAVLGSR-SVGKSSLTVQFVE 23 (180)
T ss_pred EEEEECCC-CCCHHHHHHHHHh
Confidence 46699999 9999999988864
No 293
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=72.05 E-value=20 Score=39.31 Aligned_cols=24 Identities=8% Similarity=-0.245 Sum_probs=19.2
Q ss_pred eeeeeeccCccchhHHHHHHHhhhc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
.+-++|.- |+||||+|+.+-+.+.
T Consensus 37 a~Lf~Gp~-G~GKTt~A~~lAk~l~ 60 (584)
T PRK14952 37 AYLFSGPR-GCGKTSSARILARSLN 60 (584)
T ss_pred EEEEECCC-CCCHHHHHHHHHHHhc
Confidence 35578998 9999999998876553
No 294
>TIGR00455 apsK adenylylsulfate kinase (apsK). Important residue (active site in E.coli) is residue 100 of the seed alignment.
Probab=72.05 E-value=3.1 Score=38.07 Aligned_cols=26 Identities=8% Similarity=-0.268 Sum_probs=22.2
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhh
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.-.++.+.|.. |.||||+|+.+...+
T Consensus 17 ~~~~i~i~G~~-GsGKstla~~l~~~l 42 (184)
T TIGR00455 17 RGVVIWLTGLS-GSGKSTIANALEKKL 42 (184)
T ss_pred CCeEEEEECCC-CCCHHHHHHHHHHHH
Confidence 34688899999 999999999997765
No 295
>cd04140 ARHI_like ARHI subfamily. ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to
Probab=71.97 E-value=2.7 Score=37.37 Aligned_cols=20 Identities=5% Similarity=-0.164 Sum_probs=17.2
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|.++|.+ |+|||||.+...+
T Consensus 4 v~~vG~~-~vGKTsli~~~~~ 23 (165)
T cd04140 4 VVVFGAG-GVGKSSLVLRFVK 23 (165)
T ss_pred EEEECCC-CCCHHHHHHHHHh
Confidence 5699999 9999999987754
No 296
>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=71.95 E-value=3.3 Score=35.84 Aligned_cols=20 Identities=5% Similarity=-0.353 Sum_probs=17.9
Q ss_pred eeeccCccchhHHHHHHHhhh
Q 011431 232 CWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 232 I~GmGgGvGKTTLa~~vy~~~ 252 (486)
++|-. |.|||+||+.+...+
T Consensus 4 L~G~~-G~GKt~l~~~la~~~ 23 (139)
T PF07728_consen 4 LVGPP-GTGKTTLARELAALL 23 (139)
T ss_dssp EEESS-SSSHHHHHHHHHHHH
T ss_pred EECCC-CCCHHHHHHHHHHHh
Confidence 68888 999999999998776
No 297
>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=71.90 E-value=2.7 Score=39.56 Aligned_cols=24 Identities=4% Similarity=-0.456 Sum_probs=20.6
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|.|-. |-|||||++.+....
T Consensus 31 ~~~~l~G~n-GsGKSTLl~~i~Gl~ 54 (218)
T cd03255 31 EFVAIVGPS-GSGKSTLLNILGGLD 54 (218)
T ss_pred CEEEEEcCC-CCCHHHHHHHHhCCc
Confidence 478899999 999999999997643
No 298
>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE, also called MnmE and previously designated ThdF (thiophene and furan oxidation protein), is a GTPase involved in tRNA modification to create 5-methylaminomethyl-2-thiouridine in the wobble position of some tRNAs. This protein and GidA form an alpha2/beta2 heterotetramer.
Probab=71.78 E-value=8.7 Score=40.66 Aligned_cols=22 Identities=9% Similarity=-0.153 Sum_probs=19.0
Q ss_pred eeeeeeccCccchhHHHHHHHhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.|.|+|.. |+|||||...+.+.
T Consensus 205 kVvIvG~~-nvGKSSLiN~L~~~ 226 (442)
T TIGR00450 205 KLAIVGSP-NVGKSSLLNALLKQ 226 (442)
T ss_pred EEEEECCC-CCcHHHHHHHHhCC
Confidence 45799999 99999999998764
No 299
>PRK14530 adenylate kinase; Provisional
Probab=71.77 E-value=3.1 Score=39.19 Aligned_cols=23 Identities=4% Similarity=-0.312 Sum_probs=19.3
Q ss_pred eeeeeeccCccchhHHHHHHHhhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.|.|+|+. |.||||+++.+-...
T Consensus 5 ~I~i~G~p-GsGKsT~~~~La~~~ 27 (215)
T PRK14530 5 RILLLGAP-GAGKGTQSSNLAEEF 27 (215)
T ss_pred EEEEECCC-CCCHHHHHHHHHHHh
Confidence 46789999 999999999886554
No 300
>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein. The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.
Probab=71.71 E-value=2.6 Score=41.12 Aligned_cols=20 Identities=5% Similarity=-0.208 Sum_probs=15.4
Q ss_pred eeeeeeccCccchhHHHHHHH
Q 011431 229 SYRCWLLCPLFSELRVLTNDV 249 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy 249 (486)
+|++.|=| |+||||++-++=
T Consensus 2 ~i~~~gKG-GVGKTT~~~nLA 21 (268)
T TIGR01281 2 ILAVYGKG-GIGKSTTSSNLS 21 (268)
T ss_pred EEEEEcCC-cCcHHHHHHHHH
Confidence 56777867 999999876653
No 301
>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural
Probab=71.70 E-value=3.1 Score=34.85 Aligned_cols=22 Identities=0% Similarity=-0.349 Sum_probs=19.0
Q ss_pred ceeeeeeeccCccchhHHHHHHH
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDV 249 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy 249 (486)
-..++|.|.. |-|||||++.+.
T Consensus 15 ge~v~I~GpS-GsGKSTLl~~l~ 36 (107)
T cd00820 15 KVGVLITGDS-GIGKTELALELI 36 (107)
T ss_pred CEEEEEEcCC-CCCHHHHHHHhh
Confidence 3567899999 999999999875
No 302
>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t
Probab=71.65 E-value=2.7 Score=37.28 Aligned_cols=21 Identities=5% Similarity=-0.312 Sum_probs=17.7
Q ss_pred eeeeeeccCccchhHHHHHHHh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
-|.++|.+ |+|||||+..+.+
T Consensus 4 ki~i~G~~-~vGKSsli~~~~~ 24 (166)
T cd01869 4 KLLLIGDS-GVGKSCLLLRFAD 24 (166)
T ss_pred EEEEECCC-CCCHHHHHHHHhc
Confidence 35689999 9999999988765
No 303
>PRK13231 nitrogenase reductase-like protein; Reviewed
Probab=71.63 E-value=2.7 Score=40.88 Aligned_cols=24 Identities=4% Similarity=-0.065 Sum_probs=18.5
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
++|+|.|=| |+||||++.++=..+
T Consensus 3 ~~iav~~KG-GvGKTT~a~nLA~~L 26 (264)
T PRK13231 3 KKIAIYGKG-GIGKSTTVSNMAAAY 26 (264)
T ss_pred eEEEEECCC-CCcHHHHHHHHhccc
Confidence 578888866 999999998774444
No 304
>PLN03046 D-glycerate 3-kinase; Provisional
Probab=71.59 E-value=3.2 Score=43.36 Aligned_cols=26 Identities=0% Similarity=-0.410 Sum_probs=22.3
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhh
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
..-+|||.|.. |-|||||++.+...+
T Consensus 211 ~PlIIGIsG~q-GSGKSTLa~~L~~lL 236 (460)
T PLN03046 211 PPLVIGFSAPQ-GCGKTTLVFALDYLF 236 (460)
T ss_pred CCEEEEEECCC-CCCHHHHHHHHHHHh
Confidence 56789999999 999999999995544
No 305
>PRK14494 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/FeS domain-containing protein protein; Provisional
Probab=71.56 E-value=3 Score=39.94 Aligned_cols=26 Identities=8% Similarity=0.006 Sum_probs=22.3
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhcc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
++++|+|.- |.|||||+..+...+..
T Consensus 2 ~vi~ivG~~-gsGKTtl~~~l~~~L~~ 27 (229)
T PRK14494 2 RAIGVIGFK-DSGKTTLIEKILKNLKE 27 (229)
T ss_pred eEEEEECCC-CChHHHHHHHHHHHHHh
Confidence 578999998 99999999988877654
No 306
>COG0237 CoaE Dephospho-CoA kinase [Coenzyme metabolism]
Probab=71.48 E-value=2.9 Score=39.23 Aligned_cols=23 Identities=4% Similarity=-0.470 Sum_probs=19.4
Q ss_pred ceeeeeeeccCccchhHHHHHHHh
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
..+||+.|+- |.||||.|+..-+
T Consensus 2 ~~iIglTG~i-gsGKStva~~~~~ 24 (201)
T COG0237 2 MLIIGLTGGI-GSGKSTVAKILAE 24 (201)
T ss_pred ceEEEEecCC-CCCHHHHHHHHHH
Confidence 3689999999 9999999987633
No 307
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=71.46 E-value=5.4 Score=38.95 Aligned_cols=21 Identities=0% Similarity=-0.322 Sum_probs=18.0
Q ss_pred eeeccCccchhHHHHHHHhhhc
Q 011431 232 CWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 232 I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
+.|.. |.|||+||+.+.....
T Consensus 26 L~G~~-GtGKT~lA~~la~~lg 46 (262)
T TIGR02640 26 LRGPA-GTGKTTLAMHVARKRD 46 (262)
T ss_pred EEcCC-CCCHHHHHHHHHHHhC
Confidence 78888 9999999999977553
No 308
>cd04124 RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b
Probab=71.45 E-value=2.9 Score=37.13 Aligned_cols=20 Identities=0% Similarity=-0.209 Sum_probs=16.7
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|.++|-. |+|||||+....+
T Consensus 3 i~vvG~~-~vGKTsli~~~~~ 22 (161)
T cd04124 3 IILLGDS-AVGKSKLVERFLM 22 (161)
T ss_pred EEEECCC-CCCHHHHHHHHHh
Confidence 4688999 9999999987654
No 309
>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=71.40 E-value=2.9 Score=39.12 Aligned_cols=24 Identities=8% Similarity=-0.391 Sum_probs=20.6
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|.|-- |-|||||++.+....
T Consensus 28 ~~~~l~G~n-GsGKSTLl~~l~G~~ 51 (211)
T cd03225 28 EFVLIVGPN-GSGKSTLLRLLNGLL 51 (211)
T ss_pred cEEEEECCC-CCCHHHHHHHHhcCC
Confidence 578899999 999999999997643
No 310
>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]
Probab=71.39 E-value=4 Score=37.61 Aligned_cols=23 Identities=0% Similarity=-0.325 Sum_probs=19.6
Q ss_pred eeeeeeccCccchhHHHHHHHhhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
++-+.|.. |+||+||++.++++.
T Consensus 6 l~vlsgPS-G~GKsTl~k~L~~~~ 28 (191)
T COG0194 6 LIVLSGPS-GVGKSTLVKALLEDD 28 (191)
T ss_pred EEEEECCC-CCCHHHHHHHHHhhc
Confidence 44577888 999999999999876
No 311
>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.
Probab=71.39 E-value=2.7 Score=37.70 Aligned_cols=21 Identities=5% Similarity=-0.227 Sum_probs=17.9
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|.+ |+|||||++.+.+.
T Consensus 2 i~~~G~~-~~GKTsl~~~l~~~ 22 (167)
T cd04161 2 LLTVGLD-NAGKTTLVSALQGE 22 (167)
T ss_pred EEEECCC-CCCHHHHHHHHhCC
Confidence 5689999 99999999887654
No 312
>cd00157 Rho Rho (Ras homology) family. Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho protein
Probab=71.38 E-value=2.9 Score=37.12 Aligned_cols=21 Identities=5% Similarity=-0.262 Sum_probs=17.9
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|-++|.. |.|||||++.+.+.
T Consensus 3 i~i~G~~-~~GKSsli~~l~~~ 23 (171)
T cd00157 3 IVVVGDG-AVGKTCLLISYTTG 23 (171)
T ss_pred EEEECCC-CCCHHHHHHHHHhC
Confidence 4589999 99999999988764
No 313
>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=71.35 E-value=2.8 Score=40.51 Aligned_cols=23 Identities=9% Similarity=-0.240 Sum_probs=19.1
Q ss_pred eeeeeccCccchhHHHHHHHhhhc
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
|-+.|+. |.||||+|+.+-..+.
T Consensus 2 Ivl~G~p-GSGKST~a~~La~~l~ 24 (249)
T TIGR03574 2 IILTGLP-GVGKSTFSKELAKKLS 24 (249)
T ss_pred EEEEcCC-CCCHHHHHHHHHHHHH
Confidence 4578999 9999999999876653
No 314
>PRK12597 F0F1 ATP synthase subunit beta; Provisional
Probab=71.34 E-value=6 Score=41.96 Aligned_cols=41 Identities=2% Similarity=-0.049 Sum_probs=26.9
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccH
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEV 270 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l 270 (486)
+.+||.|-. |+|||||+..+-+....+ ....++.+.+.+.-
T Consensus 144 QR~gIfa~~-G~GKt~Ll~~~~~~~~~~-~~dv~V~~liGER~ 184 (461)
T PRK12597 144 GKTGLFGGA-GVGKTVLMMELIFNISKQ-HSGSSVFAGVGERS 184 (461)
T ss_pred CEEEeecCC-CCChhHHHHHHHHHHHhh-CCCEEEEEcCCcch
Confidence 356899888 999999998877666543 22333445555433
No 315
>PHA02774 E1; Provisional
Probab=71.33 E-value=19 Score=39.19 Aligned_cols=40 Identities=10% Similarity=-0.029 Sum_probs=29.8
Q ss_pred hhHHHHHHHhhcCCCceeeeeeeccCccchhHHHHHHHhhh
Q 011431 212 SLLDEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 212 ~~l~~v~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.|+..+..++......+-+-|+|-. |.|||.+|..+.+-+
T Consensus 419 ~fl~~lk~~l~~~PKknciv~~GPP-~TGKS~fa~sL~~~L 458 (613)
T PHA02774 419 SFLTALKDFLKGIPKKNCLVIYGPP-DTGKSMFCMSLIKFL 458 (613)
T ss_pred HHHHHHHHHHhcCCcccEEEEECCC-CCCHHHHHHHHHHHh
Confidence 4666666766554344567799999 999999999987754
No 316
>cd04171 SelB SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo
Probab=71.28 E-value=3 Score=36.63 Aligned_cols=21 Identities=0% Similarity=-0.314 Sum_probs=18.7
Q ss_pred eeeeeeccCccchhHHHHHHHh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
+|+++|-. |+|||||+..+.+
T Consensus 2 ~i~i~G~~-~~GKssl~~~l~~ 22 (164)
T cd04171 2 IIGTAGHI-DHGKTTLIKALTG 22 (164)
T ss_pred EEEEEecC-CCCHHHHHHHHhC
Confidence 68899999 9999999998864
No 317
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.26 E-value=21 Score=39.30 Aligned_cols=69 Identities=1% Similarity=-0.181 Sum_probs=37.9
Q ss_pred cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCc-cccccccccCCCceEecCCCCCchhhhhhccc
Q 011431 308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRF-EQLWPETISATDTCTEDVTVDNSPSLNLSSCN 377 (486)
Q Consensus 308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~-~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~ 377 (486)
++.+||+|++.. ......|+...-+-.....+|++|.+ ..+... .......++++.|+.++-...+...
T Consensus 119 ~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~T-I~SRcq~i~F~pLs~~eL~~~L~~i 190 (624)
T PRK14959 119 RYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVT-IVSRCQHFTFTRLSEAGLEAHLTKV 190 (624)
T ss_pred CceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhHH-HHhhhhccccCCCCHHHHHHHHHHH
Confidence 456888998764 34445555322111234556665544 444311 0111246889999998887766653
No 318
>PRK06936 type III secretion system ATPase; Provisional
Probab=71.25 E-value=6.6 Score=41.31 Aligned_cols=38 Identities=8% Similarity=-0.086 Sum_probs=26.4
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeeccH
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGEV 270 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~l 270 (486)
..++|.|-. |.|||||++.+.+.... ..++.+.+.+.-
T Consensus 163 q~~~I~G~s-G~GKStLl~~Ia~~~~~----dv~V~~liGERg 200 (439)
T PRK06936 163 QRMGIFAAA-GGGKSTLLASLIRSAEV----DVTVLALIGERG 200 (439)
T ss_pred CEEEEECCC-CCChHHHHHHHhcCCCC----CEEEEEEEccCc
Confidence 467899999 99999999999876532 223444454443
No 319
>COG4107 PhnK ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=71.20 E-value=3.1 Score=38.03 Aligned_cols=24 Identities=8% Similarity=-0.220 Sum_probs=21.1
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.++||+|-. |.|||||.+.+-.++
T Consensus 33 eVLgiVGES-GSGKtTLL~~is~rl 56 (258)
T COG4107 33 EVLGIVGES-GSGKTTLLKCISGRL 56 (258)
T ss_pred cEEEEEecC-CCcHHhHHHHHhccc
Confidence 589999999 999999999887654
No 320
>PRK13236 nitrogenase reductase; Reviewed
Probab=71.05 E-value=3.1 Score=41.41 Aligned_cols=24 Identities=13% Similarity=0.018 Sum_probs=19.2
Q ss_pred CCceeeeeeeccCccchhHHHHHHH
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDV 249 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy 249 (486)
.+.++|.+.|=| |+||||++-++=
T Consensus 4 ~~~~~~~~~GKG-GVGKTt~a~NLA 27 (296)
T PRK13236 4 ENIRQIAFYGKG-GIGKSTTSQNTL 27 (296)
T ss_pred cCceEEEEECCC-cCCHHHHHHHHH
Confidence 356899999977 999999776553
No 321
>cd01861 Rab6 Rab6 subfamily. Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate
Probab=71.00 E-value=2.9 Score=36.72 Aligned_cols=21 Identities=5% Similarity=-0.183 Sum_probs=17.9
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|.. |+|||||+..+.+.
T Consensus 3 i~liG~~-~~GKSsli~~l~~~ 23 (161)
T cd01861 3 LVFLGDQ-SVGKTSIITRFMYD 23 (161)
T ss_pred EEEECCC-CCCHHHHHHHHHcC
Confidence 6789999 99999999887653
No 322
>CHL00175 minD septum-site determining protein; Validated
Probab=70.99 E-value=3 Score=41.01 Aligned_cols=26 Identities=8% Similarity=-0.387 Sum_probs=19.8
Q ss_pred CCceeeeeeeccCccchhHHHHHHHh
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
...++|.|.+--||+||||++-++=.
T Consensus 13 ~~~~vi~v~s~KGGvGKTt~a~nLA~ 38 (281)
T CHL00175 13 TMSRIIVITSGKGGVGKTTTTANLGM 38 (281)
T ss_pred CCceEEEEEcCCCCCcHHHHHHHHHH
Confidence 34578898876569999998877643
No 323
>cd01860 Rab5_related Rab5-related subfamily. This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo
Probab=70.80 E-value=2.9 Score=36.76 Aligned_cols=21 Identities=5% Similarity=-0.194 Sum_probs=17.9
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|-+ |.|||||++.+.+.
T Consensus 4 i~v~G~~-~~GKSsli~~l~~~ 24 (163)
T cd01860 4 LVLLGDS-SVGKSSLVLRFVKN 24 (163)
T ss_pred EEEECCC-CCCHHHHHHHHHcC
Confidence 5689999 99999999888664
No 324
>PRK10818 cell division inhibitor MinD; Provisional
Probab=70.78 E-value=3.1 Score=40.56 Aligned_cols=23 Identities=4% Similarity=-0.361 Sum_probs=18.3
Q ss_pred eeeeeeeccCccchhHHHHHHHh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
++|+|.+.-||+||||++-++=-
T Consensus 3 kviav~s~KGGvGKTt~a~nlA~ 25 (270)
T PRK10818 3 RIIVVTSGKGGVGKTTSSAAIAT 25 (270)
T ss_pred eEEEEEeCCCCCcHHHHHHHHHH
Confidence 57888887779999998876643
No 325
>PF00142 Fer4_NifH: 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family; InterPro: IPR000392 This entry represents members of the NifH/BchL/ChlL family. Nitrogen fixing bacteria possess a nitrogenase enzyme complex that catalyses the reduction of molecular nitrogen to ammonia [, , ]. The nitrogenase enzyme complex consists of two components: Component I is nitrogenase MoFe protein or dinitrogenase, which contains 2 molecules each of 2 non-identical subunits. Component II is nitrogenase Fe protein or dinitrogenase reductase, which is a homodimer. The monomer is encoded by the nifH gene []. Component II has 2 ATP-binding domains and one 4Fe-4S cluster per homodimer: it supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component I for the reduction of molecular nitrogen to ammonia []. There are a number of conserved regions in the sequence of these proteins: in the N-terminal section there is an ATP-binding site motif 'A' (P-loop) IPR001687 from INTERPRO and in the central section there are two conserved cysteines which have been shown, in nifH, to be the ligands of the 4Fe-4S cluster. Protochlorophyllide reductase is involved in light-independent chlorophyll biosynthesis. The light-independent reaction uses Mg-ATP and reduced ferredoxin to reduce ring D of protochlorophyllide (Pchlide) to form chlorophyllide a (Chlide). This enzyme complex is composed of three subunits: ChlL, ChlN and ChlB. ChlL is present as a homodimer, and binds one 4Fe-4S cluster per dimer. The conserved domains, including the ATP-binding motif and the Fe-S binding motif found in the three subunits, are similar to those in nitrogenases []. ; GO: 0005524 ATP binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1CP2_A 2AFI_F 1N2C_F 1FP6_C 2AFK_G 1M34_M 1XD8_A 1NIP_A 1M1Y_N 1G21_H ....
Probab=70.69 E-value=3.3 Score=40.38 Aligned_cols=23 Identities=9% Similarity=-0.113 Sum_probs=19.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
+.|.|+|=| |+||+|.+.++--.
T Consensus 1 r~IAiYGKG-GIGKST~~~Nlsaa 23 (273)
T PF00142_consen 1 RKIAIYGKG-GIGKSTTASNLSAA 23 (273)
T ss_dssp EEEEEEEST-TSSHHHHHHHHHHH
T ss_pred CeEEEEcCC-CcccChhhhHHHHH
Confidence 468999999 99999999877543
No 326
>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.
Probab=70.64 E-value=4.1 Score=40.07 Aligned_cols=22 Identities=5% Similarity=-0.256 Sum_probs=16.9
Q ss_pred eeeeeeccCccchhHHH-HHHHhh
Q 011431 229 SYRCWLLCPLFSELRVL-TNDVHQ 251 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa-~~vy~~ 251 (486)
-++|.|-. |.|||+|+ ..+.++
T Consensus 71 r~~Ifg~~-g~GKt~L~l~~i~~~ 93 (274)
T cd01132 71 RELIIGDR-QTGKTAIAIDTIINQ 93 (274)
T ss_pred EEEeeCCC-CCCccHHHHHHHHHh
Confidence 46788888 99999995 556554
No 327
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=70.63 E-value=6.7 Score=44.35 Aligned_cols=153 Identities=10% Similarity=-0.020 Sum_probs=0.0
Q ss_pred hhhHHHhHHhhhhhhhhhhHHHHHHHhhhhhhccchhhhhhHHHHHHHhhcCCCce-eeeeeeccCccchhHHHHHHHhh
Q 011431 173 TDEIVNGVVENLKSFAELMEKELVVLFNRARDKLDNHASSLLDEVLSLLRNAEGYR-SYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 173 I~~IV~~V~~~L~~~~~~~~~~lVgi~~~~~~~~~~~~~~~l~~v~~ll~~~~~~~-vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
+..+..+-...+........+.++| .+.....+...+......+..++... .+-++|.- |+|||+||+.+...
T Consensus 434 ~~~~~~~~~~~l~~l~~~l~~~v~G-----Q~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~-GvGKT~lA~~la~~ 507 (731)
T TIGR02639 434 VKTVSVDDREKLKNLEKNLKAKIFG-----QDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPT-GVGKTELAKQLAEA 507 (731)
T ss_pred hhhhhhHHHHHHHHHHHHHhcceeC-----cHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCC-CccHHHHHHHHHHH
Q ss_pred hccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccCcceeeceeccc--CHHHHHHHhcC
Q 011431 252 LMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTTSAAHPYVEDVI--DDAYMEDITDD 329 (486)
Q Consensus 252 ~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~tKr~LlVLDDVw--~~~~~~~l~~~ 329 (486)
+...|-.-+............+.-..-...+- ..+..+.+.++....-.|++|++. +...+..++..
T Consensus 508 l~~~~~~~d~se~~~~~~~~~lig~~~gyvg~-----------~~~~~l~~~~~~~p~~VvllDEieka~~~~~~~Ll~~ 576 (731)
T TIGR02639 508 LGVHLERFDMSEYMEKHTVSRLIGAPPGYVGF-----------EQGGLLTEAVRKHPHCVLLLDEIEKAHPDIYNILLQV 576 (731)
T ss_pred hcCCeEEEeCchhhhcccHHHHhcCCCCCccc-----------chhhHHHHHHHhCCCeEEEEechhhcCHHHHHHHHHh
Q ss_pred CCCCC------------CCCEEEeeC
Q 011431 330 SSPSL------------NLSRINSTS 343 (486)
Q Consensus 330 ~~~~~------------~GSrIIiTT 343 (486)
. +.+ ..+.||+||
T Consensus 577 l-d~g~~~d~~g~~vd~~~~iii~Ts 601 (731)
T TIGR02639 577 M-DYATLTDNNGRKADFRNVILIMTS 601 (731)
T ss_pred h-ccCeeecCCCcccCCCCCEEEECC
No 328
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein.
Probab=70.40 E-value=3 Score=39.18 Aligned_cols=24 Identities=4% Similarity=-0.411 Sum_probs=20.6
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|.|-. |-|||||++.+....
T Consensus 30 e~~~i~G~n-GsGKSTLl~~l~Gl~ 53 (216)
T TIGR00960 30 EMVFLVGHS-GAGKSTFLKLILGIE 53 (216)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCCC
Confidence 578899999 999999999997643
No 329
>TIGR02016 BchX chlorophyllide reductase iron protein subunit X. This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.
Probab=70.40 E-value=2.9 Score=41.72 Aligned_cols=24 Identities=17% Similarity=-0.094 Sum_probs=18.6
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
++|+|.|=| |+||||++-++-..+
T Consensus 1 ~vIav~gKG-GvGKTT~a~nLA~~L 24 (296)
T TIGR02016 1 RIIAIYGKG-GSGKSFTTTNLSHMM 24 (296)
T ss_pred CEEEEECCC-CCCHHHHHHHHHHHH
Confidence 478888877 999999887765433
No 330
>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.
Probab=70.36 E-value=3.1 Score=36.88 Aligned_cols=22 Identities=0% Similarity=-0.224 Sum_probs=19.0
Q ss_pred eeeeeeccCccchhHHHHHHHhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.|.++|.. |+|||||+..+.+.
T Consensus 2 ~i~~~G~~-~~GKssli~~l~~~ 23 (168)
T cd01897 2 TLVIAGYP-NVGKSSLVNKLTRA 23 (168)
T ss_pred eEEEEcCC-CCCHHHHHHHHhcC
Confidence 46789999 99999999998764
No 331
>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=70.28 E-value=3.1 Score=37.88 Aligned_cols=23 Identities=4% Similarity=-0.325 Sum_probs=20.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-- |-|||||++.+...
T Consensus 27 ~~~~i~G~n-GsGKSTLl~~l~G~ 49 (178)
T cd03229 27 EIVALLGPS-GSGKSTLLRCIAGL 49 (178)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCC
Confidence 478899999 99999999999754
No 332
>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=70.28 E-value=3.1 Score=38.26 Aligned_cols=24 Identities=8% Similarity=-0.243 Sum_probs=20.3
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|.|-. |-|||||++.+....
T Consensus 19 e~~~i~G~n-GsGKSTLl~~i~G~~ 42 (190)
T TIGR01166 19 EVLALLGAN-GAGKSTLLLHLNGLL 42 (190)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCCC
Confidence 478899999 999999999986543
No 333
>PRK08356 hypothetical protein; Provisional
Probab=70.27 E-value=3.2 Score=38.46 Aligned_cols=20 Identities=5% Similarity=-0.404 Sum_probs=18.2
Q ss_pred eeeeeeeccCccchhHHHHHH
Q 011431 228 RSYRCWLLCPLFSELRVLTND 248 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~v 248 (486)
.+|++.|+. |.||||+|+.+
T Consensus 6 ~~i~~~G~~-gsGK~t~a~~l 25 (195)
T PRK08356 6 MIVGVVGKI-AAGKTTVAKFF 25 (195)
T ss_pred EEEEEECCC-CCCHHHHHHHH
Confidence 568899999 99999999988
No 334
>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=70.08 E-value=3.1 Score=39.00 Aligned_cols=23 Identities=4% Similarity=-0.301 Sum_probs=20.1
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-- |-|||||++.+...
T Consensus 27 e~~~i~G~n-GsGKSTLl~~l~G~ 49 (213)
T cd03259 27 EFLALLGPS-GCGKTTLLRLIAGL 49 (213)
T ss_pred cEEEEECCC-CCCHHHHHHHHhCC
Confidence 478899999 99999999999764
No 335
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=70.02 E-value=4.6 Score=38.21 Aligned_cols=23 Identities=9% Similarity=-0.244 Sum_probs=19.9
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.++.|+|-. |.|||||.+.+ |.+
T Consensus 29 evv~iiGpS-GSGKSTlLRcl-N~L 51 (240)
T COG1126 29 EVVVIIGPS-GSGKSTLLRCL-NGL 51 (240)
T ss_pred CEEEEECCC-CCCHHHHHHHH-HCC
Confidence 578899999 99999999999 544
No 336
>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=70.00 E-value=4.9 Score=40.14 Aligned_cols=27 Identities=7% Similarity=-0.276 Sum_probs=22.8
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhhh
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
....+|+|.|.+ |.|||||+..+-...
T Consensus 32 ~~~~~i~i~G~~-G~GKttl~~~l~~~~ 58 (300)
T TIGR00750 32 GNAHRVGITGTP-GAGKSTLLEALGMEL 58 (300)
T ss_pred CCceEEEEECCC-CCCHHHHHHHHHHHH
Confidence 457899999999 999999999876644
No 337
>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=70.00 E-value=3.3 Score=38.83 Aligned_cols=26 Identities=4% Similarity=-0.247 Sum_probs=22.2
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhhh
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
+. .+++|.|-- |.|||||++.+....
T Consensus 22 ~~-e~~~i~G~n-GsGKSTLl~~l~G~~ 47 (214)
T cd03297 22 NE-EVTGIFGAS-GAGKSTLLRCIAGLE 47 (214)
T ss_pred cc-eeEEEECCC-CCCHHHHHHHHhCCC
Confidence 35 789999999 999999999997643
No 338
>cd04101 RabL4 RabL4 (Rab-like4) subfamily. RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.
Probab=69.93 E-value=3 Score=36.76 Aligned_cols=19 Identities=0% Similarity=-0.407 Sum_probs=16.6
Q ss_pred eeeeeccCccchhHHHHHHH
Q 011431 230 YRCWLLCPLFSELRVLTNDV 249 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy 249 (486)
|.++|-+ |+|||||+..+.
T Consensus 3 i~vvG~~-~~GKtsl~~~l~ 21 (164)
T cd04101 3 CAVVGDP-AVGKTAFVQMFH 21 (164)
T ss_pred EEEECCC-CCCHHHHHHHHh
Confidence 5689999 999999998774
No 339
>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional
Probab=69.89 E-value=3.2 Score=40.55 Aligned_cols=22 Identities=5% Similarity=-0.222 Sum_probs=16.5
Q ss_pred eeeeeeeccCccchhHHHHHHHh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
++|+|.|=| |+||||++-++=.
T Consensus 3 ~iIav~~KG-GVGKTT~~~nLA~ 24 (270)
T PRK13185 3 LVLAVYGKG-GIGKSTTSSNLSA 24 (270)
T ss_pred eEEEEECCC-CCCHHHHHHHHHH
Confidence 577787755 9999998766543
No 340
>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB. Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.
Probab=69.89 E-value=3.5 Score=37.40 Aligned_cols=25 Identities=0% Similarity=-0.222 Sum_probs=20.8
Q ss_pred CceeeeeeeccCccchhHHHHHHHhh
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
+...|.|+|.. |.|||||+..+.+.
T Consensus 17 ~~~~i~ivG~~-~~GKStlin~l~~~ 41 (179)
T TIGR03598 17 DGPEIAFAGRS-NVGKSSLINALTNR 41 (179)
T ss_pred CCCEEEEEcCC-CCCHHHHHHHHhCC
Confidence 45567899999 99999999988764
No 341
>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=69.76 E-value=3.8 Score=37.51 Aligned_cols=29 Identities=7% Similarity=-0.041 Sum_probs=24.3
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYE 257 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~ 257 (486)
++|-++|.. |.|||||++.+.......|.
T Consensus 3 r~ivl~Gps-g~GK~~l~~~L~~~~~~~~~ 31 (183)
T PF00625_consen 3 RPIVLVGPS-GSGKSTLAKRLIQEFPDKFG 31 (183)
T ss_dssp SEEEEESST-TSSHHHHHHHHHHHSTTTEE
T ss_pred CEEEEECCC-CCCHHHHHHHHHHhcccccc
Confidence 567789999 99999999999887766664
No 342
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=69.73 E-value=3.7 Score=42.20 Aligned_cols=31 Identities=3% Similarity=-0.350 Sum_probs=26.5
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhhhcccc
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQLMDNY 256 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~F 256 (486)
+..+.+++||-. |-|||.+|+++++.....|
T Consensus 146 k~PlgllL~GPP-GcGKTllAraiA~elg~~~ 176 (413)
T PLN00020 146 KVPLILGIWGGK-GQGKSFQCELVFKKMGIEP 176 (413)
T ss_pred CCCeEEEeeCCC-CCCHHHHHHHHHHHcCCCe
Confidence 456789999999 9999999999999875554
No 343
>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2). eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel
Probab=69.68 E-value=3 Score=38.91 Aligned_cols=19 Identities=0% Similarity=-0.207 Sum_probs=17.5
Q ss_pred eeeeeeccCccchhHHHHHH
Q 011431 229 SYRCWLLCPLFSELRVLTND 248 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~v 248 (486)
.|||+|-. |-|||||++++
T Consensus 2 ~i~~~g~~-~~GKttL~~~l 20 (203)
T cd01888 2 NIGTIGHV-AHGKSTLVKAL 20 (203)
T ss_pred EEEEECCC-CCCHHHHHHHH
Confidence 47899999 99999999988
No 344
>cd04136 Rap_like Rap-like subfamily. The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.
Probab=69.58 E-value=3.3 Score=36.35 Aligned_cols=20 Identities=5% Similarity=-0.270 Sum_probs=16.6
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|.++|-. |+|||||+....+
T Consensus 4 i~i~G~~-~vGKTsl~~~~~~ 23 (163)
T cd04136 4 VVVLGSG-GVGKSALTVQFVQ 23 (163)
T ss_pred EEEECCC-CCCHHHHHHHHHh
Confidence 5688999 9999999877653
No 345
>cd04103 Centaurin_gamma Centaurin gamma. The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.
Probab=69.57 E-value=3.1 Score=37.04 Aligned_cols=18 Identities=0% Similarity=-0.335 Sum_probs=15.7
Q ss_pred eeeeeccCccchhHHHHHH
Q 011431 230 YRCWLLCPLFSELRVLTND 248 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~v 248 (486)
|.++|.+ |+|||||+...
T Consensus 3 i~vvG~~-gvGKTsli~~~ 20 (158)
T cd04103 3 LGIVGNL-QSGKSALVHRY 20 (158)
T ss_pred EEEECCC-CCcHHHHHHHH
Confidence 5789999 99999999754
No 346
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=69.50 E-value=4.6 Score=43.48 Aligned_cols=27 Identities=0% Similarity=-0.258 Sum_probs=21.9
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhhcc
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
-.+|+++|-+ |.||||++..+-.....
T Consensus 350 G~vIaLVGPt-GvGKTTtaakLAa~la~ 376 (559)
T PRK12727 350 GGVIALVGPT-GAGKTTTIAKLAQRFAA 376 (559)
T ss_pred CCEEEEECCC-CCCHHHHHHHHHHHHHH
Confidence 4788999999 99999999888665433
No 347
>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=69.47 E-value=3.1 Score=40.11 Aligned_cols=22 Identities=5% Similarity=-0.311 Sum_probs=18.0
Q ss_pred eeeccCccchhHHHHHHHhhhcc
Q 011431 232 CWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 232 I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
|+|+. |.||||+++.+.+.+..
T Consensus 1 ViGpa-GSGKTT~~~~~~~~~~~ 22 (238)
T PF03029_consen 1 VIGPA-GSGKTTFCKGLSEWLES 22 (238)
T ss_dssp -EEST-TSSHHHHHHHHHHHHTT
T ss_pred CCCCC-CCCHHHHHHHHHHHHHh
Confidence 57999 99999999999876544
No 348
>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=69.36 E-value=3.5 Score=37.21 Aligned_cols=24 Identities=8% Similarity=-0.270 Sum_probs=19.8
Q ss_pred eeeeeeccCccchhHHHHHHHhhhc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
++.+.|.. |.||||++..+...+.
T Consensus 2 ~~~~~G~~-G~GKTt~~~~la~~~~ 25 (173)
T cd03115 2 VILLVGLQ-GVGKTTTAAKLALYLK 25 (173)
T ss_pred EEEEECCC-CCCHHHHHHHHHHHHH
Confidence 56789999 9999999988876554
No 349
>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. co
Probab=69.30 E-value=3.9 Score=37.64 Aligned_cols=23 Identities=4% Similarity=-0.065 Sum_probs=20.0
Q ss_pred ceeeeeeeccCccchhHHHHHHHh
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
.|-|+++|-. |+|||||+..+.+
T Consensus 2 ~r~i~ivG~~-~~GKTsL~~~l~~ 24 (194)
T cd01891 2 IRNIAIIAHV-DHGKTTLVDALLK 24 (194)
T ss_pred ccEEEEEecC-CCCHHHHHHHHHH
Confidence 4678899999 9999999998765
No 350
>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=69.25 E-value=3.3 Score=38.70 Aligned_cols=23 Identities=0% Similarity=-0.279 Sum_probs=20.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-. |.|||||++.+...
T Consensus 27 ~~~~i~G~n-GsGKSTLl~~l~G~ 49 (210)
T cd03269 27 EIFGLLGPN-GAGKTTTIRMILGI 49 (210)
T ss_pred cEEEEECCC-CCCHHHHHHHHhCC
Confidence 578899999 99999999999754
No 351
>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=69.21 E-value=3.3 Score=38.78 Aligned_cols=23 Identities=4% Similarity=-0.396 Sum_probs=20.1
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-- |-|||||++.+...
T Consensus 29 ~~~~l~G~n-GsGKSTLl~~i~Gl 51 (214)
T TIGR02673 29 EFLFLTGPS-GAGKTTLLKLLYGA 51 (214)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCC
Confidence 478899999 99999999998654
No 352
>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).
Probab=68.97 E-value=3.4 Score=39.18 Aligned_cols=24 Identities=4% Similarity=-0.375 Sum_probs=21.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|+|-- |-|||||++.+....
T Consensus 27 e~~~i~G~n-GsGKSTLl~~i~G~~ 50 (227)
T cd03260 27 EITALIGPS-GCGKSTLLRLLNRLN 50 (227)
T ss_pred CEEEEECCC-CCCHHHHHHHHHhhc
Confidence 578999999 999999999997654
No 353
>cd02032 Bchl_like This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.
Probab=68.93 E-value=3.3 Score=40.42 Aligned_cols=21 Identities=5% Similarity=-0.217 Sum_probs=16.1
Q ss_pred eeeeeeccCccchhHHHHHHHh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
+|.+.|=| |+||||++-++=.
T Consensus 2 ~i~v~gKG-GvGKTT~a~nLA~ 22 (267)
T cd02032 2 VLAVYGKG-GIGKSTTSSNLSV 22 (267)
T ss_pred EEEEecCC-CCCHHHHHHHHHH
Confidence 57788866 9999998776533
No 354
>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine
Probab=68.92 E-value=3.5 Score=36.93 Aligned_cols=21 Identities=0% Similarity=-0.382 Sum_probs=18.0
Q ss_pred eeeeeeccCccchhHHHHHHHh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
-|.++|-+ |+|||||+..+..
T Consensus 4 ki~vvG~~-~vGKTsli~~~~~ 24 (170)
T cd04115 4 KIIVIGDS-NVGKTCLTYRFCA 24 (170)
T ss_pred EEEEECCC-CCCHHHHHHHHHh
Confidence 46789999 9999999988764
No 355
>cd01892 Miro2 Miro2 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.
Probab=68.92 E-value=4 Score=36.66 Aligned_cols=24 Identities=4% Similarity=-0.356 Sum_probs=19.3
Q ss_pred CceeeeeeeccCccchhHHHHHHHh
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
.+..+.++|-+ |+|||+|+....+
T Consensus 3 ~~~kv~~vG~~-~vGKTsli~~~~~ 26 (169)
T cd01892 3 NVFLCFVLGAK-GSGKSALLRAFLG 26 (169)
T ss_pred eEEEEEEECCC-CCcHHHHHHHHhC
Confidence 34456789999 9999999988755
No 356
>cd04114 Rab30 Rab30 subfamily. Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=68.81 E-value=3.9 Score=36.26 Aligned_cols=23 Identities=0% Similarity=-0.312 Sum_probs=19.6
Q ss_pred ceeeeeeeccCccchhHHHHHHHh
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
...|.++|.. |.|||||+..+..
T Consensus 7 ~~~v~v~G~~-~~GKSsli~~l~~ 29 (169)
T cd04114 7 LFKIVLIGNA-GVGKTCLVRRFTQ 29 (169)
T ss_pred eeEEEEECCC-CCCHHHHHHHHHh
Confidence 4567899999 9999999988764
No 357
>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.
Probab=68.66 E-value=8.2 Score=40.76 Aligned_cols=25 Identities=4% Similarity=-0.084 Sum_probs=20.1
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
+-+||.|-. |+|||||+..+-++..
T Consensus 142 QRigIfags-GvGKs~L~~~i~~~~~ 166 (466)
T TIGR01040 142 QKIPIFSAA-GLPHNEIAAQICRQAG 166 (466)
T ss_pred CeeeeecCC-CCCHHHHHHHHHHhhc
Confidence 356899888 9999999998876543
No 358
>cd04151 Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.
Probab=68.62 E-value=3.3 Score=36.45 Aligned_cols=20 Identities=10% Similarity=-0.253 Sum_probs=17.2
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|.++|.+ |+|||||+..+..
T Consensus 2 v~lvG~~-~~GKTsl~~~l~~ 21 (158)
T cd04151 2 ILILGLD-NAGKTTILYRLQL 21 (158)
T ss_pred EEEECCC-CCCHHHHHHHHcc
Confidence 5689999 9999999998843
No 359
>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases. Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.
Probab=68.58 E-value=6.1 Score=36.06 Aligned_cols=22 Identities=9% Similarity=-0.223 Sum_probs=18.4
Q ss_pred eeeeeeeccCccchhHHHHHHHh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
..|.++|.. |.|||||++.+..
T Consensus 18 ~~i~ivG~~-~~GKTsli~~l~~ 39 (184)
T smart00178 18 AKILFLGLD-NAGKTTLLHMLKN 39 (184)
T ss_pred CEEEEECCC-CCCHHHHHHHHhc
Confidence 446699999 9999999988754
No 360
>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=68.55 E-value=3.4 Score=39.46 Aligned_cols=23 Identities=4% Similarity=-0.385 Sum_probs=20.1
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|+|-. |-|||||++.+...
T Consensus 28 e~~~i~G~n-GsGKSTLl~~l~Gl 50 (241)
T cd03256 28 EFVALIGPS-GAGKSTLLRCLNGL 50 (241)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCC
Confidence 478899999 99999999999754
No 361
>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional
Probab=68.50 E-value=3.6 Score=38.99 Aligned_cols=24 Identities=4% Similarity=-0.344 Sum_probs=20.8
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|.|-- |.|||||++.+....
T Consensus 37 e~~~i~G~n-GsGKSTLl~~i~Gl~ 60 (228)
T PRK10584 37 ETIALIGES-GSGKSTLLAILAGLD 60 (228)
T ss_pred CEEEEECCC-CCCHHHHHHHHHcCC
Confidence 578899999 999999999997643
No 362
>PTZ00185 ATPase alpha subunit; Provisional
Probab=68.45 E-value=7.3 Score=41.75 Aligned_cols=88 Identities=9% Similarity=-0.024 Sum_probs=46.1
Q ss_pred eeeeeeccCccchhHHH-HHHHhhhccc-----cccceEEEEeeeccHHHHHHHHhhhhcccccc------cccccc---
Q 011431 229 SYRCWLLCPLFSELRVL-TNDVHQLMDN-----YENSDVTLAKFEGEVKKLDQRLLRFLESVDKH------VASYDR--- 293 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa-~~vy~~~~~~-----F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~------~~~~~~--- 293 (486)
.++|.|-. |+|||||| -.+-|+.... -+...++.+.+.+.-..... +...|...... ....+.
T Consensus 191 R~lIfGd~-GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~e-i~~~L~e~GaL~~TvVV~AtAdep~~ 268 (574)
T PTZ00185 191 RELIVGDR-QTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVAR-IHRLLRSYGALRYTTVMAATAAEPAG 268 (574)
T ss_pred EEEeecCC-CCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHH-HHHHHHhcCCccceEEEEECCCCCHH
Confidence 45788888 99999996 5566654210 12223455666655544443 44444322100 000000
Q ss_pred ---------cccccccccccccCcceeeceecccCHH
Q 011431 294 ---------YGSASFEQPRPQTTSAAHPYVEDVIDDA 321 (486)
Q Consensus 294 ---------~g~~s~l~~~L~~tKr~LlVLDDVw~~~ 321 (486)
...++.+++ ++ +++||++||+-...
T Consensus 269 ~r~~Apy~a~tiAEYFrd--~G-kdVLiv~DDLTr~A 302 (574)
T PTZ00185 269 LQYLAPYSGVTMGEYFMN--RG-RHCLCVYDDLSKQA 302 (574)
T ss_pred HHHHHHHHHHHHHHHHHH--cC-CCEEEEEcCchHHH
Confidence 011233332 34 89999999997643
No 363
>cd01866 Rab2 Rab2 subfamily. Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur
Probab=68.31 E-value=3.5 Score=36.78 Aligned_cols=22 Identities=9% Similarity=-0.159 Sum_probs=18.6
Q ss_pred eeeeeeccCccchhHHHHHHHhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
-|.++|-. |+|||||+..+.+.
T Consensus 6 ki~vvG~~-~vGKSsLl~~l~~~ 27 (168)
T cd01866 6 KYIIIGDT-GVGKSCLLLQFTDK 27 (168)
T ss_pred EEEEECCC-CCCHHHHHHHHHcC
Confidence 46799999 99999999887653
No 364
>PRK04213 GTP-binding protein; Provisional
Probab=68.30 E-value=4 Score=37.64 Aligned_cols=24 Identities=0% Similarity=-0.255 Sum_probs=19.9
Q ss_pred ceeeeeeeccCccchhHHHHHHHhh
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
...|.++|.. |+|||||+..+.+.
T Consensus 9 ~~~i~i~G~~-~~GKSsLin~l~~~ 32 (201)
T PRK04213 9 KPEIVFVGRS-NVGKSTLVRELTGK 32 (201)
T ss_pred CCEEEEECCC-CCCHHHHHHHHhCC
Confidence 3457899999 99999999988653
No 365
>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.
Probab=68.27 E-value=3.7 Score=36.25 Aligned_cols=21 Identities=5% Similarity=-0.190 Sum_probs=18.5
Q ss_pred eeeeeeccCccchhHHHHHHHh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
+|+|+|-. |.|||||...+..
T Consensus 2 ~i~iiG~~-~~GKtsli~~l~~ 22 (168)
T cd01887 2 VVTVMGHV-DHGKTTLLDKIRK 22 (168)
T ss_pred EEEEEecC-CCCHHHHHHHHHh
Confidence 57899999 9999999998854
No 366
>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.
Probab=68.22 E-value=3.7 Score=38.66 Aligned_cols=24 Identities=8% Similarity=-0.164 Sum_probs=20.7
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|+|-. |-|||||++.+....
T Consensus 29 e~~~i~G~n-GsGKSTLl~~l~Gl~ 52 (220)
T cd03263 29 EIFGLLGHN-GAGKTTTLKMLTGEL 52 (220)
T ss_pred cEEEEECCC-CCCHHHHHHHHhCCC
Confidence 478899999 999999999997643
No 367
>PRK13541 cytochrome c biogenesis protein CcmA; Provisional
Probab=68.19 E-value=3.6 Score=38.04 Aligned_cols=23 Identities=4% Similarity=-0.396 Sum_probs=20.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|+|-. |-|||||++.+...
T Consensus 27 e~~~l~G~n-GsGKSTLl~~l~G~ 49 (195)
T PRK13541 27 AITYIKGAN-GCGKSSLLRMIAGI 49 (195)
T ss_pred cEEEEECCC-CCCHHHHHHHHhcC
Confidence 478899999 99999999999764
No 368
>PRK07429 phosphoribulokinase; Provisional
Probab=68.14 E-value=4.5 Score=40.99 Aligned_cols=29 Identities=7% Similarity=-0.267 Sum_probs=23.9
Q ss_pred CCCceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 224 AEGYRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 224 ~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
.....+|||.|.. |-||||+++.+...+.
T Consensus 5 ~~~~~IIgI~G~S-GSGKSTla~~L~~ll~ 33 (327)
T PRK07429 5 PDRPVLLGVAGDS-GCGKTTFLRGLADLLG 33 (327)
T ss_pred CCCCEEEEEECCC-CCCHHHHHHHHHhHhc
Confidence 3467799999999 9999999999876543
No 369
>cd04106 Rab23_lke Rab23-like subfamily. Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G
Probab=68.11 E-value=3.6 Score=36.16 Aligned_cols=21 Identities=5% Similarity=-0.249 Sum_probs=18.0
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|-. |+|||||+..+.+.
T Consensus 3 v~~vG~~-~~GKTsl~~~~~~~ 23 (162)
T cd04106 3 VIVVGNG-NVGKSSMIQRFVKG 23 (162)
T ss_pred EEEECCC-CCCHHHHHHHHhcC
Confidence 6789999 99999999987653
No 370
>KOG0781 consensus Signal recognition particle receptor, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=68.07 E-value=12 Score=39.50 Aligned_cols=43 Identities=5% Similarity=-0.112 Sum_probs=32.5
Q ss_pred CCCceeeeeeeccCccch-hHHHHHHHhhhccccccceEEEEeee
Q 011431 224 AEGYRSYRCWLLCPLFSE-LRVLTNDVHQLMDNYENSDVTLAKFE 267 (486)
Q Consensus 224 ~~~~~vi~I~GmGgGvGK-TTLa~~vy~~~~~~F~~~~~~~v~~~ 267 (486)
..++-+|.+||.- |+|| |+||+.-|--+..+|.--..++..+.
T Consensus 375 ~krPYVi~fvGVN-GVGKSTNLAKIayWLlqNkfrVLIAACDTFR 418 (587)
T KOG0781|consen 375 RKRPYVISFVGVN-GVGKSTNLAKIAYWLLQNKFRVLIAACDTFR 418 (587)
T ss_pred cCCCeEEEEEeec-CccccchHHHHHHHHHhCCceEEEEeccchh
Confidence 4577899999999 9999 66999999888888864333444443
No 371
>cd04156 ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h
Probab=68.05 E-value=3.6 Score=36.13 Aligned_cols=21 Identities=14% Similarity=-0.146 Sum_probs=17.7
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|.. |+|||||+..+.+.
T Consensus 2 i~i~G~~-~~GKTsl~~~~~~~ 22 (160)
T cd04156 2 VLLLGLD-SAGKSTLLYKLKHA 22 (160)
T ss_pred EEEEcCC-CCCHHHHHHHHhcC
Confidence 4688999 99999999988654
No 372
>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.
Probab=67.97 E-value=3.6 Score=38.53 Aligned_cols=23 Identities=4% Similarity=-0.315 Sum_probs=20.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|+|-- |-|||||++.+...
T Consensus 26 e~~~l~G~n-GsGKSTLl~~l~G~ 48 (213)
T cd03235 26 EFLAIVGPN-GAGKSTLLKAILGL 48 (213)
T ss_pred CEEEEECCC-CCCHHHHHHHHcCC
Confidence 478899999 99999999998654
No 373
>PRK04132 replication factor C small subunit; Provisional
Probab=67.94 E-value=21 Score=40.84 Aligned_cols=122 Identities=4% Similarity=-0.017 Sum_probs=61.3
Q ss_pred cCccchhHHHHHHHhhhccc-cccceEEEEee-e-ccHHHHHHHHhhhhcccccccccccccccccccccccccCcceee
Q 011431 236 CPLFSELRVLTNDVHQLMDN-YENSDVTLAKF-E-GEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTTSAAHP 312 (486)
Q Consensus 236 GgGvGKTTLa~~vy~~~~~~-F~~~~~~~v~~-~-~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~tKr~Ll 312 (486)
.-++||||+|.++-+.+-.. +... +....- . .++..++..+-..... . .+...+..++
T Consensus 574 Ph~lGKTT~A~ala~~l~g~~~~~~-~lElNASd~rgid~IR~iIk~~a~~-----------~-------~~~~~~~KVv 634 (846)
T PRK04132 574 PTVLHNTTAALALARELFGENWRHN-FLELNASDERGINVIREKVKEFART-----------K-------PIGGASFKII 634 (846)
T ss_pred CCcccHHHHHHHHHHhhhcccccCe-EEEEeCCCcccHHHHHHHHHHHHhc-----------C-------CcCCCCCEEE
Confidence 33889999999998876322 2211 222211 2 2444344333211110 0 0011145789
Q ss_pred ceecccC--HHHHHHHhcCCCCCCCCCEEEeeC-CccccccccccCCCceEecCCCCCchhhhhhccc
Q 011431 313 YVEDVID--DAYMEDITDDSSPSLNLSRINSTS-RFEQLWPETISATDTCTEDVTVDNSPSLNLSSCN 377 (486)
Q Consensus 313 VLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTT-R~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~~ 377 (486)
++|.+.. ......|+.-.-+.....++|++| ....+.. .......++++++++.++-...+.+-
T Consensus 635 IIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~-tIrSRC~~i~F~~ls~~~i~~~L~~I 701 (846)
T PRK04132 635 FLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIE-PIQSRCAIFRFRPLRDEDIAKRLRYI 701 (846)
T ss_pred EEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCch-HHhhhceEEeCCCCCHHHHHHHHHHH
Confidence 9999985 345555552110112345555554 4444431 11112357899999988776665543
No 374
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=67.92 E-value=28 Score=37.69 Aligned_cols=68 Identities=6% Similarity=-0.048 Sum_probs=36.9
Q ss_pred cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCcc-ccccccccCCCceEecCCCCCchhhhhhcc
Q 011431 308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFE-QLWPETISATDTCTEDVTVDNSPSLNLSSC 376 (486)
Q Consensus 308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~-~V~~~~~~~~~~~y~v~~L~~~es~~LF~~ 376 (486)
++.++|+|++.. ......|+...-+..+.+++|++|.+. .+.. ........+++.+|+.++......+
T Consensus 117 ~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL~~-tI~SRc~~~~F~~Ls~~ei~~~L~~ 187 (535)
T PRK08451 117 RFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPA-TILSRTQHFRFKQIPQNSIISHLKT 187 (535)
T ss_pred CeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhhCch-HHHhhceeEEcCCCCHHHHHHHHHH
Confidence 566888998763 344444442110113456766666553 2321 1111234788999988877666543
No 375
>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=67.90 E-value=3.6 Score=39.22 Aligned_cols=24 Identities=13% Similarity=-0.222 Sum_probs=20.6
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|+|-- |-|||||++.+....
T Consensus 27 e~~~l~G~n-GsGKSTLl~~l~G~~ 50 (235)
T cd03261 27 EILAIIGPS-GSGKSTLLRLIVGLL 50 (235)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCCC
Confidence 478899999 999999999997643
No 376
>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=67.89 E-value=3.8 Score=38.66 Aligned_cols=24 Identities=4% Similarity=-0.377 Sum_probs=20.7
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|.|-- |-|||||++.+....
T Consensus 31 ~~~~i~G~n-GsGKSTLl~~l~Gl~ 54 (220)
T cd03293 31 EFVALVGPS-GCGKSTLLRIIAGLE 54 (220)
T ss_pred cEEEEECCC-CCCHHHHHHHHhCCC
Confidence 478899999 999999999997643
No 377
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=67.84 E-value=44 Score=33.75 Aligned_cols=69 Identities=7% Similarity=-0.058 Sum_probs=39.5
Q ss_pred cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEeeCCccc-cccccccCCCceEecCCCCCchhhhhhccc
Q 011431 308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINSTSRFEQ-LWPETISATDTCTEDVTVDNSPSLNLSSCN 377 (486)
Q Consensus 308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIiTTR~~~-V~~~~~~~~~~~y~v~~L~~~es~~LF~~~ 377 (486)
.+..+|+|++.. ......++...-+-...+.+|++|.+.+ ++. .......++++++++.++..+.+...
T Consensus 110 ~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~-TIrSRc~~i~~~~~~~~~~~~~L~~~ 181 (329)
T PRK08058 110 NKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILP-TILSRCQVVEFRPLPPESLIQRLQEE 181 (329)
T ss_pred CceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcH-HHHhhceeeeCCCCCHHHHHHHHHHc
Confidence 445677888753 3334445522211234677777776544 432 11112357899999999987777643
No 378
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=67.82 E-value=15 Score=37.15 Aligned_cols=68 Identities=13% Similarity=0.000 Sum_probs=39.1
Q ss_pred ceeeceeccc--CHHHHHHHhcCCCCCCCCCEEEeeCCccc-cccccccCCCceEecCCCCCchhhhhhccc
Q 011431 309 AAHPYVEDVI--DDAYMEDITDDSSPSLNLSRINSTSRFEQ-LWPETISATDTCTEDVTVDNSPSLNLSSCN 377 (486)
Q Consensus 309 r~LlVLDDVw--~~~~~~~l~~~~~~~~~GSrIIiTTR~~~-V~~~~~~~~~~~y~v~~L~~~es~~LF~~~ 377 (486)
+..+|+|+.. +......++...-+-..++.+|+||.+.+ ++. ....-...+++.+++.+++.+.+...
T Consensus 107 ~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~-TI~SRc~~~~~~~~~~~~~~~~L~~~ 177 (328)
T PRK05707 107 RKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLP-TIKSRCQQQACPLPSNEESLQWLQQA 177 (328)
T ss_pred CeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcH-HHHhhceeeeCCCcCHHHHHHHHHHh
Confidence 3344668887 34455555521101124677777776654 441 11112346899999999998887654
No 379
>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]
Probab=67.74 E-value=3.8 Score=39.95 Aligned_cols=24 Identities=8% Similarity=-0.292 Sum_probs=21.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|.|-- |-|||||.+.+..-+
T Consensus 29 ~i~~iiGpN-G~GKSTLLk~l~g~l 52 (258)
T COG1120 29 EITGILGPN-GSGKSTLLKCLAGLL 52 (258)
T ss_pred cEEEEECCC-CCCHHHHHHHHhccC
Confidence 578899999 999999999997644
No 380
>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=67.70 E-value=3.7 Score=38.70 Aligned_cols=23 Identities=0% Similarity=-0.283 Sum_probs=20.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-- |-|||||++.+...
T Consensus 27 e~~~i~G~n-GsGKSTLl~~i~G~ 49 (220)
T cd03265 27 EIFGLLGPN-GAGKTTTIKMLTTL 49 (220)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCC
Confidence 578899999 99999999999764
No 381
>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ. Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=67.62 E-value=3.9 Score=39.08 Aligned_cols=25 Identities=8% Similarity=-0.129 Sum_probs=18.9
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
++|++.+-=||+||||++-++-..+
T Consensus 2 ~iI~v~s~KGGvGKTt~a~nla~~l 26 (246)
T TIGR03371 2 KVIAIVGVKGGVGKTTLTANLASAL 26 (246)
T ss_pred cEEEEEeCCCCccHHHHHHHHHHHH
Confidence 4678877555999999998775444
No 382
>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=67.57 E-value=3.8 Score=37.52 Aligned_cols=21 Identities=0% Similarity=-0.222 Sum_probs=18.8
Q ss_pred eeeeeeeccCccchhHHHHHHH
Q 011431 228 RSYRCWLLCPLFSELRVLTNDV 249 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy 249 (486)
.+++++|-- |-|||||++.+.
T Consensus 22 ~~~~l~G~n-G~GKSTLl~~il 42 (176)
T cd03238 22 VLVVVTGVS-GSGKSTLVNEGL 42 (176)
T ss_pred CEEEEECCC-CCCHHHHHHHHh
Confidence 578899999 999999999885
No 383
>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=67.56 E-value=3.7 Score=39.32 Aligned_cols=23 Identities=4% Similarity=-0.335 Sum_probs=20.3
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-- |.|||||++.+...
T Consensus 29 e~~~i~G~n-GsGKSTLl~~l~Gl 51 (239)
T cd03296 29 ELVALLGPS-GSGKTTLLRLIAGL 51 (239)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCC
Confidence 578899999 99999999999764
No 384
>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases. This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....
Probab=67.54 E-value=6.4 Score=35.72 Aligned_cols=23 Identities=9% Similarity=-0.262 Sum_probs=18.9
Q ss_pred ceeeeeeeccCccchhHHHHHHHh
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
-.-|-+.|+. |.|||||++.+..
T Consensus 14 ~~~ililGl~-~sGKTtll~~l~~ 36 (175)
T PF00025_consen 14 EIKILILGLD-GSGKTTLLNRLKN 36 (175)
T ss_dssp EEEEEEEEST-TSSHHHHHHHHHS
T ss_pred EEEEEEECCC-ccchHHHHHHhhh
Confidence 3445699999 9999999998865
No 385
>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=67.51 E-value=4.4 Score=37.27 Aligned_cols=25 Identities=4% Similarity=-0.435 Sum_probs=21.1
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
..|.|-|.- |.||||+++.+.+.+.
T Consensus 4 ~~IvieG~~-GsGKsT~~~~L~~~l~ 28 (195)
T TIGR00041 4 MFIVIEGID-GAGKTTQANLLKKLLQ 28 (195)
T ss_pred eEEEEECCC-CCCHHHHHHHHHHHHH
Confidence 467888998 9999999999987654
No 386
>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=67.43 E-value=3.8 Score=38.35 Aligned_cols=23 Identities=4% Similarity=-0.351 Sum_probs=20.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-. |-|||||++.+...
T Consensus 28 ~~~~i~G~n-GsGKSTLl~~l~G~ 50 (214)
T cd03292 28 EFVFLVGPS-GAGKSTLLKLIYKE 50 (214)
T ss_pred CEEEEECCC-CCCHHHHHHHHhcC
Confidence 478899999 99999999999764
No 387
>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign
Probab=67.41 E-value=3.9 Score=36.90 Aligned_cols=20 Identities=5% Similarity=-0.275 Sum_probs=16.3
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|.++|-+ |+|||||+.....
T Consensus 5 i~vvG~~-~vGKTsL~~~~~~ 24 (172)
T cd04141 5 IVMLGAG-GVGKSAVTMQFIS 24 (172)
T ss_pred EEEECCC-CCcHHHHHHHHHh
Confidence 5689999 9999999976543
No 388
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=67.40 E-value=32 Score=38.08 Aligned_cols=68 Identities=9% Similarity=0.000 Sum_probs=35.4
Q ss_pred cceeeceecccC--HHHHHHHhcCCCCCCCCCEEEe-eCCccccccccccCCCceEecCCCCCchhhhhhcc
Q 011431 308 SAAHPYVEDVID--DAYMEDITDDSSPSLNLSRINS-TSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSC 376 (486)
Q Consensus 308 Kr~LlVLDDVw~--~~~~~~l~~~~~~~~~GSrIIi-TTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~ 376 (486)
++.++|+|++.. ......|+...-+-...+.+|+ ||+...+... ......+++.++++.++-...+..
T Consensus 121 ~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~~kIl~t-I~SRc~iv~f~~ls~~ei~~~L~~ 191 (614)
T PRK14971 121 KYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPT-ILSRCQIFDFNRIQVADIVNHLQY 191 (614)
T ss_pred CcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCchhchHH-HHhhhheeecCCCCHHHHHHHHHH
Confidence 456778888763 3445555521111123566555 5555555421 111234678888877766555543
No 389
>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.
Probab=67.39 E-value=3.8 Score=39.15 Aligned_cols=23 Identities=0% Similarity=-0.357 Sum_probs=20.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-- |.|||||++.+...
T Consensus 28 e~~~i~G~n-GsGKSTLl~~l~G~ 50 (236)
T TIGR03864 28 EFVALLGPN-GAGKSTLFSLLTRL 50 (236)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCC
Confidence 578899999 99999999999754
No 390
>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.
Probab=67.38 E-value=3.6 Score=37.03 Aligned_cols=23 Identities=13% Similarity=-0.203 Sum_probs=15.7
Q ss_pred eeeeeccCccchhHHHHHHHhhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
|++.+--||+||||++.++-..+
T Consensus 2 i~v~s~kgG~GKTt~a~~LA~~l 24 (169)
T cd02037 2 IAVMSGKGGVGKSTVAVNLALAL 24 (169)
T ss_pred EEEecCCCcCChhHHHHHHHHHH
Confidence 44554445999999988765433
No 391
>cd04154 Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis.
Probab=67.34 E-value=4.3 Score=36.43 Aligned_cols=22 Identities=9% Similarity=-0.112 Sum_probs=18.3
Q ss_pred eeeeeeccCccchhHHHHHHHhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.|.++|-+ |.|||||+..+...
T Consensus 16 kv~ivG~~-~~GKTsL~~~l~~~ 37 (173)
T cd04154 16 RILILGLD-NAGKTTILKKLLGE 37 (173)
T ss_pred EEEEECCC-CCCHHHHHHHHccC
Confidence 45699999 99999999887654
No 392
>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.
Probab=67.32 E-value=3.8 Score=38.32 Aligned_cols=24 Identities=4% Similarity=-0.375 Sum_probs=20.4
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|.|-. |.|||||++.+....
T Consensus 27 e~~~l~G~n-GsGKSTLl~~l~G~~ 50 (213)
T cd03301 27 EFVVLLGPS-GCGKTTTLRMIAGLE 50 (213)
T ss_pred cEEEEECCC-CCCHHHHHHHHhCCC
Confidence 468899999 999999999997643
No 393
>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein. Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.
Probab=67.30 E-value=3.7 Score=39.26 Aligned_cols=23 Identities=4% Similarity=-0.347 Sum_probs=20.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|+|-- |.|||||++.+...
T Consensus 29 e~~~l~G~n-GsGKSTLl~~l~Gl 51 (243)
T TIGR02315 29 EFVAIIGPS-GAGKSTLLRCINRL 51 (243)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCC
Confidence 578899999 99999999998754
No 394
>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=67.22 E-value=3.9 Score=39.17 Aligned_cols=23 Identities=4% Similarity=-0.354 Sum_probs=20.3
Q ss_pred ceeeeeeeccCccchhHHHHHHHh
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
-.+|+|+|.. |-|||||.+.+..
T Consensus 30 GE~VaiIG~S-GaGKSTLLR~lng 52 (258)
T COG3638 30 GEMVAIIGPS-GAGKSTLLRSLNG 52 (258)
T ss_pred CcEEEEECCC-CCcHHHHHHHHhc
Confidence 3588999999 9999999999954
No 395
>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily. This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali
Probab=67.17 E-value=4 Score=35.85 Aligned_cols=21 Identities=0% Similarity=-0.319 Sum_probs=17.1
Q ss_pred eeeeeeccCccchhHHHHHHHh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
-|.++|-+ |+|||||+....+
T Consensus 4 ki~i~G~~-~~GKtsl~~~~~~ 24 (164)
T cd04145 4 KLVVVGGG-GVGKSALTIQFIQ 24 (164)
T ss_pred EEEEECCC-CCcHHHHHHHHHh
Confidence 36789999 9999999987644
No 396
>cd01673 dNK Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1.113), adenosine (EC 2.7.1.76), and thymidine (EC 2.7.1.21) kinases. They are key enzymes in the salvage of deoxyribonucleosides originating from extra- or intracellular breakdown of DNA.
Probab=67.16 E-value=3.9 Score=37.57 Aligned_cols=22 Identities=0% Similarity=-0.369 Sum_probs=18.6
Q ss_pred eeeeeeccCccchhHHHHHHHhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
+|.|-|+- |.||||+++.+.+.
T Consensus 1 ~I~ieG~~-GsGKSTl~~~L~~~ 22 (193)
T cd01673 1 VIVVEGNI-GAGKSTLAKELAEH 22 (193)
T ss_pred CEEEECCC-CCCHHHHHHHHHHH
Confidence 36678888 99999999999765
No 397
>PRK01184 hypothetical protein; Provisional
Probab=67.16 E-value=3.5 Score=37.63 Aligned_cols=18 Identities=0% Similarity=-0.359 Sum_probs=15.9
Q ss_pred eeeeeeeccCccchhHHHH
Q 011431 228 RSYRCWLLCPLFSELRVLT 246 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~ 246 (486)
.+|++.|+. |.||||+++
T Consensus 2 ~~i~l~G~~-GsGKsT~a~ 19 (184)
T PRK01184 2 KIIGVVGMP-GSGKGEFSK 19 (184)
T ss_pred cEEEEECCC-CCCHHHHHH
Confidence 478899999 999999987
No 398
>cd04158 ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membra
Probab=67.14 E-value=3.7 Score=36.75 Aligned_cols=21 Identities=10% Similarity=-0.194 Sum_probs=17.6
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|.. |+|||||+..+.+.
T Consensus 2 vvlvG~~-~~GKTsl~~~l~~~ 22 (169)
T cd04158 2 VVTLGLD-GAGKTTILFKLKQD 22 (169)
T ss_pred EEEECCC-CCCHHHHHHHHhcC
Confidence 4589999 99999999887664
No 399
>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily. RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu
Probab=67.07 E-value=4 Score=36.18 Aligned_cols=20 Identities=0% Similarity=-0.197 Sum_probs=16.4
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|.++|-. |+|||||+....+
T Consensus 2 i~vvG~~-~~GKtsli~~~~~ 21 (165)
T cd04146 2 IAVLGAS-GVGKSALVVRFLT 21 (165)
T ss_pred EEEECCC-CCcHHHHHHHHHh
Confidence 5689999 9999999966543
No 400
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=66.98 E-value=3.9 Score=38.30 Aligned_cols=24 Identities=0% Similarity=-0.312 Sum_probs=18.2
Q ss_pred eeeeeeeccCccchhHHHH-HHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLT-NDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~-~vy~~~ 252 (486)
-.|.++|-. |+|||||+. .+....
T Consensus 10 ~kv~liG~~-g~GKTtLi~~~~~~~~ 34 (215)
T PTZ00132 10 FKLILVGDG-GVGKTTFVKRHLTGEF 34 (215)
T ss_pred ceEEEECCC-CCCHHHHHHHHHhCCC
Confidence 346799999 999999995 554443
No 401
>PRK14737 gmk guanylate kinase; Provisional
Probab=66.95 E-value=4.6 Score=37.29 Aligned_cols=25 Identities=0% Similarity=-0.140 Sum_probs=21.3
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhh
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.++|-+.|.. |.|||||++.+..+.
T Consensus 4 ~~~ivl~Gps-G~GK~tl~~~l~~~~ 28 (186)
T PRK14737 4 PKLFIISSVA-GGGKSTIIQALLEEH 28 (186)
T ss_pred CeEEEEECCC-CCCHHHHHHHHHhcC
Confidence 4567789999 999999999997754
No 402
>cd01868 Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP
Probab=66.92 E-value=3.9 Score=36.12 Aligned_cols=22 Identities=5% Similarity=-0.213 Sum_probs=18.5
Q ss_pred eeeeeeccCccchhHHHHHHHhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
-|.++|-+ |+|||||++.+.+.
T Consensus 5 ki~vvG~~-~~GKSsli~~l~~~ 26 (165)
T cd01868 5 KIVLIGDS-GVGKSNLLSRFTRN 26 (165)
T ss_pred EEEEECCC-CCCHHHHHHHHhcC
Confidence 46799999 99999999988653
No 403
>KOG3308 consensus Uncharacterized protein of the uridine kinase family [Nucleotide transport and metabolism]
Probab=66.83 E-value=4.9 Score=37.50 Aligned_cols=23 Identities=0% Similarity=-0.406 Sum_probs=18.7
Q ss_pred ceeeeeeeccCccchhHHHHHHHh
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
.-+|||-|+- -.||||||+.+..
T Consensus 4 ~~ivgiSG~T-nsGKTTLak~l~~ 26 (225)
T KOG3308|consen 4 TLIVGISGCT-NSGKTTLAKSLHR 26 (225)
T ss_pred EEEEEeeccc-CCCHhHHHHHHHH
Confidence 4577888887 8899999998754
No 404
>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=66.80 E-value=4 Score=37.42 Aligned_cols=23 Identities=4% Similarity=-0.350 Sum_probs=20.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-- |-|||||++.+...
T Consensus 26 e~~~l~G~n-GsGKSTLl~~l~Gl 48 (177)
T cd03222 26 EVIGIVGPN-GTGKTTAVKILAGQ 48 (177)
T ss_pred CEEEEECCC-CChHHHHHHHHHcC
Confidence 478899999 99999999998654
No 405
>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E. coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.
Probab=66.75 E-value=3.9 Score=38.98 Aligned_cols=23 Identities=0% Similarity=-0.438 Sum_probs=20.1
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-. |.|||||++.+...
T Consensus 29 e~~~i~G~n-GsGKSTLl~~l~Gl 51 (237)
T cd03252 29 EVVGIVGRS-GSGKSTLTKLIQRF 51 (237)
T ss_pred CEEEEECCC-CCCHHHHHHHHhcC
Confidence 478899999 99999999998754
No 406
>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=66.73 E-value=3.9 Score=38.26 Aligned_cols=22 Identities=5% Similarity=-0.241 Sum_probs=19.9
Q ss_pred eeeeeeccCccchhHHHHHHHhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
+++|.|-- |-|||||++.+...
T Consensus 27 ~~~i~G~n-GsGKSTLl~~l~Gl 48 (211)
T cd03264 27 MYGLLGPN-GAGKTTLMRILATL 48 (211)
T ss_pred cEEEECCC-CCCHHHHHHHHhCC
Confidence 78999999 99999999999754
No 407
>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D. This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.
Probab=66.69 E-value=4.1 Score=38.80 Aligned_cols=24 Identities=4% Similarity=-0.335 Sum_probs=20.7
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|+|-. |.|||||++.+....
T Consensus 12 e~~~i~G~n-GsGKSTLl~~l~Gl~ 35 (230)
T TIGR01184 12 EFISLIGHS-GCGKSTLLNLISGLA 35 (230)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCCC
Confidence 478899999 999999999997643
No 408
>PRK07933 thymidylate kinase; Validated
Probab=66.65 E-value=4.2 Score=38.45 Aligned_cols=25 Identities=4% Similarity=-0.360 Sum_probs=21.6
Q ss_pred eeeeeeccCccchhHHHHHHHhhhcc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
.|.|-|+= |.||||+++.+.+.+..
T Consensus 2 ~IviEG~d-GsGKST~~~~L~~~L~~ 26 (213)
T PRK07933 2 LIAIEGVD-GAGKRTLTEALRAALEA 26 (213)
T ss_pred EEEEEcCC-CCCHHHHHHHHHHHHHH
Confidence 57788998 99999999999887754
No 409
>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=66.63 E-value=4 Score=37.91 Aligned_cols=24 Identities=8% Similarity=-0.265 Sum_probs=20.6
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|.|-- |-|||||++.+....
T Consensus 25 e~~~i~G~n-GsGKSTLl~~l~G~~ 48 (206)
T TIGR03608 25 KMYAIIGES-GSGKSTLLNIIGLLE 48 (206)
T ss_pred cEEEEECCC-CCCHHHHHHHHhcCC
Confidence 478899999 999999999997643
No 410
>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.
Probab=66.58 E-value=4 Score=38.59 Aligned_cols=23 Identities=0% Similarity=-0.331 Sum_probs=20.3
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|+|-. |-|||||++.+...
T Consensus 32 e~~~i~G~n-GsGKSTLl~~l~G~ 54 (228)
T cd03257 32 ETLGLVGES-GSGKSTLARAILGL 54 (228)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCC
Confidence 578899999 99999999999764
No 411
>cd04118 Rab24 Rab24 subfamily. Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilita
Probab=66.45 E-value=4.1 Score=37.23 Aligned_cols=21 Identities=10% Similarity=-0.069 Sum_probs=17.7
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|-+ |+|||||+..+.+.
T Consensus 3 i~vvG~~-~vGKSsLi~~~~~~ 23 (193)
T cd04118 3 VVMLGKE-SVGKTSLVERYVHH 23 (193)
T ss_pred EEEECCC-CCCHHHHHHHHHhC
Confidence 5689999 99999999887653
No 412
>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor. The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=66.38 E-value=4 Score=39.46 Aligned_cols=24 Identities=4% Similarity=-0.245 Sum_probs=20.7
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|+|-- |.|||||++.+....
T Consensus 26 e~~~i~G~N-GsGKSTLlk~L~G~~ 49 (246)
T cd03237 26 EVIGILGPN-GIGKTTFIKMLAGVL 49 (246)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCCC
Confidence 578899999 999999999997643
No 413
>cd04110 Rab35 Rab35 subfamily. Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is
Probab=66.37 E-value=3.9 Score=37.89 Aligned_cols=22 Identities=5% Similarity=-0.310 Sum_probs=18.1
Q ss_pred eeeeeeeccCccchhHHHHHHHh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
.-|.++|.+ |+|||||+..+.+
T Consensus 7 ~kivvvG~~-~vGKTsli~~l~~ 28 (199)
T cd04110 7 FKLLIIGDS-GVGKSSLLLRFAD 28 (199)
T ss_pred eEEEEECCC-CCCHHHHHHHHhc
Confidence 346689999 9999999987754
No 414
>cd04122 Rab14 Rab14 subfamily. Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GT
Probab=66.37 E-value=4.1 Score=36.20 Aligned_cols=21 Identities=10% Similarity=-0.159 Sum_probs=17.4
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|.+ |+|||||...+.+.
T Consensus 5 i~iiG~~-~vGKTsli~~~~~~ 25 (166)
T cd04122 5 YIIIGDM-GVGKSCLLHQFTEK 25 (166)
T ss_pred EEEECCC-CCCHHHHHHHHhcC
Confidence 5689999 99999999887543
No 415
>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD. This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.
Probab=66.36 E-value=4.1 Score=38.77 Aligned_cols=24 Identities=4% Similarity=-0.363 Sum_probs=20.7
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|.|.. |.|||||++.+....
T Consensus 13 e~~~i~G~n-GsGKSTLl~~l~Gl~ 36 (230)
T TIGR02770 13 EVLALVGES-GSGKSLTCLAILGLL 36 (230)
T ss_pred CEEEEECCC-CCCHHHHHHHHhcCC
Confidence 478899999 999999999997644
No 416
>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases. Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is
Probab=66.32 E-value=4.2 Score=36.34 Aligned_cols=20 Identities=0% Similarity=-0.310 Sum_probs=17.0
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|.++|.. |+|||||+..+.+
T Consensus 3 i~vvG~~-~vGKTsli~~~~~ 22 (166)
T cd00877 3 LVLVGDG-GTGKTTFVKRHLT 22 (166)
T ss_pred EEEECCC-CCCHHHHHHHHHh
Confidence 5689999 9999999987753
No 417
>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional
Probab=66.25 E-value=4 Score=39.53 Aligned_cols=24 Identities=4% Similarity=-0.382 Sum_probs=20.7
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|+|.- |.|||||++.+....
T Consensus 32 e~~~l~G~n-GsGKSTLl~~i~G~~ 55 (257)
T PRK10619 32 DVISIIGSS-GSGKSTFLRCINFLE 55 (257)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCCC
Confidence 578899999 999999999997653
No 418
>cd04117 Rab15 Rab15 subfamily. Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to
Probab=66.24 E-value=4.1 Score=36.13 Aligned_cols=20 Identities=5% Similarity=-0.305 Sum_probs=16.8
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|.++|-+ |+|||||+..+.+
T Consensus 3 i~vvG~~-~~GKTsli~~~~~ 22 (161)
T cd04117 3 LLLIGDS-GVGKTCLLCRFTD 22 (161)
T ss_pred EEEECcC-CCCHHHHHHHHhc
Confidence 5689999 9999999977654
No 419
>cd04149 Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed t
Probab=66.23 E-value=3.9 Score=36.71 Aligned_cols=19 Identities=11% Similarity=-0.193 Sum_probs=16.5
Q ss_pred eeeeeccCccchhHHHHHHH
Q 011431 230 YRCWLLCPLFSELRVLTNDV 249 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy 249 (486)
|.++|.+ |+|||||++.+.
T Consensus 12 v~i~G~~-~~GKTsli~~l~ 30 (168)
T cd04149 12 ILMLGLD-AAGKTTILYKLK 30 (168)
T ss_pred EEEECcC-CCCHHHHHHHHc
Confidence 4599999 999999998774
No 420
>cd04175 Rap1 Rap1 subgroup. The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n
Probab=66.14 E-value=4.3 Score=35.87 Aligned_cols=20 Identities=5% Similarity=-0.252 Sum_probs=16.9
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|.++|.. |+|||||+....+
T Consensus 4 i~~~G~~-~~GKTsli~~~~~ 23 (164)
T cd04175 4 LVVLGSG-GVGKSALTVQFVQ 23 (164)
T ss_pred EEEECCC-CCCHHHHHHHHHh
Confidence 5688999 9999999877654
No 421
>cd01890 LepA LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and eukaryota (e.g. yeast GUF1p), but is missing from archaea. This pattern of phyletic distribution suggests that LepA evolved through a duplication of the EF-G gene in bacteria, followed by early transfer into the eukaryotic lineage, most likely from the promitochondrial endosymbiont. Yeast GUF1p is not essential and mutant cells did not reveal any marked phenotype.
Probab=66.12 E-value=4.5 Score=36.32 Aligned_cols=22 Identities=0% Similarity=-0.127 Sum_probs=18.8
Q ss_pred eeeeeeccCccchhHHHHHHHhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
-|+++|-. |+|||||+..+.+.
T Consensus 2 ni~~vG~~-~~GKssL~~~l~~~ 23 (179)
T cd01890 2 NFSIIAHI-DHGKSTLADRLLEL 23 (179)
T ss_pred cEEEEeec-CCCHHHHHHHHHHH
Confidence 47899999 99999999987653
No 422
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=66.00 E-value=7.4 Score=38.82 Aligned_cols=26 Identities=4% Similarity=-0.328 Sum_probs=21.7
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhh
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
...+|.|.|.. |.||||+|..+-.++
T Consensus 91 ~p~iIlI~G~s-gsGKStlA~~La~~l 116 (301)
T PRK04220 91 EPIIILIGGAS-GVGTSTIAFELASRL 116 (301)
T ss_pred CCEEEEEECCC-CCCHHHHHHHHHHHh
Confidence 34577789999 999999999997765
No 423
>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional
Probab=65.98 E-value=4.3 Score=38.65 Aligned_cols=24 Identities=4% Similarity=-0.435 Sum_probs=20.6
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|.|-. |-|||||++.+....
T Consensus 36 e~~~l~G~n-GsGKSTLl~~l~Gl~ 59 (233)
T PRK11629 36 EMMAIVGSS-GSGKSTLLHLLGGLD 59 (233)
T ss_pred cEEEEECCC-CCCHHHHHHHHhcCC
Confidence 478899999 999999999997643
No 424
>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=65.96 E-value=4.2 Score=38.69 Aligned_cols=24 Identities=0% Similarity=-0.320 Sum_probs=20.4
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|+|-- |-|||||++.+....
T Consensus 32 e~~~l~G~n-GsGKSTLl~~l~G~~ 55 (233)
T cd03258 32 EIFGIIGRS-GAGKSTLIRCINGLE 55 (233)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCCC
Confidence 478899999 999999999997543
No 425
>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=65.92 E-value=4.3 Score=37.77 Aligned_cols=24 Identities=0% Similarity=-0.396 Sum_probs=20.5
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|.|-- |-|||||++.+....
T Consensus 27 e~~~i~G~n-GsGKSTLl~~l~Gl~ 50 (205)
T cd03226 27 EIIALTGKN-GAGKTTLAKILAGLI 50 (205)
T ss_pred CEEEEECCC-CCCHHHHHHHHhcCC
Confidence 478899999 999999999997643
No 426
>cd04125 RabA_like RabA-like subfamily. RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells. The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression. The function of RabA remains unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=65.86 E-value=4.1 Score=37.19 Aligned_cols=21 Identities=5% Similarity=-0.265 Sum_probs=17.6
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|-+ |+|||||+..+.+.
T Consensus 3 i~v~G~~-~vGKSsli~~~~~~ 23 (188)
T cd04125 3 VVIIGDY-GVGKSSLLKRFTED 23 (188)
T ss_pred EEEECCC-CCCHHHHHHHHhcC
Confidence 5689999 99999999887643
No 427
>cd04104 p47_IIGP_like p47 (47-kDa) family. The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei
Probab=65.85 E-value=4.1 Score=37.77 Aligned_cols=20 Identities=0% Similarity=-0.389 Sum_probs=18.2
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|+++|-. |.|||||.+.+..
T Consensus 4 I~i~G~~-g~GKSSLin~L~g 23 (197)
T cd04104 4 IAVTGES-GAGKSSFINALRG 23 (197)
T ss_pred EEEECCC-CCCHHHHHHHHhc
Confidence 6799999 9999999999876
No 428
>PRK15453 phosphoribulokinase; Provisional
Probab=65.84 E-value=5.3 Score=39.49 Aligned_cols=26 Identities=4% Similarity=-0.381 Sum_probs=21.3
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhh
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
...+|+|-|-. |-||||+++.+...+
T Consensus 4 k~piI~ItG~S-GsGKTTva~~l~~if 29 (290)
T PRK15453 4 KHPIIAVTGSS-GAGTTTVKRAFEKIF 29 (290)
T ss_pred CCcEEEEECCC-CCCHHHHHHHHHHHH
Confidence 44688999998 999999999886543
No 429
>PRK13234 nifH nitrogenase reductase; Reviewed
Probab=65.80 E-value=4.2 Score=40.46 Aligned_cols=21 Identities=10% Similarity=-0.061 Sum_probs=16.6
Q ss_pred ceeeeeeeccCccchhHHHHHH
Q 011431 227 YRSYRCWLLCPLFSELRVLTND 248 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~v 248 (486)
.++|.|.|=| |+||||++-++
T Consensus 4 ~~~iai~~KG-GvGKTt~~~nL 24 (295)
T PRK13234 4 LRQIAFYGKG-GIGKSTTSQNT 24 (295)
T ss_pred ceEEEEECCC-CccHHHHHHHH
Confidence 4688887766 99999977664
No 430
>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=65.79 E-value=4.2 Score=37.69 Aligned_cols=20 Identities=10% Similarity=-0.102 Sum_probs=17.0
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|.++|.. |+|||||++.+.+
T Consensus 3 ivivG~~-~vGKTsli~~l~~ 22 (201)
T cd04107 3 VLVIGDL-GVGKTSIIKRYVH 22 (201)
T ss_pred EEEECCC-CCCHHHHHHHHHc
Confidence 4689999 9999999987654
No 431
>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=65.79 E-value=19 Score=41.55 Aligned_cols=153 Identities=10% Similarity=0.045 Sum_probs=0.0
Q ss_pred hhhHHHhHHhhhhhhhhhhHHHHHHHhhhhhhccchhhhhhHHHHHH----HhhcCCCceeeeeeeccCccchhHHHHHH
Q 011431 173 TDEIVNGVVENLKSFAELMEKELVVLFNRARDKLDNHASSLLDEVLS----LLRNAEGYRSYRCWLLCPLFSELRVLTND 248 (486)
Q Consensus 173 I~~IV~~V~~~L~~~~~~~~~~lVgi~~~~~~~~~~~~~~~l~~v~~----ll~~~~~~~vi~I~GmGgGvGKTTLa~~v 248 (486)
+..+..+-..++..+.....+.++|= +..++...+.+.. +........++-.+|-- |+|||.||+++
T Consensus 546 ~~~~~~~e~~~l~~l~~~L~~~v~GQ--------~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~-GvGKT~lA~~L 616 (852)
T TIGR03345 546 VGRMVRDEIEAVLSLPDRLAERVIGQ--------DHALEAIAERIRTARAGLEDPRKPLGVFLLVGPS-GVGKTETALAL 616 (852)
T ss_pred chhhchhHHHHHHHHHHHhcCeEcCh--------HHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCC-CCCHHHHHHHH
Q ss_pred HhhhccccccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccCcceeeceeccc--CHHHHHHH
Q 011431 249 VHQLMDNYENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTTSAAHPYVEDVI--DDAYMEDI 326 (486)
Q Consensus 249 y~~~~~~F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~tKr~LlVLDDVw--~~~~~~~l 326 (486)
-..+ |.........-...+ ....-...|.+....--..+..|. |.+.++....-+|++|++. +...+..+
T Consensus 617 a~~l---~~~~~~~~~~dmse~--~~~~~~~~l~g~~~gyvg~~~~g~---L~~~v~~~p~svvllDEieka~~~v~~~L 688 (852)
T TIGR03345 617 AELL---YGGEQNLITINMSEF--QEAHTVSRLKGSPPGYVGYGEGGV---LTEAVRRKPYSVVLLDEVEKAHPDVLELF 688 (852)
T ss_pred HHHH---hCCCcceEEEeHHHh--hhhhhhccccCCCCCcccccccch---HHHHHHhCCCcEEEEechhhcCHHHHHHH
Q ss_pred hcCCCCCC------------CCCEEEeeC
Q 011431 327 TDDSSPSL------------NLSRINSTS 343 (486)
Q Consensus 327 ~~~~~~~~------------~GSrIIiTT 343 (486)
+... +.+ ..+-||+||
T Consensus 689 lq~l-d~g~l~d~~Gr~vd~~n~iiI~TS 716 (852)
T TIGR03345 689 YQVF-DKGVMEDGEGREIDFKNTVILLTS 716 (852)
T ss_pred HHHh-hcceeecCCCcEEeccccEEEEeC
No 432
>cd01865 Rab3 Rab3 subfamily. The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promot
Probab=65.74 E-value=4.3 Score=36.08 Aligned_cols=20 Identities=5% Similarity=-0.237 Sum_probs=17.2
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|.++|-. |+|||||+..+.+
T Consensus 4 i~i~G~~-~~GKSsli~~l~~ 23 (165)
T cd01865 4 LLIIGNS-SVGKTSFLFRYAD 23 (165)
T ss_pred EEEECCC-CCCHHHHHHHHhc
Confidence 5689999 9999999988754
No 433
>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=65.74 E-value=4.2 Score=38.88 Aligned_cols=23 Identities=0% Similarity=-0.377 Sum_probs=20.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|+|-- |-|||||++.+...
T Consensus 27 e~~~i~G~n-GsGKSTLl~~l~Gl 49 (243)
T TIGR01978 27 EIHAIMGPN-GSGKSTLSKTIAGH 49 (243)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCC
Confidence 478899999 99999999999764
No 434
>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]
Probab=65.72 E-value=4.4 Score=39.58 Aligned_cols=25 Identities=0% Similarity=-0.447 Sum_probs=21.3
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhh
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
-.++|++|-. |-|||||++.+..-.
T Consensus 39 ge~~glVGES-G~GKSTlgr~i~~L~ 63 (268)
T COG4608 39 GETLGLVGES-GCGKSTLGRLILGLE 63 (268)
T ss_pred CCEEEEEecC-CCCHHHHHHHHHcCc
Confidence 3578999999 999999999997643
No 435
>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=65.71 E-value=23 Score=40.89 Aligned_cols=149 Identities=9% Similarity=-0.041 Sum_probs=0.0
Q ss_pred hhhhhhhhHHHHHHHhhhhhhccchhhhhhHHHHHHHhhcCCC--------ceeeeeeeccCccchhHHHHHHHhhhccc
Q 011431 184 LKSFAELMEKELVVLFNRARDKLDNHASSLLDEVLSLLRNAEG--------YRSYRCWLLCPLFSELRVLTNDVHQLMDN 255 (486)
Q Consensus 184 L~~~~~~~~~~lVgi~~~~~~~~~~~~~~~l~~v~~ll~~~~~--------~~vi~I~GmGgGvGKTTLa~~vy~~~~~~ 255 (486)
+..........+..+...+...+.++ ...++.+...+..... ...+-+.|-. |+|||++|+.+-..+...
T Consensus 545 ~~~~~~~e~~~l~~l~~~l~~~v~GQ-~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~-GvGKt~lA~~La~~l~~~ 622 (852)
T TIGR03346 545 VSKMLEGEREKLLHMEEVLHERVVGQ-DEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPT-GVGKTELAKALAEFLFDD 622 (852)
T ss_pred cccccHHHHHHHHHHHHHhhcccCCC-hHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCC-CCCHHHHHHHHHHHhcCC
Q ss_pred cccceEEEEeeeccHHHHHHHHhhhhcccccccccccccccccccccccccCcceeeceeccc--CHHHHHHHhcCCCCC
Q 011431 256 YENSDVTLAKFEGEVKKLDQRLLRFLESVDKHVASYDRYGSASFEQPRPQTTSAAHPYVEDVI--DDAYMEDITDDSSPS 333 (486)
Q Consensus 256 F~~~~~~~v~~~~~l~~lqk~ll~~L~~~d~~~~~~~~~g~~s~l~~~L~~tKr~LlVLDDVw--~~~~~~~l~~~~~~~ 333 (486)
-........+.-..-....+-+...-+-+.. ..+..|...++.....+|+||++. +...+..++... +.
T Consensus 623 ~~~~i~~d~s~~~~~~~~~~l~g~~~g~~g~--------~~~g~l~~~v~~~p~~vlllDeieka~~~v~~~Ll~~l-~~ 693 (852)
T TIGR03346 623 EDAMVRIDMSEYMEKHSVARLIGAPPGYVGY--------EEGGQLTEAVRRKPYSVVLFDEVEKAHPDVFNVLLQVL-DD 693 (852)
T ss_pred CCcEEEEechhhcccchHHHhcCCCCCccCc--------ccccHHHHHHHcCCCcEEEEeccccCCHHHHHHHHHHH-hc
Q ss_pred C------------CCCEEEeeC
Q 011431 334 L------------NLSRINSTS 343 (486)
Q Consensus 334 ~------------~GSrIIiTT 343 (486)
+ ..+-||+||
T Consensus 694 g~l~d~~g~~vd~rn~iiI~TS 715 (852)
T TIGR03346 694 GRLTDGQGRTVDFRNTVIIMTS 715 (852)
T ss_pred CceecCCCeEEecCCcEEEEeC
No 436
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=65.68 E-value=4.8 Score=36.97 Aligned_cols=21 Identities=0% Similarity=-0.349 Sum_probs=18.1
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|-|.|.. |.||||+|+.+-++
T Consensus 3 iiilG~p-GaGK~T~A~~La~~ 23 (178)
T COG0563 3 ILILGPP-GAGKSTLAKKLAKK 23 (178)
T ss_pred EEEECCC-CCCHHHHHHHHHHH
Confidence 4578888 99999999999776
No 437
>PRK13540 cytochrome c biogenesis protein CcmA; Provisional
Probab=65.65 E-value=4.3 Score=37.66 Aligned_cols=23 Identities=4% Similarity=-0.376 Sum_probs=20.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|+|-. |-|||||++.+...
T Consensus 28 e~~~l~G~n-GsGKSTLl~~i~G~ 50 (200)
T PRK13540 28 GLLHLKGSN-GAGKTTLLKLIAGL 50 (200)
T ss_pred CEEEEECCC-CCCHHHHHHHHhcC
Confidence 578899999 99999999998664
No 438
>cd04134 Rho3 Rho3 subfamily. Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.
Probab=65.62 E-value=4.5 Score=37.10 Aligned_cols=21 Identities=5% Similarity=-0.247 Sum_probs=17.6
Q ss_pred eeeeeeccCccchhHHHHHHHh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
.|.++|-+ |+|||||+....+
T Consensus 2 kivivG~~-~vGKTsli~~~~~ 22 (189)
T cd04134 2 KVVVLGDG-ACGKTSLLNVFTR 22 (189)
T ss_pred EEEEECCC-CCCHHHHHHHHhc
Confidence 35689999 9999999987754
No 439
>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=65.61 E-value=4.5 Score=38.10 Aligned_cols=23 Identities=4% Similarity=-0.415 Sum_probs=20.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-. |-|||||++.+...
T Consensus 32 ~~~~i~G~n-GsGKSTLl~~i~G~ 54 (221)
T TIGR02211 32 EIVAIVGSS-GSGKSTLLHLLGGL 54 (221)
T ss_pred cEEEEECCC-CCCHHHHHHHHhCC
Confidence 478899999 99999999999754
No 440
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=65.54 E-value=4.1 Score=37.17 Aligned_cols=20 Identities=10% Similarity=-0.247 Sum_probs=17.3
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|.++|.+ |+|||||+..+..
T Consensus 20 v~lvG~~-~vGKTsli~~~~~ 39 (182)
T PTZ00133 20 ILMVGLD-AAGKTTILYKLKL 39 (182)
T ss_pred EEEEcCC-CCCHHHHHHHHhc
Confidence 5689999 9999999988754
No 441
>KOG4181 consensus Uncharacterized conserved protein [Function unknown]
Probab=65.50 E-value=6.9 Score=39.48 Aligned_cols=34 Identities=12% Similarity=-0.063 Sum_probs=27.3
Q ss_pred HHHHHHHhhcCCCceeeeeeeccCccchhHHHHHH
Q 011431 214 LDEVLSLLRNAEGYRSYRCWLLCPLFSELRVLTND 248 (486)
Q Consensus 214 l~~v~~ll~~~~~~~vi~I~GmGgGvGKTTLa~~v 248 (486)
-+..+++|....++.|||+.|.. |-||+||...+
T Consensus 175 ~d~a~~ll~~~tdf~VIgvlG~Q-gsGKStllslL 208 (491)
T KOG4181|consen 175 NDNARKLLHKTTDFTVIGVLGGQ-GSGKSTLLSLL 208 (491)
T ss_pred hhHHHHHhhcCCCeeEEEeecCC-CccHHHHHHHH
Confidence 35566777656799999999999 99999987654
No 442
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=65.47 E-value=12 Score=41.73 Aligned_cols=46 Identities=4% Similarity=-0.115 Sum_probs=30.0
Q ss_pred CCCEEEeeCCccccccccc---cCCCceEecCCCCCchhhhhhcccCCC
Q 011431 335 NLSRINSTSRFEQLWPETI---SATDTCTEDVTVDNSPSLNLSSCNSSS 380 (486)
Q Consensus 335 ~GSrIIiTTR~~~V~~~~~---~~~~~~y~v~~L~~~es~~LF~~~a~~ 380 (486)
.+--+|.||..-+.+.... ..-+..+++...+.++-.++|..|...
T Consensus 289 ~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~ 337 (644)
T PRK10733 289 EGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRR 337 (644)
T ss_pred CCeeEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhc
Confidence 3556666887766553221 123567788888888888888877654
No 443
>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed
Probab=65.34 E-value=4.4 Score=38.80 Aligned_cols=23 Identities=4% Similarity=-0.348 Sum_probs=20.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|.- |-|||||++.+...
T Consensus 28 e~~~l~G~n-GsGKSTLl~~l~G~ 50 (240)
T PRK09493 28 EVVVIIGPS-GSGKSTLLRCINKL 50 (240)
T ss_pred cEEEEECCC-CCCHHHHHHHHhCC
Confidence 578899999 99999999998754
No 444
>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein. This model represents the ATP-binding protein of a family of ABC transporters for inorganic phosphate. In the model species Escherichia coli, a constitutive transporter for inorganic phosphate, with low affinity, is also present. The high affinity transporter that includes this polypeptide is induced when extracellular phosphate concentrations are low. The proteins most similar to the members of this family but not included appear to be amino acid transporters.
Probab=65.32 E-value=4.3 Score=39.02 Aligned_cols=24 Identities=4% Similarity=-0.287 Sum_probs=20.4
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|.|-. |-|||||++.+....
T Consensus 28 e~~~i~G~n-GsGKSTLl~~l~G~~ 51 (247)
T TIGR00972 28 QVTALIGPS-GCGKSTLLRSLNRMN 51 (247)
T ss_pred CEEEEECCC-CCCHHHHHHHHhccC
Confidence 578899999 999999999986543
No 445
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=65.23 E-value=4.2 Score=42.79 Aligned_cols=25 Identities=4% Similarity=-0.277 Sum_probs=19.6
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhh
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
-+++.++|.+ |+||||++..+-...
T Consensus 221 ~~~i~~vGpt-GvGKTTt~~kLA~~~ 245 (424)
T PRK05703 221 GGVVALVGPT-GVGKTTTLAKLAARY 245 (424)
T ss_pred CcEEEEECCC-CCCHHHHHHHHHHHH
Confidence 3588999999 999999887764433
No 446
>TIGR00017 cmk cytidylate kinase. This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.
Probab=65.19 E-value=5.5 Score=37.80 Aligned_cols=25 Identities=8% Similarity=-0.310 Sum_probs=21.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
.+|+|.|.. |.||||+++.+..++.
T Consensus 3 ~~i~i~G~~-GsGKst~~~~la~~~~ 27 (217)
T TIGR00017 3 MIIAIDGPS-GAGKSTVAKAVAEKLG 27 (217)
T ss_pred eEEEEECCC-CCCHHHHHHHHHHHhC
Confidence 468899999 9999999999976553
No 447
>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional
Probab=65.18 E-value=4.4 Score=38.40 Aligned_cols=23 Identities=4% Similarity=-0.363 Sum_probs=20.1
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-. |.|||||++.+...
T Consensus 34 e~~~i~G~n-GsGKSTLl~~l~G~ 56 (225)
T PRK10247 34 EFKLITGPS-GCGKSTLLKIVASL 56 (225)
T ss_pred CEEEEECCC-CCCHHHHHHHHhcc
Confidence 478899999 99999999998763
No 448
>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=65.16 E-value=4.5 Score=38.99 Aligned_cols=22 Identities=5% Similarity=-0.313 Sum_probs=19.3
Q ss_pred eeeeeeeccCccchhHHHHHHHh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
.+++|+|-. |.|||||.+.+-.
T Consensus 30 EfvsilGpS-GcGKSTLLriiAG 51 (248)
T COG1116 30 EFVAILGPS-GCGKSTLLRLIAG 51 (248)
T ss_pred CEEEEECCC-CCCHHHHHHHHhC
Confidence 478999999 9999999998843
No 449
>cd04129 Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors).
Probab=65.16 E-value=4.7 Score=36.86 Aligned_cols=21 Identities=5% Similarity=-0.301 Sum_probs=17.9
Q ss_pred eeeeeeccCccchhHHHHHHHh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
.|.++|-. |.|||||++.+..
T Consensus 3 Ki~ivG~~-g~GKStLl~~l~~ 23 (187)
T cd04129 3 KLVIVGDG-ACGKTSLLSVFTL 23 (187)
T ss_pred EEEEECCC-CCCHHHHHHHHHh
Confidence 46799999 9999999988853
No 450
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=65.15 E-value=6.6 Score=40.48 Aligned_cols=26 Identities=0% Similarity=-0.233 Sum_probs=21.3
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhhc
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
-.++.++|.. |+||||++..+-....
T Consensus 137 g~ii~lvGpt-GvGKTTtiakLA~~~~ 162 (374)
T PRK14722 137 GGVFALMGPT-GVGKTTTTAKLAARCV 162 (374)
T ss_pred CcEEEEECCC-CCCHHHHHHHHHHHHH
Confidence 3578899999 9999999988866543
No 451
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=65.10 E-value=40 Score=35.81 Aligned_cols=24 Identities=8% Similarity=-0.129 Sum_probs=18.9
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
..+=++|-- |.||||+|+.+-+.+
T Consensus 40 ha~Lf~Gp~-G~GKtt~A~~lAk~l 63 (451)
T PRK06305 40 HAYLFSGIR-GTGKTTLARIFAKAL 63 (451)
T ss_pred eEEEEEcCC-CCCHHHHHHHHHHHh
Confidence 345578998 999999998886654
No 452
>PRK11124 artP arginine transporter ATP-binding subunit; Provisional
Probab=65.08 E-value=4.6 Score=38.70 Aligned_cols=23 Identities=4% Similarity=-0.324 Sum_probs=20.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-. |-|||||++.+...
T Consensus 29 e~~~i~G~n-GsGKSTLl~~l~G~ 51 (242)
T PRK11124 29 ETLVLLGPS-GAGKSSLLRVLNLL 51 (242)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCC
Confidence 578899999 99999999999754
No 453
>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional
Probab=65.08 E-value=4.4 Score=39.34 Aligned_cols=23 Identities=4% Similarity=-0.294 Sum_probs=20.3
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-- |-|||||++.+...
T Consensus 28 e~~~i~G~n-GsGKSTLl~~l~Gl 50 (255)
T PRK11248 28 ELLVVLGPS-GCGKTTLLNLIAGF 50 (255)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCC
Confidence 578899999 99999999999764
No 454
>PRK12338 hypothetical protein; Provisional
Probab=65.01 E-value=4.6 Score=40.64 Aligned_cols=25 Identities=4% Similarity=-0.213 Sum_probs=20.7
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhh
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
..+|.|.|.+ |.||||+|+.+-.++
T Consensus 4 p~ii~i~G~s-GsGKST~a~~la~~l 28 (319)
T PRK12338 4 PYVILIGSAS-GIGKSTIASELARTL 28 (319)
T ss_pred cEEEEEECCC-CCCHHHHHHHHHHHC
Confidence 3578888998 999999999886654
No 455
>cd00882 Ras_like_GTPase Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulate initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Memb
Probab=64.99 E-value=3.4 Score=34.79 Aligned_cols=20 Identities=5% Similarity=-0.262 Sum_probs=16.7
Q ss_pred eeeccCccchhHHHHHHHhhh
Q 011431 232 CWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 232 I~GmGgGvGKTTLa~~vy~~~ 252 (486)
++|.. |.|||||++.+....
T Consensus 1 iiG~~-~~GKStl~~~l~~~~ 20 (157)
T cd00882 1 VVGDS-GVGKTSLLNRLLGGE 20 (157)
T ss_pred CCCcC-CCcHHHHHHHHHhCC
Confidence 46888 999999999987643
No 456
>cd00881 GTP_translation_factor GTP translation factor family. This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.
Probab=64.97 E-value=4.9 Score=36.14 Aligned_cols=21 Identities=0% Similarity=-0.350 Sum_probs=18.5
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|-. |.|||||+..+...
T Consensus 2 v~v~G~~-~~GKStlln~l~~~ 22 (189)
T cd00881 2 VGIAGHV-DHGKTTLTERLLYV 22 (189)
T ss_pred EEEEeCC-CCCHHHHHHHHHHh
Confidence 6789999 99999999998764
No 457
>PRK14527 adenylate kinase; Provisional
Probab=64.93 E-value=5.1 Score=36.93 Aligned_cols=25 Identities=4% Similarity=-0.312 Sum_probs=20.6
Q ss_pred ceeeeeeeccCccchhHHHHHHHhhh
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
..+|-+.|.. |.||||+|+.+-++.
T Consensus 6 ~~~i~i~G~p-GsGKsT~a~~La~~~ 30 (191)
T PRK14527 6 NKVVIFLGPP-GAGKGTQAERLAQEL 30 (191)
T ss_pred CcEEEEECCC-CCCHHHHHHHHHHHh
Confidence 3577899999 999999999886544
No 458
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=64.75 E-value=4.5 Score=36.06 Aligned_cols=22 Identities=0% Similarity=-0.289 Sum_probs=18.9
Q ss_pred eeeeeeccCccchhHHHHHHHhh
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.|.++|-. |+|||||++.+++.
T Consensus 3 ~i~~iG~~-~~GKstl~~~l~~~ 24 (158)
T PRK15467 3 RIAFVGAV-GAGKTTLFNALQGN 24 (158)
T ss_pred EEEEECCC-CCCHHHHHHHHcCC
Confidence 57899999 99999999988653
No 459
>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=64.73 E-value=7.9 Score=37.70 Aligned_cols=32 Identities=3% Similarity=-0.167 Sum_probs=23.6
Q ss_pred hcCCCceeeeeeeccCccchhHHHHHHHhhhcc
Q 011431 222 RNAEGYRSYRCWLLCPLFSELRVLTNDVHQLMD 254 (486)
Q Consensus 222 ~~~~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~ 254 (486)
.......+|||-|.+ |.||+||...+-..+..
T Consensus 24 ~~~g~a~~iGiTG~P-GaGKSTli~~l~~~~~~ 55 (266)
T PF03308_consen 24 PHTGRAHVIGITGPP-GAGKSTLIDALIRELRE 55 (266)
T ss_dssp GGTT-SEEEEEEE-T-TSSHHHHHHHHHHHHHH
T ss_pred hhcCCceEEEeeCCC-CCcHHHHHHHHHHHHhh
Confidence 334467899999999 99999999887665543
No 460
>cd01854 YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.
Probab=64.65 E-value=6.3 Score=39.07 Aligned_cols=23 Identities=0% Similarity=-0.175 Sum_probs=19.7
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
+++++.|.. |+|||||++.+...
T Consensus 162 k~~~~~G~s-g~GKSTlin~l~~~ 184 (287)
T cd01854 162 KTSVLVGQS-GVGKSTLINALLPD 184 (287)
T ss_pred ceEEEECCC-CCCHHHHHHHHhch
Confidence 578899999 99999999887553
No 461
>PLN02200 adenylate kinase family protein
Probab=64.64 E-value=5.7 Score=38.14 Aligned_cols=25 Identities=4% Similarity=-0.521 Sum_probs=20.8
Q ss_pred CceeeeeeeccCccchhHHHHHHHhh
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
...+|.|.|+. |.||||+|+.+-..
T Consensus 42 ~~~ii~I~G~P-GSGKsT~a~~La~~ 66 (234)
T PLN02200 42 TPFITFVLGGP-GSGKGTQCEKIVET 66 (234)
T ss_pred CCEEEEEECCC-CCCHHHHHHHHHHH
Confidence 45678899999 99999999988554
No 462
>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=64.56 E-value=4.8 Score=38.60 Aligned_cols=23 Identities=0% Similarity=-0.398 Sum_probs=20.1
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|+|-. |-|||||++.+...
T Consensus 28 e~~~i~G~n-GsGKSTLl~~l~G~ 50 (242)
T cd03295 28 EFLVLIGPS-GSGKTTTMKMINRL 50 (242)
T ss_pred CEEEEECCC-CCCHHHHHHHHhcC
Confidence 468899999 99999999999764
No 463
>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM
Probab=64.55 E-value=4.6 Score=37.72 Aligned_cols=23 Identities=4% Similarity=-0.385 Sum_probs=20.1
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-. |.|||||++.+...
T Consensus 27 ~~~~l~G~n-GsGKSTLl~~l~G~ 49 (213)
T cd03262 27 EVVVIIGPS-GSGKSTLLRCINLL 49 (213)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCC
Confidence 478899999 99999999999754
No 464
>PRK13538 cytochrome c biogenesis protein CcmA; Provisional
Probab=64.53 E-value=4.7 Score=37.57 Aligned_cols=23 Identities=4% Similarity=-0.371 Sum_probs=20.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-. |-|||||++.+...
T Consensus 28 e~~~l~G~n-GsGKSTLl~~l~G~ 50 (204)
T PRK13538 28 ELVQIEGPN-GAGKTSLLRILAGL 50 (204)
T ss_pred cEEEEECCC-CCCHHHHHHHHhCC
Confidence 478899999 99999999999764
No 465
>PRK14245 phosphate ABC transporter ATP-binding protein; Provisional
Probab=64.42 E-value=4.6 Score=38.92 Aligned_cols=22 Identities=5% Similarity=-0.348 Sum_probs=19.4
Q ss_pred eeeeeeeccCccchhHHHHHHHh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
.+++|+|-. |-|||||++.+..
T Consensus 30 e~~~i~G~n-GsGKSTLl~~i~G 51 (250)
T PRK14245 30 SVVAFIGPS-GCGKSTFLRLFNR 51 (250)
T ss_pred CEEEEECCC-CCCHHHHHHHHhh
Confidence 478999999 9999999999953
No 466
>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra
Probab=64.39 E-value=4.8 Score=36.41 Aligned_cols=24 Identities=8% Similarity=-0.260 Sum_probs=20.4
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|.|-. |.|||||++.+....
T Consensus 29 e~~~i~G~n-GsGKStLl~~l~G~~ 52 (173)
T cd03246 29 ESLAIIGPS-GSGKSTLARLILGLL 52 (173)
T ss_pred CEEEEECCC-CCCHHHHHHHHHhcc
Confidence 478899999 999999999997643
No 467
>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional
Probab=64.35 E-value=4.6 Score=38.83 Aligned_cols=23 Identities=4% Similarity=-0.353 Sum_probs=20.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-- |.|||||++.+...
T Consensus 30 e~~~i~G~n-GsGKSTLl~~l~G~ 52 (250)
T PRK11264 30 EVVAIIGPS-GSGKTTLLRCINLL 52 (250)
T ss_pred CEEEEECCC-CCCHHHHHHHHhcC
Confidence 468899999 99999999998754
No 468
>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein. This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.
Probab=64.31 E-value=4.9 Score=37.70 Aligned_cols=24 Identities=4% Similarity=-0.285 Sum_probs=20.6
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|.|-. |.|||||++.+....
T Consensus 25 e~~~i~G~n-GsGKSTLl~~l~G~~ 48 (213)
T TIGR01277 25 EIVAIMGPS-GAGKSTLLNLIAGFI 48 (213)
T ss_pred cEEEEECCC-CCCHHHHHHHHhcCC
Confidence 477899999 999999999998643
No 469
>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional
Probab=64.29 E-value=4.7 Score=38.61 Aligned_cols=23 Identities=4% Similarity=-0.369 Sum_probs=20.1
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-. |.|||||++.+...
T Consensus 30 e~~~l~G~n-GsGKSTLl~~l~G~ 52 (241)
T PRK10895 30 EIVGLLGPN-GAGKTTTFYMVVGI 52 (241)
T ss_pred cEEEEECCC-CCCHHHHHHHHhCC
Confidence 478899999 99999999999764
No 470
>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=64.29 E-value=2.9 Score=39.86 Aligned_cols=23 Identities=0% Similarity=-0.409 Sum_probs=19.2
Q ss_pred ceeeeeeeccCccchhHHHHHHHh
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
-+++.|.|-- |.||||+.+.+..
T Consensus 31 g~~~~itG~N-~~GKStll~~i~~ 53 (222)
T cd03287 31 GYCQIITGPN-MGGKSSYIRQVAL 53 (222)
T ss_pred CcEEEEECCC-CCCHHHHHHHHHH
Confidence 4567789988 9999999998865
No 471
>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional
Probab=64.19 E-value=4.9 Score=37.85 Aligned_cols=23 Identities=0% Similarity=-0.367 Sum_probs=20.3
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|+|-. |-|||||++.+..-
T Consensus 14 e~~~l~G~N-GsGKSTLlk~i~Gl 36 (213)
T PRK15177 14 EHIGILAAP-GSGKTTLTRLLCGL 36 (213)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCC
Confidence 578899999 99999999999764
No 472
>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.
Probab=64.13 E-value=5 Score=35.25 Aligned_cols=24 Identities=8% Similarity=-0.255 Sum_probs=20.4
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|.|-. |.|||||++.+....
T Consensus 27 e~~~i~G~n-GsGKStLl~~l~G~~ 50 (144)
T cd03221 27 DRIGLVGRN-GAGKSTLLKLIAGEL 50 (144)
T ss_pred CEEEEECCC-CCCHHHHHHHHcCCC
Confidence 578899999 999999999986643
No 473
>TIGR03873 F420-0_ABC_ATP proposed F420-0 ABC transporter, ATP-binding protein. This small clade of ABC-type transporter ATP-binding protein components is found as a three gene cassette along with a periplasmic substrate-binding protein (TIGR03868) and a permease (TIGR03869). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with a F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this ATP-binding protein is a component of an F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.
Probab=64.09 E-value=4.7 Score=39.05 Aligned_cols=23 Identities=4% Similarity=-0.383 Sum_probs=20.1
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|.- |.|||||++.+...
T Consensus 28 e~~~i~G~n-GsGKSTLl~~i~G~ 50 (256)
T TIGR03873 28 SLTGLLGPN-GSGKSTLLRLLAGA 50 (256)
T ss_pred cEEEEECCC-CCCHHHHHHHHcCC
Confidence 478899999 99999999999654
No 474
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=64.02 E-value=4.4 Score=39.92 Aligned_cols=21 Identities=10% Similarity=-0.151 Sum_probs=17.5
Q ss_pred eeeeccCccchhHHHHHHHhhh
Q 011431 231 RCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 231 ~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
=++|.. |.|||++++.....+
T Consensus 37 Ll~G~~-GtGKT~li~~~l~~l 57 (272)
T PF12775_consen 37 LLVGPS-GTGKTSLIQNFLSSL 57 (272)
T ss_dssp EEESST-TSSHHHHHHHHHHCS
T ss_pred EEECCC-CCchhHHHHhhhccC
Confidence 478998 999999999877654
No 475
>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=64.00 E-value=5 Score=37.79 Aligned_cols=23 Identities=4% Similarity=-0.273 Sum_probs=20.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|+|-. |-|||||++.+...
T Consensus 27 e~~~i~G~n-GsGKSTLl~~l~Gl 49 (222)
T cd03224 27 EIVALLGRN-GAGKTTLLKTIMGL 49 (222)
T ss_pred eEEEEECCC-CCCHHHHHHHHhCC
Confidence 578899999 99999999988654
No 476
>PRK10908 cell division protein FtsE; Provisional
Probab=63.98 E-value=4.8 Score=37.97 Aligned_cols=23 Identities=4% Similarity=-0.419 Sum_probs=20.1
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-- |.|||||++.+...
T Consensus 29 e~~~i~G~n-GsGKSTLl~~l~G~ 51 (222)
T PRK10908 29 EMAFLTGHS-GAGKSTLLKLICGI 51 (222)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCC
Confidence 578899999 99999999999754
No 477
>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=63.83 E-value=5.1 Score=37.54 Aligned_cols=20 Identities=0% Similarity=-0.404 Sum_probs=18.5
Q ss_pred eeeeeeccCccchhHHHHHHH
Q 011431 229 SYRCWLLCPLFSELRVLTNDV 249 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy 249 (486)
+++|+|-- |.|||||+.+++
T Consensus 24 ~~~i~G~N-GsGKTTLl~ai~ 43 (204)
T cd03240 24 LTLIVGQN-GAGKTTIIEALK 43 (204)
T ss_pred eEEEECCC-CCCHHHHHHHHH
Confidence 78899999 999999999995
No 478
>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL. Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.
Probab=63.78 E-value=5 Score=37.88 Aligned_cols=24 Identities=4% Similarity=-0.252 Sum_probs=20.6
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|+|-. |-|||||++.+....
T Consensus 35 e~~~l~G~n-GsGKSTLl~~i~G~~ 58 (224)
T TIGR02324 35 ECVALSGPS-GAGKSTLLKSLYANY 58 (224)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCCC
Confidence 578899999 999999999997643
No 479
>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.
Probab=63.76 E-value=4.7 Score=36.33 Aligned_cols=23 Identities=9% Similarity=-0.273 Sum_probs=19.1
Q ss_pred ceeeeeeeccCccchhHHHHHHHh
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
...|.++|.+ |.|||||+..+..
T Consensus 15 ~~kv~~~G~~-~~GKTsl~~~l~~ 37 (174)
T cd04153 15 EYKVIIVGLD-NAGKTTILYQFLL 37 (174)
T ss_pred ccEEEEECCC-CCCHHHHHHHHcc
Confidence 3456799999 9999999988854
No 480
>cd04144 Ras2 Ras2 subfamily. The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.
Probab=63.76 E-value=5 Score=36.77 Aligned_cols=20 Identities=0% Similarity=-0.379 Sum_probs=16.7
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|.++|-. |+|||||+..+.+
T Consensus 2 i~ivG~~-~vGKTsli~~l~~ 21 (190)
T cd04144 2 LVVLGDG-GVGKTALTIQLCL 21 (190)
T ss_pred EEEECCC-CCCHHHHHHHHHh
Confidence 5688999 9999999987753
No 481
>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake. NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.
Probab=63.74 E-value=4.9 Score=38.46 Aligned_cols=23 Identities=4% Similarity=-0.400 Sum_probs=20.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-. |-|||||++.+...
T Consensus 48 e~~~i~G~N-GsGKSTLl~~i~Gl 70 (236)
T cd03267 48 EIVGFIGPN-GAGKTTTLKILSGL 70 (236)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCC
Confidence 578899999 99999999999764
No 482
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=63.72 E-value=4.2 Score=42.01 Aligned_cols=21 Identities=5% Similarity=-0.279 Sum_probs=16.9
Q ss_pred ceeeeeeeccCccchh-HHHHHH
Q 011431 227 YRSYRCWLLCPLFSEL-RVLTND 248 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKT-TLa~~v 248 (486)
-++|.++|-- |+||| |||+--
T Consensus 203 ~~vi~LVGPT-GVGKTTTlAKLA 224 (407)
T COG1419 203 KRVIALVGPT-GVGKTTTLAKLA 224 (407)
T ss_pred CcEEEEECCC-CCcHHHHHHHHH
Confidence 6789999999 99995 577644
No 483
>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site. The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....
Probab=63.71 E-value=6 Score=36.23 Aligned_cols=26 Identities=8% Similarity=-0.135 Sum_probs=22.0
Q ss_pred CceeeeeeeccCccchhHHHHHHHhhh
Q 011431 226 GYRSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 226 ~~~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
..+.|++.|-. |-|||||+..+-...
T Consensus 2 ~~~~I~i~G~~-~sGKTTL~~~L~~~~ 27 (188)
T PF00009_consen 2 NIRNIAIIGHV-DSGKTTLLGALLGKA 27 (188)
T ss_dssp TEEEEEEEEST-TSSHHHHHHHHHHHH
T ss_pred CEEEEEEECCC-CCCcEeechhhhhhc
Confidence 46789999999 999999999886543
No 484
>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.
Probab=63.70 E-value=5 Score=39.35 Aligned_cols=24 Identities=8% Similarity=-0.278 Sum_probs=19.6
Q ss_pred eeeeeeccCccchhHHHHHHHhhhc
Q 011431 229 SYRCWLLCPLFSELRVLTNDVHQLM 253 (486)
Q Consensus 229 vi~I~GmGgGvGKTTLa~~vy~~~~ 253 (486)
+|||-|-. |-||||+++.+...+.
T Consensus 1 IIgItG~S-GSGKTTv~~~l~~~l~ 24 (277)
T cd02029 1 VIAVTGSS-GAGTTTVKRAFEHIFA 24 (277)
T ss_pred CEEEECCC-CCCHHHHHHHHHHHHH
Confidence 57888888 9999999998876543
No 485
>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals. Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].
Probab=63.65 E-value=14 Score=36.76 Aligned_cols=30 Identities=7% Similarity=-0.146 Sum_probs=25.1
Q ss_pred CCceeeeeeeccCccchhHHHHHHHhhhccc
Q 011431 225 EGYRSYRCWLLCPLFSELRVLTNDVHQLMDN 255 (486)
Q Consensus 225 ~~~~vi~I~GmGgGvGKTTLa~~vy~~~~~~ 255 (486)
....+||+.|-= |.||||+.+.+.+.+...
T Consensus 18 ~~~~~IgL~G~W-GsGKSs~l~~l~~~L~~~ 47 (325)
T PF07693_consen 18 DDPFVIGLYGEW-GSGKSSFLNMLKEELKED 47 (325)
T ss_pred CCCeEEEEECCC-CCCHHHHHHHHHHHHhcc
Confidence 567788888876 999999999998877665
No 486
>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases. Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.
Probab=63.55 E-value=4.6 Score=36.01 Aligned_cols=20 Identities=5% Similarity=-0.247 Sum_probs=16.5
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|.|+|-+ |+|||||+....+
T Consensus 1 i~i~G~~-~vGKTsli~~~~~ 20 (174)
T smart00174 1 LVVVGDG-AVGKTCLLISYTT 20 (174)
T ss_pred CEEECCC-CCCHHHHHHHHHh
Confidence 3588998 9999999987654
No 487
>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters. PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=63.54 E-value=5.1 Score=37.00 Aligned_cols=23 Identities=4% Similarity=-0.304 Sum_probs=20.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-. |-|||||++.+...
T Consensus 34 e~~~l~G~n-GsGKSTLl~~l~G~ 56 (192)
T cd03232 34 TLTALMGES-GAGKTTLLDVLAGR 56 (192)
T ss_pred cEEEEECCC-CCCHHHHHHHHhCC
Confidence 578899999 99999999999753
No 488
>PRK09280 F0F1 ATP synthase subunit beta; Validated
Probab=63.53 E-value=11 Score=39.82 Aligned_cols=40 Identities=3% Similarity=-0.072 Sum_probs=25.5
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhccccccceEEEEeeecc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNYENSDVTLAKFEGE 269 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F~~~~~~~v~~~~~ 269 (486)
+-++|.|-. |+|||||+..+-.....+.. ..++.+.+.+.
T Consensus 145 QR~gIfa~~-GvGKt~Ll~~i~~~~~~~~~-~v~V~~liGER 184 (463)
T PRK09280 145 GKIGLFGGA-GVGKTVLIQELINNIAKEHG-GYSVFAGVGER 184 (463)
T ss_pred CEEEeecCC-CCChhHHHHHHHHHHHhcCC-CEEEEEEeccC
Confidence 346799888 99999999887655543322 22344455443
No 489
>cd04135 Tc10 TC10 subfamily. TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interacti
Probab=63.50 E-value=5.1 Score=35.75 Aligned_cols=20 Identities=5% Similarity=-0.228 Sum_probs=16.3
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|.++|-+ |+|||||+....+
T Consensus 3 i~i~G~~-~~GKTsl~~~~~~ 22 (174)
T cd04135 3 CVVVGDG-AVGKTCLLMSYAN 22 (174)
T ss_pred EEEECCC-CCCHHHHHHHHHh
Confidence 4588999 9999999977643
No 490
>PRK13539 cytochrome c biogenesis protein CcmA; Provisional
Probab=63.50 E-value=5 Score=37.50 Aligned_cols=23 Identities=4% Similarity=-0.361 Sum_probs=20.2
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-- |-|||||++.+...
T Consensus 29 e~~~i~G~n-GsGKSTLl~~l~G~ 51 (207)
T PRK13539 29 EALVLTGPN-GSGKTTLLRLIAGL 51 (207)
T ss_pred CEEEEECCC-CCCHHHHHHHHhCC
Confidence 578899999 99999999998764
No 491
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=63.50 E-value=5 Score=41.99 Aligned_cols=23 Identities=0% Similarity=-0.338 Sum_probs=19.5
Q ss_pred ceeeeeeeccCccchhHHHHHHHh
Q 011431 227 YRSYRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 227 ~~vi~I~GmGgGvGKTTLa~~vy~ 250 (486)
..++.++|.+ |.||||++.++-.
T Consensus 223 ~~vi~lvGpt-GvGKTTtaaKLA~ 245 (432)
T PRK12724 223 RKVVFFVGPT-GSGKTTSIAKLAA 245 (432)
T ss_pred CeEEEEECCC-CCCHHHHHHHHHH
Confidence 4678899999 9999999987754
No 492
>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=63.49 E-value=5.8 Score=36.34 Aligned_cols=28 Identities=11% Similarity=0.037 Sum_probs=22.0
Q ss_pred eeeeeeeccCccchhHHHHHHHhhhcccc
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQLMDNY 256 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~~~~F 256 (486)
+.|-++|.. |.||+||+..+.......|
T Consensus 3 r~ivl~Gps-g~GK~tl~~~L~~~~~~~~ 30 (184)
T smart00072 3 RPIVLSGPS-GVGKGTLLAELIQEIPDAF 30 (184)
T ss_pred cEEEEECCC-CCCHHHHHHHHHhcCCcce
Confidence 466789999 9999999999977653334
No 493
>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional
Probab=63.48 E-value=5.1 Score=38.69 Aligned_cols=23 Identities=4% Similarity=-0.359 Sum_probs=20.4
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|.. |-|||||++.+...
T Consensus 32 e~~~l~G~n-GsGKSTLl~~l~Gl 54 (255)
T PRK11300 32 EIVSLIGPN-GAGKTTVFNCLTGF 54 (255)
T ss_pred eEEEEECCC-CCCHHHHHHHHhCC
Confidence 578999999 99999999998764
No 494
>cd03110 Fer4_NifH_child This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.
Probab=63.47 E-value=4.9 Score=36.42 Aligned_cols=20 Identities=5% Similarity=-0.363 Sum_probs=14.0
Q ss_pred eeeeeccCccchhHHHHHHH
Q 011431 230 YRCWLLCPLFSELRVLTNDV 249 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy 249 (486)
|.|.+--||+||||++-++=
T Consensus 2 I~v~s~kgG~GKSt~a~nLA 21 (179)
T cd03110 2 IAVISGKGGTGKTTVTAALA 21 (179)
T ss_pred EEEEcCCCCCCHHHHHHHHH
Confidence 44544445999999987763
No 495
>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional
Probab=63.47 E-value=4.9 Score=38.70 Aligned_cols=24 Identities=4% Similarity=-0.316 Sum_probs=20.7
Q ss_pred eeeeeeeccCccchhHHHHHHHhhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQL 252 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~~ 252 (486)
.+++|.|-. |.|||||++.+....
T Consensus 30 e~~~i~G~n-GsGKSTLl~~i~G~~ 53 (250)
T PRK14247 30 TITALMGPS-GSGKSTLLRVFNRLI 53 (250)
T ss_pred CEEEEECCC-CCCHHHHHHHHhccC
Confidence 578899999 999999999997643
No 496
>cd04132 Rho4_like Rho4-like subfamily. Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.
Probab=63.46 E-value=5.1 Score=36.39 Aligned_cols=21 Identities=5% Similarity=-0.368 Sum_probs=17.7
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|.++|-. |+|||||++.+.+.
T Consensus 3 i~vvG~~-~vGKTsli~~l~~~ 23 (187)
T cd04132 3 IVVVGDG-GCGKTCLLIVYSQG 23 (187)
T ss_pred EEEECCC-CCCHHHHHHHHHhC
Confidence 5689999 99999999887653
No 497
>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake. NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.
Probab=63.45 E-value=5 Score=37.68 Aligned_cols=23 Identities=4% Similarity=-0.374 Sum_probs=19.9
Q ss_pred eeeeeeeccCccchhHHHHHHHhh
Q 011431 228 RSYRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 228 ~vi~I~GmGgGvGKTTLa~~vy~~ 251 (486)
.+++|.|-. |-|||||++.+...
T Consensus 32 e~~~i~G~n-GsGKSTLl~~l~Gl 54 (218)
T cd03266 32 EVTGLLGPN-GAGKTTTLRMLAGL 54 (218)
T ss_pred cEEEEECCC-CCCHHHHHHHHhCC
Confidence 467899999 99999999999753
No 498
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=63.42 E-value=40 Score=37.87 Aligned_cols=68 Identities=6% Similarity=-0.043 Sum_probs=36.9
Q ss_pred cceeeceeccc--CHHHHHHHhcCCCCCCCCCE-EEeeCCccccccccccCCCceEecCCCCCchhhhhhcc
Q 011431 308 SAAHPYVEDVI--DDAYMEDITDDSSPSLNLSR-INSTSRFEQLWPETISATDTCTEDVTVDNSPSLNLSSC 376 (486)
Q Consensus 308 Kr~LlVLDDVw--~~~~~~~l~~~~~~~~~GSr-IIiTTR~~~V~~~~~~~~~~~y~v~~L~~~es~~LF~~ 376 (486)
++.++++|++. ....+..|+...-+-..... |++||+...+... .......+++++|+.++-...+..
T Consensus 118 ~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~T-I~SRcq~ieF~~L~~eeI~~~L~~ 188 (725)
T PRK07133 118 KYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLT-ILSRVQRFNFRRISEDEIVSRLEF 188 (725)
T ss_pred CCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHH-HHhhceeEEccCCCHHHHHHHHHH
Confidence 56678899876 33445555532101122445 4455555555421 111124788999988887666554
No 499
>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=63.28 E-value=4.8 Score=36.82 Aligned_cols=21 Identities=0% Similarity=-0.463 Sum_probs=17.6
Q ss_pred eeeeeccCccchhHHHHHHHhh
Q 011431 230 YRCWLLCPLFSELRVLTNDVHQ 251 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~~ 251 (486)
|-|.|+. |.||||+|+.+-..
T Consensus 2 I~i~G~p-GsGKst~a~~La~~ 22 (194)
T cd01428 2 ILLLGPP-GSGKGTQAERLAKK 22 (194)
T ss_pred EEEECCC-CCCHHHHHHHHHHH
Confidence 4578888 99999999988655
No 500
>cd01893 Miro1 Miro1 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.
Probab=63.28 E-value=5.3 Score=35.55 Aligned_cols=20 Identities=5% Similarity=-0.302 Sum_probs=17.0
Q ss_pred eeeeeccCccchhHHHHHHHh
Q 011431 230 YRCWLLCPLFSELRVLTNDVH 250 (486)
Q Consensus 230 i~I~GmGgGvGKTTLa~~vy~ 250 (486)
|.++|-+ |+|||||+..+.+
T Consensus 3 v~ivG~~-~vGKTsl~~~l~~ 22 (166)
T cd01893 3 IVLIGDE-GVGKSSLIMSLVS 22 (166)
T ss_pred EEEECCC-CCCHHHHHHHHHh
Confidence 5688999 9999999988754
Done!