Query 042331
Match_columns 378
No_of_seqs 149 out of 662
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 05:13:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042331.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042331hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2869 Meiotic cell division 100.0 1E-104 3E-109 737.3 33.5 378 1-378 1-378 (379)
2 TIGR00111 pelota probable tran 100.0 2.7E-95 6E-100 712.7 45.5 350 1-370 1-351 (351)
3 COG1537 PelA Predicted RNA-bin 100.0 1.1E-90 2.3E-95 658.3 41.7 352 1-371 1-352 (352)
4 TIGR00108 eRF peptide chain re 100.0 1.1E-60 2.3E-65 475.9 31.6 333 11-371 20-408 (409)
5 TIGR03676 aRF1/eRF1 peptide ch 100.0 2.4E-59 5.3E-64 464.5 28.8 319 24-370 35-403 (403)
6 PRK04011 peptide chain release 100.0 6.6E-57 1.4E-61 449.0 34.4 330 15-370 29-411 (411)
7 COG1503 eRF1 Peptide chain rel 100.0 1.1E-43 2.4E-48 344.7 17.0 331 14-371 28-410 (411)
8 PF03463 eRF1_1: eRF1 domain 1 100.0 3.8E-37 8.2E-42 262.1 7.7 130 1-130 1-131 (132)
9 KOG0688 Peptide chain release 100.0 1.7E-34 3.7E-39 268.2 12.2 283 72-371 81-413 (431)
10 PF03465 eRF1_3: eRF1 domain 3 100.0 5.9E-29 1.3E-33 205.8 10.0 99 271-370 1-113 (113)
11 PF03464 eRF1_2: eRF1 domain 2 99.9 1.7E-25 3.7E-30 190.9 15.1 126 136-268 1-133 (133)
12 PF10116 Host_attach: Protein 96.7 0.0058 1.3E-07 52.2 7.0 91 138-228 2-117 (138)
13 PF08032 SpoU_sub_bind: RNA 2' 95.9 0.017 3.6E-07 43.7 5.1 68 293-369 2-73 (76)
14 PRK13600 putative ribosomal pr 95.0 0.064 1.4E-06 41.9 5.4 58 292-356 14-71 (84)
15 PRK13602 putative ribosomal pr 94.3 0.21 4.5E-06 38.8 7.0 63 289-358 9-71 (82)
16 PRK06683 hypothetical protein; 93.0 0.51 1.1E-05 36.6 7.1 62 288-356 8-69 (82)
17 PF01248 Ribosomal_L7Ae: Ribos 93.0 0.22 4.8E-06 39.4 5.2 71 290-367 14-87 (95)
18 PRK07283 hypothetical protein; 92.7 0.36 7.7E-06 38.8 6.0 73 287-366 14-86 (98)
19 PRK07714 hypothetical protein; 92.2 0.41 8.8E-06 38.6 5.8 72 288-366 15-87 (100)
20 PRK01018 50S ribosomal protein 91.3 1.2 2.7E-05 35.7 7.7 71 289-366 14-87 (99)
21 PTZ00106 60S ribosomal protein 91.0 1.2 2.6E-05 36.5 7.4 81 278-366 13-96 (108)
22 PRK04175 rpl7ae 50S ribosomal 90.9 1.6 3.6E-05 36.4 8.3 79 280-366 20-101 (122)
23 COG1358 RPL8A Ribosomal protei 90.5 0.89 1.9E-05 37.7 6.3 61 289-356 25-86 (116)
24 PRK13601 putative L7Ae-like ri 90.1 1.3 2.7E-05 34.5 6.4 61 289-356 6-66 (82)
25 TIGR03677 rpl7ae 50S ribosomal 89.1 2.7 5.8E-05 34.9 8.1 73 289-367 24-98 (117)
26 PRK05583 ribosomal protein L7A 86.8 2 4.4E-05 34.8 5.9 61 287-354 13-73 (104)
27 PRK09190 hypothetical protein; 78.4 18 0.0004 33.4 9.4 65 286-354 106-173 (220)
28 PTZ00222 60S ribosomal protein 78.3 16 0.00035 34.4 9.0 74 288-367 129-203 (263)
29 COG1911 RPL30 Ribosomal protei 75.7 24 0.00052 28.2 8.0 70 289-365 17-87 (100)
30 PTZ00365 60S ribosomal protein 68.4 20 0.00043 33.9 7.1 74 287-367 128-203 (266)
31 PF13727 CoA_binding_3: CoA-bi 67.5 13 0.00027 31.9 5.5 51 291-347 125-175 (175)
32 COG0566 SpoU rRNA methylases [ 61.2 43 0.00093 31.7 8.1 71 290-370 21-95 (260)
33 TIGR00186 rRNA_methyl_3 rRNA m 56.9 27 0.00059 32.5 5.9 68 291-369 2-72 (237)
34 PRK10864 putative methyltransf 56.6 30 0.00065 34.3 6.4 70 290-369 108-182 (346)
35 PRK11181 23S rRNA (guanosine-2 54.1 41 0.0009 31.4 6.7 68 291-367 3-75 (244)
36 COG0420 SbcD DNA repair exonuc 51.3 36 0.00078 33.9 6.2 60 297-356 30-91 (390)
37 COG1212 KdsB CMP-2-keto-3-deox 50.6 32 0.0007 32.0 5.1 43 300-355 36-78 (247)
38 PRK10124 putative UDP-glucose 48.4 55 0.0012 33.7 7.1 69 294-368 189-261 (463)
39 TIGR01175 pilM type IV pilus a 48.1 2.1E+02 0.0046 27.7 11.0 89 137-225 190-306 (348)
40 PF11608 Limkain-b1: Limkain b 47.0 65 0.0014 25.3 5.5 46 310-371 3-49 (90)
41 COG1105 FruK Fructose-1-phosph 42.4 3.4E+02 0.0073 26.5 11.0 106 179-316 113-223 (310)
42 PRK05082 N-acetylmannosamine k 41.1 67 0.0014 30.4 6.0 47 181-227 213-259 (291)
43 cd03231 ABC_CcmA_heme_exporter 39.8 82 0.0018 28.0 6.1 55 310-367 145-199 (201)
44 PRK13538 cytochrome c biogenes 39.7 60 0.0013 29.0 5.2 44 309-352 148-191 (204)
45 TIGR03025 EPS_sugtrans exopoly 39.5 97 0.0021 31.5 7.3 67 293-365 173-243 (445)
46 TIGR01166 cbiO cobalt transpor 38.8 61 0.0013 28.5 5.1 42 309-350 146-187 (190)
47 smart00536 AXH domain in Ataxi 38.5 1.1E+02 0.0023 25.4 5.9 77 14-123 13-91 (116)
48 cd00338 Ser_Recombinase Serine 37.2 96 0.0021 25.3 5.8 48 295-347 53-102 (137)
49 COG1121 ZnuC ABC-type Mn/Zn tr 37.1 84 0.0018 29.7 5.8 56 310-367 159-214 (254)
50 cd03216 ABC_Carb_Monos_I This 35.4 79 0.0017 27.2 5.1 42 310-351 102-143 (163)
51 cd03282 ABC_MSH4_euk MutS4 hom 34.9 1.3E+02 0.0029 27.2 6.7 53 309-361 109-162 (204)
52 TIGR03022 WbaP_sugtrans Undeca 34.9 1.4E+02 0.0031 30.4 7.6 69 291-365 172-244 (456)
53 cd03283 ABC_MutS-like MutS-lik 34.2 1.4E+02 0.003 26.8 6.7 56 308-363 105-161 (199)
54 cd03232 ABC_PDR_domain2 The pl 33.6 83 0.0018 27.8 5.1 42 310-351 128-169 (192)
55 cd03246 ABCC_Protease_Secretio 32.6 90 0.0019 27.0 5.1 42 310-351 116-157 (173)
56 TIGR01189 ccmA heme ABC export 32.5 92 0.002 27.6 5.2 43 308-350 145-187 (198)
57 cd03235 ABC_Metallic_Cations A 32.3 87 0.0019 28.0 5.1 42 310-351 152-193 (213)
58 PRK13540 cytochrome c biogenes 32.3 91 0.002 27.7 5.1 43 310-352 147-189 (200)
59 PRK10966 exonuclease subunit S 32.2 1.2E+02 0.0025 30.8 6.4 57 300-356 32-90 (407)
60 TIGR03023 WcaJ_sugtrans Undeca 32.1 1.5E+02 0.0032 30.1 7.3 67 293-365 176-246 (451)
61 PRK13543 cytochrome c biogenes 31.9 82 0.0018 28.4 4.8 43 310-352 157-199 (214)
62 COG1855 ATPase (PilT family) [ 31.8 5.2E+02 0.011 27.0 10.6 130 74-227 146-289 (604)
63 cd03230 ABC_DR_subfamily_A Thi 31.7 1E+02 0.0022 26.7 5.3 42 310-351 115-156 (173)
64 TIGR03771 anch_rpt_ABC anchore 31.7 89 0.0019 28.4 5.1 43 310-352 133-175 (223)
65 PRK09493 glnQ glutamine ABC tr 31.4 91 0.002 28.5 5.1 44 309-352 155-198 (240)
66 cd07384 MPP_Cdc1_like Saccharo 31.4 1.4E+02 0.0031 26.0 6.1 56 298-353 36-100 (171)
67 cd03770 SR_TndX_transposase Se 31.4 1.5E+02 0.0033 24.8 6.1 51 294-349 55-108 (140)
68 TIGR00960 3a0501s02 Type II (G 31.4 94 0.002 27.9 5.1 43 309-351 157-199 (216)
69 TIGR02673 FtsE cell division A 31.4 92 0.002 27.8 5.1 43 309-351 156-198 (214)
70 cd03226 ABC_cobalt_CbiO_domain 31.3 95 0.0021 27.6 5.1 42 310-351 146-187 (205)
71 COG2450 Uncharacterized conser 31.1 82 0.0018 26.4 4.1 57 293-349 48-105 (124)
72 cd03220 ABC_KpsT_Wzt ABC_KpsT_ 30.9 96 0.0021 28.2 5.1 42 310-351 162-203 (224)
73 TIGR00619 sbcd exonuclease Sbc 30.8 1.6E+02 0.0034 27.6 6.7 59 298-356 30-91 (253)
74 cd03262 ABC_HisP_GlnQ_permease 30.7 97 0.0021 27.6 5.1 41 310-350 155-195 (213)
75 PRK09557 fructokinase; Reviewe 30.4 1.2E+02 0.0026 28.8 6.0 47 181-227 224-270 (301)
76 cd03270 ABC_UvrA_I The excisio 30.1 90 0.002 28.5 4.8 42 310-351 159-200 (226)
77 cd03243 ABC_MutS_homologs The 30.1 1.3E+02 0.0029 26.7 5.9 47 308-354 108-155 (202)
78 cd03280 ABC_MutS2 MutS2 homolo 29.9 1.3E+02 0.0027 26.9 5.7 44 309-352 109-153 (200)
79 cd03213 ABCG_EPDR ABCG transpo 29.9 1.1E+02 0.0023 27.2 5.1 41 310-350 131-171 (194)
80 TIGR02324 CP_lyasePhnL phospho 29.7 1E+02 0.0022 27.8 5.1 42 310-351 169-210 (224)
81 smart00857 Resolvase Resolvase 29.6 1.4E+02 0.0031 24.8 5.7 49 295-348 53-103 (148)
82 PRK10908 cell division protein 29.3 1.1E+02 0.0023 27.7 5.1 42 310-351 157-198 (222)
83 cd03238 ABC_UvrA The excision 29.3 1.1E+02 0.0024 27.0 5.1 42 310-351 109-150 (176)
84 cd03269 ABC_putative_ATPase Th 28.9 1.2E+02 0.0025 27.1 5.3 42 310-351 148-189 (210)
85 PRK13539 cytochrome c biogenes 28.8 1.1E+02 0.0024 27.3 5.1 43 310-352 147-189 (207)
86 cd03292 ABC_FtsE_transporter F 28.7 1.1E+02 0.0024 27.3 5.1 42 310-351 156-197 (214)
87 PRK11124 artP arginine transpo 28.4 1.1E+02 0.0024 28.0 5.2 42 310-351 161-202 (242)
88 PRK11264 putative amino-acid A 28.3 1.1E+02 0.0023 28.2 5.1 43 309-351 163-205 (250)
89 PF07045 DUF1330: Protein of u 28.2 1.2E+02 0.0026 21.9 4.3 42 328-370 6-48 (65)
90 COG1129 MglA ABC-type sugar tr 28.1 1.1E+02 0.0023 32.1 5.3 96 269-368 372-485 (500)
91 cd03215 ABC_Carb_Monos_II This 28.0 1.2E+02 0.0027 26.4 5.2 42 310-351 124-165 (182)
92 CHL00131 ycf16 sulfate ABC tra 27.9 1.1E+02 0.0024 28.1 5.1 42 310-351 171-212 (252)
93 cd03227 ABC_Class2 ABC-type Cl 27.9 1.6E+02 0.0035 25.2 5.8 43 310-352 101-143 (162)
94 TIGR01978 sufC FeS assembly AT 27.8 1E+02 0.0022 28.1 4.8 43 309-351 163-205 (243)
95 cd03224 ABC_TM1139_LivF_branch 27.5 1.2E+02 0.0026 27.2 5.1 43 309-351 151-193 (222)
96 CHL00195 ycf46 Ycf46; Provisio 27.5 1.9E+02 0.0042 30.0 7.2 63 310-375 83-146 (489)
97 PRK10619 histidine/lysine/argi 27.4 1.1E+02 0.0025 28.3 5.1 42 310-351 172-213 (257)
98 PF11104 PilM_2: Type IV pilus 27.4 2.8E+02 0.006 27.0 8.0 88 136-225 181-298 (340)
99 cd03225 ABC_cobalt_CbiO_domain 27.3 1.2E+02 0.0026 27.0 5.1 42 310-351 154-195 (211)
100 cd03279 ABC_sbcCD SbcCD and ot 27.3 1.5E+02 0.0033 26.6 5.8 42 310-351 153-194 (213)
101 TIGR03608 L_ocin_972_ABC putat 27.1 1.2E+02 0.0027 26.8 5.1 42 309-350 153-194 (206)
102 cd03219 ABC_Mj1267_LivG_branch 26.7 1.2E+02 0.0027 27.4 5.1 42 310-351 163-204 (236)
103 PF01715 IPPT: IPP transferase 26.5 64 0.0014 30.4 3.2 37 181-218 37-73 (253)
104 cd03301 ABC_MalK_N The N-termi 26.3 1.3E+02 0.0028 26.9 5.1 43 309-351 149-192 (213)
105 cd03266 ABC_NatA_sodium_export 26.3 1.3E+02 0.0029 26.8 5.2 42 310-351 156-197 (218)
106 PRK10247 putative ABC transpor 26.2 1.2E+02 0.0026 27.6 4.9 42 310-351 157-199 (225)
107 PRK13310 N-acetyl-D-glucosamin 25.8 1.5E+02 0.0033 28.1 5.8 47 181-227 225-271 (303)
108 PRK11614 livF leucine/isoleuci 25.7 1.3E+02 0.0028 27.4 5.0 42 310-351 157-198 (237)
109 cd03214 ABC_Iron-Siderophores_ 25.6 1.3E+02 0.0028 26.2 4.9 43 309-351 116-159 (180)
110 PRK13541 cytochrome c biogenes 25.6 1.5E+02 0.0032 26.1 5.3 42 310-351 143-184 (195)
111 TIGR01188 drrA daunorubicin re 25.5 1.3E+02 0.0029 28.7 5.3 43 309-351 143-185 (302)
112 PRK15056 manganese/iron transp 25.5 1.3E+02 0.0028 28.2 5.1 43 309-351 161-203 (272)
113 cd03297 ABC_ModC_molybdenum_tr 25.5 1.2E+02 0.0027 27.0 4.8 43 309-351 150-193 (214)
114 cd03240 ABC_Rad50 The catalyti 25.5 2.4E+02 0.0052 25.3 6.7 44 308-351 139-184 (204)
115 PRK13651 cobalt transporter AT 25.4 1.2E+02 0.0026 29.3 4.9 42 310-351 185-226 (305)
116 PRK09580 sufC cysteine desulfu 25.4 1.3E+02 0.0028 27.5 5.1 43 309-351 164-206 (248)
117 cd03218 ABC_YhbG The ABC trans 25.3 1.3E+02 0.0029 27.1 5.1 42 310-351 153-194 (232)
118 cd03268 ABC_BcrA_bacitracin_re 25.2 1.5E+02 0.0032 26.4 5.3 42 310-351 146-187 (208)
119 PF03485 Arg_tRNA_synt_N: Argi 25.0 82 0.0018 24.0 3.0 34 180-213 47-81 (85)
120 PRK10584 putative ABC transpor 24.9 1.3E+02 0.0028 27.1 4.9 42 310-351 166-208 (228)
121 PRK03695 vitamin B12-transport 24.9 1.3E+02 0.0029 27.7 5.1 42 310-351 153-194 (248)
122 PRK10895 lipopolysaccharide AB 24.8 1.3E+02 0.0029 27.4 5.0 42 310-351 157-198 (241)
123 cd03229 ABC_Class3 This class 24.8 1.1E+02 0.0025 26.5 4.3 43 309-351 119-162 (178)
124 PRK11231 fecE iron-dicitrate t 24.5 1.4E+02 0.003 27.7 5.0 43 309-351 157-199 (255)
125 cd03259 ABC_Carb_Solutes_like 24.3 1.5E+02 0.0032 26.5 5.1 43 309-351 149-192 (213)
126 cd03265 ABC_DrrA DrrA is the A 24.2 1.4E+02 0.0031 26.8 5.0 43 310-352 151-194 (220)
127 PRK13537 nodulation ABC transp 24.1 1.6E+02 0.0035 28.3 5.6 42 310-351 158-199 (306)
128 TIGR03873 F420-0_ABC_ATP propo 23.8 1.4E+02 0.0031 27.6 5.0 43 310-352 157-199 (256)
129 cd03234 ABCG_White The White s 23.8 1.5E+02 0.0032 26.8 5.0 41 310-350 163-203 (226)
130 cd03286 ABC_MSH6_euk MutS6 hom 23.8 2.2E+02 0.0047 26.1 6.1 55 309-363 110-166 (218)
131 cd03257 ABC_NikE_OppD_transpor 23.7 1.4E+02 0.0031 26.8 4.9 42 310-351 165-207 (228)
132 TIGR01288 nodI ATP-binding ABC 23.6 1.5E+02 0.0033 28.3 5.3 42 310-351 155-196 (303)
133 cd03255 ABC_MJ0796_Lo1CDE_FtsE 23.5 1.5E+02 0.0033 26.5 5.0 41 310-350 160-201 (218)
134 PRK11629 lolD lipoprotein tran 23.3 1.6E+02 0.0034 26.8 5.1 42 310-351 165-207 (233)
135 cd03300 ABC_PotA_N PotA is an 23.3 1.4E+02 0.0031 27.1 4.9 42 310-351 150-192 (232)
136 cd03296 ABC_CysA_sulfate_impor 23.2 1.4E+02 0.0031 27.2 4.8 42 310-351 156-198 (239)
137 PRK10575 iron-hydroxamate tran 23.2 1.4E+02 0.0031 27.8 5.0 44 309-352 166-210 (265)
138 PRK11300 livG leucine/isoleuci 23.2 1.5E+02 0.0032 27.3 5.0 42 310-351 173-215 (255)
139 PRK15080 ethanolamine utilizat 23.1 1.8E+02 0.004 27.4 5.6 45 181-225 201-245 (267)
140 TIGR03740 galliderm_ABC gallid 23.1 1.7E+02 0.0036 26.4 5.2 43 310-352 144-186 (223)
141 PRK13644 cbiO cobalt transport 22.9 1.5E+02 0.0033 27.9 5.0 43 309-351 155-197 (274)
142 TIGR01184 ntrCD nitrate transp 22.9 1.6E+02 0.0035 26.8 5.1 42 310-351 134-176 (230)
143 PRK13638 cbiO cobalt transport 22.8 1.5E+02 0.0034 27.7 5.1 43 309-351 155-197 (271)
144 cd03261 ABC_Org_Solvent_Resist 22.8 1.5E+02 0.0032 27.0 4.8 43 309-351 155-198 (235)
145 cd03247 ABCC_cytochrome_bd The 22.7 1.3E+02 0.0029 26.0 4.4 41 310-351 118-158 (178)
146 cd07391 MPP_PF1019 Pyrococcus 22.7 2.6E+02 0.0056 24.2 6.2 56 299-354 33-89 (172)
147 PRK13643 cbiO cobalt transport 22.2 1.6E+02 0.0034 28.0 5.1 42 310-351 164-205 (288)
148 TIGR02323 CP_lyasePhnK phospho 22.1 1.6E+02 0.0034 27.2 4.9 43 309-351 167-210 (253)
149 PRK13548 hmuV hemin importer A 22.1 1.6E+02 0.0035 27.4 5.0 42 310-351 160-202 (258)
150 PRK13649 cbiO cobalt transport 22.0 1.6E+02 0.0034 27.7 5.0 42 310-351 165-206 (280)
151 PRK11288 araG L-arabinose tran 22.0 1.6E+02 0.0034 30.5 5.3 44 309-352 415-458 (501)
152 cd03253 ABCC_ATM1_transporter 22.0 1.4E+02 0.003 27.2 4.4 41 310-351 157-197 (236)
153 cd03298 ABC_ThiQ_thiamine_tran 21.9 1.7E+02 0.0038 26.0 5.0 43 309-351 147-190 (211)
154 COG1131 CcmA ABC-type multidru 21.8 1.5E+02 0.0032 28.5 4.8 56 293-348 138-194 (293)
155 cd03258 ABC_MetN_methionine_tr 21.8 1.6E+02 0.0035 26.6 4.9 42 310-351 160-202 (233)
156 PRK13635 cbiO cobalt transport 21.8 1.6E+02 0.0035 27.8 5.0 43 310-352 160-203 (279)
157 TIGR01277 thiQ thiamine ABC tr 21.8 1.7E+02 0.0037 26.2 5.0 43 309-351 147-190 (213)
158 PRK13639 cbiO cobalt transport 21.7 1.6E+02 0.0035 27.6 5.0 43 310-352 157-199 (275)
159 PF04628 Sedlin_N: Sedlin, N-t 21.7 4.7E+02 0.01 21.7 8.2 71 120-197 35-106 (132)
160 cd03217 ABC_FeS_Assembly ABC-t 21.7 1.8E+02 0.0039 25.8 5.1 42 310-351 124-165 (200)
161 cd03290 ABCC_SUR1_N The SUR do 21.7 1.5E+02 0.0033 26.5 4.7 42 310-351 160-203 (218)
162 COG1083 NeuA CMP-N-acetylneura 21.6 1.1E+02 0.0024 28.3 3.6 40 298-349 34-73 (228)
163 PRK15112 antimicrobial peptide 21.5 1.7E+02 0.0036 27.4 5.0 43 309-351 168-211 (267)
164 cd03293 ABC_NrtD_SsuB_transpor 21.4 1.8E+02 0.004 26.1 5.1 42 310-351 151-193 (220)
165 TIGR03864 PQQ_ABC_ATP ABC tran 21.4 1.7E+02 0.0037 26.6 5.0 42 310-351 152-194 (236)
166 PRK13647 cbiO cobalt transport 21.2 1.7E+02 0.0038 27.5 5.1 42 310-351 158-199 (274)
167 PRK13547 hmuV hemin importer A 21.2 1.6E+02 0.0035 27.8 4.8 43 309-351 173-216 (272)
168 PRK13546 teichoic acids export 21.2 1.8E+02 0.0039 27.3 5.2 42 310-351 163-204 (264)
169 TIGR02211 LolD_lipo_ex lipopro 21.0 1.9E+02 0.0041 25.9 5.1 42 310-351 161-203 (221)
170 KOG1359 Glycine C-acetyltransf 20.8 6.3E+02 0.014 24.8 8.5 103 239-353 129-235 (417)
171 PRK13536 nodulation factor exp 20.8 1.8E+02 0.004 28.5 5.3 42 310-351 192-233 (340)
172 cd03256 ABC_PhnC_transporter A 20.6 1.8E+02 0.0039 26.4 5.0 43 310-352 164-207 (241)
173 COG4972 PilM Tfp pilus assembl 20.6 2E+02 0.0044 28.4 5.3 82 142-225 200-311 (354)
174 TIGR00288 conserved hypothetic 20.5 2.3E+02 0.005 24.9 5.2 55 293-356 88-145 (160)
175 cd07400 MPP_YydB Bacillus subt 20.4 3.6E+02 0.0079 22.0 6.4 57 296-352 24-80 (144)
176 cd03222 ABC_RNaseL_inhibitor T 20.4 2E+02 0.0044 25.3 5.0 42 310-351 91-133 (177)
177 PRK11248 tauB taurine transpor 20.3 1.9E+02 0.0041 26.9 5.1 43 309-351 147-190 (255)
178 PRK10418 nikD nickel transport 20.3 1.9E+02 0.004 26.8 5.0 42 310-351 160-202 (254)
179 PRK10771 thiQ thiamine transpo 20.2 1.8E+02 0.0039 26.4 4.8 44 309-352 148-192 (232)
180 cd00267 ABC_ATPase ABC (ATP-bi 20.2 2.2E+02 0.0048 23.9 5.1 44 309-352 99-142 (157)
181 smart00534 MUTSac ATPase domai 20.2 3E+02 0.0064 24.1 6.1 43 309-351 79-123 (185)
182 TIGR02770 nickel_nikD nickel i 20.2 1.9E+02 0.0042 26.2 5.0 42 310-351 145-187 (230)
183 PRK14250 phosphate ABC transpo 20.1 1.8E+02 0.0038 26.7 4.8 44 309-352 150-194 (241)
No 1
>KOG2869 consensus Meiotic cell division protein Pelota/DOM34 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.4e-104 Score=737.35 Aligned_cols=378 Identities=56% Similarity=0.924 Sum_probs=372.3
Q ss_pred CeeeeeecCCCCCceEEEecCChhhHHHHHHhhcCCCeEEEEEEEeEeeccCCCCcceeEEEEEEEEEEEEeeccCCCCe
Q 042331 1 MRIVRKDLIPNGPGSVKMIPVDSDDLWFAYNLVNAGDSVLAVTVRKVVRQTKSGGKDAERVKLKLEIKVEALDYDKEGSA 80 (378)
Q Consensus 1 Mki~~~~~~~~~~g~v~l~~e~~dDlw~Lynli~~gD~V~~~t~Rkv~~~~~~g~~~~~r~~~~L~i~Ve~i~~~~~~~~ 80 (378)
||++++++.++|+|+|+++||+.|||||+||+|++||.|+|.|.|||+.+.++|++++.|++++|+|.||+++||+.+..
T Consensus 1 MKli~K~~~rng~G~vtmvpEe~eDmw~~ynli~~gD~v~a~T~rkvq~e~a~G~~~s~rv~~~L~i~VesidfD~~~~~ 80 (379)
T KOG2869|consen 1 MKLIRKDIERNGSGSVTMVPEESEDLWHLYNLIQVGDSVIASTIRKVQKEEATGKTKSSRVLLKLKIKVESIDFDTKACV 80 (379)
T ss_pred CccchhhhhcCCCceEEECcCchhHHHHHHhhccCCceeEEEEEEEeeeccccCcccceEEEEEEEEEEEEeeccccccE
Confidence 99999999999999999999999999999999999999999999999999888988889999999999999999999999
Q ss_pred EEEEEEEeecccccccccEEEEEEccCCcEEEEeccCChhhHHHHHHhhcccCCCcEEEEEEECCeeEEEEEecceEEEE
Q 042331 81 LRISGKNILENEHVKIGAFHSLEIELHRPFVLTKDVWDSVALDTLHQASDSAATADLAVVLMQEGLANIFLVGRSMTITR 160 (378)
Q Consensus 81 Lri~G~i~~~~~~v~~G~~ht~~l~~~~~v~i~k~~wd~~~l~~L~~a~~~~~~~~~~~vvvd~g~A~i~~l~~~~~~~~ 160 (378)
||++|+++.+|+||++|+||||+|+|+++|++.|.+||++.+++|++||++..++++++|++++|.|+||+++.+++...
T Consensus 81 L~~KGrti~eNe~Vk~GaYHTidlel~r~FtL~K~ewds~al~~l~~A~dp~~~ad~aaVvlqEGla~IcLvt~s~tilr 160 (379)
T KOG2869|consen 81 LRLKGRTIEENEYVKMGAYHTIDLELNRPFTLRKEEWDSMALKLLKEACDPAPSADVAAVVLQEGLAHICLVTKSSTILR 160 (379)
T ss_pred EEEeeeeeeecccccccceeEEEeccCCceEEEhhhchHHHHHHHHHhhCcccccceeeeehhcCceeEEEechhHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEeecCCCCCCchhhhHHHHHHHHHHHHHHHHhcccccCccEEEEECCccCHHHHHHHHHHHHhhcccchhhccCCcE
Q 042331 161 SRIETSIPRKHGPAVARYESALNKFFDSVLHAFLKHVDFNVVRCAVIASPGFTKDQFHRYLLLEAERTQLRPIIANKSRI 240 (378)
Q Consensus 161 ~~i~~~ip~K~~~g~s~~e~~~~~f~~~v~~~l~~~~~~~~~~~iiIaGpg~~k~~f~~~l~~~~~~~~~~~~~~~~~ki 240 (378)
++++.+||+||+++-|++++.+++||++|.+++.++++|+.++|+|||||||+++.|++|+.+.+.+.++|.++.++++|
T Consensus 161 ~kIe~siPrKr~~~~s~~e~~l~kfye~V~qA~~k~v~fd~vk~~vvASpgF~~~~~~d~~~q~A~~~~~k~il~nk~kf 240 (379)
T KOG2869|consen 161 AKIEVSIPRKRKGDVSQHEEGLEKFYENVVQAILKHVNFDVVKCVVVASPGFVKDQFMDYLFQQAVKLDLKLILENKSKF 240 (379)
T ss_pred HhhhcccccccCcchhHHHHHHHHHHHHHHHHHHHhcCcceEEEEEEcCCchhHHHHHHHHHHHHHHhchhhhhhcccce
Confidence 99999999998877788999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEcCCCccchHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhhCCCCcEEECHHHHHHHHHccCccEEEEecCcccc
Q 042331 241 VIVHTSSGYKHSLREVLDASNVMNLIKETKAAQEVKVLKEFFNMLSNDPTRACYGPKHVEVAHERMAVQTLLITDDLFRN 320 (378)
Q Consensus 241 ~~~~~s~~~~~gl~Evl~~~~v~~~l~~~~~~~e~~~l~~f~~~l~~~~~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~ 320 (378)
..+|+|+|+.++|+|+|.+|.+.+.++++++++|.++|++|+.+++++|++||||++||.+|.|.|||++|||+|++||+
T Consensus 241 ~~~h~ssg~~hslnevL~dp~v~~~l~dtK~~~EvkalddF~~~l~~~~drA~yG~khV~~A~e~~AI~tLLitD~lfr~ 320 (379)
T KOG2869|consen 241 PLVHASSGYKHSLNEVLKDPAVASKLQDTKAAKEVKALDDFYVMLSKDPDRACYGPKHVEKANEYGAIETLLITDELFRS 320 (379)
T ss_pred eEEecCCchHHHHHHHhcChHHHHHhhchhhHHHHHHHHHHHHHhccCccccccCHHHHHHHHhhcchhheehhhhhccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhHhHHHHHHHHHHHHccCCEEEEECCCCCcccccccCccEEEEeecCCCCCCCCCC
Q 042331 321 FEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQLGQLTGVAAILRFPLPDLEDIEM 378 (378)
Q Consensus 321 ~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L~~lgGIaAiLRy~i~~~~~~~~ 378 (378)
+|+++|++++.|++.++.+||+|.|||+.|.+|+||.+|||||||||||+|+|||+|.
T Consensus 321 ~DV~tRkkyv~lvesVk~~~gkv~Ifss~H~SGEqL~qltGiaAiLrfp~pel~d~e~ 378 (379)
T KOG2869|consen 321 QDVATRKKYVRLVESVKENNGKVFIFSSLHVSGEQLAQLTGIAAILRFPLPELDDSEG 378 (379)
T ss_pred ccHHHHHHHHHHHHHHHhcCCcEEEEehhhccHHHHHhhcCeeEEEecCCCccccccC
Confidence 9999999999999999999999999999999999999999999999999999999874
No 2
>TIGR00111 pelota probable translation factor pelota. This model describes the Drosophila protein Pelota, the budding yeast protein DOM34 which it can replace, and a set of closely related archaeal proteins. Members contain a proposed RNA binding motif. The meiotic defect in pelota mutants may be a complex result of a protein translation defect, as suggested in yeast by ribosomal protein RPS30A being a multicopy suppressor and by an altered polyribosome profile in DOM34 mutants rescued by RPS30A. This family is homologous to a family of peptide chain release factors. Pelota is proposed to act in protein translation.
Probab=100.00 E-value=2.7e-95 Score=712.65 Aligned_cols=350 Identities=30% Similarity=0.543 Sum_probs=331.1
Q ss_pred CeeeeeecCCCCCceEEEecCChhhHHHHHHhhcCCCeEEEEEEEeEeeccCCCCcceeEEEEEEEEEEEEeeccCCCCe
Q 042331 1 MRIVRKDLIPNGPGSVKMIPVDSDDLWFAYNLVNAGDSVLAVTVRKVVRQTKSGGKDAERVKLKLEIKVEALDYDKEGSA 80 (378)
Q Consensus 1 Mki~~~~~~~~~~g~v~l~~e~~dDlw~Lynli~~gD~V~~~t~Rkv~~~~~~g~~~~~r~~~~L~i~Ve~i~~~~~~~~ 80 (378)
|||++++. ++++|.|+|.||++||||||||||++||.|+|+|+|||+++..+|+.+ +|++++|+|+||+++|||++++
T Consensus 1 Mki~~~~~-~~~~g~v~l~pe~~dDlw~l~nli~~GD~V~~~T~Rkv~~~~~~g~~~-er~~~~l~i~Ve~ief~~~~~~ 78 (351)
T TIGR00111 1 MSIVEESF-NKGGAVIKLLPETLDDLWHLYQIIEKGDVEFAFTKRRTQDLDKIRSDK-SKDTVKLGIEVESVEFDMKTER 78 (351)
T ss_pred Cceeeeec-CCCcEEEEEEeCChHHHHHHHHhCCCCCEEEEEEEEEEeccccCCCcc-eEEEEEEEEEEEEEEecCCCCE
Confidence 99999997 777889999999999999999999999999999999999877778777 9999999999999999999999
Q ss_pred EEEEEEEeecc-cccccccEEEEEEccCCcEEEEeccCChhhHHHHHHhhcccCCCcEEEEEEECCeeEEEEEecceEEE
Q 042331 81 LRISGKNILEN-EHVKIGAFHSLEIELHRPFVLTKDVWDSVALDTLHQASDSAATADLAVVLMQEGLANIFLVGRSMTIT 159 (378)
Q Consensus 81 Lri~G~i~~~~-~~v~~G~~ht~~l~~~~~v~i~k~~wd~~~l~~L~~a~~~~~~~~~~~vvvd~g~A~i~~l~~~~~~~ 159 (378)
|||+|+|+++| +||++|+|||++|+||++|+|+|++||+|++++|++|++++.++.+++|+||+|.|+||+++++++++
T Consensus 79 Lri~G~i~~~~e~~v~~G~~HTl~ie~~~~i~i~K~~w~~~~le~L~ea~~~~~~~~~~~vv~d~g~A~i~ll~~~~~~~ 158 (351)
T TIGR00111 79 LRYKGVIVTGPEDDVPVGSYHTLEIKYVYPLSIIKQNWKKWQLKRLREAVEISKRPKTAAVVMEEGIAHVGLVRQYSVEE 158 (351)
T ss_pred EEEEEEEecCCcccccccceEEEEEcCCCcEEEEEecCCHHHHHHHHHHhccccCCcEEEEEEeCCcEEEEEEcCCEEEE
Confidence 99999999998 79999999999999999999999999999999999999999888999999999999999999999999
Q ss_pred EEEEEeecCCCCCCchhhhHHHHHHHHHHHHHHHHhcccccCccEEEEECCccCHHHHHHHHHHHHhhcccchhhccCCc
Q 042331 160 RSRIETSIPRKHGPAVARYESALNKFFDSVLHAFLKHVDFNVVRCAVIASPGFTKDQFHRYLLLEAERTQLRPIIANKSR 239 (378)
Q Consensus 160 ~~~i~~~ip~K~~~g~s~~e~~~~~f~~~v~~~l~~~~~~~~~~~iiIaGpg~~k~~f~~~l~~~~~~~~~~~~~~~~~k 239 (378)
++++++++|+||++ +++++++++||++|++++.+ +.++++||||||||+|++|++||.+.+++.. .+
T Consensus 159 ~~~i~~~iP~K~~~--~~~e~~~~~Ff~~v~~~l~~---~~~v~~iIiaGPGf~k~~f~~~l~~~~~~~~--------~k 225 (351)
T TIGR00111 159 IQKIEYHMPGKKRT--LKFGELRKEFYKEIAKKLLN---FDDLKTIIVAGPGFYKNDFYDFIFERYPEEA--------NK 225 (351)
T ss_pred EEEEEEeCCCCccc--chhHHHHHHHHHHHHHHHhh---hcccCEEEEECCHHHHHHHHHHHHHHhhhhh--------CC
Confidence 99999999999853 56888999999999999854 3589999999999999999999999887532 24
Q ss_pred EEEEEcCCCccchHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhhCCCCcEEECHHHHHHHHHccCccEEEEecCccc
Q 042331 240 IVIVHTSSGYKHSLREVLDASNVMNLIKETKAAQEVKVLKEFFNMLSNDPTRACYGPKHVEVAHERMAVQTLLITDDLFR 319 (378)
Q Consensus 240 i~~~~~s~~~~~gl~Evl~~~~v~~~l~~~~~~~e~~~l~~f~~~l~~~~~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r 319 (378)
.++.++|+++.+|++|+|++|.++++++++++++|.++|++|++++++|++++|||+++|.+|+++|||+||||+|+++.
T Consensus 226 ~ii~~~s~g~~~gl~EvL~~~~v~~~l~d~k~~~E~~~l~~f~~~l~kd~~~~~YG~~eV~~Ale~GAVetLLIsD~l~~ 305 (351)
T TIGR00111 226 AVLENCSTGGRAGINEVLKRGLVARILQETRYAKEIMVIDEFLEHLAKDGDKAVYGEDEVVKAAEYGAIEYLLVTDKVLV 305 (351)
T ss_pred cEEEecCCCchhHHHHHHhChHHHHHHhhhhHHHHHHHHHHHHHHHhcCCCeEEECHHHHHHHHHcCCceEEEEecchhh
Confidence 45679999999999999999999999999999999999999999999999999999999999999999999999999972
Q ss_pred cchhHhHHHHHHHHHHHHccCCEEEEECCCCCcccccccCccEEEEeecCC
Q 042331 320 NFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQLGQLTGVAAILRFPL 370 (378)
Q Consensus 320 ~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L~~lgGIaAiLRy~i 370 (378)
.|+++.+|++.|+++||+|+|||++|++|+||++||||||||||||
T Consensus 306 -----~r~~~~~l~~~v~~~gg~V~i~Ss~~e~G~qL~~lgGiaAiLRy~i 351 (351)
T TIGR00111 306 -----QREEIEKLLDSVESMGGKVVILSTEHELGKQLDSLGGIAGILRFPI 351 (351)
T ss_pred -----hHHHHHHHHHHHHHcCCEEEEEcCCCccHHHHhhCCCEEEEEeccC
Confidence 4778999999999999999999999999999999999999999997
No 3
>COG1537 PelA Predicted RNA-binding proteins [General function prediction only]
Probab=100.00 E-value=1.1e-90 Score=658.34 Aligned_cols=352 Identities=34% Similarity=0.578 Sum_probs=331.2
Q ss_pred CeeeeeecCCCCCceEEEecCChhhHHHHHHhhcCCCeEEEEEEEeEeeccCCCCcceeEEEEEEEEEEEEeeccCCCCe
Q 042331 1 MRIVRKDLIPNGPGSVKMIPVDSDDLWFAYNLVNAGDSVLAVTVRKVVRQTKSGGKDAERVKLKLEIKVEALDYDKEGSA 80 (378)
Q Consensus 1 Mki~~~~~~~~~~g~v~l~~e~~dDlw~Lynli~~gD~V~~~t~Rkv~~~~~~g~~~~~r~~~~L~i~Ve~i~~~~~~~~ 80 (378)
||++.++. ++|.|+|+||++||||||||+|++||.|.|+|+|+.+.....++++++|++|+|+|+|++++||+|+++
T Consensus 1 M~ile~~~---k~g~I~l~pE~lDDLw~L~~Ii~~GD~v~a~T~Rr~~~~d~~r~~~~eri~m~L~IkVe~ieF~~f~nr 77 (352)
T COG1537 1 MRILEEDK---KRGVIKLVPETLDDLWHLYNIIEKGDKVFAKTTRRDESSDVIRSKKGERIPMTLGIKVEKIEFDKFANR 77 (352)
T ss_pred Ccceeccc---cCceEEEecCChHHHHHHHHhcCCCCEEEEEEEEecccccccccCcceEEEEEEEEEEEEEEeeecccE
Confidence 99999996 699999999999999999999999999999999993322234478889999999999999999999999
Q ss_pred EEEEEEEeecccccccccEEEEEEccCCcEEEEeccCChhhHHHHHHhhcccCCCcEEEEEEECCeeEEEEEecceEEEE
Q 042331 81 LRISGKNILENEHVKIGAFHSLEIELHRPFVLTKDVWDSVALDTLHQASDSAATADLAVVLMQEGLANIFLVGRSMTITR 160 (378)
Q Consensus 81 Lri~G~i~~~~~~v~~G~~ht~~l~~~~~v~i~k~~wd~~~l~~L~~a~~~~~~~~~~~vvvd~g~A~i~~l~~~~~~~~ 160 (378)
|||+|+++++|+.+.+|+|||++|+++++|+|.|.+|+++++++|++|++++.++.+++|+||+|.|+||++++|++..+
T Consensus 78 LRi~G~i~~~~e~~~~G~yHTi~v~~g~~i~I~K~~W~~~~lerLkeA~~~~~~~~~~~v~~degea~i~iv~~ygi~~~ 157 (352)
T COG1537 78 LRIKGPIVEGPEEVVKGSYHTINVTIGTEIEIEKEEWNKDQLERLKEAVEASKRPEVAIVVVDEGEAAIAIVRDYGIIIL 157 (352)
T ss_pred EEEEEEEEEcCcccccccceEEEeccCceEEEEEccCCHHHHHHHHHHhhcccCCceEEEEEecCceEEEEEeccceEEE
Confidence 99999999999998899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEeecCCCCCCchhhhHHHHHHHHHHHHHHHHhcccccCccEEEEECCccCHHHHHHHHHHHHhhcccchhhccCCcE
Q 042331 161 SRIETSIPRKHGPAVARYESALNKFFDSVLHAFLKHVDFNVVRCAVIASPGFTKDQFHRYLLLEAERTQLRPIIANKSRI 240 (378)
Q Consensus 161 ~~i~~~ip~K~~~g~s~~e~~~~~f~~~v~~~l~~~~~~~~~~~iiIaGpg~~k~~f~~~l~~~~~~~~~~~~~~~~~ki 240 (378)
.+++.+.|+|+.... +. ..+||.+|++++.+.. +++.||||||||+|++|++|+.+..++. + .+
T Consensus 158 ~~i~~~~~gK~~~~~--~~--~~k~~~~i~~~~~~~~---~~~~iIvaGPGF~k~~~~~~~~~~~p~~--------~-~~ 221 (352)
T COG1537 158 GKIRSGIPGKREGDI--RA--ERKFFDEIAKALKEYA---NLDIIIVAGPGFAKEDFYDFLRERYPEL--------A-NI 221 (352)
T ss_pred EEEeccCCCCcccch--hh--HHHHHHHHHHHHHHhh---CCCeEEEeCCchHHHHHHHHHHHhcccc--------c-ce
Confidence 999999998854332 21 2899999999999987 6888999999999999999999998763 2 37
Q ss_pred EEEEcCCCccchHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhhCCCCcEEECHHHHHHHHHccCccEEEEecCcccc
Q 042331 241 VIVHTSSGYKHSLREVLDASNVMNLIKETKAAQEVKVLKEFFNMLSNDPTRACYGPKHVEVAHERMAVQTLLITDDLFRN 320 (378)
Q Consensus 241 ~~~~~s~~~~~gl~Evl~~~~v~~~l~~~~~~~e~~~l~~f~~~l~~~~~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~ 320 (378)
++.++|+++.+|++|+|+++.+.++++++++++|.+++++|+..++++++++|||+++|.+|+++|||++|||+|+++|+
T Consensus 222 ~~~~~s~~g~~gi~EvLkr~~v~ki~~e~ria~e~~~~e~fl~~iak~~~~v~YG~~eV~~A~e~GAve~LLv~De~lr~ 301 (352)
T COG1537 222 VIEDTSTGGRAGINEVLKRGAVDKILSETRIAEEIELVEEFLERLAKDDDKVAYGLEEVEKAAEYGAVETLLVTDELLRS 301 (352)
T ss_pred EEEeccCcchHHHHHHHhhhhHHhHhhhhHHHHHHHHHHHHHHHHhcCCCceeEcHHHHHHHHhcCcceeEEeehhhhcc
Confidence 88999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhHhHHHHHHHHHHHHccCCEEEEECCCCCcccccccCccEEEEeecCCC
Q 042331 321 FEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQLGQLTGVAAILRFPLP 371 (378)
Q Consensus 321 ~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L~~lgGIaAiLRy~i~ 371 (378)
.+.+.|+++.++++.|+++||+|+|||+.|++|+||++|||||||||||+|
T Consensus 302 ~~~~~re~~~~ll~~ve~~ggkV~Ivs~~he~Ge~Lk~lGGiaaILRf~v~ 352 (352)
T COG1537 302 DDVEEREDVEELLEEVESMGGKVVIVSTEHEPGERLKALGGIAAILRFPVP 352 (352)
T ss_pred cchhhHHHHHHHHHHHHHcCCeEEEEecCCcchHHHHhccCeEEEEEecCC
Confidence 999999999999999999999999999999999999999999999999986
No 4
>TIGR00108 eRF peptide chain release factor eRF/aRF, subunit 1. Alternative names include eRF1, SUP45, omnipotent suppressor protein 1.
Probab=100.00 E-value=1.1e-60 Score=475.90 Aligned_cols=333 Identities=21% Similarity=0.317 Sum_probs=288.2
Q ss_pred CCCc--eEEEecCChhhH----HHHHHhhcCCCeEEEEEEEeEeeccCCCCcceeEEEEEEEEEEEEeeccCCCCeEEEE
Q 042331 11 NGPG--SVKMIPVDSDDL----WFAYNLVNAGDSVLAVTVRKVVRQTKSGGKDAERVKLKLEIKVEALDYDKEGSALRIS 84 (378)
Q Consensus 11 ~~~g--~v~l~~e~~dDl----w~Lynli~~gD~V~~~t~Rkv~~~~~~g~~~~~r~~~~L~i~Ve~i~~~~~~~~Lri~ 84 (378)
.++| -|.|.+.--|.+ -.|+...+..++|+++++|+-... +.++.+.++. .+...|.+|.++++
T Consensus 20 ~g~gt~lisl~ipp~~~i~~~~~~l~~e~~~a~niks~~~r~~v~~----ai~~~~~~lk------~~~~~p~nglv~~~ 89 (409)
T TIGR00108 20 RGRGTELISLYIPPDRQISDVAKHLREELSQASNIKSKQTRKNVLS----AIEAILQRLK------LFNKPPENGLVIFC 89 (409)
T ss_pred cCCCceEEEEEeCCCCcHHHHHHHHHHHHhhhhcccccchhhhHHH----HHHHHHHHhh------ccCCCCCCcEEEEE
Confidence 3455 355555443333 577899999999999999986642 3445555555 56788999999999
Q ss_pred EEEeecccccccccEEEEEEccCCcEEEEeccCC-hhhHHHHHHhhcccCCCcEEEEEEECCeeEEEEEecceEEEEEEE
Q 042331 85 GKNILENEHVKIGAFHSLEIELHRPFVLTKDVWD-SVALDTLHQASDSAATADLAVVLMQEGLANIFLVGRSMTITRSRI 163 (378)
Q Consensus 85 G~i~~~~~~v~~G~~ht~~l~~~~~v~i~k~~wd-~~~l~~L~~a~~~~~~~~~~~vvvd~g~A~i~~l~~~~~~~~~~i 163 (378)
|.+..++. .|+|||++|+||+||+++||.|| +||+++|++|++... .+++|+||+++|+||+++++++.+++++
T Consensus 90 G~v~~~~~---~~~~~t~~iep~~pi~~~~y~~d~~f~le~L~e~~~~~~--~~g~VvvD~~~A~i~~l~g~~~~~~~~i 164 (409)
T TIGR00108 90 GMVPREGP---TEKMETYVIEPPEPIKTYIYHCDSKFYLEPLSEMLEEKD--KYGLIVLDRQEATIGLVKGKRITVLKKL 164 (409)
T ss_pred eEeccCCC---cccEEEEEEeCCCceEEEEEccCChhHHHHHHHHhcCCC--CEEEEEEecCCEEEEEEcCCEEEEEEEE
Confidence 99998774 38999999999999999999755 999999999999765 9999999999999999999999999999
Q ss_pred EeecCCCCCC-chhh------hHHHHHHHHHHHHHHHHhcc---cccCccEEEEECCccCHHHHHH--HHHHHHhhcccc
Q 042331 164 ETSIPRKHGP-AVAR------YESALNKFFDSVLHAFLKHV---DFNVVRCAVIASPGFTKDQFHR--YLLLEAERTQLR 231 (378)
Q Consensus 164 ~~~ip~K~~~-g~s~------~e~~~~~f~~~v~~~l~~~~---~~~~~~~iiIaGpg~~k~~f~~--~l~~~~~~~~~~ 231 (378)
++++|+||+. |||+ ++++.++||++|++.+.++| +..++++||||||||+|++|++ ||.+++.+
T Consensus 165 ~~~vp~K~~~GGqS~~Rf~r~~e~~~~~f~~~Vae~~~~~f~~~~~~~v~~IIlaGpg~~K~~f~~~~~l~~~l~~---- 240 (409)
T TIGR00108 165 TSGVPGKHKAGGQSARRFERLRELAAHEFLKKVGEVANEAFLPNDDVKLKGIILGGPGHTKEEFAEGEYLHHELKK---- 240 (409)
T ss_pred eeeCCCcccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHhhhcccccceEEEEeccHHHHHHhhhhhhHHHHhhh----
Confidence 9999999876 5653 57789999999999999986 2347999999999999999998 99988854
Q ss_pred hhhccCCcE-EEEEcCCCccchHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhhCCCCcEEECHHHHHHHHHccCccE
Q 042331 232 PIIANKSRI-VIVHTSSGYKHSLREVLDASNVMNLIKETKAAQEVKVLKEFFNMLSNDPTRACYGPKHVEVAHERMAVQT 310 (378)
Q Consensus 232 ~~~~~~~ki-~~~~~s~~~~~gl~Evl~~~~v~~~l~~~~~~~e~~~l~~f~~~l~~~~~~a~yG~~~V~~A~e~GAV~t 310 (378)
++ .++++|+++.+|++|++++. +++|++.++++|.++|++|++++++++|+||||+++|.+|+++|||+|
T Consensus 241 -------kvi~~vdvs~gg~~gl~E~l~~~--~~~L~~~k~~~E~~lle~F~~ei~~d~G~avyG~~eV~~ALe~GAVet 311 (409)
T TIGR00108 241 -------KVISTVDVSYTGEFGIRELIEKS--ADVLAEVDYMREKKLVQRFLKELIQEDGLACYGEDEVLKALDLGAVET 311 (409)
T ss_pred -------hEEEEEEcCCCcccCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHhcCCCcEEeCHHHHHHHHHhCCCcE
Confidence 33 46899999999999999976 999999999999999999999999999999999999999999999999
Q ss_pred EEEecCc------cccc----------------------------hhHhHHHHHH-HHHHHHccCCEEEEECCCCCcccc
Q 042331 311 LLITDDL------FRNF----------------------------EIATRKKYVD-LVNSVKDSGGTAHIFSSMHFSGEQ 355 (378)
Q Consensus 311 LLI~d~l------~r~~----------------------------d~~~r~~~~~-lve~v~~~g~~V~ivs~~~~~G~~ 355 (378)
|||+|++ +||+ ++.+|+++++ |++.|+++||+|+|||++|++|+|
T Consensus 312 LLV~d~l~~~r~~~r~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~ve~L~e~a~~~Ga~V~iiS~~~eeG~q 391 (409)
T TIGR00108 312 LIVSEDLEYIRVTYKCAECGEVIEKTVRELKDKKFAICPACGQEMDVVEERDLIEWLSELAENFGAKLEFISTESEEGAQ 391 (409)
T ss_pred EEEeccccceeEEEEcCCCCceeecccccccccccccCcccCccccchhhhhHHHHHHHHHHHcCCEEEEECCCChhHHH
Confidence 9999999 5553 2335566644 999999999999999999999999
Q ss_pred c-ccCccEEEEeecCCC
Q 042331 356 L-GQLTGVAAILRFPLP 371 (378)
Q Consensus 356 L-~~lgGIaAiLRy~i~ 371 (378)
| ++|||||||||||++
T Consensus 392 l~~~fGGIaAiLRy~i~ 408 (409)
T TIGR00108 392 LLTAFGGIGAILRYKPN 408 (409)
T ss_pred HHHhCCCEEEEEecccC
Confidence 8 999999999999986
No 5
>TIGR03676 aRF1/eRF1 peptide chain release factor 1, archaeal and eukaryotic forms. Directs the termination of nascent peptide synthesis (translation) in response to the termination codons UAA, UAG and UGA. This model identifies both archaeal (aRF1) and eukaryotic (eRF1) of the protein. Also known as translation termination factor 1.
Probab=100.00 E-value=2.4e-59 Score=464.54 Aligned_cols=319 Identities=24% Similarity=0.300 Sum_probs=280.5
Q ss_pred hhHHHHHHhhcCCCeEEEEEEEeEeeccCCCCcceeEEEEEEEEEEEEeeccCCCCeEEEEEEEeecccccccccEEEEE
Q 042331 24 DDLWFAYNLVNAGDSVLAVTVRKVVRQTKSGGKDAERVKLKLEIKVEALDYDKEGSALRISGKNILENEHVKIGAFHSLE 103 (378)
Q Consensus 24 dDlw~Lynli~~gD~V~~~t~Rkv~~~~~~g~~~~~r~~~~L~i~Ve~i~~~~~~~~Lri~G~i~~~~~~v~~G~~ht~~ 103 (378)
|-.-.|++.....++|+++++|+-++. +.++.+-+++ -+.-.|+||..-+||.+..+. ...+|||++
T Consensus 35 ~v~~~l~~e~~~a~niks~~~r~~v~~----ai~~~~~rlk------~~~~~p~nGlv~f~g~~~~~~---~~~~~~t~~ 101 (403)
T TIGR03676 35 DVVNQLRDEYSQAANIKSKQTRKNVQS----AIESIMQRLK------LYKKPPENGLVLFAGMVPTGG---GTEKMETYV 101 (403)
T ss_pred HHHHHHHHHHhhhhhhhhhhhHHHHHH----HHHHHHHHHh------ccCCCCCCeEEEEEeeecCCC---CceeEEEEE
Confidence 566788999999999999999997653 2344444444 466789999999999998643 346899999
Q ss_pred EccCCcEEEEeccCC-hhhHHHHHHhhcccCCCcEEEEEEECCeeEEEEEecceEEEEEEEEeecCCCCCC-chhh----
Q 042331 104 IELHRPFVLTKDVWD-SVALDTLHQASDSAATADLAVVLMQEGLANIFLVGRSMTITRSRIETSIPRKHGP-AVAR---- 177 (378)
Q Consensus 104 l~~~~~v~i~k~~wd-~~~l~~L~~a~~~~~~~~~~~vvvd~g~A~i~~l~~~~~~~~~~i~~~ip~K~~~-g~s~---- 177 (378)
++||+||+++||.|| +||+++|.+|++.. +.+++|+||+++|+||+++++++.+++++++++|+||+. |||+
T Consensus 102 iep~~pi~~~~y~cd~~f~lepL~e~l~~~--~~~g~VvvD~~~A~i~~l~g~~~e~~~~i~~~vp~K~~~GGqS~~Rf~ 179 (403)
T TIGR03676 102 IEPPEPINTYLYRCDSKFYLEPLEEMLEEK--DVYGLIVLDRREATIGLLKGKRIEVLKELTSGVPGKHRAGGQSARRFE 179 (403)
T ss_pred EeCCCceEEEEecCCChHHHHHHHHHhcCC--CCEEEEEEecCceEEEEEcCCEEEEEEEEEeeCCCCccCCCcchhhHH
Confidence 999999999999766 99999999999975 499999999999999999999999999999999999875 5664
Q ss_pred --hHHHHHHHHHHHHHHHHhccc---ccCccEEEEECCccCHHHHHH--HHHHHHhhcccchhhccCCcE-EEEEcCCCc
Q 042331 178 --YESALNKFFDSVLHAFLKHVD---FNVVRCAVIASPGFTKDQFHR--YLLLEAERTQLRPIIANKSRI-VIVHTSSGY 249 (378)
Q Consensus 178 --~e~~~~~f~~~v~~~l~~~~~---~~~~~~iiIaGpg~~k~~f~~--~l~~~~~~~~~~~~~~~~~ki-~~~~~s~~~ 249 (378)
++++.++||++|++.+.++|. ..++++||||||||+|++|.+ ||++++.+ ++ .++++|+++
T Consensus 180 R~~e~~~~~f~~~Vae~~~~~f~~~~~~~v~~lILaGpg~~K~~f~~~~~L~~~l~~-----------kvi~~vd~s~~~ 248 (403)
T TIGR03676 180 RLIEIAAHEFYKRVGEAANEAFLPLKDKKLKGILIGGPGPTKEEFAEGDYLHHELKK-----------KILGLFDVSYTG 248 (403)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcccccccEEEEeCCHHHHHHHhhhhhhhHHHHh-----------hEEEEEecCCCC
Confidence 678899999999999988763 226999999999999999999 99998754 34 578999999
Q ss_pred cchHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhhCCCCcEEECHHHHHHHHHccCccEEEEecCc------cccc--
Q 042331 250 KHSLREVLDASNVMNLIKETKAAQEVKVLKEFFNMLSNDPTRACYGPKHVEVAHERMAVQTLLITDDL------FRNF-- 321 (378)
Q Consensus 250 ~~gl~Evl~~~~v~~~l~~~~~~~e~~~l~~f~~~l~~~~~~a~yG~~~V~~A~e~GAV~tLLI~d~l------~r~~-- 321 (378)
.+|++|++++. .++|++.++++|.++|++|+++++++++++|||+++|.+|+++|||+||||+|++ +||+
T Consensus 249 ~~Gl~Evl~~~--~~~L~~~k~~~E~~lle~f~~el~~d~g~avyG~~eV~~ALe~GAVetLLV~d~l~~~r~~~rc~~c 326 (403)
T TIGR03676 249 ESGLRELVEKA--EDLLKDLELMKEKKLMERFFKELVKDGGLAAYGEEEVRKALEMGAVDTLLISEDLRKIRVTFKCPNC 326 (403)
T ss_pred ccCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHhcCCCcEEEcHHHHHHHHHhCCCcEEEEEccccceeEEEEcCCC
Confidence 99999999985 9999999999999999999999999999999999999999999999999999999 6655
Q ss_pred ------------------hhH---------hHHHHHHHHHHHHccCCEEEEECCCCCccccc-ccCccEEEEeecCC
Q 042331 322 ------------------EIA---------TRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQL-GQLTGVAAILRFPL 370 (378)
Q Consensus 322 ------------------d~~---------~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L-~~lgGIaAiLRy~i 370 (378)
|+. .++.+..|++.|+++||+|+|||++|++|+|| ++|||||||||||+
T Consensus 327 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ve~L~e~a~~~Ga~V~~iS~~~eeG~ql~~~fGGIaAiLRy~i 403 (403)
T TIGR03676 327 GYEEEKTVKPEEGDKSEACPKCGSELEIVEEEDIIEELSELAEESGAKVEIISTDTEEGEQLLKAFGGIAAILRYRV 403 (403)
T ss_pred CcceeeecccccccccccCcccCcccccchhhhHHHHHHHHHHHcCCEEEEECCCChhHHHHHHcCCcEEEEEecCC
Confidence 211 34455669999999999999999999999999 59999999999996
No 6
>PRK04011 peptide chain release factor 1; Provisional
Probab=100.00 E-value=6.6e-57 Score=448.97 Aligned_cols=330 Identities=23% Similarity=0.277 Sum_probs=285.6
Q ss_pred eEEEecCChhhH----HHHHHhhcCCCeEEEEEEEeEeeccCCCCcceeEEEEEEEEEEEEeeccCCCCeEEEEEEEeec
Q 042331 15 SVKMIPVDSDDL----WFAYNLVNAGDSVLAVTVRKVVRQTKSGGKDAERVKLKLEIKVEALDYDKEGSALRISGKNILE 90 (378)
Q Consensus 15 ~v~l~~e~~dDl----w~Lynli~~gD~V~~~t~Rkv~~~~~~g~~~~~r~~~~L~i~Ve~i~~~~~~~~Lri~G~i~~~ 90 (378)
.|+|......++ -.|.+-......|+++++|+-..+ +.++...+++ .+.-.|.+|..-++|.+..+
T Consensus 29 ~iSlyip~~~~i~~~~~~l~~e~~~a~nik~~~~r~~v~~----ai~~~~~rl~------~~~~~p~nGl~~f~g~~~~~ 98 (411)
T PRK04011 29 LISLYIPPGRPISDVVNQLRQEYSQASNIKSKTTRKNVQS----ALESIIQRLK------LYKKPPENGLVIFCGAVPIG 98 (411)
T ss_pred EEEEEECCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHhhc------cCCCCCCCeEEEEEeecccC
Confidence 577777655444 466777888889999999886442 2334444443 45668899999999999865
Q ss_pred ccccccccEEEEEEccCCcEEEEeccCC-hhhHHHHHHhhcccCCCcEEEEEEECCeeEEEEEecceEEEEEEEEeecCC
Q 042331 91 NEHVKIGAFHSLEIELHRPFVLTKDVWD-SVALDTLHQASDSAATADLAVVLMQEGLANIFLVGRSMTITRSRIETSIPR 169 (378)
Q Consensus 91 ~~~v~~G~~ht~~l~~~~~v~i~k~~wd-~~~l~~L~~a~~~~~~~~~~~vvvd~g~A~i~~l~~~~~~~~~~i~~~ip~ 169 (378)
.+ ..|.|||++|+||+||+++||.|| .||+++|++|++. ++.+++|+||+++|+||+++++++.+++++++++|+
T Consensus 99 ~~--~~~~~~t~~i~p~~~i~~~~y~~d~~f~le~L~e~~~~--~~~~~~VvvD~~~A~i~~l~g~~~~~~~~i~~~vp~ 174 (411)
T PRK04011 99 GP--GTEDMETYVIEPPEPVPTFFYRCDSEFHTEPLEDMLED--KEVYGLIVVDRREATIGLLKGKRIEVLKELTSFVPG 174 (411)
T ss_pred CC--CCceEEEEEEcCCCccEEEEecCCcHHHHHHHHHHhcC--CCCEEEEEEecCceEEEEEeCCEEEEEEEEEeeCCC
Confidence 32 348999999999999999999876 5999999999996 459999999999999999999999999999999999
Q ss_pred CCCC-chhh------hHHHHHHHHHHHHHHHHhccc---ccCccEEEEECCccCHHHHHH--HHHHHHhhcccchhhccC
Q 042331 170 KHGP-AVAR------YESALNKFFDSVLHAFLKHVD---FNVVRCAVIASPGFTKDQFHR--YLLLEAERTQLRPIIANK 237 (378)
Q Consensus 170 K~~~-g~s~------~e~~~~~f~~~v~~~l~~~~~---~~~~~~iiIaGpg~~k~~f~~--~l~~~~~~~~~~~~~~~~ 237 (378)
||+. |||+ ++++.++||++|++.+.++|. +.++++||||||||+|++|.+ ||+++++++
T Consensus 175 K~~~GG~S~~Rf~r~~e~~~~~f~k~Vae~~~~~f~~~~~~~v~~IvlaGpg~~K~~f~~~~~L~~~l~~~--------- 245 (411)
T PRK04011 175 KHRKGGQSARRFERLIEQAAHEFYKRVGEKANEAFLPLLEGKLKGILIGGPGPTKEEFLEGDYLHYELKKK--------- 245 (411)
T ss_pred CccCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccEEEEECChhHHHHHhhhhhhhHHHHhh---------
Confidence 9875 5653 578899999999999998875 478999999999999999999 999998642
Q ss_pred CcEEEEEcCCCccchHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhhCCCCcEEECHHHHHHHHHccCccEEEEecCc
Q 042331 238 SRIVIVHTSSGYKHSLREVLDASNVMNLIKETKAAQEVKVLKEFFNMLSNDPTRACYGPKHVEVAHERMAVQTLLITDDL 317 (378)
Q Consensus 238 ~ki~~~~~s~~~~~gl~Evl~~~~v~~~l~~~~~~~e~~~l~~f~~~l~~~~~~a~yG~~~V~~A~e~GAV~tLLI~d~l 317 (378)
-+.++++|+++.+|++|++++. +++|+++++++|.++|++|+++++++++++|||+++|.+|+++|||+||||+|++
T Consensus 246 -vv~~~~~s~~~~~Gl~E~l~~~--~~~L~~~k~~~e~~lle~f~~~l~~d~g~avyG~~~V~~Ale~GAVetLLV~d~l 322 (411)
T PRK04011 246 -ILGLFDVSYTGESGLRELVDKA--SDLLKEQELVKEKKLMEEFFKELAKDGGLAVYGEEEVRKALEMGAVDTLLISEDL 322 (411)
T ss_pred -eEEEEecCCCCccCHHHHHHHH--HHHHHHhHHHHHHHHHHHHHHHHhcCCCcEEEcHHHHHHHHHcCCceEEEEeccc
Confidence 1247899999999999999975 9999999999999999999999999999999999999999999999999999999
Q ss_pred cc------cch-----------------------------hHhHHHHHHHHHHHHccCCEEEEECCCCCccccc-ccCcc
Q 042331 318 FR------NFE-----------------------------IATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQL-GQLTG 361 (378)
Q Consensus 318 ~r------~~d-----------------------------~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L-~~lgG 361 (378)
.+ |++ ++.|+.+.+|++.|+++||+|+|||++|++|+|| ++|||
T Consensus 323 ~~~r~~~~c~~c~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~v~~l~e~a~~~g~~v~iis~~~e~G~qL~~~fGG 402 (411)
T PRK04011 323 RKDRVTYKCPNCGYEEEKTVKRREELPEKTCPKCGSELEIVEEEDIIEELSELAEQSGTKVEVISTDTEEGEQLLKAFGG 402 (411)
T ss_pred cceeEEEEcCCCCcceeeecccccccccccCcccCcccccchhhhHHHHHHHHHHHcCCEEEEECCCChhHHHHHHcCCC
Confidence 66 443 4456677779999999999999999999999999 99999
Q ss_pred EEEEeecCC
Q 042331 362 VAAILRFPL 370 (378)
Q Consensus 362 IaAiLRy~i 370 (378)
||||||||+
T Consensus 403 IaAiLRy~i 411 (411)
T PRK04011 403 IAAILRYKT 411 (411)
T ss_pred EEEEEecCC
Confidence 999999996
No 7
>COG1503 eRF1 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.1e-43 Score=344.67 Aligned_cols=331 Identities=23% Similarity=0.264 Sum_probs=280.9
Q ss_pred ceEEEec----CChhhHHHHHHhhcCCCeEEEEEEEeEeeccCCCCcceeEEEEEEEEEEEEeeccCCCCeEEEEEEEee
Q 042331 14 GSVKMIP----VDSDDLWFAYNLVNAGDSVLAVTVRKVVRQTKSGGKDAERVKLKLEIKVEALDYDKEGSALRISGKNIL 89 (378)
Q Consensus 14 g~v~l~~----e~~dDlw~Lynli~~gD~V~~~t~Rkv~~~~~~g~~~~~r~~~~L~i~Ve~i~~~~~~~~Lri~G~i~~ 89 (378)
..+++.+ .-+|-.-+|...+++..+++++++|+-.+. +.++.+.++. ...-.|.+|...++|.+..
T Consensus 28 ~lislyIPp~~qisdv~~~lr~e~s~asniksk~tR~~V~~----ai~~~~~rLk------~~~~~P~nGlv~f~g~v~~ 97 (411)
T COG1503 28 ELISLYIPPDRQISDVVNRLRDEYSTASNIKSKVTRKNVLS----AIESAMQRLK------DYCKTPENGLVLFVGDVLG 97 (411)
T ss_pred eEEEEecCCCCchHHHHHHHHhhccchhhhhhcCchHHHHh----HHHHHHHHHH------hcccCCCCCeEEEEeeecc
Confidence 3455555 234667889999999999999999997653 2334444444 6677889999999999986
Q ss_pred cccccccccEEEEEEccCCcEEEEeccCC-hhhHHHHHHhhcccCCCcEEEEEEECCeeEEEEEecceEEEEEEEEeecC
Q 042331 90 ENEHVKIGAFHSLEIELHRPFVLTKDVWD-SVALDTLHQASDSAATADLAVVLMQEGLANIFLVGRSMTITRSRIETSIP 168 (378)
Q Consensus 90 ~~~~v~~G~~ht~~l~~~~~v~i~k~~wd-~~~l~~L~~a~~~~~~~~~~~vvvd~g~A~i~~l~~~~~~~~~~i~~~ip 168 (378)
+-. ....-|..++||+|++.+.|.|| +||+++|++++.... .|+++++|.++|+++++.+..+.+++++++.+|
T Consensus 98 ~~~---~t~~~~~~~~PP~Pi~~~ly~cDs~F~~e~L~~~l~~~~--~ygliv~dr~ea~ig~l~g~r~evl~~~~s~vp 172 (411)
T COG1503 98 GGG---KTKKVTVVIEPPEPINTFLYRCDSKFYLEPLEEMLEDKD--LYGLIVLDRIEATIGLLKGKRIEVLKELTSDVP 172 (411)
T ss_pred CCC---ccceeeecccCCCCcceeeeccccHHHHHHHHHHhhhcc--cccEEEEecccceeeeeccceeeHhhhhcccCc
Confidence 421 13356777899999999999999 899999999999877 999999999999999999999999999999999
Q ss_pred CCCCC-chhh------hHHHHHHHHHHHHHHHHhccc---ccCccEEEEECCccCHHHHHH--HHHHHHhhcccchhhcc
Q 042331 169 RKHGP-AVAR------YESALNKFFDSVLHAFLKHVD---FNVVRCAVIASPGFTKDQFHR--YLLLEAERTQLRPIIAN 236 (378)
Q Consensus 169 ~K~~~-g~s~------~e~~~~~f~~~v~~~l~~~~~---~~~~~~iiIaGpg~~k~~f~~--~l~~~~~~~~~~~~~~~ 236 (378)
|||++ |||+ ++.+.+.||++|.+.+.+.|. ..++++|+|+||+.+|++|++ ||.++++.+..
T Consensus 173 gKh~~Ggqsa~rferl~ee~~h~f~k~vge~A~e~f~~~~~~~~kgIilgGp~~tk~ef~e~~yL~~~lk~kv~------ 246 (411)
T COG1503 173 GKHRAGGQSARRFERLIEEAAHEFYKKVGEAASEAFLPIAKKELKGIILGGPGPTKEEFVEGDYLHHELKKKVL------ 246 (411)
T ss_pred chhhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhhhhcceEeeCCcccchhhhcccccchHHHHHHH------
Confidence 99987 4553 566889999999999999885 226889999999999999998 99999865321
Q ss_pred CCcEEEEEcCCCccchHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhhCCCCcEEECHHHHHHHHHccCccEEEEecC
Q 042331 237 KSRIVIVHTSSGYKHSLREVLDASNVMNLIKETKAAQEVKVLKEFFNMLSNDPTRACYGPKHVEVAHERMAVQTLLITDD 316 (378)
Q Consensus 237 ~~ki~~~~~s~~~~~gl~Evl~~~~v~~~l~~~~~~~e~~~l~~f~~~l~~~~~~a~yG~~~V~~A~e~GAV~tLLI~d~ 316 (378)
-++++++++.+|++|++..+ .+.|.+.++.+|.++|++|++.+.+++|+++||.++|.+|+++|||++|||+++
T Consensus 247 ----~lvDv~y~~esg~~eli~~A--~d~L~~~~~~~eK~l~e~f~~e~~~~~Gla~yG~~~vr~aL~~gaVd~llv~Ed 320 (411)
T COG1503 247 ----GLVDVSYTGESGLRELIEKA--EDALKDVDYVREKKLMEEFFKELAKDSGLAVYGEEEVREALEMGAVDTLLVSED 320 (411)
T ss_pred ----hhccccccccccHHHHHHHh--HHHHHhhhhhcchhHHHHHHHHhccCcceeecchHHHHHHHHhcccceEEeecc
Confidence 36899999999999999998 999999999999999999999999999999999999999999999999999998
Q ss_pred cc------ccc---------------------h------hHhHHH-HHHHHHHHHccCCEEEEECCCCCccccc-ccCcc
Q 042331 317 LF------RNF---------------------E------IATRKK-YVDLVNSVKDSGGTAHIFSSMHFSGEQL-GQLTG 361 (378)
Q Consensus 317 l~------r~~---------------------d------~~~r~~-~~~lve~v~~~g~~V~ivs~~~~~G~~L-~~lgG 361 (378)
+- +|+ + +..+.+ +.++.+.+++.|++|.|||++++.|.|| +.+||
T Consensus 321 l~~~r~~~~c~~~~~e~~~t~~~~~~~~~~~~~~~~e~~~v~~~d~vd~l~e~a~~~Ga~ve~is~~~~eg~q~~~afgG 400 (411)
T COG1503 321 LEKERVTYKCPTCGYENLKSKREFEQKRFRCPECGSEMEEVEVSDLVDELAELAEESGAKVEIISDDTDEGAQLLKAFGG 400 (411)
T ss_pred ccccceeecCCCcchhhhhcccccccccccCccccccccchhhhhHHHHHHHHHHhcCCeEEEecCchHHHHHHHHcccc
Confidence 83 222 0 112334 4459999999999999999999999995 66999
Q ss_pred EEEEeecCCC
Q 042331 362 VAAILRFPLP 371 (378)
Q Consensus 362 IaAiLRy~i~ 371 (378)
|||||||++.
T Consensus 401 i~AiLR~~~~ 410 (411)
T COG1503 401 LAAILRYRTD 410 (411)
T ss_pred hheeeecccC
Confidence 9999999974
No 8
>PF03463 eRF1_1: eRF1 domain 1; InterPro: IPR005140 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre. The crystal structure of human eRF1 is known []. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site []. This domain is also found in other proteins for which the precise molecular function is unknown. Many of them are from Archaebacteria. These proteins may also be involved in translation termination but this awaits experimental verification.; PDB: 2VGN_A 2VGM_A 3J16_A 3IZQ 3AGK_A 3AGJ_B 3OBW_A 3E1Y_D 1DT9_A 2LLX_A ....
Probab=100.00 E-value=3.8e-37 Score=262.09 Aligned_cols=130 Identities=48% Similarity=0.812 Sum_probs=122.0
Q ss_pred CeeeeeecCCCCCceEEEecCChhhHHHHHHhhcCCCeEEEEEEEeEeec-cCCCCcceeEEEEEEEEEEEEeeccCCCC
Q 042331 1 MRIVRKDLIPNGPGSVKMIPVDSDDLWFAYNLVNAGDSVLAVTVRKVVRQ-TKSGGKDAERVKLKLEIKVEALDYDKEGS 79 (378)
Q Consensus 1 Mki~~~~~~~~~~g~v~l~~e~~dDlw~Lynli~~gD~V~~~t~Rkv~~~-~~~g~~~~~r~~~~L~i~Ve~i~~~~~~~ 79 (378)
|||+++++.++++|.|++.||+.||+|||||||.+||.|+|+|+|+++.+ +.+++.+++++++.|+++|++++|+|+++
T Consensus 1 Mki~~~~~~~~~~~~i~ll~e~~dDlw~L~~li~~gD~v~~~t~Rkv~~~~~~~~~~~~~~v~~~L~i~ve~v~~~~~~~ 80 (132)
T PF03463_consen 1 MKIISKDIEKNGKGLIKLLPEEKDDLWHLYNLIIPGDEVISKTTRKVQEASNIKGSKTRERVQIALTIKVEKVEFDPENG 80 (132)
T ss_dssp -EEEEECHCHHHHHEEEEETTSHHHHHHHHHHEETTTEEEECCHCHHHHCTCESSHHHHHCEEEEEEEEEEEEEEETTTT
T ss_pred CccchhhhccccCceEEEcccccCCcEEEEEEEECCCEEEEEEEEeeeecccccCCcceEEEEEEEEEEEEEeEecCCCC
Confidence 99999999767899999999999999999999999999999999999443 34667788999999999999999999999
Q ss_pred eEEEEEEEeecccccccccEEEEEEccCCcEEEEeccCChhhHHHHHHhhc
Q 042331 80 ALRISGKNILENEHVKIGAFHSLEIELHRPFVLTKDVWDSVALDTLHQASD 130 (378)
Q Consensus 80 ~Lri~G~i~~~~~~v~~G~~ht~~l~~~~~v~i~k~~wd~~~l~~L~~a~~ 130 (378)
.|||+|+|+.+|+++++|+|||++|+||++|+++|+.||++++++|.+|++
T Consensus 81 ~Lri~G~i~~~~~~~~~G~~hT~~i~~~~~~ti~K~~wd~~~~~~l~ea~~ 131 (132)
T PF03463_consen 81 LLRISGKIVEENEDVKLGKYHTLDIEPGRPFTIIKYRWDSYFLDRLKEAMD 131 (132)
T ss_dssp EEEEEEEEEEGSCGGGTTSEEEEEEETSSEEEEEEEEEEHHHHHHHHHHTS
T ss_pred EEEEEeEEccCCCCCCcceEEEEEEeCCCceEEEEecCCHHHHHHHHHHhc
Confidence 999999999999999999999999999999999999999999999999986
No 9
>KOG0688 consensus Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.7e-34 Score=268.19 Aligned_cols=283 Identities=18% Similarity=0.280 Sum_probs=243.7
Q ss_pred eeccCCCCeEEEEEEEeecccccccccEEEEEEccCCcEEEEeccCC-hhhHHHHHHhhcccCCCcEEEEEEECCeeEEE
Q 042331 72 LDYDKEGSALRISGKNILENEHVKIGAFHSLEIELHRPFVLTKDVWD-SVALDTLHQASDSAATADLAVVLMQEGLANIF 150 (378)
Q Consensus 72 i~~~~~~~~Lri~G~i~~~~~~v~~G~~ht~~l~~~~~v~i~k~~wd-~~~l~~L~~a~~~~~~~~~~~vvvd~g~A~i~ 150 (378)
..-.|.++...++|.++.+. ..-+.-+++++|-.||...-|-|| +||+++|.+++.... .+|+++||...+.++
T Consensus 81 ynkvPpnglvly~gti~ted---gkekkv~idfepfkpintslyLcdNkfhte~l~~Ll~sd~--kfgfivmDg~~tlfg 155 (431)
T KOG0688|consen 81 YNKVPPNGLVLYTGTIVTED---GKEKKVNIDFEPFKPINTSLYLCDNKFHTEALKELLESDN--KFGFIVMDGNGTLFG 155 (431)
T ss_pred hccCCCCceEEEeeeeEccC---CceeeeecccccccccccceEecCCccchHHHHHHHhhcc--cccEEEEcCCceeEE
Confidence 45678899999999999654 234467899999999998889998 899999999999887 999999999999999
Q ss_pred EEecceEEEEEEEEeecCCCCCCc-hhh------hHHHHHHHHHHHHHHHHhcc---cccCccEEEEECCccCHHHHHH-
Q 042331 151 LVGRSMTITRSRIETSIPRKHGPA-VAR------YESALNKFFDSVLHAFLKHV---DFNVVRCAVIASPGFTKDQFHR- 219 (378)
Q Consensus 151 ~l~~~~~~~~~~i~~~ip~K~~~g-~s~------~e~~~~~f~~~v~~~l~~~~---~~~~~~~iiIaGpg~~k~~f~~- 219 (378)
.+.++.-.++.++..++|+||+.| ||. |.+..+.|.+.+++...+++ +..++.++|+||....|.++.+
T Consensus 156 tl~gntrevLhkftVdlPkkhgrggqSalrfarlR~ekRhnYVrkvae~a~q~fi~~~~~Nv~gLilaGsadfKtelsqS 235 (431)
T KOG0688|consen 156 TLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAELAVQRFITNDKPNVAGLILAGSADFKTELSQS 235 (431)
T ss_pred EeccchHhhhheeeecCccccCccchhHHhhhhhhhhhhccceeeecccceeEEecCCCcceeEEEEecccccccccchh
Confidence 999999999999999999999885 552 55566789999999998887 3667999999999988888765
Q ss_pred -HHHHHHhhcccchhhccCCcEEEEEcCCCccchHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhhCCCCcEEECHHH
Q 042331 220 -YLLLEAERTQLRPIIANKSRIVIVHTSSGYKHSLREVLDASNVMNLIKETKAAQEVKVLKEFFNMLSNDPTRACYGPKH 298 (378)
Q Consensus 220 -~l~~~~~~~~~~~~~~~~~ki~~~~~s~~~~~gl~Evl~~~~v~~~l~~~~~~~e~~~l~~f~~~l~~~~~~a~yG~~~ 298 (378)
.+.++++.+. +-++++|+||.+|++++++-. .+++++.++.+|.+++.+|+++++.|.|+.|||.++
T Consensus 236 d~fd~rlqskv----------i~~vdvsyGGengfnQaIeL~--aevlsnvk~vqekkli~~yfdEisqdtgky~Fgv~d 303 (431)
T KOG0688|consen 236 DMFDPRLQSKV----------LKTVDVSYGGENGFNQAIELS--AEVLSNVKFVQEKKLIGKYFDEISQDTGKYCFGVED 303 (431)
T ss_pred hhcchHHhhhH----------HhhhcccccchhhHHHHHHHH--HhhhhcceeeehhhHHHHHhhhhhcccCcccccHHH
Confidence 4555654321 246899999999999999977 899999999999999999999999999999999999
Q ss_pred HHHHHHccCccEEEEecCcc------ccc-----------------------------hhHhHHHHHH-HHHHHHccCCE
Q 042331 299 VEVAHERMAVQTLLITDDLF------RNF-----------------------------EIATRKKYVD-LVNSVKDSGGT 342 (378)
Q Consensus 299 V~~A~e~GAV~tLLI~d~l~------r~~-----------------------------d~~~r~~~~~-lve~v~~~g~~ 342 (378)
++.|+++|||+||++.+.|- ++. +..++..+.+ +.+..+++|+-
T Consensus 304 Tl~aLe~gavetli~~enLd~~ry~~kn~~~~~~i~~l~~~~e~d~s~~~Dketg~e~elie~~pLlEw~AnnYK~FGa~ 383 (431)
T KOG0688|consen 304 TLLALEMGAVETLIVWENLDIIRYELKNSDGESVIGFLVPDEEKDKSHFTDKETGWEMELIERMPLLEWFANNYKKFGAT 383 (431)
T ss_pred HHHHHHcCCeeehhHhhhhhhhhhhhcccCCccceeeecchhhcccccccccccchhhhHHhhhhHHHHHHHHHhhcCeE
Confidence 99999999999999998872 221 1223444666 77899999999
Q ss_pred EEEECCCCCcccc-cccCccEEEEeecCCC
Q 042331 343 AHIFSSMHFSGEQ-LGQLTGVAAILRFPLP 371 (378)
Q Consensus 343 V~ivs~~~~~G~~-L~~lgGIaAiLRy~i~ 371 (378)
..||++.+..|.| .++||||++||||+++
T Consensus 384 LE~VTdKSqEgsQFv~GfGgiGgiLrY~vd 413 (431)
T KOG0688|consen 384 LEIVTDKSQEGSQFVKGFGGIGGILRYRVD 413 (431)
T ss_pred EEEecccchhHHHHHhhcCCcceeEEEEee
Confidence 9999999999999 7999999999999986
No 10
>PF03465 eRF1_3: eRF1 domain 3; InterPro: IPR005142 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre. The crystal structure of human eRF1 is known []. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site []. This domain is also found in other proteins which may also be involved in translation termination but this awaits experimental verification.; PDB: 3OBY_A 3E1Y_D 1DT9_A 2KTU_A 2KTV_A 3IR9_A 3E20_H 3OBW_A 3AGJ_F 3MCA_B ....
Probab=99.96 E-value=5.9e-29 Score=205.84 Aligned_cols=99 Identities=45% Similarity=0.681 Sum_probs=90.5
Q ss_pred HHHHHHHHHHHHHHhhCCCCcEEECHHHHHHHHHccCccEEEEecCccccchhHhHHH-------------HHHHHHHHH
Q 042331 271 AAQEVKVLKEFFNMLSNDPTRACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKK-------------YVDLVNSVK 337 (378)
Q Consensus 271 ~~~e~~~l~~f~~~l~~~~~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~-------------~~~lve~v~ 337 (378)
+++|.+++++|+++++++++++|||+++|.+|+++|||+||||+|++++..+. .|.+ +.+|++.|+
T Consensus 1 ~~~E~~~ve~f~~~l~k~~~~~~yG~~eV~~Al~~GaV~~LlI~d~l~~~~~~-~r~~~~~~~~~~~~~~~i~~l~~~a~ 79 (113)
T PF03465_consen 1 IIKEKKLVEEFFEELAKDPGLAVYGIEEVKKALEMGAVETLLISDDLFRSRDV-ERCKCPECGGELEVVELIEELIELAE 79 (113)
T ss_dssp HHHHHHHHHHHHHHHHTTCSSEEESHHHHHHHHHTT-EEEEEEEHHHHTESCH-HHHHSTTTHSEEEEEEHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHhhCCCcEEECHHHHHHHHHhCCCcEEEEecccccccce-eccccccccchhhhHHHHHHHHHHHH
Confidence 46899999999999999999999999999999999999999999999999877 6666 777999999
Q ss_pred ccCCEEEEECCCCCccccc-ccCccEEEEeecCC
Q 042331 338 DSGGTAHIFSSMHFSGEQL-GQLTGVAAILRFPL 370 (378)
Q Consensus 338 ~~g~~V~ivs~~~~~G~~L-~~lgGIaAiLRy~i 370 (378)
++|++|+|||++|++|+|| ++||||||||||||
T Consensus 80 ~~g~~v~iis~~~e~G~~L~~~~gGIaaiLRy~i 113 (113)
T PF03465_consen 80 QSGAKVEIISSEHEEGEQLLKGFGGIAAILRYPI 113 (113)
T ss_dssp HTTSEEEEE-TTSHHHHHHHHCTTTEEEEESS--
T ss_pred HcCCEEEEEcCCCccHHHHHhcCCcEEEEEeccC
Confidence 9999999999999999999 99999999999996
No 11
>PF03464 eRF1_2: eRF1 domain 2; InterPro: IPR005141 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre. The crystal structure of human eRF1 is known []. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site []. This domain is also found in other proteins which may also be involved in translation termination ; PDB: 3AGK_A 2VGN_A 2VGM_A 3J16_A 3IZQ 3IR9_A 3OBW_A 3MCA_B 2QI2_A 3E1Y_D ....
Probab=99.93 E-value=1.7e-25 Score=190.88 Aligned_cols=126 Identities=43% Similarity=0.673 Sum_probs=112.8
Q ss_pred cEEEEEEECCeeEEEEEecceEEEEEEEEeecCCCCCC-chhh----hHHHHHHHHHHHHHHHHhc--ccccCccEEEEE
Q 042331 136 DLAVVLMQEGLANIFLVGRSMTITRSRIETSIPRKHGP-AVAR----YESALNKFFDSVLHAFLKH--VDFNVVRCAVIA 208 (378)
Q Consensus 136 ~~~~vvvd~g~A~i~~l~~~~~~~~~~i~~~ip~K~~~-g~s~----~e~~~~~f~~~v~~~l~~~--~~~~~~~~iiIa 208 (378)
++++|+||+|.|+||+++++++..+++++.++|+||+. |+|+ +++++++||++|++++.++ .++.++++||||
T Consensus 1 ~v~~v~id~g~A~i~~l~~~~~~~~~~i~~~ip~K~~~Gg~s~~rf~r~~~~~~f~~~i~~~l~~~f~~~~~~~~~iIia 80 (133)
T PF03464_consen 1 KVGIVVIDEGEANICLLRGYGTEILQRIESNIPGKHKKGGQSQRRFEREKALEKFFKEIAEALKKYFLVNFDDVKCIIIA 80 (133)
T ss_dssp EEEEEEEETTEEEEEEEETTEEEEEEEEE-GHCCCSSTTCSHHHHHHHHHHHHHHHHHHHHHHHHHCCCHTTTCSEEEEE
T ss_pred CEEEEEEeCCCEEEEEEcCCEEEEEEEEEecCCCccCCCCcchhhHHHHHHHHHHHHHHHHHHHHHhhhccccccEEEEE
Confidence 47999999999999999999999999999999999986 4554 3889999999999999999 779999999999
Q ss_pred CCccCHHHHHHHHHHHHhhcccchhhccCCcEEEEEcCCCccchHHHHHHhhhHHHHHHH
Q 042331 209 SPGFTKDQFHRYLLLEAERTQLRPIIANKSRIVIVHTSSGYKHSLREVLDASNVMNLIKE 268 (378)
Q Consensus 209 Gpg~~k~~f~~~l~~~~~~~~~~~~~~~~~ki~~~~~s~~~~~gl~Evl~~~~v~~~l~~ 268 (378)
||||+|++|++|+....+.+. +.++.++++|+++.+|++|+|++|+++++|+|
T Consensus 81 GPGf~k~~f~~~l~~~~~~~~-------~~~i~~~~~s~~~~~gl~Evl~~~~v~~~l~d 133 (133)
T PF03464_consen 81 GPGFTKEEFYKYLKAEARRKD-------KKKIVVVDTSSGGESGLNEVLKRPEVQKILKD 133 (133)
T ss_dssp ESTTHHHHHHHHHHHHHHHHT-------CCEEEEEE-SSSCHHHHHHHHHSHHHHHHHCT
T ss_pred CCHHHHHHHHHHHHHhhHhhc-------CCEEEEEECCCCCHHHHHHHHHhhhHHHHhcC
Confidence 999999999999999987642 24788999999999999999999999998864
No 12
>PF10116 Host_attach: Protein required for attachment to host cells; InterPro: IPR019291 Members of this family of bacterial proteins are required for the attachment of the bacterium to host cells [, ].
Probab=96.68 E-value=0.0058 Score=52.23 Aligned_cols=91 Identities=14% Similarity=0.096 Sum_probs=63.8
Q ss_pred EEEEEECCeeEEEEEecceE---EEE------------EEEEeecCCCCCC--ch--h------hhHHHHHHHHHHHHHH
Q 042331 138 AVVLMQEGLANIFLVGRSMT---ITR------------SRIETSIPRKHGP--AV--A------RYESALNKFFDSVLHA 192 (378)
Q Consensus 138 ~~vvvd~g~A~i~~l~~~~~---~~~------------~~i~~~ip~K~~~--g~--s------~~e~~~~~f~~~v~~~ 192 (378)
+|||.|.+.|+||...+... ..+ +.+..+-||.... |+ + ..+...++|.++|++.
T Consensus 2 wVvVaD~~~Ar~f~~~~~~~~~~~~~~~~~~~~~~~~~~dl~~d~~Gr~~~~~g~~~~~~~~~~~~~~~~~~Fa~~vA~~ 81 (138)
T PF10116_consen 2 WVVVADGSRARIFENEGDESEPLLELEELDHPESRLKDRDLVSDRPGRFHDSAGQRGSMEERTDPKEEEEERFAREVADR 81 (138)
T ss_pred EEEEEecceeEEEEecCCCCCcchhhhhhcccccccchhhhccCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHH
Confidence 79999999999998876643 211 2333445553221 11 1 2566789999999999
Q ss_pred HHhcccccCccEEEEECCccCHHHHHHHHHHHHhhc
Q 042331 193 FLKHVDFNVVRCAVIASPGFTKDQFHRYLLLEAERT 228 (378)
Q Consensus 193 l~~~~~~~~~~~iiIaGpg~~k~~f~~~l~~~~~~~ 228 (378)
|.+......++.+||++|..+--.+.+.|.....+.
T Consensus 82 L~~~~~~~~~~~LvlvA~p~~LG~LR~~L~~~~~~~ 117 (138)
T PF10116_consen 82 LEKARRAGKFDRLVLVAPPRFLGLLREHLSKAVRKR 117 (138)
T ss_pred HHHHHHhCCCCeEEEEECHHHHHHHHHHhCHHHHHH
Confidence 999998888999999999866666666666655543
No 13
>PF08032 SpoU_sub_bind: RNA 2'-O ribose methyltransferase substrate binding; InterPro: IPR013123 Most cellular RNAs undergo a number of post-transcriptional nucleoside modifications. While the biological role of many of these modifications is unknown, some have been shown to be necessary for cell growth or for resistance to antibiotics [, ]. One of the most common modifications is 2'O-ribose methylation catalysed by the RNA 2'O-ribose methyltransferases, a large enzyme family that transfer a methyl group from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of the backbone ribose []. This entry represents a substrate-binding domain found in a variety of bacterial and mitochondrial RNA 2'-O ribose methyltransferases. These include the bacterial enzyme RlmB, which specifically methylates the conserved nucleotide guanosine 2251 in 23S RNA, and PET56, which specifically methylates the equivalent guanosine in mitochondrial 21S RNA [, ]. This domain forms a four-stranded mixed beta sheet similar to that found in other RNA binding enzymes []. It shows considerable conformational flexibility which is thought to be important for its ability to bind RNA.; GO: 0008168 methyltransferase activity; PDB: 1GZ0_D 1IPA_A.
Probab=95.92 E-value=0.017 Score=43.69 Aligned_cols=68 Identities=21% Similarity=0.304 Sum_probs=47.9
Q ss_pred EECHHHHHHHHHccC-ccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCcccc---cccCccEEEEeec
Q 042331 293 CYGPKHVEVAHERMA-VQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQ---LGQLTGVAAILRF 368 (378)
Q Consensus 293 ~yG~~~V~~A~e~GA-V~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~---L~~lgGIaAiLRy 368 (378)
+||...|..|++.|. +..|+++++ ... +++.++++.+.+.|..|..+|..-- .+ -...-||+|..+-
T Consensus 2 ieG~~~V~eaL~~~~~i~~l~~~~~-~~~------~~~~~i~~~~~~~~i~v~~v~~~~l--~~ls~~~~hQGv~a~v~~ 72 (76)
T PF08032_consen 2 IEGRHAVEEALKSGPRIKKLFVTEE-KAD------KRIKEILKLAKKKGIPVYEVSKKVL--DKLSDTENHQGVVAVVKP 72 (76)
T ss_dssp EESHHHHHHHHHCTGGEEEEEEETT----------CCTHHHHHHHHHCT-EEEEE-HHHH--HHCTTTSS-TTEEEEEE-
T ss_pred EEEHHHHHHHHcCCCCccEEEEEcC-ccc------hhHHHHHHHHHHcCCeEEEeCHHHH--HHHcCCCCCCeEEEEEeC
Confidence 799999999999987 999999999 222 1356688999999999999986421 11 1345599998874
Q ss_pred C
Q 042331 369 P 369 (378)
Q Consensus 369 ~ 369 (378)
+
T Consensus 73 ~ 73 (76)
T PF08032_consen 73 P 73 (76)
T ss_dssp -
T ss_pred C
Confidence 3
No 14
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=94.96 E-value=0.064 Score=41.87 Aligned_cols=58 Identities=19% Similarity=0.248 Sum_probs=49.2
Q ss_pred EEECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCccccc
Q 042331 292 ACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQL 356 (378)
Q Consensus 292 a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L 356 (378)
.++|.+++.+|++.|.+..++|..+.- ..-+..|...+++.|-.+.+++++.+.|.-.
T Consensus 14 ~vvG~kqt~Kai~kg~~~~v~iA~Da~-------~~vv~~l~~lceek~Ip~v~V~s~~~LGkAc 71 (84)
T PRK13600 14 FVVGLKETLKALKKDQVTSLIIAEDVE-------VYLMTRVLSQINQKNIPVSFFKSKHALGKHV 71 (84)
T ss_pred ceeeHHHHHHHHhcCCceEEEEeCCCC-------HHHHHHHHHHHHHcCCCEEEECCHHHHHHHh
Confidence 499999999999999999999998873 1133449999999999999999998877653
No 15
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=94.34 E-value=0.21 Score=38.83 Aligned_cols=63 Identities=17% Similarity=0.179 Sum_probs=50.8
Q ss_pred CCcEEECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCccccccc
Q 042331 289 PTRACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQLGQ 358 (378)
Q Consensus 289 ~~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L~~ 358 (378)
.++.+.|.++|.+|++.|.+..++|..+.- +..+ ..+...++..+..++.+++..+.|.-+-.
T Consensus 9 agkl~~G~~~v~kai~~gkaklViiA~D~~----~~~~---~~i~~~c~~~~Vp~~~~~s~~eLG~a~G~ 71 (82)
T PRK13602 9 AKSIVIGTKQTVKALKRGSVKEVVVAEDAD----PRLT---EKVEALANEKGVPVSKVDSMKKLGKACGI 71 (82)
T ss_pred cCCEEEcHHHHHHHHHcCCeeEEEEECCCC----HHHH---HHHHHHHHHcCCCEEEECCHHHHHHHHCC
Confidence 389999999999999999999999998873 1222 23667788999999999988887776533
No 16
>PRK06683 hypothetical protein; Provisional
Probab=93.01 E-value=0.51 Score=36.63 Aligned_cols=62 Identities=13% Similarity=0.096 Sum_probs=50.1
Q ss_pred CCCcEEECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCccccc
Q 042331 288 DPTRACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQL 356 (378)
Q Consensus 288 ~~~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L 356 (378)
+.++.+.|.++|++|++.|.+..++|..+.- +..+ .++.+.++..+-.++.+++..+.|.-+
T Consensus 8 ~agk~v~G~~~v~kaik~gkaklViiA~Da~----~~~~---~~i~~~~~~~~Vpv~~~~t~~eLG~A~ 69 (82)
T PRK06683 8 NAENVVVGHKRTLEAIKNGIVKEVVIAEDAD----MRLT---HVIIRTALQHNIPITKVESVRKLGKVA 69 (82)
T ss_pred hCCCEEEcHHHHHHHHHcCCeeEEEEECCCC----HHHH---HHHHHHHHhcCCCEEEECCHHHHHHHh
Confidence 3589999999999999999999999998873 1222 236778999999999999887766554
No 17
>PF01248 Ribosomal_L7Ae: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; InterPro: IPR004038 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, ribosomal protein L30 from eukaryotes and archaebacteria, Gadd45 and MyD118 [].; PDB: 2CZW_A 3V7E_B 2QEX_F 1YJ9_F 1VQ8_F 1YJN_F 3I56_F 1VQ6_F 2OTJ_F 1YIJ_F ....
Probab=92.96 E-value=0.22 Score=39.36 Aligned_cols=71 Identities=17% Similarity=0.120 Sum_probs=55.2
Q ss_pred CcEEECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHH-HHHHHHccCCEEEEECCCCCcccccccC--ccEEEEe
Q 042331 290 TRACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVD-LVNSVKDSGGTAHIFSSMHFSGEQLGQL--TGVAAIL 366 (378)
Q Consensus 290 ~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~-lve~v~~~g~~V~ivs~~~~~G~~L~~l--gGIaAiL 366 (378)
++.++|.++|.++++.|.+.-++++.+.-.. .... +...+++.+..++.+++..+.|.-+..- -.++|++
T Consensus 14 ~~lv~G~~~v~k~l~~~~~~lvilA~d~~~~-------~~~~~l~~~c~~~~Ip~~~~~s~~eLG~~~g~~~~~~~~~i~ 86 (95)
T PF01248_consen 14 GRLVKGIKEVLKALKKGKAKLVILAEDCSPD-------SIKKHLPALCEEKNIPYVFVPSKEELGRACGKKRPVSALAIK 86 (95)
T ss_dssp SEEEESHHHHHHHHHTTCESEEEEETTSSSG-------HHHHHHHHHHHHTTEEEEEESHHHHHHHHTTSSSTSSEEEEE
T ss_pred CCEEEchHHHHHHHHcCCCcEEEEcCCCChh-------hhcccchhheeccceeEEEECCHHHHHHHHCCCCcEEEEEEE
Confidence 7899999999999999999999999987422 2344 6677889999999999888877765443 2444544
Q ss_pred e
Q 042331 367 R 367 (378)
Q Consensus 367 R 367 (378)
.
T Consensus 87 d 87 (95)
T PF01248_consen 87 D 87 (95)
T ss_dssp E
T ss_pred C
Confidence 3
No 18
>PRK07283 hypothetical protein; Provisional
Probab=92.65 E-value=0.36 Score=38.78 Aligned_cols=73 Identities=15% Similarity=0.043 Sum_probs=51.9
Q ss_pred CCCCcEEECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCcccccccCccEEEEe
Q 042331 287 NDPTRACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQLGQLTGVAAIL 366 (378)
Q Consensus 287 ~~~~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L~~lgGIaAiL 366 (378)
...|+.+.|.+.|.+|+..|.+.-+++..+.- +..++++ .+.+...+..++.+.+..+.|.-+-.--.|.||+
T Consensus 14 ~raGklv~G~~~v~~aik~gk~~lVi~A~Das----~~~~kk~---~~~~~~~~Vp~~~~~t~~eLG~a~Gk~~~vvai~ 86 (98)
T PRK07283 14 QRAGRIISGEELVVKAIQSGQAKLVFLANDAG----PNLTKKV---TDKSNYYQVEVSTVFSTLELSAAVGKPRKVLAVT 86 (98)
T ss_pred HHhCCeeEcHHHHHHHHHcCCccEEEEeCCCC----HHHHHHH---HHHHHHcCCCEEEeCCHHHHHHHhCCCceEEEEe
Confidence 34589999999999999999999999998873 3344454 4456677888877776666555543323455553
No 19
>PRK07714 hypothetical protein; Provisional
Probab=92.22 E-value=0.41 Score=38.56 Aligned_cols=72 Identities=17% Similarity=0.184 Sum_probs=51.3
Q ss_pred CCCcEEECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCccccccc-CccEEEEe
Q 042331 288 DPTRACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQLGQ-LTGVAAIL 366 (378)
Q Consensus 288 ~~~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L~~-lgGIaAiL 366 (378)
..++.++|.+.|.+|+..|.+.-+++..+.- +..+++ +...+...+..++.+.+..+.|.-+-. ...++||.
T Consensus 15 raGk~v~G~~~v~~al~~g~~~lViiA~D~s----~~~~~k---i~~~~~~~~vp~~~~~sk~eLG~a~Gk~~~~~vai~ 87 (100)
T PRK07714 15 RARKVISGEELVLKEVRSGKAKLVLLSEDAS----VNTTKK---ITDKCTYYNVPMRKVENRQQLGHAIGKDERVVVAVL 87 (100)
T ss_pred HhCCeeecHHHHHHHHHhCCceEEEEeCCCC----HHHHHH---HHHHHHhcCCCEEEeCCHHHHHHHhCCCcceEEEEe
Confidence 3489999999999999999999999998873 223333 555677888888877776655554422 33356654
No 20
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=91.25 E-value=1.2 Score=35.70 Aligned_cols=71 Identities=18% Similarity=0.139 Sum_probs=52.2
Q ss_pred CCcEEECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEE-CCCCCccccccc-Cc-cEEEE
Q 042331 289 PTRACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIF-SSMHFSGEQLGQ-LT-GVAAI 365 (378)
Q Consensus 289 ~~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~iv-s~~~~~G~~L~~-lg-GIaAi 365 (378)
.++.+.|.++|++|++.|.+.-++|+++.- +..+ ..+...++..+..++.+ .+..+.|.-+-. .+ +++||
T Consensus 14 agkl~~G~~~v~kai~~gkaklViiA~D~~----~~~~---~~i~~~c~~~~Ip~~~~~~tk~eLG~a~Gk~~~~~~vaI 86 (99)
T PRK01018 14 TGKVILGSKRTIKAIKLGKAKLVIVASNCP----KDIK---EDIEYYAKLSGIPVYEYEGSSVELGTLCGKPFTVSALAI 86 (99)
T ss_pred cCCEEEcHHHHHHHHHcCCceEEEEeCCCC----HHHH---HHHHHHHHHcCCCEEEECCCHHHHHHHhCCCCCEEEEEE
Confidence 489999999999999999999999999851 2223 33667788899998887 577666665532 32 45555
Q ss_pred e
Q 042331 366 L 366 (378)
Q Consensus 366 L 366 (378)
.
T Consensus 87 ~ 87 (99)
T PRK01018 87 V 87 (99)
T ss_pred e
Confidence 4
No 21
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=91.00 E-value=1.2 Score=36.49 Aligned_cols=81 Identities=14% Similarity=0.134 Sum_probs=54.8
Q ss_pred HHHHHHHhhCCCCcEEECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEE-CCCCCccccc
Q 042331 278 LKEFFNMLSNDPTRACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIF-SSMHFSGEQL 356 (378)
Q Consensus 278 l~~f~~~l~~~~~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~iv-s~~~~~G~~L 356 (378)
++.++.... ..|+.+.|.++|.+|++.|.+.-++|+.+.- +..+++ +...+...|..++.+ .+.-+.|.-+
T Consensus 13 i~~~Lgla~-raGKlv~G~~~vlkalk~gkaklViiA~D~~----~~~kkk---i~~~~~~~~Vpv~~~~~t~~eLG~A~ 84 (108)
T PTZ00106 13 INSKLQLVM-KSGKYTLGTKSTLKALRNGKAKLVIISNNCP----PIRRSE---IEYYAMLSKTGVHHYAGNNNDLGTAC 84 (108)
T ss_pred HHHHHHHHH-HhCCeeecHHHHHHHHHcCCeeEEEEeCCCC----HHHHHH---HHHHHhhcCCCEEEeCCCHHHHHHHh
Confidence 444444333 3599999999999999999999999999873 223433 556677889998865 5555544443
Q ss_pred c-cCcc-EEEEe
Q 042331 357 G-QLTG-VAAIL 366 (378)
Q Consensus 357 ~-~lgG-IaAiL 366 (378)
- .+.. ++||+
T Consensus 85 Gk~~r~svvaI~ 96 (108)
T PTZ00106 85 GRHFRVSVMSIT 96 (108)
T ss_pred CCccCeEEEEEe
Confidence 2 2333 45654
No 22
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=90.91 E-value=1.6 Score=36.44 Aligned_cols=79 Identities=18% Similarity=0.118 Sum_probs=57.3
Q ss_pred HHHHHhhCCCCcEEECHHHHHHHHHccCccEEEEecCccccchhHhHHHH-HHHHHHHHccCCEEEEECCCCCccccccc
Q 042331 280 EFFNMLSNDPTRACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKY-VDLVNSVKDSGGTAHIFSSMHFSGEQLGQ 358 (378)
Q Consensus 280 ~f~~~l~~~~~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~-~~lve~v~~~g~~V~ivs~~~~~G~~L~~ 358 (378)
.+.....+ .+..+.|.++|.+|++.|.+.-++|..+.-. ..+ ..+...+++.|..+.++.+..+.|.-+-.
T Consensus 20 ~lL~la~r-agklv~G~~~v~kaikkgkakLVilA~D~s~-------~~i~~~~~~lc~~~~Vp~~~~~tk~eLG~a~Gk 91 (122)
T PRK04175 20 EAVEKARD-TGKIKKGTNETTKAVERGIAKLVVIAEDVDP-------EEIVAHLPLLCEEKKIPYVYVPSKKDLGKAAGL 91 (122)
T ss_pred HHHHHHHH-cCCEeEcHHHHHHHHHcCCccEEEEeCCCCh-------HHHHHHHHHHHHHcCCCEEEECCHHHHHHHhCC
Confidence 34444443 3899999999999999999999999998731 122 34777888999999888888776665432
Q ss_pred --CccEEEEe
Q 042331 359 --LTGVAAIL 366 (378)
Q Consensus 359 --lgGIaAiL 366 (378)
--.++||+
T Consensus 92 ~~~~svvaI~ 101 (122)
T PRK04175 92 EVGAAAAAIV 101 (122)
T ss_pred CCCeEEEEEe
Confidence 12455554
No 23
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=90.55 E-value=0.89 Score=37.71 Aligned_cols=61 Identities=18% Similarity=0.165 Sum_probs=50.9
Q ss_pred CCcEEECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHH-HHHHHHccCCEEEEECCCCCccccc
Q 042331 289 PTRACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVD-LVNSVKDSGGTAHIFSSMHFSGEQL 356 (378)
Q Consensus 289 ~~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~-lve~v~~~g~~V~ivs~~~~~G~~L 356 (378)
.+...+|.++|.+|++.|...-++|+.+.- | .++.. |...++..|..+.+|.|..+.|.-+
T Consensus 25 ~~ki~~G~~e~~Kai~~g~a~LVviA~Dv~----P---~~~~~~l~~lc~~~~vpyv~V~sk~~LG~a~ 86 (116)
T COG1358 25 AGKLKKGTNEVTKAIERGKAKLVVIAEDVS----P---EELVKHLPALCEEKNVPYVYVGSKKELGKAV 86 (116)
T ss_pred cCCchhhHHHHHHHHHcCCCcEEEEecCCC----H---HHHHHHHHHHHHhcCCCEEEeCCHHHHHHHh
Confidence 478999999999999999999999999872 1 23333 7788889999999999998877654
No 24
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=90.07 E-value=1.3 Score=34.48 Aligned_cols=61 Identities=15% Similarity=0.111 Sum_probs=49.5
Q ss_pred CCcEEECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCccccc
Q 042331 289 PTRACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQL 356 (378)
Q Consensus 289 ~~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L 356 (378)
+|+.+.|.++|++|++.|.+..++|..+.- +..+ ..+.+.++.++-.++++.+..+.|.-+
T Consensus 6 ~GKlv~G~~~vlkaIk~gkakLViiA~Da~----~~~~---k~i~~~c~~~~Vpv~~~~t~~eLG~A~ 66 (82)
T PRK13601 6 PSKRVVGAKQTLKAITNCNVLQVYIAKDAE----EHVT---KKIKELCEEKSIKIVYIDTMKELGVMC 66 (82)
T ss_pred CccEEEchHHHHHHHHcCCeeEEEEeCCCC----HHHH---HHHHHHHHhCCCCEEEeCCHHHHHHHH
Confidence 478999999999999999999999998873 1122 337788999999998888877766655
No 25
>TIGR03677 rpl7ae 50S ribosomal protein L7Ae. Multifunctional RNA-binding protein that recognizes the K-turn motif in ribosomal RNA, box H/ACA, box C/D and box C'/D' sRNAs. Interacts with protein L15e.
Probab=89.07 E-value=2.7 Score=34.88 Aligned_cols=73 Identities=19% Similarity=0.133 Sum_probs=54.8
Q ss_pred CCcEEECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCccccccc--CccEEEEe
Q 042331 289 PTRACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQLGQ--LTGVAAIL 366 (378)
Q Consensus 289 ~~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L~~--lgGIaAiL 366 (378)
.+..+.|.++|.+|++.|.+.-++|+.+.- + +.-...+...++..+....++.+..+.|.-+-. --.++||+
T Consensus 24 agkl~~G~~~v~kaikkgka~LVilA~D~s----~--~~~~~~i~~lc~~~~Ip~~~~~sk~eLG~a~Gk~~~~svvaI~ 97 (117)
T TIGR03677 24 TGKIKKGTNEVTKAVERGIAKLVVIAEDVE----P--PEIVAHLPALCEEKGIPYVYVKKKEDLGAAAGLEVGAASAAIV 97 (117)
T ss_pred cCCEeEcHHHHHHHHHcCCccEEEEeCCCC----c--HHHHHHHHHHHHHcCCCEEEeCCHHHHHHHhCCCCCeEEEEEE
Confidence 489999999999999999999999999873 1 111233667788899998888888877776543 23466665
Q ss_pred e
Q 042331 367 R 367 (378)
Q Consensus 367 R 367 (378)
-
T Consensus 98 d 98 (117)
T TIGR03677 98 D 98 (117)
T ss_pred c
Confidence 4
No 26
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=86.79 E-value=2 Score=34.85 Aligned_cols=61 Identities=16% Similarity=0.109 Sum_probs=45.0
Q ss_pred CCCCcEEECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCccc
Q 042331 287 NDPTRACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGE 354 (378)
Q Consensus 287 ~~~~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~ 354 (378)
+..+++++|.+.|.+|+..|.+.-|++.++.- +..++++ ...++..+..++.+.+..+.|.
T Consensus 13 ~rAGklv~G~~~v~~aik~gk~~lVI~A~D~s----~~~kkki---~~~~~~~~vp~~~~~t~~eLg~ 73 (104)
T PRK05583 13 KKAGKLLEGYNKCEEAIKKKKVYLIIISNDIS----ENSKNKF---KNYCNKYNIPYIEGYSKEELGN 73 (104)
T ss_pred HHhCCeeecHHHHHHHHHcCCceEEEEeCCCC----HhHHHHH---HHHHHHcCCCEEEecCHHHHHH
Confidence 34599999999999999999999999998874 2345554 4446677888776655544443
No 27
>PRK09190 hypothetical protein; Provisional
Probab=78.39 E-value=18 Score=33.42 Aligned_cols=65 Identities=11% Similarity=-0.003 Sum_probs=44.4
Q ss_pred hCCCCcEEECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHH---HHccCCEEEEECCCCCccc
Q 042331 286 SNDPTRACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNS---VKDSGGTAHIFSSMHFSGE 354 (378)
Q Consensus 286 ~~~~~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~---v~~~g~~V~ivs~~~~~G~ 354 (378)
++..+..+.|.+.|..|+..|.+.-||+..+.- +..++++.++... ....+..++.+.+..+.|.
T Consensus 106 ArRAGklVsG~~~V~~alk~gk~~Lvi~A~DaS----~~t~kKl~~~~~~~~~~~~~~Vp~v~~~tk~eLg~ 173 (220)
T PRK09190 106 ARKAGQVVSGFEKVDAALRSGEAAALIHASDGA----ADGKRKLDQARRALVHETGREIPVIGLFTAAELGL 173 (220)
T ss_pred HhhhCCEeecHHHHHHHHHcCCceEEEEeccCC----hhHHHHHHHHHHhhcccccCCccEEEecCHHHHHH
Confidence 344599999999999999999999999998874 2346666554432 1225555655555444443
No 28
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=78.26 E-value=16 Score=34.42 Aligned_cols=74 Identities=18% Similarity=0.196 Sum_probs=56.8
Q ss_pred CCCcEEECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCccccccc-CccEEEEe
Q 042331 288 DPTRACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQLGQ-LTGVAAIL 366 (378)
Q Consensus 288 ~~~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L~~-lgGIaAiL 366 (378)
.|-...+|.++|.++++.|.+.-++|..+.- ..+.+.-|...++.+|.-..++.+..+.|.-+-. -..++||.
T Consensus 129 kp~~LvsG~n~VtkaIekkKAkLVIIA~DVs------Pie~vk~LpaLCrk~~VPY~iVktKaeLG~AIGkKtravVAIt 202 (263)
T PTZ00222 129 APLAVVTGLQEVTRAIEKKQARMVVIANNVD------PVELVLWMPNLCRANKIPYAIVKDMARLGDAIGRKTATCVAIT 202 (263)
T ss_pred CCCeeccCHHHHHHHHHcCCceEEEEeCCCC------HHHHHHHHHHHHHhcCCCEEEECCHHHHHHHHCCCCCeEEEEe
Confidence 3455889999999999999999999999873 1222233788899999999999998887776643 34566666
Q ss_pred e
Q 042331 367 R 367 (378)
Q Consensus 367 R 367 (378)
-
T Consensus 203 D 203 (263)
T PTZ00222 203 D 203 (263)
T ss_pred e
Confidence 3
No 29
>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]
Probab=75.69 E-value=24 Score=28.18 Aligned_cols=70 Identities=17% Similarity=0.169 Sum_probs=49.6
Q ss_pred CCcEEECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCc-ccccccCccEEEE
Q 042331 289 PTRACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFS-GEQLGQLTGVAAI 365 (378)
Q Consensus 289 ~~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~-G~~L~~lgGIaAi 365 (378)
.|++..|.+.+.+++.+|..+-++|..+. |..+++ +|-.-|+=.+..|++++..+.. |.-.-..=.|+|+
T Consensus 17 TGkvilG~k~tiK~lk~gkaKliiiAsN~-----P~~~k~--~ieyYAkLs~ipV~~y~Gt~~eLG~~cgkpf~v~~l 87 (100)
T COG1911 17 TGKVILGSKRTIKSLKLGKAKLIIIASNC-----PKELKE--DIEYYAKLSDIPVYVYEGTSVELGTVCGKPFRVAAL 87 (100)
T ss_pred cCCEEEehHHHHHHHHcCCCcEEEEecCC-----CHHHHH--HHHHHHHHcCCcEEEecCCceeHHhhhCCCceEEEE
Confidence 58999999999999999999999999875 343332 2445566679999999977642 3322233345554
No 30
>PTZ00365 60S ribosomal protein L7Ae-like; Provisional
Probab=68.40 E-value=20 Score=33.92 Aligned_cols=74 Identities=22% Similarity=0.156 Sum_probs=56.0
Q ss_pred CCCCcEEECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHH-HHHHHHccCCEEEEECCCCCccccccc-CccEEE
Q 042331 287 NDPTRACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVD-LVNSVKDSGGTAHIFSSMHFSGEQLGQ-LTGVAA 364 (378)
Q Consensus 287 ~~~~~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~-lve~v~~~g~~V~ivs~~~~~G~~L~~-lgGIaA 364 (378)
+.|-.+.||+.+|.++++.|.+.-++|..+.- +.+ ... |...++.+|....++.+..+.|.-+-. --.+.|
T Consensus 128 kkp~~vk~Gin~VtklIekkKAkLVIIA~DVs----P~t---~kk~LP~LC~k~~VPY~iv~sK~eLG~AIGkktraVVA 200 (266)
T PTZ00365 128 KKPFMLKYGLNHVTDLVEYKKAKLVVIAHDVD----PIE---LVCFLPALCRKKEVPYCIIKGKSRLGKLVHQKTAAVVA 200 (266)
T ss_pred CCchHHHhhhHHHHHHHHhCCccEEEEeCCCC----HHH---HHHHHHHHHhccCCCEEEECCHHHHHHHhCCCCceEEE
Confidence 45556889999999999999999999998873 222 233 568899999999999998776665432 335666
Q ss_pred Eee
Q 042331 365 ILR 367 (378)
Q Consensus 365 iLR 367 (378)
|.-
T Consensus 201 Itd 203 (266)
T PTZ00365 201 IDN 203 (266)
T ss_pred ecc
Confidence 664
No 31
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=67.51 E-value=13 Score=31.87 Aligned_cols=51 Identities=4% Similarity=0.083 Sum_probs=35.2
Q ss_pred cEEECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEEC
Q 042331 291 RACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFS 347 (378)
Q Consensus 291 ~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs 347 (378)
......++....+..+.|+.++|+.+.. ..+.+.++++.+++.|.+|.++|
T Consensus 125 ~~lg~~~~l~~~~~~~~id~v~ial~~~------~~~~i~~ii~~~~~~~v~v~~vP 175 (175)
T PF13727_consen 125 PVLGDLDDLPELVREHDIDEVIIALPWS------EEEQIKRIIEELENHGVRVRVVP 175 (175)
T ss_dssp EEE--GGGHHHHHHHHT--EEEE--TTS-------HHHHHHHHHHHHTTT-EEEE--
T ss_pred eeEcCHHHHHHHHHhCCCCEEEEEcCcc------CHHHHHHHHHHHHhCCCEEEEeC
Confidence 4444579999999999999999997763 24567789999999999999986
No 32
>COG0566 SpoU rRNA methylases [Translation, ribosomal structure and biogenesis]
Probab=61.20 E-value=43 Score=31.71 Aligned_cols=71 Identities=15% Similarity=0.200 Sum_probs=56.6
Q ss_pred CcEEECHHHHHHHHHcc-CccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCccccc---ccCccEEEE
Q 042331 290 TRACYGPKHVEVAHERM-AVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQL---GQLTGVAAI 365 (378)
Q Consensus 290 ~~a~yG~~~V~~A~e~G-AV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L---~~lgGIaAi 365 (378)
....||...|..|++.| .+..++++.+.. ....++...+...|..++.+|...-. ++ ....||+|.
T Consensus 21 ~~~~~G~~~v~~al~~~~~i~~i~~~~~~~--------~~~~~~~~~~~~~~~~~~~v~~~~l~--~~~~~~~hqGi~a~ 90 (260)
T COG0566 21 EFLIEGEHAVLEALASGPKIVRILVTEGRL--------PRFEELLALAAAKGIPVYVVSEAILD--KLSGTENHQGIVAV 90 (260)
T ss_pred cEEEeeHHHHHHHHhcCCCceEEEEecccc--------hhHHHHHHHHHhcCCeEEEECHHHHH--HHhCCCCCCeEEEE
Confidence 48899999999999999 999999998874 34667888999999999999865421 22 357899998
Q ss_pred eecCC
Q 042331 366 LRFPL 370 (378)
Q Consensus 366 LRy~i 370 (378)
..-+-
T Consensus 91 ~~~~~ 95 (260)
T COG0566 91 VKKRR 95 (260)
T ss_pred Eeccc
Confidence 85443
No 33
>TIGR00186 rRNA_methyl_3 rRNA methylase, putative, group 3. this is part of the trmH (spoU) family of rRNA methylases
Probab=56.94 E-value=27 Score=32.49 Aligned_cols=68 Identities=25% Similarity=0.285 Sum_probs=47.3
Q ss_pred cEEECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCccccc---ccCccEEEEee
Q 042331 291 RACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQL---GQLTGVAAILR 367 (378)
Q Consensus 291 ~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L---~~lgGIaAiLR 367 (378)
..+||...|.+|++.| ..+++...+. . .+..++...+++.+..++.++..- =.+| ....||+|..+
T Consensus 2 ~~i~G~~~v~eal~~~--~~~~~~~~~~-~------~~~~~~~~~~~~~~~~~~~v~~~~--l~~l~~~~~~qGv~a~~~ 70 (237)
T TIGR00186 2 EYLYGKNAVLEALLNQ--QRVFILKGLE-S------KRLKKLIQLAKKQGINIQLVDRQK--LDQLTKGGNHQGIAAKVK 70 (237)
T ss_pred cEEEehHHHHHHHhCC--CEEEEEecCc-c------hHHHHHHHHHHHcCCcEEEeCHHH--HHHHhCCCCCCeEEEEEe
Confidence 3579999999999998 6777765542 1 123347777888899999987531 1122 23679999998
Q ss_pred cC
Q 042331 368 FP 369 (378)
Q Consensus 368 y~ 369 (378)
.+
T Consensus 71 ~~ 72 (237)
T TIGR00186 71 PI 72 (237)
T ss_pred cC
Confidence 54
No 34
>PRK10864 putative methyltransferase; Provisional
Probab=56.65 E-value=30 Score=34.26 Aligned_cols=70 Identities=9% Similarity=0.170 Sum_probs=50.6
Q ss_pred CcEEECHHHHHHHHHc--cCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCccccc---ccCccEEE
Q 042331 290 TRACYGPKHVEVAHER--MAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQL---GQLTGVAA 364 (378)
Q Consensus 290 ~~a~yG~~~V~~A~e~--GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L---~~lgGIaA 364 (378)
...+||...|.+|++. ..|..|++..+.. .++.+++..+...+..+.+++..- =.+| ....||+|
T Consensus 108 ~~~I~G~~aV~ealk~~~~~i~~l~~~~~~~--------~~~~~il~~~~~~~~~v~~V~~~~--l~kls~~~~hqGV~A 177 (346)
T PRK10864 108 ETRVYGENACQALFQSRPEAIVRAWFIQSVT--------PRFKEALRWMAANRKAYHVVDEAE--LTKASGTEHHGGVCF 177 (346)
T ss_pred CcEEEEHHHHHHHHhCCCCceeEEEEecCcc--------HHHHHHHHHHHHcCCcEEEeCHHH--HHHHhCCCCCCeEEE
Confidence 4678999999999986 5789999987731 135567777777788888887542 1223 45799999
Q ss_pred EeecC
Q 042331 365 ILRFP 369 (378)
Q Consensus 365 iLRy~ 369 (378)
+.+-+
T Consensus 178 ~v~~~ 182 (346)
T PRK10864 178 LIKKR 182 (346)
T ss_pred EEeCC
Confidence 99744
No 35
>PRK11181 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional
Probab=54.10 E-value=41 Score=31.43 Aligned_cols=68 Identities=16% Similarity=0.235 Sum_probs=48.6
Q ss_pred cEEECHHHHHHHHHc--cCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCccccc---ccCccEEEE
Q 042331 291 RACYGPKHVEVAHER--MAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQL---GQLTGVAAI 365 (378)
Q Consensus 291 ~a~yG~~~V~~A~e~--GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L---~~lgGIaAi 365 (378)
...||...|.+|++. -.+.+|+++.+... +++.+++..+++.|.+++.++..- =.+| ....||+|+
T Consensus 3 ~~i~G~~~v~eal~~~~~~~~~l~~~~~~~~-------~~~~~~~~~~~~~~i~~~~v~~~~--l~~ls~~~~~qGv~a~ 73 (244)
T PRK11181 3 EIIYGIHAVQALLERAPERFIEVFVLKGRED-------KRLLPLINELEAQGIVIQLANRQT--LDEKAEGAVHQGIIAR 73 (244)
T ss_pred cEEEehHHHHHHHhCCCCceeEEEEECCCcc-------hHHHHHHHHHHHcCCcEEEeCHHH--HhhhhcCCCCceEEEE
Confidence 367999999999975 37889999866411 134556777888899999887532 1122 457899999
Q ss_pred ee
Q 042331 366 LR 367 (378)
Q Consensus 366 LR 367 (378)
.+
T Consensus 74 ~~ 75 (244)
T PRK11181 74 VK 75 (244)
T ss_pred Ee
Confidence 86
No 36
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=51.29 E-value=36 Score=33.94 Aligned_cols=60 Identities=22% Similarity=0.293 Sum_probs=46.2
Q ss_pred HHHHHHHHccCccEEEEecCccccchhH--hHHHHHHHHHHHHccCCEEEEECCCCCccccc
Q 042331 297 KHVEVAHERMAVQTLLITDDLFRNFEIA--TRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQL 356 (378)
Q Consensus 297 ~~V~~A~e~GAV~tLLI~d~l~r~~d~~--~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L 356 (378)
+++.+.+..-+|+-+||.=++|-...|. ....+.+.+......|..|++++.+|++-.++
T Consensus 30 ~~~l~~a~~~~vD~vliAGDlFd~~~Ps~~a~~~~~~~l~~l~~~~Ipv~~I~GNHD~~~~~ 91 (390)
T COG0420 30 DELLEIAKEEKVDFVLIAGDLFDTNNPSPRALKLFLEALRRLKDAGIPVVVIAGNHDSPSRL 91 (390)
T ss_pred HHHHHHHHHccCCEEEEccccccCCCCCHHHHHHHHHHHHHhccCCCcEEEecCCCCchhcc
Confidence 4455566666779999999999766544 34567778888888899999999999986654
No 37
>COG1212 KdsB CMP-2-keto-3-deoxyoctulosonic acid synthetase [Cell envelope biogenesis, outer membrane]
Probab=50.62 E-value=32 Score=32.02 Aligned_cols=43 Identities=33% Similarity=0.357 Sum_probs=32.2
Q ss_pred HHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCcccc
Q 042331 300 EVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQ 355 (378)
Q Consensus 300 ~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~ 355 (378)
.+|++.|+=.+.+-+|+ .++.+.++++|+++++=|++|++|.-
T Consensus 36 e~a~~s~~~rvvVATDd-------------e~I~~av~~~G~~avmT~~~h~SGTd 78 (247)
T COG1212 36 ERALKSGADRVVVATDD-------------ERIAEAVQAFGGEAVMTSKDHQSGTD 78 (247)
T ss_pred HHHHHcCCCeEEEEcCC-------------HHHHHHHHHhCCEEEecCCCCCCccH
Confidence 34566666556666665 34677889999999999999999963
No 38
>PRK10124 putative UDP-glucose lipid carrier transferase; Provisional
Probab=48.37 E-value=55 Score=33.68 Aligned_cols=69 Identities=12% Similarity=0.220 Sum_probs=52.9
Q ss_pred ECH-HHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCc---ccccccCccEEEEeec
Q 042331 294 YGP-KHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFS---GEQLGQLTGVAAILRF 368 (378)
Q Consensus 294 yG~-~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~---G~~L~~lgGIaAiLRy 368 (378)
+|. +++.+.++...|+.++|+-.... ++++.++++.+++.|.+|.++|+..+. ...+..+||+-.+-=.
T Consensus 189 lG~~~dL~~~v~~~~IdeViIAip~~~------~~~l~ell~~~~~~~v~V~ivP~l~~~~~~~~~~~~~~~~p~~~~~ 261 (463)
T PRK10124 189 AGNLQQLVEDAKAGKIHNVYIAMSMCD------GARVKKLVRQLADTTCSVLLIPDVFTFNILHSRLEEMNGVPVVPLY 261 (463)
T ss_pred CCCHHHHHHHHHhCCCCEEEEeCCCcc------hHHHHHHHHHHHHcCCeEEEecchhhccccccchhhcCCeeEEEEe
Confidence 555 77888999999999999976542 346677999999999999999987532 2346778888766443
No 39
>TIGR01175 pilM type IV pilus assembly protein PilM. This protein is required for the assembly of the type IV fimbria in Pseudomonas aeruginosa responsible for twitching motility, and for a similar pilus-like structure in Synechocystis. It is also found in species such as Deinococcus described as having natural transformation (for which a type IV pilus-like structure is proposed) but not fimbria.
Probab=48.12 E-value=2.1e+02 Score=27.66 Aligned_cols=89 Identities=12% Similarity=0.134 Sum_probs=55.1
Q ss_pred EEEEEEECCeeEEEEEecceEEEEEEEEee-------------cCC------CCCCchh--hhHHHHHHHHHHHHHHHHh
Q 042331 137 LAVVLMQEGLANIFLVGRSMTITRSRIETS-------------IPR------KHGPAVA--RYESALNKFFDSVLHAFLK 195 (378)
Q Consensus 137 ~~~vvvd~g~A~i~~l~~~~~~~~~~i~~~-------------ip~------K~~~g~s--~~e~~~~~f~~~v~~~l~~ 195 (378)
+++|-+..+...++++.+........+... +|- |...|.. .....++.++++++..+.+
T Consensus 190 ~~lvdiG~~~t~l~i~~~g~~~~~r~i~~G~~~i~~~i~~~~~~~~~~Ae~~k~~~~~~~~~~~~~~~~~~~~l~~eI~~ 269 (348)
T TIGR01175 190 AALVDIGATSSTLNLLHPGRMLFTREVPFGTRQLTSELSRAYGLNPEEAGEAKQQGGLPLLYDPEVLRRFKGELVDEIRR 269 (348)
T ss_pred EEEEEECCCcEEEEEEECCeEEEEEEeechHHHHHHHHHHHcCCCHHHHHHHHhcCCCCCchhHHHHHHHHHHHHHHHHH
Confidence 778888888999999988877777666531 110 0000100 0112334555555544444
Q ss_pred ccc-------ccCccEEEEECCccCHHHHHHHHHHHH
Q 042331 196 HVD-------FNVVRCAVIASPGFTKDQFHRYLLLEA 225 (378)
Q Consensus 196 ~~~-------~~~~~~iiIaGpg~~k~~f~~~l~~~~ 225 (378)
.++ ...+..|+|+|-|..-..|.+++.+.+
T Consensus 270 ~l~~~~~~~~~~~i~~I~LtGgga~~~gl~~~l~~~l 306 (348)
T TIGR01175 270 SLQFFTAQSGTNSLDGLVLAGGGATLSGLDAAIYQRL 306 (348)
T ss_pred HHHhhcCCCCCcccceEEEECccccchhHHHHHHHHH
Confidence 432 235889999998888888888888876
No 40
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=47.00 E-value=65 Score=25.28 Aligned_cols=46 Identities=30% Similarity=0.374 Sum_probs=23.9
Q ss_pred EEEEecCccccchhHhHHHHHH-HHHHHHccCCEEEEECCCCCcccccccCccEEEEeecCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVD-LVNSVKDSGGTAHIFSSMHFSGEQLGQLTGVAAILRFPLP 371 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~-lve~v~~~g~~V~ivs~~~~~G~~L~~lgGIaAiLRy~i~ 371 (378)
+||.--+|--..|+. .+-. |-..+.+.||+|.-|+.. -|+|||+=+
T Consensus 3 s~L~V~NLP~~~d~~---~I~~RL~qLsdNCGGkVl~v~~~-------------tAilrF~~~ 49 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPS---SIKNRLRQLSDNCGGKVLSVSGG-------------TAILRFPNQ 49 (90)
T ss_dssp EEEEEES--TTS-HH---HHHHHHHHHHHTTT--EEE--TT--------------EEEEESSH
T ss_pred cEEEEecCCCCCCHH---HHHHHHHHHhhccCCEEEEEeCC-------------EEEEEeCCH
Confidence 455555664433332 2222 667789999999877643 488999754
No 41
>COG1105 FruK Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]
Probab=42.42 E-value=3.4e+02 Score=26.54 Aligned_cols=106 Identities=18% Similarity=0.214 Sum_probs=55.7
Q ss_pred HHHHHHHHHHHHHHHHhcccccCccEEEEEC--CccCHHHHHHHHHHHHhhcccchhhccCCcEEEEEcCCCccchHHHH
Q 042331 179 ESALNKFFDSVLHAFLKHVDFNVVRCAVIAS--PGFTKDQFHRYLLLEAERTQLRPIIANKSRIVIVHTSSGYKHSLREV 256 (378)
Q Consensus 179 e~~~~~f~~~v~~~l~~~~~~~~~~~iiIaG--pg~~k~~f~~~l~~~~~~~~~~~~~~~~~ki~~~~~s~~~~~gl~Ev 256 (378)
+...+.|.+.+...+.+ .+.|+|+| |.-...++|.-|.+.+++ .+..+++++|. ..+.++
T Consensus 113 ~~~~~~~l~~~~~~l~~------~d~VvlsGSlP~g~~~d~y~~li~~~~~---------~g~~vilD~Sg---~~L~~~ 174 (310)
T COG1105 113 EAELEQFLEQLKALLES------DDIVVLSGSLPPGVPPDAYAELIRILRQ---------QGAKVILDTSG---EALLAA 174 (310)
T ss_pred HHHHHHHHHHHHHhccc------CCEEEEeCCCCCCCCHHHHHHHHHHHHh---------cCCeEEEECCh---HHHHHH
Confidence 44566666654443333 44699999 555555666655555544 24556788765 455666
Q ss_pred HHhhhHHHHHHHHHHHHHHHHHHHHHHHhhCCCCcEEECHHHHHHHHH---ccCccEEEEecC
Q 042331 257 LDASNVMNLIKETKAAQEVKVLKEFFNMLSNDPTRACYGPKHVEVAHE---RMAVQTLLITDD 316 (378)
Q Consensus 257 l~~~~v~~~l~~~~~~~e~~~l~~f~~~l~~~~~~a~yG~~~V~~A~e---~GAV~tLLI~d~ 316 (378)
|+.+ -.+++-.. +||-..+.+.. -..+++.+|+. ..-++.++||..
T Consensus 175 L~~~--P~lIKPN~--------~EL~~~~g~~~----~~~~d~i~~a~~l~~~g~~~ViVSlG 223 (310)
T COG1105 175 LEAK--PWLIKPNR--------EELEALFGREL----TTLEDVIKAARELLAEGIENVIVSLG 223 (310)
T ss_pred HccC--CcEEecCH--------HHHHHHhCCCC----CChHHHHHHHHHHHHCCCCEEEEEec
Confidence 6654 23333332 23333333321 12234444433 355777777754
No 42
>PRK05082 N-acetylmannosamine kinase; Provisional
Probab=41.07 E-value=67 Score=30.44 Aligned_cols=47 Identities=6% Similarity=0.051 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHHHhcccccCccEEEEECCccCHHHHHHHHHHHHhh
Q 042331 181 ALNKFFDSVLHAFLKHVDFNVVRCAVIASPGFTKDQFHRYLLLEAER 227 (378)
Q Consensus 181 ~~~~f~~~v~~~l~~~~~~~~~~~iiIaGpg~~k~~f~~~l~~~~~~ 227 (378)
.+++|.+.++..+.......+++.|||+|+....+.|++.+.+.+.+
T Consensus 213 ~~~~~~~~la~~l~~l~~~~dpe~IvlgG~~~~~~~~~~~i~~~l~~ 259 (291)
T PRK05082 213 LINRSAQAIARLIADLKATLDCQCVVLGGSVGLAEGYLELVQAYLAQ 259 (291)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCEEEEcCccccHHHHHHHHHHHHHh
Confidence 44566666777777666677899999999987777787777666654
No 43
>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=39.82 E-value=82 Score=28.04 Aligned_cols=55 Identities=15% Similarity=0.178 Sum_probs=39.5
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCcccccccCccEEEEee
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQLGQLTGVAAILR 367 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L~~lgGIaAiLR 367 (378)
.+||.|+-..+-|+..++.+.+++....+.|..+.+++.+.. .+...|+=+..|-
T Consensus 145 ~llllDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~sH~~~---~~~~~~~~~~~~~ 199 (201)
T cd03231 145 PLWILDEPTTALDKAGVARFAEAMAGHCARGGMVVLTTHQDL---GLSEAGARELDLG 199 (201)
T ss_pred CEEEEeCCCCCCCHHHHHHHHHHHHHHHhCCCEEEEEecCch---hhhhccceeEecc
Confidence 588999999888999999998877665566888888886543 2444555554443
No 44
>PRK13538 cytochrome c biogenesis protein CcmA; Provisional
Probab=39.68 E-value=60 Score=28.99 Aligned_cols=44 Identities=16% Similarity=0.277 Sum_probs=35.3
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCc
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFS 352 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~ 352 (378)
-.+|+.|+-+.+-|+..++.+.+++....+.|..+.++|.+.+.
T Consensus 148 p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~ 191 (204)
T PRK13538 148 APLWILDEPFTAIDKQGVARLEALLAQHAEQGGMVILTTHQDLP 191 (204)
T ss_pred CCEEEEeCCCccCCHHHHHHHHHHHHHHHHCCCEEEEEecChhh
Confidence 36888899999889999999999777666668888888876543
No 45
>TIGR03025 EPS_sugtrans exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase. Certain closely related transferase enzymes such as Sinorhizobium ExoY and Lactococcus EpsD lack the N-terminal domain and are not found by this model.
Probab=39.52 E-value=97 Score=31.46 Aligned_cols=67 Identities=15% Similarity=0.225 Sum_probs=50.3
Q ss_pred EEC-HHHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCc---ccccccCccEEEE
Q 042331 293 CYG-PKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFS---GEQLGQLTGVAAI 365 (378)
Q Consensus 293 ~yG-~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~---G~~L~~lgGIaAi 365 (378)
++| .++..+.++...|+.++|+..... +++..++++.+++.|.+|.++|+..+. +..+..++|+-.+
T Consensus 173 Vlg~~~~l~~~i~~~~id~ViIa~p~~~------~~~~~~ll~~~~~~gv~V~~vP~~~e~~~~~~~~~~i~~v~~l 243 (445)
T TIGR03025 173 VLGKLDDLVELVRAHRVDEVIIALPLSE------EARILELLLQLRDLGVDVRLVPDLFEFLLGRLRIEELGGVPLL 243 (445)
T ss_pred ccCCHHHHHHHHHhCCCCEEEEecCccc------HHHHHHHHHHHHhcCCEEEEeCchhhhccCCcceEEECCEEEE
Confidence 454 477888888899999999866432 345677999999999999999987653 2336678887643
No 46
>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=38.82 E-value=61 Score=28.47 Aligned_cols=42 Identities=17% Similarity=0.257 Sum_probs=34.4
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMH 350 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~ 350 (378)
-.|||.|+-+.+-|+..++.+.+++....+.|..|.+++.+.
T Consensus 146 p~llllDEPt~~LD~~~~~~~~~~l~~~~~~~~tili~sH~~ 187 (190)
T TIGR01166 146 PDVLLLDEPTAGLDPAGREQMLAILRRLRAEGMTVVISTHDV 187 (190)
T ss_pred CCEEEEcCCcccCCHHHHHHHHHHHHHHHHcCCEEEEEeecc
Confidence 369999999998899999999997777766788888888553
No 47
>smart00536 AXH domain in Ataxins and HMG containing proteins. unknown function
Probab=38.50 E-value=1.1e+02 Score=25.41 Aligned_cols=77 Identities=22% Similarity=0.329 Sum_probs=48.4
Q ss_pred ceEEEecCCh--hhHHHHHHhhcCCCeEEEEEEEeEeeccCCCCcceeEEEEEEEEEEEEeeccCCCCeEEEEEEEeecc
Q 042331 14 GSVKMIPVDS--DDLWFAYNLVNAGDSVLAVTVRKVVRQTKSGGKDAERVKLKLEIKVEALDYDKEGSALRISGKNILEN 91 (378)
Q Consensus 14 g~v~l~~e~~--dDlw~Lynli~~gD~V~~~t~Rkv~~~~~~g~~~~~r~~~~L~i~Ve~i~~~~~~~~Lri~G~i~~~~ 91 (378)
|..+ ..|+. ||+-.- -..+++-.+.+.|..++..+ +. . .+-.+.|++....
T Consensus 13 G~~k-rvEDl~teDfi~s-a~~s~~~~l~~stv~~i~~~---~~--~---------~~v~itF~~g~~~----------- 65 (116)
T smart00536 13 GSNK-KVEDLKTEDFIRS-AECSNDEEIQMSTVKRIGSS---GL--P---------SVVTLTFDPGVED----------- 65 (116)
T ss_pred CCee-eeeccchhhhHhh-hccCCcccccceeEEEeCCC---CC--c---------ceEEEEEEecCcc-----------
Confidence 4443 66777 888766 66667777888888888642 21 0 1114445442221
Q ss_pred cccccccEEEEEEccCCcEEEEeccCChhhHH
Q 042331 92 EHVKIGAFHSLEIELHRPFVLTKDVWDSVALD 123 (378)
Q Consensus 92 ~~v~~G~~ht~~l~~~~~v~i~k~~wd~~~l~ 123 (378)
+--|+++.+..||=++-..|.++.=+
T Consensus 66 ------~~v~~ev~~eHPfFV~gqGWsSc~P~ 91 (116)
T smart00536 66 ------ALLTVECQVEHPFFVKGKGWSSCYPS 91 (116)
T ss_pred ------ceEEEEEecCCCeEEcCccccccChh
Confidence 23467888999999988899876533
No 48
>cd00338 Ser_Recombinase Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are protei
Probab=37.15 E-value=96 Score=25.33 Aligned_cols=48 Identities=13% Similarity=0.155 Sum_probs=36.0
Q ss_pred CHHHHHHHHHccCccEEEEecCc--cccchhHhHHHHHHHHHHHHccCCEEEEEC
Q 042331 295 GPKHVEVAHERMAVQTLLITDDL--FRNFEIATRKKYVDLVNSVKDSGGTAHIFS 347 (378)
Q Consensus 295 G~~~V~~A~e~GAV~tLLI~d~l--~r~~d~~~r~~~~~lve~v~~~g~~V~ivs 347 (378)
|+...+.+++.|.+++|+|.+-- .|.. ..+..+++.....|..+++++
T Consensus 53 ~~~~ll~~~~~~~~d~ivv~~~~Rl~R~~-----~~~~~~~~~l~~~gi~l~~~~ 102 (137)
T cd00338 53 GLQRLLADVKAGKIDVVLVEKLDRLSRNL-----VDLLELLELLEAHGVRVVTAD 102 (137)
T ss_pred HHHHHHHHHHcCCCCEEEEEecchhhCCH-----HHHHHHHHHHHHCCCEEEEec
Confidence 56777778888999999998653 4432 145568888889999998877
No 49
>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]
Probab=37.10 E-value=84 Score=29.75 Aligned_cols=56 Identities=23% Similarity=0.395 Sum_probs=42.2
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCcccccccCccEEEEee
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQLGQLTGVAAILR 367 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L~~lgGIaAiLR 367 (378)
.||+.||-+.+-|+..+..+.+|+...++.|..|.+|+. +.+.-...+.-|..|=|
T Consensus 159 ~lllLDEP~~gvD~~~~~~i~~lL~~l~~eg~tIl~vtH--DL~~v~~~~D~vi~Ln~ 214 (254)
T COG1121 159 DLLLLDEPFTGVDVAGQKEIYDLLKELRQEGKTVLMVTH--DLGLVMAYFDRVICLNR 214 (254)
T ss_pred CEEEecCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeC--CcHHhHhhCCEEEEEcC
Confidence 589999999999999999999988888888888999884 44443344444554433
No 50
>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=35.35 E-value=79 Score=27.22 Aligned_cols=42 Identities=17% Similarity=0.190 Sum_probs=34.4
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+..-|+..++.+.+++....+.|..+.+++.+.+
T Consensus 102 ~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~ 143 (163)
T cd03216 102 RLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLD 143 (163)
T ss_pred CEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence 688889999888999999999977766666888888886654
No 51
>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c
Probab=34.89 E-value=1.3e+02 Score=27.16 Aligned_cols=53 Identities=15% Similarity=0.176 Sum_probs=38.2
Q ss_pred cEEEEecCccccchhHhHHHH-HHHHHHHHccCCEEEEECCCCCcccccccCcc
Q 042331 309 QTLLITDDLFRNFEIATRKKY-VDLVNSVKDSGGTAHIFSSMHFSGEQLGQLTG 361 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~-~~lve~v~~~g~~V~ivs~~~~~G~~L~~lgG 361 (378)
..|++.||..++-++..+..+ ..+++...+.|..+.+.+..++.-+.+...-+
T Consensus 109 ~~lvllDE~~~gt~~~~~~~l~~~il~~l~~~~~~~i~~TH~~~l~~~~~~~~~ 162 (204)
T cd03282 109 DSLVLIDELGRGTSSADGFAISLAILECLIKKESTVFFATHFRDIAAILGNKSC 162 (204)
T ss_pred CcEEEeccccCCCCHHHHHHHHHHHHHHHHhcCCEEEEECChHHHHHHhhcCCC
Confidence 579999999988777666554 44788888888888888877765555544333
No 52
>TIGR03022 WbaP_sugtrans Undecaprenyl-phosphate galactose phosphotransferase, WbaP. This model includes the enterobacterial enzymes, where the function is presumed to be identical to the S. typhimurium enzyme as well as a somewhat broader group which are likely to catalyze the same or highly similar reactions based on a phylogenetic tree-building analysis of the broader sugar transferase family. Most of these genes are found within large operons dedicated to the production of complex exopolysaccharides such as the enterobacterial O-antigen. The most likely heterogeneity would be in the precise nature of the sugar molecule transferred.
Probab=34.85 E-value=1.4e+02 Score=30.36 Aligned_cols=69 Identities=12% Similarity=0.009 Sum_probs=49.6
Q ss_pred cEEECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCC-EEEEECCCCCcc---cccccCccEEEE
Q 042331 291 RACYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGG-TAHIFSSMHFSG---EQLGQLTGVAAI 365 (378)
Q Consensus 291 ~a~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~-~V~ivs~~~~~G---~~L~~lgGIaAi 365 (378)
.-++|.++..+.++...++.++|+..... .....++++.+++.|. .|.++|+..+.. .+...+||+..+
T Consensus 172 ~pVlg~~~l~~~i~~~~id~ViIAip~~~------~~~~~~ll~~l~~~~v~~V~~vP~~~e~~~~~~~~~~~~~~~~~ 244 (456)
T TIGR03022 172 LPVVGADDALRLYARTRYAYVIVAMPGTQ------AEDMARLVRKLGALHFRNVLIVPSLFGLPNLWISPRFIGGVLGL 244 (456)
T ss_pred CcccChhHHHHHHHhCCCCEEEEecCCcc------HHHHHHHHHHHHhCCCeEEEEeCcccccccccceeeeeCCeeEE
Confidence 34667777888888888999999876432 2345668888899999 999999876532 234557777654
No 53
>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid
Probab=34.16 E-value=1.4e+02 Score=26.78 Aligned_cols=56 Identities=14% Similarity=0.160 Sum_probs=41.9
Q ss_pred ccEEEEecCccccchhHhHHHHH-HHHHHHHccCCEEEEECCCCCcccccccCccEE
Q 042331 308 VQTLLITDDLFRNFEIATRKKYV-DLVNSVKDSGGTAHIFSSMHFSGEQLGQLTGVA 363 (378)
Q Consensus 308 V~tLLI~d~l~r~~d~~~r~~~~-~lve~v~~~g~~V~ivs~~~~~G~~L~~lgGIa 363 (378)
=..|++.|+.+.+-|+..+..+. .+++...+.|..+.+++.+++.-..+...-.|.
T Consensus 105 ~p~llllDEp~~glD~~~~~~l~~~ll~~l~~~~~tiiivTH~~~~~~~~~~~~~v~ 161 (199)
T cd03283 105 EPVLFLLDEIFKGTNSRERQAASAAVLKFLKNKNTIGIISTHDLELADLLDLDSAVR 161 (199)
T ss_pred CCeEEEEecccCCCCHHHHHHHHHHHHHHHHHCCCEEEEEcCcHHHHHhhhcCCCeE
Confidence 45799999999988888887664 477777777888999998877666665444443
No 54
>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters. PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=33.60 E-value=83 Score=27.83 Aligned_cols=42 Identities=14% Similarity=0.170 Sum_probs=34.3
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+..-|+..+..+.+++....+.|..+.+++.+.+
T Consensus 128 ~vlllDEP~~~LD~~~~~~l~~~l~~~~~~~~tiiivtH~~~ 169 (192)
T cd03232 128 SILFLDEPTSGLDSQAAYNIVRFLKKLADSGQAILCTIHQPS 169 (192)
T ss_pred cEEEEeCCCcCCCHHHHHHHHHHHHHHHHcCCEEEEEEcCCh
Confidence 688889998888999999999977776667888888886643
No 55
>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=32.61 E-value=90 Score=27.04 Aligned_cols=42 Identities=12% Similarity=0.264 Sum_probs=33.7
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+..-|+..+..+.+++....+.|..+.+++.+.+
T Consensus 116 ~~lllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~~ 157 (173)
T cd03246 116 RILVLDEPNSHLDVEGERALNQAIAALKAAGATRIVIAHRPE 157 (173)
T ss_pred CEEEEECCccccCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence 578889998888999999999977776666778888886553
No 56
>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA. This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.
Probab=32.48 E-value=92 Score=27.56 Aligned_cols=43 Identities=16% Similarity=0.162 Sum_probs=34.1
Q ss_pred ccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCC
Q 042331 308 VQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMH 350 (378)
Q Consensus 308 V~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~ 350 (378)
=-.+|+.|+-+.+-|+..+..+.+++....+.|..|.+++.++
T Consensus 145 ~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sH~~ 187 (198)
T TIGR01189 145 RAPLWILDEPTTALDKAGVALLAGLLRAHLARGGIVLLTTHQD 187 (198)
T ss_pred CCCEEEEeCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEEEccc
Confidence 3478999999888898889999887766556688888888654
No 57
>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=32.32 E-value=87 Score=28.01 Aligned_cols=42 Identities=19% Similarity=0.286 Sum_probs=34.2
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..++.+.+++....+.|..|.++|.+.+
T Consensus 152 ~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tvi~~sH~~~ 193 (213)
T cd03235 152 DLLLLDEPFAGVDPKTQEDIYELLRELRREGMTILVVTHDLG 193 (213)
T ss_pred CEEEEeCCcccCCHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence 688999998888999999999977666557888888886654
No 58
>PRK13540 cytochrome c biogenesis protein CcmA; Provisional
Probab=32.30 E-value=91 Score=27.70 Aligned_cols=43 Identities=12% Similarity=0.227 Sum_probs=34.9
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCc
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFS 352 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~ 352 (378)
.+||.|+-+.+-|+..++.+.+++....+.|..+.+++.+.+.
T Consensus 147 ~~lilDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~ 189 (200)
T PRK13540 147 KLWLLDEPLVALDELSLLTIITKIQEHRAKGGAVLLTSHQDLP 189 (200)
T ss_pred CEEEEeCCCcccCHHHHHHHHHHHHHHHHcCCEEEEEeCCchh
Confidence 5888999998889999999989777666668888888876554
No 59
>PRK10966 exonuclease subunit SbcD; Provisional
Probab=32.24 E-value=1.2e+02 Score=30.78 Aligned_cols=57 Identities=18% Similarity=0.265 Sum_probs=38.8
Q ss_pred HHHHHccCccEEEEecCccccchhH--hHHHHHHHHHHHHccCCEEEEECCCCCccccc
Q 042331 300 EVAHERMAVQTLLITDDLFRNFEIA--TRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQL 356 (378)
Q Consensus 300 ~~A~e~GAV~tLLI~d~l~r~~d~~--~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L 356 (378)
...+..-.++.|+|+=+++....+. .+..+.+++....+.+..|++|+.+|++..++
T Consensus 32 ~~~i~~~~~D~viIaGDifD~~~p~~~a~~~~~~~l~~L~~~~~~v~~I~GNHD~~~~l 90 (407)
T PRK10966 32 LEQVQEHQVDAIIVAGDIFDTGSPPSYARELYNRFVVNLQQTGCQLVVLAGNHDSVATL 90 (407)
T ss_pred HHHHHhcCCCEEEECCccccCCCCcHHHHHHHHHHHHHHHhcCCcEEEEcCCCCChhhh
Confidence 3344456789999999998654332 22334456666667788999999999976654
No 60
>TIGR03023 WcaJ_sugtrans Undecaprenyl-phosphate glucose phosphotransferase. Colanic acid biosynthesis utilizes a glucose-undecaprenyl carrier, knockout of EpsB abolishes incorporation of UDP-glucose into the lipid phase and the C-terminal portion of GumD has been shown to be responsible for the glucosyl-1-transferase activity.
Probab=32.13 E-value=1.5e+02 Score=30.15 Aligned_cols=67 Identities=13% Similarity=0.235 Sum_probs=50.3
Q ss_pred EEC-HHHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCcc---cccccCccEEEE
Q 042331 293 CYG-PKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSG---EQLGQLTGVAAI 365 (378)
Q Consensus 293 ~yG-~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G---~~L~~lgGIaAi 365 (378)
++| .++..+.++...|+.++|+..... +++..++++.++..|.+|.++|+..+.. .++..++|+-.+
T Consensus 176 Vlg~~~dl~~~i~~~~vd~ViIA~p~~~------~~~~~~ll~~~~~~gv~V~vvP~~~e~~~~~~~i~~l~g~p~l 246 (451)
T TIGR03023 176 VLGKLDDLEELIREGEVDEVYIALPLAA------EDRILELLDALEDLTVDVRLVPDLFDFALLRPRIEEIGGLPVI 246 (451)
T ss_pred ccCCHHHHHHHHHhcCCCEEEEeeCccc------HHHHHHHHHHHHhcCCEEEEeCchhhhccCCCceEEECCEEEE
Confidence 454 577888899999999999976532 3456779999999999999999876532 235667776654
No 61
>PRK13543 cytochrome c biogenesis protein CcmA; Provisional
Probab=31.91 E-value=82 Score=28.36 Aligned_cols=43 Identities=14% Similarity=0.304 Sum_probs=34.6
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCc
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFS 352 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~ 352 (378)
.+|+.|+-+.+-|+..++.+.+++....+.|+.|.+++.+.+.
T Consensus 157 ~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tiii~sH~~~~ 199 (214)
T PRK13543 157 PLWLLDEPYANLDLEGITLVNRMISAHLRGGGAALVTTHGAYA 199 (214)
T ss_pred CEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEecChhh
Confidence 4888899888889999999999777666678888888876543
No 62
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=31.83 E-value=5.2e+02 Score=27.01 Aligned_cols=130 Identities=13% Similarity=0.146 Sum_probs=67.4
Q ss_pred ccCCCCeEEEEEEEeecccccc---cccEEEEEEccCCcEEEEeccCChhhHHHHH-HhhcccCCCcEEEEEEECCeeEE
Q 042331 74 YDKEGSALRISGKNILENEHVK---IGAFHSLEIELHRPFVLTKDVWDSVALDTLH-QASDSAATADLAVVLMQEGLANI 149 (378)
Q Consensus 74 ~~~~~~~Lri~G~i~~~~~~v~---~G~~ht~~l~~~~~v~i~k~~wd~~~l~~L~-~a~~~~~~~~~~~vvvd~g~A~i 149 (378)
|++.+=++|++-=+ ++..+ .|.++-..| ..+.+++..++.+. +.++.....+=.++=|++.+|++
T Consensus 146 Fd~~TMSvHLKeg~---~P~aK~GkpG~~k~v~l--------~d~pl~~~ele~ia~eIi~~a~~~~~sfIEi~r~GatV 214 (604)
T COG1855 146 FDEETMSVHLKEGV---PPMAKKGKPGEWKLVRL--------SDKPLTREELEEIAREIIERAKRDPDSFIEIDRPGATV 214 (604)
T ss_pred cCCcceEEeeccCC---CcccccCCCCcEEEEEc--------CCccCCHHHHHHHHHHHHHHHhhCcCceEEEccCCceE
Confidence 66766677774322 23334 355543332 22234443343332 33322222234799999999999
Q ss_pred EEEecceEEEE-------EEEEeecCCCCCCchhhhHHHHHHH--HHHHHHHHHhcccccCccEEEEECC-ccCHHHHHH
Q 042331 150 FLVGRSMTITR-------SRIETSIPRKHGPAVARYESALNKF--FDSVLHAFLKHVDFNVVRCAVIASP-GFTKDQFHR 219 (378)
Q Consensus 150 ~~l~~~~~~~~-------~~i~~~ip~K~~~g~s~~e~~~~~f--~~~v~~~l~~~~~~~~~~~iiIaGp-g~~k~~f~~ 219 (378)
.-++.+.+.+- .+++..=|-.+. .++.| =.++.+.|.+ ..++|+|||| |.=|..|.+
T Consensus 215 vQlrn~RIvIarPPfSd~~EITavRPvvk~--------~ledY~L~dkl~eRL~e-----raeGILIAG~PGaGKsTFaq 281 (604)
T COG1855 215 VQLRNYRIVIARPPFSDRWEITAVRPVVKL--------SLEDYGLSDKLKERLEE-----RAEGILIAGAPGAGKSTFAQ 281 (604)
T ss_pred EEeccEEEEEecCCCCCceEEEEEeeeEEe--------chhhcCCCHHHHHHHHh-----hhcceEEecCCCCChhHHHH
Confidence 98888876653 233333232110 11100 0112223333 3568888884 677888888
Q ss_pred HHHHHHhh
Q 042331 220 YLLLEAER 227 (378)
Q Consensus 220 ~l~~~~~~ 227 (378)
.|.+...+
T Consensus 282 AlAefy~~ 289 (604)
T COG1855 282 ALAEFYAS 289 (604)
T ss_pred HHHHHHHh
Confidence 77666543
No 63
>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=31.75 E-value=1e+02 Score=26.66 Aligned_cols=42 Identities=24% Similarity=0.375 Sum_probs=33.8
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..++.+.+++....+.|..+.+++.+.+
T Consensus 115 ~illlDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~th~~~ 156 (173)
T cd03230 115 ELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHILE 156 (173)
T ss_pred CEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHH
Confidence 688999998888999999999977766555878888886543
No 64
>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=31.72 E-value=89 Score=28.35 Aligned_cols=43 Identities=14% Similarity=0.284 Sum_probs=35.8
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCc
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFS 352 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~ 352 (378)
.+||.|+-+.+-|+..++.+.+++....+.|..|.+++.+.+.
T Consensus 133 ~llilDEP~~~LD~~~~~~l~~~l~~~~~~~~tvii~sH~~~~ 175 (223)
T TIGR03771 133 SVLLLDEPFTGLDMPTQELLTELFIELAGAGTAILMTTHDLAQ 175 (223)
T ss_pred CEEEEeCCcccCCHHHHHHHHHHHHHHHHcCCEEEEEeCCHHH
Confidence 6899999999989999999999777776678888888876553
No 65
>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed
Probab=31.40 E-value=91 Score=28.53 Aligned_cols=44 Identities=14% Similarity=0.178 Sum_probs=35.7
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCc
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFS 352 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~ 352 (378)
-.+|+.|+-+.+-|+..+..+.+++....+.|..+.+++.+.+.
T Consensus 155 p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sH~~~~ 198 (240)
T PRK09493 155 PKLMLFDEPTSALDPELRHEVLKVMQDLAEEGMTMVIVTHEIGF 198 (240)
T ss_pred CCEEEEcCCcccCCHHHHHHHHHHHHHHHHcCCEEEEEeCCHHH
Confidence 36999999999999999999999777766668888888866543
No 66
>cd07384 MPP_Cdc1_like Saccharomyces cerevisiae CDC1 and related proteins, metallophosphatase domain. Cdc1 (also known as XlCdc1 in Xenopus laevis) is an endoplasmic reticulum-localized transmembrane lipid phosphatase with a metallophosphatase domain facing the ER lumen. In budding yeast, the gene encoding CDC1 is essential while nonlethal mutations cause defects in Golgi inheritance and actin polarization. Cdc1 mutant cells accumulate an unidentified phospholipid, suggesting that Cdc1 is a lipid phosphatase. Cdc1 mutant cells also have highly elevated intracellular calcium levels suggesting a possible role for Cdc1 in calcium regulation. The 5' flanking region of Cdc1 is a regulatory region with conserved binding site motifs for AP1, AP2, Sp1, NF-1 and CREB. DNA polymerase delta consists of at least four subunits - Pol3, Cdc1, Cdc27, and Cdm1. This group also contains Saccharomyces cerevisiae TED1 (Trafficking of Emp24p/Erv25p-dependent cargo disrupted 1), which acts together wit
Probab=31.40 E-value=1.4e+02 Score=26.03 Aligned_cols=56 Identities=21% Similarity=0.269 Sum_probs=34.2
Q ss_pred HHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHc---------cCCEEEEECCCCCcc
Q 042331 298 HVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKD---------SGGTAHIFSSMHFSG 353 (378)
Q Consensus 298 ~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~---------~g~~V~ivs~~~~~G 353 (378)
....+++....+.+++.=+++.+.....+..+.+..+...+ .+..+++++.+|+.|
T Consensus 36 ~~~~~i~~~~pd~vi~lGDl~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~GNHD~g 100 (171)
T cd07384 36 AFKTALQRLKPDVVLFLGDLFDGGRIADSEEWEEYVKRFKKIFFLPSNGLEDIPVYYVPGNHDIG 100 (171)
T ss_pred HHHHHHHhcCCCEEEEeccccCCcEeCCHHHHHHHHHHHHHHhcccccccCCceEEEECCccccC
Confidence 34445556678899999888865433222223222222211 267899999999876
No 67
>cd03770 SR_TndX_transposase Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.
Probab=31.38 E-value=1.5e+02 Score=24.84 Aligned_cols=51 Identities=16% Similarity=0.010 Sum_probs=34.7
Q ss_pred ECHHHHHHHHHccCccEEEEecC--ccccchhHhHHHHHHHHHHHHcc-CCEEEEECCC
Q 042331 294 YGPKHVEVAHERMAVQTLLITDD--LFRNFEIATRKKYVDLVNSVKDS-GGTAHIFSSM 349 (378)
Q Consensus 294 yG~~~V~~A~e~GAV~tLLI~d~--l~r~~d~~~r~~~~~lve~v~~~-g~~V~ivs~~ 349 (378)
-|+...++.++.|.|++|+|.+- +.|+ -.+...+++...+. |..++++...
T Consensus 55 p~l~~ll~~~~~g~vd~vvv~~ldRl~R~-----~~d~~~~~~~l~~~~gv~l~~~~~~ 108 (140)
T cd03770 55 PGFNRMIEDIEAGKIDIVIVKDMSRLGRN-----YLKVGLYMEILFPKKGVRFIAINDG 108 (140)
T ss_pred HHHHHHHHHHHcCCCCEEEEeccchhccC-----HHHHHHHHHHHHhhcCcEEEEecCC
Confidence 35666777788899999999852 2332 12345577777776 9999887753
No 68
>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein.
Probab=31.36 E-value=94 Score=27.87 Aligned_cols=43 Identities=16% Similarity=0.211 Sum_probs=34.9
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
-.+|+.||-+..-|+..++.+.+++....+.|..|.+++.+.+
T Consensus 157 p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~vsH~~~ 199 (216)
T TIGR00960 157 PPLLLADEPTGNLDPELSRDIMRLFEEFNRRGTTVLVATHDIN 199 (216)
T ss_pred CCEEEEeCCCCcCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence 3689999999888999999999977776666888888886643
No 69
>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=31.35 E-value=92 Score=27.82 Aligned_cols=43 Identities=19% Similarity=0.285 Sum_probs=35.0
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
-.+||.|+-+.+-|+..|..+.+++....+.|..|.+++.+.+
T Consensus 156 p~lllLDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~tH~~~ 198 (214)
T TIGR02673 156 PPLLLADEPTGNLDPDLSERILDLLKRLNKRGTTVIVATHDLS 198 (214)
T ss_pred CCEEEEeCCcccCCHHHHHHHHHHHHHHHHcCCEEEEEeCCHH
Confidence 4688999999988999999999987777667888888886543
No 70
>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=31.30 E-value=95 Score=27.60 Aligned_cols=42 Identities=14% Similarity=0.214 Sum_probs=34.1
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..++.+.+++....+.|..|.+++.+.+
T Consensus 146 ~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sH~~~ 187 (205)
T cd03226 146 DLLIFDEPTSGLDYKNMERVGELIRELAAQGKAVIVITHDYE 187 (205)
T ss_pred CEEEEeCCCccCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence 588999999888999999999977776666888888886543
No 71
>COG2450 Uncharacterized conserved protein [Function unknown]
Probab=31.13 E-value=82 Score=26.39 Aligned_cols=57 Identities=12% Similarity=0.149 Sum_probs=38.7
Q ss_pred EECHHHHHHHHHccCccEEEEecCccccchhHhHHHHHH-HHHHHHccCCEEEEECCC
Q 042331 293 CYGPKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVD-LVNSVKDSGGTAHIFSSM 349 (378)
Q Consensus 293 ~yG~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~-lve~v~~~g~~V~ivs~~ 349 (378)
+|+++++..|.++=--.-++|.|=-.-..++....++.+ |=..|+..||++.-++.+
T Consensus 48 i~~~~Dl~~~~~eiy~GNIvIaDit~l~~d~~~~~~V~e~lr~~a~~~ggdi~~l~~n 105 (124)
T COG2450 48 ISSYEDLEEAKREIYAGNIVIADITPLERDDDLFERVIEELRDTAEEVGGDIAKLGDN 105 (124)
T ss_pred eCCHHHHHHHHHHHhcCCEEEEEcCCcccChhHHHHHHHHHHHHHHHhCchhhhhcCC
Confidence 678888888877633335666664422225555566655 889999999998776665
No 72
>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.
Probab=30.86 E-value=96 Score=28.20 Aligned_cols=42 Identities=17% Similarity=0.179 Sum_probs=33.8
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+||.|+-+.+-|+..+..+.+++....+.|..|.+++.+.+
T Consensus 162 ~llllDEP~~gLD~~~~~~~~~~l~~~~~~~~tiii~sH~~~ 203 (224)
T cd03220 162 DILLIDEVLAVGDAAFQEKCQRRLRELLKQGKTVILVSHDPS 203 (224)
T ss_pred CEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence 689999999888999999999977766566778888886543
No 73
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=30.76 E-value=1.6e+02 Score=27.56 Aligned_cols=59 Identities=15% Similarity=0.245 Sum_probs=39.8
Q ss_pred HHHHHHHccCccEEEEecCccccchhHh--HHHHHHHHHHHHccC-CEEEEECCCCCccccc
Q 042331 298 HVEVAHERMAVQTLLITDDLFRNFEIAT--RKKYVDLVNSVKDSG-GTAHIFSSMHFSGEQL 356 (378)
Q Consensus 298 ~V~~A~e~GAV~tLLI~d~l~r~~d~~~--r~~~~~lve~v~~~g-~~V~ivs~~~~~G~~L 356 (378)
.+...+....++.|+|+=+++-...+.. ...+.+.+....+.+ ..|++++.+|+...++
T Consensus 30 ~l~~~~~~~~~D~lli~GDi~d~~~p~~~~~~~~~~~l~~l~~~~~i~v~~i~GNHD~~~~~ 91 (253)
T TIGR00619 30 DLLEFAKAEQIDALLVAGDVFDTANPPAEAQELFNAFFRNLSDANPIPIVVISGNHDSAQRL 91 (253)
T ss_pred HHHHHHHHcCCCEEEECCccCCCCCCCHHHHHHHHHHHHHHHhcCCceEEEEccCCCChhhc
Confidence 3444445556999999998886543322 233455666666667 7899999999986554
No 74
>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=30.72 E-value=97 Score=27.62 Aligned_cols=41 Identities=10% Similarity=0.206 Sum_probs=33.3
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMH 350 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~ 350 (378)
.+||.|+-+.+-|+..++.+.+++....+.|..|.+++.+.
T Consensus 155 ~llllDEP~~~LD~~~~~~l~~~l~~~~~~~~tvi~~sh~~ 195 (213)
T cd03262 155 KVMLFDEPTSALDPELVGEVLDVMKDLAEEGMTMVVVTHEM 195 (213)
T ss_pred CEEEEeCCccCCCHHHHHHHHHHHHHHHHcCCEEEEEeCCH
Confidence 58999999988899999999997777666777788877554
No 75
>PRK09557 fructokinase; Reviewed
Probab=30.35 E-value=1.2e+02 Score=28.81 Aligned_cols=47 Identities=11% Similarity=0.092 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHHHhcccccCccEEEEECCccCHHHHHHHHHHHHhh
Q 042331 181 ALNKFFDSVLHAFLKHVDFNVVRCAVIASPGFTKDQFHRYLLLEAER 227 (378)
Q Consensus 181 ~~~~f~~~v~~~l~~~~~~~~~~~iiIaGpg~~k~~f~~~l~~~~~~ 227 (378)
.++++.+.++..+.......++..|||+|.-...+.|++.+.+.+.+
T Consensus 224 ~l~~~~~~La~~l~~l~~~ldP~~IvlgG~~~~~~~~~~~l~~~~~~ 270 (301)
T PRK09557 224 AFRRYEDRLAKSLAHVINILDPDVIVLGGGMSNVDRLYPTLPALLKQ 270 (301)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCEEEEcCcccchHHHHHHHHHHHHH
Confidence 45677777777777777777899999999866566677766666654
No 76
>cd03270 ABC_UvrA_I The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=30.15 E-value=90 Score=28.52 Aligned_cols=42 Identities=12% Similarity=0.213 Sum_probs=35.1
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+||.|+-+..-|+..+..+.+++....+.|..+.+++.+.+
T Consensus 159 ~llllDEPt~gLD~~~~~~l~~~l~~~~~~g~tii~itH~~~ 200 (226)
T cd03270 159 VLYVLDEPSIGLHPRDNDRLIETLKRLRDLGNTVLVVEHDED 200 (226)
T ss_pred CEEEEeCCccCCCHHHHHHHHHHHHHHHhCCCEEEEEEeCHH
Confidence 599999999998999999999977776667888888887654
No 77
>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru
Probab=30.12 E-value=1.3e+02 Score=26.71 Aligned_cols=47 Identities=15% Similarity=0.200 Sum_probs=36.7
Q ss_pred ccEEEEecCccccchhHhHHHHHH-HHHHHHccCCEEEEECCCCCccc
Q 042331 308 VQTLLITDDLFRNFEIATRKKYVD-LVNSVKDSGGTAHIFSSMHFSGE 354 (378)
Q Consensus 308 V~tLLI~d~l~r~~d~~~r~~~~~-lve~v~~~g~~V~ivs~~~~~G~ 354 (378)
-..+++.|+.+.+-|+..+..+.. +++...+.|..+.+++...+.-.
T Consensus 108 ~~~llllDEp~~gld~~~~~~l~~~ll~~l~~~~~~vi~~tH~~~~~~ 155 (202)
T cd03243 108 PRSLVLIDELGRGTSTAEGLAIAYAVLEHLLEKGCRTLFATHFHELAD 155 (202)
T ss_pred CCeEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCeEEEECChHHHHH
Confidence 468999999999888877776644 77877778888888887765433
No 78
>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a
Probab=29.93 E-value=1.3e+02 Score=26.85 Aligned_cols=44 Identities=9% Similarity=0.111 Sum_probs=34.9
Q ss_pred cEEEEecCccccchhHhHHHHH-HHHHHHHccCCEEEEECCCCCc
Q 042331 309 QTLLITDDLFRNFEIATRKKYV-DLVNSVKDSGGTAHIFSSMHFS 352 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~-~lve~v~~~g~~V~ivs~~~~~ 352 (378)
-.+++.|+.+..-|+..+..+. .+++...+.|..+.+++..++.
T Consensus 109 p~llllDEp~~glD~~~~~~i~~~~l~~l~~~~~~vi~~tH~~~l 153 (200)
T cd03280 109 DSLVLLDELGSGTDPVEGAALAIAILEELLERGALVIATTHYGEL 153 (200)
T ss_pred CcEEEEcCCCCCCCHHHHHHHHHHHHHHHHhcCCEEEEECCHHHH
Confidence 4699999999998988888775 4777777778888888876543
No 79
>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR). DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.
Probab=29.91 E-value=1.1e+02 Score=27.22 Aligned_cols=41 Identities=17% Similarity=0.231 Sum_probs=33.5
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMH 350 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~ 350 (378)
.+|+.|+-+.+-|+..++.+.+++....+.|..+.+++.+.
T Consensus 131 ~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~ 171 (194)
T cd03213 131 SLLFLDEPTSGLDSSSALQVMSLLRRLADTGRTIICSIHQP 171 (194)
T ss_pred CEEEEeCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEEecCc
Confidence 58888998888899999999997777766688888888664
No 80
>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL. Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.
Probab=29.71 E-value=1e+02 Score=27.82 Aligned_cols=42 Identities=19% Similarity=0.232 Sum_probs=34.8
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+..-|+..++.+.+++....+.|..|.+++.+.+
T Consensus 169 ~llllDEPt~~LD~~~~~~l~~~l~~~~~~g~tii~vsH~~~ 210 (224)
T TIGR02324 169 PILLLDEPTASLDAANRQVVVELIAEAKARGAALIGIFHDEE 210 (224)
T ss_pred CEEEEcCCcccCCHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence 588899999888999999999977777767888888886643
No 81
>smart00857 Resolvase Resolvase, N terminal domain. The N-terminal domain of the resolvase family contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase.
Probab=29.55 E-value=1.4e+02 Score=24.76 Aligned_cols=49 Identities=12% Similarity=0.179 Sum_probs=33.7
Q ss_pred CHHHHHHHHHccCccEEEEecC--ccccchhHhHHHHHHHHHHHHccCCEEEEECC
Q 042331 295 GPKHVEVAHERMAVQTLLITDD--LFRNFEIATRKKYVDLVNSVKDSGGTAHIFSS 348 (378)
Q Consensus 295 G~~~V~~A~e~GAV~tLLI~d~--l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~ 348 (378)
++...+++++.|.++.|+|.+- +.|+. .++..+++...+.|..|+++..
T Consensus 53 ~l~~ll~~~~~g~~~~ivv~~~~Rl~R~~-----~~~~~~~~~l~~~gi~l~~~~~ 103 (148)
T smart00857 53 GLQRLLADLRAGDIDVLVVYKLDRLGRSL-----RDLLALLELLEKKGVRLVSVTE 103 (148)
T ss_pred HHHHHHHHHHcCCCCEEEEeccchhhCcH-----HHHHHHHHHHHHCCCEEEECcC
Confidence 3555666677788888888754 34431 2456688888999999887764
No 82
>PRK10908 cell division protein FtsE; Provisional
Probab=29.32 E-value=1.1e+02 Score=27.68 Aligned_cols=42 Identities=17% Similarity=0.146 Sum_probs=34.8
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.||+.|+-+.+-|+..+..+.+++....+.|..+.+++.+.+
T Consensus 157 ~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tiii~sH~~~ 198 (222)
T PRK10908 157 AVLLADEPTGNLDDALSEGILRLFEEFNRVGVTVLMATHDIG 198 (222)
T ss_pred CEEEEeCCCCcCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence 589999999888999999999977777667888888887654
No 83
>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=29.29 E-value=1.1e+02 Score=26.99 Aligned_cols=42 Identities=17% Similarity=0.235 Sum_probs=34.2
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+..-|+..++.+.+++....+.|..|.+++.+.+
T Consensus 109 ~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~ 150 (176)
T cd03238 109 TLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLD 150 (176)
T ss_pred CEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence 688889998888888898988877766667888888886654
No 84
>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=28.92 E-value=1.2e+02 Score=27.11 Aligned_cols=42 Identities=19% Similarity=0.274 Sum_probs=34.2
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+..-|+..++.+.+++....+.|..|.+++.+.+
T Consensus 148 ~~lllDEP~~~LD~~~~~~~~~~l~~~~~~~~tii~~sH~~~ 189 (210)
T cd03269 148 ELLILDEPFSGLDPVNVELLKDVIRELARAGKTVILSTHQME 189 (210)
T ss_pred CEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHH
Confidence 688999999888999999998977776666888888886544
No 85
>PRK13539 cytochrome c biogenesis protein CcmA; Provisional
Probab=28.75 E-value=1.1e+02 Score=27.32 Aligned_cols=43 Identities=14% Similarity=0.265 Sum_probs=34.5
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCc
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFS 352 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~ 352 (378)
.||+.|+-+.+-|+..+..+.+++....+.|..+.+++.+.+.
T Consensus 147 ~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tiii~sH~~~~ 189 (207)
T PRK13539 147 PIWILDEPTAALDAAAVALFAELIRAHLAQGGIVIAATHIPLG 189 (207)
T ss_pred CEEEEeCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCCchh
Confidence 6888999998889999999988776655568888888876653
No 86
>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=28.71 E-value=1.1e+02 Score=27.27 Aligned_cols=42 Identities=21% Similarity=0.326 Sum_probs=34.1
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..++.+.+++....+.|..+.+++.+.+
T Consensus 156 ~llllDEPt~~LD~~~~~~~~~~l~~~~~~~~tiiivtH~~~ 197 (214)
T cd03292 156 TILIADEPTGNLDPDTTWEIMNLLKKINKAGTTVVVATHAKE 197 (214)
T ss_pred CEEEEeCCCCcCCHHHHHHHHHHHHHHHHcCCEEEEEeCCHH
Confidence 688999999888999999999977776666888888886543
No 87
>PRK11124 artP arginine transporter ATP-binding subunit; Provisional
Probab=28.38 E-value=1.1e+02 Score=27.96 Aligned_cols=42 Identities=14% Similarity=0.207 Sum_probs=34.8
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.|||.|+-+.+-|+..+..+.+++....+.|..+.+++.+.+
T Consensus 161 ~llilDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~~ 202 (242)
T PRK11124 161 QVLLFDEPTAALDPEITAQIVSIIRELAETGITQVIVTHEVE 202 (242)
T ss_pred CEEEEcCCCCcCCHHHHHHHHHHHHHHHHcCCEEEEEeCCHH
Confidence 688999999888999999999988877777888888886554
No 88
>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional
Probab=28.33 E-value=1.1e+02 Score=28.18 Aligned_cols=43 Identities=7% Similarity=0.087 Sum_probs=34.9
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
-.+||.|+-+.+-|+..+..+.+++....+.|..|.+++.+.+
T Consensus 163 p~lllLDEPt~~LD~~~~~~l~~~l~~~~~~~~tvi~~tH~~~ 205 (250)
T PRK11264 163 PEVILFDEPTSALDPELVGEVLNTIRQLAQEKRTMVIVTHEMS 205 (250)
T ss_pred CCEEEEeCCCccCCHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence 3688999999888999999999977776667888888886654
No 89
>PF07045 DUF1330: Protein of unknown function (DUF1330); InterPro: IPR010753 This family consists of several hypothetical bacterial proteins of around 90 residues in length. The function of this family is unknown.; PDB: 2FIU_B 3HHL_A 3DCA_D 3LO3_I.
Probab=28.22 E-value=1.2e+02 Score=21.90 Aligned_cols=42 Identities=17% Similarity=0.147 Sum_probs=25.8
Q ss_pred HHHH-HHHHHHccCCEEEEECCCCCcccccccCccEEEEeecCC
Q 042331 328 KYVD-LVNSVKDSGGTAHIFSSMHFSGEQLGQLTGVAAILRFPL 370 (378)
Q Consensus 328 ~~~~-lve~v~~~g~~V~ivs~~~~~G~~L~~lgGIaAiLRy~i 370 (378)
++.+ ....++..||++.......+.-+- ..-.....|++||=
T Consensus 6 ~Y~~~~~~~l~~~GG~~l~~~~~~~~leG-~~~~~~~viieFPs 48 (65)
T PF07045_consen 6 EYREAVPPILEKYGGRVLARGGEPEVLEG-DWDPDRVVIIEFPS 48 (65)
T ss_dssp HHHHHHHHHHHHTT-EEEEECEEEEEEES-T-SSSEEEEEEESS
T ss_pred HHHHHHHHHHHHcCCEEEEECCceeEEec-CCCCCeEEEEECCC
Confidence 3444 556778899998877555443221 23446889999984
No 90
>COG1129 MglA ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]
Probab=28.12 E-value=1.1e+02 Score=32.05 Aligned_cols=96 Identities=13% Similarity=0.116 Sum_probs=65.3
Q ss_pred HHHHHHHHHHHHHHHHhhCCCCcEEECHHHHHHHHHc------------cCccEEEEecCccccchhHhHHHHHHHHHHH
Q 042331 269 TKAAQEVKVLKEFFNMLSNDPTRACYGPKHVEVAHER------------MAVQTLLITDDLFRNFEIATRKKYVDLVNSV 336 (378)
Q Consensus 269 ~~~~~e~~~l~~f~~~l~~~~~~a~yG~~~V~~A~e~------------GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v 336 (378)
....+|.+..+++.+.|.-. +.+++.-..++.- .+=-.+||.|+-.|.-|+..+.++-.|+...
T Consensus 372 i~~~~e~~~~~~~~~~l~Ik----~~s~~~~v~~LSGGNQQKVvlarwL~~~p~vLilDEPTRGIDVGAK~eIy~li~~l 447 (500)
T COG1129 372 IDRRKERALAERYIRRLRIK----TPSPEQPIGTLSGGNQQKVVLARWLATDPKVLILDEPTRGIDVGAKAEIYRLIREL 447 (500)
T ss_pred cChHHHHHHHHHHHHhcCcc----cCCccchhhcCCchhhhhHHHHHHHhcCCCEEEECCCCcCcccchHHHHHHHHHHH
Confidence 44567888899998888643 2333222222222 2224688999999999998888888988888
Q ss_pred HccCCEEEEECCCCCccc----c--cccCccEEEEeec
Q 042331 337 KDSGGTAHIFSSMHFSGE----Q--LGQLTGVAAILRF 368 (378)
Q Consensus 337 ~~~g~~V~ivs~~~~~G~----~--L~~lgGIaAiLRy 368 (378)
...|.-|.++||+-+.=- + .-.-|.|+|.|.-
T Consensus 448 A~~G~ail~iSSElpEll~~~DRIlVm~~Gri~~e~~~ 485 (500)
T COG1129 448 AAEGKAILMISSELPELLGLSDRILVMREGRIVGELDR 485 (500)
T ss_pred HHCCCEEEEEeCChHHHHhhCCEEEEEECCEEEEEecc
Confidence 888999999999877411 1 1345667776643
No 91
>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=28.04 E-value=1.2e+02 Score=26.38 Aligned_cols=42 Identities=21% Similarity=0.347 Sum_probs=33.3
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..++.+.+++....+.|..+.+++.+.+
T Consensus 124 ~llllDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~ 165 (182)
T cd03215 124 RVLILDEPTRGVDVGAKAEIYRLIRELADAGKAVLLISSELD 165 (182)
T ss_pred CEEEECCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence 488889998888999999999977776666777877776543
No 92
>CHL00131 ycf16 sulfate ABC transporter protein; Validated
Probab=27.93 E-value=1.1e+02 Score=28.14 Aligned_cols=42 Identities=17% Similarity=0.188 Sum_probs=34.2
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+||.|+-+.+-|+..++.+.+++....+.|..|++++.+.+
T Consensus 171 ~llllDEPt~~LD~~~~~~l~~~l~~~~~~g~tii~~tH~~~ 212 (252)
T CHL00131 171 ELAILDETDSGLDIDALKIIAEGINKLMTSENSIILITHYQR 212 (252)
T ss_pred CEEEEcCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEecCHH
Confidence 688889999999999999998977666667888888886544
No 93
>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport. These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.
Probab=27.90 E-value=1.6e+02 Score=25.20 Aligned_cols=43 Identities=12% Similarity=0.159 Sum_probs=32.5
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCc
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFS 352 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~ 352 (378)
.|++.||..++-|+..+..+.+++......|+.+.+++..++.
T Consensus 101 ~llllDEp~~gld~~~~~~l~~~l~~~~~~~~~vii~TH~~~~ 143 (162)
T cd03227 101 PLYILDEIDRGLDPRDGQALAEAILEHLVKGAQVIVITHLPEL 143 (162)
T ss_pred CEEEEeCCCCCCCHHHHHHHHHHHHHHHhcCCEEEEEcCCHHH
Confidence 7999999999999988888888554444347778777765543
No 94
>TIGR01978 sufC FeS assembly ATPase SufC. SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.
Probab=27.83 E-value=1e+02 Score=28.08 Aligned_cols=43 Identities=16% Similarity=0.244 Sum_probs=35.2
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
-.+|+.|+-+..-|+..++.+.+++....+.|..|.+++.+.+
T Consensus 163 p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tvi~vsH~~~ 205 (243)
T TIGR01978 163 PKLAILDEIDSGLDIDALKIVAEGINRLREPDRSFLIITHYQR 205 (243)
T ss_pred CCEEEecCCcccCCHHHHHHHHHHHHHHHHCCcEEEEEEecHH
Confidence 4699999999998999999999977777667888888886544
No 95
>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=27.51 E-value=1.2e+02 Score=27.23 Aligned_cols=43 Identities=14% Similarity=0.199 Sum_probs=34.4
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
-.+|+.|+-+.+-|+..+..+.+++....+.|..|.+++.+.+
T Consensus 151 p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tiii~sH~~~ 193 (222)
T cd03224 151 PKLLLLDEPSEGLAPKIVEEIFEAIRELRDEGVTILLVEQNAR 193 (222)
T ss_pred CCEEEECCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence 3688999999888999999999977766667888888886544
No 96
>CHL00195 ycf46 Ycf46; Provisional
Probab=27.49 E-value=1.9e+02 Score=30.05 Aligned_cols=63 Identities=27% Similarity=0.370 Sum_probs=46.6
Q ss_pred EEEEecCccc-cchhHhHHHHHHHHHHHHccCCEEEEECCCCCcccccccCccEEEEeecCCCCCCC
Q 042331 310 TLLITDDLFR-NFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQLGQLTGVAAILRFPLPDLED 375 (378)
Q Consensus 310 tLLI~d~l~r-~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L~~lgGIaAiLRy~i~~~~~ 375 (378)
.++|..++.+ +.++...+.+.+|....++++..++++|+.-..-..|..+ +.++-||+|+.+|
T Consensus 83 ~~~vl~d~h~~~~~~~~~r~l~~l~~~~~~~~~~~i~~~~~~~~p~el~~~---~~~~~~~lP~~~e 146 (489)
T CHL00195 83 ALFLLKDFNRFLNDISISRKLRNLSRILKTQPKTIIIIASELNIPKELKDL---ITVLEFPLPTESE 146 (489)
T ss_pred cEEEEecchhhhcchHHHHHHHHHHHHHHhCCCEEEEEcCCCCCCHHHHhc---eeEEeecCcCHHH
Confidence 4777777643 2445666677788888999999999999875555556555 6899999998655
No 97
>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional
Probab=27.41 E-value=1.1e+02 Score=28.25 Aligned_cols=42 Identities=10% Similarity=0.152 Sum_probs=34.7
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+||.|+-+.+-|+..++.+.+++....+.|..|.+++.+.+
T Consensus 172 ~llllDEPt~~LD~~~~~~l~~~l~~l~~~g~tiiivsH~~~ 213 (257)
T PRK10619 172 EVLLFDEPTSALDPELVGEVLRIMQQLAEEGKTMVVVTHEMG 213 (257)
T ss_pred CEEEEeCCcccCCHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence 588889999988999999999977776667888988886654
No 98
>PF11104 PilM_2: Type IV pilus assembly protein PilM;; PDB: 2YCH_A.
Probab=27.40 E-value=2.8e+02 Score=27.01 Aligned_cols=88 Identities=15% Similarity=0.187 Sum_probs=56.2
Q ss_pred cEEEEEEECCeeEEEEEecceEEEEEEEEeecCCCC---------CCc--------------hhhhHHHHHHHHHHHHHH
Q 042331 136 DLAVVLMQEGLANIFLVGRSMTITRSRIETSIPRKH---------GPA--------------VARYESALNKFFDSVLHA 192 (378)
Q Consensus 136 ~~~~vvvd~g~A~i~~l~~~~~~~~~~i~~~ip~K~---------~~g--------------~s~~e~~~~~f~~~v~~~ 192 (378)
.+++|-+......++++.+......+.+.. .+.. +-. .......++.|++++++.
T Consensus 181 ~~~lvdiG~~~t~~~i~~~g~~~f~R~i~~--G~~~l~~~i~~~~~i~~~~Ae~~k~~~~l~~~~~~~~l~~~~~~l~~E 258 (340)
T PF11104_consen 181 TVALVDIGASSTTVIIFQNGKPIFSRSIPI--GGNDLTEAIARELGIDFEEAEELKRSGGLPEEYDQDALRPFLEELARE 258 (340)
T ss_dssp EEEEEEE-SS-EEEEEEETTEEEEEEEES---SHHHHHHHHHHHTT--HHHHHHHHHHT------HHHHHHHHHHHHHHH
T ss_pred eEEEEEecCCeEEEEEEECCEEEEEEEEee--CHHHHHHHHHHhcCCCHHHHHHHHhcCCCCcchHHHHHHHHHHHHHHH
Confidence 578888899999999999887776665532 2210 000 000123456778888777
Q ss_pred HHhccc-------ccCccEEEEECCccCHHHHHHHHHHHH
Q 042331 193 FLKHVD-------FNVVRCAVIASPGFTKDQFHRYLLLEA 225 (378)
Q Consensus 193 l~~~~~-------~~~~~~iiIaGpg~~k~~f~~~l~~~~ 225 (378)
+.+.++ ...++.|+++|.|..-..+.+||.+.+
T Consensus 259 I~rsl~~y~~~~~~~~i~~I~L~Ggga~l~gL~~~l~~~l 298 (340)
T PF11104_consen 259 IRRSLDFYQSQSGGESIERIYLSGGGARLPGLAEYLSEEL 298 (340)
T ss_dssp HHHHHHHHHHH------SEEEEESGGGGSTTHHHHHHHHH
T ss_pred HHHHHHHHHhcCCCCCCCEEEEECCccchhhHHHHHHHHH
Confidence 776653 346999999999988888889998887
No 99
>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.
Probab=27.29 E-value=1.2e+02 Score=27.00 Aligned_cols=42 Identities=21% Similarity=0.320 Sum_probs=33.4
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.||+.|+-+.+-|+..+..+.+++....+.|..|.++|.+.+
T Consensus 154 ~llllDEPt~~LD~~~~~~~~~~l~~~~~~~~tvi~~sH~~~ 195 (211)
T cd03225 154 DILLLDEPTAGLDPAGRRELLELLKKLKAEGKTIIIVTHDLD 195 (211)
T ss_pred CEEEEcCCcccCCHHHHHHHHHHHHHHHHcCCEEEEEeCCHH
Confidence 689999999888999999998966665555778888886543
No 100
>cd03279 ABC_sbcCD SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini.
Probab=27.25 E-value=1.5e+02 Score=26.61 Aligned_cols=42 Identities=10% Similarity=0.161 Sum_probs=33.7
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+++.|+-+..-|+..+..+.+++....+.|..|++++.+.+
T Consensus 153 ~~lllDEp~~~lD~~~~~~~~~~l~~~~~~~~tii~itH~~~ 194 (213)
T cd03279 153 EALFIDEGFGTLDPEALEAVATALELIRTENRMVGVISHVEE 194 (213)
T ss_pred CEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEECchH
Confidence 578889888888888888888877777666888888887654
No 101
>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=27.07 E-value=1.2e+02 Score=26.78 Aligned_cols=42 Identities=21% Similarity=0.348 Sum_probs=33.7
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMH 350 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~ 350 (378)
-.+||.|+-+..-|+..++.+.+++....+.|..+.+++.+.
T Consensus 153 p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~ 194 (206)
T TIGR03608 153 PPLILADEPTGSLDPKNRDEVLDLLLELNDEGKTIIIVTHDP 194 (206)
T ss_pred CCEEEEeCCcCCCCHHHHHHHHHHHHHHHhcCCEEEEEeCCH
Confidence 368899999888899999999997777666688888877654
No 102
>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=26.66 E-value=1.2e+02 Score=27.44 Aligned_cols=42 Identities=14% Similarity=0.231 Sum_probs=34.0
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..+..+.+++....+.|..|.+++.+.+
T Consensus 163 ~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~vsH~~~ 204 (236)
T cd03219 163 KLLLLDEPAAGLNPEETEELAELIRELRERGITVLLVEHDMD 204 (236)
T ss_pred CEEEEcCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEecCHH
Confidence 688899999888999999998977776667888888886544
No 103
>PF01715 IPPT: IPP transferase; InterPro: IPR002627 tRNA isopentenyltransferases 2.5.1.8 from EC also known as tRNA delta(2)-isopentenylpyrophosphate transferases or IPP transferases. These enzymes modify both cytoplasmic and mitochondrial tRNAs at A(37) to give isopentenyl A(37) [].; GO: 0005524 ATP binding, 0008033 tRNA processing; PDB: 2ZXU_A 3FOZ_A 2ZM5_B 3D3Q_A 3EXA_B 2QGN_A 3A8T_A 3EPK_B 3EPH_A 3EPJ_A ....
Probab=26.47 E-value=64 Score=30.36 Aligned_cols=37 Identities=8% Similarity=0.120 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHhcccccCccEEEEECCccCHHHHH
Q 042331 181 ALNKFFDSVLHAFLKHVDFNVVRCAVIASPGFTKDQFH 218 (378)
Q Consensus 181 ~~~~f~~~v~~~l~~~~~~~~~~~iiIaGpg~~k~~f~ 218 (378)
....|.+.+.+.+.+...+.++ +||++|.|++-+.++
T Consensus 37 sv~~f~~~a~~~i~~i~~rgk~-PIlvGGTglYi~all 73 (253)
T PF01715_consen 37 SVGDFQRDAREAIEDILARGKI-PILVGGTGLYIQALL 73 (253)
T ss_dssp -HHHHHHHHHHHHHHHHHTT-E-EEEEES-HHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHhcCCe-EEEECChHHHHHHHH
Confidence 5678888888888887765544 899999998766554
No 104
>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=26.32 E-value=1.3e+02 Score=26.87 Aligned_cols=43 Identities=12% Similarity=0.209 Sum_probs=33.6
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHH-HccCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSV-KDSGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v-~~~g~~V~ivs~~~~ 351 (378)
-.+|+.|+-+.+-|+..++.+.+++... ++.|..|.+++.+.+
T Consensus 149 p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~~tvi~~sH~~~ 192 (213)
T cd03301 149 PKVFLMDEPLSNLDAKLRVQMRAELKRLQQRLGTTTIYVTHDQV 192 (213)
T ss_pred CCEEEEcCCcccCCHHHHHHHHHHHHHHHHHcCCEEEEEeCCHH
Confidence 3689999999998999999998866554 456888888886543
No 105
>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=26.31 E-value=1.3e+02 Score=26.84 Aligned_cols=42 Identities=7% Similarity=0.233 Sum_probs=34.1
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+..-|+..++.+.+++....+.|..|++++.+.+
T Consensus 156 ~illlDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~tH~~~ 197 (218)
T cd03266 156 PVLLLDEPTTGLDVMATRALREFIRQLRALGKCILFSTHIMQ 197 (218)
T ss_pred CEEEEcCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence 588899998888999999999977776666888888886543
No 106
>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional
Probab=26.19 E-value=1.2e+02 Score=27.56 Aligned_cols=42 Identities=5% Similarity=0.167 Sum_probs=33.4
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHH-HccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSV-KDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v-~~~g~~V~ivs~~~~ 351 (378)
.+||.|+-+.+-|+..+..+.+++... ++.|..|.+++.+.+
T Consensus 157 ~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~~tvii~sh~~~ 199 (225)
T PRK10247 157 KVLLLDEITSALDESNKHNVNEIIHRYVREQNIAVLWVTHDKD 199 (225)
T ss_pred CEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEECChH
Confidence 688889999888999898888866655 456888888886654
No 107
>PRK13310 N-acetyl-D-glucosamine kinase; Provisional
Probab=25.81 E-value=1.5e+02 Score=28.10 Aligned_cols=47 Identities=11% Similarity=0.038 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHhcccccCccEEEEECCccCHHHHHHHHHHHHhh
Q 042331 181 ALNKFFDSVLHAFLKHVDFNVVRCAVIASPGFTKDQFHRYLLLEAER 227 (378)
Q Consensus 181 ~~~~f~~~v~~~l~~~~~~~~~~~iiIaGpg~~k~~f~~~l~~~~~~ 227 (378)
.+++|.+.++..+....+..++..|||+|+-...+.|++.+.+.+.+
T Consensus 225 ~~~~~~~~la~~l~n~~~~ldP~~IvlgG~~~~~~~~~~~l~~~~~~ 271 (303)
T PRK13310 225 HVERYLDLLAICLGNILTIVDPHLVVLGGGLSNFDAIYEQLPKRLPR 271 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCEEEECCcccChHHHHHHHHHHHHH
Confidence 45667777777777777777889999999755456677766666654
No 108
>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional
Probab=25.70 E-value=1.3e+02 Score=27.44 Aligned_cols=42 Identities=14% Similarity=0.198 Sum_probs=33.7
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..++.+.+++....+.|..|.+++.+.+
T Consensus 157 ~illlDEPt~~LD~~~~~~l~~~l~~~~~~~~tiii~sH~~~ 198 (237)
T PRK11614 157 RLLLLDEPSLGLAPIIIQQIFDTIEQLREQGMTIFLVEQNAN 198 (237)
T ss_pred CEEEEcCccccCCHHHHHHHHHHHHHHHHCCCEEEEEeCcHH
Confidence 688899999888999999998877776666888888875543
No 109
>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=25.64 E-value=1.3e+02 Score=26.18 Aligned_cols=43 Identities=16% Similarity=0.262 Sum_probs=33.4
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHcc-CCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDS-GGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~-g~~V~ivs~~~~ 351 (378)
-.+++.|+-+.+-|+..++.+.+++....+. |..+.+++.+.+
T Consensus 116 p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~ 159 (180)
T cd03214 116 PPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLN 159 (180)
T ss_pred CCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence 3688899999888999999998877766555 777888775543
No 110
>PRK13541 cytochrome c biogenesis protein CcmA; Provisional
Probab=25.56 E-value=1.5e+02 Score=26.15 Aligned_cols=42 Identities=21% Similarity=0.290 Sum_probs=33.2
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..+..+.+++....+.|..|.+++.+.+
T Consensus 143 ~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~ 184 (195)
T PRK13541 143 DLWLLDEVETNLSKENRDLLNNLIVMKANSGGIVLLSSHLES 184 (195)
T ss_pred CEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCcc
Confidence 689999999888999998888877655566778888776543
No 111
>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit. This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.
Probab=25.50 E-value=1.3e+02 Score=28.73 Aligned_cols=43 Identities=19% Similarity=0.256 Sum_probs=34.4
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
-.||+.|+-+.+-|+..|..+.+++....+.|..|.+++.+-+
T Consensus 143 p~lllLDEPt~gLD~~~~~~l~~~l~~~~~~g~tvi~~sH~~~ 185 (302)
T TIGR01188 143 PDVLFLDEPTTGLDPRTRRAIWDYIRALKEEGVTILLTTHYME 185 (302)
T ss_pred CCEEEEeCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEECCCHH
Confidence 3688999998888999999999977777666888887775543
No 112
>PRK15056 manganese/iron transporter ATP-binding protein; Provisional
Probab=25.49 E-value=1.3e+02 Score=28.24 Aligned_cols=43 Identities=16% Similarity=0.346 Sum_probs=34.7
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
-.+|+.|+-+.+-|+..++.+.+++....+.|..|.+++.+.+
T Consensus 161 p~llllDEPt~~LD~~~~~~l~~~L~~~~~~g~tviivsH~~~ 203 (272)
T PRK15056 161 GQVILLDEPFTGVDVKTEARIISLLRELRDEGKTMLVSTHNLG 203 (272)
T ss_pred CCEEEEeCCCccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence 3688999999888999999999977776666878888886653
No 113
>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=25.46 E-value=1.2e+02 Score=27.04 Aligned_cols=43 Identities=16% Similarity=0.191 Sum_probs=33.2
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHH-ccCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVK-DSGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~-~~g~~V~ivs~~~~ 351 (378)
-.+|+.|+-+.+-|+..++.+.+++.... +.|..|.+++.+.+
T Consensus 150 p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~~tiii~sH~~~ 193 (214)
T cd03297 150 PELLLLDEPFSALDRALRLQLLPELKQIKKNLNIPVIFVTHDLS 193 (214)
T ss_pred CCEEEEcCCcccCCHHHHHHHHHHHHHHHHHcCcEEEEEecCHH
Confidence 36899999999889999999988665554 45778888886543
No 114
>cd03240 ABC_Rad50 The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains. The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.
Probab=25.46 E-value=2.4e+02 Score=25.26 Aligned_cols=44 Identities=9% Similarity=0.073 Sum_probs=34.0
Q ss_pred ccEEEEecCccccchhHhHH-HHHHHHHHHHcc-CCEEEEECCCCC
Q 042331 308 VQTLLITDDLFRNFEIATRK-KYVDLVNSVKDS-GGTAHIFSSMHF 351 (378)
Q Consensus 308 V~tLLI~d~l~r~~d~~~r~-~~~~lve~v~~~-g~~V~ivs~~~~ 351 (378)
=-.+++.|+-+..-|+..+. .+.+++....+. |..|.+++.+.+
T Consensus 139 ~p~illlDEP~~~LD~~~~~~~l~~~l~~~~~~~~~~iiiitH~~~ 184 (204)
T cd03240 139 NCGILALDEPTTNLDEENIEESLAEIIEERKSQKNFQLIVITHDEE 184 (204)
T ss_pred CCCEEEEcCCccccCHHHHHHHHHHHHHHHHhccCCEEEEEEecHH
Confidence 34788888888888888888 888877766655 778888886643
No 115
>PRK13651 cobalt transporter ATP-binding subunit; Provisional
Probab=25.39 E-value=1.2e+02 Score=29.26 Aligned_cols=42 Identities=12% Similarity=0.206 Sum_probs=35.2
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.|||.|+-+.+-|+..+..+.+++....+.|..|.+++.+.+
T Consensus 185 ~lLlLDEPt~~LD~~~~~~l~~~l~~l~~~g~tiiivtHd~~ 226 (305)
T PRK13651 185 DFLVFDEPTAGLDPQGVKEILEIFDNLNKQGKTIILVTHDLD 226 (305)
T ss_pred CEEEEeCCCCCCCHHHHHHHHHHHHHHHHCCCEEEEEeeCHH
Confidence 689999999998999999999977777667888888887654
No 116
>PRK09580 sufC cysteine desulfurase ATPase component; Reviewed
Probab=25.39 E-value=1.3e+02 Score=27.53 Aligned_cols=43 Identities=26% Similarity=0.236 Sum_probs=34.7
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
-.+|+.|+-+.+-|+..++.+.+++....+.|+.|.+++.+.+
T Consensus 164 p~illLDEPt~~LD~~~~~~l~~~l~~l~~~~~tiii~sH~~~ 206 (248)
T PRK09580 164 PELCILDESDSGLDIDALKIVADGVNSLRDGKRSFIIVTHYQR 206 (248)
T ss_pred CCEEEEeCCCccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence 3688889999888999999998877776667888888887654
No 117
>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=25.33 E-value=1.3e+02 Score=27.15 Aligned_cols=42 Identities=17% Similarity=0.209 Sum_probs=34.0
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.||+.|+-+.+-|+..++.+.+++....+.|..|.+++.+.+
T Consensus 153 ~llllDEPt~~LD~~~~~~~~~~l~~~~~~~~tii~~sH~~~ 194 (232)
T cd03218 153 KFLLLDEPFAGVDPIAVQDIQKIIKILKDRGIGVLITDHNVR 194 (232)
T ss_pred CEEEecCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence 688999999988999999999977776667778888876543
No 118
>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=25.15 E-value=1.5e+02 Score=26.36 Aligned_cols=42 Identities=29% Similarity=0.299 Sum_probs=33.6
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..++.+.+++....+.|..+.+++.+.+
T Consensus 146 ~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~tH~~~ 187 (208)
T cd03268 146 DLLILDEPTNGLDPDGIKELRELILSLRDQGITVLISSHLLS 187 (208)
T ss_pred CEEEECCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEcCCHH
Confidence 689999999888999999998877766667777888875543
No 119
>PF03485 Arg_tRNA_synt_N: Arginyl tRNA synthetase N terminal domain; InterPro: IPR005148 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This domain is found at the N terminus of Arginyl tRNA synthetase, also called additional domain 1 (Add-1). It is about 140 residues long and it has been suggested that this domain will be involved in tRNA recognition [].; GO: 0000166 nucleotide binding, 0004814 arginine-tRNA ligase activity, 0005524 ATP binding, 0006420 arginyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1F7V_A 1F7U_A 1BS2_A 2ZUE_A 2ZUF_A 1IQ0_A 3GDZ_B.
Probab=25.04 E-value=82 Score=23.99 Aligned_cols=34 Identities=18% Similarity=0.346 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHhccccc-CccEEEEECCccC
Q 042331 180 SALNKFFDSVLHAFLKHVDFN-VVRCAVIASPGFT 213 (378)
Q Consensus 180 ~~~~~f~~~v~~~l~~~~~~~-~~~~iiIaGpg~~ 213 (378)
+.+++-=.++++.+.+.+... .++.+=++||||.
T Consensus 47 k~~k~~P~~iA~~i~~~l~~~~~i~~vev~gpGFi 81 (85)
T PF03485_consen 47 KKLKKNPREIAEEIAEKLEKSPIIEKVEVAGPGFI 81 (85)
T ss_dssp HHTTS-HHHHHHHHHHCHCTTTTEEEEEEETTTEE
T ss_pred HHcCCCHHHHHHHHHHhcCCCCCEEEEEEcCCcEE
Confidence 344455567788887777533 3889999999985
No 120
>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional
Probab=24.86 E-value=1.3e+02 Score=27.15 Aligned_cols=42 Identities=24% Similarity=0.301 Sum_probs=33.7
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHH-HccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSV-KDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v-~~~g~~V~ivs~~~~ 351 (378)
.||+.|+-+.+-|+..++.+.+++... ++.|..|.++|.+.+
T Consensus 166 ~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~~tii~~sH~~~ 208 (228)
T PRK10584 166 DVLFADEPTGNLDRQTGDKIADLLFSLNREHGTTLILVTHDLQ 208 (228)
T ss_pred CEEEEeCCCCCCCHHHHHHHHHHHHHHHHhcCCEEEEEecCHH
Confidence 589999999998999999998866665 445888888886654
No 121
>PRK03695 vitamin B12-transporter ATPase; Provisional
Probab=24.86 E-value=1.3e+02 Score=27.70 Aligned_cols=42 Identities=17% Similarity=0.213 Sum_probs=34.7
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.||+.|+-+.+-|+..++.+.+++....+.|..|.+++.+.+
T Consensus 153 ~llllDEPt~~LD~~~~~~l~~~L~~~~~~~~tvi~~sH~~~ 194 (248)
T PRK03695 153 QLLLLDEPMNSLDVAQQAALDRLLSELCQQGIAVVMSSHDLN 194 (248)
T ss_pred CEEEEcCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEecCHH
Confidence 699999999998999999999977776666888888886654
No 122
>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional
Probab=24.78 E-value=1.3e+02 Score=27.39 Aligned_cols=42 Identities=14% Similarity=0.199 Sum_probs=34.1
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..+..+.+++....+.|..|.+++.+.+
T Consensus 157 ~llllDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~sH~~~ 198 (241)
T PRK10895 157 KFILLDEPFAGVDPISVIDIKRIIEHLRDSGLGVLITDHNVR 198 (241)
T ss_pred CEEEEcCCcccCCHHHHHHHHHHHHHHHhcCCEEEEEEcCHH
Confidence 688999998888998999988877776667888888886543
No 123
>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=24.77 E-value=1.1e+02 Score=26.51 Aligned_cols=43 Identities=19% Similarity=0.219 Sum_probs=33.9
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHcc-CCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDS-GGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~-g~~V~ivs~~~~ 351 (378)
-.++|.|+-+.+-|+..+..+.+++....+. |..+.+++.+.+
T Consensus 119 p~llilDEP~~~LD~~~~~~l~~~l~~~~~~~~~tiii~sH~~~ 162 (178)
T cd03229 119 PDVLLLDEPTSALDPITRREVRALLKSLQAQLGITVVLVTHDLD 162 (178)
T ss_pred CCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence 3688999999888999999999977666555 777888886654
No 124
>PRK11231 fecE iron-dicitrate transporter ATP-binding subunit; Provisional
Probab=24.47 E-value=1.4e+02 Score=27.69 Aligned_cols=43 Identities=12% Similarity=0.166 Sum_probs=34.2
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
-.||+.|+-+.+-|+..++.+.+++....+.|..|.+++.+.+
T Consensus 157 p~llllDEP~~~LD~~~~~~l~~~l~~l~~~~~tiii~tH~~~ 199 (255)
T PRK11231 157 TPVVLLDEPTTYLDINHQVELMRLMRELNTQGKTVVTVLHDLN 199 (255)
T ss_pred CCEEEEcCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEECCHH
Confidence 4789999999998999999998977666666778888876544
No 125
>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=24.25 E-value=1.5e+02 Score=26.50 Aligned_cols=43 Identities=14% Similarity=0.238 Sum_probs=33.6
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHH-HccCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSV-KDSGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v-~~~g~~V~ivs~~~~ 351 (378)
-.+|+.|+-+.+-|+..+..+.+++... ++.|..|.+++.+.+
T Consensus 149 p~~lllDEPt~~LD~~~~~~l~~~l~~~~~~~~~tii~~sH~~~ 192 (213)
T cd03259 149 PSLLLLDEPLSALDAKLREELREELKELQRELGITTIYVTHDQE 192 (213)
T ss_pred CCEEEEcCCcccCCHHHHHHHHHHHHHHHHHcCCEEEEEecCHH
Confidence 3689999999988999999998966654 446888888886543
No 126
>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=24.21 E-value=1.4e+02 Score=26.75 Aligned_cols=43 Identities=16% Similarity=0.182 Sum_probs=33.5
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHH-ccCCEEEEECCCCCc
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVK-DSGGTAHIFSSMHFS 352 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~-~~g~~V~ivs~~~~~ 352 (378)
.||+.|+-+.+-|+..+..+.+++.... +.|..|.+++.+.+.
T Consensus 151 ~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~~tvi~~tH~~~~ 194 (220)
T cd03265 151 EVLFLDEPTIGLDPQTRAHVWEYIEKLKEEFGMTILLTTHYMEE 194 (220)
T ss_pred CEEEEcCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHH
Confidence 6899999999989998988888665544 458888888876543
No 127
>PRK13537 nodulation ABC transporter NodI; Provisional
Probab=24.15 E-value=1.6e+02 Score=28.35 Aligned_cols=42 Identities=14% Similarity=0.170 Sum_probs=34.2
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.||+.|+-..+-|+..|+.+.+++....+.|..|.++|...+
T Consensus 158 ~lllLDEPt~gLD~~~~~~l~~~l~~l~~~g~till~sH~l~ 199 (306)
T PRK13537 158 DVLVLDEPTTGLDPQARHLMWERLRSLLARGKTILLTTHFME 199 (306)
T ss_pred CEEEEeCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEECCCHH
Confidence 688899988888999999999977777667888877776554
No 128
>TIGR03873 F420-0_ABC_ATP proposed F420-0 ABC transporter, ATP-binding protein. This small clade of ABC-type transporter ATP-binding protein components is found as a three gene cassette along with a periplasmic substrate-binding protein (TIGR03868) and a permease (TIGR03869). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with a F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this ATP-binding protein is a component of an F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.
Probab=23.83 E-value=1.4e+02 Score=27.56 Aligned_cols=43 Identities=16% Similarity=0.164 Sum_probs=35.1
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCc
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFS 352 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~ 352 (378)
.|++.|+-+.+-|+..+..+.+++....+.|..|.+++.+.+.
T Consensus 157 ~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~tiii~sH~~~~ 199 (256)
T TIGR03873 157 KLLLLDEPTNHLDVRAQLETLALVRELAATGVTVVAALHDLNL 199 (256)
T ss_pred CEEEEcCccccCCHHHHHHHHHHHHHHHhcCCEEEEEeCCHHH
Confidence 6899999998889999999999777776678888888866543
No 129
>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors. The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in
Probab=23.76 E-value=1.5e+02 Score=26.84 Aligned_cols=41 Identities=12% Similarity=0.104 Sum_probs=33.9
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMH 350 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~ 350 (378)
.+|+.|+-+..-|+..+..+.+++....+.|..+++++.+.
T Consensus 163 ~illlDEP~~gLD~~~~~~~~~~l~~~~~~~~tiii~sh~~ 203 (226)
T cd03234 163 KVLILDEPTSGLDSFTALNLVSTLSQLARRNRIVILTIHQP 203 (226)
T ss_pred CEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEecCC
Confidence 78899999988899999999997777666688888888664
No 130
>cd03286 ABC_MSH6_euk MutS6 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c
Probab=23.76 E-value=2.2e+02 Score=26.10 Aligned_cols=55 Identities=15% Similarity=0.149 Sum_probs=39.9
Q ss_pred cEEEEecCccccchhHhHHHHHH-HHHHHHcc-CCEEEEECCCCCcccccccCccEE
Q 042331 309 QTLLITDDLFRNFEIATRKKYVD-LVNSVKDS-GGTAHIFSSMHFSGEQLGQLTGVA 363 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~-lve~v~~~-g~~V~ivs~~~~~G~~L~~lgGIa 363 (378)
.+|++.||+.+.-++.....+.. +++...+. |..+++++..++....+....++.
T Consensus 110 ~sLvLlDE~~~Gt~~~dg~~la~ail~~L~~~~~~~~i~~TH~~el~~~~~~~~~v~ 166 (218)
T cd03286 110 DSLVILDELGRGTSTHDGYAIAHAVLEYLVKKVKCLTLFSTHYHSLCDEFHEHGGVR 166 (218)
T ss_pred CeEEEEecccCCCCchHHHHHHHHHHHHHHHhcCCcEEEEeccHHHHHHhhcCcceE
Confidence 48999999998877666666555 45555555 889999998887766666555554
No 131
>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=23.71 E-value=1.4e+02 Score=26.82 Aligned_cols=42 Identities=19% Similarity=0.301 Sum_probs=33.1
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHc-cCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKD-SGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~-~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..++.+.+++....+ .|..|.+++.+.+
T Consensus 165 ~lllLDEPt~~LD~~~~~~l~~~l~~~~~~~~~tii~~sH~~~ 207 (228)
T cd03257 165 KLLIADEPTSALDVSVQAQILDLLKKLQEELGLTLLFITHDLG 207 (228)
T ss_pred CEEEecCCCCCCCHHHHHHHHHHHHHHHHHcCCEEEEEeCCHH
Confidence 68999999988899999999886665544 4888888886654
No 132
>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI. This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.
Probab=23.59 E-value=1.5e+02 Score=28.31 Aligned_cols=42 Identities=19% Similarity=0.186 Sum_probs=34.4
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.||+.|+-..+-|+..|..+.+++....+.|..|.++|.+.+
T Consensus 155 ~lllLDEPt~gLD~~~~~~l~~~l~~~~~~g~til~~sH~~~ 196 (303)
T TIGR01288 155 QLLILDEPTTGLDPHARHLIWERLRSLLARGKTILLTTHFME 196 (303)
T ss_pred CEEEEeCCCcCCCHHHHHHHHHHHHHHHhCCCEEEEECCCHH
Confidence 688899998888999999999977776667888888886654
No 133
>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=23.46 E-value=1.5e+02 Score=26.48 Aligned_cols=41 Identities=17% Similarity=0.350 Sum_probs=32.7
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHc-cCCEEEEECCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKD-SGGTAHIFSSMH 350 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~-~g~~V~ivs~~~ 350 (378)
.||+.|+-+.+-|+..+..+.+++....+ .|..|.++|.+.
T Consensus 160 ~lllLDEP~~~LD~~~~~~l~~~l~~~~~~~~~tii~~sH~~ 201 (218)
T cd03255 160 KIILADEPTGNLDSETGKEVMELLRELNKEAGTTIVVVTHDP 201 (218)
T ss_pred CEEEEcCCcccCCHHHHHHHHHHHHHHHHhcCCeEEEEECCH
Confidence 68999999888899999999996666554 577888888654
No 134
>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional
Probab=23.33 E-value=1.6e+02 Score=26.82 Aligned_cols=42 Identities=12% Similarity=0.213 Sum_probs=33.9
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHc-cCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKD-SGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~-~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..+..+.+++....+ .|..|.+++.+.+
T Consensus 165 ~lllLDEPt~~LD~~~~~~l~~~l~~~~~~~g~tvii~sH~~~ 207 (233)
T PRK11629 165 RLVLADEPTGNLDARNADSIFQLLGELNRLQGTAFLVVTHDLQ 207 (233)
T ss_pred CEEEEeCCCCCCCHHHHHHHHHHHHHHHHhCCCEEEEEeCCHH
Confidence 68899999988899999999997777654 5778888886654
No 135
>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. 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=23.28 E-value=1.4e+02 Score=27.08 Aligned_cols=42 Identities=14% Similarity=0.161 Sum_probs=33.8
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHc-cCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKD-SGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~-~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..++.+.+++....+ .|..|.++|.+.+
T Consensus 150 ~llllDEP~~gLD~~~~~~l~~~l~~~~~~~~~tiii~sh~~~ 192 (232)
T cd03300 150 KVLLLDEPLGALDLKLRKDMQLELKRLQKELGITFVFVTHDQE 192 (232)
T ss_pred CEEEEcCCcccCCHHHHHHHHHHHHHHHHHcCCEEEEEeCCHH
Confidence 58888999988899999999887766554 5888988887654
No 136
>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=23.18 E-value=1.4e+02 Score=27.22 Aligned_cols=42 Identities=17% Similarity=0.222 Sum_probs=33.0
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHc-cCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKD-SGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~-~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..++.+.+++....+ .|..|.+++.+-+
T Consensus 156 ~llllDEP~~~LD~~~~~~l~~~l~~~~~~~~~tvii~sH~~~ 198 (239)
T cd03296 156 KVLLLDEPFGALDAKVRKELRRWLRRLHDELHVTTVFVTHDQE 198 (239)
T ss_pred CEEEEcCCcccCCHHHHHHHHHHHHHHHHHcCCEEEEEeCCHH
Confidence 68999999998899999999996666544 5778888876544
No 137
>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional
Probab=23.18 E-value=1.4e+02 Score=27.76 Aligned_cols=44 Identities=18% Similarity=0.158 Sum_probs=34.5
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHH-ccCCEEEEECCCCCc
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVK-DSGGTAHIFSSMHFS 352 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~-~~g~~V~ivs~~~~~ 352 (378)
-.|||.|+-+.+-|+..++.+.+++.... +.|..|.+++.+.+.
T Consensus 166 p~lllLDEPt~~LD~~~~~~~~~~l~~l~~~~~~tiii~sH~~~~ 210 (265)
T PRK10575 166 SRCLLLDEPTSALDIAHQVDVLALVHRLSQERGLTVIAVLHDINM 210 (265)
T ss_pred CCEEEEcCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHH
Confidence 36888999999989999999999666654 458888888876543
No 138
>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional
Probab=23.16 E-value=1.5e+02 Score=27.31 Aligned_cols=42 Identities=12% Similarity=0.175 Sum_probs=33.4
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHc-cCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKD-SGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~-~g~~V~ivs~~~~ 351 (378)
.||+.|+-+.+-|+..+..+.+++....+ .|..|.+++.+.+
T Consensus 173 ~llllDEPt~~LD~~~~~~l~~~L~~~~~~~~~tii~~sH~~~ 215 (255)
T PRK11300 173 EILMLDEPAAGLNPKETKELDELIAELRNEHNVTVLLIEHDMK 215 (255)
T ss_pred CEEEEcCCccCCCHHHHHHHHHHHHHHHhhcCCEEEEEeCCHH
Confidence 68999999998899999999996666655 4888888876544
No 139
>PRK15080 ethanolamine utilization protein EutJ; Provisional
Probab=23.10 E-value=1.8e+02 Score=27.37 Aligned_cols=45 Identities=7% Similarity=0.082 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHhcccccCccEEEEECCccCHHHHHHHHHHHH
Q 042331 181 ALNKFFDSVLHAFLKHVDFNVVRCAVIASPGFTKDQFHRYLLLEA 225 (378)
Q Consensus 181 ~~~~f~~~v~~~l~~~~~~~~~~~iiIaGpg~~k~~f~~~l~~~~ 225 (378)
.++.+++++.+.+.+.+....+..|+++|-+-.-..+.+++.+.+
T Consensus 201 ii~~~~~~i~~~i~~~l~~~~~~~IvLtGG~s~lpgl~e~l~~~l 245 (267)
T PRK15080 201 VVKPVVEKMASIVARHIEGQDVEDIYLVGGTCCLPGFEEVFEKQT 245 (267)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCEEEEECCcccchhHHHHHHHHh
Confidence 345677777777777776677889999998877777777777766
No 140
>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=23.06 E-value=1.7e+02 Score=26.38 Aligned_cols=43 Identities=21% Similarity=0.235 Sum_probs=34.7
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCc
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFS 352 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~ 352 (378)
.+|+.|+-+.+-|+..++.+.+++....+.|..+.+++.+.+.
T Consensus 144 ~llllDEP~~~LD~~~~~~l~~~L~~~~~~~~tiii~sH~~~~ 186 (223)
T TIGR03740 144 KLLILDEPTNGLDPIGIQELRELIRSFPEQGITVILSSHILSE 186 (223)
T ss_pred CEEEECCCccCCCHHHHHHHHHHHHHHHHCCCEEEEEcCCHHH
Confidence 6889999998889999999989776666668888888876543
No 141
>PRK13644 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=22.88 E-value=1.5e+02 Score=27.89 Aligned_cols=43 Identities=12% Similarity=0.139 Sum_probs=34.5
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
-.||+.|+-+.+-|+..+..+.+++....+.|..|.+++.+.+
T Consensus 155 p~lllLDEPt~gLD~~~~~~l~~~l~~l~~~g~til~~tH~~~ 197 (274)
T PRK13644 155 PECLIFDEVTSMLDPDSGIAVLERIKKLHEKGKTIVYITHNLE 197 (274)
T ss_pred CCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEecCHH
Confidence 3689999999998999999999977766666888888875543
No 142
>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D. This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.
Probab=22.86 E-value=1.6e+02 Score=26.76 Aligned_cols=42 Identities=14% Similarity=0.189 Sum_probs=32.8
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHH-HccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSV-KDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v-~~~g~~V~ivs~~~~ 351 (378)
.+||.|+-+.+-|+..+..+.+++... ++.|..|.++|.+.+
T Consensus 134 ~lllLDEPt~gLD~~~~~~l~~~l~~~~~~~~~tii~~sH~~~ 176 (230)
T TIGR01184 134 KVLLLDEPFGALDALTRGNLQEELMQIWEEHRVTVLMVTHDVD 176 (230)
T ss_pred CEEEEcCCCcCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence 688899999888999999998966554 445778888886543
No 143
>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=22.81 E-value=1.5e+02 Score=27.67 Aligned_cols=43 Identities=16% Similarity=0.200 Sum_probs=34.1
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
-.+|+.|+-+.+-|+..+..+.+++....+.|..|.+++.+.+
T Consensus 155 p~lllLDEPt~~LD~~~~~~l~~~l~~~~~~g~tii~vtH~~~ 197 (271)
T PRK13638 155 ARYLLLDEPTAGLDPAGRTQMIAIIRRIVAQGNHVIISSHDID 197 (271)
T ss_pred CCEEEEeCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence 3688889998888999999999977776666878888876543
No 144
>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=22.78 E-value=1.5e+02 Score=27.01 Aligned_cols=43 Identities=21% Similarity=0.176 Sum_probs=34.2
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHc-cCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKD-SGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~-~g~~V~ivs~~~~ 351 (378)
-.||+.|+-+.+-|+..+..+.+++....+ .|..|.+++.+.+
T Consensus 155 p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~~tvi~vsH~~~ 198 (235)
T cd03261 155 PELLLYDEPTAGLDPIASGVIDDLIRSLKKELGLTSIMVTHDLD 198 (235)
T ss_pred CCEEEecCCcccCCHHHHHHHHHHHHHHHHhcCcEEEEEecCHH
Confidence 368999999998899999999887766555 5888888886554
No 145
>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=22.71 E-value=1.3e+02 Score=26.01 Aligned_cols=41 Identities=12% Similarity=0.140 Sum_probs=32.3
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+..-|+..++.+.+++.... .|..|.+++.+.+
T Consensus 118 ~~lllDEP~~~LD~~~~~~l~~~l~~~~-~~~tii~~sh~~~ 158 (178)
T cd03247 118 PIVLLDEPTVGLDPITERQLLSLIFEVL-KDKTLIWITHHLT 158 (178)
T ss_pred CEEEEECCcccCCHHHHHHHHHHHHHHc-CCCEEEEEecCHH
Confidence 5888999988889888989988777664 4777888876554
No 146
>cd07391 MPP_PF1019 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain. This family includes bacterial and archeal proteins homologous to PF1019, an uncharacterized Pyrococcus furiosus protein. The domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for pro
Probab=22.68 E-value=2.6e+02 Score=24.16 Aligned_cols=56 Identities=16% Similarity=0.212 Sum_probs=34.5
Q ss_pred HHHHHHccCccEEEEecCccccchhHhHHHHHHH-HHHHHccCCEEEEECCCCCccc
Q 042331 299 VEVAHERMAVQTLLITDDLFRNFEIATRKKYVDL-VNSVKDSGGTAHIFSSMHFSGE 354 (378)
Q Consensus 299 V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~l-ve~v~~~g~~V~ivs~~~~~G~ 354 (378)
+...++....+.|++.=+++.......+.....+ .......+.+|+++..+|+.+-
T Consensus 33 l~~~~~~~~~d~lii~GDl~~~~~~~~~~~~~~~~~~~~~~~~~~v~~i~GNHD~~~ 89 (172)
T cd07391 33 LDRLIEEYGPERLIILGDLKHSFGGLSRQEFEEVAFLRLLAKDVDVILIRGNHDGGL 89 (172)
T ss_pred HHHHHHhcCCCEEEEeCcccccccccCHHHHHHHHHHHhccCCCeEEEEcccCccch
Confidence 4444555668999999888743321112122111 3444567889999999999743
No 147
>PRK13643 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=22.17 E-value=1.6e+02 Score=28.01 Aligned_cols=42 Identities=19% Similarity=0.319 Sum_probs=34.3
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-...-|+..++.+.+++....+.|..|.+++.+.+
T Consensus 164 ~illLDEPt~gLD~~~~~~l~~~l~~l~~~g~til~vtHd~~ 205 (288)
T PRK13643 164 EVLVLDEPTAGLDPKARIEMMQLFESIHQSGQTVVLVTHLMD 205 (288)
T ss_pred CEEEEECCccCCCHHHHHHHHHHHHHHHHCCCEEEEEecCHH
Confidence 588889988888999999999987777667888888886643
No 148
>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=22.11 E-value=1.6e+02 Score=27.16 Aligned_cols=43 Identities=16% Similarity=0.254 Sum_probs=33.6
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHH-ccCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVK-DSGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~-~~g~~V~ivs~~~~ 351 (378)
-.+|+.|+-+.+-|+..++.+.+++.... +.|..|.+++.+.+
T Consensus 167 p~vlllDEP~~~LD~~~~~~l~~~l~~~~~~~~~tii~vsH~~~ 210 (253)
T TIGR02323 167 PRLVFMDEPTGGLDVSVQARLLDLLRGLVRDLGLAVIIVTHDLG 210 (253)
T ss_pred CCEEEEcCCCccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence 36888899998889999999989776654 45888888886543
No 149
>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional
Probab=22.07 E-value=1.6e+02 Score=27.38 Aligned_cols=42 Identities=12% Similarity=0.175 Sum_probs=34.2
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHH-ccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVK-DSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~-~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..+..+.+++.... +.|..|.++|.+.+
T Consensus 160 ~lllLDEPt~~LD~~~~~~l~~~l~~~~~~~~~tiii~sH~~~ 202 (258)
T PRK13548 160 RWLLLDEPTSALDLAHQHHVLRLARQLAHERGLAVIVVLHDLN 202 (258)
T ss_pred CEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEECCHH
Confidence 7999999999889999999989666655 67888888886654
No 150
>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=22.01 E-value=1.6e+02 Score=27.73 Aligned_cols=42 Identities=19% Similarity=0.297 Sum_probs=33.4
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.||+.|+-+..-|+..++.+.+++....+.|..|.+++.+.+
T Consensus 165 ~lllLDEPt~~LD~~~~~~l~~~l~~~~~~~~tiiivsH~~~ 206 (280)
T PRK13649 165 KILVLDEPTAGLDPKGRKELMTLFKKLHQSGMTIVLVTHLMD 206 (280)
T ss_pred CEEEEeCCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeccHH
Confidence 689999999888999999998877666556888888886543
No 151
>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional
Probab=21.99 E-value=1.6e+02 Score=30.47 Aligned_cols=44 Identities=11% Similarity=0.230 Sum_probs=36.9
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCc
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFS 352 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~ 352 (378)
-.|||.||-+..-|+..+..+.+++....+.|..|.++|.+-+.
T Consensus 415 p~lllLDEPt~~LD~~~~~~l~~~l~~l~~~g~tviivsHd~~~ 458 (501)
T PRK11288 415 MKVILLDEPTRGIDVGAKHEIYNVIYELAAQGVAVLFVSSDLPE 458 (501)
T ss_pred CCEEEEcCCCCCCCHhHHHHHHHHHHHHHhCCCEEEEECCCHHH
Confidence 37999999999999999999999877777778899999976543
No 152
>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=21.95 E-value=1.4e+02 Score=27.17 Aligned_cols=41 Identities=15% Similarity=0.246 Sum_probs=33.0
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..+..+.+++....+ |..|.+++.+.+
T Consensus 157 ~llllDEP~~~LD~~~~~~l~~~l~~~~~-~~tiii~sh~~~ 197 (236)
T cd03253 157 PILLLDEATSALDTHTEREIQAALRDVSK-GRTTIVIAHRLS 197 (236)
T ss_pred CEEEEeCCcccCCHHHHHHHHHHHHHhcC-CCEEEEEcCCHH
Confidence 68999999988899999999997777666 777877776543
No 153
>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP. Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=21.87 E-value=1.7e+02 Score=25.97 Aligned_cols=43 Identities=21% Similarity=0.316 Sum_probs=34.1
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHH-ccCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVK-DSGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~-~~g~~V~ivs~~~~ 351 (378)
-.+|+.|+-+.+-|+..+..+.+++.... +.|..+.+++.+.+
T Consensus 147 p~llllDEP~~~LD~~~~~~l~~~l~~~~~~~~~tii~~sH~~~ 190 (211)
T cd03298 147 KPVLLLDEPFAALDPALRAEMLDLVLDLHAETKMTVLMVTHQPE 190 (211)
T ss_pred CCEEEEcCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEecCHH
Confidence 46899999999889999999988666654 56888888886654
No 154
>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]
Probab=21.82 E-value=1.5e+02 Score=28.45 Aligned_cols=56 Identities=20% Similarity=0.350 Sum_probs=38.3
Q ss_pred EECH-HHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECC
Q 042331 293 CYGP-KHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSS 348 (378)
Q Consensus 293 ~yG~-~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~ 348 (378)
..|. .-+.-|...-.=-.|||.|+-...-||..|..+.+++....+.|+..+++|+
T Consensus 138 S~G~kqrl~ia~aL~~~P~lliLDEPt~GLDp~~~~~~~~~l~~l~~~g~~tvliss 194 (293)
T COG1131 138 SGGMKQRLSIALALLHDPELLILDEPTSGLDPESRREIWELLRELAKEGGVTILLST 194 (293)
T ss_pred CHHHHHHHHHHHHHhcCCCEEEECCCCcCCCHHHHHHHHHHHHHHHhCCCcEEEEeC
Confidence 3444 3344444443334899999999999999999999977777777754444544
No 155
>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=21.80 E-value=1.6e+02 Score=26.63 Aligned_cols=42 Identities=14% Similarity=0.211 Sum_probs=33.2
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHc-cCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKD-SGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~-~g~~V~ivs~~~~ 351 (378)
.|||.|+-+.+-|+..+..+.+++....+ .|..|.+++.+.+
T Consensus 160 ~lllLDEP~~~LD~~~~~~l~~~l~~~~~~~~~tvii~sH~~~ 202 (233)
T cd03258 160 KVLLCDEATSALDPETTQSILALLRDINRELGLTIVLITHEME 202 (233)
T ss_pred CEEEecCCCCcCCHHHHHHHHHHHHHHHHHcCCEEEEEeCCHH
Confidence 68999999999899999999996666544 5778888876543
No 156
>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=21.80 E-value=1.6e+02 Score=27.80 Aligned_cols=43 Identities=16% Similarity=0.210 Sum_probs=34.6
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHc-cCCEEEEECCCCCc
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKD-SGGTAHIFSSMHFS 352 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~-~g~~V~ivs~~~~~ 352 (378)
.||+.|+-+.+-|+..+..+.+++....+ .|..|.+++.+.+.
T Consensus 160 ~lllLDEPt~gLD~~~~~~l~~~l~~l~~~~~~tilivsH~~~~ 203 (279)
T PRK13635 160 DIIILDEATSMLDPRGRREVLETVRQLKEQKGITVLSITHDLDE 203 (279)
T ss_pred CEEEEeCCcccCCHHHHHHHHHHHHHHHHcCCCEEEEEecCHHH
Confidence 68999999999999999999996666554 58889888876553
No 157
>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein. This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.
Probab=21.78 E-value=1.7e+02 Score=26.17 Aligned_cols=43 Identities=16% Similarity=0.247 Sum_probs=34.4
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHc-cCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKD-SGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~-~g~~V~ivs~~~~ 351 (378)
-.+++.|+-+.+-|+..++.+.+++....+ .|..|.+++.+.+
T Consensus 147 p~llllDEPt~~LD~~~~~~~~~~l~~~~~~~~~tii~vsh~~~ 190 (213)
T TIGR01277 147 NPILLLDEPFSALDPLLREEMLALVKQLCSERQRTLLMVTHHLS 190 (213)
T ss_pred CCEEEEcCCCccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence 469999999999999999999997776654 5788888886654
No 158
>PRK13639 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=21.74 E-value=1.6e+02 Score=27.64 Aligned_cols=43 Identities=12% Similarity=0.109 Sum_probs=35.2
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCc
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFS 352 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~ 352 (378)
.|||.|+-+.+-|+..+..+.+++....+.|..|.+++.+.+.
T Consensus 157 ~llllDEPt~gLD~~~~~~l~~~l~~l~~~~~til~vtH~~~~ 199 (275)
T PRK13639 157 EIIVLDEPTSGLDPMGASQIMKLLYDLNKEGITIIISTHDVDL 199 (275)
T ss_pred CEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEecCHHH
Confidence 6888899998889999999999777665568889999877653
No 159
>PF04628 Sedlin_N: Sedlin, N-terminal conserved region; InterPro: IPR006722 Sedlin is a 140 amino-acid protein with a putative role in endoplasmic reticulum-to-Golgi transport. Several missense mutations and deletion mutations in the SEDL gene, which result in protein truncation by frame shift, are responsible for spondyloepiphyseal dysplasia tarda, a progressive skeletal disorder (OMIM:313400). [].; GO: 0006888 ER to Golgi vesicle-mediated transport, 0005622 intracellular; PDB: 3PR6_A 2J3W_A 1H3Q_A.
Probab=21.74 E-value=4.7e+02 Score=21.70 Aligned_cols=71 Identities=14% Similarity=0.093 Sum_probs=50.0
Q ss_pred hhHHHHHHhhcc-cCCCcEEEEEEECCeeEEEEEecceEEEEEEEEeecCCCCCCchhhhHHHHHHHHHHHHHHHHhcc
Q 042331 120 VALDTLHQASDS-AATADLAVVLMQEGLANIFLVGRSMTITRSRIETSIPRKHGPAVARYESALNKFFDSVLHAFLKHV 197 (378)
Q Consensus 120 ~~l~~L~~a~~~-~~~~~~~~vvvd~g~A~i~~l~~~~~~~~~~i~~~ip~K~~~g~s~~e~~~~~f~~~v~~~l~~~~ 197 (378)
-.|+.+++.+.. ....-++.+---++-..-+.++..+++.+--+... .....+..++.||++|-+.-.+.+
T Consensus 35 ~sLD~iee~~~~~~~~~yLg~l~~~~~~~vygyvT~t~~Kfvl~~~~~-------~~~~~d~~ik~fF~~vh~~Y~~~~ 106 (132)
T PF04628_consen 35 SSLDVIEEKLWKSSSDMYLGLLDPFEDYKVYGYVTNTGIKFVLVHDMS-------DNSIRDEDIKQFFKEVHELYVKAL 106 (132)
T ss_dssp HHHHHHHHCCHCSSSCSEEEEEEEETTEEEEEEETTT--EEEEEECGG-------G-S--HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhcccccccCceehhhhHHHHhhhccCceeEEEEEecc-------cCCcchHHHHHHHHHHHHHHHHHc
Confidence 468888888877 66556688877888888888888888777655420 111257899999999998887765
No 160
>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.
Probab=21.72 E-value=1.8e+02 Score=25.78 Aligned_cols=42 Identities=17% Similarity=0.326 Sum_probs=33.2
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..+..+.+++....+.|..|.+++.+.+
T Consensus 124 ~illlDEPt~~LD~~~~~~l~~~L~~~~~~~~tiii~sh~~~ 165 (200)
T cd03217 124 DLAILDEPDSGLDIDALRLVAEVINKLREEGKSVLIITHYQR 165 (200)
T ss_pred CEEEEeCCCccCCHHHHHHHHHHHHHHHHCCCEEEEEecCHH
Confidence 588889998888888898998876666556778888886654
No 161
>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=21.66 E-value=1.5e+02 Score=26.51 Aligned_cols=42 Identities=14% Similarity=0.279 Sum_probs=33.7
Q ss_pred EEEEecCccccchhHhHHHHHH--HHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVD--LVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~--lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..+..+.+ ++....+.|..+.+++.+.+
T Consensus 160 ~illlDEPt~~LD~~~~~~l~~~~ll~~~~~~~~tii~~sH~~~ 203 (218)
T cd03290 160 NIVFLDDPFSALDIHLSDHLMQEGILKFLQDDKRTLVLVTHKLQ 203 (218)
T ss_pred CEEEEeCCccccCHHHHHHHHHHHHHHHHhcCCCEEEEEeCChH
Confidence 5888999888888888888877 77777777888888886654
No 162
>COG1083 NeuA CMP-N-acetylneuraminic acid synthetase [Cell envelope biogenesis, outer membrane]
Probab=21.63 E-value=1.1e+02 Score=28.26 Aligned_cols=40 Identities=15% Similarity=0.271 Sum_probs=33.0
Q ss_pred HHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCC
Q 042331 298 HVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSM 349 (378)
Q Consensus 298 ~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~ 349 (378)
-+..|++.+-++.++||.+- .++++.|+++|++|.+..+.
T Consensus 34 ~I~aA~ns~~fd~VviSsDs------------~~Il~~A~~ygak~~~~Rp~ 73 (228)
T COG1083 34 TIEAALNSKLFDKVVISSDS------------EEILEEAKKYGAKVFLKRPK 73 (228)
T ss_pred HHHHHhcCCccceEEEcCCc------------HHHHHHHHHhCccccccCCh
Confidence 47889999999999999764 46899999999999765543
No 163
>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional
Probab=21.51 E-value=1.7e+02 Score=27.43 Aligned_cols=43 Identities=12% Similarity=0.277 Sum_probs=33.4
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHH-ccCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVK-DSGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~-~~g~~V~ivs~~~~ 351 (378)
-.+||.|+-+.+-|+..++.+.+++.... +.|..|++++.+.+
T Consensus 168 p~lllLDEPt~~LD~~~~~~l~~~l~~~~~~~g~tviivsH~~~ 211 (267)
T PRK15112 168 PKVIIADEALASLDMSMRSQLINLMLELQEKQGISYIYVTQHLG 211 (267)
T ss_pred CCEEEEcCCcccCCHHHHHHHHHHHHHHHHHcCcEEEEEeCCHH
Confidence 46899999999889999999988666654 45778888876544
No 164
>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=21.42 E-value=1.8e+02 Score=26.06 Aligned_cols=42 Identities=17% Similarity=0.318 Sum_probs=33.6
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHH-HccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSV-KDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v-~~~g~~V~ivs~~~~ 351 (378)
.+||.|+-+.+-|+..+..+.+++... ++.|..|.+++.+.+
T Consensus 151 ~lllLDEPt~~LD~~~~~~~~~~l~~~~~~~~~tiii~sH~~~ 193 (220)
T cd03293 151 DVLLLDEPFSALDALTREQLQEELLDIWRETGKTVLLVTHDID 193 (220)
T ss_pred CEEEECCCCCCCCHHHHHHHHHHHHHHHHHcCCEEEEEecCHH
Confidence 689999999988999999999966665 456778888886554
No 165
>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system. Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.
Probab=21.40 E-value=1.7e+02 Score=26.63 Aligned_cols=42 Identities=21% Similarity=0.207 Sum_probs=33.4
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHH-ccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVK-DSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~-~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..++.+.+++.... +.|..+.+++.+.+
T Consensus 152 ~llllDEP~~~LD~~~~~~l~~~l~~~~~~~~~tiii~sH~~~ 194 (236)
T TIGR03864 152 ALLLLDEPTVGLDPASRAAIVAHVRALCRDQGLSVLWATHLVD 194 (236)
T ss_pred CEEEEcCCccCCCHHHHHHHHHHHHHHHHhCCCEEEEEecChh
Confidence 7899999999989999999988665554 46888888886654
No 166
>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional
Probab=21.22 E-value=1.7e+02 Score=27.45 Aligned_cols=42 Identities=7% Similarity=0.228 Sum_probs=34.3
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.||+.|+-...-|+..+..+.+++....+.|..|.+++.+.+
T Consensus 158 ~llllDEPt~~LD~~~~~~l~~~l~~~~~~g~tili~tH~~~ 199 (274)
T PRK13647 158 DVIVLDEPMAYLDPRGQETLMEILDRLHNQGKTVIVATHDVD 199 (274)
T ss_pred CEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHH
Confidence 688889988888999999999977776666888888886654
No 167
>PRK13547 hmuV hemin importer ATP-binding subunit; Provisional
Probab=21.21 E-value=1.6e+02 Score=27.80 Aligned_cols=43 Identities=12% Similarity=0.132 Sum_probs=34.2
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHcc-CCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDS-GGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~-g~~V~ivs~~~~ 351 (378)
-.+|+.|+-+.+-|+..+..+.+++....+. |..|.+++.+.+
T Consensus 173 p~lllLDEPt~~LD~~~~~~l~~~l~~~~~~~~~tviiisH~~~ 216 (272)
T PRK13547 173 PRYLLLDEPTAALDLAHQHRLLDTVRRLARDWNLGVLAIVHDPN 216 (272)
T ss_pred CCEEEEcCccccCCHHHHHHHHHHHHHHHHhcCCEEEEEECCHH
Confidence 4788889998888999999999977766554 788888886644
No 168
>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional
Probab=21.21 E-value=1.8e+02 Score=27.31 Aligned_cols=42 Identities=17% Similarity=0.160 Sum_probs=34.0
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..++.+.+++....+.|..+++++.+.+
T Consensus 163 ~iLlLDEPt~gLD~~~~~~l~~~L~~~~~~g~tiIiisH~~~ 204 (264)
T PRK13546 163 DILVIDEALSVGDQTFAQKCLDKIYEFKEQNKTIFFVSHNLG 204 (264)
T ss_pred CEEEEeCccccCCHHHHHHHHHHHHHHHHCCCEEEEEcCCHH
Confidence 588889988888998898998877766667888888886654
No 169
>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=21.00 E-value=1.9e+02 Score=25.91 Aligned_cols=42 Identities=14% Similarity=0.187 Sum_probs=32.5
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHH-HccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSV-KDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v-~~~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..+..+.+++... ++.|..|.+++.+.+
T Consensus 161 ~illlDEPt~~LD~~~~~~l~~~l~~~~~~~~~tii~~tH~~~ 203 (221)
T TIGR02211 161 SLVLADEPTGNLDNNNAKIIFDLMLELNRELNTSFLVVTHDLE 203 (221)
T ss_pred CEEEEeCCCCcCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence 689999999888999999998866554 445778888875543
No 170
>KOG1359 consensus Glycine C-acetyltransferase/2-amino-3-ketobutyrate-CoA ligase [Amino acid transport and metabolism]
Probab=20.84 E-value=6.3e+02 Score=24.80 Aligned_cols=103 Identities=12% Similarity=0.193 Sum_probs=61.2
Q ss_pred cEEEEEcCCCccchHHHHHHhhhHH---HHHHHHHHHHHHHHHHHHHHHhhCCCCcEEECHHHHHHHHHccCccEEEEec
Q 042331 239 RIVIVHTSSGYKHSLREVLDASNVM---NLIKETKAAQEVKVLKEFFNMLSNDPTRACYGPKHVEVAHERMAVQTLLITD 315 (378)
Q Consensus 239 ki~~~~~s~~~~~gl~Evl~~~~v~---~~l~~~~~~~e~~~l~~f~~~l~~~~~~a~yG~~~V~~A~e~GAV~tLLI~d 315 (378)
..++..+.....+|+.|++.+|+.. +.|.-..+..-..+.+++. ..-+.-+++....+.. .=-.|+++|
T Consensus 129 D~ilypscfdANag~feail~pedAvfSDeLNhASIIdGirLckry~-------h~dv~~l~~~l~~a~k-~r~klv~TD 200 (417)
T KOG1359|consen 129 DTILYPSCFDANAGAFEAILTPEDAVFSDELNHASIIDGIRLCKRYR-------HVDVFDLEHCLISACK-MRLKLVVTD 200 (417)
T ss_pred ceEEeccccccchHHHHHhcChhhhhhccccccchhhhhhHHHhhhc-------cchhHHHHHHHHHhhh-heEEEEEec
Confidence 3456777777788999999998532 3333345555555555322 1112223433332221 224689999
Q ss_pred Cccccc-hhHhHHHHHHHHHHHHccCCEEEEECCCCCcc
Q 042331 316 DLFRNF-EIATRKKYVDLVNSVKDSGGTAHIFSSMHFSG 353 (378)
Q Consensus 316 ~l~r~~-d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G 353 (378)
.+|.-. |. ..+.+|...++++|+=+ ++...|..|
T Consensus 201 g~FSMDGdi---aPl~ei~~La~kYgaLl-fiDecHaTg 235 (417)
T KOG1359|consen 201 GVFSMDGDI---APLEEISQLAKKYGALL-FIDECHATG 235 (417)
T ss_pred ceeccCCCc---ccHHHHHHHHHhcCcEE-EEeecccce
Confidence 998543 22 23567899999999965 567777654
No 171
>PRK13536 nodulation factor exporter subunit NodI; Provisional
Probab=20.80 E-value=1.8e+02 Score=28.49 Aligned_cols=42 Identities=19% Similarity=0.186 Sum_probs=33.7
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~ 351 (378)
.|||.|+-..+-|+..|..+.+++....+.|..|.++|.+.+
T Consensus 192 ~lLiLDEPt~gLD~~~r~~l~~~l~~l~~~g~tilisSH~l~ 233 (340)
T PRK13536 192 QLLILDEPTTGLDPHARHLIWERLRSLLARGKTILLTTHFME 233 (340)
T ss_pred CEEEEECCCCCCCHHHHHHHHHHHHHHHhCCCEEEEECCCHH
Confidence 688999998888999999999977666666777877776544
No 172
>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=20.61 E-value=1.8e+02 Score=26.38 Aligned_cols=43 Identities=16% Similarity=0.288 Sum_probs=33.5
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHH-HccCCEEEEECCCCCc
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSV-KDSGGTAHIFSSMHFS 352 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v-~~~g~~V~ivs~~~~~ 352 (378)
.+|+.|+-+.+-|+..+..+.+++... ++.|..|.+++.+.+.
T Consensus 164 ~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~~tii~~tH~~~~ 207 (241)
T cd03256 164 KLILADEPVASLDPASSRQVMDLLKRINREEGITVIVSLHQVDL 207 (241)
T ss_pred CEEEEeCccccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHH
Confidence 688999998888999999998866655 4458888888866543
No 173
>COG4972 PilM Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=20.59 E-value=2e+02 Score=28.37 Aligned_cols=82 Identities=5% Similarity=0.108 Sum_probs=54.6
Q ss_pred EECCeeEEEEEecceEEEEEEEEeecCCCC--------------------CCch---hhhHHHHHHHHHHHHHHHHhccc
Q 042331 142 MQEGLANIFLVGRSMTITRSRIETSIPRKH--------------------GPAV---ARYESALNKFFDSVLHAFLKHVD 198 (378)
Q Consensus 142 vd~g~A~i~~l~~~~~~~~~~i~~~ip~K~--------------------~~g~---s~~e~~~~~f~~~v~~~l~~~~~ 198 (378)
+......++++.+..+...+++.. .+.- ++++ ....+.++.|..++.+.+.+.+.
T Consensus 200 Igat~s~l~vi~~gk~ly~r~~~~--g~~Qlt~~i~r~~~L~~~~a~~~k~~~~~P~~y~~~vl~~f~~~l~~ei~Rslq 277 (354)
T COG4972 200 IGATSSELLVIQDGKILYTREVPV--GTDQLTQEIQRAYSLTEEKAEEIKRGGTLPTDYGSEVLRPFLGELTQEIRRSLQ 277 (354)
T ss_pred ecccceEEEEEECCeeeeEeeccC--cHHHHHHHHHHHhCCChhHhHHHHhCCCCCCchhHHHHHHHHHHHHHHHHHHHH
Confidence 555666788888777665554432 1110 0000 11334568999999998877653
Q ss_pred -------ccCccEEEEECCccCHHHHHHHHHHHH
Q 042331 199 -------FNVVRCAVIASPGFTKDQFHRYLLLEA 225 (378)
Q Consensus 199 -------~~~~~~iiIaGpg~~k~~f~~~l~~~~ 225 (378)
...+++|+++|||-.-..+-+++.+++
T Consensus 278 fy~~~s~~~~id~i~LaGggA~l~gL~~~i~qrl 311 (354)
T COG4972 278 FYLSQSEMVDIDQILLAGGGASLEGLAAAIQQRL 311 (354)
T ss_pred HHHhccccceeeEEEEecCCcchhhHHHHHHHHh
Confidence 446999999999998888888877776
No 174
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=20.47 E-value=2.3e+02 Score=24.86 Aligned_cols=55 Identities=11% Similarity=0.121 Sum_probs=37.4
Q ss_pred EECHHHHHHHHHc---cCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCccccc
Q 042331 293 CYGPKHVEVAHER---MAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFSGEQL 356 (378)
Q Consensus 293 ~yG~~~V~~A~e~---GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~G~~L 356 (378)
..-..=+..|+++ +.|++.++...= .++..|++.+++.|.+|++++...-....|
T Consensus 88 ~~Dv~laIDame~~~~~~iD~~vLvSgD---------~DF~~Lv~~lre~G~~V~v~g~~~~ts~~L 145 (160)
T TIGR00288 88 DVDVRMAVEAMELIYNPNIDAVALVTRD---------ADFLPVINKAKENGKETIVIGAEPGFSTAL 145 (160)
T ss_pred cccHHHHHHHHHHhccCCCCEEEEEecc---------HhHHHHHHHHHHCCCEEEEEeCCCCChHHH
Confidence 3345555666666 788886665331 267779999999999999999654333334
No 175
>cd07400 MPP_YydB Bacillus subtilis YydB and related proteins, metallophosphatase domain. YydB (BSU40220) is an uncharacterized Bacillus subtilis protein that belongs to the following Bacillus subtilis gene cluster yydB-yydC-yydD-yydG-yydH-yydI-yydJ. YydB belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productiv
Probab=20.42 E-value=3.6e+02 Score=22.02 Aligned_cols=57 Identities=9% Similarity=0.037 Sum_probs=36.8
Q ss_pred HHHHHHHHHccCccEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCc
Q 042331 296 PKHVEVAHERMAVQTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFS 352 (378)
Q Consensus 296 ~~~V~~A~e~GAV~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~ 352 (378)
++.+...++...++.++++=+++.......-..+.++++........+++++.+|+.
T Consensus 24 l~~~~~~~~~~~~d~vi~~GDl~~~~~~~~~~~~~~~~~~l~~~~~~~~~v~GNHD~ 80 (144)
T cd07400 24 LDRLLAEIKALDPDLVVITGDLTQRGLPEEFEEAREFLDALPAPLEPVLVVPGNHDV 80 (144)
T ss_pred HHHHHHHHhccCCCEEEECCCCCCCCCHHHHHHHHHHHHHccccCCcEEEeCCCCeE
Confidence 334445555567899999999886654333233444555544444589999999985
No 176
>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=20.35 E-value=2e+02 Score=25.32 Aligned_cols=42 Identities=17% Similarity=0.211 Sum_probs=32.4
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHccC-CEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKDSG-GTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g-~~V~ivs~~~~ 351 (378)
.+++.|+-+..-|+..++.+.+++....+.+ ..|.+++.+.+
T Consensus 91 ~lllLDEPts~LD~~~~~~l~~~l~~~~~~~~~tiiivsH~~~ 133 (177)
T cd03222 91 TFYLFDEPSAYLDIEQRLNAARAIRRLSEEGKKTALVVEHDLA 133 (177)
T ss_pred CEEEEECCcccCCHHHHHHHHHHHHHHHHcCCCEEEEEECCHH
Confidence 5888899888888888999988776665554 77888886654
No 177
>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional
Probab=20.33 E-value=1.9e+02 Score=26.87 Aligned_cols=43 Identities=19% Similarity=0.312 Sum_probs=34.0
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHH-HccCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSV-KDSGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v-~~~g~~V~ivs~~~~ 351 (378)
-.|||.|+-+.+-|+..+..+.+++... ++.|..|++++.+.+
T Consensus 147 p~lllLDEPt~~LD~~~~~~l~~~L~~~~~~~g~tviivsH~~~ 190 (255)
T PRK11248 147 PQLLLLDEPFGALDAFTREQMQTLLLKLWQETGKQVLLITHDIE 190 (255)
T ss_pred CCEEEEeCCCccCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence 3589999999888999999999977665 556888888886544
No 178
>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional
Probab=20.27 E-value=1.9e+02 Score=26.78 Aligned_cols=42 Identities=12% Similarity=0.267 Sum_probs=33.0
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHH-HccCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSV-KDSGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v-~~~g~~V~ivs~~~~ 351 (378)
.+||.|+-+.+-|+..+..+.+++... ++.|..|.+++.+.+
T Consensus 160 ~lLlLDEPt~~LD~~~~~~l~~~L~~~~~~~g~til~~sH~~~ 202 (254)
T PRK10418 160 PFIIADEPTTDLDVVAQARILDLLESIVQKRALGMLLVTHDMG 202 (254)
T ss_pred CEEEEeCCCcccCHHHHHHHHHHHHHHHHhcCcEEEEEecCHH
Confidence 589999998888998899998866654 456888888886644
No 179
>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional
Probab=20.18 E-value=1.8e+02 Score=26.39 Aligned_cols=44 Identities=25% Similarity=0.325 Sum_probs=34.4
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHH-HccCCEEEEECCCCCc
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSV-KDSGGTAHIFSSMHFS 352 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v-~~~g~~V~ivs~~~~~ 352 (378)
-.+||.|+-+.+-|+..++.+.+++... .+.|..|++++.+.+.
T Consensus 148 p~lllLDEP~~gLD~~~~~~~~~~l~~~~~~~~~tiii~sH~~~~ 192 (232)
T PRK10771 148 QPILLLDEPFSALDPALRQEMLTLVSQVCQERQLTLLMVSHSLED 192 (232)
T ss_pred CCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcCCEEEEEECCHHH
Confidence 3688889999888999999999977665 4458888888866553
No 180
>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=20.17 E-value=2.2e+02 Score=23.93 Aligned_cols=44 Identities=20% Similarity=0.330 Sum_probs=33.8
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHccCCEEEEECCCCCc
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKDSGGTAHIFSSMHFS 352 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~~g~~V~ivs~~~~~ 352 (378)
-.+++.|+-+.+-|+..+..+.+++....+.|..+.+++.+.+.
T Consensus 99 ~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~ 142 (157)
T cd00267 99 PDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPEL 142 (157)
T ss_pred CCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHH
Confidence 47888999998888888888888776665557778777765543
No 181
>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family.
Probab=20.16 E-value=3e+02 Score=24.14 Aligned_cols=43 Identities=14% Similarity=0.169 Sum_probs=32.0
Q ss_pred cEEEEecCccccchhHhHHHHH-HHHHHHHc-cCCEEEEECCCCC
Q 042331 309 QTLLITDDLFRNFEIATRKKYV-DLVNSVKD-SGGTAHIFSSMHF 351 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~-~lve~v~~-~g~~V~ivs~~~~ 351 (378)
..|++.||.+.+-|+..+..+. .+++...+ .|..+.+.+..++
T Consensus 79 ~~llllDEp~~g~d~~~~~~~~~~~l~~l~~~~~~~iii~TH~~~ 123 (185)
T smart00534 79 NSLVLLDELGRGTSTYDGVAIAAAVLEYLLEKIGALTLFATHYHE 123 (185)
T ss_pred CeEEEEecCCCCCCHHHHHHHHHHHHHHHHhcCCCeEEEEecHHH
Confidence 5799999999998887776654 47776655 4777777776654
No 182
>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=20.16 E-value=1.9e+02 Score=26.20 Aligned_cols=42 Identities=12% Similarity=0.276 Sum_probs=33.0
Q ss_pred EEEEecCccccchhHhHHHHHHHHHHHHc-cCCEEEEECCCCC
Q 042331 310 TLLITDDLFRNFEIATRKKYVDLVNSVKD-SGGTAHIFSSMHF 351 (378)
Q Consensus 310 tLLI~d~l~r~~d~~~r~~~~~lve~v~~-~g~~V~ivs~~~~ 351 (378)
.+|+.|+-+.+-|+..+..+.+++....+ .|..|.+++.+.+
T Consensus 145 ~vllLDEPt~~LD~~~~~~l~~~l~~~~~~~~~tiii~sH~~~ 187 (230)
T TIGR02770 145 PFLIADEPTTDLDVVNQARVLKLLRELRQLFGTGILLITHDLG 187 (230)
T ss_pred CEEEEcCCccccCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence 68999999998899999999886665544 5778888886654
No 183
>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional
Probab=20.13 E-value=1.8e+02 Score=26.69 Aligned_cols=44 Identities=11% Similarity=0.101 Sum_probs=34.6
Q ss_pred cEEEEecCccccchhHhHHHHHHHHHHHHc-cCCEEEEECCCCCc
Q 042331 309 QTLLITDDLFRNFEIATRKKYVDLVNSVKD-SGGTAHIFSSMHFS 352 (378)
Q Consensus 309 ~tLLI~d~l~r~~d~~~r~~~~~lve~v~~-~g~~V~ivs~~~~~ 352 (378)
-.+||.|+-+.+-|+..++.+.+++....+ .|..|.+++.+.+.
T Consensus 150 p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~g~tii~~sH~~~~ 194 (241)
T PRK14250 150 PEVLLLDEPTSALDPTSTEIIEELIVKLKNKMNLTVIWITHNMEQ 194 (241)
T ss_pred CCEEEEeCCcccCCHHHHHHHHHHHHHHHHhCCCEEEEEeccHHH
Confidence 468999999988899889898886666544 58888888876553
Done!