Query 024000
Match_columns 274
No_of_seqs 123 out of 643
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 08:12:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024000.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024000hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2719 Metalloprotease [Gener 100.0 1.5E-62 3.2E-67 462.0 29.3 263 3-270 6-270 (428)
2 PRK03001 M48 family peptidase; 99.8 5.2E-19 1.1E-23 162.2 14.2 115 151-273 2-120 (283)
3 PRK03982 heat shock protein Ht 99.7 3.8E-17 8.2E-22 150.2 13.5 116 150-273 2-121 (288)
4 PRK01265 heat shock protein Ht 99.5 2E-13 4.3E-18 127.3 15.2 83 187-273 49-136 (324)
5 PRK04897 heat shock protein Ht 99.3 9.2E-11 2E-15 108.6 14.5 79 191-273 51-133 (298)
6 PRK01345 heat shock protein Ht 99.2 1.5E-10 3.3E-15 108.0 14.6 86 184-273 32-120 (317)
7 PRK02391 heat shock protein Ht 99.2 2.2E-10 4.7E-15 106.0 14.8 85 185-273 42-129 (296)
8 PRK02870 heat shock protein Ht 99.1 3.5E-09 7.7E-14 99.4 14.9 61 209-273 107-169 (336)
9 PRK03072 heat shock protein Ht 99.0 5.3E-09 1.2E-13 96.4 13.1 87 183-273 34-123 (288)
10 PF01435 Peptidase_M48: Peptid 99.0 1.2E-10 2.7E-15 101.8 1.9 81 189-273 3-85 (226)
11 PRK05457 heat shock protein Ht 98.9 4.2E-08 9.2E-13 90.3 13.8 77 192-273 47-130 (284)
12 COG0501 HtpX Zn-dependent prot 96.7 0.015 3.2E-07 53.1 10.0 54 216-273 98-153 (302)
13 TIGR00782 ccoP cytochrome c ox 83.4 1.8 3.9E-05 39.8 4.7 49 178-228 26-79 (285)
14 KOG2290 Rhomboid family protei 76.6 8.7 0.00019 37.9 6.9 47 65-129 543-589 (652)
15 PF14715 FixP_N: N-terminal do 76.5 3.6 7.9E-05 28.2 3.2 26 178-203 20-45 (51)
16 PF05569 Peptidase_M56: BlaR1 74.7 21 0.00046 32.6 8.9 61 207-272 131-191 (299)
17 PRK10699 phosphatidylglyceroph 74.5 21 0.00046 32.3 8.6 52 161-213 54-105 (244)
18 smart00361 RRM_1 RNA recogniti 73.1 6.8 0.00015 27.8 4.2 38 215-253 1-42 (70)
19 PRK05320 rhodanese superfamily 67.4 6.7 0.00014 35.6 3.8 48 207-262 7-55 (257)
20 PF15061 DUF4538: Domain of un 65.6 5.5 0.00012 28.0 2.2 46 184-237 7-52 (58)
21 PF03820 Mtc: Tricarboxylate c 63.9 34 0.00073 32.1 7.7 56 183-239 249-304 (308)
22 PRK01415 hypothetical protein; 63.1 9.3 0.0002 34.6 3.8 44 207-256 9-53 (247)
23 COG2274 SunT ABC-type bacterio 56.6 1.5E+02 0.0033 31.0 11.8 61 113-175 229-289 (709)
24 COG3402 Uncharacterized conser 54.1 68 0.0015 27.2 7.1 59 158-216 25-84 (161)
25 COG3125 CyoD Heme/copper-type 53.8 81 0.0018 25.1 7.2 48 153-200 17-66 (111)
26 smart00793 AgrB Accessory gene 53.6 72 0.0016 27.3 7.6 24 204-227 118-141 (184)
27 TIGR03513 GldL_gliding gliding 52.7 42 0.00091 29.6 5.9 46 154-199 4-49 (202)
28 PRK12768 CysZ-like protein; Re 52.3 1E+02 0.0022 27.7 8.6 34 148-181 17-50 (240)
29 PF14026 DUF4242: Protein of u 51.3 15 0.00032 27.1 2.5 25 216-240 53-77 (77)
30 PF11677 DUF3273: Protein of u 50.2 2.1E+02 0.0045 26.3 11.9 36 192-227 220-256 (265)
31 PRK01100 putative accessory ge 50.0 1.8E+02 0.0038 25.5 9.9 24 204-227 130-153 (210)
32 PF06836 DUF1240: Protein of u 49.2 5.6 0.00012 30.8 0.0 27 110-136 44-70 (95)
33 PF12651 RHH_3: Ribbon-helix-h 49.0 8.5 0.00018 25.3 0.8 22 216-237 10-31 (44)
34 TIGR02908 CoxD_Bacillus cytoch 48.7 1.1E+02 0.0024 24.3 7.2 48 153-200 25-74 (110)
35 PF04647 AgrB: Accessory gene 46.6 1.1E+02 0.0023 25.8 7.5 22 203-224 117-138 (185)
36 PF15061 DUF4538: Domain of un 46.3 16 0.00035 25.7 1.9 25 37-61 24-48 (58)
37 PF06649 DUF1161: Protein of u 46.2 68 0.0015 22.1 4.9 46 217-263 2-49 (52)
38 PRK10582 cytochrome o ubiquino 45.8 1.3E+02 0.0028 23.9 7.3 46 155-200 17-64 (109)
39 PF04138 GtrA: GtrA-like prote 44.8 1.4E+02 0.003 22.7 7.6 44 131-175 43-86 (117)
40 PF06105 Aph-1: Aph-1 protein; 43.9 1.5E+02 0.0033 26.8 8.3 14 245-258 102-115 (238)
41 PF11694 DUF3290: Protein of u 43.5 1.9E+02 0.0042 24.1 9.7 84 150-241 15-103 (149)
42 TIGR02901 QoxD cytochrome aa3 41.7 1.3E+02 0.0029 23.1 6.6 51 148-200 5-55 (94)
43 TIGR02847 CyoD cytochrome o ub 41.6 1.6E+02 0.0035 22.7 7.2 48 153-200 4-53 (96)
44 PRK00142 putative rhodanese-re 41.6 32 0.00069 32.2 3.8 44 207-256 8-52 (314)
45 COG1054 Predicted sulfurtransf 41.2 30 0.00065 32.3 3.4 44 207-256 9-53 (308)
46 PF15048 OSTbeta: Organic solu 40.5 55 0.0012 26.6 4.4 62 3-67 33-95 (125)
47 COG4512 AgrB Membrane protein 38.4 1.1E+02 0.0024 26.5 6.1 53 170-228 95-147 (198)
48 PF15656 Tox-HDC: Toxin with a 38.1 57 0.0012 26.3 4.2 48 208-255 3-50 (119)
49 PF00356 LacI: Bacterial regul 38.1 25 0.00055 23.3 1.8 27 207-234 19-45 (46)
50 PF01402 RHH_1: Ribbon-helix-h 36.5 12 0.00025 23.3 0.0 21 216-236 7-27 (39)
51 PRK13109 flhB flagellar biosyn 35.1 4.1E+02 0.0089 25.4 10.5 26 216-241 239-271 (358)
52 COG1176 PotB ABC-type spermidi 34.0 3E+02 0.0066 25.5 8.9 30 103-132 66-95 (287)
53 PHA02902 putative IMV membrane 33.8 1.2E+02 0.0026 21.9 4.7 43 8-50 7-60 (70)
54 PF06645 SPC12: Microsomal sig 33.4 76 0.0017 23.3 3.9 30 179-210 32-61 (76)
55 TIGR00328 flhB flagellar biosy 33.3 4.3E+02 0.0094 25.1 10.9 47 216-263 230-283 (347)
56 PF04120 Iron_permease: Low af 32.9 93 0.002 25.5 4.7 39 162-200 22-60 (132)
57 PF00035 dsrm: Double-stranded 32.9 46 0.001 22.6 2.6 25 220-244 2-26 (67)
58 PRK15021 microcin C ABC transp 32.1 2.7E+02 0.0059 26.4 8.4 64 106-182 141-204 (341)
59 PF15179 Myc_target_1: Myc tar 29.7 85 0.0018 27.3 4.1 30 145-174 13-43 (197)
60 PF11391 DUF2798: Protein of u 28.9 2E+02 0.0043 19.9 5.4 34 138-175 20-53 (60)
61 TIGR00798 mtc tricarboxylate c 28.4 1.9E+02 0.0041 27.4 6.5 56 182-238 258-313 (318)
62 TIGR02976 phageshock_pspB phag 28.4 2.3E+02 0.005 20.9 5.8 44 10-62 11-54 (75)
63 PF14147 Spore_YhaL: Sporulati 28.0 69 0.0015 22.0 2.6 18 181-198 3-20 (52)
64 PF10256 Erf4: Golgin subfamil 27.4 1.6E+02 0.0036 22.9 5.3 21 34-54 20-40 (118)
65 TIGR01404 FlhB_rel_III type II 26.9 5.5E+02 0.012 24.3 10.1 26 216-241 229-261 (342)
66 PF09973 DUF2208: Predicted me 26.6 4.8E+02 0.01 23.5 10.4 25 5-29 25-49 (233)
67 COG1377 FlhB Flagellar biosynt 26.6 5.9E+02 0.013 24.5 10.5 102 140-241 138-269 (363)
68 PF06170 DUF983: Protein of un 26.3 2.9E+02 0.0062 20.8 7.0 46 156-201 29-74 (86)
69 cd02646 R3H_G-patch R3H domain 26.3 1.4E+02 0.0031 20.4 4.2 25 210-235 20-44 (58)
70 cd02325 R3H R3H domain. The na 26.1 1.8E+02 0.004 18.7 4.7 21 210-231 21-41 (59)
71 COG2257 Uncharacterized homolo 26.0 65 0.0014 24.8 2.5 20 216-235 30-49 (92)
72 COG3216 Uncharacterized protei 25.8 2.3E+02 0.0049 24.6 6.0 70 105-174 76-160 (184)
73 PF12725 DUF3810: Protein of u 25.7 3.3E+02 0.0072 25.5 7.8 35 196-230 73-111 (318)
74 PF02687 FtsX: FtsX-like perme 25.6 2.8E+02 0.006 20.5 10.4 45 132-176 30-75 (121)
75 KOG2765 Predicted membrane pro 25.4 6.4E+02 0.014 24.6 10.7 93 104-196 275-387 (416)
76 PF06181 DUF989: Protein of un 25.4 1.9E+02 0.0041 27.0 5.9 81 111-201 220-300 (300)
77 TIGR03434 ADOP Acidobacterial 25.1 6.3E+02 0.014 26.1 10.5 101 105-205 277-390 (803)
78 PF13239 2TM: 2TM domain 24.9 2.8E+02 0.006 20.2 6.7 9 221-229 75-83 (83)
79 PF09753 Use1: Membrane fusion 24.7 88 0.0019 28.1 3.6 19 181-199 228-246 (251)
80 COG3965 Predicted Co/Zn/Cd cat 24.5 3.6E+02 0.0079 25.0 7.4 96 139-241 147-257 (314)
81 PRK05702 flhB flagellar biosyn 24.2 6.4E+02 0.014 24.1 10.8 26 216-241 237-269 (359)
82 COG2270 Permeases of the major 24.1 3.8E+02 0.0082 26.5 8.0 31 110-141 288-318 (438)
83 PF10642 Tom5: Mitochondrial i 24.0 2.4E+02 0.0052 19.1 5.1 39 43-91 8-46 (49)
84 PF00535 Glycos_transf_2: Glyc 24.0 64 0.0014 24.9 2.3 36 203-244 2-37 (169)
85 KOG0989 Replication factor C, 23.8 67 0.0014 30.4 2.7 34 203-236 172-210 (346)
86 PRK00523 hypothetical protein; 23.7 2.8E+02 0.0062 20.4 5.4 29 9-37 11-39 (72)
87 PF06667 PspB: Phage shock pro 23.5 2.2E+02 0.0047 21.0 4.8 42 188-230 6-51 (75)
88 PF11337 DUF3139: Protein of u 23.2 1.1E+02 0.0025 22.6 3.4 43 207-250 24-66 (85)
89 PF03186 CobD_Cbib: CobD/Cbib 22.7 2.5E+02 0.0055 25.8 6.3 28 150-177 44-71 (295)
90 TIGR01654 bact_immun_7tm bacte 22.5 5.1E+02 0.011 26.8 9.1 48 125-172 188-236 (679)
91 PF15599 Imm38: Immunity prote 22.5 1.2E+02 0.0027 24.2 3.7 24 217-240 1-24 (124)
92 PF14671 DSPn: Dual specificit 22.3 25 0.00055 29.2 -0.4 49 205-253 35-86 (141)
93 cd06007 R3H_DEXH_helicase R3H 22.2 1.9E+02 0.0042 20.1 4.2 38 210-265 20-58 (59)
94 PF07747 MTH865: MTH865-like f 22.1 66 0.0014 23.8 1.8 20 217-236 1-20 (75)
95 cd03390 PAP2_containing_1_like 22.0 4.9E+02 0.011 22.0 8.1 34 181-214 42-75 (193)
96 TIGR00789 flhB_rel flhB C-term 21.9 69 0.0015 24.0 2.0 19 216-234 25-43 (82)
97 PF09851 SHOCT: Short C-termin 21.9 78 0.0017 19.0 1.9 14 41-54 14-27 (31)
98 TIGR03107 glu_aminopep glutamy 21.8 71 0.0015 30.4 2.5 43 211-257 259-302 (350)
99 COG3305 Predicted membrane pro 21.7 4.6E+02 0.01 21.6 8.0 29 105-133 89-117 (152)
100 PF01863 DUF45: Protein of unk 21.7 1.4E+02 0.0029 25.3 4.1 46 216-269 111-157 (205)
101 PF07862 Nif11: Nitrogen fixat 21.5 1E+02 0.0022 20.2 2.6 21 215-235 15-44 (49)
102 PF13721 SecD-TM1: SecD export 21.4 3.6E+02 0.0077 20.8 6.0 21 221-241 49-69 (101)
103 PTZ00450 macrophage migration 21.4 89 0.0019 24.7 2.6 34 209-242 67-101 (113)
104 PRK09509 fieF ferrous iron eff 21.3 6.3E+02 0.014 23.0 15.8 25 215-239 210-236 (299)
105 COG3641 PfoR Predicted membran 21.3 6.2E+02 0.013 24.1 8.4 41 140-180 3-43 (348)
106 PRK01844 hypothetical protein; 21.3 3.3E+02 0.0072 20.0 5.3 28 10-37 11-38 (72)
107 PF04505 Dispanin: Interferon- 21.2 57 0.0012 24.3 1.4 30 45-74 49-78 (82)
108 PLN03025 replication factor C 20.4 81 0.0018 29.1 2.6 28 209-236 153-180 (319)
109 COG5438 Predicted multitransme 20.2 4.7E+02 0.01 25.3 7.6 53 110-177 180-232 (385)
110 PF05182 Fip1: Fip1 motif; In 20.2 58 0.0013 21.7 1.1 18 137-154 25-42 (45)
111 PF15050 SCIMP: SCIMP protein 20.0 1.6E+02 0.0034 24.0 3.7 33 176-208 3-35 (133)
No 1
>KOG2719 consensus Metalloprotease [General function prediction only]
Probab=100.00 E-value=1.5e-62 Score=462.03 Aligned_cols=263 Identities=52% Similarity=0.870 Sum_probs=254.9
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHhhhcCC-CCChhhcccCCHHHHHHHHHHhhhhhhHHhHHHHHHH-HHHHHHHHh
Q 024000 3 FPYMEAVVGFMILMYFFETYLDLRQHAALKLP-KLPKTLEGVISQEKFEKSRGYSLDKSHFHFVHEFVTI-LMDSAILLF 80 (274)
Q Consensus 3 ~~~~~~~~~~~~~~~l~e~yL~~rq~~~~~~~-~vP~~l~~~~~~e~~~ka~~Y~~~k~~~~~~~~~~~~-~~~~~~l~~ 80 (274)
.+|+.+++++++..+.||+|++.||.++++++ .+|+++++.+|+|+++|||+|+++|..++.++...+. ...+..+++
T Consensus 6 ~~~~~~i~~f~i~~~~~~~yl~~Rq~~~~~~~~~~p~el~~~~~~et~~kar~y~~~k~~f~i~~~~~~~~~~~l~~L~~ 85 (428)
T KOG2719|consen 6 MCRKSIILFFSIFLYLFETYLTERQLKVLKRTKLVPKELGGIIDQETFKKARSYERDKSIFSIFNLLLSLVLLLLLELYL 85 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCchHhhcCCCHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36899999999999999999999999999887 4999999999999999999999999999999999999 899999999
Q ss_pred chHHHHHhhhhhHHHHhccCCccchhHHHHHHHHHHHHHHhcccchhhhhhheeeccCCCCCCCHHHHHHHHHHHHHHHH
Q 024000 81 RILPWFWKKSGNFLVLVGLDAENEILHTLSFLAGVMLWSQLTDLPFSLYSTFVIEARHGFNKQTIWLFFRDMIKGMILAI 160 (274)
Q Consensus 81 g~~~~lw~~~~~~~~~~~~~~~~~~~~~~~f~~~~~l~~~li~LPf~~Y~~f~le~kyGfn~~t~~~f~~D~~k~~~l~~ 160 (274)
|.+|++|+.+++...+ .++++++++|+.+++.+++++++|+++|++|++|+|||+|+||.+.|+.|.+|+.++++
T Consensus 86 g~~~~lw~lt~~~~~~-----~~~~~~s~vF~~~~s~~~~l~~LP~~iys~fvie~~~gfnk~t~~~~~~d~lk~~~v~~ 160 (428)
T KOG2719|consen 86 GALPFLWKLTGKFLGK-----AGEIWLSLVFLLLLSIYSTLLDLPSSIYSTFVLEEKHGFNKQTLSLFIIDGLKSLLVGV 160 (428)
T ss_pred hHHHHHHHHHHHHhhh-----hhhhhhhhHHHHHHHHHHHHHhccHHHHHHHHHHhhcCCCcCcchhHHHHHHHHHHHHH
Confidence 9999999999887655 34899999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHcCchhHHHHHHHHHHHHHHHHHHHHHHhhhhcccCccCCChhHHHHHHHHHHhcCCCCCceEEE
Q 024000 161 VLGPPIVSAIIIIVQKGGPYLAIYLWAFMFVLSLVMMTLYPVLIAPLFNKFTPLPEGELREKIEKLASSLKFPLKKLFVV 240 (274)
Q Consensus 161 vl~~~l~~~~~~i~~~~g~~wwl~~w~~~~~~~~~~~~l~P~~i~PLFnkf~PL~dg~L~~~I~~La~~~gf~~~~v~v~ 240 (274)
+++.|+++++.+++.++|+++.+|+|++.++++++++.++|.+|+|+|||++|||||+||++||+||++.|||.++++|+
T Consensus 161 ~l~~Pi~~~iv~i~~~~g~yF~i~~w~f~~v~~l~l~ti~p~~i~P~f~K~~PLe~g~l~~~Ie~la~s~gfp~~k~~vi 240 (428)
T KOG2719|consen 161 VLTIPIVAAIVMILKKFGPYFFIYLWLFYFVLSLLLLTIYPGFIAPLFGKFTPLEEGDLKEKIERLADSVGFPLSKYRVI 240 (428)
T ss_pred HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCCCCCchHHHHHHHHHhcCCCceEEEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eCCCCCCCcceeeeCCCCCceEeeehhhhh
Q 024000 241 DGSTRSSHSNAYMYGFFKNKRIVLYDTLIQ 270 (274)
Q Consensus 241 d~S~rs~~sNAyf~G~g~~kRIVL~DTLl~ 270 (274)
|||||++||||||+|+|++|||||||||+.
T Consensus 241 ~~s~rs~hsNAyfyG~~~~KRIvIyDtLl~ 270 (428)
T KOG2719|consen 241 DGSKRSSHSNAYFYGLCKNKRIVIYDTLLL 270 (428)
T ss_pred ecCCCCCCCCeeeeeccccceEEEehhhhh
Confidence 999999999999999999999999999993
No 2
>PRK03001 M48 family peptidase; Provisional
Probab=99.80 E-value=5.2e-19 Score=162.22 Aligned_cols=115 Identities=12% Similarity=0.249 Sum_probs=105.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHHHHHHHHHHHHHHHHHHHHHHhhhhcccCccCCCh---hHHHHHHHHH
Q 024000 151 DMIKGMILAIVLGPPIVSAIIIIVQKGGPYLAIYLWAFMFVLSLVMMTLYPVLIAPLFNKFTPLPEG---ELREKIEKLA 227 (274)
Q Consensus 151 D~~k~~~l~~vl~~~l~~~~~~i~~~~g~~wwl~~w~~~~~~~~~~~~l~P~~i~PLFnkf~PL~dg---~L~~~I~~La 227 (274)
|.+|+.++..+++++++.+.+++. |..+|+++|++.+++++++.+++|.++.|+||+ +|++|+ +|++.++++|
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~-~~l~~~~~p~L~~~v~~la 77 (283)
T PRK03001 2 NWVKTAMLMAAITALFIVIGGMIG---GSQGMLIALLFALGMNFFSYWFSDKMVLKMYNA-QEVDENTAPQFYRMVRELA 77 (283)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHh---chhhHHHHHHHHHHHHHHHHHHhHHHHHHHcCC-EECCccccHHHHHHHHHHH
Confidence 789999999999999999988886 466699999999999999999999999999999 889884 8999999999
Q ss_pred HhcCCCCCceEEEeCCCCCCCcceeeeCCCCCc-eEeeehhhhhhcC
Q 024000 228 SSLKFPLKKLFVVDGSTRSSHSNAYMYGFFKNK-RIVLYDTLIQQVK 273 (274)
Q Consensus 228 ~~~gf~~~~v~v~d~S~rs~~sNAyf~G~g~~k-RIVL~DTLl~~~~ 273 (274)
+++|+|..+||++|+ ++.|||++|.+++| |||++|+|+++++
T Consensus 78 ~~~g~~~p~v~v~~~----~~~NAfa~G~~~~~~~Ivvt~gLl~~l~ 120 (283)
T PRK03001 78 QRAGLPMPKVYLINE----DQPNAFATGRNPEHAAVAATTGILRVLS 120 (283)
T ss_pred HHcCCCCCeEEEecC----CCcceEEecCCCCCeEEEecHHHHhhCC
Confidence 999999999999995 58999999999865 7999999999764
No 3
>PRK03982 heat shock protein HtpX; Provisional
Probab=99.73 E-value=3.8e-17 Score=150.25 Aligned_cols=116 Identities=17% Similarity=0.203 Sum_probs=100.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHHHHHHHHHHHHHHHHHHHHHHhhhhcccCccCC---ChhHHHHHHHH
Q 024000 150 RDMIKGMILAIVLGPPIVSAIIIIVQKGGPYLAIYLWAFMFVLSLVMMTLYPVLIAPLFNKFTPLP---EGELREKIEKL 226 (274)
Q Consensus 150 ~D~~k~~~l~~vl~~~l~~~~~~i~~~~g~~wwl~~w~~~~~~~~~~~~l~P~~i~PLFnkf~PL~---dg~L~~~I~~L 226 (274)
.|.+|+.++..+++++++++.+. ..|..||++++++.+++.++ ++++|..|.|.+++++|++ +++|+++++++
T Consensus 2 ~~~~~~~~l~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~~~~~~~~~l~~~~~p~L~~~v~~l 77 (288)
T PRK03982 2 MNQLKTGLLMALLTGLLYAIGYL---LGGSIGPIIAILLALIPNLI-SYYYSDKIVLASYNARIVSEEEAPELYRIVERL 77 (288)
T ss_pred chHHHHHHHHHHHHHHHHHHHHH---HhchhHHHHHHHHHHHHHHH-HHHHhHHHHHHhcCCEECChhhhHHHHHHHHHH
Confidence 58899999998888887777663 34788999999998888777 8999999999999999994 56699999999
Q ss_pred HHhcCCCCCceEEEeCCCCCCCcceeeeCCCCCce-EeeehhhhhhcC
Q 024000 227 ASSLKFPLKKLFVVDGSTRSSHSNAYMYGFFKNKR-IVLYDTLIQQVK 273 (274)
Q Consensus 227 a~~~gf~~~~v~v~d~S~rs~~sNAyf~G~g~~kR-IVL~DTLl~~~~ 273 (274)
|+++|+|..+||++|+ ++.|||++|.+++|+ |+++|+|+++++
T Consensus 78 a~~~g~~~p~v~v~~~----~~~NAfa~G~~~~~~~V~vt~gLl~~l~ 121 (288)
T PRK03982 78 AERANIPKPKVAIVPT----QTPNAFATGRDPKHAVVAVTEGILNLLN 121 (288)
T ss_pred HHHcCCCCCeEEEEeC----CCcceEEeccCCCCeEEEeehHHHhhCC
Confidence 9999999999999994 478999999998665 569999998764
No 4
>PRK01265 heat shock protein HtpX; Provisional
Probab=99.53 E-value=2e-13 Score=127.29 Aligned_cols=83 Identities=24% Similarity=0.414 Sum_probs=74.5
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcc--cCccCC--ChhHHHHHHHHHHhcCCCCCceEEEeCCCCCCCcceeeeCCC-CCce
Q 024000 187 AFMFVLSLVMMTLYPVLIAPLFN--KFTPLP--EGELREKIEKLASSLKFPLKKLFVVDGSTRSSHSNAYMYGFF-KNKR 261 (274)
Q Consensus 187 ~~~~~~~~~~~~l~P~~i~PLFn--kf~PL~--dg~L~~~I~~La~~~gf~~~~v~v~d~S~rs~~sNAyf~G~g-~~kR 261 (274)
++.+++.++..+++|.++.|+|| +++|.+ +++|++.++++|+++|+|..+||++|+| +.|||.+|.| ++||
T Consensus 49 ~~~~~~~~~~~~~sp~li~~~~~a~~~~p~~~~~~~L~~~v~~la~~~g~~~p~vyv~~~~----~~NAfa~G~~~~~~~ 124 (324)
T PRK01265 49 IFVFFLNIIQWLFGPYMINAAYRTVEVTPTDPVYGWLYSIVAEVAKYNGIRVPKVYIADVP----FPNAFAYGSPIAGKR 124 (324)
T ss_pred HHHHHHHHHHHHHhHHHHHHHcCCeeCCCCCcccHHHHHHHHHHHHHcCCCCCeEEEecCC----CCCeEEeccCCCCCE
Confidence 34456678889999999999997 999998 7999999999999999999999999965 4999999997 4799
Q ss_pred EeeehhhhhhcC
Q 024000 262 IVLYDTLIQQVK 273 (274)
Q Consensus 262 IVL~DTLl~~~~ 273 (274)
||++|+|+++++
T Consensus 125 Ivvt~gLl~~l~ 136 (324)
T PRK01265 125 IAITLPLLKILN 136 (324)
T ss_pred EEEehHHHhhCC
Confidence 999999999865
No 5
>PRK04897 heat shock protein HtpX; Provisional
Probab=99.27 E-value=9.2e-11 Score=108.56 Aligned_cols=79 Identities=18% Similarity=0.330 Sum_probs=65.0
Q ss_pred HHHHHHHHHHHHHhhhhcccCccC---CChhHHHHHHHHHHhcCCCCCceEEEeCCCCCCCcceeeeCCCCCce-Eeeeh
Q 024000 191 VLSLVMMTLYPVLIAPLFNKFTPL---PEGELREKIEKLASSLKFPLKKLFVVDGSTRSSHSNAYMYGFFKNKR-IVLYD 266 (274)
Q Consensus 191 ~~~~~~~~l~P~~i~PLFnkf~PL---~dg~L~~~I~~La~~~gf~~~~v~v~d~S~rs~~sNAyf~G~g~~kR-IVL~D 266 (274)
+...+.++.++.-+..-+++.+|+ ++++|++.|+++|+++|+|..+||++|+ ++.|||.+|.+++|+ |++.|
T Consensus 51 ~~~~~~~~~~~~~~~~~~~~a~~v~~~~~p~L~~~v~~la~~~gip~p~v~v~~~----~~~NAfa~G~~~~~~~v~vt~ 126 (298)
T PRK04897 51 VIYALIMIFQSTNVVMSMNHAREVTEEEAPELWHIVEDMAMVAQIPMPRVFIIDD----PSPNAFATGSSPKNAAVAVTT 126 (298)
T ss_pred HHHHHHHHHhhHHHHHHhCCCEECChhhhHHHHHHHHHHHHHcCCCCCcEEEecC----CCCceEEeccCCCCcEEEeeh
Confidence 334455666666777789999999 5678999999999999999999999994 469999999998776 56666
Q ss_pred hhhhhcC
Q 024000 267 TLIQQVK 273 (274)
Q Consensus 267 TLl~~~~ 273 (274)
+|+++++
T Consensus 127 gLl~~l~ 133 (298)
T PRK04897 127 GLLAIMN 133 (298)
T ss_pred HHHhhCC
Confidence 7988764
No 6
>PRK01345 heat shock protein HtpX; Provisional
Probab=99.25 E-value=1.5e-10 Score=107.97 Aligned_cols=86 Identities=16% Similarity=0.261 Sum_probs=75.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhccc--CccCCChhHHHHHHHHHHhcCCCCCceEEEeCCCCCCCcceeeeCCCC-Cc
Q 024000 184 YLWAFMFVLSLVMMTLYPVLIAPLFNK--FTPLPEGELREKIEKLASSLKFPLKKLFVVDGSTRSSHSNAYMYGFFK-NK 260 (274)
Q Consensus 184 ~~w~~~~~~~~~~~~l~P~~i~PLFnk--f~PL~dg~L~~~I~~La~~~gf~~~~v~v~d~S~rs~~sNAyf~G~g~-~k 260 (274)
...++.+++.++..+..|.++.|.++. .+|.++++|++.++++|+++|+|..+||++| +.+.|||.+|.++ ++
T Consensus 32 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~v~~~~~p~L~~~v~~La~~agi~~p~v~vid----~~~~NAFa~G~~~~~~ 107 (317)
T PRK01345 32 IALVIAAGMNLFSYWNSDKMVLRMYGAQEVDERSAPELYRMVRDLARRAGLPMPKVYIID----NPQPNAFATGRNPENA 107 (317)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHcCCeECCcccCHHHHHHHHHHHHHcCCCCCcEEEEc----CCCcceEEecCCCCCe
Confidence 345566677888889999999999986 8899999999999999999999999999999 4679999999976 56
Q ss_pred eEeeehhhhhhcC
Q 024000 261 RIVLYDTLIQQVK 273 (274)
Q Consensus 261 RIVL~DTLl~~~~ 273 (274)
+|++.|+|+++++
T Consensus 108 ~V~vt~gLL~~L~ 120 (317)
T PRK01345 108 AVAATTGLLQRLS 120 (317)
T ss_pred EEEechHHHhhCC
Confidence 8999999998764
No 7
>PRK02391 heat shock protein HtpX; Provisional
Probab=99.23 E-value=2.2e-10 Score=106.00 Aligned_cols=85 Identities=16% Similarity=0.152 Sum_probs=67.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc--ccCccCCChhHHHHHHHHHHhcCCCCCceEEEeCCCCCCCcceeeeCCCCCceE
Q 024000 185 LWAFMFVLSLVMMTLYPVLIAPLF--NKFTPLPEGELREKIEKLASSLKFPLKKLFVVDGSTRSSHSNAYMYGFFKNKRI 262 (274)
Q Consensus 185 ~w~~~~~~~~~~~~l~P~~i~PLF--nkf~PL~dg~L~~~I~~La~~~gf~~~~v~v~d~S~rs~~sNAyf~G~g~~kRI 262 (274)
+.++.+++.++..+..|.++.-.. .+.+|.|+++|+++++++|+++|+|..+||++| +++.|||.+|.+++|++
T Consensus 42 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~L~~~v~~la~~~~~~~p~v~v~~----~~~~NAfa~G~~~~~~~ 117 (296)
T PRK02391 42 IVVIAGGFLLAQYFFSDKLALWSMGARIVSEDEYPELHAMVERLCALADLPKPRVAVAD----SDVPNAFATGRSPKNAV 117 (296)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHcCCEECChhhCHHHHHHHHHHHHHcCCCCCcEEEEe----CCCCceEEecCCCCCcE
Confidence 344455555556666676665444 477899999999999999999999999999999 57899999999987765
Q ss_pred -eeehhhhhhcC
Q 024000 263 -VLYDTLIQQVK 273 (274)
Q Consensus 263 -VL~DTLl~~~~ 273 (274)
++.|+|++.++
T Consensus 118 V~vt~gLl~~L~ 129 (296)
T PRK02391 118 VCVTTGLMRRLD 129 (296)
T ss_pred EEecHHHHhhCC
Confidence 56699998764
No 8
>PRK02870 heat shock protein HtpX; Provisional
Probab=99.07 E-value=3.5e-09 Score=99.42 Aligned_cols=61 Identities=18% Similarity=0.389 Sum_probs=56.0
Q ss_pred ccCccCCChhHHHHHHHHHHhcCCC-CCceEEEeCCCCCCCcceeeeCCCC-CceEeeehhhhhhcC
Q 024000 209 NKFTPLPEGELREKIEKLASSLKFP-LKKLFVVDGSTRSSHSNAYMYGFFK-NKRIVLYDTLIQQVK 273 (274)
Q Consensus 209 nkf~PL~dg~L~~~I~~La~~~gf~-~~~v~v~d~S~rs~~sNAyf~G~g~-~kRIVL~DTLl~~~~ 273 (274)
|+++|+++++|++.++++++++|+| ..+||++|++ +.|||.+|.++ +++|+++|+|++.++
T Consensus 107 ~~~~p~~~~~L~~~ve~La~~ag~p~~p~V~vi~~~----~~NAFA~G~~~~~~~Ivvt~GLL~~L~ 169 (336)
T PRK02870 107 ENALSLQERQLYNVVEELLVAAGLRFMPKVYIIDAP----YMNAFASGYSEKSAMVAITTGLLEKLD 169 (336)
T ss_pred CCCCchhhHHHHHHHHHHHHHcCCCCCCeEEEEcCC----CCceEEecCCCCCcEEEEehHHhhhCC
Confidence 7899999999999999999999999 7999999954 79999999995 799999999998764
No 9
>PRK03072 heat shock protein HtpX; Provisional
Probab=99.00 E-value=5.3e-09 Score=96.41 Aligned_cols=87 Identities=9% Similarity=0.140 Sum_probs=65.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcc--cCccCCChhHHHHHHHHHHhcCCCCCceEEEeCCCCCCCcceeeeCCCCC-
Q 024000 183 IYLWAFMFVLSLVMMTLYPVLIAPLFN--KFTPLPEGELREKIEKLASSLKFPLKKLFVVDGSTRSSHSNAYMYGFFKN- 259 (274)
Q Consensus 183 l~~w~~~~~~~~~~~~l~P~~i~PLFn--kf~PL~dg~L~~~I~~La~~~gf~~~~v~v~d~S~rs~~sNAyf~G~g~~- 259 (274)
+++.++.+++.++..+..|-.+.-..+ +-+|.||++|++.++++|+++|+|..+||++| +++.|||++|..+.
T Consensus 34 ~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~v~~~~~p~L~~~v~~la~~~g~p~p~vyv~~----~~~~NAFa~G~~~~~ 109 (288)
T PRK03072 34 GIAVLIAVGMNAYVYWNSDKLALRAMHAQPVSEVQAPAMYRIVRELSTAARQPMPRLYISP----TAAPNAFATGRNPRN 109 (288)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHhcCCEECChhhhHHHHHHHHHHHHHcCCCCCCEEEec----CCCCceEEecCCCCC
Confidence 333444555555555555665554443 45788899999999999999999999999999 34799999996443
Q ss_pred ceEeeehhhhhhcC
Q 024000 260 KRIVLYDTLIQQVK 273 (274)
Q Consensus 260 kRIVL~DTLl~~~~ 273 (274)
..|+++|+|++.++
T Consensus 110 ~~v~vt~gLl~~l~ 123 (288)
T PRK03072 110 AAVCCTEGILQILN 123 (288)
T ss_pred cEEEecHHHHHhCC
Confidence 35889999998765
No 10
>PF01435 Peptidase_M48: Peptidase family M48 This is family M48 in the peptidase classification. ; InterPro: IPR001915 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M48 (Ste24 endopeptidase family, clan M-); members of both subfamily are represented. The members of this set of proteins are mostly described as probable protease htpX homologue (3.4.24 from EC) or CAAX prenyl protease 1, which proteolytically removes the C-terminal three residues of farnesylated proteins. They are integral membrane proteins associated with the endoplasmic reticulum and Golgi, binding one zinc ion per subunit. In Saccharomyces cerevisiae (Baker's yeast) Ste24p is required for the first NH2-terminal proteolytic processing event within the a-factor precursor, which takes place after COOH-terminal CAAX modification is complete. The Ste24p contains multiple predicted membrane spans, a zinc metalloprotease motif (HEXXH), and a COOH-terminal ER retrieval signal (KKXX). The HEXXH protease motif is critical for Ste24p activity, since Ste24p fails to function when conserved residues within this motif are mutated. The Ste24p homologues occur in a diverse group of organisms, including Escherichia coli, Schizosaccharomyces pombe (Fission yeast), Haemophilus influenzae, and Homo sapiens (Human), which indicates that the gene is highly conserved throughout evolution. Ste24p and the proteins related to it define a subfamily of proteins that are likely to function as intracellular, membrane-associated zinc metalloproteases []. HtpX is a zinc-dependent endoprotease member of the membrane-localized proteolytic system in E. coli, which participates in the proteolytic quality control of membrane proteins in conjunction with FtsH, a membrane-bound and ATP-dependent protease. Biochemical characterisation revealed that HtpX undergoes self-degradation upon cell disruption or membrane solubilization. It can also degraded casein and cleaves solubilized membrane proteins, for example, SecY []. Expression of HtpX in the plasma membrane is under the control of CpxR, with the metalloproteinase active site of HtpX located on the cytosolic side of the membrane. This suggests a potential role for HtpX in the response to mis-folded proteins [].; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis, 0016020 membrane; PDB: 3CQB_A 3C37_B.
Probab=98.99 E-value=1.2e-10 Score=101.81 Aligned_cols=81 Identities=42% Similarity=0.671 Sum_probs=63.9
Q ss_pred HHHHHHHHHHHHHHHhhhhcccCccCCChhHHHHHHHHHHhc--CCCCCceEEEeCCCCCCCcceeeeCCCCCceEeeeh
Q 024000 189 MFVLSLVMMTLYPVLIAPLFNKFTPLPEGELREKIEKLASSL--KFPLKKLFVVDGSTRSSHSNAYMYGFFKNKRIVLYD 266 (274)
Q Consensus 189 ~~~~~~~~~~l~P~~i~PLFnkf~PL~dg~L~~~I~~La~~~--gf~~~~v~v~d~S~rs~~sNAyf~G~g~~kRIVL~D 266 (274)
.++++.++..++|.+++|++++++|.++++|++.++++++++ |.|..+||++|++. .|||.+|.|+.|+|+++|
T Consensus 3 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~L~~~v~~l~~~~~~~~~~~~v~v~~~~~----~NA~~~g~~~~~~I~v~~ 78 (226)
T PF01435_consen 3 MLVVSLLLAFIGPPLIAPLFNKFTPLEDPELRRIVEELARRAGLGIPPPRVYVIDSPS----PNAFATGGGPRKRIVVTS 78 (226)
T ss_dssp --TTTSTTGHHCCCCHCCHCTC--B-HHHHHHHHHHHHHHHHHCTSS--EEEEE--SS----EEEEEETTTC--EEEEEH
T ss_pred eeeHHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHhcCCCCCCeEEEEcCCC----CcEEEEccCCCcEEEEeC
Confidence 445566778889999999999999999999999999999999 99999999999665 999999999999999999
Q ss_pred hhhhhcC
Q 024000 267 TLIQQVK 273 (274)
Q Consensus 267 TLl~~~~ 273 (274)
.|++.++
T Consensus 79 ~ll~~~~ 85 (226)
T PF01435_consen 79 GLLESLS 85 (226)
T ss_dssp HHHHHSS
T ss_pred hhhhccc
Confidence 9997653
No 11
>PRK05457 heat shock protein HtpX; Provisional
Probab=98.87 E-value=4.2e-08 Score=90.28 Aligned_cols=77 Identities=22% Similarity=0.247 Sum_probs=57.9
Q ss_pred HHHHHHHHHHHHhhhhcccCc----cCCChh--HHHHHHHHHHhcCCCCCceEEEeCCCCCCCcceeeeCCCCCceEeee
Q 024000 192 LSLVMMTLYPVLIAPLFNKFT----PLPEGE--LREKIEKLASSLKFPLKKLFVVDGSTRSSHSNAYMYGFFKNKRIVLY 265 (274)
Q Consensus 192 ~~~~~~~l~P~~i~PLFnkf~----PL~dg~--L~~~I~~La~~~gf~~~~v~v~d~S~rs~~sNAyf~G~g~~kRIVL~ 265 (274)
..++..+..|.++.-.. +-+ |.+++| |++.++++|+++|+|..+||++| +.+.|||++|.+++|++|..
T Consensus 47 ~~~~~~~~~~~i~~~~~-~a~~i~~~~~~~~~~L~~~v~~la~~~g~p~p~v~v~~----~~~~NAfa~G~~~~~~~V~v 121 (284)
T PRK05457 47 GSFISLLMSKWMAKRST-GAEVIEQPRNETERWLVETVARQARQAGIGMPEVAIYH----SPEINAFATGASKNNSLVAV 121 (284)
T ss_pred HHHHHHHHHHHHHHHhc-CCeECCCCCCchHHHHHHHHHHHHHhCCCCCCCEEEEe----CCCceEEEecCCCCCeEEEe
Confidence 33444555555544332 333 444444 99999999999999999999999 46899999999999998888
Q ss_pred hh-hhhhcC
Q 024000 266 DT-LIQQVK 273 (274)
Q Consensus 266 DT-Ll~~~~ 273 (274)
|| |+++++
T Consensus 122 t~gLl~~L~ 130 (284)
T PRK05457 122 STGLLQNMS 130 (284)
T ss_pred ehHHhhhCC
Confidence 88 887664
No 12
>COG0501 HtpX Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]
Probab=96.66 E-value=0.015 Score=53.09 Aligned_cols=54 Identities=24% Similarity=0.420 Sum_probs=47.8
Q ss_pred ChhHHHHHHHHHHhcCCC-CCceEEEeCCCCCCCcceeeeCCC-CCceEeeehhhhhhcC
Q 024000 216 EGELREKIEKLASSLKFP-LKKLFVVDGSTRSSHSNAYMYGFF-KNKRIVLYDTLIQQVK 273 (274)
Q Consensus 216 dg~L~~~I~~La~~~gf~-~~~v~v~d~S~rs~~sNAyf~G~g-~~kRIVL~DTLl~~~~ 273 (274)
+..+..++++++++.|.| .-++++.| +...|||-+|-+ +++|||++|+|+++++
T Consensus 98 ~~~~~~~v~~~a~~~~~~~~~~v~i~~----~~~~NAFa~g~~~~~~~V~vt~gLl~~l~ 153 (302)
T COG0501 98 YAVLLLKVAELARQAGIPHMPEVYILE----TPQPNAFALGGGPKNGRVVVTTGLLDLLN 153 (302)
T ss_pred HHHHHHHHHHHHHHCCCCCCCeeEEec----CCCccceecCCCCCCeeEEecHHHHhhCC
Confidence 345666999999999999 89999999 788999999998 6899999999999764
No 13
>TIGR00782 ccoP cytochrome c oxidase, cbb3-type, subunit III. This model describes a di-heme subunit of approximately 26 kDa of the cbb3 type copper and heme-containing cytochrome oxidase.
Probab=83.39 E-value=1.8 Score=39.76 Aligned_cols=49 Identities=20% Similarity=0.322 Sum_probs=36.6
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHhhhhcccCccC-----CChhHHHHHHHHHH
Q 024000 178 GPYLAIYLWAFMFVLSLVMMTLYPVLIAPLFNKFTPL-----PEGELREKIEKLAS 228 (274)
Q Consensus 178 g~~wwl~~w~~~~~~~~~~~~l~P~~i~PLFnkf~PL-----~dg~L~~~I~~La~ 228 (274)
-+.||+|++.+.++|+++..+.||.. |.++..|+= +.+|+.+++.+..+
T Consensus 26 ~P~ww~~~f~~~i~~~~~y~~~yp~~--~~~~~~~~g~~~~~~~~~~~~~~~~~~~ 79 (285)
T TIGR00782 26 LPRWWLWTFYATIVWGFGYLVAYPAW--PLVSGATKGLLGWSSRSQVEEEIKKFNE 79 (285)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHhccc--CCccccCCCccCcCHHHHHHHHHHHHHH
Confidence 46899999999999999999999977 777555441 34566666655543
No 14
>KOG2290 consensus Rhomboid family proteins [Signal transduction mechanisms]
Probab=76.60 E-value=8.7 Score=37.93 Aligned_cols=47 Identities=17% Similarity=0.314 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHHhchHHHHHhhhhhHHHHhccCCccchhHHHHHHHHHHHHHHhcccchhhh
Q 024000 65 VHEFVTILMDSAILLFRILPWFWKKSGNFLVLVGLDAENEILHTLSFLAGVMLWSQLTDLPFSLY 129 (274)
Q Consensus 65 ~~~~~~~~~~~~~l~~g~~~~lw~~~~~~~~~~~~~~~~~~~~~~~f~~~~~l~~~li~LPf~~Y 129 (274)
+....+++..+++++-|++||++|++- +|-.+++++.+++-+|.--+
T Consensus 543 w~a~~~Lia~~L~L~iGliPWiDN~aH------------------lfG~i~GLl~s~~~~PYi~F 589 (652)
T KOG2290|consen 543 WRAFFHLIATLLVLCIGLIPWIDNWAH------------------LFGTIFGLLTSIIFLPYIDF 589 (652)
T ss_pred HHHHHHHHHHHHHHHhccccchhhHHH------------------HHHHHHHHHHHHHhhccccc
Confidence 456777888888889999999987652 45567778888888884333
No 15
>PF14715 FixP_N: N-terminal domain of cytochrome oxidase-cbb3, FixP
Probab=76.51 E-value=3.6 Score=28.16 Aligned_cols=26 Identities=27% Similarity=0.415 Sum_probs=23.3
Q ss_pred CchhHHHHHHHHHHHHHHHHHHHHHH
Q 024000 178 GPYLAIYLWAFMFVLSLVMMTLYPVL 203 (274)
Q Consensus 178 g~~wwl~~w~~~~~~~~~~~~l~P~~ 203 (274)
-+.||++++...++++++-.+.||.+
T Consensus 20 lP~ww~~~f~~tivfa~~Y~~~yp~~ 45 (51)
T PF14715_consen 20 LPRWWLWLFYGTIVFAVGYLVLYPGL 45 (51)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 46899999999999999999999865
No 16
>PF05569 Peptidase_M56: BlaR1 peptidase M56; InterPro: IPR008756 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M56 (clan M-). The predicted active site residues for members of this family occur in the motif HEXXH. The type example is BlaR1 peptidase from Bacillus licheniformis. Production of beta-Lactamase and penicillin-binding protein 2a (which mediate staphylococcal resistance to beta-lactam antibiotics) is regulated by a signal-transducing integral membrane protein and a transcriptional repressor. The signal transducer is a fusion protein with penicillin-binding and zinc metalloprotease domains. The signal for protein expression is transmitted by site-specific proteolytic cleavage of both the transducer, which auto-activates, and the repressor, which is inactivated, unblocking gene transcription.
Probab=74.68 E-value=21 Score=32.57 Aligned_cols=61 Identities=25% Similarity=0.463 Sum_probs=45.3
Q ss_pred hcccCccCCChhHHHHHHHHHHhcCCCCCceEEEeCCCCCCCcceeeeCCCCCceEeeehhhhhhc
Q 024000 207 LFNKFTPLPEGELREKIEKLASSLKFPLKKLFVVDGSTRSSHSNAYMYGFFKNKRIVLYDTLIQQV 272 (274)
Q Consensus 207 LFnkf~PL~dg~L~~~I~~La~~~gf~~~~v~v~d~S~rs~~sNAyf~G~g~~kRIVL~DTLl~~~ 272 (274)
+..+.+|.+|+++.+.+++..++.|++- ++-+.-.+ .-...+.+|+.+ .+|+|-+.+.+++
T Consensus 131 l~~~~~~~~~~~~~~~l~~~~~~~~~~~-~~~i~~s~---~i~sP~~~G~~~-p~I~lP~~~~~~~ 191 (299)
T PF05569_consen 131 LLRKARPVEDEELQALLEECKEELGIKR-PIRIRVSS---GISSPFVFGFLR-PVIVLPESLLEDL 191 (299)
T ss_pred HHHhccccCcHHHHHHHHHHHHHhCCCC-ceEEEEcC---CCCCCeeecCcc-eEEEecCcccccc
Confidence 5778999999999999999999999554 33333322 334568889965 7899999876543
No 17
>PRK10699 phosphatidylglycerophosphatase B; Provisional
Probab=74.52 E-value=21 Score=32.31 Aligned_cols=52 Identities=12% Similarity=0.112 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHHcCchhHHHHHHHHHHHHHHHHHHHHHHhhhhcccCcc
Q 024000 161 VLGPPIVSAIIIIVQKGGPYLAIYLWAFMFVLSLVMMTLYPVLIAPLFNKFTP 213 (274)
Q Consensus 161 vl~~~l~~~~~~i~~~~g~~wwl~~w~~~~~~~~~~~~l~P~~i~PLFnkf~P 213 (274)
++...++++.+....+.+.++++...+.+ +..++.....-..+-+.|.+-+|
T Consensus 54 ~iT~~~l~~~~~~~~r~~~k~~l~l~~~l-~~~i~~~~~~k~~iK~~~~epRP 105 (244)
T PRK10699 54 ILTHVLLCGWFLWCLRFRLKAALVLFAIL-AAAILVGQGVKSWIKERVQEPRP 105 (244)
T ss_pred HHHHHHHHHHHHHHHHhchhHHHHHHHHH-HHHHHHHHHHHHHHHHhccCCCc
Confidence 44445555555555667777777655443 44444444447899999999999
No 18
>smart00361 RRM_1 RNA recognition motif.
Probab=73.15 E-value=6.8 Score=27.76 Aligned_cols=38 Identities=11% Similarity=0.267 Sum_probs=29.1
Q ss_pred CChhHHHHHHHHHHhcCCCCCceE--EEeCCC--CCCCcceee
Q 024000 215 PEGELREKIEKLASSLKFPLKKLF--VVDGST--RSSHSNAYM 253 (274)
Q Consensus 215 ~dg~L~~~I~~La~~~gf~~~~v~--v~d~S~--rs~~sNAyf 253 (274)
++++|++.+.+.+.+.| ++.+|. ++|... ..++.+||+
T Consensus 1 ~~~~l~~~~~~~~~~fG-~v~~v~~v~~~~~~~~~~~rG~~fV 42 (70)
T smart00361 1 KDEDFEREFSEEEEYFG-EVGKINKIYIDNVGYENHKRGNVYI 42 (70)
T ss_pred CchhHHHHHHHHHHhcC-CeeEEEEEEeCCCCCCCCCcEEEEE
Confidence 46789999999999999 888885 677654 445666665
No 19
>PRK05320 rhodanese superfamily protein; Provisional
Probab=67.44 E-value=6.7 Score=35.65 Aligned_cols=48 Identities=21% Similarity=0.301 Sum_probs=38.7
Q ss_pred hcccCccCCChh-HHHHHHHHHHhcCCCCCceEEEeCCCCCCCcceeeeCCCCCceE
Q 024000 207 LFNKFTPLPEGE-LREKIEKLASSLKFPLKKLFVVDGSTRSSHSNAYMYGFFKNKRI 262 (274)
Q Consensus 207 LFnkf~PL~dg~-L~~~I~~La~~~gf~~~~v~v~d~S~rs~~sNAyf~G~g~~kRI 262 (274)
.|+||+|++|.+ +++++.+++++.|.. .+|++-+ ..-|+-++|- ..||
T Consensus 7 ~~Y~f~~i~~~~~~~~~~~~~~~~~~~~-G~i~ia~-----eGiN~t~~g~--~~~i 55 (257)
T PRK05320 7 AAYKFVSLDDPETLRPLVLARCEALGLK-GTILLAP-----EGINLFLAGT--REAI 55 (257)
T ss_pred EEEceeecCCHHHHHHHHHHHHHHCCCe-EEEEEcC-----CCceEEEEee--HHHH
Confidence 699999999855 999999999999985 7788866 5568888775 3455
No 20
>PF15061 DUF4538: Domain of unknown function (DUF4538)
Probab=65.65 E-value=5.5 Score=28.02 Aligned_cols=46 Identities=22% Similarity=0.362 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcccCccCCChhHHHHHHHHHHhcCCCCCce
Q 024000 184 YLWAFMFVLSLVMMTLYPVLIAPLFNKFTPLPEGELREKIEKLASSLKFPLKKL 237 (274)
Q Consensus 184 ~~w~~~~~~~~~~~~l~P~~i~PLFnkf~PL~dg~L~~~I~~La~~~gf~~~~v 237 (274)
+..++...++++...+||+.+.|+.| .+|=| ++++ -.|+|+.-++|
T Consensus 7 ~~~~~ggfVg~iG~a~Ypi~~~Pmm~------~eeYk-~~Q~-~nR~gI~qedv 52 (58)
T PF15061_consen 7 YALFVGGFVGLIGAALYPIYFRPMMN------PEEYK-KEQK-INRAGIKQEDV 52 (58)
T ss_pred chhhHHHHHHHHHHHHhhhhcccccC------hHHHH-HHHH-HHHhcccHhhc
Confidence 34556667778888999999999886 12222 3333 35666666654
No 21
>PF03820 Mtc: Tricarboxylate carrier; InterPro: IPR004686 The MTC family consists of a limited number of homologues, all from eukaryotes. One member of the family has been functionally characterised as a tricarboxylate carrier from rat liver mitochondria. The rat liver mitochondrial tricarboxylate carrier has been reported to transport citrate, cis-aconitate, threo-D-isocitrate, D- and L-tartrate, malate, succinate and phosphoenolpyruvate. It presumably functions by a proton symport mechanism. The rest of the characterised proteins appear to be sideroflexins involved in iron transport.; GO: 0008324 cation transmembrane transporter activity, 0006812 cation transport, 0055085 transmembrane transport, 0016020 membrane
Probab=63.85 E-value=34 Score=32.10 Aligned_cols=56 Identities=14% Similarity=0.263 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcccCccCCChhHHHHHHHHHHhcCCCCCceEE
Q 024000 183 IYLWAFMFVLSLVMMTLYPVLIAPLFNKFTPLPEGELREKIEKLASSLKFPLKKLFV 239 (274)
Q Consensus 183 l~~w~~~~~~~~~~~~l~P~~i~PLFnkf~PL~dg~L~~~I~~La~~~gf~~~~v~v 239 (274)
+..-+-.....+.+.+..|.-++ +|-+..+++-.+|+.++.+..++.|=|.+.||-
T Consensus 249 ~~~p~~~~l~~~~l~~~~P~a~A-lFPQ~~si~~~~LEpe~~~~~~~~g~~~~~vyy 304 (308)
T PF03820_consen 249 LNAPIQLALIGLCLGFMLPLACA-LFPQRSSISVSKLEPELQELTEKKGPPPTTVYY 304 (308)
T ss_pred hhhhHHhHHHHHHHHHhhhhHHh-hcccccccchHhcCHHHHHHHhhcCCCCCEEEe
Confidence 33334455566677777888877 999999999999999999999999999999874
No 22
>PRK01415 hypothetical protein; Validated
Probab=63.11 E-value=9.3 Score=34.64 Aligned_cols=44 Identities=14% Similarity=0.115 Sum_probs=36.3
Q ss_pred hcccCccCCChh-HHHHHHHHHHhcCCCCCceEEEeCCCCCCCcceeeeCC
Q 024000 207 LFNKFTPLPEGE-LREKIEKLASSLKFPLKKLFVVDGSTRSSHSNAYMYGF 256 (274)
Q Consensus 207 LFnkf~PL~dg~-L~~~I~~La~~~gf~~~~v~v~d~S~rs~~sNAyf~G~ 256 (274)
.|+||+|++|.+ +++++.++|++.|+. ..|++-+ ..-|+-++|-
T Consensus 9 ~fY~f~~i~~~~~~~~~l~~~~~~~~~~-G~i~la~-----EGIN~tisg~ 53 (247)
T PRK01415 9 SAYSFVNIEEPANLIPKLLLIGKRKYVR-GTILLAN-----EGFNGSFSGS 53 (247)
T ss_pred EEEccccCCCHHHHHHHHHHHHHHcCCe-eEEEEcc-----CccceEeeCC
Confidence 799999999855 999999999999974 6788765 4568877775
No 23
>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]
Probab=56.65 E-value=1.5e+02 Score=31.01 Aligned_cols=61 Identities=13% Similarity=0.266 Sum_probs=32.1
Q ss_pred HHHHHHHHhcccchhhhhhheeeccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024000 113 AGVMLWSQLTDLPFSLYSTFVIEARHGFNKQTIWLFFRDMIKGMILAIVLGPPIVSAIIIIVQ 175 (274)
Q Consensus 113 ~~~~l~~~li~LPf~~Y~~f~le~kyGfn~~t~~~f~~D~~k~~~l~~vl~~~l~~~~~~i~~ 175 (274)
+...++..+++||.++|++...-+- .++..--.=+.+.+-+..++.++-.+...+...++-
T Consensus 229 l~~~~~~hll~Lpl~~f~~r~~Ge~--~sR~~el~~Ir~flt~~~l~~iiD~~~~~i~l~vm~ 289 (709)
T COG2274 229 LSGRFFRHLLRLPLSYFEKRSVGEI--ISRVRELEQIREFLTGSILTLIIDLLFALIFLAVMF 289 (709)
T ss_pred HHHHHHHHHHcCcHHHccCCChhhH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445677788999999865432110 122222223445555555555555555555555543
No 24
>COG3402 Uncharacterized conserved protein [Function unknown]
Probab=54.09 E-value=68 Score=27.20 Aligned_cols=59 Identities=14% Similarity=0.212 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHHHHHHcCchhHHHHHHHHHHHH-HHHHHHHHHHhhhhcccCccCCC
Q 024000 158 LAIVLGPPIVSAIIIIVQKGGPYLAIYLWAFMFVLS-LVMMTLYPVLIAPLFNKFTPLPE 216 (274)
Q Consensus 158 l~~vl~~~l~~~~~~i~~~~g~~wwl~~w~~~~~~~-~~~~~l~P~~i~PLFnkf~PL~d 216 (274)
+.+++..++..+..+..-....+||.+..++.+++. ++..+++|.+..-.-.+|+--||
T Consensus 25 ~~l~Ll~av~~~~~~~~~~~~~~w~~~a~~av~l~~~vv~l~iiP~~~Ryr~wry~v~~~ 84 (161)
T COG3402 25 IALVLLIAVAAGVLLYFVGLDPNWSSVAAVAVILLAAVVTLFIIPQLVRYRVWRYEVEED 84 (161)
T ss_pred HHHHHHHHHHHHHHHheeccCCccHHHHHHHHHHHHHHHHhhhhhHHHhhhhheeecccc
Confidence 344555555555555544445678887776665554 44455566433323345554443
No 25
>COG3125 CyoD Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]
Probab=53.82 E-value=81 Score=25.15 Aligned_cols=48 Identities=15% Similarity=0.253 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCchhH--HHHHHHHHHHHHHHHHHH
Q 024000 153 IKGMILAIVLGPPIVSAIIIIVQKGGPYLA--IYLWAFMFVLSLVMMTLY 200 (274)
Q Consensus 153 ~k~~~l~~vl~~~l~~~~~~i~~~~g~~ww--l~~w~~~~~~~~~~~~l~ 200 (274)
+|+.+++.+++..++.+.+|..-..+-.++ +..-..++++|+++..+|
T Consensus 17 ~k~y~iGFvLsIiLT~ipF~~vm~~~~~~~~~~~~i~~lA~iQi~vqLvy 66 (111)
T COG3125 17 LKSYLIGFVLSIILTLIPFWVVMTGALSSTVTLIIILGLAVIQILVHLVY 66 (111)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcccchhhHHHHHHHHHHHHHHHHHHH
Confidence 455555566666666666665544433333 334444556666666555
No 26
>smart00793 AgrB Accessory gene regulator B. The accessory gene regulator (agr) of Staphylococcus aureus is the central regulatory system that controls the gene expression for a large set of virulence factors. The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. At low cell density, the agr genes are continuously expressed at basal levels. A signal molecule, autoinducing peptide (AIP), produced and secreted by the bacteria, accumulates outside of the cells. When the cell density increases and the AIP concentration reaches a threshold, it activates the agr response, i.e. activation of secreted protein gene expression and subsequent repression of cell wall-associated protein genes. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein PUBMED:11195102. AgrB is involved in the proteolyt
Probab=53.58 E-value=72 Score=27.27 Aligned_cols=24 Identities=25% Similarity=0.362 Sum_probs=19.6
Q ss_pred hhhhcccCccCCChhHHHHHHHHH
Q 024000 204 IAPLFNKFTPLPEGELREKIEKLA 227 (274)
Q Consensus 204 i~PLFnkf~PL~dg~L~~~I~~La 227 (274)
.+|.=++-+|+.++|.|.+....+
T Consensus 118 ~APv~~~~kpi~~~e~~k~lk~~s 141 (184)
T smart00793 118 YAPADTEKQPVIPEKLKKKLKKKS 141 (184)
T ss_pred cCCcccccCCCCCHHHHHHHHHHH
Confidence 479999999999999987765543
No 27
>TIGR03513 GldL_gliding gliding motility-associated protein GldL. This protein family, GldL, is named for the member from Flavobacterium johnsoniae, which is required for a type of rapid gliding motility found in certain members of the Bacteriodetes. However, members are found also in several members of the Bacteriodetes that appear not to be motile
Probab=52.73 E-value=42 Score=29.58 Aligned_cols=46 Identities=9% Similarity=0.055 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCchhHHHHHHHHHHHHHHHHHH
Q 024000 154 KGMILAIVLGPPIVSAIIIIVQKGGPYLAIYLWAFMFVLSLVMMTL 199 (274)
Q Consensus 154 k~~~l~~vl~~~l~~~~~~i~~~~g~~wwl~~w~~~~~~~~~~~~l 199 (274)
...+.+......++.+++.|..|-+..+.|.+..+.=++.+++.-.
T Consensus 4 ~N~~~~~ga~~vi~GalfKi~h~~~~~~~l~~g~~te~lvFfiSAF 49 (202)
T TIGR03513 4 MNIVYGWGAAVVILGALFKIMHWPMGNPMLFVGLITEALIFAISAF 49 (202)
T ss_pred HHHHHHHhHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHHHHhcc
Confidence 4455666666677788889999888888888777776666666544
No 28
>PRK12768 CysZ-like protein; Reviewed
Probab=52.27 E-value=1e+02 Score=27.75 Aligned_cols=34 Identities=12% Similarity=-0.169 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchh
Q 024000 148 FFRDMIKGMILAIVLGPPIVSAIIIIVQKGGPYL 181 (274)
Q Consensus 148 f~~D~~k~~~l~~vl~~~l~~~~~~i~~~~g~~w 181 (274)
+-.=..|+..+++++...+.+++.+.+.+.-..|
T Consensus 17 ~r~vl~~~~~lt~~l~~~~~~~~~~~~~~~~~~~ 50 (240)
T PRK12768 17 MRSVFWKVLGLTLLLLVVLWFALRRLFSWFAWPW 50 (240)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344567777777777776666666665544433
No 29
>PF14026 DUF4242: Protein of unknown function (DUF4242)
Probab=51.26 E-value=15 Score=27.13 Aligned_cols=25 Identities=20% Similarity=0.260 Sum_probs=20.2
Q ss_pred ChhHHHHHHHHHHhcCCCCCceEEE
Q 024000 216 EGELREKIEKLASSLKFPLKKLFVV 240 (274)
Q Consensus 216 dg~L~~~I~~La~~~gf~~~~v~v~ 240 (274)
+.+=.+.|.+.++++|+|.++|..+
T Consensus 53 ~Ap~~eaV~~~~~~aG~p~d~I~eV 77 (77)
T PF14026_consen 53 EAPDEEAVREHARRAGLPADRITEV 77 (77)
T ss_pred ECCCHHHHHHHHHHcCCCcceEEEC
Confidence 3445688999999999999998653
No 30
>PF11677 DUF3273: Protein of unknown function (DUF3273); InterPro: IPR021691 Some members in this family of proteins are annotated as multi-transmembrane proteins however this cannot be confirmed. Currently this family has no known function.
Probab=50.16 E-value=2.1e+02 Score=26.33 Aligned_cols=36 Identities=39% Similarity=0.704 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHhhhhcccCcc-CCChhHHHHHHHHH
Q 024000 192 LSLVMMTLYPVLIAPLFNKFTP-LPEGELREKIEKLA 227 (274)
Q Consensus 192 ~~~~~~~l~P~~i~PLFnkf~P-L~dg~L~~~I~~La 227 (274)
.++....++-....|+-||+.| |.+.|++++++.--
T Consensus 220 ~al~~~t~WA~~FEP~~~~~sp~L~~s~l~ndv~~~~ 256 (265)
T PF11677_consen 220 LALMAATLWAFLFEPLLNKWSPKLHQSALRNDVEPQY 256 (265)
T ss_pred HHHHHHHHHHHHhhHHhhhcCchhhHHHhhhhhhHHH
Confidence 4455556666778999999999 79999999976543
No 31
>PRK01100 putative accessory gene regulator protein; Provisional
Probab=50.05 E-value=1.8e+02 Score=25.51 Aligned_cols=24 Identities=29% Similarity=0.373 Sum_probs=19.2
Q ss_pred hhhhcccCccCCChhHHHHHHHHH
Q 024000 204 IAPLFNKFTPLPEGELREKIEKLA 227 (274)
Q Consensus 204 i~PLFnkf~PL~dg~L~~~I~~La 227 (274)
.+|-=++-+|+.+++.|++....+
T Consensus 130 yAP~dt~nkPi~~~~~rk~lK~~s 153 (210)
T PRK01100 130 YAPADTESLPLIGEKLRKTLKRKA 153 (210)
T ss_pred cCCcCCccCCCCCHHHHHHHHHHH
Confidence 379999999999999887765443
No 32
>PF06836 DUF1240: Protein of unknown function (DUF1240); InterPro: IPR010665 This family consists of a number of hypothetical putative membrane proteins which seem to be specific to Yersinia pestis. The function of this family is unknown.
Probab=49.22 E-value=5.6 Score=30.80 Aligned_cols=27 Identities=22% Similarity=0.455 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHhcccchhhhhhheeec
Q 024000 110 SFLAGVMLWSQLTDLPFSLYSTFVIEA 136 (274)
Q Consensus 110 ~f~~~~~l~~~li~LPf~~Y~~f~le~ 136 (274)
=++..+++++.++++|++.|-++.+.+
T Consensus 44 ~~l~~i~I~~~IlS~~~SfYv~~kL~~ 70 (95)
T PF06836_consen 44 KYLAIIAIISFILSFFFSFYVDYKLKS 70 (95)
T ss_pred HHHHHHHHHHHHHHhHhheeEeeEecc
Confidence 356678889999999999999998863
No 33
>PF12651 RHH_3: Ribbon-helix-helix domain
Probab=49.03 E-value=8.5 Score=25.30 Aligned_cols=22 Identities=36% Similarity=0.551 Sum_probs=19.7
Q ss_pred ChhHHHHHHHHHHhcCCCCCce
Q 024000 216 EGELREKIEKLASSLKFPLKKL 237 (274)
Q Consensus 216 dg~L~~~I~~La~~~gf~~~~v 237 (274)
|.+|.+++.+++++.|+|.+++
T Consensus 10 ~~el~~~L~~ls~~t~i~~S~L 31 (44)
T PF12651_consen 10 DKELYEKLKELSEETGIPKSKL 31 (44)
T ss_pred CHHHHHHHHHHHHHHCCCHHHH
Confidence 6789999999999999998764
No 34
>TIGR02908 CoxD_Bacillus cytochrome c oxidase, subunit IVB. This model represents a small clade of cytochrome oxidase subunit IV's found in the Bacilli.
Probab=48.70 E-value=1.1e+02 Score=24.32 Aligned_cols=48 Identities=13% Similarity=0.144 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH--cCchhHHHHHHHHHHHHHHHHHHH
Q 024000 153 IKGMILAIVLGPPIVSAIIIIVQK--GGPYLAIYLWAFMFVLSLVMMTLY 200 (274)
Q Consensus 153 ~k~~~l~~vl~~~l~~~~~~i~~~--~g~~wwl~~w~~~~~~~~~~~~l~ 200 (274)
.|+.+++.+++..++.+.++++-. .++..=+..-+.+++.|++....|
T Consensus 25 ~k~yviGFiLSiiLT~I~F~~V~~~~l~~~~~~~~I~~lAvvQi~VqL~y 74 (110)
T TIGR02908 25 MKKQIVTFALMIFLTLIAFFAVMLDEIDKWFVIPFILLLAAVQVAFQLYY 74 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHHHHHHHH
Confidence 455666666666666666666554 333333444455556666666554
No 35
>PF04647 AgrB: Accessory gene regulator B; InterPro: IPR006741 The accessory gene regulator (agr) of Staphylococcus aureus is the central regulatory system that controls the gene expression for a large set of virulence factors. The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. At low cell density, the agr genes are continuously expressed at basal levels. A signal molecule, autoinducing peptide (AIP), produced and secreted by the bacteria, accumulates outside of the cells. When the cell density increases and the AIP concentration reaches a threshold, it activates the agr response, i.e. activation of secreted protein gene expression and subsequent repression of cell wall-associated protein genes. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein [] involved in the proteolytic processing of AgrD, and may have both proteolytic and transporter activities, facilitating the export of the processed AgrD peptide []. ; GO: 0016020 membrane
Probab=46.64 E-value=1.1e+02 Score=25.83 Aligned_cols=22 Identities=32% Similarity=0.474 Sum_probs=17.3
Q ss_pred HhhhhcccCccCCChhHHHHHH
Q 024000 203 LIAPLFNKFTPLPEGELREKIE 224 (274)
Q Consensus 203 ~i~PLFnkf~PL~dg~L~~~I~ 224 (274)
..+|.-++-+|++++|.|.+..
T Consensus 117 ~~aPv~~~~kpl~~~e~~~~~K 138 (185)
T PF04647_consen 117 IYAPVDTPNKPLDSEEKRKKLK 138 (185)
T ss_pred HhcccccccCcCChHHHHHHHH
Confidence 3479999999999888776654
No 36
>PF15061 DUF4538: Domain of unknown function (DUF4538)
Probab=46.30 E-value=16 Score=25.71 Aligned_cols=25 Identities=12% Similarity=0.262 Sum_probs=20.5
Q ss_pred ChhhcccCCHHHHHHHHHHhhhhhh
Q 024000 37 PKTLEGVISQEKFEKSRGYSLDKSH 61 (274)
Q Consensus 37 P~~l~~~~~~e~~~ka~~Y~~~k~~ 61 (274)
|--+.+.+++|+|+|.|+++++...
T Consensus 24 pi~~~Pmm~~eeYk~~Q~~nR~gI~ 48 (58)
T PF15061_consen 24 PIYFRPMMNPEEYKKEQKINRAGIK 48 (58)
T ss_pred hhhcccccChHHHHHHHHHHHhccc
Confidence 5556778999999999999997643
No 37
>PF06649 DUF1161: Protein of unknown function (DUF1161); InterPro: IPR010595 This family consists of several short, hypothetical bacterial proteins of unknown function.
Probab=46.15 E-value=68 Score=22.07 Aligned_cols=46 Identities=22% Similarity=0.231 Sum_probs=37.4
Q ss_pred hhHHHHHHHHHHhcCCCCCceEEEeCCCCCCCcceeeeCCC--CCceEe
Q 024000 217 GELREKIEKLASSLKFPLKKLFVVDGSTRSSHSNAYMYGFF--KNKRIV 263 (274)
Q Consensus 217 g~L~~~I~~La~~~gf~~~~v~v~d~S~rs~~sNAyf~G~g--~~kRIV 263 (274)
++||++|++--...|.+.=.+-+++...- .++.+-+-|-+ .||+||
T Consensus 2 E~lk~eI~~KI~anGV~~ftLeiV~nd~~-~~~~~~VVG~Ce~gtkkIv 49 (52)
T PF06649_consen 2 EELKAEIEQKIIANGVSSFTLEIVPNDQA-DQAGGQVVGSCENGTKKIV 49 (52)
T ss_pred hHHHHHHHHHHHHcCCCceEEEEeeCccc-ccCCCeEEEEcCCCceEEE
Confidence 57999999999999998888888986654 46788888887 478876
No 38
>PRK10582 cytochrome o ubiquinol oxidase subunit IV; Provisional
Probab=45.84 E-value=1.3e+02 Score=23.85 Aligned_cols=46 Identities=11% Similarity=0.133 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH--cCchhHHHHHHHHHHHHHHHHHHH
Q 024000 155 GMILAIVLGPPIVSAIIIIVQK--GGPYLAIYLWAFMFVLSLVMMTLY 200 (274)
Q Consensus 155 ~~~l~~vl~~~l~~~~~~i~~~--~g~~wwl~~w~~~~~~~~~~~~l~ 200 (274)
+.+++.+++..++.+.++++-. .++.-=+..-+.++++|++.+..|
T Consensus 17 ~yviGFiLSliLT~i~F~lv~~~~~~~~~~~~~i~~lA~vQi~VqL~~ 64 (109)
T PRK10582 17 TYMTGFILSIILTVIPFWMVMTGAASPAVILGTILAMAVVQILVHLVC 64 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHccCChhHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444432 333333444445556666666554
No 39
>PF04138 GtrA: GtrA-like protein; InterPro: IPR007267 Members of this entry belong to the GtrA family and are predicted to be integral membrane proteins with three or four transmembrane spans. They are involved in the synthesis of cell surface polysaccharides. GtrA is predicted to be an integral membrane protein with 4 transmembrane spans. It is involved in O antigen modification by Shigella flexneri bacteriophage X (SfX), but does not determine the specificity of glucosylation. Its function remains unknown, but it may play a role in translocation of undecaprenyl phosphate linked glucose (UndP-Glc) across the cytoplasmic membrane []. Another member of this family is a DTDP-glucose-4-keto-6-deoxy-D-glucose reductase, which catalyses the conversion of dTDP-4-keto-6-deoxy-D-glucose to dTDP-D-fucose, which is involved in the biosynthesis of the serotype-specific polysaccharide antigen of Actinobacillus actinomycetemcomitans Y4 (serotype b) []. This family also includes the teichoic acid glycosylation protein, GtcA, which is a serotype-specific protein in some Listeria innocua and Listeria monocytogenes strains. Its exact function is not known, but it is essential for decoration of cell wall teichoic acids with glucose and galactose [].; GO: 0000271 polysaccharide biosynthetic process, 0006810 transport, 0016021 integral to membrane
Probab=44.79 E-value=1.4e+02 Score=22.75 Aligned_cols=44 Identities=14% Similarity=0.226 Sum_probs=24.8
Q ss_pred hheeeccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024000 131 TFVIEARHGFNKQTIWLFFRDMIKGMILAIVLGPPIVSAIIIIVQ 175 (274)
Q Consensus 131 ~f~le~kyGfn~~t~~~f~~D~~k~~~l~~vl~~~l~~~~~~i~~ 175 (274)
.|.+.+++=|+.++.... .++...+.+..+++.++-.+...+..
T Consensus 43 ~f~ln~~~tF~~~~~~~~-~~~~~~f~~~~~~~~~~~~~~~~~~~ 86 (117)
T PF04138_consen 43 NFILNRRFTFRSRGRSSR-WRQFLRFFVVYLLGLLLNTLILWLLV 86 (117)
T ss_pred HHHHHHHHhccCCCCcHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444566666655555444 55555555566666666666655443
No 40
>PF06105 Aph-1: Aph-1 protein; InterPro: IPR009294 This family consists of several eukaryotic Aph-1 proteins. Gamma-secretase catalyses the intramembrane proteolysis of Notch, beta-amyloid precursor protein, and other substrates as part of a new signalling paradigm and as a key step in the pathogenesis of Alzheimer's disease. It is thought that the presenilin heterodimer comprises the catalytic site and that a highly glycosylated form of nicastrin associates with it. Aph-1 and Pen-2, two membrane proteins genetically linked to gamma-secretase, associate directly with presenilin and nicastrin in the active protease complex. Co-expression of all four proteins leads to marked increases in presenilin heterodimers, full glycosylation of nicastrin, and enhanced gamma-secretase activity [].; GO: 0016485 protein processing, 0043085 positive regulation of catalytic activity, 0016021 integral to membrane
Probab=43.85 E-value=1.5e+02 Score=26.78 Aligned_cols=14 Identities=36% Similarity=0.306 Sum_probs=11.9
Q ss_pred CCCCcceeeeCCCC
Q 024000 245 RSSHSNAYMYGFFK 258 (274)
Q Consensus 245 rs~~sNAyf~G~g~ 258 (274)
.+.|.=||+.|+|-
T Consensus 102 ~~~~~lA~v~GlGf 115 (238)
T PF06105_consen 102 ISRHQLAYVSGLGF 115 (238)
T ss_pred Cccceeeehhccch
Confidence 57889999999984
No 41
>PF11694 DUF3290: Protein of unknown function (DUF3290); InterPro: IPR021707 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=43.47 E-value=1.9e+02 Score=24.08 Aligned_cols=84 Identities=15% Similarity=0.195 Sum_probs=50.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHHHHHHHHHHHHHHHHHHHHHHhhhhcccCccC-----CChhHHHHHH
Q 024000 150 RDMIKGMILAIVLGPPIVSAIIIIVQKGGPYLAIYLWAFMFVLSLVMMTLYPVLIAPLFNKFTPL-----PEGELREKIE 224 (274)
Q Consensus 150 ~D~~k~~~l~~vl~~~l~~~~~~i~~~~g~~wwl~~w~~~~~~~~~~~~l~P~~i~PLFnkf~PL-----~dg~L~~~I~ 224 (274)
.|.++-.++.+++.+.++.++.++=.+....|-=..-++...+.++.-.=+ ++++-. +-+..-.=|+
T Consensus 15 ~~~~~~~~i~~ll~~l~~~~~~Y~r~r~~tKyRDL~II~~L~ll~l~giq~--------~~y~~~~~~~~q~~~~~~fi~ 86 (149)
T PF11694_consen 15 NDYLRYILIIILLLVLIFFFIKYLRNRLDTKYRDLSIIALLLLLLLIGIQY--------SDYQQNQNQHSQSSQMVHFIE 86 (149)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhHHHHHHHHHHHHHHHHH--------HHHHHHhhhHhHHHHHHHHHH
Confidence 345555555566666666777777777777766443333333322222212 222222 1245667799
Q ss_pred HHHHhcCCCCCceEEEe
Q 024000 225 KLASSLKFPLKKLFVVD 241 (274)
Q Consensus 225 ~La~~~gf~~~~v~v~d 241 (274)
.+|++.|.+.++|+|=.
T Consensus 87 ~vA~~~~V~~~~v~VNs 103 (149)
T PF11694_consen 87 SVAKDLGVSKEEVYVNS 103 (149)
T ss_pred HHHHHhCCChheEEEec
Confidence 99999999999998744
No 42
>TIGR02901 QoxD cytochrome aa3 quinol oxidase, subunit IV. This family (QoxD) encodes subunit IV of the aa3-type quinone oxidase, one of several bacterial terminal oxidases. This complex couples oxidation of reduced quinones with the reduction of molecular oxygen to water and the pumping of protons to form a proton gradient utilized for ATP production. aa3-type oxidases contain two heme a cofactors as well as copper atoms in the active site.
Probab=41.74 E-value=1.3e+02 Score=23.12 Aligned_cols=51 Identities=10% Similarity=0.127 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHHHHHHHHHHHHHHHHHHH
Q 024000 148 FFRDMIKGMILAIVLGPPIVSAIIIIVQKGGPYLAIYLWAFMFVLSLVMMTLY 200 (274)
Q Consensus 148 f~~D~~k~~~l~~vl~~~l~~~~~~i~~~~g~~wwl~~w~~~~~~~~~~~~l~ 200 (274)
+.++++.+++++.++...-.+++.. +..++.--+..-+.+++.|++.+..|
T Consensus 5 ~~~~yviGFiLSiiLT~i~F~~v~~--~~~~~~~~~~~i~~lA~iQi~VqL~~ 55 (94)
T TIGR02901 5 FPWKHVNGFILSLLLTFLALWVALY--SDLPLAMGLTIIIIFAFIQAGLQLIM 55 (94)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHH--ccCChhHHHHHHHHHHHHHHHHHHHH
Confidence 4566777776666666444443322 22344444445555566666666544
No 43
>TIGR02847 CyoD cytochrome o ubiquinol oxidase subunit IV. Cytochrome o terminal oxidase complex is the component of the aerobic respiratory chain which reacts with oxygen, reducing it to water with the concomitant transport of 4 protons across the membrane. Also known as the cytochrome bo complex, cytochrome o ubiquinol oxidase contains four subunits, two heme b cofactors and a copper atom which is believed to be the oxygen active site. This complex is structurally related to the cytochrome caa3 oxidases which utilize cytochrome c as the reductant and contain heme a cofactors, as well as the intermediate form aa3 oxidases which also react directly with quinones as the reductant.
Probab=41.64 E-value=1.6e+02 Score=22.70 Aligned_cols=48 Identities=13% Similarity=0.234 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH--cCchhHHHHHHHHHHHHHHHHHHH
Q 024000 153 IKGMILAIVLGPPIVSAIIIIVQK--GGPYLAIYLWAFMFVLSLVMMTLY 200 (274)
Q Consensus 153 ~k~~~l~~vl~~~l~~~~~~i~~~--~g~~wwl~~w~~~~~~~~~~~~l~ 200 (274)
.|+.+++.+++..++.+.+++.-. .++.-=...-+..+++|++.+..|
T Consensus 4 ~k~yviGFiLsliLT~i~F~~v~~~~~~~~~~~~~i~~~A~iQi~vqL~~ 53 (96)
T TIGR02847 4 LKSYLIGFVLSVILTAIPFGLVMSGTLSKGLTLVIIIVLAVVQILVHLVF 53 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHccCCHhHHHHHHHHHHHHHHHHHHHH
Confidence 345555555555555555555443 333333334444556666665544
No 44
>PRK00142 putative rhodanese-related sulfurtransferase; Provisional
Probab=41.63 E-value=32 Score=32.16 Aligned_cols=44 Identities=25% Similarity=0.476 Sum_probs=33.6
Q ss_pred hcccCccCCC-hhHHHHHHHHHHhcCCCCCceEEEeCCCCCCCcceeeeCC
Q 024000 207 LFNKFTPLPE-GELREKIEKLASSLKFPLKKLFVVDGSTRSSHSNAYMYGF 256 (274)
Q Consensus 207 LFnkf~PL~d-g~L~~~I~~La~~~gf~~~~v~v~d~S~rs~~sNAyf~G~ 256 (274)
+|+||+|++| .++++++.+.++..+.. ..+++.. .|-|+-+.|-
T Consensus 8 ~~Y~f~~i~~~~~~~~~l~~~~~~~d~r-g~i~~a~-----egIngtis~~ 52 (314)
T PRK00142 8 LYYKYTPIEDPEAFRDEHLALCKSLGLK-GRILVAE-----EGINGTVSGT 52 (314)
T ss_pred EEEccccCCCHHHHHHHHHHHHHHcCCe-eEEEEcC-----CCceEEEEec
Confidence 7999999997 56999999999988876 4455443 5667766654
No 45
>COG1054 Predicted sulfurtransferase [General function prediction only]
Probab=41.17 E-value=30 Score=32.33 Aligned_cols=44 Identities=20% Similarity=0.409 Sum_probs=35.8
Q ss_pred hcccCccCCCh-hHHHHHHHHHHhcCCCCCceEEEeCCCCCCCcceeeeCC
Q 024000 207 LFNKFTPLPEG-ELREKIEKLASSLKFPLKKLFVVDGSTRSSHSNAYMYGF 256 (274)
Q Consensus 207 LFnkf~PL~dg-~L~~~I~~La~~~gf~~~~v~v~d~S~rs~~sNAyf~G~ 256 (274)
.++||+|++|. ++++.+.+++++.|+. ..|++.+ ..-|+-++|-
T Consensus 9 a~Y~f~~i~dp~~~~~~l~~~~~~~~vk-GrillA~-----EGINgtvsG~ 53 (308)
T COG1054 9 AYYKFVPIEDPEALRDPLLALCKALGVK-GRILLAH-----EGINGTVSGS 53 (308)
T ss_pred EEEEEEecCCHHHHHHHHHHHHHHcCce-eEEEEcc-----CCcceeEecC
Confidence 68999999975 4999999999999986 4577766 5677777774
No 46
>PF15048 OSTbeta: Organic solute transporter subunit beta protein
Probab=40.48 E-value=55 Score=26.62 Aligned_cols=62 Identities=13% Similarity=0.168 Sum_probs=39.8
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHhhhcCC-CCChhhcccCCHHHHHHHHHHhhhhhhHHhHHH
Q 024000 3 FPYMEAVVGFMILMYFFETYLDLRQHAALKLP-KLPKTLEGVISQEKFEKSRGYSLDKSHFHFVHE 67 (274)
Q Consensus 3 ~~~~~~~~~~~~~~~l~e~yL~~rq~~~~~~~-~vP~~l~~~~~~e~~~ka~~Y~~~k~~~~~~~~ 67 (274)
-||.+.+++++.+..++...|.-|+.+.=++. ..|. +.=++|.......=.++...+..++.
T Consensus 33 tpWNysiL~Ls~vvlvi~~~LLgrsi~ANRnrK~~~~---~k~~pE~~~~~es~~kd~~sL~~l~e 95 (125)
T PF15048_consen 33 TPWNYSILALSFVVLVISFFLLGRSIQANRNRKMQPQ---EKQTPEVLSLDESGLKDDNSLNILRE 95 (125)
T ss_pred CCcchHHHHHHHHHHHHHHHHHHHHhHhccccccccc---cccCHHHhhcccccccccccccHHHH
Confidence 48999999999999999999999998875443 3332 22234443333333455555554443
No 47
>COG4512 AgrB Membrane protein putatively involved in post-translational modification of the autoinducing quorum-sensing peptide [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms / Transcription]
Probab=38.37 E-value=1.1e+02 Score=26.51 Aligned_cols=53 Identities=23% Similarity=0.256 Sum_probs=35.4
Q ss_pred HHHHHHHcCchhHHHHHHHHHHHHHHHHHHHHHHhhhhcccCccCCChhHHHHHHHHHH
Q 024000 170 IIIIVQKGGPYLAIYLWAFMFVLSLVMMTLYPVLIAPLFNKFTPLPEGELREKIEKLAS 228 (274)
Q Consensus 170 ~~~i~~~~g~~wwl~~w~~~~~~~~~~~~l~P~~i~PLFnkf~PL~dg~L~~~I~~La~ 228 (274)
.-|+..+.+.+.|. |+....+..+.++.| +|=-.+-.|+...|+|+|....+.
T Consensus 95 ~py~~~ni~~Nn~~--vLa~~iiglL~i~~y----APa~teahplvg~e~~kr~Kk~a~ 147 (198)
T COG4512 95 IPYVPFNIDANNYA--VLAYFIIGLLLIFKY----APADTEAHPLVGTEHRKRLKKRAA 147 (198)
T ss_pred HHHHHhhcccchHH--HHHHHHHHHHHHHhc----CccccccCCCccHHHHHHHHHHHH
Confidence 33454555555554 344445555556655 588889999999999999877653
No 48
>PF15656 Tox-HDC: Toxin with a H, D/N and C signature
Probab=38.13 E-value=57 Score=26.34 Aligned_cols=48 Identities=8% Similarity=0.150 Sum_probs=39.6
Q ss_pred cccCccCCChhHHHHHHHHHHhcCCCCCceEEEeCCCCCCCcceeeeC
Q 024000 208 FNKFTPLPEGELREKIEKLASSLKFPLKKLFVVDGSTRSSHSNAYMYG 255 (274)
Q Consensus 208 Fnkf~PL~dg~L~~~I~~La~~~gf~~~~v~v~d~S~rs~~sNAyf~G 255 (274)
++.=++.-+.++++-|+.++++...+-++|++|.|+-=....|.|..=
T Consensus 3 ~g~~t~~~~~~i~~pl~~Iar~~s~~~~~I~IlSGtHG~~~G~nw~~~ 50 (119)
T PF15656_consen 3 WGSDTKINGYDINAPLETIARRPSGDNGDIHILSGTHGYCSGQNWLSE 50 (119)
T ss_pred eccCCeecchhhHHHHHHHHhCcCCCCCCEEEEeCCCCCccccchhhc
Confidence 455677778889999999999999999999999998776666655543
No 49
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=38.08 E-value=25 Score=23.28 Aligned_cols=27 Identities=26% Similarity=0.313 Sum_probs=19.9
Q ss_pred hcccCccCCChhHHHHHHHHHHhcCCCC
Q 024000 207 LFNKFTPLPEGELREKIEKLASSLKFPL 234 (274)
Q Consensus 207 LFnkf~PL~dg~L~~~I~~La~~~gf~~ 234 (274)
.+|.-..+ ..+.|++|.+.+++.|+..
T Consensus 19 ~ln~~~~v-s~~tr~rI~~~a~~lgY~p 45 (46)
T PF00356_consen 19 VLNGPPRV-SEETRERILEAAEELGYRP 45 (46)
T ss_dssp HHTTCSSS-THHHHHHHHHHHHHHTB-S
T ss_pred HHhCCCCC-CHHHHHHHHHHHHHHCCCC
Confidence 44544444 4789999999999999865
No 50
>PF01402 RHH_1: Ribbon-helix-helix protein, copG family; InterPro: IPR002145 CopG, also known as RepA, is responsible for the regulation of plasmid copy number. It binds to the repAB promoter and controls synthesis of the plasmid replication initiator protein RepB. Many bacterial transcription regulation proteins bind DNA through a 'helix-turn-helix' motif, nevertheless CopG displays a fully defined HTH-motif structure that is involved not in DNA-binding, but in the maintenance of the intrinsic dimeric functional structure and cooperativity [, ].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2BJ3_B 2BJ8_A 2BJ1_A 2BJ9_A 2BJ7_B 1EA4_L 2CPG_C 1B01_B 2BA3_A 2K9I_B ....
Probab=36.50 E-value=12 Score=23.32 Aligned_cols=21 Identities=29% Similarity=0.387 Sum_probs=17.5
Q ss_pred ChhHHHHHHHHHHhcCCCCCc
Q 024000 216 EGELREKIEKLASSLKFPLKK 236 (274)
Q Consensus 216 dg~L~~~I~~La~~~gf~~~~ 236 (274)
|.++.++++++|++.|.+.+.
T Consensus 7 ~~~~~~~l~~~a~~~g~s~s~ 27 (39)
T PF01402_consen 7 PDELYERLDELAKELGRSRSE 27 (39)
T ss_dssp EHHHHHHHHHHHHHHTSSHHH
T ss_pred CHHHHHHHHHHHHHHCcCHHH
Confidence 468999999999999976544
No 51
>PRK13109 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=35.12 E-value=4.1e+02 Score=25.42 Aligned_cols=26 Identities=15% Similarity=0.427 Sum_probs=20.7
Q ss_pred ChhHHHHHHHHHHh-------cCCCCCceEEEe
Q 024000 216 EGELREKIEKLASS-------LKFPLKKLFVVD 241 (274)
Q Consensus 216 dg~L~~~I~~La~~-------~gf~~~~v~v~d 241 (274)
|++.|.++.++.++ .++|-.+|.|.|
T Consensus 239 dP~iK~r~Rq~~re~~~~~m~~~V~~AdVVItN 271 (358)
T PRK13109 239 DPSVKARLRSLAQDRARNRMLANVPRATLVIAN 271 (358)
T ss_pred CHHHHHHHHHHHHHHHHhhHhhcCCCCcEEEEC
Confidence 56788888877775 589999998888
No 52
>COG1176 PotB ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]
Probab=33.96 E-value=3e+02 Score=25.47 Aligned_cols=30 Identities=23% Similarity=0.240 Sum_probs=25.9
Q ss_pred cchhHHHHHHHHHHHHHHhcccchhhhhhh
Q 024000 103 NEILHTLSFLAGVMLWSQLTDLPFSLYSTF 132 (274)
Q Consensus 103 ~~~~~~~~f~~~~~l~~~li~LPf~~Y~~f 132 (274)
+.+++++...++.+++.-++..|+.||-.-
T Consensus 66 ~v~~~Sl~iA~~~T~~~lligyP~Ay~la~ 95 (287)
T COG1176 66 TVLLRSLWIAALVTLICLLLGYPVAYFLAR 95 (287)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 346889999999999999999999999664
No 53
>PHA02902 putative IMV membrane protein; Provisional
Probab=33.84 E-value=1.2e+02 Score=21.85 Aligned_cols=43 Identities=2% Similarity=0.245 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhc---C-CCCC-------hhhcccCCHHHHH
Q 024000 8 AVVGFMILMYFFETYLDLRQHAALK---L-PKLP-------KTLEGVISQEKFE 50 (274)
Q Consensus 8 ~~~~~~~~~~l~e~yL~~rq~~~~~---~-~~vP-------~~l~~~~~~e~~~ 50 (274)
+++++.++..+.-.|..+|..|... + .+++ +.++|.+++++.+
T Consensus 7 vi~~v~v~Ivclliya~YrR~kci~sP~~~d~~~~~~l~~d~~F~D~lTpDQir 60 (70)
T PHA02902 7 VILAVIVIIFCLLIYAAYKRYKCIPSPDDRDERFGDTLEDDPLFKDSLTPDQIK 60 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCCCCCccccccccCCCCchhhccCCHHHHH
Confidence 3444555555666788888886553 1 1222 2256778887664
No 54
>PF06645 SPC12: Microsomal signal peptidase 12 kDa subunit (SPC12); InterPro: IPR009542 This family consists of several microsomal signal peptidase 12 kDa subunit proteins. Translocation of polypeptide chains across the endoplasmic reticulum (ER) membrane is triggered by signal sequences. Subsequently, signal recognition particle interacts with its membrane receptor and the ribosome-bound nascent chain is targeted to the ER where it is transferred into a protein-conducting channel. At some point, a second signal sequence recognition event takes place in the membrane and translocation of the nascent chain through the membrane occurs. The signal sequence of most secretory and membrane proteins is cleaved off at this stage. Cleavage occurs by the signal peptidase complex (SPC) as soon as the lumenal domain of the translocating polypeptide is large enough to expose its cleavage site to the enzyme. The signal peptidase complex is possibly also involved in proteolytic events in the ER membrane other than the processing of the signal sequence, for example the further digestion of the cleaved signal peptide or the degradation of membrane proteins. Mammalian signal peptidase is as a complex of five different polypeptide chains. This family represents the 12 kDa subunit (SPC12).; GO: 0008233 peptidase activity, 0006465 signal peptide processing, 0005787 signal peptidase complex, 0016021 integral to membrane
Probab=33.35 E-value=76 Score=23.32 Aligned_cols=30 Identities=13% Similarity=0.413 Sum_probs=20.8
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHHhhhhccc
Q 024000 179 PYLAIYLWAFMFVLSLVMMTLYPVLIAPLFNK 210 (274)
Q Consensus 179 ~~wwl~~w~~~~~~~~~~~~l~P~~i~PLFnk 210 (274)
+..-.-..++.+.+.+.+....|.+ |.|||
T Consensus 32 q~~~~~~~~~~~g~~~~~lv~vP~W--p~y~r 61 (76)
T PF06645_consen 32 QSFSYTFYIYGAGVVLTLLVVVPPW--PFYNR 61 (76)
T ss_pred HHHHHHHHHHHHHHHHHHhheeCCc--HhhcC
Confidence 4444556666666777777788988 88875
No 55
>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=33.32 E-value=4.3e+02 Score=25.13 Aligned_cols=47 Identities=15% Similarity=0.286 Sum_probs=26.6
Q ss_pred ChhHHHHHHHHHHh-------cCCCCCceEEEeCCCCCCCcceeeeCCCCCceEe
Q 024000 216 EGELREKIEKLASS-------LKFPLKKLFVVDGSTRSSHSNAYMYGFFKNKRIV 263 (274)
Q Consensus 216 dg~L~~~I~~La~~-------~gf~~~~v~v~d~S~rs~~sNAyf~G~g~~kRIV 263 (274)
|+++|.++.++.++ .++|-.+|.+.| ..+-+-+=-|-.|-+..-+||
T Consensus 230 dP~iK~rrR~~~re~a~~~m~~~V~~AdVVItN-PTH~AVal~Y~~~~~~aP~vv 283 (347)
T TIGR00328 230 DPEVKGRIRQMQREAARRRMMQEVPKADVVITN-PTHYAVALKYDPGKMPAPVVV 283 (347)
T ss_pred CHHHHHHHHHHHHHHHHhhHhhcCCCCcEEEEC-CCceEEEeEeCCCCCCCCEEE
Confidence 45666677666553 579999998888 433222223333444444443
No 56
>PF04120 Iron_permease: Low affinity iron permease ; InterPro: IPR007251 Although originally identified as a low-affinity iron(II) permease [, ], Fet4 has since been shown to import several other transition metal ions, including copper [, ] and zinc []. Copper, cobalt, and cadmium inhibit Fet4 [, ]. Fet4 is an integral protein of the plasma membrane [, ]. FET4 is not essential, not even in fet3 fet4 double mutants []. Over expression of FET4 improves growth under alkaline conditions []. Transcription of FET4 is induced by Aft1 in response to low levels of iron [, , ] or by Zap1 in response to low zinc [, ], but not in response to low copper []. When the high-affinity iron permease component Fet3 is deleted, FET4 is induced by the addition of copper, zinc, cobalt, or manganese []. It is also induced under anaerobic conditions [, , ] and repressed by Rox1 in aerobic conditions [, ]. Rox1 attenuates the activation of FET4 by Aft1 or Zap1 []. ; GO: 0055085 transmembrane transport
Probab=32.90 E-value=93 Score=25.55 Aligned_cols=39 Identities=18% Similarity=0.049 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHcCchhHHHHHHHHHHHHHHHHHHH
Q 024000 162 LGPPIVSAIIIIVQKGGPYLAIYLWAFMFVLSLVMMTLY 200 (274)
Q Consensus 162 l~~~l~~~~~~i~~~~g~~wwl~~w~~~~~~~~~~~~l~ 200 (274)
+...++++...-.-.+++.|+|++--...+++++|.++.
T Consensus 22 ~~~Ii~W~i~Gp~~~~sdtWQLviNt~ttIitFlmvfLI 60 (132)
T PF04120_consen 22 VAVIIVWAISGPVFGFSDTWQLVINTATTIITFLMVFLI 60 (132)
T ss_pred HHHHHHHHHHhccccCcchHHHHHccHHHHHHHHHHHHH
Confidence 334444444444445678999998877777777777653
No 57
>PF00035 dsrm: Double-stranded RNA binding motif; InterPro: IPR001159 The DsRBD domain is found in a variety of RNA-binding proteins with different structures and exhibiting a diversity of functions []. It is involved in localisation of at least five different mRNAs in the early Drosophila embryo and by interferon-induced protein kinase in humans, which is part of the cellular response to dsRNA.; GO: 0003725 double-stranded RNA binding, 0005622 intracellular; PDB: 1EKZ_A 1STU_A 1QU6_A 2L2M_A 3ADJ_A 1WHN_A 3LLH_B 2B7V_A 2L3J_A 1UHZ_A ....
Probab=32.88 E-value=46 Score=22.61 Aligned_cols=25 Identities=12% Similarity=0.398 Sum_probs=18.0
Q ss_pred HHHHHHHHHhcCCCCCceEEEeCCC
Q 024000 220 REKIEKLASSLKFPLKKLFVVDGST 244 (274)
Q Consensus 220 ~~~I~~La~~~gf~~~~v~v~d~S~ 244 (274)
++.+.+++++.+++..-.++...+.
T Consensus 2 ~~~L~e~~~~~~~~~~~~~~~~~~~ 26 (67)
T PF00035_consen 2 KSRLNEYCQKNKFPPPYYYIEEEGP 26 (67)
T ss_dssp HHHHHHHHHHCTSSEEEEEEEEESS
T ss_pred HHHHHHHHHHcCCCCCEEEEEEeCC
Confidence 4678899999998876655544443
No 58
>PRK15021 microcin C ABC transporter permease; Provisional
Probab=32.05 E-value=2.7e+02 Score=26.40 Aligned_cols=64 Identities=14% Similarity=0.111 Sum_probs=50.3
Q ss_pred hHHHHHHHHHHHHHHhcccchhhhhhheeeccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhH
Q 024000 106 LHTLSFLAGVMLWSQLTDLPFSLYSTFVIEARHGFNKQTIWLFFRDMIKGMILAIVLGPPIVSAIIIIVQKGGPYLA 182 (274)
Q Consensus 106 ~~~~~f~~~~~l~~~li~LPf~~Y~~f~le~kyGfn~~t~~~f~~D~~k~~~l~~vl~~~l~~~~~~i~~~~g~~ww 182 (274)
-.++.+.+...+++.++.++......|. .. ..|.+.+.+.....+.|-+.+.+.++-.++..+|
T Consensus 141 r~SL~l~l~a~~is~iiGi~lG~iag~~-gg------------~~D~~i~~i~~i~~siP~~~l~ill~~~~~~~~~ 204 (341)
T PRK15021 141 RISVLFGLMLTLCSSVMGVLAGALQGYY-GG------------KVDLWGQRFIEVWSGMPTLFLIILLSSVVQPNFW 204 (341)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh-CC------------cHHHHHHHHHHHHHHhHHHHHHHHHHHHHhccHH
Confidence 4566777888888999999999998885 21 1899999999999999988888877776666543
No 59
>PF15179 Myc_target_1: Myc target protein 1
Probab=29.70 E-value=85 Score=27.31 Aligned_cols=30 Identities=20% Similarity=0.382 Sum_probs=18.1
Q ss_pred HHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024000 145 IWLF-FRDMIKGMILAIVLGPPIVSAIIIIV 174 (274)
Q Consensus 145 ~~~f-~~D~~k~~~l~~vl~~~l~~~~~~i~ 174 (274)
++.| +-|.+.++.+++++|.++-++++.+.
T Consensus 13 ~~~f~~~~lIlaF~vSm~iGLviG~li~~Ll 43 (197)
T PF15179_consen 13 LENFDWEDLILAFCVSMAIGLVIGALIWALL 43 (197)
T ss_pred hhhcchhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556 67777777777766655444444443
No 60
>PF11391 DUF2798: Protein of unknown function (DUF2798); InterPro: IPR021529 This family of proteins has no known function.
Probab=28.85 E-value=2e+02 Score=19.86 Aligned_cols=34 Identities=26% Similarity=0.438 Sum_probs=16.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024000 138 HGFNKQTIWLFFRDMIKGMILAIVLGPPIVSAIIIIVQ 175 (274)
Q Consensus 138 yGfn~~t~~~f~~D~~k~~~l~~vl~~~l~~~~~~i~~ 175 (274)
.|++. .|+...++++.++..++.|....+.-++|
T Consensus 20 ~G~~~----~f~~~Wl~a~~~a~~vAfp~~l~v~P~v~ 53 (60)
T PF11391_consen 20 VGFSD----GFFSRWLKAWLIAWPVAFPISLIVAPLVR 53 (60)
T ss_pred hCCch----hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36664 44444444544555555554444444444
No 61
>TIGR00798 mtc tricarboxylate carrier. The MTC family consists of a limited number of homologues, all from eukaryotes. A single member of the family has been functionally characterized, the tricarboxylate carrier from rat liver mitochondria. The rat liver mitochondrial tricarboxylate carrier has been reported to transport citrate, cis-aconitate, threo-D-isocitrate, D- and L-tartrate, malate, succinate and phosphoenolpyruvate. It presumably functions by a proton symport mechanism.
Probab=28.44 E-value=1.9e+02 Score=27.36 Aligned_cols=56 Identities=18% Similarity=0.238 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhcccCccCCChhHHHHHHHHHHhcCCCCCceE
Q 024000 182 AIYLWAFMFVLSLVMMTLYPVLIAPLFNKFTPLPEGELREKIEKLASSLKFPLKKLF 238 (274)
Q Consensus 182 wl~~w~~~~~~~~~~~~l~P~~i~PLFnkf~PL~dg~L~~~I~~La~~~gf~~~~v~ 238 (274)
|+-+-+=..+..+.+.+..|.-++ +|-+...++-.+|+.++.+..++-|=|++.||
T Consensus 258 ~l~~pi~~~l~~~~l~~~lP~a~a-lFPQ~~~I~~~~LEpe~~~~~~~~~~~~~~v~ 313 (318)
T TIGR00798 258 WMQIPIQTLLCGLGLAFATPLACA-LFPQKSAISVDKLEPSLQNLIQKLGNPPKVVY 313 (318)
T ss_pred hhhchHHHHHHHHHHHHHHHHHHH-hccccccCcHHhcCHHHHHhhhccCCCCceEE
Confidence 444444445555666677887776 99999999999999999999998887777776
No 62
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=28.42 E-value=2.3e+02 Score=20.88 Aligned_cols=44 Identities=11% Similarity=0.104 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhcCCCCChhhcccCCHHHHHHHHHHhhhhhhH
Q 024000 10 VGFMILMYFFETYLDLRQHAALKLPKLPKTLEGVISQEKFEKSRGYSLDKSHF 62 (274)
Q Consensus 10 ~~~~~~~~l~e~yL~~rq~~~~~~~~vP~~l~~~~~~e~~~ka~~Y~~~k~~~ 62 (274)
+++.++......++++|..+... +-+|+++.++.++......++
T Consensus 11 iif~ifVap~wl~lHY~~k~~~~---------~~ls~~d~~~L~~L~~~a~rm 54 (75)
T TIGR02976 11 IIFVIFVAPLWLILHYRSKRKTA---------ASLSTDDQALLQELYAKADRL 54 (75)
T ss_pred HHHHHHHHHHHHHHHHHhhhccC---------CCCCHHHHHHHHHHHHHHHHH
Confidence 33344444556677777654422 226788888877765554443
No 63
>PF14147 Spore_YhaL: Sporulation protein YhaL
Probab=28.00 E-value=69 Score=22.01 Aligned_cols=18 Identities=17% Similarity=0.109 Sum_probs=14.4
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 024000 181 LAIYLWAFMFVLSLVMMT 198 (274)
Q Consensus 181 wwl~~w~~~~~~~~~~~~ 198 (274)
||.|+.+..++++..|.+
T Consensus 3 wWvY~vi~gI~~S~ym~v 20 (52)
T PF14147_consen 3 WWVYFVIAGIIFSGYMAV 20 (52)
T ss_pred chHHHHHHHHHHHHHHHH
Confidence 899988888888876654
No 64
>PF10256 Erf4: Golgin subfamily A member 7/ERF4 family; InterPro: IPR019383 Proteins in this entry include Golgin subfamily A member 7 and the Ras modification protein ERF4.
Probab=27.43 E-value=1.6e+02 Score=22.89 Aligned_cols=21 Identities=38% Similarity=0.575 Sum_probs=18.0
Q ss_pred CCCChhhcccCCHHHHHHHHH
Q 024000 34 PKLPKTLEGVISQEKFEKSRG 54 (274)
Q Consensus 34 ~~vP~~l~~~~~~e~~~ka~~ 54 (274)
+..|.+|.+++++++|++.-+
T Consensus 20 ~~~P~~L~~~is~~ef~~iI~ 40 (118)
T PF10256_consen 20 TEYPGELSGYISPEEFEEIIN 40 (118)
T ss_pred ccCCHhhcCCCCHHHHHHHHH
Confidence 578999999999999998743
No 65
>TIGR01404 FlhB_rel_III type III secretion protein, YscU/HrpY family. This model represents one of several families of proteins related to bacterial flagellar biosynthesis proteins and involved in bacterial type III protein secretion systems. This family is homologous to, but distinguished from, flagellar biosynthetic protein FlhB (TIGRFAMs model TIGR00328). This model may not identify all type III secretion system FlhB homologs.
Probab=26.88 E-value=5.5e+02 Score=24.32 Aligned_cols=26 Identities=19% Similarity=0.285 Sum_probs=19.3
Q ss_pred ChhHHHHHHHHHHh-------cCCCCCceEEEe
Q 024000 216 EGELREKIEKLASS-------LKFPLKKLFVVD 241 (274)
Q Consensus 216 dg~L~~~I~~La~~-------~gf~~~~v~v~d 241 (274)
|++.|.|+.+++++ .++|-.+|.+.|
T Consensus 229 dP~iK~r~R~~~re~~~~~m~~~V~~AdVVitN 261 (342)
T TIGR01404 229 DPEIKSKRRELHQEILSEQLKSDVKRSTLVVAN 261 (342)
T ss_pred CHHHHHHHHHHHHHHHHhhhhccCCCCcEEEEC
Confidence 56677777777653 578888888877
No 66
>PF09973 DUF2208: Predicted membrane protein (DUF2208); InterPro: IPR009198 There are currently no experimental data for members of this group or their homologues. However, these proteins are predicted to contain three or more transmembrane segments.
Probab=26.62 E-value=4.8e+02 Score=23.51 Aligned_cols=25 Identities=16% Similarity=0.414 Sum_probs=18.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHh
Q 024000 5 YMEAVVGFMILMYFFETYLDLRQHA 29 (274)
Q Consensus 5 ~~~~~~~~~~~~~l~e~yL~~rq~~ 29 (274)
|..++++-.++-..+-.....|..|
T Consensus 25 ~~~~filYfiv~~~i~~~~~~Rs~r 49 (233)
T PF09973_consen 25 YFEVFILYFIVFFGIMIVMGIRSYR 49 (233)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhcc
Confidence 5566777777777777788888877
No 67
>COG1377 FlhB Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=26.56 E-value=5.9e+02 Score=24.54 Aligned_cols=102 Identities=13% Similarity=0.228 Sum_probs=52.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhH--------HHHHHHHHHHHHHHHHHHHHHhhhhcc--
Q 024000 140 FNKQTIWLFFRDMIKGMILAIVLGPPIVSAIIIIVQKGGPYLA--------IYLWAFMFVLSLVMMTLYPVLIAPLFN-- 209 (274)
Q Consensus 140 fn~~t~~~f~~D~~k~~~l~~vl~~~l~~~~~~i~~~~g~~ww--------l~~w~~~~~~~~~~~~l~P~~i~PLFn-- 209 (274)
|+-||...+++..+|..+++.+....+-.-.--+++..+...- +..+++..+..+++.+...-+.---++
T Consensus 138 Fs~~~~vEllKsllKi~~v~~v~~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~liia~~D~~~qr~~~~ 217 (363)
T COG1377 138 FSLQTLVELLKSLLKIVLVGLVAYFVLKNHLSELLSLAGQSPVAALSIFMELLGKLLLAVLLLLLIVAAFDYFYQRFQYI 217 (363)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666777777777777666555544444444444333211 222222222222222222222222221
Q ss_pred ------------cCccCC-ChhHHHHHHHHHHh-------cCCCCCceEEEe
Q 024000 210 ------------KFTPLP-EGELREKIEKLASS-------LKFPLKKLFVVD 241 (274)
Q Consensus 210 ------------kf~PL~-dg~L~~~I~~La~~-------~gf~~~~v~v~d 241 (274)
.++--| |++.|.|+.++++. ..+|-.+|-|.|
T Consensus 218 k~lkMtKqEVKdE~K~sEGdPeVKsr~Rq~~re~a~~rm~~~Vp~AdvVItN 269 (363)
T COG1377 218 KKLKMTKQEVKDEYKQSEGDPEVKSRIRQMQREIARRRMMSDVPKADVVITN 269 (363)
T ss_pred HHccCcHHHHHHHHhhccCChhhhHHHHHHHHHHHHHHHHhhCCCCCEEeeC
Confidence 122233 56778788777653 688999987777
No 68
>PF06170 DUF983: Protein of unknown function (DUF983); InterPro: IPR009325 This family consists of several bacterial proteins of unknown function.
Probab=26.34 E-value=2.9e+02 Score=20.84 Aligned_cols=46 Identities=13% Similarity=0.162 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcCchhHHHHHHHHHHHHHHHHHHHH
Q 024000 156 MILAIVLGPPIVSAIIIIVQKGGPYLAIYLWAFMFVLSLVMMTLYP 201 (274)
Q Consensus 156 ~~l~~vl~~~l~~~~~~i~~~~g~~wwl~~w~~~~~~~~~~~~l~P 201 (274)
..+..+.+.+++...+++...+..-+|+-+.+...+..+....+.|
T Consensus 29 ~fvi~ivg~ivv~~~l~~~~~~~pp~wv~~~i~~pl~~~l~l~lLr 74 (86)
T PF06170_consen 29 YFVILIVGHIVVPLALWVEMAFRPPLWVHLAIWLPLTLALSLLLLR 74 (86)
T ss_pred hHHHHHHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 4445666777777788888888777777666655555555554444
No 69
>cd02646 R3H_G-patch R3H domain of a group of fungal and plant proteins with unknown function, who also contain a G-patch domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the R3H domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=26.28 E-value=1.4e+02 Score=20.41 Aligned_cols=25 Identities=32% Similarity=0.527 Sum_probs=20.7
Q ss_pred cCccCCChhHHHHHHHHHHhcCCCCC
Q 024000 210 KFTPLPEGELREKIEKLASSLKFPLK 235 (274)
Q Consensus 210 kf~PL~dg~L~~~I~~La~~~gf~~~ 235 (274)
.|.|| +.+=|.-|.++|+..|...+
T Consensus 20 ~fppm-~~~~R~~vH~lA~~~~L~S~ 44 (58)
T cd02646 20 SFPPM-DKHGRKTIHKLANCYNLKSK 44 (58)
T ss_pred ecCCC-CHHHHHHHHHHHHHcCCccc
Confidence 67887 57789999999999998654
No 70
>cd02325 R3H R3H domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. R3H domains are found in proteins together with ATPase domains, SF1 helicase domains, SF2 DEAH helicase domains, Cys-rich repeats, ring-type zinc fingers, and KH domains. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=26.12 E-value=1.8e+02 Score=18.66 Aligned_cols=21 Identities=24% Similarity=0.347 Sum_probs=18.3
Q ss_pred cCccCCChhHHHHHHHHHHhcC
Q 024000 210 KFTPLPEGELREKIEKLASSLK 231 (274)
Q Consensus 210 kf~PL~dg~L~~~I~~La~~~g 231 (274)
.|.|+ +..-|.-+.++|+..|
T Consensus 21 ~~~p~-~~~~R~~vH~la~~~~ 41 (59)
T cd02325 21 ELPPM-NSYERKLIHDLAEYYG 41 (59)
T ss_pred EcCCC-CHHHHHHHHHHHHHCC
Confidence 56777 6889999999999999
No 71
>COG2257 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]
Probab=25.97 E-value=65 Score=24.76 Aligned_cols=20 Identities=35% Similarity=0.542 Sum_probs=18.5
Q ss_pred ChhHHHHHHHHHHhcCCCCC
Q 024000 216 EGELREKIEKLASSLKFPLK 235 (274)
Q Consensus 216 dg~L~~~I~~La~~~gf~~~ 235 (274)
.|++.++|.+.|++.|+|+.
T Consensus 30 ~G~iAe~II~~Ake~~Vpi~ 49 (92)
T COG2257 30 KGEIAEKIIEKAKEHGVPIQ 49 (92)
T ss_pred chHHHHHHHHHHHHcCCCcc
Confidence 58999999999999999985
No 72
>COG3216 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.80 E-value=2.3e+02 Score=24.57 Aligned_cols=70 Identities=14% Similarity=0.141 Sum_probs=42.8
Q ss_pred hhHHHHHHHHHHHHHHhcccchhhhhhheeecc----CC-----------CCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024000 105 ILHTLSFLAGVMLWSQLTDLPFSLYSTFVIEAR----HG-----------FNKQTIWLFFRDMIKGMILAIVLGPPIVSA 169 (274)
Q Consensus 105 ~~~~~~f~~~~~l~~~li~LPf~~Y~~f~le~k----yG-----------fn~~t~~~f~~D~~k~~~l~~vl~~~l~~~ 169 (274)
+..+++-.++.+.+.--+.+|+-+|.||.+-+- .+ +..+.+.....+.+|..+++.++.+.+..+
T Consensus 76 l~gNl~aAa~~t~l~NPlT~P~I~~~tyelG~~ll~~~~~s~~~~~l~~~~~~~el~~lw~P~l~pm~vgav~~~a~~~l 155 (184)
T COG3216 76 LRGNLVAAALGTWLANPLTMPFIWGATYELGAWLLQRPAQSVGPVHLTWMWQSLELSSLWGPVLKPMLVGAVPAGAIGGL 155 (184)
T ss_pred HhccHHHHHHHhHhcCCcccceeeeeeHhhhhHHhcCCCCCCCchHHHHHHHHhHHHHhcchHHHHHHHhhHHHHHHHHH
Confidence 344455566777777899999999999975321 11 122233445556667666666666655555
Q ss_pred HHHHH
Q 024000 170 IIIIV 174 (274)
Q Consensus 170 ~~~i~ 174 (274)
+.+..
T Consensus 156 l~y~~ 160 (184)
T COG3216 156 LFYGL 160 (184)
T ss_pred HHHHH
Confidence 55543
No 73
>PF12725 DUF3810: Protein of unknown function (DUF3810); InterPro: IPR024294 This family of bacterial proteins is functionally uncharacterised. Proteins in this family are typically between 333 and 377 amino acids in length and contain a conserved HEXXH sequence motif that is characteristic of metallopeptidases. This family may therefore belong to an as yet uncharacterised family of peptidase enzymes.
Probab=25.66 E-value=3.3e+02 Score=25.46 Aligned_cols=35 Identities=20% Similarity=0.210 Sum_probs=21.0
Q ss_pred HHHHHHHHhhhhcccC----ccCCChhHHHHHHHHHHhc
Q 024000 196 MMTLYPVLIAPLFNKF----TPLPEGELREKIEKLASSL 230 (274)
Q Consensus 196 ~~~l~P~~i~PLFnkf----~PL~dg~L~~~I~~La~~~ 230 (274)
+.|-....-.|+..+. +|..++||++-.+.+.+++
T Consensus 73 ~~WGlNY~R~pl~~~l~l~~~~~~~~eL~~l~~~li~~~ 111 (318)
T PF12725_consen 73 LLWGLNYYRPPLSERLGLETEEYSTEELKELTEYLIEKA 111 (318)
T ss_pred HHhhhhcCCcCHHHHcCCCCCCCCHHHHHHHHHHHHHHH
Confidence 3344455556777655 5677788776555555543
No 74
>PF02687 FtsX: FtsX-like permease family; InterPro: IPR003838 This domain is found in predicted permeases and hypothetical transmembrane proteins. P57382 from SWISSPROT has been shown to transport lipids targeted to the outer membrane across the inner membrane. Both P57382 and O54500 from SWISSPROT have been shown to require ATP. This domain contains three transmembrane helices.; GO: 0016020 membrane
Probab=25.61 E-value=2.8e+02 Score=20.46 Aligned_cols=45 Identities=18% Similarity=0.269 Sum_probs=32.6
Q ss_pred heeeccCCCCCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024000 132 FVIEARHGFNKQT-IWLFFRDMIKGMILAIVLGPPIVSAIIIIVQK 176 (274)
Q Consensus 132 f~le~kyGfn~~t-~~~f~~D~~k~~~l~~vl~~~l~~~~~~i~~~ 176 (274)
+.+-+.-|+++.. .+.++.+.+...+++.+++.++.........+
T Consensus 30 ~~il~~lG~s~~~i~~~~~~e~~~~~~~~~~~g~~~~~~~~~~~~~ 75 (121)
T PF02687_consen 30 IAILRALGASKRQIRKMFLYEALLIALIGILIGILLGILLIIFLIN 75 (121)
T ss_pred HHHHHHcCCChhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344557997666 67788888888888888887777777666543
No 75
>KOG2765 consensus Predicted membrane protein [Function unknown]
Probab=25.45 E-value=6.4e+02 Score=24.62 Aligned_cols=93 Identities=16% Similarity=0.158 Sum_probs=61.6
Q ss_pred chhHHHHHHHHHHHHHHhcccchhhhhhheeeccCCCCCCCH----------HHHHHHHHHHHHH----------HHHHH
Q 024000 104 EILHTLSFLAGVMLWSQLTDLPFSLYSTFVIEARHGFNKQTI----------WLFFRDMIKGMIL----------AIVLG 163 (274)
Q Consensus 104 ~~~~~~~f~~~~~l~~~li~LPf~~Y~~f~le~kyGfn~~t~----------~~f~~D~~k~~~l----------~~vl~ 163 (274)
+-.-.-+|+..+++++-++-.|.-+.-++-.||+|.+-+++- +.++.|++=...+ ++-+.
T Consensus 275 ~rvdi~lffGfvGLfnllllwP~l~iL~~~~~e~F~lP~~~q~~~vv~~~ligtvvSDylW~~a~~lTs~Lv~TlgmSlt 354 (416)
T KOG2765|consen 275 ERVDIQLFFGFVGLFNLLLLWPPLIILDFFGEERFELPSSTQFSLVVFNNLIGTVVSDYLWAKAVLLTSPLVVTLGMSLT 354 (416)
T ss_pred ccccHHHHHHHHHHHHHHHHhHHHHHHHHhccCcccCCCCceeEeeeHhhHHHHHHHHHHHHHHHHhccchhheeeeeEe
Confidence 334444789999999999999988888888999999977763 5666666532211 12233
Q ss_pred HHHHHHHHHHHHHcCchhHHHHHHHHHHHHHHH
Q 024000 164 PPIVSAIIIIVQKGGPYLAIYLWAFMFVLSLVM 196 (274)
Q Consensus 164 ~~l~~~~~~i~~~~g~~wwl~~w~~~~~~~~~~ 196 (274)
.|+....=.++|.-...|+.++....+.++++.
T Consensus 355 IPLA~~aD~l~k~~~~S~~~iiGsi~Ifv~Fv~ 387 (416)
T KOG2765|consen 355 IPLAMFADVLIKGKHPSALYIIGSIPIFVGFVI 387 (416)
T ss_pred eeHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhh
Confidence 455455556676666677777666666555543
No 76
>PF06181 DUF989: Protein of unknown function (DUF989); InterPro: IPR010389 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=25.37 E-value=1.9e+02 Score=26.99 Aligned_cols=81 Identities=12% Similarity=0.075 Sum_probs=55.6
Q ss_pred HHHHHHHHHHhcccchhhhhhheeeccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhHHHHHHHHH
Q 024000 111 FLAGVMLWSQLTDLPFSLYSTFVIEARHGFNKQTIWLFFRDMIKGMILAIVLGPPIVSAIIIIVQKGGPYLAIYLWAFMF 190 (274)
Q Consensus 111 f~~~~~l~~~li~LPf~~Y~~f~le~kyGfn~~t~~~f~~D~~k~~~l~~vl~~~l~~~~~~i~~~~g~~wwl~~w~~~~ 190 (274)
-....+..+..+++|.-..- +...|.+.-++...|+.- +.+.....+.==++-.|+.++..|.+.|...+
T Consensus 220 ~aklrS~hN~ylTlPvLf~M---iSnHyp~~y~~~~nWlil-------~li~~~g~~IRhfFn~rH~~~~~~~~~~~~~~ 289 (300)
T PF06181_consen 220 RAKLRSRHNNYLTLPVLFLM---ISNHYPMTYGHPYNWLIL-------ALIMLAGALIRHFFNLRHAGKGKPWWTWAGAA 289 (300)
T ss_pred HHHHHhhhcceeHHHHHHHH---HhccCccccccchhHHHH-------HHHHHHHHHHHHHHHHhhccCCCCchHHHHHH
Confidence 34455788889999987764 678899888888888632 23333333344466778888888888888877
Q ss_pred HHHHHHHHHHH
Q 024000 191 VLSLVMMTLYP 201 (274)
Q Consensus 191 ~~~~~~~~l~P 201 (274)
+...+..++.|
T Consensus 290 ~l~~~~~~~~p 300 (300)
T PF06181_consen 290 LLFALAVWLSP 300 (300)
T ss_pred HHHHHHHhcCC
Confidence 77666665544
No 77
>TIGR03434 ADOP Acidobacterial duplicated orphan permease. Members of this protein family are found, so far, only in three species of Acidobacteria, namely Acidobacteria bacterium Ellin345, Acidobacterium capsulatum ATCC 51196, and Solibacter usitatus Ellin6076, where they form large paralogous families. Each protein contains two copies of a domain called the efflux ABC transporter permease protein (pfam02687). However, unlike other members of that family (including LolC, FtsX, and MacB), genes for these proteins are essentially never found fused or adjacent to ABC transporter ATP-binding protein (pfam00005) genes. We name this family ADOP, for Acidobacterial Duplicated Orphan Permease, to reflect the restricted lineage, internal duplication, lack of associated ATP-binding cassette proteins, and permease homology. The function is unknown.
Probab=25.13 E-value=6.3e+02 Score=26.13 Aligned_cols=101 Identities=10% Similarity=0.019 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHHHhcccchhhhhhheeeccCCCCCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc------
Q 024000 105 ILHTLSFLAGVMLWSQLTDLPFSLYSTFVIEARHGFNKQT-IWLFFRDMIKGMILAIVLGPPIVSAIIIIVQKG------ 177 (274)
Q Consensus 105 ~~~~~~f~~~~~l~~~li~LPf~~Y~~f~le~kyGfn~~t-~~~f~~D~~k~~~l~~vl~~~l~~~~~~i~~~~------ 177 (274)
....++++.++.+.+....-=-.=-..+-+.+..|.++.. ...++.+.+.-.+++.++|..+..++...+...
T Consensus 277 ~~~~~l~ia~~~~~n~~~~~~~~R~~ei~i~kalGa~~~~i~~~~l~E~~~l~~~~~~lg~~l~~~~~~~~~~~~~~~~~ 356 (803)
T TIGR03434 277 AVGLVLLIACANVANLLLARAAARQREIAVRLALGAGRGRLVRQLLTESLLLALAGGALGLLLAYWGLRLLLALLPASLP 356 (803)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCccccc
Q ss_pred ------CchhHHHHHHHHHHHHHHHHHHHHHHhh
Q 024000 178 ------GPYLAIYLWAFMFVLSLVMMTLYPVLIA 205 (274)
Q Consensus 178 ------g~~wwl~~w~~~~~~~~~~~~l~P~~i~ 205 (274)
...+.+...++..++..++.-++|...+
T Consensus 357 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~p~~~~ 390 (803)
T TIGR03434 357 RLAEISLDGRVLLFALALSLLTGLLFGLAPALQA 390 (803)
T ss_pred cceecccCHHHHHHHHHHHHHHHHHHHHHHHHHH
No 78
>PF13239 2TM: 2TM domain
Probab=24.95 E-value=2.8e+02 Score=20.25 Aligned_cols=9 Identities=44% Similarity=0.597 Sum_probs=4.6
Q ss_pred HHHHHHHHh
Q 024000 221 EKIEKLASS 229 (274)
Q Consensus 221 ~~I~~La~~ 229 (274)
++|+++++|
T Consensus 75 rki~k~m~k 83 (83)
T PF13239_consen 75 RKIQKLMEK 83 (83)
T ss_pred HHHHHHhcC
Confidence 455555543
No 79
>PF09753 Use1: Membrane fusion protein Use1; InterPro: IPR019150 This entry represents a family of proteins, approximately 300 residues in length, involved in vesicle transport. They have a single C-terminal transmembrane domain and a SNARE [soluble NSF (N-ethylmaleimide-sensitive fusion protein) attachment protein receptor] domain of approximately 60 residues. The SNARE domains are essential for membrane fusion and are conserved from yeasts to humans. Use1 is one of the three protein subunits that make up the SNARE complex and it is specifically required for Golgi-endoplasmic reticulum retrograde transport [].
Probab=24.68 E-value=88 Score=28.05 Aligned_cols=19 Identities=26% Similarity=0.560 Sum_probs=12.4
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 024000 181 LAIYLWAFMFVLSLVMMTL 199 (274)
Q Consensus 181 wwl~~w~~~~~~~~~~~~l 199 (274)
||.|+.++++++.++++++
T Consensus 228 ~~~~~~i~~v~~~Fi~mvl 246 (251)
T PF09753_consen 228 CWTWLMIFVVIIVFIMMVL 246 (251)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 8887766666666555544
No 80
>COG3965 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]
Probab=24.52 E-value=3.6e+02 Score=25.03 Aligned_cols=96 Identities=23% Similarity=0.304 Sum_probs=51.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHcCchhHHHHHHHHHHHHHHHHHHHHHHhhhhcc-------
Q 024000 139 GFNKQTIWLFFRDMIKGMILAIVLGPPIVSAII--IIVQKGGPYLAIYLWAFMFVLSLVMMTLYPVLIAPLFN------- 209 (274)
Q Consensus 139 Gfn~~t~~~f~~D~~k~~~l~~vl~~~l~~~~~--~i~~~~g~~wwl~~w~~~~~~~~~~~~l~P~~i~PLFn------- 209 (274)
+.||.-+..++.-..|+...+..++..+..++. |.++.++.. |+...+=-.++.+....+-| .|+=+
T Consensus 147 r~nrr~~s~lIald~kqW~Mst~lS~al~VaF~~a~~l~~T~~a-~l~~Y~DPmvlaL~~~v~Ip---lPlg~vk~al~e 222 (314)
T COG3965 147 RLNRRLKSPLIALDTKQWLMSTCLSAALFVAFAAAWLLAGTKFA-HLVVYADPMVLALVCLVFIP---LPLGTVKSALRE 222 (314)
T ss_pred hhhccCCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHhccCchh-hhhcccCHHHHHHHHHheee---ccHHHHHHHHHH
Confidence 456666667777777777777777776666655 444433322 22222222222222222222 12111
Q ss_pred --cCccCCChhHHHHHHHHH----HhcCCCCCceEEEe
Q 024000 210 --KFTPLPEGELREKIEKLA----SSLKFPLKKLFVVD 241 (274)
Q Consensus 210 --kf~PL~dg~L~~~I~~La----~~~gf~~~~v~v~d 241 (274)
..+|. |++++||..+ +|.||+..++|+-.
T Consensus 223 iLlmtP~---el~q~ies~~~~~v~k~~f~~~~~yvAr 257 (314)
T COG3965 223 ILLMTPN---ELQQSIESHAHEIVEKYGFPSYHVYVAR 257 (314)
T ss_pred HHhcCcH---HHHHHHHHHHHHHHHHhcCchHHHHHHH
Confidence 23343 6776666554 67899988887544
No 81
>PRK05702 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=24.17 E-value=6.4e+02 Score=24.11 Aligned_cols=26 Identities=15% Similarity=0.413 Sum_probs=19.5
Q ss_pred ChhHHHHHHHHHHh-------cCCCCCceEEEe
Q 024000 216 EGELREKIEKLASS-------LKFPLKKLFVVD 241 (274)
Q Consensus 216 dg~L~~~I~~La~~-------~gf~~~~v~v~d 241 (274)
|+++|.++.+++++ .++|-.+|.+.|
T Consensus 237 dP~iK~rrR~~~re~a~~~m~~~V~~AdVVItN 269 (359)
T PRK05702 237 DPEVKGRIRQLQREMARRRMMAAVPKADVVITN 269 (359)
T ss_pred CHHHHHHHHHHHHHHHHhHHhhcCCCCcEEEEC
Confidence 46677777777664 578999998888
No 82
>COG2270 Permeases of the major facilitator superfamily [General function prediction only]
Probab=24.11 E-value=3.8e+02 Score=26.50 Aligned_cols=31 Identities=13% Similarity=0.116 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHhcccchhhhhhheeeccCCCC
Q 024000 110 SFLAGVMLWSQLTDLPFSLYSTFVIEARHGFN 141 (274)
Q Consensus 110 ~f~~~~~l~~~li~LPf~~Y~~f~le~kyGfn 141 (274)
.=+..+.+..+++..|..+...| +++|+|-+
T Consensus 288 ~~lll~g~~~~vvA~lg~ii~g~-Ld~rfg~k 318 (438)
T COG2270 288 TELLLIGIALSVVAALGAIIAGF-LDERFGSK 318 (438)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-HHHHhCCc
Confidence 34566777888889999999995 89999977
No 83
>PF10642 Tom5: Mitochondrial import receptor subunit or translocase; InterPro: IPR019603 This entry represents a short family of yeast proteins. Tom5 is one of three very small translocases of the mitochondrial outer membrane. Tom5 links mitochondrial preprotein receptors to the general import pore []. Although Tom5 has allegedly been identified in vertebrates this could not be confirmed.
Probab=24.01 E-value=2.4e+02 Score=19.13 Aligned_cols=39 Identities=13% Similarity=0.063 Sum_probs=25.0
Q ss_pred cCCHHHHHHHHHHhhhhhhHHhHHHHHHHHHHHHHHHhchHHHHHhhhh
Q 024000 43 VISQEKFEKSRGYSLDKSHFHFVHEFVTILMDSAILLFRILPWFWKKSG 91 (274)
Q Consensus 43 ~~~~e~~~ka~~Y~~~k~~~~~~~~~~~~~~~~~~l~~g~~~~lw~~~~ 91 (274)
-.|+|+.+.+++++....+- .+...+.|+ +.|..|+...
T Consensus 8 qpS~eE~k~~e~~A~~Tvk~--------a~~~a~~Ly--lsP~~~~~vk 46 (49)
T PF10642_consen 8 QPSEEEIKAAEAQANFTVKN--------AAAAAALLY--LSPFAIDFVK 46 (49)
T ss_pred CCCHHHHHHHHHHHHHHHHH--------HHHHHHHHH--HhHHHHHHHH
Confidence 36899999999998775443 233333333 5688886543
No 84
>PF00535 Glycos_transf_2: Glycosyl transferase family 2; InterPro: IPR001173 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. This domain is found in a diverse family of glycosyl transferases that transfer the sugar from UDP-glucose, UDP-N-acetyl-galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose, dolichol phosphate and teichoic acids.; PDB: 2Z87_A 2Z86_B 2D7R_A 2D7I_A 3CKN_A 3CKQ_A 3CKJ_A 3CKV_A 3CKO_A 2FFU_A ....
Probab=23.99 E-value=64 Score=24.92 Aligned_cols=36 Identities=25% Similarity=0.426 Sum_probs=27.5
Q ss_pred HhhhhcccCccCCChhHHHHHHHHHHhcCCCCCceEEEeCCC
Q 024000 203 LIAPLFNKFTPLPEGELREKIEKLASSLKFPLKKLFVVDGST 244 (274)
Q Consensus 203 ~i~PLFnkf~PL~dg~L~~~I~~La~~~gf~~~~v~v~d~S~ 244 (274)
++.|.+|+ .+.|++-++.+.+. ..+..+|.|+|.+.
T Consensus 2 vvip~~n~-----~~~l~~~l~sl~~q-~~~~~eiivvdd~s 37 (169)
T PF00535_consen 2 VVIPTYNE-----AEYLERTLESLLKQ-TDPDFEIIVVDDGS 37 (169)
T ss_dssp EEEEESS------TTTHHHHHHHHHHH-SGCEEEEEEEECS-
T ss_pred EEEEeeCC-----HHHHHHHHHHHhhc-cCCCEEEEEecccc
Confidence 35677775 56788999999988 77778899999887
No 85
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=23.83 E-value=67 Score=30.44 Aligned_cols=34 Identities=26% Similarity=0.536 Sum_probs=29.3
Q ss_pred Hhhhhc-----ccCccCCChhHHHHHHHHHHhcCCCCCc
Q 024000 203 LIAPLF-----NKFTPLPEGELREKIEKLASSLKFPLKK 236 (274)
Q Consensus 203 ~i~PLF-----nkf~PL~dg~L~~~I~~La~~~gf~~~~ 236 (274)
+|.|+- .+|+||+|.+.-++++..|.+.|++.++
T Consensus 172 ii~pi~SRC~KfrFk~L~d~~iv~rL~~Ia~~E~v~~d~ 210 (346)
T KOG0989|consen 172 IIRPLVSRCQKFRFKKLKDEDIVDRLEKIASKEGVDIDD 210 (346)
T ss_pred CChHHHhhHHHhcCCCcchHHHHHHHHHHHHHhCCCCCH
Confidence 445554 5899999999999999999999999876
No 86
>PRK00523 hypothetical protein; Provisional
Probab=23.73 E-value=2.8e+02 Score=20.35 Aligned_cols=29 Identities=7% Similarity=0.076 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhcCCCCC
Q 024000 9 VVGFMILMYFFETYLDLRQHAALKLPKLP 37 (274)
Q Consensus 9 ~~~~~~~~~l~e~yL~~rq~~~~~~~~vP 37 (274)
.+..++...+.-.|+..|+.+.+-+++||
T Consensus 11 ~i~~li~G~~~Gffiark~~~k~l~~NPp 39 (72)
T PRK00523 11 GIPLLIVGGIIGYFVSKKMFKKQIRENPP 39 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCcC
Confidence 34445556667778999998887766666
No 87
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=23.51 E-value=2.2e+02 Score=21.03 Aligned_cols=42 Identities=14% Similarity=0.323 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHhhhhcc----cCccCCChhHHHHHHHHHHhc
Q 024000 188 FMFVLSLVMMTLYPVLIAPLFN----KFTPLPEGELREKIEKLASSL 230 (274)
Q Consensus 188 ~~~~~~~~~~~l~P~~i~PLFn----kf~PL~dg~L~~~I~~La~~~ 230 (274)
+++++.+++.++.|+.+.=-+. .-.-|.++| ++++++|.+++
T Consensus 6 l~~plivf~ifVap~WL~lHY~sk~~~~~gLs~~d-~~~L~~L~~~a 51 (75)
T PF06667_consen 6 LFVPLIVFMIFVAPIWLILHYRSKWKSSQGLSEED-EQRLQELYEQA 51 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcccCCCCCHHH-HHHHHHHHHHH
Confidence 4455566666777766542221 223354433 55666665554
No 88
>PF11337 DUF3139: Protein of unknown function (DUF3139); InterPro: IPR021486 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=23.16 E-value=1.1e+02 Score=22.61 Aligned_cols=43 Identities=7% Similarity=0.070 Sum_probs=33.7
Q ss_pred hcccCccCCChhHHHHHHHHHHhcCCCCCceEEEeCCCCCCCcc
Q 024000 207 LFNKFTPLPEGELREKIEKLASSLKFPLKKLFVVDGSTRSSHSN 250 (274)
Q Consensus 207 LFnkf~PL~dg~L~~~I~~La~~~gf~~~~v~v~d~S~rs~~sN 250 (274)
.|+...|.+..+..+++....++-|.+-++|-.++ ...+...+
T Consensus 24 ~~~~~~~~~k~~~~k~i~~yL~e~gy~e~~I~~i~-~~~~~k~g 66 (85)
T PF11337_consen 24 YFFNGNPYQKHKAEKAIDWYLQEQGYKESDIKSIK-IKYDYKKG 66 (85)
T ss_pred HhhcCchhhHHHHHHHHHHHHHHcCCcHHHhhhhh-heeecccC
Confidence 55677899999999999999999999999997666 33334433
No 89
>PF03186 CobD_Cbib: CobD/Cbib protein; InterPro: IPR004485 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents the CbiB protein, which is involved in cobalamin biosynthesis and porphyrin biosynthesis. It converts cobyric acid to cobinamide by the addition of aminopropanol on the F carboxylic group. It is part of the cob operon [].; GO: 0009236 cobalamin biosynthetic process, 0016021 integral to membrane
Probab=22.71 E-value=2.5e+02 Score=25.84 Aligned_cols=28 Identities=11% Similarity=0.189 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHc
Q 024000 150 RDMIKGMILAIVLGPPIVSAIIIIVQKG 177 (274)
Q Consensus 150 ~D~~k~~~l~~vl~~~l~~~~~~i~~~~ 177 (274)
.+.+.+.+..++...|...+...+....
T Consensus 44 ~~~~~G~l~~l~~v~~~~~~~~~l~~~~ 71 (295)
T PF03186_consen 44 QQRIAGILAWLLVVLPVLLVAWALLYLL 71 (295)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666666655555555555554443
No 90
>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=22.49 E-value=5.1e+02 Score=26.80 Aligned_cols=48 Identities=13% Similarity=0.197 Sum_probs=23.5
Q ss_pred chhhhhhheeeccCCCCCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 024000 125 PFSLYSTFVIEARHGFNKQT-IWLFFRDMIKGMILAIVLGPPIVSAIII 172 (274)
Q Consensus 125 Pf~~Y~~f~le~kyGfn~~t-~~~f~~D~~k~~~l~~vl~~~l~~~~~~ 172 (274)
...-+.+--+++-+|+++-. +..-+...++-.+++.+....+..++++
T Consensus 188 ~~~~~K~~gI~rL~G~s~~~I~~~~l~~~~~~~~l~~l~~~i~~~~~~~ 236 (679)
T TIGR01654 188 LMINMKRVAIYRLNGFSLRKILFRLFSKNCTYLLISALLILLLSSFLLF 236 (679)
T ss_pred HHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445666678889986443 2333333333333444444433333333
No 91
>PF15599 Imm38: Immunity protein 38
Probab=22.48 E-value=1.2e+02 Score=24.22 Aligned_cols=24 Identities=25% Similarity=0.390 Sum_probs=19.8
Q ss_pred hhHHHHHHHHHHhcCCCCCceEEE
Q 024000 217 GELREKIEKLASSLKFPLKKLFVV 240 (274)
Q Consensus 217 g~L~~~I~~La~~~gf~~~~v~v~ 240 (274)
++|+++|.+++.|.|.|-..+-..
T Consensus 1 ~elk~~i~~l~~k~g~~~~~~~~~ 24 (124)
T PF15599_consen 1 EELKAEIDELARKIGAPDNEYPLF 24 (124)
T ss_pred ChHHHHHHHHHHHhCCCccccccc
Confidence 479999999999999999654433
No 92
>PF14671 DSPn: Dual specificity protein phosphatase, N-terminal half; PDB: 1OHD_A 1OHE_A 1OHC_A.
Probab=22.32 E-value=25 Score=29.15 Aligned_cols=49 Identities=24% Similarity=0.303 Sum_probs=31.9
Q ss_pred hhhcccCccCCChhHH---HHHHHHHHhcCCCCCceEEEeCCCCCCCcceee
Q 024000 205 APLFNKFTPLPEGELR---EKIEKLASSLKFPLKKLFVVDGSTRSSHSNAYM 253 (274)
Q Consensus 205 ~PLFnkf~PL~dg~L~---~~I~~La~~~gf~~~~v~v~d~S~rs~~sNAyf 253 (274)
.|.|..|-||.=+.+. .+++++.++....-++|....++...+++||.+
T Consensus 35 ~~F~~DFGPlnL~~lyrfc~~l~~~L~~~~~~~k~iv~yts~d~~kRaNAA~ 86 (141)
T PF14671_consen 35 ENFYADFGPLNLAQLYRFCCKLNKKLKSPELKKKKIVHYTSSDPKKRANAAF 86 (141)
T ss_dssp --SSS------HHHHHHHHHHHHHHHH-GGGTTSEEEEEE-S-HHHHHHHHH
T ss_pred ecccCcCCCccHHHHHHHHHHHHHHHcCHHhcCCeEEEECCCChhHHHHHHH
Confidence 5788999999988877 678888888888889999999888889999854
No 93
>cd06007 R3H_DEXH_helicase R3H domain of a group of proteins which also contain a DEXH-box helicase domain, and may function as ATP-dependent DNA or RNA helicases. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=22.19 E-value=1.9e+02 Score=20.15 Aligned_cols=38 Identities=29% Similarity=0.435 Sum_probs=28.2
Q ss_pred cCcc-CCChhHHHHHHHHHHhcCCCCCceEEEeCCCCCCCcceeeeCCCCCceEeee
Q 024000 210 KFTP-LPEGELREKIEKLASSLKFPLKKLFVVDGSTRSSHSNAYMYGFFKNKRIVLY 265 (274)
Q Consensus 210 kf~P-L~dg~L~~~I~~La~~~gf~~~~v~v~d~S~rs~~sNAyf~G~g~~kRIVL~ 265 (274)
.|.| |. .+=|.-|.++|++.|...+. .|-|..++++++
T Consensus 20 ~Fpp~ls-~~eR~~vH~~a~~~gL~s~S-----------------~G~g~~R~v~v~ 58 (59)
T cd06007 20 EFPSSLT-NHERAVIHRLCRKLGLKSKS-----------------KGKGSNRRLSVY 58 (59)
T ss_pred EcCCCCC-HHHHHHHHHHHHHcCCCcee-----------------ecCCCCeEEEEe
Confidence 4666 54 55699999999999987541 466888888775
No 94
>PF07747 MTH865: MTH865-like family; InterPro: IPR024093 This entry represents a group of uncharacterised hypothetical proteins from archaea, including the 8.4 kDa protein MTH865 from Methanobacterium thermoautotrophicum. The NMR structure of MTH865 reveals an EF-Hand-like fold consisting of four helices in two hairpins [].; PDB: 1IIO_A.
Probab=22.06 E-value=66 Score=23.83 Aligned_cols=20 Identities=30% Similarity=0.522 Sum_probs=18.1
Q ss_pred hhHHHHHHHHHHhcCCCCCc
Q 024000 217 GELREKIEKLASSLKFPLKK 236 (274)
Q Consensus 217 g~L~~~I~~La~~~gf~~~~ 236 (274)
+|+|++|.+-.+.++||+++
T Consensus 1 ~elk~qi~~a~~~a~FPI~s 20 (75)
T PF07747_consen 1 EELKAQIVEAFKGADFPIKS 20 (75)
T ss_dssp HHHHHHHHHHHTTSSSTTBH
T ss_pred ChHHHHHHHHHhcCCCCCCC
Confidence 47999999999999999986
No 95
>cd03390 PAP2_containing_1_like PAP2, subfamily similar to human phosphatidic_acid_phosphatase_type_2_domain_containing_1. Most likely membrane-associated phosphatidic acid phosphatases. Plant members of this group are constitutively expressed in many tissues and exhibit both diacylglycerol pyrophosphate phosphatase activity as well as phosphatidate (PA) phosphatase activity, they may have a more generic housekeeping role in lipid metabolism.
Probab=22.04 E-value=4.9e+02 Score=22.00 Aligned_cols=34 Identities=9% Similarity=0.054 Sum_probs=22.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhhhcccCccC
Q 024000 181 LAIYLWAFMFVLSLVMMTLYPVLIAPLFNKFTPL 214 (274)
Q Consensus 181 wwl~~w~~~~~~~~~~~~l~P~~i~PLFnkf~PL 214 (274)
|-.+.++....+++....+.-.++.+.+.+.+|-
T Consensus 42 ~~~~~~~~~~~~~~~~~~~~~~~lK~~~~r~RP~ 75 (193)
T cd03390 42 WDLHTSLLGLLLSVSLNGVITNVLKNYAGRPRPD 75 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCc
Confidence 3344455555566666666667778889999994
No 96
>TIGR00789 flhB_rel flhB C-terminus-related protein. This model describes a short protein (80-93 residues) homologous to the C-terminus of the flagellar biosynthetic protein FlhB. It is found so far only in species that also have FlhB. In a phylogenetic tree based on alignment of both this family and the homologous region of FlhB and its homologs, the members of this family form a monophyletic set.
Probab=21.90 E-value=69 Score=23.99 Aligned_cols=19 Identities=32% Similarity=0.564 Sum_probs=17.6
Q ss_pred ChhHHHHHHHHHHhcCCCC
Q 024000 216 EGELREKIEKLASSLKFPL 234 (274)
Q Consensus 216 dg~L~~~I~~La~~~gf~~ 234 (274)
.|++-++|.++|++.|+|+
T Consensus 25 ~g~~A~~I~~~A~e~~VPi 43 (82)
T TIGR00789 25 VGEVAERIIEIAKKHGIPI 43 (82)
T ss_pred CCHHHHHHHHHHHHcCCCE
Confidence 4889999999999999996
No 97
>PF09851 SHOCT: Short C-terminal domain; InterPro: IPR018649 This family of hypothetical prokaryotic proteins has no known function.
Probab=21.88 E-value=78 Score=19.02 Aligned_cols=14 Identities=36% Similarity=0.764 Sum_probs=11.3
Q ss_pred cccCCHHHHHHHHH
Q 024000 41 EGVISQEKFEKSRG 54 (274)
Q Consensus 41 ~~~~~~e~~~ka~~ 54 (274)
+|.+|+|+|++.++
T Consensus 14 ~G~IseeEy~~~k~ 27 (31)
T PF09851_consen 14 KGEISEEEYEQKKA 27 (31)
T ss_pred cCCCCHHHHHHHHH
Confidence 47899999988764
No 98
>TIGR03107 glu_aminopep glutamyl aminopeptidase. This model represents the M42.001 clade within MEROPS family M42. M42 includes glutamyl aminopeptidase as in the present model, deblocking aminopeptidases as from Pyrococcus horikoshii and related species, and endo-1,4-beta-glucanase (cellulase M) as from Clostridium thermocellum. The current family includes
Probab=21.77 E-value=71 Score=30.37 Aligned_cols=43 Identities=7% Similarity=-0.001 Sum_probs=31.1
Q ss_pred CccCCChhHHHHHHHHHHhcCCCCCceEEEeCCCCCCCccee-eeCCC
Q 024000 211 FTPLPEGELREKIEKLASSLKFPLKKLFVVDGSTRSSHSNAY-MYGFF 257 (274)
Q Consensus 211 f~PL~dg~L~~~I~~La~~~gf~~~~v~v~d~S~rs~~sNAy-f~G~g 257 (274)
-.++.+..++++++++|++.|+|... +... ..+.+||+ ++|-|
T Consensus 259 ~~~i~~~~l~~~l~~~A~~~~I~~Q~-~~~~---gGtDa~~~~~~~~G 302 (350)
T TIGR03107 259 PGHIMLPRMKDFLLTTAEEAGIKYQY-YVAK---GGTDAGAAHLKNSG 302 (350)
T ss_pred CCCCCCHHHHHHHHHHHHHcCCCcEE-ecCC---CCchHHHHHHhCCC
Confidence 37888999999999999999999875 3222 35666654 44444
No 99
>COG3305 Predicted membrane protein [Function unknown]
Probab=21.70 E-value=4.6e+02 Score=21.62 Aligned_cols=29 Identities=17% Similarity=0.135 Sum_probs=21.5
Q ss_pred hhHHHHHHHHHHHHHHhcccchhhhhhhe
Q 024000 105 ILHTLSFLAGVMLWSQLTDLPFSLYSTFV 133 (274)
Q Consensus 105 ~~~~~~f~~~~~l~~~li~LPf~~Y~~f~ 133 (274)
.++....--.+.+++.-+.|||+.|+-+.
T Consensus 89 LW~~k~W~e~fa~vs~aIyLPfeVy~l~~ 117 (152)
T COG3305 89 LWLLKRWGEYFAVVSTAIYLPFEVYDLAK 117 (152)
T ss_pred HHHHHHHHHHHHHHHHhhhcchHHHHHHc
Confidence 34444455567788999999999998773
No 100
>PF01863 DUF45: Protein of unknown function DUF45; InterPro: IPR002725 Members of this family are found in some archaebacteria, as well as Helicobacter pylori. The proteins are 190-240 amino acids long, with the C terminus being the most conserved region, containing three conserved histidines.
Probab=21.70 E-value=1.4e+02 Score=25.35 Aligned_cols=46 Identities=28% Similarity=0.387 Sum_probs=34.8
Q ss_pred ChhHHHHHHHHHHhcCCCCCceEEEeCCCCCCCcceeeeCCCC-CceEeeehhhh
Q 024000 216 EGELREKIEKLASSLKFPLKKLFVVDGSTRSSHSNAYMYGFFK-NKRIVLYDTLI 269 (274)
Q Consensus 216 dg~L~~~I~~La~~~gf~~~~v~v~d~S~rs~~sNAyf~G~g~-~kRIVL~DTLl 269 (274)
...+.+++...+++.|.+..+|.+-+..+| +|.|. +++|-+.-.|+
T Consensus 111 ~~~l~~~~~~~~~~~~~~~~~i~ir~~ksr--------WGsc~~~~~I~ln~~L~ 157 (205)
T PF01863_consen 111 KEYLPERLKKYAKKLGLPPPKIKIRDMKSR--------WGSCSSKGNITLNWRLV 157 (205)
T ss_pred HHHHHHHHHHHHHHcCCCcceEEEeehhhc--------cccCCCCCcEEeecccc
Confidence 356788889999999999999999998877 66664 44565554444
No 101
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=21.51 E-value=1e+02 Score=20.16 Aligned_cols=21 Identities=29% Similarity=0.477 Sum_probs=14.5
Q ss_pred CChhHHHHH---------HHHHHhcCCCCC
Q 024000 215 PEGELREKI---------EKLASSLKFPLK 235 (274)
Q Consensus 215 ~dg~L~~~I---------~~La~~~gf~~~ 235 (274)
+|++||+++ .++|++.||...
T Consensus 15 ~d~~l~~~l~~~~~~~e~~~lA~~~Gy~ft 44 (49)
T PF07862_consen 15 SDPELREQLKACQNPEEVVALAREAGYDFT 44 (49)
T ss_pred cCHHHHHHHHhcCCHHHHHHHHHHcCCCCC
Confidence 466666554 458899998865
No 102
>PF13721 SecD-TM1: SecD export protein N-terminal TM region
Probab=21.41 E-value=3.6e+02 Score=20.78 Aligned_cols=21 Identities=10% Similarity=0.071 Sum_probs=18.2
Q ss_pred HHHHHHHHhcCCCCCceEEEe
Q 024000 221 EKIEKLASSLKFPLKKLFVVD 241 (274)
Q Consensus 221 ~~I~~La~~~gf~~~~v~v~d 241 (274)
+++++..++.|++.+++..-+
T Consensus 49 ~~v~~~L~~~~I~~k~i~~~~ 69 (101)
T PF13721_consen 49 FQVEQALKAAGIAVKSIEQEG 69 (101)
T ss_pred HHHHHHHHHCCCCcceEEeeC
Confidence 699999999999999986544
No 103
>PTZ00450 macrophage migration inhibitory factor-like protein; Provisional
Probab=21.41 E-value=89 Score=24.71 Aligned_cols=34 Identities=12% Similarity=0.281 Sum_probs=25.1
Q ss_pred ccCccCCChhHHHHHHHHH-HhcCCCCCceEEEeC
Q 024000 209 NKFTPLPEGELREKIEKLA-SSLKFPLKKLFVVDG 242 (274)
Q Consensus 209 nkf~PL~dg~L~~~I~~La-~~~gf~~~~v~v~d~ 242 (274)
++..|=+..++-.+|.++. ++.|+|.++||+-=.
T Consensus 67 G~~~~~~n~~~s~~i~~~l~~~LgIp~dRiYI~f~ 101 (113)
T PTZ00450 67 GEYAPSKPKMMTPRITAAITKECGIPAERIYVFYY 101 (113)
T ss_pred cCcCHHHHHHHHHHHHHHHHHHcCCCcccEEEEEE
Confidence 4455545567888888875 478999999998643
No 104
>PRK09509 fieF ferrous iron efflux protein F; Reviewed
Probab=21.34 E-value=6.3e+02 Score=22.99 Aligned_cols=25 Identities=20% Similarity=0.155 Sum_probs=16.6
Q ss_pred CChhHHHHHHHHHHhc-CC-CCCceEE
Q 024000 215 PEGELREKIEKLASSL-KF-PLKKLFV 239 (274)
Q Consensus 215 ~dg~L~~~I~~La~~~-gf-~~~~v~v 239 (274)
+|+|..++|++.+++. |. .++++.+
T Consensus 210 ~~~~~~~~I~~~i~~~~~v~~v~~l~~ 236 (299)
T PRK09509 210 LPDEERQEIIDIVTSWPGVSGAHDLRT 236 (299)
T ss_pred CCHHHHHHHHHHHHhCCCCcCceeeee
Confidence 4677899999999875 32 3344444
No 105
>COG3641 PfoR Predicted membrane protein, putative toxin regulator [General function prediction only]
Probab=21.31 E-value=6.2e+02 Score=24.09 Aligned_cols=41 Identities=22% Similarity=0.332 Sum_probs=36.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCch
Q 024000 140 FNKQTIWLFFRDMIKGMILAIVLGPPIVSAIIIIVQKGGPY 180 (274)
Q Consensus 140 fn~~t~~~f~~D~~k~~~l~~vl~~~l~~~~~~i~~~~g~~ 180 (274)
.+|.|++.|++|.+-+...+.+++..--.++=.+.|..++.
T Consensus 3 ~~~~~~k~fm~~~l~~~~~giv~gLvp~ailG~ilk~i~~~ 43 (348)
T COG3641 3 TKKKTPKQFMKKILNGALAGIVIGLVPNAILGLILKTIGDN 43 (348)
T ss_pred ccccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhccc
Confidence 36889999999999999999999988888888888888884
No 106
>PRK01844 hypothetical protein; Provisional
Probab=21.27 E-value=3.3e+02 Score=20.01 Aligned_cols=28 Identities=7% Similarity=0.008 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhcCCCCC
Q 024000 10 VGFMILMYFFETYLDLRQHAALKLPKLP 37 (274)
Q Consensus 10 ~~~~~~~~l~e~yL~~rq~~~~~~~~vP 37 (274)
+..+++..+.-.|+..|+.+.+-+++||
T Consensus 11 I~~li~G~~~Gff~ark~~~k~lk~NPp 38 (72)
T PRK01844 11 VVALVAGVALGFFIARKYMMNYLQKNPP 38 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCC
Confidence 4455556677778999998887777666
No 107
>PF04505 Dispanin: Interferon-induced transmembrane protein; InterPro: IPR007593 This family includes the human leukocyte antigen CD225, which is an interferon inducible transmembrane protein, and is associated with interferon induced cell growth suppression [].; GO: 0009607 response to biotic stimulus, 0016021 integral to membrane
Probab=21.19 E-value=57 Score=24.29 Aligned_cols=30 Identities=13% Similarity=0.258 Sum_probs=22.7
Q ss_pred CHHHHHHHHHHhhhhhhHHhHHHHHHHHHH
Q 024000 45 SQEKFEKSRGYSLDKSHFHFVHEFVTILMD 74 (274)
Q Consensus 45 ~~e~~~ka~~Y~~~k~~~~~~~~~~~~~~~ 74 (274)
...+++.|+++++...+++.+...+..+..
T Consensus 49 ~~Gd~~~A~~aS~~Ak~~~~ia~~~g~~~~ 78 (82)
T PF04505_consen 49 AAGDYEGARRASRKAKKWSIIAIIIGIVII 78 (82)
T ss_pred HCCCHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 355688899999999888887776655543
No 108
>PLN03025 replication factor C subunit; Provisional
Probab=20.44 E-value=81 Score=29.08 Aligned_cols=28 Identities=21% Similarity=0.398 Sum_probs=25.4
Q ss_pred ccCccCCChhHHHHHHHHHHhcCCCCCc
Q 024000 209 NKFTPLPEGELREKIEKLASSLKFPLKK 236 (274)
Q Consensus 209 nkf~PL~dg~L~~~I~~La~~~gf~~~~ 236 (274)
-+|.|+++.++++.++..|++.|+.+++
T Consensus 153 i~f~~l~~~~l~~~L~~i~~~egi~i~~ 180 (319)
T PLN03025 153 VRFSRLSDQEILGRLMKVVEAEKVPYVP 180 (319)
T ss_pred ccCCCCCHHHHHHHHHHHHHHcCCCCCH
Confidence 5899999999999999999999998754
No 109
>COG5438 Predicted multitransmembrane protein [Function unknown]
Probab=20.23 E-value=4.7e+02 Score=25.34 Aligned_cols=53 Identities=21% Similarity=0.233 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHhcccchhhhhhheeeccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Q 024000 110 SFLAGVMLWSQLTDLPFSLYSTFVIEARHGFNKQTIWLFFRDMIKGMILAIVLGPPIVSAIIIIVQKG 177 (274)
Q Consensus 110 ~f~~~~~l~~~li~LPf~~Y~~f~le~kyGfn~~t~~~f~~D~~k~~~l~~vl~~~l~~~~~~i~~~~ 177 (274)
+.+.+.+++.+++.+++. .|.|++|...++ +.++++++...+........+..
T Consensus 180 ~v~ii~~viit~~tL~~v----------~g~n~KTl~A~~-----~Ti~~~~ls~il~~~~i~~~~l~ 232 (385)
T COG5438 180 LVFIILCVIITAITLFMV----------NGINKKTLAAFI-----GTILGTLLSIILAYISIYMTNLS 232 (385)
T ss_pred HHHHHHHHHHHHHHHHhh----------cCccHHHHHHHH-----HHHHHHHHHHHHHHHHHHhccCC
Confidence 344555555666666554 388888887765 34445555555555554444433
No 110
>PF05182 Fip1: Fip1 motif; InterPro: IPR007854 This short motif is about 40 amino acids in length and is found in the Fip1 protein that is a component of a Saccharomyces cerevisiae pre-mRNA polyadenylation factor that directly interacts with poly(A) polymerase []. This region of Fip1 is needed for the interaction with the Yth1 subunit of the complex and for specific polyadenylation of the cleaved mRNA precursor [].
Probab=20.18 E-value=58 Score=21.71 Aligned_cols=18 Identities=22% Similarity=0.377 Sum_probs=14.7
Q ss_pred cCCCCCCCHHHHHHHHHH
Q 024000 137 RHGFNKQTIWLFFRDMIK 154 (274)
Q Consensus 137 kyGfn~~t~~~f~~D~~k 154 (274)
-||||.+|++.+...+.+
T Consensus 25 NYGf~E~tW~~Y~~kq~~ 42 (45)
T PF05182_consen 25 NYGFNEETWREYCKKQRQ 42 (45)
T ss_pred CCCCCHHHHHHHHHHHHH
Confidence 379999999999887653
No 111
>PF15050 SCIMP: SCIMP protein
Probab=20.05 E-value=1.6e+02 Score=23.99 Aligned_cols=33 Identities=12% Similarity=-0.028 Sum_probs=20.4
Q ss_pred HcCchhHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 024000 176 KGGPYLAIYLWAFMFVLSLVMMTLYPVLIAPLF 208 (274)
Q Consensus 176 ~~g~~wwl~~w~~~~~~~~~~~~l~P~~i~PLF 208 (274)
|+.++||+.+.+..+++++.+-+|.=.+..=++
T Consensus 3 WWr~nFWiiLAVaII~vS~~lglIlyCvcR~~l 35 (133)
T PF15050_consen 3 WWRDNFWIILAVAIILVSVVLGLILYCVCRWQL 35 (133)
T ss_pred hHHhchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555677777777766666666555544444444
Done!