Query 003126
Match_columns 845
No_of_seqs 125 out of 130
Neff 3.7
Searched_HMMs 46136
Date Thu Mar 28 17:31:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003126.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003126hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00498 FHA: FHA domain; Int 99.3 2E-11 4.4E-16 101.5 8.3 67 154-224 1-68 (68)
2 cd00060 FHA Forkhead associate 99.2 7.5E-11 1.6E-15 102.5 10.0 97 134-234 1-101 (102)
3 KOG0615 Serine/threonine prote 99.1 4.1E-11 8.8E-16 132.4 5.8 107 130-237 42-159 (475)
4 TIGR03354 VI_FHA type VI secre 98.7 2.8E-08 6.1E-13 110.3 7.7 76 146-226 18-97 (396)
5 COG1716 FOG: FHA domain [Signa 98.3 2.9E-06 6.3E-11 82.9 9.5 77 145-228 82-159 (191)
6 smart00240 FHA Forkhead associ 98.3 1.2E-06 2.6E-11 69.1 5.1 50 154-207 1-52 (52)
7 PLN02927 antheraxanthin epoxid 98.3 1.5E-06 3.3E-11 102.3 8.3 85 143-232 545-643 (668)
8 KOG0740 AAA+-type ATPase [Post 98.0 4.2E-05 9.2E-10 86.3 11.5 67 450-523 149-215 (428)
9 COG3456 Predicted component of 97.7 4.4E-05 9.5E-10 85.5 6.3 79 149-237 23-104 (430)
10 CHL00195 ycf46 Ycf46; Provisio 97.6 0.00039 8.5E-09 79.8 12.3 82 442-532 216-297 (489)
11 KOG0737 AAA+-type ATPase [Post 97.5 0.00012 2.7E-09 81.2 6.5 99 429-532 67-165 (386)
12 PRK03992 proteasome-activating 97.5 0.00074 1.6E-08 74.9 12.4 75 447-528 124-199 (389)
13 COG0464 SpoVK ATPases of the A 97.5 0.0017 3.7E-08 73.4 14.6 95 432-532 216-314 (494)
14 TIGR01243 CDC48 AAA family ATP 97.2 0.0035 7.6E-08 74.7 13.1 74 450-530 449-523 (733)
15 TIGR01241 FtsH_fam ATP-depende 97.1 0.0023 5E-08 72.8 10.2 77 444-528 45-122 (495)
16 KOG1881 Anion exchanger adapto 96.9 0.0035 7.5E-08 74.4 9.7 87 151-239 176-270 (793)
17 PTZ00454 26S protease regulato 96.8 0.012 2.5E-07 66.3 12.3 73 447-526 138-211 (398)
18 CHL00176 ftsH cell division pr 96.8 0.012 2.6E-07 69.8 13.0 78 443-527 172-249 (638)
19 PTZ00361 26 proteosome regulat 96.6 0.016 3.5E-07 66.0 11.8 61 462-527 189-250 (438)
20 TIGR03689 pup_AAA proteasome A 96.4 0.032 6.9E-07 64.9 12.8 94 690-826 274-381 (512)
21 COG1223 Predicted ATPase (AAA+ 96.3 0.02 4.3E-07 62.4 9.3 50 475-532 139-189 (368)
22 TIGR01243 CDC48 AAA family ATP 95.7 0.093 2E-06 62.9 12.9 77 449-531 173-249 (733)
23 KOG1882 Transcriptional regula 95.7 0.027 5.8E-07 60.2 7.3 101 127-228 164-280 (293)
24 KOG0245 Kinesin-like protein [ 95.4 0.044 9.5E-07 67.5 8.4 82 149-237 474-558 (1221)
25 PRK10733 hflB ATP-dependent me 94.5 0.26 5.7E-06 58.7 11.5 77 445-529 143-220 (644)
26 TIGR00390 hslU ATP-dependent p 93.5 0.076 1.6E-06 60.9 4.4 70 458-531 14-84 (441)
27 PRK05342 clpX ATP-dependent pr 93.0 0.1 2.2E-06 59.3 4.3 85 444-531 60-145 (412)
28 KOG0733 Nuclear AAA ATPase (VC 92.9 0.083 1.8E-06 62.8 3.6 85 446-537 182-266 (802)
29 PRK05201 hslU ATP-dependent pr 92.2 0.16 3.5E-06 58.4 4.6 67 461-531 20-87 (443)
30 TIGR00382 clpX endopeptidase C 92.1 0.2 4.4E-06 57.1 5.2 70 460-531 81-153 (413)
31 PF00004 AAA: ATPase family as 91.0 0.17 3.6E-06 45.6 2.6 35 495-531 1-35 (132)
32 KOG0730 AAA+-type ATPase [Post 91.0 0.26 5.6E-06 59.0 4.8 75 446-527 426-501 (693)
33 KOG0739 AAA+-type ATPase [Post 90.7 0.28 6.1E-06 54.6 4.4 77 448-531 127-203 (439)
34 PRK12377 putative replication 89.3 0.56 1.2E-05 50.0 5.2 83 432-527 52-137 (248)
35 KOG0738 AAA+-type ATPase [Post 89.0 0.45 9.8E-06 54.5 4.4 78 447-531 205-282 (491)
36 KOG0736 Peroxisome assembly fa 88.9 0.93 2E-05 55.5 7.2 96 428-530 646-741 (953)
37 PF00004 AAA: ATPase family as 88.4 1.1 2.5E-05 40.3 5.9 55 689-746 45-111 (132)
38 KOG0744 AAA+-type ATPase [Post 88.2 0.25 5.4E-06 55.4 1.8 75 442-521 130-204 (423)
39 PRK07952 DNA replication prote 87.5 1 2.3E-05 47.9 5.8 87 431-530 49-138 (244)
40 TIGR01242 26Sp45 26S proteasom 87.1 0.54 1.2E-05 51.7 3.5 73 449-527 117-189 (364)
41 PRK08116 hypothetical protein; 86.8 0.77 1.7E-05 49.1 4.4 87 433-530 64-153 (268)
42 KOG2045 5'-3' exonuclease XRN1 86.7 0.92 2E-05 56.1 5.3 76 584-669 1115-1190(1493)
43 TIGR01663 PNK-3'Pase polynucle 86.5 2 4.3E-05 50.7 7.9 97 133-235 13-109 (526)
44 TIGR02500 type_III_yscD type I 86.1 1.1 2.4E-05 50.8 5.4 63 147-215 15-80 (410)
45 KOG2293 Daxx-interacting prote 85.7 1.8 4E-05 50.8 6.9 92 133-234 432-530 (547)
46 KOG0733 Nuclear AAA ATPase (VC 84.7 1.2 2.6E-05 53.5 4.9 74 450-530 507-581 (802)
47 CHL00206 ycf2 Ycf2; Provisiona 81.7 1 2.2E-05 59.8 3.0 42 490-533 1628-1669(2281)
48 PF13207 AAA_17: AAA domain; P 80.6 1.4 2.9E-05 40.0 2.7 32 494-527 1-32 (121)
49 PF07724 AAA_2: AAA domain (Cd 79.9 1.4 3E-05 44.3 2.8 37 494-532 5-45 (171)
50 TIGR02988 YaaA_near_RecF S4 do 79.7 1.6 3.5E-05 36.5 2.6 27 196-223 32-58 (59)
51 COG1219 ClpX ATP-dependent pro 79.6 0.9 2E-05 51.1 1.5 68 461-530 66-133 (408)
52 TIGR02640 gas_vesic_GvpN gas v 79.2 2.1 4.5E-05 45.4 3.9 36 491-528 20-55 (262)
53 KOG0731 AAA+-type ATPase conta 78.7 2.2 4.8E-05 52.3 4.4 79 445-530 302-380 (774)
54 KOG1880 Nuclear inhibitor of p 77.5 3.9 8.5E-05 45.5 5.4 81 150-234 36-118 (337)
55 TIGR02639 ClpA ATP-dependent C 76.6 6.6 0.00014 47.7 7.6 93 689-825 262-360 (731)
56 KOG0734 AAA+-type ATPase conta 76.6 2.9 6.2E-05 49.9 4.4 80 439-525 289-368 (752)
57 PLN00020 ribulose bisphosphate 76.4 2 4.4E-05 49.3 3.0 44 492-537 148-191 (413)
58 smart00363 S4 S4 RNA-binding d 76.3 3.4 7.4E-05 32.0 3.5 28 196-224 24-51 (60)
59 cd00754 MoaD Ubiquitin domain 75.7 2.6 5.5E-05 36.3 2.8 26 199-226 51-76 (80)
60 TIGR01687 moaD_arch MoaD famil 74.4 2.7 6E-05 37.2 2.8 28 199-226 57-84 (88)
61 PF02597 ThiS: ThiS family; I 73.2 2.4 5.1E-05 36.1 2.0 30 197-226 43-73 (77)
62 PRK04195 replication factor C 72.0 3.6 7.8E-05 47.3 3.7 37 492-530 39-75 (482)
63 PF01479 S4: S4 domain; Inter 71.3 2.8 6E-05 33.3 1.8 24 197-221 25-48 (48)
64 PRK11130 moaD molybdopterin sy 69.3 4.7 0.0001 35.8 3.0 26 199-226 52-77 (81)
65 COG1222 RPT1 ATP-dependent 26S 68.3 3.8 8.1E-05 46.9 2.7 53 474-530 169-221 (406)
66 PRK00131 aroK shikimate kinase 68.3 4.7 0.0001 38.3 3.1 34 492-527 4-37 (175)
67 PRK08118 topology modulation p 68.3 4.1 9E-05 40.5 2.8 35 493-529 2-36 (167)
68 cd01428 ADK Adenylate kinase ( 67.5 5.3 0.00011 39.1 3.3 31 494-526 1-31 (194)
69 PRK08181 transposase; Validate 66.7 16 0.00034 39.7 6.9 66 431-516 58-128 (269)
70 PRK11034 clpA ATP-dependent Cl 66.4 13 0.00028 45.9 6.9 90 689-822 266-361 (758)
71 KOG0727 26S proteasome regulat 66.3 4.8 0.0001 44.5 2.9 65 462-530 161-225 (408)
72 TIGR01242 26Sp45 26S proteasom 65.1 24 0.00052 39.1 8.1 91 689-824 203-307 (364)
73 KOG0739 AAA+-type ATPase [Post 65.0 11 0.00023 42.8 5.3 106 668-823 195-312 (439)
74 TIGR01650 PD_CobS cobaltochela 65.0 11 0.00024 42.3 5.5 34 492-527 64-97 (327)
75 cd00464 SK Shikimate kinase (S 64.9 5.9 0.00013 37.2 3.0 32 494-527 1-32 (154)
76 TIGR02881 spore_V_K stage V sp 64.1 6.9 0.00015 41.2 3.6 34 483-518 33-66 (261)
77 PRK06921 hypothetical protein; 63.8 6.2 0.00013 42.4 3.2 72 435-518 65-141 (266)
78 PRK11034 clpA ATP-dependent Cl 63.4 5.5 0.00012 49.0 3.1 37 493-531 489-525 (758)
79 COG0470 HolB ATPase involved i 62.8 11 0.00024 39.6 4.8 24 494-519 26-49 (325)
80 cd01764 Urm1 Urm1-like ubuitin 62.0 6 0.00013 36.6 2.4 28 199-226 61-90 (94)
81 PF07728 AAA_5: AAA domain (dy 61.9 8.4 0.00018 36.0 3.4 32 495-528 2-33 (139)
82 TIGR03420 DnaA_homol_Hda DnaA 61.7 13 0.00028 37.4 4.9 65 449-530 10-77 (226)
83 cd00565 ThiS ThiaminS ubiquiti 61.2 7.1 0.00015 33.2 2.5 27 199-225 32-60 (65)
84 smart00382 AAA ATPases associa 60.8 10 0.00023 32.9 3.6 34 492-527 2-38 (148)
85 PRK14528 adenylate kinase; Pro 60.0 8.4 0.00018 38.8 3.2 32 493-526 2-33 (186)
86 PHA02544 44 clamp loader, smal 59.6 7.8 0.00017 41.3 3.0 35 493-529 44-78 (316)
87 PLN02799 Molybdopterin synthas 58.8 9.2 0.0002 33.6 2.9 26 199-226 53-78 (82)
88 CHL00181 cbbX CbbX; Provisiona 58.2 18 0.00039 39.3 5.5 82 707-826 125-212 (287)
89 COG0714 MoxR-like ATPases [Gen 58.0 12 0.00027 40.7 4.3 38 491-530 42-79 (329)
90 cd00165 S4 S4/Hsp/ tRNA synthe 57.8 11 0.00023 30.1 2.9 28 196-224 24-51 (70)
91 PRK13947 shikimate kinase; Pro 57.5 10 0.00022 36.6 3.3 32 494-527 3-34 (171)
92 PRK00080 ruvB Holliday junctio 57.4 11 0.00024 40.9 3.9 35 492-528 51-85 (328)
93 PF14478 DUF4430: Domain of un 57.3 9 0.00019 33.1 2.5 25 199-223 42-67 (68)
94 PF05673 DUF815: Protein of un 56.6 70 0.0015 35.0 9.5 110 690-823 94-207 (249)
95 TIGR01682 moaD molybdopterin c 56.5 10 0.00022 33.3 2.8 26 199-226 51-76 (80)
96 PRK06944 sulfur carrier protei 55.6 10 0.00022 31.9 2.5 28 198-225 31-60 (65)
97 PRK08939 primosomal protein Dn 55.2 21 0.00046 39.3 5.5 85 435-530 108-195 (306)
98 PF05496 RuvB_N: Holliday junc 54.9 13 0.00027 40.2 3.6 34 493-528 51-84 (233)
99 TIGR00635 ruvB Holliday juncti 54.7 12 0.00027 39.6 3.6 35 492-528 30-64 (305)
100 PRK00149 dnaA chromosomal repl 54.2 14 0.00029 42.3 4.0 68 449-530 117-189 (450)
101 PRK06526 transposase; Provisio 53.8 43 0.00093 36.0 7.4 53 432-502 52-108 (254)
102 PRK08903 DnaA regulatory inact 53.8 25 0.00054 35.9 5.4 66 449-530 13-81 (227)
103 PRK03839 putative kinase; Prov 53.2 12 0.00025 36.9 2.9 32 494-527 2-33 (180)
104 PRK06488 sulfur carrier protei 53.0 10 0.00022 32.3 2.1 27 199-225 32-60 (65)
105 PRK07261 topology modulation p 51.7 13 0.00029 36.9 3.0 37 493-531 1-37 (171)
106 TIGR01313 therm_gnt_kin carboh 51.7 14 0.0003 35.6 3.1 32 495-530 1-32 (163)
107 cd02021 GntK Gluconate kinase 51.0 15 0.00033 34.7 3.2 30 495-526 2-31 (150)
108 TIGR01351 adk adenylate kinase 50.5 14 0.00031 37.4 3.1 31 494-526 1-31 (210)
109 PRK00091 miaA tRNA delta(2)-is 49.9 14 0.0003 40.9 3.1 37 493-531 5-41 (307)
110 TIGR01683 thiS thiamine biosyn 49.8 13 0.00028 31.6 2.3 29 197-225 29-59 (64)
111 PRK14530 adenylate kinase; Pro 49.4 18 0.00039 36.9 3.7 32 492-525 3-34 (215)
112 TIGR02639 ClpA ATP-dependent C 49.1 15 0.00033 44.7 3.5 36 494-531 486-521 (731)
113 cd00009 AAA The AAA+ (ATPases 47.9 23 0.0005 31.3 3.7 39 491-531 18-59 (151)
114 smart00763 AAA_PrkA PrkA AAA d 46.7 50 0.0011 37.8 6.9 89 428-527 17-118 (361)
115 TIGR00362 DnaA chromosomal rep 46.4 23 0.0005 39.7 4.2 37 492-530 136-177 (405)
116 TIGR02880 cbbX_cfxQ probable R 45.9 40 0.00088 36.5 5.8 83 706-826 123-211 (284)
117 PRK15367 type III secretion sy 45.4 53 0.0011 38.1 6.8 70 143-221 15-84 (395)
118 PRK03731 aroL shikimate kinase 45.1 22 0.00048 34.5 3.4 33 493-527 3-35 (171)
119 PRK06835 DNA replication prote 44.5 20 0.00042 40.1 3.3 43 484-528 175-220 (329)
120 PRK06217 hypothetical protein; 44.3 20 0.00044 35.6 3.0 33 493-527 2-34 (183)
121 PHA02244 ATPase-like protein 44.0 23 0.0005 40.7 3.8 34 492-527 119-152 (383)
122 KOG0730 AAA+-type ATPase [Post 43.9 9.6 0.00021 46.3 0.8 60 468-531 196-255 (693)
123 PRK14531 adenylate kinase; Pro 43.8 20 0.00042 35.8 2.9 29 493-523 3-31 (183)
124 KOG0745 Putative ATP-dependent 43.6 20 0.00044 42.3 3.2 35 494-530 228-262 (564)
125 PRK00411 cdc6 cell division co 43.5 1.2E+02 0.0026 33.5 9.0 54 689-745 125-181 (394)
126 PRK14527 adenylate kinase; Pro 43.0 21 0.00045 35.7 2.9 34 490-525 4-37 (191)
127 cd02020 CMPK Cytidine monophos 42.8 21 0.00045 33.1 2.7 30 495-526 2-31 (147)
128 PF03215 Rad17: Rad17 cell cyc 42.0 19 0.00042 42.6 2.9 30 494-525 47-76 (519)
129 PF00308 Bac_DnaA: Bacterial d 41.8 1.1E+02 0.0025 31.8 8.1 56 450-519 4-59 (219)
130 PRK13342 recombination factor 41.7 26 0.00056 39.7 3.7 34 493-528 37-70 (413)
131 PLN03025 replication factor C 41.0 24 0.00053 38.3 3.3 24 493-518 35-58 (319)
132 PF13671 AAA_33: AAA domain; P 39.3 18 0.00039 33.5 1.7 30 495-526 2-31 (143)
133 PF14451 Ub-Mut7C: Mut7-C ubiq 39.2 30 0.00064 31.7 3.0 26 198-225 50-75 (81)
134 TIGR03346 chaperone_ClpB ATP-d 39.0 77 0.0017 39.7 7.4 79 703-822 265-348 (852)
135 TIGR02928 orc1/cdc6 family rep 39.0 1.3E+02 0.0027 32.9 8.3 54 690-745 117-173 (365)
136 PRK14532 adenylate kinase; Pro 38.2 28 0.0006 34.4 2.9 29 494-524 2-30 (188)
137 PF00158 Sigma54_activat: Sigm 37.8 21 0.00045 35.9 2.0 47 483-531 13-62 (168)
138 KOG1969 DNA replication checkp 37.8 28 0.00062 43.2 3.4 37 492-530 326-362 (877)
139 cd00227 CPT Chloramphenicol (C 37.6 26 0.00056 34.5 2.6 34 492-527 2-35 (175)
140 COG0564 RluA Pseudouridylate s 37.5 32 0.0007 37.8 3.5 31 194-226 33-63 (289)
141 PRK05057 aroK shikimate kinase 37.1 33 0.00071 34.2 3.3 34 492-527 4-37 (172)
142 PRK14962 DNA polymerase III su 36.9 35 0.00077 39.9 3.9 27 492-520 36-62 (472)
143 PRK13949 shikimate kinase; Pro 36.9 28 0.00062 34.7 2.8 33 493-527 2-34 (169)
144 TIGR01359 UMP_CMP_kin_fam UMP- 36.8 30 0.00065 33.8 2.9 32 495-530 2-33 (183)
145 PRK06893 DNA replication initi 36.8 35 0.00076 35.5 3.5 25 492-518 39-63 (229)
146 COG1188 Ribosome-associated he 36.7 36 0.00078 32.7 3.2 31 196-228 32-62 (100)
147 CHL00095 clpC Clp protease ATP 36.5 30 0.00066 42.8 3.5 37 494-532 541-580 (821)
148 PRK08053 sulfur carrier protei 36.1 31 0.00067 29.6 2.5 27 199-225 33-61 (66)
149 PRK08154 anaerobic benzoate ca 35.7 1.1E+02 0.0023 33.6 7.2 41 483-526 125-165 (309)
150 TIGR03345 VI_ClpV1 type VI sec 35.3 1.3E+02 0.0028 37.9 8.6 76 703-819 279-359 (852)
151 PRK06437 hypothetical protein; 34.9 42 0.00092 29.2 3.2 31 193-225 32-62 (67)
152 PRK00279 adk adenylate kinase; 34.8 33 0.00071 35.0 2.9 30 494-525 2-31 (215)
153 PTZ00088 adenylate kinase 1; P 34.7 33 0.00071 36.4 2.9 33 493-527 7-39 (229)
154 PF01300 Sua5_yciO_yrdC: Telom 34.5 48 0.001 33.4 3.9 59 686-745 25-85 (179)
155 TIGR00763 lon ATP-dependent pr 34.5 61 0.0013 40.0 5.6 34 492-527 347-380 (775)
156 KOG0735 AAA+-type ATPase [Post 34.4 30 0.00066 43.0 2.9 42 489-532 428-473 (952)
157 smart00797 AHS2 Allophanate hy 34.1 88 0.0019 34.5 6.1 46 189-234 46-91 (280)
158 KOG1892 Actin filament-binding 33.6 52 0.0011 42.1 4.6 83 148-238 374-458 (1629)
159 TIGR01017 rpsD_bact ribosomal 33.4 34 0.00074 35.7 2.8 28 196-224 113-140 (200)
160 CHL00113 rps4 ribosomal protei 32.7 37 0.00081 35.8 2.9 28 196-224 112-139 (201)
161 PRK13407 bchI magnesium chelat 32.7 55 0.0012 36.8 4.4 25 493-519 30-54 (334)
162 PRK00625 shikimate kinase; Pro 32.4 38 0.00081 34.3 2.8 32 494-527 2-33 (173)
163 KOG0241 Kinesin-like protein [ 32.3 79 0.0017 40.5 5.9 65 155-225 470-534 (1714)
164 PRK02496 adk adenylate kinase; 32.1 36 0.00079 33.6 2.6 32 494-527 3-34 (184)
165 PRK01777 hypothetical protein; 32.0 47 0.001 31.2 3.2 27 197-225 49-75 (95)
166 PF06068 TIP49: TIP49 C-termin 31.8 41 0.00089 39.0 3.3 41 490-532 48-90 (398)
167 TIGR03345 VI_ClpV1 type VI sec 31.8 34 0.00073 42.9 2.8 35 494-530 598-635 (852)
168 PF02626 AHS2: Allophanate hyd 31.8 91 0.002 34.2 5.8 46 189-234 46-91 (271)
169 PRK06762 hypothetical protein; 31.7 47 0.001 32.1 3.3 33 493-527 3-35 (166)
170 TIGR02880 cbbX_cfxQ probable R 31.4 38 0.00081 36.7 2.8 39 492-532 58-103 (284)
171 PRK12402 replication factor C 31.2 41 0.0009 35.8 3.1 37 494-532 38-79 (337)
172 PRK10348 ribosome-associated h 30.9 66 0.0014 32.2 4.1 37 197-236 33-69 (133)
173 cd02027 APSK Adenosine 5'-phos 30.5 56 0.0012 31.8 3.6 31 495-527 2-35 (149)
174 PF00005 ABC_tran: ABC transpo 30.4 1E+02 0.0022 28.5 5.2 54 460-527 81-134 (137)
175 CHL00206 ycf2 Ycf2; Provisiona 30.2 1.3E+02 0.0028 41.5 7.6 56 688-746 1719-1781(2281)
176 PRK05327 rpsD 30S ribosomal pr 30.1 42 0.00091 35.2 2.8 29 196-225 116-144 (203)
177 PRK10634 tRNA(ANN) t(6)A37 thr 29.9 91 0.002 32.2 5.1 53 686-742 39-97 (190)
178 PF01637 Arch_ATPase: Archaeal 29.9 1.2E+02 0.0025 29.9 5.7 58 686-745 102-166 (234)
179 PF01745 IPT: Isopentenyl tran 29.8 45 0.00097 36.2 3.0 36 495-532 4-39 (233)
180 PF13401 AAA_22: AAA domain; P 29.8 1E+02 0.0023 28.0 5.0 54 687-745 73-126 (131)
181 PF13521 AAA_28: AAA domain; P 29.3 49 0.0011 32.0 2.9 25 494-521 1-25 (163)
182 cd02019 NK Nucleoside/nucleoti 29.2 76 0.0017 27.1 3.8 32 494-527 1-33 (69)
183 PRK08233 hypothetical protein; 28.9 55 0.0012 31.6 3.2 36 493-530 4-40 (182)
184 PRK14960 DNA polymerase III su 28.9 50 0.0011 40.8 3.5 27 492-520 37-63 (702)
185 TIGR00174 miaA tRNA isopenteny 28.8 47 0.001 36.6 3.1 35 495-531 2-36 (287)
186 COG2255 RuvB Holliday junction 28.1 43 0.00093 37.8 2.6 33 493-527 53-85 (332)
187 PLN02840 tRNA dimethylallyltra 27.8 48 0.001 38.7 3.0 38 493-532 22-59 (421)
188 PRK11507 ribosome-associated p 27.6 51 0.0011 29.8 2.5 26 197-223 36-61 (70)
189 KOG0736 Peroxisome assembly fa 27.5 66 0.0014 40.5 4.2 42 488-531 427-468 (953)
190 PRK11860 bifunctional 3-phosph 27.5 38 0.00082 41.0 2.2 36 493-532 443-478 (661)
191 COG0542 clpA ATP-binding subun 27.2 35 0.00077 42.5 1.9 39 487-530 513-560 (786)
192 COG0522 RpsD Ribosomal protein 26.8 64 0.0014 34.2 3.5 30 196-226 117-146 (205)
193 PLN00020 ribulose bisphosphate 26.8 1.7E+02 0.0036 34.4 6.9 32 687-718 193-226 (413)
194 PRK13946 shikimate kinase; Pro 26.6 52 0.0011 32.9 2.7 33 493-527 11-43 (184)
195 CHL00181 cbbX CbbX; Provisiona 26.5 58 0.0013 35.5 3.2 25 492-518 59-83 (287)
196 PRK04182 cytidylate kinase; Pr 26.5 57 0.0012 31.3 2.9 28 494-523 2-29 (180)
197 TIGR03574 selen_PSTK L-seryl-t 26.2 62 0.0013 33.8 3.2 31 495-527 2-35 (249)
198 PF01583 APS_kinase: Adenylyls 26.1 76 0.0016 32.2 3.7 40 494-535 4-46 (156)
199 PF14512 TM1586_NiRdase: Putat 26.0 31 0.00067 36.7 1.0 65 404-473 3-70 (206)
200 COG2501 S4-like RNA binding pr 26.0 69 0.0015 29.3 3.0 27 196-223 35-61 (73)
201 PRK04220 2-phosphoglycerate ki 25.8 57 0.0012 36.4 3.0 57 461-521 61-119 (301)
202 TIGR00057 Sua5/YciO/YrdC/YwlC 25.6 87 0.0019 32.4 4.2 57 686-744 40-97 (201)
203 PRK09183 transposase/IS protei 25.4 1.5E+02 0.0032 31.9 5.9 74 434-527 58-138 (259)
204 PF05726 Pirin_C: Pirin C-term 25.3 59 0.0013 30.1 2.6 36 189-226 22-59 (104)
205 TIGR00678 holB DNA polymerase 25.2 52 0.0011 32.7 2.3 29 491-521 13-41 (188)
206 PRK10078 ribose 1,5-bisphospho 25.0 76 0.0016 31.7 3.5 33 493-527 3-35 (186)
207 PF07726 AAA_3: ATPase family 24.8 67 0.0014 32.1 3.0 27 495-523 2-28 (131)
208 TIGR03069 PS_II_S4 photosystem 24.7 88 0.0019 34.0 4.1 32 196-228 206-237 (257)
209 TIGR02173 cyt_kin_arch cytidyl 24.7 64 0.0014 30.8 2.8 29 494-524 2-30 (171)
210 PRK05659 sulfur carrier protei 24.5 58 0.0013 27.5 2.2 27 199-225 33-61 (66)
211 PRK01184 hypothetical protein; 23.8 73 0.0016 31.4 3.1 29 494-525 3-31 (184)
212 PRK14959 DNA polymerase III su 23.8 73 0.0016 38.9 3.6 28 492-521 38-65 (624)
213 PRK14955 DNA polymerase III su 23.4 54 0.0012 37.1 2.3 29 491-521 37-65 (397)
214 KOG1942 DNA helicase, TBP-inte 23.3 60 0.0013 37.0 2.6 52 691-745 278-334 (456)
215 TIGR03018 pepcterm_TyrKin exop 23.0 2.5E+02 0.0054 28.6 6.8 44 488-532 31-77 (207)
216 TIGR01817 nifA Nif-specific re 22.9 65 0.0014 37.7 2.9 43 486-530 213-258 (534)
217 PRK07452 DNA polymerase III su 22.8 2.7E+02 0.0059 30.1 7.4 38 706-743 63-101 (326)
218 CHL00095 clpC Clp protease ATP 22.8 1.5E+02 0.0033 36.9 6.2 42 703-746 270-316 (821)
219 PRK08364 sulfur carrier protei 22.8 75 0.0016 27.7 2.6 27 197-225 39-65 (70)
220 PHA02530 pseT polynucleotide k 22.5 73 0.0016 33.8 3.0 33 493-527 3-36 (300)
221 PF12774 AAA_6: Hydrolytic ATP 22.4 82 0.0018 33.6 3.3 34 496-531 36-69 (231)
222 TIGR02903 spore_lon_C ATP-depe 22.3 2.3E+02 0.0051 34.4 7.4 36 493-530 176-221 (615)
223 TIGR01360 aden_kin_iso1 adenyl 22.3 79 0.0017 30.7 3.0 30 492-523 3-32 (188)
224 TIGR02397 dnaX_nterm DNA polym 22.1 60 0.0013 35.1 2.3 26 491-518 35-60 (355)
225 PHA02544 44 clamp loader, smal 22.1 3.6E+02 0.0077 28.9 8.0 40 704-745 100-139 (316)
226 TIGR03346 chaperone_ClpB ATP-d 21.9 79 0.0017 39.5 3.6 38 493-532 596-636 (852)
227 PF13275 S4_2: S4 domain; PDB: 21.9 36 0.00078 30.2 0.5 26 197-223 32-57 (65)
228 TIGR02881 spore_V_K stage V sp 21.9 2.7E+02 0.0059 29.4 7.1 30 796-825 164-193 (261)
229 COG3045 CreA Uncharacterized p 21.9 1.2E+02 0.0027 31.3 4.2 60 167-236 48-116 (165)
230 KOG0743 AAA+-type ATPase [Post 21.7 1E+02 0.0022 36.5 4.1 75 450-528 186-269 (457)
231 PF07693 KAP_NTPase: KAP famil 21.5 3.2E+02 0.0069 29.1 7.5 95 689-814 159-254 (325)
232 PRK14961 DNA polymerase III su 21.4 63 0.0014 36.1 2.4 27 492-520 38-64 (363)
233 PLN02674 adenylate kinase 21.3 69 0.0015 34.6 2.5 30 492-523 31-60 (244)
234 PF13177 DNA_pol3_delta2: DNA 21.2 66 0.0014 31.9 2.2 26 491-518 18-43 (162)
235 PRK11630 hypothetical protein; 21.1 2E+02 0.0042 30.2 5.7 55 686-745 46-104 (206)
236 PRK10865 protein disaggregatio 21.1 71 0.0015 40.1 2.9 34 495-530 601-637 (857)
237 KOG0971 Microtubule-associated 21.0 97 0.0021 39.5 3.9 60 597-676 4-74 (1243)
238 PRK06645 DNA polymerase III su 21.0 66 0.0014 38.2 2.5 29 492-522 43-71 (507)
239 TIGR00005 rluA_subfam pseudour 20.7 79 0.0017 34.1 2.9 27 196-223 29-55 (299)
240 PF07883 Cupin_2: Cupin domain 20.6 2.5E+02 0.0053 23.0 5.2 38 189-232 21-58 (71)
241 KOG0728 26S proteasome regulat 20.5 61 0.0013 36.2 2.0 51 475-530 166-217 (404)
242 PRK05707 DNA polymerase III su 20.4 66 0.0014 35.9 2.2 29 489-519 19-47 (328)
243 PRK10839 16S rRNA pseudouridyl 20.2 85 0.0019 32.8 2.9 27 196-223 23-49 (232)
244 PF11101 DUF2884: Protein of u 20.0 1E+02 0.0023 32.8 3.5 18 192-209 26-43 (229)
No 1
>PF00498 FHA: FHA domain; InterPro: IPR000253 The forkhead-associated (FHA) domain [] is a phosphopeptide recognition domain found in many regulatory proteins. It displays specificity for phosphothreonine-containing epitopes but will also recognise phosphotyrosine with relatively high affinity. It spans approximately 80-100 amino acid residues folded into an 11-stranded beta sandwich, which sometimes contain small helical insertions between the loops connecting the strands []. To date, genes encoding FHA-containing proteins have been identified in eubacterial and eukaryotic but not archaeal genomes. The domain is present in a diverse range of proteins, such as kinases, phosphatases, kinesins, transcription factors, RNA-binding proteins and metabolic enzymes which partake in many different cellular processes - DNA repair, signal transduction, vesicular transport and protein degradation are just a few examples.; GO: 0005515 protein binding; PDB: 1LGQ_B 1LGP_A 2CSW_A 2PIE_A 3FM8_A 3MDB_B 3GQS_B 1UHT_A 1WLN_A 3POA_A ....
Probab=99.25 E-value=2e-11 Score=101.51 Aligned_cols=67 Identities=33% Similarity=0.516 Sum_probs=58.7
Q ss_pred eEeecccccceEecCCCCccceeEEEEeecCCCceEEEEEec-CCceEEECCEEcCCCceEEeeCCCEEEEc
Q 003126 154 FTVGHNRQCDLYLKDPSISKNLCRLRRIENGGPSGALLEITG-GKGEVEVNGNVHPKDSQVVLRGGDELVFS 224 (845)
Q Consensus 154 fTvGr~~~CDl~L~D~~IS~~hCkI~r~e~gg~~vA~LEd~s-snGtV~VNGkkvgKg~kviL~~GDEIvfs 224 (845)
|+|||+..||++|.++.||..||.|..... ..++|++++ .||| ||||+++.++..+.|..||+|.|+
T Consensus 1 ~~iGR~~~~di~l~~~~iSr~Ha~i~~~~~---~~~~i~d~~s~ngt-~vng~~l~~~~~~~L~~gd~i~~G 68 (68)
T PF00498_consen 1 VTIGRSPDCDIVLPDPSISRRHARISFDDD---GQFYIEDLGSTNGT-FVNGQRLGPGEPVPLKDGDIIRFG 68 (68)
T ss_dssp EEEESSTTSSEEETSTTSSTTSEEEEEETT---EEEEEEESSSSS-E-EETTEEESSTSEEEE-TTEEEEET
T ss_pred CEEcCCCCCCEEECCHheeeeeeEEEEece---eeEEEEeCCCCCcE-EECCEEcCCCCEEECCCCCEEEcC
Confidence 689999999999999999999999997543 348999985 5777 999999999999999999999984
No 2
>cd00060 FHA Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins localize to the nucleus, where they participate in establishing or maintaining cell cycle checkpoints, DNA repair, or transcriptional regulation. Members of the FHA family include: Dun1, Rad53, Cds1, Mek1, KAPP(kinase-associated protein phosphatase),and Ki-67 (a human nuclear protein related to cell proliferation).
Probab=99.21 E-value=7.5e-11 Score=102.49 Aligned_cols=97 Identities=24% Similarity=0.390 Sum_probs=81.5
Q ss_pred ceeecccCC--CCCceeeec-ceeEeeccccc-ceEecCCCCccceeEEEEeecCCCceEEEEEecCCceEEECCEEcCC
Q 003126 134 WARLISQCS--QNSHLSMTG-AVFTVGHNRQC-DLYLKDPSISKNLCRLRRIENGGPSGALLEITGGKGEVEVNGNVHPK 209 (845)
Q Consensus 134 WgRLlSq~s--q~P~i~I~~-~~fTvGr~~~C-Dl~L~D~~IS~~hCkI~r~e~gg~~vA~LEd~ssnGtV~VNGkkvgK 209 (845)
|+.|.+++. ..+.+.|.. ..|+|||+..| +++|.+..||..||.|..... ....+++..+.||+ +|||+++.+
T Consensus 1 ~~~L~~~~~~~~~~~~~l~~~~~~~iGr~~~~~~i~l~~~~iS~~H~~i~~~~~--~~~~~~~~~s~~g~-~vn~~~~~~ 77 (102)
T cd00060 1 VPRLVVLSGDASGRRYYLDPGGTYTIGRDSDNCDIVLDDPSVSRRHAVIRYDGD--GGVVLIDLGSTNGT-FVNGQRVSP 77 (102)
T ss_pred CeEEEEecCCCceeEEEECCCCeEEECcCCCcCCEEcCCCCeeCcceEEEEcCC--CCEEEEECCCCCCe-EECCEECCC
Confidence 567777777 677889999 99999999999 999999999999999997542 23466777777888 999999999
Q ss_pred CceEEeeCCCEEEEccCCCeeEEEE
Q 003126 210 DSQVVLRGGDELVFSPSGKHSYIFQ 234 (845)
Q Consensus 210 g~kviL~~GDEIvfs~~g~~aYIFq 234 (845)
+..+.|..||+|.|+. +.+.|.|+
T Consensus 78 ~~~~~l~~gd~i~ig~-~~~~~~~~ 101 (102)
T cd00060 78 GEPVRLRDGDVIRLGN-TSISFRFE 101 (102)
T ss_pred CCcEECCCCCEEEECC-eEEEEEEe
Confidence 9999999999999976 45566654
No 3
>KOG0615 consensus Serine/threonine protein kinase Chk2 and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=99.13 E-value=4.1e-11 Score=132.43 Aligned_cols=107 Identities=22% Similarity=0.343 Sum_probs=96.2
Q ss_pred CcccceeecccCCCCCceeeecceeEeecccccceEecCCCCccceeEEEEe----------ecCC-CceEEEEEecCCc
Q 003126 130 SRIPWARLISQCSQNSHLSMTGAVFTVGHNRQCDLYLKDPSISKNLCRLRRI----------ENGG-PSGALLEITGGKG 198 (845)
Q Consensus 130 ~~~pWgRLlSq~sq~P~i~I~~~~fTvGr~~~CDl~L~D~~IS~~hCkI~r~----------e~gg-~~vA~LEd~ssnG 198 (845)
...||+||.=..--.++++..+++|++||+..||+.+++.++|..|++|... .+.+ ..++||+|.++||
T Consensus 42 ~~~~r~r~~~v~~~~~~~d~~nd~f~fGR~~~~d~~ln~~~~s~~~~~i~~~~~~~~~~f~~dr~~~sn~~y~~DhS~nG 121 (475)
T KOG0615|consen 42 TVKPRARLVGVRRGIKSIDLANDEFTFGRGDSCDAPLNLNNVSNKHFKILLYNKISKIHFRIDRDKNSNRVYLHDHSRNG 121 (475)
T ss_pred cccchhhhcceeeccccceeccceEEecCCCcccccccCccccccchheeeeeeeeeeeecccCCCccceEEEEecccCc
Confidence 4578999998888999999999999999999999999999999988887653 2233 3579999999999
Q ss_pred eEEECCEEcCCCceEEeeCCCEEEEccCCCeeEEEEecC
Q 003126 199 EVEVNGNVHPKDSQVVLRGGDELVFSPSGKHSYIFQQLS 237 (845)
Q Consensus 199 tV~VNGkkvgKg~kviL~~GDEIvfs~~g~~aYIFq~l~ 237 (845)
| |||...++||.+.+|+|||||.++.|..++|+|.++.
T Consensus 122 T-~VN~e~i~k~~~r~lkN~dei~is~p~~~~~v~~~~s 159 (475)
T KOG0615|consen 122 T-FVNDEMIGKGLSRILKNGDEISISIPALKIFVFEDLS 159 (475)
T ss_pred c-cccHhHhhccccccccCCCEEEeccchhheeeeeccc
Confidence 9 9999999999999999999999999999999999873
No 4
>TIGR03354 VI_FHA type VI secretion system FHA domain protein. Members of this protein family are FHA (forkhead-associated) domain-containing proteins that are part of type VI secretion loci in a considerable number of bacteria, most of which are known pathogens. Species include Pseudomonas aeruginosa PAO1, Aeromonas hydrophila, Yersinia pestis, Burkholderia mallei, etc.
Probab=98.69 E-value=2.8e-08 Score=110.34 Aligned_cols=76 Identities=28% Similarity=0.378 Sum_probs=67.8
Q ss_pred ceeeecceeEeecccccceEecCCC--CccceeEEEEeecCCCceEEEEEecCCceEEEC--CEEcCCCceEEeeCCCEE
Q 003126 146 HLSMTGAVFTVGHNRQCDLYLKDPS--ISKNLCRLRRIENGGPSGALLEITGGKGEVEVN--GNVHPKDSQVVLRGGDEL 221 (845)
Q Consensus 146 ~i~I~~~~fTvGr~~~CDl~L~D~~--IS~~hCkI~r~e~gg~~vA~LEd~ssnGtV~VN--GkkvgKg~kviL~~GDEI 221 (845)
.+.+....++|||+..||++|.|.. ||..||.|.+. ++ ..+|+|.|+||| ||| |..+++|..+.|+.||+|
T Consensus 18 ~~~f~~~~~~IGR~~~~d~~l~d~~~~VS~~Ha~I~~~--~g--~~~l~DlStNGT-~VN~sg~~l~~~~~~~L~~GD~I 92 (396)
T TIGR03354 18 QKTFGTNGGTIGRSEDCDWVLPDPERHVSGRHARIRYR--DG--AYLLTDLSTNGV-FLNGSGSPLGRGNPVRLEQGDRL 92 (396)
T ss_pred EEEECCCCEEEecCCCCCEEeCCCCCCcchhhcEEEEE--CC--EEEEEECCCCCe-EECCCCCCCCCCCceEcCCCCEE
Confidence 4567788899999999999999988 99999999974 22 478999988999 999 999999999999999999
Q ss_pred EEccC
Q 003126 222 VFSPS 226 (845)
Q Consensus 222 vfs~~ 226 (845)
.|+..
T Consensus 93 ~iG~~ 97 (396)
T TIGR03354 93 RLGDY 97 (396)
T ss_pred EECCE
Confidence 99774
No 5
>COG1716 FOG: FHA domain [Signal transduction mechanisms]
Probab=98.30 E-value=2.9e-06 Score=82.86 Aligned_cols=77 Identities=30% Similarity=0.432 Sum_probs=65.5
Q ss_pred CceeeecceeEeecccccceEecCCCCccceeEEEEeecCCCceEEEEEecC-CceEEECCEEcCCCceEEeeCCCEEEE
Q 003126 145 SHLSMTGAVFTVGHNRQCDLYLKDPSISKNLCRLRRIENGGPSGALLEITGG-KGEVEVNGNVHPKDSQVVLRGGDELVF 223 (845)
Q Consensus 145 P~i~I~~~~fTvGr~~~CDl~L~D~~IS~~hCkI~r~e~gg~~vA~LEd~ss-nGtV~VNGkkvgKg~kviL~~GDEIvf 223 (845)
+-+.+....+|+||...++++|.|..+|..||.|++.... .+|||.++ ||+ ||||.++.. .+.|..||.|.|
T Consensus 82 ~~~~~~~~~~tigr~~~~~i~~~~~~vSR~Ha~l~~~~~~----~~~~d~~S~nGt-~vn~~~v~~--~~~l~~gd~i~i 154 (191)
T COG1716 82 SVIVLGEPVTTIGRDPDNDIVLDDDVVSRRHAELRREGNE----VFLEDLGSTNGT-YVNGEKVRQ--RVLLQDGDVIRL 154 (191)
T ss_pred cccccccceEEeccCCCCCEEcCCCccccceEEEEEeCCc----eEEEECCCCcce-EECCeEccC--cEEcCCCCEEEE
Confidence 3345556689999999999999999999999999985443 67899987 777 999999998 899999999999
Q ss_pred ccCCC
Q 003126 224 SPSGK 228 (845)
Q Consensus 224 s~~g~ 228 (845)
+....
T Consensus 155 ~~~~~ 159 (191)
T COG1716 155 GGTLA 159 (191)
T ss_pred Cccce
Confidence 77443
No 6
>smart00240 FHA Forkhead associated domain. Found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain.
Probab=98.28 E-value=1.2e-06 Score=69.11 Aligned_cols=50 Identities=32% Similarity=0.447 Sum_probs=43.1
Q ss_pred eEeeccc-ccceEecCCCCccceeEEEEeecCCCceEEEEEec-CCceEEECCEEc
Q 003126 154 FTVGHNR-QCDLYLKDPSISKNLCRLRRIENGGPSGALLEITG-GKGEVEVNGNVH 207 (845)
Q Consensus 154 fTvGr~~-~CDl~L~D~~IS~~hCkI~r~e~gg~~vA~LEd~s-snGtV~VNGkkv 207 (845)
++|||.. .|++.|.++.+|..||+|.....+ ..+|++.+ .+|+ ||||+.+
T Consensus 1 ~~iGr~~~~~~i~~~~~~vs~~H~~i~~~~~~---~~~i~d~~s~~gt-~vng~~v 52 (52)
T smart00240 1 VTIGRSSEDCDIQLPGPSISRRHAEIVYDGGG---RFYLIDLGSTNGT-FVNGKRI 52 (52)
T ss_pred CEeCCCCCCCCEEeCCCCcchhHcEEEECCCC---eEEEEECCCCCCe-eECCEEC
Confidence 5899999 999999999999999999874332 58899999 5777 9999875
No 7
>PLN02927 antheraxanthin epoxidase/zeaxanthin epoxidase
Probab=98.28 E-value=1.5e-06 Score=102.25 Aligned_cols=85 Identities=19% Similarity=0.231 Sum_probs=71.1
Q ss_pred CCCceee---ecceeEeecccccce-----EecCCCCccceeEEEEeecCCCceEEEEEecC-CceEEECCEE-----cC
Q 003126 143 QNSHLSM---TGAVFTVGHNRQCDL-----YLKDPSISKNLCRLRRIENGGPSGALLEITGG-KGEVEVNGNV-----HP 208 (845)
Q Consensus 143 q~P~i~I---~~~~fTvGr~~~CDl-----~L~D~~IS~~hCkI~r~e~gg~~vA~LEd~ss-nGtV~VNGkk-----vg 208 (845)
+...|.| .+--|.|||..+||+ +|.|+.||+.|.+|.+. ++ ..||||++| ||| ||||+. +.
T Consensus 545 ~~~~~~l~~~~~~p~~iG~~~~~~~~~~~i~i~~~~vS~~Ha~i~~~--~~--~~~~~Dl~S~nGT-~v~~~~~~r~~~~ 619 (668)
T PLN02927 545 VSETLCLTKDEDQPCIVGSEPDQDFPGMRIVIPSSQVSKMHARVIYK--DG--AFFLMDLRSEHGT-YVTDNEGRRYRAT 619 (668)
T ss_pred ccceeeeecCCCCCeEecCCCCcCCCCceEEecCCccChhHeEEEEE--CC--EEEEEECCCCCcc-EEeCCCCceEecC
Confidence 4466788 555699999999997 99999999999999974 22 389999999 999 998888 44
Q ss_pred CCceEEeeCCCEEEEccCCCeeEE
Q 003126 209 KDSQVVLRGGDELVFSPSGKHSYI 232 (845)
Q Consensus 209 Kg~kviL~~GDEIvfs~~g~~aYI 232 (845)
-|..+.|++||+|-|+..++-+|=
T Consensus 620 p~~~~~l~~~d~I~~g~~~~~~fr 643 (668)
T PLN02927 620 PNFPARFRSSDIIEFGSDKKAAFR 643 (668)
T ss_pred CCCceEeCCCCEEEeCCCcceeEE
Confidence 677999999999999997765444
No 8
>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=97.98 E-value=4.2e-05 Score=86.28 Aligned_cols=67 Identities=24% Similarity=0.292 Sum_probs=55.1
Q ss_pred ccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEE
Q 003126 450 EVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLL 523 (845)
Q Consensus 450 ~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLL 523 (845)
+|-|+.||- -+..|.+|++++-..+-.++. ...|.+.-+-|||-||+|| --.||+||+|-+-+|-+.
T Consensus 149 ~v~~~di~g--l~~~k~~l~e~vi~p~lr~d~---F~glr~p~rglLLfGPpgt--GKtmL~~aiAsE~~atff 215 (428)
T KOG0740|consen 149 NVGWDDIAG--LEDAKQSLKEAVILPLLRPDL---FLGLREPVRGLLLFGPPGT--GKTMLAKAIATESGATFF 215 (428)
T ss_pred cccccCCcc--hhhHHHHhhhhhhhcccchHh---hhccccccchhheecCCCC--chHHHHHHHHhhhcceEe
Confidence 578899988 677889999888777776666 3568888899999999994 689999999998888643
No 9
>COG3456 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]
Probab=97.73 E-value=4.4e-05 Score=85.51 Aligned_cols=79 Identities=28% Similarity=0.423 Sum_probs=65.9
Q ss_pred eecceeEeecccccceEecC--CCCccceeEEEEeecCCCceEEEEEecCCceEEECCEEcCCCce-EEeeCCCEEEEcc
Q 003126 149 MTGAVFTVGHNRQCDLYLKD--PSISKNLCRLRRIENGGPSGALLEITGGKGEVEVNGNVHPKDSQ-VVLRGGDELVFSP 225 (845)
Q Consensus 149 I~~~~fTvGr~~~CDl~L~D--~~IS~~hCkI~r~e~gg~~vA~LEd~ssnGtV~VNGkkvgKg~k-viL~~GDEIvfs~ 225 (845)
......+|||+..||-.|-| ..||+-||+|..- +| ..||-|+|++|+ +|||..+..|.- .-|..||||-++-
T Consensus 23 f~~~~g~IGrs~dcdW~i~D~~~~VS~~Hc~I~~~-dg---~f~L~DtS~g~l-~VNgs~~~~g~~~~RLqqGd~i~iG~ 97 (430)
T COG3456 23 FDRGGGVIGRSPDCDWQIDDPERFVSKQHCTISYR-DG---GFCLTDTSNGGL-LVNGSDLPLGEGSARLQQGDEILIGR 97 (430)
T ss_pred hhcCCcccccCCCCCccccCcccccchhheEEEec-CC---eEEEEecCCCce-eecccccCCCCCccccccCCEEeecc
Confidence 34566899999999999998 5699999999973 33 278999996666 999999999987 9999999999954
Q ss_pred CCCeeEEEEecC
Q 003126 226 SGKHSYIFQQLS 237 (845)
Q Consensus 226 ~g~~aYIFq~l~ 237 (845)
|||.-.-
T Consensus 98 -----y~i~V~l 104 (430)
T COG3456 98 -----YIIRVHL 104 (430)
T ss_pred -----EEEEEEe
Confidence 8887543
No 10
>CHL00195 ycf46 Ycf46; Provisional
Probab=97.63 E-value=0.00039 Score=79.79 Aligned_cols=82 Identities=26% Similarity=0.220 Sum_probs=52.6
Q ss_pred cccCCCccccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCc
Q 003126 442 GILGPENIEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSAR 521 (845)
Q Consensus 442 ~Vvdg~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~Ak 521 (845)
++++-...+++|++.-- -++.|..|....-.+.. ....|+ + +..+-|||.||+|| -..+||||+|++++++
T Consensus 216 ~~le~~~~~~~~~dvgG--l~~lK~~l~~~~~~~~~--~~~~~g--l-~~pkGILL~GPpGT--GKTllAkaiA~e~~~~ 286 (489)
T CHL00195 216 EILEFYSVNEKISDIGG--LDNLKDWLKKRSTSFSK--QASNYG--L-PTPRGLLLVGIQGT--GKSLTAKAIANDWQLP 286 (489)
T ss_pred ccccccCCCCCHHHhcC--HHHHHHHHHHHHHHhhH--HHHhcC--C-CCCceEEEECCCCC--cHHHHHHHHHHHhCCC
Confidence 34454555667766554 25666666543211111 112333 2 34578999999995 4668999999999999
Q ss_pred EEEEeccCCCC
Q 003126 522 LLIVDSLLLPG 532 (845)
Q Consensus 522 LLilDs~~l~G 532 (845)
|+.+|...|++
T Consensus 287 ~~~l~~~~l~~ 297 (489)
T CHL00195 287 LLRLDVGKLFG 297 (489)
T ss_pred EEEEEhHHhcc
Confidence 99999855544
No 11
>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=97.55 E-value=0.00012 Score=81.21 Aligned_cols=99 Identities=24% Similarity=0.311 Sum_probs=86.9
Q ss_pred hhHHHHHHHHhhhcccCCCccccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHH
Q 003126 429 SARRQAFKDSLQEGILGPENIEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQE 508 (845)
Q Consensus 429 ~~r~~~fk~~~~~~Vvdg~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE 508 (845)
...-..|+..+.-.||.+.+|.|+|++--= -|.+++.|-+..-..|+++++.+++ .|...+.-|||-||+| .-.-
T Consensus 67 ~i~~ne~E~~i~s~~v~p~~I~v~f~DIgg--Le~v~~~L~e~VilPlr~pelF~~g-~Ll~p~kGiLL~GPpG--~GKT 141 (386)
T KOG0737|consen 67 IIQKNEYEKRIASDVVPPSEIGVSFDDIGG--LEEVKDALQELVILPLRRPELFAKG-KLLRPPKGILLYGPPG--TGKT 141 (386)
T ss_pred hhhhhHHHHHhhhcccchhhceeehhhccc--hHHHHHHHHHHHhhcccchhhhccc-ccccCCccceecCCCC--chHH
Confidence 445567889999999999999999998655 6899999999999999999998754 4777999999999999 5689
Q ss_pred HHHHHHHhhccCcEEEEeccCCCC
Q 003126 509 TLAKALAKHFSARLLIVDSLLLPG 532 (845)
Q Consensus 509 ~LaKALA~~f~AkLLilDs~~l~G 532 (845)
|||||+|++-||...=|+.+.+.+
T Consensus 142 mlAKA~Akeaga~fInv~~s~lt~ 165 (386)
T KOG0737|consen 142 MLAKAIAKEAGANFINVSVSNLTS 165 (386)
T ss_pred HHHHHHHHHcCCCcceeeccccch
Confidence 999999999999999999877743
No 12
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=97.54 E-value=0.00074 Score=74.91 Aligned_cols=75 Identities=23% Similarity=0.215 Sum_probs=54.0
Q ss_pred CccccccccccccchhhHHHHHHHhhhccccccccc-cccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEE
Q 003126 447 ENIEVSFESFPYYLSDITKNVLIASTYVHLKCNNFA-KYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIV 525 (845)
Q Consensus 447 ~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~s-kyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLil 525 (845)
+..+++|+++.. -|..+.-|..+....|+++++. +++- ...+.|||.||+|| -..+||||+|++++++++.+
T Consensus 124 ~~p~~~~~di~G--l~~~~~~l~~~i~~pl~~~~~~~~~g~---~~p~gvLL~GppGt--GKT~lAkaia~~~~~~~i~v 196 (389)
T PRK03992 124 ESPNVTYEDIGG--LEEQIREVREAVELPLKKPELFEEVGI---EPPKGVLLYGPPGT--GKTLLAKAVAHETNATFIRV 196 (389)
T ss_pred CCCCCCHHHhCC--cHHHHHHHHHHHHHHhhCHHHHHhcCC---CCCCceEEECCCCC--ChHHHHHHHHHHhCCCEEEe
Confidence 445788888754 4666677777777778876654 3332 22357999999995 58899999999999887777
Q ss_pred ecc
Q 003126 526 DSL 528 (845)
Q Consensus 526 Ds~ 528 (845)
+.+
T Consensus 197 ~~~ 199 (389)
T PRK03992 197 VGS 199 (389)
T ss_pred ehH
Confidence 653
No 13
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=97.48 E-value=0.0017 Score=73.45 Aligned_cols=95 Identities=22% Similarity=0.238 Sum_probs=64.9
Q ss_pred HHHHHHHhhhcccC----CCccccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHH
Q 003126 432 RQAFKDSLQEGILG----PENIEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQ 507 (845)
Q Consensus 432 ~~~fk~~~~~~Vvd----g~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQ 507 (845)
.+-|++.|++.... -..-.++|+..-= -+..|..|..+.-.-|++++. |.+-.-.....|||.||+|| -.
T Consensus 216 ~~~~~~~l~~~~~~~~~~~~~~~v~~~digg--l~~~k~~l~e~v~~~~~~~e~--~~~~~~~~~~giLl~GpPGt--GK 289 (494)
T COG0464 216 EDDFEEALKKVLPSRGVLFEDEDVTLDDIGG--LEEAKEELKEAIETPLKRPEL--FRKLGLRPPKGVLLYGPPGT--GK 289 (494)
T ss_pred HHHHHHHHHhcCcccccccCCCCcceehhhc--HHHHHHHHHHHHHhHhhChHH--HHhcCCCCCCeeEEECCCCC--CH
Confidence 34455555554322 2333344443222 377999999999999999887 33312223348999999995 58
Q ss_pred HHHHHHHHhhccCcEEEEeccCCCC
Q 003126 508 ETLAKALAKHFSARLLIVDSLLLPG 532 (845)
Q Consensus 508 E~LaKALA~~f~AkLLilDs~~l~G 532 (845)
.+||||+|++.+++++-+|..++.+
T Consensus 290 T~lAkava~~~~~~fi~v~~~~l~s 314 (494)
T COG0464 290 TLLAKAVALESRSRFISVKGSELLS 314 (494)
T ss_pred HHHHHHHHhhCCCeEEEeeCHHHhc
Confidence 8999999999999999999865443
No 14
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=97.17 E-value=0.0035 Score=74.72 Aligned_cols=74 Identities=24% Similarity=0.235 Sum_probs=56.2
Q ss_pred ccccccccccchhhHHHHHHHhhhccccccccc-cccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEecc
Q 003126 450 EVSFESFPYYLSDITKNVLIASTYVHLKCNNFA-KYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSL 528 (845)
Q Consensus 450 ~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~s-kyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~ 528 (845)
+++|++.. .-+..|..|....-..++++++- ++. +. ..+.|||.||+|| =..+||||||++.+++++.++..
T Consensus 449 ~~~~~di~--g~~~~k~~l~~~v~~~~~~~~~~~~~g--~~-~~~giLL~GppGt--GKT~lakalA~e~~~~fi~v~~~ 521 (733)
T TIGR01243 449 NVRWSDIG--GLEEVKQELREAVEWPLKHPEIFEKMG--IR-PPKGVLLFGPPGT--GKTLLAKAVATESGANFIAVRGP 521 (733)
T ss_pred ccchhhcc--cHHHHHHHHHHHHHhhhhCHHHHHhcC--CC-CCceEEEECCCCC--CHHHHHHHHHHhcCCCEEEEehH
Confidence 56777654 47899999999888888887754 333 22 2356999999995 56899999999999998888764
Q ss_pred CC
Q 003126 529 LL 530 (845)
Q Consensus 529 ~l 530 (845)
.+
T Consensus 522 ~l 523 (733)
T TIGR01243 522 EI 523 (733)
T ss_pred HH
Confidence 33
No 15
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=97.09 E-value=0.0023 Score=72.83 Aligned_cols=77 Identities=27% Similarity=0.361 Sum_probs=55.7
Q ss_pred cCCCccccccccccccchhhHHHHHHHhhhccccccc-cccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcE
Q 003126 444 LGPENIEVSFESFPYYLSDITKNVLIASTYVHLKCNN-FAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARL 522 (845)
Q Consensus 444 vdg~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e-~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkL 522 (845)
...+..+++|+++.= -++.|..|..... .|++++ +.+++. ...+.|||.||+|| =..+||||||+++++++
T Consensus 45 ~~~~~~~~~~~di~g--~~~~k~~l~~~~~-~l~~~~~~~~~g~---~~~~giLL~GppGt--GKT~la~alA~~~~~~~ 116 (495)
T TIGR01241 45 LNEEKPKVTFKDVAG--IDEAKEELMEIVD-FLKNPSKFTKLGA---KIPKGVLLVGPPGT--GKTLLAKAVAGEAGVPF 116 (495)
T ss_pred ccCCCCCCCHHHhCC--HHHHHHHHHHHHH-HHHCHHHHHhcCC---CCCCcEEEECCCCC--CHHHHHHHHHHHcCCCe
Confidence 345577899999874 5777777776555 367654 334432 33466999999995 57889999999999887
Q ss_pred EEEecc
Q 003126 523 LIVDSL 528 (845)
Q Consensus 523 LilDs~ 528 (845)
+.++.+
T Consensus 117 ~~i~~~ 122 (495)
T TIGR01241 117 FSISGS 122 (495)
T ss_pred eeccHH
Confidence 776653
No 16
>KOG1881 consensus Anion exchanger adaptor protein Kanadaptin, contains FHA domain [General function prediction only]
Probab=96.92 E-value=0.0035 Score=74.41 Aligned_cols=87 Identities=29% Similarity=0.358 Sum_probs=74.6
Q ss_pred cceeEeecccccceEecCCCCccceeEEEEeecCCC-------ceEEEEEecC-CceEEECCEEcCCCceEEeeCCCEEE
Q 003126 151 GAVFTVGHNRQCDLYLKDPSISKNLCRLRRIENGGP-------SGALLEITGG-KGEVEVNGNVHPKDSQVVLRGGDELV 222 (845)
Q Consensus 151 ~~~fTvGr~~~CDl~L~D~~IS~~hCkI~r~e~gg~-------~vA~LEd~ss-nGtV~VNGkkvgKg~kviL~~GDEIv 222 (845)
...|+|||-..||+.+.+++||..||.|.+-..+-. ..-|+.++|+ -|+ |+|-.+|.+..-+.++-|+.+-
T Consensus 176 ~~~~~fgr~~~cD~~~eHpsISr~h~vlQy~~~~~~~p~~s~~~g~~i~dlgsThgt-~~NK~rvppk~yir~~Vg~v~~ 254 (793)
T KOG1881|consen 176 AAACLFGRLGGCDVALEHPSISRFHAVLQYKASGPDDPCASNGEGWYIYDLGSTHGT-FLNKDRVPPKVYIRDRVGHVAR 254 (793)
T ss_pred ceeEEecccCCCccccccCcccccceeeeccCCCCCccccCCCCceEEeeccccccc-eeccccCCCcchhhhhHHHHHH
Confidence 345999999999999999999999999987422211 3579999998 688 9999999999999999999999
Q ss_pred EccCCCeeEEEEecCcc
Q 003126 223 FSPSGKHSYIFQQLSDD 239 (845)
Q Consensus 223 fs~~g~~aYIFq~l~~e 239 (845)
|+-+.+ .||||....+
T Consensus 255 fggsTr-l~i~Qgp~eD 270 (793)
T KOG1881|consen 255 FGGSTR-LYIFQGPEED 270 (793)
T ss_pred hcCceE-EEEeeCCCcC
Confidence 988766 9999987655
No 17
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=96.80 E-value=0.012 Score=66.30 Aligned_cols=73 Identities=27% Similarity=0.393 Sum_probs=54.8
Q ss_pred CccccccccccccchhhHHHHHHHhhhccccccccc-cccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEE
Q 003126 447 ENIEVSFESFPYYLSDITKNVLIASTYVHLKCNNFA-KYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIV 525 (845)
Q Consensus 447 ~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~s-kyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLil 525 (845)
+.-+|+|++.-= -|..|..|..+....|+++++. +++ +. ..+.|||.||+|| -..+||||||++.++.++.+
T Consensus 138 ~~p~v~~~digG--l~~~k~~l~~~v~~pl~~~~~~~~~G--l~-~pkgvLL~GppGT--GKT~LAkalA~~l~~~fi~i 210 (398)
T PTZ00454 138 EKPDVTYSDIGG--LDIQKQEIREAVELPLTCPELYEQIG--ID-PPRGVLLYGPPGT--GKTMLAKAVAHHTTATFIRV 210 (398)
T ss_pred CCCCCCHHHcCC--HHHHHHHHHHHHHHHhcCHHHHHhcC--CC-CCceEEEECCCCC--CHHHHHHHHHHhcCCCEEEE
Confidence 355677777533 6788888888888888887764 333 22 3577999999994 68899999999988776665
Q ss_pred e
Q 003126 526 D 526 (845)
Q Consensus 526 D 526 (845)
.
T Consensus 211 ~ 211 (398)
T PTZ00454 211 V 211 (398)
T ss_pred e
Confidence 4
No 18
>CHL00176 ftsH cell division protein; Validated
Probab=96.79 E-value=0.012 Score=69.84 Aligned_cols=78 Identities=18% Similarity=0.224 Sum_probs=54.9
Q ss_pred ccCCCccccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcE
Q 003126 443 ILGPENIEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARL 522 (845)
Q Consensus 443 Vvdg~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkL 522 (845)
+....+..++|+++.=+ +..|.-|..... .|++++. |..-=....+.|||.||+|| =..+||||||++.++++
T Consensus 172 ~~~~~~~~~~f~dv~G~--~~~k~~l~eiv~-~lk~~~~--~~~~g~~~p~gVLL~GPpGT--GKT~LAralA~e~~~p~ 244 (638)
T CHL00176 172 FQMEADTGITFRDIAGI--EEAKEEFEEVVS-FLKKPER--FTAVGAKIPKGVLLVGPPGT--GKTLLAKAIAGEAEVPF 244 (638)
T ss_pred hhcccCCCCCHHhccCh--HHHHHHHHHHHH-HHhCHHH--HhhccCCCCceEEEECCCCC--CHHHHHHHHHHHhCCCe
Confidence 34556778999987754 666777766654 3666543 22212234567999999995 58899999999998887
Q ss_pred EEEec
Q 003126 523 LIVDS 527 (845)
Q Consensus 523 LilDs 527 (845)
+.++.
T Consensus 245 i~is~ 249 (638)
T CHL00176 245 FSISG 249 (638)
T ss_pred eeccH
Confidence 76665
No 19
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=96.59 E-value=0.016 Score=66.04 Aligned_cols=61 Identities=23% Similarity=0.253 Sum_probs=43.1
Q ss_pred hhHHHHHHHhhhccccccccc-cccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 462 DITKNVLIASTYVHLKCNNFA-KYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 462 E~TK~~L~saa~vHLk~~e~s-kyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
+..+..|..+....|.|+++. .++ +. ..+.|||.||+|| =..+||||+|+++++.++-++.
T Consensus 189 ~~qi~~l~e~v~lpl~~p~~~~~~g--i~-~p~gVLL~GPPGT--GKT~LAraIA~el~~~fi~V~~ 250 (438)
T PTZ00361 189 EQQIQEIKEAVELPLTHPELYDDIG--IK-PPKGVILYGPPGT--GKTLLAKAVANETSATFLRVVG 250 (438)
T ss_pred HHHHHHHHHHHHhhhhCHHHHHhcC--CC-CCcEEEEECCCCC--CHHHHHHHHHHhhCCCEEEEec
Confidence 555566666666678877654 332 22 2356999999995 5789999999998877666554
No 20
>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=96.41 E-value=0.032 Score=64.94 Aligned_cols=94 Identities=28% Similarity=0.440 Sum_probs=62.1
Q ss_pred HHHHHHhhhcc-cCCCCEEEEEcchhhhhccC-----h----hHHHHHHHHhccCC--CCEEEEeecccCCCccccCCCC
Q 003126 690 INELFEVALNE-SKSSPLIVFVKDIEKSLTGN-----N----DAYGALKSKLENLP--SNVVVIGSHTQLDSRKEKSHPG 757 (845)
Q Consensus 690 I~sL~EVL~Se-S~~~PlILYikDvEK~l~~n-----~----e~y~~fq~~LekLs--g~VvIIGSq~~~d~~KeK~~~g 757 (845)
|..+|+.+... +...|.||||-+++.++..+ . .....|-..|+.+. ++|+|||.-++.
T Consensus 274 ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~~~~ViVI~ATN~~---------- 343 (512)
T TIGR03689 274 IRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVESLDNVIVIGASNRE---------- 343 (512)
T ss_pred HHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccccCCceEEEeccCCh----------
Confidence 34455544332 34579999999999977522 1 22334444555554 689999987642
Q ss_pred CcceeccCCcccccccccCCCccccccccCCCchHHHhhhhc--cCCcceeecCCcchhHHHHHHHHHHHH
Q 003126 758 GLLFTKFGSNQTALLDLAFPDNFSRLHDRSKETPKALKQISR--LFPNKVTIQLPQDEALLSDWKQQLERD 826 (845)
Q Consensus 758 ~~~f~kfg~~~~aLldlafpd~~~rl~d~~kd~~k~~e~Ltk--LFPNkI~I~pPqDE~~L~~WK~QLEeD 826 (845)
..+|.| |-+ -|..+|+|.+|..+.....|+..|..+
T Consensus 344 ------------d~LDpA---------------------LlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~~ 381 (512)
T TIGR03689 344 ------------DMIDPA---------------------ILRPGRLDVKIRIERPDAEAAADIFSKYLTDS 381 (512)
T ss_pred ------------hhCCHh---------------------hcCccccceEEEeCCCCHHHHHHHHHHHhhcc
Confidence 123432 333 588899999999999999999988764
No 21
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=96.25 E-value=0.02 Score=62.39 Aligned_cols=50 Identities=34% Similarity=0.494 Sum_probs=40.8
Q ss_pred cccccc-cccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCCCC
Q 003126 475 HLKCNN-FAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLLPG 532 (845)
Q Consensus 475 HLk~~e-~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l~G 532 (845)
+|+.++ |-+|+ -+.||.-||+|| -.-|+|||||++..++||.+-++.|.|
T Consensus 139 yLenPe~Fg~WA------PknVLFyGppGT--GKTm~Akalane~kvp~l~vkat~liG 189 (368)
T COG1223 139 YLENPERFGDWA------PKNVLFYGPPGT--GKTMMAKALANEAKVPLLLVKATELIG 189 (368)
T ss_pred HhhChHHhcccC------cceeEEECCCCc--cHHHHHHHHhcccCCceEEechHHHHH
Confidence 455543 33553 478999999995 578999999999999999999988877
No 22
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=95.75 E-value=0.093 Score=62.91 Aligned_cols=77 Identities=19% Similarity=0.216 Sum_probs=55.7
Q ss_pred cccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEecc
Q 003126 449 IEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSL 528 (845)
Q Consensus 449 i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~ 528 (845)
-+++|+++- --+..+..|.......|+|+++.+... + ...+.|||.||+|| -..+|+||||++++++++.++..
T Consensus 173 ~~~~~~di~--G~~~~~~~l~~~i~~~~~~~~~~~~~g-i-~~~~giLL~GppGt--GKT~laraia~~~~~~~i~i~~~ 246 (733)
T TIGR01243 173 PKVTYEDIG--GLKEAKEKIREMVELPMKHPELFEHLG-I-EPPKGVLLYGPPGT--GKTLLAKAVANEAGAYFISINGP 246 (733)
T ss_pred CCCCHHHhc--CHHHHHHHHHHHHHHHhhCHHHHHhcC-C-CCCceEEEECCCCC--ChHHHHHHHHHHhCCeEEEEecH
Confidence 457787753 456677777777777788877653221 2 23467999999995 57799999999999999888865
Q ss_pred CCC
Q 003126 529 LLP 531 (845)
Q Consensus 529 ~l~ 531 (845)
.+.
T Consensus 247 ~i~ 249 (733)
T TIGR01243 247 EIM 249 (733)
T ss_pred HHh
Confidence 543
No 23
>KOG1882 consensus Transcriptional regulator SNIP1, contains FHA domain [Signal transduction mechanisms]
Probab=95.72 E-value=0.027 Score=60.23 Aligned_cols=101 Identities=24% Similarity=0.245 Sum_probs=73.6
Q ss_pred CCCCcccce--eecccCCCCCc--e-eeecceeEeeccc-ccceEecCCCCccceeEEEEe--e---cCCC----ceEEE
Q 003126 127 KVGSRIPWA--RLISQCSQNSH--L-SMTGAVFTVGHNR-QCDLYLKDPSISKNLCRLRRI--E---NGGP----SGALL 191 (845)
Q Consensus 127 k~~~~~pWg--RLlSq~sq~P~--i-~I~~~~fTvGr~~-~CDl~L~D~~IS~~hCkI~r~--e---~gg~----~vA~L 191 (845)
.++...||. +|++...--|- + -...+.|-+||.+ --||-+..++-|+-||.|..- + .+|. +-.||
T Consensus 164 ppearkP~kRwrLy~fk~~e~l~~l~iHrqs~yL~gRerkIaDi~idhpScSKQHaviQyR~v~~~r~dGt~grrvkpYi 243 (293)
T KOG1882|consen 164 PPEARKPKKRWRLYPFKCYEVLPVLYIHRQSCYLDGRERKIADIPIDHPSCSKQHAVIQYRLVEFTRADGTVGRRVKPYI 243 (293)
T ss_pred CchhcCchhheecccccCCcccchheeeeeeeeecCceeeeeccCCCCccccccceeeeeeecccccCCCccceeeeeEE
Confidence 556677776 47766554333 2 3356778999955 467777779999999998652 1 2331 34677
Q ss_pred EEecC-CceEEECCEEcCCCceEEeeCCCEEEEccCCC
Q 003126 192 EITGG-KGEVEVNGNVHPKDSQVVLRGGDELVFSPSGK 228 (845)
Q Consensus 192 Ed~ss-nGtV~VNGkkvgKg~kviL~~GDEIvfs~~g~ 228 (845)
=|+++ ||| |+|.++|.--.-..|..+|.|-|+.+.+
T Consensus 244 iDLgS~NgT-fLNnk~IepqRYyEL~ekDvlkfgfs~r 280 (293)
T KOG1882|consen 244 IDLGSGNGT-FLNNKVIEPQRYYELREKDVLKFGFSSR 280 (293)
T ss_pred EecCCCCcc-eecCcccCchheeeeecCceeeeccchH
Confidence 77777 899 9999999999999999999999986543
No 24
>KOG0245 consensus Kinesin-like protein [Cytoskeleton]
Probab=95.40 E-value=0.044 Score=67.53 Aligned_cols=82 Identities=26% Similarity=0.448 Sum_probs=66.4
Q ss_pred eecceeEeecc---cccceEecCCCCccceeEEEEeecCCCceEEEEEecCCceEEECCEEcCCCceEEeeCCCEEEEcc
Q 003126 149 MTGAVFTVGHN---RQCDLYLKDPSISKNLCRLRRIENGGPSGALLEITGGKGEVEVNGNVHPKDSQVVLRGGDELVFSP 225 (845)
Q Consensus 149 I~~~~fTvGr~---~~CDl~L~D~~IS~~hCkI~r~e~gg~~vA~LEd~ssnGtV~VNGkkvgKg~kviL~~GDEIvfs~ 225 (845)
|-.-.-+|||. ..-||+|....|---||.|+++ +|+.|+.|+=-..--| |||||.|.- ...|..||.|+|+
T Consensus 474 ikeG~TrVG~~~a~~~~DI~LsG~~I~~qHC~i~~~--~g~~~vtl~p~e~aet-yVNGk~v~e--p~qL~~GdRiilG- 547 (1221)
T KOG0245|consen 474 IKEGETRVGREDASSRQDIVLSGQLIREQHCSIRNE--GGNDVVTLEPCEDAET-YVNGKLVTE--PTQLRSGDRIILG- 547 (1221)
T ss_pred eccCceecCCCCcccCCceEecchhhhhhceEEEec--CCCceEEeccCCccce-eEccEEcCC--cceeccCCEEEEc-
Confidence 33445678964 4679999999999999999985 5555788887776656 999999986 7899999999995
Q ss_pred CCCeeEEEEecC
Q 003126 226 SGKHSYIFQQLS 237 (845)
Q Consensus 226 ~g~~aYIFq~l~ 237 (845)
+.|.|-|-+..
T Consensus 548 -~~H~frfn~P~ 558 (1221)
T KOG0245|consen 548 -GNHVFRFNHPE 558 (1221)
T ss_pred -CceeEEecCHH
Confidence 48999998763
No 25
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=94.48 E-value=0.26 Score=58.69 Aligned_cols=77 Identities=21% Similarity=0.293 Sum_probs=46.6
Q ss_pred CCCccccccccccccchhhHHHHHHHhhhccccccc-cccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEE
Q 003126 445 GPENIEVSFESFPYYLSDITKNVLIASTYVHLKCNN-FAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLL 523 (845)
Q Consensus 445 dg~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e-~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLL 523 (845)
....+..+|+++- .-+..+.-|...... ++.++ +...... ..+-|||.||+|| =..+|+|+||++.+++++
T Consensus 143 ~~~~~~~~~~di~--g~~~~~~~l~~i~~~-~~~~~~~~~~~~~---~~~gill~G~~G~--GKt~~~~~~a~~~~~~f~ 214 (644)
T PRK10733 143 TEDQIKTTFADVA--GCDEAKEEVAELVEY-LREPSRFQKLGGK---IPKGVLMVGPPGT--GKTLLAKAIAGEAKVPFF 214 (644)
T ss_pred CchhhhCcHHHHc--CHHHHHHHHHHHHHH-hhCHHHHHhcCCC---CCCcEEEECCCCC--CHHHHHHHHHHHcCCCEE
Confidence 3345566676653 234444444443332 33322 2122112 2345999999994 578899999999999988
Q ss_pred EEeccC
Q 003126 524 IVDSLL 529 (845)
Q Consensus 524 ilDs~~ 529 (845)
.++..+
T Consensus 215 ~is~~~ 220 (644)
T PRK10733 215 TISGSD 220 (644)
T ss_pred EEehHH
Confidence 777643
No 26
>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit. This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.
Probab=93.51 E-value=0.076 Score=60.92 Aligned_cols=70 Identities=19% Similarity=0.254 Sum_probs=54.8
Q ss_pred ccchhhHHHHHHHhhhcccccccccccc-CCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCCC
Q 003126 458 YYLSDITKNVLIASTYVHLKCNNFAKYA-SDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLLP 531 (845)
Q Consensus 458 YYLSE~TK~~L~saa~vHLk~~e~skyt-~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l~ 531 (845)
.+--++.|.+|.-|.|.|.+...+.+-. ..+.+ +.|||.||+|+ -.-+||||||+.++++++-+|.+.|.
T Consensus 14 IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p--~~ILLiGppG~--GKT~lAraLA~~l~~~fi~vdat~~~ 84 (441)
T TIGR00390 14 IIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTP--KNILMIGPTGV--GKTEIARRLAKLANAPFIKVEATKFT 84 (441)
T ss_pred ccCHHHHHHHHHHHHHhhhhhhccccccccccCC--ceEEEECCCCC--CHHHHHHHHHHHhCCeEEEeecceee
Confidence 3446889999999999997765443222 23333 78999999994 56679999999999999999998775
No 27
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=93.00 E-value=0.1 Score=59.30 Aligned_cols=85 Identities=27% Similarity=0.380 Sum_probs=59.6
Q ss_pred cCCCccccccccccccchhhHHHHHHHhhhcccccccccccc-CCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcE
Q 003126 444 LGPENIEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYA-SDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARL 522 (845)
Q Consensus 444 vdg~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt-~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkL 522 (845)
..+++|.-.+++| .+=-|+.|.+|.-|+|-|++.-...... .+.....+.|||.||+|| =..+|||+||+.+++++
T Consensus 60 ~~p~~i~~~L~~~-ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~Gt--GKT~lAr~lA~~l~~pf 136 (412)
T PRK05342 60 PTPKEIKAHLDQY-VIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGS--GKTLLAQTLARILDVPF 136 (412)
T ss_pred CCHHHHHHHHhhH-eeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCC--CHHHHHHHHHHHhCCCc
Confidence 3344444444432 1225788999999999887764222111 134445678999999994 57889999999999999
Q ss_pred EEEeccCCC
Q 003126 523 LIVDSLLLP 531 (845)
Q Consensus 523 LilDs~~l~ 531 (845)
..+|.+.|.
T Consensus 137 ~~id~~~l~ 145 (412)
T PRK05342 137 AIADATTLT 145 (412)
T ss_pred eecchhhcc
Confidence 999998874
No 28
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=92.88 E-value=0.083 Score=62.78 Aligned_cols=85 Identities=24% Similarity=0.293 Sum_probs=64.2
Q ss_pred CCccccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEE
Q 003126 446 PENIEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIV 525 (845)
Q Consensus 446 g~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLil 525 (845)
....+|+|..+-- ++..-+.+.. ..+|++|+++-.|+--.+| |-+||-||+| --.-+||.|+|.++++++|-+
T Consensus 182 ~~~snv~f~diGG-~d~~~~el~~--li~~i~~Pe~~~~lGv~Pp--rGvLlHGPPG--CGKT~lA~AiAgel~vPf~~i 254 (802)
T KOG0733|consen 182 FPESNVSFSDIGG-LDKTLAELCE--LIIHIKHPEVFSSLGVRPP--RGVLLHGPPG--CGKTSLANAIAGELGVPFLSI 254 (802)
T ss_pred CCCCCcchhhccC-hHHHHHHHHH--HHHHhcCchhHhhcCCCCC--CceeeeCCCC--ccHHHHHHHHhhhcCCceEee
Confidence 4556888887764 3333333322 2357999999877765554 6799999999 467899999999999999999
Q ss_pred eccCCCCCCCcc
Q 003126 526 DSLLLPGGSSKE 537 (845)
Q Consensus 526 Ds~~l~G~~ske 537 (845)
-...+.+|.+-|
T Consensus 255 sApeivSGvSGE 266 (802)
T KOG0733|consen 255 SAPEIVSGVSGE 266 (802)
T ss_pred cchhhhcccCcc
Confidence 999998777755
No 29
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=92.17 E-value=0.16 Score=58.41 Aligned_cols=67 Identities=19% Similarity=0.276 Sum_probs=52.9
Q ss_pred hhhHHHHHHHhhhcccccccccccc-CCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCCC
Q 003126 461 SDITKNVLIASTYVHLKCNNFAKYA-SDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLLP 531 (845)
Q Consensus 461 SE~TK~~L~saa~vHLk~~e~skyt-~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l~ 531 (845)
-+..|.+|..|.|-|.+...+..-. ..+.+ +.|||.||+|+ -.-+|||+||+.++++++.+|.+.|.
T Consensus 20 Qe~AkkalavAl~~~~~r~~l~~~~~~e~~~--~~ILliGp~G~--GKT~LAr~LAk~l~~~fi~vD~t~f~ 87 (443)
T PRK05201 20 QDDAKRAVAIALRNRWRRMQLPEELRDEVTP--KNILMIGPTGV--GKTEIARRLAKLANAPFIKVEATKFT 87 (443)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCcccccccCC--ceEEEECCCCC--CHHHHHHHHHHHhCChheeecchhhc
Confidence 5788999999999987765443211 12333 78999999994 56679999999999999999998886
No 30
>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.
Probab=92.06 E-value=0.2 Score=57.09 Aligned_cols=70 Identities=33% Similarity=0.417 Sum_probs=53.0
Q ss_pred chhhHHHHHHHhhhcccccccc--cccc-CCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCCC
Q 003126 460 LSDITKNVLIASTYVHLKCNNF--AKYA-SDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLLP 531 (845)
Q Consensus 460 LSE~TK~~L~saa~vHLk~~e~--skyt-~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l~ 531 (845)
--|+.|.+|.-|.|-|.+.-.. .... .++.-....|||.||+|+ =...|||+||+.+++++.++|.+.|.
T Consensus 81 GQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~Gs--GKT~lAraLA~~l~~pf~~~da~~L~ 153 (413)
T TIGR00382 81 GQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGS--GKTLLAQTLARILNVPFAIADATTLT 153 (413)
T ss_pred CHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCc--CHHHHHHHHHHhcCCCeEEechhhcc
Confidence 3688999999999988886322 1110 112234568999999994 56789999999999999999988774
No 31
>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=91.01 E-value=0.17 Score=45.65 Aligned_cols=35 Identities=40% Similarity=0.528 Sum_probs=31.2
Q ss_pred eeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCCC
Q 003126 495 ILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLLP 531 (845)
Q Consensus 495 ILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l~ 531 (845)
|||.||+| .=.-.|||+||++++++++.+|...+.
T Consensus 1 ill~G~~G--~GKT~l~~~la~~l~~~~~~i~~~~~~ 35 (132)
T PF00004_consen 1 ILLHGPPG--TGKTTLARALAQYLGFPFIEIDGSELI 35 (132)
T ss_dssp EEEESSTT--SSHHHHHHHHHHHTTSEEEEEETTHHH
T ss_pred CEEECcCC--CCeeHHHHHHHhhcccccccccccccc
Confidence 79999999 468889999999999999999986554
No 32
>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=91.01 E-value=0.26 Score=58.98 Aligned_cols=75 Identities=29% Similarity=0.305 Sum_probs=62.8
Q ss_pred CCccccccccccccchhhHHHHHHHhhhccccccc-cccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEE
Q 003126 446 PENIEVSFESFPYYLSDITKNVLIASTYVHLKCNN-FAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLI 524 (845)
Q Consensus 446 g~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e-~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLi 524 (845)
++--+|+|++.-= -|+-|.-|-.+.--.++|++ |.+|+ -+-.+.|||.||+|. -.-+||||||++-++.+|-
T Consensus 426 ve~p~v~W~dIGG--lE~lK~elq~~V~~p~~~pe~F~r~G---i~ppkGVLlyGPPGC--~KT~lAkalAne~~~nFls 498 (693)
T KOG0730|consen 426 VEMPNVSWDDIGG--LEELKRELQQAVEWPLKHPEKFARFG---ISPPKGVLLYGPPGC--GKTLLAKALANEAGMNFLS 498 (693)
T ss_pred ccCCCCChhhccC--HHHHHHHHHHHHhhhhhchHHHHHhc---CCCCceEEEECCCCc--chHHHHHHHhhhhcCCeee
Confidence 7788999999774 38899999999999999976 44776 356789999999994 5778999999999999997
Q ss_pred Eec
Q 003126 525 VDS 527 (845)
Q Consensus 525 lDs 527 (845)
+=.
T Consensus 499 vkg 501 (693)
T KOG0730|consen 499 VKG 501 (693)
T ss_pred ccC
Confidence 744
No 33
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=90.73 E-value=0.28 Score=54.64 Aligned_cols=77 Identities=23% Similarity=0.224 Sum_probs=59.1
Q ss_pred ccccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 448 NIEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 448 ~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
+=+|-|+.--= -|..|++|-+|.-..+|.+.+....| .--+.|||-||+|| -...||||.|-+-+.-+.-+-|
T Consensus 127 KPNVkWsDVAG--LE~AKeALKEAVILPIKFPqlFtGkR---~PwrgiLLyGPPGT--GKSYLAKAVATEAnSTFFSvSS 199 (439)
T KOG0739|consen 127 KPNVKWSDVAG--LEGAKEALKEAVILPIKFPQLFTGKR---KPWRGILLYGPPGT--GKSYLAKAVATEANSTFFSVSS 199 (439)
T ss_pred CCCCchhhhcc--chhHHHHHHhheeecccchhhhcCCC---CcceeEEEeCCCCC--cHHHHHHHHHhhcCCceEEeeh
Confidence 34555554332 58999999999999999776643222 22468999999995 5678999999999999998988
Q ss_pred cCCC
Q 003126 528 LLLP 531 (845)
Q Consensus 528 ~~l~ 531 (845)
++|.
T Consensus 200 SDLv 203 (439)
T KOG0739|consen 200 SDLV 203 (439)
T ss_pred HHHH
Confidence 8884
No 34
>PRK12377 putative replication protein; Provisional
Probab=89.32 E-value=0.56 Score=50.00 Aligned_cols=83 Identities=20% Similarity=0.331 Sum_probs=51.6
Q ss_pred HHHHHHHhhhcccCCCccccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHH
Q 003126 432 RQAFKDSLQEGILGPENIEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLA 511 (845)
Q Consensus 432 ~~~fk~~~~~~Vvdg~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~La 511 (845)
..+.++-+.+.-++.+--+.|||||-.. .+..+.++ ..+... ..++..-..-|+|+||+|| ---.||
T Consensus 52 ~~~~~~~~~~s~i~~~~~~~tFdnf~~~-~~~~~~a~-~~a~~~---------a~~~~~~~~~l~l~G~~Gt--GKThLa 118 (248)
T PRK12377 52 QLRVEKILNRSGIQPLHRKCSFANYQVQ-NDGQRYAL-SQAKSI---------ADELMTGCTNFVFSGKPGT--GKNHLA 118 (248)
T ss_pred HHHHHHHHHHcCCCcccccCCcCCcccC-ChhHHHHH-HHHHHH---------HHHHHhcCCeEEEECCCCC--CHHHHH
Confidence 3455556777778999999999999433 23333333 333222 2222222357999999994 567799
Q ss_pred HHHHhhcc---CcEEEEec
Q 003126 512 KALAKHFS---ARLLIVDS 527 (845)
Q Consensus 512 KALA~~f~---AkLLilDs 527 (845)
.|+|+++- ...+.+..
T Consensus 119 ~AIa~~l~~~g~~v~~i~~ 137 (248)
T PRK12377 119 AAIGNRLLAKGRSVIVVTV 137 (248)
T ss_pred HHHHHHHHHcCCCeEEEEH
Confidence 99999883 44444444
No 35
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=88.97 E-value=0.45 Score=54.50 Aligned_cols=78 Identities=22% Similarity=0.300 Sum_probs=63.0
Q ss_pred CccccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEe
Q 003126 447 ENIEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVD 526 (845)
Q Consensus 447 ~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilD 526 (845)
++.+|.||+-== -++.|.+|-+|....+.-++|.+ .|-.-=+.|||-||+|| -.-|||||+|-+.+.-..-+-
T Consensus 205 ~np~ikW~DIag--l~~AK~lL~EAVvlPi~mPe~F~---GirrPWkgvLm~GPPGT--GKTlLAKAvATEc~tTFFNVS 277 (491)
T KOG0738|consen 205 RNPNIKWDDIAG--LHEAKKLLKEAVVLPIWMPEFFK---GIRRPWKGVLMVGPPGT--GKTLLAKAVATECGTTFFNVS 277 (491)
T ss_pred cCCCcChHhhcc--hHHHHHHHHHHHhhhhhhHHHHh---hcccccceeeeeCCCCC--cHHHHHHHHHHhhcCeEEEec
Confidence 355677876433 57899999999999998666654 45567789999999995 578999999999998888888
Q ss_pred ccCCC
Q 003126 527 SLLLP 531 (845)
Q Consensus 527 s~~l~ 531 (845)
++.|.
T Consensus 278 sstlt 282 (491)
T KOG0738|consen 278 SSTLT 282 (491)
T ss_pred hhhhh
Confidence 87774
No 36
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=88.93 E-value=0.93 Score=55.51 Aligned_cols=96 Identities=25% Similarity=0.328 Sum_probs=75.4
Q ss_pred hhhHHHHHHHHhhhcccCCCccccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHH
Q 003126 428 ISARRQAFKDSLQEGILGPENIEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQ 507 (845)
Q Consensus 428 ~~~r~~~fk~~~~~~Vvdg~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQ 507 (845)
|..+-.+.+.+|-..|=-++==+|+||+--= -|.+|..+.++--..|+|+++ |++.|-.-| -|||-||+|| -.
T Consensus 646 f~kals~~~~~fs~aiGAPKIPnV~WdDVGG--LeevK~eIldTIqlPL~hpeL--fssglrkRS-GILLYGPPGT--GK 718 (953)
T KOG0736|consen 646 FDKALSRLQKEFSDAIGAPKIPNVSWDDVGG--LEEVKTEILDTIQLPLKHPEL--FSSGLRKRS-GILLYGPPGT--GK 718 (953)
T ss_pred HHHHHHHHHHhhhhhcCCCCCCccchhcccC--HHHHHHHHHHHhcCcccChhh--hhccccccc-eeEEECCCCC--ch
Confidence 3444555666777778778888999988665 689999999999999999998 355555444 3999999996 46
Q ss_pred HHHHHHHHhhccCcEEEEeccCC
Q 003126 508 ETLAKALAKHFSARLLIVDSLLL 530 (845)
Q Consensus 508 E~LaKALA~~f~AkLLilDs~~l 530 (845)
-.||||.|-+|..-.|-+-.-.|
T Consensus 719 TLlAKAVATEcsL~FlSVKGPEL 741 (953)
T KOG0736|consen 719 TLLAKAVATECSLNFLSVKGPEL 741 (953)
T ss_pred HHHHHHHHhhceeeEEeecCHHH
Confidence 78999999999988887766555
No 37
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=88.39 E-value=1.1 Score=40.28 Aligned_cols=55 Identities=29% Similarity=0.494 Sum_probs=40.7
Q ss_pred HHHHHHHhhhcccCC-CCEEEEEcchhhhhccC--------hhHHHHHHHHhccCCC---CEEEEeeccc
Q 003126 689 AINELFEVALNESKS-SPLIVFVKDIEKSLTGN--------NDAYGALKSKLENLPS---NVVVIGSHTQ 746 (845)
Q Consensus 689 lI~sL~EVL~SeS~~-~PlILYikDvEK~l~~n--------~e~y~~fq~~LekLsg---~VvIIGSq~~ 746 (845)
.|..+++-+.. . .|.||||.|+++++..+ .+.+..|.+.|++... +|+|||+-+.
T Consensus 45 ~i~~~~~~~~~---~~~~~vl~iDe~d~l~~~~~~~~~~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn~ 111 (132)
T PF00004_consen 45 KIRDFFKKAKK---SAKPCVLFIDEIDKLFPKSQPSSSSFEQRLLNQLLSLLDNPSSKNSRVIVIATTNS 111 (132)
T ss_dssp HHHHHHHHHHH---TSTSEEEEEETGGGTSHHCSTSSSHHHHHHHHHHHHHHHTTTTTSSSEEEEEEESS
T ss_pred ccccccccccc---cccceeeeeccchhcccccccccccccccccceeeecccccccccccceeEEeeCC
Confidence 44444444433 4 49999999999988876 6677778888887776 5999998874
No 38
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=88.24 E-value=0.25 Score=55.44 Aligned_cols=75 Identities=31% Similarity=0.350 Sum_probs=55.9
Q ss_pred cccCCCccccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCc
Q 003126 442 GILGPENIEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSAR 521 (845)
Q Consensus 442 ~Vvdg~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~Ak 521 (845)
-++|+.+..=-||+-=| .-+-|+-|++-|.+-|+-.++ +-..+|=+-+|=|||.||+|| -.-.|.||||+++-+|
T Consensus 130 w~LPa~eF~glWEsLiy--ds~lK~~ll~Ya~s~l~fsek-~vntnlIt~NRliLlhGPPGT--GKTSLCKaLaQkLSIR 204 (423)
T KOG0744|consen 130 WYLPAAEFDGLWESLIY--DSNLKERLLSYAASALLFSEK-KVNTNLITWNRLILLHGPPGT--GKTSLCKALAQKLSIR 204 (423)
T ss_pred eeccchhhhhhHHHHhh--cccHHHHHHHHHHHHHHHHhc-CCCCceeeeeeEEEEeCCCCC--ChhHHHHHHHHhheee
Confidence 35566666666777644 445666677666667765444 445789999999999999995 5678999999999888
No 39
>PRK07952 DNA replication protein DnaC; Validated
Probab=87.49 E-value=1 Score=47.91 Aligned_cols=87 Identities=18% Similarity=0.313 Sum_probs=57.5
Q ss_pred HHHHHHHHhhhcccCCCccccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHH
Q 003126 431 RRQAFKDSLQEGILGPENIEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETL 510 (845)
Q Consensus 431 r~~~fk~~~~~~Vvdg~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~L 510 (845)
|....+..+.+..+++....-|||||-.. .+..+.++..|-- |..+.....+-++|+||+|| ---.|
T Consensus 49 ~q~~~~~~~~~s~i~~~~~~~tFdnf~~~-~~~q~~al~~a~~----------~~~~~~~~~~~~~l~G~~Gt--GKThL 115 (244)
T PRK07952 49 RAMKMQRTFNRSGIRPLHQNCSFENYRVE-CEGQMNALSKARQ----------YVEEFDGNIASFIFSGKPGT--GKNHL 115 (244)
T ss_pred HHHHHHHHHHHcCCCccccCCccccccCC-CchHHHHHHHHHH----------HHHhhccCCceEEEECCCCC--CHHHH
Confidence 34445556678888988889999999654 3344444433321 12222222357999999994 56779
Q ss_pred HHHHHhhc---cCcEEEEeccCC
Q 003126 511 AKALAKHF---SARLLIVDSLLL 530 (845)
Q Consensus 511 aKALA~~f---~AkLLilDs~~l 530 (845)
+.|||+++ +.+.++++..+|
T Consensus 116 a~aia~~l~~~g~~v~~it~~~l 138 (244)
T PRK07952 116 AAAICNELLLRGKSVLIITVADI 138 (244)
T ss_pred HHHHHHHHHhcCCeEEEEEHHHH
Confidence 99999998 677888876444
No 40
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=87.08 E-value=0.54 Score=51.71 Aligned_cols=73 Identities=23% Similarity=0.223 Sum_probs=52.0
Q ss_pred cccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 449 IEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 449 i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
-+++|++. +--+..+..|..+....+.++++.+... +. ..+.|||.||+|| =..+||||+|+++++.++-+..
T Consensus 117 p~~~~~di--~Gl~~~~~~l~~~i~~~~~~~~~~~~~g-~~-~p~gvLL~GppGt--GKT~lakaia~~l~~~~~~v~~ 189 (364)
T TIGR01242 117 PNVSYEDI--GGLEEQIREIREAVELPLKHPELFEEVG-IE-PPKGVLLYGPPGT--GKTLLAKAVAHETNATFIRVVG 189 (364)
T ss_pred CCCCHHHh--CChHHHHHHHHHHHHHHhcCHHHHHhcC-CC-CCceEEEECCCCC--CHHHHHHHHHHhCCCCEEecch
Confidence 45666664 3456777777777777788876542211 22 2356999999994 5789999999999999877654
No 41
>PRK08116 hypothetical protein; Validated
Probab=86.84 E-value=0.77 Score=49.09 Aligned_cols=87 Identities=17% Similarity=0.256 Sum_probs=55.6
Q ss_pred HHHHHHhhhcccCCCccccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHH
Q 003126 433 QAFKDSLQEGILGPENIEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAK 512 (845)
Q Consensus 433 ~~fk~~~~~~Vvdg~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaK 512 (845)
.+.+.-+...+++.+-.+.|||||.. .+..+.++ .+|.-+++. +. .....+.-+||.||+|| -.-.||.
T Consensus 64 ~~~~~l~~~s~i~~~~~~~tFdnf~~--~~~~~~a~-~~a~~y~~~--~~----~~~~~~~gl~l~G~~Gt--GKThLa~ 132 (268)
T PRK08116 64 RRIERLKSNSLLDEKFRNSTFENFLF--DKGSEKAY-KIARKYVKK--FE----EMKKENVGLLLWGSVGT--GKTYLAA 132 (268)
T ss_pred HHHHHHHHhcCCCHHHHhcchhcccC--ChHHHHHH-HHHHHHHHH--HH----hhccCCceEEEECCCCC--CHHHHHH
Confidence 34555666778888889999999983 44443332 222222221 11 11123446999999995 5688999
Q ss_pred HHHhhc---cCcEEEEeccCC
Q 003126 513 ALAKHF---SARLLIVDSLLL 530 (845)
Q Consensus 513 ALA~~f---~AkLLilDs~~l 530 (845)
|+|+++ +.+.+.++..+|
T Consensus 133 aia~~l~~~~~~v~~~~~~~l 153 (268)
T PRK08116 133 CIANELIEKGVPVIFVNFPQL 153 (268)
T ss_pred HHHHHHHHcCCeEEEEEHHHH
Confidence 999986 778888876544
No 42
>KOG2045 consensus 5'-3' exonuclease XRN1/KEM1/SEP1 involved in DNA strand exchange and mRNA turnover [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]
Probab=86.70 E-value=0.92 Score=56.14 Aligned_cols=76 Identities=29% Similarity=0.426 Sum_probs=57.8
Q ss_pred CCCCcccccccCCcccCCCCeeeEeecCCCCCccCCCCCCCCCcccceeeeecccCCCCceeeeccCCCCCCCCCCCCCC
Q 003126 584 LPKPEISTASSKNYTFKKGDRVKFVGNVTSGTTVQPTLRGPGIGFRGRVILPFEDNDFSKIGVRFDRSIPEGNNLGGFCE 663 (845)
Q Consensus 584 ~~~~e~s~~t~~~~t~kkGDRVkyvGs~~~~s~~~~~~R~ps~G~rG~V~l~fE~N~ssKVgVrFD~~i~dg~dlg~~ce 663 (845)
.++...+.+-..++.|+-||||.|+--+.. -..|..|.|+.-.-.-.+--++|.||.+++.||+++|.|+
T Consensus 1115 ~lnp~~~~v~l~sq~f~lgdrVvyvqdsgk----------vPv~~kGTVvG~m~~~~~~~~~vlFd~~~~ngnn~~Gr~~ 1184 (1493)
T KOG2045|consen 1115 KLNPTLPDVYLSSQPFRLGDRVVYVQDSGK----------VPVGTKGTVVGIMPVTDDTFCKVLFDSPVPNGNNIHGRAE 1184 (1493)
T ss_pred hcCCCCcceeeccccccccceEEEeeccCc----------cccccccceEEEEecccccccceeecccccCCCccCceec
Confidence 333334555567888999999999864421 2467888888766655566789999999999999999999
Q ss_pred CCCCce
Q 003126 664 DDHGFF 669 (845)
Q Consensus 664 ~~~g~f 669 (845)
+.+|.-
T Consensus 1185 ~~~g~~ 1190 (1493)
T KOG2045|consen 1185 DRVGKV 1190 (1493)
T ss_pred cccccc
Confidence 988744
No 43
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=86.52 E-value=2 Score=50.71 Aligned_cols=97 Identities=16% Similarity=0.160 Sum_probs=72.7
Q ss_pred cceeecccCCCCCceeeecceeEeecccccceEecCCCCccceeEEEEeecCCCceEEEEEecCCceEEECCEEcCCCce
Q 003126 133 PWARLISQCSQNSHLSMTGAVFTVGHNRQCDLYLKDPSISKNLCRLRRIENGGPSGALLEITGGKGEVEVNGNVHPKDSQ 212 (845)
Q Consensus 133 pWgRLlSq~sq~P~i~I~~~~fTvGr~~~CDl~L~D~~IS~~hCkI~r~e~gg~~vA~LEd~ssnGtV~VNGkkvgKg~k 212 (845)
.=|-|.|..+.+|-|.|......|||++.- .++|..-|..+-.|. .+.... .+.+-.+|.|=+ -|||+.++||..
T Consensus 13 ~~c~l~~~~~~~~~~~~~~~~~~~gr~pet--~i~d~~cs~~qv~l~-a~~~~~-~v~~k~lg~np~-~~~~~~~~~~~~ 87 (526)
T TIGR01663 13 RICTLKPGEAEHHFIHLDAGALFLGRGPET--GIRDRKCSKRQIELQ-ADLEKA-TVALKQLGVNPC-GTGGLELKPGGE 87 (526)
T ss_pred eeeEecCCCCCCCeeccCCCceEEccCccc--ccchhhhchhhheee-ecccCc-eEEEEEccCCCc-ccCceEecCCCe
Confidence 358899999999999887777789998753 345665565554544 333333 366788899966 899999999999
Q ss_pred EEeeCCCEEEEccCCCeeEEEEe
Q 003126 213 VVLRGGDELVFSPSGKHSYIFQQ 235 (845)
Q Consensus 213 viL~~GDEIvfs~~g~~aYIFq~ 235 (845)
+.|+.||-+-+. .+.|-|.++.
T Consensus 88 ~~l~~g~~l~~v-~~~~~~~~~f 109 (526)
T TIGR01663 88 GELGHGDLLEIV-NGLHPLTLQF 109 (526)
T ss_pred eeecCCCEEEEe-ccccceeEEe
Confidence 999999988763 4677776554
No 44
>TIGR02500 type_III_yscD type III secretion apparatus protein, YscD/HrpQ family. This family represents a conserved protein of bacterial type III secretion systems. Gene symbols are variable from species to species. Members are designated YscD in Yersinia, HrpQ in Pseudomonas syringae, and EscD in enteropathogenic Escherichia coli. In the Chlamydiae, this model describes the C-terminal 400 residues of a longer protein.
Probab=86.14 E-value=1.1 Score=50.79 Aligned_cols=63 Identities=19% Similarity=0.259 Sum_probs=46.1
Q ss_pred eeeecceeEee-cccccceEecCCCCccceeEEEEeecCCCceEEEEEecCCceEEECC--EEcCCCceEEe
Q 003126 147 LSMTGAVFTVG-HNRQCDLYLKDPSISKNLCRLRRIENGGPSGALLEITGGKGEVEVNG--NVHPKDSQVVL 215 (845)
Q Consensus 147 i~I~~~~fTvG-r~~~CDl~L~D~~IS~~hCkI~r~e~gg~~vA~LEd~ssnGtV~VNG--kkvgKg~kviL 215 (845)
+.+....|+|| ++..||+.|.|..++..||.|.-.. ++ ..|. ..-..|.+|| .....|..+.+
T Consensus 15 ~~L~~g~~~iG~~~~~~di~L~d~~~~~~h~~l~v~~-~~---~~l~--~~~~~~~~~g~~~~~~~g~~l~~ 80 (410)
T TIGR02500 15 LPLPEGNLVLGTDAADCDIVLSDGGIAAVHVSLHVRL-EG---VTLA--GAVEPAWEEGGVLPDEEGTPLPS 80 (410)
T ss_pred EECCCCceEeccCCCCcEEEeCCCCccchheEEEEcC-ce---EEEe--cCCcceeECCcccccCCCCccCC
Confidence 46777889999 9999999999999999999998532 22 3343 2222268999 77777765443
No 45
>KOG2293 consensus Daxx-interacting protein MSP58/p78, contains FHA domain [Transcription; Signal transduction mechanisms]
Probab=85.72 E-value=1.8 Score=50.79 Aligned_cols=92 Identities=18% Similarity=0.267 Sum_probs=63.6
Q ss_pred cceeecccCCCCCceeeecceeEeeccc-ccceEecC------CCCccceeEEEEeecCCCceEEEEEecCCceEEECCE
Q 003126 133 PWARLISQCSQNSHLSMTGAVFTVGHNR-QCDLYLKD------PSISKNLCRLRRIENGGPSGALLEITGGKGEVEVNGN 205 (845)
Q Consensus 133 pWgRLlSq~sq~P~i~I~~~~fTvGr~~-~CDl~L~D------~~IS~~hCkI~r~e~gg~~vA~LEd~ssnGtV~VNGk 205 (845)
+.+.|+ .+|--.-|.+...|+||.. .|.+-+.- ..||.-.-.|+....|. .+|--.|.- .++|||+
T Consensus 432 AiAvL~---Gr~skh~mrk~EVtlGRat~d~~VDIDLgkegpatKISRRQa~IkL~n~Gs---F~IkNlGK~-~I~vng~ 504 (547)
T KOG2293|consen 432 AIAVLY---GRFSKHYMRKKEVTLGRATGDLKVDIDLGKEGPATKISRRQALIKLKNDGS---FFIKNLGKR-SILVNGG 504 (547)
T ss_pred eeEEEe---chhhHhhhcCcceEeeccCCCcceeeeccccCccceeeccceeEEeccCCc---EEeccCcce-eEEeCCc
Confidence 455565 5555557999999999976 55555521 34554444455433332 455555555 7899999
Q ss_pred EcCCCceEEeeCCCEEEEccCCCeeEEEE
Q 003126 206 VHPKDSQVVLRGGDELVFSPSGKHSYIFQ 234 (845)
Q Consensus 206 kvgKg~kviL~~GDEIvfs~~g~~aYIFq 234 (845)
.|..|.+|+|+++--|-+. ...|||.
T Consensus 505 ~l~~gq~~~L~~nclveIr---g~~FiF~ 530 (547)
T KOG2293|consen 505 ELDRGQKVILKNNCLVEIR---GLRFIFE 530 (547)
T ss_pred cccCCceEEeccCcEEEEc---cceEEEe
Confidence 9999999999999988873 3578886
No 46
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=84.70 E-value=1.2 Score=53.52 Aligned_cols=74 Identities=24% Similarity=0.297 Sum_probs=57.2
Q ss_pred ccccccccccchhhHHHHHHHhhhcccccccccc-ccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEecc
Q 003126 450 EVSFESFPYYLSDITKNVLIASTYVHLKCNNFAK-YASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSL 528 (845)
Q Consensus 450 ~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~sk-yt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~ 528 (845)
+||||+--- -++-|+-|.-|.....|+++.-| .+-+. -.-|||+||+| --.-.||||.|++-++..+-+-.-
T Consensus 507 dVtW~dIGa--L~~vR~eL~~aI~~PiK~pd~~k~lGi~~---PsGvLL~GPPG--CGKTLlAKAVANEag~NFisVKGP 579 (802)
T KOG0733|consen 507 DVTWDDIGA--LEEVRLELNMAILAPIKRPDLFKALGIDA---PSGVLLCGPPG--CGKTLLAKAVANEAGANFISVKGP 579 (802)
T ss_pred CCChhhccc--HHHHHHHHHHHHhhhccCHHHHHHhCCCC---CCceEEeCCCC--ccHHHHHHHHhhhccCceEeecCH
Confidence 577777654 57888899999999999998763 33222 45699999999 456789999999999999877654
Q ss_pred CC
Q 003126 529 LL 530 (845)
Q Consensus 529 ~l 530 (845)
.|
T Consensus 580 EL 581 (802)
T KOG0733|consen 580 EL 581 (802)
T ss_pred HH
Confidence 44
No 47
>CHL00206 ycf2 Ycf2; Provisional
Probab=81.67 E-value=1 Score=59.76 Aligned_cols=42 Identities=21% Similarity=0.151 Sum_probs=37.8
Q ss_pred CCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCCCCC
Q 003126 490 TMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLLPGG 533 (845)
Q Consensus 490 s~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l~G~ 533 (845)
..++.|||-||+|| -+-+||||||.+.+|+++-+..++|...
T Consensus 1628 ~pPKGILLiGPPGT--GKTlLAKALA~es~VPFIsISgs~fl~~ 1669 (2281)
T CHL00206 1628 SPSRGILVIGSIGT--GRSYLVKYLATNSYVPFITVFLNKFLDN 1669 (2281)
T ss_pred CCCCceEEECCCCC--CHHHHHHHHHHhcCCceEEEEHHHHhhc
Confidence 46789999999985 6899999999999999999999999753
No 48
>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=80.64 E-value=1.4 Score=39.97 Aligned_cols=32 Identities=41% Similarity=0.624 Sum_probs=28.7
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
.|+++||+|| =.-+|||.||++|+.+.+-+|.
T Consensus 1 vI~I~G~~gs--GKST~a~~La~~~~~~~i~~d~ 32 (121)
T PF13207_consen 1 VIIISGPPGS--GKSTLAKELAERLGFPVISMDD 32 (121)
T ss_dssp EEEEEESTTS--SHHHHHHHHHHHHTCEEEEEHH
T ss_pred CEEEECCCCC--CHHHHHHHHHHHHCCeEEEecc
Confidence 4899999994 5778999999999999998887
No 49
>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 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 ATPase AAA-2 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 []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....
Probab=79.88 E-value=1.4 Score=44.26 Aligned_cols=37 Identities=35% Similarity=0.453 Sum_probs=30.3
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhccC----cEEEEeccCCCC
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFSA----RLLIVDSLLLPG 532 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~A----kLLilDs~~l~G 532 (845)
-|||.||.|+ =.-.|||+||+++.+ +|+.+|.+.+..
T Consensus 5 ~~ll~GpsGv--GKT~la~~la~~l~~~~~~~~~~~d~s~~~~ 45 (171)
T PF07724_consen 5 NFLLAGPSGV--GKTELAKALAELLFVGSERPLIRIDMSEYSE 45 (171)
T ss_dssp EEEEESSTTS--SHHHHHHHHHHHHT-SSCCEEEEEEGGGHCS
T ss_pred EEEEECCCCC--CHHHHHHHHHHHhccCCccchHHHhhhcccc
Confidence 4899999993 233499999999998 999999987765
No 50
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA. This small protein has a single S4 domain (pfam01479), as do bacterial ribosomal protein S4, some pseudouridine synthases, tyrosyl-tRNA synthetases. The S4 domain may bind RNA. Members of this protein family are found almost exclusively in the Firmicutes, and almost invariably just a few nucleotides upstream of the gene for the DNA replication and repair protein RecF. The few members of this family that are not near recF are found instead near dnaA and/or dnaN, the usual neighbors of recF, near the origin of replication. The conserved location suggests a possible role in replication in the Firmicutes lineage.
Probab=79.71 E-value=1.6 Score=36.48 Aligned_cols=27 Identities=30% Similarity=0.382 Sum_probs=22.1
Q ss_pred CCceEEECCEEcCCCceEEeeCCCEEEE
Q 003126 196 GKGEVEVNGNVHPKDSQVVLRGGDELVF 223 (845)
Q Consensus 196 snGtV~VNGkkvgKg~kviL~~GDEIvf 223 (845)
..|.|+|||+.+.+ ....|..||+|.|
T Consensus 32 ~~G~V~VNg~~~~~-~~~~l~~Gd~v~i 58 (59)
T TIGR02988 32 QENEVLVNGELENR-RGKKLYPGDVIEI 58 (59)
T ss_pred HcCCEEECCEEccC-CCCCCCCCCEEEe
Confidence 46889999999863 3668999999976
No 51
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=79.62 E-value=0.9 Score=51.12 Aligned_cols=68 Identities=34% Similarity=0.404 Sum_probs=52.5
Q ss_pred hhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCC
Q 003126 461 SDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLL 530 (845)
Q Consensus 461 SE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l 530 (845)
-|++|.+|-=|.|-|-|.-.+...-.++.=.---|||-||.|| -.-.||+-||+.++||+-|-|.+.|
T Consensus 66 Qe~AKKvLsVAVYNHYKRl~~~~~~~dvEL~KSNILLiGPTGs--GKTlLAqTLAk~LnVPFaiADATtL 133 (408)
T COG1219 66 QEQAKKVLSVAVYNHYKRLNNKEDNDDVELSKSNILLIGPTGS--GKTLLAQTLAKILNVPFAIADATTL 133 (408)
T ss_pred chhhhceeeeeehhHHHHHhccCCCCceeeeeccEEEECCCCC--cHHHHHHHHHHHhCCCeeeccccch
Confidence 5889999999999997753322211223333356999999996 4567999999999999999999999
No 52
>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=79.17 E-value=2.1 Score=45.37 Aligned_cols=36 Identities=25% Similarity=0.361 Sum_probs=31.7
Q ss_pred CCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEecc
Q 003126 491 MCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSL 528 (845)
Q Consensus 491 ~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~ 528 (845)
.++.|||.||+|| =..+||++||+.+|.+++.++.+
T Consensus 20 ~g~~vLL~G~~Gt--GKT~lA~~la~~lg~~~~~i~~~ 55 (262)
T TIGR02640 20 SGYPVHLRGPAGT--GKTTLAMHVARKRDRPVMLINGD 55 (262)
T ss_pred cCCeEEEEcCCCC--CHHHHHHHHHHHhCCCEEEEeCC
Confidence 4678999999994 67899999999999999999764
No 53
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=78.67 E-value=2.2 Score=52.34 Aligned_cols=79 Identities=25% Similarity=0.263 Sum_probs=61.5
Q ss_pred CCCccccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEE
Q 003126 445 GPENIEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLI 524 (845)
Q Consensus 445 dg~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLi 524 (845)
+-.+++|+|++|== =|..|.-|.+-.- .||+++. |.+-=.-.-+-+||+||+|| -.-.||||+|-+-|||.+-
T Consensus 302 ~~~~t~V~FkDVAG--~deAK~El~E~V~-fLKNP~~--Y~~lGAKiPkGvLL~GPPGT--GKTLLAKAiAGEAgVPF~s 374 (774)
T KOG0731|consen 302 NEGNTGVKFKDVAG--VDEAKEELMEFVK-FLKNPEQ--YQELGAKIPKGVLLVGPPGT--GKTLLAKAIAGEAGVPFFS 374 (774)
T ss_pred cCCCCCCccccccC--cHHHHHHHHHHHH-HhcCHHH--HHHcCCcCcCceEEECCCCC--cHHHHHHHHhcccCCceee
Confidence 36778899999864 6888888888665 6887653 33322234477999999995 4678999999999999999
Q ss_pred EeccCC
Q 003126 525 VDSLLL 530 (845)
Q Consensus 525 lDs~~l 530 (845)
+-.+.|
T Consensus 375 vSGSEF 380 (774)
T KOG0731|consen 375 VSGSEF 380 (774)
T ss_pred echHHH
Confidence 988888
No 54
>KOG1880 consensus Nuclear inhibitor of phosphatase-1 [General function prediction only]
Probab=77.53 E-value=3.9 Score=45.50 Aligned_cols=81 Identities=21% Similarity=0.293 Sum_probs=64.0
Q ss_pred ecceeEeeccc-ccceEecCCCCccceeEEEEeecCCCceEEEEEecC-CceEEECCEEcCCCceEEeeCCCEEEEccCC
Q 003126 150 TGAVFTVGHNR-QCDLYLKDPSISKNLCRLRRIENGGPSGALLEITGG-KGEVEVNGNVHPKDSQVVLRGGDELVFSPSG 227 (845)
Q Consensus 150 ~~~~fTvGr~~-~CDl~L~D~~IS~~hCkI~r~e~gg~~vA~LEd~ss-nGtV~VNGkkvgKg~kviL~~GDEIvfs~~g 227 (845)
.+-.|.+||++ .|||+|...+.|.+|--+-..... ..++|=|+++ -|| |+-...+.+-.-+.|.-|--.-|+.+.
T Consensus 36 dkr~y~Fgrn~q~~df~idh~scSrvhaa~vyhkhl--~~~~lidl~s~hgt-f~g~~rL~~~~p~~l~i~~~~~fgasT 112 (337)
T KOG1880|consen 36 DKRRYLFGRNHQTCDFVIDHASCSRVHAALVYHKHL--SRIFLIDLGSTHGT-FLGNERLEPHKPVQLEIGSTFHFGAST 112 (337)
T ss_pred hhhhhhhccCCCccceEeecchhhhhHhhhhhhhcc--ceEEEEEccCCcce-eeeeeeeccCCCccccCCceEEEeccc
Confidence 34458999988 899999999999988776654333 2345555555 588 999999999999999999999998887
Q ss_pred CeeEEEE
Q 003126 228 KHSYIFQ 234 (845)
Q Consensus 228 ~~aYIFq 234 (845)
+ .|++.
T Consensus 113 r-~y~lr 118 (337)
T KOG1880|consen 113 R-IYLLR 118 (337)
T ss_pred e-eeeee
Confidence 6 66665
No 55
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=76.60 E-value=6.6 Score=47.72 Aligned_cols=93 Identities=25% Similarity=0.335 Sum_probs=64.9
Q ss_pred HHHHHHHhhhcccCCCCEEEEEcchhhhhc------cChhHHHHHHHHhccCCCCEEEEeecccCCCccccCCCCCccee
Q 003126 689 AINELFEVALNESKSSPLIVFVKDIEKSLT------GNNDAYGALKSKLENLPSNVVVIGSHTQLDSRKEKSHPGGLLFT 762 (845)
Q Consensus 689 lI~sL~EVL~SeS~~~PlILYikDvEK~l~------~n~e~y~~fq~~LekLsg~VvIIGSq~~~d~~KeK~~~g~~~f~ 762 (845)
-|..+++-+. +..|.||||.++..++. +..+.++.|+..|+ .|.|.+||.-|..+
T Consensus 262 ~l~~i~~~~~---~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~--~g~i~~IgaTt~~e-------------- 322 (731)
T TIGR02639 262 RLKAVVSEIE---KEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALS--SGKLRCIGSTTYEE-------------- 322 (731)
T ss_pred HHHHHHHHHh---ccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHh--CCCeEEEEecCHHH--------------
Confidence 3444444333 35799999999999764 23567888888887 58999999987311
Q ss_pred ccCCcccccccccCCCccccccccCCCchHHHhhhhccCCcceeecCCcchhHHHHHHHHHHH
Q 003126 763 KFGSNQTALLDLAFPDNFSRLHDRSKETPKALKQISRLFPNKVTIQLPQDEALLSDWKQQLER 825 (845)
Q Consensus 763 kfg~~~~aLldlafpd~~~rl~d~~kd~~k~~e~LtkLFPNkI~I~pPqDE~~L~~WK~QLEe 825 (845)
+ +..-+.+.-|...| +.|+|.+|..|..+..++..+.+
T Consensus 323 -----------------~-------~~~~~~d~al~rRf-~~i~v~~p~~~~~~~il~~~~~~ 360 (731)
T TIGR02639 323 -----------------Y-------KNHFEKDRALSRRF-QKIDVGEPSIEETVKILKGLKEK 360 (731)
T ss_pred -----------------H-------HHHhhhhHHHHHhC-ceEEeCCCCHHHHHHHHHHHHHH
Confidence 0 01122356677788 58999999999988888865543
No 56
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=76.59 E-value=2.9 Score=49.90 Aligned_cols=80 Identities=24% Similarity=0.237 Sum_probs=60.0
Q ss_pred hhhcccCCCccccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhc
Q 003126 439 LQEGILGPENIEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHF 518 (845)
Q Consensus 439 ~~~~Vvdg~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f 518 (845)
+...|.+-+.++|+|+.-=- =+..|.-|-+-.- +||.+ .||++==--+-+-|||.||+|| -.-+||||.|-+-
T Consensus 289 l~~ev~p~~~~nv~F~dVkG--~DEAK~ELeEiVe-fLkdP--~kftrLGGKLPKGVLLvGPPGT--GKTlLARAvAGEA 361 (752)
T KOG0734|consen 289 LDSEVDPEQMKNVTFEDVKG--VDEAKQELEEIVE-FLKDP--TKFTRLGGKLPKGVLLVGPPGT--GKTLLARAVAGEA 361 (752)
T ss_pred cccccChhhhcccccccccC--hHHHHHHHHHHHH-HhcCc--HHhhhccCcCCCceEEeCCCCC--chhHHHHHhhccc
Confidence 45778888888999987433 4778888877665 56653 3566533346688999999995 5789999999999
Q ss_pred cCcEEEE
Q 003126 519 SARLLIV 525 (845)
Q Consensus 519 ~AkLLil 525 (845)
+|+..--
T Consensus 362 ~VPFF~~ 368 (752)
T KOG0734|consen 362 GVPFFYA 368 (752)
T ss_pred CCCeEec
Confidence 9997543
No 57
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=76.43 E-value=2 Score=49.26 Aligned_cols=44 Identities=11% Similarity=0.063 Sum_probs=36.0
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCCCCCCCcc
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLLPGGSSKE 537 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l~G~~ske 537 (845)
-+-+||.||+|+ -.-+||||+|+++|+.++.++...|.+..--|
T Consensus 148 PlgllL~GPPGc--GKTllAraiA~elg~~~i~vsa~eL~sk~vGE 191 (413)
T PLN00020 148 PLILGIWGGKGQ--GKSFQCELVFKKMGIEPIVMSAGELESENAGE 191 (413)
T ss_pred CeEEEeeCCCCC--CHHHHHHHHHHHcCCCeEEEEHHHhhcCcCCc
Confidence 345678999994 57789999999999999999999887654433
No 58
>smart00363 S4 S4 RNA-binding domain.
Probab=76.28 E-value=3.4 Score=32.02 Aligned_cols=28 Identities=29% Similarity=0.514 Sum_probs=22.1
Q ss_pred CCceEEECCEEcCCCceEEeeCCCEEEEc
Q 003126 196 GKGEVEVNGNVHPKDSQVVLRGGDELVFS 224 (845)
Q Consensus 196 snGtV~VNGkkvgKg~kviL~~GDEIvfs 224 (845)
.+|.|+|||+.+.. ....|..||.|.+.
T Consensus 24 ~~g~i~vng~~~~~-~~~~l~~gd~i~~~ 51 (60)
T smart00363 24 EQGRVKVNGKKVTK-PSYIVKPGDVISVR 51 (60)
T ss_pred HcCCEEECCEEecC-CCeEeCCCCEEEEc
Confidence 36789999999844 36677999999874
No 59
>cd00754 MoaD Ubiquitin domain of MoaD-like proteins. MoaD family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor of a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), that contains the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase, the second major step in Moco biosynthesis. MPT synthase consists of a large (MoeE) and small (MoaD) subunit. The small subunit is inserted into the lare subunit to form the active site. The small subunit, which is structurally similar to ubiquitin, contains a C-terminal thiocarboxylated glycine residue that serves as a sulfur donor for the synthesis of the MPT dithiolene group.
Probab=75.73 E-value=2.6 Score=36.29 Aligned_cols=26 Identities=31% Similarity=0.539 Sum_probs=22.2
Q ss_pred eEEECCEEcCCCceEEeeCCCEEEEccC
Q 003126 199 EVEVNGNVHPKDSQVVLRGGDELVFSPS 226 (845)
Q Consensus 199 tV~VNGkkvgKg~kviL~~GDEIvfs~~ 226 (845)
.|+|||+.+. ....|+.||||.|-+|
T Consensus 51 ~v~vNg~~v~--~~~~l~~gD~v~i~pp 76 (80)
T cd00754 51 RIAVNGEYVR--LDTPLKDGDEVAIIPP 76 (80)
T ss_pred EEEECCeEcC--CCcccCCCCEEEEeCC
Confidence 5899999998 4678999999998664
No 60
>TIGR01687 moaD_arch MoaD family protein, archaeal. Members of this family appear to be archaeal versions of MoaD, subunit 1 of molybdopterin converting factor. This model has been split from the bacterial/eukaryotic equivalog model TIGR01682 because the presence of two members of this family in a substantial number of archaeal species suggests that roles might not be interchangeable.
Probab=74.45 E-value=2.7 Score=37.25 Aligned_cols=28 Identities=25% Similarity=0.272 Sum_probs=23.2
Q ss_pred eEEECCEEcCCCceEEeeCCCEEEEccC
Q 003126 199 EVEVNGNVHPKDSQVVLRGGDELVFSPS 226 (845)
Q Consensus 199 tV~VNGkkvgKg~kviL~~GDEIvfs~~ 226 (845)
.|.|||+.+.......|+.||||+|-.|
T Consensus 57 ~v~vN~~~v~~~~~~~l~dgdev~i~Pp 84 (88)
T TIGR01687 57 IILVNGRNVDWGLGTELKDGDVVAIFPP 84 (88)
T ss_pred EEEECCEecCccCCCCCCCCCEEEEeCC
Confidence 5799999998765578999999998554
No 61
>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....
Probab=73.19 E-value=2.4 Score=36.13 Aligned_cols=30 Identities=33% Similarity=0.604 Sum_probs=24.9
Q ss_pred CceEEECCEEcCC-CceEEeeCCCEEEEccC
Q 003126 197 KGEVEVNGNVHPK-DSQVVLRGGDELVFSPS 226 (845)
Q Consensus 197 nGtV~VNGkkvgK-g~kviL~~GDEIvfs~~ 226 (845)
.=.|.|||+.+.+ +....|+.||||.|-++
T Consensus 43 ~~~v~vN~~~v~~~~~~~~l~~gD~V~i~pp 73 (77)
T PF02597_consen 43 RVAVAVNGEIVPDDGLDTPLKDGDEVAILPP 73 (77)
T ss_dssp TEEEEETTEEEGGGTTTSBEETTEEEEEEES
T ss_pred cEEEEECCEEcCCccCCcCcCCCCEEEEECC
Confidence 3468999999999 66788999999998553
No 62
>PRK04195 replication factor C large subunit; Provisional
Probab=72.03 E-value=3.6 Score=47.34 Aligned_cols=37 Identities=27% Similarity=0.421 Sum_probs=32.6
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCC
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLL 530 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l 530 (845)
.+.+||+||+| .-..+||+|||++++..++.++.++.
T Consensus 39 ~~~lLL~GppG--~GKTtla~ala~el~~~~ielnasd~ 75 (482)
T PRK04195 39 KKALLLYGPPG--VGKTSLAHALANDYGWEVIELNASDQ 75 (482)
T ss_pred CCeEEEECCCC--CCHHHHHHHHHHHcCCCEEEEccccc
Confidence 57899999999 57788999999999999999987654
No 63
>PF01479 S4: S4 domain; InterPro: IPR002942 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterised, small proteins that may be involved in translation regulation []. The S4 domain probably mediates binding to RNA.; GO: 0003723 RNA binding; PDB: 3BBU_A 1DM9_B 2K6P_A 3U5G_E 3U5C_E 3IZB_D 2XZM_D 2XZN_D 3O30_E 3O2Z_E ....
Probab=71.28 E-value=2.8 Score=33.30 Aligned_cols=24 Identities=33% Similarity=0.634 Sum_probs=19.5
Q ss_pred CceEEECCEEcCCCceEEeeCCCEE
Q 003126 197 KGEVEVNGNVHPKDSQVVLRGGDEL 221 (845)
Q Consensus 197 nGtV~VNGkkvgKg~kviL~~GDEI 221 (845)
.|.|+|||+.+.+. ...+..||+|
T Consensus 25 ~g~V~VNg~~v~~~-~~~v~~~d~I 48 (48)
T PF01479_consen 25 QGRVKVNGKVVKDP-SYIVKPGDVI 48 (48)
T ss_dssp TTTEEETTEEESST-TSBESTTEEE
T ss_pred CCEEEECCEEEcCC-CCCCCCcCCC
Confidence 57889999999965 5667788886
No 64
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=69.35 E-value=4.7 Score=35.79 Aligned_cols=26 Identities=35% Similarity=0.446 Sum_probs=21.2
Q ss_pred eEEECCEEcCCCceEEeeCCCEEEEccC
Q 003126 199 EVEVNGNVHPKDSQVVLRGGDELVFSPS 226 (845)
Q Consensus 199 tV~VNGkkvgKg~kviL~~GDEIvfs~~ 226 (845)
.++|||..++.. .+|+.||||+|-.|
T Consensus 52 ~~aVN~~~~~~~--~~l~dgDeVai~PP 77 (81)
T PRK11130 52 LAAVNQTLVSFD--HPLTDGDEVAFFPP 77 (81)
T ss_pred EEEECCEEcCCC--CCCCCCCEEEEeCC
Confidence 379999988754 47999999999654
No 65
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=68.33 E-value=3.8 Score=46.86 Aligned_cols=53 Identities=28% Similarity=0.314 Sum_probs=39.9
Q ss_pred ccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCC
Q 003126 474 VHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLL 530 (845)
Q Consensus 474 vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l 530 (845)
..|+|+|+..-. -+.| -.-+||-||+|| -.-+||||.||+-+|..+=+=.+.|
T Consensus 169 LPL~~PElF~~~-GI~P-PKGVLLYGPPGT--GKTLLAkAVA~~T~AtFIrvvgSEl 221 (406)
T COG1222 169 LPLKNPELFEEL-GIDP-PKGVLLYGPPGT--GKTLLAKAVANQTDATFIRVVGSEL 221 (406)
T ss_pred ccccCHHHHHHc-CCCC-CCceEeeCCCCC--cHHHHHHHHHhccCceEEEeccHHH
Confidence 478888774211 1222 246999999995 5789999999999999998877666
No 66
>PRK00131 aroK shikimate kinase; Reviewed
Probab=68.27 E-value=4.7 Score=38.34 Aligned_cols=34 Identities=29% Similarity=0.435 Sum_probs=28.3
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
...|+|.||+|| =-.+|+|+||+.++++++-.|.
T Consensus 4 ~~~i~l~G~~Gs--GKstla~~La~~l~~~~~d~d~ 37 (175)
T PRK00131 4 GPNIVLIGFMGA--GKSTIGRLLAKRLGYDFIDTDH 37 (175)
T ss_pred CCeEEEEcCCCC--CHHHHHHHHHHHhCCCEEEChH
Confidence 457999999995 4678999999999998875553
No 67
>PRK08118 topology modulation protein; Reviewed
Probab=68.25 E-value=4.1 Score=40.46 Aligned_cols=35 Identities=31% Similarity=0.558 Sum_probs=30.4
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccC
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLL 529 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~ 529 (845)
+||++.||+|+= --+|||.||++++.+.+-+|...
T Consensus 2 ~rI~I~G~~GsG--KSTlak~L~~~l~~~~~~lD~l~ 36 (167)
T PRK08118 2 KKIILIGSGGSG--KSTLARQLGEKLNIPVHHLDALF 36 (167)
T ss_pred cEEEEECCCCCC--HHHHHHHHHHHhCCCceecchhh
Confidence 589999999954 45899999999999999999743
No 68
>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=67.47 E-value=5.3 Score=39.05 Aligned_cols=31 Identities=42% Similarity=0.587 Sum_probs=26.2
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhccCcEEEEe
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFSARLLIVD 526 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~AkLLilD 526 (845)
||+|.||+||- .-++++.||+.+++..|-+|
T Consensus 1 ~I~i~G~pGsG--Kst~a~~La~~~~~~~i~~~ 31 (194)
T cd01428 1 RILLLGPPGSG--KGTQAERLAKKYGLPHISTG 31 (194)
T ss_pred CEEEECCCCCC--HHHHHHHHHHHcCCeEEECc
Confidence 69999999965 57899999999998766554
No 69
>PRK08181 transposase; Validated
Probab=66.69 E-value=16 Score=39.72 Aligned_cols=66 Identities=26% Similarity=0.393 Sum_probs=40.4
Q ss_pred HHHHHHHHhhhcccCCCccccccccccccc----hhhHHHHHHHh-hhccccccccccccCCCCCCCCceeeccCCCchH
Q 003126 431 RRQAFKDSLQEGILGPENIEVSFESFPYYL----SDITKNVLIAS-TYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEI 505 (845)
Q Consensus 431 r~~~fk~~~~~~Vvdg~~i~vSFd~FPYYL----SE~TK~~L~sa-a~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEi 505 (845)
+....+..+++.=++. .-||++|-|.- +......|-.| .|++ + .+-|+|.||+|+
T Consensus 58 ~~~~~~r~lk~A~~p~---~~tle~fd~~~~~~~~~~~~~~L~~~~~~~~--~-------------~~nlll~Gp~Gt-- 117 (269)
T PRK08181 58 ARRRIERHLAEAHLPP---GKTLDSFDFEAVPMVSKAQVMAIAAGDSWLA--K-------------GANLLLFGPPGG-- 117 (269)
T ss_pred HHHHHHHHHHHCCCCC---CCCHhhCCccCCCCCCHHHHHHHHHHHHHHh--c-------------CceEEEEecCCC--
Confidence 3445566677766765 36999998863 45555566555 4543 1 134999999993
Q ss_pred HHHHHHHHHHh
Q 003126 506 YQETLAKALAK 516 (845)
Q Consensus 506 YQE~LaKALA~ 516 (845)
-.-.|+.|+|+
T Consensus 118 GKTHLa~Aia~ 128 (269)
T PRK08181 118 GKSHLAAAIGL 128 (269)
T ss_pred cHHHHHHHHHH
Confidence 33445555543
No 70
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=66.39 E-value=13 Score=45.90 Aligned_cols=90 Identities=24% Similarity=0.346 Sum_probs=63.3
Q ss_pred HHHHHHHhhhcccCCCCEEEEEcchhhhhc------cChhHHHHHHHHhccCCCCEEEEeecccCCCccccCCCCCccee
Q 003126 689 AINELFEVALNESKSSPLIVFVKDIEKSLT------GNNDAYGALKSKLENLPSNVVVIGSHTQLDSRKEKSHPGGLLFT 762 (845)
Q Consensus 689 lI~sL~EVL~SeS~~~PlILYikDvEK~l~------~n~e~y~~fq~~LekLsg~VvIIGSq~~~d~~KeK~~~g~~~f~ 762 (845)
-+..+++.+. +.++.||||.+++.++. +..++-+.|+.+|++ |.+.|||.-|..+
T Consensus 266 rl~~l~~~l~---~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~--g~i~vIgATt~~E-------------- 326 (758)
T PRK11034 266 RFKALLKQLE---QDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS--GKIRVIGSTTYQE-------------- 326 (758)
T ss_pred HHHHHHHHHH---hcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhC--CCeEEEecCChHH--------------
Confidence 3444555444 36789999999999764 245677788888874 8899999988411
Q ss_pred ccCCcccccccccCCCccccccccCCCchHHHhhhhccCCcceeecCCcchhHHHHHHHH
Q 003126 763 KFGSNQTALLDLAFPDNFSRLHDRSKETPKALKQISRLFPNKVTIQLPQDEALLSDWKQQ 822 (845)
Q Consensus 763 kfg~~~~aLldlafpd~~~rl~d~~kd~~k~~e~LtkLFPNkI~I~pPqDE~~L~~WK~Q 822 (845)
+. ..-+.+..|...| ..|.|.+|..|+.+..++..
T Consensus 327 -----------------~~-------~~~~~D~AL~rRF-q~I~v~ePs~~~~~~IL~~~ 361 (758)
T PRK11034 327 -----------------FS-------NIFEKDRALARRF-QKIDITEPSIEETVQIINGL 361 (758)
T ss_pred -----------------HH-------HHhhccHHHHhhC-cEEEeCCCCHHHHHHHHHHH
Confidence 00 0012256677789 69999999999988777754
No 71
>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]
Probab=66.28 E-value=4.8 Score=44.49 Aligned_cols=65 Identities=26% Similarity=0.336 Sum_probs=52.6
Q ss_pred hhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCC
Q 003126 462 DITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLL 530 (845)
Q Consensus 462 E~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l 530 (845)
+-.|+-.-+|.-..|-|.++-+.+- +.| -|-+||-||+|+ -.-|||||.|||--|-++-+-.+.|
T Consensus 161 d~qkqeireavelplt~~~ly~qig-idp-prgvllygppg~--gktml~kava~~t~a~firvvgsef 225 (408)
T KOG0727|consen 161 DVQKQEIREAVELPLTHADLYKQIG-IDP-PRGVLLYGPPGT--GKTMLAKAVANHTTAAFIRVVGSEF 225 (408)
T ss_pred hhhHHHHHHHHhccchHHHHHHHhC-CCC-CcceEEeCCCCC--cHHHHHHHHhhccchheeeeccHHH
Confidence 4557777888888999988876544 332 367999999995 5789999999999999998888787
No 72
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=65.12 E-value=24 Score=39.09 Aligned_cols=91 Identities=27% Similarity=0.426 Sum_probs=55.0
Q ss_pred HHHHHHHhhhcccCCCCEEEEEcchhhhhccC--------h----hHHHHHHHHhccC--CCCEEEEeecccCCCccccC
Q 003126 689 AINELFEVALNESKSSPLIVFVKDIEKSLTGN--------N----DAYGALKSKLENL--PSNVVVIGSHTQLDSRKEKS 754 (845)
Q Consensus 689 lI~sL~EVL~SeS~~~PlILYikDvEK~l~~n--------~----e~y~~fq~~LekL--sg~VvIIGSq~~~d~~KeK~ 754 (845)
.+..+|+.... ..|.||||.|++.++..+ . .++..+. .++.+ .++|+|||+-+..+
T Consensus 203 ~i~~~f~~a~~---~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~-~ld~~~~~~~v~vI~ttn~~~------ 272 (364)
T TIGR01242 203 LVREIFELAKE---KAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLA-ELDGFDPRGNVKVIAATNRPD------ 272 (364)
T ss_pred HHHHHHHHHHh---cCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHH-HhhCCCCCCCEEEEEecCChh------
Confidence 45566666553 689999999999965421 1 2222222 23333 35788888876421
Q ss_pred CCCCcceeccCCcccccccccCCCccccccccCCCchHHHhhhhccCCcceeecCCcchhHHHHHHHHHH
Q 003126 755 HPGGLLFTKFGSNQTALLDLAFPDNFSRLHDRSKETPKALKQISRLFPNKVTIQLPQDEALLSDWKQQLE 824 (845)
Q Consensus 755 ~~g~~~f~kfg~~~~aLldlafpd~~~rl~d~~kd~~k~~e~LtkLFPNkI~I~pPqDE~~L~~WK~QLE 824 (845)
.+|.++ -| .-.|-..|.|.+|..+..+..|+..+.
T Consensus 273 ----------------~ld~al----~r---------------~grfd~~i~v~~P~~~~r~~Il~~~~~ 307 (364)
T TIGR01242 273 ----------------ILDPAL----LR---------------PGRFDRIIEVPLPDFEGRLEILKIHTR 307 (364)
T ss_pred ----------------hCChhh----cC---------------cccCceEEEeCCcCHHHHHHHHHHHHh
Confidence 122211 00 124566799999999999998887653
No 73
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=65.04 E-value=11 Score=42.80 Aligned_cols=106 Identities=30% Similarity=0.497 Sum_probs=71.9
Q ss_pred ceeccCccccCCCCcchhhHHHHHHHHHhhhcccCCCCEEEEEcchhhhhccC-----hhHHHHHHHHh-------ccCC
Q 003126 668 FFCTASSLRLDSSLGDEVDKLAINELFEVALNESKSSPLIVFVKDIEKSLTGN-----NDAYGALKSKL-------ENLP 735 (845)
Q Consensus 668 ~fc~a~~lr~D~~~~~ddeKllI~sL~EVL~SeS~~~PlILYikDvEK~l~~n-----~e~y~~fq~~L-------ekLs 735 (845)
|.++.++|- .-|++ |.| -++.-|||.... ..|-|+||..++ +||++ .|.-..++..| -+=.
T Consensus 195 FSvSSSDLv-SKWmG-ESE-kLVknLFemARe---~kPSIIFiDEiD-slcg~r~enEseasRRIKTEfLVQMqGVG~d~ 267 (439)
T KOG0739|consen 195 FSVSSSDLV-SKWMG-ESE-KLVKNLFEMARE---NKPSIIFIDEID-SLCGSRSENESEASRRIKTEFLVQMQGVGNDN 267 (439)
T ss_pred EEeehHHHH-HHHhc-cHH-HHHHHHHHHHHh---cCCcEEEeehhh-hhccCCCCCchHHHHHHHHHHHHhhhccccCC
Confidence 344444553 33655 233 467889999986 999999999999 58832 23333344333 3445
Q ss_pred CCEEEEeecccCCCccccCCCCCcceeccCCcccccccccCCCccccccccCCCchHHHhhhhccCCcceeecCCcchhH
Q 003126 736 SNVVVIGSHTQLDSRKEKSHPGGLLFTKFGSNQTALLDLAFPDNFSRLHDRSKETPKALKQISRLFPNKVTIQLPQDEAL 815 (845)
Q Consensus 736 g~VvIIGSq~~~d~~KeK~~~g~~~f~kfg~~~~aLldlafpd~~~rl~d~~kd~~k~~e~LtkLFPNkI~I~pPqDE~~ 815 (845)
.+|||+|--+. |.-| +.-|-+=|--.|.|.+|+--+.
T Consensus 268 ~gvLVLgATNi------------------------------Pw~L-------------DsAIRRRFekRIYIPLPe~~AR 304 (439)
T KOG0739|consen 268 DGVLVLGATNI------------------------------PWVL-------------DSAIRRRFEKRIYIPLPEAHAR 304 (439)
T ss_pred CceEEEecCCC------------------------------chhH-------------HHHHHHHhhcceeccCCcHHHh
Confidence 68889988774 2221 3456777899999999999998
Q ss_pred HHHHHHHH
Q 003126 816 LSDWKQQL 823 (845)
Q Consensus 816 L~~WK~QL 823 (845)
.+-||-.|
T Consensus 305 ~~MF~lhl 312 (439)
T KOG0739|consen 305 ARMFKLHL 312 (439)
T ss_pred hhhheecc
Confidence 88888665
No 74
>TIGR01650 PD_CobS cobaltochelatase, CobS subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=65.00 E-value=11 Score=42.34 Aligned_cols=34 Identities=18% Similarity=0.207 Sum_probs=29.5
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
.+.|||.||+| .-.-+||++||+.++.++.-+..
T Consensus 64 ~~~ilL~G~pG--tGKTtla~~lA~~l~~~~~rV~~ 97 (327)
T TIGR01650 64 DRRVMVQGYHG--TGKSTHIEQIAARLNWPCVRVNL 97 (327)
T ss_pred CCcEEEEeCCC--ChHHHHHHHHHHHHCCCeEEEEe
Confidence 46799999999 46778999999999999988754
No 75
>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=64.90 E-value=5.9 Score=37.18 Aligned_cols=32 Identities=28% Similarity=0.407 Sum_probs=27.0
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
+|+|.||+|+ =--+|+|+||++++.+++-.|.
T Consensus 1 ~i~l~G~~Gs--GKstla~~la~~l~~~~~~~d~ 32 (154)
T cd00464 1 NIVLIGMMGA--GKTTVGRLLAKALGLPFVDLDE 32 (154)
T ss_pred CEEEEcCCCC--CHHHHHHHHHHHhCCCEEEchH
Confidence 5899999995 4678999999999999876663
No 76
>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=64.12 E-value=6.9 Score=41.19 Aligned_cols=34 Identities=21% Similarity=0.316 Sum_probs=27.1
Q ss_pred cccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhc
Q 003126 483 KYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHF 518 (845)
Q Consensus 483 kyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f 518 (845)
+.+....+..+.|||.||+| .-..+|||++|+++
T Consensus 33 ~~g~~~~~~~~~vll~GppG--tGKTtlA~~ia~~l 66 (261)
T TIGR02881 33 EEGLKTSKQVLHMIFKGNPG--TGKTTVARILGKLF 66 (261)
T ss_pred HcCCCCCCCcceEEEEcCCC--CCHHHHHHHHHHHH
Confidence 34455566678899999999 46789999999986
No 77
>PRK06921 hypothetical protein; Provisional
Probab=63.76 E-value=6.2 Score=42.38 Aligned_cols=72 Identities=18% Similarity=0.215 Sum_probs=43.0
Q ss_pred HHHHhhhcccCCCccccccccccccc-hhhHHHHHHHhhhccccccccccccCCCC----CCCCceeeccCCCchHHHHH
Q 003126 435 FKDSLQEGILGPENIEVSFESFPYYL-SDITKNVLIASTYVHLKCNNFAKYASDLP----TMCPRILLSGPAGSEIYQET 509 (845)
Q Consensus 435 fk~~~~~~Vvdg~~i~vSFd~FPYYL-SE~TK~~L~saa~vHLk~~e~skyt~~Ls----s~s~rILLSGPaGsEiYQE~ 509 (845)
.+..+++.-++..-..-+|++|-+.- .+..+.++..| . +|..++. ...+-|+|.||+| .=.-.
T Consensus 65 ~~~~~~~s~i~~~~~~~~F~nf~~~~~~~~~~~~~~~~-------~---~~~~~f~~~~~~~~~~l~l~G~~G--~GKTh 132 (266)
T PRK06921 65 IERLLKASEITEAFRKLTFKNFKTEGKPQAIKDAYECA-------V---EYVKDFEKIQESRKNSIALLGQPG--SGKTH 132 (266)
T ss_pred HHHHHHHcCCCHHHHhhhhhcCccCCccHHHHHHHHHH-------H---HHHHHHHHhcccCCCeEEEECCCC--CcHHH
Confidence 44456666666666678999998742 12223232211 1 1222222 2356799999999 45677
Q ss_pred HHHHHHhhc
Q 003126 510 LAKALAKHF 518 (845)
Q Consensus 510 LaKALA~~f 518 (845)
|+.|+|+++
T Consensus 133 La~aia~~l 141 (266)
T PRK06921 133 LLTAAANEL 141 (266)
T ss_pred HHHHHHHHH
Confidence 888888875
No 78
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=63.42 E-value=5.5 Score=48.98 Aligned_cols=37 Identities=24% Similarity=0.360 Sum_probs=31.5
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCCC
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLLP 531 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l~ 531 (845)
..+||.||+| .-...|||+||+.++.+++.+|.+.+.
T Consensus 489 ~~~Lf~GP~G--vGKT~lAk~LA~~l~~~~i~id~se~~ 525 (758)
T PRK11034 489 GSFLFAGPTG--VGKTEVTVQLSKALGIELLRFDMSEYM 525 (758)
T ss_pred ceEEEECCCC--CCHHHHHHHHHHHhCCCcEEeechhhc
Confidence 3699999999 456679999999999999999986553
No 79
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=62.78 E-value=11 Score=39.59 Aligned_cols=24 Identities=42% Similarity=0.581 Sum_probs=22.7
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhcc
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFS 519 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~ 519 (845)
++||+||+| .....+|.|||+++.
T Consensus 26 alL~~Gp~G--~Gktt~a~~lA~~l~ 49 (325)
T COG0470 26 ALLFYGPPG--VGKTTAALALAKELL 49 (325)
T ss_pred eeeeeCCCC--CCHHHHHHHHHHHHh
Confidence 899999999 789999999999998
No 80
>cd01764 Urm1 Urm1-like ubuitin domain. Urm1 (Ubiquitin-Related Modifier1) The Urm1 fold, like those of two closely related proteins MoaD (molybdopterin synthase) and ThiS (sulfur carrier protein), is similar to that of ubiquitin although there is little or no sequence similarity. The C-terminal glycines of Urm1 are conjugated to an E1-like protein Uba4 as part of a novel conjugation system in yeast. The Urm1 fold is found only in eukaryotes.
Probab=62.04 E-value=6 Score=36.63 Aligned_cols=28 Identities=25% Similarity=0.411 Sum_probs=23.9
Q ss_pred eEEECCEEcC--CCceEEeeCCCEEEEccC
Q 003126 199 EVEVNGNVHP--KDSQVVLRGGDELVFSPS 226 (845)
Q Consensus 199 tV~VNGkkvg--Kg~kviL~~GDEIvfs~~ 226 (845)
-|+|||.-+. .|-...|+.||||+|-++
T Consensus 61 ~VlvN~~di~~l~g~~t~L~dgD~v~i~P~ 90 (94)
T cd01764 61 IVLINDTDWELLGEEDYILEDGDHVVFIST 90 (94)
T ss_pred EEEECCccccccCCcccCCCCcCEEEEECC
Confidence 5799999986 678899999999999553
No 81
>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=61.86 E-value=8.4 Score=36.02 Aligned_cols=32 Identities=31% Similarity=0.523 Sum_probs=27.6
Q ss_pred eeeccCCCchHHHHHHHHHHHhhccCcEEEEecc
Q 003126 495 ILLSGPAGSEIYQETLAKALAKHFSARLLIVDSL 528 (845)
Q Consensus 495 ILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~ 528 (845)
|||.||+| .-.-+||++||+-++.+++.+-.+
T Consensus 2 vlL~G~~G--~GKt~l~~~la~~~~~~~~~i~~~ 33 (139)
T PF07728_consen 2 VLLVGPPG--TGKTTLARELAALLGRPVIRINCS 33 (139)
T ss_dssp EEEEESSS--SSHHHHHHHHHHHHTCEEEEEE-T
T ss_pred EEEECCCC--CCHHHHHHHHHHHhhcceEEEEec
Confidence 79999999 567889999999999999988663
No 82
>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=61.70 E-value=13 Score=37.37 Aligned_cols=65 Identities=15% Similarity=0.008 Sum_probs=44.5
Q ss_pred cccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhcc---CcEEEE
Q 003126 449 IEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFS---ARLLIV 525 (845)
Q Consensus 449 i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~---AkLLil 525 (845)
..-|||+|=+.-.+++...|...+. ....+-|||.||+|| -...||+++|++.. .+++.+
T Consensus 10 ~~~~~~~~~~~~~~~~~~~l~~~~~---------------~~~~~~lll~G~~G~--GKT~la~~~~~~~~~~~~~~~~i 72 (226)
T TIGR03420 10 DDPTFDNFYAGGNAELLAALRQLAA---------------GKGDRFLYLWGESGS--GKSHLLQAACAAAEERGKSAIYL 72 (226)
T ss_pred CchhhcCcCcCCcHHHHHHHHHHHh---------------cCCCCeEEEECCCCC--CHHHHHHHHHHHHHhcCCcEEEE
Confidence 3468888854345556655554432 123567999999994 57789999998874 677778
Q ss_pred eccCC
Q 003126 526 DSLLL 530 (845)
Q Consensus 526 Ds~~l 530 (845)
|...+
T Consensus 73 ~~~~~ 77 (226)
T TIGR03420 73 PLAEL 77 (226)
T ss_pred eHHHH
Confidence 77544
No 83
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=61.24 E-value=7.1 Score=33.17 Aligned_cols=27 Identities=26% Similarity=0.571 Sum_probs=22.5
Q ss_pred eEEECCEEcCCC--ceEEeeCCCEEEEcc
Q 003126 199 EVEVNGNVHPKD--SQVVLRGGDELVFSP 225 (845)
Q Consensus 199 tV~VNGkkvgKg--~kviL~~GDEIvfs~ 225 (845)
.|.|||+.+.+. ....|+.||+|.|-+
T Consensus 32 ~V~vNg~~v~~~~~~~~~L~~gD~V~ii~ 60 (65)
T cd00565 32 AVALNGEIVPRSEWASTPLQDGDRIEIVT 60 (65)
T ss_pred EEEECCEEcCHHHcCceecCCCCEEEEEE
Confidence 568999999987 457899999998844
No 84
>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=60.84 E-value=10 Score=32.90 Aligned_cols=34 Identities=35% Similarity=0.583 Sum_probs=28.5
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccCc---EEEEec
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSAR---LLIVDS 527 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~Ak---LLilDs 527 (845)
.+.|+|.||+| .=.-+|+++||+.+... .+.++.
T Consensus 2 ~~~~~l~G~~G--~GKTtl~~~l~~~~~~~~~~~~~~~~ 38 (148)
T smart00382 2 GEVILIVGPPG--SGKTTLARALARELGPPGGGVIYIDG 38 (148)
T ss_pred CCEEEEECCCC--CcHHHHHHHHHhccCCCCCCEEEECC
Confidence 46899999999 46788999999999986 666665
No 85
>PRK14528 adenylate kinase; Provisional
Probab=60.03 E-value=8.4 Score=38.77 Aligned_cols=32 Identities=28% Similarity=0.451 Sum_probs=27.0
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhccCcEEEEe
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFSARLLIVD 526 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilD 526 (845)
++|++.||+|+- .-++++.||++++++.+..|
T Consensus 2 ~~i~i~G~pGsG--Ktt~a~~la~~~~~~~is~~ 33 (186)
T PRK14528 2 KNIIFMGPPGAG--KGTQAKILCERLSIPQISTG 33 (186)
T ss_pred cEEEEECCCCCC--HHHHHHHHHHHhCCCeeeCC
Confidence 689999999965 47899999999998876554
No 86
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=59.56 E-value=7.8 Score=41.30 Aligned_cols=35 Identities=31% Similarity=0.335 Sum_probs=29.6
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccC
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLL 529 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~ 529 (845)
.-+||+||+| .-...||+|||++++.+++.++...
T Consensus 44 ~~lll~G~~G--~GKT~la~~l~~~~~~~~~~i~~~~ 78 (316)
T PHA02544 44 NMLLHSPSPG--TGKTTVAKALCNEVGAEVLFVNGSD 78 (316)
T ss_pred eEEEeeCcCC--CCHHHHHHHHHHHhCccceEeccCc
Confidence 4566699999 6788999999999999988888754
No 87
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=58.81 E-value=9.2 Score=33.64 Aligned_cols=26 Identities=27% Similarity=0.487 Sum_probs=21.5
Q ss_pred eEEECCEEcCCCceEEeeCCCEEEEccC
Q 003126 199 EVEVNGNVHPKDSQVVLRGGDELVFSPS 226 (845)
Q Consensus 199 tV~VNGkkvgKg~kviL~~GDEIvfs~~ 226 (845)
.|.|||+.++ ...+|+.||||.|-.|
T Consensus 53 ~vavN~~~v~--~~~~l~dgDeVai~Pp 78 (82)
T PLN02799 53 VLALNEEYTT--ESAALKDGDELAIIPP 78 (82)
T ss_pred EEEECCEEcC--CCcCcCCCCEEEEeCC
Confidence 4689999985 5678999999999664
No 88
>CHL00181 cbbX CbbX; Provisional
Probab=58.16 E-value=18 Score=39.33 Aligned_cols=82 Identities=21% Similarity=0.237 Sum_probs=55.2
Q ss_pred EEEEcchhhhhcc------ChhHHHHHHHHhccCCCCEEEEeecccCCCccccCCCCCcceeccCCcccccccccCCCcc
Q 003126 707 IVFVKDIEKSLTG------NNDAYGALKSKLENLPSNVVVIGSHTQLDSRKEKSHPGGLLFTKFGSNQTALLDLAFPDNF 780 (845)
Q Consensus 707 ILYikDvEK~l~~------n~e~y~~fq~~LekLsg~VvIIGSq~~~d~~KeK~~~g~~~f~kfg~~~~aLldlafpd~~ 780 (845)
||||.+++.+... ..+....|-..++.-.++++||+.-.. ++ | ..+++
T Consensus 125 VLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~-----~~------~--------~~~~~------- 178 (287)
T CHL00181 125 VLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYK-----DR------M--------DKFYE------- 178 (287)
T ss_pred EEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCc-----HH------H--------HHHHh-------
Confidence 8999999874321 245555566666766777888876431 00 0 00111
Q ss_pred ccccccCCCchHHHhhhhccCCcceeecCCcchhHHHHHHHHHHHH
Q 003126 781 SRLHDRSKETPKALKQISRLFPNKVTIQLPQDEALLSDWKQQLERD 826 (845)
Q Consensus 781 ~rl~d~~kd~~k~~e~LtkLFPNkI~I~pPqDE~~L~~WK~QLEeD 826 (845)
.+..|..-|++.|.+.++..+..+..|+..+++.
T Consensus 179 ------------~np~L~sR~~~~i~F~~~t~~el~~I~~~~l~~~ 212 (287)
T CHL00181 179 ------------SNPGLSSRIANHVDFPDYTPEELLQIAKIMLEEQ 212 (287)
T ss_pred ------------cCHHHHHhCCceEEcCCcCHHHHHHHHHHHHHHh
Confidence 1245677799999999999999999999998864
No 89
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=57.98 E-value=12 Score=40.70 Aligned_cols=38 Identities=26% Similarity=0.404 Sum_probs=33.2
Q ss_pred CCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCC
Q 003126 491 MCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLL 530 (845)
Q Consensus 491 ~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l 530 (845)
+.+++||-||+| .-..+|||+||..++.++..+..+..
T Consensus 42 ~~~~vll~G~PG--~gKT~la~~lA~~l~~~~~~i~~t~~ 79 (329)
T COG0714 42 AGGHVLLEGPPG--VGKTLLARALARALGLPFVRIQCTPD 79 (329)
T ss_pred cCCCEEEECCCC--ccHHHHHHHHHHHhCCCeEEEecCCC
Confidence 357899999999 67889999999999999999988754
No 90
>cd00165 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes.
Probab=57.77 E-value=11 Score=30.05 Aligned_cols=28 Identities=32% Similarity=0.440 Sum_probs=21.5
Q ss_pred CCceEEECCEEcCCCceEEeeCCCEEEEc
Q 003126 196 GKGEVEVNGNVHPKDSQVVLRGGDELVFS 224 (845)
Q Consensus 196 snGtV~VNGkkvgKg~kviL~~GDEIvfs 224 (845)
..|.|+|||+.+.+. ...+..||.|.+.
T Consensus 24 ~~g~V~vn~~~~~~~-~~~v~~~d~i~i~ 51 (70)
T cd00165 24 KHGHVLVNGKVVTKP-SYKVKPGDVIEVD 51 (70)
T ss_pred HcCCEEECCEEccCC-ccCcCCCCEEEEc
Confidence 367889999998543 5577888998874
No 91
>PRK13947 shikimate kinase; Provisional
Probab=57.55 E-value=10 Score=36.56 Aligned_cols=32 Identities=28% Similarity=0.389 Sum_probs=27.3
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
.|+|.||+|+- .-+++|+||+.++.+++-.|.
T Consensus 3 ~I~l~G~~GsG--Kst~a~~La~~lg~~~id~d~ 34 (171)
T PRK13947 3 NIVLIGFMGTG--KTTVGKRVATTLSFGFIDTDK 34 (171)
T ss_pred eEEEEcCCCCC--HHHHHHHHHHHhCCCEEECch
Confidence 59999999964 588999999999999866664
No 92
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=57.44 E-value=11 Score=40.95 Aligned_cols=35 Identities=29% Similarity=0.475 Sum_probs=29.6
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccCcEEEEecc
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSL 528 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~ 528 (845)
.+.+||+||+| .-.-.||+++|+++++++......
T Consensus 51 ~~~~ll~GppG--~GKT~la~~ia~~l~~~~~~~~~~ 85 (328)
T PRK00080 51 LDHVLLYGPPG--LGKTTLANIIANEMGVNIRITSGP 85 (328)
T ss_pred CCcEEEECCCC--ccHHHHHHHHHHHhCCCeEEEecc
Confidence 45799999999 567889999999999998776654
No 93
>PF14478 DUF4430: Domain of unknown function (DUF4430); PDB: 3U7Z_B 2BB5_A.
Probab=57.33 E-value=9 Score=33.05 Aligned_cols=25 Identities=24% Similarity=0.376 Sum_probs=17.6
Q ss_pred eEEECCEEcCCC-ceEEeeCCCEEEE
Q 003126 199 EVEVNGNVHPKD-SQVVLRGGDELVF 223 (845)
Q Consensus 199 tV~VNGkkvgKg-~kviL~~GDEIvf 223 (845)
..+|||+....| ..+.|++||.|.|
T Consensus 42 ~~~vNG~~~~~ga~~~~l~~GD~i~~ 67 (68)
T PF14478_consen 42 MYYVNGESANVGAGSYKLKDGDKITW 67 (68)
T ss_dssp EEEETTEE-SS-CCC-B--TTEEEEE
T ss_pred EEEECCEEhhcCcceeEeCCCCEEEe
Confidence 468999999999 5789999999988
No 94
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=56.55 E-value=70 Score=35.03 Aligned_cols=110 Identities=23% Similarity=0.380 Sum_probs=70.8
Q ss_pred HHHHHHhhhcccCCCCEEEEEcchhhhhccChhHHHHHHHHh----ccCCCCEEEEeecccCCCccccCCCCCcceeccC
Q 003126 690 INELFEVALNESKSSPLIVFVKDIEKSLTGNNDAYGALKSKL----ENLPSNVVVIGSHTQLDSRKEKSHPGGLLFTKFG 765 (845)
Q Consensus 690 I~sL~EVL~SeS~~~PlILYikDvEK~l~~n~e~y~~fq~~L----ekLsg~VvIIGSq~~~d~~KeK~~~g~~~f~kfg 765 (845)
|..|+++|.. +....|||+-|.. |..+...|..||..| +.-|.||+|...-|.-.--+|+ |.
T Consensus 94 l~~l~~~l~~--~~~kFIlf~DDLs--Fe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv~E~----------~~ 159 (249)
T PF05673_consen 94 LPELLDLLRD--RPYKFILFCDDLS--FEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLVPES----------FS 159 (249)
T ss_pred HHHHHHHHhc--CCCCEEEEecCCC--CCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhccchh----------hh
Confidence 4566677764 5689999999965 888999999999999 5889999999987742111221 11
Q ss_pred CcccccccccCCCccccccccCCCchHHHhhhhccCCcceeecCCcchhHHHHHHHHH
Q 003126 766 SNQTALLDLAFPDNFSRLHDRSKETPKALKQISRLFPNKVTIQLPQDEALLSDWKQQL 823 (845)
Q Consensus 766 ~~~~aLldlafpd~~~rl~d~~kd~~k~~e~LtkLFPNkI~I~pPqDE~~L~~WK~QL 823 (845)
.+.. . ++ +-+|. .|+-+-.=.|+.=|.-.|..++|.-+.-|..=+..+
T Consensus 160 d~~~----~--~~--~eih~--~d~~eEklSLsDRFGL~l~F~~~~q~~YL~IV~~~~ 207 (249)
T PF05673_consen 160 DRED----I--QD--DEIHP--SDTIEEKLSLSDRFGLWLSFYPPDQEEYLAIVRHYA 207 (249)
T ss_pred hccC----C--Cc--cccCc--chHHHHHHhHHHhCCcEEEecCCCHHHHHHHHHHHH
Confidence 1100 0 00 01111 122221224667799999999999888877665555
No 95
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=56.47 E-value=10 Score=33.27 Aligned_cols=26 Identities=35% Similarity=0.546 Sum_probs=22.1
Q ss_pred eEEECCEEcCCCceEEeeCCCEEEEccC
Q 003126 199 EVEVNGNVHPKDSQVVLRGGDELVFSPS 226 (845)
Q Consensus 199 tV~VNGkkvgKg~kviL~~GDEIvfs~~ 226 (845)
.|.|||+.+.. ...|+.||||+|-.|
T Consensus 51 ~v~vn~~~v~~--~~~l~dgDevai~Pp 76 (80)
T TIGR01682 51 MVAVNEEYVTD--DALLNEGDEVAFIPP 76 (80)
T ss_pred EEEECCEEcCC--CcCcCCCCEEEEeCC
Confidence 47999999995 679999999998554
No 96
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=55.60 E-value=10 Score=31.89 Aligned_cols=28 Identities=29% Similarity=0.380 Sum_probs=23.2
Q ss_pred ceEEECCEEcCCC--ceEEeeCCCEEEEcc
Q 003126 198 GEVEVNGNVHPKD--SQVVLRGGDELVFSP 225 (845)
Q Consensus 198 GtV~VNGkkvgKg--~kviL~~GDEIvfs~ 225 (845)
-.|.|||+.+.|. ....|+.||+|.|-+
T Consensus 31 ~~v~vN~~~v~~~~~~~~~L~~gD~vei~~ 60 (65)
T PRK06944 31 FAVAVNGDFVARTQHAARALAAGDRLDLVQ 60 (65)
T ss_pred eEEEECCEEcCchhcccccCCCCCEEEEEe
Confidence 3578999999876 478899999998854
No 97
>PRK08939 primosomal protein DnaI; Reviewed
Probab=55.17 E-value=21 Score=39.32 Aligned_cols=85 Identities=14% Similarity=0.180 Sum_probs=51.4
Q ss_pred HHHHhhhcccCCCccccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHH
Q 003126 435 FKDSLQEGILGPENIEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKAL 514 (845)
Q Consensus 435 fk~~~~~~Vvdg~~i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKAL 514 (845)
.+..++..-++.+-.+.||++|.|- .+..+.++. .+.-.++ .|.. ..-.+-|+|.||.| .---.|+.||
T Consensus 108 ~~~~i~~a~~p~~~~~atf~~~~~~-~~~~~~~~~-~~~~fi~-----~~~~--~~~~~gl~L~G~~G--~GKThLa~Ai 176 (306)
T PRK08939 108 IKKRIQSIYMPKDLLQASLADIDLD-DRDRLDALM-AALDFLE-----AYPP--GEKVKGLYLYGDFG--VGKSYLLAAI 176 (306)
T ss_pred HHHHHHHcCCCHhHhcCcHHHhcCC-ChHHHHHHH-HHHHHHH-----Hhhc--cCCCCeEEEECCCC--CCHHHHHHHH
Confidence 4455566666666667899999874 323333332 2221111 1211 11346799999999 4677899999
Q ss_pred Hhhc---cCcEEEEeccCC
Q 003126 515 AKHF---SARLLIVDSLLL 530 (845)
Q Consensus 515 A~~f---~AkLLilDs~~l 530 (845)
|+++ |.+.+.+....|
T Consensus 177 a~~l~~~g~~v~~~~~~~l 195 (306)
T PRK08939 177 ANELAKKGVSSTLLHFPEF 195 (306)
T ss_pred HHHHHHcCCCEEEEEHHHH
Confidence 9998 566666655433
No 98
>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=54.92 E-value=13 Score=40.22 Aligned_cols=34 Identities=26% Similarity=0.494 Sum_probs=26.5
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhccCcEEEEecc
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSL 528 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~ 528 (845)
.-+||.||+| .-.-+||+.+|+++++++-.+-..
T Consensus 51 ~h~lf~GPPG--~GKTTLA~IIA~e~~~~~~~~sg~ 84 (233)
T PF05496_consen 51 DHMLFYGPPG--LGKTTLARIIANELGVNFKITSGP 84 (233)
T ss_dssp -EEEEESSTT--SSHHHHHHHHHHHCT--EEEEECC
T ss_pred ceEEEECCCc--cchhHHHHHHHhccCCCeEeccch
Confidence 3489999999 556899999999999999877653
No 99
>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=54.71 E-value=12 Score=39.61 Aligned_cols=35 Identities=31% Similarity=0.483 Sum_probs=29.2
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccCcEEEEecc
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSL 528 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~ 528 (845)
.+-+||+||+| .=.-.||+++|++++.++.+++..
T Consensus 30 ~~~~ll~Gp~G--~GKT~la~~ia~~~~~~~~~~~~~ 64 (305)
T TIGR00635 30 LDHLLLYGPPG--LGKTTLAHIIANEMGVNLKITSGP 64 (305)
T ss_pred CCeEEEECCCC--CCHHHHHHHHHHHhCCCEEEeccc
Confidence 35589999999 456789999999999998777654
No 100
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=54.25 E-value=14 Score=42.29 Aligned_cols=68 Identities=18% Similarity=0.258 Sum_probs=43.0
Q ss_pred cccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhc-----cCcEE
Q 003126 449 IEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHF-----SARLL 523 (845)
Q Consensus 449 i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f-----~AkLL 523 (845)
-..|||+|- ..+..+.++..|-.+ + .+-....+.++|.||+| .-.-.|++|+|+++ +++.+
T Consensus 117 ~~~tfd~fv--~g~~n~~a~~~~~~~-------~---~~~~~~~~~l~l~G~~G--~GKThL~~ai~~~~~~~~~~~~v~ 182 (450)
T PRK00149 117 PKYTFDNFV--VGKSNRLAHAAALAV-------A---ENPGKAYNPLFIYGGVG--LGKTHLLHAIGNYILEKNPNAKVV 182 (450)
T ss_pred CCCcccccc--cCCCcHHHHHHHHHH-------H---hCcCccCCeEEEECCCC--CCHHHHHHHHHHHHHHhCCCCeEE
Confidence 345899984 355555444433221 1 11112335699999999 46777889998887 66677
Q ss_pred EEeccCC
Q 003126 524 IVDSLLL 530 (845)
Q Consensus 524 ilDs~~l 530 (845)
-+.+..|
T Consensus 183 yi~~~~~ 189 (450)
T PRK00149 183 YVTSEKF 189 (450)
T ss_pred EEEHHHH
Confidence 7777655
No 101
>PRK06526 transposase; Provisional
Probab=53.80 E-value=43 Score=35.95 Aligned_cols=53 Identities=19% Similarity=0.250 Sum_probs=32.5
Q ss_pred HHHHHHHhhhcccCCCcccccccccccc----chhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCC
Q 003126 432 RQAFKDSLQEGILGPENIEVSFESFPYY----LSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAG 502 (845)
Q Consensus 432 ~~~fk~~~~~~Vvdg~~i~vSFd~FPYY----LSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaG 502 (845)
....+..+++.=++.. -+|++|-|- +...+-..|-++.|++ -.+.|+|.||+|
T Consensus 52 ~~~~~~~lk~a~~p~~---~~le~fd~~~~~~~~~~~~~~l~~~~fi~---------------~~~nlll~Gp~G 108 (254)
T PRK06526 52 SHGGEGRIRAARFPAR---KSLEEFDFDHQRSLKRDTIAHLGTLDFVT---------------GKENVVFLGPPG 108 (254)
T ss_pred HHHHHHHHHhCCCCCC---CChhhccCccCCCcchHHHHHHhcCchhh---------------cCceEEEEeCCC
Confidence 3455666777777774 577777653 3344444444555542 235689999999
No 102
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=53.77 E-value=25 Score=35.88 Aligned_cols=66 Identities=20% Similarity=0.086 Sum_probs=41.8
Q ss_pred cccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhc---cCcEEEE
Q 003126 449 IEVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHF---SARLLIV 525 (845)
Q Consensus 449 i~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f---~AkLLil 525 (845)
-..|||+|.=--++.....|..+.. . ....+-++|.||+|| -...||+|+|++. +.+...+
T Consensus 13 ~~~~~d~f~~~~~~~~~~~l~~~~~-------------~-~~~~~~~~l~G~~G~--GKT~La~ai~~~~~~~~~~~~~i 76 (227)
T PRK08903 13 PPPTFDNFVAGENAELVARLRELAA-------------G-PVADRFFYLWGEAGS--GRSHLLQALVADASYGGRNARYL 76 (227)
T ss_pred ChhhhcccccCCcHHHHHHHHHHHh-------------c-cCCCCeEEEECCCCC--CHHHHHHHHHHHHHhCCCcEEEE
Confidence 3478999863233333333333221 0 123457999999995 6788999999975 5677777
Q ss_pred eccCC
Q 003126 526 DSLLL 530 (845)
Q Consensus 526 Ds~~l 530 (845)
|...+
T Consensus 77 ~~~~~ 81 (227)
T PRK08903 77 DAASP 81 (227)
T ss_pred ehHHh
Confidence 76443
No 103
>PRK03839 putative kinase; Provisional
Probab=53.17 E-value=12 Score=36.87 Aligned_cols=32 Identities=22% Similarity=0.323 Sum_probs=27.3
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
+|+|.||+|+ -.-+++|+||+.++.+.+-+|-
T Consensus 2 ~I~l~G~pGs--GKsT~~~~La~~~~~~~id~d~ 33 (180)
T PRK03839 2 IIAITGTPGV--GKTTVSKLLAEKLGYEYVDLTE 33 (180)
T ss_pred EEEEECCCCC--CHHHHHHHHHHHhCCcEEehhh
Confidence 6999999995 4578999999999998876663
No 104
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=53.05 E-value=10 Score=32.30 Aligned_cols=27 Identities=33% Similarity=0.523 Sum_probs=23.2
Q ss_pred eEEECCEEcCCCc--eEEeeCCCEEEEcc
Q 003126 199 EVEVNGNVHPKDS--QVVLRGGDELVFSP 225 (845)
Q Consensus 199 tV~VNGkkvgKg~--kviL~~GDEIvfs~ 225 (845)
.|-|||+.+.|.. ...|+.||+|.|-+
T Consensus 32 avavN~~iv~~~~~~~~~L~dgD~Ieiv~ 60 (65)
T PRK06488 32 ATAVNGELVHKEARAQFVLHEGDRIEILS 60 (65)
T ss_pred EEEECCEEcCHHHcCccccCCCCEEEEEE
Confidence 3899999999974 78999999998744
No 105
>PRK07261 topology modulation protein; Provisional
Probab=51.74 E-value=13 Score=36.94 Aligned_cols=37 Identities=32% Similarity=0.542 Sum_probs=31.5
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCCC
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLLP 531 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l~ 531 (845)
.||++.||+|+ ---+||+.||..++.+.+-+|...+.
T Consensus 1 ~ri~i~G~~Gs--GKSTla~~l~~~~~~~~i~~D~~~~~ 37 (171)
T PRK07261 1 MKIAIIGYSGS--GKSTLARKLSQHYNCPVLHLDTLHFQ 37 (171)
T ss_pred CEEEEEcCCCC--CHHHHHHHHHHHhCCCeEecCCEEec
Confidence 48999999994 57789999999999999999975543
No 106
>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=51.74 E-value=14 Score=35.59 Aligned_cols=32 Identities=38% Similarity=0.537 Sum_probs=25.3
Q ss_pred eeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCC
Q 003126 495 ILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLL 530 (845)
Q Consensus 495 ILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l 530 (845)
|+|.||+|+= ..+|+++||+.+++.++ |.-+|
T Consensus 1 i~l~G~~GsG--KSTla~~l~~~l~~~~v--~~D~~ 32 (163)
T TIGR01313 1 FVLMGVAGSG--KSTIASALAHRLGAKFI--EGDDL 32 (163)
T ss_pred CEEECCCCCC--HHHHHHHHHHhcCCeEE--eCccc
Confidence 7899999954 58999999999997664 55444
No 107
>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=50.98 E-value=15 Score=34.72 Aligned_cols=30 Identities=37% Similarity=0.520 Sum_probs=24.5
Q ss_pred eeeccCCCchHHHHHHHHHHHhhccCcEEEEe
Q 003126 495 ILLSGPAGSEIYQETLAKALAKHFSARLLIVD 526 (845)
Q Consensus 495 ILLSGPaGsEiYQE~LaKALA~~f~AkLLilD 526 (845)
|+|+||+|+- ..+++|.|++.+++.++=.|
T Consensus 2 i~l~G~~GsG--KST~a~~l~~~~~~~~i~~D 31 (150)
T cd02021 2 IVVMGVSGSG--KSTVGKALAERLGAPFIDGD 31 (150)
T ss_pred EEEEcCCCCC--HHHHHHHHHhhcCCEEEeCc
Confidence 7899999965 58999999999998765333
No 108
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=50.52 E-value=14 Score=37.44 Aligned_cols=31 Identities=32% Similarity=0.537 Sum_probs=26.0
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhccCcEEEEe
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFSARLLIVD 526 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~AkLLilD 526 (845)
||++.||+||- .-++++.||++||+..|-.+
T Consensus 1 rI~i~G~pGsG--KsT~a~~La~~~g~~~is~g 31 (210)
T TIGR01351 1 RLVLLGPPGSG--KGTQAKRIAEKYGLPHISTG 31 (210)
T ss_pred CEEEECCCCCC--HHHHHHHHHHHcCCCeeehh
Confidence 69999999965 68899999999998766543
No 109
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=49.87 E-value=14 Score=40.94 Aligned_cols=37 Identities=30% Similarity=0.447 Sum_probs=32.7
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCCC
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLLP 531 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l~ 531 (845)
.-|+++||.|| -.-.||.+||++|++.++-.|+..+|
T Consensus 5 ~~i~i~Gptgs--GKt~la~~la~~~~~~iis~Ds~Qvy 41 (307)
T PRK00091 5 KVIVIVGPTAS--GKTALAIELAKRLNGEIISADSMQVY 41 (307)
T ss_pred eEEEEECCCCc--CHHHHHHHHHHhCCCcEEecccccee
Confidence 46999999994 56789999999999999999998776
No 110
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=49.82 E-value=13 Score=31.59 Aligned_cols=29 Identities=28% Similarity=0.601 Sum_probs=23.3
Q ss_pred CceEEECCEEcCCCc--eEEeeCCCEEEEcc
Q 003126 197 KGEVEVNGNVHPKDS--QVVLRGGDELVFSP 225 (845)
Q Consensus 197 nGtV~VNGkkvgKg~--kviL~~GDEIvfs~ 225 (845)
.-.|.|||+.+.|.. ...|+.||+|.+-+
T Consensus 29 ~v~v~vN~~iv~~~~~~~~~L~~gD~veii~ 59 (64)
T TIGR01683 29 RVAVAVNGEIVPRSEWDDTILKEGDRIEIVT 59 (64)
T ss_pred eEEEEECCEEcCHHHcCceecCCCCEEEEEE
Confidence 346789999998774 57899999998744
No 111
>PRK14530 adenylate kinase; Provisional
Probab=49.41 E-value=18 Score=36.85 Aligned_cols=32 Identities=34% Similarity=0.538 Sum_probs=27.0
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccCcEEEE
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSARLLIV 525 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLil 525 (845)
.++|+|.||+||- .-++++.||+.++.+.+-.
T Consensus 3 ~~~I~i~G~pGsG--KsT~~~~La~~~~~~~i~~ 34 (215)
T PRK14530 3 QPRILLLGAPGAG--KGTQSSNLAEEFGVEHVTT 34 (215)
T ss_pred CCEEEEECCCCCC--HHHHHHHHHHHhCCeEEec
Confidence 4689999999964 7789999999999876644
No 112
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=49.06 E-value=15 Score=44.72 Aligned_cols=36 Identities=31% Similarity=0.411 Sum_probs=30.6
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCCC
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLLP 531 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l~ 531 (845)
.+||.||+| .-...|||+||+.++.++..+|.+.+.
T Consensus 486 ~~lf~Gp~G--vGKT~lA~~la~~l~~~~~~~d~se~~ 521 (731)
T TIGR02639 486 SFLFTGPTG--VGKTELAKQLAEALGVHLERFDMSEYM 521 (731)
T ss_pred eEEEECCCC--ccHHHHHHHHHHHhcCCeEEEeCchhh
Confidence 489999999 456789999999999999999975543
No 113
>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=47.86 E-value=23 Score=31.30 Aligned_cols=39 Identities=33% Similarity=0.457 Sum_probs=31.5
Q ss_pred CCCceeeccCCCchHHHHHHHHHHHhhc---cCcEEEEeccCCC
Q 003126 491 MCPRILLSGPAGSEIYQETLAKALAKHF---SARLLIVDSLLLP 531 (845)
Q Consensus 491 ~s~rILLSGPaGsEiYQE~LaKALA~~f---~AkLLilDs~~l~ 531 (845)
..+-|++.||+|+ =.-+|++++++++ +.+.+.+|...+.
T Consensus 18 ~~~~v~i~G~~G~--GKT~l~~~i~~~~~~~~~~v~~~~~~~~~ 59 (151)
T cd00009 18 PPKNLLLYGPPGT--GKTTLARAIANELFRPGAPFLYLNASDLL 59 (151)
T ss_pred CCCeEEEECCCCC--CHHHHHHHHHHHhhcCCCCeEEEehhhhh
Confidence 4467999999994 4668999999998 8888888875544
No 114
>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=46.73 E-value=50 Score=37.80 Aligned_cols=89 Identities=13% Similarity=0.167 Sum_probs=54.3
Q ss_pred hhhHHHHHHHHhhhcccCC-Cccccccccccccc-----hhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCC
Q 003126 428 ISARRQAFKDSLQEGILGP-ENIEVSFESFPYYL-----SDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPA 501 (845)
Q Consensus 428 ~~~r~~~fk~~~~~~Vvdg-~~i~vSFd~FPYYL-----SE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPa 501 (845)
+-+-.|++-+.+....+.- .+-+-+-..||+|= .+.+++-|++..... ...+....+-+||.||+
T Consensus 17 ~~~a~qr~~dmI~~~g~~~~~~~~~~~~~y~~F~~~~~G~~~~i~~lv~~l~~~---------a~g~~~~r~il~L~GPP 87 (361)
T smart00763 17 AANAHQRLLDMIGEAGVEDVVENNRGIKRYRFFDHDFFGMEEAIERFVNYFKSA---------AQGLEERKQILYLLGPV 87 (361)
T ss_pred HHHHHHHHHHHHhccCcEEeccCCcceeeccccchhccCcHHHHHHHHHHHHHH---------HhcCCCCCcEEEEECCC
Confidence 4445566655554433320 00011235688775 677777777533211 12344444556999999
Q ss_pred CchHHHHHHHHHHHhhccC-------cEEEEec
Q 003126 502 GSEIYQETLAKALAKHFSA-------RLLIVDS 527 (845)
Q Consensus 502 GsEiYQE~LaKALA~~f~A-------kLLilDs 527 (845)
|+ =.-+||++||+.++. ++..+--
T Consensus 88 Gs--GKStla~~La~~l~~ys~t~eG~~Y~~~~ 118 (361)
T smart00763 88 GG--GKSSLVECLKRGLEEYSKTPEGRRYTFKW 118 (361)
T ss_pred CC--CHHHHHHHHHHHHhhhcccccCceEEEEe
Confidence 94 577899999999998 8888865
No 115
>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=46.44 E-value=23 Score=39.71 Aligned_cols=37 Identities=19% Similarity=0.347 Sum_probs=28.0
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhc-----cCcEEEEeccCC
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHF-----SARLLIVDSLLL 530 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f-----~AkLLilDs~~l 530 (845)
...+||+||+| .-.-.|++|+|+++ +++.+.+...+|
T Consensus 136 ~n~l~l~G~~G--~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~ 177 (405)
T TIGR00362 136 YNPLFIYGGVG--LGKTHLLHAIGNEILENNPNAKVVYVSSEKF 177 (405)
T ss_pred CCeEEEECCCC--CcHHHHHHHHHHHHHHhCCCCcEEEEEHHHH
Confidence 35689999999 46778999999887 566776665443
No 116
>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=45.89 E-value=40 Score=36.47 Aligned_cols=83 Identities=18% Similarity=0.131 Sum_probs=53.3
Q ss_pred EEEEEcchhhhhcc------ChhHHHHHHHHhccCCCCEEEEeecccCCCccccCCCCCcceeccCCcccccccccCCCc
Q 003126 706 LIVFVKDIEKSLTG------NNDAYGALKSKLENLPSNVVVIGSHTQLDSRKEKSHPGGLLFTKFGSNQTALLDLAFPDN 779 (845)
Q Consensus 706 lILYikDvEK~l~~------n~e~y~~fq~~LekLsg~VvIIGSq~~~d~~KeK~~~g~~~f~kfg~~~~aLldlafpd~ 779 (845)
=||||.+++.+... ..+....|-..++.-.++++||++-... -+++
T Consensus 123 gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~-----------------------~~~~----- 174 (284)
T TIGR02880 123 GVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKD-----------------------RMDS----- 174 (284)
T ss_pred cEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcH-----------------------HHHH-----
Confidence 48899999874211 1333344445556666778888765420 0111
Q ss_pred cccccccCCCchHHHhhhhccCCcceeecCCcchhHHHHHHHHHHHH
Q 003126 780 FSRLHDRSKETPKALKQISRLFPNKVTIQLPQDEALLSDWKQQLERD 826 (845)
Q Consensus 780 ~~rl~d~~kd~~k~~e~LtkLFPNkI~I~pPqDE~~L~~WK~QLEeD 826 (845)
| -..+..|..-|+..|++.++..|+...-|+..+.+-
T Consensus 175 ~----------~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l~~~ 211 (284)
T TIGR02880 175 F----------FESNPGFSSRVAHHVDFPDYSEAELLVIAGLMLKEQ 211 (284)
T ss_pred H----------HhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHHHHh
Confidence 0 011345667789999999999999999999988773
No 117
>PRK15367 type III secretion system protein SsaD; Provisional
Probab=45.39 E-value=53 Score=38.11 Aligned_cols=70 Identities=19% Similarity=0.309 Sum_probs=46.5
Q ss_pred CCCceeeecceeEeecccccceEecCCCCccceeEEEEeecCCCceEEEEEecCCceEEECCEEcCCCceEEeeCCCEE
Q 003126 143 QNSHLSMTGAVFTVGHNRQCDLYLKDPSISKNLCRLRRIENGGPSGALLEITGGKGEVEVNGNVHPKDSQVVLRGGDEL 221 (845)
Q Consensus 143 q~P~i~I~~~~fTvGr~~~CDl~L~D~~IS~~hCkI~r~e~gg~~vA~LEd~ssnGtV~VNGkkvgKg~kviL~~GDEI 221 (845)
+-.-+.+-.-.||+|- ..||++|.-..-..+ .-+|+.++ .+| ....++|+|||....-+...+|+..=||
T Consensus 15 ~GrEl~Lp~G~~tlG~-~gcDi~lpL~~~~~~---~L~i~e~g---i~l--~~~~~~vwVnG~~~~~~~~LPl~q~Ie~ 84 (395)
T PRK15367 15 QGREVWLNEGNLSLGE-KGCDICIPLTINEKI---ILREQADS---LFV--DAGKARVRVNGRRFNPNKPLPSSGVLQV 84 (395)
T ss_pred cCcEEecCCCceeecC-CCceEEEECCCCCEE---EEEEcCCc---EEE--ecCCceEEECCEEcCCCCCCCCcchhhh
Confidence 3444566677899999 559999966443222 12243343 222 2345799999999999999888876554
No 118
>PRK03731 aroL shikimate kinase II; Reviewed
Probab=45.07 E-value=22 Score=34.46 Aligned_cols=33 Identities=27% Similarity=0.403 Sum_probs=27.5
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
.+|+|.|++|+ =--+++|.||+.++.+++=.|.
T Consensus 3 ~~i~~~G~~Gs--GKst~~~~la~~lg~~~~d~D~ 35 (171)
T PRK03731 3 QPLFLVGARGC--GKTTVGMALAQALGYRFVDTDQ 35 (171)
T ss_pred CeEEEECCCCC--CHHHHHHHHHHHhCCCEEEccH
Confidence 68999999994 4678999999999998765553
No 119
>PRK06835 DNA replication protein DnaC; Validated
Probab=44.47 E-value=20 Score=40.07 Aligned_cols=43 Identities=14% Similarity=0.284 Sum_probs=29.7
Q ss_pred ccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhc---cCcEEEEecc
Q 003126 484 YASDLPTMCPRILLSGPAGSEIYQETLAKALAKHF---SARLLIVDSL 528 (845)
Q Consensus 484 yt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f---~AkLLilDs~ 528 (845)
|..+......-+||.||+|+ -.-.|+.|+|+++ |...+.++..
T Consensus 175 f~~~f~~~~~~Lll~G~~Gt--GKThLa~aIa~~l~~~g~~V~y~t~~ 220 (329)
T PRK06835 175 FIENFDKNNENLLFYGNTGT--GKTFLSNCIAKELLDRGKSVIYRTAD 220 (329)
T ss_pred HHHHHhccCCcEEEECCCCC--cHHHHHHHHHHHHHHCCCeEEEEEHH
Confidence 44444445577999999994 5667999999987 4445555543
No 120
>PRK06217 hypothetical protein; Validated
Probab=44.33 E-value=20 Score=35.63 Aligned_cols=33 Identities=36% Similarity=0.434 Sum_probs=28.0
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
.+|+|.|++|| =.-+|+++||+.++.+.+=+|.
T Consensus 2 ~~I~i~G~~Gs--GKSTla~~L~~~l~~~~~~~D~ 34 (183)
T PRK06217 2 MRIHITGASGS--GTTTLGAALAERLDIPHLDTDD 34 (183)
T ss_pred eEEEEECCCCC--CHHHHHHHHHHHcCCcEEEcCc
Confidence 37999999995 4678999999999998776775
No 121
>PHA02244 ATPase-like protein
Probab=43.97 E-value=23 Score=40.73 Aligned_cols=34 Identities=18% Similarity=0.344 Sum_probs=29.6
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
...|||.||+| .=..+||+|||+.++.+++.++.
T Consensus 119 ~~PVLL~GppG--tGKTtLA~aLA~~lg~pfv~In~ 152 (383)
T PHA02244 119 NIPVFLKGGAG--SGKNHIAEQIAEALDLDFYFMNA 152 (383)
T ss_pred CCCEEEECCCC--CCHHHHHHHHHHHhCCCEEEEec
Confidence 45699999999 46789999999999999998863
No 122
>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=43.87 E-value=9.6 Score=46.35 Aligned_cols=60 Identities=22% Similarity=0.257 Sum_probs=44.0
Q ss_pred HHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCCC
Q 003126 468 LIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLLP 531 (845)
Q Consensus 468 L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l~ 531 (845)
+....+..|+|+...+-.. -...+.+||.||+| .--.+|++|.|++.+|.|+.+....+.
T Consensus 196 i~e~v~~pl~~~~~~~s~g--~~~prg~Ll~gppg--~Gkt~l~~aVa~e~~a~~~~i~~peli 255 (693)
T KOG0730|consen 196 IRELVELPLRHPALFKSIG--IKPPRGLLLYGPPG--TGKTFLVRAVANEYGAFLFLINGPELI 255 (693)
T ss_pred HHHHHHhhhcchhhhhhcC--CCCCCCccccCCCC--CChHHHHHHHHHHhCceeEecccHHHH
Confidence 3444455666655432222 23468999999999 567899999999999999999998663
No 123
>PRK14531 adenylate kinase; Provisional
Probab=43.83 E-value=20 Score=35.79 Aligned_cols=29 Identities=34% Similarity=0.479 Sum_probs=24.5
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhccCcEE
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFSARLL 523 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~AkLL 523 (845)
+||++.||+|| =.-++++.||+++|+..+
T Consensus 3 ~~i~i~G~pGs--GKsT~~~~la~~~g~~~i 31 (183)
T PRK14531 3 QRLLFLGPPGA--GKGTQAARLCAAHGLRHL 31 (183)
T ss_pred cEEEEECCCCC--CHHHHHHHHHHHhCCCeE
Confidence 68999999995 467889999999997753
No 124
>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=43.64 E-value=20 Score=42.29 Aligned_cols=35 Identities=37% Similarity=0.546 Sum_probs=31.9
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCC
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLL 530 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l 530 (845)
-|||-||.|| -.-.||+-||+-++||+-|-|++.|
T Consensus 228 NvLllGPtGs--GKTllaqTLAr~ldVPfaIcDcTtL 262 (564)
T KOG0745|consen 228 NVLLLGPTGS--GKTLLAQTLARVLDVPFAICDCTTL 262 (564)
T ss_pred cEEEECCCCC--chhHHHHHHHHHhCCCeEEecccch
Confidence 4899999996 4567999999999999999999999
No 125
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=43.48 E-value=1.2e+02 Score=33.47 Aligned_cols=54 Identities=28% Similarity=0.403 Sum_probs=33.6
Q ss_pred HHHHHHHhhhcccCCCCEEEEEcchhhhh-c-cChhHHHHHHHHhccCCC-CEEEEeecc
Q 003126 689 AINELFEVALNESKSSPLIVFVKDIEKSL-T-GNNDAYGALKSKLENLPS-NVVVIGSHT 745 (845)
Q Consensus 689 lI~sL~EVL~SeS~~~PlILYikDvEK~l-~-~n~e~y~~fq~~LekLsg-~VvIIGSq~ 745 (845)
+++.+.+.+.. ...++||+|-+++.+. . +...+|..+ ..++.+++ +|.|||.-+
T Consensus 125 ~~~~~~~~l~~--~~~~~viviDE~d~l~~~~~~~~l~~l~-~~~~~~~~~~v~vI~i~~ 181 (394)
T PRK00411 125 LFDKIAEYLDE--RDRVLIVALDDINYLFEKEGNDVLYSLL-RAHEEYPGARIGVIGISS 181 (394)
T ss_pred HHHHHHHHHHh--cCCEEEEEECCHhHhhccCCchHHHHHH-HhhhccCCCeEEEEEEEC
Confidence 45556666653 4578999999999976 2 344566554 34556665 555555433
No 126
>PRK14527 adenylate kinase; Provisional
Probab=42.97 E-value=21 Score=35.68 Aligned_cols=34 Identities=26% Similarity=0.401 Sum_probs=27.5
Q ss_pred CCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEE
Q 003126 490 TMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIV 525 (845)
Q Consensus 490 s~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLil 525 (845)
+-...|++.||+||- .-++++.||+++++..+-.
T Consensus 4 ~~~~~i~i~G~pGsG--KsT~a~~La~~~~~~~is~ 37 (191)
T PRK14527 4 TKNKVVIFLGPPGAG--KGTQAERLAQELGLKKLST 37 (191)
T ss_pred CCCcEEEEECCCCCC--HHHHHHHHHHHhCCCCCCc
Confidence 445789999999965 5889999999999865544
No 127
>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=42.84 E-value=21 Score=33.07 Aligned_cols=30 Identities=43% Similarity=0.577 Sum_probs=25.7
Q ss_pred eeeccCCCchHHHHHHHHHHHhhccCcEEEEe
Q 003126 495 ILLSGPAGSEIYQETLAKALAKHFSARLLIVD 526 (845)
Q Consensus 495 ILLSGPaGsEiYQE~LaKALA~~f~AkLLilD 526 (845)
|.++||+||. --+++|.||+.++.+++-.|
T Consensus 2 I~i~G~~GsG--Kst~a~~la~~~~~~~~~~~ 31 (147)
T cd02020 2 IAIDGPAGSG--KSTVAKLLAKKLGLPYLDTG 31 (147)
T ss_pred EEEECCCCCC--HHHHHHHHHHHhCCceeccc
Confidence 7899999964 56799999999999987666
No 128
>PF03215 Rad17: Rad17 cell cycle checkpoint protein
Probab=41.98 E-value=19 Score=42.61 Aligned_cols=30 Identities=33% Similarity=0.438 Sum_probs=24.6
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhccCcEEEE
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFSARLLIV 525 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~AkLLil 525 (845)
=+||+||+|+ -.-+.+|.||++++..+..-
T Consensus 47 iLlLtGP~G~--GKtttv~~La~elg~~v~Ew 76 (519)
T PF03215_consen 47 ILLLTGPSGC--GKTTTVKVLAKELGFEVQEW 76 (519)
T ss_pred eEEEECCCCC--CHHHHHHHHHHHhCCeeEEe
Confidence 3456999994 46679999999999998874
No 129
>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=41.78 E-value=1.1e+02 Score=31.79 Aligned_cols=56 Identities=20% Similarity=0.303 Sum_probs=32.8
Q ss_pred ccccccccccchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhcc
Q 003126 450 EVSFESFPYYLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFS 519 (845)
Q Consensus 450 ~vSFd~FPYYLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~ 519 (845)
+.||||| ...+..+.++..+-- ++.. -.....-++|.||+|+ -.--|..|+++++.
T Consensus 4 ~~tFdnf--v~g~~N~~a~~~~~~-------ia~~---~~~~~~~l~l~G~~G~--GKTHLL~Ai~~~~~ 59 (219)
T PF00308_consen 4 KYTFDNF--VVGESNELAYAAAKA-------IAEN---PGERYNPLFLYGPSGL--GKTHLLQAIANEAQ 59 (219)
T ss_dssp T-SCCCS----TTTTHHHHHHHHH-------HHHS---TTTSSSEEEEEESTTS--SHHHHHHHHHHHHH
T ss_pred CCccccC--CcCCcHHHHHHHHHH-------HHhc---CCCCCCceEEECCCCC--CHHHHHHHHHHHHH
Confidence 5689997 336666666654432 2211 1123445899999994 34558888887753
No 130
>PRK13342 recombination factor protein RarA; Reviewed
Probab=41.75 E-value=26 Score=39.66 Aligned_cols=34 Identities=26% Similarity=0.429 Sum_probs=29.9
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhccCcEEEEecc
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSL 528 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~ 528 (845)
+.|||.||+|+ =..+||++||+.++.++..++..
T Consensus 37 ~~ilL~GppGt--GKTtLA~~ia~~~~~~~~~l~a~ 70 (413)
T PRK13342 37 SSMILWGPPGT--GKTTLARIIAGATDAPFEALSAV 70 (413)
T ss_pred ceEEEECCCCC--CHHHHHHHHHHHhCCCEEEEecc
Confidence 36999999994 68899999999999999988864
No 131
>PLN03025 replication factor C subunit; Provisional
Probab=40.97 E-value=24 Score=38.29 Aligned_cols=24 Identities=42% Similarity=0.652 Sum_probs=20.3
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhc
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHF 518 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f 518 (845)
+-+||+||+| .-.-+||+|||+++
T Consensus 35 ~~lll~Gp~G--~GKTtla~~la~~l 58 (319)
T PLN03025 35 PNLILSGPPG--TGKTTSILALAHEL 58 (319)
T ss_pred ceEEEECCCC--CCHHHHHHHHHHHH
Confidence 3489999999 46778999999986
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=39.25 E-value=18 Score=33.49 Aligned_cols=30 Identities=50% Similarity=0.729 Sum_probs=23.3
Q ss_pred eeeccCCCchHHHHHHHHHHHhhccCcEEEEe
Q 003126 495 ILLSGPAGSEIYQETLAKALAKHFSARLLIVD 526 (845)
Q Consensus 495 ILLSGPaGsEiYQE~LaKALA~~f~AkLLilD 526 (845)
|+|+||+||- .-+|||.|++.+++..+-.|
T Consensus 2 ii~~G~pgsG--KSt~a~~l~~~~~~~~i~~D 31 (143)
T PF13671_consen 2 IILCGPPGSG--KSTLAKRLAKRLGAVVISQD 31 (143)
T ss_dssp EEEEESTTSS--HHHHHHHHHHHSTEEEEEHH
T ss_pred EEEECCCCCC--HHHHHHHHHHHCCCEEEeHH
Confidence 7999999954 67899999999994443333
No 133
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=39.21 E-value=30 Score=31.65 Aligned_cols=26 Identities=31% Similarity=0.442 Sum_probs=22.9
Q ss_pred ceEEECCEEcCCCceEEeeCCCEEEEcc
Q 003126 198 GEVEVNGNVHPKDSQVVLRGGDELVFSP 225 (845)
Q Consensus 198 GtV~VNGkkvgKg~kviL~~GDEIvfs~ 225 (845)
|.|+|||+.++- ..+|+.||.|.+..
T Consensus 50 ~~i~vNG~~v~~--~~~~~~Gd~v~V~P 75 (81)
T PF14451_consen 50 GLILVNGRPVDF--DYRLKDGDRVAVYP 75 (81)
T ss_pred EEEEECCEECCC--cccCCCCCEEEEEe
Confidence 689999999998 48999999998854
No 134
>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=39.04 E-value=77 Score=39.65 Aligned_cols=79 Identities=23% Similarity=0.303 Sum_probs=55.5
Q ss_pred CCCEEEEEcchhhhhc-----cChhHHHHHHHHhccCCCCEEEEeecccCCCccccCCCCCcceeccCCcccccccccCC
Q 003126 703 SSPLIVFVKDIEKSLT-----GNNDAYGALKSKLENLPSNVVVIGSHTQLDSRKEKSHPGGLLFTKFGSNQTALLDLAFP 777 (845)
Q Consensus 703 ~~PlILYikDvEK~l~-----~n~e~y~~fq~~LekLsg~VvIIGSq~~~d~~KeK~~~g~~~f~kfg~~~~aLldlafp 777 (845)
..|.||||.++..++. +..+.-+.|+-+|+ .|.+.+||.-|..+-+
T Consensus 265 ~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~--~g~i~~IgaTt~~e~r--------------------------- 315 (852)
T TIGR03346 265 EGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALA--RGELHCIGATTLDEYR--------------------------- 315 (852)
T ss_pred CCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhh--cCceEEEEeCcHHHHH---------------------------
Confidence 4799999999999763 33456777887775 5789999998842100
Q ss_pred CccccccccCCCchHHHhhhhccCCcceeecCCcchhHHHHHHHH
Q 003126 778 DNFSRLHDRSKETPKALKQISRLFPNKVTIQLPQDEALLSDWKQQ 822 (845)
Q Consensus 778 d~~~rl~d~~kd~~k~~e~LtkLFPNkI~I~pPqDE~~L~~WK~Q 822 (845)
..-+.+..|...| ..|.|..|..|..+..++..
T Consensus 316 -----------~~~~~d~al~rRf-~~i~v~~p~~~~~~~iL~~~ 348 (852)
T TIGR03346 316 -----------KYIEKDAALERRF-QPVFVDEPTVEDTISILRGL 348 (852)
T ss_pred -----------HHhhcCHHHHhcC-CEEEeCCCCHHHHHHHHHHH
Confidence 0011245577788 67999999988877766543
No 135
>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=39.01 E-value=1.3e+02 Score=32.85 Aligned_cols=54 Identities=20% Similarity=0.399 Sum_probs=32.1
Q ss_pred HHHHHHhhhcccCCCCEEEEEcchhhhhccChh-HHHHHHHH-hccCC-CCEEEEeecc
Q 003126 690 INELFEVALNESKSSPLIVFVKDIEKSLTGNND-AYGALKSK-LENLP-SNVVVIGSHT 745 (845)
Q Consensus 690 I~sL~EVL~SeS~~~PlILYikDvEK~l~~n~e-~y~~fq~~-LekLs-g~VvIIGSq~ 745 (845)
++.+++.+.. ...++||+|-+++.++...++ +|..++-. ...++ .+|.+||.-+
T Consensus 117 ~~~l~~~l~~--~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i~n 173 (365)
T TIGR02928 117 FRRLYKELNE--RGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISN 173 (365)
T ss_pred HHHHHHHHHh--cCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEEEC
Confidence 4455555542 367899999999997644444 45444210 24455 5666666554
No 136
>PRK14532 adenylate kinase; Provisional
Probab=38.20 E-value=28 Score=34.41 Aligned_cols=29 Identities=28% Similarity=0.307 Sum_probs=24.2
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhccCcEEE
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFSARLLI 524 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~AkLLi 524 (845)
+|+|.||+|| =.-++++.||+++|...+-
T Consensus 2 ~i~~~G~pGs--GKsT~a~~la~~~g~~~is 30 (188)
T PRK14532 2 NLILFGPPAA--GKGTQAKRLVEERGMVQLS 30 (188)
T ss_pred EEEEECCCCC--CHHHHHHHHHHHcCCeEEe
Confidence 5999999995 5678999999999976543
No 137
>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor. These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....
Probab=37.77 E-value=21 Score=35.90 Aligned_cols=47 Identities=23% Similarity=0.390 Sum_probs=34.5
Q ss_pred cccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhc---cCcEEEEeccCCC
Q 003126 483 KYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHF---SARLLIVDSLLLP 531 (845)
Q Consensus 483 kyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f---~AkLLilDs~~l~ 531 (845)
+..+.+......|||.|++||. .++|||++-++- +.+++.||+..+.
T Consensus 13 ~~~~~~a~~~~pVlI~GE~GtG--K~~lA~~IH~~s~r~~~pfi~vnc~~~~ 62 (168)
T PF00158_consen 13 EQAKRAASSDLPVLITGETGTG--KELLARAIHNNSPRKNGPFISVNCAALP 62 (168)
T ss_dssp HHHHHHTTSTS-EEEECSTTSS--HHHHHHHHHHCSTTTTS-EEEEETTTS-
T ss_pred HHHHHHhCCCCCEEEEcCCCCc--HHHHHHHHHHhhhcccCCeEEEehhhhh
Confidence 3344556666899999999975 789999997754 4789999997663
No 138
>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=37.75 E-value=28 Score=43.21 Aligned_cols=37 Identities=27% Similarity=0.359 Sum_probs=31.7
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCC
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLL 530 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l 530 (845)
.+=.||||||| +-.-+||+-+||+-|-+.+-+..+|=
T Consensus 326 kKilLL~GppG--lGKTTLAHViAkqaGYsVvEINASDe 362 (877)
T KOG1969|consen 326 KKILLLCGPPG--LGKTTLAHVIAKQAGYSVVEINASDE 362 (877)
T ss_pred cceEEeecCCC--CChhHHHHHHHHhcCceEEEeccccc
Confidence 34567899999 88999999999999999998887653
No 139
>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=37.56 E-value=26 Score=34.52 Aligned_cols=34 Identities=21% Similarity=0.275 Sum_probs=27.1
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
++=|+|+||+|+ -.-+|||+|++.++...+.++.
T Consensus 2 ~~~i~l~G~~gs--GKst~a~~l~~~~~~~~~~~~~ 35 (175)
T cd00227 2 GRIIILNGGSSA--GKSSIARALQSVLAEPWLHFGV 35 (175)
T ss_pred CCEEEEECCCCC--CHHHHHHHHHHhhCCCccccCc
Confidence 456999999995 4678999999999877665544
No 140
>COG0564 RluA Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]
Probab=37.50 E-value=32 Score=37.76 Aligned_cols=31 Identities=29% Similarity=0.314 Sum_probs=26.2
Q ss_pred ecCCceEEECCEEcCCCceEEeeCCCEEEEccC
Q 003126 194 TGGKGEVEVNGNVHPKDSQVVLRGGDELVFSPS 226 (845)
Q Consensus 194 ~ssnGtV~VNGkkvgKg~kviL~~GDEIvfs~~ 226 (845)
.-.+|-|.|||+.+. ....|..||.|.+..+
T Consensus 33 ~i~~g~v~vNg~~v~--~~~~l~~gd~i~~~~~ 63 (289)
T COG0564 33 LIRKGRVRVNGKKVK--PSYKLKPGDVVRIPLP 63 (289)
T ss_pred HHHCCCEEECCEEcc--CCeeeCCCCEEEEecc
Confidence 344678999999999 7899999999998654
No 141
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=37.14 E-value=33 Score=34.22 Aligned_cols=34 Identities=26% Similarity=0.458 Sum_probs=29.1
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
..+|+|.||.|+ =--+|+++||+.++.+++-.|.
T Consensus 4 ~~~I~liG~~Ga--GKStl~~~La~~l~~~~vd~D~ 37 (172)
T PRK05057 4 KRNIFLVGPMGA--GKSTIGRQLAQQLNMEFYDSDQ 37 (172)
T ss_pred CCEEEEECCCCc--CHHHHHHHHHHHcCCcEEECCc
Confidence 457999999995 4678999999999999887775
No 142
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=36.93 E-value=35 Score=39.90 Aligned_cols=27 Identities=30% Similarity=0.519 Sum_probs=23.3
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccC
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSA 520 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~A 520 (845)
.+.+||+||+| ....+||++||+.++.
T Consensus 36 ~~~~Lf~GPpG--tGKTTlA~~lA~~l~~ 62 (472)
T PRK14962 36 SHAYIFAGPRG--TGKTTVARILAKSLNC 62 (472)
T ss_pred CeEEEEECCCC--CCHHHHHHHHHHHhcc
Confidence 34589999999 6889999999999875
No 143
>PRK13949 shikimate kinase; Provisional
Probab=36.92 E-value=28 Score=34.69 Aligned_cols=33 Identities=36% Similarity=0.535 Sum_probs=27.9
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
++|+|.||+|+- .-+|+|.||+.++.+.+=+|.
T Consensus 2 ~~I~liG~~GsG--Kstl~~~La~~l~~~~id~D~ 34 (169)
T PRK13949 2 ARIFLVGYMGAG--KTTLGKALARELGLSFIDLDF 34 (169)
T ss_pred cEEEEECCCCCC--HHHHHHHHHHHcCCCeecccH
Confidence 479999999954 568999999999988777774
No 144
>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=36.82 E-value=30 Score=33.78 Aligned_cols=32 Identities=19% Similarity=0.243 Sum_probs=25.3
Q ss_pred eeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCC
Q 003126 495 ILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLL 530 (845)
Q Consensus 495 ILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l 530 (845)
|++.||+|| =.-+++++||+++++. .|++.++
T Consensus 2 i~i~G~pGs--GKst~a~~la~~~~~~--~is~~d~ 33 (183)
T TIGR01359 2 VFVLGGPGS--GKGTQCAKIVENFGFT--HLSAGDL 33 (183)
T ss_pred EEEECCCCC--CHHHHHHHHHHHcCCe--EEECChH
Confidence 899999995 5778999999999865 4555444
No 145
>PRK06893 DNA replication initiation factor; Validated
Probab=36.75 E-value=35 Score=35.49 Aligned_cols=25 Identities=24% Similarity=0.352 Sum_probs=20.1
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhc
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHF 518 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f 518 (845)
++-++|.||+| .-.-.|+.|+||++
T Consensus 39 ~~~l~l~G~~G--~GKThL~~ai~~~~ 63 (229)
T PRK06893 39 QPFFYIWGGKS--SGKSHLLKAVSNHY 63 (229)
T ss_pred CCeEEEECCCC--CCHHHHHHHHHHHH
Confidence 46689999999 45667899998875
No 146
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=36.71 E-value=36 Score=32.67 Aligned_cols=31 Identities=29% Similarity=0.352 Sum_probs=24.7
Q ss_pred CCceEEECCEEcCCCceEEeeCCCEEEEccCCC
Q 003126 196 GKGEVEVNGNVHPKDSQVVLRGGDELVFSPSGK 228 (845)
Q Consensus 196 snGtV~VNGkkvgKg~kviL~~GDEIvfs~~g~ 228 (845)
..|.|+|||..+. ....++-||+|.+....+
T Consensus 32 ~~GrV~vNG~~aK--pS~~VK~GD~l~i~~~~~ 62 (100)
T COG1188 32 EGGRVKVNGQRAK--PSKEVKVGDILTIRFGNK 62 (100)
T ss_pred HCCeEEECCEEcc--cccccCCCCEEEEEeCCc
Confidence 4689999999993 366789999999977543
No 147
>CHL00095 clpC Clp protease ATP binding subunit
Probab=36.49 E-value=30 Score=42.81 Aligned_cols=37 Identities=32% Similarity=0.468 Sum_probs=30.0
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhc---cCcEEEEeccCCCC
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHF---SARLLIVDSLLLPG 532 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f---~AkLLilDs~~l~G 532 (845)
.+||.||+| .-...|||+||+++ +.+++-+|.+.|..
T Consensus 541 ~~lf~Gp~G--vGKt~lA~~LA~~l~~~~~~~~~~d~s~~~~ 580 (821)
T CHL00095 541 SFLFSGPTG--VGKTELTKALASYFFGSEDAMIRLDMSEYME 580 (821)
T ss_pred EEEEECCCC--CcHHHHHHHHHHHhcCCccceEEEEchhccc
Confidence 489999999 45668999999986 47888899866543
No 148
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=36.07 E-value=31 Score=29.62 Aligned_cols=27 Identities=19% Similarity=0.583 Sum_probs=22.9
Q ss_pred eEEECCEEcCCC--ceEEeeCCCEEEEcc
Q 003126 199 EVEVNGNVHPKD--SQVVLRGGDELVFSP 225 (845)
Q Consensus 199 tV~VNGkkvgKg--~kviL~~GDEIvfs~ 225 (845)
.|-|||+.|.|. ....|+.||+|.+-+
T Consensus 33 aVavN~~iv~r~~w~~~~L~~gD~Ieii~ 61 (66)
T PRK08053 33 ALAINQQIIPREQWAQHIVQDGDQILLFQ 61 (66)
T ss_pred EEEECCEEeChHHcCccccCCCCEEEEEE
Confidence 468999999988 777899999997743
No 149
>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed
Probab=35.67 E-value=1.1e+02 Score=33.62 Aligned_cols=41 Identities=22% Similarity=0.279 Sum_probs=31.4
Q ss_pred cccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEe
Q 003126 483 KYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVD 526 (845)
Q Consensus 483 kyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilD 526 (845)
.|.+.+.+- ..|.|.|+.|+ =--+++|+||+.+|.+++-+|
T Consensus 125 ~~~~~~~~~-~~I~l~G~~Gs--GKStvg~~La~~Lg~~~id~D 165 (309)
T PRK08154 125 GAGRRAARR-RRIALIGLRGA--GKSTLGRMLAARLGVPFVELN 165 (309)
T ss_pred hhhhhccCC-CEEEEECCCCC--CHHHHHHHHHHHcCCCEEeHH
Confidence 445544443 47999999995 467899999999999988555
No 150
>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=35.32 E-value=1.3e+02 Score=37.89 Aligned_cols=76 Identities=21% Similarity=0.365 Sum_probs=56.6
Q ss_pred CCCEEEEEcchhhhhc-----cChhHHHHHHHHhccCCCCEEEEeecccCCCccccCCCCCcceeccCCcccccccccCC
Q 003126 703 SSPLIVFVKDIEKSLT-----GNNDAYGALKSKLENLPSNVVVIGSHTQLDSRKEKSHPGGLLFTKFGSNQTALLDLAFP 777 (845)
Q Consensus 703 ~~PlILYikDvEK~l~-----~n~e~y~~fq~~LekLsg~VvIIGSq~~~d~~KeK~~~g~~~f~kfg~~~~aLldlafp 777 (845)
.+++||||-++..++. +..+..+.|+-+|+ .|.+.+||.-|..+-+
T Consensus 279 ~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~--~G~l~~IgaTT~~e~~--------------------------- 329 (852)
T TIGR03345 279 PQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALA--RGELRTIAATTWAEYK--------------------------- 329 (852)
T ss_pred CCCeEEEEeChHHhccCCCccccccHHHHhhHHhh--CCCeEEEEecCHHHHh---------------------------
Confidence 5799999999999774 55677777888887 4899999999841100
Q ss_pred CccccccccCCCchHHHhhhhccCCcceeecCCcchhHHHHH
Q 003126 778 DNFSRLHDRSKETPKALKQISRLFPNKVTIQLPQDEALLSDW 819 (845)
Q Consensus 778 d~~~rl~d~~kd~~k~~e~LtkLFPNkI~I~pPqDE~~L~~W 819 (845)
..-+.+.-|..-| ..|.|.+|..+..+..+
T Consensus 330 -----------~~~~~d~AL~rRf-~~i~v~eps~~~~~~iL 359 (852)
T TIGR03345 330 -----------KYFEKDPALTRRF-QVVKVEEPDEETAIRML 359 (852)
T ss_pred -----------hhhhccHHHHHhC-eEEEeCCCCHHHHHHHH
Confidence 1112355677788 69999999999877775
No 151
>PRK06437 hypothetical protein; Provisional
Probab=34.86 E-value=42 Score=29.21 Aligned_cols=31 Identities=16% Similarity=0.160 Sum_probs=23.3
Q ss_pred EecCCceEEECCEEcCCCceEEeeCCCEEEEcc
Q 003126 193 ITGGKGEVEVNGNVHPKDSQVVLRGGDELVFSP 225 (845)
Q Consensus 193 d~ssnGtV~VNGkkvgKg~kviL~~GDEIvfs~ 225 (845)
.....=.|.|||+.+. ...+|+.||+|.+-+
T Consensus 32 i~~~~vaV~vNg~iv~--~~~~L~dgD~Veiv~ 62 (67)
T PRK06437 32 LDEEEYVVIVNGSPVL--EDHNVKKEDDVLILE 62 (67)
T ss_pred CCCccEEEEECCEECC--CceEcCCCCEEEEEe
Confidence 3333335689999998 688999999998743
No 152
>PRK00279 adk adenylate kinase; Reviewed
Probab=34.75 E-value=33 Score=35.01 Aligned_cols=30 Identities=30% Similarity=0.503 Sum_probs=24.6
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhccCcEEEE
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFSARLLIV 525 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~AkLLil 525 (845)
||++.||+|| =.-++++.||+++++..|-+
T Consensus 2 ~I~v~G~pGs--GKsT~a~~la~~~~~~~is~ 31 (215)
T PRK00279 2 RLILLGPPGA--GKGTQAKFIAEKYGIPHIST 31 (215)
T ss_pred EEEEECCCCC--CHHHHHHHHHHHhCCcEEEC
Confidence 7999999995 46689999999999765543
No 153
>PTZ00088 adenylate kinase 1; Provisional
Probab=34.68 E-value=33 Score=36.37 Aligned_cols=33 Identities=24% Similarity=0.360 Sum_probs=27.5
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
-||+|.||+|+= --++++.||+.++++.+-+|-
T Consensus 7 mrIvl~G~PGsG--K~T~a~~La~~~g~~~is~gd 39 (229)
T PTZ00088 7 LKIVLFGAPGVG--KGTFAEILSKKENLKHINMGN 39 (229)
T ss_pred ceEEEECCCCCC--HHHHHHHHHHHhCCcEEECCh
Confidence 469999999953 578999999999988776664
No 154
>PF01300 Sua5_yciO_yrdC: Telomere recombination; InterPro: IPR006070 The YrdC family of hypothetical proteins are widely distributed in eukaryotes and prokaryotes and occur as: (i) independent proteins, (ii) with C-terminal extensions, and (iii) as domains in larger proteins, some of which are implicated in regulation []. The YrdC protein, which consists solely of this domain, forms an alpha/beta twisted open-sheet structure composed of seven alpha helices and seven beta strands []. YrdC from Escherichia coli preferentially binds to double-stranded RNA and DNA. YrdC is predicted to be an rRNA maturation factor, as deletions in its gene lead to immature ribosomal 30S subunits and, consequently, fewer translating ribosomes []. Therefore, YrdC may function by keeping an rRNA structure needed for proper processing of 16S rRNA, especially at lower temperatures. Sua5 is an example of a multi-domain protein that contains an N-terminal YrdC-like domain and a C-terminal Sua5 domain. Sua5 was identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a translation initiation defect in the cytochrome c gene and is required for normal growth in yeast; however its exact function remains unknown []. HypF is involved in the synthesis of the active site of [NiFe]-hydrogenases [].; PDB: 3L7V_A 1KK9_A 1K7J_A 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A 2EQA_A ....
Probab=34.47 E-value=48 Score=33.43 Aligned_cols=59 Identities=20% Similarity=0.314 Sum_probs=40.7
Q ss_pred hHHHHHHHHHhhhcccCCCCEEEEEcchhhhhccC-hhHHHHHHHHhcc-CCCCEEEEeecc
Q 003126 686 DKLAINELFEVALNESKSSPLIVFVKDIEKSLTGN-NDAYGALKSKLEN-LPSNVVVIGSHT 745 (845)
Q Consensus 686 eKllI~sL~EVL~SeS~~~PlILYikDvEK~l~~n-~e~y~~fq~~Lek-Lsg~VvIIGSq~ 745 (845)
.+-+++.||++=.- ....|+||++.|++++..=- .++...+.+.+++ +||++.+|--..
T Consensus 25 n~~av~ri~~iK~R-~~~Kpl~ll~~~~~~l~~~~~~~~~~~~~~l~~~~wPgp~t~I~~~~ 85 (179)
T PF01300_consen 25 NPEAVERIYKIKQR-PKNKPLILLVSSIEQLEEYVDSPVSPKARRLLEKFWPGPLTLILPAK 85 (179)
T ss_dssp SHHHHHHHHHHHTS-STTS--EEEESSHHHHHHHEETT--HHHHHHHHHCHSSSEEEEEEEG
T ss_pred CHHHHHHHHHhhcc-cCCCCEEEEECCHHHHHHHhhccccHHHHHHHHhccccCeeEeeccc
Confidence 56789999998764 36789999999998854411 2345555666666 899999998764
No 155
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=34.46 E-value=61 Score=40.02 Aligned_cols=34 Identities=26% Similarity=0.470 Sum_probs=29.0
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
.+.+||.||+|+ -.-+|||+||+.++.++.-++.
T Consensus 347 ~~~lll~GppG~--GKT~lAk~iA~~l~~~~~~i~~ 380 (775)
T TIGR00763 347 GPILCLVGPPGV--GKTSLGKSIAKALNRKFVRFSL 380 (775)
T ss_pred CceEEEECCCCC--CHHHHHHHHHHHhcCCeEEEeC
Confidence 356999999994 4568999999999999988865
No 156
>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=34.39 E-value=30 Score=42.99 Aligned_cols=42 Identities=38% Similarity=0.467 Sum_probs=33.8
Q ss_pred CCCCCceeeccCCCchHHHHHHHHHHHhhccCcEE----EEeccCCCC
Q 003126 489 PTMCPRILLSGPAGSEIYQETLAKALAKHFSARLL----IVDSLLLPG 532 (845)
Q Consensus 489 ss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLL----ilDs~~l~G 532 (845)
-...+.|||.||.| .-.-+|||||++||.-+++ ++|++.+.|
T Consensus 428 v~~~~~Ill~G~~G--sGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~ 473 (952)
T KOG0735|consen 428 VFRHGNILLNGPKG--SGKTNLVKALFDYYSKDLIAHVEIVSCSTLDG 473 (952)
T ss_pred ccccccEEEeCCCC--CCHhHHHHHHHHHhccccceEEEEEechhccc
Confidence 34678999999999 5678999999999996654 567766665
No 157
>smart00797 AHS2 Allophanate hydrolase subunit 2. This domain represents subunit 2 of allophanate hydrolase (AHS2).
Probab=34.14 E-value=88 Score=34.54 Aligned_cols=46 Identities=17% Similarity=0.314 Sum_probs=37.6
Q ss_pred EEEEEecCCceEEECCEEcCCCceEEeeCCCEEEEccCCCeeEEEE
Q 003126 189 ALLEITGGKGEVEVNGNVHPKDSQVVLRGGDELVFSPSGKHSYIFQ 234 (845)
Q Consensus 189 A~LEd~ssnGtV~VNGkkvgKg~kviL~~GDEIvfs~~g~~aYIFq 234 (845)
+++=++|....+.|||+.+.-...+.++.||++.|+.+..=++.|-
T Consensus 46 ~~iAitGA~~~~~ln~~~~~~~~~~~v~~Gd~L~~g~~~~G~R~YL 91 (280)
T smart00797 46 AVIALTGADFPATLDGQPVPPWKPFLVRAGQVLSLGAPKAGARAYL 91 (280)
T ss_pred cEEEEeCCCCeeeECCEEcCCCeEEEECCCCEEEeCCCCCccEEEE
Confidence 4466788888899999999999999999999999988765344443
No 158
>KOG1892 consensus Actin filament-binding protein Afadin [Cytoskeleton]
Probab=33.64 E-value=52 Score=42.08 Aligned_cols=83 Identities=23% Similarity=0.364 Sum_probs=60.0
Q ss_pred eeecceeEeeccccc--ceEecCCCCccceeEEEEeecCCCceEEEEEecCCceEEECCEEcCCCceEEeeCCCEEEEcc
Q 003126 148 SMTGAVFTVGHNRQC--DLYLKDPSISKNLCRLRRIENGGPSGALLEITGGKGEVEVNGNVHPKDSQVVLRGGDELVFSP 225 (845)
Q Consensus 148 ~I~~~~fTvGr~~~C--Dl~L~D~~IS~~hCkI~r~e~gg~~vA~LEd~ssnGtV~VNGkkvgKg~kviL~~GDEIvfs~ 225 (845)
.+..+.--||.-..- .|+|-.+.|-.-||-|.-. +| |+-+--.+..-..||||-.+-. .-+|.+|+.|-|+-
T Consensus 374 ~L~~~vtEVGs~~~~~~~iqLfGP~IqprHc~it~m--eG--VvTvTP~~~DA~t~VnGh~isq--ttiL~~G~~v~fGa 447 (1629)
T KOG1892|consen 374 RLQLSVTEVGSEKLDDNSIQLFGPGIQPRHCDITNM--EG--VVTVTPRSMDAETYVNGHRISQ--TTILQSGMKVQFGA 447 (1629)
T ss_pred EeccCceeccccccCCcceeeeCCCCCccccchhhc--cc--eEEecccccchhhhccceecch--hhhhccCCEEEecc
Confidence 455556667776543 7888899999999999864 33 2333334445555999998876 56899999999976
Q ss_pred CCCeeEEEEecCc
Q 003126 226 SGKHSYIFQQLSD 238 (845)
Q Consensus 226 ~g~~aYIFq~l~~ 238 (845)
.|.|=|.+.+.
T Consensus 448 --~hsfkF~dss~ 458 (1629)
T KOG1892|consen 448 --SHSFKFVDSSQ 458 (1629)
T ss_pred --ceeEEecCCch
Confidence 57888887644
No 159
>TIGR01017 rpsD_bact ribosomal protein S4, bacterial/organelle type. This model finds organelle (chloroplast and mitochondrial) ribosomal protein S4 as well as bacterial ribosomal protein S4.
Probab=33.37 E-value=34 Score=35.73 Aligned_cols=28 Identities=25% Similarity=0.355 Sum_probs=22.8
Q ss_pred CCceEEECCEEcCCCceEEeeCCCEEEEc
Q 003126 196 GKGEVEVNGNVHPKDSQVVLRGGDELVFS 224 (845)
Q Consensus 196 snGtV~VNGkkvgKg~kviL~~GDEIvfs 224 (845)
..|.|+|||+.+.+. ...++.||+|.+.
T Consensus 113 ~~G~V~VNgk~v~~p-s~~V~~GD~I~V~ 140 (200)
T TIGR01017 113 SHGHILVNGKKVDIP-SYQVRPGDIISIK 140 (200)
T ss_pred HCCCEEECCEEeCCC-CCCCCCCCEEEEe
Confidence 568999999999765 4567889999884
No 160
>CHL00113 rps4 ribosomal protein S4; Reviewed
Probab=32.74 E-value=37 Score=35.77 Aligned_cols=28 Identities=18% Similarity=0.247 Sum_probs=23.0
Q ss_pred CCceEEECCEEcCCCceEEeeCCCEEEEc
Q 003126 196 GKGEVEVNGNVHPKDSQVVLRGGDELVFS 224 (845)
Q Consensus 196 snGtV~VNGkkvgKg~kviL~~GDEIvfs 224 (845)
..|.|+|||+.+.+. ...++.||+|.+.
T Consensus 112 ~~G~V~VNGk~v~~p-s~~Vk~GD~I~V~ 139 (201)
T CHL00113 112 NHGHILVNGRIVDIP-SYRCKPKDIITVK 139 (201)
T ss_pred HCCcEEECCEEecCc-cccCCCCCEEEEc
Confidence 568999999999865 5577889999884
No 161
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=32.71 E-value=55 Score=36.81 Aligned_cols=25 Identities=28% Similarity=0.341 Sum_probs=21.5
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhcc
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFS 519 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~ 519 (845)
+-+||.||+| .-..|||||||+-+.
T Consensus 30 ~~vLl~G~pG--~gKT~lar~la~llP 54 (334)
T PRK13407 30 GGVLVFGDRG--TGKSTAVRALAALLP 54 (334)
T ss_pred CcEEEEcCCC--CCHHHHHHHHHHHCC
Confidence 4599999999 568899999999764
No 162
>PRK00625 shikimate kinase; Provisional
Probab=32.41 E-value=38 Score=34.33 Aligned_cols=32 Identities=31% Similarity=0.398 Sum_probs=27.4
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
.|+|.|++|+ =--+++|+||++++.+.+=+|-
T Consensus 2 ~I~LiG~pGs--GKTT~~k~La~~l~~~~id~D~ 33 (173)
T PRK00625 2 QIFLCGLPTV--GKTSFGKALAKFLSLPFFDTDD 33 (173)
T ss_pred EEEEECCCCC--CHHHHHHHHHHHhCCCEEEhhH
Confidence 4999999995 4678999999999999877774
No 163
>KOG0241 consensus Kinesin-like protein [Cytoskeleton]
Probab=32.26 E-value=79 Score=40.55 Aligned_cols=65 Identities=23% Similarity=0.310 Sum_probs=49.7
Q ss_pred EeecccccceEecCCCCccceeEEEEeecCCCceEEEEEecCCceEEECCEEcCCCceEEeeCCCEEEEcc
Q 003126 155 TVGHNRQCDLYLKDPSISKNLCRLRRIENGGPSGALLEITGGKGEVEVNGNVHPKDSQVVLRGGDELVFSP 225 (845)
Q Consensus 155 TvGr~~~CDl~L~D~~IS~~hCkI~r~e~gg~~vA~LEd~ssnGtV~VNGkkvgKg~kviL~~GDEIvfs~ 225 (845)
-+|....-||+|-.-.|--.||.|. |+..|. .+++-...- ..+|||+.|-- +..|.+||.|-.+-
T Consensus 470 lig~~~~~~i~l~glgi~p~h~vid-I~~dg~--l~~~p~~~~-R~~VNGs~v~~--~t~L~~GdRiLwGn 534 (1714)
T KOG0241|consen 470 LIGLFKSQDIQLSGLGIQPKHCVID-IESDGE--LRLTPLLNA-RSCVNGSLVCS--TTQLWHGDRILWGN 534 (1714)
T ss_pred eeccccCcceeeecCcccCccceee-eccCCc--EEecccccc-eeeecCceecc--ccccccCceEEecc
Confidence 4677778888988888888999999 544443 445555444 45999999976 67899999998865
No 164
>PRK02496 adk adenylate kinase; Provisional
Probab=32.08 E-value=36 Score=33.56 Aligned_cols=32 Identities=28% Similarity=0.495 Sum_probs=26.6
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
||++.||+|+- .-++++.||+.+++..+-.|-
T Consensus 3 ~i~i~G~pGsG--Kst~a~~la~~~~~~~i~~~~ 34 (184)
T PRK02496 3 RLIFLGPPGAG--KGTQAVVLAEHLHIPHISTGD 34 (184)
T ss_pred EEEEECCCCCC--HHHHHHHHHHHhCCcEEEhHH
Confidence 69999999954 588999999999988766643
No 165
>PRK01777 hypothetical protein; Validated
Probab=31.95 E-value=47 Score=31.22 Aligned_cols=27 Identities=26% Similarity=0.293 Sum_probs=22.6
Q ss_pred CceEEECCEEcCCCceEEeeCCCEEEEcc
Q 003126 197 KGEVEVNGNVHPKDSQVVLRGGDELVFSP 225 (845)
Q Consensus 197 nGtV~VNGkkvgKg~kviL~~GDEIvfs~ 225 (845)
.+.|.|||+.+.- ..+|+.||.|.+.-
T Consensus 49 ~~~vgI~Gk~v~~--d~~L~dGDRVeIyr 75 (95)
T PRK01777 49 KNKVGIYSRPAKL--TDVLRDGDRVEIYR 75 (95)
T ss_pred cceEEEeCeECCC--CCcCCCCCEEEEec
Confidence 4688999999976 56999999998744
No 166
>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.
Probab=31.81 E-value=41 Score=38.97 Aligned_cols=41 Identities=24% Similarity=0.381 Sum_probs=30.5
Q ss_pred CCCCceeeccCCCchHHHHHHHHHHHhhcc--CcEEEEeccCCCC
Q 003126 490 TMCPRILLSGPAGSEIYQETLAKALAKHFS--ARLLIVDSLLLPG 532 (845)
Q Consensus 490 s~s~rILLSGPaGsEiYQE~LaKALA~~f~--AkLLilDs~~l~G 532 (845)
-++|.|||.||+|| -.--||=|+|+++| +|.-.+..+.+|.
T Consensus 48 ~aGr~iLiaGppGt--GKTAlA~~ia~eLG~~~PF~~isgSEiyS 90 (398)
T PF06068_consen 48 IAGRAILIAGPPGT--GKTALAMAIAKELGEDVPFVSISGSEIYS 90 (398)
T ss_dssp -TT-EEEEEE-TTS--SHHHHHHHHHHHCTTTS-EEEEEGGGG-B
T ss_pred ccCcEEEEeCCCCC--CchHHHHHHHHHhCCCCCeeEcccceeee
Confidence 46899999999995 46679999999998 7888888777765
No 167
>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=31.78 E-value=34 Score=42.86 Aligned_cols=35 Identities=29% Similarity=0.429 Sum_probs=28.2
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhc---cCcEEEEeccCC
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHF---SARLLIVDSLLL 530 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f---~AkLLilDs~~l 530 (845)
-+||.||+| --...||||||+.+ +..+..+|.+.+
T Consensus 598 ~~lf~Gp~G--vGKT~lA~~La~~l~~~~~~~~~~dmse~ 635 (852)
T TIGR03345 598 VFLLVGPSG--VGKTETALALAELLYGGEQNLITINMSEF 635 (852)
T ss_pred EEEEECCCC--CCHHHHHHHHHHHHhCCCcceEEEeHHHh
Confidence 489999999 45677999999988 567888886544
No 168
>PF02626 AHS2: Allophanate hydrolase subunit 2; InterPro: IPR003778 Allophanate hydrolase catalyses the second reaction in an ATP-dependent, two-step degradation of urea to ammonia and C02. This follows the action of the biotin-containing urea carboxylase. Saccharomyces cerevisiae can use urea as a sole nitrogen source via this degradation pathway []. In yeast, the fusion of allophanate hydrolase to urea carboxylase is called urea amidolyase. In bacteria, the second step in the urea degradation pathway is also the ATP-dependent allophanate hydrolase. The gene encoding this enzyme is found adjacent to the urea carboxylase gene []. Allophanate hydrolase has strict substrate specificity, as analogues of allophanate are not hydrolysed by it []. This domain represents subunit 2 of allophanate hydrolase (AHS2) which is found in urea carboxylase.; PDB: 3MML_G 3VA7_A 3OEP_A 3OPF_C 3ORE_B.
Probab=31.76 E-value=91 Score=34.23 Aligned_cols=46 Identities=24% Similarity=0.439 Sum_probs=36.3
Q ss_pred EEEEEecCCceEEECCEEcCCCceEEeeCCCEEEEccCCCeeEEEE
Q 003126 189 ALLEITGGKGEVEVNGNVHPKDSQVVLRGGDELVFSPSGKHSYIFQ 234 (845)
Q Consensus 189 A~LEd~ssnGtV~VNGkkvgKg~kviL~~GDEIvfs~~g~~aYIFq 234 (845)
+++=++|..-.+.|||+.+.-+..+.++-||+|.|..+.+=+|.|-
T Consensus 46 ~~ialtGa~~~~~lng~~~~~~~~~~v~~Gd~L~~~~~~~G~r~YL 91 (271)
T PF02626_consen 46 TVIALTGADFEATLNGKPVPMWQPFLVKAGDVLKFGPPRSGARAYL 91 (271)
T ss_dssp EEEEEEESCEEEEETTEEE-TTSEEEE-TT-EEEEEEESSECEEEE
T ss_pred eEEEEECCCCceEECCEEccCCEEEEECCCCEEEecCCCCccEEEE
Confidence 4566788888889999999999999999999999988766566655
No 169
>PRK06762 hypothetical protein; Provisional
Probab=31.66 E-value=47 Score=32.08 Aligned_cols=33 Identities=30% Similarity=0.476 Sum_probs=26.2
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
.-|+|+|++|| =.-++|++|+++++....++|.
T Consensus 3 ~li~i~G~~Gs--GKST~A~~L~~~l~~~~~~i~~ 35 (166)
T PRK06762 3 TLIIIRGNSGS--GKTTIAKQLQERLGRGTLLVSQ 35 (166)
T ss_pred eEEEEECCCCC--CHHHHHHHHHHHhCCCeEEecH
Confidence 35899999995 4689999999999666666653
No 170
>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=31.44 E-value=38 Score=36.71 Aligned_cols=39 Identities=23% Similarity=0.271 Sum_probs=28.1
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccC-------cEEEEeccCCCC
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSA-------RLLIVDSLLLPG 532 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~A-------kLLilDs~~l~G 532 (845)
+.-|||.||+|| =..+||+++|+.+.. +++.++..+|.+
T Consensus 58 ~~~vll~G~pGT--GKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l~~ 103 (284)
T TIGR02880 58 TLHMSFTGNPGT--GKTTVALRMAQILHRLGYVRKGHLVSVTRDDLVG 103 (284)
T ss_pred CceEEEEcCCCC--CHHHHHHHHHHHHHHcCCcccceEEEecHHHHhH
Confidence 346999999996 678999999987742 455566544443
No 171
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=31.22 E-value=41 Score=35.83 Aligned_cols=37 Identities=22% Similarity=0.332 Sum_probs=29.0
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhcc-----CcEEEEeccCCCC
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFS-----ARLLIVDSLLLPG 532 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~-----AkLLilDs~~l~G 532 (845)
-+||.||+|| -..+||+|+|+++. .+.+.++..++..
T Consensus 38 ~lll~Gp~Gt--GKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~ 79 (337)
T PRK12402 38 HLLVQGPPGS--GKTAAVRALARELYGDPWENNFTEFNVADFFD 79 (337)
T ss_pred eEEEECCCCC--CHHHHHHHHHHHhcCcccccceEEechhhhhh
Confidence 5999999994 57789999999874 4567778777653
No 172
>PRK10348 ribosome-associated heat shock protein Hsp15; Provisional
Probab=30.89 E-value=66 Score=32.18 Aligned_cols=37 Identities=19% Similarity=0.236 Sum_probs=26.1
Q ss_pred CceEEECCEEcCCCceEEeeCCCEEEEccCCCeeEEEEec
Q 003126 197 KGEVEVNGNVHPKDSQVVLRGGDELVFSPSGKHSYIFQQL 236 (845)
Q Consensus 197 nGtV~VNGkkvgKg~kviL~~GDEIvfs~~g~~aYIFq~l 236 (845)
.|.|+|||... |- ...+..||+|.|.. +...|++.-+
T Consensus 33 ~G~V~vnG~~~-Kp-s~~V~~gd~l~v~~-~~~~~~v~Vl 69 (133)
T PRK10348 33 GGKVHYNGQRS-KP-SKIVELNATLTLRQ-GNDERTVIVK 69 (133)
T ss_pred CCCEEECCEEC-CC-CCccCCCCEEEEEE-CCEEEEEEEe
Confidence 58899999994 44 34447899999965 4456666643
No 173
>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=30.55 E-value=56 Score=31.77 Aligned_cols=31 Identities=32% Similarity=0.556 Sum_probs=25.9
Q ss_pred eeeccCCCchHHHHHHHHHHHhhc---cCcEEEEec
Q 003126 495 ILLSGPAGSEIYQETLAKALAKHF---SARLLIVDS 527 (845)
Q Consensus 495 ILLSGPaGsEiYQE~LaKALA~~f---~AkLLilDs 527 (845)
|+++|++||-- .+|+++|+.++ +.+.+++|.
T Consensus 2 i~i~G~~GsGK--STla~~L~~~l~~~g~~~~~i~~ 35 (149)
T cd02027 2 IWLTGLSGSGK--STIARALEEKLFQRGRPVYVLDG 35 (149)
T ss_pred EEEEcCCCCCH--HHHHHHHHHHHHHcCCCEEEEcC
Confidence 78999999754 89999999998 667777764
No 174
>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=30.36 E-value=1e+02 Score=28.47 Aligned_cols=54 Identities=30% Similarity=0.346 Sum_probs=36.2
Q ss_pred chhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 460 LSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 460 LSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
..++.+.+|......++....+-+....|+ |.|..+=.||+||++ +.+|||||=
T Consensus 81 ~~~~~~~~l~~l~~~~~~~~~~~~~~~~LS------------~Ge~~rl~la~al~~--~~~llllDE 134 (137)
T PF00005_consen 81 SDERIEEVLKKLGLEDLLDRKIGQRASSLS------------GGEKQRLALARALLK--NPKLLLLDE 134 (137)
T ss_dssp HHHHHHHHHHHTTHGGGTGSBGTSCGGGSC------------HHHHHHHHHHHHHHT--TSSEEEEES
T ss_pred ccccccccccccccccccccccccccchhh------------HHHHHHHHHHHHHHc--CCCEEEEeC
Confidence 344566666666666655544433333333 668888899999987 589999993
No 175
>CHL00206 ycf2 Ycf2; Provisional
Probab=30.20 E-value=1.3e+02 Score=41.55 Aligned_cols=56 Identities=27% Similarity=0.390 Sum_probs=36.6
Q ss_pred HHHHHHHHhhhcccCCCCEEEEEcchhhhhccChh--HHHHHHHHhccC-----CCCEEEEeeccc
Q 003126 688 LAINELFEVALNESKSSPLIVFVKDIEKSLTGNND--AYGALKSKLENL-----PSNVVVIGSHTQ 746 (845)
Q Consensus 688 llI~sL~EVL~SeS~~~PlILYikDvEK~l~~n~e--~y~~fq~~LekL-----sg~VvIIGSq~~ 746 (845)
.-|..+||.+.. ..|-||||++++..-....+ ....|-..|+.. ..+|||||+-+.
T Consensus 1719 ~rIr~lFelARk---~SPCIIFIDEIDaL~~~ds~~ltL~qLLneLDg~~~~~s~~~VIVIAATNR 1781 (2281)
T CHL00206 1719 FYITLQFELAKA---MSPCIIWIPNIHDLNVNESNYLSLGLLVNSLSRDCERCSTRNILVIASTHI 1781 (2281)
T ss_pred HHHHHHHHHHHH---CCCeEEEEEchhhcCCCccceehHHHHHHHhccccccCCCCCEEEEEeCCC
Confidence 347778888875 88999999999994433222 133333334322 247999998774
No 176
>PRK05327 rpsD 30S ribosomal protein S4; Validated
Probab=30.10 E-value=42 Score=35.19 Aligned_cols=29 Identities=21% Similarity=0.291 Sum_probs=23.3
Q ss_pred CCceEEECCEEcCCCceEEeeCCCEEEEcc
Q 003126 196 GKGEVEVNGNVHPKDSQVVLRGGDELVFSP 225 (845)
Q Consensus 196 snGtV~VNGkkvgKg~kviL~~GDEIvfs~ 225 (845)
..|.|+|||+.+.+. ...|+.||+|.+.-
T Consensus 116 ~~G~V~VNgk~v~~p-s~~v~~GD~I~v~~ 144 (203)
T PRK05327 116 SHGHILVNGKKVNIP-SYRVKPGDVIEVRE 144 (203)
T ss_pred HCCcEEECCEEECCC-CcCCCCCCEEEECC
Confidence 567899999998754 55788999999854
No 177
>PRK10634 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional
Probab=29.93 E-value=91 Score=32.18 Aligned_cols=53 Identities=15% Similarity=0.204 Sum_probs=36.7
Q ss_pred hHHHHHHHHHhhhcccCCCCEEEEEcchhhhhcc------ChhHHHHHHHHhccCCCCEEEEe
Q 003126 686 DKLAINELFEVALNESKSSPLIVFVKDIEKSLTG------NNDAYGALKSKLENLPSNVVVIG 742 (845)
Q Consensus 686 eKllI~sL~EVL~SeS~~~PlILYikDvEK~l~~------n~e~y~~fq~~LekLsg~VvIIG 742 (845)
..-+++.||++= .-+...||+|++.|++++..- +.+.+ +.+....||++.+|=
T Consensus 39 n~~Av~ri~~iK-~R~~~Kpl~ll~~~~~~l~~~~~~~~~~~~~~---~l~~~~wPGPlTlil 97 (190)
T PRK10634 39 SETAVMRLLELK-QRPVDKGLILIAANYEQLKPYIDDSMLTDAQR---ETIFSCWPGPVTFVF 97 (190)
T ss_pred CHHHHHHHHHHh-CCCCCCCcEEEECCHHHHHHHHHhcCCCHHHH---HHHHHhCCCCEEEEE
Confidence 567899999954 346688999999998875431 12222 334456799999883
No 178
>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=29.85 E-value=1.2e+02 Score=29.85 Aligned_cols=58 Identities=21% Similarity=0.337 Sum_probs=39.3
Q ss_pred hHHHHHHHHHhhhcccCCCCEEEEEcchhhhh---ccChhHHHHHHHHhcc----CCCCEEEEeecc
Q 003126 686 DKLAINELFEVALNESKSSPLIVFVKDIEKSL---TGNNDAYGALKSKLEN----LPSNVVVIGSHT 745 (845)
Q Consensus 686 eKllI~sL~EVL~SeS~~~PlILYikDvEK~l---~~n~e~y~~fq~~Lek----Lsg~VvIIGSq~ 745 (845)
....+..+++.+....+. +||.|-|++.+. .....+...|++.++. ....+|++||..
T Consensus 102 ~~~~l~~~~~~l~~~~~~--~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~v~~~S~~ 166 (234)
T PF01637_consen 102 SFSALERLLEKLKKKGKK--VIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNVSIVITGSSD 166 (234)
T ss_dssp -G--HHHHHHHHHHCHCC--EEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTEEEEEEESSH
T ss_pred HHHHHHHHHHHHHhcCCc--EEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCceEEEECCch
Confidence 456677788888763333 999999999988 2457777888888877 223466666653
No 179
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=29.84 E-value=45 Score=36.20 Aligned_cols=36 Identities=31% Similarity=0.418 Sum_probs=26.1
Q ss_pred eeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCCCC
Q 003126 495 ILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLLPG 532 (845)
Q Consensus 495 ILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l~G 532 (845)
+|+-||.|| -.-.+|=+||+.||++++++|.-..|.
T Consensus 4 ~~i~GpT~t--GKt~~ai~lA~~~g~pvI~~Driq~y~ 39 (233)
T PF01745_consen 4 YLIVGPTGT--GKTALAIALAQKTGAPVISLDRIQCYP 39 (233)
T ss_dssp EEEE-STTS--SHHHHHHHHHHHH--EEEEE-SGGG-G
T ss_pred EEEECCCCC--ChhHHHHHHHHHhCCCEEEecceeccc
Confidence 689999994 466788999999999999999976653
No 180
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=29.80 E-value=1e+02 Score=27.96 Aligned_cols=54 Identities=13% Similarity=0.222 Sum_probs=43.2
Q ss_pred HHHHHHHHHhhhcccCCCCEEEEEcchhhhhccChhHHHHHHHHhccCCCCEEEEeecc
Q 003126 687 KLAINELFEVALNESKSSPLIVFVKDIEKSLTGNNDAYGALKSKLENLPSNVVVIGSHT 745 (845)
Q Consensus 687 KllI~sL~EVL~SeS~~~PlILYikDvEK~l~~n~e~y~~fq~~LekLsg~VvIIGSq~ 745 (845)
.-+++.+.+.+.. ....+|.|-|++.+. +.++++.++..++.-.-+||++|...
T Consensus 73 ~~l~~~~~~~l~~---~~~~~lviDe~~~l~--~~~~l~~l~~l~~~~~~~vvl~G~~~ 126 (131)
T PF13401_consen 73 DELRSLLIDALDR---RRVVLLVIDEADHLF--SDEFLEFLRSLLNESNIKVVLVGTPE 126 (131)
T ss_dssp HHHHHHHHHHHHH---CTEEEEEEETTHHHH--THHHHHHHHHHTCSCBEEEEEEESST
T ss_pred HHHHHHHHHHHHh---cCCeEEEEeChHhcC--CHHHHHHHHHHHhCCCCeEEEEEChh
Confidence 3344788888875 444899999999955 69999999999997777889988874
No 181
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=29.34 E-value=49 Score=32.04 Aligned_cols=25 Identities=32% Similarity=0.408 Sum_probs=18.8
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhccCc
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFSAR 521 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~Ak 521 (845)
||.|+|++| .-.-+|+++||++ |.+
T Consensus 1 rI~i~G~~s--tGKTTL~~~L~~~-g~~ 25 (163)
T PF13521_consen 1 RIVITGGPS--TGKTTLIEALAAR-GYP 25 (163)
T ss_dssp -EEEE--TT--SHHHHHHHHHHHH-T-E
T ss_pred CEEEECCCC--CCHHHHHHHHHHc-CCe
Confidence 799999998 5789999999999 666
No 182
>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=29.15 E-value=76 Score=27.08 Aligned_cols=32 Identities=31% Similarity=0.561 Sum_probs=24.3
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhc-cCcEEEEec
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHF-SARLLIVDS 527 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f-~AkLLilDs 527 (845)
.|.++|++|+- ..+++++|++.| +-+.-++|.
T Consensus 1 ~i~i~G~~gsG--Kst~~~~l~~~l~~~~~~~i~~ 33 (69)
T cd02019 1 IIAITGGSGSG--KSTVAKKLAEQLGGRSVVVLDE 33 (69)
T ss_pred CEEEECCCCCC--HHHHHHHHHHHhcCCCEEEEeE
Confidence 37899999976 578999999997 345555554
No 183
>PRK08233 hypothetical protein; Provisional
Probab=28.91 E-value=55 Score=31.60 Aligned_cols=36 Identities=19% Similarity=0.297 Sum_probs=29.0
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhcc-CcEEEEeccCC
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFS-ARLLIVDSLLL 530 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~-AkLLilDs~~l 530 (845)
.-|.++||+|| ---+||++||++|+ ..++.+|...+
T Consensus 4 ~iI~I~G~~Gs--GKtTla~~L~~~l~~~~~~~~d~~~~ 40 (182)
T PRK08233 4 KIITIAAVSGG--GKTTLTERLTHKLKNSKALYFDRYDF 40 (182)
T ss_pred eEEEEECCCCC--CHHHHHHHHHhhCCCCceEEECCEEc
Confidence 45888999994 57789999999995 77888887543
No 184
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=28.90 E-value=50 Score=40.81 Aligned_cols=27 Identities=30% Similarity=0.474 Sum_probs=23.6
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccC
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSA 520 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~A 520 (845)
...+||+||+| .-.-++|++||+.++.
T Consensus 37 ~HAyLF~GPpG--vGKTTlAriLAK~LnC 63 (702)
T PRK14960 37 HHAYLFTGTRG--VGKTTIARILAKCLNC 63 (702)
T ss_pred CeEEEEECCCC--CCHHHHHHHHHHHhCC
Confidence 36889999999 5788999999999875
No 185
>TIGR00174 miaA tRNA isopentenyltransferase (miaA). Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.
Probab=28.79 E-value=47 Score=36.64 Aligned_cols=35 Identities=34% Similarity=0.519 Sum_probs=31.6
Q ss_pred eeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCCC
Q 003126 495 ILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLLP 531 (845)
Q Consensus 495 ILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l~ 531 (845)
|.+.||+|+ -...||-+||+++++.++-+|+..+|
T Consensus 2 i~i~G~t~~--GKs~la~~l~~~~~~~iis~Ds~qvY 36 (287)
T TIGR00174 2 IFIMGPTAV--GKSQLAIQLAKKLNAEIISVDSMQIY 36 (287)
T ss_pred EEEECCCCC--CHHHHHHHHHHhCCCcEEEechhhee
Confidence 789999994 56789999999999999999998887
No 186
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=28.06 E-value=43 Score=37.81 Aligned_cols=33 Identities=33% Similarity=0.548 Sum_probs=28.3
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
--|||.||+| +-.-+||.=+|++.|+.|=+--.
T Consensus 53 DHvLl~GPPG--lGKTTLA~IIA~Emgvn~k~tsG 85 (332)
T COG2255 53 DHVLLFGPPG--LGKTTLAHIIANELGVNLKITSG 85 (332)
T ss_pred CeEEeeCCCC--CcHHHHHHHHHHHhcCCeEeccc
Confidence 3489999999 78899999999999999866543
No 187
>PLN02840 tRNA dimethylallyltransferase
Probab=27.76 E-value=48 Score=38.65 Aligned_cols=38 Identities=32% Similarity=0.485 Sum_probs=33.0
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCCCC
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLLPG 532 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l~G 532 (845)
.-|++.||+|+ ---.|++.||++|++.++-+|+..+|-
T Consensus 22 ~vi~I~Gptgs--GKTtla~~La~~~~~~iis~Ds~qvYr 59 (421)
T PLN02840 22 KVIVISGPTGA--GKSRLALELAKRLNGEIISADSVQVYR 59 (421)
T ss_pred eEEEEECCCCC--CHHHHHHHHHHHCCCCeEeccccceec
Confidence 35999999994 567899999999999999999988863
No 188
>PRK11507 ribosome-associated protein; Provisional
Probab=27.56 E-value=51 Score=29.79 Aligned_cols=26 Identities=27% Similarity=0.634 Sum_probs=20.6
Q ss_pred CceEEECCEEcCCCceEEeeCCCEEEE
Q 003126 197 KGEVEVNGNVHPKDSQVVLRGGDELVF 223 (845)
Q Consensus 197 nGtV~VNGkkvgKg~kviL~~GDEIvf 223 (845)
.|.|.|||+.-.+- ..-|..||.|.|
T Consensus 36 eg~V~VNGeve~rR-gkKl~~GD~V~~ 61 (70)
T PRK11507 36 EGQVKVDGAVETRK-RCKIVAGQTVSF 61 (70)
T ss_pred cCceEECCEEeccc-CCCCCCCCEEEE
Confidence 47899999975543 456889999998
No 189
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=27.53 E-value=66 Score=40.49 Aligned_cols=42 Identities=38% Similarity=0.549 Sum_probs=37.2
Q ss_pred CCCCCCceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCCC
Q 003126 488 LPTMCPRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLLP 531 (845)
Q Consensus 488 Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l~ 531 (845)
+....+-.||.|++| --..++|+|.|.+||..|+-+|++.|.
T Consensus 427 ~~~~~~~vLLhG~~g--~GK~t~V~~vas~lg~h~~evdc~el~ 468 (953)
T KOG0736|consen 427 LLTLNPSVLLHGPPG--SGKTTVVRAVASELGLHLLEVDCYELV 468 (953)
T ss_pred ccccceEEEEeCCCC--CChHHHHHHHHHHhCCceEeccHHHHh
Confidence 445778899999999 467889999999999999999999884
No 190
>PRK11860 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional
Probab=27.50 E-value=38 Score=40.97 Aligned_cols=36 Identities=31% Similarity=0.369 Sum_probs=30.6
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCCCC
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLLPG 532 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l~G 532 (845)
++|.+.||+|| -.-+++|+||++|+.+. +|+-.+|-
T Consensus 443 ~~i~i~g~~~~--gks~~~~~l~~~~~~~~--~~~~~~~~ 478 (661)
T PRK11860 443 PVICIDGPTAS--GKGTVAARVAEALGYHY--LDSGALYR 478 (661)
T ss_pred ceEEeeCCCCC--CHHHHHHHHHHHhCCeE--ecHHHhhh
Confidence 58999999994 57889999999999986 78866764
No 191
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=27.21 E-value=35 Score=42.54 Aligned_cols=39 Identities=36% Similarity=0.443 Sum_probs=29.7
Q ss_pred CCCCCCC---ceeeccCCC---chHHHHHHHHHHHhhcc---CcEEEEeccCC
Q 003126 487 DLPTMCP---RILLSGPAG---SEIYQETLAKALAKHFS---ARLLIVDSLLL 530 (845)
Q Consensus 487 ~Lss~s~---rILLSGPaG---sEiYQE~LaKALA~~f~---AkLLilDs~~l 530 (845)
.|..-++ -.|+.||.| || ||||||.++- -.|+-||.+.|
T Consensus 513 GL~dp~rPigsFlF~GPTGVGKTE-----LAkaLA~~Lfg~e~aliR~DMSEy 560 (786)
T COG0542 513 GLGDPNRPIGSFLFLGPTGVGKTE-----LAKALAEALFGDEQALIRIDMSEY 560 (786)
T ss_pred CCCCCCCCceEEEeeCCCcccHHH-----HHHHHHHHhcCCCccceeechHHH
Confidence 3444443 459999999 66 9999999987 88888887433
No 192
>COG0522 RpsD Ribosomal protein S4 and related proteins [Translation, ribosomal structure and biogenesis]
Probab=26.84 E-value=64 Score=34.25 Aligned_cols=30 Identities=23% Similarity=0.360 Sum_probs=25.8
Q ss_pred CCceEEECCEEcCCCceEEeeCCCEEEEccC
Q 003126 196 GKGEVEVNGNVHPKDSQVVLRGGDELVFSPS 226 (845)
Q Consensus 196 snGtV~VNGkkvgKg~kviL~~GDEIvfs~~ 226 (845)
+-|.|.|||++|.-- ...++-||||.+.-.
T Consensus 117 ~HGHI~VnGk~V~iP-Sy~V~~gdei~V~~k 146 (205)
T COG0522 117 SHGHILVNGKRVNIP-SYLVSPGDEISVREK 146 (205)
T ss_pred hcceEEECCEEeccC-cEEecCCCEEEeeec
Confidence 458999999999998 788999999988543
No 193
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=26.79 E-value=1.7e+02 Score=34.38 Aligned_cols=32 Identities=16% Similarity=0.236 Sum_probs=24.2
Q ss_pred HHHHHHHHHhhhcc--cCCCCEEEEEcchhhhhc
Q 003126 687 KLAINELFEVALNE--SKSSPLIVFVKDIEKSLT 718 (845)
Q Consensus 687 KllI~sL~EVL~Se--S~~~PlILYikDvEK~l~ 718 (845)
--+|-.+|+..... .+..|-||||-|++..+.
T Consensus 193 Ek~IR~~F~~A~~~a~~~~aPcVLFIDEIDA~~g 226 (413)
T PLN00020 193 GKLIRQRYREAADIIKKKGKMSCLFINDLDAGAG 226 (413)
T ss_pred HHHHHHHHHHHHHHhhccCCCeEEEEehhhhcCC
Confidence 34567778777654 367899999999999665
No 194
>PRK13946 shikimate kinase; Provisional
Probab=26.58 E-value=52 Score=32.91 Aligned_cols=33 Identities=24% Similarity=0.372 Sum_probs=27.7
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
+.|+|.|++|+ =--+++|+||+.+|.+.+-.|.
T Consensus 11 ~~I~l~G~~Gs--GKsti~~~LA~~Lg~~~id~D~ 43 (184)
T PRK13946 11 RTVVLVGLMGA--GKSTVGRRLATMLGLPFLDADT 43 (184)
T ss_pred CeEEEECCCCC--CHHHHHHHHHHHcCCCeECcCH
Confidence 47999999995 4678999999999999766664
No 195
>CHL00181 cbbX CbbX; Provisional
Probab=26.53 E-value=58 Score=35.51 Aligned_cols=25 Identities=20% Similarity=0.304 Sum_probs=21.2
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhc
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHF 518 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f 518 (845)
+..|||.||+|| =..+|||+||+.+
T Consensus 59 ~~~ill~G~pGt--GKT~lAr~la~~~ 83 (287)
T CHL00181 59 GLHMSFTGSPGT--GKTTVALKMADIL 83 (287)
T ss_pred CceEEEECCCCC--CHHHHHHHHHHHH
Confidence 445999999994 6789999999975
No 196
>PRK04182 cytidylate kinase; Provisional
Probab=26.49 E-value=57 Score=31.34 Aligned_cols=28 Identities=36% Similarity=0.551 Sum_probs=23.6
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhccCcEE
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFSARLL 523 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~AkLL 523 (845)
.|.|+|++|| =-.+++|+||+.++.+++
T Consensus 2 ~I~i~G~~Gs--GKstia~~la~~lg~~~i 29 (180)
T PRK04182 2 IITISGPPGS--GKTTVARLLAEKLGLKHV 29 (180)
T ss_pred EEEEECCCCC--CHHHHHHHHHHHcCCcEe
Confidence 5899999995 467899999999998754
No 197
>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=26.20 E-value=62 Score=33.80 Aligned_cols=31 Identities=35% Similarity=0.584 Sum_probs=25.2
Q ss_pred eeeccCCCchHHHHHHHHHHHhhcc---CcEEEEec
Q 003126 495 ILLSGPAGSEIYQETLAKALAKHFS---ARLLIVDS 527 (845)
Q Consensus 495 ILLSGPaGsEiYQE~LaKALA~~f~---AkLLilDs 527 (845)
|+|+|++|| -.-++|++||++|+ .+..++|.
T Consensus 2 Ivl~G~pGS--GKST~a~~La~~l~~~~~~v~~i~~ 35 (249)
T TIGR03574 2 IILTGLPGV--GKSTFSKELAKKLSEKNIDVIILGT 35 (249)
T ss_pred EEEEcCCCC--CHHHHHHHHHHHHHHcCCceEEEcc
Confidence 899999995 57889999999995 55667665
No 198
>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=26.12 E-value=76 Score=32.24 Aligned_cols=40 Identities=33% Similarity=0.491 Sum_probs=31.5
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhc---cCcEEEEeccCCCCCCC
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHF---SARLLIVDSLLLPGGSS 535 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f---~AkLLilDs~~l~G~~s 535 (845)
.|+|+|.+||- ..+||++|.+.+ +.+..+||.-.+--+.+
T Consensus 4 vIwltGlsGsG--KtTlA~~L~~~L~~~g~~~~~LDgD~lR~~l~ 46 (156)
T PF01583_consen 4 VIWLTGLSGSG--KTTLARALERRLFARGIKVYLLDGDNLRHGLN 46 (156)
T ss_dssp EEEEESSTTSS--HHHHHHHHHHHHHHTTS-EEEEEHHHHCTTTT
T ss_pred EEEEECCCCCC--HHHHHHHHHHHHHHcCCcEEEecCcchhhccC
Confidence 58999999976 579999999988 56799999876654444
No 199
>PF14512 TM1586_NiRdase: Putative TM nitroreductase; PDB: 1VKW_A.
Probab=26.01 E-value=31 Score=36.65 Aligned_cols=65 Identities=14% Similarity=0.233 Sum_probs=26.7
Q ss_pred hhhhhhHHHHHHHhhhcCCCCCcchhhHHHHHHHHhhhcccCCCccccccccccccc---hhhHHHHHHHhhh
Q 003126 404 ISKILDEQREIRELLKDSDRPTVLISARRQAFKDSLQEGILGPENIEVSFESFPYYL---SDITKNVLIASTY 473 (845)
Q Consensus 404 ~~k~lee~~e~~~~~~~~~~~ts~~~~r~~~fk~~~~~~Vvdg~~i~vSFd~FPYYL---SE~TK~~L~saa~ 473 (845)
|-++++.|.-||..++..-. .-.+ +..++-..+.|.+.-+..+.|..||||+ ++.....|..|.|
T Consensus 3 i~EaI~~RhSVRky~dk~l~----e~i~-~~I~~l~i~~I~~~~~~k~~~~~~~~yi~~~~~k~~~~l~n~GY 70 (206)
T PF14512_consen 3 IYEAIFKRHSVRKYLDKPLP----EEIK-EEIENLHIQLITDKLDWKIKLSKAPNYIAAYSEKKDDYLENAGY 70 (206)
T ss_dssp HHHHHHH--B---B--S-------HHHH-HHHHH-----SS-----EEE-SSSSEEEE----SSHHHHHHHHH
T ss_pred HHHHHHHhcchhccCCCCCC----HHHH-HHHHHHHHHHhhhhhcceecccCCCeEEEEEecCCcchHHhcCH
Confidence 45666777666655322221 1122 2334443566777777788889999998 4555567777777
No 200
>COG2501 S4-like RNA binding protein [Replication, recombination, and repair]
Probab=25.98 E-value=69 Score=29.28 Aligned_cols=27 Identities=41% Similarity=0.645 Sum_probs=21.5
Q ss_pred CCceEEECCEEcCCCceEEeeCCCEEEE
Q 003126 196 GKGEVEVNGNVHPKDSQVVLRGGDELVF 223 (845)
Q Consensus 196 snGtV~VNGkkvgKg~kviL~~GDEIvf 223 (845)
+.|.|+|||+.-.+- .+-|..||.|-|
T Consensus 35 ~eg~V~vNGe~EtRR-gkKlr~gd~V~i 61 (73)
T COG2501 35 AEGEVKVNGEVETRR-GKKLRDGDVVEI 61 (73)
T ss_pred HCCeEEECCeeeecc-CCEeecCCEEEE
Confidence 457999999987654 456789999988
No 201
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=25.84 E-value=57 Score=36.44 Aligned_cols=57 Identities=21% Similarity=0.211 Sum_probs=37.1
Q ss_pred hhhHHHHHHHhhhccccccccc--cccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccCc
Q 003126 461 SDITKNVLIASTYVHLKCNNFA--KYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSAR 521 (845)
Q Consensus 461 SE~TK~~L~saa~vHLk~~e~s--kyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~Ak 521 (845)
.+-+.+.|..+.|-++... |- ...+... ..-.||++||+|+ ---+||++||++|+.+
T Consensus 61 ~~~V~~~L~~~~~~~~~~~-y~~~~~i~~~~-~p~iIlI~G~sgs--GKStlA~~La~~l~~~ 119 (301)
T PRK04220 61 RRRVYYKLIEKDYEEVAEK-YLLWRRIRKSK-EPIIILIGGASGV--GTSTIAFELASRLGIR 119 (301)
T ss_pred HHHHHHHHHHhCcHhHHHH-HHHHHHHhcCC-CCEEEEEECCCCC--CHHHHHHHHHHHhCCC
Confidence 4566677777777666543 21 1111100 1135999999994 5677999999999877
No 202
>TIGR00057 Sua5/YciO/YrdC/YwlC family protein. partial match to sua5, which is involved in regulation of translation initiation. 3' end of sua5 has matches to sua5, BS3690, and weakly to AF0781 and BB0734.
Probab=25.60 E-value=87 Score=32.43 Aligned_cols=57 Identities=18% Similarity=0.269 Sum_probs=37.7
Q ss_pred hHHHHHHHHHhhhcccCCCCEEEEEcchhhhhccChhHHHHHHHHhcc-CCCCEEEEeec
Q 003126 686 DKLAINELFEVALNESKSSPLIVFVKDIEKSLTGNNDAYGALKSKLEN-LPSNVVVIGSH 744 (845)
Q Consensus 686 eKllI~sL~EVL~SeS~~~PlILYikDvEK~l~~n~e~y~~fq~~Lek-Lsg~VvIIGSq 744 (845)
..-+++.||++=. -.+..|++|++.|.+++..- -++-...++++++ .||++-+|--.
T Consensus 40 ~~~av~ri~~iK~-R~~~Kpl~~l~~~~~~l~~~-~~~~~~~~~l~~~~~Pgp~T~Il~~ 97 (201)
T TIGR00057 40 DEDAVRRLYRIKG-RPSNKPLTVLVSDLSEIEKY-AYVPDDAKRLMKKFWPGPLTLVLKK 97 (201)
T ss_pred CHHHHHHHHHHhC-CCCCCCeEEEECCHHHHHHH-hcCCHHHHHHHHhcCCCCeEEEEEC
Confidence 5678999999774 36789999999999884331 1111222344443 78988887643
No 203
>PRK09183 transposase/IS protein; Provisional
Probab=25.38 E-value=1.5e+02 Score=31.88 Aligned_cols=74 Identities=16% Similarity=0.230 Sum_probs=43.7
Q ss_pred HHHHHhhhcccCCCcccccccccccc----chhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHH
Q 003126 434 AFKDSLQEGILGPENIEVSFESFPYY----LSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQET 509 (845)
Q Consensus 434 ~fk~~~~~~Vvdg~~i~vSFd~FPYY----LSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~ 509 (845)
..+..+++.=++.. -||++|-|- ++...-..|-.+.| +. ....|+|.||+| .-.-.
T Consensus 58 ~~~~~~k~a~~p~~---~~l~~fd~~~~~~~~~~~i~~L~~~~~--i~-------------~~~~v~l~Gp~G--tGKTh 117 (259)
T PRK09183 58 KQAMYTRMAAFPAV---KTFEEYDFTFATGAPQKQLQSLRSLSF--IE-------------RNENIVLLGPSG--VGKTH 117 (259)
T ss_pred HHHHHHHhCCCCCC---CcHhhcccccCCCCCHHHHHHHhcCCc--hh-------------cCCeEEEEeCCC--CCHHH
Confidence 34455666666664 666666653 33333333333333 11 135699999999 45678
Q ss_pred HHHHHHhhc---cCcEEEEec
Q 003126 510 LAKALAKHF---SARLLIVDS 527 (845)
Q Consensus 510 LaKALA~~f---~AkLLilDs 527 (845)
|+.|||+.. |.+.+.++.
T Consensus 118 La~al~~~a~~~G~~v~~~~~ 138 (259)
T PRK09183 118 LAIALGYEAVRAGIKVRFTTA 138 (259)
T ss_pred HHHHHHHHHHHcCCeEEEEeH
Confidence 999997763 555555553
No 204
>PF05726 Pirin_C: Pirin C-terminal cupin domain; InterPro: IPR008778 This entry represents C-terminal domain of Pirin proteins from both eukaryotes and prokaryotes. The function of Pirin is unknown but the gene coding for this protein is known to be expressed in all tissues in the human body although it is expressed most strongly in the liver and heart. Pirin is known to be a nuclear protein, exclusively localised within the nucleoplasma and predominantly concentrated within dot-like subnuclear structures []. Pirin is composed of two structurally similar domains arranged face to face. The N-terminal domain additionally features four beta-strands, and the C-terminal domain also includes four additional -strands and a short alpha-helix. Although the two domains are similar, the C-terminal domain of Pirin differs from the N-terminal domain as it does not contain a metal binding site and its sequence does not contain the conserved metal-coordinating residues []. Pirin is confirmed to be a member of the cupin superfamily on the basis of primary sequence and structural similarity. The presence of a metal binding site in the N-terminal beta-barrel of Pirin, may be significant in its role in regulating NFI DNA replication and NF-kappaB transcription factor activity []. Pirin structure has been found to closely resemble members of the cupin superfamily. Pirin contains the two characteristic sequences of the cupin superfamily, namely PG-(X)5-HXH-(X)4-E-(X)6-G and G-(X)5-PXG-(X)2-H-(X)3-N separated by a variable stretch of 15-50 amino acids. These motifs are best conserved in the N-terminal where the conserved histidine and glutamic acid residues correspond to the metal-coordinating residues. The C-terminal domain motifs lack the metal binding residues normally associated with the cupin fold []. Pirin was identified to be a metal-binding protein [], and was found that the metal-binding residues of Pirins are highly conserved across mammals, plants, fungi, and prokaryotic organisms. Pirin acts as a cofactor for the transcription factor NFI, the regulatory mechanism of which is generally believed to require the assistance of a metal ion []. Structural data supports the hypothesis that the bound iron of Pirin may participate in this transcriptional regulation by enhancing and stabilising the formation of the p50,Bcl3,DNA complex []. Metals have been implicated directly or indirectly in the NF-kappaB family of transcription factors that control expression of a number of early response genes associated with inflammatory responses, cell growth, cell cycle progression, and neoplastic transformation []. However, most metal-dependent transcription factors are DNA-binding proteins that bind to specific sequences when the metal binds to the protein. Pirin, on the other hand, appears to function differently and bind to the transcription factor DNA complex [].; PDB: 1J1L_A 3ACL_A 2P17_A.
Probab=25.27 E-value=59 Score=30.15 Aligned_cols=36 Identities=33% Similarity=0.518 Sum_probs=28.9
Q ss_pred EEEEEecCCceEEECCEE--cCCCceEEeeCCCEEEEccC
Q 003126 189 ALLEITGGKGEVEVNGNV--HPKDSQVVLRGGDELVFSPS 226 (845)
Q Consensus 189 A~LEd~ssnGtV~VNGkk--vgKg~kviL~~GDEIvfs~~ 226 (845)
++|..+. |.+.|||.. +.++..++|..||+|.+...
T Consensus 22 ~~iyv~~--G~~~v~~~~~~~~~~~~~~l~~g~~i~~~a~ 59 (104)
T PF05726_consen 22 AFIYVLE--GSVEVGGEEDPLEAGQLVVLEDGDEIELTAG 59 (104)
T ss_dssp EEEEEEE--SEEEETTTTEEEETTEEEEE-SECEEEEEES
T ss_pred EEEEEEE--CcEEECCCcceECCCcEEEECCCceEEEEEC
Confidence 5566665 457899996 99999999999999999775
No 205
>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=25.18 E-value=52 Score=32.69 Aligned_cols=29 Identities=38% Similarity=0.552 Sum_probs=23.6
Q ss_pred CCCceeeccCCCchHHHHHHHHHHHhhccCc
Q 003126 491 MCPRILLSGPAGSEIYQETLAKALAKHFSAR 521 (845)
Q Consensus 491 ~s~rILLSGPaGsEiYQE~LaKALA~~f~Ak 521 (845)
.++.+||.||.| .....+|+++|+.+-.+
T Consensus 13 ~~~~~L~~G~~G--~gkt~~a~~~~~~l~~~ 41 (188)
T TIGR00678 13 LAHAYLFAGPEG--VGKELLALALAKALLCE 41 (188)
T ss_pred CCeEEEEECCCC--CCHHHHHHHHHHHHcCC
Confidence 457899999998 67788999998886543
No 206
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=25.05 E-value=76 Score=31.69 Aligned_cols=33 Identities=33% Similarity=0.528 Sum_probs=27.7
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhccCcEEEEec
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHFSARLLIVDS 527 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs 527 (845)
.-|.|.||.|+- .-+|+|+||..++..+++.|.
T Consensus 3 ~~i~l~G~sGsG--KsTl~~~l~~~~~~~~~~~~~ 35 (186)
T PRK10078 3 KLIWLMGPSGSG--KDSLLAALRQREQTQLLVAHR 35 (186)
T ss_pred cEEEEECCCCCC--HHHHHHHHhccCCCeEEEcCE
Confidence 468899999964 889999999999888766665
No 207
>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=24.82 E-value=67 Score=32.13 Aligned_cols=27 Identities=41% Similarity=0.591 Sum_probs=19.6
Q ss_pred eeeccCCCchHHHHHHHHHHHhhccCcEE
Q 003126 495 ILLSGPAGSEIYQETLAKALAKHFSARLL 523 (845)
Q Consensus 495 ILLSGPaGsEiYQE~LaKALA~~f~AkLL 523 (845)
|||-|++| .-.-+||||||+..+...-
T Consensus 2 vLleg~PG--~GKT~la~~lA~~~~~~f~ 28 (131)
T PF07726_consen 2 VLLEGVPG--VGKTTLAKALARSLGLSFK 28 (131)
T ss_dssp EEEES-----HHHHHHHHHHHHHTT--EE
T ss_pred EeeECCCc--cHHHHHHHHHHHHcCCcee
Confidence 79999999 7788999999999997654
No 208
>TIGR03069 PS_II_S4 photosystem II S4 domain protein. Members of this protein family are about 265 residues long and each contains an S4 RNA-binding domain of about 48 residues. The member from the Cyanobacterium, Synechocystis sp. PCC 6803, was detected as a novel polypeptide in a highly purified preparation of active photosystem II (Kashino, et al., 2002). The phylogenetic distribution, including Cyanobacteria and Arabidopsis, supports a role in photosystem II, although the high bit score cutoffs for this model reflect similar sequences in non-photosynthetic organisms such as Carboxydothermus hydrogenoformans, a Gram-positive bacterium.
Probab=24.70 E-value=88 Score=33.97 Aligned_cols=32 Identities=22% Similarity=0.340 Sum_probs=25.9
Q ss_pred CCceEEECCEEcCCCceEEeeCCCEEEEccCCC
Q 003126 196 GKGEVEVNGNVHPKDSQVVLRGGDELVFSPSGK 228 (845)
Q Consensus 196 snGtV~VNGkkvgKg~kviL~~GDEIvfs~~g~ 228 (845)
.+|.|.|||+.+.+. ...++.||.|.+--.|+
T Consensus 206 ~~G~V~VNg~~v~~~-s~~v~~gD~IsvrG~Gr 237 (257)
T TIGR03069 206 KAGRLRLNWKTVTQP-SRELKVGDRLQLRGKGR 237 (257)
T ss_pred HCCeEEECCEEcCCC-CCcCCCCCEEEEcCCce
Confidence 578999999998765 44669999999976665
No 209
>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=24.70 E-value=64 Score=30.82 Aligned_cols=29 Identities=45% Similarity=0.658 Sum_probs=24.2
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhccCcEEE
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFSARLLI 524 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~AkLLi 524 (845)
-|.++|+.||- ..+++++||+.++.+++-
T Consensus 2 iI~i~G~~GSG--Kstia~~la~~lg~~~~~ 30 (171)
T TIGR02173 2 IITISGPPGSG--KTTVAKILAEKLSLKLIS 30 (171)
T ss_pred EEEEECCCCCC--HHHHHHHHHHHcCCceec
Confidence 48999999964 478999999999988543
No 210
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=24.52 E-value=58 Score=27.49 Aligned_cols=27 Identities=37% Similarity=0.631 Sum_probs=22.6
Q ss_pred eEEECCEEcCCC--ceEEeeCCCEEEEcc
Q 003126 199 EVEVNGNVHPKD--SQVVLRGGDELVFSP 225 (845)
Q Consensus 199 tV~VNGkkvgKg--~kviL~~GDEIvfs~ 225 (845)
.|.|||+.+.|. ...+|+.||+|-+.+
T Consensus 33 av~vNg~iv~r~~~~~~~l~~gD~vei~~ 61 (66)
T PRK05659 33 AVEVNGEIVPRSQHASTALREGDVVEIVH 61 (66)
T ss_pred EEEECCeEeCHHHcCcccCCCCCEEEEEE
Confidence 578999999987 678899999997743
No 211
>PRK01184 hypothetical protein; Provisional
Probab=23.82 E-value=73 Score=31.37 Aligned_cols=29 Identities=21% Similarity=0.395 Sum_probs=22.5
Q ss_pred ceeeccCCCchHHHHHHHHHHHhhccCcEEEE
Q 003126 494 RILLSGPAGSEIYQETLAKALAKHFSARLLIV 525 (845)
Q Consensus 494 rILLSGPaGsEiYQE~LaKALA~~f~AkLLil 525 (845)
.|+|+||+||= .-++++ ||+++|.+.+-.
T Consensus 3 ~i~l~G~~GsG--KsT~a~-~~~~~g~~~i~~ 31 (184)
T PRK01184 3 IIGVVGMPGSG--KGEFSK-IAREMGIPVVVM 31 (184)
T ss_pred EEEEECCCCCC--HHHHHH-HHHHcCCcEEEh
Confidence 58999999965 556777 889999877544
No 212
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=23.77 E-value=73 Score=38.93 Aligned_cols=28 Identities=32% Similarity=0.577 Sum_probs=24.7
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccCc
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSAR 521 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~Ak 521 (845)
.+.+||+||.| .+..++|++||+.+...
T Consensus 38 ~ha~Lf~GPpG--~GKTtiArilAk~L~C~ 65 (624)
T PRK14959 38 APAYLFSGTRG--VGKTTIARIFAKALNCE 65 (624)
T ss_pred CceEEEECCCC--CCHHHHHHHHHHhcccc
Confidence 46899999999 79999999999999753
No 213
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=23.44 E-value=54 Score=37.12 Aligned_cols=29 Identities=24% Similarity=0.356 Sum_probs=24.9
Q ss_pred CCCceeeccCCCchHHHHHHHHHHHhhccCc
Q 003126 491 MCPRILLSGPAGSEIYQETLAKALAKHFSAR 521 (845)
Q Consensus 491 ~s~rILLSGPaGsEiYQE~LaKALA~~f~Ak 521 (845)
....+||+||+| .-..++|++||+++...
T Consensus 37 ~~ha~lf~Gp~G--~GKtt~A~~~a~~l~c~ 65 (397)
T PRK14955 37 VGHGYIFSGLRG--VGKTTAARVFAKAVNCQ 65 (397)
T ss_pred cceeEEEECCCC--CCHHHHHHHHHHHhcCC
Confidence 345799999999 67899999999999765
No 214
>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]
Probab=23.35 E-value=60 Score=37.00 Aligned_cols=52 Identities=17% Similarity=0.300 Sum_probs=36.8
Q ss_pred HHHHHhh-----hcccCCCCEEEEEcchhhhhccChhHHHHHHHHhccCCCCEEEEeecc
Q 003126 691 NELFEVA-----LNESKSSPLIVFVKDIEKSLTGNNDAYGALKSKLENLPSNVVVIGSHT 745 (845)
Q Consensus 691 ~sL~EVL-----~SeS~~~PlILYikDvEK~l~~n~e~y~~fq~~LekLsg~VvIIGSq~ 745 (845)
+.+-+|+ .-+++.-|=+|||..|.-+= -|-|--|.+-|+.--.||||..|.-
T Consensus 278 ~eiNkvVn~Yid~GvAElvPGVLFIDEVhMLD---iEcFTyL~kalES~iaPivifAsNr 334 (456)
T KOG1942|consen 278 GEINKVVNKYIDQGVAELVPGVLFIDEVHMLD---IECFTYLHKALESPIAPIVIFASNR 334 (456)
T ss_pred HHHHHHHHHHHhcchhhhcCcceEeeehhhhh---hHHHHHHHHHhcCCCCceEEEecCC
Confidence 4455555 34567889999998775421 3445557788888889999999875
No 215
>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=22.97 E-value=2.5e+02 Score=28.62 Aligned_cols=44 Identities=18% Similarity=0.226 Sum_probs=32.8
Q ss_pred CCCCCCceeeccCCC---chHHHHHHHHHHHhhccCcEEEEeccCCCC
Q 003126 488 LPTMCPRILLSGPAG---SEIYQETLAKALAKHFSARLLIVDSLLLPG 532 (845)
Q Consensus 488 Lss~s~rILLSGPaG---sEiYQE~LaKALA~~f~AkLLilDs~~l~G 532 (845)
.....+.|.+.|+.| .-..--.||.|||.+.|-|.|++|. ++.+
T Consensus 31 ~~~~~~vi~v~s~kgG~GkSt~a~nLA~~la~~~g~~VLlvD~-D~~~ 77 (207)
T TIGR03018 31 RKKNNNLIMVTSSLPGEGKSFTAINLAISLAQEYDKTVLLIDA-DLRR 77 (207)
T ss_pred cCCCCeEEEEECCCCCCCHHHHHHHHHHHHHHhcCCeEEEEEC-CCCC
Confidence 334567899998887 2245667888899888999999997 5543
No 216
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=22.91 E-value=65 Score=37.69 Aligned_cols=43 Identities=23% Similarity=0.280 Sum_probs=35.0
Q ss_pred CCCCCCCCceeeccCCCchHHHHHHHHHHHhh---ccCcEEEEeccCC
Q 003126 486 SDLPTMCPRILLSGPAGSEIYQETLAKALAKH---FSARLLIVDSLLL 530 (845)
Q Consensus 486 ~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~---f~AkLLilDs~~l 530 (845)
+.+.....-|||.|++|| -.++||++|.++ -+.+++.||+..+
T Consensus 213 ~~~a~~~~pvli~Ge~Gt--GK~~lA~~ih~~s~r~~~pfv~i~c~~~ 258 (534)
T TIGR01817 213 RVVARSNSTVLLRGESGT--GKELIAKAIHYLSPRAKRPFVKVNCAAL 258 (534)
T ss_pred HHHhCcCCCEEEECCCCc--cHHHHHHHHHHhCCCCCCCeEEeecCCC
Confidence 344556778999999996 479999999887 3579999999766
No 217
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=22.82 E-value=2.7e+02 Score=30.10 Aligned_cols=38 Identities=13% Similarity=0.269 Sum_probs=26.1
Q ss_pred EEEEEcchhhhhccChhHHHHHHHHhccCCC-CEEEEee
Q 003126 706 LIVFVKDIEKSLTGNNDAYGALKSKLENLPS-NVVVIGS 743 (845)
Q Consensus 706 lILYikDvEK~l~~n~e~y~~fq~~LekLsg-~VvIIGS 743 (845)
=+|.++|...+=..+.+....|++.|++++. .+|||..
T Consensus 63 rlVvv~~~~~~~~~~~~~~~~L~~~l~~~~~~~~li~~~ 101 (326)
T PRK07452 63 RLVWLKNSPLCQGCSEELLAELERTLPLIPENTHLLLTN 101 (326)
T ss_pred eEEEEeCchhhccCCHHHHHHHHHHHcCCCCCcEEEEEe
Confidence 3678888755323456777889999999766 4555553
No 218
>CHL00095 clpC Clp protease ATP binding subunit
Probab=22.80 E-value=1.5e+02 Score=36.94 Aligned_cols=42 Identities=24% Similarity=0.408 Sum_probs=32.8
Q ss_pred CCCEEEEEcchhhhhc-----cChhHHHHHHHHhccCCCCEEEEeeccc
Q 003126 703 SSPLIVFVKDIEKSLT-----GNNDAYGALKSKLENLPSNVVVIGSHTQ 746 (845)
Q Consensus 703 ~~PlILYikDvEK~l~-----~n~e~y~~fq~~LekLsg~VvIIGSq~~ 746 (845)
.+++||||.++..++. +..+.-+.|+..|. .|.|.+||.-|.
T Consensus 270 ~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~--rg~l~~IgaTt~ 316 (821)
T CHL00095 270 NNNIILVIDEVHTLIGAGAAEGAIDAANILKPALA--RGELQCIGATTL 316 (821)
T ss_pred cCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHh--CCCcEEEEeCCH
Confidence 5899999999999775 23355667777776 488999998885
No 219
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=22.78 E-value=75 Score=27.69 Aligned_cols=27 Identities=26% Similarity=0.378 Sum_probs=21.6
Q ss_pred CceEEECCEEcCCCceEEeeCCCEEEEcc
Q 003126 197 KGEVEVNGNVHPKDSQVVLRGGDELVFSP 225 (845)
Q Consensus 197 nGtV~VNGkkvgKg~kviL~~GDEIvfs~ 225 (845)
.-.|.|||+.+.. ...|+.||+|.|-+
T Consensus 39 ~v~v~vNg~iv~~--~~~l~~gD~Veii~ 65 (70)
T PRK08364 39 SAIAKVNGKVALE--DDPVKDGDYVEVIP 65 (70)
T ss_pred cEEEEECCEECCC--CcCcCCCCEEEEEc
Confidence 3467899999964 67799999998844
No 220
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=22.55 E-value=73 Score=33.80 Aligned_cols=33 Identities=30% Similarity=0.228 Sum_probs=25.1
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhc-cCcEEEEec
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHF-SARLLIVDS 527 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f-~AkLLilDs 527 (845)
.-|+|.||+|| =.-+|||.||++| +...|-.|.
T Consensus 3 ~liil~G~pGS--GKSTla~~L~~~~~~~~~l~~D~ 36 (300)
T PHA02530 3 KIILTVGVPGS--GKSTWAREFAAKNPKAVNVNRDD 36 (300)
T ss_pred EEEEEEcCCCC--CHHHHHHHHHHHCCCCEEEeccH
Confidence 35899999995 4689999999999 665554443
No 221
>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A.
Probab=22.44 E-value=82 Score=33.57 Aligned_cols=34 Identities=26% Similarity=0.343 Sum_probs=26.2
Q ss_pred eeccCCCchHHHHHHHHHHHhhccCcEEEEeccCCC
Q 003126 496 LLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLLP 531 (845)
Q Consensus 496 LLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l~ 531 (845)
.+.||+|| =..-.+|+||+.+|-.+++++++.-.
T Consensus 36 ~~~Gpagt--GKtetik~La~~lG~~~~vfnc~~~~ 69 (231)
T PF12774_consen 36 ALSGPAGT--GKTETIKDLARALGRFVVVFNCSEQM 69 (231)
T ss_dssp EEESSTTS--SHHHHHHHHHHCTT--EEEEETTSSS
T ss_pred CCcCCCCC--CchhHHHHHHHHhCCeEEEecccccc
Confidence 57999994 34447999999999999999987663
No 222
>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=22.31 E-value=2.3e+02 Score=34.37 Aligned_cols=36 Identities=31% Similarity=0.389 Sum_probs=28.3
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhc----------cCcEEEEeccCC
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHF----------SARLLIVDSLLL 530 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f----------~AkLLilDs~~l 530 (845)
+.|||.||+|| -..+||+++++.. +.+++.+|...+
T Consensus 176 ~~vlL~Gp~Gt--GKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l 221 (615)
T TIGR02903 176 QHIILYGPPGV--GKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTL 221 (615)
T ss_pred CeEEEECCCCC--CHHHHHHHHHHhhhhccCCcccCCCCeEEEechhc
Confidence 45999999994 5788999987654 467888887655
No 223
>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=22.28 E-value=79 Score=30.68 Aligned_cols=30 Identities=23% Similarity=0.435 Sum_probs=24.7
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccCcEE
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSARLL 523 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~AkLL 523 (845)
.+.|++.||+|| =.-+|++.||++||...+
T Consensus 3 ~~ii~i~G~~Gs--GKsTl~~~l~~~~g~~~~ 32 (188)
T TIGR01360 3 CKIIFIVGGPGS--GKGTQCEKIVEKYGFTHL 32 (188)
T ss_pred CcEEEEECCCCC--CHHHHHHHHHHHhCCcEE
Confidence 467999999994 578899999999986533
No 224
>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=22.10 E-value=60 Score=35.06 Aligned_cols=26 Identities=31% Similarity=0.554 Sum_probs=0.0
Q ss_pred CCCceeeccCCCchHHHHHHHHHHHhhc
Q 003126 491 MCPRILLSGPAGSEIYQETLAKALAKHF 518 (845)
Q Consensus 491 ~s~rILLSGPaGsEiYQE~LaKALA~~f 518 (845)
..+.+||+||+| ....++|++||+.+
T Consensus 35 ~~~~~Ll~G~~G--~GKt~~a~~la~~l 60 (355)
T TIGR02397 35 IAHAYLFSGPRG--TGKTSIARIFAKAL 60 (355)
T ss_pred CCeEEEEECCCC--CCHHHHHHHHHHHh
No 225
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=22.07 E-value=3.6e+02 Score=28.92 Aligned_cols=40 Identities=20% Similarity=0.311 Sum_probs=28.3
Q ss_pred CCEEEEEcchhhhhccChhHHHHHHHHhccCCCCEEEEeecc
Q 003126 704 SPLIVFVKDIEKSLTGNNDAYGALKSKLENLPSNVVVIGSHT 745 (845)
Q Consensus 704 ~PlILYikDvEK~l~~n~e~y~~fq~~LekLsg~VvIIGSq~ 745 (845)
.+=||+|.|++.. +..+....|...++..++++.||..-+
T Consensus 100 ~~~vliiDe~d~l--~~~~~~~~L~~~le~~~~~~~~Ilt~n 139 (316)
T PHA02544 100 GGKVIIIDEFDRL--GLADAQRHLRSFMEAYSKNCSFIITAN 139 (316)
T ss_pred CCeEEEEECcccc--cCHHHHHHHHHHHHhcCCCceEEEEcC
Confidence 4568999999874 233455667777888888777776554
No 226
>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=21.92 E-value=79 Score=39.53 Aligned_cols=38 Identities=29% Similarity=0.406 Sum_probs=30.8
Q ss_pred CceeeccCCCchHHHHHHHHHHHhhc---cCcEEEEeccCCCC
Q 003126 493 PRILLSGPAGSEIYQETLAKALAKHF---SARLLIVDSLLLPG 532 (845)
Q Consensus 493 ~rILLSGPaGsEiYQE~LaKALA~~f---~AkLLilDs~~l~G 532 (845)
..+||.||+| .-...|||+||+.+ +.+++.+|.+.+..
T Consensus 596 ~~~Lf~Gp~G--vGKt~lA~~La~~l~~~~~~~i~~d~s~~~~ 636 (852)
T TIGR03346 596 GSFLFLGPTG--VGKTELAKALAEFLFDDEDAMVRIDMSEYME 636 (852)
T ss_pred eEEEEEcCCC--CCHHHHHHHHHHHhcCCCCcEEEEechhhcc
Confidence 3589999999 45778999999986 56889999876644
No 227
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=21.91 E-value=36 Score=30.18 Aligned_cols=26 Identities=42% Similarity=0.641 Sum_probs=15.3
Q ss_pred CceEEECCEEcCCCceEEeeCCCEEEE
Q 003126 197 KGEVEVNGNVHPKDSQVVLRGGDELVF 223 (845)
Q Consensus 197 nGtV~VNGkkvgKg~kviL~~GDEIvf 223 (845)
.|.|+|||+...+- ..-|..||.|.|
T Consensus 32 ~g~V~VNGe~e~rr-g~Kl~~GD~V~~ 57 (65)
T PF13275_consen 32 EGEVKVNGEVETRR-GKKLRPGDVVEI 57 (65)
T ss_dssp HHHHEETTB----S-S----SSEEEEE
T ss_pred cCceEECCEEcccc-CCcCCCCCEEEE
Confidence 47889999987654 556899999998
No 228
>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=21.90 E-value=2.7e+02 Score=29.41 Aligned_cols=30 Identities=13% Similarity=0.150 Sum_probs=23.4
Q ss_pred hhhccCCcceeecCCcchhHHHHHHHHHHH
Q 003126 796 QISRLFPNKVTIQLPQDEALLSDWKQQLER 825 (845)
Q Consensus 796 ~LtkLFPNkI~I~pPqDE~~L~~WK~QLEe 825 (845)
.|..-|+..|.+.++..+..+.-|++.+.+
T Consensus 164 ~L~sRf~~~i~f~~~~~~el~~Il~~~~~~ 193 (261)
T TIGR02881 164 GLRSRFPISIDFPDYTVEELMEIAERMVKE 193 (261)
T ss_pred HHHhccceEEEECCCCHHHHHHHHHHHHHH
Confidence 455557888888888888888888877764
No 229
>COG3045 CreA Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.89 E-value=1.2e+02 Score=31.29 Aligned_cols=60 Identities=32% Similarity=0.504 Sum_probs=39.8
Q ss_pred cCCCCccceeEEEEeecCC--CceEEEEEecCC-------ceEEECCEEcCCCceEEeeCCCEEEEccCCCeeEEEEec
Q 003126 167 KDPSISKNLCRLRRIENGG--PSGALLEITGGK-------GEVEVNGNVHPKDSQVVLRGGDELVFSPSGKHSYIFQQL 236 (845)
Q Consensus 167 ~D~~IS~~hCkI~r~e~gg--~~vA~LEd~ssn-------GtV~VNGkkvgKg~kviL~~GDEIvfs~~g~~aYIFq~l 236 (845)
.|+.+-++-|-+.+.++|+ ..+-+.||.+.+ |.+.+..+...| |-|.+|-. +...||..+
T Consensus 48 dDP~V~gVTCyvs~a~~ggik~~~~~~ED~SdasISC~QtGpI~i~d~~~~~--------~ge~VFk~--~~SlifKsl 116 (165)
T COG3045 48 DDPDVKGVTCYVSRAKTGGIKGLLNLAEDPSDASISCRQTGPIEISDIDKSK--------GGEEVFKK--RTSLIFKSL 116 (165)
T ss_pred CCCCcCcEEEEEEEecccCcccccccccCcccCeeeEEeeCCEEeccccccc--------chhhhhhc--cceeeEeee
Confidence 4799999999999998887 245678988875 444444444333 44555633 455666654
No 230
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=21.75 E-value=1e+02 Score=36.50 Aligned_cols=75 Identities=16% Similarity=0.162 Sum_probs=56.0
Q ss_pred ccccccccc---------cchhhHHHHHHHhhhccccccccccccCCCCCCCCceeeccCCCchHHHHHHHHHHHhhccC
Q 003126 450 EVSFESFPY---------YLSDITKNVLIASTYVHLKCNNFAKYASDLPTMCPRILLSGPAGSEIYQETLAKALAKHFSA 520 (845)
Q Consensus 450 ~vSFd~FPY---------YLSE~TK~~L~saa~vHLk~~e~skyt~~Lss~s~rILLSGPaGsEiYQE~LaKALA~~f~A 520 (845)
.-.|..||+ =+....|.-++.=..-.++.++|- .+.=-+=-|--||-||||| -...|+=|+|+|++-
T Consensus 186 ~~~W~~v~f~HpstF~TlaMd~~~K~~I~~Dl~~F~k~k~~Y--krvGkawKRGYLLYGPPGT--GKSS~IaAmAn~L~y 261 (457)
T KOG0743|consen 186 GGEWRSVGFPHPSTFETLAMDPDLKERIIDDLDDFIKGKDFY--KRVGKAWKRGYLLYGPPGT--GKSSFIAAMANYLNY 261 (457)
T ss_pred CCcceecCCCCCCCccccccChhHHHHHHHHHHHHHhcchHH--HhcCcchhccceeeCCCCC--CHHHHHHHHHhhcCC
Confidence 345666665 367788888888888888888873 3333455677899999995 567899999999998
Q ss_pred cEEEEecc
Q 003126 521 RLLIVDSL 528 (845)
Q Consensus 521 kLLilDs~ 528 (845)
.+-.|+-+
T Consensus 262 dIydLeLt 269 (457)
T KOG0743|consen 262 DIYDLELT 269 (457)
T ss_pred ceEEeeec
Confidence 77666653
No 231
>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=21.51 E-value=3.2e+02 Score=29.12 Aligned_cols=95 Identities=9% Similarity=0.227 Sum_probs=56.6
Q ss_pred HHHHHHHhhhcccCCCCEEEEEcchhhhhc-cChhHHHHHHHHhccCCCCEEEEeecccCCCccccCCCCCcceeccCCc
Q 003126 689 AINELFEVALNESKSSPLIVFVKDIEKSLT-GNNDAYGALKSKLENLPSNVVVIGSHTQLDSRKEKSHPGGLLFTKFGSN 767 (845)
Q Consensus 689 lI~sL~EVL~SeS~~~PlILYikDvEK~l~-~n~e~y~~fq~~LekLsg~VvIIGSq~~~d~~KeK~~~g~~~f~kfg~~ 767 (845)
+++.+.+.|.. ...++||+|-|.+..-. .-.+++..++-.|+- ++=++||+--..
T Consensus 159 ~~~~~~~~l~~--~~~~iViiIDdLDR~~~~~i~~~l~~ik~~~~~-~~i~~Il~~D~~--------------------- 214 (325)
T PF07693_consen 159 LISKIKKKLKE--SKKRIVIIIDDLDRCSPEEIVELLEAIKLLLDF-PNIIFILAFDPE--------------------- 214 (325)
T ss_pred HHHHHHHhhhc--CCceEEEEEcchhcCCcHHHHHHHHHHHHhcCC-CCeEEEEEecHH---------------------
Confidence 45566666654 68999999999999422 224466666666665 555666664431
Q ss_pred ccccccccCCCccccccccCCCchHHHhhhhccCCcceeecCCcchh
Q 003126 768 QTALLDLAFPDNFSRLHDRSKETPKALKQISRLFPNKVTIQLPQDEA 814 (845)
Q Consensus 768 ~~aLldlafpd~~~rl~d~~kd~~k~~e~LtkLFPNkI~I~pPqDE~ 814 (845)
.|... .-..++ .+.+.....+-|-|+|...+.|++|....
T Consensus 215 --~l~~a-i~~~~~----~~~~~~~~~~yLeKiiq~~~~lP~~~~~~ 254 (325)
T PF07693_consen 215 --ILEKA-IEKNYG----EGFDEIDGREYLEKIIQVPFSLPPPSPSD 254 (325)
T ss_pred --HHHHH-HHhhcC----cccccccHHHHHHhhcCeEEEeCCCCHHH
Confidence 00000 000000 00022345678999999999999998765
No 232
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=21.40 E-value=63 Score=36.06 Aligned_cols=27 Identities=37% Similarity=0.502 Sum_probs=22.9
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccC
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSA 520 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~A 520 (845)
...+||+||+| .-..+||++||+.+..
T Consensus 38 ~h~~L~~Gp~G--~GKTtla~~la~~l~c 64 (363)
T PRK14961 38 HHAWLLSGTRG--VGKTTIARLLAKSLNC 64 (363)
T ss_pred CeEEEEecCCC--CCHHHHHHHHHHHhcC
Confidence 34689999999 5678999999999874
No 233
>PLN02674 adenylate kinase
Probab=21.34 E-value=69 Score=34.60 Aligned_cols=30 Identities=27% Similarity=0.407 Sum_probs=24.8
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccCcEE
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSARLL 523 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~AkLL 523 (845)
..+|+|-||+|+ -.-++++.||++|+..-+
T Consensus 31 ~~~i~l~G~PGs--GKgT~a~~La~~~~~~hi 60 (244)
T PLN02674 31 DKRLILIGPPGS--GKGTQSPIIKDEYCLCHL 60 (244)
T ss_pred CceEEEECCCCC--CHHHHHHHHHHHcCCcEE
Confidence 478999999995 456899999999996544
No 234
>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=21.19 E-value=66 Score=31.93 Aligned_cols=26 Identities=35% Similarity=0.551 Sum_probs=20.4
Q ss_pred CCCceeeccCCCchHHHHHHHHHHHhhc
Q 003126 491 MCPRILLSGPAGSEIYQETLAKALAKHF 518 (845)
Q Consensus 491 ~s~rILLSGPaGsEiYQE~LaKALA~~f 518 (845)
+...+||.||.| .....+|+++|+.+
T Consensus 18 l~ha~L~~G~~g--~gk~~~a~~~a~~l 43 (162)
T PF13177_consen 18 LPHALLFHGPSG--SGKKTLALAFARAL 43 (162)
T ss_dssp --SEEEEECSTT--SSHHHHHHHHHHHH
T ss_pred cceeEEEECCCC--CCHHHHHHHHHHHH
Confidence 457899999998 66788999999864
No 235
>PRK11630 hypothetical protein; Provisional
Probab=21.11 E-value=2e+02 Score=30.18 Aligned_cols=55 Identities=22% Similarity=0.300 Sum_probs=37.9
Q ss_pred hHHHHHHHHHhhhcccCCCCEEEEEcchhhhhc---cChhHHHHHHHHh-ccCCCCEEEEeecc
Q 003126 686 DKLAINELFEVALNESKSSPLIVFVKDIEKSLT---GNNDAYGALKSKL-ENLPSNVVVIGSHT 745 (845)
Q Consensus 686 eKllI~sL~EVL~SeS~~~PlILYikDvEK~l~---~n~e~y~~fq~~L-ekLsg~VvIIGSq~ 745 (845)
..-+++.||++=. -++..||||++.|++++.. -+.+.+ +.+ ...||++-+|--..
T Consensus 46 n~~Av~~l~~lK~-R~~~Kpl~ll~~~~~~~~~~~~~~~~~~----~l~~~~wPGplT~Il~a~ 104 (206)
T PRK11630 46 DKNAMERICRIRQ-LPDGHNFTLMCRDLSELSTYSFVDNVAF----RLMKNNTPGNYTFILKGT 104 (206)
T ss_pred CHHHHHHHHHHcC-CCCCCCeEEEECCHHHHHHHhcCCHHHH----HHHHhcCCCCeEEEEECC
Confidence 4668999999764 4678899999999877443 222222 344 34599999887543
No 236
>PRK10865 protein disaggregation chaperone; Provisional
Probab=21.05 E-value=71 Score=40.12 Aligned_cols=34 Identities=29% Similarity=0.499 Sum_probs=0.0
Q ss_pred eeeccCCCchHHHHHHHHHHHhhc---cCcEEEEeccCC
Q 003126 495 ILLSGPAGSEIYQETLAKALAKHF---SARLLIVDSLLL 530 (845)
Q Consensus 495 ILLSGPaGsEiYQE~LaKALA~~f---~AkLLilDs~~l 530 (845)
+||.||+| --...|||+||+++ +.+++.+|.+.+
T Consensus 601 ~Lf~Gp~G--~GKT~lA~aLa~~l~~~~~~~i~id~se~ 637 (857)
T PRK10865 601 FLFLGPTG--VGKTELCKALANFMFDSDDAMVRIDMSEF 637 (857)
T ss_pred EEEECCCC--CCHHHHHHHHHHHhhcCCCcEEEEEhHHh
No 237
>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=21.00 E-value=97 Score=39.54 Aligned_cols=60 Identities=28% Similarity=0.482 Sum_probs=39.1
Q ss_pred cccCCCCeeeEeecCCCCCccCCCCCCCCCcccceeeeeccc-----CCCCceeeeccCCCCCCCCCC------CCCCCC
Q 003126 597 YTFKKGDRVKFVGNVTSGTTVQPTLRGPGIGFRGRVILPFED-----NDFSKIGVRFDRSIPEGNNLG------GFCEDD 665 (845)
Q Consensus 597 ~t~kkGDRVkyvGs~~~~s~~~~~~R~ps~G~rG~V~l~fE~-----N~ssKVgVrFD~~i~dg~dlg------~~ce~~ 665 (845)
++||-|.||+..|. +-+|+|. |.. -|. =|||+.|-+-. -|++. -.|+++
T Consensus 4 r~lkvG~RVevtgk----------------nl~G~Va--yvG~T~FA~G~-WvGVvLDep~G-KNnGsVqg~qYF~Cd~n 63 (1243)
T KOG0971|consen 4 RSLKVGTRVEVTGK----------------NLQGTVA--YVGQTQFAEGK-WVGVVLDEPKG-KNNGSVQGVQYFECDEN 63 (1243)
T ss_pred ccccccceEEeccC----------------CccceEE--EecccccccCc-eEEEEeccccC-CCCCcccceeeEecCCC
Confidence 56788999988773 2345663 443 133 58999998633 23333 379999
Q ss_pred CCceeccCccc
Q 003126 666 HGFFCTASSLR 676 (845)
Q Consensus 666 ~g~fc~a~~lr 676 (845)
+|.|+-.+-+|
T Consensus 64 cG~FVr~sq~r 74 (1243)
T KOG0971|consen 64 CGVFVRSSQVR 74 (1243)
T ss_pred cceEeehhhhH
Confidence 99997766543
No 238
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=20.98 E-value=66 Score=38.19 Aligned_cols=29 Identities=28% Similarity=0.342 Sum_probs=25.2
Q ss_pred CCceeeccCCCchHHHHHHHHHHHhhccCcE
Q 003126 492 CPRILLSGPAGSEIYQETLAKALAKHFSARL 522 (845)
Q Consensus 492 s~rILLSGPaGsEiYQE~LaKALA~~f~AkL 522 (845)
.+.+||+||+| .-..++|++||+.++...
T Consensus 43 ~~a~Lf~Gp~G--~GKTT~ArilAk~Lnc~~ 71 (507)
T PRK06645 43 AGGYLLTGIRG--VGKTTSARIIAKAVNCSA 71 (507)
T ss_pred CceEEEECCCC--CCHHHHHHHHHHHhcCcc
Confidence 57799999999 578899999999998754
No 239
>TIGR00005 rluA_subfam pseudouridine synthase, RluA family. modifies uracil-65 in transfer RNAs to pseudouridine.
Probab=20.69 E-value=79 Score=34.05 Aligned_cols=27 Identities=30% Similarity=0.653 Sum_probs=21.0
Q ss_pred CCceEEECCEEcCCCceEEeeCCCEEEE
Q 003126 196 GKGEVEVNGNVHPKDSQVVLRGGDELVF 223 (845)
Q Consensus 196 snGtV~VNGkkvgKg~kviL~~GDEIvf 223 (845)
.+|.|+|||+.+.+ ....|+.||+|.+
T Consensus 29 ~~G~V~VNg~~~~~-~~~~v~~gd~I~i 55 (299)
T TIGR00005 29 ENGQVKVNGKVTAN-PKLKVKDGDRITV 55 (299)
T ss_pred HCCcEEECCEeccC-cccCCCCCCEEEE
Confidence 47889999965543 4678889999977
No 240
>PF07883 Cupin_2: Cupin domain; InterPro: IPR013096 This family represents the conserved barrel domain of the cupin superfamily [] (cupa is the Latin term for a small barrel). ; PDB: 2OPK_C 3BU7_B 2PHD_D 3NVC_A 3NKT_A 3NJZ_A 3NW4_A 3NST_A 3NL1_A 2H0V_A ....
Probab=20.58 E-value=2.5e+02 Score=23.03 Aligned_cols=38 Identities=26% Similarity=0.544 Sum_probs=30.5
Q ss_pred EEEEEecCCceEEECCEEcCCCceEEeeCCCEEEEccCCCeeEE
Q 003126 189 ALLEITGGKGEVEVNGNVHPKDSQVVLRGGDELVFSPSGKHSYI 232 (845)
Q Consensus 189 A~LEd~ssnGtV~VNGkkvgKg~kviL~~GDEIvfs~~g~~aYI 232 (845)
.++-+++..+++.++|. .+.|+.||-|.+-....|.|+
T Consensus 21 e~~~vl~G~~~~~~~~~------~~~l~~Gd~~~i~~~~~H~~~ 58 (71)
T PF07883_consen 21 EFFYVLSGEGTLTVDGE------RVELKPGDAIYIPPGVPHQVR 58 (71)
T ss_dssp EEEEEEESEEEEEETTE------EEEEETTEEEEEETTSEEEEE
T ss_pred EEEEEEECCEEEEEccE------EeEccCCEEEEECCCCeEEEE
Confidence 67888888889888866 899999999888666566654
No 241
>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]
Probab=20.53 E-value=61 Score=36.24 Aligned_cols=51 Identities=27% Similarity=0.381 Sum_probs=38.4
Q ss_pred cccccccccccCCCCCCC-CceeeccCCCchHHHHHHHHHHHhhccCcEEEEeccCC
Q 003126 475 HLKCNNFAKYASDLPTMC-PRILLSGPAGSEIYQETLAKALAKHFSARLLIVDSLLL 530 (845)
Q Consensus 475 HLk~~e~skyt~~Lss~s-~rILLSGPaGsEiYQE~LaKALA~~f~AkLLilDs~~l 530 (845)
..||+|+.+ .|.-+- .-+||-||+||- .-.||+|.|||-+.+++=+-.+.|
T Consensus 166 PvKHPELF~---aLGIaQPKGvlLygppgtG--ktLlaraVahht~c~firvsgsel 217 (404)
T KOG0728|consen 166 PVKHPELFE---ALGIAQPKGVLLYGPPGTG--KTLLARAVAHHTDCTFIRVSGSEL 217 (404)
T ss_pred cccCHHHHH---hcCCCCCcceEEecCCCCc--hhHHHHHHHhhcceEEEEechHHH
Confidence 678887743 344333 569999999964 557999999999999887766555
No 242
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=20.43 E-value=66 Score=35.91 Aligned_cols=29 Identities=38% Similarity=0.426 Sum_probs=24.1
Q ss_pred CCCCCceeeccCCCchHHHHHHHHHHHhhcc
Q 003126 489 PTMCPRILLSGPAGSEIYQETLAKALAKHFS 519 (845)
Q Consensus 489 ss~s~rILLSGPaGsEiYQE~LaKALA~~f~ 519 (845)
.-...++|++||.| +-...||++||+.+-
T Consensus 19 ~r~~ha~Lf~G~~G--~GK~~~A~~~A~~ll 47 (328)
T PRK05707 19 GRHPHAYLLHGPAG--IGKRALAERLAAALL 47 (328)
T ss_pred CCcceeeeeECCCC--CCHHHHHHHHHHHHc
Confidence 44567899999999 678889999998864
No 243
>PRK10839 16S rRNA pseudouridylate synthase A; Provisional
Probab=20.20 E-value=85 Score=32.75 Aligned_cols=27 Identities=15% Similarity=0.313 Sum_probs=21.3
Q ss_pred CCceEEECCEEcCCCceEEeeCCCEEEE
Q 003126 196 GKGEVEVNGNVHPKDSQVVLRGGDELVF 223 (845)
Q Consensus 196 snGtV~VNGkkvgKg~kviL~~GDEIvf 223 (845)
.+|.|+|||+.+.+ ....|..||+|.+
T Consensus 23 ~~g~V~VNg~~~~~-~~~~l~~gd~I~l 49 (232)
T PRK10839 23 RANRVTVDGEIVKN-GAFKLLPEHDVAY 49 (232)
T ss_pred HcCeEEECCEEecc-CCcCcCCCCEEEE
Confidence 46789999998853 3557789999877
No 244
>PF11101 DUF2884: Protein of unknown function (DUF2884); InterPro: IPR021307 Some members in this bacterial family of proteins are annotated as YggN which currently has no known function.
Probab=20.01 E-value=1e+02 Score=32.80 Aligned_cols=18 Identities=17% Similarity=0.141 Sum_probs=13.1
Q ss_pred EEecCCceEEECCEEcCC
Q 003126 192 EITGGKGEVEVNGNVHPK 209 (845)
Q Consensus 192 Ed~ssnGtV~VNGkkvgK 209 (845)
..+..+|.+||||++|.=
T Consensus 26 ~~I~~~g~L~i~G~~v~L 43 (229)
T PF11101_consen 26 LRIDPDGNLFINGKKVSL 43 (229)
T ss_pred EEEcCCCcEEECCEEccC
Confidence 445577888999987653
Done!