Query 005375
Match_columns 699
No_of_seqs 311 out of 2173
Neff 5.5
Searched_HMMs 46136
Date Thu Mar 28 22:27:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005375.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005375hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK10334 mechanosensitive chan 100.0 9.6E-43 2.1E-47 367.0 37.0 250 150-417 29-279 (286)
2 PRK11465 putative mechanosensi 100.0 1.9E-39 4.2E-44 373.7 43.6 288 110-413 425-722 (741)
3 PRK11281 hypothetical protein; 100.0 5.3E-39 1.2E-43 384.8 41.0 251 149-416 836-1089(1113)
4 PRK10929 putative mechanosensi 100.0 1.7E-38 3.6E-43 379.4 43.5 252 149-417 833-1087(1109)
5 COG3264 Small-conductance mech 100.0 1.9E-34 4.2E-39 330.2 38.7 250 150-416 559-811 (835)
6 PF00924 MS_channel: Mechanose 100.0 1.7E-35 3.8E-40 294.9 22.7 203 196-406 2-206 (206)
7 COG0668 MscS Small-conductance 100.0 5.4E-33 1.2E-37 292.0 36.1 211 190-414 82-296 (316)
8 KOG4629 Predicted mechanosensi 99.8 4.7E-18 1E-22 195.9 14.6 218 190-414 479-699 (714)
9 PRK10263 DNA translocase FtsK; 87.5 11 0.00025 48.1 15.4 14 296-309 245-258 (1355)
10 COG0053 MMT1 Predicted Co/Zn/C 85.1 56 0.0012 35.5 17.7 34 313-346 244-278 (304)
11 PRK02509 hypothetical protein; 79.5 1.4E+02 0.0031 37.6 19.8 18 45-62 144-161 (973)
12 PF03699 UPF0182: Uncharacteri 79.4 1.4E+02 0.003 36.9 19.6 24 194-217 247-270 (774)
13 PRK11465 putative mechanosensi 79.3 1.1E+02 0.0024 37.6 18.6 26 190-215 422-447 (741)
14 PF12794 MscS_TM: Mechanosensi 77.7 85 0.0019 34.7 16.1 45 189-233 120-166 (340)
15 TIGR01654 bact_immun_7tm bacte 76.9 1.2E+02 0.0027 36.5 18.4 11 339-349 403-413 (679)
16 PRK12438 hypothetical protein; 75.6 67 0.0014 40.4 15.7 13 251-263 332-345 (991)
17 PRK11281 hypothetical protein; 75.4 50 0.0011 42.2 14.9 22 191-212 616-637 (1113)
18 PRK05886 yajC preprotein trans 72.2 13 0.00029 34.7 6.8 38 254-295 38-75 (109)
19 PRK00068 hypothetical protein; 71.6 91 0.002 39.3 15.5 17 391-407 536-552 (970)
20 COG4956 Integral membrane prot 68.9 77 0.0017 34.9 12.5 19 226-244 123-141 (356)
21 COG1480 Predicted membrane-ass 68.6 2.8E+02 0.006 33.8 17.9 20 225-244 442-461 (700)
22 PRK05585 yajC preprotein trans 68.4 14 0.0003 34.3 6.1 41 254-298 52-92 (106)
23 TIGR00739 yajC preprotein tran 67.5 17 0.00036 32.3 6.1 38 254-295 37-74 (84)
24 PF12794 MscS_TM: Mechanosensi 65.6 2.2E+02 0.0048 31.5 17.2 29 192-220 194-223 (340)
25 COG2274 SunT ABC-type bacterio 65.1 3.1E+02 0.0066 33.7 18.0 42 205-246 282-323 (709)
26 PRK10929 putative mechanosensi 65.1 1.7E+02 0.0037 37.6 16.3 27 101-127 588-614 (1109)
27 COG1033 Predicted exporters of 63.7 3.3E+02 0.0072 33.5 17.9 23 213-235 315-337 (727)
28 PRK10334 mechanosensitive chan 63.5 1.4E+02 0.0031 32.2 13.5 14 332-345 252-265 (286)
29 COG1862 YajC Preprotein transl 62.9 25 0.00054 32.2 6.5 41 255-299 44-84 (97)
30 COG3264 Small-conductance mech 60.0 4.3E+02 0.0093 33.0 18.9 22 194-215 511-532 (835)
31 PRK09554 feoB ferrous iron tra 56.2 2.7E+02 0.0058 34.4 15.6 58 191-248 509-592 (772)
32 COG1377 FlhB Flagellar biosynt 56.2 3.4E+02 0.0074 30.6 17.8 16 390-405 296-311 (363)
33 COG2274 SunT ABC-type bacterio 54.9 4.7E+02 0.01 32.1 17.2 41 192-233 384-424 (709)
34 PF07331 TctB: Tripartite tric 53.1 1.6E+02 0.0035 27.5 10.6 28 194-221 72-99 (141)
35 PF05297 Herpes_LMP1: Herpesvi 52.3 4.7 0.0001 43.4 0.0 15 211-225 129-143 (381)
36 PF04791 LMBR1: LMBR1-like mem 51.2 4.2E+02 0.0091 30.1 16.0 9 194-202 120-128 (471)
37 PF11449 DUF2899: Protein of u 48.7 2E+02 0.0044 31.5 11.6 43 190-232 178-224 (298)
38 PF03030 H_PPase: Inorganic H+ 48.5 6E+02 0.013 31.1 17.3 29 150-178 74-102 (682)
39 TIGR01654 bact_immun_7tm bacte 48.2 5.3E+02 0.011 31.3 16.3 14 85-98 186-199 (679)
40 PRK10263 DNA translocase FtsK; 47.8 6E+02 0.013 33.5 16.9 12 239-250 193-204 (1355)
41 PF14348 DUF4400: Domain of un 46.7 2.3E+02 0.0051 28.6 11.2 74 166-243 123-197 (198)
42 PRK06531 yajC preprotein trans 46.4 51 0.0011 31.1 5.8 38 255-296 37-75 (113)
43 COG0370 FeoB Fe2+ transport sy 45.2 4.2E+02 0.0091 32.2 14.4 58 191-248 498-577 (653)
44 COG1269 NtpI Archaeal/vacuolar 44.2 6.6E+02 0.014 30.5 16.2 9 45-53 329-337 (660)
45 COG4956 Integral membrane prot 44.2 3.3E+02 0.0073 30.2 12.2 20 151-170 111-130 (356)
46 PF09953 DUF2187: Uncharacteri 43.7 38 0.00083 28.2 4.0 28 255-286 4-31 (57)
47 COG1283 NptA Na+/phosphate sym 43.1 6.4E+02 0.014 30.0 15.7 11 94-104 39-49 (533)
48 TIGR00844 c_cpa1 na(+)/h(+) an 42.9 7.7E+02 0.017 30.8 16.4 17 647-663 776-792 (810)
49 PRK12911 bifunctional preprote 42.8 2.7E+02 0.0059 36.4 12.8 23 194-216 1007-1029(1403)
50 smart00739 KOW KOW (Kyprides, 42.6 42 0.00091 22.6 3.6 24 254-278 1-26 (28)
51 PRK09509 fieF ferrous iron eff 41.7 4.7E+02 0.01 28.0 18.3 31 314-344 243-274 (299)
52 PF06442 DHFR_2: R67 dihydrofo 41.1 21 0.00046 30.4 2.2 42 240-285 8-50 (78)
53 PRK12438 hypothetical protein; 37.5 1E+03 0.022 30.6 20.6 13 191-203 165-177 (991)
54 PRK10845 colicin V production 37.5 4.2E+02 0.009 26.2 14.5 58 155-213 65-122 (162)
55 PRK09586 murP PTS system N-ace 36.4 7.6E+02 0.016 28.9 16.1 28 108-135 160-187 (476)
56 PRK08156 type III secretion sy 36.4 6.7E+02 0.015 28.3 16.9 11 394-404 288-298 (361)
57 PF14545 DBB: Dof, BCAP, and B 36.1 1.2E+02 0.0027 29.7 6.9 82 247-334 15-97 (142)
58 PRK11462 putative transporter; 35.8 6.9E+02 0.015 28.2 14.8 16 94-109 67-82 (460)
59 PRK00409 recombination and DNA 35.6 2.1E+02 0.0046 35.4 10.4 46 253-301 635-680 (782)
60 COG1459 PulF Type II secretory 35.6 7.1E+02 0.015 28.3 14.2 32 109-140 157-188 (397)
61 PF02699 YajC: Preprotein tran 35.2 13 0.00029 32.7 0.1 39 253-295 35-73 (82)
62 PRK00068 hypothetical protein; 33.9 1.1E+03 0.024 30.1 17.7 10 58-67 44-53 (970)
63 PF00575 S1: S1 RNA binding do 33.6 2.1E+02 0.0045 23.5 7.2 46 255-310 2-47 (74)
64 KOG4016 Synaptic vesicle prote 33.4 1.3E+02 0.0029 31.4 6.9 70 188-259 104-174 (233)
65 PF05297 Herpes_LMP1: Herpesvi 33.4 14 0.0003 39.9 0.0 8 198-205 177-184 (381)
66 PF12961 DUF3850: Domain of Un 33.2 88 0.0019 27.3 4.8 32 250-281 24-56 (72)
67 PRK09824 PTS system beta-gluco 33.1 9.6E+02 0.021 29.1 17.6 30 106-135 140-169 (627)
68 PRK12911 bifunctional preprote 32.9 8.4E+02 0.018 32.3 14.9 42 192-233 1338-1379(1403)
69 PRK13692 (3R)-hydroxyacyl-ACP 32.8 1.4E+02 0.0031 29.3 6.9 16 248-263 90-105 (159)
70 KOG2568 Predicted membrane pro 32.8 9E+02 0.02 28.7 16.5 13 191-203 378-390 (518)
71 COG1230 CzcD Co/Zn/Cd efflux s 32.7 7E+02 0.015 27.4 12.8 24 187-210 156-179 (296)
72 PF06011 TRP: Transient recept 32.1 8E+02 0.017 27.9 15.3 18 245-262 367-384 (438)
73 PRK15083 PTS system mannitol-s 32.0 7.8E+02 0.017 29.7 14.2 27 111-137 49-75 (639)
74 COG4258 Predicted exporter [Ge 31.9 1E+03 0.022 29.0 14.5 44 194-237 730-776 (788)
75 COG4873 Uncharacterized protei 31.8 53 0.0012 28.2 3.1 28 254-285 23-50 (81)
76 PF01914 MarC: MarC family int 31.6 3.6E+02 0.0078 27.6 9.9 33 202-234 53-85 (203)
77 PF14801 GCD14_N: tRNA methylt 31.5 27 0.00059 28.7 1.3 24 252-279 3-26 (54)
78 PF06123 CreD: Inner membrane 30.8 8.9E+02 0.019 28.0 14.3 20 214-233 398-417 (430)
79 TIGR00427 membrane protein, Ma 30.6 3.1E+02 0.0068 28.1 9.2 34 202-235 56-89 (201)
80 PRK10739 putative antibiotic t 30.5 3.8E+02 0.0081 27.5 9.7 35 201-235 52-86 (197)
81 TIGR00844 c_cpa1 na(+)/h(+) an 29.5 1.1E+03 0.024 29.5 14.8 26 394-419 420-452 (810)
82 PF11674 DUF3270: Protein of u 29.2 2.9E+02 0.0064 25.1 7.6 48 191-238 39-86 (90)
83 PF09926 DUF2158: Uncharacteri 28.7 55 0.0012 26.8 2.7 23 255-279 1-23 (53)
84 COG4425 Predicted membrane pro 28.7 1E+03 0.022 28.0 14.0 21 47-67 35-55 (588)
85 PF13726 Na_H_antiport_2: Na+- 28.6 89 0.0019 28.3 4.2 44 204-247 6-50 (88)
86 PRK03612 spermidine synthase; 28.0 1E+03 0.022 27.9 20.7 34 191-224 150-183 (521)
87 PF15420 Abhydrolase_9_N: Alph 26.7 7.3E+02 0.016 25.7 17.0 34 63-97 7-40 (208)
88 PF05552 TM_helix: Conserved T 26.4 1.1E+02 0.0024 24.4 4.1 35 147-182 13-47 (53)
89 PF09378 HAS-barrel: HAS barre 26.3 58 0.0012 28.2 2.7 27 254-280 22-49 (91)
90 TIGR01297 CDF cation diffusion 25.8 7.5E+02 0.016 25.5 20.1 35 313-347 222-258 (268)
91 PF02559 CarD_CdnL_TRCF: CarD- 25.7 1.7E+02 0.0037 26.0 5.7 44 254-300 1-51 (98)
92 PF00467 KOW: KOW motif; Inte 25.7 1.1E+02 0.0024 21.9 3.6 23 257-280 1-25 (32)
93 COG2142 SdhD Succinate dehydro 25.7 5.8E+02 0.013 24.2 10.5 95 60-167 11-107 (117)
94 PRK05702 flhB flagellar biosyn 25.7 8E+02 0.017 27.6 12.0 113 66-178 88-215 (359)
95 COG1329 Transcriptional regula 25.3 1.4E+02 0.0031 29.9 5.4 46 254-302 4-57 (166)
96 PRK05415 hypothetical protein; 25.2 1E+03 0.022 26.8 19.6 59 159-221 227-289 (341)
97 PRK05812 secD preprotein trans 25.1 9.5E+02 0.021 28.2 12.9 15 202-216 439-453 (498)
98 PF02933 CDC48_2: Cell divisio 25.1 1.3E+02 0.0028 24.8 4.4 31 250-280 14-44 (64)
99 COG3671 Predicted membrane pro 24.5 6.4E+02 0.014 24.3 11.6 20 158-177 93-112 (125)
100 TIGR01129 secD protein-export 24.2 1.1E+03 0.023 26.8 14.6 7 209-215 361-367 (397)
101 PF02934 GatB_N: GatB/GatE cat 24.1 6.8E+02 0.015 27.4 10.7 152 242-406 82-242 (289)
102 cd03452 MaoC_C MaoC_C The C-t 24.0 1.4E+02 0.003 28.4 5.0 16 248-263 82-97 (142)
103 PF04156 IncA: IncA protein; 23.9 2.2E+02 0.0047 28.3 6.6 11 224-234 40-50 (191)
104 COG0342 SecD Preprotein transl 23.7 3.2E+02 0.007 32.1 8.7 29 203-235 378-406 (506)
105 PF03699 UPF0182: Uncharacteri 23.6 1.5E+03 0.033 28.3 20.8 10 58-67 33-42 (774)
106 COG4988 CydD ABC-type transpor 23.2 9.7E+02 0.021 28.7 12.4 134 115-248 1-176 (559)
107 PF06570 DUF1129: Protein of u 23.2 8E+02 0.017 24.9 11.2 11 29-39 43-53 (206)
108 PRK08559 nusG transcription an 23.2 2.4E+02 0.0051 27.6 6.5 47 253-300 93-145 (153)
109 TIGR00917 2A060601 Niemann-Pic 22.9 5.1E+02 0.011 33.8 11.0 25 197-221 1080-1104(1204)
110 PF01810 LysE: LysE type trans 22.9 7.2E+02 0.016 24.3 14.2 18 193-210 171-188 (191)
111 COG1030 NfeD Membrane-bound se 22.8 3.5E+02 0.0076 31.2 8.5 13 109-121 225-237 (436)
112 PF06107 DUF951: Bacterial pro 22.7 2E+02 0.0044 24.0 4.9 45 255-301 2-49 (57)
113 PF14221 DUF4330: Domain of un 22.6 1.2E+02 0.0026 30.2 4.4 43 255-298 72-117 (168)
114 PF05437 AzlD: Branched-chain 22.6 5.5E+02 0.012 22.8 8.7 26 225-250 70-95 (99)
115 PRK11111 hypothetical protein; 22.6 5E+02 0.011 27.0 9.0 35 201-235 58-92 (214)
116 PRK10694 acyl-CoA esterase; Pr 22.4 1.1E+02 0.0023 29.3 3.9 30 248-285 61-90 (133)
117 PF08566 Pam17: Mitochondrial 22.4 2.8E+02 0.0061 28.1 6.9 35 213-247 71-105 (173)
118 cd03453 SAV4209_like SAV4209_l 22.2 2.2E+02 0.0049 26.2 5.9 16 248-263 74-89 (127)
119 PRK10995 inner membrane protei 22.1 6.4E+02 0.014 26.0 9.8 33 202-234 57-89 (221)
120 PRK04439 S-adenosylmethionine 22.1 2.9E+02 0.0062 31.5 7.6 80 317-402 156-244 (399)
121 PF07290 DUF1449: Protein of u 22.0 7.4E+02 0.016 25.7 10.0 11 117-127 63-73 (202)
122 PRK09459 pspG phage shock prot 21.9 1.9E+02 0.0041 25.5 4.8 27 202-228 5-31 (76)
123 PF10842 DUF2642: Protein of u 21.9 3E+02 0.0064 23.7 5.9 43 257-301 20-62 (66)
124 KOG3386 Copper transporter [In 21.7 8E+02 0.017 24.3 10.4 44 190-235 93-136 (155)
125 TIGR00405 L26e_arch ribosomal 21.6 2.1E+02 0.0046 27.3 5.8 26 253-279 85-112 (145)
126 TIGR03747 conj_TIGR03747 integ 21.6 9.8E+02 0.021 25.4 11.3 39 92-132 163-201 (233)
127 PF08611 DUF1774: Fungal prote 21.4 1.9E+02 0.0041 26.7 5.0 38 213-250 26-64 (97)
128 COG4325 Predicted membrane pro 21.4 1.3E+03 0.028 26.6 16.4 16 371-386 363-378 (464)
129 PRK10582 cytochrome o ubiquino 21.3 6.1E+02 0.013 23.8 8.4 40 176-215 64-103 (109)
130 TIGR00328 flhB flagellar biosy 21.1 1.1E+03 0.023 26.4 11.9 113 66-178 81-208 (347)
131 PF09323 DUF1980: Domain of un 21.0 2.6E+02 0.0056 28.0 6.5 14 196-209 73-86 (182)
132 PRK12933 secD preprotein trans 20.9 1E+03 0.022 28.8 12.1 17 35-51 407-423 (604)
133 PF03845 Spore_permease: Spore 20.8 1E+03 0.023 25.3 11.7 32 55-87 24-55 (320)
134 PRK12585 putative monovalent c 20.8 8.4E+02 0.018 25.3 9.9 25 228-252 72-96 (197)
135 TIGR02921 PEP_integral PEP-CTE 20.6 1.6E+03 0.034 27.4 15.7 16 247-262 276-291 (952)
136 TIGR00833 actII Transport prot 20.6 1.7E+03 0.038 27.9 19.1 7 211-217 295-301 (910)
137 PRK13023 bifunctional preprote 20.5 1.7E+03 0.037 27.7 16.3 21 197-217 379-399 (758)
138 TIGR01995 PTS-II-ABC-beta PTS 20.5 1.5E+03 0.033 27.2 19.7 31 107-137 138-168 (610)
139 PRK11715 inner membrane protei 20.5 1.4E+03 0.029 26.6 15.5 21 213-233 403-423 (436)
140 cd04466 S1_YloQ_GTPase S1_YloQ 20.4 1.8E+02 0.004 23.6 4.4 31 253-285 36-66 (68)
141 KOG4193 G protein-coupled rece 20.4 9.1E+02 0.02 29.2 11.7 21 231-251 542-562 (610)
142 PRK13889 conjugal transfer rel 20.4 1.6E+02 0.0034 37.5 5.6 47 253-300 599-651 (988)
143 PRK06298 type III secretion sy 20.2 1.2E+03 0.027 26.0 17.4 15 391-405 291-305 (356)
144 TIGR00870 trp transient-recept 20.2 8.5E+02 0.018 29.5 11.8 16 220-235 510-525 (743)
145 COG4317 Uncharacterized protei 20.2 3E+02 0.0066 24.7 5.7 43 204-246 13-55 (93)
146 KOG3609 Receptor-activated Ca2 20.1 1.8E+03 0.038 27.8 15.9 30 101-130 454-483 (822)
147 PRK03557 zinc transporter ZitB 20.1 1.1E+03 0.024 25.5 17.6 13 332-344 267-279 (312)
148 PF01941 AdoMet_Synthase: S-ad 20.0 3.7E+02 0.0081 30.6 7.9 80 317-402 156-244 (396)
149 cd03441 R_hydratase_like (R)-h 20.0 2.4E+02 0.0052 25.2 5.5 19 245-263 71-89 (127)
150 COG0733 Na+-dependent transpor 20.0 1.4E+03 0.03 26.6 17.7 43 51-93 70-117 (439)
No 1
>PRK10334 mechanosensitive channel MscS; Provisional
Probab=100.00 E-value=9.6e-43 Score=367.01 Aligned_cols=250 Identities=18% Similarity=0.245 Sum_probs=222.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCcccchhhHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHH
Q 005375 150 LNFVRSLSTVLAFAYCLSSLIQQAQKFFMETTDSGDARNMGFQFAGKAVYSAVWVASASLFMELLGFSTQKWLTAGGLGT 229 (699)
Q Consensus 150 l~~l~ailiIl~~~~ll~~li~~i~~~l~~~~~~~~~r~~~i~~i~~ii~iii~via~iiiL~~lGv~i~~lla~lGi~g 229 (699)
++++.+++ +++++|++.+++..+.+.+..+.. .+.....++.+++++++++++++++|..+|++++++++++|++|
T Consensus 29 ~~i~~al~-il~~~~~~~~~i~~~~~~~~~~~~---~~~~~~~~~~~~~~~~i~~~~~~~~l~~lGi~~~~l~a~~G~~g 104 (286)
T PRK10334 29 VNIVAALA-IIIVGLIIARMISNAVNRLMISRK---IDATVADFLSALVRYGIIAFTLIAALGRVGVQTASVIAVLGAAG 104 (286)
T ss_pred HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhcC---CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence 34444444 456688888888876655554322 23344568899999999999999999999999999999999999
Q ss_pred HHHHHHhhHHHHHHHhhhhhhccCCccCCcEEEEeecCCCeeEEEEEEeceeeEEEEecCCcEEEEeccccccCcEEecc
Q 005375 230 VLLTLAGREIFTNFLSSAMIHATRPFVLNEWIQTKIEGYEVSGTVEHVGWWSPTIVRGEDREAVHIPNHKFTVNVVRNLS 309 (699)
Q Consensus 230 lalgfA~qd~l~Ni~aGi~I~~~rPfrIGD~I~Iki~~~~~~G~VeeIgL~sTT~IRt~Dg~~v~IPNs~l~s~~I~N~S 309 (699)
+++|||+|++++|++||++|+++|||++||||++ ++.+|+|++|+||+ |++|++||+.++|||+.+.++.|+|||
T Consensus 105 laiG~a~q~~l~N~~sGi~i~~~rpf~vGD~I~i----~~~~G~V~~I~~r~-T~i~t~d~~~v~IPNs~~~~~~i~N~s 179 (286)
T PRK10334 105 LAVGLALQGSLSNLAAGVLLVMFRPFRAGEYVDL----GGVAGTVLSVQIFS-TTMRTADGKIIVIPNGKIIAGNIINFS 179 (286)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCCCCEEEE----CCEEEEEEEEEeEE-EEEEcCCCCEEEEcchHhcCCeeEEcC
Confidence 9999999999999999999999999999999999 78999999999999 999999999999999999999999999
Q ss_pred CCCceEEEEEEEecc-CCHHHHHHHHHHHHHHHHhCCCccccccceEEEEEeeCCCCceEEEEEEEEEecCChhhHHHHH
Q 005375 310 QKSHWRIKTHLAISH-LDVHKINSIVADMRKVLAKNPQVEQQRLHRRVFLDNINPENQALLILVSCFVKTSHHEEYLCVK 388 (699)
Q Consensus 310 r~~~~ri~i~l~I~y-td~ekv~~i~~~I~e~L~s~p~v~~~~~~p~V~v~~~~~~~~sl~i~V~~~v~~~d~~~~~~vr 388 (699)
+.+.+|+.+.++++| +|++++++ .++++++++|.+..++ .|.|.+.++++ ++++++++||+++.+ |+.++
T Consensus 180 ~~~~rr~~~~v~V~y~~d~~~~~~---il~~~~~~~~~vl~~p-~p~v~~~~~~d--ssi~~~v~~wv~~~~---~~~~~ 250 (286)
T PRK10334 180 REPVRRNEFIIGVAYDSDIDQVKQ---ILTNIIQSEDRILKDR-EMTVRLNELGA--SSINFVVRVWSNSGD---LQNVY 250 (286)
T ss_pred CCCeEEEEEEEEecCCCCHHHHHH---HHHHHHHhCCceecCC-CCEEEEEeeeC--ceEEEEEEEEEecch---hHHHH
Confidence 988899999999999 89999999 5678889999999887 78999999995 899999999999864 57899
Q ss_pred HHHHHHHHHHHHHCCCccCCCcEEEEEee
Q 005375 389 EAILLDLLRVISHHRARLATPIRTVQKIF 417 (699)
Q Consensus 389 ~~I~~~Il~~~~e~GIe~a~P~rtv~~~~ 417 (699)
++++++++++|+++||++|||+|+++...
T Consensus 251 ~~~~~~I~~~f~~~gI~ip~p~~~v~~~~ 279 (286)
T PRK10334 251 WDVLERIKREFDAAGISFPYPQMDVNFKR 279 (286)
T ss_pred HHHHHHHHHHHHHCCCcCCCCCeEEEecc
Confidence 99999999999999999999999988653
No 2
>PRK11465 putative mechanosensitive channel protein; Provisional
Probab=100.00 E-value=1.9e-39 Score=373.67 Aligned_cols=288 Identities=12% Similarity=0.114 Sum_probs=224.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhccccCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHhhc----CCc
Q 005375 110 HVMTSYIQPLMLWTGAILICRALDPVVLPTEAGEVVKQRLLNFVRSLSTVLAFAYCLSSLIQQ-AQKFFMETT----DSG 184 (699)
Q Consensus 110 ~il~sl~~Pl~l~l~~i~i~~al~~l~lp~~~~~~v~~~ll~~l~ailiIl~~~~ll~~li~~-i~~~l~~~~----~~~ 184 (699)
.+++.++ |+.+++++++++.++..+.+...........+...+..++++++++++++.+.+. +.+++.+.. ...
T Consensus 425 ~~l~~lr-~l~~~~~vl~ll~a~~~l~l~~~~~~~~g~~~i~~l~~i~iil~i~~v~w~l~~~~ie~~l~~~~~~~~~~~ 503 (741)
T PRK11465 425 AALKTAR-ILTVCVAVMLLLNAWGLFDFWNWLQNGAGEKTVDILIRIALILFFSAVGWTVLASLIENRLASDIHGRPLPS 503 (741)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHHhcchHhhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcchhhh
Confidence 4455555 8888777777777776554433211111122333443344444333333333332 223332211 111
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHHhhHHHHHHHhhhhhhccCCccCCcEEEEe
Q 005375 185 DARNMGFQFAGKAVYSAVWVASASLFMELLGFSTQKWLTAGGLGTVLLTLAGREIFTNFLSSAMIHATRPFVLNEWIQTK 264 (699)
Q Consensus 185 ~~r~~~i~~i~~ii~iii~via~iiiL~~lGv~i~~lla~lGi~glalgfA~qd~l~Ni~aGi~I~~~rPfrIGD~I~Ik 264 (699)
....+...++++++++++++++++++|..+|++++++++++|++|+++|||+|++++|+++|++|++++||++||||++
T Consensus 504 ~r~~Tl~~ll~~~~~~~i~~i~~l~vL~~lGi~it~LlA~aGi~GlaiGfaaQ~~l~N~isGi~Il~e~pf~vGD~I~v- 582 (741)
T PRK11465 504 ARTRTLLTLFRNALAVIISTITIMIVLSEIGVNIAPLLAGAGALGLAISFGSQTLVKDIITGVFIQFENGMNTGDLVTI- 582 (741)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCCCCEEEE-
Confidence 2245678899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCCCeeEEEEEEeceeeEEEEecCCcEEEEeccccccCcEEeccCCCceEEEEEEEecc-CCHHHHHHHHHHHHHHHHh
Q 005375 265 IEGYEVSGTVEHVGWWSPTIVRGEDREAVHIPNHKFTVNVVRNLSQKSHWRIKTHLAISH-LDVHKINSIVADMRKVLAK 343 (699)
Q Consensus 265 i~~~~~~G~VeeIgL~sTT~IRt~Dg~~v~IPNs~l~s~~I~N~Sr~~~~ri~i~l~I~y-td~ekv~~i~~~I~e~L~s 343 (699)
++++|+||+|++|+ |++|++||+.++|||+.+.+ |+||++. .+++.+.++|+| +|+|+++++++++.+.+.+
T Consensus 583 ---~g~~GtVe~I~lRs-T~iRt~dg~~i~IPNs~i~~--v~N~Sr~-~~~~~v~v~V~Y~~Didka~~iL~ev~~el~~ 655 (741)
T PRK11465 583 ---GPLTGTVERMSIRS-VGVRQDTGAYHIIPWSSITT--FANFVRG-IGSVVANYDVDRHEDADKANQALKDAVAELME 655 (741)
T ss_pred ---CCeEEEEEEEeeeE-EEEEcCCCCEEEEECCccee--eEEeccC-ceEEEEEEEeCCCCCHHHHHHHHHHHHHHhhc
Confidence 78999999999999 99999999999999999975 9999985 667888999999 9999999999888888888
Q ss_pred CCCc----cccccceEEEEEeeCCCCceEEEEEEEEEecCChhhHHHHHHHHHHHHHHHHHHCCCccCCCcEEE
Q 005375 344 NPQV----EQQRLHRRVFLDNINPENQALLILVSCFVKTSHHEEYLCVKEAILLDLLRVISHHRARLATPIRTV 413 (699)
Q Consensus 344 ~p~v----~~~~~~p~V~v~~~~~~~~sl~i~V~~~v~~~d~~~~~~vr~~I~~~Il~~~~e~GIe~a~P~rtv 413 (699)
+|++ ..++ +.+.+.++++ +++++++++|+++. ++|.++++++++|++.|+++||++|+|+..+
T Consensus 656 dpe~~~~il~~p--~~vgV~~lgd--Ssi~lrvr~~t~p~---~qw~v~rel~~~IK~~Fde~GIeIP~~tv~v 722 (741)
T PRK11465 656 NEEIRGLIIGEP--NFAGIVGLTN--TAFTLRVSFTTLPL---KQWTVRFALDSQVKKHFDLAGVRAPVQTYQV 722 (741)
T ss_pred CccccccccCCC--CeEEEEEecC--ceEEEEEEEEECcc---hHHHHHHHHHHHHHHHHHHCCCCCCCCceEe
Confidence 8864 3333 3577889984 79999999999764 5689999999999999999999987766553
No 3
>PRK11281 hypothetical protein; Provisional
Probab=100.00 E-value=5.3e-39 Score=384.76 Aligned_cols=251 Identities=20% Similarity=0.211 Sum_probs=220.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhcCCcccchhhHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHH
Q 005375 149 LLNFVRSLSTVLAFAYCLSSLIQQAQKFFM-ETTDSGDARNMGFQFAGKAVYSAVWVASASLFMELLGFSTQKWLTAGGL 227 (699)
Q Consensus 149 ll~~l~ailiIl~~~~ll~~li~~i~~~l~-~~~~~~~~r~~~i~~i~~ii~iii~via~iiiL~~lGv~i~~lla~lGi 227 (699)
+.+++.++ ++++++|++.+++..+.+.+. .+... +......+.++++++++++++++++..+|++.+.+.+.+|+
T Consensus 836 l~~Ll~al-lIl~i~~~l~r~l~~ll~~~~~~rl~l---~~~~~~~i~~li~y~I~~i~iliaL~~lGi~~t~L~~l~ga 911 (1113)
T PRK11281 836 LGNLLFAL-IILVVTYVLVRNLPGLLEVLVLSRLNL---RQGTSYAITTLLTYIIIAVGAVTAFSTLGVSWDKLQWLVAA 911 (1113)
T ss_pred HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhhccC---CchHHHHHHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHH
Confidence 44544444 455678888888887665432 32221 22234568899999999999999999999999999999999
Q ss_pred HHHHHHHHhhHHHHHHHhhhhhhccCCccCCcEEEEeecCCCeeEEEEEEeceeeEEEEecCCcEEEEeccccccCcEEe
Q 005375 228 GTVLLTLAGREIFTNFLSSAMIHATRPFVLNEWIQTKIEGYEVSGTVEHVGWWSPTIVRGEDREAVHIPNHKFTVNVVRN 307 (699)
Q Consensus 228 ~glalgfA~qd~l~Ni~aGi~I~~~rPfrIGD~I~Iki~~~~~~G~VeeIgL~sTT~IRt~Dg~~v~IPNs~l~s~~I~N 307 (699)
+|+++|||+|++++||+||++|+++|||+|||+|+| ++..|+|++|++|+ |+||++||+.++|||+.|+++.|+|
T Consensus 912 LgVgIGfglQ~ilsNfISGiiIl~eRPfrIGD~I~I----~~~~G~V~~I~lRs-T~Irt~D~~~ViIPNs~~~t~~IiN 986 (1113)
T PRK11281 912 LSVGLGFGLQEIFANFVSGLIILFERPVRIGDTVTI----GTFSGTVSKIRIRA-TTITDFDRKEVIVPNKAFVTERLIN 986 (1113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCcCCCCEEEE----CCEEEEEEEEEeEE-EEEEcCCCCEEEEechhhhcCceEe
Confidence 999999999999999999999999999999999999 78999999999999 9999999999999999999999999
Q ss_pred ccCCC-ceEEEEEEEecc-CCHHHHHHHHHHHHHHHHhCCCccccccceEEEEEeeCCCCceEEEEEEEEEecCChhhHH
Q 005375 308 LSQKS-HWRIKTHLAISH-LDVHKINSIVADMRKVLAKNPQVEQQRLHRRVFLDNINPENQALLILVSCFVKTSHHEEYL 385 (699)
Q Consensus 308 ~Sr~~-~~ri~i~l~I~y-td~ekv~~i~~~I~e~L~s~p~v~~~~~~p~V~v~~~~~~~~sl~i~V~~~v~~~d~~~~~ 385 (699)
||.++ .+|+.+.++|+| +|++++++ .+.+++.++|.+..++ +|.|++.+|++ +++.++++||+++. .+++
T Consensus 987 ~S~~~~~~Rv~i~vgV~Y~sDi~~v~~---iL~eaa~~~p~Vl~~P-~P~V~~~~fgd--ssi~~~lr~wv~~~--~~~~ 1058 (1113)
T PRK11281 987 WSLSDTVTRVVIKVGVAYGSDLEKVRE---LLLQAATENPRVMKEP-EPQVFFLNFGA--STLDHELRLYVREL--GDRS 1058 (1113)
T ss_pred CCCCCcceEEEEEEEeCCCCCHHHHHH---HHHHHHHcCcccccCC-CCEEEEEeccC--ceEEEEEEEEEcCH--hhHH
Confidence 99987 478999999999 99999988 5678899999999988 78999999995 89999999999864 5788
Q ss_pred HHHHHHHHHHHHHHHHCCCccCCCcEEEEEe
Q 005375 386 CVKEAILLDLLRVISHHRARLATPIRTVQKI 416 (699)
Q Consensus 386 ~vr~~I~~~Il~~~~e~GIe~a~P~rtv~~~ 416 (699)
.++++++.+|++.|+++||++|||+++||+.
T Consensus 1059 ~v~s~L~~~I~~~f~e~GIeIpfPq~~V~i~ 1089 (1113)
T PRK11281 1059 PTVDELNRRIDRLFRENDINIAFNQLDVFLK 1089 (1113)
T ss_pred HHHHHHHHHHHHHHHHCCCcCCCCCeeEEec
Confidence 9999999999999999999999999999854
No 4
>PRK10929 putative mechanosensitive channel protein; Provisional
Probab=100.00 E-value=1.7e-38 Score=379.36 Aligned_cols=252 Identities=14% Similarity=0.151 Sum_probs=220.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHhhcCCcccchhhHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHH
Q 005375 149 LLNFVRSLSTVLAFAYCLSSLIQQAQKF-FMETTDSGDARNMGFQFAGKAVYSAVWVASASLFMELLGFSTQKWLTAGGL 227 (699)
Q Consensus 149 ll~~l~ailiIl~~~~ll~~li~~i~~~-l~~~~~~~~~r~~~i~~i~~ii~iii~via~iiiL~~lGv~i~~lla~lGi 227 (699)
+.+++.+++ +++++|++.+.+..+.+. +.++.. .......++.++++++++++++++++..+|++.+++.+.+|+
T Consensus 833 l~~ll~All-Iliv~~~l~r~l~~lle~~l~~~~~---l~~~~~~~i~~l~~y~I~~ig~l~~L~~lGI~~t~l~al~ga 908 (1109)
T PRK10929 833 LGSVLIAIL-VFIITTQLVRNLPALLELALLQHLD---LTPGTGYAITTITKYLLMLIGGLVGFSMIGIEWSKLQWLVAA 908 (1109)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHHHHHHHHHhhhcC---CChhHHHHHHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHH
Confidence 345555544 455677777777765544 333322 223345678899999999999999999999999999999999
Q ss_pred HHHHHHHHhhHHHHHHHhhhhhhccCCccCCcEEEEeecCCCeeEEEEEEeceeeEEEEecCCcEEEEeccccccCcEEe
Q 005375 228 GTVLLTLAGREIFTNFLSSAMIHATRPFVLNEWIQTKIEGYEVSGTVEHVGWWSPTIVRGEDREAVHIPNHKFTVNVVRN 307 (699)
Q Consensus 228 ~glalgfA~qd~l~Ni~aGi~I~~~rPfrIGD~I~Iki~~~~~~G~VeeIgL~sTT~IRt~Dg~~v~IPNs~l~s~~I~N 307 (699)
+|+++|||+|++++||+||++|+++|||++||+|+| ++..|+|++|++|+ |+|+++||+.++|||+.|.++.|+|
T Consensus 909 lGVgIGfAlQ~ilsNfiSGIiIL~erPfrVGD~I~I----~~~~GtV~~I~lRs-T~Irt~Dg~~IiIPNs~~it~~IiN 983 (1109)
T PRK10929 909 LGVGLGFGLQEIFANFISGLIILFEKPIRIGDTVTI----RDLTGSVTKINTRA-TTISDWDRKEIIVPNKAFITEQFIN 983 (1109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCEEEE----CCEEEEEEEEeeeE-EEEEeCCCCEEEEEChhhhcCceEe
Confidence 999999999999999999999999999999999999 78999999999999 9999999999999999999999999
Q ss_pred ccCCCc-eEEEEEEEecc-CCHHHHHHHHHHHHHHHHhCCCccccccceEEEEEeeCCCCceEEEEEEEEEecCChhhHH
Q 005375 308 LSQKSH-WRIKTHLAISH-LDVHKINSIVADMRKVLAKNPQVEQQRLHRRVFLDNINPENQALLILVSCFVKTSHHEEYL 385 (699)
Q Consensus 308 ~Sr~~~-~ri~i~l~I~y-td~ekv~~i~~~I~e~L~s~p~v~~~~~~p~V~v~~~~~~~~sl~i~V~~~v~~~d~~~~~ 385 (699)
||+.+. +|+.+.++|+| +|++++++ .+.+++.++|.+..+| .|.|++.+|++ +++.++++||++.. .+++
T Consensus 984 ~S~~d~~~Rv~i~VgV~Y~sDie~v~~---iL~eaa~~~~~VL~~P-~P~V~~~~fgd--ssi~~elr~wv~~~--~~~~ 1055 (1109)
T PRK10929 984 WSLSDSVTRVVLTIPAPADANSEEVTE---ILLTAARRCSLVLDNP-APEVFLVDLQQ--GIQIFELRIYAAEM--GHRM 1055 (1109)
T ss_pred cCCCCcceEEEEEEEeCCCCCHHHHHH---HHHHHHHhCccccCCC-CCEEEEEecCC--CceEEEEEEEEcCh--hhHH
Confidence 999885 79999999999 99999999 4668899999999887 78999999984 79999999999743 5679
Q ss_pred HHHHHHHHHHHHHHHHCCCccCCCcEEEEEee
Q 005375 386 CVKEAILLDLLRVISHHRARLATPIRTVQKIF 417 (699)
Q Consensus 386 ~vr~~I~~~Il~~~~e~GIe~a~P~rtv~~~~ 417 (699)
.++++++.+|++.|+++||++|||+++||+..
T Consensus 1056 ~v~~el~~~I~~~F~~~GIeIPfPq~~v~i~~ 1087 (1109)
T PRK10929 1056 PLRHEIHQLILAGFREHGIDMPFPPFQMRLES 1087 (1109)
T ss_pred HHHHHHHHHHHHHHHHCCCcCCCCCeEEEeec
Confidence 99999999999999999999999999999663
No 5
>COG3264 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=100.00 E-value=1.9e-34 Score=330.19 Aligned_cols=250 Identities=18% Similarity=0.206 Sum_probs=219.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhhcCCcccchhhHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHH
Q 005375 150 LNFVRSLSTVLAFAYCLSSLIQQAQK-FFMETTDSGDARNMGFQFAGKAVYSAVWVASASLFMELLGFSTQKWLTAGGLG 228 (699)
Q Consensus 150 l~~l~ailiIl~~~~ll~~li~~i~~-~l~~~~~~~~~r~~~i~~i~~ii~iii~via~iiiL~~lGv~i~~lla~lGi~ 228 (699)
..++.++++ +++++++.+.+....+ ++..+..-+. -.-..+.+++.++++.+++++.++.+|++.+++-..+|.+
T Consensus 559 ~~ll~avl~-~~~~~~l~r~~~~~L~~~vl~r~~~~~---G~r~~I~t~~~Y~~~~i~~l~~lS~~Gi~lssL~~~~gAL 634 (835)
T COG3264 559 GALLQAVLL-FLITYVLTRNLPGWLEVRVLQRLDLDA---GTRYSITTLLGYLLIAIGGLVGLSTLGIDLSSLQWLAGAL 634 (835)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhcccCc---chHHHHHHHHHHHHHHHHHHHHHHHcCcChHHHHHHHHHh
Confidence 344555544 4456667777766544 5555543221 1124689999999999999999999999999999999999
Q ss_pred HHHHHHHhhHHHHHHHhhhhhhccCCccCCcEEEEeecCCCeeEEEEEEeceeeEEEEecCCcEEEEeccccccCcEEec
Q 005375 229 TVLLTLAGREIFTNFLSSAMIHATRPFVLNEWIQTKIEGYEVSGTVEHVGWWSPTIVRGEDREAVHIPNHKFTVNVVRNL 308 (699)
Q Consensus 229 glalgfA~qd~l~Ni~aGi~I~~~rPfrIGD~I~Iki~~~~~~G~VeeIgL~sTT~IRt~Dg~~v~IPNs~l~s~~I~N~ 308 (699)
|+++||++|++++||+||++|+++|||||||||++ |+++|+|.+|+.|+ |+|+++||+-++|||+.|.++.|.||
T Consensus 635 svGiGFGLQ~I~~NFVSGlIiL~ErpvkvGD~It~----g~~~G~V~~I~vRA-T~I~~fd~~~vIVPNs~fI~~qV~NW 709 (835)
T COG3264 635 SVGLGFGLQEIVSNFVSGLIILFERPVKVGDTVTI----GTVSGTVRKISVRA-TTIRTFDRKEVIVPNSAFITEQVINW 709 (835)
T ss_pred hhhhchhHHHHHHHhhhhhhhheecCcccCCEEEE----CCceEEEEEEEeeE-EEEEeCCCCeEEeccHHHHhhheeee
Confidence 99999999999999999999999999999999999 78999999999999 99999999999999999999999999
Q ss_pred cCCC-ceEEEEEEEecc-CCHHHHHHHHHHHHHHHHhCCCccccccceEEEEEeeCCCCceEEEEEEEEEecCChhhHHH
Q 005375 309 SQKS-HWRIKTHLAISH-LDVHKINSIVADMRKVLAKNPQVEQQRLHRRVFLDNINPENQALLILVSCFVKTSHHEEYLC 386 (699)
Q Consensus 309 Sr~~-~~ri~i~l~I~y-td~ekv~~i~~~I~e~L~s~p~v~~~~~~p~V~v~~~~~~~~sl~i~V~~~v~~~d~~~~~~ 386 (699)
+.++ ..|+.+.++++| +|++++++ .+.+..+.||.+..+| +|.|++.+|++ ++++|++++|+....-. ..
T Consensus 710 s~~~~~~R~~i~v~vay~sD~~~V~~---~Ll~~A~~~p~Vl~~P-~P~v~f~~fg~--s~L~fELr~~v~~~~~~--~~ 781 (835)
T COG3264 710 SLRDTTTRLVIPVGVAYGSDPELVRE---LLLEAAREHPRVLKDP-APEVFFTAFGA--SSLDFELRVYVAELGDR--MP 781 (835)
T ss_pred eccCceEEEEEEecccCCCCHHHHHH---HHHHHHHhCCCccCCC-CCeeEeecccc--cceeEEEEEEeeccccc--cc
Confidence 9988 789999999999 99999999 5789999999999998 88999999995 79999999999987543 34
Q ss_pred HHHHHHHHHHHHHHHCCCccCCCcEEEEEe
Q 005375 387 VKEAILLDLLRVISHHRARLATPIRTVQKI 416 (699)
Q Consensus 387 vr~~I~~~Il~~~~e~GIe~a~P~rtv~~~ 416 (699)
++++++..|.+.|+||||+++||++.+++.
T Consensus 782 ~~~~l~~~I~~~fre~gI~ipfpq~~v~l~ 811 (835)
T COG3264 782 VRSELNRAILDRFRENGIEIPFPQREVRLK 811 (835)
T ss_pred hHHHHHHHHHHHHHHcCCCCCCchHheEec
Confidence 999999999999999999999999998855
No 6
>PF00924 MS_channel: Mechanosensitive ion channel; InterPro: IPR006685 Mechanosensitive (MS) channels provide protection against hypo-osmotic shock, responding both to stretching of the cell membrane and to membrane depolarisation. They are present in the membranes of organisms from the three domains of life: bacteria, archaea, and eukarya []. There are two families of MS channels: large-conductance MS channels (MscL) and small-conductance MS channels (MscS or YGGB). The pressure threshold for MscS opening is 50% that of MscL []. The MscS family is much larger and more variable in size and sequence than the MscL family. Much of the diversity in MscS proteins occurs in the size of the transmembrane regions, which ranges from three to eleven transmembrane helices, although the three C-terminal helices are conserved. This family contains sequences form the MscS family of proteins. MscS folds as a homo-heptamer with a cylindrical shape, and can be divided into transmembrane and extramembrane regions: an N-terminal periplasmic region, a transmembrane region, and a C-terminal cytoplasmic region (middle and C-terminal domains). The transmembrane region forms a channel through the membrane that opens into a chamber enclosed by the extramembrane portion, the latter connecting to the cytoplasm through distinct portals [].; GO: 0055085 transmembrane transport, 0016020 membrane; PDB: 2OAU_E 2VV5_F.
Probab=100.00 E-value=1.7e-35 Score=294.88 Aligned_cols=203 Identities=25% Similarity=0.414 Sum_probs=170.6
Q ss_pred HHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHHhhHHHHHHHhhhhhhccCCccCCcEEEEeecCCCeeEEEE
Q 005375 196 KAVYSAVWVASASLFMELLGFSTQKWLTAGGLGTVLLTLAGREIFTNFLSSAMIHATRPFVLNEWIQTKIEGYEVSGTVE 275 (699)
Q Consensus 196 ~ii~iii~via~iiiL~~lGv~i~~lla~lGi~glalgfA~qd~l~Ni~aGi~I~~~rPfrIGD~I~Iki~~~~~~G~Ve 275 (699)
++++++++++++++++..+|++...+++++|++|+++|||+|++++|+++|++|++++||++||||++ ++..|+|+
T Consensus 2 ~i~~~~~~~~~~~~~l~~~g~~~~~l~~~~g~~~~~i~f~~~~~~~n~~~gi~i~~~~pf~vGD~I~i----~~~~G~V~ 77 (206)
T PF00924_consen 2 KIIRIVIIIVGILIILSILGIDVSSLLASLGVLGLAIGFAFQDIISNFISGIIILFERPFKVGDRIEI----GGVEGRVE 77 (206)
T ss_dssp -HHHHHHHHHHHHHHHHCCT--SCCHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHCC-SS-TT-EEES----SS-EEEEE
T ss_pred hHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCccCCCEEEE----EEeehHHH
Confidence 67889999999999999999999999999999999999999999999999999999999999999999 79999999
Q ss_pred EEeceeeEEEEecCCcEEEEeccccccCcEEeccC-CCceEEEEEEEecc-CCHHHHHHHHHHHHHHHHhCCCccccccc
Q 005375 276 HVGWWSPTIVRGEDREAVHIPNHKFTVNVVRNLSQ-KSHWRIKTHLAISH-LDVHKINSIVADMRKVLAKNPQVEQQRLH 353 (699)
Q Consensus 276 eIgL~sTT~IRt~Dg~~v~IPNs~l~s~~I~N~Sr-~~~~ri~i~l~I~y-td~ekv~~i~~~I~e~L~s~p~v~~~~~~ 353 (699)
+|+|++ |++|++||++++|||+.|.++.|.|||+ ...+++.+.+.++| +|+++++++.+.+.+.++++|.+...+ .
T Consensus 78 ~I~l~~-t~l~~~~g~~v~IPNs~l~~~~i~N~s~~~~~~~~~v~~~v~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~-~ 155 (206)
T PF00924_consen 78 EIGLRS-TRLRTWDGEIVIIPNSKLISSPIVNYSRSSPYRRVVVEIPVDYDTDPEKIEELREKIEEALRSNPYIFKEP-E 155 (206)
T ss_dssp EE-SSE-EEEEETTS-EEEEEHHHHHCS-EEETTT-SSEEEEEEEEEE-TTS----HHHHHHHHHHHHHH-TTC-TTS--
T ss_pred hcCcce-eeeecCCCCEEEEEchheeeEEEEEeeccCCceeeeeeeeEecCCCchHHHHHHHHHHHHHhcCchhhcCC-C
Confidence 999999 9999999999999999999999999999 77899999999999 888999999999999999999888765 6
Q ss_pred eEEEEEeeCCCCceEEEEEEEEEecCChhhHHHHHHHHHHHHHHHHHHCCCcc
Q 005375 354 RRVFLDNINPENQALLILVSCFVKTSHHEEYLCVKEAILLDLLRVISHHRARL 406 (699)
Q Consensus 354 p~V~v~~~~~~~~sl~i~V~~~v~~~d~~~~~~vr~~I~~~Il~~~~e~GIe~ 406 (699)
|.+.+..++. .++.++++||++..++.+++.+|++++.++++.|++|||+|
T Consensus 156 ~~~~~~~~~~--~~~~~~i~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~gI~~ 206 (206)
T PF00924_consen 156 PRVVVDEIGD--SSLEFRIRVYVKNQDPEKYWEIRSEIRKRILEILEEHGIEI 206 (206)
T ss_dssp EEEEEEEE-S--SSEEEEEEEEEEC---CCHHHHHHHHHHHHHHHHHHHT---
T ss_pred CeEEEccccC--CceEEEEEEEEEeCchhhHHHHHHHHHHHHHHHHHHccCCC
Confidence 7899998884 79999999999998889999999999999999999999986
No 7
>COG0668 MscS Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=100.00 E-value=5.4e-33 Score=292.03 Aligned_cols=211 Identities=21% Similarity=0.350 Sum_probs=193.5
Q ss_pred hHH-HHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHHhhHHHHHHHhhhhhhccCCccCCcEEEEeecCC
Q 005375 190 GFQ-FAGKAVYSAVWVASASLFMELLGFSTQKWLTAGGLGTVLLTLAGREIFTNFLSSAMIHATRPFVLNEWIQTKIEGY 268 (699)
Q Consensus 190 ~i~-~i~~ii~iii~via~iiiL~~lGv~i~~lla~lGi~glalgfA~qd~l~Ni~aGi~I~~~rPfrIGD~I~Iki~~~ 268 (699)
.+. ++.++.+++++++++++++..+|++++++++++|++|+++|||+|++++|+++|+++++++||++||||++ +
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~lla~~G~~glaigla~q~~~~n~~~Gi~il~~~~f~vGD~I~i----~ 157 (316)
T COG0668 82 TLSVFLSNLLRILILVVALLIVLSVLGVQVTSLLAGLGALGLAIGLALQDLLSNLIAGIFLLLERPFKVGDWIEI----G 157 (316)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCCcHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhHhheecCcCcCCEEEE----C
Confidence 344 78999999999999999999999999999999999999999999999999999999999999999999999 7
Q ss_pred -CeeEEEEEEeceeeEEEEecCCcEEEEeccccccCcEEeccCCCceEEEEEEEecc-CCHHHHHHHHHHHHHHHHhCCC
Q 005375 269 -EVSGTVEHVGWWSPTIVRGEDREAVHIPNHKFTVNVVRNLSQKSHWRIKTHLAISH-LDVHKINSIVADMRKVLAKNPQ 346 (699)
Q Consensus 269 -~~~G~VeeIgL~sTT~IRt~Dg~~v~IPNs~l~s~~I~N~Sr~~~~ri~i~l~I~y-td~ekv~~i~~~I~e~L~s~p~ 346 (699)
++.|+|++|++++ |++|++||++++|||+.+.++.|.||++...+|+.+.+.++| +|.+++++++.++.+ ..+.
T Consensus 158 ~~~~G~V~~i~~~~-T~ir~~dg~~v~iPNs~i~~~~i~N~s~~~~~~~~~~v~v~~~~~~~~~~~i~~~~~~---~~~~ 233 (316)
T COG0668 158 SGVEGTVEDIGLRS-TTIRTLDGRIVTIPNSKLFTANVVNYSREPGRRVEVKVGVAYDSDLEKALKILKEVLE---ELPE 233 (316)
T ss_pred CCceEEEEEEEEEE-EEEEcCCCCEEEccchhhccCceEeCCCCCcEEEEEEEeeccCCCHHHHHHHHHHHHH---hccc
Confidence 7999999999999 999999999999999999999999999998989999999999 999999996555544 4444
Q ss_pred cc-ccccceEEEEEeeCCCCceEEEEEEEEEecCChhhHHHHHHHHHHHHHHHHHHCCCccCCCcEEEE
Q 005375 347 VE-QQRLHRRVFLDNINPENQALLILVSCFVKTSHHEEYLCVKEAILLDLLRVISHHRARLATPIRTVQ 414 (699)
Q Consensus 347 v~-~~~~~p~V~v~~~~~~~~sl~i~V~~~v~~~d~~~~~~vr~~I~~~Il~~~~e~GIe~a~P~rtv~ 414 (699)
.. .++ .|.+.+.++++ +++.+++++|++..+ ++..+++++..+++.++++||+++||++.++
T Consensus 234 ~~~~~~-~~~v~~~~~~~--~~~~i~v~~~t~~~~---~~~~~~~~~~~i~~~~~~~gi~i~~p~~~~~ 296 (316)
T COG0668 234 VLKIEP-EPVIGVSELGD--SGINIRVRFWTNPED---LWSVQRELNLRIKEALEEAGIEIPYPQQSVL 296 (316)
T ss_pred ccccCC-CcEEEEeeccC--CceEEEEEEEecchh---HHHHHHHHHHHHHHHHHHcCCCCCCCCeeEE
Confidence 44 244 67899999985 799999999999876 6899999999999999999999999999977
No 8
>KOG4629 consensus Predicted mechanosensitive ion channel [Cell wall/membrane/envelope biogenesis]
Probab=99.76 E-value=4.7e-18 Score=195.87 Aligned_cols=218 Identities=17% Similarity=0.195 Sum_probs=190.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHHhhHHHHHHHhhhh-hhccCCccCCcEEEEeecCC
Q 005375 190 GFQFAGKAVYSAVWVASASLFMELLGFSTQKWLTAGGLGTVLLTLAGREIFTNFLSSAM-IHATRPFVLNEWIQTKIEGY 268 (699)
Q Consensus 190 ~i~~i~~ii~iii~via~iiiL~~lGv~i~~lla~lGi~glalgfA~qd~l~Ni~aGi~-I~~~rPfrIGD~I~Iki~~~ 268 (699)
.+.-+.+++.+++-++++++.+..+|++...+++..+-.-+++.|.+.+++++++.+++ +++.+||.+||+|.| +
T Consensus 479 aV~kL~~il~~Iv~vv~~~i~lil~~i~~~~~l~~~~sq~v~l~fif~~~~k~~~esiIFlfv~HPyDvGDRv~V----D 554 (714)
T KOG4629|consen 479 AVNKLDRILNFIVAVVLLVIWLILLGINTSKLLLVISSQLVGLAFIFGNIVKELLESIIFLFVMHPYDVGDRVVV----D 554 (714)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcccceeeeeeecccceeeeeehhhHHHHHHHHHhheeecCCCCCCCeEEE----e
Confidence 46667777888888888888888999999999988888888889999999999999754 778899999999999 5
Q ss_pred CeeEEEEEEeceeeEEEEecCCcEEEEeccccccCcEEeccCCCceEEEEEEEecc-CCHHHHHHHHHHHHHHHHhCCCc
Q 005375 269 EVSGTVEHVGWWSPTIVRGEDREAVHIPNHKFTVNVVRNLSQKSHWRIKTHLAISH-LDVHKINSIVADMRKVLAKNPQV 347 (699)
Q Consensus 269 ~~~G~VeeIgL~sTT~IRt~Dg~~v~IPNs~l~s~~I~N~Sr~~~~ri~i~l~I~y-td~ekv~~i~~~I~e~L~s~p~v 347 (699)
|+.-.|++++|++ |.+..+||+.+++||+.+.++.|.|+.|++.+...+++.++. ++.+|+.++.+.+.++++++|+.
T Consensus 555 g~~~vVeemnLls-TvF~~~dg~kI~~PNS~L~~k~I~N~rRS~~~~~~v~f~i~~~T~~~Ki~~Lk~rI~~ylks~~~~ 633 (714)
T KOG4629|consen 555 GVNLVVEEMNLLS-TVFLRVDGRKIFIPNSVLWTKAISNYRRSPDMGDEVEFLISSSTPFEKIERLKERIAEYLKSSPDD 633 (714)
T ss_pred ceEEEEEEeccce-EEEEEECCeEEEeecHHHHhhhhhhhhcCccccccEEEEecCCCCHHHHHHHHHHHHHHHhcCccc
Confidence 7899999999999 999999999999999999999999999999888899999999 99999999999999999999988
Q ss_pred cccccceEEEEEeeCCCCc-eEEEEEEEEEecCChhhHHHHHHHHHHHHHHHHHHCCCccCCCcEEEE
Q 005375 348 EQQRLHRRVFLDNINPENQ-ALLILVSCFVKTSHHEEYLCVKEAILLDLLRVISHHRARLATPIRTVQ 414 (699)
Q Consensus 348 ~~~~~~p~V~v~~~~~~~~-sl~i~V~~~v~~~d~~~~~~vr~~I~~~Il~~~~e~GIe~a~P~rtv~ 414 (699)
+... +.+.+.++++.+. .+.+.+.++.+.++..++|..|.++..++.+.+++.+|++-++.+++.
T Consensus 634 ~~p~--~~~~i~~~e~~n~v~i~v~~~h~~n~Qd~~~~~~Rr~~~~~~l~~~~~eLdI~y~l~p~~in 699 (714)
T KOG4629|consen 634 YYPD--LMVVIEEIEDLNSVKICVVVQHKINFQDMKERWSRRTEFVSALTKIMRELDIEYTLYPLDIN 699 (714)
T ss_pred cccc--hhhHHHhhhhcCcceEEEEEEeecchhhHHHHHhhHHHHHHHHHHHHHHcCcceeecCcchh
Confidence 8443 4577778776543 566666777778899999999999999999999999999855555433
No 9
>PRK10263 DNA translocase FtsK; Provisional
Probab=87.45 E-value=11 Score=48.08 Aligned_cols=14 Identities=14% Similarity=-0.069 Sum_probs=6.1
Q ss_pred eccccccCcEEecc
Q 005375 296 PNHKFTVNVVRNLS 309 (699)
Q Consensus 296 PNs~l~s~~I~N~S 309 (699)
.+.......+.|-.
T Consensus 245 ~~~~~~~~~~~~~~ 258 (1355)
T PRK10263 245 ARRKRLAEKFINPM 258 (1355)
T ss_pred hhhhhhhhhccccc
Confidence 33444444444443
No 10
>COG0053 MMT1 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]
Probab=85.07 E-value=56 Score=35.55 Aligned_cols=34 Identities=18% Similarity=0.316 Sum_probs=27.3
Q ss_pred ceEEEEEEEecc-CCHHHHHHHHHHHHHHHHhCCC
Q 005375 313 HWRIKTHLAISH-LDVHKINSIVADMRKVLAKNPQ 346 (699)
Q Consensus 313 ~~ri~i~l~I~y-td~ekv~~i~~~I~e~L~s~p~ 346 (699)
...+.+.+.++. .+.++..++.+++++.+++...
T Consensus 244 ~~~id~~i~v~~~ls~~eah~I~~~ie~~i~~~~~ 278 (304)
T COG0053 244 RIFIDVHIEVDPDLSLEEAHEIADEVEKRIKKEFP 278 (304)
T ss_pred eEEEEEEEEECCCCChHHHHHHHHHHHHHHHHhcC
Confidence 344678888888 7899999999999998877543
No 11
>PRK02509 hypothetical protein; Provisional
Probab=79.45 E-value=1.4e+02 Score=37.56 Aligned_cols=18 Identities=22% Similarity=0.226 Sum_probs=10.0
Q ss_pred CCCcCcccchhHHHHhhc
Q 005375 45 INPIPYRSNRIRSYNALQ 62 (699)
Q Consensus 45 ~~pv~~r~~~p~l~~~l~ 62 (699)
..|+|.....+.+|+.+.
T Consensus 144 ~~~~~~~~~~~~~~~~~~ 161 (973)
T PRK02509 144 SPPLPSPFRLEWLWNLLT 161 (973)
T ss_pred CCCCCCcccchHHHHHHH
Confidence 445566666666655443
No 12
>PF03699 UPF0182: Uncharacterised protein family (UPF0182); InterPro: IPR005372 This family contains uncharacterised integral membrane proteins.; GO: 0016021 integral to membrane
Probab=79.43 E-value=1.4e+02 Score=36.92 Aligned_cols=24 Identities=8% Similarity=0.144 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhCCc
Q 005375 194 AGKAVYSAVWVASASLFMELLGFS 217 (699)
Q Consensus 194 i~~ii~iii~via~iiiL~~lGv~ 217 (699)
...++.++..++|+++++..+--+
T Consensus 247 ~~~il~~i~~~~A~~~~~~~~~~~ 270 (774)
T PF03699_consen 247 AYTILAVIALLCAVLFFINIFRRN 270 (774)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcc
Confidence 445556666666666666665333
No 13
>PRK11465 putative mechanosensitive channel protein; Provisional
Probab=79.29 E-value=1.1e+02 Score=37.57 Aligned_cols=26 Identities=15% Similarity=0.063 Sum_probs=15.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhC
Q 005375 190 GFQFAGKAVYSAVWVASASLFMELLG 215 (699)
Q Consensus 190 ~i~~i~~ii~iii~via~iiiL~~lG 215 (699)
..+.+.++++.++++++++.++..+|
T Consensus 422 ~~~~~l~~lr~l~~~~~vl~ll~a~~ 447 (741)
T PRK11465 422 WLSAALKTARILTVCVAVMLLLNAWG 447 (741)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556666665666565655665555
No 14
>PF12794 MscS_TM: Mechanosensitive ion channel inner membrane domain 1
Probab=77.70 E-value=85 Score=34.66 Aligned_cols=45 Identities=13% Similarity=0.124 Sum_probs=26.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhCC--chHHHHHHHHHHHHHHH
Q 005375 189 MGFQFAGKAVYSAVWVASASLFMELLGF--STQKWLTAGGLGTVLLT 233 (699)
Q Consensus 189 ~~i~~i~~ii~iii~via~iiiL~~lGv--~i~~lla~lGi~glalg 233 (699)
.....+++.++.+++++..++++..+.. +....--++|-++++++
T Consensus 120 ~~~~~~r~~l~~~~~~~~pl~~~~~~~~~~~~~~~~d~LGrl~~ii~ 166 (340)
T PF12794_consen 120 ERVQRLRRQLRWLIWVLVPLLFISIFAENLPDGLARDVLGRLAFIIL 166 (340)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCchhhhhhhHHHHHHHHH
Confidence 3456677888888887777777665533 33333344454444443
No 15
>TIGR01654 bact_immun_7tm bacteriocin-associated integral membrane (putative immunity) protein. This model represents a family of integral membrane proteins, most of which are about 650 residues in size and predicted to span the membrane seven times. Nearly half of the members of this family are found in association with a member of the lactococcin 972 family of bacteriocins (TIGR01653). Others may be associated with uncharacterized proteins that may also act as bacteriocins. Although this protein is suggested to be an immunity protein, and the bacteriocin is suggested to be exported by a Sec-dependent process, the role of this protein is unclear.
Probab=76.89 E-value=1.2e+02 Score=36.53 Aligned_cols=11 Identities=45% Similarity=0.513 Sum_probs=5.5
Q ss_pred HHHHhCCCccc
Q 005375 339 KVLAKNPQVEQ 349 (699)
Q Consensus 339 e~L~s~p~v~~ 349 (699)
.+|+.+|-...
T Consensus 403 NYL~~~~i~~~ 413 (679)
T TIGR01654 403 NYLSKFPIVSQ 413 (679)
T ss_pred HHHHhCCCcCC
Confidence 44555554443
No 16
>PRK12438 hypothetical protein; Provisional
Probab=75.59 E-value=67 Score=40.45 Aligned_cols=13 Identities=15% Similarity=0.718 Sum_probs=8.3
Q ss_pred ccCCccCC-cEEEE
Q 005375 251 ATRPFVLN-EWIQT 263 (699)
Q Consensus 251 ~~rPfrIG-D~I~I 263 (699)
..+.|.+. |.|+.
T Consensus 332 TR~AYgL~~d~v~~ 345 (991)
T PRK12438 332 TRQAYGIGGDWVQY 345 (991)
T ss_pred HHHHhCCCccceEE
Confidence 34577775 67865
No 17
>PRK11281 hypothetical protein; Provisional
Probab=75.38 E-value=50 Score=42.22 Aligned_cols=22 Identities=9% Similarity=0.055 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 005375 191 FQFAGKAVYSAVWVASASLFME 212 (699)
Q Consensus 191 i~~i~~ii~iii~via~iiiL~ 212 (699)
+..+++-++.++|++..++++.
T Consensus 616 ~~~~~~~~~~~~~~~~pl~~~~ 637 (1113)
T PRK11281 616 VSHFRRQIVRLSLALLPLLFWS 637 (1113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555554444443
No 18
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=72.20 E-value=13 Score=34.70 Aligned_cols=38 Identities=5% Similarity=-0.091 Sum_probs=29.3
Q ss_pred CccCCcEEEEeecCCCeeEEEEEEeceeeEEEEecCCcEEEE
Q 005375 254 PFVLNEWIQTKIEGYEVSGTVEHVGWWSPTIVRGEDREAVHI 295 (699)
Q Consensus 254 PfrIGD~I~Iki~~~~~~G~VeeIgL~sTT~IRt~Dg~~v~I 295 (699)
.+++||+|.. .||..|+|.+|+=-+ ..++..+|..+.+
T Consensus 38 ~Lk~GD~VvT---~gGi~G~V~~I~d~~-v~leia~gv~i~~ 75 (109)
T PRK05886 38 SLQPGDRVHT---TSGLQATIVGITDDT-VDLEIAPGVVTTW 75 (109)
T ss_pred hcCCCCEEEE---CCCeEEEEEEEeCCE-EEEEECCCeEEEE
Confidence 3699999998 489999999998765 7777666655543
No 19
>PRK00068 hypothetical protein; Validated
Probab=71.62 E-value=91 Score=39.27 Aligned_cols=17 Identities=18% Similarity=0.092 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHCCCccC
Q 005375 391 ILLDLLRVISHHRARLA 407 (699)
Q Consensus 391 I~~~Il~~~~e~GIe~a 407 (699)
++.+++-+++-...+|-
T Consensus 536 ~~~RllfA~~f~d~~iL 552 (970)
T PRK00068 536 FLNRLLFAANYAERNFL 552 (970)
T ss_pred HHHHHHHHHHcCCCcEE
Confidence 44555555555555543
No 20
>COG4956 Integral membrane protein (PIN domain superfamily) [General function prediction only]
Probab=68.89 E-value=77 Score=34.92 Aligned_cols=19 Identities=21% Similarity=0.151 Sum_probs=9.5
Q ss_pred HHHHHHHHHHhhHHHHHHH
Q 005375 226 GLGTVLLTLAGREIFTNFL 244 (699)
Q Consensus 226 Gi~glalgfA~qd~l~Ni~ 244 (699)
+.+|.-+|+-=+|-+.+++
T Consensus 123 ~y~G~~~~~k~~de~~~l~ 141 (356)
T COG4956 123 AYFGFQLADKKRDEFLRLL 141 (356)
T ss_pred HHHhhHHhhhhhHHHHHhc
Confidence 3344444444455555554
No 21
>COG1480 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]
Probab=68.62 E-value=2.8e+02 Score=33.77 Aligned_cols=20 Identities=25% Similarity=0.316 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHhhHHHHHHH
Q 005375 225 GGLGTVLLTLAGREIFTNFL 244 (699)
Q Consensus 225 lGi~glalgfA~qd~l~Ni~ 244 (699)
.|++..++++|+-..+.-+|
T Consensus 442 sGl~s~il~iGllP~fE~~F 461 (700)
T COG1480 442 SGLLSGILVLGLLPYFEALF 461 (700)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 34444445555555554444
No 22
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=68.43 E-value=14 Score=34.26 Aligned_cols=41 Identities=17% Similarity=0.154 Sum_probs=32.2
Q ss_pred CccCCcEEEEeecCCCeeEEEEEEeceeeEEEEecCCcEEEEecc
Q 005375 254 PFVLNEWIQTKIEGYEVSGTVEHVGWWSPTIVRGEDREAVHIPNH 298 (699)
Q Consensus 254 PfrIGD~I~Iki~~~~~~G~VeeIgL~sTT~IRt~Dg~~v~IPNs 298 (699)
-.++||+|.. .+|..|+|.+|+=-. ..++..+|..+.+=-+
T Consensus 52 ~Lk~Gd~VvT---~gGi~G~Vv~i~~~~-v~lei~~g~~i~~~r~ 92 (106)
T PRK05585 52 SLAKGDEVVT---NGGIIGKVTKVSEDF-VIIELNDDTEIKIQKS 92 (106)
T ss_pred hcCCCCEEEE---CCCeEEEEEEEeCCE-EEEEECCCeEEEEEhH
Confidence 3689999987 489999999999865 8888888866655433
No 23
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=67.50 E-value=17 Score=32.33 Aligned_cols=38 Identities=13% Similarity=0.139 Sum_probs=30.3
Q ss_pred CccCCcEEEEeecCCCeeEEEEEEeceeeEEEEecCCcEEEE
Q 005375 254 PFVLNEWIQTKIEGYEVSGTVEHVGWWSPTIVRGEDREAVHI 295 (699)
Q Consensus 254 PfrIGD~I~Iki~~~~~~G~VeeIgL~sTT~IRt~Dg~~v~I 295 (699)
-+++||+|.. .+|..|+|.+|+=-+ ..++..+|..+.+
T Consensus 37 ~L~~Gd~VvT---~gGi~G~V~~i~d~~-v~vei~~g~~i~~ 74 (84)
T TIGR00739 37 SLKKGDKVLT---IGGIIGTVTKIAENT-IVIELNDNTEITF 74 (84)
T ss_pred hCCCCCEEEE---CCCeEEEEEEEeCCE-EEEEECCCeEEEE
Confidence 3689999998 489999999999776 7777777755544
No 24
>PF12794 MscS_TM: Mechanosensitive ion channel inner membrane domain 1
Probab=65.60 E-value=2.2e+02 Score=31.47 Aligned_cols=29 Identities=14% Similarity=0.219 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHH-HHHHHhCCchHH
Q 005375 192 QFAGKAVYSAVWVASAS-LFMELLGFSTQK 220 (699)
Q Consensus 192 ~~i~~ii~iii~via~i-iiL~~lGv~i~~ 220 (699)
..+++++..++.++-++ +++..+|+--++
T Consensus 194 ~~~~~l~~~~li~~Pl~li~la~~GY~yTA 223 (340)
T PF12794_consen 194 HRLRYLWWPLLILAPLALIVLALLGYYYTA 223 (340)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 44666666555544433 445566775443
No 25
>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]
Probab=65.10 E-value=3.1e+02 Score=33.66 Aligned_cols=42 Identities=17% Similarity=-0.002 Sum_probs=25.3
Q ss_pred HHHHHHHHHhCCchHHHHHHHHHHHHHHHHHhhHHHHHHHhh
Q 005375 205 ASASLFMELLGFSTQKWLTAGGLGTVLLTLAGREIFTNFLSS 246 (699)
Q Consensus 205 ia~iiiL~~lGv~i~~lla~lGi~glalgfA~qd~l~Ni~aG 246 (699)
+..+.+|.......+.+..+..++-++++++++..+.+..--
T Consensus 282 ~i~l~vm~~ys~~L~li~l~~~~l~~l~~~~~~~~l~~~~~~ 323 (709)
T COG2274 282 LIFLAVMFLYSWKLTLIVLAAIPLNVLITLIFQPLLRRKTRK 323 (709)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444555555555566666777788888887776543
No 26
>PRK10929 putative mechanosensitive channel protein; Provisional
Probab=65.06 E-value=1.7e+02 Score=37.65 Aligned_cols=27 Identities=19% Similarity=0.415 Sum_probs=12.7
Q ss_pred ccccchhhHHHHHHHHHHHHHHHHHHH
Q 005375 101 NSWKKSKTHHVMTSYIQPLMLWTGAIL 127 (699)
Q Consensus 101 ~~~~~~~~~~il~sl~~Pl~l~l~~i~ 127 (699)
.+|.+.....+.+.+.+-+.+++.+++
T Consensus 588 F~w~~~~v~~~~~~~~~~~~~~~pl~~ 614 (1109)
T PRK10929 588 FGWPRERVARAMRYYLLSIGLIVPLIM 614 (1109)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467765555554444333333333333
No 27
>COG1033 Predicted exporters of the RND superfamily [General function prediction only]
Probab=63.75 E-value=3.3e+02 Score=33.48 Aligned_cols=23 Identities=9% Similarity=-0.129 Sum_probs=11.5
Q ss_pred HhCCchHHHHHHHHHHHHHHHHH
Q 005375 213 LLGFSTQKWLTAGGLGTVLLTLA 235 (699)
Q Consensus 213 ~lGv~i~~lla~lGi~glalgfA 235 (699)
..+++.-.-+..+.+.|++++++
T Consensus 315 ~s~i~~i~~~Gi~~siGi~la~l 337 (727)
T COG1033 315 TSSIPAIKEFGILLSIGIILAFL 337 (727)
T ss_pred HcccHHHHHHHHHHHHHHHHHHH
Confidence 34555544444444555555444
No 28
>PRK10334 mechanosensitive channel MscS; Provisional
Probab=63.48 E-value=1.4e+02 Score=32.23 Aligned_cols=14 Identities=0% Similarity=0.252 Sum_probs=7.4
Q ss_pred HHHHHHHHHHHhCC
Q 005375 332 SIVADMRKVLAKNP 345 (699)
Q Consensus 332 ~i~~~I~e~L~s~p 345 (699)
++.+.+.+.++++.
T Consensus 252 ~~~~~I~~~f~~~g 265 (286)
T PRK10334 252 DVLERIKREFDAAG 265 (286)
T ss_pred HHHHHHHHHHHHCC
Confidence 34445666665543
No 29
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=62.94 E-value=25 Score=32.24 Aligned_cols=41 Identities=17% Similarity=0.098 Sum_probs=31.5
Q ss_pred ccCCcEEEEeecCCCeeEEEEEEeceeeEEEEecCCcEEEEeccc
Q 005375 255 FVLNEWIQTKIEGYEVSGTVEHVGWWSPTIVRGEDREAVHIPNHK 299 (699)
Q Consensus 255 frIGD~I~Iki~~~~~~G~VeeIgL~sTT~IRt~Dg~~v~IPNs~ 299 (699)
.+.||.|.. .||..|+|.+|+=.. ..|...||..+.+--+.
T Consensus 44 L~kGD~VvT---~gGi~G~V~~v~d~~-v~I~l~~~~~i~~~k~a 84 (97)
T COG1862 44 LKKGDEVVT---IGGIVGTVTKVGDDT-VEIELGDGTKIKFEKEA 84 (97)
T ss_pred ccCCCEEEE---cCCeEEEEEEEecCc-EEEEECCCeEEEEEHHH
Confidence 689999988 488999999999876 66666677666654433
No 30
>COG3264 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=60.04 E-value=4.3e+02 Score=32.96 Aligned_cols=22 Identities=9% Similarity=0.132 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhC
Q 005375 194 AGKAVYSAVWVASASLFMELLG 215 (699)
Q Consensus 194 i~~ii~iii~via~iiiL~~lG 215 (699)
..++++.+++++++..++..+|
T Consensus 511 ~~~~~rl~~~~~~i~l~l~~wg 532 (835)
T COG3264 511 LLRLIRLLLLLIAIPLVLYVWG 532 (835)
T ss_pred hhHHHHHHHHHHHHHHHHHHHh
Confidence 4566777777777777777776
No 31
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=56.24 E-value=2.7e+02 Score=34.44 Aligned_cols=58 Identities=14% Similarity=0.063 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCc------------------hHHHHHHHHH--------HHHHHHHHhhHHHHHHH
Q 005375 191 FQFAGKAVYSAVWVASASLFMELLGFS------------------TQKWLTAGGL--------GTVLLTLAGREIFTNFL 244 (699)
Q Consensus 191 i~~i~~ii~iii~via~iiiL~~lGv~------------------i~~lla~lGi--------~glalgfA~qd~l~Ni~ 244 (699)
-.++.++..+++.+..++.+|..+|.+ ++.+++-+|+ ++++.||.+|+.+-.-+
T Consensus 509 ~~Fl~~Ag~iI~~~~iviw~l~~~~~~g~~~~~~~~S~l~~ig~~i~Pi~~plG~~~~nW~~~vali~G~~AKE~vv~tl 588 (772)
T PRK09554 509 KGFVLRAGKVIIIVSIFIGALNSFSLSGKIVDNINDSALASVSRVITPVLKPIGVHEDNWQATVGLFTGAMAKEVVVGTL 588 (772)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCccccccchhhhHHHHHHHHHHHHHhccCCCCcchhHHHHHHHHHHHHHHHHHHH
Confidence 457778888877777777888887632 1233333343 46677899999887777
Q ss_pred hhhh
Q 005375 245 SSAM 248 (699)
Q Consensus 245 aGi~ 248 (699)
+.++
T Consensus 589 ~~ly 592 (772)
T PRK09554 589 NTLY 592 (772)
T ss_pred HHHH
Confidence 7665
No 32
>COG1377 FlhB Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=56.21 E-value=3.4e+02 Score=30.62 Aligned_cols=16 Identities=13% Similarity=0.258 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHCCCc
Q 005375 390 AILLDLLRVISHHRAR 405 (699)
Q Consensus 390 ~I~~~Il~~~~e~GIe 405 (699)
.+=++|.+.-++|||.
T Consensus 296 ~~AlkIreiA~e~~Ip 311 (363)
T COG1377 296 LVALKIREIAKEHGIP 311 (363)
T ss_pred HHHHHHHHHHHHcCCc
Confidence 3444566666666665
No 33
>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]
Probab=54.86 E-value=4.7e+02 Score=32.08 Aligned_cols=41 Identities=10% Similarity=0.056 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHH
Q 005375 192 QFAGKAVYSAVWVASASLFMELLGFSTQKWLTAGGLGTVLLT 233 (699)
Q Consensus 192 ~~i~~ii~iii~via~iiiL~~lGv~i~~lla~lGi~glalg 233 (699)
.++..+..+++..+++..++.. .++++.++|.-.+.+-..+
T Consensus 384 ~~l~~l~~v~iL~~G~~lVl~~-~lTlG~LiAf~~l~~~f~~ 424 (709)
T COG2274 384 SLLQQLSSVLILWFGAILVLEG-ELTLGQLVAFNMLAGYFIS 424 (709)
T ss_pred HHHHHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHh
Confidence 3344444444444444444433 5556666666655555443
No 34
>PF07331 TctB: Tripartite tricarboxylate transporter TctB family; InterPro: IPR009936 This entry contains bacterial proteins of around 150 residues in length, which have 4 transmembrane domains. Some of the sequences in the entry are annotated as the TctB subunit of the tripartite tricarboxylate transport(TTT) family. However there is no direct evidence to support this annotation as characterised members of this family are not associated with the entry.
Probab=53.05 E-value=1.6e+02 Score=27.47 Aligned_cols=28 Identities=18% Similarity=0.256 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhCCchHHH
Q 005375 194 AGKAVYSAVWVASASLFMELLGFSTQKW 221 (699)
Q Consensus 194 i~~ii~iii~via~iiiL~~lGv~i~~l 221 (699)
.+++..+++++++....+..+|+-++++
T Consensus 72 ~~~~~~~~~~~~~y~~~~~~lGf~~at~ 99 (141)
T PF07331_consen 72 WKRVLLVLGLLVLYVLLLEYLGFIIATF 99 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence 4466666666666666667777654433
No 35
>PF05297 Herpes_LMP1: Herpesvirus latent membrane protein 1 (LMP1); InterPro: IPR007961 This family consists of several latent membrane protein 1 or LMP1s mostly from Epstein-Barr virus (strain GD1) (HHV-4) (Human herpesvirus 4). LMP1 of HHV-4 is a 62-65 kDa plasma membrane protein possessing six membrane spanning regions, a short cytoplasmic N terminus and a long cytoplasmic carboxy tail of 200 amino acids. HHV-4 virus latent membrane protein 1 (LMP1) is essential for HHV-4 mediated transformation and has been associated with several cases of malignancies. HHV-4-like viruses in Macaca fascicularis (Cynomolgus monkeys) have been associated with high lymphoma rates in immunosuppressed monkeys [].; GO: 0019087 transformation of host cell by virus, 0016021 integral to membrane; PDB: 1CZY_E 1ZMS_B.
Probab=52.34 E-value=4.7 Score=43.39 Aligned_cols=15 Identities=27% Similarity=0.104 Sum_probs=0.0
Q ss_pred HHHhCCchHHHHHHH
Q 005375 211 MELLGFSTQKWLTAG 225 (699)
Q Consensus 211 L~~lGv~i~~lla~l 225 (699)
|..+|.+...+++..
T Consensus 129 Lr~~GAs~WtiLaFc 143 (381)
T PF05297_consen 129 LRELGASFWTILAFC 143 (381)
T ss_dssp ---------------
T ss_pred HHHhhhHHHHHHHHH
Confidence 345566655555543
No 36
>PF04791 LMBR1: LMBR1-like membrane protein; InterPro: IPR006876 This group of uncharacterised proteins have a conserved C-terminal region which is found in LMBR1 and in the lipocalin-1 receptor. LMBR1 was thought to play a role in preaxial polydactyly, but recent evidence now suggests this not to be the case [].
Probab=51.21 E-value=4.2e+02 Score=30.15 Aligned_cols=9 Identities=11% Similarity=0.346 Sum_probs=3.6
Q ss_pred HHHHHHHHH
Q 005375 194 AGKAVYSAV 202 (699)
Q Consensus 194 i~~ii~iii 202 (699)
..++..+++
T Consensus 120 ~~n~~~~~~ 128 (471)
T PF04791_consen 120 KENLIYYLI 128 (471)
T ss_pred HHHHHHHHH
Confidence 344433333
No 37
>PF11449 DUF2899: Protein of unknown function (DUF2899); InterPro: IPR021552 This is a bacterial family of uncharacterised proteins.
Probab=48.74 E-value=2e+02 Score=31.49 Aligned_cols=43 Identities=23% Similarity=0.321 Sum_probs=31.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH----HhCCchHHHHHHHHHHHHHH
Q 005375 190 GFQFAGKAVYSAVWVASASLFME----LLGFSTQKWLTAGGLGTVLL 232 (699)
Q Consensus 190 ~i~~i~~ii~iii~via~iiiL~----~lGv~i~~lla~lGi~glal 232 (699)
..+.+....++++|++++.+++. .+|.++..++...++.+-.+
T Consensus 178 ~~~a~~hT~~I~~~v~~~~l~~~~~i~~~G~dl~~~l~~~~~~~pli 224 (298)
T PF11449_consen 178 LQKALQHTLFIFVWVFVAFLALELVIEFIGEDLAALLSGNGILQPLI 224 (298)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHhCchHHHHH
Confidence 56667788889999888887775 45888887777666554433
No 38
>PF03030 H_PPase: Inorganic H+ pyrophosphatase; InterPro: IPR004131 Two types of proteins that hydrolyse inorganic pyrophosphate (PPi), very different in both amino acid sequence and structure, have been characterised to date: soluble and membrane-bound proton-pumping pyrophosphatases (sPPases and H(+)-PPases, respectively). sPPases are ubiquitous proteins that hydrolyse PPi to release heat, whereas H+-PPases, so far unidentified in animal and fungal cells, couple the energy of PPi hydrolysis to proton movement across biological membranes [, ]. The latter type is represented by this group of proteins. H+-PPases (3.6.1.1 from EC) are also called vacuolar-type inorganic pyrophosphatases (V-PPase) or pyrophosphate-energised vacuolar membrane proton pumps []. In plants, vacuoles contain two enzymes for acidifying the interior of the vacuole, the V-ATPase and the V-PPase (V is for vacuolar) []. Two distinct biochemical subclasses of H+-PPases have been characterised to date: K+-stimulated and K+-insensitive [, ]. For additional information please see [, ].; GO: 0004427 inorganic diphosphatase activity, 0009678 hydrogen-translocating pyrophosphatase activity, 0015992 proton transport, 0016020 membrane; PDB: 4A01_A.
Probab=48.51 E-value=6e+02 Score=31.15 Aligned_cols=29 Identities=10% Similarity=-0.011 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005375 150 LNFVRSLSTVLAFAYCLSSLIQQAQKFFM 178 (699)
Q Consensus 150 l~~l~ailiIl~~~~ll~~li~~i~~~l~ 178 (699)
+.|++..+.-.+.+|+..++..+..-+..
T Consensus 74 iaFliGa~~S~laGyiGM~vAt~aN~Rta 102 (682)
T PF03030_consen 74 IAFLIGALCSALAGYIGMRVATRANVRTA 102 (682)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHhhH
Confidence 35555555555667777777655444433
No 39
>TIGR01654 bact_immun_7tm bacteriocin-associated integral membrane (putative immunity) protein. This model represents a family of integral membrane proteins, most of which are about 650 residues in size and predicted to span the membrane seven times. Nearly half of the members of this family are found in association with a member of the lactococcin 972 family of bacteriocins (TIGR01653). Others may be associated with uncharacterized proteins that may also act as bacteriocins. Although this protein is suggested to be an immunity protein, and the bacteriocin is suggested to be exported by a Sec-dependent process, the role of this protein is unclear.
Probab=48.18 E-value=5.3e+02 Score=31.27 Aligned_cols=14 Identities=14% Similarity=0.131 Sum_probs=5.7
Q ss_pred HHHHHHHHHHHhhh
Q 005375 85 GPLMRQSRNLLLRK 98 (699)
Q Consensus 85 ~~llr~i~~ll~~r 98 (699)
....+..++...+|
T Consensus 186 ~~~~~~~K~~gI~r 199 (679)
T TIGR01654 186 YYLMINMKRVAIYR 199 (679)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333344444443
No 40
>PRK10263 DNA translocase FtsK; Provisional
Probab=47.84 E-value=6e+02 Score=33.47 Aligned_cols=12 Identities=25% Similarity=0.119 Sum_probs=5.6
Q ss_pred HHHHHHhhhhhh
Q 005375 239 IFTNFLSSAMIH 250 (699)
Q Consensus 239 ~l~Ni~aGi~I~ 250 (699)
.+.|++..+.-.
T Consensus 193 ~v~~~~t~l~~~ 204 (1355)
T PRK10263 193 WILNILTFASNR 204 (1355)
T ss_pred HHHHHHHHHHHH
Confidence 335555444443
No 41
>PF14348 DUF4400: Domain of unknown function (DUF4400)
Probab=46.71 E-value=2.3e+02 Score=28.60 Aligned_cols=74 Identities=20% Similarity=0.117 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHhhcCCcccchhhHHHHHHHHHHHHHHHHHH-HHHHHhCCchHHHHHHHHHHHHHHHHHhhHHHHHH
Q 005375 166 LSSLIQQAQKFFMETTDSGDARNMGFQFAGKAVYSAVWVASAS-LFMELLGFSTQKWLTAGGLGTVLLTLAGREIFTNF 243 (699)
Q Consensus 166 l~~li~~i~~~l~~~~~~~~~r~~~i~~i~~ii~iii~via~i-iiL~~lGv~i~~lla~lGi~glalgfA~qd~l~Ni 243 (699)
+.-+++.+.++-.++......... +.+...+.+.+++++. ++.-.+-+++...+..+ .+.+.+|++..-+.+||
T Consensus 123 ~~~~vDGl~~R~iRr~~~g~eSp~---~~h~a~~~~~~~~~~~~~lyL~lP~~i~P~~~~l-~~a~llg~av~~t~s~F 197 (198)
T PF14348_consen 123 LAALVDGLVRRDIRRFGFGRESPF---VYHHAKRSVIPLLILPWVLYLSLPFSIPPNLVPL-PAALLLGLAVWITASNF 197 (198)
T ss_pred HHHHHHHHHHHHHHHHcCCCCCHH---HHHHHHHHHHHHHHHHHHHHHHcccccChHHHHH-HHHHHHHHHHHHHHHhc
Confidence 444445444444444332222222 3444455555555444 22224444444433333 44455555555555543
No 42
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=46.44 E-value=51 Score=31.07 Aligned_cols=38 Identities=16% Similarity=0.044 Sum_probs=26.6
Q ss_pred ccCCcEEEEeecCCCeeEEEEEEece-eeEEEEecCCcEEEEe
Q 005375 255 FVLNEWIQTKIEGYEVSGTVEHVGWW-SPTIVRGEDREAVHIP 296 (699)
Q Consensus 255 frIGD~I~Iki~~~~~~G~VeeIgL~-sTT~IRt~Dg~~v~IP 296 (699)
++.||+|.. .||..|+|.+|+-- .+..++. +|..+.+=
T Consensus 37 Lk~GD~VvT---~GGi~G~V~~I~~~~~~v~le~-~gv~i~v~ 75 (113)
T PRK06531 37 IQKGDEVVT---IGGLYGTVDEVDTEAKTIVLDV-DGVYLTFE 75 (113)
T ss_pred cCCCCEEEE---CCCcEEEEEEEecCCCEEEEEE-CCEEEEEE
Confidence 689999987 48999999999852 1155554 56544443
No 43
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=45.25 E-value=4.2e+02 Score=32.21 Aligned_cols=58 Identities=12% Similarity=0.139 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhC------C----------chHHHHHHHHH------HHHHHHHHhhHHHHHHHhhhh
Q 005375 191 FQFAGKAVYSAVWVASASLFMELLG------F----------STQKWLTAGGL------GTVLLTLAGREIFTNFLSSAM 248 (699)
Q Consensus 191 i~~i~~ii~iii~via~iiiL~~lG------v----------~i~~lla~lGi------~glalgfA~qd~l~Ni~aGi~ 248 (699)
-.+++++..+++....++.+++.+| + -...++..+|+ .+++.||++|+.+-..++-+.
T Consensus 498 k~Fl~kAgtiI~~~svlIW~Ls~~pp~g~~~~~~S~l~~ig~~l~Plf~plG~~~Wqa~v~Li~G~~AKEvvv~tl~~ly 577 (653)
T COG0370 498 KEFLKKAGTIILAGSVLIWFLSSFPPGGVDNIKDSILAVIGKALEPLFSPLGFGDWQATVALIFGFIAKEVVVGTLGVLY 577 (653)
T ss_pred HHHHHHhhHHHHHHHHHHHHHHhCCCcccCchhhhHHHHHHHHHHHhhhhhcCcchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567777777777777777787776 1 12344555555 477779999998766665543
No 44
>COG1269 NtpI Archaeal/vacuolar-type H+-ATPase subunit I [Energy production and conversion]
Probab=44.21 E-value=6.6e+02 Score=30.47 Aligned_cols=9 Identities=22% Similarity=0.231 Sum_probs=4.3
Q ss_pred CCCcCcccc
Q 005375 45 INPIPYRSN 53 (699)
Q Consensus 45 ~~pv~~r~~ 53 (699)
+.|+-.|.+
T Consensus 329 ~~Pt~l~n~ 337 (660)
T COG1269 329 EVPTKLRNP 337 (660)
T ss_pred CCCEeecCC
Confidence 455544444
No 45
>COG4956 Integral membrane protein (PIN domain superfamily) [General function prediction only]
Probab=44.16 E-value=3.3e+02 Score=30.20 Aligned_cols=20 Identities=15% Similarity=0.137 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 005375 151 NFVRSLSTVLAFAYCLSSLI 170 (699)
Q Consensus 151 ~~l~ailiIl~~~~ll~~li 170 (699)
..++.+++.++++|+...+.
T Consensus 111 ~~ii~vi~t~il~y~G~~~~ 130 (356)
T COG4956 111 STIIPVILTIILAYFGFQLA 130 (356)
T ss_pred HhHHHHHHHHHHHHHhhHHh
Confidence 33444444455556555544
No 46
>PF09953 DUF2187: Uncharacterized protein conserved in bacteria (DUF2187); InterPro: IPR018690 This family consists of various hypothetical bacterial proteins with known function. It includes the uncharacterised YkvS protein from Bacillus subtilis.
Probab=43.73 E-value=38 Score=28.19 Aligned_cols=28 Identities=32% Similarity=0.219 Sum_probs=22.5
Q ss_pred ccCCcEEEEeecCCCeeEEEEEEeceeeEEEE
Q 005375 255 FVLNEWIQTKIEGYEVSGTVEHVGWWSPTIVR 286 (699)
Q Consensus 255 frIGD~I~Iki~~~~~~G~VeeIgL~sTT~IR 286 (699)
-.+||+|+++ .+..|+|+.+.=.| +.+.
T Consensus 4 a~vGdiIefk---~g~~G~V~kv~eNS-VIVd 31 (57)
T PF09953_consen 4 AKVGDIIEFK---DGFTGIVEKVYENS-VIVD 31 (57)
T ss_pred cccCcEEEEc---CCcEEEEEEEecCc-EEEE
Confidence 4799999985 57999999998776 5553
No 47
>COG1283 NptA Na+/phosphate symporter [Inorganic ion transport and metabolism]
Probab=43.10 E-value=6.4e+02 Score=29.97 Aligned_cols=11 Identities=27% Similarity=0.283 Sum_probs=4.5
Q ss_pred HHhhhcccccc
Q 005375 94 LLLRKSDNSWK 104 (699)
Q Consensus 94 ll~~rt~~~~~ 104 (699)
.+.+-+++.+.
T Consensus 39 ~L~~~t~np~~ 49 (533)
T COG1283 39 ILARFTSNPIL 49 (533)
T ss_pred HHHHhcCCcHH
Confidence 34444444443
No 48
>TIGR00844 c_cpa1 na(+)/h(+) antiporter. This model is specific for the fungal members of this family.
Probab=42.88 E-value=7.7e+02 Score=30.85 Aligned_cols=17 Identities=18% Similarity=0.319 Sum_probs=9.8
Q ss_pred ccccCCCCCCchhhhHh
Q 005375 647 LPIEEGMPSSQPVVKEL 663 (699)
Q Consensus 647 ~~~~~~~~~~~~~~~~~ 663 (699)
|--|+||....+|++++
T Consensus 776 ~~~~~~~~~~~~~~~~~ 792 (810)
T TIGR00844 776 LHSEDEMADDEAESENM 792 (810)
T ss_pred cccchhhccchhccccc
Confidence 33556666556666654
No 49
>PRK12911 bifunctional preprotein translocase subunit SecD/SecF; Reviewed
Probab=42.79 E-value=2.7e+02 Score=36.38 Aligned_cols=23 Identities=17% Similarity=0.026 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhCC
Q 005375 194 AGKAVYSAVWVASASLFMELLGF 216 (699)
Q Consensus 194 i~~ii~iii~via~iiiL~~lGv 216 (699)
++.++...+..+++++.|..+|.
T Consensus 1007 fs~ILdTnLTTLIA~lPLf~fGt 1029 (1403)
T PRK12911 1007 FSAIFDSNLTTILASALLLMLDT 1029 (1403)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcc
Confidence 44444444445555555555654
No 50
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=42.61 E-value=42 Score=22.59 Aligned_cols=24 Identities=21% Similarity=0.288 Sum_probs=16.3
Q ss_pred CccCCcEEEEeecC--CCeeEEEEEEe
Q 005375 254 PFVLNEWIQTKIEG--YEVSGTVEHVG 278 (699)
Q Consensus 254 PfrIGD~I~Iki~~--~~~~G~VeeIg 278 (699)
+|++||.|+|. .| .+..|.|.+|.
T Consensus 1 ~~~~G~~V~I~-~G~~~g~~g~i~~i~ 26 (28)
T smart00739 1 KFEVGDTVRVI-AGPFKGKVGKVLEVD 26 (28)
T ss_pred CCCCCCEEEEe-ECCCCCcEEEEEEEc
Confidence 47899999993 22 34566777664
No 51
>PRK09509 fieF ferrous iron efflux protein F; Reviewed
Probab=41.66 E-value=4.7e+02 Score=28.03 Aligned_cols=31 Identities=19% Similarity=0.326 Sum_probs=24.3
Q ss_pred eEEEEEEEecc-CCHHHHHHHHHHHHHHHHhC
Q 005375 314 WRIKTHLAISH-LDVHKINSIVADMRKVLAKN 344 (699)
Q Consensus 314 ~ri~i~l~I~y-td~ekv~~i~~~I~e~L~s~ 344 (699)
..+.+++.++. .+.++..++.+++++.+++.
T Consensus 243 ~~v~v~i~v~~~~~~~e~h~i~~~ie~~l~~~ 274 (299)
T PRK09509 243 RFIQLHLEMEDNLPLVQAHMIADQVEQALLRR 274 (299)
T ss_pred EEEEEEEEECCCCCHHHHHHHHHHHHHHHHHh
Confidence 44567777776 67888898888999998765
No 52
>PF06442 DHFR_2: R67 dihydrofolate reductase; InterPro: IPR009159 Dihydrofolate reductase (DHFR) (1.5.1.3 from EC) catalyses the NADPH-dependent reduction of dihydrofolate to tetrahydrofolate, an essential step in de novo synthesis both of glycine and of purines and deoxythymidine phosphate (the precursors of DNA synthesis) [], and important also in the conversion of deoxyuridine monophosphate to deoxythymidine monophosphate. Although DHFR is found ubiquitously in prokaryotes and eukaryotes, and is found in all dividing cells, maintaining levels of fully reduced folate coenzymes, the catabolic steps are still not well understood []. Bacterial species possesses distinct DHFR enzymes (based on their pattern of binding diaminoheterocyclic molecules), but mammalian DHFRs are highly similar []. The active site is situated in the N-terminal half of the sequence, which includes a conserved Pro-Trp dipeptide; the tryptophan has been shown [] to be involved in the binding of substrate by the enzyme. Its central role in DNA precursor synthesis, coupled with its inhibition by antagonists such as trimethoprim and methotrexate, which are used as anti-bacterial or anti-cancer agents, has made DHFR a target of anticancer chemotherapy. However, resistance has developed against some drugs, as a result of changes in DHFR itself []. This entry represents a plasmid-encoded DHFR which shows a high level of resistance to the antibiotic trimethoprim. It is a homotetramer with an unusual pore, which contains the active site, passing through the middle of the molecule []. Its structure is unrelated to that of chromosomal DHFRs.; GO: 0004146 dihydrofolate reductase activity, 0042493 response to drug, 0055114 oxidation-reduction process; PDB: 1VIF_A 3SFM_A 2P4T_A 2GQV_A 2RK2_A 2RH2_A 2RK1_A 1VIE_A.
Probab=41.07 E-value=21 Score=30.36 Aligned_cols=42 Identities=21% Similarity=0.483 Sum_probs=17.3
Q ss_pred HHHHHhhhh-hhccCCccCCcEEEEeecCCCeeEEEEEEeceeeEEE
Q 005375 240 FTNFLSSAM-IHATRPFVLNEWIQTKIEGYEVSGTVEHVGWWSPTIV 285 (699)
Q Consensus 240 l~Ni~aGi~-I~~~rPfrIGD~I~Iki~~~~~~G~VeeIgL~sTT~I 285 (699)
+.|.++|-+ +-....|..||+|+- ..|....|.| +||.+ |.+
T Consensus 8 v~~~vag~fa~ps~atf~~gdrvrk-ksgaawqg~v--vgwy~-t~l 50 (78)
T PF06442_consen 8 VSNPVAGQFAFPSNATFGMGDRVRK-KSGAAWQGQV--VGWYC-TKL 50 (78)
T ss_dssp -------------S-SS-TT-EEEE-SSSS--EEEE--EEEE---SS
T ss_pred cccccccceecccccccccchhhhh-cccccccceE--eEEEe-ccc
Confidence 455666644 557789999999994 4555667777 57887 655
No 53
>PRK12438 hypothetical protein; Provisional
Probab=37.51 E-value=1e+03 Score=30.59 Aligned_cols=13 Identities=8% Similarity=-0.018 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHHH
Q 005375 191 FQFAGKAVYSAVW 203 (699)
Q Consensus 191 i~~i~~ii~iii~ 203 (699)
+++++-++.+++.
T Consensus 165 LPf~~~l~~~l~~ 177 (991)
T PRK12438 165 LPFYRSVLNWLFV 177 (991)
T ss_pred cHHHHHHHHHHHH
Confidence 5555555554443
No 54
>PRK10845 colicin V production protein; Provisional
Probab=37.46 E-value=4.2e+02 Score=26.18 Aligned_cols=58 Identities=10% Similarity=0.169 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcCCcccchhhHHHHHHHHHHHHHHHHHHHHHHH
Q 005375 155 SLSTVLAFAYCLSSLIQQAQKFFMETTDSGDARNMGFQFAGKAVYSAVWVASASLFMEL 213 (699)
Q Consensus 155 ailiIl~~~~ll~~li~~i~~~l~~~~~~~~~r~~~i~~i~~ii~iii~via~iiiL~~ 213 (699)
+.+++.++.+++.+++..+.+.+.+...- ..-++.+..+--+++..+++..++.++..
T Consensus 65 af~~iFi~v~~~~~i~~~~l~~l~~~~~L-g~~dr~lG~ifG~~rg~liv~v~l~~l~~ 122 (162)
T PRK10845 65 AIAVLFIATLIVGAIVNYVIGQLVEKTGL-SGTDRVLGVCFGALRGVLIVAAILFFLDT 122 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCC-chHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33444555666666666555555443221 12233344444555555555444444443
No 55
>PRK09586 murP PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed
Probab=36.43 E-value=7.6e+02 Score=28.87 Aligned_cols=28 Identities=11% Similarity=0.176 Sum_probs=17.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 005375 108 THHVMTSYIQPLMLWTGAILICRALDPV 135 (699)
Q Consensus 108 ~~~il~sl~~Pl~l~l~~i~i~~al~~l 135 (699)
.+.++..+..-+++|+.+++.|.+...+
T Consensus 160 ~~~~l~~i~~a~F~FLPi~va~saAk~f 187 (476)
T PRK09586 160 ALNYMKVFSKGLFTFLSILIGYNAQQAF 187 (476)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4566776767777777777666544433
No 56
>PRK08156 type III secretion system protein SpaS; Validated
Probab=36.40 E-value=6.7e+02 Score=28.26 Aligned_cols=11 Identities=0% Similarity=-0.158 Sum_probs=4.7
Q ss_pred HHHHHHHHCCC
Q 005375 394 DLLRVISHHRA 404 (699)
Q Consensus 394 ~Il~~~~e~GI 404 (699)
+|.+.-++|||
T Consensus 288 ~IreiA~e~~V 298 (361)
T PRK08156 288 AVRAYAEKVGV 298 (361)
T ss_pred HHHHHHHHCCC
Confidence 34444444444
No 57
>PF14545 DBB: Dof, BCAP, and BANK (DBB) motif,
Probab=36.07 E-value=1.2e+02 Score=29.68 Aligned_cols=82 Identities=10% Similarity=0.074 Sum_probs=46.6
Q ss_pred hhhhccCCccCCcEEEEeecCCCeeEEEEEEeceeeEEEEecCCcEEEEeccccccCcEEeccCCCceEEEEEEEecc-C
Q 005375 247 AMIHATRPFVLNEWIQTKIEGYEVSGTVEHVGWWSPTIVRGEDREAVHIPNHKFTVNVVRNLSQKSHWRIKTHLAISH-L 325 (699)
Q Consensus 247 i~I~~~rPfrIGD~I~Iki~~~~~~G~VeeIgL~sTT~IRt~Dg~~v~IPNs~l~s~~I~N~Sr~~~~ri~i~l~I~y-t 325 (699)
++|++..++.-||+++|.+...+..-++....|+...+ -.+.+|+--+.-....|.+-...-.+.-.-.|.| +
T Consensus 15 vfIiL~~~l~~~~~~eVef~~~n~~~~~~~~~~~N~yt------~~~~aPd~~~~pag~V~v~v~~~g~~~~~~~ikyys 88 (142)
T PF14545_consen 15 VFIILRDPLDEEDTVEVEFESNNKPIRRVPAKWENPYT------LQFKAPDFCLEPAGSVNVRVYCDGVSLGTRQIKYYS 88 (142)
T ss_pred EEEEEeCCCCCCCeEEEEEEeCCCeeEeccceEECCEE------EEEECchhcCCCCceEEEEEEECCEEEEEEeEEEEe
Confidence 67899999999999999765544222233333332111 1344566544444444444333333444456667 8
Q ss_pred CHHHHHHHH
Q 005375 326 DVHKINSIV 334 (699)
Q Consensus 326 d~ekv~~i~ 334 (699)
+.+.+.+++
T Consensus 89 ~~~el~~lL 97 (142)
T PF14545_consen 89 RMRELEQLL 97 (142)
T ss_pred cHHHHHHHH
Confidence 888777754
No 58
>PRK11462 putative transporter; Provisional
Probab=35.79 E-value=6.9e+02 Score=28.24 Aligned_cols=16 Identities=25% Similarity=0.555 Sum_probs=9.5
Q ss_pred HHhhhccccccchhhH
Q 005375 94 LLLRKSDNSWKKSKTH 109 (699)
Q Consensus 94 ll~~rt~~~~~~~~~~ 109 (699)
.+.-|++++|.+.+..
T Consensus 67 ~~~D~t~~r~Gr~rp~ 82 (460)
T PRK11462 67 LLADRTRSRWGKFRPW 82 (460)
T ss_pred ehhccCCCCCCCcchh
Confidence 3455677777764433
No 59
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=35.60 E-value=2.1e+02 Score=35.37 Aligned_cols=46 Identities=7% Similarity=0.034 Sum_probs=33.2
Q ss_pred CCccCCcEEEEeecCCCeeEEEEEEeceeeEEEEecCCcEEEEeccccc
Q 005375 253 RPFVLNEWIQTKIEGYEVSGTVEHVGWWSPTIVRGEDREAVHIPNHKFT 301 (699)
Q Consensus 253 rPfrIGD~I~Iki~~~~~~G~VeeIgL~sTT~IRt~Dg~~v~IPNs~l~ 301 (699)
.+|++||+|.|+ +.+..|+|.+|.=-. ......++-.+.+|-+.+.
T Consensus 635 ~~~~~Gd~V~v~--~~~~~g~v~~i~~~~-~~~V~~g~~k~~v~~~~l~ 680 (782)
T PRK00409 635 EELKVGDEVKYL--SLGQKGEVLSIPDDK-EAIVQAGIMKMKVPLSDLE 680 (782)
T ss_pred cCCCCCCEEEEc--cCCceEEEEEEcCCC-eEEEEECCEEEEEeHHHce
Confidence 569999999983 567889999994211 2223456788888888874
No 60
>COG1459 PulF Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=35.57 E-value=7.1e+02 Score=28.34 Aligned_cols=32 Identities=25% Similarity=0.345 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccccCCch
Q 005375 109 HHVMTSYIQPLMLWTGAILICRALDPVVLPTE 140 (699)
Q Consensus 109 ~~il~sl~~Pl~l~l~~i~i~~al~~l~lp~~ 140 (699)
..+..++.-|+.++++++++...+..+++|..
T Consensus 157 ~Ki~~Al~YP~vll~v~~~v~~~Ll~~VvP~f 188 (397)
T COG1459 157 KKIKSALIYPLVLLVVALVVVLFLLIFVVPQF 188 (397)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHhccH
Confidence 36777888899888888888777777777753
No 61
>PF02699 YajC: Preprotein translocase subunit; InterPro: IPR003849 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins []. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone (SecB), ATPase (SecA), an integral membrane complex (SecY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. Other cytoplasmic/periplasmic proteins play a part in preprotein translocase activity, namely YidC and YajC []. The latter is bound in a complex to SecD and SecF, and plays a part in stabilising and regulating secretion through the SecYEG integral membrane component via SecA []. Homologues of the YajC gene have been found in a range of pathogenic and commensal microbes. Brucella abortis YajC- and SecD-like proteins were shown to stimulate a Th1 cell-mediated immune response in mice, and conferred protection when challenged with B.abortis []. Therefore, these proteins may have an antigenic role as well as a secretory one in virulent bacteria []. A number of previously uncharacterised "hypothetical" proteins also show similarity to E.coli YajC, suggesting that this family is wider than first thought []. More recently, the precise interactions between the E.coli SecYEG complex, SecD, SecF, YajC and YidC have been studied []. Rather than acting individually, the four proteins form a heterotetrameric complex and associate with the SecYEG heterotrimeric complex []. The SecF and YajC subunits link the complex to the integral membrane translocase. ; PDB: 2RDD_B.
Probab=35.17 E-value=13 Score=32.68 Aligned_cols=39 Identities=10% Similarity=0.011 Sum_probs=0.4
Q ss_pred CCccCCcEEEEeecCCCeeEEEEEEeceeeEEEEecCCcEEEE
Q 005375 253 RPFVLNEWIQTKIEGYEVSGTVEHVGWWSPTIVRGEDREAVHI 295 (699)
Q Consensus 253 rPfrIGD~I~Iki~~~~~~G~VeeIgL~sTT~IRt~Dg~~v~I 295 (699)
...++||+|.. .+|..|+|.+++=-+ ..++..+|..+.+
T Consensus 35 ~~Lk~Gd~VvT---~gGi~G~V~~i~~~~-v~lei~~g~~i~v 73 (82)
T PF02699_consen 35 ASLKPGDEVVT---IGGIYGTVVEIDDDT-VVLEIAPGVEITV 73 (82)
T ss_dssp G------------------------------------------
T ss_pred HcCCCCCEEEE---CCcEEEEEEEEeCCE-EEEEECCCeEEEE
Confidence 45799999998 479999999998876 8888887765544
No 62
>PRK00068 hypothetical protein; Validated
Probab=33.93 E-value=1.1e+03 Score=30.11 Aligned_cols=10 Identities=0% Similarity=0.076 Sum_probs=4.7
Q ss_pred HHhhcCChHH
Q 005375 58 YNALQCSPQA 67 (699)
Q Consensus 58 ~~~l~~~pl~ 67 (699)
|..+++...+
T Consensus 44 F~~lgy~~Vf 53 (970)
T PRK00068 44 FGEVGYRSVF 53 (970)
T ss_pred HHhCCCceee
Confidence 3455554443
No 63
>PF00575 S1: S1 RNA binding domain; InterPro: IPR003029 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S1 domain was originally identified in ribosomal protein S1 but is found in a large number of RNA-associated proteins. The structure of the S1 RNA-binding domain from the Escherichia coli polynucleotide phosphorylase has been determined using NMR methods and consists of a five-stranded antiparallel beta barrel. Conserved residues on one face of the barrel and adjacent loops form the putative RNA-binding site []. The structure of the S1 domain is very similar to that of cold shock proteins. This suggests that they may both be derived from an ancient nucleic acid-binding protein []. More information about these proteins can be found at Protein of the Month: RNA Exosomes []. This entry does not include translation initiation factor IF-1 S1 domains.; GO: 0003723 RNA binding; PDB: 3L7Z_F 2JE6_I 2JEA_I 2JEB_I 1E3P_A 2Y0S_E 1WI5_A 2BH8_A 2CQO_A 2EQS_A ....
Probab=33.61 E-value=2.1e+02 Score=23.52 Aligned_cols=46 Identities=15% Similarity=0.180 Sum_probs=35.4
Q ss_pred ccCCcEEEEeecCCCeeEEEEEEeceeeEEEEecCCcEEEEeccccccCcEEeccC
Q 005375 255 FVLNEWIQTKIEGYEVSGTVEHVGWWSPTIVRGEDREAVHIPNHKFTVNVVRNLSQ 310 (699)
Q Consensus 255 frIGD~I~Iki~~~~~~G~VeeIgL~sTT~IRt~Dg~~v~IPNs~l~s~~I~N~Sr 310 (699)
+++||.+ .|+|.+|.-.. ..+.-.++..-+||.+.+....+.+...
T Consensus 2 ~~~G~iv---------~g~V~~v~~~g-~~V~l~~~~~g~ip~~~l~~~~~~~~~~ 47 (74)
T PF00575_consen 2 LKEGDIV---------EGKVTSVEDFG-VFVDLGNGIEGFIPISELSDDRIDDPSE 47 (74)
T ss_dssp SSTTSEE---------EEEEEEEETTE-EEEEESTSSEEEEEGGGSSSSEESSSHG
T ss_pred CCCCCEE---------EEEEEEEECCE-EEEEECCcEEEEEEeehhcCcccccccc
Confidence 4566665 48999999877 7777778999999999999874444443
No 64
>KOG4016 consensus Synaptic vesicle protein Synaptogyrin involved in regulation of Ca2+-dependent exocytosis [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=33.44 E-value=1.3e+02 Score=31.35 Aligned_cols=70 Identities=9% Similarity=0.098 Sum_probs=47.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHhCCc-hHHHHHHHHHHHHHHHHHhhHHHHHHHhhhhhhccCCccCCc
Q 005375 188 NMGFQFAGKAVYSAVWVASASLFMELLGFS-TQKWLTAGGLGTVLLTLAGREIFTNFLSSAMIHATRPFVLNE 259 (699)
Q Consensus 188 ~~~i~~i~~ii~iii~via~iiiL~~lGv~-i~~lla~lGi~glalgfA~qd~l~Ni~aGi~I~~~rPfrIGD 259 (699)
-.+..+....+-.++|+++++.+-.++-++ ........|.+=.+|.|.+-.++.=.+. ..+.-|-|++|-
T Consensus 104 aVl~Dl~~SalwtflwfvGFc~l~nqwqvs~p~~~~~~a~saraaIafsffSilsW~~~--A~lA~qR~~~g~ 174 (233)
T KOG4016|consen 104 AVLADLGVSALWAFLWFVGFCFLANQWQVSKPKENPLGAGSARAAIAFSFFSILSWGGQ--AVLAFQRYRIGA 174 (233)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCCcCcchHHHHHHHHHHHHHHHHHH--HHHHHHHHHhcC
Confidence 335667777788889999999888888665 3455556667777777877766654332 234445577775
No 65
>PF05297 Herpes_LMP1: Herpesvirus latent membrane protein 1 (LMP1); InterPro: IPR007961 This family consists of several latent membrane protein 1 or LMP1s mostly from Epstein-Barr virus (strain GD1) (HHV-4) (Human herpesvirus 4). LMP1 of HHV-4 is a 62-65 kDa plasma membrane protein possessing six membrane spanning regions, a short cytoplasmic N terminus and a long cytoplasmic carboxy tail of 200 amino acids. HHV-4 virus latent membrane protein 1 (LMP1) is essential for HHV-4 mediated transformation and has been associated with several cases of malignancies. HHV-4-like viruses in Macaca fascicularis (Cynomolgus monkeys) have been associated with high lymphoma rates in immunosuppressed monkeys [].; GO: 0019087 transformation of host cell by virus, 0016021 integral to membrane; PDB: 1CZY_E 1ZMS_B.
Probab=33.39 E-value=14 Score=39.92 Aligned_cols=8 Identities=13% Similarity=0.563 Sum_probs=0.0
Q ss_pred HHHHHHHH
Q 005375 198 VYSAVWVA 205 (699)
Q Consensus 198 i~iii~vi 205 (699)
+.++||+-
T Consensus 177 laiLIWlY 184 (381)
T PF05297_consen 177 LAILIWLY 184 (381)
T ss_dssp --------
T ss_pred HHHHHHHH
Confidence 44444544
No 66
>PF12961 DUF3850: Domain of Unknown Function with PDB structure (DUF3850)
Probab=33.24 E-value=88 Score=27.28 Aligned_cols=32 Identities=13% Similarity=0.119 Sum_probs=22.7
Q ss_pred hccCCccCCcEEEEe-ecCCCeeEEEEEEecee
Q 005375 250 HATRPFVLNEWIQTK-IEGYEVSGTVEHVGWWS 281 (699)
Q Consensus 250 ~~~rPfrIGD~I~Ik-i~~~~~~G~VeeIgL~s 281 (699)
.-+|.|++||.+.+. +++++..|+....-+.+
T Consensus 24 kNDRdf~VGD~L~L~E~~~~~YTGr~~~~~Ity 56 (72)
T PF12961_consen 24 KNDRDFQVGDILVLREWDNGEYTGREIEAEITY 56 (72)
T ss_pred ecCCCCCCCCEEEEEEecCCCccccEEEEEEEE
Confidence 357899999999884 34456777766665555
No 67
>PRK09824 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional
Probab=33.14 E-value=9.6e+02 Score=29.09 Aligned_cols=30 Identities=20% Similarity=0.129 Sum_probs=20.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 005375 106 SKTHHVMTSYIQPLMLWTGAILICRALDPV 135 (699)
Q Consensus 106 ~~~~~il~sl~~Pl~l~l~~i~i~~al~~l 135 (699)
+..+.++..+..-+++|+.+++.|.+...|
T Consensus 140 s~~y~il~~i~~a~FyFLPi~ia~saAkkf 169 (627)
T PRK09824 140 SGTYKILFAASDALFFFFPIILGYTAGKKF 169 (627)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345677777777777777777776555444
No 68
>PRK12911 bifunctional preprotein translocase subunit SecD/SecF; Reviewed
Probab=32.94 E-value=8.4e+02 Score=32.27 Aligned_cols=42 Identities=17% Similarity=0.063 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHH
Q 005375 192 QFAGKAVYSAVWVASASLFMELLGFSTQKWLTAGGLGTVLLT 233 (699)
Q Consensus 192 ~~i~~ii~iii~via~iiiL~~lGv~i~~lla~lGi~glalg 233 (699)
..+.|-+...+-.+..+++|.+||-+.-.-++.+=++|+++|
T Consensus 1338 QTLsRTI~TSlTTLLallaLllFGG~sI~~FAlALLIGIIvG 1379 (1403)
T PRK12911 1338 KTLGRTVMTTATTLSVLLILLFVGGGSIFNFAFIMTIGILLG 1379 (1403)
T ss_pred HhhhhhhHHHHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHH
Confidence 345555555555555566666776644333333333344443
No 69
>PRK13692 (3R)-hydroxyacyl-ACP dehydratase subunit HadA; Provisional
Probab=32.82 E-value=1.4e+02 Score=29.27 Aligned_cols=16 Identities=13% Similarity=0.341 Sum_probs=13.8
Q ss_pred hhhccCCccCCcEEEE
Q 005375 248 MIHATRPFVLNEWIQT 263 (699)
Q Consensus 248 ~I~~~rPfrIGD~I~I 263 (699)
-+-+-+|.++||.|.+
T Consensus 90 ~~~f~~PV~~GDtL~~ 105 (159)
T PRK13692 90 VLKFEKPIVAGDKLYC 105 (159)
T ss_pred EEEEeCCccCCCEEEE
Confidence 4678899999999987
No 70
>KOG2568 consensus Predicted membrane protein [Function unknown]
Probab=32.78 E-value=9e+02 Score=28.67 Aligned_cols=13 Identities=8% Similarity=0.117 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHHH
Q 005375 191 FQFAGKAVYSAVW 203 (699)
Q Consensus 191 i~~i~~ii~iii~ 203 (699)
+.+.|++...+++
T Consensus 378 l~lYr~F~n~l~~ 390 (518)
T KOG2568|consen 378 LSLYRKFTNTLAF 390 (518)
T ss_pred HHHHHHHHHHHHH
Confidence 4455554444433
No 71
>COG1230 CzcD Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]
Probab=32.72 E-value=7e+02 Score=27.39 Aligned_cols=24 Identities=21% Similarity=0.182 Sum_probs=12.8
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHH
Q 005375 187 RNMGFQFAGKAVYSAVWVASASLF 210 (699)
Q Consensus 187 r~~~i~~i~~ii~iii~via~iii 210 (699)
+...+.++..++..+..+++.+++
T Consensus 156 r~a~LHvl~D~Lgsv~vIia~i~i 179 (296)
T COG1230 156 RGAYLHVLGDALGSVGVIIAAIVI 179 (296)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344466666666555555554443
No 72
>PF06011 TRP: Transient receptor potential (TRP) ion channel; InterPro: IPR010308 This family consists of hypothetical proteins of unknown function found in fungi.
Probab=32.05 E-value=8e+02 Score=27.86 Aligned_cols=18 Identities=17% Similarity=0.130 Sum_probs=11.5
Q ss_pred hhhhhhccCCccCCcEEE
Q 005375 245 SSAMIHATRPFVLNEWIQ 262 (699)
Q Consensus 245 aGi~I~~~rPfrIGD~I~ 262 (699)
.++.+.+.+.+.+.+.++
T Consensus 367 ~~l~i~f~~~~~~~~~~~ 384 (438)
T PF06011_consen 367 LFLLIAFLPSLNLSEIVR 384 (438)
T ss_pred HHHHHHHhcccCCCcccc
Confidence 345566777777776654
No 73
>PRK15083 PTS system mannitol-specific transporter subunit IICBA; Provisional
Probab=31.96 E-value=7.8e+02 Score=29.70 Aligned_cols=27 Identities=4% Similarity=-0.260 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhccccC
Q 005375 111 VMTSYIQPLMLWTGAILICRALDPVVL 137 (699)
Q Consensus 111 il~sl~~Pl~l~l~~i~i~~al~~l~l 137 (699)
++..+..-+++|+.+++.|.+...+..
T Consensus 49 ~l~~~~~a~fyfLPi~ia~saak~f~~ 75 (639)
T PRK15083 49 LAKLVGPMITYLLPLLIGYTGGKLVGG 75 (639)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 566666777888888887776665543
No 74
>COG4258 Predicted exporter [General function prediction only]
Probab=31.85 E-value=1e+03 Score=29.00 Aligned_cols=44 Identities=20% Similarity=0.221 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHH---HHHHHHHhh
Q 005375 194 AGKAVYSAVWVASASLFMELLGFSTQKWLTAGGLG---TVLLTLAGR 237 (699)
Q Consensus 194 i~~ii~iii~via~iiiL~~lGv~i~~lla~lGi~---glalgfA~q 237 (699)
+..++.+.+--++.++.+..++++-...+-+.|+. |++++|++-
T Consensus 730 lttl~alala~ltTlltfgLLa~Sa~pvLssfG~tlasGiila~vlA 776 (788)
T COG4258 730 LTTLLALALAMLTTLLTFGLLAFSATPVLSSFGITLASGIILAFVLA 776 (788)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccHHHHHhhHHHHHHHHHHHHHH
Confidence 44555555555566666677777776666666653 555555543
No 75
>COG4873 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.75 E-value=53 Score=28.21 Aligned_cols=28 Identities=32% Similarity=0.249 Sum_probs=23.2
Q ss_pred CccCCcEEEEeecCCCeeEEEEEEeceeeEEE
Q 005375 254 PFVLNEWIQTKIEGYEVSGTVEHVGWWSPTIV 285 (699)
Q Consensus 254 PfrIGD~I~Iki~~~~~~G~VeeIgL~sTT~I 285 (699)
--.+||.|+++ +|..|+||+++=.+ +.+
T Consensus 23 ~a~vgniief~---dgl~g~vek~nens-viv 50 (81)
T COG4873 23 IAKVGNIIEFK---DGLTGVVEKVNENS-VIV 50 (81)
T ss_pred eeeccceEEEc---ccceeeeeeecCCc-EEE
Confidence 35799999995 68999999999887 544
No 76
>PF01914 MarC: MarC family integral membrane protein; InterPro: IPR002771 Members of this family are integral membrane proteins that includes the antibiotic resistance protein MarC. These proteins may be transporters. ; GO: 0016021 integral to membrane
Probab=31.63 E-value=3.6e+02 Score=27.64 Aligned_cols=33 Identities=24% Similarity=0.485 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHH
Q 005375 202 VWVASASLFMELLGFSTQKWLTAGGLGTVLLTL 234 (699)
Q Consensus 202 i~via~iiiL~~lGv~i~~lla~lGi~glalgf 234 (699)
++.+..-.+|..||++...+-.++|++-+.+|+
T Consensus 53 ~f~~~G~~iL~~fgIsl~af~IaGGiiL~~ia~ 85 (203)
T PF01914_consen 53 IFAFFGQLILNFFGISLPAFRIAGGIILFLIAL 85 (203)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 333444456778999999998888887776655
No 77
>PF14801 GCD14_N: tRNA methyltransferase complex GCD14 subunit N-term; PDB: 1I9G_A.
Probab=31.55 E-value=27 Score=28.73 Aligned_cols=24 Identities=17% Similarity=0.299 Sum_probs=11.1
Q ss_pred cCCccCCcEEEEeecCCCeeEEEEEEec
Q 005375 252 TRPFVLNEWIQTKIEGYEVSGTVEHVGW 279 (699)
Q Consensus 252 ~rPfrIGD~I~Iki~~~~~~G~VeeIgL 279 (699)
..||+.||+|++ -+..|+---|.|
T Consensus 3 ~Gpf~~GdrVQl----TD~Kgr~~Ti~L 26 (54)
T PF14801_consen 3 RGPFRAGDRVQL----TDPKGRKHTITL 26 (54)
T ss_dssp --S--TT-EEEE----EETT--EEEEE-
T ss_pred cCCCCCCCEEEE----ccCCCCeeeEEE
Confidence 469999999999 345566544444
No 78
>PF06123 CreD: Inner membrane protein CreD; InterPro: IPR010364 This family consists of several bacterial CreD or Cet inner membrane proteins. Dominant mutations of the cet gene of Escherichia coli result in tolerance to colicin E2 and increased amounts of an inner membrane protein with a Mr of 42,000. The cet gene is shown to be in the same operon as the phoM gene, which is required in a phoR background for expression of the structural gene for alkaline phosphatase, phoA. Although the Cet protein is not required for phoA expression, it has been suggested that the Cet protein has an enhancing effect on the transcription of phoA [].
Probab=30.79 E-value=8.9e+02 Score=27.99 Aligned_cols=20 Identities=20% Similarity=0.092 Sum_probs=8.9
Q ss_pred hCCchHHHHHHHHHHHHHHH
Q 005375 214 LGFSTQKWLTAGGLGTVLLT 233 (699)
Q Consensus 214 lGv~i~~lla~lGi~glalg 233 (699)
+-..--++|++...+-++++
T Consensus 398 Lq~EdyALL~GSl~LF~iLa 417 (430)
T PF06123_consen 398 LQSEDYALLMGSLLLFIILA 417 (430)
T ss_pred HHhhhHHHHHHHHHHHHHHH
Confidence 33344455555444433433
No 79
>TIGR00427 membrane protein, MarC family. MarC is a protein that spans the plasma membrane multiple times and once was thought to be a multiple antibiotic resistance protein. The function for this family is unknown.
Probab=30.58 E-value=3.1e+02 Score=28.08 Aligned_cols=34 Identities=18% Similarity=0.436 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHH
Q 005375 202 VWVASASLFMELLGFSTQKWLTAGGLGTVLLTLA 235 (699)
Q Consensus 202 i~via~iiiL~~lGv~i~~lla~lGi~glalgfA 235 (699)
++++..-.+|..||++..++-.++|++-+.+|+-
T Consensus 56 ~f~~~G~~iL~~fgIsl~afrIaGGiiL~~ia~~ 89 (201)
T TIGR00427 56 IFLVFGDTILKLFGISIDAFRIAGGILLFTIAMD 89 (201)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHH
Confidence 4444455677899999999988888887776654
No 80
>PRK10739 putative antibiotic transporter; Provisional
Probab=30.49 E-value=3.8e+02 Score=27.54 Aligned_cols=35 Identities=17% Similarity=0.356 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHH
Q 005375 201 AVWVASASLFMELLGFSTQKWLTAGGLGTVLLTLA 235 (699)
Q Consensus 201 ii~via~iiiL~~lGv~i~~lla~lGi~glalgfA 235 (699)
+++.+..-.+|..||+++.++=.++|++-+.+|+-
T Consensus 52 l~f~~~G~~iL~~fGIsl~afrIAGGilL~~ial~ 86 (197)
T PRK10739 52 LVFLFAGEKILAFLNLRTETVSISGGIILFLIAIK 86 (197)
T ss_pred HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHH
Confidence 34444555677899999999988888877776653
No 81
>TIGR00844 c_cpa1 na(+)/h(+) antiporter. This model is specific for the fungal members of this family.
Probab=29.52 E-value=1.1e+03 Score=29.53 Aligned_cols=26 Identities=12% Similarity=0.124 Sum_probs=14.6
Q ss_pred HHHHHHHHCCCccC-------CCcEEEEEeecc
Q 005375 394 DLLRVISHHRARLA-------TPIRTVQKIFSD 419 (699)
Q Consensus 394 ~Il~~~~e~GIe~a-------~P~rtv~~~~~~ 419 (699)
-+.--+-=||+..+ .++-++...|..
T Consensus 420 ~V~~SIivHG~S~~~l~lg~~~~~~~~~~~~~~ 452 (810)
T TIGR00844 420 SIVTSVIVHGSSVAVIMLGRYLNTVTLTATPTT 452 (810)
T ss_pred HHHHHHhhccccchHHHhccccCceEEEEeeee
Confidence 33444455777644 466666666654
No 82
>PF11674 DUF3270: Protein of unknown function (DUF3270); InterPro: IPR021688 This family of proteins with unknown function appears to be restricted to Streptococcus.
Probab=29.20 E-value=2.9e+02 Score=25.11 Aligned_cols=48 Identities=15% Similarity=0.100 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHHhhH
Q 005375 191 FQFAGKAVYSAVWVASASLFMELLGFSTQKWLTAGGLGTVLLTLAGRE 238 (699)
Q Consensus 191 i~~i~~ii~iii~via~iiiL~~lGv~i~~lla~lGi~glalgfA~qd 238 (699)
+-++.|+.-+.++.+.+..++-.+++++..-...+.++|+++..+.+.
T Consensus 39 LlFF~nIA~FcI~tvlfsFvfLs~kl~t~~Af~~Ai~~Sl~~~~~~~~ 86 (90)
T PF11674_consen 39 LLFFANIAFFCIFTVLFSFVFLSLKLNTFWAFPLAILISLAITQLVRK 86 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 445556655555555555555555665433333334444444444443
No 83
>PF09926 DUF2158: Uncharacterized small protein (DUF2158); InterPro: IPR019226 This entry represents a family of predominantly prokaryotic proteins with no known function.
Probab=28.72 E-value=55 Score=26.75 Aligned_cols=23 Identities=30% Similarity=0.257 Sum_probs=18.2
Q ss_pred ccCCcEEEEeecCCCeeEEEEEEec
Q 005375 255 FVLNEWIQTKIEGYEVSGTVEHVGW 279 (699)
Q Consensus 255 frIGD~I~Iki~~~~~~G~VeeIgL 279 (699)
|++||.|++| .|+-.-+|..++-
T Consensus 1 f~~GDvV~LK--SGGp~MTV~~v~~ 23 (53)
T PF09926_consen 1 FKIGDVVQLK--SGGPRMTVTEVGP 23 (53)
T ss_pred CCCCCEEEEc--cCCCCeEEEEccc
Confidence 7899999996 4677788887743
No 84
>COG4425 Predicted membrane protein [Function unknown]
Probab=28.70 E-value=1e+03 Score=28.01 Aligned_cols=21 Identities=24% Similarity=0.276 Sum_probs=13.6
Q ss_pred CcCcccchhHHHHhhcCChHH
Q 005375 47 PIPYRSNRIRSYNALQCSPQA 67 (699)
Q Consensus 47 pv~~r~~~p~l~~~l~~~pl~ 67 (699)
|-++|.++.+++..+....++
T Consensus 35 ~~~ir~~~~~~~~~~s~tG~~ 55 (588)
T COG4425 35 PQPIRMWSTRLLRSLSATGLL 55 (588)
T ss_pred CcchHHHHHHHHHhhccchHH
Confidence 446777777777666655553
No 85
>PF13726 Na_H_antiport_2: Na+-H+ antiporter family
Probab=28.60 E-value=89 Score=28.28 Aligned_cols=44 Identities=18% Similarity=0.231 Sum_probs=29.7
Q ss_pred HHHHHHHHHHhCCch-HHHHHHHHHHHHHHHHHhhHHHHHHHhhh
Q 005375 204 VASASLFMELLGFST-QKWLTAGGLGTVLLTLAGREIFTNFLSSA 247 (699)
Q Consensus 204 via~iiiL~~lGv~i-~~lla~lGi~glalgfA~qd~l~Ni~aGi 247 (699)
.+.++++|..+-+++ -+++.++-++|++-|+...++++-|.+|+
T Consensus 6 aV~vm~~L~LlR~nVvlalliaalvgGl~~Gl~l~~t~~~~~~Gm 50 (88)
T PF13726_consen 6 AVLVMIVLSLLRVNVVLALLIAALVGGLVGGLGLGETMSAFIDGM 50 (88)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHh
Confidence 344455556666663 35666667777777888888888887775
No 86
>PRK03612 spermidine synthase; Provisional
Probab=28.02 E-value=1e+03 Score=27.85 Aligned_cols=34 Identities=21% Similarity=-0.005 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHH
Q 005375 191 FQFAGKAVYSAVWVASASLFMELLGFSTQKWLTA 224 (699)
Q Consensus 191 i~~i~~ii~iii~via~iiiL~~lGv~i~~lla~ 224 (699)
+..+..+-.++--+++.++++..+|...+.++++
T Consensus 150 ly~~ntlGa~~G~l~~~~vLlp~lG~~~t~~~~a 183 (521)
T PRK03612 150 VLAADYLGALVGGLAFPFLLLPRLGLIRTAALTG 183 (521)
T ss_pred hHhHHhHHHHHHHHHHHHHHHHhcchHHHHHHHH
Confidence 3344444444444555566667888876555443
No 87
>PF15420 Abhydrolase_9_N: Alpha/beta-hydrolase family N-terminus
Probab=26.70 E-value=7.3e+02 Score=25.69 Aligned_cols=34 Identities=21% Similarity=0.099 Sum_probs=17.7
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 005375 63 CSPQALKLVPGIAIIVFATWGLGPLMRQSRNLLLR 97 (699)
Q Consensus 63 ~~pl~l~lL~al~illl~~~~l~~llr~i~~ll~~ 97 (699)
+.+++++-++.-+... +.++++-+.+++.+.+..
T Consensus 7 PR~w~~Qgv~~Gi~~a-~GY~~Gv~~~~l~r~~~~ 40 (208)
T PF15420_consen 7 PRPWLFQGVVSGISAA-IGYGLGVFLRWLWRRLGL 40 (208)
T ss_pred CCcHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhcC
Confidence 5566656555444333 344456666655554444
No 88
>PF05552 TM_helix: Conserved TM helix; InterPro: IPR008910 This alignment represents a conserved transmembrane helix as well as some flanking sequence. It is often found in association with a Mechanosensitive (MS) channel IPR006685 from INTERPRO.; PDB: 2VV5_F 2OAU_E.
Probab=26.37 E-value=1.1e+02 Score=24.42 Aligned_cols=35 Identities=14% Similarity=0.335 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 005375 147 QRLLNFVRSLSTVLAFAYCLSSLIQQAQKFFMETTD 182 (699)
Q Consensus 147 ~~ll~~l~ailiIl~~~~ll~~li~~i~~~l~~~~~ 182 (699)
.++++.+.+++ +++++|++.+++..+.+.+.++..
T Consensus 13 ~~lP~iv~Ail-Il~vG~~va~~v~~~~~~~l~~~~ 47 (53)
T PF05552_consen 13 AYLPNIVGAIL-ILIVGWWVAKFVRKLVRRLLEKRG 47 (53)
T ss_dssp GGHCHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHcC
Confidence 34556666555 556788888888887766666543
No 89
>PF09378 HAS-barrel: HAS barrel domain; InterPro: IPR018538 The HAS barrel is named after HerA-ATP Synthase. In ATP synthases, this domain is implicated in the assembly of the catalytic toroid and docking of accessory subunits, such as the subunit of the ATP synthase complex. Similar roles in docking of the functional partner, the NurA nuclease, and assembly of the HerA toroid complex appear likely for the HAS-barrel of the HerA family []. ; PDB: 3OAA_I.
Probab=26.33 E-value=58 Score=28.17 Aligned_cols=27 Identities=19% Similarity=0.309 Sum_probs=19.9
Q ss_pred CccCCcEEEEeec-CCCeeEEEEEEece
Q 005375 254 PFVLNEWIQTKIE-GYEVSGTVEHVGWW 280 (699)
Q Consensus 254 PfrIGD~I~Iki~-~~~~~G~VeeIgL~ 280 (699)
+.++||+|.++.+ +..+.|.|++|...
T Consensus 22 ~v~~GeyV~i~~~~~~~vlG~V~~i~~~ 49 (91)
T PF09378_consen 22 DVRVGEYVVIEYDDGEKVLGMVTSISRG 49 (91)
T ss_dssp T-BTTEEEEES----TTEEEEEEEEES-
T ss_pred CCCcCeEEEEEEechhhhhhhhheeEEc
Confidence 8999999999765 67789999988773
No 90
>TIGR01297 CDF cation diffusion facilitator family transporter. This model describes a broadly distributed family of transporters, a number of which have been shown to transport divalent cations of cobalt, cadmium and/or zinc. The family has six predicted transmembrane domains. Members of the family are variable in length because of variably sized inserts, often containing low-complexity sequence.
Probab=25.76 E-value=7.5e+02 Score=25.53 Aligned_cols=35 Identities=17% Similarity=0.467 Sum_probs=26.5
Q ss_pred ceEEEEEEEecc-CCHHHHHHHHHHHHHHHHh-CCCc
Q 005375 313 HWRIKTHLAISH-LDVHKINSIVADMRKVLAK-NPQV 347 (699)
Q Consensus 313 ~~ri~i~l~I~y-td~ekv~~i~~~I~e~L~s-~p~v 347 (699)
...+.+++.++- .+.++..++.+.+++.+++ .|++
T Consensus 222 ~~~v~~~v~v~~~~~~~~ah~i~~~i~~~i~~~~~~v 258 (268)
T TIGR01297 222 KLFLDVHVVVDPDLDLKQAHDIALEIEREILKRHPGI 258 (268)
T ss_pred CEEEEEEEEECCCCChhHHHHHHHHHHHHHHHhcCCC
Confidence 456778888887 7888888888888887654 3554
No 91
>PF02559 CarD_CdnL_TRCF: CarD-like/TRCF domain; InterPro: IPR003711 The bacterium Myxococcus xanthus responds to blue light by producing carotenoids. It also responds to starvation conditions by developing fruiting bodies, where the cells differentiate into myxospores. Each response entails the transcriptional activation of a separate set of genes. A single gene, carD, is required for the activation of both light- and starvation-inducible genes []. The predicted protein contains four repeats of a DNA-binding domain present in mammalian high mobility group I(Y) proteins and other nuclear proteins from animals and plants. Other peptide stretches on CarD also resemble functional domains typical of eukaryotic transcription factors, including a very acidic region and a leucine zipper. High mobility group yI(Y) proteins are known to bind the minor groove of A+T-rich DNA [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3MLQ_H 2EYQ_A.
Probab=25.72 E-value=1.7e+02 Score=25.98 Aligned_cols=44 Identities=11% Similarity=0.214 Sum_probs=25.8
Q ss_pred CccCCcEEEEeecCCCeeEEEEEEeceee-------EEEEecCCcEEEEecccc
Q 005375 254 PFVLNEWIQTKIEGYEVSGTVEHVGWWSP-------TIVRGEDREAVHIPNHKF 300 (699)
Q Consensus 254 PfrIGD~I~Iki~~~~~~G~VeeIgL~sT-------T~IRt~Dg~~v~IPNs~l 300 (699)
.|++||+|.-. ..--|+|++|.-... -.|+-.++..++||-..+
T Consensus 1 mf~~GD~VVh~---~~Gv~~i~~i~~~~~~~~~~~yy~L~~~~~~~i~vPv~~~ 51 (98)
T PF02559_consen 1 MFKIGDYVVHP---NHGVGRIEGIEEIEFGGEKQEYYVLEYADDDTIYVPVDNA 51 (98)
T ss_dssp T--TTSEEEET---TTEEEEEEEEEEEECTTEEEEEEEEEECCCEEEEEECCCG
T ss_pred CCCCCCEEEEC---CCceEEEEEEEEEeeCCeeEEEEEEEECCCCEEEEEcCCh
Confidence 48999999872 333577776654330 344445555777887765
No 92
>PF00467 KOW: KOW motif; InterPro: IPR005824 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and the bacterial transcription antitermination proteins NusG []. ; PDB: 3BBO_W 2HGJ_X 2HGQ_X 2HGU_X 1NPP_B 1M1G_D 1NPR_A 2XHC_A 2KVQ_G 2JVV_A ....
Probab=25.70 E-value=1.1e+02 Score=21.93 Aligned_cols=23 Identities=13% Similarity=0.248 Sum_probs=16.8
Q ss_pred CCcEEEEeecC--CCeeEEEEEEece
Q 005375 257 LNEWIQTKIEG--YEVSGTVEHVGWW 280 (699)
Q Consensus 257 IGD~I~Iki~~--~~~~G~VeeIgL~ 280 (699)
+||+|.| +.| -+..|.|.+|.--
T Consensus 1 ~Gd~V~V-~~G~~~G~~G~I~~i~~~ 25 (32)
T PF00467_consen 1 VGDTVKV-ISGPFKGKIGKIVEIDRS 25 (32)
T ss_dssp TTSEEEE-SSSTTTTEEEEEEEEETT
T ss_pred CCCEEEE-eEcCCCCceEEEEEEECC
Confidence 5999998 332 4678899988753
No 93
>COG2142 SdhD Succinate dehydrogenase, hydrophobic anchor subunit [Energy production and conversion]
Probab=25.68 E-value=5.8e+02 Score=24.21 Aligned_cols=95 Identities=17% Similarity=0.173 Sum_probs=0.0
Q ss_pred hhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHhc--cccC
Q 005375 60 ALQCSPQALKLVPGIAIIVFATWGLGPLMRQSRNLLLRKSDNSWKKSKTHHVMTSYIQPLMLWTGAILICRALD--PVVL 137 (699)
Q Consensus 60 ~l~~~pl~l~lL~al~illl~~~~l~~llr~i~~ll~~rt~~~~~~~~~~~il~sl~~Pl~l~l~~i~i~~al~--~l~l 137 (699)
+.|...++++.+-+++++++..|.+..++ .|+..........+.+|....+.+++++.++. ...+
T Consensus 11 r~G~~~~l~qRvTav~Lv~l~~~~l~~~l-------------~~~~~~y~~~~~~~s~p~~~v~~lL~l~~~l~H~~~Gl 77 (117)
T COG2142 11 RYGSHDWLLQRVTAVILVLLVIWHLYFLL-------------TWLNATYAAWVAFLANPFWKVFLLLLLVAALIHAWNGL 77 (117)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHH-------------HcCCCCHHHHHHHHhCHHHHHHHHHHHHHHHHHHHhhh
Q ss_pred CchhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005375 138 PTEAGEVVKQRLLNFVRSLSTVLAFAYCLS 167 (699)
Q Consensus 138 p~~~~~~v~~~ll~~l~ailiIl~~~~ll~ 167 (699)
..-+.+.+...-.+....++.+++...++.
T Consensus 78 r~Ii~DYi~~~~~r~~l~~~~~~~~v~~~~ 107 (117)
T COG2142 78 RVIIEDYIKPEKLRLALQILLVLALVLTGV 107 (117)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHH
No 94
>PRK05702 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=25.66 E-value=8e+02 Score=27.59 Aligned_cols=113 Identities=15% Similarity=0.139 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccc-------------hhhHHHHHHHHHHHHHHHHHHHHHHHh
Q 005375 66 QALKLVPGIAIIVFATWGLGPLMRQSRNLLLRKSDNSWKK-------------SKTHHVMTSYIQPLMLWTGAILICRAL 132 (699)
Q Consensus 66 l~l~lL~al~illl~~~~l~~llr~i~~ll~~rt~~~~~~-------------~~~~~il~sl~~Pl~l~l~~i~i~~al 132 (699)
.++..++.+.++++++.++..+++....+-.+...-.|++ .....++.++.+.+.+.+++.++....
T Consensus 88 ~~~~~~lp~~~~~~~~~i~~~~~Q~G~~fs~k~l~Pk~~rlNPi~G~KriFS~~~l~el~KsllK~~~~~~v~~~~~~~~ 167 (359)
T PRK05702 88 EALLALLPILLLLVLAALLAPVLQGGLLFSPKALKPKFSKLNPLKGLKRMFSAQGLVELLKSLLKVLLVGGVAYFVLWSN 167 (359)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhCcccccccCCCChhhcCHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred c--cccCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005375 133 D--PVVLPTEAGEVVKQRLLNFVRSLSTVLAFAYCLSSLIQQAQKFFM 178 (699)
Q Consensus 133 ~--~l~lp~~~~~~v~~~ll~~l~ailiIl~~~~ll~~li~~i~~~l~ 178 (699)
. .+.+...........+...+..++..+++++++..+++....++.
T Consensus 168 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~via~~D~~~qr~~ 215 (359)
T PRK05702 168 LDELLSLAAEPLEAALGHALDLVLKLLLLVVLALLVIAAIDVPFQRWQ 215 (359)
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 95
>COG1329 Transcriptional regulators, similar to M. xanthus CarD [Transcription]
Probab=25.27 E-value=1.4e+02 Score=29.93 Aligned_cols=46 Identities=15% Similarity=0.154 Sum_probs=28.5
Q ss_pred CccCCcEEEEeecCCCeeEEEEEEece--------eeEEEEecCCcEEEEecccccc
Q 005375 254 PFVLNEWIQTKIEGYEVSGTVEHVGWW--------SPTIVRGEDREAVHIPNHKFTV 302 (699)
Q Consensus 254 PfrIGD~I~Iki~~~~~~G~VeeIgL~--------sTT~IRt~Dg~~v~IPNs~l~s 302 (699)
.|++||.|..+..| .|.|..|.-. |-+.=-..++-.+.||-++..+
T Consensus 4 ~Fk~Gd~VVYP~HG---vG~I~~Ieeke~~Ge~~~yyVI~f~~~dm~v~VP~~ka~~ 57 (166)
T COG1329 4 AFKIGDHVVYPAHG---VGIIQAIEEKEIAGETLEYYVIDFPQSDMTVMVPVAKADS 57 (166)
T ss_pred cccCCCEEEecCCC---ceeeehhhhHhhcCceeEEEEEEEcCCCcEEEeeccchhh
Confidence 69999999996432 5788776432 1022224556666777666554
No 96
>PRK05415 hypothetical protein; Provisional
Probab=25.17 E-value=1e+03 Score=26.76 Aligned_cols=59 Identities=10% Similarity=0.049 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCcccchhhHHHHHHHHHHHHHHHH----HHHHHHHhCCchHHH
Q 005375 159 VLAFAYCLSSLIQQAQKFFMETTDSGDARNMGFQFAGKAVYSAVWVAS----ASLFMELLGFSTQKW 221 (699)
Q Consensus 159 Il~~~~ll~~li~~i~~~l~~~~~~~~~r~~~i~~i~~ii~iii~via----~iiiL~~lGv~i~~l 221 (699)
+++++|.-.++++.+.+.|.-+.. ....+++++.++.-+++.-+ .-+.++.+|.++...
T Consensus 227 ~l~v~~~n~rmI~~ia~lYG~~lg----~~~~~rL~r~V~~~la~~G~~e~~~~l~~~~l~~~l~~~ 289 (341)
T PRK05415 227 MAFIAWRNLRLIRRIAELYGIELG----YLSRIRLFRLVLANIAFAGASELVDDLGMDWLSQDLAAK 289 (341)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCCc----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHH
Confidence 445667777777766666554322 22224455555444444322 223445666665443
No 97
>PRK05812 secD preprotein translocase subunit SecD; Reviewed
Probab=25.13 E-value=9.5e+02 Score=28.24 Aligned_cols=15 Identities=20% Similarity=0.251 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHhCC
Q 005375 202 VWVASASLFMELLGF 216 (699)
Q Consensus 202 i~via~iiiL~~lGv 216 (699)
+..++.++.|..+|.
T Consensus 439 lTTlia~l~L~~~g~ 453 (498)
T PRK05812 439 ITTLIAAIILYALGT 453 (498)
T ss_pred HHHHHHHHHHHHHhc
Confidence 333444444445543
No 98
>PF02933 CDC48_2: Cell division protein 48 (CDC48), domain 2; InterPro: IPR004201 This domain has a double psi-beta barrel fold and includes VCP-like ATPase and N-ethylmaleimide sensitive fusion protein N-terminal domains. Both the VAT and NSF N-terminal functional domains consist of two structural domains of which this is at the C terminus. The VAT-N domain found in AAA ATPases (IPR003959 from INTERPRO) is a substrate 185-residue recognition domain [].; GO: 0005524 ATP binding; PDB: 1QDN_B 1QCS_A 1CR5_C 3QQ8_A 3HU2_A 3HU1_E 3HU3_A 3QWZ_A 3TIW_B 3QQ7_A ....
Probab=25.10 E-value=1.3e+02 Score=24.79 Aligned_cols=31 Identities=16% Similarity=-0.020 Sum_probs=19.7
Q ss_pred hccCCccCCcEEEEeecCCCeeEEEEEEece
Q 005375 250 HATRPFVLNEWIQTKIEGYEVSGTVEHVGWW 280 (699)
Q Consensus 250 ~~~rPfrIGD~I~Iki~~~~~~G~VeeIgL~ 280 (699)
+.++||..||.|.+.+.+....-+|.++.-.
T Consensus 14 l~~~pv~~Gd~i~~~~~~~~~~~~V~~~~P~ 44 (64)
T PF02933_consen 14 LEGRPVTKGDTIVFPFFGQALPFKVVSTEPS 44 (64)
T ss_dssp HTTEEEETT-EEEEEETTEEEEEEEEEECSS
T ss_pred HcCCCccCCCEEEEEeCCcEEEEEEEEEEcC
Confidence 4568999999999965544444445544444
No 99
>COG3671 Predicted membrane protein [Function unknown]
Probab=24.52 E-value=6.4e+02 Score=24.25 Aligned_cols=20 Identities=5% Similarity=-0.032 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 005375 158 TVLAFAYCLSSLIQQAQKFF 177 (699)
Q Consensus 158 iIl~~~~ll~~li~~i~~~l 177 (699)
++.+..|.+.|++..+....
T Consensus 93 ~~AlgvW~i~Riv~G~~yl~ 112 (125)
T COG3671 93 LVALGVWYIYRIVIGFKYLN 112 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 34557888888876655443
No 100
>TIGR01129 secD protein-export membrane protein SecD. SecD from Mycobacterium tuberculosis has a long Pro-rich insert.
Probab=24.20 E-value=1.1e+03 Score=26.81 Aligned_cols=7 Identities=29% Similarity=0.738 Sum_probs=2.8
Q ss_pred HHHHHhC
Q 005375 209 LFMELLG 215 (699)
Q Consensus 209 iiL~~lG 215 (699)
+.|..+|
T Consensus 361 l~L~~~g 367 (397)
T TIGR01129 361 LILYVFG 367 (397)
T ss_pred HHHHHHh
Confidence 3333444
No 101
>PF02934 GatB_N: GatB/GatE catalytic domain; InterPro: IPR006075 Glutamyl-tRNA(Gln) amidotransferase subunit B (6.3.5 from EC) [] is a microbial enzyme that furnishes a means for formation of correctly charged Gln-tRNA(Gln) through the transamidation of misacylated Glu-tRNA(Gln) in organisms which lack glutaminyl-tRNA synthetase. The reaction takes place in the presence of glutamine and ATP through an activated gamma-phospho-Glu-tRNA(Gln). The enzyme is composed of three subunits: A (an amidase), B and C. It also exists in eukaryotes as a protein targeted to the mitochondria. ; GO: 0016874 ligase activity; PDB: 3H0M_H 3H0R_K 3H0L_K 3AL0_B 3IP4_B 2DF4_B 2G5I_B 2F2A_B 2G5H_B 2DQN_B ....
Probab=24.12 E-value=6.8e+02 Score=27.42 Aligned_cols=152 Identities=11% Similarity=0.084 Sum_probs=86.4
Q ss_pred HHHhhhhhh-ccCCccCCcEEEEeecCCCeeEEEEEEeceeeEEEEecCCcEEEEeccccccCcEEeccCCCceEEEEEE
Q 005375 242 NFLSSAMIH-ATRPFVLNEWIQTKIEGYEVSGTVEHVGWWSPTIVRGEDREAVHIPNHKFTVNVVRNLSQKSHWRIKTHL 320 (699)
Q Consensus 242 Ni~aGi~I~-~~rPfrIGD~I~Iki~~~~~~G~VeeIgL~sTT~IRt~Dg~~v~IPNs~l~s~~I~N~Sr~~~~ri~i~l 320 (699)
++=.|.+|. +..|+-.|=+|.+ ....|.-..|++.. ..+..+.|+.++-.. =.......|.|.+.--+.+.=
T Consensus 82 DlPkgYQITQ~~~Pi~~~G~i~i----~~~~~~~k~I~I~~-ihlEEDagK~~h~~~--~~~~s~vD~NRaG~PLiEIVT 154 (289)
T PF02934_consen 82 DLPKGYQITQYDNPIAENGYIEI----EFEDGREKRIRIER-IHLEEDAGKSIHDGG--GEDYSLVDYNRAGVPLIEIVT 154 (289)
T ss_dssp TBTTSEEEEESSS-SEEEEEEEE----TECTSSTEEEEEEE-EEEEE---EEEEETT---TTEEEEETTSTT-EEEEEEE
T ss_pred ccCcCccccCCccceecCCEEEE----EecCCceEEEEEEE-EEehhhhhhhccccc--cceeeEEcccCCCccceEEee
Confidence 345677774 6789999999998 22334458899998 999999999998865 112345678888877777666
Q ss_pred EeccCCHHHHHHHHHHHHHHHHhCCCcccccc--ceE----EEEEeeCCCCceEEEEEEEEEecCChhhHHHHHHHHHHH
Q 005375 321 AISHLDVHKINSIVADMRKVLAKNPQVEQQRL--HRR----VFLDNINPENQALLILVSCFVKTSHHEEYLCVKEAILLD 394 (699)
Q Consensus 321 ~I~ytd~ekv~~i~~~I~e~L~s~p~v~~~~~--~p~----V~v~~~~~~~~sl~i~V~~~v~~~d~~~~~~vr~~I~~~ 394 (699)
.=++.+.+.+.+.++.|+..|+...-.+..+. .-+ |-+...+....+-.+ -+++- ..+..++..|..+
T Consensus 155 ePd~~s~~EA~~~~~~L~~il~~lgvs~~~me~GslR~DvNVSv~~~g~~~~g~rv----EIKNl--nS~~~i~~AI~~E 228 (289)
T PF02934_consen 155 EPDIRSPEEAAAFLKKLRRILRYLGVSDGNMEEGSLRCDVNVSVRPKGEEKFGTRV----EIKNL--NSFRFIEKAIEYE 228 (289)
T ss_dssp -TTB-SHHHHHHHHHHHHHHHHHHTSB--SGGGTSEEEEEEEEECETTSSSTS-EE----EEEEE---SHHHHHHHHHHH
T ss_pred CCCCCCHHHHHHHHHHHHHHHHhcCcccCccccCcEEeeceeeecCCCCCCCcceE----EEecc--cCHHHHHHHHHHH
Confidence 66667889999999999888876433222210 111 112222211112222 33332 3456777888877
Q ss_pred HHHHHH--HCCCcc
Q 005375 395 LLRVIS--HHRARL 406 (699)
Q Consensus 395 Il~~~~--e~GIe~ 406 (699)
+.+... ++|-++
T Consensus 229 i~RQ~~~l~~g~~v 242 (289)
T PF02934_consen 229 IERQIELLENGGEV 242 (289)
T ss_dssp HHHHHHHHHHTT--
T ss_pred HHHHHHHHHcCCCe
Confidence 777654 345433
No 102
>cd03452 MaoC_C MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid degradation. The C-terminal domain of MaoC has sequence similarity to (R)-specific enoyl-CoA hydratase,Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. MaoC also has an N-terminal PutA domain like that found in the E. coli PutA proline dehydrogenase and other members of the aldehyde dehydrogenase family.
Probab=24.01 E-value=1.4e+02 Score=28.39 Aligned_cols=16 Identities=19% Similarity=0.181 Sum_probs=14.1
Q ss_pred hhhccCCccCCcEEEE
Q 005375 248 MIHATRPFVLNEWIQT 263 (699)
Q Consensus 248 ~I~~~rPfrIGD~I~I 263 (699)
-+-+.+|..+||.|.+
T Consensus 82 ~~rf~~PV~~GDtl~~ 97 (142)
T cd03452 82 NLRFLEPVYPGDTIQV 97 (142)
T ss_pred eEEECCCCCCCCEEEE
Confidence 4678899999999987
No 103
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=23.88 E-value=2.2e+02 Score=28.32 Aligned_cols=11 Identities=18% Similarity=0.265 Sum_probs=5.4
Q ss_pred HHHHHHHHHHH
Q 005375 224 AGGLGTVLLTL 234 (699)
Q Consensus 224 ~lGi~glalgf 234 (699)
++|++.+|+|+
T Consensus 40 ~lg~~~lAlg~ 50 (191)
T PF04156_consen 40 ILGIALLALGV 50 (191)
T ss_pred HHHHHHHHHHH
Confidence 44555555553
No 104
>COG0342 SecD Preprotein translocase subunit SecD [Intracellular trafficking and secretion]
Probab=23.72 E-value=3.2e+02 Score=32.13 Aligned_cols=29 Identities=28% Similarity=0.313 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHH
Q 005375 203 WVASASLFMELLGFSTQKWLTAGGLGTVLLTLA 235 (699)
Q Consensus 203 ~via~iiiL~~lGv~i~~lla~lGi~glalgfA 235 (699)
.++.++.+|+.+|. -|+..|++|++++++
T Consensus 378 n~~lil~vls~lga----tLtLpgIAGiILtIG 406 (506)
T COG0342 378 NGVLILAVLSLLGA----TLTLPGIAGIILTIG 406 (506)
T ss_pred HHHHHHHHHHHhcc----cccchhhhHHHHhhh
Confidence 44444555555553 344556666665543
No 105
>PF03699 UPF0182: Uncharacterised protein family (UPF0182); InterPro: IPR005372 This family contains uncharacterised integral membrane proteins.; GO: 0016021 integral to membrane
Probab=23.58 E-value=1.5e+03 Score=28.26 Aligned_cols=10 Identities=10% Similarity=0.258 Sum_probs=5.0
Q ss_pred HHhhcCChHH
Q 005375 58 YNALQCSPQA 67 (699)
Q Consensus 58 ~~~l~~~pl~ 67 (699)
|..++....+
T Consensus 33 F~~lg~~~Vf 42 (774)
T PF03699_consen 33 FSSLGYTSVF 42 (774)
T ss_pred HHhcCcHHHH
Confidence 3555554443
No 106
>COG4988 CydD ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]
Probab=23.19 E-value=9.7e+02 Score=28.71 Aligned_cols=134 Identities=11% Similarity=0.053 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHhccccCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCcccchhhHHHH
Q 005375 115 YIQPLMLWTGAILICRALDPVVLPTEAGEVVKQRLLNFVRSLSTVLAFAYCLSSLIQQAQKFFMETTDSGDARNMGFQFA 194 (699)
Q Consensus 115 l~~Pl~l~l~~i~i~~al~~l~lp~~~~~~v~~~ll~~l~ailiIl~~~~ll~~li~~i~~~l~~~~~~~~~r~~~i~~i 194 (699)
+.....++-++-++.+......+.......+.+.+..-+...++.+++++++.-++.....++..+....-.....-.++
T Consensus 1 ~l~i~~ll~~l~~i~~i~qa~llA~~l~~l~~~~~~~~l~~~~~~l~~~~~lRa~l~~~~~~~~~~aa~~~~~~LR~~~l 80 (559)
T COG4988 1 WLVISALLAVLSGIAIIAQAALLADILTKLIEGQLFQSLLPLLILLLIALVLRAFLAWLRERLGYRAAAKVRASLRQLVL 80 (559)
T ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHH------------------------------------HHHHHHHHHHHHHhCCchHHHHHHHHHH------HHHH
Q 005375 195 GKAVYS------------------------------------AVWVASASLFMELLGFSTQKWLTAGGLG------TVLL 232 (699)
Q Consensus 195 ~~ii~i------------------------------------ii~via~iiiL~~lGv~i~~lla~lGi~------glal 232 (699)
+++.+. -..++.++++..++.++..+-+..++.+ -+++
T Consensus 81 ~~l~~~gp~~~~~~~~g~~atl~~egve~l~~Y~~ryLPq~~~~~ivp~~i~i~v~~~~w~aalIllit~PlIPlfMilv 160 (559)
T COG4988 81 DKLAKLGPAFIAQKPAGSAATLALEGIEQLEPYYARYLPQMFLSAIVPLLILIAIFFFNWAAALILLITAPLIPLFMILV 160 (559)
T ss_pred HHHHhCChhhhcCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHhhHHHHHHHhhhh
Q 005375 233 TLAGREIFTNFLSSAM 248 (699)
Q Consensus 233 gfA~qd~l~Ni~aGi~ 248 (699)
|.++++....-++.+.
T Consensus 161 g~~a~~~s~~~~~~~~ 176 (559)
T COG4988 161 GLAAKDASEKQFSALA 176 (559)
T ss_pred HHHHhHHHHHHHHHHH
No 107
>PF06570 DUF1129: Protein of unknown function (DUF1129); InterPro: IPR009214 There are currently no experimental data for members of this group or their homologues. However, these proteins contain predicted integral membrane proteins (with several transmembrane segments).
Probab=23.16 E-value=8e+02 Score=24.92 Aligned_cols=11 Identities=18% Similarity=0.120 Sum_probs=4.5
Q ss_pred CCccccccccC
Q 005375 29 PQDFRSFNLSG 39 (699)
Q Consensus 29 ~~~~~~~~ll~ 39 (699)
++|..|..++.
T Consensus 43 k~G~tA~~lfG 53 (206)
T PF06570_consen 43 KKGKTARQLFG 53 (206)
T ss_pred hCCCcHHHHcC
Confidence 33444444433
No 108
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=23.16 E-value=2.4e+02 Score=27.58 Aligned_cols=47 Identities=13% Similarity=0.041 Sum_probs=28.8
Q ss_pred CCccCCcEEEEeecC--CCeeEEEEEEecee-eEEEEe-cCCcE--EEEecccc
Q 005375 253 RPFVLNEWIQTKIEG--YEVSGTVEHVGWWS-PTIVRG-EDREA--VHIPNHKF 300 (699)
Q Consensus 253 rPfrIGD~I~Iki~~--~~~~G~VeeIgL~s-TT~IRt-~Dg~~--v~IPNs~l 300 (699)
..|++||+|+|. +| .+..|.|.+++-.. ..++.- .-... +.||++.+
T Consensus 93 ~~~~~G~~V~I~-~Gpf~g~~g~V~~vd~~k~~v~v~ll~~~~~~pv~v~~~~~ 145 (153)
T PRK08559 93 EGIKEGDIVELI-AGPFKGEKARVVRVDESKEEVTVELLEAAVPIPVTVRGDQV 145 (153)
T ss_pred cCCCCCCEEEEe-ccCCCCceEEEEEEcCCCCEEEEEEECCcceeeEEEeccEE
Confidence 469999999993 33 45678999986332 022222 22333 66777665
No 109
>TIGR00917 2A060601 Niemann-Pick C type protein family. The model describes Niemann-Pick C type protein in eukaryotes. The defective protein has been associated with Niemann-Pick disease which is described in humans as autosomal recessive lipidosis. It is characterized by the lysosomal accumulation of unestrified cholesterol. It is an integral membrane protein, which indicates that this protein is most likely involved in cholesterol transport or acts as some component of cholesterol homeostasis.
Probab=22.93 E-value=5.1e+02 Score=33.84 Aligned_cols=25 Identities=16% Similarity=0.101 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHhCCchHHH
Q 005375 197 AVYSAVWVASASLFMELLGFSTQKW 221 (699)
Q Consensus 197 ii~iii~via~iiiL~~lGv~i~~l 221 (699)
++.+.+.++.++.+|..+|+++..+
T Consensus 1080 ~l~I~~i~~~~~g~M~~~gisLN~v 1104 (1204)
T TIGR00917 1080 VISVGMIVVNLVGIMHLWNISLNAV 1104 (1204)
T ss_pred HHHHHHHHHHHHHHHHHhCCCHhHH
Confidence 3455666677777888899887554
No 110
>PF01810 LysE: LysE type translocator; InterPro: IPR001123 Lysine exporter protein is involved in the efflux of excess L-lysine as a control for intracellular levels of L-lysine. A number of proteins belong to this family. These include the chemotactic transduction protein from Pseudomonas aeruginosa, the threonine efflux protein and a number of uncharacterised proteins from a variety of sources.; GO: 0006865 amino acid transport, 0016020 membrane
Probab=22.93 E-value=7.2e+02 Score=24.28 Aligned_cols=18 Identities=6% Similarity=-0.062 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 005375 193 FAGKAVYSAVWVASASLF 210 (699)
Q Consensus 193 ~i~~ii~iii~via~iii 210 (699)
.+.++..+++.++++.++
T Consensus 171 ~i~~~~g~~li~~av~l~ 188 (191)
T PF01810_consen 171 WINRISGLLLIGFAVYLL 188 (191)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 455666666655555544
No 111
>COG1030 NfeD Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]
Probab=22.79 E-value=3.5e+02 Score=31.24 Aligned_cols=13 Identities=8% Similarity=0.214 Sum_probs=7.2
Q ss_pred HHHHHHHHHHHHH
Q 005375 109 HHVMTSYIQPLML 121 (699)
Q Consensus 109 ~~il~sl~~Pl~l 121 (699)
.+++..+..|...
T Consensus 225 ~~ll~~ItdP~va 237 (436)
T COG1030 225 ERLLNWITDPSVA 237 (436)
T ss_pred HHHHHHhcCcHHH
Confidence 3556666666543
No 112
>PF06107 DUF951: Bacterial protein of unknown function (DUF951); InterPro: IPR009296 This family consists of several short hypothetical bacterial proteins of unknown function.
Probab=22.67 E-value=2e+02 Score=24.03 Aligned_cols=45 Identities=11% Similarity=0.139 Sum_probs=34.1
Q ss_pred ccCCcEEEEe--ecCCCeeEEEEEEeceeeEEEEe-cCCcEEEEeccccc
Q 005375 255 FVLNEWIQTK--IEGYEVSGTVEHVGWWSPTIVRG-EDREAVHIPNHKFT 301 (699)
Q Consensus 255 frIGD~I~Ik--i~~~~~~G~VeeIgL~sTT~IRt-~Dg~~v~IPNs~l~ 301 (699)
|.+||.|+++ .+=|+..-.|..+|.-. +|+. .-|+.+.+|-+.|-
T Consensus 2 ~~vgDiV~mKK~HPCG~~~Wei~R~GaDi--kikC~gCg~~imlpR~~fe 49 (57)
T PF06107_consen 2 YEVGDIVEMKKPHPCGSNEWEIIRIGADI--KIKCLGCGRQIMLPRSKFE 49 (57)
T ss_pred ccCCCEEEEcCCCCCCCCEEEEEEccCcE--EEEECCCCCEEEEeHHHHH
Confidence 7899999996 34466677899999864 5654 45889999987763
No 113
>PF14221 DUF4330: Domain of unknown function (DUF4330)
Probab=22.60 E-value=1.2e+02 Score=30.24 Aligned_cols=43 Identities=23% Similarity=0.257 Sum_probs=30.2
Q ss_pred ccCCcEEEEeecCCCeeE--EEEEEeceeeE-EEEecCCcEEEEecc
Q 005375 255 FVLNEWIQTKIEGYEVSG--TVEHVGWWSPT-IVRGEDREAVHIPNH 298 (699)
Q Consensus 255 frIGD~I~Iki~~~~~~G--~VeeIgL~sTT-~IRt~Dg~~v~IPNs 298 (699)
|+.||.+.+.+. +...| +|+++.....+ ...+.||+.+..|.-
T Consensus 72 ~~~gd~~~~~~r-nqp~G~v~V~~V~~~p~~~~~~~~dG~v~~~~dP 117 (168)
T PF14221_consen 72 IKEGDKTNIVIR-NQPAGQVTVKDVQVLPRTVVVPQPDGSVVEAPDP 117 (168)
T ss_pred ccCCCEEEEecc-CccccceEEEEEEEEccceEEECCCCeEEEccCC
Confidence 899999987433 45566 88888876523 334479998887765
No 114
>PF05437 AzlD: Branched-chain amino acid transport protein (AzlD); InterPro: IPR008407 This family consists of a number of bacterial and archaeal branched-chain amino acid transport proteins. AzlD, a member of this group, has been shown by mutational analysis to be involved in branched-chain amino acid transport, and to be involved in conferring resistance to 4-azaleucine []. However, its exact role in these processes is not yet clear []. Based on its hydropathy profile, it has been suggested to be a membrane protein [].
Probab=22.58 E-value=5.5e+02 Score=22.78 Aligned_cols=26 Identities=19% Similarity=0.324 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHhhHHHHHHHhhhhhh
Q 005375 225 GGLGTVLLTLAGREIFTNFLSSAMIH 250 (699)
Q Consensus 225 lGi~glalgfA~qd~l~Ni~aGi~I~ 250 (699)
+.+.++++++-.++++-.++.|+..+
T Consensus 70 a~~~~~~~~~~~~~~~~~v~~G~~~~ 95 (99)
T PF05437_consen 70 AALVAALVALRTRNLLLSVLAGVAAF 95 (99)
T ss_pred HHHHHHHHHHHHcchHHHHHHHHHHH
Confidence 44556677788889999999887643
No 115
>PRK11111 hypothetical protein; Provisional
Probab=22.58 E-value=5e+02 Score=26.98 Aligned_cols=35 Identities=20% Similarity=0.421 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHH
Q 005375 201 AVWVASASLFMELLGFSTQKWLTAGGLGTVLLTLA 235 (699)
Q Consensus 201 ii~via~iiiL~~lGv~i~~lla~lGi~glalgfA 235 (699)
+++++..-.+|..||++..++-.++|++-+.+|+-
T Consensus 58 l~f~~~G~~iL~~fGIsl~afrIaGGiiL~~ial~ 92 (214)
T PRK11111 58 LISLFLGDFILNLFGISIDSFRIAGGILVVTIAMS 92 (214)
T ss_pred HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHH
Confidence 34444455677899999999999988887777654
No 116
>PRK10694 acyl-CoA esterase; Provisional
Probab=22.41 E-value=1.1e+02 Score=29.29 Aligned_cols=30 Identities=13% Similarity=0.110 Sum_probs=24.0
Q ss_pred hhhccCCccCCcEEEEeecCCCeeEEEEEEeceeeEEE
Q 005375 248 MIHATRPFVLNEWIQTKIEGYEVSGTVEHVGWWSPTIV 285 (699)
Q Consensus 248 ~I~~~rPfrIGD~I~Iki~~~~~~G~VeeIgL~sTT~I 285 (699)
-|.|-+|.++||+|++ .++|+.+|=.+ ..+
T Consensus 61 ~i~F~~Pv~~Gd~l~~-------~a~V~~~g~sS-~~v 90 (133)
T PRK10694 61 GMTFLRPVAVGDVVCC-------YARCVKTGTTS-ISI 90 (133)
T ss_pred ceEECCCcccCcEEEE-------EEEEEEccCce-EEE
Confidence 3578899999999986 47888888776 544
No 117
>PF08566 Pam17: Mitochondrial import protein Pam17; InterPro: IPR013875 The presequence translocase-associated motor (PAM) drives the completion of preprotein translocation into the mitochondrial matrix. The Pam17 subunit is required for formation of a stable complex between cochaperones Pam16 and Pam18 and promotes the association of Pam16-Pam18 with the presequence translocase []. Mitochondria lacking Pam17 are selectively impaired in the import of matrix proteins [].
Probab=22.37 E-value=2.8e+02 Score=28.11 Aligned_cols=35 Identities=11% Similarity=-0.008 Sum_probs=29.2
Q ss_pred HhCCchHHHHHHHHHHHHHHHHHhhHHHHHHHhhh
Q 005375 213 LLGFSTQKWLTAGGLGTVLLTLAGREIFTNFLSSA 247 (699)
Q Consensus 213 ~lGv~i~~lla~lGi~glalgfA~qd~l~Ni~aGi 247 (699)
++|+++.-++.++++++.++|+.+..++.|.+=.+
T Consensus 71 I~GlDP~~~~g~~t~a~g~lG~L~GP~~G~~vf~l 105 (173)
T PF08566_consen 71 IMGLDPFMVYGLATLACGALGWLVGPSLGNQVFRL 105 (173)
T ss_pred ccCcCHHHHHHHHHHHHHHHHHHhcchHHHHHHHH
Confidence 56999888888888999999999999988876443
No 118
>cd03453 SAV4209_like SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit.
Probab=22.18 E-value=2.2e+02 Score=26.18 Aligned_cols=16 Identities=13% Similarity=0.239 Sum_probs=13.9
Q ss_pred hhhccCCccCCcEEEE
Q 005375 248 MIHATRPFVLNEWIQT 263 (699)
Q Consensus 248 ~I~~~rPfrIGD~I~I 263 (699)
-+-+.+|..+||.|.+
T Consensus 74 ~~rf~~Pv~~Gdtl~~ 89 (127)
T cd03453 74 GVRFTKPVPVPDTLTC 89 (127)
T ss_pred EEEECCcCcCCCEEEE
Confidence 3578899999999987
No 119
>PRK10995 inner membrane protein; Provisional
Probab=22.11 E-value=6.4e+02 Score=26.05 Aligned_cols=33 Identities=27% Similarity=0.346 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHH
Q 005375 202 VWVASASLFMELLGFSTQKWLTAGGLGTVLLTL 234 (699)
Q Consensus 202 i~via~iiiL~~lGv~i~~lla~lGi~glalgf 234 (699)
++.++.-.++..||++...+-.++|++-+.+|+
T Consensus 57 ~f~~~G~~il~~fgIs~~a~rIaGGilL~~igi 89 (221)
T PRK10995 57 VAFYAGQLVMSTFGISIPGLRIAGGLIVAFIGF 89 (221)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 444445567788999998888888877666654
No 120
>PRK04439 S-adenosylmethionine synthetase; Provisional
Probab=22.07 E-value=2.9e+02 Score=31.54 Aligned_cols=80 Identities=13% Similarity=0.255 Sum_probs=57.1
Q ss_pred EEEEEeccCCHHHHHHHHHHHHHHHH------hCCCccccccceEEEEEeeCCCCceEEEEEEEEEec---CChhhHHHH
Q 005375 317 KTHLAISHLDVHKINSIVADMRKVLA------KNPQVEQQRLHRRVFLDNINPENQALLILVSCFVKT---SHHEEYLCV 387 (699)
Q Consensus 317 ~i~l~I~ytd~ekv~~i~~~I~e~L~------s~p~v~~~~~~p~V~v~~~~~~~~sl~i~V~~~v~~---~d~~~~~~v 387 (699)
...+++.|.+....++++-.+.++|. .+|.+-.| +.+.++.. +..+.+.|-|-.-+ .+.++|...
T Consensus 156 DTS~gVGyAPlS~~E~~Vl~~E~~lns~~~k~~~P~~GeD-----iKVMG~R~-g~~i~lTVa~a~v~r~v~~~~~Y~~~ 229 (399)
T PRK04439 156 DTSFGVGYAPLSETERLVLETERYLNSEEFKKRFPEVGED-----IKVMGLRN-GDEITLTIAMALVDRYVNDVDEYFEV 229 (399)
T ss_pred cccceeecCCCCHHHHHHHHHHHHhcCcchhhcCCCcCCC-----eEEEEEEc-CCEEEEEEEhHHhhhhcCCHHHHHHH
Confidence 46789999888888888888989884 45555444 44555544 24666666554433 267889999
Q ss_pred HHHHHHHHHHHHHHC
Q 005375 388 KEAILLDLLRVISHH 402 (699)
Q Consensus 388 r~~I~~~Il~~~~e~ 402 (699)
++++...+.+...+.
T Consensus 230 k~~v~~~v~~~a~~~ 244 (399)
T PRK04439 230 KEEVKEKVEDLAQKY 244 (399)
T ss_pred HHHHHHHHHHHHHhh
Confidence 999999999988654
No 121
>PF07290 DUF1449: Protein of unknown function (DUF1449); InterPro: IPR010840 This family consists of several bacterial proteins of around 210 residues in length. The function of this family is unknown.
Probab=22.01 E-value=7.4e+02 Score=25.67 Aligned_cols=11 Identities=36% Similarity=0.936 Sum_probs=6.2
Q ss_pred HHHHHHHHHHH
Q 005375 117 QPLMLWTGAIL 127 (699)
Q Consensus 117 ~Pl~l~l~~i~ 127 (699)
-|+++|+++.+
T Consensus 63 vPlLI~L~l~l 73 (202)
T PF07290_consen 63 VPLLIWLVLLL 73 (202)
T ss_pred cHHHHHHHHHH
Confidence 36666665544
No 122
>PRK09459 pspG phage shock protein G; Reviewed
Probab=21.94 E-value=1.9e+02 Score=25.51 Aligned_cols=27 Identities=19% Similarity=0.267 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHH
Q 005375 202 VWVASASLFMELLGFSTQKWLTAGGLG 228 (699)
Q Consensus 202 i~via~iiiL~~lGv~i~~lla~lGi~ 228 (699)
++++++.+.|-.-|++.-+++++++++
T Consensus 5 lFvl~F~~~LlvTGiSllgv~aAl~va 31 (76)
T PRK09459 5 LFVIGFFVMLLVTGISLLGIIAALGVA 31 (76)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 455566666666677766666655554
No 123
>PF10842 DUF2642: Protein of unknown function (DUF2642); InterPro: IPR020139 This entry contains proteins with no known function.
Probab=21.92 E-value=3e+02 Score=23.67 Aligned_cols=43 Identities=9% Similarity=0.067 Sum_probs=35.5
Q ss_pred CCcEEEEeecCCCeeEEEEEEeceeeEEEEecCCcEEEEeccccc
Q 005375 257 LNEWIQTKIEGYEVSGTVEHVGWWSPTIVRGEDREAVHIPNHKFT 301 (699)
Q Consensus 257 IGD~I~Iki~~~~~~G~VeeIgL~sTT~IRt~Dg~~v~IPNs~l~ 301 (699)
+|-+|.|.-..|.+.|++.++.--+ ..++.. |+..+|...++.
T Consensus 20 iG~~vvV~T~~g~v~G~L~~V~pDh-Ivl~~~-~~~~~IR~~~IV 62 (66)
T PF10842_consen 20 IGQRVVVQTTRGSVRGILVDVKPDH-IVLEEN-GTPFFIRIAQIV 62 (66)
T ss_pred cCCEEEEEEcCCcEEEEEEeecCCE-EEEEeC-CcEEEEEeeeEE
Confidence 6888888666688999999999998 777766 889999887764
No 124
>KOG3386 consensus Copper transporter [Inorganic ion transport and metabolism]
Probab=21.66 E-value=8e+02 Score=24.34 Aligned_cols=44 Identities=11% Similarity=-0.001 Sum_probs=26.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHH
Q 005375 190 GFQFAGKAVYSAVWVASASLFMELLGFSTQKWLTAGGLGTVLLTLA 235 (699)
Q Consensus 190 ~i~~i~~ii~iii~via~iiiL~~lGv~i~~lla~lGi~glalgfA 235 (699)
...+++.++.++=++++-++.|...-+|.. +..+.++|+++|+.
T Consensus 93 ~~h~~qt~l~~~Q~~~sY~LMLifMtfN~~--l~Lavv~Ga~~G~f 136 (155)
T KOG3386|consen 93 ASHLIQTLLYVVQLGFSYLLMLIFMTFNGY--LFLAVVLGAGVGYF 136 (155)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhH--HHHHHHHHHhhhhh
Confidence 345666666666666666666665555543 44455677777653
No 125
>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal. This protein contains a KOW domain, shared by bacterial NusG and the L24p/L26e family of ribosomal proteins. Although called archaeal NusG in several publications, it is the only close homolog of eukaryotic L26e in archaeal genomes, shares an operon with L11 in many genomes, and has been sequenced from purified ribosomes. It is here designated as a ribosomal protein for these reasons.
Probab=21.65 E-value=2.1e+02 Score=27.33 Aligned_cols=26 Identities=12% Similarity=0.058 Sum_probs=19.6
Q ss_pred CCccCCcEEEEeecC--CCeeEEEEEEec
Q 005375 253 RPFVLNEWIQTKIEG--YEVSGTVEHVGW 279 (699)
Q Consensus 253 rPfrIGD~I~Iki~~--~~~~G~VeeIgL 279 (699)
..|++||+|+|. +| .|..|.|+++.-
T Consensus 85 ~~~~~Gd~V~I~-~GPf~G~~g~v~~~d~ 112 (145)
T TIGR00405 85 ESIKKGDIVEII-SGPFKGERAKVIRVDE 112 (145)
T ss_pred cccCCCCEEEEe-ecCCCCCeEEEEEEcC
Confidence 359999999993 33 466788988853
No 126
>TIGR03747 conj_TIGR03747 integrating conjugative element membrane protein, PFL_4697 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=21.57 E-value=9.8e+02 Score=25.36 Aligned_cols=39 Identities=21% Similarity=0.269 Sum_probs=23.6
Q ss_pred HHHHhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHHHh
Q 005375 92 RNLLLRKSDNSWKKSKTHHVMTSYIQPLMLWTGAILICRAL 132 (699)
Q Consensus 92 ~~ll~~rt~~~~~~~~~~~il~sl~~Pl~l~l~~i~i~~al 132 (699)
.++-.||-......++.++-.+++..|+.+..+ ++|+++
T Consensus 163 vrRdiRr~gaGrESsfvyH~Akr~~~p~~~~p~--~lYLsl 201 (233)
T TIGR03747 163 VRRDLRRFGAGRESSFVYHHAKRFVKPLMILPW--VLYLSL 201 (233)
T ss_pred HHHHHHHhcCCccCcHHHHHHHHHHHHHHHHHH--HHHHhc
Confidence 334445555666677778777777777766443 444444
No 127
>PF08611 DUF1774: Fungal protein of unknown function (DUF1774); InterPro: IPR013920 This is a fungal protein of unknown function.
Probab=21.41 E-value=1.9e+02 Score=26.66 Aligned_cols=38 Identities=21% Similarity=0.378 Sum_probs=26.5
Q ss_pred HhCCchHHHHHHHHHHHHHH-HHHhhHHHHHHHhhhhhh
Q 005375 213 LLGFSTQKWLTAGGLGTVLL-TLAGREIFTNFLSSAMIH 250 (699)
Q Consensus 213 ~lGv~i~~lla~lGi~glal-gfA~qd~l~Ni~aGi~I~ 250 (699)
.+|++.+-+.+++|+.=+.. .+++|=++.=.++|++..
T Consensus 26 ~~GfslS~L~~slgv~Q~~~kvialQWIFAFvI~avlfv 64 (97)
T PF08611_consen 26 AMGFSLSYLTASLGVGQFFIKVIALQWIFAFVIAAVLFV 64 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45777777777777775544 478888888888776543
No 128
>COG4325 Predicted membrane protein [Function unknown]
Probab=21.35 E-value=1.3e+03 Score=26.62 Aligned_cols=16 Identities=13% Similarity=0.239 Sum_probs=10.8
Q ss_pred EEEEEEecCChhhHHH
Q 005375 371 LVSCFVKTSHHEEYLC 386 (699)
Q Consensus 371 ~V~~~v~~~d~~~~~~ 386 (699)
++++|....++.+|++
T Consensus 363 ~lR~~~~~~~~a~~l~ 378 (464)
T COG4325 363 ELRFWLPYPSFATYLH 378 (464)
T ss_pred cEEEEecCccHHHHHH
Confidence 6777887777766543
No 129
>PRK10582 cytochrome o ubiquinol oxidase subunit IV; Provisional
Probab=21.30 E-value=6.1e+02 Score=23.80 Aligned_cols=40 Identities=18% Similarity=0.110 Sum_probs=21.0
Q ss_pred HHHhhcCCcccchhhHHHHHHHHHHHHHHHHHHHHHHHhC
Q 005375 176 FFMETTDSGDARNMGFQFAGKAVYSAVWVASASLFMELLG 215 (699)
Q Consensus 176 ~l~~~~~~~~~r~~~i~~i~~ii~iii~via~iiiL~~lG 215 (699)
++.......+.+...+.++-.++-+++.+++.+.++..++
T Consensus 64 ~FLHl~~~~~~~wn~~al~Ft~~i~~iiv~GSlWIM~~ln 103 (109)
T PRK10582 64 CFLHMNTKSDEGWNMTAFVFTVLIIAILVVGSIWIMWNLN 103 (109)
T ss_pred HHhcccCCcccchHHHHHHHHHHHHHHHHHHHHHHHccCH
Confidence 4555544444454445555555555555555555555443
No 130
>TIGR00328 flhB flagellar biosynthetic protein FlhB. FlhB and its functionally equivalent orthologs, from among a larger superfamily of proteins involved in type III protein export systems, are specifically involved in flagellar protein export. The seed members are restricted and the trusted cutoff is set high such that the proteins gathered by this model play roles specifically related to flagellar structures. Full-length homologs scoring below the trusted cutoff are involved in peptide export but not necessarily in the creation of flagella.
Probab=21.08 E-value=1.1e+03 Score=26.42 Aligned_cols=113 Identities=11% Similarity=0.089 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccc-------------hhhHHHHHHHHHHHHHHHHHHHHHHHh
Q 005375 66 QALKLVPGIAIIVFATWGLGPLMRQSRNLLLRKSDNSWKK-------------SKTHHVMTSYIQPLMLWTGAILICRAL 132 (699)
Q Consensus 66 l~l~lL~al~illl~~~~l~~llr~i~~ll~~rt~~~~~~-------------~~~~~il~sl~~Pl~l~l~~i~i~~al 132 (699)
..+..++-++++++++.++..+++....+-.+...-.|++ .....++.++.+.+.+.+++..+....
T Consensus 81 ~~~~~~~p~~~~~~~~~i~~~~~q~G~~fs~k~l~Pk~~rlNPi~G~KriFS~~~l~el~KsllK~~~i~~v~~~~~~~~ 160 (347)
T TIGR00328 81 EVLLLLLPIFVLLLVVGVLSNIAQFGFLFTTKPLKPKFSKINPIKGLKRLFSLQSLVELLKSLLKVFLVSFVAYFVLRNS 160 (347)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhCcccccccCCCChhhcCHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred c--cccCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005375 133 D--PVVLPTEAGEVVKQRLLNFVRSLSTVLAFAYCLSSLIQQAQKFFM 178 (699)
Q Consensus 133 ~--~l~lp~~~~~~v~~~ll~~l~ailiIl~~~~ll~~li~~i~~~l~ 178 (699)
. .+.+...........+...+..++..+++++++.-+++....++.
T Consensus 161 ~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~via~~D~~~qr~~ 208 (347)
T TIGR00328 161 LGELLSLSLYSLVQAITNFLDIAKSLLILVLLLLLVIAVFDYFFQRWQ 208 (347)
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 131
>PF09323 DUF1980: Domain of unknown function (DUF1980); InterPro: IPR015402 Members of this occur in gene pairs with members of PF03773 from PFAM. The N-terminal region contains several predicted transmembrane helix regions while the few invariant residues (G, CxxD, and W) occur in the C-terminal region. Members of this family are found in a set of prokaryotic hypothetical proteins. Their exact function has not, as yet, been defined.
Probab=20.98 E-value=2.6e+02 Score=27.96 Aligned_cols=14 Identities=7% Similarity=-0.007 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHHH
Q 005375 196 KAVYSAVWVASASL 209 (699)
Q Consensus 196 ~ii~iii~via~ii 209 (699)
+...++++++.+++
T Consensus 73 ~~~~y~l~~iPll~ 86 (182)
T PF09323_consen 73 KLWSYFLFLIPLLI 86 (182)
T ss_pred ccHHHHHHHHHHHH
Confidence 44444444444433
No 132
>PRK12933 secD preprotein translocase subunit SecD; Reviewed
Probab=20.88 E-value=1e+03 Score=28.81 Aligned_cols=17 Identities=12% Similarity=-0.125 Sum_probs=7.0
Q ss_pred ccccCCCCCCCCCcCcc
Q 005375 35 FNLSGSPYSQINPIPYR 51 (699)
Q Consensus 35 ~~ll~~l~~~~~pv~~r 51 (699)
..|-.-|+....|+|..
T Consensus 407 ~~LA~~LraGaLpa~~~ 423 (604)
T PRK12933 407 QQLALLLRAGSLTAPVT 423 (604)
T ss_pred HHHHHHHhcCCCCCCeE
Confidence 33333344444444433
No 133
>PF03845 Spore_permease: Spore germination protein; InterPro: IPR004761 Amino acid permeases are integral membrane proteins involved in the transport of amino acids into the cell. A number of such proteins have been found to be evolutionary related [, , ]. These proteins seem to contain up to 12 transmembrane segments. The best conserved region in this family is located in the second transmembrane segment. Spore germination protein (amino acid permease) is involved in the response to the germinative mixture of L-asparagine, glucose, fructose and potassium ions (AFFK). These proteins could be amino acid transporters.; GO: 0009847 spore germination, 0016021 integral to membrane
Probab=20.82 E-value=1e+03 Score=25.35 Aligned_cols=32 Identities=9% Similarity=-0.124 Sum_probs=13.6
Q ss_pred hHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHH
Q 005375 55 IRSYNALQCSPQALKLVPGIAIIVFATWGLGPL 87 (699)
Q Consensus 55 p~l~~~l~~~pl~l~lL~al~illl~~~~l~~l 87 (699)
|.......++.|. ..+++..+.++.+|...++
T Consensus 24 p~~l~~~~~d~Wi-~~ll~~~~~l~~~~l~~~l 55 (320)
T PF03845_consen 24 PAILAEQAGDAWI-SVLLGGLIGLLLALLIYYL 55 (320)
T ss_pred HHHHHHHcCCcHH-HHHHHHHHHHHHHHHHHHH
Confidence 3443333333443 4555554444444433333
No 134
>PRK12585 putative monovalent cation/H+ antiporter subunit G; Reviewed
Probab=20.81 E-value=8.4e+02 Score=25.29 Aligned_cols=25 Identities=12% Similarity=0.187 Sum_probs=14.4
Q ss_pred HHHHHHHHhhHHHHHHHhhhhhhcc
Q 005375 228 GTVLLTLAGREIFTNFLSSAMIHAT 252 (699)
Q Consensus 228 ~glalgfA~qd~l~Ni~aGi~I~~~ 252 (699)
+.+++-|..-.+.+++++--.....
T Consensus 72 LiIvFllLTaPVaSHaIARAAyr~G 96 (197)
T PRK12585 72 LAVLFIFLTTPVASHLINRAAYDTG 96 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 3344446666777777766544433
No 135
>TIGR02921 PEP_integral PEP-CTERM family integral membrane protein. Members of this protein family, found in three different species so far, have a PEP-CTERM sequence at the carboxyl-terminus (see model TIGR02595), but are unusual among PEP-CTERM proteins in having multiple predicted transmembrane segments. The function is unknown. It is proposed that a member of the EpsH family, to be designated exosortase (see TIGR02602), recognizes and cleaves PEP-CTERM proteins in a manner analogous to the cleavage of LPXTG proteins by sortase (see Haft, et al., 2006).
Probab=20.62 E-value=1.6e+03 Score=27.42 Aligned_cols=16 Identities=19% Similarity=-0.049 Sum_probs=11.4
Q ss_pred hhhhccCCccCCcEEE
Q 005375 247 AMIHATRPFVLNEWIQ 262 (699)
Q Consensus 247 i~I~~~rPfrIGD~I~ 262 (699)
++-..++-+..|+.|.
T Consensus 276 ~la~~~~~~~~~~ti~ 291 (952)
T TIGR02921 276 LLAFADKNDQDGETII 291 (952)
T ss_pred HHhcCCccCCCCCccc
Confidence 4445677888888775
No 136
>TIGR00833 actII Transport protein. Characterized members of the RND superfamily all probably catalyze substrate efflux via an H+ antiport mechanism. These proteins are found ubiquitously in bacteria, archaea and eukaryotes. This sub-family includes the S. coelicolor ActII3 protein, which may play a role in drug resistance, and the M. tuberculosis MmpL7 protein, which catalyzes export of an outer membrane lipid, phthiocerol dimycocerosate.
Probab=20.58 E-value=1.7e+03 Score=27.90 Aligned_cols=7 Identities=14% Similarity=0.344 Sum_probs=2.8
Q ss_pred HHHhCCc
Q 005375 211 MELLGFS 217 (699)
Q Consensus 211 L~~lGv~ 217 (699)
|...++.
T Consensus 295 l~~~~~~ 301 (910)
T TIGR00833 295 LSLARLP 301 (910)
T ss_pred HHHccCh
Confidence 3334443
No 137
>PRK13023 bifunctional preprotein translocase subunit SecD/SecF; Reviewed
Probab=20.50 E-value=1.7e+03 Score=27.72 Aligned_cols=21 Identities=29% Similarity=0.234 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHHHhCCc
Q 005375 197 AVYSAVWVASASLFMELLGFS 217 (699)
Q Consensus 197 ii~iii~via~iiiL~~lGv~ 217 (699)
++...+-.+..++.|..+|..
T Consensus 379 Il~s~lTTlia~lpL~~~g~g 399 (758)
T PRK13023 379 IVDANLTTLIAALVLFLLGSG 399 (758)
T ss_pred HHHHHHHHHHHHHHHHHHhch
Confidence 333333333444444445543
No 138
>TIGR01995 PTS-II-ABC-beta PTS system, beta-glucoside-specific IIABC component. This model represents a family of PTS enzyme II proteins in which all three domains are found in the same polypeptide chain and which appear to have a broad specificity for beta-glucosides including salicin (beta-D-glucose-1-salicylate) and arbutin (Hydroquinone-O-beta-D-glucopyranoside). These are distinct from the closely related sucrose-specific and trehalose-specific PTS transporters.
Probab=20.47 E-value=1.5e+03 Score=27.18 Aligned_cols=31 Identities=10% Similarity=0.174 Sum_probs=19.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhccccC
Q 005375 107 KTHHVMTSYIQPLMLWTGAILICRALDPVVL 137 (699)
Q Consensus 107 ~~~~il~sl~~Pl~l~l~~i~i~~al~~l~l 137 (699)
..+.++..+..-+++++.+++.|.+...+..
T Consensus 138 ~~~~~l~~i~~a~f~fLPiliays~Ak~~~~ 168 (610)
T TIGR01995 138 QTYQILNAMGDAVFYFLPILLAITAAKRFKV 168 (610)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 3456666666666777777777766655543
No 139
>PRK11715 inner membrane protein; Provisional
Probab=20.46 E-value=1.4e+03 Score=26.58 Aligned_cols=21 Identities=24% Similarity=0.077 Sum_probs=10.9
Q ss_pred HhCCchHHHHHHHHHHHHHHH
Q 005375 213 LLGFSTQKWLTAGGLGTVLLT 233 (699)
Q Consensus 213 ~lGv~i~~lla~lGi~glalg 233 (699)
++-..--++|++...+-++++
T Consensus 403 lLq~EDyALL~GSllLF~~La 423 (436)
T PRK11715 403 LLQSEDYALLLGSLLLFAVLA 423 (436)
T ss_pred HHHHhHHHHHHHHHHHHHHHH
Confidence 344444466666555544444
No 140
>cd04466 S1_YloQ_GTPase S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of three domains: an N-terminal S1 domain, a central GTPase domain, and a C-terminal zinc finger domain. This N-terminal S1 domain binds ssRNA. The central GTPase domain contains nucleotide-binding signature motifs: G1 (walker A), G3 (walker B) and G4 motifs. Experiments show that the bacterial YloQ and YjeQ proteins have low intrinsic GTPase activity. The C-terminal zinc-finger domain has structural similarity to a portion of the DNA-repair protein Rad51. This suggests a possible role for this GTPase as a regulator of translation, perhaps as a translation initiation factor. This family is classified based on the N-terminal S1 domain.
Probab=20.38 E-value=1.8e+02 Score=23.59 Aligned_cols=31 Identities=13% Similarity=0.249 Sum_probs=20.7
Q ss_pred CCccCCcEEEEeecCCCeeEEEEEEeceeeEEE
Q 005375 253 RPFVLNEWIQTKIEGYEVSGTVEHVGWWSPTIV 285 (699)
Q Consensus 253 rPfrIGD~I~Iki~~~~~~G~VeeIgL~sTT~I 285 (699)
....+||||.+...+ +..|.|++|--|. +.+
T Consensus 36 ~~~~VGD~V~~~~~~-~~~~~I~~vl~R~-s~l 66 (68)
T cd04466 36 NPPAVGDRVEFEPED-DGEGVIEEILPRK-NLL 66 (68)
T ss_pred CCCCCCcEEEEEECC-CCcEEEEEEeccc-eEE
Confidence 356899999884322 3457888887776 443
No 141
>KOG4193 consensus G protein-coupled receptors [Signal transduction mechanisms]
Probab=20.38 E-value=9.1e+02 Score=29.20 Aligned_cols=21 Identities=19% Similarity=0.051 Sum_probs=12.4
Q ss_pred HHHHHhhHHHHHHHhhhhhhc
Q 005375 231 LLTLAGREIFTNFLSSAMIHA 251 (699)
Q Consensus 231 algfA~qd~l~Ni~aGi~I~~ 251 (699)
.++|+.=-.+-|-+-|++|++
T Consensus 542 ~~v~~YlFti~NalQG~fIFi 562 (610)
T KOG4193|consen 542 SVVFAYLFTIFNALQGVFIFI 562 (610)
T ss_pred chHHHHHHHHHHHhhhhHhhH
Confidence 344444446677777766654
No 142
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=20.38 E-value=1.6e+02 Score=37.51 Aligned_cols=47 Identities=23% Similarity=0.252 Sum_probs=35.7
Q ss_pred CCccCCcEEEEeecC------CCeeEEEEEEeceeeEEEEecCCcEEEEecccc
Q 005375 253 RPFVLNEWIQTKIEG------YEVSGTVEHVGWWSPTIVRGEDREAVHIPNHKF 300 (699)
Q Consensus 253 rPfrIGD~I~Iki~~------~~~~G~VeeIgL~sTT~IRt~Dg~~v~IPNs~l 300 (699)
+.|++||+|.+.-++ +|..|+|+.|.-.. ..++..||+.|.++...+
T Consensus 599 r~~~vGDrVm~~rNd~~lgV~NGd~GtV~~I~~~~-i~V~~d~gr~V~~~~~~~ 651 (988)
T PRK13889 599 RSFASGDRVMFLQNERGLGVKNGTLGTIEQVSAQS-MSVRLDDGRSVAFDLKDY 651 (988)
T ss_pred ccccCCCEEEEeecCCcCCEeCCCeEEEEEecCCe-EEEEECCCeEEEecHHHc
Confidence 579999999984221 45689999998776 778877888888876544
No 143
>PRK06298 type III secretion system protein; Validated
Probab=20.22 E-value=1.2e+03 Score=26.05 Aligned_cols=15 Identities=0% Similarity=-0.150 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHCCCc
Q 005375 391 ILLDLLRVISHHRAR 405 (699)
Q Consensus 391 I~~~Il~~~~e~GIe 405 (699)
+=.+|.+.-++|||.
T Consensus 291 ~A~~Ir~iA~e~~VP 305 (356)
T PRK06298 291 RAKRIIAEAEKYGVP 305 (356)
T ss_pred HHHHHHHHHHHcCCC
Confidence 334455555555554
No 144
>TIGR00870 trp transient-receptor-potential calcium channel protein. after chronic exposure to capsaicin. (McCleskey and Gold, 1999).
Probab=20.18 E-value=8.5e+02 Score=29.52 Aligned_cols=16 Identities=6% Similarity=-0.033 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHHHHH
Q 005375 220 KWLTAGGLGTVLLTLA 235 (699)
Q Consensus 220 ~lla~lGi~glalgfA 235 (699)
.++....++-+++|.|
T Consensus 510 ~F~~i~~v~l~aF~~~ 525 (743)
T TIGR00870 510 RFLFIYAVVLFGFACG 525 (743)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333444444444443
No 145
>COG4317 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.15 E-value=3e+02 Score=24.72 Aligned_cols=43 Identities=9% Similarity=-0.038 Sum_probs=31.7
Q ss_pred HHHHHHHHHHhCCchHHHHHHHHHHHHHHHHHhhHHHHHHHhh
Q 005375 204 VASASLFMELLGFSTQKWLTAGGLGTVLLTLAGREIFTNFLSS 246 (699)
Q Consensus 204 via~iiiL~~lGv~i~~lla~lGi~glalgfA~qd~l~Ni~aG 246 (699)
+++++..|-.+-.+.-..++..|++|+.+|--.-.....+++|
T Consensus 13 lVGiiyaLl~vrsPAPP~iAlvGllGilvGeq~~p~~~~ll~g 55 (93)
T COG4317 13 LVGIIYALLKVRSPAPPAIALVGLLGILVGEQIVPWAKRLLGG 55 (93)
T ss_pred HHHHHHHHHhCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 3444444445555566788899999999998888888888877
No 146
>KOG3609 consensus Receptor-activated Ca2+-permeable cation channels (STRPC family) [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=20.12 E-value=1.8e+03 Score=27.79 Aligned_cols=30 Identities=7% Similarity=-0.004 Sum_probs=14.5
Q ss_pred ccccchhhHHHHHHHHHHHHHHHHHHHHHH
Q 005375 101 NSWKKSKTHHVMTSYIQPLMLWTGAILICR 130 (699)
Q Consensus 101 ~~~~~~~~~~il~sl~~Pl~l~l~~i~i~~ 130 (699)
..|+......+-..+.....++-++=++++
T Consensus 454 ~~W~~~dp~ll~E~lfAiA~V~S~lrl~~i 483 (822)
T KOG3609|consen 454 MHWPSFDPSLLAEGLFAIANVLSFLKLFYI 483 (822)
T ss_pred hhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567665555555544444444444433433
No 147
>PRK03557 zinc transporter ZitB; Provisional
Probab=20.10 E-value=1.1e+03 Score=25.46 Aligned_cols=13 Identities=8% Similarity=0.350 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHhC
Q 005375 332 SIVADMRKVLAKN 344 (699)
Q Consensus 332 ~i~~~I~e~L~s~ 344 (699)
++.+++++.+++.
T Consensus 267 ~i~~~i~~~l~~~ 279 (312)
T PRK03557 267 ALLDRIQDYLMHH 279 (312)
T ss_pred HHHHHHHHHHHHh
Confidence 3444566666543
No 148
>PF01941 AdoMet_Synthase: S-adenosylmethionine synthetase (AdoMet synthetase); InterPro: IPR002795 A highly diverged class of S-adenosylmethionine synthetases have been identified in the archaea. S-adenosylmethionine is the primary alkylating agent in all known organisms. ATP:L-methionine S-adenosyltransferase (MAT) catalyses the only known biosynthetic route to this central metabolite. Although the amino acid sequence of MAT is strongly conserved among bacteria and eukarya (see IPR002133 from INTERPRO) no homologues had been recognised in the completed genome sequences of any archaea. The identification of a second major class of MAT emphasises the long evolutionary history of the archaeal lineage and the structural diversity found even in crucial metabolic enzymes []. Three bacterial genomes encode both the archaeal and eukaryotic/bacterial types of MAT [].; GO: 0004478 methionine adenosyltransferase activity, 0005524 ATP binding, 0006730 one-carbon metabolic process
Probab=20.01 E-value=3.7e+02 Score=30.64 Aligned_cols=80 Identities=14% Similarity=0.230 Sum_probs=57.8
Q ss_pred EEEEEeccCCHHHHHHHHHHHHHHHHhC------CCccccccceEEEEEeeCCCCceEEEEEEEEEec---CChhhHHHH
Q 005375 317 KTHLAISHLDVHKINSIVADMRKVLAKN------PQVEQQRLHRRVFLDNINPENQALLILVSCFVKT---SHHEEYLCV 387 (699)
Q Consensus 317 ~i~l~I~ytd~ekv~~i~~~I~e~L~s~------p~v~~~~~~p~V~v~~~~~~~~sl~i~V~~~v~~---~d~~~~~~v 387 (699)
...+++.|.+....++++-.+.++|.+. |.+-.| +-+.++.. +..+.+.|-|-.-+ .+.++|+..
T Consensus 156 DTS~gVGyAPlS~~E~~Vl~~Er~lns~~fk~~~p~~GeD-----iKVMG~R~-g~~i~LTvA~a~v~r~v~~~~~Y~~~ 229 (396)
T PF01941_consen 156 DTSFGVGYAPLSETEKLVLETERYLNSPEFKKKFPEVGED-----IKVMGLRE-GDKITLTVAMAFVDRYVSSLDEYFER 229 (396)
T ss_pred CccceeccCCccHHHHHHHHHHHHhccccccccCCCcCCC-----eEEEEEEe-CCEEEEEEEhhhhhhhcCCHHHHHHH
Confidence 4678999988888888888888988774 333322 44555543 24666666654443 367889999
Q ss_pred HHHHHHHHHHHHHHC
Q 005375 388 KEAILLDLLRVISHH 402 (699)
Q Consensus 388 r~~I~~~Il~~~~e~ 402 (699)
++++...+.+...+.
T Consensus 230 k~~v~~~v~~~a~~~ 244 (396)
T PF01941_consen 230 KEEVKEEVEDYAAKY 244 (396)
T ss_pred HHHHHHHHHHHHHHh
Confidence 999999999988876
No 149
>cd03441 R_hydratase_like (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel beta-sheet wrapped around a central alpha helix, referred to as a hot dog fold. The active site lies within a substrate-binding tunnel formed by the homodimer. Other enzymes with this fold include MaoC dehydratase, Hydratase-Dehydrogenase-Epimerase protein (HDE), and the fatty acid synthase beta subunit.
Probab=20.01 E-value=2.4e+02 Score=25.17 Aligned_cols=19 Identities=11% Similarity=0.176 Sum_probs=15.7
Q ss_pred hhhhhhccCCccCCcEEEE
Q 005375 245 SSAMIHATRPFVLNEWIQT 263 (699)
Q Consensus 245 aGi~I~~~rPfrIGD~I~I 263 (699)
+..-+-+.+|+.+||.|++
T Consensus 71 ~~~~~~f~~Pv~~Gd~l~~ 89 (127)
T cd03441 71 GSQSVRFLAPVFPGDTLRV 89 (127)
T ss_pred EEeEEEEeCCcCCCCEEEE
Confidence 3455778999999999997
No 150
>COG0733 Na+-dependent transporters of the SNF family [General function prediction only]
Probab=20.01 E-value=1.4e+03 Score=26.55 Aligned_cols=43 Identities=16% Similarity=0.205 Sum_probs=21.5
Q ss_pred ccchhHHHHhhcCChH-----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005375 51 RSNRIRSYNALQCSPQ-----ALKLVPGIAIIVFATWGLGPLMRQSRN 93 (699)
Q Consensus 51 r~~~p~l~~~l~~~pl-----~l~lL~al~illl~~~~l~~llr~i~~ 93 (699)
|++.+..|..+.+... ++..+....++.+-..+.+|.++.+..
T Consensus 70 ~~~~~~a~~~l~~~~~~~~~G~~gv~~~~~i~sfYsvI~GWil~Y~~~ 117 (439)
T COG0733 70 RKNAVGAFRKLAPKKKWEWIGWFGVLGGFLILSFYSVIGGWILSYLVK 117 (439)
T ss_pred CCChhHHHHHhccCccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455666666665222 123344444444444456676665544
Done!