Query 014661
Match_columns 420
No_of_seqs 171 out of 1590
Neff 8.1
Searched_HMMs 46136
Date Fri Mar 29 07:18:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014661.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014661hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0480 DNA replication licens 100.0 1.1E-90 2.3E-95 692.5 34.0 390 4-420 19-453 (764)
2 COG1241 MCM2 Predicted ATPase 100.0 1.1E-87 2.4E-92 696.2 38.2 360 38-420 31-394 (682)
3 KOG0481 DNA replication licens 100.0 3E-86 6.6E-91 645.2 34.3 394 9-420 28-439 (729)
4 KOG0479 DNA replication licens 100.0 7.3E-86 1.6E-90 650.4 31.0 391 7-420 11-409 (818)
5 KOG0477 DNA replication licens 100.0 4.4E-86 9.6E-91 656.1 22.6 384 9-420 161-557 (854)
6 KOG0482 DNA replication licens 100.0 1.8E-85 3.8E-90 639.3 18.6 396 5-420 9-450 (721)
7 KOG0478 DNA replication licens 100.0 3.9E-85 8.4E-90 657.1 20.6 384 7-420 131-537 (804)
8 PTZ00111 DNA replication licen 100.0 4.7E-78 1E-82 637.1 37.8 393 7-420 85-568 (915)
9 smart00350 MCM minichromosome 100.0 7.1E-67 1.5E-71 540.9 31.0 296 114-420 3-311 (509)
10 PF00493 MCM: MCM2/3/5 family 100.0 2.1E-43 4.5E-48 347.1 2.3 121 299-420 10-132 (331)
11 PF14551 MCM_N: MCM N-terminal 99.6 2.1E-16 4.6E-21 133.0 4.6 111 11-132 3-121 (121)
12 PF01078 Mg_chelatase: Magnesi 99.0 3.6E-10 7.8E-15 102.7 6.5 92 314-419 3-116 (206)
13 PRK13407 bchI magnesium chelat 98.8 5.4E-09 1.2E-13 102.8 6.7 93 315-420 9-139 (334)
14 TIGR00368 Mg chelatase-related 98.8 3.8E-09 8.1E-14 109.3 5.2 92 315-420 193-306 (499)
15 TIGR02030 BchI-ChlI magnesium 98.8 6.4E-09 1.4E-13 102.4 6.4 94 315-420 5-142 (337)
16 TIGR02442 Cob-chelat-sub cobal 98.7 1.7E-08 3.6E-13 108.0 6.6 95 314-420 4-137 (633)
17 TIGR02031 BchD-ChlD magnesium 98.7 1.7E-08 3.8E-13 106.8 6.0 89 320-420 1-95 (589)
18 CHL00081 chlI Mg-protoporyphyr 98.7 1.7E-08 3.6E-13 99.6 4.6 93 315-419 18-154 (350)
19 COG0606 Predicted ATPase with 98.7 2.1E-08 4.6E-13 100.5 5.2 89 315-418 180-292 (490)
20 PF07728 AAA_5: AAA domain (dy 98.6 2.2E-08 4.8E-13 86.0 2.6 72 349-420 1-76 (139)
21 PRK09862 putative ATP-dependen 98.5 7E-08 1.5E-12 99.6 4.1 92 315-420 192-305 (506)
22 CHL00181 cbbX CbbX; Provisiona 98.3 2.3E-07 5E-12 89.7 2.5 107 306-420 15-133 (287)
23 PRK13531 regulatory ATPase Rav 98.3 7.8E-07 1.7E-11 90.7 5.7 99 306-420 12-118 (498)
24 PRK10787 DNA-binding ATP-depen 98.2 3.3E-06 7.1E-11 92.2 7.1 60 310-377 318-379 (784)
25 COG1239 ChlI Mg-chelatase subu 98.1 2.8E-06 6E-11 84.3 5.2 96 312-419 15-154 (423)
26 PRK05342 clpX ATP-dependent pr 98.1 1.8E-06 3.9E-11 87.5 3.5 103 315-420 72-184 (412)
27 COG0714 MoxR-like ATPases [Gen 98.1 8.6E-06 1.9E-10 80.5 7.7 101 306-420 16-123 (329)
28 TIGR00382 clpX endopeptidase C 98.1 3.4E-06 7.3E-11 85.2 4.5 108 310-420 73-192 (413)
29 TIGR02881 spore_V_K stage V sp 98.0 2.7E-06 5.8E-11 81.3 3.0 57 315-371 7-66 (261)
30 PRK13406 bchD magnesium chelat 98.0 6.5E-06 1.4E-10 86.8 5.0 90 319-419 8-103 (584)
31 KOG2004 Mitochondrial ATP-depe 97.8 1.6E-05 3.4E-10 83.1 4.0 100 311-420 408-516 (906)
32 PHA02244 ATPase-like protein 97.8 1.7E-05 3.6E-10 78.4 3.5 72 346-420 118-191 (383)
33 TIGR01650 PD_CobS cobaltochela 97.7 0.00012 2.6E-09 71.6 7.8 72 349-420 66-145 (327)
34 TIGR02640 gas_vesic_GvpN gas v 97.7 3.6E-05 7.8E-10 73.6 4.0 73 348-420 22-116 (262)
35 TIGR02880 cbbX_cfxQ probable R 97.6 2.8E-05 6.1E-10 75.2 2.6 58 314-371 22-82 (284)
36 TIGR00763 lon ATP-dependent pr 97.6 0.00011 2.5E-09 80.6 7.5 63 308-376 314-376 (775)
37 COG0466 Lon ATP-dependent Lon 97.6 7.9E-05 1.7E-09 78.3 5.7 96 310-420 319-428 (782)
38 PF07726 AAA_3: ATPase family 97.6 8.6E-05 1.9E-09 62.5 4.4 68 349-419 1-72 (131)
39 PF00158 Sigma54_activat: Sigm 97.6 2.7E-05 5.9E-10 69.3 1.5 73 345-420 20-104 (168)
40 TIGR02902 spore_lonB ATP-depen 97.5 0.00017 3.7E-09 75.8 7.3 94 315-420 66-186 (531)
41 cd00009 AAA The AAA+ (ATPases 97.5 9.5E-05 2.1E-09 62.5 3.8 42 318-371 2-43 (151)
42 PRK00080 ruvB Holliday junctio 97.4 0.00013 2.8E-09 72.1 4.3 87 315-420 26-113 (328)
43 PF00004 AAA: ATPase family as 97.4 3.3E-05 7.1E-10 65.0 -0.7 27 350-376 1-27 (132)
44 COG1219 ClpX ATP-dependent pro 97.3 4.8E-05 1E-09 72.8 0.2 102 315-420 62-173 (408)
45 smart00382 AAA ATPases associa 97.3 0.00011 2.4E-09 61.5 2.1 34 348-381 3-40 (148)
46 PF07724 AAA_2: AAA domain (Cd 97.3 6.2E-05 1.3E-09 67.2 0.2 69 348-420 4-79 (171)
47 TIGR00764 lon_rel lon-related 97.3 0.00055 1.2E-08 73.1 7.2 49 312-374 16-64 (608)
48 TIGR00635 ruvB Holliday juncti 97.2 0.00031 6.6E-09 68.5 3.5 54 315-375 5-58 (305)
49 TIGR02974 phageshock_pspF psp 97.1 0.0004 8.6E-09 68.7 3.8 75 345-420 20-104 (329)
50 PF05496 RuvB_N: Holliday junc 97.0 0.0007 1.5E-08 62.5 3.9 52 315-377 25-80 (233)
51 PRK11608 pspF phage shock prot 97.0 0.00068 1.5E-08 66.9 4.1 75 346-420 28-111 (326)
52 PLN03025 replication factor C 96.9 0.00054 1.2E-08 67.4 3.0 45 315-371 14-58 (319)
53 PRK14962 DNA polymerase III su 96.9 0.0012 2.6E-08 68.3 5.6 47 315-372 15-61 (472)
54 PRK13765 ATP-dependent proteas 96.9 0.002 4.4E-08 68.8 7.2 48 311-372 28-75 (637)
55 TIGR02903 spore_lon_C ATP-depe 96.9 0.0018 3.9E-08 69.3 6.5 48 312-371 152-199 (615)
56 CHL00195 ycf46 Ycf46; Provisio 96.8 0.00046 1E-08 71.5 0.9 59 315-377 229-289 (489)
57 KOG0745 Putative ATP-dependent 96.7 0.0016 3.4E-08 65.0 4.1 73 347-420 226-302 (564)
58 TIGR00390 hslU ATP-dependent p 96.7 0.0022 4.7E-08 64.7 5.0 68 308-376 6-76 (441)
59 COG3829 RocR Transcriptional r 96.6 0.0025 5.4E-08 65.5 5.1 69 345-419 266-350 (560)
60 COG3604 FhlA Transcriptional r 96.6 0.0021 4.6E-08 65.3 4.5 68 345-418 244-326 (550)
61 PRK15429 formate hydrogenlyase 96.6 0.0019 4.2E-08 70.2 4.1 95 315-420 377-481 (686)
62 TIGR01817 nifA Nif-specific re 96.5 0.0019 4.2E-08 68.1 3.8 75 346-420 218-301 (534)
63 TIGR02639 ClpA ATP-dependent C 96.5 0.0046 9.9E-08 67.7 6.2 66 307-375 447-512 (731)
64 PRK05201 hslU ATP-dependent pr 96.4 0.0033 7.1E-08 63.5 4.4 70 307-376 8-79 (443)
65 PRK15424 propionate catabolism 96.4 0.0028 6E-08 66.5 4.1 69 346-419 241-332 (538)
66 TIGR01241 FtsH_fam ATP-depende 96.4 0.0013 2.7E-08 68.8 1.5 29 348-376 89-117 (495)
67 PRK03992 proteasome-activating 96.4 0.0013 2.7E-08 66.7 1.2 28 348-375 166-193 (389)
68 PRK10820 DNA-binding transcrip 96.3 0.0027 5.9E-08 66.7 3.2 71 347-420 227-309 (520)
69 TIGR02329 propionate_PrpR prop 96.3 0.0031 6.6E-08 66.2 3.6 66 346-419 234-317 (526)
70 KOG0739 AAA+-type ATPase [Post 96.3 0.0035 7.6E-08 59.8 3.5 51 316-375 135-194 (439)
71 PF12775 AAA_7: P-loop contain 96.2 0.0031 6.7E-08 60.6 3.0 45 320-376 18-62 (272)
72 PRK11388 DNA-binding transcrip 96.2 0.0041 8.8E-08 67.1 4.3 73 346-420 347-427 (638)
73 PRK11034 clpA ATP-dependent Cl 96.2 0.0072 1.6E-07 66.0 6.0 63 307-375 451-516 (758)
74 PF13337 Lon_2: Putative ATP-d 96.2 0.0094 2E-07 60.4 6.3 93 305-419 175-269 (457)
75 PRK12402 replication factor C 96.2 0.0083 1.8E-07 59.1 5.8 45 315-371 16-60 (337)
76 PRK05022 anaerobic nitric oxid 96.2 0.0043 9.3E-08 65.1 3.8 72 346-420 209-292 (509)
77 COG0465 HflB ATP-dependent Zn 96.2 0.002 4.2E-08 67.7 1.3 66 349-420 185-253 (596)
78 PF14532 Sigma54_activ_2: Sigm 96.1 0.0024 5.3E-08 54.7 1.5 59 346-420 20-80 (138)
79 TIGR02688 conserved hypothetic 96.1 0.00096 2.1E-08 67.1 -1.2 95 305-419 176-270 (449)
80 PRK11331 5-methylcytosine-spec 95.9 0.019 4.1E-07 58.6 7.0 43 315-371 176-218 (459)
81 COG2255 RuvB Holliday junction 95.9 0.013 2.7E-07 55.8 5.2 56 316-380 28-86 (332)
82 KOG0734 AAA+-type ATPase conta 95.9 0.0029 6.4E-08 64.6 1.1 65 349-419 339-406 (752)
83 COG2204 AtoC Response regulato 95.9 0.0096 2.1E-07 60.9 4.7 69 345-419 162-245 (464)
84 smart00763 AAA_PrkA PrkA AAA d 95.9 0.011 2.3E-07 58.7 4.9 53 315-373 52-104 (361)
85 PRK08903 DnaA regulatory inact 95.9 0.0072 1.6E-07 56.3 3.5 23 349-371 44-66 (227)
86 PRK10923 glnG nitrogen regulat 95.8 0.0096 2.1E-07 61.7 4.6 76 345-420 159-243 (469)
87 PHA02544 44 clamp loader, smal 95.7 0.0076 1.6E-07 59.0 3.2 87 315-420 22-111 (316)
88 TIGR02915 PEP_resp_reg putativ 95.7 0.011 2.4E-07 60.8 4.5 74 346-420 161-244 (445)
89 TIGR02397 dnaX_nterm DNA polym 95.7 0.021 4.6E-07 56.7 6.4 47 315-372 15-61 (355)
90 TIGR03689 pup_AAA proteasome A 95.7 0.0067 1.5E-07 63.1 2.8 28 349-376 218-245 (512)
91 PRK14970 DNA polymerase III su 95.6 0.026 5.7E-07 56.5 6.7 47 315-372 18-64 (367)
92 COG1220 HslU ATP-dependent pro 95.6 0.0074 1.6E-07 58.6 2.3 66 308-374 9-77 (444)
93 KOG0738 AAA+-type ATPase [Post 95.6 0.014 2.9E-07 57.8 4.1 53 315-376 213-274 (491)
94 COG1221 PspF Transcriptional r 95.6 0.0091 2E-07 60.0 3.0 72 347-418 101-182 (403)
95 PRK13342 recombination factor 95.5 0.0088 1.9E-07 61.1 2.8 25 349-373 38-62 (413)
96 PRK11361 acetoacetate metaboli 95.5 0.014 3.1E-07 60.1 4.3 74 346-420 165-248 (457)
97 PHA01747 putative ATP-dependen 95.4 0.025 5.4E-07 55.8 5.2 101 305-420 150-253 (425)
98 PRK04195 replication factor C 95.4 0.023 4.9E-07 59.3 5.3 50 315-372 15-64 (482)
99 COG1066 Sms Predicted ATP-depe 95.3 0.015 3.2E-07 58.1 3.6 38 344-382 91-131 (456)
100 TIGR03345 VI_ClpV1 type VI sec 95.3 0.034 7.4E-07 61.8 6.9 59 307-371 559-620 (852)
101 PF03266 NTPase_1: NTPase; In 95.3 0.012 2.6E-07 52.4 2.6 31 349-379 1-37 (168)
102 KOG0743 AAA+-type ATPase [Post 95.3 0.012 2.7E-07 59.2 3.0 62 344-419 235-296 (457)
103 TIGR02639 ClpA ATP-dependent C 95.3 0.015 3.2E-07 63.8 3.8 45 315-371 183-227 (731)
104 PRK06620 hypothetical protein; 95.1 0.023 4.9E-07 52.7 3.9 24 349-372 46-69 (214)
105 PRK15455 PrkA family serine pr 95.1 0.022 4.8E-07 59.7 4.1 51 315-371 77-127 (644)
106 CHL00095 clpC Clp protease ATP 95.1 0.048 1E-06 60.6 7.0 62 307-371 502-563 (821)
107 TIGR01243 CDC48 AAA family ATP 95.1 0.018 4E-07 63.1 3.7 58 316-375 455-515 (733)
108 PF08477 Miro: Miro-like prote 94.9 0.02 4.4E-07 47.0 2.8 25 349-373 1-25 (119)
109 COG3854 SpoIIIAA ncharacterize 94.9 0.018 3.9E-07 53.2 2.5 28 345-372 135-162 (308)
110 PRK15115 response regulator Gl 94.7 0.041 8.9E-07 56.5 5.0 75 345-420 155-239 (444)
111 PRK10365 transcriptional regul 94.6 0.036 7.8E-07 56.8 4.4 73 347-420 162-244 (441)
112 PRK11034 clpA ATP-dependent Cl 94.5 0.017 3.6E-07 63.2 1.7 24 347-370 207-230 (758)
113 TIGR03345 VI_ClpV1 type VI sec 94.5 0.011 2.4E-07 65.7 0.2 45 315-371 188-232 (852)
114 PF02421 FeoB_N: Ferrous iron 94.5 0.071 1.5E-06 46.8 5.3 24 348-371 1-24 (156)
115 PRK10865 protein disaggregatio 94.5 0.05 1.1E-06 60.6 5.4 59 307-372 561-623 (857)
116 PRK14963 DNA polymerase III su 94.3 0.065 1.4E-06 56.0 5.5 45 315-371 15-60 (504)
117 PF13671 AAA_33: AAA domain; P 94.3 0.049 1.1E-06 46.3 3.8 28 350-378 2-29 (143)
118 PRK10865 protein disaggregatio 94.3 0.021 4.5E-07 63.6 1.8 27 346-372 198-224 (857)
119 PRK06893 DNA replication initi 94.2 0.042 9.2E-07 51.3 3.6 32 348-379 40-75 (229)
120 CHL00095 clpC Clp protease ATP 94.2 0.034 7.3E-07 61.8 3.3 45 315-371 180-224 (821)
121 PRK09087 hypothetical protein; 94.2 0.038 8.3E-07 51.6 3.1 30 349-379 46-75 (226)
122 TIGR01242 26Sp45 26S proteasom 94.2 0.041 8.8E-07 55.2 3.5 28 349-376 158-185 (364)
123 TIGR01818 ntrC nitrogen regula 94.1 0.06 1.3E-06 55.6 4.8 75 345-420 155-239 (463)
124 TIGR02653 Lon_rel_chp conserve 94.1 0.085 1.8E-06 56.0 5.8 93 305-419 183-277 (675)
125 PF05729 NACHT: NACHT domain 94.1 0.036 7.8E-07 48.1 2.6 19 350-368 3-21 (166)
126 PRK00440 rfc replication facto 94.1 0.068 1.5E-06 52.1 4.8 44 316-371 19-62 (319)
127 cd01120 RecA-like_NTPases RecA 94.1 0.052 1.1E-06 46.7 3.6 34 349-382 1-38 (165)
128 cd04124 RabL2 RabL2 subfamily. 94.1 0.04 8.6E-07 48.1 2.8 21 348-368 1-21 (161)
129 PF05673 DUF815: Protein of un 94.1 0.068 1.5E-06 50.2 4.4 44 315-369 28-74 (249)
130 PF13191 AAA_16: AAA ATPase do 94.1 0.035 7.6E-07 49.3 2.5 24 348-371 25-48 (185)
131 cd04177 RSR1 RSR1 subgroup. R 94.0 0.041 8.9E-07 48.3 2.8 22 347-368 1-22 (168)
132 KOG3347 Predicted nucleotide k 94.0 0.039 8.5E-07 47.6 2.5 29 345-373 5-33 (176)
133 COG0464 SpoVK ATPases of the A 94.0 0.051 1.1E-06 56.8 3.9 65 345-420 274-346 (494)
134 PRK14961 DNA polymerase III su 94.0 0.082 1.8E-06 53.0 5.2 46 315-372 17-63 (363)
135 TIGR03420 DnaA_homol_Hda DnaA 94.0 0.04 8.7E-07 50.9 2.8 24 348-371 39-62 (226)
136 PF13207 AAA_17: AAA domain; P 93.8 0.047 1E-06 45.1 2.7 27 350-376 2-28 (121)
137 cd01878 HflX HflX subfamily. 93.8 0.05 1.1E-06 49.5 3.0 26 345-370 39-64 (204)
138 PRK10078 ribose 1,5-bisphospho 93.7 0.081 1.8E-06 47.6 4.2 35 349-383 4-38 (186)
139 PF01926 MMR_HSR1: 50S ribosom 93.7 0.055 1.2E-06 44.4 2.8 21 349-369 1-21 (116)
140 PRK14532 adenylate kinase; Pro 93.6 0.073 1.6E-06 47.8 3.8 31 349-379 2-32 (188)
141 cd02019 NK Nucleoside/nucleoti 93.6 0.1 2.2E-06 38.9 4.0 22 350-371 2-23 (69)
142 PF00005 ABC_tran: ABC transpo 93.6 0.06 1.3E-06 45.5 3.0 33 349-381 13-48 (137)
143 cd04101 RabL4 RabL4 (Rab-like4 93.6 0.056 1.2E-06 46.9 2.8 21 348-368 1-21 (164)
144 TIGR00231 small_GTP small GTP- 93.5 0.059 1.3E-06 45.5 2.9 24 348-371 2-25 (161)
145 COG1120 FepC ABC-type cobalami 93.5 0.078 1.7E-06 50.3 3.8 32 349-380 30-64 (258)
146 cd04137 RheB Rheb (Ras Homolog 93.5 0.058 1.3E-06 47.8 2.8 23 348-370 2-24 (180)
147 PHA00729 NTP-binding motif con 93.5 0.058 1.3E-06 50.1 2.8 24 348-371 18-41 (226)
148 cd04136 Rap_like Rap-like subf 93.5 0.06 1.3E-06 46.5 2.8 21 348-368 2-22 (163)
149 COG4619 ABC-type uncharacteriz 93.4 0.066 1.4E-06 47.3 2.9 38 349-386 31-71 (223)
150 cd04119 RJL RJL (RabJ-Like) su 93.4 0.063 1.4E-06 46.5 2.8 22 348-369 1-22 (168)
151 COG1116 TauB ABC-type nitrate/ 93.3 0.14 3E-06 48.0 5.1 41 345-386 28-71 (248)
152 PRK14949 DNA polymerase III su 93.3 0.13 2.8E-06 56.7 5.6 46 315-372 17-63 (944)
153 PF13245 AAA_19: Part of AAA d 93.3 0.093 2E-06 40.1 3.3 23 349-371 12-35 (76)
154 cd01867 Rab8_Rab10_Rab13_like 93.3 0.067 1.5E-06 46.8 2.9 23 348-370 4-26 (167)
155 cd04157 Arl6 Arl6 subfamily. 93.3 0.061 1.3E-06 46.4 2.6 22 349-370 1-22 (162)
156 PF13555 AAA_29: P-loop contai 93.3 0.081 1.8E-06 38.7 2.8 23 349-371 25-47 (62)
157 cd00157 Rho Rho (Ras homology) 93.1 0.071 1.5E-06 46.5 2.8 23 348-370 1-23 (171)
158 PRK08533 flagellar accessory p 93.1 0.1 2.2E-06 48.9 3.9 37 345-382 23-63 (230)
159 PRK14950 DNA polymerase III su 93.1 0.17 3.6E-06 54.1 6.1 46 315-371 17-62 (585)
160 TIGR02928 orc1/cdc6 family rep 93.1 0.16 3.4E-06 50.7 5.5 67 307-381 7-84 (365)
161 TIGR00073 hypB hydrogenase acc 93.1 0.074 1.6E-06 48.8 2.9 63 348-417 23-88 (207)
162 smart00175 RAB Rab subfamily o 93.0 0.075 1.6E-06 45.9 2.8 22 348-369 1-22 (164)
163 cd04117 Rab15 Rab15 subfamily. 93.0 0.075 1.6E-06 46.4 2.8 20 348-367 1-20 (161)
164 cd04160 Arfrp1 Arfrp1 subfamil 93.0 0.073 1.6E-06 46.3 2.7 21 349-369 1-21 (167)
165 COG1223 Predicted ATPase (AAA+ 93.0 0.13 2.8E-06 48.5 4.3 59 311-376 118-180 (368)
166 PRK08181 transposase; Validate 93.0 0.067 1.5E-06 51.3 2.6 23 349-371 108-130 (269)
167 PRK14530 adenylate kinase; Pro 93.0 0.096 2.1E-06 48.3 3.6 30 349-378 5-34 (215)
168 cd04138 H_N_K_Ras_like H-Ras/N 93.0 0.078 1.7E-06 45.6 2.8 22 348-369 2-23 (162)
169 cd04106 Rab23_lke Rab23-like s 93.0 0.078 1.7E-06 45.8 2.8 22 348-369 1-22 (162)
170 cd01892 Miro2 Miro2 subfamily. 93.0 0.07 1.5E-06 47.1 2.5 25 345-369 2-26 (169)
171 PLN00020 ribulose bisphosphate 92.9 0.034 7.5E-07 55.2 0.5 27 348-374 149-175 (413)
172 cd00154 Rab Rab family. Rab G 92.9 0.078 1.7E-06 45.1 2.7 23 348-370 1-23 (159)
173 cd01866 Rab2 Rab2 subfamily. 92.9 0.082 1.8E-06 46.4 2.8 23 348-370 5-27 (168)
174 cd04140 ARHI_like ARHI subfami 92.8 0.085 1.8E-06 46.1 2.9 21 348-368 2-22 (165)
175 cd04156 ARLTS1 ARLTS1 subfamil 92.8 0.083 1.8E-06 45.6 2.8 22 349-370 1-22 (160)
176 PRK12377 putative replication 92.8 0.078 1.7E-06 50.2 2.7 25 348-372 102-126 (248)
177 cd04155 Arl3 Arl3 subfamily. 92.8 0.087 1.9E-06 46.2 2.9 24 347-370 14-37 (173)
178 cd04176 Rap2 Rap2 subgroup. T 92.8 0.087 1.9E-06 45.7 2.9 22 348-369 2-24 (163)
179 cd00464 SK Shikimate kinase (S 92.8 0.097 2.1E-06 45.1 3.1 28 349-376 1-28 (154)
180 PF13401 AAA_22: AAA domain; P 92.7 0.085 1.8E-06 44.0 2.6 26 346-371 3-28 (131)
181 cd01862 Rab7 Rab7 subfamily. 92.7 0.086 1.9E-06 46.0 2.7 21 348-368 1-21 (172)
182 cd04113 Rab4 Rab4 subfamily. 92.7 0.092 2E-06 45.5 2.8 23 348-370 1-23 (161)
183 PTZ00454 26S protease regulato 92.6 0.1 2.3E-06 52.9 3.5 29 348-376 180-208 (398)
184 cd01868 Rab11_like Rab11-like. 92.6 0.092 2E-06 45.6 2.8 21 348-368 4-24 (165)
185 cd01860 Rab5_related Rab5-rela 92.6 0.096 2.1E-06 45.3 2.9 23 348-370 2-24 (163)
186 PF13238 AAA_18: AAA domain; P 92.6 0.095 2.1E-06 43.4 2.7 22 350-371 1-22 (129)
187 PTZ00361 26 proteosome regulat 92.5 0.098 2.1E-06 53.7 3.2 27 348-374 218-244 (438)
188 PRK13947 shikimate kinase; Pro 92.5 0.12 2.5E-06 45.6 3.4 32 349-380 3-34 (171)
189 PRK06526 transposase; Provisio 92.5 0.09 2E-06 50.0 2.8 41 322-370 81-121 (254)
190 cd01865 Rab3 Rab3 subfamily. 92.5 0.091 2E-06 45.9 2.6 24 348-371 2-25 (165)
191 TIGR02528 EutP ethanolamine ut 92.5 0.095 2.1E-06 44.4 2.6 21 349-369 2-22 (142)
192 cd01871 Rac1_like Rac1-like su 92.5 0.09 2E-06 46.7 2.6 22 347-368 1-22 (174)
193 cd04145 M_R_Ras_like M-Ras/R-R 92.5 0.098 2.1E-06 45.2 2.8 22 348-369 3-24 (164)
194 PRK14955 DNA polymerase III su 92.5 0.2 4.3E-06 50.9 5.4 45 315-371 17-62 (397)
195 cd01123 Rad51_DMC1_radA Rad51_ 92.4 0.18 3.9E-06 46.9 4.7 37 345-382 18-64 (235)
196 cd01898 Obg Obg subfamily. Th 92.4 0.099 2.2E-06 45.6 2.7 23 349-371 2-24 (170)
197 PRK00411 cdc6 cell division co 92.4 0.23 4.9E-06 50.1 5.7 66 308-381 23-95 (394)
198 PTZ00132 GTP-binding nuclear p 92.3 0.11 2.4E-06 47.7 3.1 27 346-372 8-35 (215)
199 PRK00131 aroK shikimate kinase 92.3 0.12 2.6E-06 45.4 3.1 29 348-376 5-33 (175)
200 PF03193 DUF258: Protein of un 92.3 0.15 3.3E-06 44.8 3.7 21 349-369 37-57 (161)
201 cd01861 Rab6 Rab6 subfamily. 92.2 0.11 2.3E-06 44.9 2.7 20 349-368 2-21 (161)
202 PRK08118 topology modulation p 92.2 0.11 2.3E-06 46.1 2.7 28 349-376 3-30 (167)
203 TIGR01313 therm_gnt_kin carboh 92.2 0.13 2.7E-06 45.1 3.1 31 350-381 1-31 (163)
204 PRK03839 putative kinase; Prov 92.1 0.14 2.9E-06 45.8 3.3 32 349-380 2-33 (180)
205 PRK14952 DNA polymerase III su 92.1 0.24 5.2E-06 52.7 5.6 45 315-371 14-59 (584)
206 PF01443 Viral_helicase1: Vira 92.1 0.17 3.6E-06 46.9 4.0 67 350-419 1-72 (234)
207 PRK14957 DNA polymerase III su 92.1 0.21 4.5E-06 52.7 5.1 45 315-371 17-62 (546)
208 smart00173 RAS Ras subfamily o 92.1 0.12 2.6E-06 44.9 2.8 21 349-369 2-22 (164)
209 PRK07261 topology modulation p 92.1 0.15 3.3E-06 45.3 3.5 24 349-372 2-25 (171)
210 cd04127 Rab27A Rab27a subfamil 92.0 0.12 2.6E-06 45.7 2.8 21 348-368 5-25 (180)
211 TIGR02237 recomb_radB DNA repa 92.0 0.24 5.2E-06 45.2 4.9 36 345-381 11-50 (209)
212 PRK05896 DNA polymerase III su 92.0 0.3 6.6E-06 51.8 6.1 46 315-371 17-62 (605)
213 CHL00176 ftsH cell division pr 92.0 0.15 3.2E-06 54.9 3.9 26 348-373 217-242 (638)
214 PRK14956 DNA polymerase III su 92.0 0.2 4.3E-06 51.8 4.6 47 315-373 19-66 (484)
215 TIGR03598 GTPase_YsxC ribosome 91.9 0.13 2.9E-06 45.7 3.0 28 343-370 14-41 (179)
216 cd00877 Ran Ran (Ras-related n 91.9 0.12 2.7E-06 45.3 2.8 21 348-368 1-21 (166)
217 cd03112 CobW_like The function 91.9 0.36 7.8E-06 42.3 5.7 21 350-370 3-23 (158)
218 PRK09112 DNA polymerase III su 91.9 0.24 5.2E-06 49.4 5.1 47 314-371 23-69 (351)
219 cd04175 Rap1 Rap1 subgroup. T 91.9 0.13 2.9E-06 44.6 2.8 21 348-368 2-22 (164)
220 KOG1969 DNA replication checkp 91.9 0.09 1.9E-06 56.0 2.0 26 350-375 329-354 (877)
221 PRK06921 hypothetical protein; 91.8 0.12 2.6E-06 49.5 2.8 23 349-371 119-141 (266)
222 PF09723 Zn-ribbon_8: Zinc rib 91.8 0.27 5.9E-06 32.9 3.7 32 148-188 5-36 (42)
223 cd01863 Rab18 Rab18 subfamily. 91.8 0.14 2.9E-06 44.3 2.8 23 348-370 1-23 (161)
224 cd04146 RERG_RasL11_like RERG/ 91.8 0.12 2.7E-06 44.9 2.6 19 349-367 1-19 (165)
225 cd04118 Rab24 Rab24 subfamily. 91.8 0.13 2.9E-06 46.1 2.8 21 348-368 1-21 (193)
226 cd04164 trmE TrmE (MnmE, ThdF, 91.7 0.14 3E-06 43.7 2.8 23 348-370 2-24 (157)
227 PRK07471 DNA polymerase III su 91.7 0.24 5.2E-06 49.7 4.9 46 314-371 19-65 (365)
228 PRK09183 transposase/IS protei 91.7 0.13 2.7E-06 49.1 2.7 24 348-371 103-126 (259)
229 PRK14526 adenylate kinase; Pro 91.7 0.16 3.6E-06 46.8 3.4 32 349-380 2-33 (211)
230 COG0563 Adk Adenylate kinase a 91.7 0.15 3.2E-06 45.8 3.0 28 349-376 2-29 (178)
231 cd00876 Ras Ras family. The R 91.7 0.14 3.1E-06 43.8 2.8 21 349-369 1-21 (160)
232 cd04159 Arl10_like Arl10-like 91.7 0.13 2.9E-06 43.7 2.6 21 350-370 2-22 (159)
233 cd04122 Rab14 Rab14 subfamily. 91.6 0.14 3.1E-06 44.6 2.8 21 348-368 3-23 (166)
234 TIGR00176 mobB molybdopterin-g 91.6 0.36 7.9E-06 42.2 5.3 22 350-371 2-23 (155)
235 cd04115 Rab33B_Rab33A Rab33B/R 91.6 0.14 3.1E-06 44.9 2.8 22 348-369 3-24 (170)
236 cd01858 NGP_1 NGP-1. Autoanti 91.6 0.3 6.6E-06 42.5 4.8 24 346-369 101-124 (157)
237 PHA02774 E1; Provisional 91.5 0.46 1E-05 50.0 6.8 53 349-418 436-488 (613)
238 cd04107 Rab32_Rab38 Rab38/Rab3 91.5 0.14 3.1E-06 46.4 2.8 21 348-368 1-21 (201)
239 KOG0079 GTP-binding protein H- 91.5 0.13 2.9E-06 44.1 2.3 26 349-374 10-36 (198)
240 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 91.5 0.15 3.2E-06 44.4 2.8 22 348-369 3-24 (166)
241 PRK05642 DNA replication initi 91.5 0.21 4.6E-06 46.8 4.0 32 348-379 46-81 (234)
242 cd04116 Rab9 Rab9 subfamily. 91.5 0.15 3.3E-06 44.6 2.8 22 347-368 5-26 (170)
243 PRK14960 DNA polymerase III su 91.5 0.27 5.9E-06 52.6 5.1 46 315-371 16-61 (702)
244 PF01695 IstB_IS21: IstB-like 91.5 0.15 3.4E-06 45.7 2.9 22 348-369 48-69 (178)
245 PRK00454 engB GTP-binding prot 91.4 0.16 3.5E-06 45.5 3.0 26 344-369 21-46 (196)
246 cd04132 Rho4_like Rho4-like su 91.4 0.15 3.3E-06 45.4 2.8 21 348-368 1-21 (187)
247 cd01876 YihA_EngB The YihA (En 91.4 0.13 2.9E-06 44.1 2.4 19 350-368 2-20 (170)
248 KOG0736 Peroxisome assembly fa 91.4 0.22 4.9E-06 53.4 4.3 53 318-373 676-731 (953)
249 KOG0080 GTPase Rab18, small G 91.4 0.14 3.1E-06 44.5 2.4 26 346-371 10-36 (209)
250 cd01393 recA_like RecA is a b 91.3 0.26 5.6E-06 45.5 4.4 38 344-382 17-64 (226)
251 cd01893 Miro1 Miro1 subfamily. 91.3 0.16 3.4E-06 44.4 2.8 22 348-369 1-22 (166)
252 TIGR00150 HI0065_YjeE ATPase, 91.3 0.18 4E-06 42.9 3.0 25 349-373 24-48 (133)
253 cd04152 Arl4_Arl7 Arl4/Arl7 su 91.3 0.16 3.4E-06 45.4 2.8 23 347-369 3-25 (183)
254 PRK13949 shikimate kinase; Pro 91.3 0.19 4E-06 44.7 3.2 28 349-376 3-30 (169)
255 PRK00300 gmk guanylate kinase; 91.3 0.2 4.3E-06 45.6 3.5 24 349-372 7-30 (205)
256 TIGR03263 guanyl_kin guanylate 91.3 0.19 4.1E-06 44.7 3.2 24 350-373 4-27 (180)
257 TIGR02322 phosphon_PhnN phosph 91.3 0.16 3.6E-06 45.1 2.8 23 350-372 4-26 (179)
258 cd01864 Rab19 Rab19 subfamily. 91.3 0.16 3.4E-06 44.2 2.7 21 348-368 4-24 (165)
259 PRK06835 DNA replication prote 91.2 0.15 3.3E-06 50.4 2.8 23 349-371 185-207 (329)
260 PRK08084 DNA replication initi 91.2 0.17 3.6E-06 47.5 3.0 22 349-370 47-68 (235)
261 cd02021 GntK Gluconate kinase 91.2 0.22 4.8E-06 42.8 3.6 29 350-379 2-30 (150)
262 PF06745 KaiC: KaiC; InterPro 91.2 0.22 4.9E-06 46.1 3.8 33 349-381 21-58 (226)
263 cd04139 RalA_RalB RalA/RalB su 91.2 0.17 3.7E-06 43.6 2.8 21 349-369 2-22 (164)
264 cd04108 Rab36_Rab34 Rab34/Rab3 91.2 0.17 3.6E-06 44.7 2.8 21 349-369 2-22 (170)
265 TIGR01618 phage_P_loop phage n 91.2 0.14 3.1E-06 47.5 2.4 25 344-368 9-33 (220)
266 cd04154 Arl2 Arl2 subfamily. 91.1 0.17 3.8E-06 44.5 2.9 24 346-369 13-36 (173)
267 PF00071 Ras: Ras family; Int 91.1 0.17 3.7E-06 43.8 2.7 20 350-369 2-21 (162)
268 cd01121 Sms Sms (bacterial rad 91.1 0.21 4.6E-06 50.2 3.7 37 345-382 81-121 (372)
269 smart00174 RHO Rho (Ras homolo 91.1 0.14 3.1E-06 44.9 2.2 20 350-369 1-20 (174)
270 PRK00625 shikimate kinase; Pro 91.1 0.17 3.7E-06 45.2 2.7 31 349-379 2-32 (173)
271 cd01852 AIG1 AIG1 (avrRpt2-ind 91.0 0.35 7.6E-06 43.8 4.8 22 348-369 1-22 (196)
272 cd01428 ADK Adenylate kinase ( 91.0 0.24 5.3E-06 44.4 3.8 25 349-373 1-25 (194)
273 TIGR03346 chaperone_ClpB ATP-d 91.0 0.38 8.3E-06 53.8 6.0 61 309-372 560-620 (852)
274 smart00177 ARF ARF-like small 91.0 0.17 3.7E-06 44.9 2.7 21 347-367 13-33 (175)
275 KOG0742 AAA+-type ATPase [Post 91.0 0.085 1.8E-06 52.7 0.7 68 342-419 382-453 (630)
276 TIGR01359 UMP_CMP_kin_fam UMP- 91.0 0.24 5.2E-06 44.1 3.7 24 350-373 2-25 (183)
277 PRK13695 putative NTPase; Prov 91.0 0.18 3.8E-06 44.8 2.7 21 349-369 2-22 (174)
278 PF00735 Septin: Septin; Inte 91.0 0.17 3.6E-06 48.9 2.8 24 347-370 4-27 (281)
279 PRK08727 hypothetical protein; 91.0 0.27 5.8E-06 46.0 4.1 29 350-378 44-76 (233)
280 PF00910 RNA_helicase: RNA hel 91.0 0.15 3.3E-06 41.5 2.2 19 350-368 1-19 (107)
281 cd03264 ABC_drug_resistance_li 90.9 0.2 4.4E-06 45.8 3.2 24 349-372 27-50 (211)
282 PRK05057 aroK shikimate kinase 90.9 0.23 5.1E-06 44.1 3.5 31 348-378 5-35 (172)
283 TIGR01360 aden_kin_iso1 adenyl 90.9 0.19 4E-06 44.9 2.9 24 349-372 5-28 (188)
284 PTZ00088 adenylate kinase 1; P 90.9 0.26 5.5E-06 46.2 3.9 33 348-380 7-39 (229)
285 PRK06851 hypothetical protein; 90.9 0.36 7.8E-06 48.3 5.1 23 349-371 216-238 (367)
286 cd01895 EngA2 EngA2 subfamily. 90.9 0.2 4.2E-06 43.4 2.9 22 348-369 3-24 (174)
287 PRK14969 DNA polymerase III su 90.9 0.3 6.5E-06 51.5 4.8 45 315-371 17-62 (527)
288 PRK11823 DNA repair protein Ra 90.9 0.19 4.2E-06 51.8 3.3 35 349-383 82-120 (446)
289 PF13479 AAA_24: AAA domain 90.8 0.27 5.8E-06 45.4 3.9 32 347-382 3-34 (213)
290 cd04110 Rab35 Rab35 subfamily. 90.8 0.19 4E-06 45.7 2.8 23 347-369 6-28 (199)
291 PRK07764 DNA polymerase III su 90.8 0.37 8E-06 53.4 5.5 45 315-371 16-61 (824)
292 PRK12288 GTPase RsgA; Reviewed 90.8 0.4 8.7E-06 47.7 5.3 29 350-381 208-236 (347)
293 PLN03108 Rab family protein; P 90.8 0.19 4E-06 46.2 2.8 23 348-370 7-29 (210)
294 COG1222 RPT1 ATP-dependent 26S 90.8 0.17 3.7E-06 49.8 2.6 25 349-373 187-211 (406)
295 cd01130 VirB11-like_ATPase Typ 90.7 0.21 4.6E-06 44.9 3.1 25 349-373 27-51 (186)
296 PRK12323 DNA polymerase III su 90.7 0.31 6.7E-06 52.1 4.7 46 315-372 17-63 (700)
297 COG2607 Predicted ATPase (AAA+ 90.7 0.34 7.3E-06 45.3 4.3 44 315-369 61-107 (287)
298 PRK06762 hypothetical protein; 90.7 0.24 5.1E-06 43.5 3.3 31 349-379 4-35 (166)
299 cd04141 Rit_Rin_Ric Rit/Rin/Ri 90.7 0.18 4E-06 44.5 2.6 20 348-367 3-22 (172)
300 PRK13900 type IV secretion sys 90.6 0.2 4.3E-06 49.6 3.0 28 346-373 159-186 (332)
301 PRK07940 DNA polymerase III su 90.6 0.38 8.3E-06 48.7 5.1 53 315-370 6-59 (394)
302 cd04133 Rop_like Rop subfamily 90.6 0.2 4.4E-06 44.7 2.8 21 348-368 2-22 (176)
303 cd04103 Centaurin_gamma Centau 90.6 0.19 4.1E-06 43.9 2.5 21 349-369 2-23 (158)
304 PRK02496 adk adenylate kinase; 90.6 0.23 4.9E-06 44.5 3.1 31 349-379 3-33 (184)
305 PF08298 AAA_PrkA: PrkA AAA do 90.6 0.35 7.6E-06 47.8 4.6 56 311-372 58-113 (358)
306 PRK14531 adenylate kinase; Pro 90.6 0.24 5.2E-06 44.4 3.2 24 349-372 4-27 (183)
307 cd01874 Cdc42 Cdc42 subfamily. 90.5 0.2 4.4E-06 44.4 2.8 21 348-368 2-22 (175)
308 cd04135 Tc10 TC10 subfamily. 90.5 0.21 4.6E-06 43.8 2.8 21 348-368 1-21 (174)
309 PRK08116 hypothetical protein; 90.5 0.21 4.5E-06 47.9 2.9 23 348-370 115-137 (268)
310 PTZ00133 ADP-ribosylation fact 90.5 0.21 4.5E-06 44.7 2.8 22 347-368 17-38 (182)
311 PRK13851 type IV secretion sys 90.5 0.21 4.6E-06 49.6 3.1 27 347-373 162-188 (344)
312 KOG0737 AAA+-type ATPase [Post 90.5 0.25 5.4E-06 48.8 3.4 56 315-372 93-152 (386)
313 cd03301 ABC_MalK_N The N-termi 90.5 0.23 4.9E-06 45.5 3.1 24 349-372 28-51 (213)
314 cd03216 ABC_Carb_Monos_I This 90.4 0.24 5.2E-06 43.6 3.1 25 349-373 28-52 (163)
315 cd01897 NOG NOG1 is a nucleola 90.4 0.21 4.6E-06 43.4 2.7 22 349-370 2-23 (168)
316 PTZ00035 Rad51 protein; Provis 90.4 0.38 8.2E-06 47.8 4.8 37 345-382 117-163 (337)
317 PRK14528 adenylate kinase; Pro 90.4 0.25 5.4E-06 44.6 3.2 28 349-376 3-30 (186)
318 cd00071 GMPK Guanosine monopho 90.4 0.33 7.2E-06 41.4 3.8 24 350-373 2-25 (137)
319 cd04114 Rab30 Rab30 subfamily. 90.4 0.22 4.7E-06 43.4 2.8 21 348-368 8-28 (169)
320 PRK07994 DNA polymerase III su 90.4 0.35 7.7E-06 51.9 4.8 46 315-372 17-63 (647)
321 PLN03071 GTP-binding nuclear p 90.4 0.22 4.7E-06 46.1 2.9 23 345-367 11-33 (219)
322 cd04134 Rho3 Rho3 subfamily. 90.4 0.21 4.7E-06 44.8 2.8 21 349-369 2-22 (189)
323 PRK10463 hydrogenase nickel in 90.4 0.2 4.4E-06 48.3 2.7 63 348-417 105-170 (290)
324 PRK06645 DNA polymerase III su 90.3 0.39 8.5E-06 50.2 5.0 47 315-372 22-68 (507)
325 cd03266 ABC_NatA_sodium_export 90.3 0.23 4.9E-06 45.7 3.0 25 349-373 33-57 (218)
326 PTZ00369 Ras-like protein; Pro 90.3 0.22 4.8E-06 44.7 2.8 22 347-368 5-26 (189)
327 TIGR02323 CP_lyasePhnK phospho 90.3 0.23 5E-06 46.9 3.0 32 349-380 31-65 (253)
328 PHA02530 pseT polynucleotide k 90.3 0.28 6.1E-06 47.5 3.7 31 349-379 4-34 (300)
329 cd04125 RabA_like RabA-like su 90.3 0.22 4.8E-06 44.5 2.8 22 348-369 1-22 (188)
330 COG1618 Predicted nucleotide k 90.2 0.3 6.6E-06 42.8 3.4 29 346-374 4-33 (179)
331 TIGR02236 recomb_radA DNA repa 90.2 0.32 7E-06 47.5 4.1 34 349-382 97-140 (310)
332 cd00878 Arf_Arl Arf (ADP-ribos 90.2 0.23 5E-06 42.7 2.7 23 349-371 1-23 (158)
333 PF13521 AAA_28: AAA domain; P 90.2 0.22 4.8E-06 43.6 2.6 21 350-370 2-22 (163)
334 cd01394 radB RadB. The archaea 90.1 0.38 8.2E-06 44.3 4.3 37 345-382 18-58 (218)
335 TIGR03015 pepcterm_ATPase puta 90.1 0.23 5E-06 47.1 2.9 24 349-372 45-68 (269)
336 PRK13540 cytochrome c biogenes 90.1 0.26 5.6E-06 44.8 3.1 32 349-380 29-63 (200)
337 TIGR02238 recomb_DMC1 meiotic 90.1 0.39 8.5E-06 47.1 4.5 34 349-382 98-141 (313)
338 cd03269 ABC_putative_ATPase Th 90.1 0.25 5.5E-06 45.1 3.1 24 349-372 28-51 (210)
339 cd01124 KaiC KaiC is a circadi 90.1 0.42 9.1E-06 42.5 4.4 33 350-382 2-38 (187)
340 PRK14958 DNA polymerase III su 90.1 0.43 9.4E-06 50.1 5.1 46 315-372 17-63 (509)
341 PRK08939 primosomal protein Dn 90.1 0.22 4.8E-06 48.7 2.7 24 348-371 157-180 (306)
342 TIGR01243 CDC48 AAA family ATP 90.0 0.26 5.6E-06 54.2 3.5 28 349-376 214-241 (733)
343 cd04149 Arf6 Arf6 subfamily. 90.0 0.24 5.3E-06 43.6 2.8 22 347-368 9-30 (168)
344 PRK05563 DNA polymerase III su 90.0 0.6 1.3E-05 49.6 6.2 45 315-371 17-62 (559)
345 TIGR00416 sms DNA repair prote 90.0 0.31 6.7E-06 50.4 3.9 34 349-382 96-133 (454)
346 cd03255 ABC_MJ0796_Lo1CDE_FtsE 90.0 0.25 5.5E-06 45.4 3.0 25 349-373 32-56 (218)
347 PRK14948 DNA polymerase III su 90.0 0.44 9.4E-06 51.2 5.1 47 315-372 17-63 (620)
348 COG1126 GlnQ ABC-type polar am 90.0 0.25 5.5E-06 45.4 2.8 35 345-380 27-64 (240)
349 TIGR03608 L_ocin_972_ABC putat 90.0 0.27 5.7E-06 44.8 3.1 24 349-372 26-49 (206)
350 PRK13541 cytochrome c biogenes 89.9 0.27 5.8E-06 44.5 3.0 24 349-372 28-51 (195)
351 cd04123 Rab21 Rab21 subfamily. 89.9 0.26 5.5E-06 42.3 2.8 21 349-369 2-22 (162)
352 KOG0078 GTP-binding protein SE 89.9 0.2 4.3E-06 45.6 2.1 30 347-376 12-41 (207)
353 cd04144 Ras2 Ras2 subfamily. 89.9 0.25 5.3E-06 44.4 2.8 19 350-368 2-20 (190)
354 COG1484 DnaC DNA replication p 89.9 0.24 5.1E-06 47.1 2.7 46 318-370 83-128 (254)
355 PRK07952 DNA replication prote 89.9 0.24 5.2E-06 46.8 2.7 23 349-371 101-123 (244)
356 cd04111 Rab39 Rab39 subfamily. 89.9 0.25 5.4E-06 45.4 2.8 22 348-369 3-24 (211)
357 cd04109 Rab28 Rab28 subfamily. 89.8 0.25 5.4E-06 45.5 2.8 21 348-368 1-21 (215)
358 PRK15494 era GTPase Era; Provi 89.8 0.67 1.5E-05 46.0 6.0 21 348-368 53-73 (339)
359 smart00178 SAR Sar1p-like memb 89.8 0.28 6E-06 43.9 3.0 23 347-369 17-39 (184)
360 cd03292 ABC_FtsE_transporter F 89.8 0.28 6E-06 45.0 3.1 24 349-372 29-52 (214)
361 cd01870 RhoA_like RhoA-like su 89.8 0.26 5.6E-06 43.2 2.8 21 349-369 3-23 (175)
362 cd03258 ABC_MetN_methionine_tr 89.8 0.27 5.9E-06 45.7 3.0 25 349-373 33-57 (233)
363 PRK06217 hypothetical protein; 89.8 0.35 7.6E-06 43.3 3.6 28 349-376 3-30 (183)
364 cd04162 Arl9_Arfrp2_like Arl9/ 89.8 0.26 5.6E-06 43.2 2.7 21 350-370 2-22 (164)
365 TIGR02770 nickel_nikD nickel i 89.7 0.37 8E-06 44.8 3.9 25 349-373 14-38 (230)
366 TIGR02315 ABC_phnC phosphonate 89.7 0.27 5.9E-06 46.0 3.0 32 349-380 30-64 (243)
367 cd03247 ABCC_cytochrome_bd The 89.7 0.29 6.3E-06 43.6 3.0 25 349-373 30-54 (178)
368 cd03237 ABC_RNaseL_inhibitor_d 89.7 0.41 8.8E-06 45.2 4.2 32 340-372 19-50 (246)
369 cd03228 ABCC_MRP_Like The MRP 89.7 0.3 6.4E-06 43.3 3.1 25 349-373 30-54 (171)
370 KOG0740 AAA+-type ATPase [Post 89.7 0.079 1.7E-06 53.6 -0.7 98 315-420 154-256 (428)
371 cd04131 Rnd Rnd subfamily. Th 89.7 0.27 5.8E-06 43.9 2.8 21 348-368 2-22 (178)
372 PRK06305 DNA polymerase III su 89.7 0.48 1E-05 49.0 5.0 46 315-371 18-63 (451)
373 cd04142 RRP22 RRP22 subfamily. 89.7 0.27 5.8E-06 44.8 2.8 20 349-368 2-21 (198)
374 cd04150 Arf1_5_like Arf1-Arf5- 89.6 0.26 5.7E-06 42.8 2.7 21 348-368 1-21 (159)
375 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 89.6 0.27 5.9E-06 44.1 2.8 22 347-368 5-26 (182)
376 COG1134 TagH ABC-type polysacc 89.6 0.26 5.6E-06 46.1 2.6 41 349-389 55-98 (249)
377 cd03262 ABC_HisP_GlnQ_permease 89.6 0.29 6.3E-06 44.8 3.0 25 349-373 28-52 (213)
378 cd03246 ABCC_Protease_Secretio 89.6 0.3 6.5E-06 43.3 3.0 32 349-380 30-64 (173)
379 PRK14273 phosphate ABC transpo 89.6 0.38 8.3E-06 45.4 3.9 24 349-372 35-58 (254)
380 PRK13341 recombination factor 89.6 0.42 9.1E-06 52.2 4.7 47 315-372 29-77 (725)
381 cd04129 Rho2 Rho2 subfamily. 89.5 0.27 5.9E-06 44.0 2.8 20 349-368 3-22 (187)
382 cd00820 PEPCK_HprK Phosphoenol 89.5 0.46 1E-05 38.8 3.8 20 349-368 17-36 (107)
383 PRK14964 DNA polymerase III su 89.5 0.51 1.1E-05 49.1 5.0 45 315-370 14-58 (491)
384 PRK10584 putative ABC transpor 89.5 0.3 6.5E-06 45.3 3.1 24 349-372 38-61 (228)
385 cd00227 CPT Chloramphenicol (C 89.5 0.27 5.8E-06 43.7 2.6 26 349-374 4-29 (175)
386 cd04130 Wrch_1 Wrch-1 subfamil 89.5 0.26 5.6E-06 43.4 2.5 20 348-367 1-20 (173)
387 cd03214 ABC_Iron-Siderophores_ 89.5 0.31 6.7E-06 43.5 3.1 32 349-380 27-61 (180)
388 cd03230 ABC_DR_subfamily_A Thi 89.5 0.31 6.8E-06 43.2 3.0 25 349-373 28-52 (173)
389 PRK09984 phosphonate/organopho 89.5 0.38 8.3E-06 45.7 3.9 33 349-381 32-70 (262)
390 TIGR03410 urea_trans_UrtE urea 89.4 0.29 6.3E-06 45.4 3.0 24 349-372 28-51 (230)
391 PRK13543 cytochrome c biogenes 89.4 0.3 6.5E-06 44.9 3.0 24 349-372 39-62 (214)
392 PRK14954 DNA polymerase III su 89.4 0.51 1.1E-05 50.6 5.1 46 315-371 17-62 (620)
393 PRK08691 DNA polymerase III su 89.4 0.49 1.1E-05 51.0 4.9 46 315-371 17-62 (709)
394 cd04121 Rab40 Rab40 subfamily. 89.4 0.29 6.2E-06 44.3 2.8 23 347-369 6-28 (189)
395 cd00881 GTP_translation_factor 89.4 0.28 6.1E-06 43.3 2.7 23 349-371 1-23 (189)
396 cd03253 ABCC_ATM1_transporter 89.3 0.3 6.6E-06 45.5 3.0 24 349-372 29-52 (236)
397 cd03254 ABCC_Glucan_exporter_l 89.3 0.31 6.6E-06 45.2 3.0 24 349-372 31-54 (229)
398 PRK00093 GTP-binding protein D 89.3 0.53 1.2E-05 48.2 5.0 25 345-369 171-195 (435)
399 cd03263 ABC_subfamily_A The AB 89.3 0.31 6.8E-06 44.9 3.0 25 349-373 30-54 (220)
400 cd04102 RabL3 RabL3 (Rab-like3 89.3 0.3 6.5E-06 44.8 2.8 22 348-369 1-22 (202)
401 cd04104 p47_IIGP_like p47 (47- 89.3 0.3 6.4E-06 44.4 2.8 24 348-371 2-25 (197)
402 TIGR02605 CxxC_CxxC_SSSS putat 89.3 0.54 1.2E-05 32.8 3.5 33 148-189 5-37 (52)
403 PLN02200 adenylate kinase fami 89.3 0.39 8.5E-06 45.0 3.7 33 347-379 43-75 (234)
404 cd04151 Arl1 Arl1 subfamily. 89.3 0.28 6.2E-06 42.3 2.6 20 349-368 1-20 (158)
405 cd01873 RhoBTB RhoBTB subfamil 89.2 0.29 6.2E-06 44.5 2.7 18 347-364 2-19 (195)
406 PRK09825 idnK D-gluconate kina 89.2 0.41 8.9E-06 42.8 3.6 31 349-380 5-35 (176)
407 cd03231 ABC_CcmA_heme_exporter 89.2 0.33 7.1E-06 44.2 3.1 24 349-372 28-51 (201)
408 PRK04040 adenylate kinase; Pro 89.2 0.37 8E-06 43.6 3.3 24 349-372 4-27 (188)
409 cd04148 RGK RGK subfamily. Th 89.2 0.29 6.2E-06 45.4 2.7 20 349-368 2-21 (221)
410 cd04178 Nucleostemin_like Nucl 89.2 0.65 1.4E-05 41.3 4.9 27 344-370 114-140 (172)
411 cd03221 ABCF_EF-3 ABCF_EF-3 E 89.1 0.34 7.3E-06 41.7 2.9 25 349-373 28-52 (144)
412 cd04163 Era Era subfamily. Er 89.1 0.32 6.8E-06 41.6 2.8 23 348-370 4-26 (168)
413 cd03268 ABC_BcrA_bacitracin_re 89.1 0.33 7.2E-06 44.3 3.0 32 349-380 28-62 (208)
414 PRK14260 phosphate ABC transpo 89.1 0.42 9.2E-06 45.3 3.8 24 349-372 35-58 (259)
415 TIGR02211 LolD_lipo_ex lipopro 89.1 0.34 7.3E-06 44.7 3.1 24 349-372 33-56 (221)
416 KOG0989 Replication factor C, 89.0 0.57 1.2E-05 45.3 4.6 54 315-380 37-91 (346)
417 cd03224 ABC_TM1139_LivF_branch 89.0 0.33 7.1E-06 44.8 2.9 25 348-372 27-51 (222)
418 PRK14256 phosphate ABC transpo 89.0 0.44 9.4E-06 45.0 3.9 24 349-372 32-55 (252)
419 TIGR00960 3a0501s02 Type II (G 89.0 0.34 7.3E-06 44.5 3.0 24 349-372 31-54 (216)
420 TIGR02673 FtsE cell division A 89.0 0.34 7.4E-06 44.4 3.0 24 349-372 30-53 (214)
421 KOG0744 AAA+-type ATPase [Post 89.0 0.29 6.2E-06 47.6 2.5 72 344-419 174-260 (423)
422 PF01580 FtsK_SpoIIIE: FtsK/Sp 89.0 0.33 7.2E-06 44.2 2.9 24 344-367 35-58 (205)
423 TIGR01166 cbiO cobalt transpor 89.0 0.35 7.5E-06 43.5 3.0 24 349-372 20-43 (190)
424 PRK08451 DNA polymerase III su 88.9 0.56 1.2E-05 49.3 4.9 45 315-371 15-60 (535)
425 cd04112 Rab26 Rab26 subfamily. 88.9 0.33 7.1E-06 43.7 2.8 20 349-368 2-21 (191)
426 cd02027 APSK Adenosine 5'-phos 88.9 0.5 1.1E-05 40.9 3.9 30 350-379 2-35 (149)
427 cd03257 ABC_NikE_OppD_transpor 88.9 0.34 7.5E-06 44.8 3.0 24 349-372 33-56 (228)
428 cd03265 ABC_DrrA DrrA is the A 88.8 0.35 7.7E-06 44.6 3.1 24 349-372 28-51 (220)
429 TIGR02788 VirB11 P-type DNA tr 88.8 0.35 7.6E-06 47.3 3.2 29 345-373 142-170 (308)
430 TIGR03878 thermo_KaiC_2 KaiC d 88.8 0.6 1.3E-05 44.5 4.7 37 344-381 34-74 (259)
431 PLN03118 Rab family protein; P 88.8 0.33 7.2E-06 44.4 2.8 23 346-368 13-35 (211)
432 PRK14262 phosphate ABC transpo 88.8 0.34 7.4E-06 45.6 3.0 24 349-372 31-54 (250)
433 KOG0087 GTPase Rab11/YPT3, sma 88.8 0.28 6.1E-06 44.7 2.2 19 349-367 16-34 (222)
434 cd03215 ABC_Carb_Monos_II This 88.8 0.36 7.9E-06 43.2 3.0 24 349-372 28-51 (182)
435 PRK14240 phosphate transporter 88.7 0.46 1E-05 44.7 3.8 23 349-371 31-53 (250)
436 PRK04213 GTP-binding protein; 88.7 0.35 7.5E-06 43.7 2.8 23 347-369 9-31 (201)
437 TIGR02239 recomb_RAD51 DNA rep 88.7 0.42 9.2E-06 46.9 3.6 37 345-382 95-141 (316)
438 cd04105 SR_beta Signal recogni 88.7 0.34 7.4E-06 44.3 2.8 24 349-372 2-25 (203)
439 PRK09361 radB DNA repair and r 88.7 0.67 1.5E-05 42.8 4.8 32 349-380 25-60 (225)
440 KOG0731 AAA+-type ATPase conta 88.7 0.29 6.3E-06 53.0 2.6 27 350-376 347-373 (774)
441 TIGR03881 KaiC_arch_4 KaiC dom 88.6 0.7 1.5E-05 42.8 4.9 34 349-382 22-59 (229)
442 PF13086 AAA_11: AAA domain; P 88.6 0.34 7.4E-06 44.3 2.7 21 350-370 20-40 (236)
443 cd03229 ABC_Class3 This class 88.5 0.4 8.6E-06 42.7 3.1 32 349-380 28-62 (178)
444 cd04161 Arl2l1_Arl13_like Arl2 88.5 0.36 7.8E-06 42.4 2.7 21 350-370 2-22 (167)
445 PRK10771 thiQ thiamine transpo 88.5 0.37 8E-06 44.9 3.0 32 349-380 27-61 (232)
446 TIGR01351 adk adenylate kinase 88.5 0.43 9.2E-06 43.8 3.3 28 349-376 1-28 (210)
447 TIGR03740 galliderm_ABC gallid 88.5 0.39 8.4E-06 44.4 3.0 24 349-372 28-51 (223)
448 cd03226 ABC_cobalt_CbiO_domain 88.5 0.39 8.4E-06 43.8 3.0 24 349-372 28-51 (205)
449 PRK11701 phnK phosphonate C-P 88.5 0.38 8.2E-06 45.6 3.1 32 349-380 34-68 (258)
450 PRK14274 phosphate ABC transpo 88.5 0.47 1E-05 45.0 3.7 24 349-372 40-63 (259)
451 PLN02459 probable adenylate ki 88.5 0.46 9.9E-06 45.2 3.5 32 348-379 30-61 (261)
452 cd03261 ABC_Org_Solvent_Resist 88.5 0.38 8.3E-06 44.8 3.0 32 349-380 28-62 (235)
453 TIGR03771 anch_rpt_ABC anchore 88.4 0.39 8.4E-06 44.5 3.0 32 349-380 8-42 (223)
454 PRK13538 cytochrome c biogenes 88.4 0.39 8.6E-06 43.7 3.0 24 349-372 29-52 (204)
455 cd01875 RhoG RhoG subfamily. 88.4 0.34 7.3E-06 43.7 2.5 22 347-368 3-24 (191)
456 cd03290 ABCC_SUR1_N The SUR do 88.4 0.39 8.5E-06 44.2 3.0 25 348-372 28-52 (218)
457 PRK14272 phosphate ABC transpo 88.4 0.52 1.1E-05 44.4 3.9 23 349-371 32-54 (252)
458 cd04126 Rab20 Rab20 subfamily. 88.4 0.37 8E-06 44.8 2.8 21 348-368 1-21 (220)
459 cd03219 ABC_Mj1267_LivG_branch 88.3 0.38 8.1E-06 44.8 2.9 32 349-380 28-62 (236)
460 PF03205 MobB: Molybdopterin g 88.3 0.45 9.7E-06 40.9 3.1 22 350-371 3-24 (140)
461 PRK11124 artP arginine transpo 88.3 0.4 8.7E-06 44.9 3.1 24 349-372 30-53 (242)
462 PRK11300 livG leucine/isoleuci 88.3 0.38 8.2E-06 45.4 2.9 24 349-372 33-56 (255)
463 PRK12422 chromosomal replicati 88.3 0.4 8.6E-06 49.5 3.2 31 349-379 143-177 (445)
464 TIGR00235 udk uridine kinase. 88.3 0.35 7.6E-06 44.2 2.6 24 349-372 8-31 (207)
465 COG3283 TyrR Transcriptional r 88.2 0.37 8.1E-06 47.5 2.8 69 349-418 229-302 (511)
466 TIGR02858 spore_III_AA stage I 88.2 0.4 8.7E-06 46.0 3.0 26 348-373 112-137 (270)
467 CHL00206 ycf2 Ycf2; Provisiona 88.2 0.32 6.9E-06 57.5 2.7 31 349-379 1632-1663(2281)
468 cd03252 ABCC_Hemolysin The ABC 88.2 0.4 8.7E-06 44.7 3.0 32 349-380 30-64 (237)
469 PRK11248 tauB taurine transpor 88.2 0.41 8.8E-06 45.4 3.1 32 349-380 29-63 (255)
470 cd04128 Spg1 Spg1p. Spg1p (se 88.2 0.39 8.5E-06 43.0 2.8 20 348-367 1-20 (182)
471 cd00267 ABC_ATPase ABC (ATP-bi 88.2 0.44 9.5E-06 41.4 3.0 26 348-373 26-51 (157)
472 COG3284 AcoR Transcriptional a 88.1 0.32 6.9E-06 51.2 2.4 64 344-418 333-416 (606)
473 PRK00279 adk adenylate kinase; 88.1 0.49 1.1E-05 43.6 3.5 31 349-379 2-32 (215)
474 COG1121 ZnuC ABC-type Mn/Zn tr 88.1 0.79 1.7E-05 43.4 4.9 40 345-385 29-71 (254)
475 cd01887 IF2_eIF5B IF2/eIF5B (i 88.1 0.38 8.2E-06 41.7 2.6 22 350-371 3-24 (168)
476 cd03218 ABC_YhbG The ABC trans 88.1 0.42 9.1E-06 44.4 3.0 32 349-380 28-62 (232)
477 PRK05564 DNA polymerase III su 88.1 0.72 1.6E-05 45.1 4.8 44 315-370 5-49 (313)
478 TIGR02012 tigrfam_recA protein 88.1 0.54 1.2E-05 46.2 3.9 38 345-383 54-95 (321)
479 COG3638 ABC-type phosphate/pho 88.1 0.42 9.2E-06 44.5 2.9 26 349-374 32-57 (258)
480 cd03296 ABC_CysA_sulfate_impor 88.1 0.42 9.1E-06 44.7 3.0 32 349-380 30-64 (239)
481 cd03297 ABC_ModC_molybdenum_tr 88.1 0.43 9.3E-06 43.8 3.1 25 348-372 24-48 (214)
482 TIGR03005 ectoine_ehuA ectoine 88.0 0.42 9E-06 45.1 3.0 25 349-373 28-52 (252)
483 TIGR00362 DnaA chromosomal rep 88.0 0.42 9.2E-06 48.6 3.3 31 349-379 138-174 (405)
484 TIGR00157 ribosome small subun 88.0 0.38 8.3E-06 45.4 2.7 20 349-368 122-141 (245)
485 PRK10895 lipopolysaccharide AB 88.0 0.42 9.2E-06 44.7 3.0 32 349-380 31-65 (241)
486 PRK14250 phosphate ABC transpo 88.0 0.43 9.3E-06 44.8 3.0 24 349-372 31-54 (241)
487 cd01889 SelB_euk SelB subfamil 88.0 0.34 7.5E-06 43.6 2.3 23 348-370 1-23 (192)
488 cd03249 ABC_MTABC3_MDL1_MDL2 M 88.0 0.42 9.2E-06 44.6 3.0 24 349-372 31-54 (238)
489 cd03256 ABC_PhnC_transporter A 88.0 0.43 9.3E-06 44.6 3.0 32 349-380 29-63 (241)
490 cd03369 ABCC_NFT1 Domain 2 of 87.9 0.44 9.5E-06 43.5 3.0 25 349-373 36-60 (207)
491 PRK12339 2-phosphoglycerate ki 87.9 0.56 1.2E-05 42.8 3.6 31 349-379 5-35 (197)
492 PRK14242 phosphate transporter 87.9 0.55 1.2E-05 44.3 3.8 23 349-371 34-56 (253)
493 PRK14738 gmk guanylate kinase; 87.9 0.45 9.7E-06 43.6 3.0 25 349-373 15-39 (206)
494 cd04171 SelB SelB subfamily. 87.9 0.4 8.8E-06 41.2 2.7 21 349-369 2-22 (164)
495 PRK00089 era GTPase Era; Revie 87.9 0.39 8.4E-06 46.4 2.8 20 349-368 7-26 (292)
496 COG0444 DppD ABC-type dipeptid 87.9 0.45 9.8E-06 46.3 3.1 35 345-380 30-66 (316)
497 PRK11629 lolD lipoprotein tran 87.9 0.44 9.6E-06 44.4 3.1 24 349-372 37-60 (233)
498 cd03235 ABC_Metallic_Cations A 87.9 0.42 9.2E-06 43.8 2.9 24 349-372 27-50 (213)
499 cd03293 ABC_NrtD_SsuB_transpor 87.9 0.45 9.7E-06 43.9 3.0 24 349-372 32-55 (220)
500 PRK13645 cbiO cobalt transport 87.8 0.43 9.3E-06 46.1 3.0 32 349-380 39-73 (289)
No 1
>KOG0480 consensus DNA replication licensing factor, MCM6 component [Replication, recombination and repair]
Probab=100.00 E-value=1.1e-90 Score=692.46 Aligned_cols=390 Identities=32% Similarity=0.495 Sum_probs=322.7
Q ss_pred CChHHHHHH-HHHHHHHHhH--------HHHHHhhcCCCCCCceeEEEechhhhc-cCHHHHHHHHhChHHHHHHHHHHH
Q 014661 4 ENVPAHLKA-LAEFVIRHHS--------DQLRSITLSPDPKLHYPLYIDFAELLD-EDPEIAHLVFSKPADYLRFFEDAA 73 (420)
Q Consensus 4 ~~~~~~i~~-f~~Fl~~~y~--------~~i~~~~~~~~~~~~~sl~Id~~dL~~-~~p~La~~l~~~P~~~l~~~e~ai 73 (420)
+.+++.+++ |.+||+.|+. ..+..+.. + ...+|.||+.||.+ +++.|+..|.++|..++|++..|+
T Consensus 19 d~~g~~~~e~~~~Fle~~~~~~~e~~~~~~i~~~~~---~-~~~tl~vd~~~l~~~~~~~la~~l~~~~~r~~p~m~~av 94 (764)
T KOG0480|consen 19 DTTGERVEEEFLQFLESFKVQAGEKKYLQSIELLDR---P-ERNTLLVDFQHLSKQYNQNLATALEENYYRVLPCMCRAV 94 (764)
T ss_pred cccccchHHHHHHHHHHhhccccchhhHHHHHhhcc---C-CCceEEEEHHHHHhhhhHHHHHHHHHhhhhhHHHHHHHH
Confidence 344566654 8889888754 33333321 2 45799999999999 999999999999999999999999
Q ss_pred HHHHHHHhhccchhhhhccceeEEEEEeecCCCCCCCCCCcccccccccccccEEEEEEEEEEecceeEEEEEEEEEecC
Q 014661 74 IWAHKIVFDELKSCEKRVEKKFIHVRINVSGSPLECPETFPSIGRVRVKHHGVLLTLKGTVIRSGATKMYEGERTYMCRK 153 (420)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~i~vri~~~~~p~~~p~~~~~~~~l~~~~igkLV~v~G~V~r~s~vk~~~~~~~f~C~~ 153 (420)
..+.... +.+.....+.+++||+ |+|. ...+|+|++..+|+||.+.|+|+|+|+|+|.+++++|.|..
T Consensus 95 ~~~l~d~-----~~~~~~~~~~~~v~f~------nlp~-~~~irdlra~~iG~Lv~isGtVvRts~VrPelt~~~F~C~~ 162 (764)
T KOG0480|consen 95 HKVLKDW-----STNSGALVKKIYVRFY------NLPT-RHKIRDLRAARIGKLVRISGTVVRTSPVRPELTKMTFLCEK 162 (764)
T ss_pred HHHHHcc-----cccccccceeEEEEEe------cccc-ccccccccHhhhcceEEEEEEEEEeecccceeeeeEEEHhh
Confidence 8876531 0112234567899998 6774 47899999999999999999999999999999999999999
Q ss_pred CCceeeeccccccccceecCCCCCCCCCCCCCC-CceEEecceeeEeeeeEEEEeecccccCCCCcceEEEEEEecCccC
Q 014661 154 CKHMFPVYPELETRNSIVLPSHCPSQRSKPCEG-TNFQFVENSIICHDYQEIKIQESTQVLGVGVIPRSILVILKDDLVD 232 (420)
Q Consensus 154 C~~~~~~~~~~~~~~~~~~P~~C~~~~~~~C~~-~~f~~~~~~s~~~d~Q~IkiQE~~e~~~~g~~pr~i~v~L~~dLv~ 232 (420)
||..+.. .++.++|+.|+.||+ ..|.+ +.|.++.+++.|.|||+|||||..++.|.|.+||+++|+|++|+|+
T Consensus 163 C~t~i~~---v~q~fkYt~Pt~C~n---p~C~nrr~f~l~~~~s~f~D~QkIrIQE~~~E~p~GsiPRtvdviLr~dlVe 236 (764)
T KOG0480|consen 163 CGTVIRN---VEQQFKYTEPTKCPN---PVCSNRRSFTLDRSSSRFLDWQKIRIQELQAEIPRGSIPRTVDVILRGDLVE 236 (764)
T ss_pred CCCeecc---chhcCccCCCccCCC---ccccCCceeeeecccceeeeeeeeehhhhhhhCCCCCCCceeEEEEhhhhHh
Confidence 9998653 357889999999997 57877 4699999999999999999999999999999999999999999999
Q ss_pred ceecCCeEEEEEEEEeeec------CCCc--Cccc----ccceEEEEeeEEEccCc--c------CCC------------
Q 014661 233 IVKAGDDVIVTGILTAKWS------PDLK--DVRC----DLDPVLIANHVRRTNEL--K------SDI------------ 280 (420)
Q Consensus 233 ~~~pGd~V~v~GIl~~~~~------~~~~--~~~~----~~~~~i~a~~I~~~~~~--~------~~~------------ 280 (420)
+++|||+|.+|||+...+. ++.+ +.++ .+=++++|++|+..+-. | ...
T Consensus 237 ~~~pGD~v~~TGiliVvpdv~~l~~pgsk~~n~r~~~~~~~i~~lkal~Vrdl~yq~aFlac~~~~~~~~ee~~~~~~~~ 316 (764)
T KOG0480|consen 237 TAQPGDKVDITGILIVVPDVSQLGGPGSKAENNRGGETGDGITGLKALGVRDLTYQLAFLACHVQSTLAVEEDDEEDMLN 316 (764)
T ss_pred hcCCCCEEEEEEEEEEecChHHhcCCccccccccCCCcccceeeehhcccccchhhhhHhhhhcccccccchhhhHHHhh
Confidence 9999999999999998774 1111 1111 22346778888754321 0 001
Q ss_pred CCCHHHHHHHHHHHHhhcCCCccchhhhhhccCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchh
Q 014661 281 DIPDDIIMQFKQFWSEFKDTPLKGRNAILRGICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGK 360 (420)
Q Consensus 281 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~siaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gK 360 (420)
.++.+|...+.+. ..++ +.|..|++|+||+||||+.||+||||+||||+.|...+|+++|||||||+||||||||
T Consensus 317 ~~s~~e~~~~~em----~~~~-nly~~lv~Sl~PsIyGhe~VK~GilL~LfGGv~K~a~eg~~lRGDinv~iVGDPgt~K 391 (764)
T KOG0480|consen 317 SMSSEEFAEIREM----SKDE-NLYKNLVNSLFPSIYGHELVKAGILLSLFGGVHKSAGEGTSLRGDINVCIVGDPGTGK 391 (764)
T ss_pred hccHHHHHHHHHH----hcCc-hHHHHHHHhhCccccchHHHHhhHHHHHhCCccccCCCCccccCCceEEEeCCCCccH
Confidence 1223333333222 2233 3788999999999999999999999999999999988999999999999999999999
Q ss_pred hHHHHHHhccCCcEEEEeccccccCCceeeEEeeC--CceeeccceeeecCCceEeeecccC
Q 014661 361 SQFLKFAAKLSNRSVITTGLGSTSAGLTVTAVKDG--GEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 361 SqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~~r~~--g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
||+|++++.++||||||||+.||+||||||++||+ |+|++|||||||||+||||||||||
T Consensus 392 SQfLk~v~~fsPR~vYtsGkaSSaAGLTaaVvkD~esgdf~iEAGALmLADnGICCIDEFDK 453 (764)
T KOG0480|consen 392 SQFLKAVCAFSPRSVYTSGKASSAAGLTAAVVKDEESGDFTIEAGALMLADNGICCIDEFDK 453 (764)
T ss_pred HHHHHHHhccCCcceEecCcccccccceEEEEecCCCCceeeecCcEEEccCceEEechhcc
Confidence 99999999999999999999999999999999998 9999999999999999999999998
No 2
>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]
Probab=100.00 E-value=1.1e-87 Score=696.24 Aligned_cols=360 Identities=38% Similarity=0.618 Sum_probs=317.8
Q ss_pred eeEEEechhhhccCHHHHHHHHhChHHHHHHHHHHHHHHHHHHhhccchhhhhccceeEEEEEeecCCCCCCCCCCcccc
Q 014661 38 YPLYIDFAELLDEDPEIAHLVFSKPADYLRFFEDAAIWAHKIVFDELKSCEKRVEKKFIHVRINVSGSPLECPETFPSIG 117 (420)
Q Consensus 38 ~sl~Id~~dL~~~~p~La~~l~~~P~~~l~~~e~ai~~~~~~~~~~~~~~~~~~~~~~i~vri~~~~~p~~~p~~~~~~~ 117 (420)
.++.||+.|+..++++||..|+++|.++++.|++|+.++....+... ....+.+|+||. ++|. ..++|
T Consensus 31 ~s~~v~~~~~~~~~~~la~~l~~~p~~~i~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~------~~~~-~~~iR 98 (682)
T COG1241 31 RSLEVDLSDLEEYDPELAGLLLENPEEIIPLFEKALDEIALLLFPEV-----DRSLKKIHVRFK------NLPN-RLSIR 98 (682)
T ss_pred eEEEEEhHHhhcccHHHHHHHHhChHHHHHHHHHHHHHHHHhcCccc-----cccccceEEEec------CCcC-CcChh
Confidence 39999999999999999999999999999999999998876443221 111256888887 4554 33799
Q ss_pred cccccccccEEEEEEEEEEecceeEEEEEEEEEecCCCceeeeccccccccceecCCCCCCCCCCCCCCCceEEecceee
Q 014661 118 RVRVKHHGVLLTLKGTVIRSGATKMYEGERTYMCRKCKHMFPVYPELETRNSIVLPSHCPSQRSKPCEGTNFQFVENSII 197 (420)
Q Consensus 118 ~l~~~~igkLV~v~G~V~r~s~vk~~~~~~~f~C~~C~~~~~~~~~~~~~~~~~~P~~C~~~~~~~C~~~~f~~~~~~s~ 197 (420)
+|++.|+||||+++|+|+|+|.++|++++++|.|++||+.+.+.. +...+..|..|+++ ... +..+|.++.+.|.
T Consensus 99 ~l~s~~igkLV~v~GiV~r~s~v~p~~~~~~~~C~~Cg~~~~~~~---~~~~~~~~~~C~~~-~~~-~~~~~~~~~~~s~ 173 (682)
T COG1241 99 ELRSEHIGKLVSVEGIVTRASEVRPRLKKAVFECPKCGREVEVEQ---SEFRVEPPRECENC-GKF-GKGPLKLVPRKSE 173 (682)
T ss_pred hCchhhCCcEEEEEEEEEecccccceeEEEEEEcCCCCCEEEEEe---ccccccCCccCCCc-ccc-CCCceEEecCcce
Confidence 999999999999999999999999999999999999999987654 23346778889863 111 3446999999999
Q ss_pred EeeeeEEEEeecccccCCCCcceEEEEEEecCccCceecCCeEEEEEEEEeeecCCC--cCcccccceEEEEeeEEEccC
Q 014661 198 CHDYQEIKIQESTQVLGVGVIPRSILVILKDDLVDIVKAGDDVIVTGILTAKWSPDL--KDVRCDLDPVLIANHVRRTNE 275 (420)
Q Consensus 198 ~~d~Q~IkiQE~~e~~~~g~~pr~i~v~L~~dLv~~~~pGd~V~v~GIl~~~~~~~~--~~~~~~~~~~i~a~~I~~~~~ 275 (420)
|+|||+|+|||.|+.+|.|++||+++|+|++|||++++|||+|.||||++..+.... ....+.|++|++|++|++.+.
T Consensus 174 f~d~Q~vkiQE~pe~~p~g~~Prs~~vil~~dlv~~~~pGdrV~itGi~~~~~~~~~~~~~~~~~~~~~~~a~~v~~~~~ 253 (682)
T COG1241 174 FIDFQKVKIQELPELVPGGELPRSIEVILEDDLVDSVRPGDRVKITGVVRIVPSRSLSGRRKGPVFEIYLEANSVEKLDK 253 (682)
T ss_pred eeeceEEEEecCcccCCCCCCCceEEEEEecCcccccCCCCEEEEEEEEecccccccccccCCceEEEEEEEEEEEeccc
Confidence 999999999999999999999999999999999999999999999999999874221 234567899999999998776
Q ss_pred ccCCCCCCHHHHHHHHHHHHhhcCCCccchhhhhhccCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcC
Q 014661 276 LKSDIDIPDDIIMQFKQFWSEFKDTPLKGRNAILRGICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGD 355 (420)
Q Consensus 276 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~siaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGd 355 (420)
. ....+|++|.++|.++++ ++ +++++|++||||+||||++||+||+||||||+.+..++|+++|||||||||||
T Consensus 254 ~-~~~~~t~ed~e~i~elak----~~-~i~~~l~~SiaPsIyG~e~VKkAilLqLfgGv~k~~~~g~~iRGDInILLvGD 327 (682)
T COG1241 254 R-EEVEITEEDEEEIKELAK----RP-DIYDILIKSIAPSIYGHEDVKKAILLQLFGGVKKNLPDGTRIRGDIHILLVGD 327 (682)
T ss_pred h-hhccCCHHHHHHHHHHhc----CC-cHHHHHHHHhcccccCcHHHHHHHHHHhcCCCcccCCCCcccccceeEEEcCC
Confidence 5 567889999999987764 33 37899999999999999999999999999999999999999999999999999
Q ss_pred CCchhhHHHHHHhccCCcEEEEeccccccCCceeeEEeeC--CceeeccceeeecCCceEeeecccC
Q 014661 356 PGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTVTAVKDG--GEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 356 pg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~~r~~--g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
||||||||||++++++||+|||||+|||++||||+++||. |+|+||||||||||+||||||||||
T Consensus 328 PgtaKSqlLk~v~~~aPr~vytsgkgss~~GLTAav~rd~~tge~~LeaGALVlAD~Gv~cIDEfdK 394 (682)
T COG1241 328 PGTAKSQLLKYVAKLAPRGVYTSGKGSSAAGLTAAVVRDKVTGEWVLEAGALVLADGGVCCIDEFDK 394 (682)
T ss_pred CchhHHHHHHHHHhhCCceEEEccccccccCceeEEEEccCCCeEEEeCCEEEEecCCEEEEEeccC
Confidence 9999999999999999999999999999999999999997 7999999999999999999999997
No 3
>KOG0481 consensus DNA replication licensing factor, MCM5 component [Replication, recombination and repair]
Probab=100.00 E-value=3e-86 Score=645.25 Aligned_cols=394 Identities=30% Similarity=0.448 Sum_probs=335.1
Q ss_pred HHHHHHHHHHHH-------hHHHHHHhhcCCCCCCceeEEEechhhhccCHHHHHHHHhChHHHHHHHHHHHHHHHHHHh
Q 014661 9 HLKALAEFVIRH-------HSDQLRSITLSPDPKLHYPLYIDFAELLDEDPEIAHLVFSKPADYLRFFEDAAIWAHKIVF 81 (420)
Q Consensus 9 ~i~~f~~Fl~~~-------y~~~i~~~~~~~~~~~~~sl~Id~~dL~~~~p~La~~l~~~P~~~l~~~e~ai~~~~~~~~ 81 (420)
.+.+|.+|++.| |++++++.+.. ..|+|+|+++||..||.+|+..|..+|.++||+||+|+.++.+..-
T Consensus 28 v~~~fkefir~f~~~~~f~Yrd~L~~N~~~----~~y~L~v~le~L~~fdedl~~~L~~~P~~~lp~fEeAa~~Vad~i~ 103 (729)
T KOG0481|consen 28 VKTKFKEFIRQFRTGTDFKYRDQLKRNYNL----GEYSLEVELEDLISFDEDLADKLSKQPADHLPLFEEAAKEVADEIT 103 (729)
T ss_pred HHHHHHHHHHHhccccccchHHHHHhcccc----cceEEEEEHHHhhccchHHHHHHHhChHhHHHHHHHHHHHHHhhhc
Confidence 345699999886 99999876654 5799999999999999999999999999999999999999877432
Q ss_pred hccchhhhhccceeEEEEEeecCCCCCCCCCCcccccccccccccEEEEEEEEEEecceeEEEEEEEEEecCCCceeeec
Q 014661 82 DELKSCEKRVEKKFIHVRINVSGSPLECPETFPSIGRVRVKHHGVLLTLKGTVIRSGATKMYEGERTYMCRKCKHMFPVY 161 (420)
Q Consensus 82 ~~~~~~~~~~~~~~i~vri~~~~~p~~~p~~~~~~~~l~~~~igkLV~v~G~V~r~s~vk~~~~~~~f~C~~C~~~~~~~ 161 (420)
...+..+ .....++|-+... .+..++|+|+++++.|||.+.|+|+.+|.++.+.+....+|++|.+.....
T Consensus 104 ~~~~~~E--~~~~d~Qv~L~sd-------a~p~~iR~l~s~~vsklVki~GIiiaAS~v~~kat~l~l~CrnC~~t~~~~ 174 (729)
T KOG0481|consen 104 RPRPSGE--EVLHDIQVLLTSD-------ANPISIRQLKSDHVSKLVKISGIIIAASAVSAKATRLSLVCRNCRHTRPNV 174 (729)
T ss_pred CCCcCCC--ccceeeEEEEecC-------CCcccHhHhhhHhhhhheeeccEEEEeeeeeecceEEEEEeccccccccce
Confidence 1111111 1123466666522 456789999999999999999999999999999999999999999986332
Q ss_pred cccccccceecCCCCCCCC--CCCCCCCceEEecceeeEeeeeEEEEeecccccCCCCcceEEEEEEecCccCceecCCe
Q 014661 162 PELETRNSIVLPSHCPSQR--SKPCEGTNFQFVENSIICHDYQEIKIQESTQVLGVGVIPRSILVILKDDLVDIVKAGDD 239 (420)
Q Consensus 162 ~~~~~~~~~~~P~~C~~~~--~~~C~~~~f~~~~~~s~~~d~Q~IkiQE~~e~~~~g~~pr~i~v~L~~dLv~~~~pGd~ 239 (420)
........+..|..|...+ .+.|.-.+|...++.|+|+|+|.+|+||.||.+|.|++||++..++++.|++++.||.+
T Consensus 175 ~~~pgl~g~~lPR~C~~~~~~k~~Cp~DPyii~pdks~~vD~QtLKLQE~pe~VP~GE~PRhl~L~~dRyL~~kvvPG~R 254 (729)
T KOG0481|consen 175 IMRPGLEGYALPRKCDTPQAGKPKCPLDPYIIMPDKSKCVDQQTLKLQELPEDVPVGEMPRHLQLFCDRYLTNKVVPGNR 254 (729)
T ss_pred ecCCCccccccccccCCcccCCCCCCCCCEEEcccccceeehhheehhhCcccCCcCcCcchhhhhhhHHHhccccCCce
Confidence 1111223477999996433 36899999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEEEeeecCCCc----CcccccceEEEEeeEEEccCcc---CCCCCCHHHHHHHHHHHHhhcCCCccchhhhhhcc
Q 014661 240 VIVTGILTAKWSPDLK----DVRCDLDPVLIANHVRRTNELK---SDIDIPDDIIMQFKQFWSEFKDTPLKGRNAILRGI 312 (420)
Q Consensus 240 V~v~GIl~~~~~~~~~----~~~~~~~~~i~a~~I~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~si 312 (420)
|+|+|||..+.....+ ...++-.+|+.+..|+..+... .-..+|+|+.++|+++++ .| ++|+.|++||
T Consensus 255 vtI~GIYsI~~~~~~~~s~k~~v~iR~PyirVvGi~~ds~~ss~~~~~~ft~eEEEeFk~la~----~~-d~Ye~is~sI 329 (729)
T KOG0481|consen 255 VTIMGIYSIKKFGSTSSSDKSGVGIRTPYIRVVGIQDDSEGSSRSSATMFTPEEEEEFKKLAA----SP-DVYERISKSI 329 (729)
T ss_pred EEEEEEEEeeeccccCCCCccceeeecceEEEEEEEeccCCccccCcccCChhHHHHHHHHhc----Cc-cHHHHHhhcc
Confidence 9999999987543221 1223346799999998654322 124688999899988764 34 4899999999
Q ss_pred CCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCceeeEE
Q 014661 313 CPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTVTAV 392 (420)
Q Consensus 313 aP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~~ 392 (420)
||+||||+++|+||+|.||||+.+.++||.+.||||||||.|||||+|||||||+.+++|.+|||||||||+|||||||.
T Consensus 330 APSIfG~~DiKkAiaClLFgGsrK~LpDg~~lRGDINVLLLGDPgtAKSQlLKFvEkvsPIaVYTSGKGSSAAGLTASV~ 409 (729)
T KOG0481|consen 330 APSIFGHEDIKKAIACLLFGGSRKRLPDGVTLRGDINVLLLGDPGTAKSQLLKFVEKVSPIAVYTSGKGSSAAGLTASVI 409 (729)
T ss_pred CchhcCchhHHHHHHHHhhcCccccCCCcceeccceeEEEecCCchhHHHHHHHHHhcCceEEEecCCCcccccceeeEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeC--CceeeccceeeecCCceEeeecccC
Q 014661 393 KDG--GEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 393 r~~--g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
||+ .+|+||+||+|||||||||||||||
T Consensus 410 RD~~tReFylEGGAMVLADgGVvCIDEFDK 439 (729)
T KOG0481|consen 410 RDPSTREFYLEGGAMVLADGGVVCIDEFDK 439 (729)
T ss_pred ecCCcceEEEecceEEEecCCEEEeehhhc
Confidence 998 5999999999999999999999998
No 4
>KOG0479 consensus DNA replication licensing factor, MCM3 component [Replication, recombination and repair]
Probab=100.00 E-value=7.3e-86 Score=650.44 Aligned_cols=391 Identities=28% Similarity=0.400 Sum_probs=335.8
Q ss_pred HHHHHHHHHHHHH-----HhHHHHHHhhcCCCCCCceeEEEechhhhccCHHHHHHHHhChHHHHHHHHHHHHHHHHHHh
Q 014661 7 PAHLKALAEFVIR-----HHSDQLRSITLSPDPKLHYPLYIDFAELLDEDPEIAHLVFSKPADYLRFFEDAAIWAHKIVF 81 (420)
Q Consensus 7 ~~~i~~f~~Fl~~-----~y~~~i~~~~~~~~~~~~~sl~Id~~dL~~~~p~La~~l~~~P~~~l~~~e~ai~~~~~~~~ 81 (420)
.+.++.|.+||.+ .|.+.|.+|+.. .+++|.||++||..|+|++|..|+.+|.++++.|++|+.++....-
T Consensus 11 ~e~~r~f~efLd~~~D~~iy~e~i~~~~~~----~~~RlIvNv~dlr~~~~~~A~glL~~p~~~~~~f~~AL~~~~~~~d 86 (818)
T KOG0479|consen 11 RERVRDFIEFLDDEEDADIYQEAIKKLLNE----GQHRLIVNVDDLREFNRERASGLLENPAEEVPPFEDALTDAASRID 86 (818)
T ss_pred HHHHHHHHHHhcchhhhhHHHHHHHHhhhc----CcceEEEEhHHHHHhHHHHHHhHhhChHhhhhhHHHHHHHHHhccc
Confidence 4455669999998 488889888864 5789999999999999999999999999999999999998765321
Q ss_pred hccchhhhhccceeEEEEEeecCCCCCCCCCCcccccccccccccEEEEEEEEEEecceeEEEEEEEEEecCCCceeee-
Q 014661 82 DELKSCEKRVEKKFIHVRINVSGSPLECPETFPSIGRVRVKHHGVLLTLKGTVIRSGATKMYEGERTYMCRKCKHMFPV- 160 (420)
Q Consensus 82 ~~~~~~~~~~~~~~i~vri~~~~~p~~~p~~~~~~~~l~~~~igkLV~v~G~V~r~s~vk~~~~~~~f~C~~C~~~~~~- 160 (420)
+ .+...+..++|-|. |++ -....++|.|.+.++|+||+++|+|+++|-|+|++.+.++.|+..+.....
T Consensus 87 ~-----~~~~~~~~~~vGfe--GsF---G~~hv~PRtL~s~~lg~mVcvEGIVTkcSlvRPKvvkSVHYcpaT~~~~~r~ 156 (818)
T KOG0479|consen 87 D-----VYAKVKELFFVGFE--GSF---GNRHVNPRTLTSVYLGKMVCVEGIVTKCSLVRPKVVKSVHYCPATNKFHERD 156 (818)
T ss_pred c-----hhhhhccceEEEee--eec---cccccChhhHHHHHhCceEEeeeeeeeeeeechhhhheeeeccccCcchhhh
Confidence 1 12334556676665 543 345788899999999999999999999999999999999999998866432
Q ss_pred ccccccccceecCCCCCCCCCCCCCCCceEEecceeeEeeeeEEEEeecccccCCCCcceEEEEEEecCccCceecCCeE
Q 014661 161 YPELETRNSIVLPSHCPSQRSKPCEGTNFQFVENSIICHDYQEIKIQESTQVLGVGVIPRSILVILKDDLVDIVKAGDDV 240 (420)
Q Consensus 161 ~~~~~~~~~~~~P~~C~~~~~~~C~~~~f~~~~~~s~~~d~Q~IkiQE~~e~~~~g~~pr~i~v~L~~dLv~~~~pGd~V 240 (420)
+........+..+..-| ++.-++++++...+.|.|.|+|.|.|||.||..|+|++||+++|+|.+||||+|+|||||
T Consensus 157 Y~D~T~~~~~p~~svYP---T~De~gN~L~TEyGlS~ykDHQtitiQEmPE~APaGQLPRSVDvilddDLVD~~KPGDRV 233 (818)
T KOG0479|consen 157 YRDATMLTTLPTGSVYP---TRDEDGNLLETEYGLSVYKDHQTITIQEMPEKAPAGQLPRSVDVILDDDLVDRVKPGDRV 233 (818)
T ss_pred hcchheecccccCCcCC---ccCCCCCeeeEeecceeeecccEEEeeeccccCCCCCCCcceeEEecccccccCCCCCee
Confidence 22222222222222233 345567789999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEEeeecCCCcCcccccceEEEEeeEEEccCccCCCCCCHHHHHHHHHHHHhhcCCCccchhhhhhccCCcccCCH
Q 014661 241 IVTGILTAKWSPDLKDVRCDLDPVLIANHVRRTNELKSDIDIPDDIIMQFKQFWSEFKDTPLKGRNAILRGICPQVFGLF 320 (420)
Q Consensus 241 ~v~GIl~~~~~~~~~~~~~~~~~~i~a~~I~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~siaP~i~G~~ 320 (420)
.|.|||+.-+.....+..+.|.+++.||+|+..++. ...+++++|+.++++++++ ++ ++++|+.|+|||||||+
T Consensus 234 ~ivG~yr~Lp~k~~g~tsg~FRTvliaNni~~l~ke-~~~~~t~~Di~~i~klsk~--kd---iFdlLa~SLAPSI~GH~ 307 (818)
T KOG0479|consen 234 NIVGIYRSLPGKSNGNTSGTFRTVLIANNIELLSKE-AAPDFTDEDIRNIKKLSKK--KD---IFDLLARSLAPSIYGHD 307 (818)
T ss_pred EEEEEEeeccCccCCcccceeEEEEEeccHHhhccc-ccccCChhhHHHHHHHHhc--CC---HHHHHhhccCcccccHH
Confidence 999999987765555566789999999999987764 3678999999999998763 34 56899999999999999
Q ss_pred HHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCceeeEEeeC--Cce
Q 014661 321 TVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTVTAVKDG--GEW 398 (420)
Q Consensus 321 ~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~~r~~--g~~ 398 (420)
.+|+||||.|.||+++++++|+++||||||||||||+++|||||||+.+.||+++-|||+|||++||||||+-|. ||.
T Consensus 308 ~vKkAillLLlGGvEk~L~NGshlRGDINiLlvGDPSvAKSQLLRyVLntAplAI~TTGRGSSGVGLTAAVTtD~eTGER 387 (818)
T KOG0479|consen 308 YVKKAILLLLLGGVEKNLENGSHLRGDINILLVGDPSVAKSQLLRYVLNTAPLAIATTGRGSSGVGLTAAVTTDQETGER 387 (818)
T ss_pred HHHHHHHHHHhccceeccCCCceeccceeEEEecCchHHHHHHHHHHHhcccccccccCCCCCCccceeEEeeccccchh
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999765 999
Q ss_pred eeccceeeecCCceEeeecccC
Q 014661 399 MLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 399 ~leaGalvlad~Gv~ciDe~dK 420 (420)
.|||||+||||.||+|||||||
T Consensus 388 RLEAGAMVLADRGVVCIDEFDK 409 (818)
T KOG0479|consen 388 RLEAGAMVLADRGVVCIDEFDK 409 (818)
T ss_pred hhhcCceEEccCceEEehhccc
Confidence 9999999999999999999998
No 5
>KOG0477 consensus DNA replication licensing factor, MCM2 component [Replication, recombination and repair]
Probab=100.00 E-value=4.4e-86 Score=656.05 Aligned_cols=384 Identities=37% Similarity=0.569 Sum_probs=333.2
Q ss_pred HHHHHHHHHHHH--------hHHHHHHhhcCCCCCCceeEEEechhhhccCHHHHHHHHhChHHHHHHHHHHHHHHHHHH
Q 014661 9 HLKALAEFVIRH--------HSDQLRSITLSPDPKLHYPLYIDFAELLDEDPEIAHLVFSKPADYLRFFEDAAIWAHKIV 80 (420)
Q Consensus 9 ~i~~f~~Fl~~~--------y~~~i~~~~~~~~~~~~~sl~Id~~dL~~~~p~La~~l~~~P~~~l~~~e~ai~~~~~~~ 80 (420)
...+|.+||.+| |...|+++... ..-++.|++.||..-.+.||..|-+.|.+++..|+.++.+++...
T Consensus 161 i~~~fk~fl~~y~d~~~~~~~~~ri~~~~~~----n~esl~v~y~dla~~~~~la~fl~~ap~e~l~I~dr~a~~~v~~~ 236 (854)
T KOG0477|consen 161 IARRFKNFLREYVDENGHNVYIERIRRMCEE----NRESLEVNYTDLAESEHVLAYFLPEAPEEMLEIFDRAALEVVLLH 236 (854)
T ss_pred HHHHHHHHHHHHhcccccchHHHHHHHHHhh----chHHHHHHHHHHHHhHHHHHHHhhhhHHHHHHHHHHHHHHHHHHh
Confidence 335599999987 55667777643 345899999999999999999999999999999999999887655
Q ss_pred hhccchhhhhccceeEEEEEeecCCCCCCCCCCcccccccccccccEEEEEEEEEEecceeEEEEEEEEEecCCCceeee
Q 014661 81 FDELKSCEKRVEKKFIHVRINVSGSPLECPETFPSIGRVRVKHHGVLLTLKGTVIRSGATKMYEGERTYMCRKCKHMFPV 160 (420)
Q Consensus 81 ~~~~~~~~~~~~~~~i~vri~~~~~p~~~p~~~~~~~~l~~~~igkLV~v~G~V~r~s~vk~~~~~~~f~C~~C~~~~~~ 160 (420)
+ +.++ .....+|||+. ++| ...++|.+|..|+|+||.+.|+|++.+.|.|.+....|.|.+||...
T Consensus 237 ~---p~ye--ri~~~ihvris------~lP-~~~~lr~lRq~Hln~Lvr~~GvVtr~tgV~pql~~vky~C~KC~~vl-- 302 (854)
T KOG0477|consen 237 Y---PNYE--RIHNEIHVRIS------DLP-VCESLRSLRQLHLNQLVRTSGVVTRRTGVFPQLSVVKYDCLKCGFVL-- 302 (854)
T ss_pred C---CChh--hcccceeeeee------cCC-ccccHHHHHHhccCceEEeeeEEEecceeehhhHHHhhhHHhhCCcc--
Confidence 4 3232 23567899997 445 24578999999999999999999999999999999999999999664
Q ss_pred ccccccccceecCCCCCCCCCCCCCCC-ceEEecceeeEeeeeEEEEeecccccCCCCcceEEEEEEecCccCceecCCe
Q 014661 161 YPELETRNSIVLPSHCPSQRSKPCEGT-NFQFVENSIICHDYQEIKIQESTQVLGVGVIPRSILVILKDDLVDIVKAGDD 239 (420)
Q Consensus 161 ~~~~~~~~~~~~P~~C~~~~~~~C~~~-~f~~~~~~s~~~d~Q~IkiQE~~e~~~~g~~pr~i~v~L~~dLv~~~~pGd~ 239 (420)
.+.+++.+.-..|..||+ |.++ +|..+.+.+.|.+||+|+|||.|..+|.|.+||+.+|+|..||||.|+|||.
T Consensus 303 gPF~qs~n~evkp~~C~~-----cqSkGpf~vn~e~TvyrnYQritiQEspg~v~~GrlPRsk~vILl~DLvD~~kpGdE 377 (854)
T KOG0477|consen 303 GPFVQSSNSEVKPGSCPE-----CQSKGPFEVNVEETVYRNYQRITIQESPGTVPAGRLPRSKEVILLADLVDSCKPGDE 377 (854)
T ss_pred CceeeccCceeCCCCCcc-----ccCCCCCccchhhhhhcccceeeeccCCCcCCCCccccchhheehhhhhhhcCCCcc
Confidence 444566777788999996 5554 5888888899999999999999999999999999999999999999999999
Q ss_pred EEEEEEEEeeecCCC--cCcccccceEEEEeeEEEccCccCCCCCCHHHHHHHHHHHHhhcCCCccchhhhhhccCCccc
Q 014661 240 VIVTGILTAKWSPDL--KDVRCDLDPVLIANHVRRTNELKSDIDIPDDIIMQFKQFWSEFKDTPLKGRNAILRGICPQVF 317 (420)
Q Consensus 240 V~v~GIl~~~~~~~~--~~~~~~~~~~i~a~~I~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~siaP~i~ 317 (420)
|.|||||...|.... +++.+.|.++++||||.+.+......++++|+ +++||+..++.+ +.++++.||||+||
T Consensus 378 ievTGIy~nn~d~sLN~kngFpvfatvi~ANhV~~k~~~~~~~~ltded---~k~i~~lskd~~--i~~rIiaSiaPsIy 452 (854)
T KOG0477|consen 378 IEVTGIYTNNFDGSLNTKNGFPVFATVIEANHVVKKDGKFDVDELTDED---FKEIWELSKDPP--IKERIIASIAPSIY 452 (854)
T ss_pred eEEeeeecccccccccccCCccccceeheehhhhhhccccchhHHhHHH---HHHHHHHhcCcc--HHHHHHHhhCchhh
Confidence 999999999987654 67888999999999998766533344556555 455565544455 56789999999999
Q ss_pred CCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCceeeEEeeC--
Q 014661 318 GLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTVTAVKDG-- 395 (420)
Q Consensus 318 G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~~r~~-- 395 (420)
||++||.|++|+||||++++...|.++||+||+||+|||||||||+|||+++++||+|+|||.|+|++||||++.||+
T Consensus 453 Gh~~VK~AvAlaLfGGv~kn~~~khkvRGDinvLL~GDPGTaKSQFLKY~eK~s~RAV~tTGqGASavGLTa~v~KdPvt 532 (854)
T KOG0477|consen 453 GHEDVKRAVALALFGGVPKNPGGKHKVRGDINVLLLGDPGTAKSQFLKYAEKTSPRAVFTTGQGASAVGLTAYVRKDPVT 532 (854)
T ss_pred chHHHHHHHHHHHhcCCccCCCCCceeccceeEEEecCCCccHHHHHHHHHhcCcceeEeccCCccccceeEEEeeCCcc
Confidence 999999999999999999999888999999999999999999999999999999999999999999999999999996
Q ss_pred CceeeccceeeecCCceEeeecccC
Q 014661 396 GEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 396 g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
+||+||||||||||+||||||||||
T Consensus 533 rEWTLEaGALVLADkGvClIDEFDK 557 (854)
T KOG0477|consen 533 REWTLEAGALVLADKGVCLIDEFDK 557 (854)
T ss_pred ceeeeccCeEEEccCceEEeehhhh
Confidence 9999999999999999999999998
No 6
>KOG0482 consensus DNA replication licensing factor, MCM7 component [Replication, recombination and repair]
Probab=100.00 E-value=1.8e-85 Score=639.33 Aligned_cols=396 Identities=30% Similarity=0.480 Sum_probs=317.5
Q ss_pred ChHHHHHHHHHHHHHH--------hHHHHHHhhcCCCCCCceeEEEechhhhccC--HHHHHHHHhChHHHHHHHHHHHH
Q 014661 5 NVPAHLKALAEFVIRH--------HSDQLRSITLSPDPKLHYPLYIDFAELLDED--PEIAHLVFSKPADYLRFFEDAAI 74 (420)
Q Consensus 5 ~~~~~i~~f~~Fl~~~--------y~~~i~~~~~~~~~~~~~sl~Id~~dL~~~~--p~La~~l~~~P~~~l~~~e~ai~ 74 (420)
+.+..-.+.+.||.+| |.+++.++... ...++.||++|+.+++ .+|...+..|...|..+|..|+.
T Consensus 9 D~~~dk~~~~~fl~e~~e~~~~~kY~~~L~eia~R----e~~ai~vdldDi~~~d~~~~l~~~i~~Na~ry~~lf~~~vd 84 (721)
T KOG0482|consen 9 DYAADKNKIKKFLDEFYEDNELGKYMNQLQEIANR----EQNAIEVDLDDIAEYDDATELVGAIESNARRYVELFSDAVD 84 (721)
T ss_pred hhhhhhHHHHHHHHhhhccCchhHHHHHHHHHhcc----cceeEEEehHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334445567777765 77788777653 4679999999999997 47999999999999999999998
Q ss_pred HHHHHHhhccc--hh-----------------hh---------hccceeEEEEEeecCCCCCCCCCCccccccccccccc
Q 014661 75 WAHKIVFDELK--SC-----------------EK---------RVEKKFIHVRINVSGSPLECPETFPSIGRVRVKHHGV 126 (420)
Q Consensus 75 ~~~~~~~~~~~--~~-----------------~~---------~~~~~~i~vri~~~~~p~~~p~~~~~~~~l~~~~igk 126 (420)
+.+.......+ +. +. ....+.+.+.|. |. -.....++|++++.|+|+
T Consensus 85 ellp~~~~~~~~~~d~lDv~~~qR~~~~~~~~p~~~~~~~~fP~~l~rryelyfk----~~-~~~kp~svR~vka~~iG~ 159 (721)
T KOG0482|consen 85 ELLPEPTGEIPYGDDVLDVYMEQRLMRNETRDPELEDKREQFPSELLRRYELYFK----PL-SNNKPYSVREVKADHIGS 159 (721)
T ss_pred HhcCCcccccccCccHHHHHHHHHHHhccccCccccchhhcCCHHHhhhheeeec----cc-ccCCccchhhhhhhhccc
Confidence 76543221100 00 00 000111222221 10 001346799999999999
Q ss_pred EEEEEEEEEEecceeEEEEEEEEEecCCCceeeeccccccccceecCCCCCCCCCCCCCCCc----eEEecceeeEeeee
Q 014661 127 LLTLKGTVIRSGATKMYEGERTYMCRKCKHMFPVYPELETRNSIVLPSHCPSQRSKPCEGTN----FQFVENSIICHDYQ 202 (420)
Q Consensus 127 LV~v~G~V~r~s~vk~~~~~~~f~C~~C~~~~~~~~~~~~~~~~~~P~~C~~~~~~~C~~~~----f~~~~~~s~~~d~Q 202 (420)
||+|+|+|+|+|+|||.+..++|.|..||.++ ++++. ...|.++..||+ +.|..++ +.+..--|+|+.||
T Consensus 160 LvtvrGIVTR~S~VKP~m~VatYtCd~CGaE~--yQeV~-s~~F~pl~~CpS---~eC~~n~~~G~L~lqtRgSKFikfQ 233 (721)
T KOG0482|consen 160 LVTVRGIVTRVSDVKPSMVVATYTCDQCGAET--YQEVN-SRTFTPLSECPS---EECRTNKAGGRLYLQTRGSKFIKFQ 233 (721)
T ss_pred eEEEEEEEEeccccccceEEEEEecccccHhh--hcccc-CccccchhhCCh---HHhhhcccCCeEEEEecccccchhh
Confidence 99999999999999999999999999999996 44453 456888899998 4564432 44444457999999
Q ss_pred EEEEeecccccCCCCcceEEEEEEecCccCceecCCeEEEEEEEEeeecCCCcCccc--ccceEEEEeeEEEccCccCCC
Q 014661 203 EIKIQESTQVLGVGVIPRSILVILKDDLVDIVKAGDDVIVTGILTAKWSPDLKDVRC--DLDPVLIANHVRRTNELKSDI 280 (420)
Q Consensus 203 ~IkiQE~~e~~~~g~~pr~i~v~L~~dLv~~~~pGd~V~v~GIl~~~~~~~~~~~~~--~~~~~i~a~~I~~~~~~~~~~ 280 (420)
++++||..+++|.|.+||+++|.++++++.+|+|||.|.|+||+.+.+..+++..+. .-++|++|+.|...++.+.+.
T Consensus 234 e~kmQEls~qVPvG~IPRsltv~~~ge~tr~~~PGDvV~vsGiFLP~pytGfr~~~aGLladtYLeAh~v~~~nk~~~~~ 313 (721)
T KOG0482|consen 234 EVKMQELSDQVPVGHIPRSLTVHVYGEMTRKCQPGDVVVVSGIFLPIPYTGFRALKAGLLADTYLEAHRVVQINKKYDNI 313 (721)
T ss_pred hhhHHHHhccCCCCccCceeEEEEecccceecCCCCEEEEeeeecccchhhHHHHHhhhHHHHHHHHhhhhhhccccccc
Confidence 999999999999999999999999999999999999999999999988766554332 348999999998777666555
Q ss_pred CCCHHHHHHHHHHHHhhcCCCccchhhhhhccCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchh
Q 014661 281 DIPDDIIMQFKQFWSEFKDTPLKGRNAILRGICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGK 360 (420)
Q Consensus 281 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~siaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gK 360 (420)
+.+.+...+..++.+ ..+ .|++|+.||||+||||++||||+||.|+||+.+...+|+++||||||||+||||++|
T Consensus 314 ~~~~~~~~~~~~~~~---~~d--~yekLa~SiAPEIyGheDVKKaLLLlLVGgvd~~~~dGMKIRGdINicLmGDPGVAK 388 (721)
T KOG0482|consen 314 EKTGELEPEELELIA---EGD--FYEKLAASIAPEIYGHEDVKKALLLLLVGGVDKSPGDGMKIRGDINICLMGDPGVAK 388 (721)
T ss_pred cccccccHHHHHHhh---ccc--HHHHHHHhhchhhccchHHHHHHHHHhhCCCCCCCCCCceeecceeEEecCCCchhH
Confidence 554443333222221 222 579999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHhccCCcEEEEeccccccCCceeeEEeeC--CceeeccceeeecCCceEeeecccC
Q 014661 361 SQFLKFAAKLSNRSVITTGLGSTSAGLTVTAVKDG--GEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 361 SqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~~r~~--g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
||||+++.+++|||+||||+|||++||||||.||+ ||.+||+|||||||+||||||||||
T Consensus 389 SQLLkyi~rlapRgvYTTGrGSSGVGLTAAVmkDpvTgEM~LEGGALVLAD~GICCIDEfDK 450 (721)
T KOG0482|consen 389 SQLLKYISRLAPRGVYTTGRGSSGVGLTAAVMKDPVTGEMVLEGGALVLADGGICCIDEFDK 450 (721)
T ss_pred HHHHHHHHhcCcccceecCCCCCccccchhhhcCCCCCeeEeccceEEEccCceEeehhhhh
Confidence 99999999999999999999999999999999998 9999999999999999999999998
No 7
>KOG0478 consensus DNA replication licensing factor, MCM4 component [Replication, recombination and repair]
Probab=100.00 E-value=3.9e-85 Score=657.09 Aligned_cols=384 Identities=31% Similarity=0.445 Sum_probs=327.4
Q ss_pred HHHHHHHHHHHHHH---------hHHHHHHhhcCCCCCCceeEEEechhhhccCHHHHHHHHhChHHHHHHHHHHHHHHH
Q 014661 7 PAHLKALAEFVIRH---------HSDQLRSITLSPDPKLHYPLYIDFAELLDEDPEIAHLVFSKPADYLRFFEDAAIWAH 77 (420)
Q Consensus 7 ~~~i~~f~~Fl~~~---------y~~~i~~~~~~~~~~~~~sl~Id~~dL~~~~p~La~~l~~~P~~~l~~~e~ai~~~~ 77 (420)
.+-.+.|.+||.+| |...+.++..- ....+.+|..||..++..|+..++.+|.++++.|+.+++++.
T Consensus 131 qe~~~~F~~fl~rf~~~d~~~~~yi~~l~e~~~~----~~~~ln~~~~hl~~~~~~Ly~ql~~ypqevip~~d~t~~~~~ 206 (804)
T KOG0478|consen 131 QECPENFDDFLRRFRGIDPLCPYYIKSLLELKEL----EPEFLNLDAEHLTDFDMDLYRQLVVYPQEVIPIFDETANEIV 206 (804)
T ss_pred HhhhhHHHHHHHhcCCCCccchHHHHHHHHHHHh----hhhhhhhhhhccccccHHHHHhhhhchHhhcccchHHHHHHH
Confidence 45567799999998 87777766432 233578899999999999999999999999999999998875
Q ss_pred HHHhhccchhhhhccceeEEEEEeecCCCCCCCCCCcccccccccccccEEEEEEEEEEecceeEEEEEEEEEecCCCce
Q 014661 78 KIVFDELKSCEKRVEKKFIHVRINVSGSPLECPETFPSIGRVRVKHHGVLLTLKGTVIRSGATKMYEGERTYMCRKCKHM 157 (420)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~i~vri~~~~~p~~~p~~~~~~~~l~~~~igkLV~v~G~V~r~s~vk~~~~~~~f~C~~C~~~ 157 (420)
...+. . ....+.++||-+ |+ ....++|+|++++|+|||+|+|+|+|+|++-|.++++.|+|..|++.
T Consensus 207 ~e~~~---~---~~~~~~i~vRPf------n~-~~~~smr~lNp~dIDkLisI~GmViRss~vipem~~afFrC~vC~~~ 273 (804)
T KOG0478|consen 207 LERYV---L---EILEKSIKVRPF------NA-GKTFSMRNLNPNDIDKLISISGMVIRSSEVIPEMVEAFFRCSVCGHE 273 (804)
T ss_pred Hhhcc---c---cchhceeEeecc------Cc-ccccccccCChhhhhheEEeeeEEEecCCCCHHHHhHhhhhhhcCce
Confidence 53221 1 123445677755 32 24568999999999999999999999999999999999999999999
Q ss_pred eeeccccccccceecCCCCCCCCCCCCCCCc-eEEecceeeEeeeeEEEEeecccccCCCCcceEEEEEEecCccCceec
Q 014661 158 FPVYPELETRNSIVLPSHCPSQRSKPCEGTN-FQFVENSIICHDYQEIKIQESTQVLGVGVIPRSILVILKDDLVDIVKA 236 (420)
Q Consensus 158 ~~~~~~~~~~~~~~~P~~C~~~~~~~C~~~~-f~~~~~~s~~~d~Q~IkiQE~~e~~~~g~~pr~i~v~L~~dLv~~~~p 236 (420)
..+.. ..+.+..|..|+ .|+.+. |.++++.|.|.|.|.||+||.|+.+|.|++|.++.|.+++||||+++|
T Consensus 274 ~~ve~---drg~i~eP~~C~-----~C~~~~~~~Lihnrs~F~dkQviklqEspd~~p~g~tPhtv~v~~~~dLVD~v~p 345 (804)
T KOG0478|consen 274 IAVES---DRGRIKEPMLCK-----ECGTTNSFQLLHNRSEFADKQVIKLQESPDDMPEGSTPHTVSVVLHNDLVDKVRP 345 (804)
T ss_pred EEEEe---ecCccCCCcccc-----cccCcccceeehhhhhhcccceeeeeeccccCcCCCCCceEEEEEehhhhhccCC
Confidence 87653 468899999996 587765 999999999999999999999999999999999999999999999999
Q ss_pred CCeEEEEEEEEeeecCCC---cCcccccceEEEEeeEEEccCccCC--------CCCCHHHHHHHHHHHHhhcCCCccch
Q 014661 237 GDDVIVTGILTAKWSPDL---KDVRCDLDPVLIANHVRRTNELKSD--------IDIPDDIIMQFKQFWSEFKDTPLKGR 305 (420)
Q Consensus 237 Gd~V~v~GIl~~~~~~~~---~~~~~~~~~~i~a~~I~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~ 305 (420)
||+|.|||||+..|-+.. +..++.|++|+.+.|+++.+..... .-++.++++.+.++.+ .| ++|
T Consensus 346 GDrv~VTGi~ra~p~r~np~~r~vkSvyktyldvvh~rk~s~~rl~~~d~~d~~~~~~~~~~e~i~elsk----rp-diy 420 (804)
T KOG0478|consen 346 GDRVEVTGILRATPVRVNPRMRMVKSVYKTYLDVVHIRKASMKRLEGSDERDVDEVRRIEDLEKIQELSK----RP-DIY 420 (804)
T ss_pred CCeEEEEEEEEeEEeccCcchhhHHHHHHHHhHhhhhhhhhhhhccccccccccccccHHHHHHHHHHhc----Cc-cHH
Confidence 999999999999887543 2345679999999999875542111 1123334455544432 34 489
Q ss_pred hhhhhccCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccC
Q 014661 306 NAILRGICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSA 385 (420)
Q Consensus 306 ~~l~~siaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~ 385 (420)
++|++||||+|||||++|+|+|||||||+.+....+.++||||||||||||||+|||||+||.+|+||++||||+|||++
T Consensus 421 ~lLa~SiAPsIye~edvKkglLLqLfGGt~k~~~~~~~~R~~INILL~GDPGtsKSqlLqyv~~l~pRg~yTSGkGsSav 500 (804)
T KOG0478|consen 421 ELLARSIAPSIYELEDVKKGLLLQLFGGTRKEDEKSGRFRGDINILLVGDPGTSKSQLLQYCHRLLPRGVYTSGKGSSAV 500 (804)
T ss_pred HHHHHhhchhhhcccchhhhHHHHHhcCCcccccccccccccceEEEecCCCcCHHHHHHHHHHhCCcceeecCCccchh
Confidence 99999999999999999999999999999998877779999999999999999999999999999999999999999999
Q ss_pred CceeeEEeeC--CceeeccceeeecCCceEeeecccC
Q 014661 386 GLTVTAVKDG--GEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 386 gLt~~~~r~~--g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
||||+|+||. ++|+||+|||||||+||||||||||
T Consensus 501 GLTayVtrd~dtkqlVLesGALVLSD~GiCCIDEFDK 537 (804)
T KOG0478|consen 501 GLTAYVTKDPDTRQLVLESGALVLSDNGICCIDEFDK 537 (804)
T ss_pred cceeeEEecCccceeeeecCcEEEcCCceEEchhhhh
Confidence 9999999976 8999999999999999999999998
No 8
>PTZ00111 DNA replication licensing factor MCM4; Provisional
Probab=100.00 E-value=4.7e-78 Score=637.07 Aligned_cols=393 Identities=25% Similarity=0.373 Sum_probs=325.1
Q ss_pred HHHH-HHHHHHHHHH-----------------------hHHHHHHhhcCC-------CCCCceeEEEechhhhccCHHHH
Q 014661 7 PAHL-KALAEFVIRH-----------------------HSDQLRSITLSP-------DPKLHYPLYIDFAELLDEDPEIA 55 (420)
Q Consensus 7 ~~~i-~~f~~Fl~~~-----------------------y~~~i~~~~~~~-------~~~~~~sl~Id~~dL~~~~p~La 55 (420)
.+.+ ++|.+||++| |..+|.+|+..+ ++ .+.+|.||+.||..|+|.|+
T Consensus 85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~-~~~sl~Vd~~~l~~fd~~L~ 163 (915)
T PTZ00111 85 LEELSERFTNFLKNFTEFSDVLEFKDEQQSKPEYTELYYLWKLMNFIKENLRDHSTGYS-RILPFEVDLMHVYSFDKVLY 163 (915)
T ss_pred HHHHHHHHHHHHHHhhhhccccccchhhhhhhhhhHHHHHHHHHHHHHHhhhccccccc-CCceEEEEHHHHHhhhHHHH
Confidence 3444 5588888875 677788777642 12 25699999999999999999
Q ss_pred HHHHhChHHHHHHHHHHHHHHHHHHhhcc-chhhhhccceeEEEEEeecCCCCCCCCCCcccccccccccccEEEEEEEE
Q 014661 56 HLVFSKPADYLRFFEDAAIWAHKIVFDEL-KSCEKRVEKKFIHVRINVSGSPLECPETFPSIGRVRVKHHGVLLTLKGTV 134 (420)
Q Consensus 56 ~~l~~~P~~~l~~~e~ai~~~~~~~~~~~-~~~~~~~~~~~i~vri~~~~~p~~~p~~~~~~~~l~~~~igkLV~v~G~V 134 (420)
.+|+++|.++++.|++|+.++....+... +..........++||++ |+| ...++|+|++.++||||+|+|+|
T Consensus 164 ~~l~~~P~e~i~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~~~vr~~------n~~-~~~~iR~L~s~~i~kLV~v~GiV 236 (915)
T PTZ00111 164 KLLVTFPADCIAELDKVLVKLFNELLSKHYSDLSLENNSFFPRARLM------NKP-VSDCVGNLEPSMADSLVQFSGTV 236 (915)
T ss_pred HHHHHCHHHHHHHHHHHHHHHHHHHhhcccccchhccccceEEEEEe------CCC-CCCCcccCCHhhCCCeEEEEEEE
Confidence 99999999999999999988765322211 11000011124788887 455 34679999999999999999999
Q ss_pred EEecceeEEEEEEEEEecC-----------CCceeeeccccccccceecCCCCCCCCCCCCCCC-ceEEecceeeEeeee
Q 014661 135 IRSGATKMYEGERTYMCRK-----------CKHMFPVYPELETRNSIVLPSHCPSQRSKPCEGT-NFQFVENSIICHDYQ 202 (420)
Q Consensus 135 ~r~s~vk~~~~~~~f~C~~-----------C~~~~~~~~~~~~~~~~~~P~~C~~~~~~~C~~~-~f~~~~~~s~~~d~Q 202 (420)
+|+|.|+|.+..++|+|.. |++..... ...+.+..|..|| .|+++ +|.++.+.|.|+|||
T Consensus 237 ~r~S~v~P~l~~a~f~C~~~~~~~~~~~~~C~~~~~~~---~~~g~~~~P~~C~-----~C~~~~~f~l~~~~s~f~D~Q 308 (915)
T PTZ00111 237 VRQTWIVPEITMACFRCRGQKKIGLNDYQPCTCEHYEY---VIQGEVNEPLLCN-----ECNSKYTFELNHNMCVYSTKK 308 (915)
T ss_pred EEccCcchhhEEEEEECCCCCcccCCccccCCcccccc---ccCCcccCCCCCC-----CCCCCCCeEEccCccEEEeee
Confidence 9999999999999999986 76553322 1346788899997 49876 599999999999999
Q ss_pred EEEEeecccccCCCCcc--------------------eEEEEEEecCccCceecCCeEEEEEEEEeeecCCC---cCccc
Q 014661 203 EIKIQESTQVLGVGVIP--------------------RSILVILKDDLVDIVKAGDDVIVTGILTAKWSPDL---KDVRC 259 (420)
Q Consensus 203 ~IkiQE~~e~~~~g~~p--------------------r~i~v~L~~dLv~~~~pGd~V~v~GIl~~~~~~~~---~~~~~ 259 (420)
+|+|||.|+.+|.|++| |+++|+|++||||.|+|||+|+||||++..+.+.. +...+
T Consensus 309 ~IklQE~pe~vp~G~~P~~~~~~~~~~~~~~~~~~~~rsi~v~l~dDLVD~v~PGDrV~VtGIl~~~~~~~~~~~~~~~~ 388 (915)
T PTZ00111 309 IVKLLQSNSSLNNPDKDGLDNSVDNSGLNGEIYMKDNEVINLNLYDDLIDSVKTGDRVTVVGILKVTPIRTSTTRRTLKS 388 (915)
T ss_pred EEEEeeCcccCCCCCCCccccccccccccccccccCCceEEEEEecchhccCCCCCEEEEEEEEEecccccccccccccc
Confidence 99999999999999999 99999999999999999999999999998764322 22345
Q ss_pred ccceEEEEeeEEEccCcc------------CCCCCCHHHHHHHHHHHHhhcCCCccchhhhhhccCCcccCCHHHHHHHH
Q 014661 260 DLDPVLIANHVRRTNELK------------SDIDIPDDIIMQFKQFWSEFKDTPLKGRNAILRGICPQVFGLFTVKLAVA 327 (420)
Q Consensus 260 ~~~~~i~a~~I~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~siaP~i~G~~~~K~ail 327 (420)
.|++|+.|++|+..+... .+.++++++++.|+++++ +| +++++|++||||+||||+++|+||+
T Consensus 389 ~~~~yl~~~~i~~~~~~~~~~~~~~~~~~~~~~~~t~ed~~~I~~ls~----~p-~i~~~L~~SiaP~I~G~e~vK~ail 463 (915)
T PTZ00111 389 LYTYFVNVIHVKVINSTNANQPEKGLKYLGNENDFSDLQVYKILELSR----NP-MIYRILLDSFAPSIKARNNVKIGLL 463 (915)
T ss_pred ccceEEEEEEEEEeccccccccccccccccccccCCHHHHHHHHHHhc----CH-HHHHHHHHHhCCeEECCHHHHHHHH
Confidence 789999999998653211 234689999998887754 34 4789999999999999999999999
Q ss_pred HHHhcCceeeC-----CCC----CcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCceeeEE-eeC--
Q 014661 328 LTLIGGVQHVD-----ASG----TKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTVTAV-KDG-- 395 (420)
Q Consensus 328 L~L~gg~~~~~-----~~g----~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~~-r~~-- 395 (420)
|+||||+.+.. ++| +++||++||||+|||||||||||+++++++||++||+|++++++||||++. ++.
T Consensus 464 L~L~gG~~k~~~~~~~~dg~~~~~~iRgdihVLLvGDPGTGKSqLAr~Ih~lspR~~ytsG~~~s~vgLTa~~~~~d~~t 543 (915)
T PTZ00111 464 CQLFSGNKNSSDFNKSPDACYKVDNFRGIINVLLCGDPGTAKSQLLHYTHLLSPRSIYTSGKSSSSVGLTASIKFNESDN 543 (915)
T ss_pred HHHhcCCccccccccccccccccccccCCceEEEeCCCCccHHHHHHHHHHhCCccccCCCCCCccccccchhhhccccc
Confidence 99999997643 344 789999999999999999999999999999999999999999999999987 543
Q ss_pred CceeeccceeeecCCceEeeecccC
Q 014661 396 GEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 396 g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
|+|.+++|||++||+|+||||||||
T Consensus 544 G~~~le~GaLvlAdgGtL~IDEidk 568 (915)
T PTZ00111 544 GRAMIQPGAVVLANGGVCCIDELDK 568 (915)
T ss_pred CcccccCCcEEEcCCCeEEecchhh
Confidence 8999999999999999999999996
No 9
>smart00350 MCM minichromosome maintenance proteins.
Probab=100.00 E-value=7.1e-67 Score=540.91 Aligned_cols=296 Identities=36% Similarity=0.600 Sum_probs=262.7
Q ss_pred cccccccccccccEEEEEEEEEEecceeEEEEEEEEEecCCCceeeeccccccccceecCCCCCCCCCCCCCCCc-eEEe
Q 014661 114 PSIGRVRVKHHGVLLTLKGTVIRSGATKMYEGERTYMCRKCKHMFPVYPELETRNSIVLPSHCPSQRSKPCEGTN-FQFV 192 (420)
Q Consensus 114 ~~~~~l~~~~igkLV~v~G~V~r~s~vk~~~~~~~f~C~~C~~~~~~~~~~~~~~~~~~P~~C~~~~~~~C~~~~-f~~~ 192 (420)
.++|+|++.++||||+|+|+|+|+|.|+|++.+++|+|.+||+.+.+.. ..+.+..|..||+ ..|++++ |.++
T Consensus 3 ~~~r~l~s~~igklV~v~GiV~r~s~v~p~~~~~~f~C~~C~~~~~~~~---~~~~~~~p~~C~~---~~C~~~~~f~l~ 76 (509)
T smart00350 3 SSIRELRADHLGKLVRVSGIVTRTSGVRPKLKRASFTCEKCGATLGPEI---QSGRETEPTVCPP---RECQSPTPFSLN 76 (509)
T ss_pred CCcccCCHhHCCCEEEEEEEEEEccCceEEEEEEEEEecCCCCEEeEEe---cCCcccCCCcCCC---CcCCCCCceEec
Confidence 4579999999999999999999999999999999999999999876543 3467889999985 3598764 8999
Q ss_pred cceeeEeeeeEEEEeecccccCCCCcceEEEEEEecCccCceecCCeEEEEEEEEee-ecCCC--cCcccccceEEEEee
Q 014661 193 ENSIICHDYQEIKIQESTQVLGVGVIPRSILVILKDDLVDIVKAGDDVIVTGILTAK-WSPDL--KDVRCDLDPVLIANH 269 (420)
Q Consensus 193 ~~~s~~~d~Q~IkiQE~~e~~~~g~~pr~i~v~L~~dLv~~~~pGd~V~v~GIl~~~-~~~~~--~~~~~~~~~~i~a~~ 269 (420)
.+.|.|+|||+|+|||.|+++|.|++||+++|+|++||||+|+|||+|.|+|||+.+ |.... .+..+.+++|++|++
T Consensus 77 ~~~s~~~D~Q~I~iQE~~e~~p~G~~Prsi~v~l~~dLvd~~~PGD~V~i~Gi~~~~~~~~~~~~~~~~~~~~~~l~a~~ 156 (509)
T smart00350 77 HERSTFIDFQKIKLQESPEEVPAGQLPRSVDVILDGDLVDKAKPGDRVEVTGIYRNIPYGFKLNTVKGLPVFATYIEANH 156 (509)
T ss_pred cCCCeEEEEEEEEEEcCcccCCCCCCCcEEEEEEcccccCcccCCCEEEEEEEEEeeccccccccCCCcceeeEEEEEeE
Confidence 999999999999999999999999999999999999999999999999999999987 33222 222345789999999
Q ss_pred EEEccCc--cCC-----CCCCHHHHHHHHHHHHhhcCCCccchhhhhhccCCcccCCHHHHHHHHHHHhcCceeeCCCCC
Q 014661 270 VRRTNEL--KSD-----IDIPDDIIMQFKQFWSEFKDTPLKGRNAILRGICPQVFGLFTVKLAVALTLIGGVQHVDASGT 342 (420)
Q Consensus 270 I~~~~~~--~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~siaP~i~G~~~~K~ailL~L~gg~~~~~~~g~ 342 (420)
|+..+.. +.+ ..+++++++.|+++++ +| ++++.|++||||+||||+.+|+|++|+|+||+.+...+|+
T Consensus 157 i~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~----~~-~~~~~l~~si~p~i~G~~~~k~~l~l~l~gg~~~~~~~~~ 231 (509)
T smart00350 157 VRKLDYKRSFEDCSFSVQSLSDEEEEEIRKLSK----DP-DIYERLSRSLAPSIYGHEDIKKAILLLLFGGVHKNLPDGM 231 (509)
T ss_pred EEEccccccccccccccccCCHHHHHHHHHHhc----CH-HHHHHHHHhhCccccCcHHHHHHHHHHHhCCCccccCCCc
Confidence 9976431 111 3588888888887764 33 3689999999999999999999999999999999888999
Q ss_pred cccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCceeeEEeeC--CceeeccceeeecCCceEeeecccC
Q 014661 343 KVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTVTAVKDG--GEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 343 ~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~~r~~--g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
++||++||||+||||||||+|+|++++++||++|++|++++.+|||+++.++. |+|.+++|++++||+|+|||||||+
T Consensus 232 ~~r~~~~vLL~G~pGtGKs~lar~l~~~~~r~~~~~~~~~~~~~l~~~~~~~~~~g~~~~~~G~l~~A~~Gil~iDEi~~ 311 (509)
T smart00350 232 KIRGDINILLLGDPGTAKSQLLKYVEKTAPRAVYTTGKGSSAVGLTAAVTRDPETREFTLEGGALVLADNGVCCIDEFDK 311 (509)
T ss_pred cccccceEEEeCCCChhHHHHHHHHHHHcCcceEcCCCCCCcCCccccceEccCcceEEecCccEEecCCCEEEEechhh
Confidence 99999999999999999999999999999999999999999999999999985 8999999999999999999999986
No 10
>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite.; InterPro: IPR001208 MCM proteins are DNA-dependent ATPases required for the initiation of eukaryotic DNA replication [, , ]. In eukaryotes there is a family of six proteins, MCM2 to MCM7. They were first identified in yeast where most of them have a direct role in the initiation of chromosomal DNA replication by interacting directly with autonomously replicating sequences (ARS). They were thus called minichromosome maintenance proteins, MCM proteins []. This family is also present in the archebacteria in 1 to 4 copies. Methanocaldococcus jannaschii (Methanococcus jannaschii) has four members, MJ0363, MJ0961, MJ1489 and MJECL13. The "MCM motif" contains Walker-A and Walker-B type nucleotide binding motifs. The diagnostic sequence defining the MCMs is IDEFDKM. Only Mcm2 (aka Cdc19 or Nda1) has been subjected to mutational analysis in this region, and most mutations abolish its activity []. The presence of a putative ATP-binding domain implies that these proteins may be involved in an ATP-consuming step in the initiation of DNA replication in eukaryotes. The MCM proteins bind together in a large complex []. Within this complex, individual subunits associate with different affinities, and there is a tightly associated core of Mcm4 (Cdc21), Mcm6 (Mis5) and Mcm7 []. This core complex in human MCMs has been associated with helicase activity in vitro [], leading to the suggestion that the MCM proteins are the eukaryotic replicative helicase. Schizosaccharomyces pombe (Fission yeast) MCMs, like those in metazoans, are found in the nucleus throughout the cell cycle. This is in contrast to the Saccharomyces cerevisiae (Baker's yeast) in which MCM proteins move in and out of the nucleus during each cell cycle. The assembly of the MCM complex in S. pombe is required for MCM localisation, ensuring that only intact MCM complexes remain in the nucleus [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 3F8T_A 3F9V_A.
Probab=100.00 E-value=2.1e-43 Score=347.11 Aligned_cols=121 Identities=56% Similarity=0.989 Sum_probs=106.3
Q ss_pred CCCccchhhhhhccCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEe
Q 014661 299 DTPLKGRNAILRGICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITT 378 (420)
Q Consensus 299 ~~~~~~~~~l~~siaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~ 378 (420)
++| +.+++|++||||+|||++.+|+||||+||||+.+..++|++.||+|||||||||||||||||+|+++++||++|++
T Consensus 10 ~~~-~~~~~l~~s~aP~i~g~~~iK~aill~L~~~~~~~~~~~~~~r~~ihiLlvGdpg~gKS~ll~~~~~~~pr~v~~~ 88 (331)
T PF00493_consen 10 KKP-NIFDRLANSIAPSIYGHEDIKKAILLQLFGGVEKNDPDGTRIRGNIHILLVGDPGTGKSQLLKYVAKLAPRSVYTS 88 (331)
T ss_dssp CTT-THHHCCHHHCSSTTTT-HHHHHHHCCCCTT--SCCCCT-TEE--S--EEEECSCHHCHHHHHHCCCCT-SSEEEEE
T ss_pred cCC-cHHHHHHHHhCCcCcCcHHHHHHHHHHHHhccccccccccccccccceeeccchhhhHHHHHHHHHhhCCceEEEC
Confidence 344 4789999999999999999999999999999999988999999999999999999999999999999999999999
Q ss_pred ccccccCCceeeEEeeC--CceeeccceeeecCCceEeeecccC
Q 014661 379 GLGSTSAGLTVTAVKDG--GEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 379 G~~ss~~gLt~~~~r~~--g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
|+++|++||||++.||+ |+|++|||||||||+||||||||||
T Consensus 89 g~~~s~~gLta~~~~d~~~~~~~leaGalvlad~GiccIDe~dk 132 (331)
T PF00493_consen 89 GKGSSAAGLTASVSRDPVTGEWVLEAGALVLADGGICCIDEFDK 132 (331)
T ss_dssp CCGSTCCCCCEEECCCGGTSSECEEE-HHHHCTTSEEEECTTTT
T ss_pred CCCcccCCccceeccccccceeEEeCCchhcccCceeeeccccc
Confidence 99999999999999985 8999999999999999999999997
No 11
>PF14551 MCM_N: MCM N-terminal domain; PDB: 2VL6_C 3F9V_A 1LTL_E.
Probab=99.63 E-value=2.1e-16 Score=132.99 Aligned_cols=111 Identities=30% Similarity=0.444 Sum_probs=82.7
Q ss_pred HHHHHHHHHH-----hHHHHHHhhcCCCCCCceeEEEechhhhccCHHHHHHHHhChHHHHHHHHHHHHHHHHHHhhc--
Q 014661 11 KALAEFVIRH-----HSDQLRSITLSPDPKLHYPLYIDFAELLDEDPEIAHLVFSKPADYLRFFEDAAIWAHKIVFDE-- 83 (420)
Q Consensus 11 ~~f~~Fl~~~-----y~~~i~~~~~~~~~~~~~sl~Id~~dL~~~~p~La~~l~~~P~~~l~~~e~ai~~~~~~~~~~-- 83 (420)
++|.+||++| |.++|++++.. .+.+|.|||+||.+|+|.||.+|+++|.+++++|++|+++++......
T Consensus 3 ~~F~~Fl~~f~~~~~Y~~~l~~~~~~----~~~~l~Vd~~dL~~f~~~L~~~l~~~P~~~l~~~~~a~~~~~~~~~~~~~ 78 (121)
T PF14551_consen 3 RRFREFLREFKEEPKYMDQLREMIQR----NKKSLYVDLDDLREFDPDLAEALIENPYRYLPLFEEALKEVVKELFPSEQ 78 (121)
T ss_dssp HHHHHHCCCH-TS-CCHHHHHHHHHH----T-SCEEEEHHHHHHH-HHHHHHHHHCCCCCHHHHHHHHHHCHHTT-----
T ss_pred HHHHHHHHcCCCchHHHHHHHHHHHc----CCCEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Confidence 5699999986 99999999875 478999999999999999999999999999999999999887632110
Q ss_pred -cchhhhhccceeEEEEEeecCCCCCCCCCCcccccccccccccEEEEEE
Q 014661 84 -LKSCEKRVEKKFIHVRINVSGSPLECPETFPSIGRVRVKHHGVLLTLKG 132 (420)
Q Consensus 84 -~~~~~~~~~~~~i~vri~~~~~p~~~p~~~~~~~~l~~~~igkLV~v~G 132 (420)
..........+.++|++. +.| ...++|+|++.++||||+|+|
T Consensus 79 ~~~~~~~~~~~~~~~v~~~------~~~-~~~~iR~L~s~~igkLV~v~G 121 (121)
T PF14551_consen 79 QSSFPPELKRRKEIQVRFY------NLP-KSTSIRELRSSHIGKLVSVSG 121 (121)
T ss_dssp -----GCCTTTS--EEEEE------S-S--EE-GGG-SGGGTTSEEEEEE
T ss_pred ccCCchhhccceeEEEEEc------CCC-CCcCcCCCChHHCCCEEEEeC
Confidence 000111223467889988 344 467899999999999999998
No 12
>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.
Probab=99.03 E-value=3.6e-10 Score=102.65 Aligned_cols=92 Identities=29% Similarity=0.443 Sum_probs=62.7
Q ss_pred CcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEec----cccccCCce-
Q 014661 314 PQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTG----LGSTSAGLT- 388 (420)
Q Consensus 314 P~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G----~~ss~~gLt- 388 (420)
..|.|++.+|+|+.++..|| -|+||+|.||||||.+.+....|.|.--.... +--|.+|+.
T Consensus 3 ~dI~GQe~aKrAL~iAAaG~--------------h~lLl~GppGtGKTmlA~~l~~lLP~l~~~e~le~~~i~s~~~~~~ 68 (206)
T PF01078_consen 3 SDIVGQEEAKRALEIAAAGG--------------HHLLLIGPPGTGKTMLARRLPSLLPPLTEEEALEVSKIYSVAGLGP 68 (206)
T ss_dssp CCSSSTHHHHHHHHHHHHCC----------------EEEES-CCCTHHHHHHHHHHCS--CCEECCESS--S-TT---S-
T ss_pred hhhcCcHHHHHHHHHHHcCC--------------CCeEEECCCCCCHHHHHHHHHHhCCCCchHHHhhhccccccccCCC
Confidence 46899999999999999985 19999999999999999999999995422111 111233311
Q ss_pred -eeEE-----e--------e---CCceeeccceeeecCCceEeeeccc
Q 014661 389 -VTAV-----K--------D---GGEWMLEAGALVLADGGLCCIDEFD 419 (420)
Q Consensus 389 -~~~~-----r--------~---~g~~~leaGalvlad~Gv~ciDe~d 419 (420)
.... | . +|.-..++|.+-||++||+.+||+.
T Consensus 69 ~~~~~~~~Pfr~phhs~s~~~liGgg~~~~PGeislAh~GVLflDE~~ 116 (206)
T PF01078_consen 69 DEGLIRQRPFRAPHHSASEAALIGGGRPPRPGEISLAHRGVLFLDELN 116 (206)
T ss_dssp --EEEE---EEEE-TT--HHHHHEEGGGEEE-CGGGGTTSEEEECETT
T ss_pred CCceecCCCcccCCCCcCHHHHhCCCcCCCcCHHHHhcCCEEEechhh
Confidence 1111 1 1 1455889999999999999999985
No 13
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=98.83 E-value=5.4e-09 Score=102.77 Aligned_cols=93 Identities=32% Similarity=0.396 Sum_probs=67.9
Q ss_pred cccCCHHHHHHHHHHHhc-CceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEecc-------------
Q 014661 315 QVFGLFTVKLAVALTLIG-GVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGL------------- 380 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~g-g~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~------------- 380 (420)
.|.|++.+|++++++++. |. =|+||.|.||||||.+.|..+++.|.--...|-
T Consensus 9 ~i~Gq~~~~~~l~~~~~~~~~-------------~~vLl~G~pG~gKT~lar~la~llP~~~~~e~~~~~~~~~~~~~~~ 75 (334)
T PRK13407 9 AIVGQEEMKQAMVLTAIDPGI-------------GGVLVFGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARPEDCPEW 75 (334)
T ss_pred HhCCHHHHHHHHHHHHhccCC-------------CcEEEEcCCCCCHHHHHHHHHHHCCCcchhcccccccCcccCCccc
Confidence 577999999999998873 20 189999999999999999999999852111111
Q ss_pred --------------------ccccCCceeeEEee----CCceeeccceeeecCCceEeeecccC
Q 014661 381 --------------------GSTSAGLTVTAVKD----GGEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 381 --------------------~ss~~gLt~~~~r~----~g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
++|...|+.++.-+ .|++.+++|.+..||+|+++|||++.
T Consensus 76 ~~~~~~~~~~~~~p~~~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~l~~A~~GiL~lDEInr 139 (334)
T PRK13407 76 AHVSSTTMIERPTPVVDLPLGVTEDRVVGALDIERALTRGEKAFEPGLLARANRGYLYIDEVNL 139 (334)
T ss_pred ccccCCcccccCCccccCCCCCCcceeecchhhhhhhhcCCeeecCCceEEcCCCeEEecChHh
Confidence 01112233322211 38899999999999999999999873
No 14
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=98.81 E-value=3.8e-09 Score=109.26 Aligned_cols=92 Identities=28% Similarity=0.391 Sum_probs=68.7
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcE----EEEeccccccCCcee-
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRS----VITTGLGSTSAGLTV- 389 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~----v~~~G~~ss~~gLt~- 389 (420)
.|+|++.+|+++-+++.|| -|+||+|+||+|||.|++....+.|.. .+-.....+.+|+..
T Consensus 193 dv~Gq~~~~~al~~aa~~g--------------~~vlliG~pGsGKTtlar~l~~llp~~~~~~~le~~~i~s~~g~~~~ 258 (499)
T TIGR00368 193 DIKGQQHAKRALEIAAAGG--------------HNLLLFGPPGSGKTMLASRLQGILPPLTNEEAIETARIWSLVGKLID 258 (499)
T ss_pred HhcCcHHHHhhhhhhccCC--------------CEEEEEecCCCCHHHHHHHHhcccCCCCCcEEEeccccccchhhhcc
Confidence 5789999999999988765 289999999999999999999988753 111222223444432
Q ss_pred --------------eEEee---CCceeeccceeeecCCceEeeecccC
Q 014661 390 --------------TAVKD---GGEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 390 --------------~~~r~---~g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
+.... +|.+...+|++.+|++|++||||+++
T Consensus 259 ~~~~~~~Pf~~p~~s~s~~~~~ggg~~~~pG~i~lA~~GvLfLDEi~e 306 (499)
T TIGR00368 259 RKQIKQRPFRSPHHSASKPALVGGGPIPLPGEISLAHNGVLFLDELPE 306 (499)
T ss_pred ccccccCCccccccccchhhhhCCccccchhhhhccCCCeEecCChhh
Confidence 11111 26678999999999999999999974
No 15
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=98.81 E-value=6.4e-09 Score=102.42 Aligned_cols=94 Identities=31% Similarity=0.384 Sum_probs=69.2
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEecc--------------
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGL-------------- 380 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~-------------- 380 (420)
.|.|++.+|+|+++.++... .| |+||.|+||+|||+|+|..+.+.|..--.-+.
T Consensus 5 ~ivgq~~~~~al~~~~~~~~----------~g--~vli~G~~G~gKttl~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 72 (337)
T TIGR02030 5 AIVGQDEMKLALLLNVIDPK----------IG--GVMVMGDRGTGKSTAVRALAALLPEIKAVAGCPFNSSPSDPEMMCE 72 (337)
T ss_pred ccccHHHHHHHHHHHhcCCC----------CC--eEEEEcCCCCCHHHHHHHHHHhhcccccccCCCCCCCCCCccccCh
Confidence 68899999999999999631 11 89999999999999999999998742111000
Q ss_pred --------------------------ccccCCceeeEEe----eCCceeeccceeeecCCceEeeecccC
Q 014661 381 --------------------------GSTSAGLTVTAVK----DGGEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 381 --------------------------~ss~~gLt~~~~r----~~g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
|+|.-.|+.+..= ..|+|.+++|.+..||+|+++|||++.
T Consensus 73 ~~r~~~~~~~~~~~~~~~~~~~~lP~~~t~d~l~G~~d~~~~l~~g~~~~~~GlL~~A~~GvL~lDEi~~ 142 (337)
T TIGR02030 73 EVRIRVDSQEPLSIIKKPVPVVDLPLGATEDRVCGTLDIERALTEGVKAFEPGLLARANRGILYIDEVNL 142 (337)
T ss_pred HHhhhhhcccccccccCCCCcCCCCCCCcccceecchhHhhHhhcCCEEeecCcceeccCCEEEecChHh
Confidence 1111123333321 138999999999999999999999863
No 16
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=98.72 E-value=1.7e-08 Score=108.03 Aligned_cols=95 Identities=27% Similarity=0.324 Sum_probs=69.2
Q ss_pred CcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEE------------------
Q 014661 314 PQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSV------------------ 375 (420)
Q Consensus 314 P~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v------------------ 375 (420)
+.|.|++.+|+|+++.++.+. . | ||||.|.||||||.|++.+++++|.--
T Consensus 4 ~~ivGq~~~~~al~~~av~~~---------~-g--~vli~G~~GtgKs~lar~l~~~lp~~~~~~~~~~~c~p~~~~~~~ 71 (633)
T TIGR02442 4 TAIVGQEDLKLALLLNAVDPR---------I-G--GVLIRGEKGTAKSTAARGLAALLPPIDVVAGCPFSCDPDDPEEWC 71 (633)
T ss_pred chhcChHHHHHHHHHHhhCCC---------C-C--eEEEEcCCCCcHHHHHHHHHHhCCCceeccCCcCCCCCCCccccC
Confidence 478999999999999999741 1 1 699999999999999999999997211
Q ss_pred ----------------EEe-ccccccCCceeeEEe----eCCceeeccceeeecCCceEeeecccC
Q 014661 376 ----------------ITT-GLGSTSAGLTVTAVK----DGGEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 376 ----------------~~~-G~~ss~~gLt~~~~r----~~g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
|+. --+.|...|..++.- ..|++.+++|.|..|++||++|||+++
T Consensus 72 ~~~~~~~~~~~~~~~pfv~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~L~~A~~GiL~lDEi~~ 137 (633)
T TIGR02442 72 EECRRKYRPSEQRPVPFVNLPLGATEDRVVGSLDIERALREGEKAFQPGLLAEAHRGILYIDEVNL 137 (633)
T ss_pred hhhhhcccccccCCCCeeeCCCCCcHHHcCCcccHHHHhhcCCeeecCcceeecCCCeEEeChhhh
Confidence 110 011222222222210 137899999999999999999999874
No 17
>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.
Probab=98.70 E-value=1.7e-08 Score=106.78 Aligned_cols=89 Identities=24% Similarity=0.258 Sum_probs=68.1
Q ss_pred HHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEE-EEec-cccccCCceeeEE----e
Q 014661 320 FTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSV-ITTG-LGSTSAGLTVTAV----K 393 (420)
Q Consensus 320 ~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v-~~~G-~~ss~~gLt~~~~----r 393 (420)
+.+|+|++|..+...- | ||||.|+||||||+|++++++++|+.. |+.- .+.|...|...+. -
T Consensus 1 ~~~~~Al~l~av~p~~-----g-------~vLl~G~~GtgKs~lar~l~~~~~~~~pfv~i~~~~t~d~L~G~idl~~~~ 68 (589)
T TIGR02031 1 ERAKLALTLLAVDPSL-----G-------GVAIRARAGTGKTALARALAEILPPIMPFVELPLGVTEDRLIGGIDVEESL 68 (589)
T ss_pred ChHHHHHHHhccCCCc-----c-------eEEEEcCCCcHHHHHHHHHHHhCCcCCCeEecCcccchhhcccchhhhhhh
Confidence 4689999999997531 1 899999999999999999999999852 3322 2344444544432 1
Q ss_pred eCCceeeccceeeecCCceEeeecccC
Q 014661 394 DGGEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 394 ~~g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
..|.|.+++|.|..||+|+++|||++.
T Consensus 69 ~~g~~~~~~G~L~~A~~GvL~lDEi~r 95 (589)
T TIGR02031 69 AGGQRVTQPGLLDEAPRGVLYVDMANL 95 (589)
T ss_pred hcCcccCCCCCeeeCCCCcEeccchhh
Confidence 238899999999999999999999873
No 18
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=98.67 E-value=1.7e-08 Score=99.59 Aligned_cols=93 Identities=29% Similarity=0.417 Sum_probs=67.5
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEecc--------------
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGL-------------- 380 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~-------------- 380 (420)
.|.|++.+|+|++++++.- ++ | ++||.|++|||||.++|.+.+++|..-.+.+.
T Consensus 18 ~ivGq~~~k~al~~~~~~p---------~~-~--~vli~G~~GtGKs~~ar~~~~~l~~~~~~~~~pf~~~p~~p~~~~~ 85 (350)
T CHL00081 18 AIVGQEEMKLALILNVIDP---------KI-G--GVMIMGDRGTGKSTTIRALVDLLPEIEVVKDDPFNSHPSDPELMSD 85 (350)
T ss_pred HHhChHHHHHHHHHhccCC---------CC-C--eEEEEcCCCCCHHHHHHHHHHHHhhcCccCCCCCCCCCCChhhhch
Confidence 5789999999999999972 11 1 69999999999999999999999864433221
Q ss_pred --------------------------ccccCCceeeEE----eeCCceeeccceeeecCCceEeeeccc
Q 014661 381 --------------------------GSTSAGLTVTAV----KDGGEWMLEAGALVLADGGLCCIDEFD 419 (420)
Q Consensus 381 --------------------------~ss~~gLt~~~~----r~~g~~~leaGalvlad~Gv~ciDe~d 419 (420)
|.|..-|..++. =.+|.+.+++|.+..||+|+++|||++
T Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~~lp~~~ted~l~G~iD~~~al~~g~~~~~~GlL~~A~~GiL~lDEIn 154 (350)
T CHL00081 86 EVREAIQNGETIETEKIKIPMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKANRGILYVDEVN 154 (350)
T ss_pred hhhhhhcccccccceeccccceecCCCCchhhccCcccHHHHhhcCcccccCCeeeecCCCEEEecChH
Confidence 001110111110 013678899999999999999999986
No 19
>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=98.67 E-value=2.1e-08 Score=100.46 Aligned_cols=89 Identities=31% Similarity=0.399 Sum_probs=66.3
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcE-----EEEeccccccCCcee
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRS-----VITTGLGSTSAGLTV 389 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~-----v~~~G~~ss~~gLt~ 389 (420)
+|.|++..|+|+..+-.|| -|+|++|.||||||-|.+....|.|.- +.++- --|-+|...
T Consensus 180 DV~GQ~~AKrAleiAAAGg--------------HnLl~~GpPGtGKTmla~Rl~~lLPpls~~E~lE~s~-I~s~~g~~~ 244 (490)
T COG0606 180 DVKGQEQAKRALEIAAAGG--------------HNLLLVGPPGTGKTMLASRLPGLLPPLSIPEALEVSA-IHSLAGDLH 244 (490)
T ss_pred hhcCcHHHHHHHHHHHhcC--------------CcEEEecCCCCchHHhhhhhcccCCCCChHHHHHHHH-Hhhhccccc
Confidence 4679999999999999997 289999999999999999999999842 22221 111122110
Q ss_pred ----------------eEEee---CCceeeccceeeecCCceEeeecc
Q 014661 390 ----------------TAVKD---GGEWMLEAGALVLADGGLCCIDEF 418 (420)
Q Consensus 390 ----------------~~~r~---~g~~~leaGalvlad~Gv~ciDe~ 418 (420)
+++.. +|.-.-++|...||++||.++||+
T Consensus 245 ~~~~~~~~rPFr~PHHsaS~~aLvGGG~~p~PGeIsLAH~GVLFLDEl 292 (490)
T COG0606 245 EGCPLKIHRPFRAPHHSASLAALVGGGGVPRPGEISLAHNGVLFLDEL 292 (490)
T ss_pred ccCccceeCCccCCCccchHHHHhCCCCCCCCCceeeecCCEEEeecc
Confidence 11111 255778999999999999999997
No 20
>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=98.59 E-value=2.2e-08 Score=86.02 Aligned_cols=72 Identities=36% Similarity=0.555 Sum_probs=53.6
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEE-Eeccc-cccCCceeeEEeeCCceeeccceeeec--CCceEeeecccC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVI-TTGLG-STSAGLTVTAVKDGGEWMLEAGALVLA--DGGLCCIDEFDR 420 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~-~~G~~-ss~~gLt~~~~r~~g~~~leaGalvla--d~Gv~ciDe~dK 420 (420)
||||+|+||+|||+|++++++.....++ +++.. ++...|...+.-+.+....+.|.++.| .+++++|||+++
T Consensus 1 ~vlL~G~~G~GKt~l~~~la~~~~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~~~~il~lDEin~ 76 (139)
T PF07728_consen 1 PVLLVGPPGTGKTTLARELAALLGRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMRKGGILVLDEINR 76 (139)
T ss_dssp EEEEEESSSSSHHHHHHHHHHHHTCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHHEEEEEEESSCGG
T ss_pred CEEEECCCCCCHHHHHHHHHHHhhcceEEEEeccccccccceeeeeecccccccccccccccccceeEEEECCccc
Confidence 6999999999999999999999987664 34443 444556655544456666778888855 799999999985
No 21
>PRK09862 putative ATP-dependent protease; Provisional
Probab=98.51 E-value=7e-08 Score=99.61 Aligned_cols=92 Identities=27% Similarity=0.388 Sum_probs=66.5
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEE-----EE------eccccc
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSV-----IT------TGLGST 383 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v-----~~------~G~~ss 383 (420)
.++|+..+|+++-++..|| -|++|+|+||+|||.|++.+..+.|..- -+ .|....
T Consensus 192 ~v~Gq~~~~~al~laa~~G--------------~~llliG~~GsGKTtLak~L~gllpp~~g~e~le~~~i~s~~g~~~~ 257 (506)
T PRK09862 192 DVIGQEQGKRGLEITAAGG--------------HNLLLIGPPGTGKTMLASRINGLLPDLSNEEALESAAILSLVNAESV 257 (506)
T ss_pred EEECcHHHHhhhheeccCC--------------cEEEEECCCCCcHHHHHHHHhccCCCCCCcEEEecchhhhhhccccc
Confidence 5779999999988887765 2899999999999999999999888531 11 121111
Q ss_pred cCCceeeEEe--------e---CCceeeccceeeecCCceEeeecccC
Q 014661 384 SAGLTVTAVK--------D---GGEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 384 ~~gLt~~~~r--------~---~g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
..+|+---.| . +|.|..++|.+.+||+|+++|||++.
T Consensus 258 ~~~~~~rPfr~ph~~~s~~~l~GGg~~~~pG~l~~A~gGvLfLDEi~e 305 (506)
T PRK09862 258 QKQWRQRPFRSPHHSASLTAMVGGGAIPGPGEISLAHNGVLFLDELPE 305 (506)
T ss_pred cCCcCCCCccCCCccchHHHHhCCCceehhhHhhhccCCEEecCCchh
Confidence 1122110011 1 26889999999999999999999874
No 22
>CHL00181 cbbX CbbX; Provisional
Probab=98.33 E-value=2.3e-07 Score=89.74 Aligned_cols=107 Identities=27% Similarity=0.360 Sum_probs=62.9
Q ss_pred hhhhhccCCcccCCHHHHHHHH----HHHhcCceeeCCCCC-cccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEecc
Q 014661 306 NAILRGICPQVFGLFTVKLAVA----LTLIGGVQHVDASGT-KVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGL 380 (420)
Q Consensus 306 ~~l~~siaP~i~G~~~~K~ail----L~L~gg~~~~~~~g~-~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~ 380 (420)
+.+..++.++++|++.+|+.|. +.++....... |. ..+...|+||.|+||||||.+.+.+++.+.+.
T Consensus 15 ~~~~~~l~~~l~Gl~~vK~~i~e~~~~~~~~~~~~~~--g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~------ 86 (287)
T CHL00181 15 QEVLDILDEELVGLAPVKTRIREIAALLLIDRLRKNL--GLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKL------ 86 (287)
T ss_pred HHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHHHc--CCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHc------
Confidence 4577888999999999998552 22232211111 21 12335799999999999999999998875321
Q ss_pred ccccCCceeeEEeeC--Cceeec-----cceeeecCCceEeeecccC
Q 014661 381 GSTSAGLTVTAVKDG--GEWMLE-----AGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 381 ~ss~~gLt~~~~r~~--g~~~le-----aGalvlad~Gv~ciDe~dK 420 (420)
|....|-...+.++. +.|.=+ .+.+-.|.+||++|||+|.
T Consensus 87 g~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~l~~a~ggVLfIDE~~~ 133 (287)
T CHL00181 87 GYIKKGHLLTVTRDDLVGQYIGHTAPKTKEVLKKAMGGVLFIDEAYY 133 (287)
T ss_pred CCCCCCceEEecHHHHHHHHhccchHHHHHHHHHccCCEEEEEccch
Confidence 111111111111221 222111 2334457899999999973
No 23
>PRK13531 regulatory ATPase RavA; Provisional
Probab=98.30 E-value=7.8e-07 Score=90.68 Aligned_cols=99 Identities=19% Similarity=0.210 Sum_probs=72.9
Q ss_pred hhhhhccCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcE---EEEecccc
Q 014661 306 NAILRGICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRS---VITTGLGS 382 (420)
Q Consensus 306 ~~l~~siaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~---v~~~G~~s 382 (420)
+.|.+.+.-.|+|.+.+-..+++.+..|. |+||.|.||||||.|.+..++.+.++ .+....-+
T Consensus 12 ~~l~~~l~~~i~gre~vI~lll~aalag~--------------hVLL~GpPGTGKT~LAraLa~~~~~~~~F~~~~~~ft 77 (498)
T PRK13531 12 SRLSSALEKGLYERSHAIRLCLLAALSGE--------------SVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFS 77 (498)
T ss_pred HHHHHHHhhhccCcHHHHHHHHHHHccCC--------------CEEEECCCChhHHHHHHHHHHHhcccCcceeeeeeec
Confidence 45778888899999887777777776541 89999999999999999999988753 23333323
Q ss_pred ccCCceeeE----EeeCCcee-eccceeeecCCceEeeecccC
Q 014661 383 TSAGLTVTA----VKDGGEWM-LEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 383 s~~gLt~~~----~r~~g~~~-leaGalvlad~Gv~ciDe~dK 420 (420)
+.+.|+... .++.|.|. ..+|.+..|+ ++++||+.+
T Consensus 78 tp~DLfG~l~i~~~~~~g~f~r~~~G~L~~A~--lLfLDEI~r 118 (498)
T PRK13531 78 TPEEVFGPLSIQALKDEGRYQRLTSGYLPEAE--IVFLDEIWK 118 (498)
T ss_pred CcHHhcCcHHHhhhhhcCchhhhcCCcccccc--EEeeccccc
Confidence 445555532 13347774 6788888888 999999864
No 24
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=98.16 E-value=3.3e-06 Score=92.20 Aligned_cols=60 Identities=32% Similarity=0.452 Sum_probs=45.4
Q ss_pred hccCCcccCCHHHHHHHH--HHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEE
Q 014661 310 RGICPQVFGLFTVKLAVA--LTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVIT 377 (420)
Q Consensus 310 ~siaP~i~G~~~~K~ail--L~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~ 377 (420)
.-+--++||++.+|..|+ |+....+. +.+|.+ ++|+|+||+|||++++.+++...+..+.
T Consensus 318 ~~l~~~~~g~~~vK~~i~~~l~~~~~~~-------~~~g~~-i~l~GppG~GKTtl~~~ia~~l~~~~~~ 379 (784)
T PRK10787 318 EILDTDHYGLERVKDRILEYLAVQSRVN-------KIKGPI-LCLVGPPGVGKTSLGQSIAKATGRKYVR 379 (784)
T ss_pred HHhhhhccCHHHHHHHHHHHHHHHHhcc-------cCCCce-EEEECCCCCCHHHHHHHHHHHhCCCEEE
Confidence 345567999999999998 44333221 235654 9999999999999999999988776543
No 25
>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]
Probab=98.13 E-value=2.8e-06 Score=84.31 Aligned_cols=96 Identities=25% Similarity=0.359 Sum_probs=72.7
Q ss_pred cCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEecc-----------
Q 014661 312 ICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGL----------- 380 (420)
Q Consensus 312 iaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~----------- 380 (420)
....|-|++.+|+|++|.-+-- . +- .+||-|+.|||||+++|+++.|.|-..-+.|.
T Consensus 15 pf~aivGqd~lk~aL~l~av~P--~-------ig---gvLI~G~kGtaKSt~~Rala~LLp~~~~V~gc~f~cdP~~P~~ 82 (423)
T COG1239 15 PFTAIVGQDPLKLALGLNAVDP--Q-------IG---GALIAGEKGTAKSTLARALADLLPEIEVVIGCPFNCDPDDPEE 82 (423)
T ss_pred chhhhcCchHHHHHHhhhhccc--c-------cc---eeEEecCCCccHHHHHHHHHHhCCccceecCCCCCCCCCChhh
Confidence 3446789999999999986531 1 11 48999999999999999999999987766654
Q ss_pred cc--------------------ccCCceeeEEee-------------CCceeeccceeeecCCceEeeeccc
Q 014661 381 GS--------------------TSAGLTVTAVKD-------------GGEWMLEAGALVLADGGLCCIDEFD 419 (420)
Q Consensus 381 ~s--------------------s~~gLt~~~~r~-------------~g~~~leaGalvlad~Gv~ciDe~d 419 (420)
.+ --++|-..++.| .|.-.+++|-|.-||+||+.|||++
T Consensus 83 ~c~~c~~k~~e~~~~~~~~r~v~~v~lPl~ateDrvvGslDi~ka~~~g~~af~PGlLa~AnRGIlYvDEvn 154 (423)
T COG1239 83 MCDECRAKGDELEWLPREKRKVPFVALPLGATEDRLVGSLDIEKALEEGPKAFQPGLLARANRGILYVDEVN 154 (423)
T ss_pred hhHHHHhhccccccccccceecceecCCCccchhhhccccCHHHHHhcCccccCCcchhhccCCEEEEeccc
Confidence 00 123333333434 2788899999999999999999985
No 26
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=98.10 E-value=1.8e-06 Score=87.46 Aligned_cols=103 Identities=23% Similarity=0.306 Sum_probs=61.9
Q ss_pred cccCCHHHHHHHHHHHhc---CceeeCCC-CCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEE-eccccccCCcee
Q 014661 315 QVFGLFTVKLAVALTLIG---GVQHVDAS-GTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVIT-TGLGSTSAGLTV 389 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~g---g~~~~~~~-g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~-~G~~ss~~gLt~ 389 (420)
.|.|++.+|+++..++.- +....... ......+-|+||+|.||||||.|.+..++.....++. ++..-+.+|...
T Consensus 72 ~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf~~id~~~l~~~gyvG 151 (412)
T PRK05342 72 YVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTEAGYVG 151 (412)
T ss_pred HeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCceecchhhcccCCccc
Confidence 489999999999877742 21110000 0122355799999999999999999999887654443 222212222111
Q ss_pred eEEeeCC---ceeec--cceeeecCCceEeeecccC
Q 014661 390 TAVKDGG---EWMLE--AGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 390 ~~~r~~g---~~~le--aGalvlad~Gv~ciDe~dK 420 (420)
.+-+ ...++ .|.+-.|.+||++|||+||
T Consensus 152 ---~d~e~~l~~l~~~~~~~~~~a~~gIi~iDEIdk 184 (412)
T PRK05342 152 ---EDVENILLKLLQAADYDVEKAQRGIVYIDEIDK 184 (412)
T ss_pred ---chHHHHHHHHHHhccccHHHcCCcEEEEechhh
Confidence 0100 01111 2334567899999999996
No 27
>COG0714 MoxR-like ATPases [General function prediction only]
Probab=98.08 E-value=8.6e-06 Score=80.53 Aligned_cols=101 Identities=27% Similarity=0.259 Sum_probs=75.7
Q ss_pred hhhhhccCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCC-cEEEEecc-ccc
Q 014661 306 NAILRGICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSN-RSVITTGL-GST 383 (420)
Q Consensus 306 ~~l~~siaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p-~~v~~~G~-~ss 383 (420)
..+...+.+.++|.+.++.++++.+..|- |+||.|.||||||.|.+..++... +-+.+..+ ..+
T Consensus 16 ~~~~~~~~~~~~g~~~~~~~~l~a~~~~~--------------~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~~l~ 81 (329)
T COG0714 16 GKIRSELEKVVVGDEEVIELALLALLAGG--------------HVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLL 81 (329)
T ss_pred HHHHhhcCCeeeccHHHHHHHHHHHHcCC--------------CEEEECCCCccHHHHHHHHHHHhCCCeEEEecCCCCC
Confidence 34566778888899999988888887651 899999999999999999988876 33344444 223
Q ss_pred cCCceeeEE---ee--CCceeeccceeeecCCceEeeecccC
Q 014661 384 SAGLTVTAV---KD--GGEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 384 ~~gLt~~~~---r~--~g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
..-++.... +. .+++.+..|-+.-+.++++++||+|+
T Consensus 82 p~d~~G~~~~~~~~~~~~~~~~~~gpl~~~~~~ill~DEInr 123 (329)
T COG0714 82 PSDLLGTYAYAALLLEPGEFRFVPGPLFAAVRVILLLDEINR 123 (329)
T ss_pred HHHhcCchhHhhhhccCCeEEEecCCcccccceEEEEecccc
Confidence 333443222 21 57788889999999889999999985
No 28
>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=98.06 E-value=3.4e-06 Score=85.19 Aligned_cols=108 Identities=21% Similarity=0.260 Sum_probs=64.3
Q ss_pred hccCCcccCCHHHHHHHHHHHhc---Ccee--eCC-CCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEE-Eecccc
Q 014661 310 RGICPQVFGLFTVKLAVALTLIG---GVQH--VDA-SGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVI-TTGLGS 382 (420)
Q Consensus 310 ~siaP~i~G~~~~K~ailL~L~g---g~~~--~~~-~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~-~~G~~s 382 (420)
+.+--.|.|++.+|+++..++.. +... ... +...-.+..|+||+|+||+|||.|.+.+++.....+. +...+-
T Consensus 73 ~~L~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~pf~~~da~~L 152 (413)
T TIGR00382 73 AHLDEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIADATTL 152 (413)
T ss_pred HHhcceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCCCeEEechhhc
Confidence 34444589999999999988742 2111 000 0001234569999999999999999999977643332 222222
Q ss_pred ccCCceeeEEeeC-C--ceee--ccceeeecCCceEeeecccC
Q 014661 383 TSAGLTVTAVKDG-G--EWML--EAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 383 s~~gLt~~~~r~~-g--~~~l--eaGalvlad~Gv~ciDe~dK 420 (420)
+.+|+.. .|. + .+.+ .+|.+-.|.+||++|||+||
T Consensus 153 ~~~gyvG---~d~e~~L~~~~~~~~~~l~~a~~gIV~lDEIdk 192 (413)
T TIGR00382 153 TEAGYVG---EDVENILLKLLQAADYDVEKAQKGIIYIDEIDK 192 (413)
T ss_pred ccccccc---ccHHHHHHHHHHhCcccHHhcccceEEecccch
Confidence 2233211 111 0 1111 14556678899999999996
No 29
>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=98.04 E-value=2.7e-06 Score=81.31 Aligned_cols=57 Identities=28% Similarity=0.431 Sum_probs=35.7
Q ss_pred cccCCHHHHHHHH--HHHhcCceeeCCCCCc-ccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVA--LTLIGGVQHVDASGTK-VRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ail--L~L~gg~~~~~~~g~~-~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
++.|++.+|..|- ...+--.......|.. ..+-.|+||.|+||||||.+.+.+++..
T Consensus 7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l 66 (261)
T TIGR02881 7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLF 66 (261)
T ss_pred HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHH
Confidence 4679999997763 1111000110011221 2234799999999999999999998764
No 30
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=97.98 E-value=6.5e-06 Score=86.81 Aligned_cols=90 Identities=19% Similarity=0.178 Sum_probs=66.6
Q ss_pred CHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCc--EEEEeccccccCCceeeEEe---
Q 014661 319 LFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNR--SVITTGLGSTSAGLTVTAVK--- 393 (420)
Q Consensus 319 ~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~--~v~~~G~~ss~~gLt~~~~r--- 393 (420)
++.+|+|++|..+.... +. -|||-|.+|||||++++....+.|. -+..=-.++|...|..+..-
T Consensus 8 ~~~~~~Al~l~av~p~~--------~g---Gv~i~g~~G~~ks~~~r~l~~llp~~~p~r~~p~~~t~~~L~Gg~Dl~~~ 76 (584)
T PRK13406 8 WADAALAAALLAVDPAG--------LG---GVVLRARAGPVRDRWLAALRALLPAGTPLRRLPPGIADDRLLGGLDLAAT 76 (584)
T ss_pred HHHHHHHHHHhCcCccc--------cc---eEEEEcCCCcHHHHHHHHHHHhcCCCCCcccCCCCCcHHHccCCchHHhH
Confidence 78999999999987421 22 3999999999999999999999885 22222234444444433311
Q ss_pred -eCCceeeccceeeecCCceEeeeccc
Q 014661 394 -DGGEWMLEAGALVLADGGLCCIDEFD 419 (420)
Q Consensus 394 -~~g~~~leaGalvlad~Gv~ciDe~d 419 (420)
..|.-.+++|.|-+||+||+++||++
T Consensus 77 l~~g~~~~~pGlla~Ah~GvL~lDe~n 103 (584)
T PRK13406 77 LRAGRPVAQRGLLAEADGGVLVLAMAE 103 (584)
T ss_pred hhcCCcCCCCCceeeccCCEEEecCcc
Confidence 12566799999999999999999985
No 31
>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]
Probab=97.80 E-value=1.6e-05 Score=83.13 Aligned_cols=100 Identities=28% Similarity=0.412 Sum_probs=71.4
Q ss_pred ccCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCcee-
Q 014661 311 GICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTV- 389 (420)
Q Consensus 311 siaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~- 389 (420)
-+--+.||+++||+-||=.+.=|--+ | ..+|.| +|++|+||+||+.+-|.+++-..|-++-- |-.|+|=
T Consensus 408 iLdeDHYgm~dVKeRILEfiAV~kLr----g-s~qGkI-lCf~GPPGVGKTSI~kSIA~ALnRkFfRf----SvGG~tDv 477 (906)
T KOG2004|consen 408 ILDEDHYGMEDVKERILEFIAVGKLR----G-SVQGKI-LCFVGPPGVGKTSIAKSIARALNRKFFRF----SVGGMTDV 477 (906)
T ss_pred hhcccccchHHHHHHHHHHHHHHhhc----c-cCCCcE-EEEeCCCCCCcccHHHHHHHHhCCceEEE----eccccccH
Confidence 45567899999999999888644322 1 356777 99999999999999999999999987742 4556662
Q ss_pred eEEeeC-Ccee-ecccee------eecCCceEeeecccC
Q 014661 390 TAVKDG-GEWM-LEAGAL------VLADGGLCCIDEFDR 420 (420)
Q Consensus 390 ~~~r~~-g~~~-leaGal------vlad~Gv~ciDe~dK 420 (420)
|=+|-+ ..|+ --||-+ |-..+-+..|||+||
T Consensus 478 AeIkGHRRTYVGAMPGkiIq~LK~v~t~NPliLiDEvDK 516 (906)
T KOG2004|consen 478 AEIKGHRRTYVGAMPGKIIQCLKKVKTENPLILIDEVDK 516 (906)
T ss_pred HhhcccceeeeccCChHHHHHHHhhCCCCceEEeehhhh
Confidence 333433 1221 113333 567888999999998
No 32
>PHA02244 ATPase-like protein
Probab=97.77 E-value=1.7e-05 Score=78.42 Aligned_cols=72 Identities=21% Similarity=0.308 Sum_probs=46.5
Q ss_pred CcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCceeeEEeeCCceeeccceee--ecCCceEeeecccC
Q 014661 346 GESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTVTAVKDGGEWMLEAGALV--LADGGLCCIDEFDR 420 (420)
Q Consensus 346 g~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~~r~~g~~~leaGalv--lad~Gv~ciDe~dK 420 (420)
.+.+|||.|.||||||.|.++++....+-++..........|... +...|.| +.|.+. ++.||+|+|||+|.
T Consensus 118 ~~~PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~l~d~~~L~G~-i~~~g~~--~dgpLl~A~~~GgvLiLDEId~ 191 (383)
T PHA02244 118 ANIPVFLKGGAGSGKNHIAEQIAEALDLDFYFMNAIMDEFELKGF-IDANGKF--HETPFYEAFKKGGLFFIDEIDA 191 (383)
T ss_pred cCCCEEEECCCCCCHHHHHHHHHHHhCCCEEEEecChHHHhhccc-ccccccc--cchHHHHHhhcCCEEEEeCcCc
Confidence 346899999999999999999988876555543211112222221 1222444 444442 47899999999983
No 33
>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=97.68 E-value=0.00012 Score=71.56 Aligned_cols=72 Identities=26% Similarity=0.341 Sum_probs=49.3
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEE-Eecccc-ccCCce---eeEEeeC-Cceeeccceeeec--CCceEeeecccC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVI-TTGLGS-TSAGLT---VTAVKDG-GEWMLEAGALVLA--DGGLCCIDEFDR 420 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~-~~G~~s-s~~gLt---~~~~r~~-g~~~leaGalvla--d~Gv~ciDe~dK 420 (420)
||||.|.||||||++.+.+++.....++ +++..- +...|+ +.+.+++ +.+....|.|..| .|+++++||+|.
T Consensus 66 ~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~~l~~~DliG~~~~~l~~g~~~~~f~~GpL~~A~~~g~illlDEin~ 145 (327)
T TIGR01650 66 RVMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDSHVSRIDLVGKDAIVLKDGKQITEFRDGILPWALQHNVALCFDEYDA 145 (327)
T ss_pred cEEEEeCCCChHHHHHHHHHHHHCCCeEEEEecCCCChhhcCCCceeeccCCcceeEEecCcchhHHhCCeEEEechhhc
Confidence 7999999999999999999887655444 444332 222233 3334444 3355678888664 577899999983
No 34
>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=97.67 E-value=3.6e-05 Score=73.60 Aligned_cols=73 Identities=26% Similarity=0.289 Sum_probs=45.9
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCCcE-EEEecccccc-CCceeeE----------------EeeC--Cceeeccceeee
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSNRS-VITTGLGSTS-AGLTVTA----------------VKDG--GEWMLEAGALVL 407 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p~~-v~~~G~~ss~-~gLt~~~----------------~r~~--g~~~leaGalvl 407 (420)
-|+||.|+||||||+|.+++++...+. +.+++..... ..|.... .+.. ..+....|.++.
T Consensus 22 ~~vLL~G~~GtGKT~lA~~la~~lg~~~~~i~~~~~~~~~dllg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~l~~ 101 (262)
T TIGR02640 22 YPVHLRGPAGTGKTTLAMHVARKRDRPVMLINGDAELTTSDLVGSYAGYTRKKVHDQFIHNVVKLEDIVRQNWVDNRLTL 101 (262)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHHhCCCEEEEeCCccCCHHHHhhhhcccchhhHHHHHHHHhhhhhcccceeecCchHHH
Confidence 489999999999999999999755433 4455543221 1111110 0111 222234777775
Q ss_pred --cCCceEeeecccC
Q 014661 408 --ADGGLCCIDEFDR 420 (420)
Q Consensus 408 --ad~Gv~ciDe~dK 420 (420)
+.||+++|||+|+
T Consensus 102 A~~~g~~lllDEi~r 116 (262)
T TIGR02640 102 AVREGFTLVYDEFTR 116 (262)
T ss_pred HHHcCCEEEEcchhh
Confidence 6889999999985
No 35
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=97.63 E-value=2.8e-05 Score=75.22 Aligned_cols=58 Identities=24% Similarity=0.304 Sum_probs=34.8
Q ss_pred CcccCCHHHHHHHHH--HHhcCceeeCCCCCc-ccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 314 PQVFGLFTVKLAVAL--TLIGGVQHVDASGTK-VRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 314 P~i~G~~~~K~ailL--~L~gg~~~~~~~g~~-~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
-++.|++.+|+.|.= .+.--......-|.. .....|+||.|+||||||.+.+.+++..
T Consensus 22 ~~l~Gl~~vk~~i~e~~~~~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l 82 (284)
T TIGR02880 22 RELIGLKPVKTRIREIAALLLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQIL 82 (284)
T ss_pred HhccCHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHH
Confidence 356899999987521 111111110111221 1234699999999999999997776654
No 36
>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=97.62 E-value=0.00011 Score=80.64 Aligned_cols=63 Identities=32% Similarity=0.324 Sum_probs=45.2
Q ss_pred hhhccCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 308 ILRGICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 308 l~~siaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
+-..+...+||++.+|..|+=.+....... ..+|. ++||+|.||||||.+.+.+++...+..+
T Consensus 314 ~~~~l~~~~~G~~~~k~~i~~~~~~~~~~~-----~~~~~-~lll~GppG~GKT~lAk~iA~~l~~~~~ 376 (775)
T TIGR00763 314 AKEILDEDHYGLKKVKERILEYLAVQKLRG-----KMKGP-ILCLVGPPGVGKTSLGKSIAKALNRKFV 376 (775)
T ss_pred HHHHhhhhcCChHHHHHHHHHHHHHHHhhc-----CCCCc-eEEEECCCCCCHHHHHHHHHHHhcCCeE
Confidence 345677889999999988765443221110 12333 7999999999999999999988765554
No 37
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=97.61 E-value=7.9e-05 Score=78.29 Aligned_cols=96 Identities=28% Similarity=0.356 Sum_probs=66.2
Q ss_pred hccCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCcee
Q 014661 310 RGICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTV 389 (420)
Q Consensus 310 ~siaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~ 389 (420)
.-+--+.||.+.||.-|+=-|.=+.... ...|.| +||||+||+|||.|-+++|+-..|-++-- |-.|
T Consensus 319 ~iLd~dHYGLekVKeRIlEyLAV~~l~~-----~~kGpI-LcLVGPPGVGKTSLgkSIA~al~RkfvR~----sLGG--- 385 (782)
T COG0466 319 KILDKDHYGLEKVKERILEYLAVQKLTK-----KLKGPI-LCLVGPPGVGKTSLGKSIAKALGRKFVRI----SLGG--- 385 (782)
T ss_pred HHhcccccCchhHHHHHHHHHHHHHHhc-----cCCCcE-EEEECCCCCCchhHHHHHHHHhCCCEEEE----ecCc---
Confidence 3455678999999999887775433221 356655 99999999999999999999998876531 2223
Q ss_pred eEEeeC----Cceeec----ccee------eecCCceEeeecccC
Q 014661 390 TAVKDG----GEWMLE----AGAL------VLADGGLCCIDEFDR 420 (420)
Q Consensus 390 ~~~r~~----g~~~le----aGal------vlad~Gv~ciDe~dK 420 (420)
+||. |...-- ||-+ +-..+-+..|||+||
T Consensus 386 --vrDEAEIRGHRRTYIGamPGrIiQ~mkka~~~NPv~LLDEIDK 428 (782)
T COG0466 386 --VRDEAEIRGHRRTYIGAMPGKIIQGMKKAGVKNPVFLLDEIDK 428 (782)
T ss_pred --cccHHHhccccccccccCChHHHHHHHHhCCcCCeEEeechhh
Confidence 4553 322211 3333 345678899999998
No 38
>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=97.57 E-value=8.6e-05 Score=62.46 Aligned_cols=68 Identities=26% Similarity=0.335 Sum_probs=42.2
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEE-Eeccc-cccCCceeeEEee-C-CceeeccceeeecCCceEeeeccc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVI-TTGLG-STSAGLTVTAVKD-G-GEWMLEAGALVLADGGLCCIDEFD 419 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~-~~G~~-ss~~gLt~~~~r~-~-g~~~leaGalvlad~Gv~ciDe~d 419 (420)
|+||.|.||+|||.+.+..++....++- +.++. ..-+.++...+-+ . ++|.+..|.+. .+|+.+||++
T Consensus 1 HvLleg~PG~GKT~la~~lA~~~~~~f~RIq~tpdllPsDi~G~~v~~~~~~~f~~~~GPif---~~ill~DEiN 72 (131)
T PF07726_consen 1 HVLLEGVPGVGKTTLAKALARSLGLSFKRIQFTPDLLPSDILGFPVYDQETGEFEFRPGPIF---TNILLADEIN 72 (131)
T ss_dssp -EEEES---HHHHHHHHHHHHHTT--EEEEE--TT--HHHHHEEEEEETTTTEEEEEE-TT----SSEEEEETGG
T ss_pred CEeeECCCccHHHHHHHHHHHHcCCceeEEEecCCCCcccceeeeeeccCCCeeEeecChhh---hceeeecccc
Confidence 8999999999999999999999876653 33321 1223444433433 2 88999998877 4799999987
No 39
>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=97.57 E-value=2.7e-05 Score=69.30 Aligned_cols=73 Identities=26% Similarity=0.329 Sum_probs=47.7
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhccCCcE--EEEeccccccCCceeeE--------Eee--CCceeeccceeeecCCce
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAKLSNRS--VITTGLGSTSAGLTVTA--------VKD--GGEWMLEAGALVLADGGL 412 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~--v~~~G~~ss~~gLt~~~--------~r~--~g~~~leaGalvlad~Gv 412 (420)
+.+.+|||.|++||||+.+.+++.+.++|. -|++=. + ++++... .+. .|.-.-++|.|-.|++|+
T Consensus 20 ~~~~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vn-c--~~~~~~~~e~~LFG~~~~~~~~~~~~~~G~l~~A~~Gt 96 (168)
T PF00158_consen 20 SSDLPVLITGETGTGKELLARAIHNNSPRKNGPFISVN-C--AALPEELLESELFGHEKGAFTGARSDKKGLLEQANGGT 96 (168)
T ss_dssp TSTS-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEE-T--TTS-HHHHHHHHHEBCSSSSTTTSSEBEHHHHHTTTSE
T ss_pred CCCCCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEe-h--hhhhcchhhhhhhccccccccccccccCCceeeccceE
Confidence 345799999999999999999999999863 222110 1 1111110 010 022234579999999999
Q ss_pred EeeecccC
Q 014661 413 CCIDEFDR 420 (420)
Q Consensus 413 ~ciDe~dK 420 (420)
++|||++.
T Consensus 97 L~Ld~I~~ 104 (168)
T PF00158_consen 97 LFLDEIED 104 (168)
T ss_dssp EEEETGGG
T ss_pred Eeecchhh
Confidence 99999974
No 40
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=97.55 E-value=0.00017 Score=75.84 Aligned_cols=94 Identities=23% Similarity=0.341 Sum_probs=59.5
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC------CcE-----EEEecccc-
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS------NRS-----VITTGLGS- 382 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~------p~~-----v~~~G~~s- 382 (420)
++.|++...+++.-++++.. .-|+||.|+||||||.+.+++.+.+ |+. +.++....
T Consensus 66 ~iiGqs~~i~~l~~al~~~~------------~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id~~~~~ 133 (531)
T TIGR02902 66 EIIGQEEGIKALKAALCGPN------------PQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEIDATTAR 133 (531)
T ss_pred HeeCcHHHHHHHHHHHhCCC------------CceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEcccccc
Confidence 58899988888877776532 2499999999999999999997642 221 22222110
Q ss_pred -ccCCceeeEE---ee-----------CCceeeccceeeecCCceEeeecccC
Q 014661 383 -TSAGLTVTAV---KD-----------GGEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 383 -s~~gLt~~~~---r~-----------~g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
+..++.-... .+ .|.....+|++-.|++|++.|||+++
T Consensus 134 ~~~~~~~~~li~~~~~p~~~~~~~~g~~g~~~~~~G~l~~a~gG~L~IdEI~~ 186 (531)
T TIGR02902 134 FDERGIADPLIGSVHDPIYQGAGPLGIAGIPQPKPGAVTRAHGGVLFIDEIGE 186 (531)
T ss_pred CCccccchhhcCCcccchhccccccccCCcccccCchhhccCCcEEEEechhh
Confidence 1111110000 00 02223467888899999999999874
No 41
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=97.49 E-value=9.5e-05 Score=62.53 Aligned_cols=42 Identities=31% Similarity=0.284 Sum_probs=30.8
Q ss_pred CCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 318 GLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 318 G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
|.+.+...+.-.+... ...|+++.|+||+|||+|++.+++..
T Consensus 2 ~~~~~~~~i~~~~~~~------------~~~~v~i~G~~G~GKT~l~~~i~~~~ 43 (151)
T cd00009 2 GQEEAIEALREALELP------------PPKNLLLYGPPGTGKTTLARAIANEL 43 (151)
T ss_pred chHHHHHHHHHHHhCC------------CCCeEEEECCCCCCHHHHHHHHHHHh
Confidence 4555555555555432 12389999999999999999999876
No 42
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=97.43 E-value=0.00013 Score=72.14 Aligned_cols=87 Identities=26% Similarity=0.391 Sum_probs=52.9
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEE-EeccccccCCceeeEEe
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVI-TTGLGSTSAGLTVTAVK 393 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~-~~G~~ss~~gLt~~~~r 393 (420)
.+.|++.++..+...+-..... + +.--|+|+.|+||+|||.|++.+++-....++ ++|.....++-.
T Consensus 26 ~~vG~~~~~~~l~~~l~~~~~~----~---~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~~~~~l----- 93 (328)
T PRK00080 26 EFIGQEKVKENLKIFIEAAKKR----G---EALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALEKPGDL----- 93 (328)
T ss_pred HhcCcHHHHHHHHHHHHHHHhc----C---CCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEecccccChHHH-----
Confidence 4679999998876666432110 0 11238999999999999999999887755433 222211100000
Q ss_pred eCCceeeccceeeecCCceEeeecccC
Q 014661 394 DGGEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 394 ~~g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
..+ +. -+.+++|++|||+|+
T Consensus 94 --~~~-l~----~l~~~~vl~IDEi~~ 113 (328)
T PRK00080 94 --AAI-LT----NLEEGDVLFIDEIHR 113 (328)
T ss_pred --HHH-HH----hcccCCEEEEecHhh
Confidence 000 11 135789999999974
No 43
>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=97.36 E-value=3.3e-05 Score=64.98 Aligned_cols=27 Identities=37% Similarity=0.571 Sum_probs=23.7
Q ss_pred EEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 350 LLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
|||.|+||+|||.+++.+++..-..++
T Consensus 1 ill~G~~G~GKT~l~~~la~~l~~~~~ 27 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQYLGFPFI 27 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHHTTSEEE
T ss_pred CEEECcCCCCeeHHHHHHHhhcccccc
Confidence 799999999999999999999865443
No 44
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=97.35 E-value=4.8e-05 Score=72.80 Aligned_cols=102 Identities=24% Similarity=0.322 Sum_probs=62.3
Q ss_pred cccCCHHHHHHHHHHHhcCceeeC---CCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEE-EeccccccCCceee
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVD---ASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVI-TTGLGSTSAGLTVT 390 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~---~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~-~~G~~ss~~gLt~~ 390 (420)
-+.|++..|+.+..+...=..+.. .+..--=+..||||||+.|+||+-|.+-.+++..--+- +..+.-|.||.-.
T Consensus 62 YVIGQe~AKKvLsVAVYNHYKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~LnVPFaiADATtLTEAGYVG- 140 (408)
T COG1219 62 YVIGQEQAKKVLSVAVYNHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEAGYVG- 140 (408)
T ss_pred heecchhhhceeeeeehhHHHHHhccCCCCceeeeeccEEEECCCCCcHHHHHHHHHHHhCCCeeeccccchhhccccc-
Confidence 355777777766655543222211 11112345689999999999999999999999854433 3445556666432
Q ss_pred EEeeCCcee----ec--cceeeecCCceEeeecccC
Q 014661 391 AVKDGGEWM----LE--AGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 391 ~~r~~g~~~----le--aGalvlad~Gv~ciDe~dK 420 (420)
++-|.. |. -...-.|-.||+.|||+||
T Consensus 141 ---EDVENillkLlqaadydV~rAerGIIyIDEIDK 173 (408)
T COG1219 141 ---EDVENILLKLLQAADYDVERAERGIIYIDEIDK 173 (408)
T ss_pred ---hhHHHHHHHHHHHcccCHHHHhCCeEEEechhh
Confidence 110111 11 1223458899999999998
No 45
>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=97.33 E-value=0.00011 Score=61.49 Aligned_cols=34 Identities=26% Similarity=0.476 Sum_probs=27.4
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCCc----EEEEeccc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSNR----SVITTGLG 381 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p~----~v~~~G~~ 381 (420)
-|++|+|.||+|||++++.++..... .+++++..
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~ 40 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGED 40 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEE
Confidence 38999999999999999998888766 45555444
No 46
>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=97.29 E-value=6.2e-05 Score=67.24 Aligned_cols=69 Identities=23% Similarity=0.350 Sum_probs=42.2
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCC-----cEEEEecccccc-CCceeeEEeeCCceeec-cceeeecCCceEeeecccC
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSN-----RSVITTGLGSTS-AGLTVTAVKDGGEWMLE-AGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p-----~~v~~~G~~ss~-~gLt~~~~r~~g~~~le-aGalvlad~Gv~ciDe~dK 420 (420)
.++||+|++|+|||.|.+.++++.- +-+......-+. -..-.++ ....-. +|..-.+.+||+++|||||
T Consensus 4 ~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~~~~~~~~~~~~----~~l~~~~~~~v~~~~~gVVllDEidK 79 (171)
T PF07724_consen 4 SNFLLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSEYSEGDDVESSV----SKLLGSPPGYVGAEEGGVVLLDEIDK 79 (171)
T ss_dssp EEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGGHCSHHHCSCHC----HHHHHHTTCHHHHHHHTEEEEETGGG
T ss_pred EEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhcccccchHHhhh----hhhhhcccceeeccchhhhhhHHHhh
Confidence 5899999999999999999998876 333332221111 0000000 011111 3444556779999999998
No 47
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=97.28 E-value=0.00055 Score=73.06 Aligned_cols=49 Identities=31% Similarity=0.399 Sum_probs=40.6
Q ss_pred cCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcE
Q 014661 312 ICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRS 374 (420)
Q Consensus 312 iaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~ 374 (420)
+...+.||+.++.++...+..+ + |++|+|+||||||++++..++..|..
T Consensus 16 ~~~~viG~~~a~~~l~~a~~~~-----------~---~~ll~G~pG~GKT~la~~la~~l~~~ 64 (608)
T TIGR00764 16 LIDQVIGQEEAVEIIKKAAKQK-----------R---NVLLIGEPGVGKSMLAKAMAELLPDE 64 (608)
T ss_pred hHhhccCHHHHHHHHHHHHHcC-----------C---CEEEECCCCCCHHHHHHHHHHHcCch
Confidence 4446789999999888777653 1 99999999999999999999888744
No 48
>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=97.15 E-value=0.00031 Score=68.53 Aligned_cols=54 Identities=26% Similarity=0.346 Sum_probs=37.6
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEE
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSV 375 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v 375 (420)
++.|++.+|..+...+-+.... .+.--|++|.|.||+|||.|++.+++-....+
T Consensus 5 ~~iG~~~~~~~l~~~l~~~~~~-------~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~ 58 (305)
T TIGR00635 5 EFIGQEKVKEQLQLFIEAAKMR-------QEALDHLLLYGPPGLGKTTLAHIIANEMGVNL 58 (305)
T ss_pred HHcCHHHHHHHHHHHHHHHHhc-------CCCCCeEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence 5679999998766666431110 01123899999999999999999887664433
No 49
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=97.11 E-value=0.0004 Score=68.66 Aligned_cols=75 Identities=24% Similarity=0.263 Sum_probs=46.6
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhccCCcE--EE--EeccccccC----CceeeEEee--CCceeeccceeeecCCceEe
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAKLSNRS--VI--TTGLGSTSA----GLTVTAVKD--GGEWMLEAGALVLADGGLCC 414 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~--v~--~~G~~ss~~----gLt~~~~r~--~g~~~leaGalvlad~Gv~c 414 (420)
+.+.+|||.|+|||||+.+.+++...++|. -| ++....+.. -|... .+. .|.-.-.+|.+-.|+||+++
T Consensus 20 ~~~~pVLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~~~~~~~l~~~lfG~-~~g~~~ga~~~~~G~~~~a~gGtL~ 98 (329)
T TIGR02974 20 PLDRPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSENLLDSELFGH-EAGAFTGAQKRHQGRFERADGGTLF 98 (329)
T ss_pred CCCCCEEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCCCCChHHHHHHHhcc-ccccccCcccccCCchhhCCCCEEE
Confidence 345799999999999999999999988863 11 111111100 00000 000 01112346778899999999
Q ss_pred eecccC
Q 014661 415 IDEFDR 420 (420)
Q Consensus 415 iDe~dK 420 (420)
|||+|.
T Consensus 99 Ldei~~ 104 (329)
T TIGR02974 99 LDELAT 104 (329)
T ss_pred eCChHh
Confidence 999873
No 50
>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=96.99 E-value=0.0007 Score=62.53 Aligned_cols=52 Identities=25% Similarity=0.387 Sum_probs=34.5
Q ss_pred cccCCHHHHHHH--HHHHhcCceeeCCCCCcccCc--ccEEEEcCCCchhhHHHHHHhccCCcEEEE
Q 014661 315 QVFGLFTVKLAV--ALTLIGGVQHVDASGTKVRGE--SHLLLVGDPGTGKSQFLKFAAKLSNRSVIT 377 (420)
Q Consensus 315 ~i~G~~~~K~ai--lL~L~gg~~~~~~~g~~~Rg~--ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~ 377 (420)
++.|++.+|.-+ ++...- .|++ -|+||.|+||+|||+|.+.+++-....+..
T Consensus 25 efiGQ~~l~~~l~i~i~aa~-----------~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~ 80 (233)
T PF05496_consen 25 EFIGQEHLKGNLKILIRAAK-----------KRGEALDHMLFYGPPGLGKTTLARIIANELGVNFKI 80 (233)
T ss_dssp CS-S-HHHHHHHHHHHHHHH-----------CTTS---EEEEESSTTSSHHHHHHHHHHHCT--EEE
T ss_pred HccCcHHHHhhhHHHHHHHH-----------hcCCCcceEEEECCCccchhHHHHHHHhccCCCeEe
Confidence 466999998753 333221 1222 499999999999999999998888776654
No 51
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=96.97 E-value=0.00068 Score=66.93 Aligned_cols=75 Identities=24% Similarity=0.292 Sum_probs=45.8
Q ss_pred CcccEEEEcCCCchhhHHHHHHhccCCcE--EE--EeccccccCCceeeEE-eeC----CceeeccceeeecCCceEeee
Q 014661 346 GESHLLLVGDPGTGKSQFLKFAAKLSNRS--VI--TTGLGSTSAGLTVTAV-KDG----GEWMLEAGALVLADGGLCCID 416 (420)
Q Consensus 346 g~ihiLlvGdpg~gKSqlL~~~~~~~p~~--v~--~~G~~ss~~gLt~~~~-r~~----g~~~leaGalvlad~Gv~ciD 416 (420)
.+.+|||.|+|||||+.+.+++...++|+ -| ++...-+..-+-...- .+. |.-.-..|.+-.|+||+++||
T Consensus 28 ~~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~~~~~~~~~~lfg~~~~~~~g~~~~~~g~l~~a~gGtL~l~ 107 (326)
T PRK11608 28 LDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLLDSELFGHEAGAFTGAQKRHPGRFERADGGTLFLD 107 (326)
T ss_pred CCCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCCCCHHHHHHHHccccccccCCcccccCCchhccCCCeEEeC
Confidence 35689999999999999999999998863 12 2211111000000000 000 111123677889999999999
Q ss_pred cccC
Q 014661 417 EFDR 420 (420)
Q Consensus 417 e~dK 420 (420)
|+|.
T Consensus 108 ~i~~ 111 (326)
T PRK11608 108 ELAT 111 (326)
T ss_pred Chhh
Confidence 9873
No 52
>PLN03025 replication factor C subunit; Provisional
Probab=96.94 E-value=0.00054 Score=67.44 Aligned_cols=45 Identities=24% Similarity=0.335 Sum_probs=31.8
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
++.|++.+...+- .++.+ + .--|+||.|+||||||++++.+++-.
T Consensus 14 ~~~g~~~~~~~L~-~~~~~-------~----~~~~lll~Gp~G~GKTtla~~la~~l 58 (319)
T PLN03025 14 DIVGNEDAVSRLQ-VIARD-------G----NMPNLILSGPPGTGKTTSILALAHEL 58 (319)
T ss_pred HhcCcHHHHHHHH-HHHhc-------C----CCceEEEECCCCCCHHHHHHHHHHHH
Confidence 3558888876543 33321 1 11389999999999999999987654
No 53
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=96.93 E-value=0.0012 Score=68.25 Aligned_cols=47 Identities=28% Similarity=0.288 Sum_probs=35.3
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.|.|++.+++.+.-.+-.|. -.-++||.|+||||||++.+..++...
T Consensus 15 divGq~~i~~~L~~~i~~~~-----------l~~~~Lf~GPpGtGKTTlA~~lA~~l~ 61 (472)
T PRK14962 15 EVVGQDHVKKLIINALKKNS-----------ISHAYIFAGPRGTGKTTVARILAKSLN 61 (472)
T ss_pred HccCcHHHHHHHHHHHHcCC-----------CCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 57899999877665555431 111379999999999999999987654
No 54
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=96.91 E-value=0.002 Score=68.80 Aligned_cols=48 Identities=31% Similarity=0.425 Sum_probs=39.7
Q ss_pred ccCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCC
Q 014661 311 GICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 311 siaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+...|.||+.++..+...+..+ + |+|++|+||+|||++.+..++..|
T Consensus 28 ~~~~~vigq~~a~~~L~~~~~~~-----------~---~~l~~G~~G~GKttla~~l~~~l~ 75 (637)
T PRK13765 28 RLIDQVIGQEHAVEVIKKAAKQR-----------R---HVMMIGSPGTGKSMLAKAMAELLP 75 (637)
T ss_pred ccHHHcCChHHHHHHHHHHHHhC-----------C---eEEEECCCCCcHHHHHHHHHHHcC
Confidence 45557889999999877766543 1 899999999999999999988877
No 55
>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=96.87 E-value=0.0018 Score=69.33 Aligned_cols=48 Identities=21% Similarity=0.347 Sum_probs=35.8
Q ss_pred cCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 312 ICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 312 iaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
-.+.|.|++...++++-++..+. .-|+||+|+||||||.|++.+.+.+
T Consensus 152 ~~~~iiGqs~~~~~l~~~ia~~~------------~~~vlL~Gp~GtGKTTLAr~i~~~~ 199 (615)
T TIGR02903 152 AFSEIVGQERAIKALLAKVASPF------------PQHIILYGPPGVGKTTAARLALEEA 199 (615)
T ss_pred cHHhceeCcHHHHHHHHHHhcCC------------CCeEEEECCCCCCHHHHHHHHHHhh
Confidence 33457899888877655543221 2379999999999999999998766
No 56
>CHL00195 ycf46 Ycf46; Provisional
Probab=96.75 E-value=0.00046 Score=71.52 Aligned_cols=59 Identities=29% Similarity=0.190 Sum_probs=37.9
Q ss_pred cccCCHHHHHHHHH--HHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEE
Q 014661 315 QVFGLFTVKLAVAL--TLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVIT 377 (420)
Q Consensus 315 ~i~G~~~~K~ailL--~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~ 377 (420)
.|-|++.+|..+-- ..|.-..+ ..|. +-.=.|||.|.||||||.+.|++++-....++.
T Consensus 229 dvgGl~~lK~~l~~~~~~~~~~~~--~~gl--~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~ 289 (489)
T CHL00195 229 DIGGLDNLKDWLKKRSTSFSKQAS--NYGL--PTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLR 289 (489)
T ss_pred HhcCHHHHHHHHHHHHHHhhHHHH--hcCC--CCCceEEEECCCCCcHHHHHHHHHHHhCCCEEE
Confidence 57799999975542 12211000 0121 112259999999999999999999987655553
No 57
>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=96.70 E-value=0.0016 Score=65.04 Aligned_cols=73 Identities=26% Similarity=0.384 Sum_probs=48.4
Q ss_pred cccEEEEcCCCchhhHHHHHHhccCCcEEEE-eccccccCCceeeEEeeC--Cceeeccc-eeeecCCceEeeecccC
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAAKLSNRSVIT-TGLGSTSAGLTVTAVKDG--GEWMLEAG-ALVLADGGLCCIDEFDR 420 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~-~G~~ss~~gLt~~~~r~~--g~~~leaG-alvlad~Gv~ciDe~dK 420 (420)
..||||+|..|+||+-|.+-.+++..--+-+ .-+.-|+||.-.-=+ +. -...-+|+ -.--|-.||+.|||+||
T Consensus 226 KSNvLllGPtGsGKTllaqTLAr~ldVPfaIcDcTtLTQAGYVGeDV-Esvi~KLl~~A~~nVekAQqGIVflDEvDK 302 (564)
T KOG0745|consen 226 KSNVLLLGPTGSGKTLLAQTLARVLDVPFAICDCTTLTQAGYVGEDV-ESVIQKLLQEAEYNVEKAQQGIVFLDEVDK 302 (564)
T ss_pred cccEEEECCCCCchhHHHHHHHHHhCCCeEEecccchhhcccccccH-HHHHHHHHHHccCCHHHHhcCeEEEehhhh
Confidence 4799999999999999999999998544443 444557777542100 00 01111222 12347899999999998
No 58
>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=96.69 E-value=0.0022 Score=64.71 Aligned_cols=68 Identities=24% Similarity=0.399 Sum_probs=49.4
Q ss_pred hhhccCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccC---cccEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 308 ILRGICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRG---ESHLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 308 l~~siaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg---~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
|.+.+.--|.|.+..|+++..++..+..+..-. ...|+ .-||||+|.||+|||+|.+.+++...-.++
T Consensus 6 I~~~Ld~~IiGQ~eAkk~lsvAl~n~~~r~~~~-~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~fi 76 (441)
T TIGR00390 6 IVAELDKYIIGQDNAKKSVAIALRNRYRRSQLN-EELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFI 76 (441)
T ss_pred HHHHHhhhccCHHHHHHHHHHHHHhhhhhhccc-cccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeEE
Confidence 445555678999999999999999864331100 00111 258999999999999999999999865444
No 59
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=96.63 E-value=0.0025 Score=65.52 Aligned_cols=69 Identities=30% Similarity=0.543 Sum_probs=48.5
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCceeeEEee-----------CCcee---e--ccceeeec
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTVTAVKD-----------GGEWM---L--EAGALVLA 408 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~~r~-----------~g~~~---l--eaGalvla 408 (420)
+.|+.|||.|+.||||.-+.+++.+.|||+- |.- ..+.|++.-+ .|-|+ - ++|-+=+|
T Consensus 266 ~tdstVLi~GESGTGKElfA~~IH~~S~R~~---~PF---IaiNCaAiPe~LlESELFGye~GAFTGA~~~GK~GlfE~A 339 (560)
T COG3829 266 KTDSTVLILGESGTGKELFARAIHNLSPRAN---GPF---IAINCAAIPETLLESELFGYEKGAFTGASKGGKPGLFELA 339 (560)
T ss_pred CCCCcEEEecCCCccHHHHHHHHHhcCcccC---CCe---EEEecccCCHHHHHHHHhCcCCccccccccCCCCcceeec
Confidence 5578999999999999999999999999961 110 0111222211 02222 1 47888999
Q ss_pred CCceEeeeccc
Q 014661 409 DGGLCCIDEFD 419 (420)
Q Consensus 409 d~Gv~ciDe~d 419 (420)
|||..++||+.
T Consensus 340 ~gGTLFLDEIg 350 (560)
T COG3829 340 NGGTLFLDEIG 350 (560)
T ss_pred cCCeEEehhhc
Confidence 99999999984
No 60
>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]
Probab=96.62 E-value=0.0021 Score=65.28 Aligned_cols=68 Identities=31% Similarity=0.451 Sum_probs=50.7
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCceeeEEee-----------C----CceeeccceeeecC
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTVTAVKD-----------G----GEWMLEAGALVLAD 409 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~~r~-----------~----g~~~leaGalvlad 409 (420)
+.|..|||.|+.||||.-+.|.+.+++||..- -=+-+.|++.-+ + |-..-..|-+=+||
T Consensus 244 ~Sd~tVLi~GETGtGKElvAraIH~~S~R~~k------PfV~~NCAAlPesLlESELFGHeKGAFTGA~~~r~GrFElAd 317 (550)
T COG3604 244 KSDSTVLIRGETGTGKELVARAIHQLSPRRDK------PFVKLNCAALPESLLESELFGHEKGAFTGAINTRRGRFELAD 317 (550)
T ss_pred cCCCeEEEecCCCccHHHHHHHHHhhCcccCC------CceeeeccccchHHHHHHHhcccccccccchhccCcceeecC
Confidence 56789999999999999999999999999721 001122222221 1 44556788899999
Q ss_pred CceEeeecc
Q 014661 410 GGLCCIDEF 418 (420)
Q Consensus 410 ~Gv~ciDe~ 418 (420)
||..++||+
T Consensus 318 GGTLFLDEI 326 (550)
T COG3604 318 GGTLFLDEI 326 (550)
T ss_pred CCeEechhh
Confidence 999999997
No 61
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=96.56 E-value=0.0019 Score=70.23 Aligned_cols=95 Identities=25% Similarity=0.335 Sum_probs=55.1
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcE----EEEeccccccCCceee
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRS----VITTGLGSTSAGLTVT 390 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~----v~~~G~~ss~~gLt~~ 390 (420)
.+.|....-..++=++-- . -+.+.+|||.|+|||||+.+.+++...++|. +.++-...+ .++.-+
T Consensus 377 ~liG~S~~~~~~~~~~~~-~---------a~~~~pVLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~c~~~~-~~~~~~ 445 (686)
T PRK15429 377 EIIGRSEAMYSVLKQVEM-V---------AQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMP-AGLLES 445 (686)
T ss_pred ceeecCHHHHHHHHHHHH-H---------hCCCCCEEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEecccCC-hhHhhh
Confidence 577766555444322221 0 1345699999999999999999999988753 222211111 111000
Q ss_pred -EE-eeC----CceeeccceeeecCCceEeeecccC
Q 014661 391 -AV-KDG----GEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 391 -~~-r~~----g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
.- +.. |...-..|.+-+|++|+++|||++.
T Consensus 446 ~lfg~~~~~~~g~~~~~~g~le~a~~GtL~Ldei~~ 481 (686)
T PRK15429 446 DLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGD 481 (686)
T ss_pred hhcCcccccccccccchhhHHHhcCCCeEEEechhh
Confidence 00 000 1122235667789999999999874
No 62
>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=96.54 E-value=0.0019 Score=68.09 Aligned_cols=75 Identities=31% Similarity=0.412 Sum_probs=46.0
Q ss_pred CcccEEEEcCCCchhhHHHHHHhccCCcE----EEEeccccccCCceeeEE-eeCCce----eeccceeeecCCceEeee
Q 014661 346 GESHLLLVGDPGTGKSQFLKFAAKLSNRS----VITTGLGSTSAGLTVTAV-KDGGEW----MLEAGALVLADGGLCCID 416 (420)
Q Consensus 346 g~ihiLlvGdpg~gKSqlL~~~~~~~p~~----v~~~G~~ss~~gLt~~~~-r~~g~~----~leaGalvlad~Gv~ciD 416 (420)
.+.+|||.|+|||||+.+.+++...++|. +.++....+..-+..-.- ...|.| .-.+|.+-.|+||+++||
T Consensus 218 ~~~pvli~Ge~GtGK~~lA~~ih~~s~r~~~pfv~i~c~~~~~~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~GtL~ld 297 (534)
T TIGR01817 218 SNSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSETLLESELFGHEKGAFTGAIAQRKGRFELADGGTLFLD 297 (534)
T ss_pred cCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeecCCCCHHHHHHHHcCCCCCccCCCCcCCCCcccccCCCeEEEe
Confidence 45689999999999999999999988753 222221111100000000 000111 123566888999999999
Q ss_pred cccC
Q 014661 417 EFDR 420 (420)
Q Consensus 417 e~dK 420 (420)
|+|+
T Consensus 298 ei~~ 301 (534)
T TIGR01817 298 EIGE 301 (534)
T ss_pred chhh
Confidence 9974
No 63
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=96.46 E-value=0.0046 Score=67.74 Aligned_cols=66 Identities=15% Similarity=0.194 Sum_probs=46.2
Q ss_pred hhhhccCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEE
Q 014661 307 AILRGICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSV 375 (420)
Q Consensus 307 ~l~~siaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v 375 (420)
.+-..+--.|+|++.++..+.-.+...... ..+..+.. -++||+|+||+|||.|.+.+++.....+
T Consensus 447 ~l~~~l~~~v~GQ~~ai~~l~~~i~~~~~g-~~~~~~p~--~~~lf~Gp~GvGKT~lA~~la~~l~~~~ 512 (731)
T TIGR02639 447 NLEKNLKAKIFGQDEAIDSLVSSIKRSRAG-LGNPNKPV--GSFLFTGPTGVGKTELAKQLAEALGVHL 512 (731)
T ss_pred HHHHHHhcceeCcHHHHHHHHHHHHHHhcC-CCCCCCCc--eeEEEECCCCccHHHHHHHHHHHhcCCe
Confidence 456788888999999988877766532110 00111112 2589999999999999999999886543
No 64
>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional
Probab=96.43 E-value=0.0033 Score=63.46 Aligned_cols=70 Identities=24% Similarity=0.331 Sum_probs=49.6
Q ss_pred hhhhccCCcccCCHHHHHHHHHHHhcCceee-CCCCCc-ccCcccEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 307 AILRGICPQVFGLFTVKLAVALTLIGGVQHV-DASGTK-VRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 307 ~l~~siaP~i~G~~~~K~ailL~L~gg~~~~-~~~g~~-~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
.|.+.+--.|.|++.+|+++..++.++.... ...+.+ -...-|+||+|.||+|||+|.+.+++.....++
T Consensus 8 ~I~~~Ld~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi 79 (443)
T PRK05201 8 EIVSELDKYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFI 79 (443)
T ss_pred HHHHHhccccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChhe
Confidence 3455555679999999999999998754321 111110 001259999999999999999999999765433
No 65
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=96.42 E-value=0.0028 Score=66.53 Aligned_cols=69 Identities=22% Similarity=0.374 Sum_probs=43.9
Q ss_pred CcccEEEEcCCCchhhHHHHHHhcc--------CCcE----EEEeccccccCCceeeEEe------eCCcee-----ecc
Q 014661 346 GESHLLLVGDPGTGKSQFLKFAAKL--------SNRS----VITTGLGSTSAGLTVTAVK------DGGEWM-----LEA 402 (420)
Q Consensus 346 g~ihiLlvGdpg~gKSqlL~~~~~~--------~p~~----v~~~G~~ss~~gLt~~~~r------~~g~~~-----lea 402 (420)
.+.+|||.|+|||||+.+.+++... ++|. +.++-. .++-.... ..|.|+ -.+
T Consensus 241 s~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~inCa-----al~e~lleseLFG~~~gaftga~~~~~~ 315 (538)
T PRK15424 241 SSAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVAVNCG-----AIAESLLEAELFGYEEGAFTGSRRGGRA 315 (538)
T ss_pred CCCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEEeecc-----cCChhhHHHHhcCCccccccCccccccC
Confidence 4568999999999999999999987 5542 111110 01100000 002221 235
Q ss_pred ceeeecCCceEeeeccc
Q 014661 403 GALVLADGGLCCIDEFD 419 (420)
Q Consensus 403 Galvlad~Gv~ciDe~d 419 (420)
|.+-.|+||+++|||++
T Consensus 316 Gl~e~A~gGTLfLdeI~ 332 (538)
T PRK15424 316 GLFEIAHGGTLFLDEIG 332 (538)
T ss_pred CchhccCCCEEEEcChH
Confidence 77889999999999987
No 66
>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=96.42 E-value=0.0013 Score=68.83 Aligned_cols=29 Identities=38% Similarity=0.524 Sum_probs=24.3
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
-++||.|+||||||.|+++++.-+...++
T Consensus 89 ~giLL~GppGtGKT~la~alA~~~~~~~~ 117 (495)
T TIGR01241 89 KGVLLVGPPGTGKTLLAKAVAGEAGVPFF 117 (495)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHcCCCee
Confidence 36999999999999999999987754433
No 67
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=96.38 E-value=0.0013 Score=66.67 Aligned_cols=28 Identities=39% Similarity=0.572 Sum_probs=23.7
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCCcEE
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSNRSV 375 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p~~v 375 (420)
-+|||.|+||||||.+.+++++-+...+
T Consensus 166 ~gvLL~GppGtGKT~lAkaia~~~~~~~ 193 (389)
T PRK03992 166 KGVLLYGPPGTGKTLLAKAVAHETNATF 193 (389)
T ss_pred CceEEECCCCCChHHHHHHHHHHhCCCE
Confidence 4799999999999999999987665443
No 68
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=96.31 E-value=0.0027 Score=66.74 Aligned_cols=71 Identities=25% Similarity=0.316 Sum_probs=44.7
Q ss_pred cccEEEEcCCCchhhHHHHHHhccCCcE----EEEeccccccC----CceeeEEeeCCce----eeccceeeecCCceEe
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAAKLSNRS----VITTGLGSTSA----GLTVTAVKDGGEW----MLEAGALVLADGGLCC 414 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~~~~p~~----v~~~G~~ss~~----gLt~~~~r~~g~~----~leaGalvlad~Gv~c 414 (420)
+-+|||.|++||||+.+.+++...++|+ +.++....+.. -|... ..|.| .-..|.+-.|+||+++
T Consensus 227 ~~pvlI~GE~GtGK~~lA~aiH~~s~r~~~pfv~inca~~~~~~~e~elFG~---~~~~~~~~~~~~~g~~e~a~~GtL~ 303 (520)
T PRK10820 227 DAPLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASIPDDVVESELFGH---APGAYPNALEGKKGFFEQANGGSVL 303 (520)
T ss_pred CCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeccccCCHHHHHHHhcCC---CCCCcCCcccCCCChhhhcCCCEEE
Confidence 4579999999999999999998888765 33322211110 00000 00111 1234666679999999
Q ss_pred eecccC
Q 014661 415 IDEFDR 420 (420)
Q Consensus 415 iDe~dK 420 (420)
|||+|.
T Consensus 304 LdeI~~ 309 (520)
T PRK10820 304 LDEIGE 309 (520)
T ss_pred EeChhh
Confidence 999874
No 69
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=96.30 E-value=0.0031 Score=66.18 Aligned_cols=66 Identities=24% Similarity=0.445 Sum_probs=44.9
Q ss_pred CcccEEEEcCCCchhhHHHHHHhccCCcE--EEEeccccccCCceeeEEee-----------CCcee-----eccceeee
Q 014661 346 GESHLLLVGDPGTGKSQFLKFAAKLSNRS--VITTGLGSTSAGLTVTAVKD-----------GGEWM-----LEAGALVL 407 (420)
Q Consensus 346 g~ihiLlvGdpg~gKSqlL~~~~~~~p~~--v~~~G~~ss~~gLt~~~~r~-----------~g~~~-----leaGalvl 407 (420)
.+.+|||.|+|||||+.+.+++...++|. -|+. +.|+...+ .|.|+ -.+|-+-.
T Consensus 234 ~~~pVLI~GE~GTGKe~lA~~IH~~S~r~~~pfv~--------inC~~l~e~lleseLFG~~~gaftga~~~~~~Gl~e~ 305 (526)
T TIGR02329 234 SDATVLILGESGTGKELVAQAIHQLSGRRDFPFVA--------INCGAIAESLLEAELFGYEEGAFTGARRGGRTGLIEA 305 (526)
T ss_pred CCCcEEEECCCCcCHHHHHHHHHHhcCcCCCCEEE--------eccccCChhHHHHHhcCCcccccccccccccccchhh
Confidence 45699999999999999999999988763 1111 11111111 12222 23667778
Q ss_pred cCCceEeeeccc
Q 014661 408 ADGGLCCIDEFD 419 (420)
Q Consensus 408 ad~Gv~ciDe~d 419 (420)
|+||.++|||++
T Consensus 306 A~gGTLfLdeI~ 317 (526)
T TIGR02329 306 AHRGTLFLDEIG 317 (526)
T ss_pred cCCceEEecChH
Confidence 999999999987
No 70
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=96.28 E-value=0.0035 Score=59.80 Aligned_cols=51 Identities=45% Similarity=0.560 Sum_probs=35.8
Q ss_pred ccCCHHHH----HHHHH-----HHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEE
Q 014661 316 VFGLFTVK----LAVAL-----TLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSV 375 (420)
Q Consensus 316 i~G~~~~K----~ailL-----~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v 375 (420)
+-|.|..| .|++| +||.|..+ .+|| |||-|.||||||-|.++++.=+.-.+
T Consensus 135 VAGLE~AKeALKEAVILPIKFPqlFtGkR~------Pwrg---iLLyGPPGTGKSYLAKAVATEAnSTF 194 (439)
T KOG0739|consen 135 VAGLEGAKEALKEAVILPIKFPQLFTGKRK------PWRG---ILLYGPPGTGKSYLAKAVATEANSTF 194 (439)
T ss_pred hccchhHHHHHHhheeecccchhhhcCCCC------ccee---EEEeCCCCCcHHHHHHHHHhhcCCce
Confidence 44655544 44554 66766432 2554 99999999999999999998887333
No 71
>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=96.25 E-value=0.0031 Score=60.62 Aligned_cols=45 Identities=27% Similarity=0.321 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 320 FTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 320 ~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
|.++-.-++.+.- ..+-|+||+|++|+|||.+++..-+-.+...|
T Consensus 18 dt~r~~~ll~~l~------------~~~~pvLl~G~~GtGKT~li~~~l~~l~~~~~ 62 (272)
T PF12775_consen 18 DTVRYSYLLDLLL------------SNGRPVLLVGPSGTGKTSLIQNFLSSLDSDKY 62 (272)
T ss_dssp HHHHHHHHHHHHH------------HCTEEEEEESSTTSSHHHHHHHHHHCSTTCCE
T ss_pred HHHHHHHHHHHHH------------HcCCcEEEECCCCCchhHHHHhhhccCCcccc
Confidence 5667666665542 22348999999999999999876544444333
No 72
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=96.24 E-value=0.0041 Score=67.14 Aligned_cols=73 Identities=16% Similarity=0.173 Sum_probs=46.0
Q ss_pred CcccEEEEcCCCchhhHHHHHHhccCCcE----EEEecccccc----CCceeeEEeeCCceeeccceeeecCCceEeeec
Q 014661 346 GESHLLLVGDPGTGKSQFLKFAAKLSNRS----VITTGLGSTS----AGLTVTAVKDGGEWMLEAGALVLADGGLCCIDE 417 (420)
Q Consensus 346 g~ihiLlvGdpg~gKSqlL~~~~~~~p~~----v~~~G~~ss~----~gLt~~~~r~~g~~~leaGalvlad~Gv~ciDe 417 (420)
.+.+|||.|+|||||+.+.+++...++|+ +.++....+. .-|..... ++.-.-.+|.+-.|+||+++|||
T Consensus 347 ~~~pvli~Ge~GtGK~~~A~~ih~~s~r~~~pfv~vnc~~~~~~~~~~elfg~~~--~~~~~~~~g~~~~a~~GtL~lde 424 (638)
T PRK11388 347 SSFPVLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPDEALAEEFLGSDR--TDSENGRLSKFELAHGGTLFLEK 424 (638)
T ss_pred cCCCEEEECCCCcCHHHHHHHHHHhCCccCCCeEEEECCCCChHHHHHHhcCCCC--cCccCCCCCceeECCCCEEEEcC
Confidence 34589999999999999999999988753 2222211111 00111110 01111236778899999999999
Q ss_pred ccC
Q 014661 418 FDR 420 (420)
Q Consensus 418 ~dK 420 (420)
++.
T Consensus 425 i~~ 427 (638)
T PRK11388 425 VEY 427 (638)
T ss_pred hhh
Confidence 873
No 73
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=96.23 E-value=0.0072 Score=66.01 Aligned_cols=63 Identities=19% Similarity=0.207 Sum_probs=44.6
Q ss_pred hhhhccCCcccCCHHHHHHHHHHHhc---CceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEE
Q 014661 307 AILRGICPQVFGLFTVKLAVALTLIG---GVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSV 375 (420)
Q Consensus 307 ~l~~siaP~i~G~~~~K~ailL~L~g---g~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v 375 (420)
.|-+.+--.|+|++.++..+.-.+.- |... ..|-.-++||+|.||+|||.|.+..++.....+
T Consensus 451 ~l~~~L~~~ViGQ~~ai~~l~~~i~~~~~gl~~------~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~ 516 (758)
T PRK11034 451 NLGDRLKMLVFGQDKAIEALTEAIKMSRAGLGH------EHKPVGSFLFAGPTGVGKTEVTVQLSKALGIEL 516 (758)
T ss_pred HHHHHhcceEeCcHHHHHHHHHHHHHHhccccC------CCCCcceEEEECCCCCCHHHHHHHHHHHhCCCc
Confidence 45678888899999988766665542 2111 011123799999999999999999998875443
No 74
>PF13337 Lon_2: Putative ATP-dependent Lon protease
Probab=96.20 E-value=0.0094 Score=60.44 Aligned_cols=93 Identities=30% Similarity=0.355 Sum_probs=70.3
Q ss_pred hhhhhhccC--CcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEecccc
Q 014661 305 RNAILRGIC--PQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGS 382 (420)
Q Consensus 305 ~~~l~~sia--P~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~s 382 (420)
.|.|+.|+- |+-|.. ..|..+|+-|+==+ ..|.|++=.|+.|||||.+.+ +++|-+..+||.-.
T Consensus 175 iD~LlrS~G~eP~~~~~-r~Kl~~L~RLiPlV----------E~N~NliELgPrGTGKS~vy~---eiSp~~~liSGG~~ 240 (457)
T PF13337_consen 175 IDLLLRSIGYEPSGFSE-RQKLLLLARLIPLV----------ERNYNLIELGPRGTGKSYVYK---EISPYGILISGGQV 240 (457)
T ss_pred HHHHHHhcCCCccccCH-HHHHHHHHhHHHhc----------ccccceEEEcCCCCCceeehh---hcCcccEEEECCCc
Confidence 578888874 444433 67878888777533 345799999999999999977 89999999999999
Q ss_pred ccCCceeeEEeeCCceeeccceeeecCCceEeeeccc
Q 014661 383 TSAGLTVTAVKDGGEWMLEAGALVLADGGLCCIDEFD 419 (420)
Q Consensus 383 s~~gLt~~~~r~~g~~~leaGalvlad~Gv~ciDe~d 419 (420)
|.|-|..-..+ | +.|.+-+-| ++|+||+.
T Consensus 241 T~A~LFyn~~~--~----~~GlV~~~D--~VafDEv~ 269 (457)
T PF13337_consen 241 TVAKLFYNMST--G----QIGLVGRWD--VVAFDEVA 269 (457)
T ss_pred chHHheeeccC--C----cceeeeecc--EEEEEecc
Confidence 98888853322 3 356666655 78999975
No 75
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=96.17 E-value=0.0083 Score=59.09 Aligned_cols=45 Identities=24% Similarity=0.347 Sum_probs=31.7
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
.+.|++.++..+.-.+-.+ .--|+||.|+||||||.+++.+++-.
T Consensus 16 ~~~g~~~~~~~L~~~~~~~------------~~~~lll~Gp~GtGKT~la~~~~~~l 60 (337)
T PRK12402 16 DILGQDEVVERLSRAVDSP------------NLPHLLVQGPPGSGKTAAVRALAREL 60 (337)
T ss_pred HhcCCHHHHHHHHHHHhCC------------CCceEEEECCCCCCHHHHHHHHHHHh
Confidence 3458888876654433221 01289999999999999999876644
No 76
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=96.17 E-value=0.0043 Score=65.10 Aligned_cols=72 Identities=25% Similarity=0.367 Sum_probs=45.9
Q ss_pred CcccEEEEcCCCchhhHHHHHHhccCCcE----EEEeccccccC----CceeeEEeeCCce----eeccceeeecCCceE
Q 014661 346 GESHLLLVGDPGTGKSQFLKFAAKLSNRS----VITTGLGSTSA----GLTVTAVKDGGEW----MLEAGALVLADGGLC 413 (420)
Q Consensus 346 g~ihiLlvGdpg~gKSqlL~~~~~~~p~~----v~~~G~~ss~~----gLt~~~~r~~g~~----~leaGalvlad~Gv~ 413 (420)
.+.+|||.|++||||+.+.+++...++|+ +.++...-+.. -|... ..|.| .=..|.+-.|+||++
T Consensus 209 ~~~pVlI~Ge~GtGK~~~A~~ih~~s~r~~~p~v~v~c~~~~~~~~e~~lfG~---~~g~~~ga~~~~~g~~~~a~gGtL 285 (509)
T PRK05022 209 SDLNVLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPESLAESELFGH---VKGAFTGAISNRSGKFELADGGTL 285 (509)
T ss_pred CCCcEEEECCCCccHHHHHHHHHHhCCcCCCCeEEEEcccCChHHHHHHhcCc---cccccCCCcccCCcchhhcCCCEE
Confidence 35699999999999999999999998853 22222111110 00000 00111 113566778999999
Q ss_pred eeecccC
Q 014661 414 CIDEFDR 420 (420)
Q Consensus 414 ciDe~dK 420 (420)
+|||+|.
T Consensus 286 ~ldeI~~ 292 (509)
T PRK05022 286 FLDEIGE 292 (509)
T ss_pred EecChhh
Confidence 9999873
No 77
>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]
Probab=96.17 E-value=0.002 Score=67.68 Aligned_cols=66 Identities=32% Similarity=0.403 Sum_probs=45.9
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEE-Eecccccc--CCceeeEEeeCCceeeccceeeecCCceEeeecccC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVI-TTGLGSTS--AGLTVTAVKDGGEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~-~~G~~ss~--~gLt~~~~r~~g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
++||+|+|||||+-|.|+++--+..-++ +||..--. +|..|+-+||= ..+|.. -|- -|..|||+|.
T Consensus 185 GvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FVemfVGvGAsRVRdL---F~qAkk--~aP-~IIFIDEiDA 253 (596)
T COG0465 185 GVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVGASRVRDL---FEQAKK--NAP-CIIFIDEIDA 253 (596)
T ss_pred ceeEecCCCCCcHHHHHHHhcccCCCceeccchhhhhhhcCCCcHHHHHH---HHHhhc--cCC-CeEEEehhhh
Confidence 6999999999999999999998875544 45543322 78888888862 122211 011 4889999983
No 78
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=96.13 E-value=0.0024 Score=54.66 Aligned_cols=59 Identities=31% Similarity=0.472 Sum_probs=38.2
Q ss_pred CcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCceeeEE--eeCCceeeccceeeecCCceEeeecccC
Q 014661 346 GESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTVTAV--KDGGEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 346 g~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~~--r~~g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
.+.+|||.|+|||||+.+.+++...+.+.. +....+. ....+|.-+ |.+|+++|+|+|.
T Consensus 20 ~~~pvli~GE~GtGK~~~A~~lh~~~~~~~----------~~~~~~~~~~~~~~~l~~------a~~gtL~l~~i~~ 80 (138)
T PF14532_consen 20 SSSPVLITGEPGTGKSLLARALHRYSGRAN----------GPFIVIDCASLPAELLEQ------AKGGTLYLKNIDR 80 (138)
T ss_dssp SSS-EEEECCTTSSHHHHHHCCHHTTTTCC----------S-CCCCCHHCTCHHHHHH------CTTSEEEEECGCC
T ss_pred CCCcEEEEcCCCCCHHHHHHHHHhhcCccC----------CCeEEechhhCcHHHHHH------cCCCEEEECChHH
Confidence 456899999999999999999999887621 1111100 011222222 5999999999874
No 79
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=96.12 E-value=0.00096 Score=67.14 Aligned_cols=95 Identities=24% Similarity=0.230 Sum_probs=53.9
Q ss_pred hhhhhhccCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEecccccc
Q 014661 305 RNAILRGICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTS 384 (420)
Q Consensus 305 ~~~l~~siaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~ 384 (420)
.|.|+.|+--+=-|++ .++-++.|....+ -+..+-|++++|+||||||.|.. .++|.+...+|.-.|.
T Consensus 176 id~LlrSiG~~P~~~~--~r~k~~~L~rl~~-------fve~~~Nli~lGp~GTGKThla~---~l~~~~a~~sG~f~T~ 243 (449)
T TIGR02688 176 IDVLIRSIGYEPEGFE--ARQKLLLLARLLP-------LVEPNYNLIELGPKGTGKSYIYN---NLSPYVILISGGTITV 243 (449)
T ss_pred HHHHHHhcCCCcccCC--hHHHHHHHHhhHH-------HHhcCCcEEEECCCCCCHHHHHH---HHhHHHHHHcCCcCcH
Confidence 5788888743333332 2333333443321 13445799999999999999988 5556644556644555
Q ss_pred CCceeeEEeeCCceeeccceeeecCCceEeeeccc
Q 014661 385 AGLTVTAVKDGGEWMLEAGALVLADGGLCCIDEFD 419 (420)
Q Consensus 385 ~gLt~~~~r~~g~~~leaGalvlad~Gv~ciDe~d 419 (420)
+-|..-... + ..|.+...| +++|||+-
T Consensus 244 a~Lf~~L~~--~----~lg~v~~~D--lLI~DEvg 270 (449)
T TIGR02688 244 AKLFYNIST--R----QIGLVGRWD--VVAFDEVA 270 (449)
T ss_pred HHHHHHHHH--H----HHhhhccCC--EEEEEcCC
Confidence 555432211 1 123333333 78888863
No 80
>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional
Probab=95.92 E-value=0.019 Score=58.58 Aligned_cols=43 Identities=26% Similarity=0.251 Sum_probs=31.3
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
++++-+..-..++-+|..+ -|++|.|.||||||.+.+.++...
T Consensus 176 d~~i~e~~le~l~~~L~~~--------------~~iil~GppGtGKT~lA~~la~~l 218 (459)
T PRK11331 176 DLFIPETTIETILKRLTIK--------------KNIILQGPPGVGKTFVARRLAYLL 218 (459)
T ss_pred cccCCHHHHHHHHHHHhcC--------------CCEEEECCCCCCHHHHHHHHHHHh
Confidence 4555555555555555532 289999999999999999887765
No 81
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=95.90 E-value=0.013 Score=55.84 Aligned_cols=56 Identities=32% Similarity=0.484 Sum_probs=39.9
Q ss_pred ccCCHHHHHHHHHHHhcCceeeCCCCCcccCc--ccEEEEcCCCchhhHHHHHHhccCCcEE-EEecc
Q 014661 316 VFGLFTVKLAVALTLIGGVQHVDASGTKVRGE--SHLLLVGDPGTGKSQFLKFAAKLSNRSV-ITTGL 380 (420)
Q Consensus 316 i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~--ihiLlvGdpg~gKSqlL~~~~~~~p~~v-~~~G~ 380 (420)
..|.+.+|.-+-+.+-... .|+. =|+||.|.||+||++|..-+++=....+ .|+|.
T Consensus 28 fiGQ~~vk~~L~ifI~AAk---------~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp 86 (332)
T COG2255 28 FIGQEKVKEQLQIFIKAAK---------KRGEALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGP 86 (332)
T ss_pred hcChHHHHHHHHHHHHHHH---------hcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEecccc
Confidence 3499999987777775532 2222 3999999999999999998876554444 34443
No 82
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=95.90 E-value=0.0029 Score=64.62 Aligned_cols=65 Identities=32% Similarity=0.373 Sum_probs=39.7
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEE-Eecccc--ccCCceeeEEeeCCceeeccceeeecCCceEeeeccc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVI-TTGLGS--TSAGLTVTAVKDGGEWMLEAGALVLADGGLCCIDEFD 419 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~-~~G~~s--s~~gLt~~~~r~~g~~~leaGalvlad~Gv~ciDe~d 419 (420)
-|||+|.|||||+-|.|+++-=+.--+| .+|.-= -=+|..|.-+||= =+-|---| =-|.+|||+|
T Consensus 339 GVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEFdEm~VGvGArRVRdL-----F~aAk~~A-PcIIFIDEiD 406 (752)
T KOG0734|consen 339 GVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEFDEMFVGVGARRVRDL-----FAAAKARA-PCIIFIDEID 406 (752)
T ss_pred ceEEeCCCCCchhHHHHHhhcccCCCeEeccccchhhhhhcccHHHHHHH-----HHHHHhcC-CeEEEEechh
Confidence 4999999999999999999887755444 444211 1145445444441 01111111 1478999998
No 83
>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]
Probab=95.89 E-value=0.0096 Score=60.93 Aligned_cols=69 Identities=25% Similarity=0.414 Sum_probs=48.3
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCceeeEEee-----------C----CceeeccceeeecC
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTVTAVKD-----------G----GEWMLEAGALVLAD 409 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~~r~-----------~----g~~~leaGalvlad 409 (420)
..+.+||+.|+.||||--+.|++.+.++|+- |. =+.+.|+++-. . |--.-..|.+-.||
T Consensus 162 ~s~a~VLI~GESGtGKElvAr~IH~~S~R~~---~P---FVavNcaAip~~l~ESELFGhekGAFTGA~~~r~G~fE~A~ 235 (464)
T COG2204 162 PSDASVLITGESGTGKELVARAIHQASPRAK---GP---FIAVNCAAIPENLLESELFGHEKGAFTGAITRRIGRFEQAN 235 (464)
T ss_pred CCCCCEEEECCCCCcHHHHHHHHHhhCcccC---CC---ceeeecccCCHHHHHHHhhcccccCcCCcccccCcceeEcC
Confidence 4568999999999999999999999999851 00 01111111111 0 22234578899999
Q ss_pred CceEeeeccc
Q 014661 410 GGLCCIDEFD 419 (420)
Q Consensus 410 ~Gv~ciDe~d 419 (420)
||++.+||+-
T Consensus 236 GGTLfLDEI~ 245 (464)
T COG2204 236 GGTLFLDEIG 245 (464)
T ss_pred CceEEeeccc
Confidence 9999999974
No 84
>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=95.87 E-value=0.011 Score=58.67 Aligned_cols=53 Identities=23% Similarity=0.295 Sum_probs=38.4
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCc
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
.+||++.++..++=.+-.... |...+..| ++|+|.||+|||.|.+.+++-..+
T Consensus 52 ~~~G~~~~i~~lv~~l~~~a~-----g~~~~r~i-l~L~GPPGsGKStla~~La~~l~~ 104 (361)
T smart00763 52 DFFGMEEAIERFVNYFKSAAQ-----GLEERKQI-LYLLGPVGGGKSSLVECLKRGLEE 104 (361)
T ss_pred hccCcHHHHHHHHHHHHHHHh-----cCCCCCcE-EEEECCCCCCHHHHHHHHHHHHhh
Confidence 799999988777654433221 11122233 899999999999999999888866
No 85
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=95.87 E-value=0.0072 Score=56.26 Aligned_cols=23 Identities=26% Similarity=0.501 Sum_probs=20.9
Q ss_pred cEEEEcCCCchhhHHHHHHhccC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
+++|.|.||||||.|++++++-+
T Consensus 44 ~~~l~G~~G~GKT~La~ai~~~~ 66 (227)
T PRK08903 44 FFYLWGEAGSGRSHLLQALVADA 66 (227)
T ss_pred eEEEECCCCCCHHHHHHHHHHHH
Confidence 79999999999999999987754
No 86
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=95.82 E-value=0.0096 Score=61.68 Aligned_cols=76 Identities=22% Similarity=0.311 Sum_probs=47.4
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhccCCcE----EEEeccccccCCceeeEEe-eC----CceeeccceeeecCCceEee
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAKLSNRS----VITTGLGSTSAGLTVTAVK-DG----GEWMLEAGALVLADGGLCCI 415 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~----v~~~G~~ss~~gLt~~~~r-~~----g~~~leaGalvlad~Gv~ci 415 (420)
+.+..+|+.|++||||+.+.+++...+++. +.++...-+..-+-....- .. |.....+|.+-.|+||.++|
T Consensus 159 ~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~i~i~c~~~~~~~~~~~lfg~~~g~~~~~~~~~~g~~~~a~~Gtl~l 238 (469)
T PRK10923 159 RSSISVLINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPKDLIESELFGHEKGAFTGANTIRQGRFEQADGGTLFL 238 (469)
T ss_pred ccCCeEEEEeCCCCcHHHHHHHHHhcCCCCCCCeEeeeCCCCCHHHHHHHhcCCCCCCCCCCCcCCCCCeeECCCCEEEE
Confidence 456789999999999999999999988763 1121111000000000000 00 12234578889999999999
Q ss_pred ecccC
Q 014661 416 DEFDR 420 (420)
Q Consensus 416 De~dK 420 (420)
||+|.
T Consensus 239 ~~i~~ 243 (469)
T PRK10923 239 DEIGD 243 (469)
T ss_pred ecccc
Confidence 99973
No 87
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=95.72 E-value=0.0076 Score=59.00 Aligned_cols=87 Identities=22% Similarity=0.269 Sum_probs=48.5
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEE-EcCCCchhhHHHHHHhccCC-cEEEEeccccccCCceeeEE
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLL-VGDPGTGKSQFLKFAAKLSN-RSVITTGLGSTSAGLTVTAV 392 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLl-vGdpg~gKSqlL~~~~~~~p-~~v~~~G~~ss~~gLt~~~~ 392 (420)
++.|++.++..+.-.+-.|. --|++| .|+||+|||.++++.++-.. .-.++++.. .. ...+
T Consensus 22 ~~~~~~~~~~~l~~~~~~~~------------~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~---~~--~~~i 84 (316)
T PHA02544 22 ECILPAADKETFKSIVKKGR------------IPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSD---CR--IDFV 84 (316)
T ss_pred HhcCcHHHHHHHHHHHhcCC------------CCeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCc---cc--HHHH
Confidence 46688888875543332221 125666 79999999999999876543 333444322 11 1111
Q ss_pred eeC-CceeeccceeeecCCceEeeecccC
Q 014661 393 KDG-GEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 393 r~~-g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
++. .+|.- .. -..++.+++.|||+|+
T Consensus 85 ~~~l~~~~~-~~-~~~~~~~vliiDe~d~ 111 (316)
T PHA02544 85 RNRLTRFAS-TV-SLTGGGKVIIIDEFDR 111 (316)
T ss_pred HHHHHHHHH-hh-cccCCCeEEEEECccc
Confidence 211 11210 00 1235788999999874
No 88
>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator. Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).
Probab=95.72 E-value=0.011 Score=60.82 Aligned_cols=74 Identities=27% Similarity=0.357 Sum_probs=46.2
Q ss_pred CcccEEEEcCCCchhhHHHHHHhccCCcE----EEEeccccccC----CceeeEEee--CCceeeccceeeecCCceEee
Q 014661 346 GESHLLLVGDPGTGKSQFLKFAAKLSNRS----VITTGLGSTSA----GLTVTAVKD--GGEWMLEAGALVLADGGLCCI 415 (420)
Q Consensus 346 g~ihiLlvGdpg~gKSqlL~~~~~~~p~~----v~~~G~~ss~~----gLt~~~~r~--~g~~~leaGalvlad~Gv~ci 415 (420)
.+.++|+.|++||||+.+.+++...+++. +.+...+.+.. -|... .+. .|...-.+|.+-.|+||+++|
T Consensus 161 ~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~v~v~c~~~~~~~~~~~lfg~-~~~~~~~~~~~~~g~~~~a~~gtl~l 239 (445)
T TIGR02915 161 SDITVLLLGESGTGKEVLARALHQLSDRKDKRFVAINCAAIPENLLESELFGY-EKGAFTGAVKQTLGKIEYAHGGTLFL 239 (445)
T ss_pred CCCCEEEECCCCcCHHHHHHHHHHhCCcCCCCeEEEECCCCChHHHHHHhcCC-CCCCcCCCccCCCCceeECCCCEEEE
Confidence 45689999999999999999999988753 11211111100 00000 000 011223477888999999999
Q ss_pred ecccC
Q 014661 416 DEFDR 420 (420)
Q Consensus 416 De~dK 420 (420)
||+|.
T Consensus 240 ~~i~~ 244 (445)
T TIGR02915 240 DEIGD 244 (445)
T ss_pred echhh
Confidence 99874
No 89
>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=95.71 E-value=0.021 Score=56.68 Aligned_cols=47 Identities=26% Similarity=0.329 Sum_probs=35.4
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.|.|++.++..+.-.+-.|.. .-.+||.|+||+|||++.+..++...
T Consensus 15 ~iig~~~~~~~l~~~~~~~~~-----------~~~~Ll~G~~G~GKt~~a~~la~~l~ 61 (355)
T TIGR02397 15 DVIGQEHIVQTLKNAIKNGRI-----------AHAYLFSGPRGTGKTSIARIFAKALN 61 (355)
T ss_pred hccCcHHHHHHHHHHHHcCCC-----------CeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 567999999877766654421 11478999999999999999877653
No 90
>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=95.69 E-value=0.0067 Score=63.11 Aligned_cols=28 Identities=32% Similarity=0.430 Sum_probs=24.0
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
++||.|+||||||.+.+++++-....++
T Consensus 218 GILLyGPPGTGKT~LAKAlA~eL~~~i~ 245 (512)
T TIGR03689 218 GVLLYGPPGCGKTLIAKAVANSLAQRIG 245 (512)
T ss_pred ceEEECCCCCcHHHHHHHHHHhhccccc
Confidence 6999999999999999999887655443
No 91
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.63 E-value=0.026 Score=56.54 Aligned_cols=47 Identities=21% Similarity=0.268 Sum_probs=35.3
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
++.||+.++..+.-.+-.|. -.-|+||.|+||+|||.+.+..++...
T Consensus 18 ~iig~~~~~~~l~~~i~~~~-----------~~~~~L~~G~~G~GKt~~a~~la~~l~ 64 (367)
T PRK14970 18 DVVGQSHITNTLLNAIENNH-----------LAQALLFCGPRGVGKTTCARILARKIN 64 (367)
T ss_pred hcCCcHHHHHHHHHHHHcCC-----------CCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 45699999877666654432 113799999999999999998887653
No 92
>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=95.57 E-value=0.0074 Score=58.61 Aligned_cols=66 Identities=26% Similarity=0.410 Sum_probs=48.2
Q ss_pred hhhccCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCc---ccEEEEcCCCchhhHHHHHHhccCCcE
Q 014661 308 ILRGICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGE---SHLLLVGDPGTGKSQFLKFAAKLSNRS 374 (420)
Q Consensus 308 l~~siaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~---ihiLlvGdpg~gKSqlL~~~~~~~p~~ 374 (420)
|++-+--.|.|++..|+|++.+|-.-..+..-+ ..+|.. =|||++|..|+||+.+.|..++++.--
T Consensus 9 IV~eLd~yIIGQ~~AKkaVAIALRNR~RR~qL~-~~lr~EV~PKNILMIGpTGVGKTEIARRLAkl~~aP 77 (444)
T COG1220 9 IVSELDRYIIGQDEAKKAVAIALRNRWRRMQLE-EELRDEVTPKNILMIGPTGVGKTEIARRLAKLAGAP 77 (444)
T ss_pred HHHHHHhHhcCcHHHHHHHHHHHHHHHHHHhcC-HHHhhccCccceEEECCCCCcHHHHHHHHHHHhCCC
Confidence 344444568899999999999998754332101 123433 389999999999999999999998543
No 93
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=95.56 E-value=0.014 Score=57.80 Aligned_cols=53 Identities=32% Similarity=0.528 Sum_probs=37.3
Q ss_pred cccCCHHHH----HHHHHHH-----hcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 315 QVFGLFTVK----LAVALTL-----IGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 315 ~i~G~~~~K----~ailL~L-----~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
+|.|++.+| .|++|-+ |.|..+ -+| -|||+|.|||||+-|.|+++.=..-.+|
T Consensus 213 DIagl~~AK~lL~EAVvlPi~mPe~F~Girr------PWk---gvLm~GPPGTGKTlLAKAvATEc~tTFF 274 (491)
T KOG0738|consen 213 DIAGLHEAKKLLKEAVVLPIWMPEFFKGIRR------PWK---GVLMVGPPGTGKTLLAKAVATECGTTFF 274 (491)
T ss_pred hhcchHHHHHHHHHHHhhhhhhHHHHhhccc------ccc---eeeeeCCCCCcHHHHHHHHHHhhcCeEE
Confidence 466766654 5777744 555432 244 4999999999999999999876554444
No 94
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=95.56 E-value=0.0091 Score=60.00 Aligned_cols=72 Identities=28% Similarity=0.378 Sum_probs=44.6
Q ss_pred cccEEEEcCCCchhhHHHHHHhccCCcE---EEE---ecccc-ccCCceeeEEeeC---CceeeccceeeecCCceEeee
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAAKLSNRS---VIT---TGLGS-TSAGLTVTAVKDG---GEWMLEAGALVLADGGLCCID 416 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~~~~p~~---v~~---~G~~s-s~~gLt~~~~r~~---g~~~leaGalvlad~Gv~ciD 416 (420)
..|||+.|++|||||-+.+.+..++.|. -++ +|--+ +-..+.--=.+.+ |-..=.+|.+=.||||++.+|
T Consensus 101 ~~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa~~~en~~~~eLFG~~kGaftGa~~~k~Glfe~A~GGtLfLD 180 (403)
T COG1221 101 GLPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAYSENLQEAELFGHEKGAFTGAQGGKAGLFEQANGGTLFLD 180 (403)
T ss_pred CCcEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEEHHHhCcCHHHHHHhccccceeecccCCcCchheecCCCEEehh
Confidence 3599999999999999999998888772 111 11111 1111000000000 222234788899999999999
Q ss_pred cc
Q 014661 417 EF 418 (420)
Q Consensus 417 e~ 418 (420)
|+
T Consensus 181 EI 182 (403)
T COG1221 181 EI 182 (403)
T ss_pred hh
Confidence 96
No 95
>PRK13342 recombination factor protein RarA; Reviewed
Probab=95.52 E-value=0.0088 Score=61.06 Aligned_cols=25 Identities=32% Similarity=0.635 Sum_probs=22.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
|+||.|+||||||.|++.+++-...
T Consensus 38 ~ilL~GppGtGKTtLA~~ia~~~~~ 62 (413)
T PRK13342 38 SMILWGPPGTGKTTLARIIAGATDA 62 (413)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhCC
Confidence 8999999999999999999876543
No 96
>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional
Probab=95.49 E-value=0.014 Score=60.12 Aligned_cols=74 Identities=23% Similarity=0.312 Sum_probs=46.4
Q ss_pred CcccEEEEcCCCchhhHHHHHHhccCCcE----EEEeccccccCCceeeE----Eee--CCceeeccceeeecCCceEee
Q 014661 346 GESHLLLVGDPGTGKSQFLKFAAKLSNRS----VITTGLGSTSAGLTVTA----VKD--GGEWMLEAGALVLADGGLCCI 415 (420)
Q Consensus 346 g~ihiLlvGdpg~gKSqlL~~~~~~~p~~----v~~~G~~ss~~gLt~~~----~r~--~g~~~leaGalvlad~Gv~ci 415 (420)
.+.++|+.|++||||+.+.+++..-+++. +.++....+ ..+..+. .+. .|......|.+-.|+||+++|
T Consensus 165 ~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~~~i~c~~~~-~~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~l 243 (457)
T PRK11361 165 SQASVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALP-ESLLESELFGHEKGAFTGAQTLRQGLFERANEGTLLL 243 (457)
T ss_pred CCcEEEEEcCCCccHHHHHHHHHHhCCCCCCCeEEEECCCCC-HHHHHHHhcCCCCCCCCCCCCCCCCceEECCCCEEEE
Confidence 34689999999999999999998776643 112211110 0000000 000 123334578899999999999
Q ss_pred ecccC
Q 014661 416 DEFDR 420 (420)
Q Consensus 416 De~dK 420 (420)
||+|.
T Consensus 244 d~i~~ 248 (457)
T PRK11361 244 DEIGE 248 (457)
T ss_pred echhh
Confidence 99874
No 97
>PHA01747 putative ATP-dependent protease
Probab=95.37 E-value=0.025 Score=55.82 Aligned_cols=101 Identities=17% Similarity=0.137 Sum_probs=67.3
Q ss_pred hhhhhhccCCcccCC-HHHHH--HHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccc
Q 014661 305 RNAILRGICPQVFGL-FTVKL--AVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLG 381 (420)
Q Consensus 305 ~~~l~~siaP~i~G~-~~~K~--ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ 381 (420)
.+.|+.|+--.--++ ...|. .+|.-|+==++. +. -..+.|++=.|..|||||.+.+-+.+++|.++ ||.-
T Consensus 150 iDlLlrSiGyeP~~~~~r~k~~~l~L~RLiPlVE~--~~---~~~NyNliELgPRGTGKS~~f~eis~fsp~~i--SGG~ 222 (425)
T PHA01747 150 YDDLLAAFGYDTDKMIRNDAVNRLTLPRLLPLFTS--PV---SKRPVHIIELSNRGTGKTTTFVILQELFNFRY--YTEP 222 (425)
T ss_pred HHHHHHhcCCCccccCHHHHHHHHHHHhhhhheec--cC---CCCCeeEEEecCCCCChhhHHHHhhhcCCcee--eCCC
Confidence 578888874333332 23444 555555543331 11 12578999999999999999999999999988 7777
Q ss_pred cccCCceeeEEeeCCceeeccceeeecCCceEeeecccC
Q 014661 382 STSAGLTVTAVKDGGEWMLEAGALVLADGGLCCIDEFDR 420 (420)
Q Consensus 382 ss~~gLt~~~~r~~g~~~leaGalvlad~Gv~ciDe~dK 420 (420)
.|-|-|..-... | ..|.+-+.| ++|+||+++
T Consensus 223 ~TvA~LFyN~~t--~----~~GLVg~~D--~VaFDEVa~ 253 (425)
T PHA01747 223 PTYANLVYDAKT--N----ALGLVFLSN--GLIFDEIQT 253 (425)
T ss_pred CchHHheEecCC--C----ceeEEeecc--EEEEEcccc
Confidence 777777643211 2 246566666 588999864
No 98
>PRK04195 replication factor C large subunit; Provisional
Probab=95.36 E-value=0.023 Score=59.26 Aligned_cols=50 Identities=26% Similarity=0.278 Sum_probs=34.0
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|++.++..+.-.+-+.. .|. ..-++||.|+||+|||.+++.+++-..
T Consensus 15 dlvg~~~~~~~l~~~l~~~~-----~g~---~~~~lLL~GppG~GKTtla~ala~el~ 64 (482)
T PRK04195 15 DVVGNEKAKEQLREWIESWL-----KGK---PKKALLLYGPPGVGKTSLAHALANDYG 64 (482)
T ss_pred HhcCCHHHHHHHHHHHHHHh-----cCC---CCCeEEEECCCCCCHHHHHHHHHHHcC
Confidence 46688888765443332211 111 134899999999999999999988664
No 99
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=95.34 E-value=0.015 Score=58.07 Aligned_cols=38 Identities=45% Similarity=0.728 Sum_probs=29.3
Q ss_pred ccCcccEEEEcCCCchhhHH-HHHHhccCCc--EEEEecccc
Q 014661 344 VRGESHLLLVGDPGTGKSQF-LKFAAKLSNR--SVITTGLGS 382 (420)
Q Consensus 344 ~Rg~ihiLlvGdpg~gKSql-L~~~~~~~p~--~v~~~G~~s 382 (420)
.+|. -+|+=||||.|||+| |+.+++++-+ ..|+||.-|
T Consensus 91 V~Gs-~iLIgGdPGIGKSTLLLQva~~lA~~~~vLYVsGEES 131 (456)
T COG1066 91 VPGS-VILIGGDPGIGKSTLLLQVAARLAKRGKVLYVSGEES 131 (456)
T ss_pred cccc-EEEEccCCCCCHHHHHHHHHHHHHhcCcEEEEeCCcC
Confidence 3443 489999999999995 5566777755 899999876
No 100
>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=95.34 E-value=0.034 Score=61.84 Aligned_cols=59 Identities=27% Similarity=0.323 Sum_probs=42.6
Q ss_pred hhhhccCCcccCCHHHHHHHHHHHhc---CceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 307 AILRGICPQVFGLFTVKLAVALTLIG---GVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 307 ~l~~siaP~i~G~~~~K~ailL~L~g---g~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
.|-+.+--.|+|++....++.-++.. |.. +..+-+| .+||+|+||+|||.|.+..++..
T Consensus 559 ~l~~~L~~~v~GQ~~Av~~v~~~i~~~~~gl~----~~~~p~~--~~lf~Gp~GvGKT~lA~~La~~l 620 (852)
T TIGR03345 559 SLPDRLAERVIGQDHALEAIAERIRTARAGLE----DPRKPLG--VFLLVGPSGVGKTETALALAELL 620 (852)
T ss_pred HHHHHhcCeEcChHHHHHHHHHHHHHHhcCCC----CCCCCce--EEEEECCCCCCHHHHHHHHHHHH
Confidence 35677888999999887777666642 221 1112222 68999999999999999998876
No 101
>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []. It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.
Probab=95.31 E-value=0.012 Score=52.39 Aligned_cols=31 Identities=29% Similarity=0.482 Sum_probs=24.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccC------CcEEEEec
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLS------NRSVITTG 379 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~------p~~v~~~G 379 (420)
||+|-|+||+|||+|++.+.+.. ..++||..
T Consensus 1 ~i~iTG~pG~GKTTll~k~i~~l~~~~~~v~Gf~t~e 37 (168)
T PF03266_consen 1 HIFITGPPGVGKTTLLKKVIEELKKKGLPVGGFYTEE 37 (168)
T ss_dssp EEEEES-TTSSHHHHHHHHHHHHHHTCGGEEEEEEEE
T ss_pred CEEEECcCCCCHHHHHHHHHHHhhccCCccceEEeec
Confidence 79999999999999998876654 46677743
No 102
>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=95.31 E-value=0.012 Score=59.18 Aligned_cols=62 Identities=35% Similarity=0.513 Sum_probs=45.4
Q ss_pred ccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCceeeEEeeCCceeeccceeeecCCceEeeeccc
Q 014661 344 VRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTVTAVKDGGEWMLEAGALVLADGGLCCIDEFD 419 (420)
Q Consensus 344 ~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~~r~~g~~~leaGalvlad~Gv~ciDe~d 419 (420)
.|| =||-|+||||||.|.-+.|+...=.||- |.-+-++++.+ |.-=-+.-.++-|+.|.++|
T Consensus 235 KRG---YLLYGPPGTGKSS~IaAmAn~L~ydIyd---------LeLt~v~~n~d--Lr~LL~~t~~kSIivIEDID 296 (457)
T KOG0743|consen 235 KRG---YLLYGPPGTGKSSFIAAMANYLNYDIYD---------LELTEVKLDSD--LRHLLLATPNKSILLIEDID 296 (457)
T ss_pred hcc---ceeeCCCCCCHHHHHHHHHhhcCCceEE---------eeeccccCcHH--HHHHHHhCCCCcEEEEeecc
Confidence 465 7999999999999999999999999985 55545555433 33333444567777777776
No 103
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=95.29 E-value=0.015 Score=63.82 Aligned_cols=45 Identities=24% Similarity=0.283 Sum_probs=31.1
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
.+.|.+..=.-++ +.... |..-|+||+|+||||||.+.+.+++-.
T Consensus 183 ~~igr~~ei~~~~-~~L~~-----------~~~~n~lL~G~pG~GKT~l~~~la~~~ 227 (731)
T TIGR02639 183 PLIGREDELERTI-QVLCR-----------RKKNNPLLVGEPGVGKTAIAEGLALRI 227 (731)
T ss_pred cccCcHHHHHHHH-HHHhc-----------CCCCceEEECCCCCCHHHHHHHHHHHH
Confidence 4668776544343 33321 223489999999999999999988754
No 104
>PRK06620 hypothetical protein; Validated
Probab=95.09 E-value=0.023 Score=52.66 Aligned_cols=24 Identities=38% Similarity=0.535 Sum_probs=21.2
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.++|.|+||+|||.|++..++...
T Consensus 46 ~l~l~Gp~G~GKThLl~a~~~~~~ 69 (214)
T PRK06620 46 TLLIKGPSSSGKTYLTKIWQNLSN 69 (214)
T ss_pred eEEEECCCCCCHHHHHHHHHhccC
Confidence 599999999999999999877653
No 105
>PRK15455 PrkA family serine protein kinase; Provisional
Probab=95.08 E-value=0.022 Score=59.66 Aligned_cols=51 Identities=20% Similarity=0.275 Sum_probs=37.8
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
++||++.+|..|+-.|-.....-. .|+. -+||+|+||+|||.|.+.+++..
T Consensus 77 d~yGlee~ieriv~~l~~Aa~gl~-----~~~~-IL~LvGPpG~GKSsLa~~la~~l 127 (644)
T PRK15455 77 EFYGMEEAIEQIVSYFRHAAQGLE-----EKKQ-ILYLLGPVGGGKSSLAERLKSLM 127 (644)
T ss_pred cccCcHHHHHHHHHHHHHHHHhcC-----CCCc-eEEEecCCCCCchHHHHHHHHHH
Confidence 799999999999877733222111 1332 69999999999999998887654
No 106
>CHL00095 clpC Clp protease ATP binding subunit
Probab=95.07 E-value=0.048 Score=60.61 Aligned_cols=62 Identities=18% Similarity=0.207 Sum_probs=43.2
Q ss_pred hhhhccCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 307 AILRGICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 307 ~l~~siaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
.|-+.+--.|+|++.+..++.-++....... .+. .|---++||+|+||+|||.|.+..++..
T Consensus 502 ~l~~~L~~~v~GQ~~ai~~l~~~i~~~~~gl-~~~--~~p~~~~lf~Gp~GvGKt~lA~~LA~~l 563 (821)
T CHL00095 502 HMEETLHKRIIGQDEAVVAVSKAIRRARVGL-KNP--NRPIASFLFSGPTGVGKTELTKALASYF 563 (821)
T ss_pred HHHHHhcCcCcChHHHHHHHHHHHHHHhhcc-cCC--CCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence 4566888889999999888876664321100 001 1111258999999999999999999875
No 107
>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=95.06 E-value=0.018 Score=63.11 Aligned_cols=58 Identities=31% Similarity=0.403 Sum_probs=36.6
Q ss_pred ccCCHHHHHHHHHHHhcCcee---eCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEE
Q 014661 316 VFGLFTVKLAVALTLIGGVQH---VDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSV 375 (420)
Q Consensus 316 i~G~~~~K~ailL~L~gg~~~---~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v 375 (420)
|.|++.+|..+--.+.-.... ...-| .+-.-.+||.|.||||||.|.++++.-+...+
T Consensus 455 i~g~~~~k~~l~~~v~~~~~~~~~~~~~g--~~~~~giLL~GppGtGKT~lakalA~e~~~~f 515 (733)
T TIGR01243 455 IGGLEEVKQELREAVEWPLKHPEIFEKMG--IRPPKGVLLFGPPGTGKTLLAKAVATESGANF 515 (733)
T ss_pred cccHHHHHHHHHHHHHhhhhCHHHHHhcC--CCCCceEEEECCCCCCHHHHHHHHHHhcCCCE
Confidence 558888887665444321111 00011 22233599999999999999999998765443
No 108
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=94.92 E-value=0.02 Score=46.98 Aligned_cols=25 Identities=20% Similarity=0.440 Sum_probs=20.7
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
+|+++|++|+|||+|++....-...
T Consensus 1 kI~V~G~~g~GKTsLi~~l~~~~~~ 25 (119)
T PF08477_consen 1 KIVVLGDSGVGKTSLIRRLCGGEFP 25 (119)
T ss_dssp EEEEECSTTSSHHHHHHHHHHSS--
T ss_pred CEEEECcCCCCHHHHHHHHhcCCCc
Confidence 5899999999999999988866544
No 109
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=94.85 E-value=0.018 Score=53.20 Aligned_cols=28 Identities=32% Similarity=0.541 Sum_probs=24.9
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhccCC
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.|..|.||+|.|++||++|||-++++..
T Consensus 135 ~g~lntLiigpP~~GKTTlLRdiaR~~s 162 (308)
T COG3854 135 NGWLNTLIIGPPQVGKTTLLRDIARLLS 162 (308)
T ss_pred cCceeeEEecCCCCChHHHHHHHHHHhh
Confidence 3567999999999999999999998864
No 110
>PRK15115 response regulator GlrR; Provisional
Probab=94.69 E-value=0.041 Score=56.52 Aligned_cols=75 Identities=23% Similarity=0.284 Sum_probs=47.5
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhccCCcE----EEEeccccccCC----ceeeEEee--CCceeeccceeeecCCceEe
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAKLSNRS----VITTGLGSTSAG----LTVTAVKD--GGEWMLEAGALVLADGGLCC 414 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~----v~~~G~~ss~~g----Lt~~~~r~--~g~~~leaGalvlad~Gv~c 414 (420)
+.+.++++.|.+||||+.+.+++.+.++|. +.++...-+..- |.... +. .|......|.+-.|++|+++
T Consensus 155 ~~~~~vli~Ge~GtGk~~lA~~ih~~s~r~~~~f~~i~c~~~~~~~~~~~lfg~~-~~~~~~~~~~~~g~~~~a~~gtl~ 233 (444)
T PRK15115 155 QSDVSVLINGQSGTGKEILAQAIHNASPRASKPFIAINCGALPEQLLESELFGHA-RGAFTGAVSNREGLFQAAEGGTLF 233 (444)
T ss_pred cCCCeEEEEcCCcchHHHHHHHHHHhcCCCCCCeEEEeCCCCCHHHHHHHhcCCC-cCCCCCCccCCCCcEEECCCCEEE
Confidence 345689999999999999999999988753 111111100000 00000 00 02334557889999999999
Q ss_pred eecccC
Q 014661 415 IDEFDR 420 (420)
Q Consensus 415 iDe~dK 420 (420)
|||+|.
T Consensus 234 l~~i~~ 239 (444)
T PRK15115 234 LDEIGD 239 (444)
T ss_pred EEcccc
Confidence 999873
No 111
>PRK10365 transcriptional regulatory protein ZraR; Provisional
Probab=94.63 E-value=0.036 Score=56.81 Aligned_cols=73 Identities=30% Similarity=0.418 Sum_probs=45.5
Q ss_pred cccEEEEcCCCchhhHHHHHHhccCCcE----EEEeccccccCCceeeEE-e-eCCce----eeccceeeecCCceEeee
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAAKLSNRS----VITTGLGSTSAGLTVTAV-K-DGGEW----MLEAGALVLADGGLCCID 416 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~~~~p~~----v~~~G~~ss~~gLt~~~~-r-~~g~~----~leaGalvlad~Gv~ciD 416 (420)
+.++++.|++||||+.+.+++...+++. +.+.....+. .+..+.. - +.|.| .-..|.+..|+||+++||
T Consensus 162 ~~~vli~ge~g~gk~~~a~~ih~~s~~~~~~~i~~~c~~~~~-~~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~ld 240 (441)
T PRK10365 162 EATVLIHGDSGTGKELVARAIHASSARSEKPLVTLNCAALNE-SLLESELFGHEKGAFTGADKRREGRFVEADGGTLFLD 240 (441)
T ss_pred CCeEEEEecCCCCHHHHHHHHHHcCCCCCCCeeeeeCCCCCH-HHHHHHhcCCCCCCcCCCCcCCCCceeECCCCEEEEe
Confidence 4579999999999999999999888764 2222111110 0000000 0 00111 124688999999999999
Q ss_pred cccC
Q 014661 417 EFDR 420 (420)
Q Consensus 417 e~dK 420 (420)
|++.
T Consensus 241 ei~~ 244 (441)
T PRK10365 241 EIGD 244 (441)
T ss_pred cccc
Confidence 9874
No 112
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=94.52 E-value=0.017 Score=63.23 Aligned_cols=24 Identities=33% Similarity=0.433 Sum_probs=20.9
Q ss_pred cccEEEEcCCCchhhHHHHHHhcc
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
.-|+||+|+||||||.+.+..+.-
T Consensus 207 ~~n~LLvGppGvGKT~lae~la~~ 230 (758)
T PRK11034 207 KNNPLLVGESGVGKTAIAEGLAWR 230 (758)
T ss_pred CCCeEEECCCCCCHHHHHHHHHHH
Confidence 458999999999999999998753
No 113
>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=94.51 E-value=0.011 Score=65.67 Aligned_cols=45 Identities=22% Similarity=0.246 Sum_probs=31.3
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
.+.|.+..=.-++-.|.. |..-|++|+|+||+|||.+.+..++-.
T Consensus 188 ~~iGr~~ei~~~i~~l~r------------~~~~n~lLvG~pGvGKTal~~~La~~i 232 (852)
T TIGR03345 188 PVLGRDDEIRQMIDILLR------------RRQNNPILTGEAGVGKTAVVEGLALRI 232 (852)
T ss_pred cccCCHHHHHHHHHHHhc------------CCcCceeEECCCCCCHHHHHHHHHHHH
Confidence 566877653333333332 233489999999999999999988765
No 114
>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....
Probab=94.51 E-value=0.071 Score=46.76 Aligned_cols=24 Identities=29% Similarity=0.505 Sum_probs=21.0
Q ss_pred ccEEEEcCCCchhhHHHHHHhccC
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
|+|.|+|.|++|||+|+.+.....
T Consensus 1 i~ialvG~PNvGKStLfN~Ltg~~ 24 (156)
T PF02421_consen 1 IRIALVGNPNVGKSTLFNALTGAK 24 (156)
T ss_dssp -EEEEEESTTSSHHHHHHHHHTTS
T ss_pred CEEEEECCCCCCHHHHHHHHHCCC
Confidence 789999999999999999877665
No 115
>PRK10865 protein disaggregation chaperone; Provisional
Probab=94.50 E-value=0.05 Score=60.63 Aligned_cols=59 Identities=22% Similarity=0.251 Sum_probs=41.5
Q ss_pred hhhhccCCcccCCHHHHHHHHHHHh----cCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCC
Q 014661 307 AILRGICPQVFGLFTVKLAVALTLI----GGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 307 ~l~~siaP~i~G~~~~K~ailL~L~----gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.|-+.+--.|.|++.+-..+.-++- |.... .|.--++||+|+||||||.+.+.+++.+.
T Consensus 561 ~l~~~l~~~viGQ~~ai~~l~~~i~~~~~gl~~~-------~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~ 623 (857)
T PRK10865 561 RMEQELHHRVIGQNEAVEAVSNAIRRSRAGLSDP-------NRPIGSFLFLGPTGVGKTELCKALANFMF 623 (857)
T ss_pred HHHHHhCCeEeCCHHHHHHHHHHHHHHHhcccCC-------CCCCceEEEECCCCCCHHHHHHHHHHHhh
Confidence 4566777889998886665555553 32111 12223799999999999999999998764
No 116
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.33 E-value=0.065 Score=56.04 Aligned_cols=45 Identities=29% Similarity=0.333 Sum_probs=34.4
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccE-EEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHL-LLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihi-LlvGdpg~gKSqlL~~~~~~~ 371 (420)
+|.|++.++..+.-.+-.|. -.|. ||.|+||||||++.+..++-.
T Consensus 15 dvvGq~~v~~~L~~~i~~~~------------l~ha~Lf~GppGtGKTTlA~~lA~~l 60 (504)
T PRK14963 15 EVVGQEHVKEVLLAALRQGR------------LGHAYLFSGPRGVGKTTTARLIAMAV 60 (504)
T ss_pred HhcChHHHHHHHHHHHHcCC------------CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence 57899999877665555431 1266 999999999999999887754
No 117
>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=94.29 E-value=0.049 Score=46.32 Aligned_cols=28 Identities=39% Similarity=0.631 Sum_probs=23.0
Q ss_pred EEEEcCCCchhhHHHHHHhccCCcEEEEe
Q 014661 350 LLLVGDPGTGKSQFLKFAAKLSNRSVITT 378 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~~p~~v~~~ 378 (420)
|+++|.||+|||++.+..++-.+ ...++
T Consensus 2 ii~~G~pgsGKSt~a~~l~~~~~-~~~i~ 29 (143)
T PF13671_consen 2 IILCGPPGSGKSTLAKRLAKRLG-AVVIS 29 (143)
T ss_dssp EEEEESTTSSHHHHHHHHHHHST-EEEEE
T ss_pred EEEECCCCCCHHHHHHHHHHHCC-CEEEe
Confidence 78999999999999999887766 44444
No 118
>PRK10865 protein disaggregation chaperone; Provisional
Probab=94.27 E-value=0.021 Score=63.59 Aligned_cols=27 Identities=26% Similarity=0.471 Sum_probs=23.2
Q ss_pred CcccEEEEcCCCchhhHHHHHHhccCC
Q 014661 346 GESHLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 346 g~ihiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
..-|++|+|+||+|||.|++..+.-+.
T Consensus 198 ~~~n~lL~G~pGvGKT~l~~~la~~i~ 224 (857)
T PRK10865 198 TKNNPVLIGEPGVGKTAIVEGLAQRII 224 (857)
T ss_pred CcCceEEECCCCCCHHHHHHHHHHHhh
Confidence 344899999999999999999887764
No 119
>PRK06893 DNA replication initiation factor; Validated
Probab=94.25 E-value=0.042 Score=51.34 Aligned_cols=32 Identities=19% Similarity=0.288 Sum_probs=25.7
Q ss_pred ccEEEEcCCCchhhHHHHHHhccC----CcEEEEec
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLS----NRSVITTG 379 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~----p~~v~~~G 379 (420)
-.++|.|.||+|||.|++++++-+ ++..|++.
T Consensus 40 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~ 75 (229)
T PRK06893 40 PFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPL 75 (229)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeH
Confidence 468999999999999999987643 46677654
No 120
>CHL00095 clpC Clp protease ATP binding subunit
Probab=94.23 E-value=0.034 Score=61.79 Aligned_cols=45 Identities=27% Similarity=0.297 Sum_probs=31.9
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
.+.|.+..-..++=.|.. |..-|+||+|+||+|||.+.+..+.-.
T Consensus 180 ~~igr~~ei~~~~~~L~r------------~~~~n~lL~G~pGvGKTal~~~la~~i 224 (821)
T CHL00095 180 PVIGREKEIERVIQILGR------------RTKNNPILIGEPGVGKTAIAEGLAQRI 224 (821)
T ss_pred CCCCcHHHHHHHHHHHcc------------cccCCeEEECCCCCCHHHHHHHHHHHH
Confidence 477877665554443332 223389999999999999999887754
No 121
>PRK09087 hypothetical protein; Validated
Probab=94.19 E-value=0.038 Score=51.59 Aligned_cols=30 Identities=20% Similarity=0.360 Sum_probs=23.5
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEEEec
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVITTG 379 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G 379 (420)
.++|.|++|+|||.||+..++-. +..|++.
T Consensus 46 ~l~l~G~~GsGKThLl~~~~~~~-~~~~i~~ 75 (226)
T PRK09087 46 VVVLAGPVGSGKTHLASIWREKS-DALLIHP 75 (226)
T ss_pred eEEEECCCCCCHHHHHHHHHHhc-CCEEecH
Confidence 48999999999999999887643 4455543
No 122
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=94.17 E-value=0.041 Score=55.18 Aligned_cols=28 Identities=43% Similarity=0.618 Sum_probs=24.0
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
++||.|+||||||.|++++++-....++
T Consensus 158 gvLL~GppGtGKT~lakaia~~l~~~~~ 185 (364)
T TIGR01242 158 GVLLYGPPGTGKTLLAKAVAHETNATFI 185 (364)
T ss_pred eEEEECCCCCCHHHHHHHHHHhCCCCEE
Confidence 5999999999999999999887665443
No 123
>TIGR01818 ntrC nitrogen regulation protein NR(I). This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.
Probab=94.15 E-value=0.06 Score=55.60 Aligned_cols=75 Identities=25% Similarity=0.367 Sum_probs=46.0
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhccCCcE---EE-EeccccccCCceeeEE--eeC----CceeeccceeeecCCceEe
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAKLSNRS---VI-TTGLGSTSAGLTVTAV--KDG----GEWMLEAGALVLADGGLCC 414 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~---v~-~~G~~ss~~gLt~~~~--r~~----g~~~leaGalvlad~Gv~c 414 (420)
..++++|+.|++||||+.+.+++.+.++++ ++ ++....+.. +..+.. .+. |...-..|.+-.|+||+++
T Consensus 155 ~~~~~vli~Ge~GtGK~~~A~~ih~~~~~~~~~~~~~~c~~~~~~-~~~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~ 233 (463)
T TIGR01818 155 RSDITVLINGESGTGKELVARALHRHSPRANGPFIALNMAAIPKD-LIESELFGHEKGAFTGANTRRQGRFEQADGGTLF 233 (463)
T ss_pred CcCCeEEEECCCCCCHHHHHHHHHHhCCCCCCCeEEEeCCCCCHH-HHHHHhcCCCCCCCCCcccCCCCcEEECCCCeEE
Confidence 345789999999999999999999988763 11 221111100 000000 001 1112235778899999999
Q ss_pred eecccC
Q 014661 415 IDEFDR 420 (420)
Q Consensus 415 iDe~dK 420 (420)
|||+|.
T Consensus 234 l~ei~~ 239 (463)
T TIGR01818 234 LDEIGD 239 (463)
T ss_pred EEchhh
Confidence 999873
No 124
>TIGR02653 Lon_rel_chp conserved hypothetical protein. This model describes a protein family of unknown function, about 690 residues in length, in which some members show C-terminal sequence similarity to Pfam model pfam05362, which is the Lon protease C-terminal proteolytic domain, from MEROPS family S16. However, the annotated catalytic sites of E. coli Lon protease are not conserved in members of this family. Members have a motif GP[RK][GS]TGKS, similar to the ATP-binding P-loop motif GxxGxGK[ST].
Probab=94.14 E-value=0.085 Score=55.96 Aligned_cols=93 Identities=27% Similarity=0.334 Sum_probs=68.9
Q ss_pred hhhhhhccC--CcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEecccc
Q 014661 305 RNAILRGIC--PQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGS 382 (420)
Q Consensus 305 ~~~l~~sia--P~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~s 382 (420)
.|.|++|+- |+-|. +..|..+|.-|+==++ .|.|++=.|+-|||||.+.+ +++|.+..+||.-+
T Consensus 183 id~LlrSiG~eP~~~~-~r~K~~~L~RliPlVE----------~N~Nl~ELgPrgTGKS~~y~---eiSp~~~liSGG~~ 248 (675)
T TIGR02653 183 IDVLLRSVGMEPTNLE-RRTKWHLLTRLIPLVE----------NNYNLCELGPRGTGKSHVYK---ECSPNSILMSGGQT 248 (675)
T ss_pred HHHHHHhcCCCccccC-HHHHHHHHHhhhhhcc----------cccceEEECCCCCCcceeee---ccCCceEEEECCcc
Confidence 578888764 55553 3688888888875443 45799999999999999999 99999999999888
Q ss_pred ccCCceeeEEeeCCceeeccceeeecCCceEeeeccc
Q 014661 383 TSAGLTVTAVKDGGEWMLEAGALVLADGGLCCIDEFD 419 (420)
Q Consensus 383 s~~gLt~~~~r~~g~~~leaGalvlad~Gv~ciDe~d 419 (420)
|.|-|..-..+ + ..|.+-+-| ++|.||+-
T Consensus 249 T~A~LFyn~~~--~----~~GlVg~~D--~VaFDEva 277 (675)
T TIGR02653 249 TVANLFYNMST--R----QIGLVGMWD--VVAFDEVA 277 (675)
T ss_pred chhHeeEEcCC--C----ceeEEeecc--EEEEeecc
Confidence 88888754321 2 234444444 68888863
No 125
>PF05729 NACHT: NACHT domain
Probab=94.11 E-value=0.036 Score=48.07 Aligned_cols=19 Identities=47% Similarity=0.854 Sum_probs=17.3
Q ss_pred EEEEcCCCchhhHHHHHHh
Q 014661 350 LLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~ 368 (420)
++|.|+||+|||.+++.++
T Consensus 3 l~I~G~~G~GKStll~~~~ 21 (166)
T PF05729_consen 3 LWISGEPGSGKSTLLRKLA 21 (166)
T ss_pred EEEECCCCCChHHHHHHHH
Confidence 6899999999999999865
No 126
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=94.11 E-value=0.068 Score=52.11 Aligned_cols=44 Identities=25% Similarity=0.265 Sum_probs=32.7
Q ss_pred ccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 316 VFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 316 i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
+.|++.++..+.-.+-.|. .-|+||.|.||+|||.+++.+++-.
T Consensus 19 ~~g~~~~~~~l~~~i~~~~------------~~~~ll~G~~G~GKt~~~~~l~~~l 62 (319)
T PRK00440 19 IVGQEEIVERLKSYVKEKN------------MPHLLFAGPPGTGKTTAALALAREL 62 (319)
T ss_pred hcCcHHHHHHHHHHHhCCC------------CCeEEEECCCCCCHHHHHHHHHHHH
Confidence 5599988877665543321 1279999999999999999987653
No 127
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=94.09 E-value=0.052 Score=46.73 Aligned_cols=34 Identities=21% Similarity=0.193 Sum_probs=26.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccC----CcEEEEecccc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLS----NRSVITTGLGS 382 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~----p~~v~~~G~~s 382 (420)
++++.|.||+|||+|++..+..+ .+.+|.+...+
T Consensus 1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~ 38 (165)
T cd01120 1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEE 38 (165)
T ss_pred CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcc
Confidence 58999999999999888876665 35666665544
No 128
>cd04124 RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b
Probab=94.06 E-value=0.04 Score=48.10 Aligned_cols=21 Identities=29% Similarity=0.556 Sum_probs=18.2
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
++|+++|+||+|||.|++...
T Consensus 1 ~ki~vvG~~~vGKTsli~~~~ 21 (161)
T cd04124 1 VKIILLGDSAVGKSKLVERFL 21 (161)
T ss_pred CEEEEECCCCCCHHHHHHHHH
Confidence 479999999999999997553
No 129
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=94.06 E-value=0.068 Score=50.16 Aligned_cols=44 Identities=30% Similarity=0.453 Sum_probs=32.9
Q ss_pred cccCCHHHHHHHHH---HHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhc
Q 014661 315 QVFGLFTVKLAVAL---TLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 315 ~i~G~~~~K~ailL---~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
.++|.+.-|..++= +.+.|-+ --|+||-|+.|||||.+.|++..
T Consensus 28 ~L~Gie~Qk~~l~~Nt~~Fl~G~p-----------annvLL~G~rGtGKSSlVkall~ 74 (249)
T PF05673_consen 28 DLIGIERQKEALIENTEQFLQGLP-----------ANNVLLWGARGTGKSSLVKALLN 74 (249)
T ss_pred HhcCHHHHHHHHHHHHHHHHcCCC-----------CcceEEecCCCCCHHHHHHHHHH
Confidence 46788888876653 3444422 24999999999999999998754
No 130
>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A.
Probab=94.05 E-value=0.035 Score=49.29 Aligned_cols=24 Identities=33% Similarity=0.591 Sum_probs=16.9
Q ss_pred ccEEEEcCCCchhhHHHHHHhccC
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
-++++.|+||+|||.||+.+.+-+
T Consensus 25 ~~~ll~G~~G~GKT~ll~~~~~~~ 48 (185)
T PF13191_consen 25 RNLLLTGESGSGKTSLLRALLDRL 48 (185)
T ss_dssp --EEE-B-TTSSHHHHHHHHHHHH
T ss_pred cEEEEECCCCCCHHHHHHHHHHHH
Confidence 479999999999999999655444
No 131
>cd04177 RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu
Probab=94.02 E-value=0.041 Score=48.27 Aligned_cols=22 Identities=23% Similarity=0.409 Sum_probs=19.4
Q ss_pred cccEEEEcCCCchhhHHHHHHh
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~ 368 (420)
+++|+++|+||+|||.|+++..
T Consensus 1 ~~ki~liG~~~~GKTsli~~~~ 22 (168)
T cd04177 1 DYKIVVLGAGGVGKSALTVQFV 22 (168)
T ss_pred CeEEEEECCCCCCHHHHHHHHH
Confidence 4689999999999999988854
No 132
>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]
Probab=93.99 E-value=0.039 Score=47.56 Aligned_cols=29 Identities=34% Similarity=0.559 Sum_probs=25.3
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhccCCc
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
|--.|||+.|-||||||++..++++...-
T Consensus 5 r~~PNILvtGTPG~GKstl~~~lae~~~~ 33 (176)
T KOG3347|consen 5 RERPNILVTGTPGTGKSTLAERLAEKTGL 33 (176)
T ss_pred hcCCCEEEeCCCCCCchhHHHHHHHHhCC
Confidence 55579999999999999999999987654
No 133
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=93.98 E-value=0.051 Score=56.78 Aligned_cols=65 Identities=34% Similarity=0.454 Sum_probs=40.8
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCceeeEEeeCCceeeccceee-----e---cCCceEeee
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTVTAVKDGGEWMLEAGALV-----L---ADGGLCCID 416 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~~r~~g~~~leaGalv-----l---ad~Gv~ciD 416 (420)
|-.-.+||.|.||||||-|.++++.-+...+..- .++ .|+ +.|+-|....| . .--.|+.||
T Consensus 274 ~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v-~~~---~l~-------sk~vGesek~ir~~F~~A~~~~p~iiFiD 342 (494)
T COG0464 274 RPPKGVLLYGPPGTGKTLLAKAVALESRSRFISV-KGS---ELL-------SKWVGESEKNIRELFEKARKLAPSIIFID 342 (494)
T ss_pred CCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEe-eCH---HHh-------ccccchHHHHHHHHHHHHHcCCCcEEEEE
Confidence 3334899999999999999999999665444321 110 111 34444433322 1 235799999
Q ss_pred cccC
Q 014661 417 EFDR 420 (420)
Q Consensus 417 e~dK 420 (420)
|+|+
T Consensus 343 EiDs 346 (494)
T COG0464 343 EIDS 346 (494)
T ss_pred chhh
Confidence 9985
No 134
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.96 E-value=0.082 Score=53.03 Aligned_cols=46 Identities=30% Similarity=0.390 Sum_probs=35.4
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCccc-EEEEcCCCchhhHHHHHHhccCC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESH-LLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ih-iLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.|.|++.+++.+.-.+-.|.- .| +||.|+||+|||++++..++-..
T Consensus 17 ~iiGq~~~~~~l~~~~~~~~~------------~h~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 17 DIIGQKHIVTAISNGLSLGRI------------HHAWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred hccChHHHHHHHHHHHHcCCC------------CeEEEEecCCCCCHHHHHHHHHHHhc
Confidence 567999999987666654311 25 58999999999999999987653
No 135
>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=93.95 E-value=0.04 Score=50.92 Aligned_cols=24 Identities=38% Similarity=0.607 Sum_probs=21.5
Q ss_pred ccEEEEcCCCchhhHHHHHHhccC
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
-+++|.|+||||||.|++++++-+
T Consensus 39 ~~lll~G~~G~GKT~la~~~~~~~ 62 (226)
T TIGR03420 39 RFLYLWGESGSGKSHLLQAACAAA 62 (226)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHH
Confidence 389999999999999999988665
No 136
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=93.84 E-value=0.047 Score=45.07 Aligned_cols=27 Identities=37% Similarity=0.546 Sum_probs=22.3
Q ss_pred EEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 350 LLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
|++.|.||+|||++.+.+++-..-.++
T Consensus 2 I~I~G~~gsGKST~a~~La~~~~~~~i 28 (121)
T PF13207_consen 2 IIISGPPGSGKSTLAKELAERLGFPVI 28 (121)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHTCEEE
T ss_pred EEEECCCCCCHHHHHHHHHHHHCCeEE
Confidence 789999999999999999996543333
No 137
>cd01878 HflX HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.
Probab=93.78 E-value=0.05 Score=49.46 Aligned_cols=26 Identities=27% Similarity=0.364 Sum_probs=22.5
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhcc
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
++.++|+++|+||+|||.|+++...-
T Consensus 39 ~~~~~I~iiG~~g~GKStLl~~l~~~ 64 (204)
T cd01878 39 SGIPTVALVGYTNAGKSTLFNALTGA 64 (204)
T ss_pred cCCCeEEEECCCCCCHHHHHHHHhcc
Confidence 55689999999999999999887653
No 138
>PRK10078 ribose 1,5-bisphosphokinase; Provisional
Probab=93.68 E-value=0.081 Score=47.63 Aligned_cols=35 Identities=20% Similarity=0.294 Sum_probs=29.2
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEEEeccccc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGST 383 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss 383 (420)
.+.|+|.+|+|||+|++..+...+..++.++.-.+
T Consensus 4 ~i~l~G~sGsGKsTl~~~l~~~~~~~~~~~~~~~~ 38 (186)
T PRK10078 4 LIWLMGPSGSGKDSLLAALRQREQTQLLVAHRYIT 38 (186)
T ss_pred EEEEECCCCCCHHHHHHHHhccCCCeEEEcCEECC
Confidence 68999999999999999999987666777665444
No 139
>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....
Probab=93.67 E-value=0.055 Score=44.43 Aligned_cols=21 Identities=24% Similarity=0.556 Sum_probs=19.6
Q ss_pred cEEEEcCCCchhhHHHHHHhc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~ 369 (420)
+|+++|.||+|||+|+++...
T Consensus 1 ~V~iiG~~~~GKSTlin~l~~ 21 (116)
T PF01926_consen 1 RVAIIGRPNVGKSTLINALTG 21 (116)
T ss_dssp EEEEEESTTSSHHHHHHHHHT
T ss_pred CEEEECCCCCCHHHHHHHHhc
Confidence 589999999999999999986
No 140
>PRK14532 adenylate kinase; Provisional
Probab=93.62 E-value=0.073 Score=47.85 Aligned_cols=31 Identities=29% Similarity=0.429 Sum_probs=25.7
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEEEec
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVITTG 379 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G 379 (420)
||+++|.||+|||++.+..++-..-....+|
T Consensus 2 ~i~~~G~pGsGKsT~a~~la~~~g~~~is~~ 32 (188)
T PRK14532 2 NLILFGPPAAGKGTQAKRLVEERGMVQLSTG 32 (188)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCeEEeCc
Confidence 7999999999999999999887765555554
No 141
>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars. Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.
Probab=93.61 E-value=0.1 Score=38.88 Aligned_cols=22 Identities=32% Similarity=0.442 Sum_probs=19.9
Q ss_pred EEEEcCCCchhhHHHHHHhccC
Q 014661 350 LLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~~ 371 (420)
+.+.|.||+|||++.+..++..
T Consensus 2 i~i~G~~gsGKst~~~~l~~~l 23 (69)
T cd02019 2 IAITGGSGSGKSTVAKKLAEQL 23 (69)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 6789999999999999998874
No 142
>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=93.59 E-value=0.06 Score=45.49 Aligned_cols=33 Identities=36% Similarity=0.500 Sum_probs=26.6
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEeccc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGLG 381 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~~ 381 (420)
++.++|.+|+|||+||+..+.+.+. .+++.|..
T Consensus 13 ~~~i~G~nGsGKStLl~~l~g~~~~~~G~i~~~~~~ 48 (137)
T PF00005_consen 13 IVAIVGPNGSGKSTLLKALAGLLPPDSGSILINGKD 48 (137)
T ss_dssp EEEEEESTTSSHHHHHHHHTTSSHESEEEEEETTEE
T ss_pred EEEEEccCCCccccceeeeccccccccccccccccc
Confidence 6899999999999999999999864 34455443
No 143
>cd04101 RabL4 RabL4 (Rab-like4) subfamily. RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.
Probab=93.55 E-value=0.056 Score=46.91 Aligned_cols=21 Identities=33% Similarity=0.640 Sum_probs=19.1
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
++|+++|+||+|||.|+.+..
T Consensus 1 ~ki~vvG~~~~GKtsl~~~l~ 21 (164)
T cd04101 1 LRCAVVGDPAVGKTAFVQMFH 21 (164)
T ss_pred CEEEEECCCCCCHHHHHHHHh
Confidence 579999999999999998775
No 144
>TIGR00231 small_GTP small GTP-binding protein domain. This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.
Probab=93.52 E-value=0.059 Score=45.53 Aligned_cols=24 Identities=33% Similarity=0.530 Sum_probs=20.7
Q ss_pred ccEEEEcCCCchhhHHHHHHhccC
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
++|+++|+||+|||.|+.....--
T Consensus 2 ~ki~~~G~~~~GKstl~~~l~~~~ 25 (161)
T TIGR00231 2 IKIVIVGDPNVGKSTLLNRLLGNK 25 (161)
T ss_pred eEEEEECCCCCCHHHHHHHHhCCC
Confidence 689999999999999999776543
No 145
>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]
Probab=93.47 E-value=0.078 Score=50.30 Aligned_cols=32 Identities=38% Similarity=0.494 Sum_probs=27.2
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC-cE--EEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN-RS--VITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p-~~--v~~~G~ 380 (420)
.+.|+|..|+|||+|||..+.+.+ .+ |+..|+
T Consensus 30 i~~iiGpNG~GKSTLLk~l~g~l~p~~G~V~l~g~ 64 (258)
T COG1120 30 ITGILGPNGSGKSTLLKCLAGLLKPKSGEVLLDGK 64 (258)
T ss_pred EEEEECCCCCCHHHHHHHHhccCCCCCCEEEECCC
Confidence 588999999999999999999765 33 778885
No 146
>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily. Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le
Probab=93.47 E-value=0.058 Score=47.76 Aligned_cols=23 Identities=17% Similarity=0.225 Sum_probs=20.0
Q ss_pred ccEEEEcCCCchhhHHHHHHhcc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
.+|+|+|+||+|||.|++....-
T Consensus 2 ~kv~l~G~~g~GKTtl~~~~~~~ 24 (180)
T cd04137 2 RKIAVLGSRSVGKSSLTVQFVEG 24 (180)
T ss_pred eEEEEECCCCCCHHHHHHHHHhC
Confidence 47999999999999999987643
No 147
>PHA00729 NTP-binding motif containing protein
Probab=93.46 E-value=0.058 Score=50.15 Aligned_cols=24 Identities=21% Similarity=0.380 Sum_probs=21.0
Q ss_pred ccEEEEcCCCchhhHHHHHHhccC
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
.||++.|.||||||.|...+++-+
T Consensus 18 ~nIlItG~pGvGKT~LA~aLa~~l 41 (226)
T PHA00729 18 VSAVIFGKQGSGKTTYALKVARDV 41 (226)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHH
Confidence 489999999999999999887643
No 148
>cd04136 Rap_like Rap-like subfamily. The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.
Probab=93.45 E-value=0.06 Score=46.54 Aligned_cols=21 Identities=24% Similarity=0.382 Sum_probs=18.3
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
.+|+++|+||+|||+|+....
T Consensus 2 ~ki~i~G~~~vGKTsl~~~~~ 22 (163)
T cd04136 2 YKVVVLGSGGVGKSALTVQFV 22 (163)
T ss_pred eEEEEECCCCCCHHHHHHHHH
Confidence 579999999999999987654
No 149
>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]
Probab=93.42 E-value=0.066 Score=47.33 Aligned_cols=38 Identities=26% Similarity=0.449 Sum_probs=28.4
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcE---EEEeccccccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRS---VITTGLGSTSAG 386 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~---v~~~G~~ss~~g 386 (420)
-+++.|..|+|||.|||.++.+.|.. ++--|+.-|..+
T Consensus 31 ~iaitGPSG~GKStllk~va~Lisp~~G~l~f~Ge~vs~~~ 71 (223)
T COG4619 31 FIAITGPSGCGKSTLLKIVASLISPTSGTLLFEGEDVSTLK 71 (223)
T ss_pred eEEEeCCCCccHHHHHHHHHhccCCCCceEEEcCccccccC
Confidence 48999999999999999999988642 334444444433
No 150
>cd04119 RJL RJL (RabJ-Like) subfamily. RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.
Probab=93.37 E-value=0.063 Score=46.50 Aligned_cols=22 Identities=27% Similarity=0.480 Sum_probs=19.2
Q ss_pred ccEEEEcCCCchhhHHHHHHhc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
+.|+++|+||+|||.|++....
T Consensus 1 ~ki~~vG~~~vGKTsli~~l~~ 22 (168)
T cd04119 1 IKVISMGNSGVGKSCIIKRYCE 22 (168)
T ss_pred CEEEEECCCCCCHHHHHHHHHh
Confidence 4699999999999999987654
No 151
>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=93.33 E-value=0.14 Score=48.01 Aligned_cols=41 Identities=34% Similarity=0.594 Sum_probs=30.2
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhccCCcE---EEEeccccccCC
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAKLSNRS---VITTGLGSTSAG 386 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~---v~~~G~~ss~~g 386 (420)
+|++ +.++|..|+|||+|||.++-+...+ |.+.|...++.|
T Consensus 28 ~GEf-vsilGpSGcGKSTLLriiAGL~~p~~G~V~~~g~~v~~p~ 71 (248)
T COG1116 28 KGEF-VAILGPSGCGKSTLLRLIAGLEKPTSGEVLLDGRPVTGPG 71 (248)
T ss_pred CCCE-EEEECCCCCCHHHHHHHHhCCCCCCCceEEECCcccCCCC
Confidence 3443 8899999999999999999998543 555665544433
No 152
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.32 E-value=0.13 Score=56.74 Aligned_cols=46 Identities=30% Similarity=0.362 Sum_probs=35.4
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccE-EEEcCCCchhhHHHHHHhccCC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHL-LLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihi-LlvGdpg~gKSqlL~~~~~~~p 372 (420)
.|.|++.++..|--.+-.|. + -|. ||.|+||+|||.+.|..++-..
T Consensus 17 dIIGQe~Iv~~LknaI~~~r---------l---~HAyLFtGPpGtGKTTLARiLAk~Ln 63 (944)
T PRK14949 17 QMVGQSHVLHALTNALTQQR---------L---HHAYLFTGTRGVGKTSLARLFAKGLN 63 (944)
T ss_pred HhcCcHHHHHHHHHHHHhCC---------C---CeEEEEECCCCCCHHHHHHHHHHhcc
Confidence 56799999987665555431 1 365 8999999999999999987664
No 153
>PF13245 AAA_19: Part of AAA domain
Probab=93.32 E-value=0.093 Score=40.10 Aligned_cols=23 Identities=35% Similarity=0.551 Sum_probs=18.4
Q ss_pred cEEEEcCCCchhh-HHHHHHhccC
Q 014661 349 HLLLVGDPGTGKS-QFLKFAAKLS 371 (420)
Q Consensus 349 hiLlvGdpg~gKS-qlL~~~~~~~ 371 (420)
.+++.|.|||||| .+++.++.+.
T Consensus 12 ~~vv~g~pGtGKT~~~~~~i~~l~ 35 (76)
T PF13245_consen 12 LFVVQGPPGTGKTTTLAARIAELL 35 (76)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHH
Confidence 3556999999999 6777777776
No 154
>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhi
Probab=93.31 E-value=0.067 Score=46.82 Aligned_cols=23 Identities=43% Similarity=0.544 Sum_probs=20.5
Q ss_pred ccEEEEcCCCchhhHHHHHHhcc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
++|+++|+||+|||.|+.....-
T Consensus 4 ~ki~vvG~~~~GKSsl~~~~~~~ 26 (167)
T cd01867 4 FKLLLIGDSGVGKSCLLLRFSED 26 (167)
T ss_pred eEEEEECCCCCCHHHHHHHHhhC
Confidence 68999999999999999987654
No 155
>cd04157 Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A
Probab=93.30 E-value=0.061 Score=46.44 Aligned_cols=22 Identities=23% Similarity=0.385 Sum_probs=19.5
Q ss_pred cEEEEcCCCchhhHHHHHHhcc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~ 370 (420)
+|+++|+||+|||.|++....-
T Consensus 1 ~i~~vG~~~~GKTsl~~~l~~~ 22 (162)
T cd04157 1 NILVVGLDNSGKTTIINQLKPE 22 (162)
T ss_pred CEEEECCCCCCHHHHHHHHccc
Confidence 6899999999999999987654
No 156
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=93.29 E-value=0.081 Score=38.72 Aligned_cols=23 Identities=30% Similarity=0.459 Sum_probs=20.4
Q ss_pred cEEEEcCCCchhhHHHHHHhccC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
..||.|+.|+|||+||.++.-+.
T Consensus 25 ~tli~G~nGsGKSTllDAi~~~L 47 (62)
T PF13555_consen 25 VTLITGPNGSGKSTLLDAIQTVL 47 (62)
T ss_pred EEEEECCCCCCHHHHHHHHHHHH
Confidence 48999999999999999987654
No 157
>cd00157 Rho Rho (Ras homology) family. Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho protein
Probab=93.14 E-value=0.071 Score=46.51 Aligned_cols=23 Identities=26% Similarity=0.333 Sum_probs=19.8
Q ss_pred ccEEEEcCCCchhhHHHHHHhcc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
++|+++|+||+|||.|++....-
T Consensus 1 iki~i~G~~~~GKSsli~~l~~~ 23 (171)
T cd00157 1 IKIVVVGDGAVGKTCLLISYTTG 23 (171)
T ss_pred CEEEEECCCCCCHHHHHHHHHhC
Confidence 57999999999999999976543
No 158
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=93.11 E-value=0.1 Score=48.88 Aligned_cols=37 Identities=24% Similarity=0.285 Sum_probs=28.9
Q ss_pred cCcccEEEEcCCCchhhHH-HHHHhccC---CcEEEEecccc
Q 014661 345 RGESHLLLVGDPGTGKSQF-LKFAAKLS---NRSVITTGLGS 382 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSql-L~~~~~~~---p~~v~~~G~~s 382 (420)
+|. -+++.|+||+|||.| ++++..++ .+.+|++...+
T Consensus 23 ~g~-~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e~~ 63 (230)
T PRK08533 23 AGS-LILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQLT 63 (230)
T ss_pred CCc-EEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCCC
Confidence 344 699999999999999 68888775 46688876543
No 159
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.10 E-value=0.17 Score=54.13 Aligned_cols=46 Identities=22% Similarity=0.283 Sum_probs=35.6
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
+|.|++.+++.+.-.+-.|.- .-.+||.|+||+|||.+.+..++..
T Consensus 17 eiiGq~~~~~~L~~~i~~~~i-----------~~a~Lf~Gp~G~GKTtlA~~lA~~l 62 (585)
T PRK14950 17 ELVGQEHVVQTLRNAIAEGRV-----------AHAYLFTGPRGVGKTSTARILAKAV 62 (585)
T ss_pred HhcCCHHHHHHHHHHHHhCCC-----------ceEEEEECCCCCCHHHHHHHHHHHh
Confidence 677999999987666665421 1136999999999999999988765
No 160
>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=93.08 E-value=0.16 Score=50.72 Aligned_cols=67 Identities=19% Similarity=0.173 Sum_probs=43.5
Q ss_pred hhhhccCCc-ccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC----------CcEE
Q 014661 307 AILRGICPQ-VFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS----------NRSV 375 (420)
Q Consensus 307 ~l~~siaP~-i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~----------p~~v 375 (420)
.|-.+..|. +.|.+.....|.-.|-.... | ...-++++.|.||||||.+++++.+-. ...+
T Consensus 7 ~l~~~~~p~~l~gRe~e~~~l~~~l~~~~~-----~---~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v 78 (365)
T TIGR02928 7 LLEPDYVPDRIVHRDEQIEELAKALRPILR-----G---SRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTV 78 (365)
T ss_pred hCCCCCCCCCCCCcHHHHHHHHHHHHHHHc-----C---CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEE
Confidence 344444554 88988887777666643211 1 111369999999999999999987532 2456
Q ss_pred EEeccc
Q 014661 376 ITTGLG 381 (420)
Q Consensus 376 ~~~G~~ 381 (420)
|+++..
T Consensus 79 ~in~~~ 84 (365)
T TIGR02928 79 YVNCQI 84 (365)
T ss_pred EEECCC
Confidence 766543
No 161
>TIGR00073 hypB hydrogenase accessory protein HypB. HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.
Probab=93.06 E-value=0.074 Score=48.81 Aligned_cols=63 Identities=19% Similarity=0.336 Sum_probs=37.5
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCC---cEEEEeccccccCCceeeEEeeCCceeeccceeeecCCceEeeec
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSN---RSVITTGLGSTSAGLTVTAVKDGGEWMLEAGALVLADGGLCCIDE 417 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p---~~v~~~G~~ss~~gLt~~~~r~~g~~~leaGalvlad~Gv~ciDe 417 (420)
.+|.++|.+|+|||+|++...+-.. +..+..|... .++.....+..| +....+.+|.+||++.
T Consensus 23 ~~i~~~G~~gsGKTTli~~l~~~~~~~~~v~v~~~~~~--~~~D~~~~~~~~-----~~~~~l~~gcic~~~~ 88 (207)
T TIGR00073 23 VVLNFMSSPGSGKTTLIEKLIDNLKDEVKIAVIEGDVI--TKFDAERLRKYG-----APAIQINTGKECHLDA 88 (207)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHhcCCeEEEEECCCC--CcccHHHHHHcC-----CcEEEEcCCCcccCCh
Confidence 4789999999999999998866533 2222222221 121111111111 3458889999998754
No 162
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=93.04 E-value=0.075 Score=45.91 Aligned_cols=22 Identities=36% Similarity=0.647 Sum_probs=19.5
Q ss_pred ccEEEEcCCCchhhHHHHHHhc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
++|+++|+||+|||.|++....
T Consensus 1 ~kv~v~G~~~~GKTtli~~l~~ 22 (164)
T smart00175 1 FKIILIGDSGVGKSSLLSRFTD 22 (164)
T ss_pred CEEEEECCCCCCHHHHHHHHhc
Confidence 4799999999999999998753
No 163
>cd04117 Rab15 Rab15 subfamily. Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to
Probab=93.04 E-value=0.075 Score=46.37 Aligned_cols=20 Identities=45% Similarity=0.630 Sum_probs=17.2
Q ss_pred ccEEEEcCCCchhhHHHHHH
Q 014661 348 SHLLLVGDPGTGKSQFLKFA 367 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~ 367 (420)
++|+++|+||+|||.|+...
T Consensus 1 ~ki~vvG~~~~GKTsli~~~ 20 (161)
T cd04117 1 FRLLLIGDSGVGKTCLLCRF 20 (161)
T ss_pred CEEEEECcCCCCHHHHHHHH
Confidence 37999999999999999543
No 164
>cd04160 Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.
Probab=93.02 E-value=0.073 Score=46.33 Aligned_cols=21 Identities=29% Similarity=0.517 Sum_probs=18.9
Q ss_pred cEEEEcCCCchhhHHHHHHhc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~ 369 (420)
+|+++|+||+|||.|++....
T Consensus 1 ~i~~vG~~~~GKstLi~~l~~ 21 (167)
T cd04160 1 SVLILGLDNAGKTTFLEQLKT 21 (167)
T ss_pred CEEEEecCCCCHHHHHHHHhh
Confidence 689999999999999998754
No 165
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=93.01 E-value=0.13 Score=48.55 Aligned_cols=59 Identities=22% Similarity=0.314 Sum_probs=39.5
Q ss_pred ccCCcccCCHHHHHHHHHHH--hcCceeeCCCCCcccC--cccEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 311 GICPQVFGLFTVKLAVALTL--IGGVQHVDASGTKVRG--ESHLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 311 siaP~i~G~~~~K~ailL~L--~gg~~~~~~~g~~~Rg--~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
-..-.+.|+|..|+.+=|-+ .-..+ ++|. .=|||+-|.|||||+.|.|+.+.=+.-.++
T Consensus 118 it~ddViGqEeAK~kcrli~~yLenPe-------~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~l 180 (368)
T COG1223 118 ITLDDVIGQEEAKRKCRLIMEYLENPE-------RFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPLL 180 (368)
T ss_pred ccHhhhhchHHHHHHHHHHHHHhhChH-------HhcccCcceeEEECCCCccHHHHHHHHhcccCCceE
Confidence 33446789999997654432 22111 1111 238999999999999999998877655544
No 166
>PRK08181 transposase; Validated
Probab=93.00 E-value=0.067 Score=51.29 Aligned_cols=23 Identities=39% Similarity=0.550 Sum_probs=20.4
Q ss_pred cEEEEcCCCchhhHHHHHHhccC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
|++|+|+||||||.|+.+++.-+
T Consensus 108 nlll~Gp~GtGKTHLa~Aia~~a 130 (269)
T PRK08181 108 NLLLFGPPGGGKSHLAAAIGLAL 130 (269)
T ss_pred eEEEEecCCCcHHHHHHHHHHHH
Confidence 79999999999999999987543
No 167
>PRK14530 adenylate kinase; Provisional
Probab=92.99 E-value=0.096 Score=48.33 Aligned_cols=30 Identities=33% Similarity=0.427 Sum_probs=24.7
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEEEe
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVITT 378 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~~~ 378 (420)
+|+++|.||+|||++.+.+++...-....+
T Consensus 5 ~I~i~G~pGsGKsT~~~~La~~~~~~~i~~ 34 (215)
T PRK14530 5 RILLLGAPGAGKGTQSSNLAEEFGVEHVTT 34 (215)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence 799999999999999999988776544433
No 168
>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.
Probab=92.98 E-value=0.078 Score=45.57 Aligned_cols=22 Identities=32% Similarity=0.430 Sum_probs=18.7
Q ss_pred ccEEEEcCCCchhhHHHHHHhc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
+.|+++|+||+|||.|++....
T Consensus 2 ~ki~iiG~~~vGKTsl~~~~~~ 23 (162)
T cd04138 2 YKLVVVGAGGVGKSALTIQLIQ 23 (162)
T ss_pred eEEEEECCCCCCHHHHHHHHHh
Confidence 4589999999999999977653
No 169
>cd04106 Rab23_lke Rab23-like subfamily. Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G
Probab=92.97 E-value=0.078 Score=45.84 Aligned_cols=22 Identities=27% Similarity=0.487 Sum_probs=19.3
Q ss_pred ccEEEEcCCCchhhHHHHHHhc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
+.|+++|+||+|||.|++....
T Consensus 1 ~kv~~vG~~~~GKTsl~~~~~~ 22 (162)
T cd04106 1 IKVIVVGNGNVGKSSMIQRFVK 22 (162)
T ss_pred CEEEEECCCCCCHHHHHHHHhc
Confidence 4699999999999999997764
No 170
>cd01892 Miro2 Miro2 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.
Probab=92.95 E-value=0.07 Score=47.07 Aligned_cols=25 Identities=28% Similarity=0.401 Sum_probs=21.1
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhc
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
|.-+.++++|++|+|||.|++....
T Consensus 2 ~~~~kv~~vG~~~vGKTsli~~~~~ 26 (169)
T cd01892 2 RNVFLCFVLGAKGSGKSALLRAFLG 26 (169)
T ss_pred CeEEEEEEECCCCCcHHHHHHHHhC
Confidence 4457899999999999999987654
No 171
>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
Probab=92.94 E-value=0.034 Score=55.21 Aligned_cols=27 Identities=26% Similarity=0.155 Sum_probs=22.8
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCCcE
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSNRS 374 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p~~ 374 (420)
.-+||-|.||||||.+.+.+++-..-.
T Consensus 149 lgllL~GPPGcGKTllAraiA~elg~~ 175 (413)
T PLN00020 149 LILGIWGGKGQGKSFQCELVFKKMGIE 175 (413)
T ss_pred eEEEeeCCCCCCHHHHHHHHHHHcCCC
Confidence 458999999999999999998776444
No 172
>cd00154 Rab Rab family. Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di
Probab=92.93 E-value=0.078 Score=45.08 Aligned_cols=23 Identities=30% Similarity=0.492 Sum_probs=19.7
Q ss_pred ccEEEEcCCCchhhHHHHHHhcc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
++|+++|+||+|||.|++....-
T Consensus 1 ~~i~~~G~~~~GKStl~~~l~~~ 23 (159)
T cd00154 1 FKIVLIGDSGVGKTSLLLRFVDG 23 (159)
T ss_pred CeEEEECCCCCCHHHHHHHHHhC
Confidence 46999999999999999977543
No 173
>cd01866 Rab2 Rab2 subfamily. Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur
Probab=92.86 E-value=0.082 Score=46.38 Aligned_cols=23 Identities=30% Similarity=0.466 Sum_probs=20.3
Q ss_pred ccEEEEcCCCchhhHHHHHHhcc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
..|++||+||+|||+|+.....-
T Consensus 5 ~ki~vvG~~~vGKSsLl~~l~~~ 27 (168)
T cd01866 5 FKYIIIGDTGVGKSCLLLQFTDK 27 (168)
T ss_pred eEEEEECCCCCCHHHHHHHHHcC
Confidence 57999999999999999988643
No 174
>cd04140 ARHI_like ARHI subfamily. ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to
Probab=92.83 E-value=0.085 Score=46.09 Aligned_cols=21 Identities=24% Similarity=0.382 Sum_probs=18.6
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
+.|+++|+||+|||.|++...
T Consensus 2 ~kv~~vG~~~vGKTsli~~~~ 22 (165)
T cd04140 2 YRVVVFGAGGVGKSSLVLRFV 22 (165)
T ss_pred eEEEEECCCCCCHHHHHHHHH
Confidence 579999999999999997654
No 175
>cd04156 ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h
Probab=92.83 E-value=0.083 Score=45.62 Aligned_cols=22 Identities=32% Similarity=0.397 Sum_probs=19.0
Q ss_pred cEEEEcCCCchhhHHHHHHhcc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~ 370 (420)
+|+++|+||+|||.|++....-
T Consensus 1 ~i~i~G~~~~GKTsl~~~~~~~ 22 (160)
T cd04156 1 QVLLLGLDSAGKSTLLYKLKHA 22 (160)
T ss_pred CEEEEcCCCCCHHHHHHHHhcC
Confidence 5899999999999999877543
No 176
>PRK12377 putative replication protein; Provisional
Probab=92.81 E-value=0.078 Score=50.21 Aligned_cols=25 Identities=24% Similarity=0.461 Sum_probs=22.2
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCC
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
-+++|.|+||||||.|+.++++-+.
T Consensus 102 ~~l~l~G~~GtGKThLa~AIa~~l~ 126 (248)
T PRK12377 102 TNFVFSGKPGTGKNHLAAAIGNRLL 126 (248)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHH
Confidence 4899999999999999999887664
No 177
>cd04155 Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.
Probab=92.80 E-value=0.087 Score=46.20 Aligned_cols=24 Identities=33% Similarity=0.477 Sum_probs=21.8
Q ss_pred cccEEEEcCCCchhhHHHHHHhcc
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
.+.++++|+||+|||+|++.....
T Consensus 14 ~~~v~i~G~~g~GKStLl~~l~~~ 37 (173)
T cd04155 14 EPRILILGLDNAGKTTILKQLASE 37 (173)
T ss_pred ccEEEEEccCCCCHHHHHHHHhcC
Confidence 578999999999999999998775
No 178
>cd04176 Rap2 Rap2 subgroup. The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl
Probab=92.80 E-value=0.087 Score=45.70 Aligned_cols=22 Identities=27% Similarity=0.593 Sum_probs=18.2
Q ss_pred ccEEEEcCCCchhhHHH-HHHhc
Q 014661 348 SHLLLVGDPGTGKSQFL-KFAAK 369 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL-~~~~~ 369 (420)
+.|+++|+||+|||.|+ +++..
T Consensus 2 ~ki~i~G~~~vGKTsl~~~~~~~ 24 (163)
T cd04176 2 YKVVVLGSGGVGKSALTVQFVSG 24 (163)
T ss_pred eEEEEECCCCCCHHHHHHHHHcC
Confidence 57999999999999998 44433
No 179
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=92.76 E-value=0.097 Score=45.08 Aligned_cols=28 Identities=25% Similarity=0.428 Sum_probs=23.4
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
+|+|+|.||+|||++.+.+++......+
T Consensus 1 ~i~l~G~~GsGKstla~~la~~l~~~~~ 28 (154)
T cd00464 1 NIVLIGMMGAGKTTVGRLLAKALGLPFV 28 (154)
T ss_pred CEEEEcCCCCCHHHHHHHHHHHhCCCEE
Confidence 5899999999999999999876655444
No 180
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=92.71 E-value=0.085 Score=44.04 Aligned_cols=26 Identities=31% Similarity=0.580 Sum_probs=18.9
Q ss_pred CcccEEEEcCCCchhhHHHHHHhccC
Q 014661 346 GESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 346 g~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
+.-++++.|+||+|||.+++...+-.
T Consensus 3 ~~~~~~i~G~~G~GKT~~~~~~~~~~ 28 (131)
T PF13401_consen 3 SQRILVISGPPGSGKTTLIKRLARQL 28 (131)
T ss_dssp ----EEEEE-TTSSHHHHHHHHHHHH
T ss_pred CCcccEEEcCCCCCHHHHHHHHHHHh
Confidence 34589999999999999999887763
No 181
>cd01862 Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-
Probab=92.70 E-value=0.086 Score=46.01 Aligned_cols=21 Identities=24% Similarity=0.610 Sum_probs=18.7
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
++|+++|+||+|||.|++...
T Consensus 1 ~ki~viG~~~~GKSsl~~~l~ 21 (172)
T cd01862 1 LKVIILGDSGVGKTSLMNQYV 21 (172)
T ss_pred CEEEEECCCCCCHHHHHHHHh
Confidence 479999999999999998764
No 182
>cd04113 Rab4 Rab4 subfamily. Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p
Probab=92.66 E-value=0.092 Score=45.45 Aligned_cols=23 Identities=30% Similarity=0.495 Sum_probs=19.7
Q ss_pred ccEEEEcCCCchhhHHHHHHhcc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
++|+++|+||+|||.|++....-
T Consensus 1 ~ki~v~G~~~vGKTsli~~l~~~ 23 (161)
T cd04113 1 FKFIIIGSSGTGKSCLLHRFVEN 23 (161)
T ss_pred CEEEEECCCCCCHHHHHHHHHhC
Confidence 47999999999999999987543
No 183
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=92.64 E-value=0.1 Score=52.90 Aligned_cols=29 Identities=38% Similarity=0.574 Sum_probs=24.4
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
-++||.|.||||||.|++++++-....++
T Consensus 180 kgvLL~GppGTGKT~LAkalA~~l~~~fi 208 (398)
T PTZ00454 180 RGVLLYGPPGTGKTMLAKAVAHHTTATFI 208 (398)
T ss_pred ceEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence 36999999999999999999887655443
No 184
>cd01868 Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP
Probab=92.62 E-value=0.092 Score=45.63 Aligned_cols=21 Identities=38% Similarity=0.662 Sum_probs=19.3
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
++|+++|+||+|||.|++...
T Consensus 4 ~ki~vvG~~~~GKSsli~~l~ 24 (165)
T cd01868 4 FKIVLIGDSGVGKSNLLSRFT 24 (165)
T ss_pred eEEEEECCCCCCHHHHHHHHh
Confidence 589999999999999999875
No 185
>cd01860 Rab5_related Rab5-related subfamily. This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo
Probab=92.61 E-value=0.096 Score=45.32 Aligned_cols=23 Identities=35% Similarity=0.439 Sum_probs=20.3
Q ss_pred ccEEEEcCCCchhhHHHHHHhcc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
+.|+++|+||+|||+|++....-
T Consensus 2 ~ki~v~G~~~~GKSsli~~l~~~ 24 (163)
T cd01860 2 FKLVLLGDSSVGKSSLVLRFVKN 24 (163)
T ss_pred eEEEEECCCCCCHHHHHHHHHcC
Confidence 57999999999999999887654
No 186
>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C ....
Probab=92.59 E-value=0.095 Score=43.37 Aligned_cols=22 Identities=32% Similarity=0.413 Sum_probs=20.1
Q ss_pred EEEEcCCCchhhHHHHHHhccC
Q 014661 350 LLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~~ 371 (420)
|+|.|-||+|||++++..++..
T Consensus 1 I~i~G~~GsGKtTia~~L~~~~ 22 (129)
T PF13238_consen 1 IGISGIPGSGKTTIAKELAERL 22 (129)
T ss_dssp EEEEESTTSSHHHHHHHHHHHH
T ss_pred CEEECCCCCCHHHHHHHHHHHH
Confidence 6899999999999999998875
No 187
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=92.55 E-value=0.098 Score=53.67 Aligned_cols=27 Identities=33% Similarity=0.544 Sum_probs=23.5
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCCcE
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSNRS 374 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p~~ 374 (420)
-++||.|.||||||.++++++.-....
T Consensus 218 ~gVLL~GPPGTGKT~LAraIA~el~~~ 244 (438)
T PTZ00361 218 KGVILYGPPGTGKTLLAKAVANETSAT 244 (438)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhhCCC
Confidence 469999999999999999999876543
No 188
>PRK13947 shikimate kinase; Provisional
Probab=92.54 E-value=0.12 Score=45.63 Aligned_cols=32 Identities=31% Similarity=0.320 Sum_probs=27.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~ 380 (420)
||+|+|-||+|||++-+.+++.....++-+..
T Consensus 3 ~I~l~G~~GsGKst~a~~La~~lg~~~id~d~ 34 (171)
T PRK13947 3 NIVLIGFMGTGKTTVGKRVATTLSFGFIDTDK 34 (171)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHhCCCEEECch
Confidence 79999999999999999998887766665543
No 189
>PRK06526 transposase; Provisional
Probab=92.54 E-value=0.09 Score=50.00 Aligned_cols=41 Identities=24% Similarity=0.257 Sum_probs=29.0
Q ss_pred HHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhcc
Q 014661 322 VKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 322 ~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
+.+..+..|..+. -+++.-|++|+|+||||||.|+.+++.-
T Consensus 81 ~~~~~~~~l~~~~--------fi~~~~nlll~Gp~GtGKThLa~al~~~ 121 (254)
T PRK06526 81 LKRDTIAHLGTLD--------FVTGKENVVFLGPPGTGKTHLAIGLGIR 121 (254)
T ss_pred cchHHHHHHhcCc--------hhhcCceEEEEeCCCCchHHHHHHHHHH
Confidence 4445556665542 2334458999999999999999987543
No 190
>cd01865 Rab3 Rab3 subfamily. The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promot
Probab=92.51 E-value=0.091 Score=45.89 Aligned_cols=24 Identities=38% Similarity=0.504 Sum_probs=20.3
Q ss_pred ccEEEEcCCCchhhHHHHHHhccC
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
..|+++|+||+|||+|++....--
T Consensus 2 ~ki~i~G~~~~GKSsli~~l~~~~ 25 (165)
T cd01865 2 FKLLIIGNSSVGKTSFLFRYADDS 25 (165)
T ss_pred eEEEEECCCCCCHHHHHHHHhcCC
Confidence 469999999999999999876543
No 191
>TIGR02528 EutP ethanolamine utilization protein, EutP. This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.
Probab=92.49 E-value=0.095 Score=44.40 Aligned_cols=21 Identities=19% Similarity=0.499 Sum_probs=18.4
Q ss_pred cEEEEcCCCchhhHHHHHHhc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~ 369 (420)
.|.++|+||+|||.|++....
T Consensus 2 kv~liG~~~vGKSsL~~~l~~ 22 (142)
T TIGR02528 2 RIMFIGSVGCGKTTLTQALQG 22 (142)
T ss_pred eEEEECCCCCCHHHHHHHHcC
Confidence 589999999999999997653
No 192
>cd01871 Rac1_like Rac1-like subfamily. The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleoti
Probab=92.49 E-value=0.09 Score=46.68 Aligned_cols=22 Identities=27% Similarity=0.348 Sum_probs=18.6
Q ss_pred cccEEEEcCCCchhhHHHHHHh
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~ 368 (420)
+++++++|++|+|||.|++...
T Consensus 1 ~~ki~iiG~~~vGKSsli~~~~ 22 (174)
T cd01871 1 AIKCVVVGDGAVGKTCLLISYT 22 (174)
T ss_pred CeEEEEECCCCCCHHHHHHHHh
Confidence 3689999999999999996443
No 193
>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily. This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali
Probab=92.48 E-value=0.098 Score=45.24 Aligned_cols=22 Identities=32% Similarity=0.419 Sum_probs=19.0
Q ss_pred ccEEEEcCCCchhhHHHHHHhc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
++|+++|+||+|||+|+.....
T Consensus 3 ~ki~i~G~~~~GKtsl~~~~~~ 24 (164)
T cd04145 3 YKLVVVGGGGVGKSALTIQFIQ 24 (164)
T ss_pred eEEEEECCCCCcHHHHHHHHHh
Confidence 6899999999999999886543
No 194
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.48 E-value=0.2 Score=50.87 Aligned_cols=45 Identities=22% Similarity=0.267 Sum_probs=33.8
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCccc-EEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESH-LLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ih-iLlvGdpg~gKSqlL~~~~~~~ 371 (420)
+|.||+.+++.+.=.+-+|. + -| +||.|+||+||+++.+..++..
T Consensus 17 eiiGq~~~~~~L~~~~~~~~---------~---~ha~lf~Gp~G~GKtt~A~~~a~~l 62 (397)
T PRK14955 17 DITAQEHITRTIQNSLRMGR---------V---GHGYIFSGLRGVGKTTAARVFAKAV 62 (397)
T ss_pred hccChHHHHHHHHHHHHhCC---------c---ceeEEEECCCCCCHHHHHHHHHHHh
Confidence 57799999986544444331 1 25 8999999999999999887655
No 195
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=92.42 E-value=0.18 Score=46.88 Aligned_cols=37 Identities=24% Similarity=0.342 Sum_probs=27.5
Q ss_pred cCcccEEEEcCCCchhhHHHHHHh-c-cC--------CcEEEEecccc
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAA-K-LS--------NRSVITTGLGS 382 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~-~-~~--------p~~v~~~G~~s 382 (420)
+|.+ +.|+|+||+|||+|+...+ . .. .+.+|+++.++
T Consensus 18 ~g~i-~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~ 64 (235)
T cd01123 18 TGSI-TEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGT 64 (235)
T ss_pred CCeE-EEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCC
Confidence 4544 6899999999999998775 2 22 46788887763
No 196
>cd01898 Obg Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.
Probab=92.41 E-value=0.099 Score=45.56 Aligned_cols=23 Identities=35% Similarity=0.468 Sum_probs=20.3
Q ss_pred cEEEEcCCCchhhHHHHHHhccC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
+|.+||+||+|||+|++......
T Consensus 2 ~v~ivG~~~~GKStl~~~l~~~~ 24 (170)
T cd01898 2 DVGLVGLPNAGKSTLLSAISNAK 24 (170)
T ss_pred CeEEECCCCCCHHHHHHHHhcCC
Confidence 68999999999999999987543
No 197
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=92.37 E-value=0.23 Score=50.12 Aligned_cols=66 Identities=20% Similarity=0.152 Sum_probs=41.7
Q ss_pred hhhccCCc-ccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC------CcEEEEecc
Q 014661 308 ILRGICPQ-VFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS------NRSVITTGL 380 (420)
Q Consensus 308 l~~siaP~-i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~------p~~v~~~G~ 380 (420)
+-.+..|. +.|.+..-..+...|-.+.. | ...-++++.|.||||||.+++++.+-. -..+|+++.
T Consensus 23 l~~~~~P~~l~~Re~e~~~l~~~l~~~~~-----~---~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~ 94 (394)
T PRK00411 23 LEPDYVPENLPHREEQIEELAFALRPALR-----G---SRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQ 94 (394)
T ss_pred CCCCCcCCCCCCHHHHHHHHHHHHHHHhC-----C---CCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECC
Confidence 34444555 55766655555555544322 1 112369999999999999999997643 345677655
Q ss_pred c
Q 014661 381 G 381 (420)
Q Consensus 381 ~ 381 (420)
.
T Consensus 95 ~ 95 (394)
T PRK00411 95 I 95 (394)
T ss_pred c
Confidence 4
No 198
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=92.35 E-value=0.11 Score=47.69 Aligned_cols=27 Identities=37% Similarity=0.576 Sum_probs=22.0
Q ss_pred CcccEEEEcCCCchhhHHH-HHHhccCC
Q 014661 346 GESHLLLVGDPGTGKSQFL-KFAAKLSN 372 (420)
Q Consensus 346 g~ihiLlvGdpg~gKSqlL-~~~~~~~p 372 (420)
..+.++++|++|+|||+|+ +++....+
T Consensus 8 ~~~kv~liG~~g~GKTtLi~~~~~~~~~ 35 (215)
T PTZ00132 8 PEFKLILVGDGGVGKTTFVKRHLTGEFE 35 (215)
T ss_pred CCceEEEECCCCCCHHHHHHHHHhCCCC
Confidence 3478999999999999999 57765543
No 199
>PRK00131 aroK shikimate kinase; Reviewed
Probab=92.28 E-value=0.12 Score=45.36 Aligned_cols=29 Identities=31% Similarity=0.424 Sum_probs=24.9
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
.+|+|+|.||+|||++.+.+++.....++
T Consensus 5 ~~i~l~G~~GsGKstla~~La~~l~~~~~ 33 (175)
T PRK00131 5 PNIVLIGFMGAGKSTIGRLLAKRLGYDFI 33 (175)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHHhCCCEE
Confidence 37999999999999999999888765444
No 200
>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis. RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.
Probab=92.25 E-value=0.15 Score=44.84 Aligned_cols=21 Identities=29% Similarity=0.512 Sum_probs=17.9
Q ss_pred cEEEEcCCCchhhHHHHHHhc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~ 369 (420)
-++|+|..|+|||.|+++...
T Consensus 37 ~~vl~G~SGvGKSSLiN~L~~ 57 (161)
T PF03193_consen 37 TSVLLGQSGVGKSSLINALLP 57 (161)
T ss_dssp EEEEECSTTSSHHHHHHHHHT
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 378999999999999996543
No 201
>cd01861 Rab6 Rab6 subfamily. Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate
Probab=92.25 E-value=0.11 Score=44.93 Aligned_cols=20 Identities=25% Similarity=0.516 Sum_probs=18.2
Q ss_pred cEEEEcCCCchhhHHHHHHh
Q 014661 349 HLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~ 368 (420)
.|+++|+||+|||.|++...
T Consensus 2 ki~liG~~~~GKSsli~~l~ 21 (161)
T cd01861 2 KLVFLGDQSVGKTSIITRFM 21 (161)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 58999999999999999874
No 202
>PRK08118 topology modulation protein; Reviewed
Probab=92.23 E-value=0.11 Score=46.12 Aligned_cols=28 Identities=29% Similarity=0.466 Sum_probs=23.3
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
.|+++|.||+|||+|.+.+++...--++
T Consensus 3 rI~I~G~~GsGKSTlak~L~~~l~~~~~ 30 (167)
T PRK08118 3 KIILIGSGGSGKSTLARQLGEKLNIPVH 30 (167)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCce
Confidence 4899999999999999999887654433
No 203
>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=92.17 E-value=0.13 Score=45.08 Aligned_cols=31 Identities=26% Similarity=0.339 Sum_probs=25.4
Q ss_pred EEEEcCCCchhhHHHHHHhccCCcEEEEeccc
Q 014661 350 LLLVGDPGTGKSQFLKFAAKLSNRSVITTGLG 381 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ 381 (420)
|+|+|.||+|||++.+..++..+ ..++++-.
T Consensus 1 i~l~G~~GsGKSTla~~l~~~l~-~~~v~~D~ 31 (163)
T TIGR01313 1 FVLMGVAGSGKSTIASALAHRLG-AKFIEGDD 31 (163)
T ss_pred CEEECCCCCCHHHHHHHHHHhcC-CeEEeCcc
Confidence 47899999999999999998876 46666644
No 204
>PRK03839 putative kinase; Provisional
Probab=92.14 E-value=0.14 Score=45.78 Aligned_cols=32 Identities=22% Similarity=0.327 Sum_probs=26.5
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~ 380 (420)
+|+|+|-||+|||++.+.+++-....++-++.
T Consensus 2 ~I~l~G~pGsGKsT~~~~La~~~~~~~id~d~ 33 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLLAEKLGYEYVDLTE 33 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCcEEehhh
Confidence 58999999999999999999887665555554
No 205
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.13 E-value=0.24 Score=52.70 Aligned_cols=45 Identities=27% Similarity=0.334 Sum_probs=35.6
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCccc-EEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESH-LLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ih-iLlvGdpg~gKSqlL~~~~~~~ 371 (420)
+|.|++.+++.+--.+-.|. --| +||.|.|||||+++.+..++..
T Consensus 14 eivGq~~i~~~L~~~i~~~r------------~~ha~Lf~Gp~G~GKTt~A~~lAk~l 59 (584)
T PRK14952 14 EVVGQEHVTEPLSSALDAGR------------INHAYLFSGPRGCGKTSSARILARSL 59 (584)
T ss_pred HhcCcHHHHHHHHHHHHcCC------------CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence 67799999988777766542 127 5899999999999999988654
No 206
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=92.11 E-value=0.17 Score=46.93 Aligned_cols=67 Identities=22% Similarity=0.183 Sum_probs=35.9
Q ss_pred EEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCceeeEEe--eCCceeeccceeeec---CCceEeeeccc
Q 014661 350 LLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTVTAVK--DGGEWMLEAGALVLA---DGGLCCIDEFD 419 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~~r--~~g~~~leaGalvla---d~Gv~ciDe~d 419 (420)
+++.|-||+|||.+++...+-. ..++....+..-++....+ +...|+++....-+. ..-.++|||+-
T Consensus 1 ~vv~G~pGsGKSt~i~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~v~s~~~~~~~~~~~~~liiDE~~ 72 (234)
T PF01443_consen 1 IVVHGVPGSGKSTLIKKLLKDR---LVVTVISPTIELYTEWLPDPPSKSVRTVDSFLKALVKPKSYDTLIIDEAQ 72 (234)
T ss_pred CEEEcCCCCCHHHHHHHHHHhc---cccccccccceeccccccccCCccccEEeEhhhcccccCcCCEEEEeccc
Confidence 4678999999999999877763 1111111111112211111 113455554333333 36789999963
No 207
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.09 E-value=0.21 Score=52.68 Aligned_cols=45 Identities=24% Similarity=0.288 Sum_probs=34.4
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCccc-EEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESH-LLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ih-iLlvGdpg~gKSqlL~~~~~~~ 371 (420)
.|.|++.++..+.-.+-.| |. .| +||.|+||+|||.+.+..++..
T Consensus 17 diiGq~~~v~~L~~~i~~~-----------rl-~ha~Lf~Gp~GvGKTTlAr~lAk~L 62 (546)
T PRK14957 17 EVAGQQHALNSLVHALETQ-----------KV-HHAYLFTGTRGVGKTTLGRLLAKCL 62 (546)
T ss_pred HhcCcHHHHHHHHHHHHcC-----------CC-CeEEEEECCCCCCHHHHHHHHHHHh
Confidence 4669999998766555443 11 25 7899999999999999998754
No 208
>smart00173 RAS Ras subfamily of RAS small GTPases. Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades
Probab=92.08 E-value=0.12 Score=44.85 Aligned_cols=21 Identities=29% Similarity=0.464 Sum_probs=18.3
Q ss_pred cEEEEcCCCchhhHHHHHHhc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~ 369 (420)
-|+++|+||+|||+|++....
T Consensus 2 ki~v~G~~~~GKTsli~~~~~ 22 (164)
T smart00173 2 KLVVLGSGGVGKSALTIQFVQ 22 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 489999999999999987753
No 209
>PRK07261 topology modulation protein; Provisional
Probab=92.07 E-value=0.15 Score=45.34 Aligned_cols=24 Identities=25% Similarity=0.473 Sum_probs=21.0
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.|+++|.||+|||+|.+.+++...
T Consensus 2 ri~i~G~~GsGKSTla~~l~~~~~ 25 (171)
T PRK07261 2 KIAIIGYSGSGKSTLARKLSQHYN 25 (171)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhC
Confidence 489999999999999999887653
No 210
>cd04127 Rab27A Rab27a subfamily. The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated
Probab=92.04 E-value=0.12 Score=45.71 Aligned_cols=21 Identities=38% Similarity=0.634 Sum_probs=19.0
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
++|+++|+||+|||.|++...
T Consensus 5 ~ki~ivG~~~vGKTsli~~~~ 25 (180)
T cd04127 5 IKFLALGDSGVGKTSFLYQYT 25 (180)
T ss_pred EEEEEECCCCCCHHHHHHHHh
Confidence 789999999999999998764
No 211
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=92.03 E-value=0.24 Score=45.25 Aligned_cols=36 Identities=28% Similarity=0.472 Sum_probs=26.3
Q ss_pred cCcccEEEEcCCCchhhHHHHHHh----ccCCcEEEEeccc
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAA----KLSNRSVITTGLG 381 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~----~~~p~~v~~~G~~ 381 (420)
+|.+ +++.|+||+|||+|....+ +.-.+++|++..+
T Consensus 11 ~g~i-~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~ 50 (209)
T TIGR02237 11 RGTI-TQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG 50 (209)
T ss_pred CCeE-EEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC
Confidence 4444 8999999999999865543 2335789998765
No 212
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=92.01 E-value=0.3 Score=51.85 Aligned_cols=46 Identities=22% Similarity=0.286 Sum_probs=34.2
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
.+.||+.++..+.=++-+|. ..-.+|+.|+||+|||.+++..++..
T Consensus 17 dIIGQe~iv~~L~~aI~~~r-----------l~hA~Lf~GP~GvGKTTlA~~lAk~L 62 (605)
T PRK05896 17 QIIGQELIKKILVNAILNNK-----------LTHAYIFSGPRGIGKTSIAKIFAKAI 62 (605)
T ss_pred HhcCcHHHHHHHHHHHHcCC-----------CCceEEEECCCCCCHHHHHHHHHHHh
Confidence 56699999976665554431 11138899999999999999988765
No 213
>CHL00176 ftsH cell division protein; Validated
Probab=91.98 E-value=0.15 Score=54.90 Aligned_cols=26 Identities=42% Similarity=0.560 Sum_probs=22.8
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCCc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
-++||.|+||||||.|+++++.-+..
T Consensus 217 ~gVLL~GPpGTGKT~LAralA~e~~~ 242 (638)
T CHL00176 217 KGVLLVGPPGTGKTLLAKAIAGEAEV 242 (638)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhCC
Confidence 46999999999999999999886643
No 214
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.96 E-value=0.2 Score=51.82 Aligned_cols=47 Identities=26% Similarity=0.295 Sum_probs=35.6
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCccc-EEEEcCCCchhhHHHHHHhccCCc
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESH-LLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ih-iLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
.+.|++.+...+.-.+-.|. + -| +||.|+||||||.+.+..++-..-
T Consensus 19 dvVGQe~iv~~L~~~i~~~r---------i---~ha~Lf~GP~GtGKTTlAriLAk~Lnc 66 (484)
T PRK14956 19 DVIHQDLAIGALQNALKSGK---------I---GHAYIFFGPRGVGKTTIARILAKRLNC 66 (484)
T ss_pred HHhChHHHHHHHHHHHHcCC---------C---CeEEEEECCCCCCHHHHHHHHHHhcCc
Confidence 46699998887666655431 1 15 799999999999999999886643
No 215
>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB. Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.
Probab=91.95 E-value=0.13 Score=45.69 Aligned_cols=28 Identities=14% Similarity=0.260 Sum_probs=23.6
Q ss_pred cccCcccEEEEcCCCchhhHHHHHHhcc
Q 014661 343 KVRGESHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 343 ~~Rg~ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
..++..+|+++|++|+|||.|++....-
T Consensus 14 ~~~~~~~i~ivG~~~~GKStlin~l~~~ 41 (179)
T TIGR03598 14 PPDDGPEIAFAGRSNVGKSSLINALTNR 41 (179)
T ss_pred CCCCCCEEEEEcCCCCCHHHHHHHHhCC
Confidence 3466789999999999999999987653
No 216
>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases. Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is
Probab=91.94 E-value=0.12 Score=45.28 Aligned_cols=21 Identities=52% Similarity=0.760 Sum_probs=18.5
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
++|+++|++|+|||.|++...
T Consensus 1 ~ki~vvG~~~vGKTsli~~~~ 21 (166)
T cd00877 1 FKLVLVGDGGTGKTTFVKRHL 21 (166)
T ss_pred CEEEEECCCCCCHHHHHHHHH
Confidence 479999999999999998764
No 217
>cd03112 CobW_like The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.
Probab=91.92 E-value=0.36 Score=42.29 Aligned_cols=21 Identities=29% Similarity=0.395 Sum_probs=18.0
Q ss_pred EEEEcCCCchhhHHHHHHhcc
Q 014661 350 LLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~ 370 (420)
+.++|.+|+|||+|++...+-
T Consensus 3 ~~l~G~~GsGKTtl~~~l~~~ 23 (158)
T cd03112 3 TVLTGFLGAGKTTLLNHILTE 23 (158)
T ss_pred EEEEECCCCCHHHHHHHHHhc
Confidence 679999999999999976544
No 218
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=91.89 E-value=0.24 Score=49.39 Aligned_cols=47 Identities=23% Similarity=0.249 Sum_probs=37.3
Q ss_pred CcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 314 PQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 314 P~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
+.++||+.++..+.-++-.|. ..--+|+.|++|+||+++.+..++..
T Consensus 23 ~~l~Gh~~a~~~L~~a~~~gr-----------l~ha~L~~G~~G~GKttlA~~lA~~L 69 (351)
T PRK09112 23 TRLFGHEEAEAFLAQAYREGK-----------LHHALLFEGPEGIGKATLAFHLANHI 69 (351)
T ss_pred hhccCcHHHHHHHHHHHHcCC-----------CCeeEeeECCCCCCHHHHHHHHHHHH
Confidence 368999999988888877652 22249999999999999998776654
No 219
>cd04175 Rap1 Rap1 subgroup. The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n
Probab=91.87 E-value=0.13 Score=44.65 Aligned_cols=21 Identities=29% Similarity=0.417 Sum_probs=17.8
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
+.|+++|+||+|||.|+....
T Consensus 2 ~ki~~~G~~~~GKTsli~~~~ 22 (164)
T cd04175 2 YKLVVLGSGGVGKSALTVQFV 22 (164)
T ss_pred cEEEEECCCCCCHHHHHHHHH
Confidence 468999999999999986643
No 220
>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]
Probab=91.86 E-value=0.09 Score=56.04 Aligned_cols=26 Identities=46% Similarity=0.668 Sum_probs=22.6
Q ss_pred EEEEcCCCchhhHHHHHHhccCCcEE
Q 014661 350 LLLVGDPGTGKSQFLKFAAKLSNRSV 375 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~~p~~v 375 (420)
+||+|.||.|||+|.+-+++=+.=+|
T Consensus 329 lLL~GppGlGKTTLAHViAkqaGYsV 354 (877)
T KOG1969|consen 329 LLLCGPPGLGKTTLAHVIAKQAGYSV 354 (877)
T ss_pred EEeecCCCCChhHHHHHHHHhcCceE
Confidence 78899999999999999999875444
No 221
>PRK06921 hypothetical protein; Provisional
Probab=91.84 E-value=0.12 Score=49.48 Aligned_cols=23 Identities=39% Similarity=0.687 Sum_probs=20.7
Q ss_pred cEEEEcCCCchhhHHHHHHhccC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
+++|.|+||+|||.|+.++++-+
T Consensus 119 ~l~l~G~~G~GKThLa~aia~~l 141 (266)
T PRK06921 119 SIALLGQPGSGKTHLLTAAANEL 141 (266)
T ss_pred eEEEECCCCCcHHHHHHHHHHHH
Confidence 79999999999999999987754
No 222
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=91.84 E-value=0.27 Score=32.93 Aligned_cols=32 Identities=34% Similarity=0.823 Sum_probs=23.1
Q ss_pred EEEecCCCceeeeccccccccceecCCCCCCCCCCCCCCCc
Q 014661 148 TYMCRKCKHMFPVYPELETRNSIVLPSHCPSQRSKPCEGTN 188 (420)
Q Consensus 148 ~f~C~~C~~~~~~~~~~~~~~~~~~P~~C~~~~~~~C~~~~ 188 (420)
.|+|..||+.|.+...+. . ..+..||. |++..
T Consensus 5 ey~C~~Cg~~fe~~~~~~---~-~~~~~CP~-----Cg~~~ 36 (42)
T PF09723_consen 5 EYRCEECGHEFEVLQSIS---E-DDPVPCPE-----CGSTE 36 (42)
T ss_pred EEEeCCCCCEEEEEEEcC---C-CCCCcCCC-----CCCCc
Confidence 699999999988765432 2 45678984 88743
No 223
>cd01863 Rab18 Rab18 subfamily. Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos
Probab=91.78 E-value=0.14 Score=44.30 Aligned_cols=23 Identities=39% Similarity=0.557 Sum_probs=19.6
Q ss_pred ccEEEEcCCCchhhHHHHHHhcc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
+.++++|+||+|||.|+.....-
T Consensus 1 ~ki~v~G~~~~GKSsli~~l~~~ 23 (161)
T cd01863 1 LKILLIGDSGVGKSSLLLRFTDD 23 (161)
T ss_pred CEEEEECCCCCCHHHHHHHHHcC
Confidence 46899999999999999877643
No 224
>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily. RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu
Probab=91.78 E-value=0.12 Score=44.95 Aligned_cols=19 Identities=26% Similarity=0.483 Sum_probs=16.5
Q ss_pred cEEEEcCCCchhhHHHHHH
Q 014661 349 HLLLVGDPGTGKSQFLKFA 367 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~ 367 (420)
+|+++|+||+|||+|+...
T Consensus 1 ki~vvG~~~~GKtsli~~~ 19 (165)
T cd04146 1 KIAVLGASGVGKSALVVRF 19 (165)
T ss_pred CEEEECCCCCcHHHHHHHH
Confidence 4899999999999998554
No 225
>cd04118 Rab24 Rab24 subfamily. Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilita
Probab=91.76 E-value=0.13 Score=46.12 Aligned_cols=21 Identities=14% Similarity=0.414 Sum_probs=18.4
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
++|+++|+||+|||.|++...
T Consensus 1 ~ki~vvG~~~vGKSsLi~~~~ 21 (193)
T cd04118 1 VKVVMLGKESVGKTSLVERYV 21 (193)
T ss_pred CEEEEECCCCCCHHHHHHHHH
Confidence 368999999999999998764
No 226
>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.
Probab=91.75 E-value=0.14 Score=43.70 Aligned_cols=23 Identities=35% Similarity=0.556 Sum_probs=20.0
Q ss_pred ccEEEEcCCCchhhHHHHHHhcc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
++|+++|+||+|||+|+.....-
T Consensus 2 ~~i~l~G~~~~GKstli~~l~~~ 24 (157)
T cd04164 2 IKVVIVGKPNVGKSSLLNALAGR 24 (157)
T ss_pred cEEEEECCCCCCHHHHHHHHHCC
Confidence 47999999999999999987653
No 227
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=91.74 E-value=0.24 Score=49.70 Aligned_cols=46 Identities=24% Similarity=0.316 Sum_probs=36.1
Q ss_pred CcccCCHHHHHHHHHHHhcCceeeCCCCCcccCccc-EEEEcCCCchhhHHHHHHhccC
Q 014661 314 PQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESH-LLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 314 P~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ih-iLlvGdpg~gKSqlL~~~~~~~ 371 (420)
..|+||+.+++.+.=++-.|.- .| +||.|.+|+||+++....++..
T Consensus 19 ~~iiGq~~~~~~L~~~~~~~rl------------~HA~Lf~Gp~G~GK~~lA~~~A~~L 65 (365)
T PRK07471 19 TALFGHAAAEAALLDAYRSGRL------------HHAWLIGGPQGIGKATLAYRMARFL 65 (365)
T ss_pred hhccChHHHHHHHHHHHHcCCC------------CceEEEECCCCCCHHHHHHHHHHHH
Confidence 3689999999998877766521 25 8999999999999887666543
No 228
>PRK09183 transposase/IS protein; Provisional
Probab=91.70 E-value=0.13 Score=49.14 Aligned_cols=24 Identities=21% Similarity=0.405 Sum_probs=20.9
Q ss_pred ccEEEEcCCCchhhHHHHHHhccC
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
-|++|+|+||+|||.|+..++..+
T Consensus 103 ~~v~l~Gp~GtGKThLa~al~~~a 126 (259)
T PRK09183 103 ENIVLLGPSGVGKTHLAIALGYEA 126 (259)
T ss_pred CeEEEEeCCCCCHHHHHHHHHHHH
Confidence 489999999999999999986553
No 229
>PRK14526 adenylate kinase; Provisional
Probab=91.70 E-value=0.16 Score=46.82 Aligned_cols=32 Identities=34% Similarity=0.527 Sum_probs=24.7
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~ 380 (420)
+++|+|.||+|||++.+..++...-....+|.
T Consensus 2 ~i~l~G~pGsGKsT~a~~La~~~~~~~is~G~ 33 (211)
T PRK14526 2 KLVFLGPPGSGKGTIAKILSNELNYYHISTGD 33 (211)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCceeecCh
Confidence 68999999999999999988665443444443
No 230
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=91.70 E-value=0.15 Score=45.84 Aligned_cols=28 Identities=36% Similarity=0.536 Sum_probs=23.9
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
.|+++|.||.|||++.+..++-.|---.
T Consensus 2 riiilG~pGaGK~T~A~~La~~~~i~hl 29 (178)
T COG0563 2 RILILGPPGAGKSTLAKKLAKKLGLPHL 29 (178)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence 5899999999999999999988665433
No 231
>cd00876 Ras Ras family. The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m
Probab=91.69 E-value=0.14 Score=43.83 Aligned_cols=21 Identities=29% Similarity=0.428 Sum_probs=18.5
Q ss_pred cEEEEcCCCchhhHHHHHHhc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~ 369 (420)
+|+++|+||+|||.|++....
T Consensus 1 ki~i~G~~~~GKTsli~~l~~ 21 (160)
T cd00876 1 KVVVLGAGGVGKSAITIQFVK 21 (160)
T ss_pred CEEEECCCCCCHHHHHHHHHh
Confidence 489999999999999998753
No 232
>cd04159 Arl10_like Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.
Probab=91.68 E-value=0.13 Score=43.70 Aligned_cols=21 Identities=29% Similarity=0.403 Sum_probs=19.2
Q ss_pred EEEEcCCCchhhHHHHHHhcc
Q 014661 350 LLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~ 370 (420)
|+++|+||+|||.|++.....
T Consensus 2 i~i~G~~~~GKssl~~~l~~~ 22 (159)
T cd04159 2 ITLVGLQNSGKTTLVNVIAGG 22 (159)
T ss_pred EEEEcCCCCCHHHHHHHHccC
Confidence 789999999999999988765
No 233
>cd04122 Rab14 Rab14 subfamily. Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GT
Probab=91.61 E-value=0.14 Score=44.61 Aligned_cols=21 Identities=33% Similarity=0.539 Sum_probs=18.6
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
+.|+++|++|+|||.|++...
T Consensus 3 ~ki~iiG~~~vGKTsli~~~~ 23 (166)
T cd04122 3 FKYIIIGDMGVGKSCLLHQFT 23 (166)
T ss_pred eEEEEECCCCCCHHHHHHHHh
Confidence 479999999999999998764
No 234
>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB. This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.
Probab=91.60 E-value=0.36 Score=42.22 Aligned_cols=22 Identities=27% Similarity=0.436 Sum_probs=18.6
Q ss_pred EEEEcCCCchhhHHHHHHhccC
Q 014661 350 LLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~~ 371 (420)
+.++|.+|+|||+|+..+.+..
T Consensus 2 i~i~G~~gsGKTtl~~~l~~~l 23 (155)
T TIGR00176 2 LQIVGPKNSGKTTLIERLVKAL 23 (155)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 5689999999999988877654
No 235
>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine
Probab=91.58 E-value=0.14 Score=44.91 Aligned_cols=22 Identities=18% Similarity=0.342 Sum_probs=19.4
Q ss_pred ccEEEEcCCCchhhHHHHHHhc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
+.|+++|+||+|||.|+.....
T Consensus 3 ~ki~vvG~~~vGKTsli~~~~~ 24 (170)
T cd04115 3 FKIIVIGDSNVGKTCLTYRFCA 24 (170)
T ss_pred eEEEEECCCCCCHHHHHHHHHh
Confidence 6799999999999999987643
No 236
>cd01858 NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.
Probab=91.56 E-value=0.3 Score=42.45 Aligned_cols=24 Identities=21% Similarity=0.360 Sum_probs=20.6
Q ss_pred CcccEEEEcCCCchhhHHHHHHhc
Q 014661 346 GESHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 346 g~ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
+.++++++|-||+|||.|++....
T Consensus 101 ~~~~v~~~G~~nvGKStliN~l~~ 124 (157)
T cd01858 101 KQISVGFIGYPNVGKSSIINTLRS 124 (157)
T ss_pred cceEEEEEeCCCCChHHHHHHHhc
Confidence 357899999999999999997753
No 237
>PHA02774 E1; Provisional
Probab=91.55 E-value=0.46 Score=50.04 Aligned_cols=53 Identities=30% Similarity=0.469 Sum_probs=35.6
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCceeeEEeeCCceeeccceeeecCCceEeeecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTVTAVKDGGEWMLEAGALVLADGGLCCIDEF 418 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~~r~~g~~~leaGalvlad~Gv~ciDe~ 418 (420)
+++|.|+||||||.|.-++.+...-.+ .+.+-....|-|.+ |+|.-++++||+
T Consensus 436 civ~~GPP~TGKS~fa~sL~~~L~G~v-------------i~fvN~~s~FwLqp----l~d~ki~vlDD~ 488 (613)
T PHA02774 436 CLVIYGPPDTGKSMFCMSLIKFLKGKV-------------ISFVNSKSHFWLQP----LADAKIALLDDA 488 (613)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCE-------------EEEEECccccccch----hccCCEEEEecC
Confidence 799999999999999888887763111 11111123444544 667778888886
No 238
>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=91.53 E-value=0.14 Score=46.41 Aligned_cols=21 Identities=33% Similarity=0.604 Sum_probs=18.3
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
+.|+++|+||+|||.|++...
T Consensus 1 ~KivivG~~~vGKTsli~~l~ 21 (201)
T cd04107 1 LKVLVIGDLGVGKTSIIKRYV 21 (201)
T ss_pred CEEEEECCCCCCHHHHHHHHH
Confidence 368999999999999998654
No 239
>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]
Probab=91.51 E-value=0.13 Score=44.08 Aligned_cols=26 Identities=46% Similarity=0.786 Sum_probs=19.6
Q ss_pred cEEEEcCCCchhhHHH-HHHhccCCcE
Q 014661 349 HLLLVGDPGTGKSQFL-KFAAKLSNRS 374 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL-~~~~~~~p~~ 374 (420)
..|++||||+|||.|| +|+......+
T Consensus 10 kllIigDsgVGKssLl~rF~ddtFs~s 36 (198)
T KOG0079|consen 10 KLLIIGDSGVGKSSLLLRFADDTFSGS 36 (198)
T ss_pred HHHeecCCcccHHHHHHHHhhcccccc
Confidence 4689999999999965 6666655544
No 240
>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t
Probab=91.51 E-value=0.15 Score=44.41 Aligned_cols=22 Identities=50% Similarity=0.638 Sum_probs=19.2
Q ss_pred ccEEEEcCCCchhhHHHHHHhc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
..|+++|+||+|||.|+.....
T Consensus 3 ~ki~i~G~~~vGKSsli~~~~~ 24 (166)
T cd01869 3 FKLLLIGDSGVGKSCLLLRFAD 24 (166)
T ss_pred EEEEEECCCCCCHHHHHHHHhc
Confidence 4699999999999999987753
No 241
>PRK05642 DNA replication initiation factor; Validated
Probab=91.50 E-value=0.21 Score=46.80 Aligned_cols=32 Identities=28% Similarity=0.341 Sum_probs=24.6
Q ss_pred ccEEEEcCCCchhhHHHHHHhcc----CCcEEEEec
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKL----SNRSVITTG 379 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~----~p~~v~~~G 379 (420)
-+++|.|++|+|||.||++++.- .-+.+|++.
T Consensus 46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~ 81 (234)
T PRK05642 46 SLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPL 81 (234)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeH
Confidence 46889999999999999998642 235666654
No 242
>cd04116 Rab9 Rab9 subfamily. Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CX
Probab=91.49 E-value=0.15 Score=44.58 Aligned_cols=22 Identities=32% Similarity=0.529 Sum_probs=19.2
Q ss_pred cccEEEEcCCCchhhHHHHHHh
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~ 368 (420)
.+.|+++|+||+|||.|++...
T Consensus 5 ~~ki~vvG~~~~GKTsli~~~~ 26 (170)
T cd04116 5 LLKVILLGDGGVGKSSLMNRYV 26 (170)
T ss_pred EEEEEEECCCCCCHHHHHHHHH
Confidence 3789999999999999998664
No 243
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.46 E-value=0.27 Score=52.60 Aligned_cols=46 Identities=26% Similarity=0.341 Sum_probs=35.5
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
.|.|++.+++.+.=.+-+|.. .-.+||.|.||+|||++.+..++-.
T Consensus 16 dVIGQe~vv~~L~~aI~~grl-----------~HAyLF~GPpGvGKTTlAriLAK~L 61 (702)
T PRK14960 16 ELVGQNHVSRALSSALERGRL-----------HHAYLFTGTRGVGKTTIARILAKCL 61 (702)
T ss_pred HhcCcHHHHHHHHHHHHcCCC-----------CeEEEEECCCCCCHHHHHHHHHHHh
Confidence 678999999887766654421 1245999999999999999887765
No 244
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=91.46 E-value=0.15 Score=45.65 Aligned_cols=22 Identities=41% Similarity=0.688 Sum_probs=19.2
Q ss_pred ccEEEEcCCCchhhHHHHHHhc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
-|++|.|+||||||.|..++++
T Consensus 48 ~~l~l~G~~G~GKThLa~ai~~ 69 (178)
T PF01695_consen 48 ENLILYGPPGTGKTHLAVAIAN 69 (178)
T ss_dssp -EEEEEESTTSSHHHHHHHHHH
T ss_pred eEEEEEhhHhHHHHHHHHHHHH
Confidence 4899999999999999888764
No 245
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=91.43 E-value=0.16 Score=45.48 Aligned_cols=26 Identities=15% Similarity=0.316 Sum_probs=22.5
Q ss_pred ccCcccEEEEcCCCchhhHHHHHHhc
Q 014661 344 VRGESHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 344 ~Rg~ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
-+.-++|.++|++|+|||.|++....
T Consensus 21 ~~~~~~v~ivG~~~~GKSsli~~l~~ 46 (196)
T PRK00454 21 PDDGPEIAFAGRSNVGKSSLINALTN 46 (196)
T ss_pred CCCCCEEEEEcCCCCCHHHHHHHHhC
Confidence 34457899999999999999998876
No 246
>cd04132 Rho4_like Rho4-like subfamily. Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.
Probab=91.42 E-value=0.15 Score=45.42 Aligned_cols=21 Identities=33% Similarity=0.605 Sum_probs=18.5
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
+.|+++|++|+|||.|++...
T Consensus 1 ~ki~vvG~~~vGKTsli~~l~ 21 (187)
T cd04132 1 KKIVVVGDGGCGKTCLLIVYS 21 (187)
T ss_pred CeEEEECCCCCCHHHHHHHHH
Confidence 469999999999999998764
No 247
>cd01876 YihA_EngB The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.
Probab=91.40 E-value=0.13 Score=44.15 Aligned_cols=19 Identities=21% Similarity=0.452 Sum_probs=18.2
Q ss_pred EEEEcCCCchhhHHHHHHh
Q 014661 350 LLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~ 368 (420)
|.|+|++|+|||.|++...
T Consensus 2 i~l~G~~g~GKTtL~~~l~ 20 (170)
T cd01876 2 IAFAGRSNVGKSSLINALT 20 (170)
T ss_pred EEEEcCCCCCHHHHHHHHh
Confidence 7899999999999999988
No 248
>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]
Probab=91.36 E-value=0.22 Score=53.43 Aligned_cols=53 Identities=36% Similarity=0.365 Sum_probs=34.7
Q ss_pred CCHHHHHHHHHHHhcCceee---CCCCCcccCcccEEEEcCCCchhhHHHHHHhccCCc
Q 014661 318 GLFTVKLAVALTLIGGVQHV---DASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 318 G~~~~K~ailL~L~gg~~~~---~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
|.+.+|.-|+=.+ +=.-+. ...|.+.| .-|||-|.|||||+-|.|+++.=..-
T Consensus 676 GLeevK~eIldTI-qlPL~hpeLfssglrkR--SGILLYGPPGTGKTLlAKAVATEcsL 731 (953)
T KOG0736|consen 676 GLEEVKTEILDTI-QLPLKHPELFSSGLRKR--SGILLYGPPGTGKTLLAKAVATECSL 731 (953)
T ss_pred CHHHHHHHHHHHh-cCcccChhhhhcccccc--ceeEEECCCCCchHHHHHHHHhhcee
Confidence 7899998776332 110000 01244434 58999999999999999999754443
No 249
>KOG0080 consensus GTPase Rab18, small G protein superfamily [General function prediction only]
Probab=91.36 E-value=0.14 Score=44.54 Aligned_cols=26 Identities=35% Similarity=0.675 Sum_probs=20.7
Q ss_pred CcccEEEEcCCCchhhHH-HHHHhccC
Q 014661 346 GESHLLLVGDPGTGKSQF-LKFAAKLS 371 (420)
Q Consensus 346 g~ihiLlvGdpg~gKSql-L~~~~~~~ 371 (420)
..+.||||||.|+|||.| |+|+....
T Consensus 10 ~t~KiLlIGeSGVGKSSLllrFv~~~f 36 (209)
T KOG0080|consen 10 TTFKILLIGESGVGKSSLLLRFVSNTF 36 (209)
T ss_pred eeEEEEEEccCCccHHHHHHHHHhccc
Confidence 347899999999999985 56776554
No 250
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=91.34 E-value=0.26 Score=45.54 Aligned_cols=38 Identities=24% Similarity=0.267 Sum_probs=27.2
Q ss_pred ccCcccEEEEcCCCchhhHHHHHHhcc-C---------CcEEEEecccc
Q 014661 344 VRGESHLLLVGDPGTGKSQFLKFAAKL-S---------NRSVITTGLGS 382 (420)
Q Consensus 344 ~Rg~ihiLlvGdpg~gKSqlL~~~~~~-~---------p~~v~~~G~~s 382 (420)
.+|.+ +.+.|+||+|||+|+..++.. + -+.+|+++.++
T Consensus 17 ~~g~v-~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~ 64 (226)
T cd01393 17 PTGRI-TEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGA 64 (226)
T ss_pred cCCcE-EEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCC
Confidence 35555 688999999999987766543 2 35588877654
No 251
>cd01893 Miro1 Miro1 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.
Probab=91.34 E-value=0.16 Score=44.42 Aligned_cols=22 Identities=32% Similarity=0.614 Sum_probs=18.9
Q ss_pred ccEEEEcCCCchhhHHHHHHhc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
+.++++|++|+|||.|++....
T Consensus 1 ~kv~ivG~~~vGKTsl~~~l~~ 22 (166)
T cd01893 1 VRIVLIGDEGVGKSSLIMSLVS 22 (166)
T ss_pred CEEEEECCCCCCHHHHHHHHHh
Confidence 4689999999999999997643
No 252
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=91.33 E-value=0.18 Score=42.93 Aligned_cols=25 Identities=28% Similarity=0.325 Sum_probs=22.5
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
.++|.|+.|+|||+|.|.+++-...
T Consensus 24 ~i~l~G~lGaGKTtl~~~l~~~lg~ 48 (133)
T TIGR00150 24 VVLLKGDLGAGKTTLVQGLLQGLGI 48 (133)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHcCC
Confidence 5999999999999999999988654
No 253
>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily.
Probab=91.31 E-value=0.16 Score=45.45 Aligned_cols=23 Identities=22% Similarity=0.312 Sum_probs=20.3
Q ss_pred cccEEEEcCCCchhhHHHHHHhc
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
.+.|+++|+||+|||.|++....
T Consensus 3 ~~kv~~vG~~~~GKTsli~~~~~ 25 (183)
T cd04152 3 SLHIVMLGLDSAGKTTVLYRLKF 25 (183)
T ss_pred ceEEEEECCCCCCHHHHHHHHhc
Confidence 47899999999999999998753
No 254
>PRK13949 shikimate kinase; Provisional
Probab=91.28 E-value=0.19 Score=44.69 Aligned_cols=28 Identities=36% Similarity=0.414 Sum_probs=23.9
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
+|+|+|-||+|||++.+..++..-..++
T Consensus 3 ~I~liG~~GsGKstl~~~La~~l~~~~i 30 (169)
T PRK13949 3 RIFLVGYMGAGKTTLGKALARELGLSFI 30 (169)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCCee
Confidence 6999999999999999999887655444
No 255
>PRK00300 gmk guanylate kinase; Provisional
Probab=91.28 E-value=0.2 Score=45.62 Aligned_cols=24 Identities=29% Similarity=0.447 Sum_probs=22.5
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
-+.|+|.+|+|||+|++.+++..|
T Consensus 7 ~i~i~G~sGsGKstl~~~l~~~~~ 30 (205)
T PRK00300 7 LIVLSGPSGAGKSTLVKALLERDP 30 (205)
T ss_pred EEEEECCCCCCHHHHHHHHHhhCc
Confidence 489999999999999999999987
No 256
>TIGR03263 guanyl_kin guanylate kinase. Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.
Probab=91.26 E-value=0.19 Score=44.68 Aligned_cols=24 Identities=25% Similarity=0.444 Sum_probs=22.0
Q ss_pred EEEEcCCCchhhHHHHHHhccCCc
Q 014661 350 LLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
++|+|.+|+|||+|++..++..|.
T Consensus 4 i~l~G~~GsGKsTl~~~L~~~~~~ 27 (180)
T TIGR03263 4 IVISGPSGVGKSTLVKALLEEDPN 27 (180)
T ss_pred EEEECCCCCCHHHHHHHHHccCcc
Confidence 789999999999999999998765
No 257
>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN. Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.
Probab=91.25 E-value=0.16 Score=45.11 Aligned_cols=23 Identities=30% Similarity=0.583 Sum_probs=20.4
Q ss_pred EEEEcCCCchhhHHHHHHhccCC
Q 014661 350 LLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~~p 372 (420)
++++|.||+|||+|++.++...+
T Consensus 4 ~~i~G~sGsGKttl~~~l~~~~~ 26 (179)
T TIGR02322 4 IYVVGPSGAGKDTLLDYARARLA 26 (179)
T ss_pred EEEECCCCCCHHHHHHHHHHHcC
Confidence 78999999999999999887653
No 258
>cd01864 Rab19 Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=91.25 E-value=0.16 Score=44.23 Aligned_cols=21 Identities=24% Similarity=0.461 Sum_probs=18.8
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
..|+++|+||+|||+|+....
T Consensus 4 ~kv~vvG~~~~GKTsli~~l~ 24 (165)
T cd01864 4 FKIILIGDSNVGKTCVVQRFK 24 (165)
T ss_pred eEEEEECCCCCCHHHHHHHHh
Confidence 579999999999999998763
No 259
>PRK06835 DNA replication protein DnaC; Validated
Probab=91.23 E-value=0.15 Score=50.37 Aligned_cols=23 Identities=39% Similarity=0.531 Sum_probs=20.9
Q ss_pred cEEEEcCCCchhhHHHHHHhccC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
+++|.|+||||||.|+.++++-+
T Consensus 185 ~Lll~G~~GtGKThLa~aIa~~l 207 (329)
T PRK06835 185 NLLFYGNTGTGKTFLSNCIAKEL 207 (329)
T ss_pred cEEEECCCCCcHHHHHHHHHHHH
Confidence 79999999999999999987754
No 260
>PRK08084 DNA replication initiation factor; Provisional
Probab=91.23 E-value=0.17 Score=47.53 Aligned_cols=22 Identities=27% Similarity=0.388 Sum_probs=19.8
Q ss_pred cEEEEcCCCchhhHHHHHHhcc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~ 370 (420)
+++|.|+||+|||.|++.+++-
T Consensus 47 ~l~l~Gp~G~GKThLl~a~~~~ 68 (235)
T PRK08084 47 YIYLWSREGAGRSHLLHAACAE 68 (235)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 7999999999999999987654
No 261
>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=91.22 E-value=0.22 Score=42.80 Aligned_cols=29 Identities=28% Similarity=0.387 Sum_probs=23.0
Q ss_pred EEEEcCCCchhhHHHHHHhccCCcEEEEec
Q 014661 350 LLLVGDPGTGKSQFLKFAAKLSNRSVITTG 379 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~~p~~v~~~G 379 (420)
++|+|-||+|||++.+..++... ..++++
T Consensus 2 i~l~G~~GsGKST~a~~l~~~~~-~~~i~~ 30 (150)
T cd02021 2 IVVMGVSGSGKSTVGKALAERLG-APFIDG 30 (150)
T ss_pred EEEEcCCCCCHHHHHHHHHhhcC-CEEEeC
Confidence 68999999999999999888743 344443
No 262
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=91.21 E-value=0.22 Score=46.11 Aligned_cols=33 Identities=24% Similarity=0.433 Sum_probs=23.1
Q ss_pred cEEEEcCCCchhhHH-HHHHhcc----CCcEEEEeccc
Q 014661 349 HLLLVGDPGTGKSQF-LKFAAKL----SNRSVITTGLG 381 (420)
Q Consensus 349 hiLlvGdpg~gKSql-L~~~~~~----~p~~v~~~G~~ 381 (420)
-+|+.|+||+|||.| ++++.+- -.+++|+|-.-
T Consensus 21 ~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee 58 (226)
T PF06745_consen 21 VVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEE 58 (226)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS
T ss_pred EEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecC
Confidence 699999999999997 4444333 56788887543
No 263
>cd04139 RalA_RalB RalA/RalB subfamily. The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo
Probab=91.19 E-value=0.17 Score=43.61 Aligned_cols=21 Identities=29% Similarity=0.389 Sum_probs=18.6
Q ss_pred cEEEEcCCCchhhHHHHHHhc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~ 369 (420)
+|.++|+||+|||.|++....
T Consensus 2 ki~~~G~~~~GKTsl~~~l~~ 22 (164)
T cd04139 2 KVIVVGAGGVGKSALTLQFMY 22 (164)
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 689999999999999887754
No 264
>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further re
Probab=91.17 E-value=0.17 Score=44.72 Aligned_cols=21 Identities=29% Similarity=0.517 Sum_probs=18.4
Q ss_pred cEEEEcCCCchhhHHHHHHhc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~ 369 (420)
+|++||++|+|||.|++....
T Consensus 2 ki~ivG~~~vGKTsli~~~~~ 22 (170)
T cd04108 2 KVIVVGDLSVGKTCLINRFCK 22 (170)
T ss_pred EEEEECCCCCCHHHHHHHHhc
Confidence 689999999999999986654
No 265
>TIGR01618 phage_P_loop phage nucleotide-binding protein. This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.
Probab=91.16 E-value=0.14 Score=47.50 Aligned_cols=25 Identities=36% Similarity=0.622 Sum_probs=21.1
Q ss_pred ccCcccEEEEcCCCchhhHHHHHHh
Q 014661 344 VRGESHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 344 ~Rg~ihiLlvGdpg~gKSqlL~~~~ 368 (420)
.|....+|+.|+||+|||.++++.+
T Consensus 9 ~~~~~~~liyG~~G~GKtt~a~~~~ 33 (220)
T TIGR01618 9 KRIPNMYLIYGKPGTGKTSTIKYLP 33 (220)
T ss_pred CCCCcEEEEECCCCCCHHHHHHhcC
Confidence 3556679999999999999998763
No 266
>cd04154 Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis.
Probab=91.14 E-value=0.17 Score=44.51 Aligned_cols=24 Identities=29% Similarity=0.401 Sum_probs=20.6
Q ss_pred CcccEEEEcCCCchhhHHHHHHhc
Q 014661 346 GESHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 346 g~ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
..+.|+++|+||+|||.|++....
T Consensus 13 ~~~kv~ivG~~~~GKTsL~~~l~~ 36 (173)
T cd04154 13 REMRILILGLDNAGKTTILKKLLG 36 (173)
T ss_pred CccEEEEECCCCCCHHHHHHHHcc
Confidence 457899999999999999987654
No 267
>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases. This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....
Probab=91.11 E-value=0.17 Score=43.75 Aligned_cols=20 Identities=30% Similarity=0.680 Sum_probs=17.1
Q ss_pred EEEEcCCCchhhHHHHHHhc
Q 014661 350 LLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~ 369 (420)
|+++||+|+|||+|++....
T Consensus 2 i~vvG~~~vGKtsl~~~~~~ 21 (162)
T PF00071_consen 2 IVVVGDSGVGKTSLINRLIN 21 (162)
T ss_dssp EEEEESTTSSHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHh
Confidence 79999999999999965544
No 268
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=91.07 E-value=0.21 Score=50.17 Aligned_cols=37 Identities=38% Similarity=0.622 Sum_probs=27.5
Q ss_pred cCcccEEEEcCCCchhhHHHHHH-hccCC---cEEEEecccc
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFA-AKLSN---RSVITTGLGS 382 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~-~~~~p---~~v~~~G~~s 382 (420)
+|. =+|+.|+||+|||+|+... ..++. +.+|++|..+
T Consensus 81 ~Gs-lvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EEs 121 (372)
T cd01121 81 PGS-VILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEES 121 (372)
T ss_pred CCe-EEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCcC
Confidence 444 4899999999999977644 45554 5679998765
No 269
>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases. Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.
Probab=91.07 E-value=0.14 Score=44.86 Aligned_cols=20 Identities=35% Similarity=0.496 Sum_probs=17.1
Q ss_pred EEEEcCCCchhhHHHHHHhc
Q 014661 350 LLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~ 369 (420)
|+++|+||+|||.|++....
T Consensus 1 i~i~G~~~vGKTsli~~~~~ 20 (174)
T smart00174 1 LVVVGDGAVGKTCLLISYTT 20 (174)
T ss_pred CEEECCCCCCHHHHHHHHHh
Confidence 58999999999999987543
No 270
>PRK00625 shikimate kinase; Provisional
Probab=91.05 E-value=0.17 Score=45.15 Aligned_cols=31 Identities=32% Similarity=0.444 Sum_probs=25.4
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEEEec
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVITTG 379 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G 379 (420)
||+|+|-||+|||++.+..++-.-..++-+.
T Consensus 2 ~I~LiG~pGsGKTT~~k~La~~l~~~~id~D 32 (173)
T PRK00625 2 QIFLCGLPTVGKTSFGKALAKFLSLPFFDTD 32 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCEEEhh
Confidence 7999999999999999999887655554443
No 271
>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1). This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).
Probab=91.03 E-value=0.35 Score=43.76 Aligned_cols=22 Identities=36% Similarity=0.407 Sum_probs=19.5
Q ss_pred ccEEEEcCCCchhhHHHHHHhc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
++|+|+|-||+|||.++..+..
T Consensus 1 ~~i~lvG~~g~GKSsl~N~ilg 22 (196)
T cd01852 1 LRLVLVGKTGAGKSATGNTILG 22 (196)
T ss_pred CEEEEECCCCCCHHHHHHHhhC
Confidence 4799999999999999998753
No 272
>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=91.03 E-value=0.24 Score=44.41 Aligned_cols=25 Identities=36% Similarity=0.505 Sum_probs=21.4
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
+|+++|.||+|||++.+..++-..-
T Consensus 1 ~I~i~G~pGsGKst~a~~La~~~~~ 25 (194)
T cd01428 1 RILLLGPPGSGKGTQAERLAKKYGL 25 (194)
T ss_pred CEEEECCCCCCHHHHHHHHHHHcCC
Confidence 4899999999999999998876543
No 273
>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=91.02 E-value=0.38 Score=53.76 Aligned_cols=61 Identities=20% Similarity=0.153 Sum_probs=41.0
Q ss_pred hhccCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCC
Q 014661 309 LRGICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 309 ~~siaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
-..+--.|+|++.+-.++.-++...... ..+ ..|-.-.+||+|.||||||.+.+..++...
T Consensus 560 ~~~l~~~v~GQ~~av~~v~~~i~~~~~g-l~~--~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~ 620 (852)
T TIGR03346 560 EEVLHERVVGQDEAVEAVSDAIRRSRAG-LSD--PNRPIGSFLFLGPTGVGKTELAKALAEFLF 620 (852)
T ss_pred HHHhhcccCCChHHHHHHHHHHHHHhcc-CCC--CCCCCeEEEEEcCCCCCHHHHHHHHHHHhc
Confidence 3456667899988777777666532110 000 012233689999999999999999998763
No 274
>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor. Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop).
Probab=91.02 E-value=0.17 Score=44.87 Aligned_cols=21 Identities=33% Similarity=0.453 Sum_probs=19.3
Q ss_pred cccEEEEcCCCchhhHHHHHH
Q 014661 347 ESHLLLVGDPGTGKSQFLKFA 367 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~ 367 (420)
.++|+++|++|+|||.|+...
T Consensus 13 ~~ki~l~G~~~~GKTsL~~~~ 33 (175)
T smart00177 13 EMRILMVGLDAAGKTTILYKL 33 (175)
T ss_pred ccEEEEEcCCCCCHHHHHHHH
Confidence 478999999999999999876
No 275
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=90.99 E-value=0.085 Score=52.68 Aligned_cols=68 Identities=32% Similarity=0.426 Sum_probs=43.1
Q ss_pred CcccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCcee-eEEeeC--CceeeccceeeecCCc-eEeeec
Q 014661 342 TKVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTV-TAVKDG--GEWMLEAGALVLADGG-LCCIDE 417 (420)
Q Consensus 342 ~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~-~~~r~~--g~~~leaGalvlad~G-v~ciDe 417 (420)
.-+| |||+-|+|||||+-..|-.++-+.- -|.--+|.-.|-|.+ +|++-+ -+|.-. +..| +++|||
T Consensus 382 apfR---NilfyGPPGTGKTm~ArelAr~SGl-DYA~mTGGDVAPlG~qaVTkiH~lFDWakk------S~rGLllFIDE 451 (630)
T KOG0742|consen 382 APFR---NILFYGPPGTGKTMFARELARHSGL-DYAIMTGGDVAPLGAQAVTKIHKLFDWAKK------SRRGLLLFIDE 451 (630)
T ss_pred chhh---heeeeCCCCCCchHHHHHHHhhcCC-ceehhcCCCccccchHHHHHHHHHHHHHhh------cccceEEEehh
Confidence 3456 8999999999999998877766543 344444445566665 333333 456433 2334 367888
Q ss_pred cc
Q 014661 418 FD 419 (420)
Q Consensus 418 ~d 419 (420)
-|
T Consensus 452 AD 453 (630)
T KOG0742|consen 452 AD 453 (630)
T ss_pred hH
Confidence 76
No 276
>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=90.98 E-value=0.24 Score=44.12 Aligned_cols=24 Identities=21% Similarity=0.336 Sum_probs=20.7
Q ss_pred EEEEcCCCchhhHHHHHHhccCCc
Q 014661 350 LLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
|+++|.||+|||++.+.+++-..-
T Consensus 2 i~i~G~pGsGKst~a~~la~~~~~ 25 (183)
T TIGR01359 2 VFVLGGPGSGKGTQCAKIVENFGF 25 (183)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCC
Confidence 789999999999999988776653
No 277
>PRK13695 putative NTPase; Provisional
Probab=90.98 E-value=0.18 Score=44.84 Aligned_cols=21 Identities=29% Similarity=0.547 Sum_probs=18.6
Q ss_pred cEEEEcCCCchhhHHHHHHhc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~ 369 (420)
+++|+|+||+|||+|++.+..
T Consensus 2 ~i~ltG~~G~GKTTll~~i~~ 22 (174)
T PRK13695 2 KIGITGPPGVGKTTLVLKIAE 22 (174)
T ss_pred EEEEECCCCCCHHHHHHHHHH
Confidence 689999999999999998643
No 278
>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []. Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.
Probab=90.98 E-value=0.17 Score=48.92 Aligned_cols=24 Identities=25% Similarity=0.556 Sum_probs=21.5
Q ss_pred cccEEEEcCCCchhhHHHHHHhcc
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
+.+||++|++|+|||++++....-
T Consensus 4 ~fnImVvG~sG~GKTTFIntL~~~ 27 (281)
T PF00735_consen 4 NFNIMVVGESGLGKTTFINTLFNS 27 (281)
T ss_dssp EEEEEEEECTTSSHHHHHHHHHTS
T ss_pred eEEEEEECCCCCCHHHHHHHHHhc
Confidence 579999999999999999987664
No 279
>PRK08727 hypothetical protein; Validated
Probab=90.98 E-value=0.27 Score=46.04 Aligned_cols=29 Identities=28% Similarity=0.344 Sum_probs=22.9
Q ss_pred EEEEcCCCchhhHHHHHHhcc----CCcEEEEe
Q 014661 350 LLLVGDPGTGKSQFLKFAAKL----SNRSVITT 378 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~----~p~~v~~~ 378 (420)
++|.|.||+|||.|+++++.- ..+++|++
T Consensus 44 l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~ 76 (233)
T PRK08727 44 LYLSGPAGTGKTHLALALCAAAEQAGRSSAYLP 76 (233)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence 999999999999999996433 33556665
No 280
>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5). All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity
Probab=90.97 E-value=0.15 Score=41.46 Aligned_cols=19 Identities=42% Similarity=0.642 Sum_probs=16.5
Q ss_pred EEEEcCCCchhhHHHHHHh
Q 014661 350 LLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~ 368 (420)
|.|.|+||+|||.|.+..+
T Consensus 1 I~i~G~~G~GKS~l~~~l~ 19 (107)
T PF00910_consen 1 IWIYGPPGIGKSTLAKELA 19 (107)
T ss_pred CEEECCCCCCHHHHHHHHH
Confidence 5789999999999998844
No 281
>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=90.94 E-value=0.2 Score=45.81 Aligned_cols=24 Identities=29% Similarity=0.528 Sum_probs=22.5
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|+|||+||+.++.+.+
T Consensus 27 ~~~i~G~nGsGKSTLl~~l~Gl~~ 50 (211)
T cd03264 27 MYGLLGPNGAGKTTLMRILATLTP 50 (211)
T ss_pred cEEEECCCCCCHHHHHHHHhCCCC
Confidence 799999999999999999998875
No 282
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=90.93 E-value=0.23 Score=44.14 Aligned_cols=31 Identities=29% Similarity=0.375 Sum_probs=25.6
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCCcEEEEe
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSNRSVITT 378 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~ 378 (420)
-+|+|+|.||+|||++.+.+++.....++-+
T Consensus 5 ~~I~liG~~GaGKStl~~~La~~l~~~~vd~ 35 (172)
T PRK05057 5 RNIFLVGPMGAGKSTIGRQLAQQLNMEFYDS 35 (172)
T ss_pred CEEEEECCCCcCHHHHHHHHHHHcCCcEEEC
Confidence 3799999999999999999998765555444
No 283
>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=90.93 E-value=0.19 Score=44.87 Aligned_cols=24 Identities=25% Similarity=0.447 Sum_probs=19.9
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
-|+++|.||+|||++++.+++-..
T Consensus 5 ii~i~G~~GsGKsTl~~~l~~~~g 28 (188)
T TIGR01360 5 IIFIVGGPGSGKGTQCEKIVEKYG 28 (188)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhC
Confidence 378899999999999998875443
No 284
>PTZ00088 adenylate kinase 1; Provisional
Probab=90.91 E-value=0.26 Score=46.16 Aligned_cols=33 Identities=33% Similarity=0.549 Sum_probs=27.0
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCCcEEEEecc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGL 380 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~ 380 (420)
.+|+++|.||+|||++.+.+++-..-....+|.
T Consensus 7 mrIvl~G~PGsGK~T~a~~La~~~g~~~is~gd 39 (229)
T PTZ00088 7 LKIVLFGAPGVGKGTFAEILSKKENLKHINMGN 39 (229)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhCCcEEECCh
Confidence 569999999999999999988876655555554
No 285
>PRK06851 hypothetical protein; Provisional
Probab=90.90 E-value=0.36 Score=48.32 Aligned_cols=23 Identities=52% Similarity=0.726 Sum_probs=20.2
Q ss_pred cEEEEcCCCchhhHHHHHHhccC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
-++|-|+||||||+|++.+++-+
T Consensus 216 ~~~i~G~pG~GKstl~~~i~~~a 238 (367)
T PRK06851 216 RYFLKGRPGTGKSTMLKKIAKAA 238 (367)
T ss_pred EEEEeCCCCCcHHHHHHHHHHHH
Confidence 38999999999999999887655
No 286
>cd01895 EngA2 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=90.89 E-value=0.2 Score=43.41 Aligned_cols=22 Identities=23% Similarity=0.480 Sum_probs=19.9
Q ss_pred ccEEEEcCCCchhhHHHHHHhc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
+.|+++|+||.|||.|+++...
T Consensus 3 ~~i~i~G~~~~GKstli~~l~~ 24 (174)
T cd01895 3 IRIAIIGRPNVGKSSLVNALLG 24 (174)
T ss_pred cEEEEEcCCCCCHHHHHHHHhC
Confidence 6799999999999999998754
No 287
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.88 E-value=0.3 Score=51.46 Aligned_cols=45 Identities=27% Similarity=0.313 Sum_probs=34.9
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCccc-EEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESH-LLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ih-iLlvGdpg~gKSqlL~~~~~~~ 371 (420)
.|.|++.+++.+.-.+-.|.- -| +||.|.||+|||++.+..++..
T Consensus 17 divGq~~v~~~L~~~i~~~~~------------~ha~Lf~Gp~G~GKTt~A~~lAk~l 62 (527)
T PRK14969 17 ELVGQEHVVRALTNALEQQRL------------HHAYLFTGTRGVGKTTLARILAKSL 62 (527)
T ss_pred HhcCcHHHHHHHHHHHHcCCC------------CEEEEEECCCCCCHHHHHHHHHHHh
Confidence 466999999977766654321 25 5899999999999999988765
No 288
>PRK11823 DNA repair protein RadA; Provisional
Probab=90.87 E-value=0.19 Score=51.76 Aligned_cols=35 Identities=37% Similarity=0.594 Sum_probs=26.6
Q ss_pred cEEEEcCCCchhhHHHHHHh-ccC---CcEEEEeccccc
Q 014661 349 HLLLVGDPGTGKSQFLKFAA-KLS---NRSVITTGLGST 383 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~-~~~---p~~v~~~G~~ss 383 (420)
-+|+.|+||+|||+|+...+ .++ .+.+|+++..+.
T Consensus 82 ~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees~ 120 (446)
T PRK11823 82 VVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEESA 120 (446)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccccH
Confidence 58999999999999766554 443 467999987653
No 289
>PF13479 AAA_24: AAA domain
Probab=90.81 E-value=0.27 Score=45.37 Aligned_cols=32 Identities=19% Similarity=0.391 Sum_probs=26.4
Q ss_pred cccEEEEcCCCchhhHHHHHHhccCCcEEEEecccc
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGS 382 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~s 382 (420)
.+.+||.|+||+|||.++... |+-++..-.+.
T Consensus 3 ~~~~lIyG~~G~GKTt~a~~~----~k~l~id~E~g 34 (213)
T PF13479_consen 3 PIKILIYGPPGSGKTTLAASL----PKPLFIDTENG 34 (213)
T ss_pred ceEEEEECCCCCCHHHHHHhC----CCeEEEEeCCC
Confidence 468999999999999999877 88888755444
No 290
>cd04110 Rab35 Rab35 subfamily. Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is
Probab=90.80 E-value=0.19 Score=45.66 Aligned_cols=23 Identities=43% Similarity=0.590 Sum_probs=19.9
Q ss_pred cccEEEEcCCCchhhHHHHHHhc
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
-+.|+++|++|+|||.|+.....
T Consensus 6 ~~kivvvG~~~vGKTsli~~l~~ 28 (199)
T cd04110 6 LFKLLIIGDSGVGKSSLLLRFAD 28 (199)
T ss_pred eeEEEEECCCCCCHHHHHHHHhc
Confidence 47899999999999999987653
No 291
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=90.78 E-value=0.37 Score=53.36 Aligned_cols=45 Identities=27% Similarity=0.333 Sum_probs=35.0
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCccc-EEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESH-LLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ih-iLlvGdpg~gKSqlL~~~~~~~ 371 (420)
+|.|++.+++.|.-.+-.|. - -| +||.|.||+||+++.+..++..
T Consensus 16 eiiGqe~v~~~L~~~i~~~r-----------i-~Ha~Lf~Gp~G~GKTt~A~~lAr~L 61 (824)
T PRK07764 16 EVIGQEHVTEPLSTALDSGR-----------I-NHAYLFSGPRGCGKTSSARILARSL 61 (824)
T ss_pred HhcCcHHHHHHHHHHHHhCC-----------C-CceEEEECCCCCCHHHHHHHHHHHh
Confidence 56799999987666665431 1 26 6899999999999999887765
No 292
>PRK12288 GTPase RsgA; Reviewed
Probab=90.77 E-value=0.4 Score=47.73 Aligned_cols=29 Identities=31% Similarity=0.446 Sum_probs=22.2
Q ss_pred EEEEcCCCchhhHHHHHHhccCCcEEEEeccc
Q 014661 350 LLLVGDPGTGKSQFLKFAAKLSNRSVITTGLG 381 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ 381 (420)
+.|+|.||+|||+|+++ |.|.....+|.-
T Consensus 208 ~~~vG~sgVGKSTLiN~---Ll~~~~~~t~~i 236 (347)
T PRK12288 208 SIFVGQSGVGKSSLINA---LLPEAEILVGDV 236 (347)
T ss_pred EEEECCCCCCHHHHHHH---hccccceeeccc
Confidence 68999999999999995 446655555544
No 293
>PLN03108 Rab family protein; Provisional
Probab=90.76 E-value=0.19 Score=46.19 Aligned_cols=23 Identities=30% Similarity=0.466 Sum_probs=20.5
Q ss_pred ccEEEEcCCCchhhHHHHHHhcc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
+.|+++|+||+|||+|++....-
T Consensus 7 ~kivivG~~gvGKStLi~~l~~~ 29 (210)
T PLN03108 7 FKYIIIGDTGVGKSCLLLQFTDK 29 (210)
T ss_pred eEEEEECCCCCCHHHHHHHHHhC
Confidence 68999999999999999988643
No 294
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=90.75 E-value=0.17 Score=49.78 Aligned_cols=25 Identities=40% Similarity=0.615 Sum_probs=21.8
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
-|||-|.||||||-|.|+|+.=..-
T Consensus 187 GVLLYGPPGTGKTLLAkAVA~~T~A 211 (406)
T COG1222 187 GVLLYGPPGTGKTLLAKAVANQTDA 211 (406)
T ss_pred ceEeeCCCCCcHHHHHHHHHhccCc
Confidence 3999999999999999999876543
No 295
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=90.74 E-value=0.21 Score=44.94 Aligned_cols=25 Identities=24% Similarity=0.482 Sum_probs=22.9
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
+++++|.+|.|||++++....+.|.
T Consensus 27 ~i~I~G~tGSGKTTll~aL~~~i~~ 51 (186)
T cd01130 27 NILISGGTGSGKTTLLNALLAFIPP 51 (186)
T ss_pred EEEEECCCCCCHHHHHHHHHhhcCC
Confidence 7999999999999999999988764
No 296
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.72 E-value=0.31 Score=52.10 Aligned_cols=46 Identities=28% Similarity=0.323 Sum_probs=35.9
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCccc-EEEEcCCCchhhHHHHHHhccCC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESH-LLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ih-iLlvGdpg~gKSqlL~~~~~~~p 372 (420)
+|.|++.+++.|.-.+-.|.- -| +||.|.+|+|||++.+..++-..
T Consensus 17 dVIGQe~vv~~L~~al~~gRL------------pHA~LFtGP~GvGKTTLAriLAkaLn 63 (700)
T PRK12323 17 TLVGQEHVVRALTHALEQQRL------------HHAYLFTGTRGVGKTTLSRILAKSLN 63 (700)
T ss_pred HHcCcHHHHHHHHHHHHhCCC------------ceEEEEECCCCCCHHHHHHHHHHHhc
Confidence 678999999977766654421 25 49999999999999999887653
No 297
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=90.71 E-value=0.34 Score=45.31 Aligned_cols=44 Identities=30% Similarity=0.409 Sum_probs=34.1
Q ss_pred cccCCHHHHHHHH---HHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhc
Q 014661 315 QVFGLFTVKLAVA---LTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 315 ~i~G~~~~K~ail---L~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
.|.|.+..|.+++ .+.+.|-+- -||||.|--|||||.|.|++-.
T Consensus 61 ~l~Gvd~qk~~L~~NT~~F~~G~pA-----------NnVLLwGaRGtGKSSLVKA~~~ 107 (287)
T COG2607 61 DLVGVDRQKEALVRNTEQFAEGLPA-----------NNVLLWGARGTGKSSLVKALLN 107 (287)
T ss_pred HHhCchHHHHHHHHHHHHHHcCCcc-----------cceEEecCCCCChHHHHHHHHH
Confidence 3568999998875 455555432 3999999999999999998743
No 298
>PRK06762 hypothetical protein; Provisional
Probab=90.67 E-value=0.24 Score=43.48 Aligned_cols=31 Identities=19% Similarity=0.408 Sum_probs=24.0
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEE-EEec
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSV-ITTG 379 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v-~~~G 379 (420)
-|+++|-||+|||++.+..++-.|.++ ++++
T Consensus 4 li~i~G~~GsGKST~A~~L~~~l~~~~~~i~~ 35 (166)
T PRK06762 4 LIIIRGNSGSGKTTIAKQLQERLGRGTLLVSQ 35 (166)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCeEEecH
Confidence 378899999999999999887765444 4443
No 299
>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign
Probab=90.65 E-value=0.18 Score=44.53 Aligned_cols=20 Identities=25% Similarity=0.393 Sum_probs=17.4
Q ss_pred ccEEEEcCCCchhhHHHHHH
Q 014661 348 SHLLLVGDPGTGKSQFLKFA 367 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~ 367 (420)
+.|+++||+|+|||.|+...
T Consensus 3 ~ki~vvG~~~vGKTsL~~~~ 22 (172)
T cd04141 3 YKIVMLGAGGVGKSAVTMQF 22 (172)
T ss_pred eEEEEECCCCCcHHHHHHHH
Confidence 57999999999999999544
No 300
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=90.62 E-value=0.2 Score=49.62 Aligned_cols=28 Identities=21% Similarity=0.398 Sum_probs=24.5
Q ss_pred CcccEEEEcCCCchhhHHHHHHhccCCc
Q 014661 346 GESHLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 346 g~ihiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
+..|||++|.+|+|||++|++.....|.
T Consensus 159 ~~~nili~G~tgSGKTTll~aL~~~ip~ 186 (332)
T PRK13900 159 SKKNIIISGGTSTGKTTFTNAALREIPA 186 (332)
T ss_pred cCCcEEEECCCCCCHHHHHHHHHhhCCC
Confidence 3358999999999999999999888774
No 301
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=90.60 E-value=0.38 Score=48.73 Aligned_cols=53 Identities=26% Similarity=0.381 Sum_probs=36.7
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCccc-EEEEcCCCchhhHHHHHHhcc
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESH-LLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ih-iLlvGdpg~gKSqlL~~~~~~ 370 (420)
.|.|++.++..+-=.+-.+.......+. +-.| +|+.|+||+||+.+.+..++.
T Consensus 6 ~IiGq~~~~~~L~~~i~~~~~~~~~~~~---~l~ha~Lf~Gp~G~GKt~lA~~lA~~ 59 (394)
T PRK07940 6 DLVGQEAVVAELRAAARAARADVAAAGS---GMTHAWLFTGPPGSGRSVAARAFAAA 59 (394)
T ss_pred hccChHHHHHHHHHHHHhccccccccCC---CCCeEEEEECCCCCcHHHHHHHHHHH
Confidence 6889999998866666654322111111 1235 889999999999999988764
No 302
>cd04133 Rop_like Rop subfamily. The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example,
Probab=90.58 E-value=0.2 Score=44.70 Aligned_cols=21 Identities=29% Similarity=0.341 Sum_probs=18.2
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
+.++++||+|+|||.|+....
T Consensus 2 ~kivv~G~~~vGKTsli~~~~ 22 (176)
T cd04133 2 IKCVTVGDGAVGKTCMLICYT 22 (176)
T ss_pred eEEEEECCCCCcHHHHHHHHh
Confidence 579999999999999887654
No 303
>cd04103 Centaurin_gamma Centaurin gamma. The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.
Probab=90.58 E-value=0.19 Score=43.89 Aligned_cols=21 Identities=29% Similarity=0.525 Sum_probs=18.0
Q ss_pred cEEEEcCCCchhhHHHH-HHhc
Q 014661 349 HLLLVGDPGTGKSQFLK-FAAK 369 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~-~~~~ 369 (420)
.|+++||+|+|||.|++ ++..
T Consensus 2 ki~vvG~~gvGKTsli~~~~~~ 23 (158)
T cd04103 2 KLGIVGNLQSGKSALVHRYLTG 23 (158)
T ss_pred EEEEECCCCCcHHHHHHHHHhC
Confidence 58999999999999997 5544
No 304
>PRK02496 adk adenylate kinase; Provisional
Probab=90.57 E-value=0.23 Score=44.49 Aligned_cols=31 Identities=32% Similarity=0.505 Sum_probs=24.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEEEec
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVITTG 379 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G 379 (420)
.++++|.||+|||++.+.+++...-....+|
T Consensus 3 ~i~i~G~pGsGKst~a~~la~~~~~~~i~~~ 33 (184)
T PRK02496 3 RLIFLGPPGAGKGTQAVVLAEHLHIPHISTG 33 (184)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCcEEEhH
Confidence 5899999999999999999876544344333
No 305
>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length. PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.
Probab=90.55 E-value=0.35 Score=47.81 Aligned_cols=56 Identities=20% Similarity=0.201 Sum_probs=38.1
Q ss_pred ccCCcccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCC
Q 014661 311 GICPQVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 311 siaP~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.-.+||++....-++=-+=.+... .-.|..| +||+|++|+|||.|.+...+..-
T Consensus 58 ~f~~~~~G~~~~i~~lV~~fk~AA~g-----~~~~krI-l~L~GPvg~GKSsl~~~Lk~~le 113 (358)
T PF08298_consen 58 FFEDEFYGMEETIERLVNYFKSAAQG-----LEERKRI-LLLLGPVGGGKSSLAELLKRGLE 113 (358)
T ss_pred CccccccCcHHHHHHHHHHHHHHHhc-----cCccceE-EEEECCCCCCHHHHHHHHHHHhh
Confidence 34457899998877766544433221 1223334 89999999999999888776653
No 306
>PRK14531 adenylate kinase; Provisional
Probab=90.55 E-value=0.24 Score=44.43 Aligned_cols=24 Identities=29% Similarity=0.470 Sum_probs=20.7
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
+|+++|.||+|||++.+.+++-..
T Consensus 4 ~i~i~G~pGsGKsT~~~~la~~~g 27 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARLCAAHG 27 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhC
Confidence 599999999999999988876654
No 307
>cd01874 Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addi
Probab=90.55 E-value=0.2 Score=44.42 Aligned_cols=21 Identities=29% Similarity=0.365 Sum_probs=18.4
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
+.++++|++|+|||.|+....
T Consensus 2 ~ki~vvG~~~vGKTsl~~~~~ 22 (175)
T cd01874 2 IKCVVVGDGAVGKTCLLISYT 22 (175)
T ss_pred eEEEEECCCCCCHHHHHHHHH
Confidence 469999999999999997664
No 308
>cd04135 Tc10 TC10 subfamily. TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interacti
Probab=90.51 E-value=0.21 Score=43.76 Aligned_cols=21 Identities=33% Similarity=0.400 Sum_probs=17.8
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
+.|+++|+||+|||.|++...
T Consensus 1 ~ki~i~G~~~~GKTsl~~~~~ 21 (174)
T cd04135 1 LKCVVVGDGAVGKTCLLMSYA 21 (174)
T ss_pred CEEEEECCCCCCHHHHHHHHH
Confidence 368999999999999987543
No 309
>PRK08116 hypothetical protein; Validated
Probab=90.50 E-value=0.21 Score=47.91 Aligned_cols=23 Identities=39% Similarity=0.439 Sum_probs=20.6
Q ss_pred ccEEEEcCCCchhhHHHHHHhcc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
..++|.|+||+|||.|+.++++-
T Consensus 115 ~gl~l~G~~GtGKThLa~aia~~ 137 (268)
T PRK08116 115 VGLLLWGSVGTGKTYLAACIANE 137 (268)
T ss_pred ceEEEECCCCCCHHHHHHHHHHH
Confidence 46999999999999999998765
No 310
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=90.50 E-value=0.21 Score=44.71 Aligned_cols=22 Identities=32% Similarity=0.433 Sum_probs=19.7
Q ss_pred cccEEEEcCCCchhhHHHHHHh
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~ 368 (420)
.+.|+++|++|+|||.|+....
T Consensus 17 ~~kv~lvG~~~vGKTsli~~~~ 38 (182)
T PTZ00133 17 EVRILMVGLDAAGKTTILYKLK 38 (182)
T ss_pred ccEEEEEcCCCCCHHHHHHHHh
Confidence 4679999999999999999874
No 311
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=90.47 E-value=0.21 Score=49.57 Aligned_cols=27 Identities=26% Similarity=0.347 Sum_probs=24.0
Q ss_pred cccEEEEcCCCchhhHHHHHHhccCCc
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
.-|||++|.+|+|||++|++.....|.
T Consensus 162 ~~nilI~G~tGSGKTTll~aLl~~i~~ 188 (344)
T PRK13851 162 RLTMLLCGPTGSGKTTMSKTLISAIPP 188 (344)
T ss_pred CCeEEEECCCCccHHHHHHHHHcccCC
Confidence 348999999999999999999887764
No 312
>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=90.47 E-value=0.25 Score=48.79 Aligned_cols=56 Identities=38% Similarity=0.419 Sum_probs=37.9
Q ss_pred cccCCHHHHH----HHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCC
Q 014661 315 QVFGLFTVKL----AVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 315 ~i~G~~~~K~----ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
+|-|.+.+|. .++|.|-. ..-. ..|.-.|-.-.|||.|+|||||+.|.+++++=+-
T Consensus 93 DIggLe~v~~~L~e~VilPlr~-pelF-~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeag 152 (386)
T KOG0737|consen 93 DIGGLEEVKDALQELVILPLRR-PELF-AKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAG 152 (386)
T ss_pred hccchHHHHHHHHHHHhhcccc-hhhh-cccccccCCccceecCCCCchHHHHHHHHHHHcC
Confidence 4678887775 44554432 1111 1233356677899999999999999999988764
No 313
>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.
Probab=90.45 E-value=0.23 Score=45.55 Aligned_cols=24 Identities=33% Similarity=0.621 Sum_probs=22.3
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
++.|+|.+|.|||+||+.++.+.+
T Consensus 28 ~~~l~G~nGsGKSTLl~~l~G~~~ 51 (213)
T cd03301 28 FVVLLGPSGCGKTTTLRMIAGLEE 51 (213)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 589999999999999999999975
No 314
>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.
Probab=90.42 E-value=0.24 Score=43.58 Aligned_cols=25 Identities=32% Similarity=0.509 Sum_probs=22.9
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
++.|+|.+|+|||+||+.++.+.|.
T Consensus 28 ~~~l~G~nGsGKSTLl~~i~G~~~~ 52 (163)
T cd03216 28 VHALLGENGAGKSTLMKILSGLYKP 52 (163)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCC
Confidence 6899999999999999999999763
No 315
>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.
Probab=90.42 E-value=0.21 Score=43.40 Aligned_cols=22 Identities=27% Similarity=0.525 Sum_probs=19.7
Q ss_pred cEEEEcCCCchhhHHHHHHhcc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~ 370 (420)
+|+++|+||+|||.|++....-
T Consensus 2 ~i~~~G~~~~GKssli~~l~~~ 23 (168)
T cd01897 2 TLVIAGYPNVGKSSLVNKLTRA 23 (168)
T ss_pred eEEEEcCCCCCHHHHHHHHhcC
Confidence 5899999999999999988764
No 316
>PTZ00035 Rad51 protein; Provisional
Probab=90.42 E-value=0.38 Score=47.76 Aligned_cols=37 Identities=22% Similarity=0.254 Sum_probs=27.2
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhcc----------CCcEEEEecccc
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAKL----------SNRSVITTGLGS 382 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~~----------~p~~v~~~G~~s 382 (420)
+|.+ +.+.|+||+|||||+...+-. .-+.+|+++.++
T Consensus 117 ~G~i-teI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~ 163 (337)
T PTZ00035 117 TGSI-TELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGT 163 (337)
T ss_pred CCeE-EEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCC
Confidence 4444 889999999999999876521 235578888775
No 317
>PRK14528 adenylate kinase; Provisional
Probab=90.42 E-value=0.25 Score=44.57 Aligned_cols=28 Identities=25% Similarity=0.469 Sum_probs=22.3
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
+|+++|.||+|||++.+.+++-..-..+
T Consensus 3 ~i~i~G~pGsGKtt~a~~la~~~~~~~i 30 (186)
T PRK14528 3 NIIFMGPPGAGKGTQAKILCERLSIPQI 30 (186)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCee
Confidence 5899999999999999998765543333
No 318
>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.
Probab=90.40 E-value=0.33 Score=41.43 Aligned_cols=24 Identities=33% Similarity=0.459 Sum_probs=21.7
Q ss_pred EEEEcCCCchhhHHHHHHhccCCc
Q 014661 350 LLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
+.|+|.+|+|||+|++.+++..|.
T Consensus 2 i~i~GpsGsGKstl~~~L~~~~~~ 25 (137)
T cd00071 2 IVLSGPSGVGKSTLLKRLLEEFDP 25 (137)
T ss_pred EEEECCCCCCHHHHHHHHHhcCCc
Confidence 678999999999999999998764
No 319
>cd04114 Rab30 Rab30 subfamily. Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=90.38 E-value=0.22 Score=43.37 Aligned_cols=21 Identities=24% Similarity=0.567 Sum_probs=19.3
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
..++++|+||+|||+|++...
T Consensus 8 ~~v~v~G~~~~GKSsli~~l~ 28 (169)
T cd04114 8 FKIVLIGNAGVGKTCLVRRFT 28 (169)
T ss_pred eEEEEECCCCCCHHHHHHHHH
Confidence 679999999999999999875
No 320
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=90.38 E-value=0.35 Score=51.92 Aligned_cols=46 Identities=35% Similarity=0.352 Sum_probs=35.4
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCccc-EEEEcCCCchhhHHHHHHhccCC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESH-LLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ih-iLlvGdpg~gKSqlL~~~~~~~p 372 (420)
+|.|++.++..+.=.+-.|. --| +||.|+||+|||++.+..++-..
T Consensus 17 divGQe~vv~~L~~~l~~~r------------l~hAyLf~Gp~GvGKTTlAr~lAk~L~ 63 (647)
T PRK07994 17 EVVGQEHVLTALANALDLGR------------LHHAYLFSGTRGVGKTTIARLLAKGLN 63 (647)
T ss_pred HhcCcHHHHHHHHHHHHcCC------------CCeEEEEECCCCCCHHHHHHHHHHhhh
Confidence 56699999987765555431 125 58999999999999999887764
No 321
>PLN03071 GTP-binding nuclear protein Ran; Provisional
Probab=90.38 E-value=0.22 Score=46.11 Aligned_cols=23 Identities=43% Similarity=0.648 Sum_probs=19.9
Q ss_pred cCcccEEEEcCCCchhhHHHHHH
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFA 367 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~ 367 (420)
...+.|++||++|+|||.|+...
T Consensus 11 ~~~~Ki~vvG~~gvGKTsli~~~ 33 (219)
T PLN03071 11 YPSFKLVIVGDGGTGKTTFVKRH 33 (219)
T ss_pred CCceEEEEECcCCCCHHHHHHHH
Confidence 34588999999999999999864
No 322
>cd04134 Rho3 Rho3 subfamily. Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.
Probab=90.37 E-value=0.21 Score=44.81 Aligned_cols=21 Identities=24% Similarity=0.586 Sum_probs=18.3
Q ss_pred cEEEEcCCCchhhHHHHHHhc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~ 369 (420)
.|+++|++|+|||.|++....
T Consensus 2 kivivG~~~vGKTsli~~~~~ 22 (189)
T cd04134 2 KVVVLGDGACGKTSLLNVFTR 22 (189)
T ss_pred EEEEECCCCCCHHHHHHHHhc
Confidence 589999999999999987643
No 323
>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional
Probab=90.36 E-value=0.2 Score=48.33 Aligned_cols=63 Identities=24% Similarity=0.367 Sum_probs=35.6
Q ss_pred ccEEEEcCCCchhhHHHHHHhccC-Cc--EEEEeccccccCCceeeEEeeCCceeeccceeeecCCceEeeec
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLS-NR--SVITTGLGSTSAGLTVTAVKDGGEWMLEAGALVLADGGLCCIDE 417 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~-p~--~v~~~G~~ss~~gLt~~~~r~~g~~~leaGalvlad~Gv~ciDe 417 (420)
.-+=|+|-||.|||+||+...+.. ++ ...+.|.-.|.. -+-.++..|. -+.-+..|++||+|.
T Consensus 105 ~~v~l~G~pGsGKTTLl~~l~~~l~~~~~~~VI~gD~~t~~--Da~rI~~~g~-----pvvqi~tG~~Chl~a 170 (290)
T PRK10463 105 LVLNLVSSPGSGKTTLLTETLMRLKDSVPCAVIEGDQQTVN--DAARIRATGT-----PAIQVNTGKGCHLDA 170 (290)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhccCCCEEEECCCcCcHH--HHHHHHhcCC-----cEEEecCCCCCcCcH
Confidence 357789999999999998876653 22 233333322211 1111111121 235567888999874
No 324
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=90.34 E-value=0.39 Score=50.24 Aligned_cols=47 Identities=23% Similarity=0.272 Sum_probs=35.4
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|++.+.+.+.-++-.|. -.-++||.|+||+|||.+.+..++-..
T Consensus 22 dliGq~~vv~~L~~ai~~~r-----------i~~a~Lf~Gp~G~GKTT~ArilAk~Ln 68 (507)
T PRK06645 22 ELQGQEVLVKVLSYTILNDR-----------LAGGYLLTGIRGVGKTTSARIIAKAVN 68 (507)
T ss_pred HhcCcHHHHHHHHHHHHcCC-----------CCceEEEECCCCCCHHHHHHHHHHHhc
Confidence 45699999886655554431 123799999999999999999988664
No 325
>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake. NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.
Probab=90.34 E-value=0.23 Score=45.71 Aligned_cols=25 Identities=32% Similarity=0.397 Sum_probs=22.7
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
.+.|+|.+|+|||+||+.++.+.|.
T Consensus 33 ~~~i~G~nGsGKSTLl~~l~Gl~~~ 57 (218)
T cd03266 33 VTGLLGPNGAGKTTTLRMLAGLLEP 57 (218)
T ss_pred EEEEECCCCCCHHHHHHHHhCCcCC
Confidence 5899999999999999999999753
No 326
>PTZ00369 Ras-like protein; Provisional
Probab=90.32 E-value=0.22 Score=44.70 Aligned_cols=22 Identities=36% Similarity=0.451 Sum_probs=18.7
Q ss_pred cccEEEEcCCCchhhHHHHHHh
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~ 368 (420)
.+.|+++|+||+|||+|+....
T Consensus 5 ~~Ki~iiG~~~~GKTsLi~~~~ 26 (189)
T PTZ00369 5 EYKLVVVGGGGVGKSALTIQFI 26 (189)
T ss_pred ceEEEEECCCCCCHHHHHHHHh
Confidence 3689999999999999987554
No 327
>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK. Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.
Probab=90.31 E-value=0.23 Score=46.91 Aligned_cols=32 Identities=28% Similarity=0.263 Sum_probs=25.9
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
.+.|+|++|+|||+||+.++.+.|. .|+..|.
T Consensus 31 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~g~ 65 (253)
T TIGR02323 31 VLGIVGESGSGKSTLLGCLAGRLAPDHGTATYIMR 65 (253)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCcEEEEecc
Confidence 5899999999999999999999753 2555553
No 328
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=90.28 E-value=0.28 Score=47.53 Aligned_cols=31 Identities=32% Similarity=0.440 Sum_probs=26.0
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEEEec
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVITTG 379 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G 379 (420)
.|+++|-||+|||++.+..++-.|..+++++
T Consensus 4 liil~G~pGSGKSTla~~L~~~~~~~~~l~~ 34 (300)
T PHA02530 4 IILTVGVPGSGKSTWAREFAAKNPKAVNVNR 34 (300)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHCCCCEEEec
Confidence 5788999999999999999887766666664
No 329
>cd04125 RabA_like RabA-like subfamily. RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells. The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression. The function of RabA remains unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=90.28 E-value=0.22 Score=44.50 Aligned_cols=22 Identities=36% Similarity=0.603 Sum_probs=19.1
Q ss_pred ccEEEEcCCCchhhHHHHHHhc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
+.|+++|++|+|||.|++....
T Consensus 1 ~ki~v~G~~~vGKSsli~~~~~ 22 (188)
T cd04125 1 FKVVIIGDYGVGKSSLLKRFTE 22 (188)
T ss_pred CEEEEECCCCCCHHHHHHHHhc
Confidence 3689999999999999997753
No 330
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=90.25 E-value=0.3 Score=42.82 Aligned_cols=29 Identities=28% Similarity=0.531 Sum_probs=23.1
Q ss_pred CcccEEEEcCCCchhhHHHHHHh-ccCCcE
Q 014661 346 GESHLLLVGDPGTGKSQFLKFAA-KLSNRS 374 (420)
Q Consensus 346 g~ihiLlvGdpg~gKSqlL~~~~-~~~p~~ 374 (420)
.-+.|.+-|.||+|||++++.++ .+..++
T Consensus 4 ~~mki~ITG~PGvGKtTl~~ki~e~L~~~g 33 (179)
T COG1618 4 MAMKIFITGRPGVGKTTLVLKIAEKLREKG 33 (179)
T ss_pred cceEEEEeCCCCccHHHHHHHHHHHHHhcC
Confidence 34679999999999999988887 554553
No 331
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=90.20 E-value=0.32 Score=47.50 Aligned_cols=34 Identities=21% Similarity=0.288 Sum_probs=25.6
Q ss_pred cEEEEcCCCchhhHHHHHHh-cc---------CCcEEEEecccc
Q 014661 349 HLLLVGDPGTGKSQFLKFAA-KL---------SNRSVITTGLGS 382 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~-~~---------~p~~v~~~G~~s 382 (420)
=+++.|+||+|||||+-..+ .. -.+++|++..++
T Consensus 97 i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~ 140 (310)
T TIGR02236 97 ITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENT 140 (310)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCC
Confidence 47899999999999866543 32 137899988874
No 332
>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu
Probab=90.17 E-value=0.23 Score=42.73 Aligned_cols=23 Identities=26% Similarity=0.351 Sum_probs=19.6
Q ss_pred cEEEEcCCCchhhHHHHHHhccC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
.|.++|+||+|||+|+.....--
T Consensus 1 ki~iiG~~~~GKssli~~~~~~~ 23 (158)
T cd00878 1 RILILGLDGAGKTTILYKLKLGE 23 (158)
T ss_pred CEEEEcCCCCCHHHHHHHHhcCC
Confidence 37899999999999999886553
No 333
>PF13521 AAA_28: AAA domain; PDB: 1LW7_A.
Probab=90.15 E-value=0.22 Score=43.58 Aligned_cols=21 Identities=29% Similarity=0.607 Sum_probs=17.9
Q ss_pred EEEEcCCCchhhHHHHHHhcc
Q 014661 350 LLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~ 370 (420)
|.|.|-||||||+|++..++.
T Consensus 2 I~i~G~~stGKTTL~~~L~~~ 22 (163)
T PF13521_consen 2 IVITGGPSTGKTTLIEALAAR 22 (163)
T ss_dssp EEEE--TTSHHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHc
Confidence 789999999999999999988
No 334
>cd01394 radB RadB. The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.
Probab=90.15 E-value=0.38 Score=44.25 Aligned_cols=37 Identities=27% Similarity=0.378 Sum_probs=26.0
Q ss_pred cCcccEEEEcCCCchhhHHHHHHh-ccC---CcEEEEecccc
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAA-KLS---NRSVITTGLGS 382 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~-~~~---p~~v~~~G~~s 382 (420)
+|.+ +++.|+||+|||+|....+ ..+ .+.+|+++.+.
T Consensus 18 ~g~i-~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~e~~ 58 (218)
T cd01394 18 RGTV-TQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDTEGL 58 (218)
T ss_pred CCeE-EEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEECCCC
Confidence 4544 7899999999999865544 332 46778877543
No 335
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=90.13 E-value=0.23 Score=47.11 Aligned_cols=24 Identities=25% Similarity=0.537 Sum_probs=21.4
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.++|+|+||+|||.+++.+.+..+
T Consensus 45 ~~~l~G~~G~GKTtl~~~l~~~l~ 68 (269)
T TIGR03015 45 FILITGEVGAGKTTLIRNLLKRLD 68 (269)
T ss_pred EEEEEcCCCCCHHHHHHHHHHhcC
Confidence 488999999999999999987765
No 336
>PRK13540 cytochrome c biogenesis protein CcmA; Provisional
Probab=90.08 E-value=0.26 Score=44.84 Aligned_cols=32 Identities=34% Similarity=0.469 Sum_probs=25.8
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
.+.|+|++|+|||+||+.++.+.+. .++..|.
T Consensus 29 ~~~l~G~nGsGKSTLl~~i~G~~~~~~G~v~~~g~ 63 (200)
T PRK13540 29 LLHLKGSNGAGKTTLLKLIAGLLNPEKGEILFERQ 63 (200)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCCCeeEEECCC
Confidence 5889999999999999999999752 2455554
No 337
>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1. This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.
Probab=90.08 E-value=0.39 Score=47.10 Aligned_cols=34 Identities=15% Similarity=0.124 Sum_probs=26.1
Q ss_pred cEEEEcCCCchhhHHHHHHh--c--------cCCcEEEEecccc
Q 014661 349 HLLLVGDPGTGKSQFLKFAA--K--------LSNRSVITTGLGS 382 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~--~--------~~p~~v~~~G~~s 382 (420)
=+++.|+||+|||||.-..+ . ...+++|++..++
T Consensus 98 iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~ 141 (313)
T TIGR02238 98 ITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGT 141 (313)
T ss_pred EEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCC
Confidence 48999999999999886433 1 1247899988886
No 338
>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=90.08 E-value=0.25 Score=45.14 Aligned_cols=24 Identities=21% Similarity=0.342 Sum_probs=22.0
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|+|||+||+..+.+.|
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~G~~~ 51 (210)
T cd03269 28 IFGLLGPNGAGKTTTIRMILGIIL 51 (210)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 588999999999999999999865
No 339
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=90.07 E-value=0.42 Score=42.52 Aligned_cols=33 Identities=33% Similarity=0.376 Sum_probs=24.1
Q ss_pred EEEEcCCCchhhHHHH----HHhccCCcEEEEecccc
Q 014661 350 LLLVGDPGTGKSQFLK----FAAKLSNRSVITTGLGS 382 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~----~~~~~~p~~v~~~G~~s 382 (420)
+|+.|+||+|||.|.. ..++--.+.+|+|...+
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e~~ 38 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEES 38 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECCCC
Confidence 7899999999999553 23344567888886544
No 340
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.07 E-value=0.43 Score=50.05 Aligned_cols=46 Identities=30% Similarity=0.384 Sum_probs=36.2
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCccc-EEEEcCCCchhhHHHHHHhccCC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESH-LLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ih-iLlvGdpg~gKSqlL~~~~~~~p 372 (420)
+|.|++.+++.+.=.+-.|. + -| +|+.|+||+|||++.+..++-..
T Consensus 17 divGq~~v~~~L~~~~~~~~---------l---~ha~Lf~Gp~G~GKTt~A~~lAk~l~ 63 (509)
T PRK14958 17 EVIGQAPVVRALSNALDQQY---------L---HHAYLFTGTRGVGKTTISRILAKCLN 63 (509)
T ss_pred HhcCCHHHHHHHHHHHHhCC---------C---CeeEEEECCCCCCHHHHHHHHHHHhc
Confidence 57799999998877775441 1 25 69999999999999999888653
No 341
>PRK08939 primosomal protein DnaI; Reviewed
Probab=90.06 E-value=0.22 Score=48.70 Aligned_cols=24 Identities=42% Similarity=0.429 Sum_probs=21.6
Q ss_pred ccEEEEcCCCchhhHHHHHHhccC
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
-+++|.|+||||||.|+.+++.-+
T Consensus 157 ~gl~L~G~~G~GKThLa~Aia~~l 180 (306)
T PRK08939 157 KGLYLYGDFGVGKSYLLAAIANEL 180 (306)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHH
Confidence 479999999999999999987765
No 342
>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=90.05 E-value=0.26 Score=54.23 Aligned_cols=28 Identities=39% Similarity=0.535 Sum_probs=24.2
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
++||.|+||||||.|++++++.....++
T Consensus 214 giLL~GppGtGKT~laraia~~~~~~~i 241 (733)
T TIGR01243 214 GVLLYGPPGTGKTLLAKAVANEAGAYFI 241 (733)
T ss_pred eEEEECCCCCChHHHHHHHHHHhCCeEE
Confidence 6999999999999999999987765443
No 343
>cd04149 Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed t
Probab=90.05 E-value=0.24 Score=43.58 Aligned_cols=22 Identities=27% Similarity=0.403 Sum_probs=19.7
Q ss_pred cccEEEEcCCCchhhHHHHHHh
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~ 368 (420)
.+.|+++|+||+|||.|++...
T Consensus 9 ~~kv~i~G~~~~GKTsli~~l~ 30 (168)
T cd04149 9 EMRILMLGLDAAGKTTILYKLK 30 (168)
T ss_pred ccEEEEECcCCCCHHHHHHHHc
Confidence 4789999999999999998764
No 344
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=90.04 E-value=0.6 Score=49.64 Aligned_cols=45 Identities=31% Similarity=0.366 Sum_probs=34.9
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCccc-EEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESH-LLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ih-iLlvGdpg~gKSqlL~~~~~~~ 371 (420)
.+.|++.++..+--++-.|.. -| +||.|.||||||++.+..++-.
T Consensus 17 ~viGq~~v~~~L~~~i~~~~~------------~hayLf~Gp~GtGKTt~Ak~lAkal 62 (559)
T PRK05563 17 DVVGQEHITKTLKNAIKQGKI------------SHAYLFSGPRGTGKTSAAKIFAKAV 62 (559)
T ss_pred hccCcHHHHHHHHHHHHcCCC------------CeEEEEECCCCCCHHHHHHHHHHHh
Confidence 567999999877766665421 25 6889999999999999887654
No 345
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=90.01 E-value=0.31 Score=50.40 Aligned_cols=34 Identities=35% Similarity=0.590 Sum_probs=26.3
Q ss_pred cEEEEcCCCchhhHHHHHH-hccCC---cEEEEecccc
Q 014661 349 HLLLVGDPGTGKSQFLKFA-AKLSN---RSVITTGLGS 382 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~-~~~~p---~~v~~~G~~s 382 (420)
-+|+.|+||+|||+|+..+ ..++. +.+|++|..+
T Consensus 96 vilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs 133 (454)
T TIGR00416 96 LILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEES 133 (454)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcCC
Confidence 3789999999999987765 44554 4689998754
No 346
>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.
Probab=90.01 E-value=0.25 Score=45.40 Aligned_cols=25 Identities=32% Similarity=0.574 Sum_probs=22.6
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
.+.|+|.+|+|||+||+.++.+.|.
T Consensus 32 ~~~l~G~nGsGKSTLl~~i~Gl~~~ 56 (218)
T cd03255 32 FVAIVGPSGSGKSTLLNILGGLDRP 56 (218)
T ss_pred EEEEEcCCCCCHHHHHHHHhCCcCC
Confidence 5899999999999999999999753
No 347
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.98 E-value=0.44 Score=51.23 Aligned_cols=47 Identities=28% Similarity=0.357 Sum_probs=35.9
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.||+.++.-+.=.+-.| |-.-++||.|+||+||+.+.+..++...
T Consensus 17 ~liGq~~i~~~L~~~l~~~-----------rl~~a~Lf~Gp~G~GKttlA~~lAk~L~ 63 (620)
T PRK14948 17 ELVGQEAIATTLKNALISN-----------RIAPAYLFTGPRGTGKTSSARILAKSLN 63 (620)
T ss_pred hccChHHHHHHHHHHHHcC-----------CCCceEEEECCCCCChHHHHHHHHHHhc
Confidence 5669999987765555543 1223799999999999999999988764
No 348
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=89.96 E-value=0.25 Score=45.43 Aligned_cols=35 Identities=31% Similarity=0.627 Sum_probs=26.8
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
+|++ +.++|..|+|||+|||.+..|-+. .+++.|.
T Consensus 27 ~Gev-v~iiGpSGSGKSTlLRclN~LE~~~~G~I~i~g~ 64 (240)
T COG1126 27 KGEV-VVIIGPSGSGKSTLLRCLNGLEEPDSGSITVDGE 64 (240)
T ss_pred CCCE-EEEECCCCCCHHHHHHHHHCCcCCCCceEEECCE
Confidence 4444 889999999999999999888653 3555553
No 349
>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group. A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.
Probab=89.96 E-value=0.27 Score=44.80 Aligned_cols=24 Identities=29% Similarity=0.606 Sum_probs=22.2
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
++.|+|.+|+|||+||+.++.+.+
T Consensus 26 ~~~i~G~nGsGKSTLl~~l~G~~~ 49 (206)
T TIGR03608 26 MYAIIGESGSGKSTLLNIIGLLEK 49 (206)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 489999999999999999999875
No 350
>PRK13541 cytochrome c biogenesis protein CcmA; Provisional
Probab=89.94 E-value=0.27 Score=44.54 Aligned_cols=24 Identities=29% Similarity=0.476 Sum_probs=22.4
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|.|||+||+.++.+.|
T Consensus 28 ~~~l~G~nGsGKSTLl~~l~G~~~ 51 (195)
T PRK13541 28 ITYIKGANGCGKSSLLRMIAGIMQ 51 (195)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 689999999999999999999975
No 351
>cd04123 Rab21 Rab21 subfamily. The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site
Probab=89.94 E-value=0.26 Score=42.29 Aligned_cols=21 Identities=19% Similarity=0.411 Sum_probs=18.4
Q ss_pred cEEEEcCCCchhhHHHHHHhc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~ 369 (420)
.|+++|+||+|||.|++....
T Consensus 2 ki~i~G~~~~GKStli~~l~~ 22 (162)
T cd04123 2 KVVLLGEGRVGKTSLVLRYVE 22 (162)
T ss_pred EEEEECCCCCCHHHHHHHHHh
Confidence 589999999999999987654
No 352
>KOG0078 consensus GTP-binding protein SEC4, small G protein superfamily, and related Ras family GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=89.93 E-value=0.2 Score=45.61 Aligned_cols=30 Identities=33% Similarity=0.381 Sum_probs=23.5
Q ss_pred cccEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
-+++|+|||+|+|||-+|-..+.=+...-|
T Consensus 12 ~~kvlliGDs~vGKt~~l~rf~d~~f~~~~ 41 (207)
T KOG0078|consen 12 LFKLLLIGDSGVGKTCLLLRFSDDSFNTSF 41 (207)
T ss_pred EEEEEEECCCCCchhHhhhhhhhccCcCCc
Confidence 378999999999999988776665554444
No 353
>cd04144 Ras2 Ras2 subfamily. The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.
Probab=89.92 E-value=0.25 Score=44.43 Aligned_cols=19 Identities=32% Similarity=0.564 Sum_probs=17.1
Q ss_pred EEEEcCCCchhhHHHHHHh
Q 014661 350 LLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~ 368 (420)
|+++|+||+|||+|++...
T Consensus 2 i~ivG~~~vGKTsli~~l~ 20 (190)
T cd04144 2 LVVLGDGGVGKTALTIQLC 20 (190)
T ss_pred EEEECCCCCCHHHHHHHHH
Confidence 7999999999999998764
No 354
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=89.89 E-value=0.24 Score=47.15 Aligned_cols=46 Identities=22% Similarity=0.281 Sum_probs=30.6
Q ss_pred CCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhcc
Q 014661 318 GLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 318 G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
+...+.+..+..+..+..... .+ =+++|.|+||+|||.|+-+++.=
T Consensus 83 ~~~~~~~~~l~~~~~~~~~~~-~~------~nl~l~G~~G~GKThLa~Ai~~~ 128 (254)
T COG1484 83 FQPGIDKKALEDLASLVEFFE-RG------ENLVLLGPPGVGKTHLAIAIGNE 128 (254)
T ss_pred CCcchhHHHHHHHHHHHHHhc-cC------CcEEEECCCCCcHHHHHHHHHHH
Confidence 444455566666666553322 11 27999999999999998877543
No 355
>PRK07952 DNA replication protein DnaC; Validated
Probab=89.88 E-value=0.24 Score=46.79 Aligned_cols=23 Identities=26% Similarity=0.508 Sum_probs=21.0
Q ss_pred cEEEEcCCCchhhHHHHHHhccC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
+++|.|+||||||.|+.+++.-+
T Consensus 101 ~~~l~G~~GtGKThLa~aia~~l 123 (244)
T PRK07952 101 SFIFSGKPGTGKNHLAAAICNEL 123 (244)
T ss_pred eEEEECCCCCCHHHHHHHHHHHH
Confidence 79999999999999999987765
No 356
>cd04111 Rab39 Rab39 subfamily. Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=89.87 E-value=0.25 Score=45.44 Aligned_cols=22 Identities=36% Similarity=0.573 Sum_probs=19.5
Q ss_pred ccEEEEcCCCchhhHHHHHHhc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
..|+++|++|+|||.|++....
T Consensus 3 ~KIvvvG~~~vGKTsLi~~l~~ 24 (211)
T cd04111 3 FRLIVIGDSTVGKSSLLKRFTE 24 (211)
T ss_pred eEEEEECCCCCCHHHHHHHHHc
Confidence 5799999999999999998754
No 357
>cd04109 Rab28 Rab28 subfamily. First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumbly the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs
Probab=89.83 E-value=0.25 Score=45.45 Aligned_cols=21 Identities=24% Similarity=0.442 Sum_probs=18.5
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
+.|+++|+||+|||.|++...
T Consensus 1 ~Ki~ivG~~~vGKSsLi~~l~ 21 (215)
T cd04109 1 FKIVVLGDGAVGKTSLCRRFA 21 (215)
T ss_pred CEEEEECcCCCCHHHHHHHHh
Confidence 368999999999999998764
No 358
>PRK15494 era GTPase Era; Provisional
Probab=89.81 E-value=0.67 Score=46.01 Aligned_cols=21 Identities=29% Similarity=0.553 Sum_probs=19.1
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
..|.++|+||+|||+|++...
T Consensus 53 ~kV~ivG~~nvGKSTLin~l~ 73 (339)
T PRK15494 53 VSVCIIGRPNSGKSTLLNRII 73 (339)
T ss_pred eEEEEEcCCCCCHHHHHHHHh
Confidence 589999999999999998764
No 359
>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases. Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.
Probab=89.81 E-value=0.28 Score=43.92 Aligned_cols=23 Identities=22% Similarity=0.498 Sum_probs=20.3
Q ss_pred cccEEEEcCCCchhhHHHHHHhc
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
.++|+++|.||+|||.|++....
T Consensus 17 ~~~i~ivG~~~~GKTsli~~l~~ 39 (184)
T smart00178 17 HAKILFLGLDNAGKTTLLHMLKN 39 (184)
T ss_pred cCEEEEECCCCCCHHHHHHHHhc
Confidence 37899999999999999988754
No 360
>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane. The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.
Probab=89.80 E-value=0.28 Score=44.98 Aligned_cols=24 Identities=42% Similarity=0.589 Sum_probs=22.2
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
++.|+|.+|+|||+||+.++.+.+
T Consensus 29 ~~~i~G~nGsGKSTLl~~l~G~~~ 52 (214)
T cd03292 29 FVFLVGPSGAGKSTLLKLIYKEEL 52 (214)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 588999999999999999999975
No 361
>cd01870 RhoA_like RhoA-like subfamily. The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranyl
Probab=89.79 E-value=0.26 Score=43.21 Aligned_cols=21 Identities=38% Similarity=0.591 Sum_probs=18.8
Q ss_pred cEEEEcCCCchhhHHHHHHhc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~ 369 (420)
.|+++|++|+|||.|++....
T Consensus 3 ki~iiG~~~~GKTsl~~~~~~ 23 (175)
T cd01870 3 KLVIVGDGACGKTCLLIVFSK 23 (175)
T ss_pred EEEEECCCCCCHHHHHHHHhc
Confidence 589999999999999987765
No 362
>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=89.78 E-value=0.27 Score=45.73 Aligned_cols=25 Identities=24% Similarity=0.472 Sum_probs=22.9
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
.+.|+|.+|+|||+||+.++.+.|.
T Consensus 33 ~~~l~G~nGsGKSTLl~~l~G~~~~ 57 (233)
T cd03258 33 IFGIIGRSGAGKSTLIRCINGLERP 57 (233)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCC
Confidence 6889999999999999999999863
No 363
>PRK06217 hypothetical protein; Validated
Probab=89.77 E-value=0.35 Score=43.33 Aligned_cols=28 Identities=14% Similarity=0.255 Sum_probs=24.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
+|+|+|-||+|||++.+..++.....++
T Consensus 3 ~I~i~G~~GsGKSTla~~L~~~l~~~~~ 30 (183)
T PRK06217 3 RIHITGASGSGTTTLGAALAERLDIPHL 30 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCcEE
Confidence 5999999999999999999988765444
No 364
>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.
Probab=89.76 E-value=0.26 Score=43.17 Aligned_cols=21 Identities=29% Similarity=0.509 Sum_probs=18.2
Q ss_pred EEEEcCCCchhhHHHHHHhcc
Q 014661 350 LLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~ 370 (420)
|+++|++|+|||.|++....-
T Consensus 2 i~ivG~~~vGKTsli~~~~~~ 22 (164)
T cd04162 2 ILVLGLDGAGKTSLLHSLSSE 22 (164)
T ss_pred EEEECCCCCCHHHHHHHHhcC
Confidence 799999999999999876643
No 365
>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD. This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.
Probab=89.74 E-value=0.37 Score=44.83 Aligned_cols=25 Identities=36% Similarity=0.339 Sum_probs=22.5
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
.+.|+|.+|+|||+||+.++.+.+.
T Consensus 14 ~~~i~G~nGsGKSTLl~~l~Gl~~p 38 (230)
T TIGR02770 14 VLALVGESGSGKSLTCLAILGLLPP 38 (230)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCC
Confidence 5889999999999999999999753
No 366
>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein. Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.
Probab=89.73 E-value=0.27 Score=46.04 Aligned_cols=32 Identities=28% Similarity=0.588 Sum_probs=25.6
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
.+.|+|++|+|||+||+.++.+.+. .++..|.
T Consensus 30 ~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i~~~g~ 64 (243)
T TIGR02315 30 FVAIIGPSGAGKSTLLRCINRLVEPSSGSILLEGT 64 (243)
T ss_pred EEEEECCCCCCHHHHHHHHhCCcCCCccEEEECCE
Confidence 5899999999999999999998753 2444453
No 367
>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.
Probab=89.70 E-value=0.29 Score=43.59 Aligned_cols=25 Identities=28% Similarity=0.486 Sum_probs=22.9
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
++.++|.+|.|||+||+..+.+.|.
T Consensus 30 ~~~i~G~nGsGKStLl~~l~G~~~~ 54 (178)
T cd03247 30 KIALLGRSGSGKSTLLQLLTGDLKP 54 (178)
T ss_pred EEEEECCCCCCHHHHHHHHhccCCC
Confidence 6899999999999999999999763
No 368
>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor. The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=89.70 E-value=0.41 Score=45.25 Aligned_cols=32 Identities=28% Similarity=0.504 Sum_probs=24.8
Q ss_pred CCCcccCcccEEEEcCCCchhhHHHHHHhccCC
Q 014661 340 SGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 340 ~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.|.-..|+ .+.|+|.+|+|||+||+.++.+.+
T Consensus 19 ~~~i~~Ge-~~~i~G~NGsGKSTLlk~L~G~~~ 50 (246)
T cd03237 19 GGSISESE-VIGILGPNGIGKTTFIKMLAGVLK 50 (246)
T ss_pred cCCcCCCC-EEEEECCCCCCHHHHHHHHhCCCc
Confidence 33333444 478899999999999999999865
No 369
>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=89.69 E-value=0.3 Score=43.26 Aligned_cols=25 Identities=36% Similarity=0.650 Sum_probs=22.8
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
.+.|+|++|.|||+||+.++.+.|.
T Consensus 30 ~~~l~G~nGsGKstLl~~i~G~~~~ 54 (171)
T cd03228 30 KVAIVGPSGSGKSTLLKLLLRLYDP 54 (171)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCCC
Confidence 5889999999999999999999763
No 370
>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=89.67 E-value=0.079 Score=53.63 Aligned_cols=98 Identities=30% Similarity=0.312 Sum_probs=53.4
Q ss_pred cccCCHHHHHHHHHHHhcCceee-CCCCC--cccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCceeeE
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHV-DASGT--KVRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTVTA 391 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~-~~~g~--~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~ 391 (420)
.|-|.+++|+++--..+=..-+. .-.|. -.| -+||.|.||+||+-|.+++|.=+--.++ .-|+..||...
T Consensus 154 di~gl~~~k~~l~e~vi~p~lr~d~F~glr~p~r---glLLfGPpgtGKtmL~~aiAsE~~atff----~iSassLtsK~ 226 (428)
T KOG0740|consen 154 DIAGLEDAKQSLKEAVILPLLRPDLFLGLREPVR---GLLLFGPPGTGKTMLAKAIATESGATFF----NISASSLTSKY 226 (428)
T ss_pred CCcchhhHHHHhhhhhhhcccchHhhhccccccc---hhheecCCCCchHHHHHHHHhhhcceEe----eccHHHhhhhc
Confidence 45688888876654433211110 00011 134 4899999999999999999876644433 23555666544
Q ss_pred EeeCCceeeccceeeecC--CceEeeecccC
Q 014661 392 VKDGGEWMLEAGALVLAD--GGLCCIDEFDR 420 (420)
Q Consensus 392 ~r~~g~~~leaGalvlad--~Gv~ciDe~dK 420 (420)
+=+ +|..+.|=--|--. =+|..|||.|+
T Consensus 227 ~Ge-~eK~vralf~vAr~~qPsvifidEids 256 (428)
T KOG0740|consen 227 VGE-SEKLVRALFKVARSLQPSVIFIDEIDS 256 (428)
T ss_pred cCh-HHHHHHHHHHHHHhcCCeEEEechhHH
Confidence 322 23333221111111 15777999885
No 371
>cd04131 Rnd Rnd subfamily. The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=89.67 E-value=0.27 Score=43.92 Aligned_cols=21 Identities=33% Similarity=0.593 Sum_probs=18.3
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
+.|+++||+|+|||.|+....
T Consensus 2 ~Kiv~vG~~~vGKTsli~~~~ 22 (178)
T cd04131 2 CKIVVVGDVQCGKTALLQVFA 22 (178)
T ss_pred eEEEEECCCCCCHHHHHHHHH
Confidence 469999999999999997654
No 372
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=89.66 E-value=0.48 Score=48.99 Aligned_cols=46 Identities=24% Similarity=0.240 Sum_probs=33.2
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
+|.|++.++..+.=.+-.|.- .-.+||.|+||+||+.+.+..++..
T Consensus 18 diiGq~~~v~~L~~~i~~~~i-----------~ha~Lf~Gp~G~GKtt~A~~lAk~l 63 (451)
T PRK06305 18 EILGQDAVVAVLKNALRFNRA-----------AHAYLFSGIRGTGKTTLARIFAKAL 63 (451)
T ss_pred HhcCcHHHHHHHHHHHHcCCC-----------ceEEEEEcCCCCCHHHHHHHHHHHh
Confidence 577999998755544433311 1137899999999999999887754
No 373
>cd04142 RRP22 RRP22 subfamily. RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated.
Probab=89.66 E-value=0.27 Score=44.78 Aligned_cols=20 Identities=25% Similarity=0.597 Sum_probs=17.4
Q ss_pred cEEEEcCCCchhhHHHHHHh
Q 014661 349 HLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~ 368 (420)
.|.++|+||+|||.|+....
T Consensus 2 kI~ivG~~~vGKTsLi~~~~ 21 (198)
T cd04142 2 RVAVLGAPGVGKTAIVRQFL 21 (198)
T ss_pred EEEEECCCCCcHHHHHHHHH
Confidence 68999999999999997643
No 374
>cd04150 Arf1_5_like Arf1-Arf5-like subfamily. This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents
Probab=89.64 E-value=0.26 Score=42.84 Aligned_cols=21 Identities=29% Similarity=0.390 Sum_probs=18.5
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
+.|+++|++|+|||.|++...
T Consensus 1 ~kv~~~G~~~~GKTsli~~l~ 21 (159)
T cd04150 1 MRILMVGLDAAGKTTILYKLK 21 (159)
T ss_pred CEEEEECCCCCCHHHHHHHHh
Confidence 368999999999999999863
No 375
>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight
Probab=89.64 E-value=0.27 Score=44.13 Aligned_cols=22 Identities=32% Similarity=0.603 Sum_probs=18.8
Q ss_pred cccEEEEcCCCchhhHHHHHHh
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~ 368 (420)
.+.|+++||+|+|||.|++...
T Consensus 5 ~~KivvvGd~~vGKTsli~~~~ 26 (182)
T cd04172 5 KCKIVVVGDSQCGKTALLHVFA 26 (182)
T ss_pred eEEEEEECCCCCCHHHHHHHHH
Confidence 3579999999999999988654
No 376
>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=89.63 E-value=0.26 Score=46.12 Aligned_cols=41 Identities=29% Similarity=0.397 Sum_probs=31.6
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcE---EEEeccccccCCcee
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRS---VITTGLGSTSAGLTV 389 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~---v~~~G~~ss~~gLt~ 389 (420)
-+=|||.+|.|||+|||-++.+.|.. |.++|+-++--+|.+
T Consensus 55 ~vGiiG~NGaGKSTLlkliaGi~~Pt~G~v~v~G~v~~li~lg~ 98 (249)
T COG1134 55 RVGIIGHNGAGKSTLLKLIAGIYKPTSGKVKVTGKVAPLIELGA 98 (249)
T ss_pred EEEEECCCCCcHHHHHHHHhCccCCCCceEEEcceEehhhhccc
Confidence 47899999999999999999998753 666777665444443
No 377
>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM
Probab=89.60 E-value=0.29 Score=44.79 Aligned_cols=25 Identities=28% Similarity=0.571 Sum_probs=22.5
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
++.|+|.+|+|||+||+..+.+.|.
T Consensus 28 ~~~l~G~nGsGKSTLl~~l~G~~~~ 52 (213)
T cd03262 28 VVVIIGPSGSGKSTLLRCINLLEEP 52 (213)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCC
Confidence 5889999999999999999998753
No 378
>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra
Probab=89.59 E-value=0.3 Score=43.32 Aligned_cols=32 Identities=28% Similarity=0.454 Sum_probs=25.4
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
.+.|+|++|.|||+||+.++.+.+. .++..|.
T Consensus 30 ~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~g~ 64 (173)
T cd03246 30 SLAIIGPSGSGKSTLARLILGLLRPTSGRVRLDGA 64 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHhccCCCCCeEEECCE
Confidence 5889999999999999999998753 2444443
No 379
>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional
Probab=89.57 E-value=0.38 Score=45.45 Aligned_cols=24 Identities=33% Similarity=0.631 Sum_probs=22.2
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|++|+|||+||+.++.+.+
T Consensus 35 ~~~i~G~nGsGKSTLl~~l~Gl~~ 58 (254)
T PRK14273 35 ITALIGPSGCGKSTFLRTLNRMND 58 (254)
T ss_pred EEEEECCCCCCHHHHHHHHhcccc
Confidence 588999999999999999998875
No 380
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=89.56 E-value=0.42 Score=52.21 Aligned_cols=47 Identities=21% Similarity=0.309 Sum_probs=33.2
Q ss_pred cccCCHHHHH--HHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccCC
Q 014661 315 QVFGLFTVKL--AVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 315 ~i~G~~~~K~--ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
++.|++.+-. ..+-.++.. +.--|+||.|+||||||.+++.+++-..
T Consensus 29 d~vGQe~ii~~~~~L~~~i~~-----------~~~~slLL~GPpGtGKTTLA~aIA~~~~ 77 (725)
T PRK13341 29 EFVGQDHILGEGRLLRRAIKA-----------DRVGSLILYGPPGVGKTTLARIIANHTR 77 (725)
T ss_pred HhcCcHHHhhhhHHHHHHHhc-----------CCCceEEEECCCCCCHHHHHHHHHHHhc
Confidence 4568877643 445555532 1113899999999999999999987654
No 381
>cd04129 Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors).
Probab=89.54 E-value=0.27 Score=44.00 Aligned_cols=20 Identities=35% Similarity=0.639 Sum_probs=18.5
Q ss_pred cEEEEcCCCchhhHHHHHHh
Q 014661 349 HLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~ 368 (420)
+++++|++|+|||.|++...
T Consensus 3 Ki~ivG~~g~GKStLl~~l~ 22 (187)
T cd04129 3 KLVIVGDGACGKTSLLSVFT 22 (187)
T ss_pred EEEEECCCCCCHHHHHHHHH
Confidence 68999999999999999875
No 382
>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural
Probab=89.52 E-value=0.46 Score=38.84 Aligned_cols=20 Identities=30% Similarity=0.512 Sum_probs=18.2
Q ss_pred cEEEEcCCCchhhHHHHHHh
Q 014661 349 HLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~ 368 (420)
-++|+|.+|+|||+||+...
T Consensus 17 ~v~I~GpSGsGKSTLl~~l~ 36 (107)
T cd00820 17 GVLITGDSGIGKTELALELI 36 (107)
T ss_pred EEEEEcCCCCCHHHHHHHhh
Confidence 57999999999999999965
No 383
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.52 E-value=0.51 Score=49.11 Aligned_cols=45 Identities=18% Similarity=0.235 Sum_probs=32.8
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhcc
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
.+.|++.+++.+-=.+-.| |-.-++||.|.||+|||++.+..++-
T Consensus 14 dliGQe~vv~~L~~a~~~~-----------ri~ha~Lf~Gp~G~GKTT~ArilAk~ 58 (491)
T PRK14964 14 DLVGQDVLVRILRNAFTLN-----------KIPQSILLVGASGVGKTTCARIISLC 58 (491)
T ss_pred HhcCcHHHHHHHHHHHHcC-----------CCCceEEEECCCCccHHHHHHHHHHH
Confidence 5679999988554333332 11126999999999999999999873
No 384
>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional
Probab=89.50 E-value=0.3 Score=45.31 Aligned_cols=24 Identities=38% Similarity=0.717 Sum_probs=22.4
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|++|+|||+||+.++.+.+
T Consensus 38 ~~~i~G~nGsGKSTLl~~i~Gl~~ 61 (228)
T PRK10584 38 TIALIGESGSGKSTLLAILAGLDD 61 (228)
T ss_pred EEEEECCCCCCHHHHHHHHHcCCC
Confidence 689999999999999999999975
No 385
>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=89.49 E-value=0.27 Score=43.74 Aligned_cols=26 Identities=19% Similarity=0.317 Sum_probs=23.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcE
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRS 374 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~ 374 (420)
.|+|.|-||+|||++.+..++..+..
T Consensus 4 ~i~l~G~~gsGKst~a~~l~~~~~~~ 29 (175)
T cd00227 4 IIILNGGSSAGKSSIARALQSVLAEP 29 (175)
T ss_pred EEEEECCCCCCHHHHHHHHHHhhCCC
Confidence 48999999999999999999887654
No 386
>cd04130 Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus,
Probab=89.48 E-value=0.26 Score=43.37 Aligned_cols=20 Identities=30% Similarity=0.434 Sum_probs=17.4
Q ss_pred ccEEEEcCCCchhhHHHHHH
Q 014661 348 SHLLLVGDPGTGKSQFLKFA 367 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~ 367 (420)
+.++++|+||+|||.|++..
T Consensus 1 ~k~~i~G~~~~GKtsl~~~~ 20 (173)
T cd04130 1 LKCVLVGDGAVGKTSLIVSY 20 (173)
T ss_pred CEEEEECCCCCCHHHHHHHH
Confidence 46899999999999998665
No 387
>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.
Probab=89.47 E-value=0.31 Score=43.51 Aligned_cols=32 Identities=31% Similarity=0.441 Sum_probs=26.0
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
.+.|+|++|+|||+||+.++.+.+. .|+..|.
T Consensus 27 ~~~l~G~nGsGKStLl~~i~G~~~~~~G~v~~~g~ 61 (180)
T cd03214 27 IVGILGPNGAGKSTLLKTLAGLLKPSSGEILLDGK 61 (180)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCcEEEECCE
Confidence 6889999999999999999998753 2555554
No 388
>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=89.46 E-value=0.31 Score=43.19 Aligned_cols=25 Identities=28% Similarity=0.406 Sum_probs=22.6
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
.+.|+|.+|.|||+||+..+.+.|.
T Consensus 28 ~~~i~G~nGsGKStLl~~l~G~~~~ 52 (173)
T cd03230 28 IYGLLGPNGAGKTTLIKIILGLLKP 52 (173)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCC
Confidence 5889999999999999999998753
No 389
>PRK09984 phosphonate/organophosphate ester transporter subunit; Provisional
Probab=89.46 E-value=0.38 Score=45.68 Aligned_cols=33 Identities=27% Similarity=0.420 Sum_probs=27.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc------EEEEeccc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR------SVITTGLG 381 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~------~v~~~G~~ 381 (420)
.+.|+|.+|+|||+||+.++.+.+. .|+..|..
T Consensus 32 ~~~i~G~nGsGKSTLl~~i~G~~~p~~~~~G~i~~~g~~ 70 (262)
T PRK09984 32 MVALLGPSGSGKSTLLRHLSGLITGDKSAGSHIELLGRT 70 (262)
T ss_pred EEEEECCCCCCHHHHHHHHhccCCCCCCCceEEEECCEe
Confidence 4899999999999999999999752 56666654
No 390
>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE. Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.
Probab=89.44 E-value=0.29 Score=45.42 Aligned_cols=24 Identities=29% Similarity=0.378 Sum_probs=22.3
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|+|||+||+..+.+.|
T Consensus 28 ~~~l~G~nGsGKSTLl~~l~G~~~ 51 (230)
T TIGR03410 28 VTCVLGRNGVGKTTLLKTLMGLLP 51 (230)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 589999999999999999999875
No 391
>PRK13543 cytochrome c biogenesis protein CcmA; Provisional
Probab=89.41 E-value=0.3 Score=44.92 Aligned_cols=24 Identities=42% Similarity=0.672 Sum_probs=22.2
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
++.|+|++|+|||+||+.++.+.+
T Consensus 39 ~~~i~G~nGsGKSTLl~~i~G~~~ 62 (214)
T PRK13543 39 ALLVQGDNGAGKTTLLRVLAGLLH 62 (214)
T ss_pred EEEEEcCCCCCHHHHHHHHhCCCC
Confidence 589999999999999999999875
No 392
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.41 E-value=0.51 Score=50.59 Aligned_cols=46 Identities=15% Similarity=0.104 Sum_probs=34.2
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
+|.||+.++..+--.+-+|. -.-++||.|+||+||+++.+..++..
T Consensus 17 eivGQe~i~~~L~~~i~~~r-----------i~ha~Lf~Gp~GvGKttlA~~lAk~L 62 (620)
T PRK14954 17 DITAQEHITHTIQNSLRMDR-----------VGHGYIFSGLRGVGKTTAARVFAKAV 62 (620)
T ss_pred HhcCcHHHHHHHHHHHHcCC-----------CCeeEEEECCCCCCHHHHHHHHHHHh
Confidence 56799999987555444431 11249999999999999999887655
No 393
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=89.41 E-value=0.49 Score=51.02 Aligned_cols=46 Identities=28% Similarity=0.305 Sum_probs=35.7
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
.|.|++.+++.|.-.+-.|.- .-.+||.|.||+|||.+.+..++-.
T Consensus 17 dIIGQe~vv~~L~~ai~~~rl-----------~Ha~Lf~GP~GvGKTTlAriLAk~L 62 (709)
T PRK08691 17 DLVGQEHVVKALQNALDEGRL-----------HHAYLLTGTRGVGKTTIARILAKSL 62 (709)
T ss_pred HHcCcHHHHHHHHHHHHcCCC-----------CeEEEEECCCCCcHHHHHHHHHHHh
Confidence 577999999987777665411 1137999999999999999887754
No 394
>cd04121 Rab40 Rab40 subfamily. This subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide d
Probab=89.39 E-value=0.29 Score=44.28 Aligned_cols=23 Identities=35% Similarity=0.489 Sum_probs=20.0
Q ss_pred cccEEEEcCCCchhhHHHHHHhc
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
.+.|+++||+|+|||.|++....
T Consensus 6 ~~KivviG~~~vGKTsll~~~~~ 28 (189)
T cd04121 6 LLKFLLVGDSDVGKGEILASLQD 28 (189)
T ss_pred eeEEEEECCCCCCHHHHHHHHHc
Confidence 37899999999999999987654
No 395
>cd00881 GTP_translation_factor GTP translation factor family. This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.
Probab=89.37 E-value=0.28 Score=43.30 Aligned_cols=23 Identities=13% Similarity=0.223 Sum_probs=20.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
+|+++|+||+|||.|+.+...-.
T Consensus 1 ~v~v~G~~~~GKStlln~l~~~~ 23 (189)
T cd00881 1 NVGIAGHVDHGKTTLTERLLYVT 23 (189)
T ss_pred CEEEEeCCCCCHHHHHHHHHHhc
Confidence 48999999999999999986653
No 396
>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=89.34 E-value=0.3 Score=45.48 Aligned_cols=24 Identities=29% Similarity=0.625 Sum_probs=22.4
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
++.|+|++|.|||+||+.++.+.|
T Consensus 29 ~~~l~G~nGsGKSTLl~~i~Gl~~ 52 (236)
T cd03253 29 KVAIVGPSGSGKSTILRLLFRFYD 52 (236)
T ss_pred EEEEECCCCCCHHHHHHHHhcccC
Confidence 688999999999999999999876
No 397
>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=89.33 E-value=0.31 Score=45.23 Aligned_cols=24 Identities=21% Similarity=0.580 Sum_probs=22.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|+|||+||+..+.+.|
T Consensus 31 ~~~i~G~nGsGKSTLl~~l~G~~~ 54 (229)
T cd03254 31 TVAIVGPTGAGKTTLINLLMRFYD 54 (229)
T ss_pred EEEEECCCCCCHHHHHHHHhcCcC
Confidence 489999999999999999999875
No 398
>PRK00093 GTP-binding protein Der; Reviewed
Probab=89.32 E-value=0.53 Score=48.25 Aligned_cols=25 Identities=20% Similarity=0.414 Sum_probs=21.6
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhc
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
...+.|.++|.||+|||.|++....
T Consensus 171 ~~~~~v~ivG~~n~GKStlin~ll~ 195 (435)
T PRK00093 171 DEPIKIAIIGRPNVGKSSLINALLG 195 (435)
T ss_pred ccceEEEEECCCCCCHHHHHHHHhC
Confidence 3468999999999999999998653
No 399
>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.
Probab=89.31 E-value=0.31 Score=44.86 Aligned_cols=25 Identities=28% Similarity=0.337 Sum_probs=22.6
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
.+.|+|.+|+|||+||+.++.+.+.
T Consensus 30 ~~~i~G~nGsGKSTLl~~l~Gl~~~ 54 (220)
T cd03263 30 IFGLLGHNGAGKTTTLKMLTGELRP 54 (220)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCC
Confidence 5889999999999999999998753
No 400
>cd04102 RabL3 RabL3 (Rab-like3) subfamily. RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown.
Probab=89.29 E-value=0.3 Score=44.75 Aligned_cols=22 Identities=41% Similarity=0.764 Sum_probs=19.0
Q ss_pred ccEEEEcCCCchhhHHHHHHhc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
+.|+++||+|+|||.|++....
T Consensus 1 vKIvlvGd~gVGKTSLi~~~~~ 22 (202)
T cd04102 1 VRVLVVGDSGVGKSSLVHLICK 22 (202)
T ss_pred CEEEEECCCCCCHHHHHHHHHc
Confidence 4689999999999999987654
No 401
>cd04104 p47_IIGP_like p47 (47-kDa) family. The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei
Probab=89.29 E-value=0.3 Score=44.36 Aligned_cols=24 Identities=25% Similarity=0.545 Sum_probs=21.2
Q ss_pred ccEEEEcCCCchhhHHHHHHhccC
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
++|.++|++|+|||.|++......
T Consensus 2 ~kI~i~G~~g~GKSSLin~L~g~~ 25 (197)
T cd04104 2 LNIAVTGESGAGKSSFINALRGVG 25 (197)
T ss_pred eEEEEECCCCCCHHHHHHHHhccC
Confidence 579999999999999999987743
No 402
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=89.28 E-value=0.54 Score=32.84 Aligned_cols=33 Identities=30% Similarity=0.789 Sum_probs=22.4
Q ss_pred EEEecCCCceeeeccccccccceecCCCCCCCCCCCCCCCce
Q 014661 148 TYMCRKCKHMFPVYPELETRNSIVLPSHCPSQRSKPCEGTNF 189 (420)
Q Consensus 148 ~f~C~~C~~~~~~~~~~~~~~~~~~P~~C~~~~~~~C~~~~f 189 (420)
.|+|.+||+.|.+...... ..+..||. |++...
T Consensus 5 ey~C~~Cg~~fe~~~~~~~----~~~~~CP~-----Cg~~~~ 37 (52)
T TIGR02605 5 EYRCTACGHRFEVLQKMSD----DPLATCPE-----CGGEKL 37 (52)
T ss_pred EEEeCCCCCEeEEEEecCC----CCCCCCCC-----CCCCce
Confidence 6999999999876543221 34567984 887443
No 403
>PLN02200 adenylate kinase family protein
Probab=89.28 E-value=0.39 Score=45.04 Aligned_cols=33 Identities=18% Similarity=0.288 Sum_probs=25.2
Q ss_pred cccEEEEcCCCchhhHHHHHHhccCCcEEEEec
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTG 379 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G 379 (420)
-..|+++|.||+|||++.+..++-..-..+.+|
T Consensus 43 ~~ii~I~G~PGSGKsT~a~~La~~~g~~his~g 75 (234)
T PLN02200 43 PFITFVLGGPGSGKGTQCEKIVETFGFKHLSAG 75 (234)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHhCCeEEEcc
Confidence 357999999999999998887776654444443
No 404
>cd04151 Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.
Probab=89.28 E-value=0.28 Score=42.31 Aligned_cols=20 Identities=25% Similarity=0.409 Sum_probs=17.8
Q ss_pred cEEEEcCCCchhhHHHHHHh
Q 014661 349 HLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~ 368 (420)
.|+++|+||+|||.|++...
T Consensus 1 kv~lvG~~~~GKTsl~~~l~ 20 (158)
T cd04151 1 RILILGLDNAGKTTILYRLQ 20 (158)
T ss_pred CEEEECCCCCCHHHHHHHHc
Confidence 37899999999999999873
No 405
>cd01873 RhoBTB RhoBTB subfamily. Members of the RhoBTB subfamily of Rho GTPases are present in vertebrates, Drosophila, and Dictyostelium. RhoBTB proteins are characterized by a modular organization, consisting of a GTPase domain, a proline rich region, a tandem of two BTB (Broad-Complex, Tramtrack, and Bric a brac) domains, and a C-terminal region of unknown function. RhoBTB proteins may act as docking points for multiple components participating in signal transduction cascades. RhoBTB genes appeared upregulated in some cancer cell lines, suggesting a participation of RhoBTB proteins in the pathogenesis of particular tumors. Note that the Dictyostelium RacA GTPase domain is more closely related to Rac proteins than to RhoBTB proteins, where RacA actually belongs. Thus, the Dictyostelium RacA is not included here. Most Rho proteins contain a lipid modification site at the C-terminus; however, RhoBTB is one of few Rho subfamilies that lack this feature.
Probab=89.24 E-value=0.29 Score=44.51 Aligned_cols=18 Identities=28% Similarity=0.606 Sum_probs=16.6
Q ss_pred cccEEEEcCCCchhhHHH
Q 014661 347 ESHLLLVGDPGTGKSQFL 364 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL 364 (420)
.+.|+++||+|+|||.|+
T Consensus 2 ~~Kiv~vG~~~vGKTsLi 19 (195)
T cd01873 2 TIKCVVVGDNAVGKTRLI 19 (195)
T ss_pred ceEEEEECCCCcCHHHHH
Confidence 367999999999999999
No 406
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=89.21 E-value=0.41 Score=42.78 Aligned_cols=31 Identities=29% Similarity=0.305 Sum_probs=25.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~ 380 (420)
.+.++|.+|+|||+|++.++.+... +++.|.
T Consensus 5 ~i~l~G~sGsGKSTl~~~la~~l~~-~~i~gd 35 (176)
T PRK09825 5 SYILMGVSGSGKSLIGSKIAALFSA-KFIDGD 35 (176)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcCC-EEECCc
Confidence 3789999999999999999987654 455554
No 407
>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter. The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.
Probab=89.20 E-value=0.33 Score=44.21 Aligned_cols=24 Identities=38% Similarity=0.596 Sum_probs=22.3
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|++|+|||+||+.++.+.|
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~G~~~ 51 (201)
T cd03231 28 ALQVTGPNGSGKTTLLRILAGLSP 51 (201)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 588999999999999999999875
No 408
>PRK04040 adenylate kinase; Provisional
Probab=89.19 E-value=0.37 Score=43.61 Aligned_cols=24 Identities=29% Similarity=0.462 Sum_probs=21.5
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.|+++|-||+|||++++.+++-.|
T Consensus 4 ~i~v~G~pG~GKtt~~~~l~~~l~ 27 (188)
T PRK04040 4 VVVVTGVPGVGKTTVLNKALEKLK 27 (188)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHhc
Confidence 589999999999999999977765
No 409
>cd04148 RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ra
Probab=89.16 E-value=0.29 Score=45.38 Aligned_cols=20 Identities=30% Similarity=0.649 Sum_probs=18.0
Q ss_pred cEEEEcCCCchhhHHHHHHh
Q 014661 349 HLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~ 368 (420)
.|+++|+||+|||.|+....
T Consensus 2 KI~lvG~~gvGKTsLi~~~~ 21 (221)
T cd04148 2 RVVMLGSPGVGKSSLASQFT 21 (221)
T ss_pred EEEEECCCCCcHHHHHHHHh
Confidence 58999999999999999773
No 410
>cd04178 Nucleostemin_like Nucleostemin-like. Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the
Probab=89.15 E-value=0.65 Score=41.35 Aligned_cols=27 Identities=22% Similarity=0.365 Sum_probs=23.2
Q ss_pred ccCcccEEEEcCCCchhhHHHHHHhcc
Q 014661 344 VRGESHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 344 ~Rg~ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
.++.+.++++|-|++|||.|+.....-
T Consensus 114 ~~~~~~~~~vG~pnvGKSslin~l~~~ 140 (172)
T cd04178 114 IKTSITVGVVGFPNVGKSSLINSLKRS 140 (172)
T ss_pred cccCcEEEEEcCCCCCHHHHHHHHhCc
Confidence 356689999999999999999987753
No 411
>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.
Probab=89.12 E-value=0.34 Score=41.72 Aligned_cols=25 Identities=40% Similarity=0.505 Sum_probs=22.7
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
++.++|.+|.|||+|++.++.+.|.
T Consensus 28 ~~~i~G~nGsGKStLl~~l~G~~~~ 52 (144)
T cd03221 28 RIGLVGRNGAGKSTLLKLIAGELEP 52 (144)
T ss_pred EEEEECCCCCCHHHHHHHHcCCCCC
Confidence 6889999999999999999999763
No 412
>cd04163 Era Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.
Probab=89.11 E-value=0.32 Score=41.58 Aligned_cols=23 Identities=30% Similarity=0.495 Sum_probs=20.0
Q ss_pred ccEEEEcCCCchhhHHHHHHhcc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
..|.++|.||.|||.|++.....
T Consensus 4 ~~i~~~G~~g~GKttl~~~l~~~ 26 (168)
T cd04163 4 GFVAIVGRPNVGKSTLLNALVGQ 26 (168)
T ss_pred eEEEEECCCCCCHHHHHHHHhCC
Confidence 36999999999999999987653
No 413
>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.
Probab=89.07 E-value=0.33 Score=44.28 Aligned_cols=32 Identities=22% Similarity=0.309 Sum_probs=25.5
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
++.|+|++|.|||+||+.++.+.|. .++..|.
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~~g~ 62 (208)
T cd03268 28 IYGFLGPNGAGKTTTMKIILGLIKPDSGEITFDGK 62 (208)
T ss_pred EEEEECCCCCCHHHHHHHHhCCcCCCceEEEECCC
Confidence 5889999999999999999988653 2444444
No 414
>PRK14260 phosphate ABC transporter ATP-binding protein; Provisional
Probab=89.07 E-value=0.42 Score=45.34 Aligned_cols=24 Identities=33% Similarity=0.607 Sum_probs=22.2
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
++.|+|.+|+|||+||+.++.+.+
T Consensus 35 ~~~l~G~nGsGKSTLlk~l~Gl~~ 58 (259)
T PRK14260 35 VTAIIGPSGCGKSTFIKTLNRISE 58 (259)
T ss_pred EEEEECCCCCCHHHHHHHHHhhcC
Confidence 689999999999999999999865
No 415
>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein. This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.
Probab=89.06 E-value=0.34 Score=44.69 Aligned_cols=24 Identities=38% Similarity=0.657 Sum_probs=22.0
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|+|||+||+.++.+.+
T Consensus 33 ~~~i~G~nGsGKSTLl~~i~G~~~ 56 (221)
T TIGR02211 33 IVAIVGSSGSGKSTLLHLLGGLDN 56 (221)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 488999999999999999999865
No 416
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=89.05 E-value=0.57 Score=45.29 Aligned_cols=54 Identities=30% Similarity=0.411 Sum_probs=38.1
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccEEEEcCCCchhhH-HHHHHhccCCcEEEEecc
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHLLLVGDPGTGKSQ-FLKFAAKLSNRSVITTGL 380 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihiLlvGdpg~gKSq-lL~~~~~~~p~~v~~~G~ 380 (420)
.+-|.+.+..++.=++.+ |.-.|.|+-|+|||||+. .+=+++++.+.-.+-+|-
T Consensus 37 e~~gQe~vV~~L~~a~~~------------~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rv 91 (346)
T KOG0989|consen 37 ELAGQEHVVQVLKNALLR------------RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRV 91 (346)
T ss_pred hhcchHHHHHHHHHHHhh------------cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccch
Confidence 456888888887766665 334699999999999976 555666777644444443
No 417
>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.
Probab=89.02 E-value=0.33 Score=44.77 Aligned_cols=25 Identities=32% Similarity=0.450 Sum_probs=22.7
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCC
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
=.+.|+|.+|.|||+||+..+.+.|
T Consensus 27 e~~~i~G~nGsGKSTLl~~l~Gl~~ 51 (222)
T cd03224 27 EIVALLGRNGAGKTTLLKTIMGLLP 51 (222)
T ss_pred eEEEEECCCCCCHHHHHHHHhCCCC
Confidence 3689999999999999999998876
No 418
>PRK14256 phosphate ABC transporter ATP-binding protein; Provisional
Probab=89.01 E-value=0.44 Score=45.00 Aligned_cols=24 Identities=25% Similarity=0.504 Sum_probs=22.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
++.|+|.+|+|||+||+..+.+.+
T Consensus 32 ~~~i~G~nGsGKSTLl~~l~Gl~~ 55 (252)
T PRK14256 32 VTAIIGPSGCGKSTVLRSINRMHD 55 (252)
T ss_pred EEEEECCCCCCHHHHHHHHHhccc
Confidence 599999999999999999999863
No 419
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein.
Probab=89.00 E-value=0.34 Score=44.53 Aligned_cols=24 Identities=42% Similarity=0.742 Sum_probs=22.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|+|||+||+.++.+.+
T Consensus 31 ~~~i~G~nGsGKSTLl~~l~Gl~~ 54 (216)
T TIGR00960 31 MVFLVGHSGAGKSTFLKLILGIEK 54 (216)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 488999999999999999999975
No 420
>TIGR02673 FtsE cell division ATP-binding protein FtsE. This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.
Probab=88.99 E-value=0.34 Score=44.39 Aligned_cols=24 Identities=33% Similarity=0.537 Sum_probs=22.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|+|||+||+.++.+.+
T Consensus 30 ~~~l~G~nGsGKSTLl~~i~Gl~~ 53 (214)
T TIGR02673 30 FLFLTGPSGAGKTTLLKLLYGALT 53 (214)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 588999999999999999999875
No 421
>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=88.99 E-value=0.29 Score=47.65 Aligned_cols=72 Identities=32% Similarity=0.461 Sum_probs=42.3
Q ss_pred ccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCceeeEEeeC--Cceeeccceee----------ecCCc
Q 014661 344 VRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTVTAVKDG--GEWMLEAGALV----------LADGG 411 (420)
Q Consensus 344 ~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~~r~~--g~~~leaGalv----------lad~G 411 (420)
+..|=-|||-|+|||||+.|-|+.++=. +|.++++..- |--.-+.-.. ..|.=|.|-|| +.|.|
T Consensus 174 It~NRliLlhGPPGTGKTSLCKaLaQkL--SIR~~~~y~~--~~liEinshsLFSKWFsESgKlV~kmF~kI~ELv~d~~ 249 (423)
T KOG0744|consen 174 ITWNRLILLHGPPGTGKTSLCKALAQKL--SIRTNDRYYK--GQLIEINSHSLFSKWFSESGKLVAKMFQKIQELVEDRG 249 (423)
T ss_pred eeeeeEEEEeCCCCCChhHHHHHHHHhh--eeeecCcccc--ceEEEEehhHHHHHHHhhhhhHHHHHHHHHHHHHhCCC
Confidence 3444469999999999999999876543 3555554322 2111111111 45776777664 33444
Q ss_pred e---Eeeeccc
Q 014661 412 L---CCIDEFD 419 (420)
Q Consensus 412 v---~ciDe~d 419 (420)
. +.|||..
T Consensus 250 ~lVfvLIDEVE 260 (423)
T KOG0744|consen 250 NLVFVLIDEVE 260 (423)
T ss_pred cEEEEEeHHHH
Confidence 3 5688853
No 422
>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies.The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.
Probab=88.97 E-value=0.33 Score=44.22 Aligned_cols=24 Identities=38% Similarity=0.742 Sum_probs=17.6
Q ss_pred ccCcccEEEEcCCCchhhHHHHHH
Q 014661 344 VRGESHLLLVGDPGTGKSQFLKFA 367 (420)
Q Consensus 344 ~Rg~ihiLlvGdpg~gKSqlL~~~ 367 (420)
...+-|+|+.|.||+|||.+|+.+
T Consensus 35 l~~~~h~li~G~tgsGKS~~l~~l 58 (205)
T PF01580_consen 35 LKKNPHLLIAGATGSGKSTLLRTL 58 (205)
T ss_dssp GGGS-SEEEE--TTSSHHHHHHHH
T ss_pred cCCCceEEEEcCCCCCccHHHHHH
Confidence 445569999999999999988854
No 423
>TIGR01166 cbiO cobalt transport protein ATP-binding subunit. This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.
Probab=88.97 E-value=0.35 Score=43.51 Aligned_cols=24 Identities=38% Similarity=0.481 Sum_probs=22.0
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|+|||+||+.++.+.+
T Consensus 20 ~~~i~G~nGsGKSTLl~~i~G~~~ 43 (190)
T TIGR01166 20 VLALLGANGAGKSTLLLHLNGLLR 43 (190)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 588999999999999999999875
No 424
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=88.94 E-value=0.56 Score=49.34 Aligned_cols=45 Identities=24% Similarity=0.329 Sum_probs=34.9
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccE-EEEcCCCchhhHHHHHHhccC
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHL-LLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihi-LlvGdpg~gKSqlL~~~~~~~ 371 (420)
.|.|++.+++.+.-.+-.|. -.|. |+.|+||+||+++.+..++-.
T Consensus 15 eiiGqe~v~~~L~~~I~~gr------------l~hayLf~Gp~G~GKTt~Ar~LAk~L 60 (535)
T PRK08451 15 ELIGQESVSKTLSLALDNNR------------LAHAYLFSGLRGSGKTSSARIFARAL 60 (535)
T ss_pred HccCcHHHHHHHHHHHHcCC------------CCeeEEEECCCCCcHHHHHHHHHHHh
Confidence 57899999988777775542 1255 899999999999999776654
No 425
>cd04112 Rab26 Rab26 subfamily. First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=88.91 E-value=0.33 Score=43.65 Aligned_cols=20 Identities=35% Similarity=0.610 Sum_probs=17.4
Q ss_pred cEEEEcCCCchhhHHHHHHh
Q 014661 349 HLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~ 368 (420)
.|+++|+||+|||.|+....
T Consensus 2 Ki~vvG~~~vGKTSli~~~~ 21 (191)
T cd04112 2 KVMLLGDSGVGKTCLLVRFK 21 (191)
T ss_pred EEEEECCCCCCHHHHHHHHh
Confidence 48999999999999997653
No 426
>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=88.90 E-value=0.5 Score=40.90 Aligned_cols=30 Identities=23% Similarity=0.307 Sum_probs=23.8
Q ss_pred EEEEcCCCchhhHHHHHHhccCC----cEEEEec
Q 014661 350 LLLVGDPGTGKSQFLKFAAKLSN----RSVITTG 379 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~~p----~~v~~~G 379 (420)
++++|-||+|||.+.+.+++... ..++..|
T Consensus 2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i~~ 35 (149)
T cd02027 2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVLDG 35 (149)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcC
Confidence 68999999999999999988762 3455554
No 427
>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.
Probab=88.88 E-value=0.34 Score=44.77 Aligned_cols=24 Identities=38% Similarity=0.519 Sum_probs=22.2
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|+|||+||+.++.+.|
T Consensus 33 ~~~i~G~nGsGKSTLl~~l~G~~~ 56 (228)
T cd03257 33 TLGLVGESGSGKSTLARAILGLLK 56 (228)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 689999999999999999998875
No 428
>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin. In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=88.85 E-value=0.35 Score=44.56 Aligned_cols=24 Identities=29% Similarity=0.450 Sum_probs=22.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
++.|+|.+|.|||+||+.++.+.+
T Consensus 28 ~~~i~G~nGsGKSTLl~~i~G~~~ 51 (220)
T cd03265 28 IFGLLGPNGAGKTTTIKMLTTLLK 51 (220)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 688999999999999999999864
No 429
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=88.84 E-value=0.35 Score=47.31 Aligned_cols=29 Identities=24% Similarity=0.496 Sum_probs=24.8
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhccCCc
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
++.-+++++|.+|+|||+||++.....|.
T Consensus 142 ~~~~~ili~G~tGsGKTTll~al~~~~~~ 170 (308)
T TIGR02788 142 ASRKNIIISGGTGSGKTTFLKSLVDEIPK 170 (308)
T ss_pred hCCCEEEEECCCCCCHHHHHHHHHccCCc
Confidence 33358999999999999999999888874
No 430
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=88.82 E-value=0.6 Score=44.45 Aligned_cols=37 Identities=24% Similarity=0.231 Sum_probs=25.9
Q ss_pred ccCcccEEEEcCCCchhhHHHH-HHh---ccCCcEEEEeccc
Q 014661 344 VRGESHLLLVGDPGTGKSQFLK-FAA---KLSNRSVITTGLG 381 (420)
Q Consensus 344 ~Rg~ihiLlvGdpg~gKSqlL~-~~~---~~~p~~v~~~G~~ 381 (420)
.+|. =+|+.|+||+|||+|.- ++. +--.+++|+|...
T Consensus 34 p~gs-~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~Ee 74 (259)
T TIGR03878 34 PAYS-VINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVES 74 (259)
T ss_pred ECCc-EEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecC
Confidence 3444 48999999999999644 233 3346788988763
No 431
>PLN03118 Rab family protein; Provisional
Probab=88.82 E-value=0.33 Score=44.42 Aligned_cols=23 Identities=39% Similarity=0.528 Sum_probs=20.4
Q ss_pred CcccEEEEcCCCchhhHHHHHHh
Q 014661 346 GESHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 346 g~ihiLlvGdpg~gKSqlL~~~~ 368 (420)
..+.|+++|+||+|||.|+....
T Consensus 13 ~~~kv~ivG~~~vGKTsli~~l~ 35 (211)
T PLN03118 13 LSFKILLIGDSGVGKSSLLVSFI 35 (211)
T ss_pred cceEEEEECcCCCCHHHHHHHHH
Confidence 46899999999999999998765
No 432
>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional
Probab=88.82 E-value=0.34 Score=45.64 Aligned_cols=24 Identities=21% Similarity=0.533 Sum_probs=21.8
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
++.|+|.+|+|||+||+.++.+.+
T Consensus 31 ~~~i~G~nGsGKSTLl~~i~Gl~~ 54 (250)
T PRK14262 31 ITAIIGPSGCGKTTLLRSINRMND 54 (250)
T ss_pred EEEEECCCCCCHHHHHHHHhcccc
Confidence 589999999999999999998754
No 433
>KOG0087 consensus GTPase Rab11/YPT3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=88.81 E-value=0.28 Score=44.70 Aligned_cols=19 Identities=37% Similarity=0.663 Sum_probs=16.6
Q ss_pred cEEEEcCCCchhhHHHHHH
Q 014661 349 HLLLVGDPGTGKSQFLKFA 367 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~ 367 (420)
.|.|+||||+|||+||...
T Consensus 16 KiVliGDS~VGKsnLlsRf 34 (222)
T KOG0087|consen 16 KIVLIGDSAVGKSNLLSRF 34 (222)
T ss_pred EEEEeCCCccchhHHHHHh
Confidence 4899999999999999743
No 434
>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.
Probab=88.77 E-value=0.36 Score=43.17 Aligned_cols=24 Identities=17% Similarity=0.214 Sum_probs=22.2
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|.|||+||+.++.+.+
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~G~~~ 51 (182)
T cd03215 28 IVGIAGLVGNGQTELAEALFGLRP 51 (182)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 589999999999999999999875
No 435
>PRK14240 phosphate transporter ATP-binding protein; Provisional
Probab=88.73 E-value=0.46 Score=44.73 Aligned_cols=23 Identities=35% Similarity=0.629 Sum_probs=21.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
.+.|+|.+|+|||+||+.++.+.
T Consensus 31 ~~~i~G~nGsGKSTLl~~i~G~~ 53 (250)
T PRK14240 31 VTALIGPSGCGKSTFLRTLNRMN 53 (250)
T ss_pred EEEEECCCCCCHHHHHHHHhccc
Confidence 58999999999999999999874
No 436
>PRK04213 GTP-binding protein; Provisional
Probab=88.70 E-value=0.35 Score=43.72 Aligned_cols=23 Identities=22% Similarity=0.465 Sum_probs=20.4
Q ss_pred cccEEEEcCCCchhhHHHHHHhc
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~~ 369 (420)
...|+++|+||+|||.|++....
T Consensus 9 ~~~i~i~G~~~~GKSsLin~l~~ 31 (201)
T PRK04213 9 KPEIVFVGRSNVGKSTLVRELTG 31 (201)
T ss_pred CCEEEEECCCCCCHHHHHHHHhC
Confidence 46899999999999999998754
No 437
>TIGR02239 recomb_RAD51 DNA repair protein RAD51. This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).
Probab=88.68 E-value=0.42 Score=46.95 Aligned_cols=37 Identities=24% Similarity=0.328 Sum_probs=28.1
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhc---cC-------CcEEEEecccc
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAK---LS-------NRSVITTGLGS 382 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~---~~-------p~~v~~~G~~s 382 (420)
+|++ +.+.|+||+|||||+...+. +. -+++|+++.++
T Consensus 95 ~g~i-~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~ 141 (316)
T TIGR02239 95 TGSI-TEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGT 141 (316)
T ss_pred CCeE-EEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCC
Confidence 3444 88999999999999987653 22 15699998885
No 438
>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta). SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ
Probab=88.66 E-value=0.34 Score=44.26 Aligned_cols=24 Identities=21% Similarity=0.347 Sum_probs=20.5
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
+|+|+|++|+|||.|+.....-..
T Consensus 2 ~vll~G~~~sGKTsL~~~l~~~~~ 25 (203)
T cd04105 2 TVLLLGPSDSGKTALFTKLTTGKY 25 (203)
T ss_pred eEEEEcCCCCCHHHHHHHHhcCCC
Confidence 699999999999999998866443
No 439
>PRK09361 radB DNA repair and recombination protein RadB; Provisional
Probab=88.66 E-value=0.67 Score=42.85 Aligned_cols=32 Identities=22% Similarity=0.285 Sum_probs=24.5
Q ss_pred cEEEEcCCCchhhHHHHHHh----ccCCcEEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAA----KLSNRSVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~----~~~p~~v~~~G~ 380 (420)
-+++.|.||+|||+|....+ +---+.+|++..
T Consensus 25 i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e 60 (225)
T PRK09361 25 ITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE 60 (225)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence 48999999999999865544 223578888876
No 440
>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=88.65 E-value=0.29 Score=52.98 Aligned_cols=27 Identities=41% Similarity=0.567 Sum_probs=24.1
Q ss_pred EEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 350 LLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
+||+|.||||||-|.|+++.=|.-=++
T Consensus 347 vLL~GPPGTGKTLLAKAiAGEAgVPF~ 373 (774)
T KOG0731|consen 347 VLLVGPPGTGKTLLAKAIAGEAGVPFF 373 (774)
T ss_pred eEEECCCCCcHHHHHHHHhcccCCcee
Confidence 999999999999999999988865555
No 441
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=88.60 E-value=0.7 Score=42.83 Aligned_cols=34 Identities=32% Similarity=0.424 Sum_probs=24.7
Q ss_pred cEEEEcCCCchhhHHHHH-Hhcc---CCcEEEEecccc
Q 014661 349 HLLLVGDPGTGKSQFLKF-AAKL---SNRSVITTGLGS 382 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~-~~~~---~p~~v~~~G~~s 382 (420)
.+++.|+||+|||+|+.. +.+. -.+++|+++..+
T Consensus 22 ~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e~~ 59 (229)
T TIGR03881 22 FVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTEES 59 (229)
T ss_pred EEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEccCC
Confidence 599999999999998764 3222 246788887544
No 442
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=88.57 E-value=0.34 Score=44.34 Aligned_cols=21 Identities=38% Similarity=0.523 Sum_probs=15.2
Q ss_pred EEEEcCCCchhhHHHHHHhcc
Q 014661 350 LLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~ 370 (420)
.++-|.||||||+++..+...
T Consensus 20 ~~i~GpPGTGKT~~l~~~i~~ 40 (236)
T PF13086_consen 20 TLIQGPPGTGKTTTLASIIAQ 40 (236)
T ss_dssp EEEE-STTSSHHHHHHHHHHH
T ss_pred EEEECCCCCChHHHHHHHHHH
Confidence 788999999999866555433
No 443
>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=88.55 E-value=0.4 Score=42.74 Aligned_cols=32 Identities=34% Similarity=0.568 Sum_probs=25.9
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
.+.|+|++|.|||+||+..+.+.|. .++..|.
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~g~ 62 (178)
T cd03229 28 IVALLGPSGSGKSTLLRCIAGLEEPDSGSILIDGE 62 (178)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCE
Confidence 5889999999999999999988764 2555554
No 444
>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.
Probab=88.54 E-value=0.36 Score=42.36 Aligned_cols=21 Identities=29% Similarity=0.328 Sum_probs=18.5
Q ss_pred EEEEcCCCchhhHHHHHHhcc
Q 014661 350 LLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~ 370 (420)
|+++|++|+|||.|+++...-
T Consensus 2 i~~~G~~~~GKTsl~~~l~~~ 22 (167)
T cd04161 2 LLTVGLDNAGKTTLVSALQGE 22 (167)
T ss_pred EEEECCCCCCHHHHHHHHhCC
Confidence 799999999999999887643
No 445
>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional
Probab=88.51 E-value=0.37 Score=44.86 Aligned_cols=32 Identities=28% Similarity=0.498 Sum_probs=26.0
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
.+.|+|.+|+|||+||+.++.+.+. .++..|.
T Consensus 27 ~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i~~~g~ 61 (232)
T PRK10771 27 RVAILGPSGAGKSTLLNLIAGFLTPASGSLTLNGQ 61 (232)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCe
Confidence 6889999999999999999998753 2555554
No 446
>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=88.49 E-value=0.43 Score=43.81 Aligned_cols=28 Identities=36% Similarity=0.472 Sum_probs=22.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEE
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVI 376 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~ 376 (420)
.|+++|.||+|||++.+.+++-..-...
T Consensus 1 rI~i~G~pGsGKsT~a~~La~~~g~~~i 28 (210)
T TIGR01351 1 RLVLLGPPGSGKGTQAKRIAEKYGLPHI 28 (210)
T ss_pred CEEEECCCCCCHHHHHHHHHHHcCCCee
Confidence 3899999999999999998765443333
No 447
>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit. Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.
Probab=88.49 E-value=0.39 Score=44.42 Aligned_cols=24 Identities=33% Similarity=0.474 Sum_probs=22.2
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|.|||+||+.++.+.|
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~G~~~ 51 (223)
T TIGR03740 28 VYGLLGPNGAGKSTLLKMITGILR 51 (223)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 688999999999999999999865
No 448
>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=88.48 E-value=0.39 Score=43.77 Aligned_cols=24 Identities=33% Similarity=0.504 Sum_probs=22.2
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|.|||+||+.++.+.+
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~Gl~~ 51 (205)
T cd03226 28 IIALTGKNGAGKTTLAKILAGLIK 51 (205)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 689999999999999999999875
No 449
>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional
Probab=88.47 E-value=0.38 Score=45.61 Aligned_cols=32 Identities=25% Similarity=0.262 Sum_probs=26.0
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
.+.|+|++|+|||+||+.++.+.+. .|+..|.
T Consensus 34 ~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~ 68 (258)
T PRK11701 34 VLGIVGESGSGKTTLLNALSARLAPDAGEVHYRMR 68 (258)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCCEEEECCc
Confidence 5899999999999999999998753 2555554
No 450
>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional
Probab=88.46 E-value=0.47 Score=44.97 Aligned_cols=24 Identities=29% Similarity=0.483 Sum_probs=21.7
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
++.|+|.+|.|||+||+.++.+.+
T Consensus 40 ~~~l~G~nGsGKSTLl~~l~G~~~ 63 (259)
T PRK14274 40 VTAIIGPSGCGKSTFIKTLNLMIQ 63 (259)
T ss_pred EEEEECCCCCCHHHHHHHHHhhcc
Confidence 589999999999999999998763
No 451
>PLN02459 probable adenylate kinase
Probab=88.46 E-value=0.46 Score=45.25 Aligned_cols=32 Identities=31% Similarity=0.513 Sum_probs=24.6
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCCcEEEEec
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSNRSVITTG 379 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G 379 (420)
++++|+|.||+|||++.+.+++-..-....+|
T Consensus 30 ~~ii~~G~PGsGK~T~a~~la~~~~~~~is~g 61 (261)
T PLN02459 30 VNWVFLGCPGVGKGTYASRLSKLLGVPHIATG 61 (261)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhCCcEEeCc
Confidence 67999999999999998888876554333333
No 452
>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=88.46 E-value=0.38 Score=44.82 Aligned_cols=32 Identities=31% Similarity=0.550 Sum_probs=25.6
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
.+.|+|.+|+|||+||+.++.+.+. .++..|.
T Consensus 28 ~~~l~G~nGsGKSTLl~~l~G~~~p~~G~i~~~g~ 62 (235)
T cd03261 28 ILAIIGPSGSGKSTLLRLIVGLLRPDSGEVLIDGE 62 (235)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCE
Confidence 5889999999999999999998753 2444453
No 453
>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit. This protein family is the ATP-binding cassette subunit of binding protein-dependent ABC transporter complex that strictly co-occurs with TIGR03769. TIGRFAMs model TIGR03769 describes a protein domain that occurs singly or as one of up to three repeats in proteins of a number of Actinobacteria, including Propionibacterium acnes KPA171202. The TIGR03769 domain occurs both in an adjacent gene for the substrate-binding protein and in additional (often nearby) proteins, often with LPXTG-like sortase recognition signals. Homologous ATP-binding subunits outside the scope of this family include manganese transporter MntA in Synechocystis sp. PCC 6803 and chelated iron transporter subunits. The function of this transporter complex is unknown.
Probab=88.44 E-value=0.39 Score=44.54 Aligned_cols=32 Identities=31% Similarity=0.413 Sum_probs=25.8
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
.+.|+|.+|+|||+||+.++.+.+. .++..|+
T Consensus 8 ~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i~~~g~ 42 (223)
T TIGR03771 8 LLGLLGPNGAGKTTLLRAILGLIPPAKGTVKVAGA 42 (223)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCc
Confidence 4889999999999999999998652 3555554
No 454
>PRK13538 cytochrome c biogenesis protein CcmA; Provisional
Probab=88.43 E-value=0.39 Score=43.75 Aligned_cols=24 Identities=29% Similarity=0.530 Sum_probs=22.3
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|+|||+||+.++.+.|
T Consensus 29 ~~~l~G~nGsGKSTLl~~l~G~~~ 52 (204)
T PRK13538 29 LVQIEGPNGAGKTSLLRILAGLAR 52 (204)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 688999999999999999999876
No 455
>cd01875 RhoG RhoG subfamily. RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-termin
Probab=88.41 E-value=0.34 Score=43.66 Aligned_cols=22 Identities=27% Similarity=0.382 Sum_probs=18.6
Q ss_pred cccEEEEcCCCchhhHHHHHHh
Q 014661 347 ESHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 347 ~ihiLlvGdpg~gKSqlL~~~~ 368 (420)
.+.|+++||+|+|||.|+....
T Consensus 3 ~~ki~~vG~~~vGKTsli~~~~ 24 (191)
T cd01875 3 SIKCVVVGDGAVGKTCLLICYT 24 (191)
T ss_pred cEEEEEECCCCCCHHHHHHHHH
Confidence 3689999999999999986543
No 456
>cd03290 ABCC_SUR1_N The SUR domain 1. The sulfonylurea receptor SUR is an ATP transporter of the ABCC/MRP family with tandem ATPase binding domains. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.
Probab=88.41 E-value=0.39 Score=44.20 Aligned_cols=25 Identities=28% Similarity=0.335 Sum_probs=22.4
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCC
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
-++.|+|++|.|||+||+.++.+.+
T Consensus 28 e~~~i~G~nGsGKSTLl~~i~G~~~ 52 (218)
T cd03290 28 QLTMIVGQVGCGKSSLLLAILGEMQ 52 (218)
T ss_pred CEEEEECCCCCCHHHHHHHHhccCC
Confidence 4689999999999999999998864
No 457
>PRK14272 phosphate ABC transporter ATP-binding protein; Provisional
Probab=88.37 E-value=0.52 Score=44.42 Aligned_cols=23 Identities=30% Similarity=0.583 Sum_probs=21.4
Q ss_pred cEEEEcCCCchhhHHHHHHhccC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
.+.|+|++|+|||+||+.++.+.
T Consensus 32 ~~~i~G~nGsGKSTLl~~i~G~~ 54 (252)
T PRK14272 32 VNALIGPSGCGKTTFLRAINRMH 54 (252)
T ss_pred EEEEECCCCCCHHHHHHHHhccC
Confidence 48899999999999999999985
No 458
>cd04126 Rab20 Rab20 subfamily. Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bo
Probab=88.37 E-value=0.37 Score=44.77 Aligned_cols=21 Identities=29% Similarity=0.464 Sum_probs=18.2
Q ss_pred ccEEEEcCCCchhhHHHHHHh
Q 014661 348 SHLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~ 368 (420)
+.|+++|+||+|||.|++...
T Consensus 1 ~KIvivG~~~vGKTSLi~r~~ 21 (220)
T cd04126 1 LKVVLLGDMNVGKTSLLHRYM 21 (220)
T ss_pred CEEEEECCCCCcHHHHHHHHh
Confidence 468999999999999998654
No 459
>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).
Probab=88.35 E-value=0.38 Score=44.85 Aligned_cols=32 Identities=25% Similarity=0.391 Sum_probs=25.7
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
.+.|+|.+|.|||+||+.++.+.|. .|+..|.
T Consensus 28 ~~~l~G~nGsGKSTLl~~l~Gl~~~~~G~i~~~g~ 62 (236)
T cd03219 28 IHGLIGPNGAGKTTLFNLISGFLRPTSGSVLFDGE 62 (236)
T ss_pred EEEEECCCCCCHHHHHHHHcCCCCCCCceEEECCE
Confidence 4889999999999999999998753 2455554
No 460
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=88.34 E-value=0.45 Score=40.91 Aligned_cols=22 Identities=18% Similarity=0.335 Sum_probs=19.6
Q ss_pred EEEEcCCCchhhHHHHHHhccC
Q 014661 350 LLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~~ 371 (420)
|++||..++|||+|++...+.+
T Consensus 3 v~VvG~~~sGKTTl~~~Li~~l 24 (140)
T PF03205_consen 3 VQVVGPKNSGKTTLIRKLINEL 24 (140)
T ss_dssp EEEEESTTSSHHHHHHHHHHHH
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 7899999999999999887665
No 461
>PRK11124 artP arginine transporter ATP-binding subunit; Provisional
Probab=88.31 E-value=0.4 Score=44.91 Aligned_cols=24 Identities=38% Similarity=0.614 Sum_probs=22.2
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
++.|+|.+|+|||+||+.++.+.+
T Consensus 30 ~~~i~G~nGsGKSTLl~~l~G~~~ 53 (242)
T PRK11124 30 TLVLLGPSGAGKSSLLRVLNLLEM 53 (242)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 589999999999999999999865
No 462
>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional
Probab=88.30 E-value=0.38 Score=45.42 Aligned_cols=24 Identities=21% Similarity=0.409 Sum_probs=22.3
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|.|||+||+.++.+.|
T Consensus 33 ~~~l~G~nGsGKSTLl~~l~Gl~~ 56 (255)
T PRK11300 33 IVSLIGPNGAGKTTVFNCLTGFYK 56 (255)
T ss_pred EEEEECCCCCCHHHHHHHHhCCcC
Confidence 589999999999999999999975
No 463
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=88.28 E-value=0.4 Score=49.47 Aligned_cols=31 Identities=19% Similarity=0.412 Sum_probs=25.3
Q ss_pred cEEEEcCCCchhhHHHHHHhccC----CcEEEEec
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLS----NRSVITTG 379 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~----p~~v~~~G 379 (420)
.++|.|+||+|||.|+++++.-. .+.+|++.
T Consensus 143 pl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~ 177 (445)
T PRK12422 143 PIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRS 177 (445)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeH
Confidence 58999999999999999988643 45677654
No 464
>TIGR00235 udk uridine kinase. Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below
Probab=88.26 E-value=0.35 Score=44.25 Aligned_cols=24 Identities=17% Similarity=0.216 Sum_probs=22.2
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.|.++|.+|+|||+|++.++.+.+
T Consensus 8 vi~I~G~sGsGKSTl~~~l~~~l~ 31 (207)
T TIGR00235 8 IIGIGGGSGSGKTTVARKIYEQLG 31 (207)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhc
Confidence 588999999999999999998876
No 465
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]
Probab=88.24 E-value=0.37 Score=47.50 Aligned_cols=69 Identities=30% Similarity=0.355 Sum_probs=45.5
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCceeeEEeeC--Cc---eeeccceeeecCCceEeeecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLTVTAVKDG--GE---WMLEAGALVLADGGLCCIDEF 418 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt~~~~r~~--g~---~~leaGalvlad~Gv~ciDe~ 418 (420)
-+|+.|+.||||--|.|+|...+||+---- ..-+-|||...+...+ |. -.=..|-+=+|+||.+.+||+
T Consensus 229 PLLI~GeTGTGKdLlAkaCH~~S~R~~~pF-lalNCA~lPe~~aEsElFG~apg~~gk~GffE~AngGTVlLDeI 302 (511)
T COG3283 229 PLLITGETGTGKDLLAKACHLASPRHSKPF-LALNCASLPEDAAESELFGHAPGDEGKKGFFEQANGGTVLLDEI 302 (511)
T ss_pred CeEEecCCCchHHHHHHHHhhcCcccCCCe-eEeecCCCchhHhHHHHhcCCCCCCCccchhhhccCCeEEeehh
Confidence 589999999999999999999999962100 0011244443222111 10 011267889999999999997
No 466
>TIGR02858 spore_III_AA stage III sporulation protein AA. Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.
Probab=88.22 E-value=0.4 Score=46.01 Aligned_cols=26 Identities=23% Similarity=0.441 Sum_probs=23.7
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCCc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
-|++++|.||+|||+||+.++.+.+.
T Consensus 112 ~~~~i~g~~g~GKttl~~~l~~~~~~ 137 (270)
T TIGR02858 112 LNTLIISPPQCGKTTLLRDLARILST 137 (270)
T ss_pred eEEEEEcCCCCCHHHHHHHHhCccCC
Confidence 38999999999999999999998764
No 467
>CHL00206 ycf2 Ycf2; Provisional
Probab=88.22 E-value=0.32 Score=57.46 Aligned_cols=31 Identities=32% Similarity=0.440 Sum_probs=25.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEE-Eec
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVI-TTG 379 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~-~~G 379 (420)
-|||+|.||||||-|.|++|.=+.--++ ++|
T Consensus 1632 GILLiGPPGTGKTlLAKALA~es~VPFIsISg 1663 (2281)
T CHL00206 1632 GILVIGSIGTGRSYLVKYLATNSYVPFITVFL 1663 (2281)
T ss_pred ceEEECCCCCCHHHHHHHHHHhcCCceEEEEH
Confidence 4999999999999999999887754433 444
No 468
>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E. coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.
Probab=88.21 E-value=0.4 Score=44.72 Aligned_cols=32 Identities=28% Similarity=0.456 Sum_probs=25.7
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
.+.|+|++|.|||+||+.++.+.|. .++..|.
T Consensus 30 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~~g~ 64 (237)
T cd03252 30 VVGIVGRSGSGKSTLTKLIQRFYVPENGRVLVDGH 64 (237)
T ss_pred EEEEECCCCCCHHHHHHHHhcCcCCCCCEEEECCe
Confidence 5899999999999999999988753 2455553
No 469
>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional
Probab=88.20 E-value=0.41 Score=45.44 Aligned_cols=32 Identities=28% Similarity=0.487 Sum_probs=25.6
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
.+.|+|.+|+|||+||+.++.+.+. .++..|.
T Consensus 29 ~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~ 63 (255)
T PRK11248 29 LLVVLGPSGCGKTTLLNLIAGFVPYQHGSITLDGK 63 (255)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCcEEEECCE
Confidence 5899999999999999999998753 2444454
No 470
>cd04128 Spg1 Spg1p. Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are
Probab=88.19 E-value=0.39 Score=42.96 Aligned_cols=20 Identities=25% Similarity=0.365 Sum_probs=17.1
Q ss_pred ccEEEEcCCCchhhHHHHHH
Q 014661 348 SHLLLVGDPGTGKSQFLKFA 367 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~ 367 (420)
+.|+++||+|+|||.|++..
T Consensus 1 ~Ki~vlG~~~vGKTsLi~~~ 20 (182)
T cd04128 1 LKIGLLGDAQIGKTSLMVKY 20 (182)
T ss_pred CEEEEECCCCCCHHHHHHHH
Confidence 36899999999999998654
No 471
>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=88.15 E-value=0.44 Score=41.42 Aligned_cols=26 Identities=38% Similarity=0.511 Sum_probs=23.1
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCCc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
=.++|+|++|.|||.|++.++.+.+.
T Consensus 26 ~~~~i~G~nGsGKStll~~l~g~~~~ 51 (157)
T cd00267 26 EIVALVGPNGSGKSTLLRAIAGLLKP 51 (157)
T ss_pred CEEEEECCCCCCHHHHHHHHhCCCCC
Confidence 36889999999999999999998763
No 472
>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]
Probab=88.15 E-value=0.32 Score=51.22 Aligned_cols=64 Identities=31% Similarity=0.451 Sum_probs=45.4
Q ss_pred ccCcccEEEEcCCCchhhHHHHHHhccCCcEEEEeccccccCCce----eeEEeeC-----------Ccee-----eccc
Q 014661 344 VRGESHLLLVGDPGTGKSQFLKFAAKLSNRSVITTGLGSTSAGLT----VTAVKDG-----------GEWM-----LEAG 403 (420)
Q Consensus 344 ~Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G~~ss~~gLt----~~~~r~~-----------g~~~-----leaG 403 (420)
.+.++++|+.|.|||||--|.|++.+=+. .+|.. ++++.+. |.|+ -.-|
T Consensus 333 ~~~~~pvll~GEtGtGKe~laraiH~~s~-----------~~gpfvAvNCaAip~~liesELFGy~~GafTga~~kG~~g 401 (606)
T COG3284 333 AATDLPVLLQGETGTGKEVLARAIHQNSE-----------AAGPFVAVNCAAIPEALIESELFGYVAGAFTGARRKGYKG 401 (606)
T ss_pred hhcCCCeEecCCcchhHHHHHHHHHhccc-----------ccCCeEEEEeccchHHhhhHHHhccCccccccchhccccc
Confidence 46789999999999999999999887654 23333 2333331 2222 2246
Q ss_pred eeeecCCceEeeecc
Q 014661 404 ALVLADGGLCCIDEF 418 (420)
Q Consensus 404 alvlad~Gv~ciDe~ 418 (420)
.+-.||||..++||+
T Consensus 402 ~~~~A~gGtlFldeI 416 (606)
T COG3284 402 KLEQADGGTLFLDEI 416 (606)
T ss_pred cceecCCCccHHHHh
Confidence 677999999999997
No 473
>PRK00279 adk adenylate kinase; Reviewed
Probab=88.13 E-value=0.49 Score=43.56 Aligned_cols=31 Identities=42% Similarity=0.649 Sum_probs=24.8
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEEEec
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVITTG 379 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G 379 (420)
.|+++|.||+|||++.+.+++-..-....+|
T Consensus 2 ~I~v~G~pGsGKsT~a~~la~~~~~~~is~~ 32 (215)
T PRK00279 2 RLILLGPPGAGKGTQAKFIAEKYGIPHISTG 32 (215)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCcEEECC
Confidence 5899999999999999998877665444443
No 474
>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]
Probab=88.13 E-value=0.79 Score=43.38 Aligned_cols=40 Identities=30% Similarity=0.377 Sum_probs=29.9
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhccCCc---EEEEeccccccC
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGLGSTSA 385 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~~ss~~ 385 (420)
+|++ +-|+|+.|.|||+|+|.+..+.+. .|++.|+..+..
T Consensus 29 ~G~~-~~iiGPNGaGKSTLlK~iLGll~p~~G~i~~~g~~~~~~ 71 (254)
T COG1121 29 KGEI-TALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKR 71 (254)
T ss_pred CCcE-EEEECCCCCCHHHHHHHHhCCCcCCcceEEEcccccccc
Confidence 4444 778999999999999999996543 366777755443
No 475
>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.
Probab=88.08 E-value=0.38 Score=41.67 Aligned_cols=22 Identities=23% Similarity=0.377 Sum_probs=19.2
Q ss_pred EEEEcCCCchhhHHHHHHhccC
Q 014661 350 LLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 350 iLlvGdpg~gKSqlL~~~~~~~ 371 (420)
|+++|+||+|||+|++....-.
T Consensus 3 i~iiG~~~~GKtsli~~l~~~~ 24 (168)
T cd01887 3 VTVMGHVDHGKTTLLDKIRKTN 24 (168)
T ss_pred EEEEecCCCCHHHHHHHHHhcc
Confidence 7899999999999999886543
No 476
>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.
Probab=88.08 E-value=0.42 Score=44.39 Aligned_cols=32 Identities=22% Similarity=0.362 Sum_probs=25.6
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
.+.|+|.+|+|||+||+.++.+.|. .++..|.
T Consensus 28 ~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~ 62 (232)
T cd03218 28 IVGLLGPNGAGKTTTFYMIVGLVKPDSGKILLDGQ 62 (232)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCcEEEECCE
Confidence 5889999999999999999998753 2444554
No 477
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=88.08 E-value=0.72 Score=45.12 Aligned_cols=44 Identities=30% Similarity=0.375 Sum_probs=34.9
Q ss_pred cccCCHHHHHHHHHHHhcCceeeCCCCCcccCcccE-EEEcCCCchhhHHHHHHhcc
Q 014661 315 QVFGLFTVKLAVALTLIGGVQHVDASGTKVRGESHL-LLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 315 ~i~G~~~~K~ailL~L~gg~~~~~~~g~~~Rg~ihi-LlvGdpg~gKSqlL~~~~~~ 370 (420)
.|.||+.++..+.-++-.|.- -|. |+.|++|+||+++.+..++.
T Consensus 5 ~i~g~~~~~~~l~~~~~~~~~------------~ha~Lf~G~~G~Gk~~la~~~a~~ 49 (313)
T PRK05564 5 TIIGHENIKNRIKNSIIKNRF------------SHAHIIVGEDGIGKSLLAKEIALK 49 (313)
T ss_pred hccCcHHHHHHHHHHHHcCCC------------CceEEeECCCCCCHHHHHHHHHHH
Confidence 577999999988777755421 155 89999999999999988874
No 478
>TIGR02012 tigrfam_recA protein RecA. This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.
Probab=88.08 E-value=0.54 Score=46.19 Aligned_cols=38 Identities=18% Similarity=0.302 Sum_probs=27.2
Q ss_pred cCcccEEEEcCCCchhhHH-HHHHhccC---CcEEEEeccccc
Q 014661 345 RGESHLLLVGDPGTGKSQF-LKFAAKLS---NRSVITTGLGST 383 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSql-L~~~~~~~---p~~v~~~G~~ss 383 (420)
||.+ +++.|+||+|||+| |.+++... .+++|++..++.
T Consensus 54 ~G~i-teI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~ 95 (321)
T TIGR02012 54 RGRI-IEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHAL 95 (321)
T ss_pred CCeE-EEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchh
Confidence 4444 88999999999998 55554443 567888776653
No 479
>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=88.07 E-value=0.42 Score=44.53 Aligned_cols=26 Identities=27% Similarity=0.511 Sum_probs=23.2
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcE
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRS 374 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~ 374 (420)
+|-+||+.|.|||+|||.+..+.+.+
T Consensus 32 ~VaiIG~SGaGKSTLLR~lngl~d~t 57 (258)
T COG3638 32 MVAIIGPSGAGKSTLLRSLNGLVDPT 57 (258)
T ss_pred EEEEECCCCCcHHHHHHHHhcccCCC
Confidence 58899999999999999999987653
No 480
>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=88.06 E-value=0.42 Score=44.72 Aligned_cols=32 Identities=28% Similarity=0.552 Sum_probs=25.7
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
.+.|+|.+|.|||+||+.++.+.+. .++..|.
T Consensus 30 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~~g~ 64 (239)
T cd03296 30 LVALLGPSGSGKTTLLRLIAGLERPDSGTILFGGE 64 (239)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCE
Confidence 5889999999999999999999753 2444554
No 481
>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=88.05 E-value=0.43 Score=43.79 Aligned_cols=25 Identities=32% Similarity=0.464 Sum_probs=22.7
Q ss_pred ccEEEEcCCCchhhHHHHHHhccCC
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
=.+.|+|.+|+|||+||+.++.+.+
T Consensus 24 e~~~i~G~nGsGKSTLl~~l~G~~~ 48 (214)
T cd03297 24 EVTGIFGASGAGKSTLLRCIAGLEK 48 (214)
T ss_pred eeEEEECCCCCCHHHHHHHHhCCCC
Confidence 4689999999999999999999875
No 482
>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein. Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins.
Probab=88.03 E-value=0.42 Score=45.13 Aligned_cols=25 Identities=32% Similarity=0.567 Sum_probs=22.3
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
.+.|+|.+|+|||+||+.++.+.+.
T Consensus 28 ~~~i~G~nGsGKSTLl~~l~G~~~~ 52 (252)
T TIGR03005 28 KVALIGPSGSGKSTILRILMTLEPI 52 (252)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCC
Confidence 4889999999999999999998753
No 483
>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=88.02 E-value=0.42 Score=48.57 Aligned_cols=31 Identities=23% Similarity=0.383 Sum_probs=23.9
Q ss_pred cEEEEcCCCchhhHHHHHHhccC------CcEEEEec
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLS------NRSVITTG 379 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~------p~~v~~~G 379 (420)
.++|.|+||+|||.|++++++-+ -+.+|+++
T Consensus 138 ~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~ 174 (405)
T TIGR00362 138 PLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS 174 (405)
T ss_pred eEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH
Confidence 48999999999999999987643 23456654
No 484
>TIGR00157 ribosome small subunit-dependent GTPase A. The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).
Probab=88.01 E-value=0.38 Score=45.42 Aligned_cols=20 Identities=25% Similarity=0.469 Sum_probs=17.6
Q ss_pred cEEEEcCCCchhhHHHHHHh
Q 014661 349 HLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~ 368 (420)
-+.++|.||+|||.|++...
T Consensus 122 ~~~~~G~sgvGKStLiN~L~ 141 (245)
T TIGR00157 122 ISVFAGQSGVGKSSLINALD 141 (245)
T ss_pred EEEEECCCCCCHHHHHHHHh
Confidence 47899999999999999755
No 485
>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional
Probab=88.01 E-value=0.42 Score=44.71 Aligned_cols=32 Identities=22% Similarity=0.347 Sum_probs=25.8
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
.+.|+|++|+|||+||+.++.+.+. .++..|.
T Consensus 31 ~~~l~G~nGsGKSTLl~~l~G~~~~~~G~i~~~g~ 65 (241)
T PRK10895 31 IVGLLGPNGAGKTTTFYMVVGIVPRDAGNIIIDDE 65 (241)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCCCCCcEEEECCE
Confidence 5899999999999999999999753 2444443
No 486
>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional
Probab=88.00 E-value=0.43 Score=44.78 Aligned_cols=24 Identities=33% Similarity=0.614 Sum_probs=22.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|+|||+||+.++.+.+
T Consensus 31 ~~~i~G~nGsGKSTLl~~l~Gl~~ 54 (241)
T PRK14250 31 IYTIVGPSGAGKSTLIKLINRLID 54 (241)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 589999999999999999999875
No 487
>cd01889 SelB_euk SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk
Probab=87.97 E-value=0.34 Score=43.55 Aligned_cols=23 Identities=17% Similarity=0.365 Sum_probs=20.4
Q ss_pred ccEEEEcCCCchhhHHHHHHhcc
Q 014661 348 SHLLLVGDPGTGKSQFLKFAAKL 370 (420)
Q Consensus 348 ihiLlvGdpg~gKSqlL~~~~~~ 370 (420)
|||.++|++|+|||.|+......
T Consensus 1 ~~i~i~G~~~~GKstLi~~l~~~ 23 (192)
T cd01889 1 VNVGVLGHVDSGKTSLAKALSEI 23 (192)
T ss_pred CeEEEEecCCCCHHHHHHHHHhc
Confidence 68999999999999999977653
No 488
>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.
Probab=87.97 E-value=0.42 Score=44.60 Aligned_cols=24 Identities=29% Similarity=0.571 Sum_probs=22.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|+|||+||+.++.+.|
T Consensus 31 ~~~l~G~nGsGKSTLl~~i~G~~~ 54 (238)
T cd03249 31 TVALVGSSGCGKSTVVSLLERFYD 54 (238)
T ss_pred EEEEEeCCCCCHHHHHHHHhccCC
Confidence 588999999999999999999875
No 489
>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=87.95 E-value=0.43 Score=44.59 Aligned_cols=32 Identities=34% Similarity=0.568 Sum_probs=25.6
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
.+.|+|.+|+|||+||+..+.+.+. .++..|+
T Consensus 29 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~~g~ 63 (241)
T cd03256 29 FVALIGPSGAGKSTLLRCLNGLVEPTSGSVLIDGT 63 (241)
T ss_pred EEEEECCCCCCHHHHHHHHhCCcCCCCceEEECCE
Confidence 4889999999999999999998753 2555554
No 490
>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1). NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.
Probab=87.95 E-value=0.44 Score=43.48 Aligned_cols=25 Identities=24% Similarity=0.409 Sum_probs=22.6
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
++.|+|.+|+|||+||+..+.+.+.
T Consensus 36 ~~~i~G~nGsGKSTLl~~l~Gl~~~ 60 (207)
T cd03369 36 KIGIVGRTGAGKSTLILALFRFLEA 60 (207)
T ss_pred EEEEECCCCCCHHHHHHHHhcccCC
Confidence 5899999999999999999988753
No 491
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=87.94 E-value=0.56 Score=42.81 Aligned_cols=31 Identities=23% Similarity=0.450 Sum_probs=24.3
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCcEEEEec
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNRSVITTG 379 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~~v~~~G 379 (420)
-+++.|-||+|||++.+.+++-....+.++|
T Consensus 5 ~i~i~G~~G~GKst~a~~l~~~~~~~~~~~~ 35 (197)
T PRK12339 5 IHFIGGIPGVGKTSISGYIARHRAIDIVLSG 35 (197)
T ss_pred EEEEECCCCCCHHHHHHHHHHhcCCeEEehh
Confidence 5899999999999999988776654444444
No 492
>PRK14242 phosphate transporter ATP-binding protein; Provisional
Probab=87.93 E-value=0.55 Score=44.32 Aligned_cols=23 Identities=35% Similarity=0.650 Sum_probs=21.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLS 371 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~ 371 (420)
.+.|+|.+|+|||+||+.++.+.
T Consensus 34 ~~~i~G~nGsGKSTLl~~l~Gl~ 56 (253)
T PRK14242 34 VTALIGPSGCGKSTFLRCLNRMN 56 (253)
T ss_pred EEEEECCCCCCHHHHHHHHHhhc
Confidence 58999999999999999999774
No 493
>PRK14738 gmk guanylate kinase; Provisional
Probab=87.92 E-value=0.45 Score=43.64 Aligned_cols=25 Identities=20% Similarity=0.280 Sum_probs=21.4
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR 373 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~ 373 (420)
-+.|+|.||+|||+|++...+..++
T Consensus 15 ~ivi~GpsG~GK~tl~~~L~~~~~~ 39 (206)
T PRK14738 15 LVVISGPSGVGKDAVLARMRERKLP 39 (206)
T ss_pred EEEEECcCCCCHHHHHHHHHhcCCc
Confidence 3778999999999999999876654
No 494
>cd04171 SelB SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo
Probab=87.92 E-value=0.4 Score=41.18 Aligned_cols=21 Identities=19% Similarity=0.232 Sum_probs=18.8
Q ss_pred cEEEEcCCCchhhHHHHHHhc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAK 369 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~ 369 (420)
+|.++|+||+|||.|++....
T Consensus 2 ~i~i~G~~~~GKssl~~~l~~ 22 (164)
T cd04171 2 IIGTAGHIDHGKTTLIKALTG 22 (164)
T ss_pred EEEEEecCCCCHHHHHHHHhC
Confidence 688999999999999998763
No 495
>PRK00089 era GTPase Era; Reviewed
Probab=87.89 E-value=0.39 Score=46.42 Aligned_cols=20 Identities=35% Similarity=0.607 Sum_probs=18.3
Q ss_pred cEEEEcCCCchhhHHHHHHh
Q 014661 349 HLLLVGDPGTGKSQFLKFAA 368 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~ 368 (420)
.|.++|.||+|||+|+++..
T Consensus 7 ~V~iiG~pn~GKSTLin~L~ 26 (292)
T PRK00089 7 FVAIVGRPNVGKSTLLNALV 26 (292)
T ss_pred EEEEECCCCCCHHHHHHHHh
Confidence 69999999999999999864
No 496
>COG0444 DppD ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]
Probab=87.88 E-value=0.45 Score=46.26 Aligned_cols=35 Identities=37% Similarity=0.513 Sum_probs=28.3
Q ss_pred cCcccEEEEcCCCchhhHHHHHHhccCCc--EEEEecc
Q 014661 345 RGESHLLLVGDPGTGKSQFLKFAAKLSNR--SVITTGL 380 (420)
Q Consensus 345 Rg~ihiLlvGdpg~gKSqlL~~~~~~~p~--~v~~~G~ 380 (420)
+|.+ +-|||+.|+|||.+.+++..+.|. +..++|.
T Consensus 30 ~GE~-lgiVGESGsGKS~~~~aim~llp~~~~~i~~G~ 66 (316)
T COG0444 30 KGEI-LGIVGESGSGKSVLAKAIMGLLPKPNARIVGGE 66 (316)
T ss_pred CCcE-EEEEcCCCCCHHHHHHHHHhccCCCCCeEeeeE
Confidence 4444 789999999999999999999984 5556653
No 497
>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional
Probab=87.87 E-value=0.44 Score=44.36 Aligned_cols=24 Identities=33% Similarity=0.638 Sum_probs=22.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|+|||+||+.++.+.+
T Consensus 37 ~~~l~G~nGsGKSTLl~~l~Gl~~ 60 (233)
T PRK11629 37 MMAIVGSSGSGKSTLLHLLGGLDT 60 (233)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCC
Confidence 488999999999999999999875
No 498
>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.
Probab=87.86 E-value=0.42 Score=43.76 Aligned_cols=24 Identities=42% Similarity=0.551 Sum_probs=22.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|+|||+||+.++.+.+
T Consensus 27 ~~~l~G~nGsGKSTLl~~l~G~~~ 50 (213)
T cd03235 27 FLAIVGPNGAGKSTLLKAILGLLK 50 (213)
T ss_pred EEEEECCCCCCHHHHHHHHcCCCC
Confidence 589999999999999999999865
No 499
>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=87.85 E-value=0.45 Score=43.88 Aligned_cols=24 Identities=42% Similarity=0.653 Sum_probs=22.1
Q ss_pred cEEEEcCCCchhhHHHHHHhccCC
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSN 372 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p 372 (420)
.+.|+|.+|+|||+||+.++.+.+
T Consensus 32 ~~~i~G~nGsGKSTLl~~l~Gl~~ 55 (220)
T cd03293 32 FVALVGPSGCGKSTLLRIIAGLER 55 (220)
T ss_pred EEEEECCCCCCHHHHHHHHhCCCC
Confidence 488999999999999999999964
No 500
>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=87.85 E-value=0.43 Score=46.15 Aligned_cols=32 Identities=22% Similarity=0.380 Sum_probs=25.7
Q ss_pred cEEEEcCCCchhhHHHHHHhccCCc---EEEEecc
Q 014661 349 HLLLVGDPGTGKSQFLKFAAKLSNR---SVITTGL 380 (420)
Q Consensus 349 hiLlvGdpg~gKSqlL~~~~~~~p~---~v~~~G~ 380 (420)
.+.|+|.+|.|||+||+.++.+.|. .++..|.
T Consensus 39 ~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~ 73 (289)
T PRK13645 39 VTCVIGTTGSGKSTMIQLTNGLIISETGQTIVGDY 73 (289)
T ss_pred EEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCE
Confidence 5899999999999999999998753 2444443
Done!