Query 025129
Match_columns 257
No_of_seqs 126 out of 626
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 02:57:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025129.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025129hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG2928 Uncharacterized conser 100.0 3.4E-56 7.4E-61 391.4 20.5 194 47-241 4-206 (222)
2 PF04367 DUF502: Protein of un 100.0 4.6E-31 1E-35 210.8 12.0 106 97-203 1-108 (108)
3 cd01277 HINT_subgroup HINT (hi 90.1 0.6 1.3E-05 35.6 4.7 41 187-227 19-60 (103)
4 TIGR02120 GspF general secreti 87.0 7.8 0.00017 36.9 11.0 23 118-140 242-264 (399)
5 cd01275 FHIT FHIT (fragile his 86.9 1.3 2.7E-05 35.6 4.7 44 187-230 19-63 (126)
6 PRK12772 bifunctional flagella 86.5 10 0.00022 39.0 12.1 42 40-81 163-204 (609)
7 PRK15350 type III secretion sy 85.6 15 0.00033 28.6 10.2 78 48-132 9-86 (88)
8 cd00468 HIT_like HIT family: H 85.6 1.4 3E-05 32.2 4.1 41 187-227 3-44 (86)
9 PRK05700 fliQ flagellar biosyn 83.9 18 0.0004 28.1 10.1 79 47-132 8-86 (89)
10 COG1459 PulF Type II secretory 83.1 5.7 0.00012 38.7 8.2 23 117-139 238-260 (397)
11 PF01230 HIT: HIT domain; Int 82.4 1.8 4E-05 32.9 3.7 41 187-227 11-52 (98)
12 PRK09824 PTS system beta-gluco 81.7 7.7 0.00017 40.1 8.8 69 60-131 219-288 (627)
13 PRK06010 fliQ flagellar biosyn 81.5 23 0.0005 27.6 10.3 79 47-132 8-86 (88)
14 TIGR01402 fliQ flagellar biosy 80.8 25 0.00053 27.4 9.9 78 48-132 9-86 (88)
15 PRK10573 type IV pilin biogene 80.5 23 0.00049 33.8 11.2 19 120-138 243-261 (399)
16 cd01276 PKCI_related Protein K 78.9 2.5 5.3E-05 32.4 3.3 34 187-220 19-53 (104)
17 PRK12781 fliQ flagellar biosyn 77.5 32 0.00069 26.8 10.3 79 47-132 8-86 (88)
18 PRK09796 PTS system cellobiose 76.4 15 0.00032 36.8 8.8 85 59-146 220-306 (472)
19 COG1987 FliQ Flagellar biosynt 76.2 35 0.00077 26.7 10.0 78 48-132 9-86 (89)
20 PF08566 Pam17: Mitochondrial 75.9 35 0.00075 29.9 9.8 68 56-125 41-108 (173)
21 PRK11007 PTS system trehalose( 75.7 15 0.00032 36.8 8.6 86 59-147 231-319 (473)
22 TIGR01403 fliQ_rel_III type II 75.1 35 0.00076 26.1 9.9 77 48-131 5-81 (81)
23 PF11947 DUF3464: Protein of u 74.8 35 0.00076 29.2 9.5 51 56-114 66-116 (153)
24 PRK09765 PTS system 2-O-a-mann 74.5 13 0.00028 38.3 8.1 70 60-131 381-456 (631)
25 COG1684 FliR Flagellar biosynt 74.0 42 0.00092 31.0 10.5 42 40-81 166-207 (258)
26 cd01278 aprataxin_related apra 73.9 6.5 0.00014 30.1 4.5 36 187-222 21-57 (104)
27 PRK09586 murP PTS system N-ace 73.8 18 0.00039 36.2 8.6 83 59-145 230-313 (476)
28 PF01311 Bac_export_1: Bacteri 72.7 73 0.0016 28.8 11.7 43 39-81 163-205 (249)
29 TIGR01992 PTS-IIBC-Tre PTS sys 71.6 23 0.0005 35.1 8.8 85 60-147 233-319 (462)
30 PRK10687 purine nucleoside pho 70.2 6.2 0.00013 31.9 3.7 36 187-222 22-58 (119)
31 PRK15083 PTS system mannitol-s 70.2 18 0.00038 37.4 7.9 83 59-144 101-190 (639)
32 TIGR00851 mtlA PTS system, man 69.5 31 0.00067 32.9 8.9 83 59-144 93-182 (338)
33 TIGR01996 PTS-II-BC-sucr PTS s 68.1 38 0.00083 33.5 9.5 85 60-147 230-316 (461)
34 PF03596 Cad: Cadmium resistan 66.4 13 0.00027 32.9 5.1 84 95-196 34-118 (191)
35 TIGR02002 PTS-II-BC-glcB PTS s 65.9 32 0.00068 34.6 8.5 87 60-147 135-225 (502)
36 PRK15333 type III secretion sy 65.5 62 0.0013 25.1 9.5 77 49-132 8-84 (86)
37 COG3768 Predicted membrane pro 65.1 30 0.00064 33.2 7.6 29 49-77 63-91 (350)
38 COG4794 EscS Type III secretor 61.7 54 0.0012 25.7 7.2 75 53-134 14-88 (89)
39 PRK11404 putative PTS system 61.0 31 0.00067 34.5 7.4 67 59-128 228-300 (482)
40 PRK15349 type III secretion sy 60.7 1.1E+02 0.0024 27.9 10.5 40 42-81 170-209 (259)
41 COG0537 Hit Diadenosine tetrap 60.6 16 0.00035 30.2 4.5 43 187-229 20-63 (138)
42 PF02674 Colicin_V: Colicin V 60.4 59 0.0013 26.1 7.8 81 50-130 18-103 (146)
43 PF06596 PsbX: Photosystem II 60.2 23 0.0005 23.6 4.3 27 45-71 5-31 (39)
44 TIGR02004 PTS-IIBC-malX PTS sy 58.6 57 0.0012 33.0 8.8 88 59-148 138-229 (517)
45 TIGR01427 PTS_IIC_fructo PTS s 57.7 44 0.00095 32.0 7.5 72 59-131 112-185 (346)
46 TIGR01400 fliR flagellar biosy 56.5 1.5E+02 0.0033 26.7 10.9 42 40-81 157-198 (245)
47 KOG0476 Cl- channel CLC-2 and 53.6 2.2E+02 0.0047 30.7 12.1 43 37-79 76-118 (931)
48 PRK05415 hypothetical protein; 51.8 1.4E+02 0.003 28.8 9.8 27 50-77 67-93 (341)
49 TIGR01995 PTS-II-ABC-beta PTS 51.8 85 0.0018 32.3 8.9 80 60-142 211-292 (610)
50 PRK10110 bifunctional PTS syst 51.7 87 0.0019 31.8 8.9 87 60-148 148-238 (530)
51 PF04459 DUF512: Protein of un 51.2 31 0.00068 30.7 5.0 82 135-226 107-191 (204)
52 COG4300 CadD Predicted permeas 50.5 44 0.00095 29.7 5.7 64 121-197 67-131 (205)
53 PRK04949 putative sulfate tran 49.7 1.6E+02 0.0034 26.9 9.5 24 58-81 29-56 (251)
54 TIGR01183 ntrB nitrate ABC tra 49.6 1.3E+02 0.0028 26.2 8.7 68 40-109 14-81 (202)
55 PF05552 TM_helix: Conserved T 48.3 41 0.00089 23.1 4.3 26 99-124 19-44 (53)
56 PRK15071 lipopolysaccharide AB 47.7 86 0.0019 29.2 7.7 39 43-81 3-41 (356)
57 TIGR01401 fliR_like_III type I 46.9 2.3E+02 0.0049 25.8 10.6 41 41-81 165-205 (253)
58 PRK10478 putative PTS system f 46.9 73 0.0016 30.9 7.1 95 41-136 3-144 (359)
59 smart00743 Agenet Tudor-like d 46.5 95 0.0021 21.4 6.1 50 158-216 7-56 (61)
60 TIGR00779 cad cadmium resistan 43.6 1.4E+02 0.003 26.5 7.9 60 122-197 56-119 (193)
61 PRK05701 fliR flagellar biosyn 43.5 2.5E+02 0.0054 25.3 10.9 40 42-81 161-200 (242)
62 TIGR00852 pts-Glc PTS system, 42.9 1.5E+02 0.0033 27.3 8.4 87 59-147 66-154 (289)
63 COG2928 Uncharacterized conser 42.5 2.6E+02 0.0056 25.5 9.4 38 42-79 3-40 (222)
64 PF04854 DUF624: Protein of un 39.9 81 0.0018 22.8 5.0 32 40-71 43-74 (77)
65 PF09527 ATPase_gene1: Putativ 38.3 71 0.0015 21.9 4.3 10 56-65 7-16 (55)
66 TIGR03279 cyano_FeS_chp putati 38.0 88 0.0019 31.1 6.3 83 134-225 328-412 (433)
67 COG0600 TauC ABC-type nitrate/ 37.9 2.3E+02 0.0049 26.1 8.7 117 40-160 58-174 (258)
68 COG1286 CvpA Uncharacterized m 37.1 2.8E+02 0.006 24.0 9.4 68 50-118 21-88 (182)
69 COG3763 Uncharacterized protei 36.4 65 0.0014 24.2 3.9 47 95-147 5-51 (71)
70 PRK14762 membrane protein; Pro 35.1 57 0.0012 19.8 2.8 15 100-114 7-21 (27)
71 PF08006 DUF1700: Protein of u 33.8 2.9E+02 0.0063 23.3 10.6 15 56-70 92-106 (181)
72 TIGR00439 ftsX putative protei 33.4 4.1E+02 0.0088 24.8 9.8 27 98-124 281-307 (309)
73 PF01313 Bac_export_3: Bacteri 33.1 2.1E+02 0.0046 21.5 9.2 33 47-79 5-37 (76)
74 PF02355 SecD_SecF: Protein ex 32.9 3.3E+02 0.0071 23.6 9.4 69 37-125 120-188 (189)
75 PF07670 Gate: Nucleoside reco 32.2 1.1E+02 0.0023 23.3 4.8 33 58-90 2-40 (109)
76 PRK10494 hypothetical protein; 32.0 3E+02 0.0065 25.0 8.5 64 50-125 5-68 (259)
77 COG2981 CysZ Uncharacterized p 31.8 3.6E+02 0.0078 25.0 8.7 55 59-113 28-90 (250)
78 COG2177 FtsX Cell division pro 31.7 4.4E+02 0.0095 24.7 10.2 56 57-113 227-284 (297)
79 PRK11720 galactose-1-phosphate 31.6 72 0.0016 30.5 4.5 40 187-226 215-255 (346)
80 TIGR02003 PTS-II-BC-unk1 PTS s 31.2 2.9E+02 0.0063 28.3 8.9 87 60-147 142-236 (548)
81 PRK10845 colicin V production 31.1 2.8E+02 0.0061 23.4 7.6 30 50-79 21-50 (162)
82 PF02419 PsbL: PsbL protein; 30.4 82 0.0018 20.7 3.2 20 96-115 16-35 (37)
83 PF04971 Lysis_S: Lysis protei 30.0 1.3E+02 0.0027 22.5 4.5 41 68-116 16-56 (68)
84 PRK12780 fliR flagellar biosyn 29.7 4.3E+02 0.0093 24.0 11.0 41 41-81 168-208 (251)
85 TIGR00209 galT_1 galactose-1-p 29.7 86 0.0019 30.0 4.7 40 187-226 215-255 (347)
86 PF03739 YjgP_YjgQ: Predicted 29.7 2.2E+02 0.0047 26.1 7.3 32 50-81 4-35 (354)
87 TIGR01620 hyp_HI0043 conserved 29.4 3.5E+02 0.0076 25.5 8.5 28 50-77 14-41 (289)
88 PF11872 DUF3392: Protein of u 28.8 2.3E+02 0.005 22.9 6.2 63 50-113 41-105 (106)
89 CHL00114 psbX photosystem II p 28.8 30 0.00066 23.1 1.0 24 45-68 5-28 (39)
90 PRK10160 taurine transporter s 27.7 4.6E+02 0.01 23.7 9.0 67 40-108 75-141 (275)
91 TIGR00822 EII-Sor PTS system, 27.5 4.1E+02 0.0088 24.7 8.5 27 92-118 188-222 (265)
92 COG3224 Uncharacterized protei 27.0 2.5E+02 0.0054 25.0 6.6 37 79-117 139-175 (195)
93 PRK11026 ftsX cell division AB 26.9 5.3E+02 0.011 24.1 10.5 26 98-123 281-306 (309)
94 PRK01844 hypothetical protein; 26.9 1.2E+02 0.0026 22.9 4.0 43 100-147 9-51 (72)
95 cd00608 GalT Galactose-1-phosp 26.4 96 0.0021 29.2 4.3 38 187-224 205-243 (329)
96 PF04854 DUF624: Protein of un 26.3 1.9E+02 0.0041 20.8 5.1 33 36-68 43-75 (77)
97 PF11241 DUF3043: Protein of u 26.2 1.5E+02 0.0034 25.7 5.2 21 51-73 74-94 (170)
98 PF14257 DUF4349: Domain of un 26.0 1.3E+02 0.0029 27.0 5.1 17 57-73 240-256 (262)
99 PRK00753 psbL photosystem II r 25.9 93 0.002 20.7 2.8 21 96-116 18-38 (39)
100 PRK00665 petG cytochrome b6-f 25.8 95 0.002 20.4 2.8 21 95-115 7-27 (37)
101 PF06305 DUF1049: Protein of u 25.3 1.5E+02 0.0033 20.7 4.3 20 95-114 18-37 (68)
102 CHL00008 petG cytochrome b6/f 25.0 98 0.0021 20.4 2.8 21 95-115 7-27 (37)
103 PLN02643 ADP-glucose phosphory 24.8 1.2E+02 0.0026 28.8 4.7 38 187-224 214-252 (336)
104 PF04341 DUF485: Protein of un 24.7 3.2E+02 0.0069 20.8 6.2 20 61-80 19-38 (91)
105 PRK10905 cell division protein 24.3 52 0.0011 31.5 2.1 19 94-112 3-21 (328)
106 PRK11901 hypothetical protein; 24.2 56 0.0012 31.3 2.3 20 93-112 40-59 (327)
107 PF14018 DUF4234: Domain of un 23.5 2.9E+02 0.0062 19.9 8.7 61 62-122 11-71 (75)
108 PF03672 UPF0154: Uncharacteri 23.5 88 0.0019 23.0 2.7 29 101-132 3-31 (64)
109 PF03609 EII-Sor: PTS system s 23.2 4.5E+02 0.0097 23.7 7.9 65 53-117 145-222 (238)
110 TIGR00437 feoB ferrous iron tr 23.2 3.6E+02 0.0077 27.7 8.0 47 40-90 467-522 (591)
111 PF01770 Folate_carrier: Reduc 22.9 4.7E+02 0.01 25.8 8.5 46 65-110 249-308 (412)
112 PRK15065 PTS system mannose-sp 22.9 5.7E+02 0.012 23.7 8.6 27 92-118 189-223 (262)
113 PRK11365 ssuC alkanesulfonate 22.8 3.7E+02 0.008 24.1 7.3 67 40-108 57-123 (263)
114 PF05283 MGC-24: Multi-glycosy 22.7 74 0.0016 28.1 2.6 25 51-75 161-185 (186)
115 PF02529 PetG: Cytochrome B6-F 22.5 1.4E+02 0.003 19.7 3.2 21 95-115 7-27 (37)
116 PF12841 YvrJ: YvrJ protein fa 22.0 1.4E+02 0.003 19.7 3.2 23 61-83 8-30 (38)
117 PF00672 HAMP: HAMP domain; I 21.9 1.4E+02 0.003 20.5 3.5 25 98-122 6-30 (70)
118 PF02762 Cbl_N3: CBL proto-onc 21.7 2.5E+02 0.0055 21.7 4.9 38 137-178 11-48 (86)
119 TIGR02872 spore_ytvI sporulati 21.3 6.2E+02 0.013 22.9 10.7 19 114-132 72-90 (341)
120 PRK02507 proton extrusion prot 21.3 1.8E+02 0.0038 29.0 5.1 44 35-80 358-409 (422)
121 KOG1277 Endosomal membrane pro 21.1 2.3E+02 0.005 28.9 5.9 29 45-73 356-384 (593)
122 CHL00038 psbL photosystem II p 20.6 1.5E+02 0.0032 19.6 3.0 20 96-115 17-36 (38)
123 COG1390 NtpE Archaeal/vacuolar 20.6 1.7E+02 0.0037 25.7 4.5 110 111-228 67-180 (194)
124 PRK09757 PTS system N-acetylga 20.3 6.9E+02 0.015 23.1 8.9 25 92-116 189-221 (267)
125 PF12729 4HB_MCP_1: Four helix 20.2 3.7E+02 0.0081 20.9 6.2 41 95-136 10-51 (181)
126 PF12911 OppC_N: N-terminal TM 20.1 2.3E+02 0.0049 19.1 4.2 32 37-70 4-35 (56)
No 1
>COG2928 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=3.4e-56 Score=391.40 Aligned_cols=194 Identities=29% Similarity=0.666 Sum_probs=175.7
Q ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh-------cccccchhhHHHHHHHHHHHHHHHHHhhhhhHH
Q 025129 47 SWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYE-------HLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTV 119 (257)
Q Consensus 47 ~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~-------~l~~~ipglgll~~llli~liG~la~~~ig~~l 119 (257)
+.+||+|++||++++|+++|+|+++|+++++|+++.|.+. +++.+++|+|+++++++++++|++++|.+||++
T Consensus 4 ~~lk~~fltGLlvllPlaiT~~vv~~i~~~l~~~~~~~lp~~~~~~~~~~~~i~~lg~il~iili~l~G~l~~~~ig~~l 83 (222)
T COG2928 4 KRLKKYFLTGLLVLLPLAITLWVVSWIFGLLDQFVGPLLPDRLRPAVYFPFNIPGLGVILAIILIFLLGFLARNMIGRSL 83 (222)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccchhchhhcCchhhHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence 3478889999999999999999999999999999998552 235668999999999999999999999999999
Q ss_pred HHHHHhhhchhceehhhHHHHHHHHHHhCCCCCCCCcCcEEEEEeCCCCeeEEEEEccccccc-cCCCCCCeEEEEecCC
Q 025129 120 FWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTVTLQ-KDNGDEELCSVFVPTN 198 (257)
Q Consensus 120 ~~~~e~ll~rIPlVksIY~siKq~~~~f~~~~~~~~f~~VVlVe~P~~g~~~iGFvT~~~~~~-~~~~~~~~v~VfvPts 198 (257)
++++|++|+|||++|+||+++||+++++.+++ ..+||+||+||||++|+|++||+|++...+ ....++++++||+||+
T Consensus 84 ~~~~d~~L~RiPlv~~IY~s~kqi~etll~~~-~~sfk~vvlVefP~~G~~~i~fvtg~~~~e~~~~~~~~~v~VfvPTT 162 (222)
T COG2928 84 LSLGDSLLRRIPLVKSIYKSAKQVVETLLSDQ-SGSFKQVVLVEFPRRGIWAIAFVTGEKAGELKEKEGRPMVAVFVPTT 162 (222)
T ss_pred HHHHHHHHccCccHHHHHHHHHHHHHHHHhcC-CccceeeEEEECCCCCcEEEEEeccCCCcchhcccCCceEEEEcCCC
Confidence 99999999999999999999999999999874 458999999999999999999999986432 2244579999999999
Q ss_pred C-CCCceEEEEecCCeecCCCCHHHHHHHHhhccccCCCCCCcc
Q 025129 199 H-LYIGDIFLVSSKEIIRPNLSIREGIEIIVSGGMTMPQVISPI 241 (257)
Q Consensus 199 P-ptsG~l~~Vp~~~V~~lDmsvEeAmk~iiS~Gv~~p~~~~~~ 241 (257)
| |||||+++||+||++++|||+|||+|+++|||++.|+.....
T Consensus 163 PNPTsGfl~~Vpkedi~~ldmtvEda~k~iIS~G~v~p~~~~~~ 206 (222)
T COG2928 163 PNPTSGFLLLVPKEDIVPLDMTVEDALKYIISGGVVAPDSLPAK 206 (222)
T ss_pred CCCCcceEEEEEHHHceeccccHHHHhheeeeccccCCCccccc
Confidence 9 689999999999999999999999999999999999865443
No 2
>PF04367 DUF502: Protein of unknown function (DUF502); InterPro: IPR007462 This entry contains proteins that are predicted to be integral membrane proteins.
Probab=99.97 E-value=4.6e-31 Score=210.81 Aligned_cols=106 Identities=32% Similarity=0.631 Sum_probs=94.0
Q ss_pred HHHHHHHHHHHHHHHHhhhhhHHHHHHHhhhchhceehhhHHHHHHHHHHhCCCCCCCCcCcEEEEEeCCCCeeEEEEEc
Q 025129 97 FITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFIT 176 (257)
Q Consensus 97 ll~~llli~liG~la~~~ig~~l~~~~e~ll~rIPlVksIY~siKq~~~~f~~~~~~~~f~~VVlVe~P~~g~~~iGFvT 176 (257)
+++++++||++|+++++++|+++++++|+++.|||+||+||+++||++++|+++++ +.|++||+||||++|+|++||+|
T Consensus 1 ~l~~l~~i~~iG~l~~~~~g~~l~~~~e~ll~riP~v~~iY~~~k~~~~~~~~~~~-~~f~~vVlV~~p~~g~~~igFvT 79 (108)
T PF04367_consen 1 FLILLLLIFLIGLLARNYFGKWLLNWLERLLQRIPLVKSIYSSIKQLVESFSGDKK-KSFKKVVLVEFPRPGMYVIGFVT 79 (108)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCchHHHHHHHHHHHHHHhhccc-ccCCeEEEEEecCCCcEEEEEEe
Confidence 35688999999999999999999999999999999999999999999999998754 45999999999999999999999
Q ss_pred cccccc-cCCCCCCeEEEEecCCCC-CCc
Q 025129 177 STVTLQ-KDNGDEELCSVFVPTNHL-YIG 203 (257)
Q Consensus 177 ~~~~~~-~~~~~~~~v~VfvPtsPp-tsG 203 (257)
++...+ ....++++++||+||||| |||
T Consensus 80 ~~~~~~~~~~~~~~~v~VfvPtsPnPtsG 108 (108)
T PF04367_consen 80 GEDPGELPGKTGEEMVAVFVPTSPNPTSG 108 (108)
T ss_pred ccCcchhhccCCCCEEEEEeCCCCCCCCC
Confidence 987532 222346999999999995 787
No 3
>cd01277 HINT_subgroup HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life. Although the biochemical function has not been characterised for many of the members of this subgroup, the proteins from Yeast have been shown to be involved in secretion, peroxisome formation and gene expression.
Probab=90.07 E-value=0.6 Score=35.58 Aligned_cols=41 Identities=20% Similarity=0.282 Sum_probs=35.1
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHHHHHHH
Q 025129 187 DEELCSVFVPTNHLYIGDIFLVSSKEIIRP-NLSIREGIEII 227 (257)
Q Consensus 187 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEeAmk~i 227 (257)
.++...+|+|-.|..-|.++++|++.+..+ |++.||...+.
T Consensus 19 e~~~~~a~~~~~~~~pg~~lI~Pk~H~~~~~~l~~~e~~~l~ 60 (103)
T cd01277 19 EDDHVLAFLDINPASKGHTLVIPKKHYENLLDLDPEELAELI 60 (103)
T ss_pred eCCCEEEEECCCCCCCeeEEEEeccccCChhhCCHHHHHHHH
Confidence 467889999999999999999999999766 99998865554
No 4
>TIGR02120 GspF general secretion pathway protein F. This membrane protein is a component of the terminal branch complex of the general secretion pathway (GSP), also known as the"Type II" secretion pathway. The GSP transports proteins (generally virulence-associated cell wall hydrolases) across the outer membrase of the bacterial cell. Transport across the inner membrane is often, but not exclusively handled by the Sec system. This model was constructed from the broader subfamily model, pfam00482 which includes components of pilin complexes (PilC) as well as other related genes. GspF is nearly always gene clustered with other GSP subunits. Some genes from Xylella and Xanthomonas strains score below the trusted cutoff due to excessive divergence from the family such that a sequence from Deinococcus which does not appear to be GspF scores higher.
Probab=86.98 E-value=7.8 Score=36.94 Aligned_cols=23 Identities=13% Similarity=0.107 Sum_probs=18.5
Q ss_pred HHHHHHHhhhchhceehhhHHHH
Q 025129 118 TVFWVGEWFIKRMPFVRHLYSAS 140 (257)
Q Consensus 118 ~l~~~~e~ll~rIPlVksIY~si 140 (257)
+.-.+.|+++.|+|+++++|...
T Consensus 242 ~~r~~~~~~l~kiP~~g~~~~~~ 264 (399)
T TIGR02120 242 AFRLRFDRRLLRLPVIGRLVRGL 264 (399)
T ss_pred HHHHHHHHHHhcccchHHHHHHH
Confidence 34567899999999999998643
No 5
>cd01275 FHIT FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into three branches: the Hint branch, which consists of adenosine 5' -monophosphoramide hydrolases, the Fhit branch, that consists of diadenosine polyphosphate hydrolases, and the GalT branch consisting of specific nucloside monophosphate transferases. Fhit plays a very important role in the development of tumours. Infact, Fhit deletions are among the earliest and most frequent genetic alterations in the development of tumours.
Probab=86.85 E-value=1.3 Score=35.56 Aligned_cols=44 Identities=14% Similarity=0.124 Sum_probs=36.1
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHHHHHHHhhc
Q 025129 187 DEELCSVFVPTNHLYIGDIFLVSSKEIIRP-NLSIREGIEIIVSG 230 (257)
Q Consensus 187 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEeAmk~iiS~ 230 (257)
.++...+|+|-.|.+.|.++++|++.+..+ |++-||...+.-..
T Consensus 19 e~~~~~~~~~~~p~~~gh~lIiPk~H~~~~~~L~~~e~~~l~~~~ 63 (126)
T cd01275 19 RTKHSFAVVNLYPYNPGHVLVVPYRHVPRLEDLTPEEIADLFKLV 63 (126)
T ss_pred eCCCEEEEEcCCCCCCCcEEEEeccccCChhhCCHHHHHHHHHHH
Confidence 367889999999988999999999999766 99988876554433
No 6
>PRK12772 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional
Probab=86.51 E-value=10 Score=38.97 Aligned_cols=42 Identities=12% Similarity=0.186 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025129 40 ACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (257)
Q Consensus 40 ~~~~~~~~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l 81 (257)
.....+.+++.+.|..|+..-+|+++...++.-.++++....
T Consensus 163 ~~~~~~~~~~~~~F~~al~lAaP~i~~lll~~~~lGllsR~a 204 (609)
T PRK12772 163 ESIMHVINVFIQYFYIGIKIAIPIVLIILITDLTLGLISRTV 204 (609)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 334556677889999999999999999999999998887765
No 7
>PRK15350 type III secretion system protein SsaS; Provisional
Probab=85.64 E-value=15 Score=28.60 Aligned_cols=78 Identities=13% Similarity=0.212 Sum_probs=49.6
Q ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhhh
Q 025129 48 WISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFI 127 (257)
Q Consensus 48 ~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG~la~~~ig~~l~~~~e~ll 127 (257)
..++.+...+++..|+.+.-.++.-+++++...- .+-+ .-+.++-=++.++++-++.-.|..+.+.++.++++
T Consensus 9 l~~~al~~~l~ls~P~L~~alvVGlvIsi~QA~T-QIQE------qTLsFvPKliav~~~l~~~gpWm~~~l~~ft~~if 81 (88)
T PRK15350 9 FVTQLLWIVLFTSMPVVLVASVVGVIVSLVQALT-QIQD------QTLQFMIKLLAIAITLMVSYPWLSGILLNYTRQIM 81 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566788899999999998888887766553322 1111 11233322333334444455667788889999999
Q ss_pred chhce
Q 025129 128 KRMPF 132 (257)
Q Consensus 128 ~rIPl 132 (257)
.+||-
T Consensus 82 ~~i~~ 86 (88)
T PRK15350 82 LRIGE 86 (88)
T ss_pred Hhhhh
Confidence 99884
No 8
>cd00468 HIT_like HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified in the literacture into three major branches: the Hint branch, which consists of adenosine 5' -monophosphoramide hydrolases, the Fhit branch, that consists of diadenosine polyphosphate hydrolases, and the GalT branch consisting of specific nucloside monophosphate transferases. Further sequence analysis reveals several new closely related, yet uncharacterized subgroups.
Probab=85.61 E-value=1.4 Score=32.21 Aligned_cols=41 Identities=15% Similarity=0.228 Sum_probs=33.3
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHHHHHHH
Q 025129 187 DEELCSVFVPTNHLYIGDIFLVSSKEIIRP-NLSIREGIEII 227 (257)
Q Consensus 187 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEeAmk~i 227 (257)
+++...+|+|-.|...|.++++|++.+..+ |++.|+...+.
T Consensus 3 e~~~~~a~~~~~p~~~gh~lIipk~H~~~~~~l~~~~~~~l~ 44 (86)
T cd00468 3 DDEHSFAFVNLKPAAPGHVLVCPKRHVETLPDLDEALLADLV 44 (86)
T ss_pred ecCcEEEEECCCCCCCCcEEEeCchhhCChhHCCHHHHHHHH
Confidence 367889999999988999999999999665 88887654443
No 9
>PRK05700 fliQ flagellar biosynthesis protein FliQ; Validated
Probab=83.93 E-value=18 Score=28.15 Aligned_cols=79 Identities=14% Similarity=0.254 Sum_probs=51.0
Q ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhh
Q 025129 47 SWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWF 126 (257)
Q Consensus 47 ~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG~la~~~ig~~l~~~~e~l 126 (257)
...++.+...++...|+.+.-.++.-+.+++...- .+-+ .-++++-=++.++++=++.-.|.++.+.++.+++
T Consensus 8 ~l~~~al~~~l~ls~P~l~~alvVGlvIsi~QA~T-QIqE------qTLsFvPKliav~~~l~~~g~Wm~~~l~~f~~~i 80 (89)
T PRK05700 8 DLFREAMKVALMLAAPLLLVALVVGLVVSIFQAAT-QINE------QTLSFIPKILAVLLTLIIAGPWMLNTLLDYTRTL 80 (89)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHH------HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567788899999999998888887666553322 1111 1223333233334444445567788899999999
Q ss_pred hchhce
Q 025129 127 IKRMPF 132 (257)
Q Consensus 127 l~rIPl 132 (257)
+.+||-
T Consensus 81 f~~i~~ 86 (89)
T PRK05700 81 FSNIPT 86 (89)
T ss_pred HHHHHh
Confidence 999985
No 10
>COG1459 PulF Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=83.15 E-value=5.7 Score=38.72 Aligned_cols=23 Identities=13% Similarity=0.138 Sum_probs=18.5
Q ss_pred hHHHHHHHhhhchhceehhhHHH
Q 025129 117 STVFWVGEWFIKRMPFVRHLYSA 139 (257)
Q Consensus 117 ~~l~~~~e~ll~rIPlVksIY~s 139 (257)
.+.-.+.|+++-|+|+++.+...
T Consensus 238 ~~~r~~~~~~llrlP~~g~l~~~ 260 (397)
T COG1459 238 PAGRRRLDRLLLRLPLFGKLVRK 260 (397)
T ss_pred hHHHHHHHhHHhcCCcHHHHHHH
Confidence 34556799999999999998763
No 11
>PF01230 HIT: HIT domain; InterPro: IPR001310 The Histidine Triad (HIT) motif, His-x-His-x-His-x-x (x, a hydrophobic amino acid) was identified as being highly conserved in a variety of organisms []. Crystal structure of rabbit Hint, purified as an adenosine and AMP-binding protein, showed that proteins in the HIT superfamily are conserved as nucleotide-binding proteins and that Hint homologues, which are found in all forms of life, are structurally related to Fhit homologues and GalT-related enzymes, which have more restricted phylogenetic profiles []. Hint homologues including rabbit Hint and yeast Hnt1 hydrolyse adenosine 5' monophosphoramide substrates such as AMP-NH2 and AMP-lysine to AMP plus the amine product and function as positive regulators of Cdk7/Kin28 in vivo []. Fhit homologues are diadenosine polyphosphate hydrolases [] and function as tumour suppressors in human and mouse [] though the tumour suppressing function of Fhit does not depend on ApppA hydrolysis []. The third branch of the HIT superfamily, which includes GalT homologues, contains a related His-X-His-X-Gln motif and transfers nucleoside monophosphate moieties to phosphorylated second substrates rather than hydrolysing them [].; PDB: 3LB5_B 1EMS_A 1Y23_A 3ANO_B 1KPE_B 1KPC_A 4EQE_B 1KPA_A 1KPB_B 4EQG_B ....
Probab=82.45 E-value=1.8 Score=32.93 Aligned_cols=41 Identities=12% Similarity=0.322 Sum_probs=33.8
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHHHHHHH
Q 025129 187 DEELCSVFVPTNHLYIGDIFLVSSKEIIRP-NLSIREGIEII 227 (257)
Q Consensus 187 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEeAmk~i 227 (257)
.++.+.+|++..|..-|.++++|++.+..+ |++.++...+.
T Consensus 11 e~~~~~~~~~~~p~~~gh~LVipk~H~~~l~dl~~~~~~~l~ 52 (98)
T PF01230_consen 11 EDDHFVAFLDIFPISPGHLLVIPKRHVESLSDLPPEERAELM 52 (98)
T ss_dssp E-SSEEEEEESSTSSTTEEEEEESSTGSSGGGSHHHHHHHHH
T ss_pred ECCCEEEEEcCCCCCCeEEEEEecccccchhcCCHHHHHHHH
Confidence 357788899998988999999999999887 88877766654
No 12
>PRK09824 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional
Probab=81.70 E-value=7.7 Score=40.10 Aligned_cols=69 Identities=12% Similarity=0.312 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHH-HHHHHHHHHHHHhhhhhHHHHHHHhhhchhc
Q 025129 60 LFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITS-LVFVFLVGVFVSSWLGSTVFWVGEWFIKRMP 131 (257)
Q Consensus 60 lLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~-llli~liG~la~~~ig~~l~~~~e~ll~rIP 131 (257)
++|+++++|+..|+-+++++++...++.+ -.|.+.++++ .+.++++|=+.. ++|..+-..+.++...-|
T Consensus 219 ViPiil~v~~~s~iEk~l~K~iP~~l~~i--~~P~ltlli~~pl~l~viGPig~-~i~~~l~~~i~~l~~~~~ 288 (627)
T PRK09824 219 VIPIIFSAWLCSILERRLNAWLPSAIKNF--FTPLLCLMVIVPLTFLLIGPLAT-WLSELLAAGYQWLYQAVP 288 (627)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhHHHHHH-HHHHHHHHHHHHHHhhch
Confidence 79999999999999999988776555442 1344444332 244444444332 444444444444444433
No 13
>PRK06010 fliQ flagellar biosynthesis protein FliQ; Reviewed
Probab=81.52 E-value=23 Score=27.58 Aligned_cols=79 Identities=13% Similarity=0.197 Sum_probs=49.0
Q ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhh
Q 025129 47 SWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWF 126 (257)
Q Consensus 47 ~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG~la~~~ig~~l~~~~e~l 126 (257)
...++.+...+++.+|+.+.-.++.-+++.+...- .+-+ .-+.++-=++.++++=++.-.|..+.+.++.+++
T Consensus 8 ~l~~~al~~~l~~s~P~L~~alvVGliIsi~QA~T-QIqE------qTLsFvPKliav~~~l~~~g~Wm~~~l~~f~~~i 80 (88)
T PRK06010 8 DIVRDAIWTVLVASGPAVLAAMVVGVAIALFQALT-QIQE------MTLTFVPKIVAIFVTLLLTLPFMGAQISAFTLLI 80 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHH------HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567788899999999998888887666553322 1111 1122222223333333444456777888899999
Q ss_pred hchhce
Q 025129 127 IKRMPF 132 (257)
Q Consensus 127 l~rIPl 132 (257)
+.+||-
T Consensus 81 f~~i~~ 86 (88)
T PRK06010 81 YSRIAG 86 (88)
T ss_pred HHhhcc
Confidence 999884
No 14
>TIGR01402 fliQ flagellar biosynthetic protein FliQ. This model describes FliQ, a protein involved in biosynthesis of bacterial flagella. A related family of proteins, excluded from this model, participates in bacterial type III protein secretion systems.
Probab=80.76 E-value=25 Score=27.41 Aligned_cols=78 Identities=13% Similarity=0.236 Sum_probs=50.2
Q ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhhh
Q 025129 48 WISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFI 127 (257)
Q Consensus 48 ~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG~la~~~ig~~l~~~~e~ll 127 (257)
..++.+...+.+..|+.+.-.++.-+.+.+...- -+-+ .-+.++-=++.++++-++.-.|.++.+.++.++++
T Consensus 9 l~~~al~~~l~~s~P~l~~alvVGlvIsi~QA~T-QIqE------qTLsFvPKliav~~~l~~~gpWm~~~l~~f~~~~f 81 (88)
T TIGR01402 9 LGREAIWLTLLLSAPVLLVALVVGLVISIFQAAT-QIQE------QTLSFIPKIIAILLALALLGPWMLTKLLDFTREIF 81 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHH------HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566688899999999988888876666553322 1111 12233333333444444455677788889999999
Q ss_pred chhce
Q 025129 128 KRMPF 132 (257)
Q Consensus 128 ~rIPl 132 (257)
.+||-
T Consensus 82 ~~i~~ 86 (88)
T TIGR01402 82 QRIPQ 86 (88)
T ss_pred HHhhh
Confidence 99986
No 15
>PRK10573 type IV pilin biogenesis protein; Provisional
Probab=80.46 E-value=23 Score=33.84 Aligned_cols=19 Identities=21% Similarity=0.317 Sum_probs=15.7
Q ss_pred HHHHHhhhchhceehhhHH
Q 025129 120 FWVGEWFIKRMPFVRHLYS 138 (257)
Q Consensus 120 ~~~~e~ll~rIPlVksIY~ 138 (257)
-.+.++++.|+|+++.+|.
T Consensus 243 ~~~~~~~l~~iP~~g~~~~ 261 (399)
T PRK10573 243 QIREQRLLLRLPLVGSLIR 261 (399)
T ss_pred HHHHHHHHhcCCeeccccc
Confidence 3457899999999998775
No 16
>cd01276 PKCI_related Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a hydrophobic residue) that is a signature for this family. No enzymatic activity has been reported however, for PKCI and its related members.
Probab=78.94 E-value=2.5 Score=32.40 Aligned_cols=34 Identities=15% Similarity=0.158 Sum_probs=28.5
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCH
Q 025129 187 DEELCSVFVPTNHLYIGDIFLVSSKEIIRP-NLSI 220 (257)
Q Consensus 187 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-Dmsv 220 (257)
.++.+.+|+|..|...|.++++|++.+..+ |++.
T Consensus 19 e~~~~~a~~~~~p~~~gh~lIiPk~H~~~~~dl~~ 53 (104)
T cd01276 19 EDDEVLAFHDINPQAPVHILVIPKKHIASLSDATE 53 (104)
T ss_pred ECCCEEEEECCCCCCCCEEEEEecceeCChHHccc
Confidence 467888999999988999999999999665 6654
No 17
>PRK12781 fliQ flagellar biosynthesis protein FliQ; Reviewed
Probab=77.45 E-value=32 Score=26.80 Aligned_cols=79 Identities=15% Similarity=0.241 Sum_probs=49.8
Q ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhh
Q 025129 47 SWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWF 126 (257)
Q Consensus 47 ~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG~la~~~ig~~l~~~~e~l 126 (257)
...++.+...+++-+|+.+.-.++.-+++.+...- .+-+ .-+.++-=++.++++=++.-.|.++.+.++.+++
T Consensus 8 ~~~~~al~~~l~ls~P~L~~alvVGlvIsi~QA~T-QIQE------qTLsFvPKliav~~~l~~~~~wm~~~l~~ft~~i 80 (88)
T PRK12781 8 ELVRAAIWTIIVASGPAVGAAMLVGIAIALLQALT-QIQE------VTLTFVPKIVVILIVMAVTGSFVGAQIYAFTEMV 80 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34667788899999999988888876666553321 1111 1123332233334444445567778888999999
Q ss_pred hchhce
Q 025129 127 IKRMPF 132 (257)
Q Consensus 127 l~rIPl 132 (257)
+.+||-
T Consensus 81 f~~i~~ 86 (88)
T PRK12781 81 YGRIES 86 (88)
T ss_pred HHhhcc
Confidence 999884
No 18
>PRK09796 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional
Probab=76.38 E-value=15 Score=36.75 Aligned_cols=85 Identities=13% Similarity=0.147 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHH-HHHHHHHHHHHHHhhhhhHHHHHHHhhhchhc-eehhh
Q 025129 59 VLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFIT-SLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMP-FVRHL 136 (257)
Q Consensus 59 vlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~-~llli~liG~la~~~ig~~l~~~~e~ll~rIP-lVksI 136 (257)
.++|+++++|+..++-++++++....++.+ -.|.+.+++ ..+.++++|=+. +++|..+-..+.++.+.-| +..-|
T Consensus 220 sViPiil~v~~~s~vek~~~K~~P~~l~~i--~~P~ltlli~~pl~l~viGPig-~~i~~~i~~~i~~l~~~~~~i~g~i 296 (472)
T PRK09796 220 TVIPALVMTWCLSYIERWVDRITPAVTKNF--LKPMLIVLIAAPLAILLIGPIG-IWIGSAISALVYTIHGYLGWLSVAI 296 (472)
T ss_pred chHHHHHHHHHHHHHHHHHHHhCHHHHHHH--HHHHHHHHHHHHHHHHhHHHHH-HHHHHHHHHHHHHHHhcchHHHHHH
Confidence 378999999999999999888775555432 124444332 233334444332 2444444445555544433 34556
Q ss_pred HHHHHHHHHH
Q 025129 137 YSASKQISAA 146 (257)
Q Consensus 137 Y~siKq~~~~ 146 (257)
+..+-+++=.
T Consensus 297 ~g~~~~~lV~ 306 (472)
T PRK09796 297 MGALWPLLVM 306 (472)
T ss_pred HHHHHHHHHH
Confidence 6666655443
No 19
>COG1987 FliQ Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=76.22 E-value=35 Score=26.71 Aligned_cols=78 Identities=15% Similarity=0.238 Sum_probs=50.6
Q ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhhh
Q 025129 48 WISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFI 127 (257)
Q Consensus 48 ~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG~la~~~ig~~l~~~~e~ll 127 (257)
..++.+-.+|....|+.+.-.++.-++.++...- -+-+ --+.++==++.++++-.++--|.++.+.++...++
T Consensus 9 i~~~ai~~~L~l~~P~ll~alvvGLvIsifQA~T-QIqE------qTLsFiPKIiai~~~l~~~gpWm~~~l~dft~~if 81 (89)
T COG1987 9 IGQEAIWLVLMLSAPVLLVALVVGLVISIFQAAT-QIQE------QTLSFIPKIIAVFLVLILLGPWMLNQLLDFTVTIF 81 (89)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHH------HHHHhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 3566677899999999888777775555443221 0101 11233333444555556666788889999999999
Q ss_pred chhce
Q 025129 128 KRMPF 132 (257)
Q Consensus 128 ~rIPl 132 (257)
+|||.
T Consensus 82 ~~i~~ 86 (89)
T COG1987 82 SNIPQ 86 (89)
T ss_pred HHHHh
Confidence 99996
No 20
>PF08566 Pam17: Mitochondrial import protein Pam17; InterPro: IPR013875 The presequence translocase-associated motor (PAM) drives the completion of preprotein translocation into the mitochondrial matrix. The Pam17 subunit is required for formation of a stable complex between cochaperones Pam16 and Pam18 and promotes the association of Pam16-Pam18 with the presequence translocase []. Mitochondria lacking Pam17 are selectively impaired in the import of matrix proteins [].
Probab=75.90 E-value=35 Score=29.85 Aligned_cols=68 Identities=18% Similarity=0.145 Sum_probs=40.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHh
Q 025129 56 GCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEW 125 (257)
Q Consensus 56 GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG~la~~~ig~~l~~~~e~ 125 (257)
.++.-+|..+.-..+.|.+ +...-+.|.-..+|+| |.+-+.+..+.|-.+|+|+--.+|..+++...+
T Consensus 41 ~~~~si~t~~~g~~~g~~y-l~~~~~D~~~~I~GlD-P~~~~g~~t~a~g~lG~L~GP~~G~~vf~l~~r 108 (173)
T PF08566_consen 41 NLVSSIPTGLLGSSAGWAY-LSTIEIDPTQQIMGLD-PFMVYGLATLACGALGWLVGPSLGNQVFRLLNR 108 (173)
T ss_pred HHHhHHHHHHHHHHHHHHH-HhhccccccccccCcC-HHHHHHHHHHHHHHHHHHhcchHHHHHHHHHhH
Confidence 4445555555555555544 2222222333333555 444445566778999999999999988877654
No 21
>PRK11007 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional
Probab=75.75 E-value=15 Score=36.76 Aligned_cols=86 Identities=10% Similarity=0.103 Sum_probs=55.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHH-HHHHHHHHHhhhhhHHHHHHHhhhc-hh-ceehh
Q 025129 59 VLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVF-VFLVGVFVSSWLGSTVFWVGEWFIK-RM-PFVRH 135 (257)
Q Consensus 59 vlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~lll-i~liG~la~~~ig~~l~~~~e~ll~-rI-PlVks 135 (257)
.++|++++.|+..|+-++++++....++.+ -.|.+.++++..+ ++++|=+. ++++..+-+.++++.. .. ++-.-
T Consensus 231 sViP~Il~v~~~s~iek~l~K~~P~~l~~i--~~Plltlli~~~l~l~viGPig-~~i~~~i~~~i~~L~~~~~~~ig~~ 307 (473)
T PRK11007 231 QVIPALLAGLALGFIETRLKRIVPDYLYLV--VVPVCSLILAVFLAHALIGPFG-RMIGDGVAFAVKALMTGSFAPIGAA 307 (473)
T ss_pred CcHHHHHHHHHHHHHHHHHHHhCcHHHHHH--HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhcchHHHHHH
Confidence 579999999999999999998865555432 2466666544333 34666543 3566666666666662 33 35556
Q ss_pred hHHHHHHHHHHh
Q 025129 136 LYSASKQISAAI 147 (257)
Q Consensus 136 IY~siKq~~~~f 147 (257)
|+..+-++.=.+
T Consensus 308 i~g~~~~~lV~~ 319 (473)
T PRK11007 308 LFGFLYAPLVIT 319 (473)
T ss_pred HHHHHHHHHHHh
Confidence 677776655443
No 22
>TIGR01403 fliQ_rel_III type III secretion protein, HrpO 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 FliQ. This model may not identify all type III secretion system FliQ homologs.
Probab=75.10 E-value=35 Score=26.14 Aligned_cols=77 Identities=17% Similarity=0.355 Sum_probs=46.5
Q ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhhh
Q 025129 48 WISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFI 127 (257)
Q Consensus 48 ~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG~la~~~ig~~l~~~~e~ll 127 (257)
..++.+...+++-.|+.+.-.++.-+.+++...- .+-+ .-+.++-=++.++++=++.-.|..+.+.++.++++
T Consensus 5 ~~~~al~~~l~~s~P~L~~alvVGLvIsi~QA~T-QIqE------qTLsFvPKliav~~~l~~~~pwm~~~l~~f~~~if 77 (81)
T TIGR01403 5 LTNQALLLVLILSLPPVLVAAIVGLLVSLLQALT-QLQD------QTLPFAIKLIAVFITLMLTAGWLGAEILNFANQIF 77 (81)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHH------HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566788899999999998888887666553322 1111 11222222222233333344566677888999999
Q ss_pred chhc
Q 025129 128 KRMP 131 (257)
Q Consensus 128 ~rIP 131 (257)
++||
T Consensus 78 ~~i~ 81 (81)
T TIGR01403 78 TMIP 81 (81)
T ss_pred hhCC
Confidence 8887
No 23
>PF11947 DUF3464: Protein of unknown function (DUF3464); InterPro: IPR021855 This family of proteins are functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 137 to 196 amino acids in length.
Probab=74.76 E-value=35 Score=29.20 Aligned_cols=51 Identities=16% Similarity=0.136 Sum_probs=32.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHHHHHHhh
Q 025129 56 GCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSW 114 (257)
Q Consensus 56 GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG~la~~~ 114 (257)
++.+-+|.++-+.++...|-++++- .+++|-...+++-++||.+|++.-+|
T Consensus 66 ~~~~GiP~~lG~~~f~~~y~l~~~~--------~~dvP~~~~~~~S~~~Fg~gllGisY 116 (153)
T PF11947_consen 66 AVFVGIPTALGVAVFVVFYYLKSRQ--------IVDVPPWAVLLVSLVFFGLGLLGISY 116 (153)
T ss_pred HHHhchHHHHHHHHHHHHHHHHhcc--------ccccCchHHHHHHHHHHHHHHHhhhh
Confidence 5566788888777776655555331 24455444555556788888876654
No 24
>PRK09765 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional
Probab=74.45 E-value=13 Score=38.31 Aligned_cols=70 Identities=16% Similarity=0.239 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhcc----c-ccchhhHHHHHH-HHHHHHHHHHHhhhhhHHHHHHHhhhchhc
Q 025129 60 LFPVAVTFFITWWFVQFVDGFFSPLYEHL----G-FDIFGLGFITSL-VFVFLVGVFVSSWLGSTVFWVGEWFIKRMP 131 (257)
Q Consensus 60 lLPl~lTi~vl~wl~~~vd~~l~pl~~~l----~-~~ipglgll~~l-lli~liG~la~~~ig~~l~~~~e~ll~rIP 131 (257)
++|.++..|+..|+..++++++ |.-+.+ . .-+|.++++++. +.++++|-.. ++++..+.+++.++...-+
T Consensus 381 flg~Ii~~~l~gyv~~~l~k~i-p~~~~~~~~~~~~~~Pllt~li~~~l~~~viGp~~-~~i~~~l~~~l~~l~~~~~ 456 (631)
T PRK09765 381 FLGAVVGGLIAGYLMRWVKNHL-RLSSKFNGFLTFYLYPVLGTLGAGSLMLFVVGEPV-AWINNSLTAWLNGLSGSNA 456 (631)
T ss_pred cHHHHHHHHHHHHHHHHHHHHC-CCchhhhhhcCEEeehHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhhhH
Confidence 6888899999999998888877 432111 1 225777776544 4456888776 5788888888887765443
No 25
>COG1684 FliR Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=74.04 E-value=42 Score=31.01 Aligned_cols=42 Identities=12% Similarity=0.266 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025129 40 ACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (257)
Q Consensus 40 ~~~~~~~~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l 81 (257)
+.+.-+-+++...|..|+..-+|++....+++-.++.+++..
T Consensus 166 ~~~~~l~~~l~~~F~~~l~iAlPii~~lLlvnlalGlv~R~~ 207 (258)
T COG1684 166 NAFLLLAKALSAIFLIGLRLALPIIALLLLVNLALGLLNRLA 207 (258)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 556667777899999999999999999999999998887754
No 26
>cd01278 aprataxin_related aprataxin related: Aprataxin, a HINT family hydrolase is mutated in ataxia oculomotor apraxia syndrome. All the members of this subgroup have the conserved HxHxHxx (where x is a hydrophobic residue) signature motif. Members of this subgroup are predominantly eukaryotic in origin.
Probab=73.85 E-value=6.5 Score=30.12 Aligned_cols=36 Identities=11% Similarity=0.162 Sum_probs=30.4
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHH
Q 025129 187 DEELCSVFVPTNHLYIGDIFLVSSKEIIRP-NLSIRE 222 (257)
Q Consensus 187 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEe 222 (257)
.++...+|.|..|-..|-++++|++.+..+ |++.||
T Consensus 21 ~~~~~~a~~~~~p~~~~h~lIiPk~h~~~~~~l~~~~ 57 (104)
T cd01278 21 EDDRVVVFKDIYPKARHHYLVIPKEHIASLKALTKED 57 (104)
T ss_pred eCCCEEEEECCCCCCCceEEEEecCCCCChHHCCHhH
Confidence 467889999999988899999999999665 887664
No 27
>PRK09586 murP PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed
Probab=73.81 E-value=18 Score=36.18 Aligned_cols=83 Identities=11% Similarity=0.136 Sum_probs=46.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHH-HHHHHHHHHHHHHhhhhhHHHHHHHhhhchhceehhhH
Q 025129 59 VLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFIT-SLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRHLY 137 (257)
Q Consensus 59 vlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~-~llli~liG~la~~~ig~~l~~~~e~ll~rIPlVksIY 137 (257)
.++|+++++|+..++-++++++....++.+ -.|-+.+++ ..+.++++|=+. +++|..+-..+.++... ++..-|+
T Consensus 230 sViPiil~v~~~s~iek~~~K~iP~~l~~i--~~P~ltlli~~p~~l~viGP~g-~~i~~~i~~~~~~l~~~-~~~~~i~ 305 (476)
T PRK09586 230 NIIGVLIAAIAGARIERMVRRFMPDDLDMI--LTSLITLLITGALAFLIIMPLG-GWLFEGMSWLFMHLNSN-PFGCAVL 305 (476)
T ss_pred chHHHHHHHHHHHHHHHHHHhhCHHHHHHH--HHHHHHHHHHHHHHHHhHHhHH-HHHHHHHHHHHHHHHhh-HHHHHHH
Confidence 477999999999999998888775555432 124444332 333344444432 24444444444444432 4555566
Q ss_pred HHHHHHHH
Q 025129 138 SASKQISA 145 (257)
Q Consensus 138 ~siKq~~~ 145 (257)
..+.+..=
T Consensus 306 g~~~~~lV 313 (476)
T PRK09586 306 AGLFLIAV 313 (476)
T ss_pred HHHHHHHh
Confidence 66666543
No 28
>PF01311 Bac_export_1: Bacterial export proteins, family 1; InterPro: IPR002010 Secretion of virulence factors in Gram-negative bacteria involves transportation of the protein across two membranes to reach the cell exterior []. There have been four secretion systems described in animal enteropathogens such as Salmonella and Yersinia, with further sequence similarities in plant pathogens like Ralstonia and Erwinia []. The type III secretion system is of great interest, as it is used to transport virulence factors from the pathogen directly into the host cell [] and is only triggered when the bacterium comes into close contact with the host. The protein subunits of the system are very similar to those of bacterial flagellar biosynthesis []. However, while the latter forms a ring structure to allow secretion of flagellin and is an integral part of the flagellum itself [], type III subunits in the outer membrane translocate secreted proteins through a channel-like structure. It is believed that the family of type III inner membrane proteins are used as structural moieties in a complex with several other subunits []. One such set of inner membrane proteins, labeled "R" here for nomenclature purposes, includes the Salmonella and Shigella SpaR, the Yersinia YscT, Rhizobium Y4YN, and the Erwinia HrcT genes []. The flagellar protein FliR also shares similarity, probably due to evolution of the type III secretion system from the flagellar biosynthetic pathway. ; GO: 0006605 protein targeting, 0016020 membrane
Probab=72.74 E-value=73 Score=28.80 Aligned_cols=43 Identities=7% Similarity=0.080 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025129 39 QACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (257)
Q Consensus 39 ~~~~~~~~~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l 81 (257)
...+..+-+++.+.|..|+..-+|+++...++.-.++++.+..
T Consensus 163 ~~~~~~~~~~~~~~f~~al~lAaP~i~~lll~~l~lG~l~R~~ 205 (249)
T PF01311_consen 163 EEALQFIIKLFGQMFSLALQLAAPVIAALLLVDLALGLLSRAA 205 (249)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 3566667777899999999999999999999999988887755
No 29
>TIGR01992 PTS-IIBC-Tre PTS system, trehalose-specific IIBC component. Trehalose may also be transported (in Salmonella) via the mannose PTS or galactose permease systems, or (in Sinorhizobium, Thermococcus and Sulfolobus, for instance) by ABC transporters.
Probab=71.56 E-value=23 Score=35.12 Aligned_cols=85 Identities=5% Similarity=0.077 Sum_probs=52.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHH-HHHHHHHhhhhhHHHHHHHhhhchhcee-hhhH
Q 025129 60 LFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVF-LVGVFVSSWLGSTVFWVGEWFIKRMPFV-RHLY 137 (257)
Q Consensus 60 lLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~-liG~la~~~ig~~l~~~~e~ll~rIPlV-ksIY 137 (257)
++|.+++.|+..++-++++.++...++.+ -.|.+.+++++.+.+ ++|-+. .+++..+.+.+.++....|.+ .-||
T Consensus 233 Vip~Il~g~i~~yiek~~~k~lP~~l~~~--~vP~lt~lv~~~l~~~vigPi~-~~i~~~i~~~~~~l~~~~~~i~g~i~ 309 (462)
T TIGR01992 233 VLPALLAGYVLAVIEKWLRKRVPDAIQLL--VVPPVSLLVTGFLAHAIIGPIG-RLIGNGITSGVTALFTSAAWLGGAIF 309 (462)
T ss_pred HHHHHHHHHHHHHHHHHHHcCChHHHHHH--HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhCcHHHHHHH
Confidence 58899999999998888888765544432 245555544433333 445432 345555555556666655543 4478
Q ss_pred HHHHHHHHHh
Q 025129 138 SASKQISAAI 147 (257)
Q Consensus 138 ~siKq~~~~f 147 (257)
..+.++.=.+
T Consensus 310 G~l~~~lV~~ 319 (462)
T TIGR01992 310 GLLYAPLVIT 319 (462)
T ss_pred HHHHHHHHHh
Confidence 8888776554
No 30
>PRK10687 purine nucleoside phosphoramidase; Provisional
Probab=70.23 E-value=6.2 Score=31.88 Aligned_cols=36 Identities=17% Similarity=0.216 Sum_probs=31.6
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHH
Q 025129 187 DEELCSVFVPTNHLYIGDIFLVSSKEIIRP-NLSIRE 222 (257)
Q Consensus 187 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEe 222 (257)
+++.+.+|+-..|..-|-++++|++.+..+ |++.|+
T Consensus 22 edd~~~aflD~~P~~~GH~LViPK~H~~~l~dl~~~~ 58 (119)
T PRK10687 22 QDELVTAFRDISPQAPTHILIIPNILIPTVNDVSAEH 58 (119)
T ss_pred ECCCEEEEEcCCCCCCccEEEEehhHhCChhHCChHH
Confidence 468889999888988999999999999776 898886
No 31
>PRK15083 PTS system mannitol-specific transporter subunit IICBA; Provisional
Probab=70.16 E-value=18 Score=37.35 Aligned_cols=83 Identities=14% Similarity=0.115 Sum_probs=54.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhH----HHHHHHHHHHHHHHHHhhhhhHHHHHHHhhhch--hce
Q 025129 59 VLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLG----FITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKR--MPF 132 (257)
Q Consensus 59 vlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglg----ll~~llli~liG~la~~~ig~~l~~~~e~ll~r--IPl 132 (257)
.++|..++.|+..|+-+++++.+...++.+- .|.+. +++..+.++++|=+.. ++|..+-+++.++... .|+
T Consensus 101 svip~il~~~~~~~vek~l~k~ip~~l~~~~--~P~~tlli~~i~~~l~~~viGP~g~-~i~~~l~~~i~~l~~~~~~~~ 177 (639)
T PRK15083 101 AMIAGPLGGWAIKHFDRWVDGKIKSGFEMLV--NNFSAGIIGMILAILAFLGIGPAVE-VLSKMLAAGVNFMVVHDLLPL 177 (639)
T ss_pred chHHHHHHHHHHHHHHHHHHhhccchhhHhh--hhHHHHHHHHHHHHHHheeeHHHHH-HHHHHHHHHHHHHHhCcchhH
Confidence 6899999999999999999888766665431 23332 2234566677777654 6777777777777655 444
Q ss_pred e-hhhHHHHHHHH
Q 025129 133 V-RHLYSASKQIS 144 (257)
Q Consensus 133 V-ksIY~siKq~~ 144 (257)
+ .-++.++-++.
T Consensus 178 ~a~~i~~~~~~~l 190 (639)
T PRK15083 178 TSIFVEPAKILFL 190 (639)
T ss_pred HHHHHHHHHHHHH
Confidence 3 33445555544
No 32
>TIGR00851 mtlA PTS system, mannitol-specific IIC component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. The Fru family is a large and complex family which includes several sequenced fructose and mannitol-specific permeases as well as several putative PTS permeases of unknown specificities.The Fru family PTS systems typically have 3 domains, IIA, IIB and IIC, which may be found as 1 or more proteins. The fructose and mannitol transporters form separate phylogenetic clusters in this family. This family is specific for the IIC domain of the mannitol PTS transporters.
Probab=69.45 E-value=31 Score=32.88 Aligned_cols=83 Identities=13% Similarity=-0.001 Sum_probs=53.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHH----HHHHHHHHHHHHHHHhhhhhHHHHHHHhhhch--hce
Q 025129 59 VLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGF----ITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKR--MPF 132 (257)
Q Consensus 59 vlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgl----l~~llli~liG~la~~~ig~~l~~~~e~ll~r--IPl 132 (257)
.++|+.++.|+..|+-+++++.+...++.+- .|-+.+ +...+.++++|=+.. ++|+.+-+.++++.+. -|.
T Consensus 93 sViP~il~v~~~s~iEk~l~K~iP~~l~~i~--~P~ltlli~li~~pl~l~viGPig~-~ig~~i~~~i~~l~~~~~~~~ 169 (338)
T TIGR00851 93 AMIMGPLGGWLIKKTDEFVQGKVKQGFEMLV--NNFSAGIIGFILTILAFEGIGPIVK-AISKILAAGVEAIVHAHLLPL 169 (338)
T ss_pred hHHHHHHHHHHHHHHHHHHHhhCcHHHHHhH--hhHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhCcchhH
Confidence 7899999999999999999988766555421 244443 223555566666543 5677776677777652 333
Q ss_pred -ehhhHHHHHHHH
Q 025129 133 -VRHLYSASKQIS 144 (257)
Q Consensus 133 -VksIY~siKq~~ 144 (257)
-.-++...-+++
T Consensus 170 ~~g~i~g~~~~~l 182 (338)
T TIGR00851 170 ASIFVEPAKILFL 182 (338)
T ss_pred HHHHHHHHHHHHH
Confidence 334455555544
No 33
>TIGR01996 PTS-II-BC-sucr PTS system, sucrose-specific IIBC component. This family is closely related to the trehalose transporting PTS IIBC enzymes and the B and C domains of each are described by subfamily-domain level TIGRFAMs models (TIGR00826 and TIGR00852, respectively).
Probab=68.15 E-value=38 Score=33.50 Aligned_cols=85 Identities=14% Similarity=0.232 Sum_probs=57.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHH-HHHHHHHHHHHHhhhhhHHHHHHHhhhchh-ceehhhH
Q 025129 60 LFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITS-LVFVFLVGVFVSSWLGSTVFWVGEWFIKRM-PFVRHLY 137 (257)
Q Consensus 60 lLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~-llli~liG~la~~~ig~~l~~~~e~ll~rI-PlVksIY 137 (257)
++|..++.|+..|+-++++..+...++.+ -.|.+.++++ ++.++++|.+.. +++..+.+.++++.+.- ++..-||
T Consensus 230 Vip~Il~g~i~~~iek~~~k~~P~~l~~~--~vP~l~~lv~~~l~~~vigp~~~-~i~~~i~~~~~~l~~~~~~i~~~i~ 306 (461)
T TIGR01996 230 VLPVLVAVWILAKIEKFLRKVVPNALDLL--LTPFLTLLITGFLTLLVIGPIGR-WVGDVLTDGLQWLYDLPGGLGGLLF 306 (461)
T ss_pred HHHHHHHHHHHHHHHHHHHHhchhhhhhh--hHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhccHHHHHHHH
Confidence 88999999999999888888776665543 2455555544 444445776543 57777777777776533 3455688
Q ss_pred HHHHHHHHHh
Q 025129 138 SASKQISAAI 147 (257)
Q Consensus 138 ~siKq~~~~f 147 (257)
..+.++...+
T Consensus 307 G~l~~~Lv~~ 316 (461)
T TIGR01996 307 GGLYSLIVIT 316 (461)
T ss_pred HHHHHHHHHh
Confidence 8888876554
No 34
>PF03596 Cad: Cadmium resistance transporter; InterPro: IPR004676 These proteins are members of the Cadmium Resistance (CadD) Family. To date, this family of proteins has only been found in Gram-positive bacteria. The CadD family includes two close orthologues in two Staphylococcus species that have been reported to function in cadmium resistance, and another staphylococcal protein that has been reported to possibly function in quaternary ammonium ion export.
Probab=66.36 E-value=13 Score=32.89 Aligned_cols=84 Identities=14% Similarity=0.109 Sum_probs=43.6
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhhhchhceehhhHHHHHHHHHHhCCCCCCC-CcCcEEEEEeCCCCeeEEE
Q 025129 95 LGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTT-AFKEVAIIRHPRVGEYAFG 173 (257)
Q Consensus 95 lgll~~llli~liG~la~~~ig~~l~~~~e~ll~rIPlVksIY~siKq~~~~f~~~~~~~-~f~~VVlVe~P~~g~~~iG 173 (257)
+|+.+++++-++.++.....--. |.=.+|.=+|+ |=.+|.+.+ ++++++ .-++-.--+-.+...+.++
T Consensus 34 lG~~~Lv~~Sl~~~~~l~~ip~~----wiLGlLGliPI----~lGi~~l~~---~~~~~e~~~~~~~~~~~~~~~i~~Va 102 (191)
T PF03596_consen 34 LGFTILVLASLLGAFGLLFIPPE----WILGLLGLIPI----YLGIKALFS---GEDDDEEEAEEKLNSPKSNSLILTVA 102 (191)
T ss_pred HHHHHHHHHHHHHHHHHHhCCHH----HHHHHHHHHHH----HHHHHHHHc---CCCccccccccccccccccchhHHhh
Confidence 45555544444444444432232 23356788999 999997753 332211 1010000001123466777
Q ss_pred EEccccccccCCCCCCeEEEEec
Q 025129 174 FITSTVTLQKDNGDEELCSVFVP 196 (257)
Q Consensus 174 FvT~~~~~~~~~~~~~~v~VfvP 196 (257)
++|= .+ +.|...||+|
T Consensus 103 ~iTi------An-GgDNigIYiP 118 (191)
T PF03596_consen 103 AITI------AN-GGDNIGIYIP 118 (191)
T ss_pred hhhh------hc-CCCeEEEeeh
Confidence 7763 23 6889999999
No 35
>TIGR02002 PTS-II-BC-glcB PTS system, glucose-specific IIBC component. This model represents the combined B and C domains of the PTS transport system enzyme II specific for glucose transport. Many of the genes in this family also include an A domain as part of the same polypeptide and thus should be given the name "PTS system, glucose-specific IIABC component" while the B. subtilus enzyme also contains an enzyme III domain which appears to act independently of the enzyme II domains. This family is most closely related to the N-acetylglucosamine-specific PTS enzymes (TIGR01998).
Probab=65.89 E-value=32 Score=34.62 Aligned_cols=87 Identities=7% Similarity=0.035 Sum_probs=58.2
Q ss_pred HHHHHHHHHHHHHHH-HHHhhhhhhhhhccc--ccchhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhhhchhc-eehh
Q 025129 60 LFPVAVTFFITWWFV-QFVDGFFSPLYEHLG--FDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMP-FVRH 135 (257)
Q Consensus 60 lLPl~lTi~vl~wl~-~~vd~~l~pl~~~l~--~~ipglgll~~llli~liG~la~~~ig~~l~~~~e~ll~rIP-lVks 135 (257)
++|.++..|+..|+. ++.+..+...+.+++ .-.|.+.+++.+.+-+++|.+-. +++..+-+..+.+.+.-| +-.-
T Consensus 135 V~~~Il~g~i~a~l~nk~~~k~lP~~l~~f~G~rfvPiit~lv~~~l~~i~~~iwp-~i~~~i~~~~~~l~~~~~~~g~~ 213 (502)
T TIGR02002 135 VFGGIIIGAIAAYCYNRFYNIKLPEYLGFFAGKRFVPIITGLAAIVTGIVLSFIWP-PVQDALNTFSHWAAYQNPVVAFF 213 (502)
T ss_pred cHHHHHHHHHHHHHHHHHhcccCcHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHcCcHHHHH
Confidence 689999999999999 777777766666552 12566666655555555555443 566666666666655444 5566
Q ss_pred hHHHHHHHHHHh
Q 025129 136 LYSASKQISAAI 147 (257)
Q Consensus 136 IY~siKq~~~~f 147 (257)
+|..+.++.=.+
T Consensus 214 i~G~l~r~Lv~~ 225 (502)
T TIGR02002 214 IFGFIERSLIPF 225 (502)
T ss_pred HHHHHHHHHHHh
Confidence 888888876554
No 36
>PRK15333 type III secretion system protein SpaQ; Provisional
Probab=65.53 E-value=62 Score=25.12 Aligned_cols=77 Identities=19% Similarity=0.095 Sum_probs=47.8
Q ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhhhc
Q 025129 49 ISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIK 128 (257)
Q Consensus 49 i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG~la~~~ig~~l~~~~e~ll~ 128 (257)
.++.+...+.+..|+.+.-.++.-+.+++...- .+-+ .-+.++-=++.++++=++.-.|.++.+.++.++++.
T Consensus 8 ~~~al~~~l~ls~P~L~valvVGlvIsi~QA~T-QIQE------qTLsFvPKliav~~~l~~~~pwm~~~l~~f~~~if~ 80 (86)
T PRK15333 8 GNKALYLVLILSGWPTIVATIIGLLVGLFQTVT-QLQE------QTLPFGIKLLGVCLCLFLLSGWYGEVLLSYGRQVIF 80 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHH------HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466688889999999988888876666553322 1111 112332223333333344456777888889999998
Q ss_pred hhce
Q 025129 129 RMPF 132 (257)
Q Consensus 129 rIPl 132 (257)
.+|-
T Consensus 81 ~~~~ 84 (86)
T PRK15333 81 LALA 84 (86)
T ss_pred hhhc
Confidence 8874
No 37
>COG3768 Predicted membrane protein [Function unknown]
Probab=65.13 E-value=30 Score=33.18 Aligned_cols=29 Identities=24% Similarity=0.343 Sum_probs=23.0
Q ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Q 025129 49 ISKKFMTGCVVLFPVAVTFFITWWFVQFV 77 (257)
Q Consensus 49 i~~~Fl~GLlvlLPl~lTi~vl~wl~~~v 77 (257)
+.+++++++.+++-+++..|-..|+-+..
T Consensus 63 ~~k~~~~a~~vLf~~Av~~q~~qwi~d~~ 91 (350)
T COG3768 63 FWKIMLGAGGVLFSLAVGLQSVQWIRDLF 91 (350)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44568888899999998888888887654
No 38
>COG4794 EscS Type III secretory pathway, component EscS [Intracellular trafficking and secretion]
Probab=61.74 E-value=54 Score=25.69 Aligned_cols=75 Identities=19% Similarity=0.274 Sum_probs=42.4
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhhhchhce
Q 025129 53 FMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPF 132 (257)
Q Consensus 53 Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG~la~~~ig~~l~~~~e~ll~rIPl 132 (257)
+.-=|+.-+|-++.--++.-+++++...- -+-+ .-+++.+=++.++++=++...|.|..++++.|.++.++|.
T Consensus 14 L~liLilSlPpvivAsvvGllVslvQA~T-QiQd------QTl~f~iKLl~V~~tl~lt~~Wlg~~ll~fa~~i~~~~~~ 86 (89)
T COG4794 14 LWLILILSLPPVIVASVVGLLVSLVQALT-QIQD------QTLPFGIKLLAVSATLFLTAGWLGATLLNFAEQIFLNIPK 86 (89)
T ss_pred HHHHHHHhccHHHHHHHHHHHHHHHHHHH-HHHH------hHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHhhh
Confidence 33345556666665555554444442221 0111 1133333333344444556678899999999999999997
Q ss_pred eh
Q 025129 133 VR 134 (257)
Q Consensus 133 Vk 134 (257)
.|
T Consensus 87 ~~ 88 (89)
T COG4794 87 AR 88 (89)
T ss_pred cc
Confidence 54
No 39
>PRK11404 putative PTS system transporter subunits IIBC; Provisional
Probab=60.97 E-value=31 Score=34.55 Aligned_cols=67 Identities=13% Similarity=0.089 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhh-----hhhhhcccccchhhHHHHH-HHHHHHHHHHHHhhhhhHHHHHHHhhhc
Q 025129 59 VLFPVAVTFFITWWFVQFVDGFF-----SPLYEHLGFDIFGLGFITS-LVFVFLVGVFVSSWLGSTVFWVGEWFIK 128 (257)
Q Consensus 59 vlLPl~lTi~vl~wl~~~vd~~l-----~pl~~~l~~~ipglgll~~-llli~liG~la~~~ig~~l~~~~e~ll~ 128 (257)
-++|.+++.|+..++.++++++. ..+.+. +-.|.++++++ .+.++++|=... +++..+.+++.++..
T Consensus 228 gflg~Il~g~~~gyv~k~lkki~~p~~~p~~~~~--~~~Pllt~li~~~l~~~viGP~~~-~i~~~l~~~l~~l~~ 300 (482)
T PRK11404 228 GFLGAVVLGLAIGYFVFWFRKVRLGKALQPLLGS--MLIPFVTLLVFGVLTYYVIGPVMS-DLMGGLLHFLNTIPP 300 (482)
T ss_pred cHHHHHHHHHHHHHHHHHHHhCCCCcchhhhcce--eeHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHc
Confidence 57899999999999999988865 223332 22567776554 344557777655 567777777666654
No 40
>PRK15349 type III secretion system protein SsaT; Provisional
Probab=60.68 E-value=1.1e+02 Score=27.88 Aligned_cols=40 Identities=5% Similarity=-0.002 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025129 42 CYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (257)
Q Consensus 42 ~~~~~~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l 81 (257)
...+.+++.+.|..|+..-+|++++..++.-.++.+.+..
T Consensus 170 ~~~~~~~~~~~f~~al~lAaP~i~~lll~~~~lGll~R~~ 209 (259)
T PRK15349 170 LKYIQAEWRTLYQLCISFSLPAIICMVLADLALGLLNRSA 209 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 3445566788899999999999999999999998887755
No 41
>COG0537 Hit Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]
Probab=60.56 E-value=16 Score=30.15 Aligned_cols=43 Identities=14% Similarity=0.232 Sum_probs=35.7
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHHHHHHHhh
Q 025129 187 DEELCSVFVPTNHLYIGDIFLVSSKEIIRP-NLSIREGIEIIVS 229 (257)
Q Consensus 187 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEeAmk~iiS 229 (257)
.++++.+|+=-.|.+-|.++++|++.+..+ |++.++...+...
T Consensus 20 e~~~~~afld~~P~~~gH~LviPk~h~~~l~~l~~~~~~~l~~~ 63 (138)
T COG0537 20 EDEHVLAFLDIYPAAPGHTLVIPKRHVSDLEDLDPEELAELFLL 63 (138)
T ss_pred eCCCEEEEecCCCCCCCeEEEEeccchhhhhhCCHHHHHHHHHH
Confidence 367789999889988999999999999887 9999876655443
No 42
>PF02674 Colicin_V: Colicin V production protein; InterPro: IPR003825 Colicin V is a small extracellular protein toxin which kills sensitive cells by disrupting their membrane potential []. Colicin V is produced from large low-copy plasmids and requires four plasmid genes for synthesis export and immunity [ 3034857). The cvaC gene is the structural gene for colicin V and cvaA and cvaB are required for processing and export of the toxin through the inner and outer membranes cvi confers immunity to the host cell. There are several stages at which host factors could play a role in colicin V production and mutations that alter any of these functions should result in lowered levels of extracellular colicin V ]. Colicin V production protein is required in Escherichia coli for colicin V production from plasmid pColV-K30 []. This entry represent the CvpA protein, which is involved in colicin V production. It is coded for by the cvpA gene, which is found upstream of the purF gene in the purF operon []. ; GO: 0009403 toxin biosynthetic process, 0016020 membrane
Probab=60.39 E-value=59 Score=26.08 Aligned_cols=81 Identities=15% Similarity=0.248 Sum_probs=41.3
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhh-hcccccchhhHHHHHHHHHHHHHHHHHhhh----hhHHHHHHH
Q 025129 50 SKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLY-EHLGFDIFGLGFITSLVFVFLVGVFVSSWL----GSTVFWVGE 124 (257)
Q Consensus 50 ~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~-~~l~~~ipglgll~~llli~liG~la~~~i----g~~l~~~~e 124 (257)
+|=|+.-++-++=+++.+++-.+....+..++...+ ..-..-...++++++.+++++++.+..+.+ .+...+..|
T Consensus 18 ~rG~~~~~~~l~~~i~a~~~a~~~~~~~~~~l~~~~~~~~~~~~~~iaf~~~f~~~~~i~~~i~~~l~~~~~~~~~~~~d 97 (146)
T PF02674_consen 18 RRGFIRELFSLIGLIVALFVAFLFYPPLAPFLSNYFSSLSPPFANIIAFIILFVLVYIIVRIIGKLLRRIVKKPFLGWLD 97 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccHHH
Confidence 455666677777777777777777766666554422 000111233444444444444444444333 333445556
Q ss_pred hhhchh
Q 025129 125 WFIKRM 130 (257)
Q Consensus 125 ~ll~rI 130 (257)
+++.-+
T Consensus 98 r~lG~~ 103 (146)
T PF02674_consen 98 RLLGAL 103 (146)
T ss_pred HHHHHH
Confidence 655544
No 43
>PF06596 PsbX: Photosystem II reaction centre X protein (PsbX); InterPro: IPR009518 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. The low molecular weight transmembrane protein PsbX found in PSII is associated with the oxygen-evolving complex. Its expression is light-regulated. PsbX appears to be involved in the regulation of the amount of PSII [], and may be involved in the binding or turnover of quinone molecules at the Qb (PsbA) site [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0016020 membrane; PDB: 3ARC_x 3A0H_X 3A0B_X 3PRR_X 1S5L_x 4FBY_j 3PRQ_X 3KZI_X 3BZ2_X 3BZ1_X.
Probab=60.19 E-value=23 Score=23.64 Aligned_cols=27 Identities=15% Similarity=0.330 Sum_probs=18.7
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHHH
Q 025129 45 LQSWISKKFMTGCVVLFPVAVTFFITW 71 (257)
Q Consensus 45 ~~~~i~~~Fl~GLlvlLPl~lTi~vl~ 71 (257)
|.+||..-+.+|+++++|+++.+..+.
T Consensus 5 L~nfl~Sl~aG~~iVv~~i~~ali~VS 31 (39)
T PF06596_consen 5 LSNFLLSLVAGAVIVVIPIAGALIFVS 31 (39)
T ss_dssp HHHHHHHHHHHH-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhhhhhhhhhhhhheEEEe
Confidence 556666667777799999988766543
No 44
>TIGR02004 PTS-IIBC-malX PTS system, maltose and glucose-specific IIBC component. This model represents a family of PTS enzyme II fused B and C components including and most closely related to the MalX maltose and glucose-specific transporter of E. coli. A pair of paralogous genes from E. coli strain CFT073 score between trusted and noise and may have diverged sufficiently to have an altered substrate specificity.
Probab=58.61 E-value=57 Score=32.98 Aligned_cols=88 Identities=9% Similarity=0.044 Sum_probs=56.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhh-hhhhhhccc--ccchhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhhhchhceehh
Q 025129 59 VLFPVAVTFFITWWFVQFVDGF-FSPLYEHLG--FDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRH 135 (257)
Q Consensus 59 vlLPl~lTi~vl~wl~~~vd~~-l~pl~~~l~--~~ipglgll~~llli~liG~la~~~ig~~l~~~~e~ll~rIPlVks 135 (257)
-++|.+++.++..|+.+...+. +...+.+++ .-.|.+.+++.+.+-+++.+. ..+++..++.+.+++...+.++.
T Consensus 138 gV~ggIi~g~i~a~i~n~~~k~~lP~~L~ff~G~rfVPiit~li~~~l~~~~p~~--wp~~~~~i~~~~~~i~~~g~~g~ 215 (517)
T TIGR02004 138 GVLGAVIVGLIVYKLHNRFYTVQMPDALAFFGGARFVPIISALVLAVVGLVIPLV--WPLFALMIMAIGQLIQRSGIFGP 215 (517)
T ss_pred chHHHHHHHHHHHHHHHHHccccCchHHHHccCCcchHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhcChHHH
Confidence 3789999999999999999885 444444442 124555554443333333222 44556666666666666554444
Q ss_pred -hHHHHHHHHHHhC
Q 025129 136 -LYSASKQISAAIS 148 (257)
Q Consensus 136 -IY~siKq~~~~f~ 148 (257)
+|..+.++.=.+-
T Consensus 216 fiyG~l~rlLIp~G 229 (517)
T TIGR02004 216 FLFGSGERLLLPIG 229 (517)
T ss_pred HHHHHHHHHHHHhc
Confidence 8999999887763
No 45
>TIGR01427 PTS_IIC_fructo PTS system, fructose subfamily, IIC component. This model represents the IIC component, or IIC region of a IIABC or IIBC polypeptide of a phosphotransferase system for carbohydrate transport. Members of this family belong to the fructose-specific subfamily of the broader family (pfam02378) of PTS IIC proteins. Members should be found as part of the same chain or in the same operon as fructose family IIA (TIGR00848) and IIB (TIGR00829) protein regions. A number of bacterial species have members in two different branches of this subfamily, suggesting some diversity in substrate specificity of its members.
Probab=57.75 E-value=44 Score=32.04 Aligned_cols=72 Identities=8% Similarity=0.006 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhcc-c-ccchhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhhhchhc
Q 025129 59 VLFPVAVTFFITWWFVQFVDGFFSPLYEHL-G-FDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMP 131 (257)
Q Consensus 59 vlLPl~lTi~vl~wl~~~vd~~l~pl~~~l-~-~~ipglgll~~llli~liG~la~~~ig~~l~~~~e~ll~rIP 131 (257)
.++|..++.|+..|+-+++++.+...++.+ + .-+|.+.++++.+..+++|=.. ++++..+-+++.++.+.-|
T Consensus 112 gII~gilag~~~~~lek~ikK~lP~~l~g~~~i~iiP~lt~li~~~~~~vigppi-~~i~~~l~~~l~~l~~~~~ 185 (346)
T TIGR01427 112 GIIAGFLAGYVVKGLQKYIKKKLPQSLRGLKPILIIPLLGTLIVGALIYGINIPV-AYLNYGLSNWLNIMGSPNA 185 (346)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhCcHHHHhCCceeehhHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhhhH
Confidence 467778888888877777776554444311 0 2246777766666667777766 5788888888777765443
No 46
>TIGR01400 fliR flagellar biosynthetic protein FliR. This model recognizes the FliR protein of bacterial flagellar biosynthesis. It distinguishes FliR from the homologous proteins bacterial type III protein secretion systems, known by names such as YopT, EscT, and HrcT.
Probab=56.55 E-value=1.5e+02 Score=26.73 Aligned_cols=42 Identities=12% Similarity=0.263 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025129 40 ACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (257)
Q Consensus 40 ~~~~~~~~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l 81 (257)
+.+..+.+.+.+.|..|+..-+|+++...++.-.++++.+..
T Consensus 157 ~~~~~~~~~~~~~f~~a~~lAaPvi~~~ll~~~~lGll~R~~ 198 (245)
T TIGR01400 157 NFFELILKALSDMFLLGLLLALPIIAALLLVNLVLGLVNRAA 198 (245)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 334555666788899999999999999999999998887755
No 47
>KOG0476 consensus Cl- channel CLC-2 and related proteins (CLC superfamily) [Inorganic ion transport and metabolism]
Probab=53.59 E-value=2.2e+02 Score=30.74 Aligned_cols=43 Identities=14% Similarity=-0.049 Sum_probs=37.1
Q ss_pred chHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhh
Q 025129 37 TRQACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDG 79 (257)
Q Consensus 37 ~~~~~~~~~~~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~ 79 (257)
+++-|++|..||+.+.+..--+++.=+.+...++.|..+..-.
T Consensus 76 ~~~~~~~r~~q~i~r~l~eDW~flalLG~imAlvS~~mD~ai~ 118 (931)
T KOG0476|consen 76 TCQEFLTRQMQNIVRKLGEDWFFLALLGVIMALVSIGMDMAIE 118 (931)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4568999999999999999999999999999999998876533
No 48
>PRK05415 hypothetical protein; Provisional
Probab=51.80 E-value=1.4e+02 Score=28.81 Aligned_cols=27 Identities=19% Similarity=0.164 Sum_probs=19.7
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHH
Q 025129 50 SKKFMTGCVVLFPVAVTFFITWWFVQFV 77 (257)
Q Consensus 50 ~~~Fl~GLlvlLPl~lTi~vl~wl~~~v 77 (257)
++.|.+++..++=+++..+ ..|+.+..
T Consensus 67 ~~~~~~~l~~l~~~~~~~~-~~~i~~~~ 93 (341)
T PRK05415 67 RKLLWGGLGLLGSLVVGQA-VQWLRDAF 93 (341)
T ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHHHH
Confidence 5568888888888877777 66666554
No 49
>TIGR01995 PTS-II-ABC-beta PTS system, beta-glucoside-specific IIABC component. This model represents a family of PTS enzyme II proteins in which all three domains are found in the same polypeptide chain and which appear to have a broad specificity for beta-glucosides including salicin (beta-D-glucose-1-salicylate) and arbutin (Hydroquinone-O-beta-D-glucopyranoside). These are distinct from the closely related sucrose-specific and trehalose-specific PTS transporters.
Probab=51.76 E-value=85 Score=32.35 Aligned_cols=80 Identities=11% Similarity=0.206 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHH-HHHHHHHHHHHhhhhhHHHHHHHhhhchhc-eehhhH
Q 025129 60 LFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSL-VFVFLVGVFVSSWLGSTVFWVGEWFIKRMP-FVRHLY 137 (257)
Q Consensus 60 lLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~l-lli~liG~la~~~ig~~l~~~~e~ll~rIP-lVksIY 137 (257)
++|..+..|+..++.+++++.+.+.++.+ -.|.+.+++++ +.++++|-+. ++++..+.+++.++...-| +...||
T Consensus 211 vip~Il~~~l~~~iek~~~k~vP~~l~~~--f~Pli~~li~~~l~l~vigPig-~~i~~~i~~~l~~l~~~~~~i~~~ii 287 (610)
T TIGR01995 211 VIPVILAVWLMSYVEKFLKKVIPGALKNF--LTPLLVMLITVPLTLLIIGPLG-NYAGEGISSGILFLYEVSPWLAGALL 287 (610)
T ss_pred HHHHHHHHHHHHHHHHHHHhhChHHHHHH--HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhcchHHHHHHH
Confidence 47888888888888888877665544431 23444443322 2233345443 3445555555555544333 233455
Q ss_pred HHHHH
Q 025129 138 SASKQ 142 (257)
Q Consensus 138 ~siKq 142 (257)
..+-+
T Consensus 288 g~l~~ 292 (610)
T TIGR01995 288 AALWP 292 (610)
T ss_pred HHHHH
Confidence 55544
No 50
>PRK10110 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional
Probab=51.71 E-value=87 Score=31.78 Aligned_cols=87 Identities=6% Similarity=0.026 Sum_probs=51.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhh-hhhhhhccc--ccchhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhhhchhceeh-h
Q 025129 60 LFPVAVTFFITWWFVQFVDGF-FSPLYEHLG--FDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVR-H 135 (257)
Q Consensus 60 lLPl~lTi~vl~wl~~~vd~~-l~pl~~~l~--~~ipglgll~~llli~liG~la~~~ig~~l~~~~e~ll~rIPlVk-s 135 (257)
++|.+++.|+..|+.+...+. +...+..++ .-.|.+.+++.+.+-+++.++ .=+++.+.+.+.+++...+.++ -
T Consensus 148 V~ggIi~g~i~a~l~~k~~k~~lP~~l~~f~G~rfvPiit~lv~~~l~~i~~~i--wP~~~~~~~~~~~~~~~~g~ig~~ 225 (530)
T PRK10110 148 ILGAVIAGIIVWMLHERFHNIRLPDALAFFGGTRFVPIISSLVMGLVGLVIPLV--WPIFAMGISGLGHMINSAGDFGPM 225 (530)
T ss_pred hHHHHHHHHHHHHHHHHHhcccCcHHHHhcCCCccHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhccHHHHH
Confidence 688899999999999988774 444444442 124555554433333333111 2234444455556665555444 4
Q ss_pred hHHHHHHHHHHhC
Q 025129 136 LYSASKQISAAIS 148 (257)
Q Consensus 136 IY~siKq~~~~f~ 148 (257)
+|..+.++.=.+-
T Consensus 226 i~G~l~r~LVp~G 238 (530)
T PRK10110 226 LFGTGERLLLPFG 238 (530)
T ss_pred HHHHHHHHHHHhc
Confidence 8999998876653
No 51
>PF04459 DUF512: Protein of unknown function (DUF512); InterPro: IPR007549 This is a domain of uncharacterised prokaryotic proteins. It is often found C-terminal to the radical SAM domain (IPR007197 from INTERPRO).
Probab=51.20 E-value=31 Score=30.66 Aligned_cols=82 Identities=13% Similarity=0.091 Sum_probs=54.3
Q ss_pred hhHHHHHHHHHHhCCCCCCCCcCcEEEEE--eCCCCeeEEEEEccccccccCCCCCCeEEEEecCCC-CCCceEEEEecC
Q 025129 135 HLYSASKQISAAISPDQNTTAFKEVAIIR--HPRVGEYAFGFITSTVTLQKDNGDEELCSVFVPTNH-LYIGDIFLVSSK 211 (257)
Q Consensus 135 sIY~siKq~~~~f~~~~~~~~f~~VVlVe--~P~~g~~~iGFvT~~~~~~~~~~~~~~v~VfvPtsP-ptsG~l~~Vp~~ 211 (257)
.-|..++++++.+... +.-. -+|+-|+ |-+..+-+-|.+|+++........+.--.+++|..- . ..+
T Consensus 107 la~~~l~~~~~~l~~~-~~~~-v~V~~V~N~fFG~~ItVaGLLTg~Dii~~L~~~~~~d~lllP~~ml~--------~~~ 176 (204)
T PF04459_consen 107 LAYPFLKPLVEKLNRI-PGLE-VEVVPVKNRFFGGTITVAGLLTGQDIIEQLKGKELGDLLLLPDVMLR--------HGE 176 (204)
T ss_pred HHHHHHHHHHHHHhcc-CCCe-EEEEEeecCCCCCCeEEeeCccHHHHHHHhCcCCCCCEEEECHHHhc--------CCC
Confidence 4589999999999322 2222 3467675 777889999999998753222212222578888763 3 246
Q ss_pred CeecCCCCHHHHHHH
Q 025129 212 EIIRPNLSIREGIEI 226 (257)
Q Consensus 212 ~V~~lDmsvEeAmk~ 226 (257)
++..-|||++|..+.
T Consensus 177 ~~fLDD~t~~el~~~ 191 (204)
T PF04459_consen 177 GVFLDDMTLEELEER 191 (204)
T ss_pred CccCCCCcHHHHHHH
Confidence 666679999998765
No 52
>COG4300 CadD Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]
Probab=50.45 E-value=44 Score=29.74 Aligned_cols=64 Identities=17% Similarity=0.124 Sum_probs=39.5
Q ss_pred HHHHhhhchhceehhhHHHHHHHHHHhCCCCCCCCcCcEEEE-EeCCCCeeEEEEEccccccccCCCCCCeEEEEecC
Q 025129 121 WVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAII-RHPRVGEYAFGFITSTVTLQKDNGDEELCSVFVPT 197 (257)
Q Consensus 121 ~~~e~ll~rIPlVksIY~siKq~~~~f~~~~~~~~f~~VVlV-e~P~~g~~~iGFvT~~~~~~~~~~~~~~v~VfvPt 197 (257)
+|+-.++.-||+ |=.+|-+..-=. |++++. + .-+- +--++..|.++.+|=- +-+.|...||+|-
T Consensus 67 e~I~glLGLIPi----~LGik~l~~~d~-d~e~~~-~-e~L~~~~~k~lv~tV~~vT~A------scG~DNIgvyvP~ 131 (205)
T COG4300 67 EWILGLLGLIPI----YLGIKVLILGDD-DGEEEA-K-EELAFKKNKNLVGTVAIVTFA------SCGADNIGVFVPY 131 (205)
T ss_pred HHHHHHHhHHHH----HHhhHHhhcccC-cCchhh-h-HHHHhccccceEEEEEEEEEe------ccCCcceEEEeee
Confidence 455567889999 999987754322 111111 1 1111 2445778899998842 3267889999993
No 53
>PRK04949 putative sulfate transport protein CysZ; Validated
Probab=49.72 E-value=1.6e+02 Score=26.90 Aligned_cols=24 Identities=21% Similarity=0.629 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHH----HHHHHHhhhh
Q 025129 58 VVLFPVAVTFFITW----WFVQFVDGFF 81 (257)
Q Consensus 58 lvlLPl~lTi~vl~----wl~~~vd~~l 81 (257)
++++|+.+++.++. |+++.++.++
T Consensus 29 ~~liPl~inllLf~~~l~~~~~~~~~~l 56 (251)
T PRK04949 29 FVILPLLVNILLFGGAFWWLFTQLDAWI 56 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35677777766554 4444444433
No 54
>TIGR01183 ntrB nitrate ABC transporter, permease protein. This model describes the nitrate transport permease in bacteria. This is gene product of ntrB. The nitrate transport permease is the integral membrane component of the nitrate transport system and belongs to the ATP-binding cassette (ABC) superfamily. At least in photosynthetic bacteria nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA, ntrB, ntrC, ntrD, narB. Functionally ntrC and ntrD resemble the ATP binding components of the binding protein-dependent transport systems. Mutational studies have shown that ntrB and ntrC are mandatory for nitrate accumulation. Nitrate reductase is encoded by narB.
Probab=49.64 E-value=1.3e+02 Score=26.23 Aligned_cols=68 Identities=12% Similarity=0.204 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHHH
Q 025129 40 ACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGV 109 (257)
Q Consensus 40 ~~~~~~~~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG~ 109 (257)
.+++++..-+.+.+ .|+.+-+-+.+.+-++-.....+++.+.|++..+ ..+|-++++.++++.|-.|-
T Consensus 14 ~~~~~~~~Tl~r~~-~g~~ia~~ig~~lG~~~~~~~~~~~~~~p~~~~l-~~iP~~~~~pl~~~~fG~g~ 81 (202)
T TIGR01183 14 GLFWQIIASLTRVA-VGFSIAAIIGIAVGILIGLSKFLNAALDPIFQVL-RTIPPLAWLPIALAAFQDAQ 81 (202)
T ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhCCHHHHHHHHHHHHhcCc
Confidence 45555555565544 4444444455555555556678888888887653 45677777666555555443
No 55
>PF05552 TM_helix: Conserved TM helix; InterPro: IPR008910 This alignment represents a conserved transmembrane helix as well as some flanking sequence. It is often found in association with a Mechanosensitive (MS) channel IPR006685 from INTERPRO.; PDB: 2VV5_F 2OAU_E.
Probab=48.28 E-value=41 Score=23.08 Aligned_cols=26 Identities=19% Similarity=0.394 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHhhhhhHHHHHHH
Q 025129 99 TSLVFVFLVGVFVSSWLGSTVFWVGE 124 (257)
Q Consensus 99 ~~llli~liG~la~~~ig~~l~~~~e 124 (257)
+..++++++|+++.+.+.+.+-+.++
T Consensus 19 v~AilIl~vG~~va~~v~~~~~~~l~ 44 (53)
T PF05552_consen 19 VGAILILIVGWWVAKFVRKLVRRLLE 44 (53)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456788898877766654444433
No 56
>PRK15071 lipopolysaccharide ABC transporter permease; Provisional
Probab=47.72 E-value=86 Score=29.23 Aligned_cols=39 Identities=13% Similarity=0.122 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025129 43 YVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (257)
Q Consensus 43 ~~~~~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l 81 (257)
+.+..++.|.++..+++.+-..+.++++.++++.++.+.
T Consensus 3 ~il~rYi~r~~l~~~~~~l~~l~~l~~~~~~~~~l~~~~ 41 (356)
T PRK15071 3 GILDRYIGRTILSTIMLTLFMLVGLSGIIKFVDQLRKVG 41 (356)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 455667777788888888777788888888887776643
No 57
>TIGR01401 fliR_like_III type III secretion protein SpaR/YscT/HrcT. This model represents members of bacterial type III secretion systems homologous to the flagellar biosynthetic protein FliR (TIGRFAMs:TIGR01400).
Probab=46.89 E-value=2.3e+02 Score=25.83 Aligned_cols=41 Identities=12% Similarity=0.185 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025129 41 CCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (257)
Q Consensus 41 ~~~~~~~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l 81 (257)
.+..+.+.+.+.|..|+..-+|+++...++.-.++++.+..
T Consensus 165 ~~~~~~~~~~~~f~~al~lAaPvi~~~ll~~l~lGllsR~~ 205 (253)
T TIGR01401 165 GLSFVLSQLDQMMALALLLAAPVIIVLFLIELALGLLSRFA 205 (253)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 44555666888999999999999999999998888887755
No 58
>PRK10478 putative PTS system fructose-like transporter subunit EIIC; Provisional
Probab=46.88 E-value=73 Score=30.87 Aligned_cols=95 Identities=22% Similarity=0.310 Sum_probs=55.7
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhh-------------------------hhhhhhh-ccccc---
Q 025129 41 CCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDG-------------------------FFSPLYE-HLGFD--- 91 (257)
Q Consensus 41 ~~~~~~~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~-------------------------~l~pl~~-~l~~~--- 91 (257)
.|.+..+.+++++.+|+--.+|+++.-=++.-+-..+++ +.-|++. ++.+.
T Consensus 3 ~~~~~~~~~~~hlmtGvS~MlP~VvagGil~ai~~~~~g~~~~~~~~~~~~~~~l~~iG~~~f~lmvpvlaayIa~SIa~ 82 (359)
T PRK10478 3 ELVQILKNTRQHLMTGVSHMIPFVVAGGILLAVSVMLYGKGAVPDAVADPNLKKLFDIGVAGLTLMVPFLAAYIGYSIAD 82 (359)
T ss_pred HHHHHHHHHHHHHHhChhHhHhHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 344444558999999999999999876665444332211 0112110 01000
Q ss_pred ----ch-----------hhHHHHHHHHHHHHHHHHHhhhhh-HHHHHHHhhhc--hhceehhh
Q 025129 92 ----IF-----------GLGFITSLVFVFLVGVFVSSWLGS-TVFWVGEWFIK--RMPFVRHL 136 (257)
Q Consensus 92 ----ip-----------glgll~~llli~liG~la~~~ig~-~l~~~~e~ll~--rIPlVksI 136 (257)
.| +.|++-.++.-|++||+++ ++.+ ++-+.++.+.. =+|++.++
T Consensus 83 kpglapg~i~G~~a~~~~~GFlGaii~G~laGy~v~-~lkki~lpk~l~~~~piliiP~l~~l 144 (359)
T PRK10478 83 RSALAPCAIGAWVGNSFGAGFFGALIAGIIGGIVVH-YLKKIPVHKVLRSVMPIFIIPIVGTL 144 (359)
T ss_pred CccccHHHHHHHHHhcCCcchHHHHHHHHHHHHHHH-HHHhcCCchhhHhhcceeeeHHHHHH
Confidence 12 3567777888899999988 5554 34555555543 36776654
No 59
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=46.45 E-value=95 Score=21.35 Aligned_cols=50 Identities=8% Similarity=-0.138 Sum_probs=38.7
Q ss_pred cEEEEEeCCCCeeEEEEEccccccccCCCCCCeEEEEecCCCCCCceEEEEecCCeecC
Q 025129 158 EVAIIRHPRVGEYAFGFITSTVTLQKDNGDEELCSVFVPTNHLYIGDIFLVSSKEIIRP 216 (257)
Q Consensus 158 ~VVlVe~P~~g~~~iGFvT~~~~~~~~~~~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l 216 (257)
..|-+.++.+|.|--|.|++.. +++.+.|+.++ ...|....++.+++++.
T Consensus 7 ~~Ve~~~~~~~~W~~a~V~~~~-------~~~~~~V~~~~--~~~~~~e~v~~~~LRp~ 56 (61)
T smart00743 7 DRVEVFSKEEDSWWEAVVTKVL-------GDGKYLVRYLT--ESEPLKETVDWSDLRPH 56 (61)
T ss_pred CEEEEEECCCCEEEEEEEEEEC-------CCCEEEEEECC--CCcccEEEEeHHHcccC
Confidence 4677888889999999999752 35678999987 33566778888888775
No 60
>TIGR00779 cad cadmium resistance transporter (or sequestration) family protein. These proteins are members of the Cadmium Resistance (CadD) Family (TC 2.A.77). To date, this family of proteins has only been found in Gram-positive bacteria. The CadD family includes several closely related Staphylococcal proteins reported to function in cadmium resistance. Members are predicted to span the membrane five times; the mechanism of resistance is believed to be export but has also been suggested to be binding and sequestration in the membrane. Closely related but outside the scope of this model is another staphylococcal protein that has been reported to possibly function in quaternary ammonium ion export. Still more distant are other members of the broader LysE family (see Vrljic. et al, PubMed:10943564).
Probab=43.64 E-value=1.4e+02 Score=26.50 Aligned_cols=60 Identities=13% Similarity=0.138 Sum_probs=34.6
Q ss_pred HHHhhhchhceehhhHHHHHHHHHHhCCCCCCCCcCcEEEE--EeC--CCCeeEEEEEccccccccCCCCCCeEEEEecC
Q 025129 122 VGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAII--RHP--RVGEYAFGFITSTVTLQKDNGDEELCSVFVPT 197 (257)
Q Consensus 122 ~~e~ll~rIPlVksIY~siKq~~~~f~~~~~~~~f~~VVlV--e~P--~~g~~~iGFvT~~~~~~~~~~~~~~v~VfvPt 197 (257)
|+=.+|.-+|+ |=.+|.+.+ ++++.+ ++.+.- +-+ ++-.+.++.+|= .+ +.|...||+|-
T Consensus 56 wIlGlLGliPI----~lGi~~l~~---~~~~~~--~~~~~~~~~~~~~~~~~~~Va~iTi------An-GgDNIgIYvPl 119 (193)
T TIGR00779 56 WVLGLLGLIPI----YLGIKVAIK---GECDED--ERAILSLNESGKLNKLFLTVAFITI------AS-GADNIGIYVPY 119 (193)
T ss_pred HHHhHHhHHHH----HHHHHHHhc---cccccc--ccccccccccccCCCceEEEEEEEE------ec-cCceeEEEeee
Confidence 33366788999 988887766 232211 111110 011 122477888873 23 68899999993
No 61
>PRK05701 fliR flagellar biosynthesis protein FliR; Reviewed
Probab=43.54 E-value=2.5e+02 Score=25.33 Aligned_cols=40 Identities=15% Similarity=0.291 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025129 42 CYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (257)
Q Consensus 42 ~~~~~~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l 81 (257)
...+.+++...|..|+..-+|+++...++.-.++++.+..
T Consensus 161 ~~~~~~~~~~~f~~a~~lAaP~i~~~ll~~~~lGll~R~~ 200 (242)
T PRK05701 161 FLLLAKALSAMFLIGLQLALPIIVLLLLVNLALGLINRTA 200 (242)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 3455566788899999999999999999999988887765
No 62
>TIGR00852 pts-Glc PTS system, maltose and glucose-specific subfamily, IIC component. permeases are in this class, as the cellobiose (Cel) b-glucoside PTS permease is in the Lac family (TC #4.A.3). These permeases show limited sequence similarity with members of the Fru family (TC #4.A.2). Several of the E. coli PTS permeases in the Glc family lack their own IIA domains and instead use the glucose IIA protein (IIAglc or Crr). Most of these permeases have the B and C domains linked together in a single polypeptide chain, and a cysteyl residue in the IIB domain is phosphorylated by direct phosphoryl transfer from IIAglc(his~P). Those permeases which lack a IIA domain include the maltose (Mal), arbutin-salicin-cellobiose (ASC), trehalose (Tre), putative glucoside (Glv) and sucrose (Scr) permeases of E. coli. Most, but not all Scr permeases of other bacteria also lack a IIA domain. This model is specific for the IIC domain of the Glc family PTS transporters.
Probab=42.89 E-value=1.5e+02 Score=27.26 Aligned_cols=87 Identities=9% Similarity=0.008 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHHHHHHhhhhh-HHHHHHHhhhchh-ceehhh
Q 025129 59 VLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGS-TVFWVGEWFIKRM-PFVRHL 136 (257)
Q Consensus 59 vlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG~la~~~ig~-~l~~~~e~ll~rI-PlVksI 136 (257)
.++|+++.+|+..++-++++..+...++.+. .|-+.+++...++++++.....+++. .+-+..+++.+.- +.-.-+
T Consensus 66 ~~~~ii~~~~~~~~~~k~~~~~lP~~l~~~~--~p~~~~li~~~~~~~v~~p~~~~~~~~~i~~~~~~i~~~~~~~g~~i 143 (289)
T TIGR00852 66 VVGPILVGAIALALHERFLDKKLPDVLGFFL--GPRFVVIIAGFVAILLIGPLGRVWPPVGISALLHWLYSAGGALGGAI 143 (289)
T ss_pred eeHHHHHHHHHHHHHHHHhhhhCchhhhhcc--cchHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcchHHHHHH
Confidence 4789999999888887777776644444321 13333333333333333333333333 2223333333322 223346
Q ss_pred HHHHHHHHHHh
Q 025129 137 YSASKQISAAI 147 (257)
Q Consensus 137 Y~siKq~~~~f 147 (257)
|..+-|+.=.+
T Consensus 144 ~g~l~~lLv~~ 154 (289)
T TIGR00852 144 FGFLYRLLVPT 154 (289)
T ss_pred HHHHHHHHHHH
Confidence 77777665544
No 63
>COG2928 Uncharacterized conserved protein [Function unknown]
Probab=42.51 E-value=2.6e+02 Score=25.48 Aligned_cols=38 Identities=16% Similarity=0.116 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhh
Q 025129 42 CYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDG 79 (257)
Q Consensus 42 ~~~~~~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~ 79 (257)
++++++++-.=++-=+=+.+=+++..|++.|+-+++..
T Consensus 3 ~~~lk~~fltGLlvllPlaiT~~vv~~i~~~l~~~~~~ 40 (222)
T COG2928 3 AKRLKKYFLTGLLVLLPLAITLWVVSWIFGLLDQFVGP 40 (222)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 57888999898999999999999999999999999874
No 64
>PF04854 DUF624: Protein of unknown function, DUF624; InterPro: IPR006938 This family consists of uncharacterised or hypothetical bacterial proteins.
Probab=39.85 E-value=81 Score=22.81 Aligned_cols=32 Identities=6% Similarity=0.006 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Q 025129 40 ACCYVLQSWISKKFMTGCVVLFPVAVTFFITW 71 (257)
Q Consensus 40 ~~~~~~~~~i~~~Fl~GLlvlLPl~lTi~vl~ 71 (257)
..++.+.+.+|+.|.++...-++..+.+.++.
T Consensus 43 ~~~~~f~~~fk~nf~~~~~~~~~~~~~~~il~ 74 (77)
T PF04854_consen 43 YLFRDFWRAFKQNFKQSLLLGLILLLLLAILY 74 (77)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444445556667777777776666666554
No 65
>PF09527 ATPase_gene1: Putative F0F1-ATPase subunit (ATPase_gene1)
Probab=38.35 E-value=71 Score=21.91 Aligned_cols=10 Identities=30% Similarity=0.561 Sum_probs=4.3
Q ss_pred hHHHHHHHHH
Q 025129 56 GCVVLFPVAV 65 (257)
Q Consensus 56 GLlvlLPl~l 65 (257)
|+-.++|+++
T Consensus 7 g~~~~~~i~~ 16 (55)
T PF09527_consen 7 GFTMAAPILV 16 (55)
T ss_pred HHHHHHHHHH
Confidence 4444444443
No 66
>TIGR03279 cyano_FeS_chp putative FeS-containing Cyanobacterial-specific oxidoreductase. Members of this protein family are predicted FeS-containing oxidoreductases of unknown function, apparently restricted to and universal across the Cyanobacteria. The high trusted cutoff score for this model, 700 bits, excludes homologs from other lineages. This exclusion seems justified because a significant number of sequence positions are simultaneously unique to and invariant across the Cyanobacteria, suggesting a specialized, conserved function, perhaps related to photosynthesis. A distantly related protein family, TIGR03278, in universal in and restricted to archaeal methanogens, and may be linked to methanogenesis.
Probab=37.96 E-value=88 Score=31.13 Aligned_cols=83 Identities=12% Similarity=0.099 Sum_probs=52.4
Q ss_pred hhhHHHHHHHHHHhCCCCCCCCcCcEEEEE--eCCCCeeEEEEEccccccccCCCCCCeEEEEecCCCCCCceEEEEecC
Q 025129 134 RHLYSASKQISAAISPDQNTTAFKEVAIIR--HPRVGEYAFGFITSTVTLQKDNGDEELCSVFVPTNHLYIGDIFLVSSK 211 (257)
Q Consensus 134 ksIY~siKq~~~~f~~~~~~~~f~~VVlVe--~P~~g~~~iGFvT~~~~~~~~~~~~~~v~VfvPtsPptsG~l~~Vp~~ 211 (257)
.+.|..++++++.+....+ -. -+|+-|+ |-++.+-+-|.+|+.+......+.+---.+.+|..---.| +
T Consensus 328 ~~~~~~~~~~~~~l~~~~~-~~-v~v~~i~N~ffG~~vtV~GLltg~Dii~~l~~~~~gd~lliP~~ml~~~-------~ 398 (433)
T TIGR03279 328 NAVEQAFEPLVERLNAVEG-LE-LDLHGLASDYWGQEITVTGLLTGQDLIAGLKGKDLGDGLLLPSVMLKHG-------E 398 (433)
T ss_pred ccHHHHHHHHHHHHhcCCC-cE-EEEEEeccCCCCCCeeEeecccHHHHHHHhCCCCCCCeEEecHHHhcCC-------C
Confidence 3679999999999864422 11 2455553 7778899999999987532211111113677887641122 4
Q ss_pred CeecCCCCHHHHHH
Q 025129 212 EIIRPNLSIREGIE 225 (257)
Q Consensus 212 ~V~~lDmsvEeAmk 225 (257)
++..=|||++|.-+
T Consensus 399 ~~fLDd~t~~~l~~ 412 (433)
T TIGR03279 399 LVFLDDLTVEEVAE 412 (433)
T ss_pred CeECCCCcHHHHHH
Confidence 56666999988654
No 67
>COG0600 TauC ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]
Probab=37.86 E-value=2.3e+02 Score=26.06 Aligned_cols=117 Identities=12% Similarity=0.110 Sum_probs=63.2
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHHHHHHhhhhhHH
Q 025129 40 ACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTV 119 (257)
Q Consensus 40 ~~~~~~~~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG~la~~~ig~~l 119 (257)
.++.++...+.| .+.|++.-.=+.+.+-++-.....++..+.|++..+ ..+|-++++-++++.|-.|-.+. .+--.+
T Consensus 58 ~L~~~~~~Sl~r-v~~Gf~la~~~gi~lgil~g~~~~~~~~l~P~i~~l-~~iP~lA~~Pl~ilwfG~g~~s~-i~i~~~ 134 (258)
T COG0600 58 ELFQHLLASLLR-VLLGFALAAVLGIPLGILMGLSRLLERLLDPLVQVL-RPIPPLALAPLAILWFGIGETSK-IVIAVL 134 (258)
T ss_pred hHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHhHHHHHHHHhHHHHHH-hcCCHHHHHHHHHHHHhCCcchH-HHHHHH
Confidence 556666555555 455666666666666677777778888888887543 45666666666666666665541 111111
Q ss_pred HHHHHhhhchhceehhhHHHHHHHHHHhCCCCCCCCcCcEE
Q 025129 120 FWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVA 160 (257)
Q Consensus 120 ~~~~e~ll~rIPlVksIY~siKq~~~~f~~~~~~~~f~~VV 160 (257)
..++=-+++-.=++|++=....++.+++.-+ +.+-|.+|.
T Consensus 135 ~~ffpi~int~~Gvr~v~~~~~~~ar~lgas-~~~~l~~v~ 174 (258)
T COG0600 135 GAFFPILINTLDGVRSVDPDLLELARTLGAS-RWQILRKVI 174 (258)
T ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHcCCC-HHHHhHhhc
Confidence 1222222333334444444555555655322 333455444
No 68
>COG1286 CvpA Uncharacterized membrane protein, required for colicin V production [General function prediction only]
Probab=37.11 E-value=2.8e+02 Score=24.04 Aligned_cols=68 Identities=16% Similarity=0.283 Sum_probs=32.3
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHHHHHHhhhhhH
Q 025129 50 SKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGST 118 (257)
Q Consensus 50 ~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG~la~~~ig~~ 118 (257)
+|=|+..++-++=.++..|+-+..+.-+...+...+++ +....+.+.+++....+.+|......++..
T Consensus 21 ~RGfi~e~~sl~s~i~a~~vA~~fy~~~~~~~~~~i~~-~~~~~~~~~~~~f~~~l~v~~~i~~~i~~~ 88 (182)
T COG1286 21 RRGFIREVLSLLSWILAAFVASLFYKPLAPLLREYIPY-PNIAIGIAIAIFFVILLIVGAFVNSLIAFL 88 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHcCC-hhHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55566666666666666666666655443433322221 111234444444444444444444334443
No 69
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.41 E-value=65 Score=24.22 Aligned_cols=47 Identities=15% Similarity=0.217 Sum_probs=26.2
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhhhchhceehhhHHHHHHHHHHh
Q 025129 95 LGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRHLYSASKQISAAI 147 (257)
Q Consensus 95 lgll~~llli~liG~la~~~ig~~l~~~~e~ll~rIPlVksIY~siKq~~~~f 147 (257)
+++ +++++++++|++.-.++.++. +++-+.+=|=++ =..+|-+....
T Consensus 5 lai-l~ivl~ll~G~~~G~fiark~---~~k~lk~NPpin--e~~iR~M~~qm 51 (71)
T COG3763 5 LAI-LLIVLALLAGLIGGFFIARKQ---MKKQLKDNPPIN--EEMIRMMMAQM 51 (71)
T ss_pred HHH-HHHHHHHHHHHHHHHHHHHHH---HHHHHhhCCCCC--HHHHHHHHHHh
Confidence 344 566677788887777777643 455565555433 13444444443
No 70
>PRK14762 membrane protein; Provisional
Probab=35.06 E-value=57 Score=19.82 Aligned_cols=15 Identities=27% Similarity=0.738 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHhh
Q 025129 100 SLVFVFLVGVFVSSW 114 (257)
Q Consensus 100 ~llli~liG~la~~~ 114 (257)
.++++|++|+++-+-
T Consensus 7 ~i~iifligllvvtg 21 (27)
T PRK14762 7 AVLIIFLIGLLVVTG 21 (27)
T ss_pred HHHHHHHHHHHHHHH
Confidence 456678888886553
No 71
>PF08006 DUF1700: Protein of unknown function (DUF1700); InterPro: IPR012963 This family contains many hypothetical bacterial proteins and two putative membrane proteins (Q6GFD0 from SWISSPROT and Q6G806 from SWISSPROT).
Probab=33.82 E-value=2.9e+02 Score=23.31 Aligned_cols=15 Identities=0% Similarity=0.432 Sum_probs=7.8
Q ss_pred hHHHHHHHHHHHHHH
Q 025129 56 GCVVLFPVAVTFFIT 70 (257)
Q Consensus 56 GLlvlLPl~lTi~vl 70 (257)
++.+++|+.++++.+
T Consensus 92 ~~~~vl~~~~~~~~~ 106 (181)
T PF08006_consen 92 SFIIVLAILIVLILL 106 (181)
T ss_pred HHHHHHHHHHHHHHH
Confidence 444555555555544
No 72
>TIGR00439 ftsX putative protein insertion permease FtsX. FtsX is an integral membrane protein encoded in the same operon as signal recognition particle docking protein FtsY and FtsE. It belongs to a family of predicted permeases and may play a role in the insertion of proteins required for potassium transport, cell division, and other activities. FtsE is a hydrophilic nucleotide-binding protein that associates with the inner membrane by means of association with FtsX.
Probab=33.37 E-value=4.1e+02 Score=24.84 Aligned_cols=27 Identities=15% Similarity=0.000 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHHHHH
Q 025129 98 ITSLVFVFLVGVFVSSWLGSTVFWVGE 124 (257)
Q Consensus 98 l~~llli~liG~la~~~ig~~l~~~~e 124 (257)
++++++-.++|++...+.-++.++.+|
T Consensus 281 ~~l~~~g~~lg~lgs~~s~~r~Lr~~~ 307 (309)
T TIGR00439 281 GLLLGFCIALGVVGAWLATTQHLLCFK 307 (309)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 344455577888888777777666553
No 73
>PF01313 Bac_export_3: Bacterial export proteins, family 3; InterPro: IPR002191 The fliL operon of Escherichia coli contains seven genes (including fliO, fliP, fliQ and fliR) involved in the biosynthesis and functioning of the flagellar organelle []. The fliO, fliP, fliQ and fliR genes encode highly hydrophobic polypeptides. The fliQ gene product, a small integral membrane protein that contains two putative transmembrane (TM) regions, is required for the assembly of the rivet at the earliest stage of flagellar biosynthesis. Proteins sharing an evolutionary relationship with FliQ have been found in a range of bacteria: these include Yop translocation protein S from Yersinia pestis []; surface antigen-presentation protein SpaQ from Salmonella typhimurium and Shigella flexneri []; and probable translocation protein Y4YM from Rhizobium sp. (strain NGR234) []. All of these members export proteins, that do not possess signal peptides, through the membrane. Although the proteins that these exporters move may be different, the exporters are thought to function in similar ways [].; GO: 0009306 protein secretion, 0016020 membrane
Probab=33.06 E-value=2.1e+02 Score=21.54 Aligned_cols=33 Identities=6% Similarity=0.133 Sum_probs=25.8
Q ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhh
Q 025129 47 SWISKKFMTGCVVLFPVAVTFFITWWFVQFVDG 79 (257)
Q Consensus 47 ~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~ 79 (257)
.+.++.+...+...+|+.+.-.++.-+++.+..
T Consensus 5 ~l~r~al~~~l~~~~P~L~~alvvGlvIsi~QA 37 (76)
T PF01313_consen 5 DLLRQALWLVLMLSAPVLLVALVVGLVISIFQA 37 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456777889999999999988888877665533
No 74
>PF02355 SecD_SecF: Protein export membrane protein; InterPro: IPR022813 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone protein (SecB), an ATPase (SecA), an integral membrane complex (SecCY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. The chaperone protein SecB [] is a highly acidic homotetrameric protein that exists as a "dimer of dimers" in the bacterial cytoplasm. SecB maintains preproteins in an unfolded state after translation, and targets these to the peripheral membrane protein ATPase SecA for secretion []. Together with SecY and SecG, SecE forms a multimeric channel through which preproteins are translocated, using both proton motive forces and ATP-driven secretion. The latter is mediated by SecA. The structure of the Escherichia coli SecYEG assembly revealed a sandwich of two membranes interacting through the extensive cytoplasmic domains []. Each membrane is composed of dimers of SecYEG. The monomeric complex contains 15 transmembrane helices. The SecD and SecF equivalents of the Gram-positive bacterium Bacillus subtilis are jointly present in one polypeptide, denoted SecDF, that is required to maintain a high capacity for protein secretion. Unlike the SecD subunit of the pre-protein translocase of E. coli, SecDF of B. subtilis was not required for the release of a mature secretory protein from the membrane, indicating that SecDF is involved in earlier translocation steps []. Comparison with SecD and SecF proteins from other organisms revealed the presence of 10 conserved regions in SecDF, some of which appear to be important for SecDF function. Interestingly, the SecDF protein of B. subtilis has 12 putative transmembrane domains. Thus, SecDF does not only show sequence similarity but also structural similarity to secondary solute transporters []. This entry represents bacterial SecD and SecF protein export membrane proteins and their archaeal homologues []. It is found in association with PF07549 from PFAM SecD and SecF proteins are part of the multimeric protein export complex comprising SecA, D, E, F, G, Y, and YajC []. SecD and SecF are required to maintain a proton motive force []. ; PDB: 3AQP_A 2RRN_A 3AQO_B.
Probab=32.93 E-value=3.3e+02 Score=23.64 Aligned_cols=69 Identities=19% Similarity=0.296 Sum_probs=44.7
Q ss_pred chHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHHHHHHhhhh
Q 025129 37 TRQACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLG 116 (257)
Q Consensus 37 ~~~~~~~~~~~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG~la~~~ig 116 (257)
.++++...+++.++|++.+.+.++++.+..++.- +. ..-++.+++++-.++|.+.+.++.
T Consensus 120 ~~~~~~~s~~~tl~r~i~t~~ttll~~~~L~~~g------------------~~--~l~~Fa~~l~iGvi~~~~ss~~ia 179 (189)
T PF02355_consen 120 LREAINISIKQTLSRTIDTSLTTLLAALILFFFG------------------GG--SLKGFALTLIIGVIIGTYSSLFIA 179 (189)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--------------------C--HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc------------------cc--hHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5668888888888888888877666654332211 11 112444455556778888888888
Q ss_pred hHHHHHHHh
Q 025129 117 STVFWVGEW 125 (257)
Q Consensus 117 ~~l~~~~e~ 125 (257)
+.++.++++
T Consensus 180 ~~l~~~l~~ 188 (189)
T PF02355_consen 180 RPLLYWLVK 188 (189)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHhh
Confidence 887776643
No 75
>PF07670 Gate: Nucleoside recognition; InterPro: IPR011642 This region in the nucleoside transporter proteins are responsible for determining nucleoside specificity in the human CNT1 and CNT2 proteins (e.g. O00337 from SWISSPROT) []. In the FeoB proteins (e.g. O25396 from SWISSPROT), which are believed to be Fe2+ transporters, it includes the membrane pore region, so the function of this region is likely to be more general than just nucleoside specificity []. This family may represent the pore and gate, with a wide potential range of specificity. Hence its name - Gate.; GO: 0001882 nucleoside binding; PDB: 3TIJ_A.
Probab=32.19 E-value=1.1e+02 Score=23.34 Aligned_cols=33 Identities=24% Similarity=0.704 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHH------HHhhhhhhhhhcccc
Q 025129 58 VVLFPVAVTFFITWWFVQ------FVDGFFSPLYEHLGF 90 (257)
Q Consensus 58 lvlLPl~lTi~vl~wl~~------~vd~~l~pl~~~l~~ 90 (257)
.-++|+++...++.|++. .+.++++|+.+.+|.
T Consensus 2 ~~~~p~i~~~~~l~~iL~~~g~l~~i~~~l~P~~~~lgL 40 (109)
T PF07670_consen 2 LRALPIIIPFSILIWILEESGLLERISRLLEPLFRPLGL 40 (109)
T ss_dssp HHTHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHH--
T ss_pred eeeHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhcCC
Confidence 345677777777776654 455677888776653
No 76
>PRK10494 hypothetical protein; Provisional
Probab=32.02 E-value=3e+02 Score=25.05 Aligned_cols=64 Identities=11% Similarity=0.011 Sum_probs=31.5
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHh
Q 025129 50 SKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEW 125 (257)
Q Consensus 50 ~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG~la~~~ig~~l~~~~e~ 125 (257)
-+.+++.++.=+|+.+.+.++.|++-+... + .-.|..++++.+.++-+++...++++++..+|+
T Consensus 5 l~K~i~~ll~P~~~~llll~l~~ll~~~~r-------~-----~r~~~~l~~~~~~~l~l~s~~~~~~~Ll~~LE~ 68 (259)
T PRK10494 5 LKKVIGGLLLPLPLLLLIIGAGLALLWFSR-------F-----QKTGKIFISIGWLALLLLSLQPVADRLLRPIES 68 (259)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHHh-------H-----HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhc
Confidence 345666666666666666666554322110 0 011211222222333344556777778777775
No 77
>COG2981 CysZ Uncharacterized protein involved in cysteine biosynthesis [Amino acid transport and metabolism]
Probab=31.82 E-value=3.6e+02 Score=24.95 Aligned_cols=55 Identities=13% Similarity=0.365 Sum_probs=26.0
Q ss_pred HHHHHHHHHH----HHHHHHHHHhhhhhhhhhccc----ccchhhHHHHHHHHHHHHHHHHHh
Q 025129 59 VLFPVAVTFF----ITWWFVQFVDGFFSPLYEHLG----FDIFGLGFITSLVFVFLVGVFVSS 113 (257)
Q Consensus 59 vlLPl~lTi~----vl~wl~~~vd~~l~pl~~~l~----~~ipglgll~~llli~liG~la~~ 113 (257)
+++|+.+-+. +.+|+++..+.++.-+.+.++ +--.-+..+..+.+.++.|++.++
T Consensus 28 vilpLl~ni~L~~gl~~~~~~~~~~wid~Lm~~iPdWl~wLs~v~~~la~L~lll~~~~lfs~ 90 (250)
T COG2981 28 VILPLLLNILLWGGLFWLLFSQALPWIDTLMPGIPDWLGWLSYLLWILAVLLLLLVFAFLFST 90 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555444 445666666655544443322 111223344445555555665553
No 78
>COG2177 FtsX Cell division protein [Cell division and chromosome partitioning]
Probab=31.74 E-value=4.4e+02 Score=24.75 Aligned_cols=56 Identities=16% Similarity=0.188 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhhh-hcccccchh-hHHHHHHHHHHHHHHHHHh
Q 025129 57 CVVLFPVAVTFFITWWFVQFVDGFFSPLY-EHLGFDIFG-LGFITSLVFVFLVGVFVSS 113 (257)
Q Consensus 57 LlvlLPl~lTi~vl~wl~~~vd~~l~pl~-~~l~~~ipg-lgll~~llli~liG~la~~ 113 (257)
+-.++|.++.-+ +.|.|+..-+.+.|.+ ..++...++ ..++.+...|.++|++...
T Consensus 227 ~Ga~~~~~l~~~-l~~~~~~~~~~~~~~~~~~f~~~~~~~~~~l~l~~~~~~iG~~~~~ 284 (297)
T COG2177 227 LGALIALALAAL-LLAGYRSSVNNVAPQFGQAFGLLGLGLDEVLLLLGILLLIGVLIAW 284 (297)
T ss_pred HHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhhhhhcCCchHHHHHHHHHHHHHHHHHH
Confidence 445677777555 3333333333333332 222222222 2334455566677776554
No 79
>PRK11720 galactose-1-phosphate uridylyltransferase; Provisional
Probab=31.58 E-value=72 Score=30.51 Aligned_cols=40 Identities=15% Similarity=0.215 Sum_probs=33.4
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHHHHHH
Q 025129 187 DEELCSVFVPTNHLYIGDIFLVSSKEIIRP-NLSIREGIEI 226 (257)
Q Consensus 187 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEeAmk~ 226 (257)
.++...+|+|-+|-.-|-+.++|++.+..+ |++-|+...+
T Consensus 215 End~fvAf~p~~p~~P~h~lIiPKrH~~~~~dl~dee~~~L 255 (346)
T PRK11720 215 ETEHWLAVVPYWAAWPFETLLLPKAHVLRLTDLTDAQRDDL 255 (346)
T ss_pred ECCCEEEEeccccCCCCeEEEecccCCCChhhCCHHHHHHH
Confidence 367889999999988899999999999776 9988865543
No 80
>TIGR02003 PTS-II-BC-unk1 PTS system, IIBC component. This model represents a family of fused B and C components of PTS enzyme II. This clade is a member of a larger family which contains enzyme II's specific for a variety of sugars including glucose (TIGR02002) and N-acetylglucosamine (TIGR01998). None of the members of this clade have been experimentally characterized. This clade includes sequences from Streptococcus and Enterococcus which also include a C-terminal A domain as well as Bacillus and Clostridium which do not. In nearly all cases, these species also contain an authentic glucose-specific PTS transporter.
Probab=31.16 E-value=2.9e+02 Score=28.30 Aligned_cols=87 Identities=11% Similarity=0.164 Sum_probs=54.0
Q ss_pred HHHHHHHHHHHHHHHHHHhh--hhhhhhhcc-c-ccchhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhhh---chhc-
Q 025129 60 LFPVAVTFFITWWFVQFVDG--FFSPLYEHL-G-FDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFI---KRMP- 131 (257)
Q Consensus 60 lLPl~lTi~vl~wl~~~vd~--~l~pl~~~l-~-~~ipglgll~~llli~liG~la~~~ig~~l~~~~e~ll---~rIP- 131 (257)
++|.+++.++..|+.+...+ .+...+.++ | +-.|.+.+++.+.+-++.+++-= +++..+-+..+++. ..-|
T Consensus 142 VfggIi~g~i~a~l~n~~~~~k~lP~~L~ff~G~RfVPilt~lv~i~l~~i~~~iwP-~i~~gI~~~~~~i~~~g~~~~~ 220 (548)
T TIGR02003 142 VFVGIIAGFLGATAYNKYYNYDKLPEALAFFNGKRFVPFVVILRSIFTAIILSLLWP-FIQSGINEFGMWIAASKDSAPI 220 (548)
T ss_pred hHHHHHHHHHHHHHHHHHhccccCcHHHHHccCCcchHhHHHHHHHHHHHHHHHHhH-HHHHHHHHHHHHHHhcCCccch
Confidence 58999999999999999844 354444444 2 22566655554444444333332 55666666666665 3334
Q ss_pred eehhhHHHHHHHHHHh
Q 025129 132 FVRHLYSASKQISAAI 147 (257)
Q Consensus 132 lVksIY~siKq~~~~f 147 (257)
+-.-+|..+.++.=.+
T Consensus 221 ~g~fiyG~l~rlLIp~ 236 (548)
T TIGR02003 221 LAPFLYGTLERLLLPF 236 (548)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 5556899988877665
No 81
>PRK10845 colicin V production protein; Provisional
Probab=31.13 E-value=2.8e+02 Score=23.39 Aligned_cols=30 Identities=13% Similarity=0.369 Sum_probs=14.1
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHhh
Q 025129 50 SKKFMTGCVVLFPVAVTFFITWWFVQFVDG 79 (257)
Q Consensus 50 ~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~ 79 (257)
+|=|+.=++-++=.++.+|+-.+.++.+..
T Consensus 21 ~RGfv~ev~sl~g~i~a~~~A~~~~~~la~ 50 (162)
T PRK10845 21 IRGFVREALSLVTWGCAFFVASHYYTYLSV 50 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444455455555555544444433
No 82
>PF02419 PsbL: PsbL protein; InterPro: IPR003372 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbL found in PSII. PsbL is located in a gene cluster with PsbE, PsbF and PsbJ (PsbEFJL). Both PsbL and PsbJ (IPR002682 from INTERPRO) are essential for proper assembly of the OEC. Mutations in PsbL prevent the formation of both PSII core dimers and PSII-light harvesting complex []. In addition, both PsbL and PsbJ are involved in the unidirectional flow of electrons, where PsbJ regulates the forward electron flow from D2 (Qa) to the plastoquinone pool, and PsbL prevents the reduction of PSII by back electron flow from plastoquinol protecting PSII from photo-inactivation [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_L 3A0B_l 3ARC_l 1S5L_l 2AXT_l 3BZ2_L 4FBY_L 3PRQ_L 3PRR_L 3KZI_L ....
Probab=30.40 E-value=82 Score=20.74 Aligned_cols=20 Identities=25% Similarity=0.610 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 025129 96 GFITSLVFVFLVGVFVSSWL 115 (257)
Q Consensus 96 gll~~llli~liG~la~~~i 115 (257)
++-..+++||++|++.++|+
T Consensus 16 SLY~GLllifvl~vLFssyf 35 (37)
T PF02419_consen 16 SLYWGLLLIFVLAVLFSSYF 35 (37)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHhhhhh
Confidence 34446678899999988875
No 83
>PF04971 Lysis_S: Lysis protein S ; InterPro: IPR007054 The lysis S protein is a cytotoxic protein forming holes in membranes causing cell lysis. The action of Lysis S is independent of the proportion of acidic phospholipids in the membrane [].
Probab=30.01 E-value=1.3e+02 Score=22.52 Aligned_cols=41 Identities=20% Similarity=0.421 Sum_probs=22.8
Q ss_pred HHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHHHHHHhhhh
Q 025129 68 FITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLG 116 (257)
Q Consensus 68 ~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG~la~~~ig 116 (257)
-+.+|+++++|.+- +.++-.+|++..+ ++-+++++.+.|+-
T Consensus 16 ~~~~wl~~lld~~s-------p~qW~aIGvi~gi-~~~~lt~ltN~YFK 56 (68)
T PF04971_consen 16 SAGYWLLQLLDQFS-------PSQWAAIGVIGGI-FFGLLTYLTNLYFK 56 (68)
T ss_pred hHHHHHHHHHhccC-------cccchhHHHHHHH-HHHHHHHHhHhhhh
Confidence 35677777776643 3334455665443 34556666665543
No 84
>PRK12780 fliR flagellar biosynthesis protein FliR; Reviewed
Probab=29.72 E-value=4.3e+02 Score=23.99 Aligned_cols=41 Identities=17% Similarity=0.126 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025129 41 CCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (257)
Q Consensus 41 ~~~~~~~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l 81 (257)
.+..+.+++...|..|+..-+|++++..+..-.++.+.+..
T Consensus 168 ~~~~~~~~~~~~f~~al~lAaP~i~~lll~~l~lGll~R~~ 208 (251)
T PRK12780 168 ALVQLVDQLSEAFTLALRIASPFIIYSVIVNLAVGLVNKLT 208 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34556677888999999999999999999999998887765
No 85
>TIGR00209 galT_1 galactose-1-phosphate uridylyltransferase, family 1. This enzyme is involved in glucose and galactose interconversion. This model describes one of two extremely distantly related branches of the model pfam01087 from PFAM.
Probab=29.66 E-value=86 Score=30.00 Aligned_cols=40 Identities=15% Similarity=0.265 Sum_probs=33.1
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHHHHHH
Q 025129 187 DEELCSVFVPTNHLYIGDIFLVSSKEIIRP-NLSIREGIEI 226 (257)
Q Consensus 187 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEeAmk~ 226 (257)
.++...+|+|-.|-+-|-++++|++.+..+ |++-++...+
T Consensus 215 End~fvAf~p~~p~~Pgh~lIiPKrH~~~~~dl~d~e~~~L 255 (347)
T TIGR00209 215 ETEHWIAVVPYWAIWPFETLLLPKAHVLRITDLTDAQRSDL 255 (347)
T ss_pred ECCCEEEEeccCCCCCCeEEEeeccCCCChhhCCHHHHHHH
Confidence 367899999999988999999999999776 8887754433
No 86
>PF03739 YjgP_YjgQ: Predicted permease YjgP/YjgQ family; InterPro: IPR005495 Members of this family are predicted integral membrane proteins of unknown function. They are about 350 amino acids long, contain about 6 transmembrane regions and may be permeases, although there is no verification of this.; GO: 0016021 integral to membrane
Probab=29.66 E-value=2.2e+02 Score=26.14 Aligned_cols=32 Identities=16% Similarity=0.372 Sum_probs=19.8
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025129 50 SKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (257)
Q Consensus 50 ~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l 81 (257)
-+.|+.=.++++=....++++..+++.++.++
T Consensus 4 ~~~~l~~f~~~l~~~~~i~~~~~l~~~l~~~~ 35 (354)
T PF03739_consen 4 LKEFLKTFLLVLLSFTGIFLIIDLFELLDDFL 35 (354)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555556666666777777777776654
No 87
>TIGR01620 hyp_HI0043 conserved hypothetical protein, TIGR01620. This model includes putative membrane proteins from alpha and gamma proteobacteria, each making up their own clade. The two clades have less than 25% identity between them. We could not find support for the assignment to the sequence from Brucella of being a GTP-binding protein.
Probab=29.35 E-value=3.5e+02 Score=25.54 Aligned_cols=28 Identities=21% Similarity=0.272 Sum_probs=20.3
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHH
Q 025129 50 SKKFMTGCVVLFPVAVTFFITWWFVQFV 77 (257)
Q Consensus 50 ~~~Fl~GLlvlLPl~lTi~vl~wl~~~v 77 (257)
.+.|..+++.++=+++.++...|+.+.+
T Consensus 14 ~~~~~~~~~~l~~~~~~~~~~~~i~~~~ 41 (289)
T TIGR01620 14 GKLGLGALGVLFGLAFVLQAVQWIRNLF 41 (289)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3447888888887877777777776655
No 88
>PF11872 DUF3392: Protein of unknown function (DUF3392); InterPro: IPR021813 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 110 amino acids in length.
Probab=28.84 E-value=2.3e+02 Score=22.85 Aligned_cols=63 Identities=14% Similarity=0.238 Sum_probs=41.0
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchh--hHHHHHHHHHHHHHHHHHh
Q 025129 50 SKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFG--LGFITSLVFVFLVGVFVSS 113 (257)
Q Consensus 50 ~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipg--lgll~~llli~liG~la~~ 113 (257)
-|..+.|.=+++=..+.+.+.-+-|+++.-.+.|++...-..+|. ++. ++++..+++|++|++
T Consensus 41 lrr~l~~~~Fi~Rt~~FIlicAFGYGll~v~~tP~l~~~L~~~~~~~l~~-~vl~~F~~iG~lAqR 105 (106)
T PF11872_consen 41 LRRLLSGYHFILRTLAFILICAFGYGLLIVWLTPLLARQLAQLPNYWLAP-VVLLSFILIGVLAQR 105 (106)
T ss_pred HHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHH-HHHHHHHHHHHHhcc
Confidence 344567777788788888888888888888888877542112222 222 233445778998875
No 89
>CHL00114 psbX photosystem II protein X; Reviewed
Probab=28.80 E-value=30 Score=23.08 Aligned_cols=24 Identities=17% Similarity=0.582 Sum_probs=16.3
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHH
Q 025129 45 LQSWISKKFMTGCVVLFPVAVTFF 68 (257)
Q Consensus 45 ~~~~i~~~Fl~GLlvlLPl~lTi~ 68 (257)
|.+|+..-+.+++++++|+.+.+.
T Consensus 5 LsnF~~SL~~Ga~ivvipi~~aLi 28 (39)
T CHL00114 5 LSAFINSLLLGAIIVVIPITLALL 28 (39)
T ss_pred HHHHHHHHHHHHHHhHHHhhhheE
Confidence 456666666777777889876544
No 90
>PRK10160 taurine transporter subunit; Provisional
Probab=27.74 E-value=4.6e+02 Score=23.72 Aligned_cols=67 Identities=16% Similarity=0.243 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHH
Q 025129 40 ACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVG 108 (257)
Q Consensus 40 ~~~~~~~~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG 108 (257)
.+++.+..-+.+.++ |++.-+-+.+.+-++-.....+++.+.|++..+ ..+|.+.++.++++.+-.|
T Consensus 75 ~l~~~l~~Tl~~~~~-g~~ia~~ig~~lg~~~~~~~~~~~~l~~~~~~l-~~iP~i~~~pl~~~~fG~g 141 (275)
T PRK10160 75 TLWQHLAASLTRIVL-ALLAAVVIGIPVGIAMGLSPTVRGILDPLIELY-RPVPPLAYLPLMVIWFGIG 141 (275)
T ss_pred hHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH-hhCCHHHHHHHHHHHHcCC
Confidence 445554444444333 222222222222222223446677777766542 3456666554444444333
No 91
>TIGR00822 EII-Sor PTS system, mannose/fructose/sorbose family, IIC component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. The Man (PTS splinter group) family is unique in several respects among PTS permease families. It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine,N-acetylglucosamine, and other sugars. Other members of this family can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the sorbose-specific IIC subunits of this family of PTS transporters.
Probab=27.53 E-value=4.1e+02 Score=24.66 Aligned_cols=27 Identities=19% Similarity=0.436 Sum_probs=17.9
Q ss_pred chhhHHHHH--------HHHHHHHHHHHHhhhhhH
Q 025129 92 IFGLGFITS--------LVFVFLVGVFVSSWLGST 118 (257)
Q Consensus 92 ipglgll~~--------llli~liG~la~~~ig~~ 118 (257)
.|.+|+.++ ...-|++|++...|++-.
T Consensus 188 LPAvGfAmLl~~m~~k~~~~ff~lGF~laayl~l~ 222 (265)
T TIGR00822 188 IVVVGYAMVLRMMFKAYLMPFFYLGFLFAAYTDFS 222 (265)
T ss_pred HHHHHHHHHHHHHhhcchHHHHHHHHHHHHHhCCc
Confidence 577777553 345677888888876543
No 92
>COG3224 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.02 E-value=2.5e+02 Score=24.98 Aligned_cols=37 Identities=22% Similarity=0.204 Sum_probs=22.9
Q ss_pred hhhhhhhhcccccchhhHHHHHHHHHHHHHHHHHhhhhh
Q 025129 79 GFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGS 117 (257)
Q Consensus 79 ~~l~pl~~~l~~~ipglgll~~llli~liG~la~~~ig~ 117 (257)
-+++|.++.+ +.+-.-++.+++.|.+.++++--++.+
T Consensus 139 ~~~gp~l~~~--~l~~~~Li~t~~~v~LltYf~iP~vs~ 175 (195)
T COG3224 139 LLLGPKLGFL--PLPTRVLIGTLCSVSLLTYFVIPLVSR 175 (195)
T ss_pred HhhccccCCC--CccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455655443 345566777888888888876544433
No 93
>PRK11026 ftsX cell division ABC transporter subunit FtsX; Provisional
Probab=26.89 E-value=5.3e+02 Score=24.08 Aligned_cols=26 Identities=8% Similarity=-0.028 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHHHH
Q 025129 98 ITSLVFVFLVGVFVSSWLGSTVFWVG 123 (257)
Q Consensus 98 l~~llli~liG~la~~~ig~~l~~~~ 123 (257)
+.++++..++|+++..+--++.++.+
T Consensus 281 ~~l~~~~~~ig~l~s~~s~~r~L~~~ 306 (309)
T PRK11026 281 LLLLLVCSMIGWVAAWLATVQHLRRF 306 (309)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33455567888888877777766654
No 94
>PRK01844 hypothetical protein; Provisional
Probab=26.88 E-value=1.2e+02 Score=22.86 Aligned_cols=43 Identities=12% Similarity=0.149 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHhhhhhHHHHHHHhhhchhceehhhHHHHHHHHHHh
Q 025129 100 SLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRHLYSASKQISAAI 147 (257)
Q Consensus 100 ~llli~liG~la~~~ig~~l~~~~e~ll~rIPlVksIY~siKq~~~~f 147 (257)
+.++++++|++.-.+++| .++++-|.+=|=+. =+.+|.+....
T Consensus 9 l~I~~li~G~~~Gff~ar---k~~~k~lk~NPpin--e~mir~Mm~QM 51 (72)
T PRK01844 9 VGVVALVAGVALGFFIAR---KYMMNYLQKNPPIN--EQMLKMMMMQM 51 (72)
T ss_pred HHHHHHHHHHHHHHHHHH---HHHHHHHHHCCCCC--HHHHHHHHHHh
Confidence 334567777777766666 45666677665533 13444444444
No 95
>cd00608 GalT Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme contains two identical subunits. It also demonstrates that the active site is formed by amino acid residues from both subunits of the dimer.
Probab=26.44 E-value=96 Score=29.15 Aligned_cols=38 Identities=16% Similarity=0.199 Sum_probs=30.8
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHHHH
Q 025129 187 DEELCSVFVPTNHLYIGDIFLVSSKEIIRP-NLSIREGI 224 (257)
Q Consensus 187 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEeAm 224 (257)
.++...+|+|-+|-.-|-+.++|++.+..+ |++-+|..
T Consensus 205 end~~va~~p~~~~~P~e~lIiPKrH~~~~~dl~~~e~~ 243 (329)
T cd00608 205 ENEHFVAVVPFWARWPFEVHILPKRHVSRFTDLTDEERE 243 (329)
T ss_pred eCCCEEEEEecCCCCCcEEEEecCCCcCChhHCCHHHHH
Confidence 357889999999977789999999988665 88877653
No 96
>PF04854 DUF624: Protein of unknown function, DUF624; InterPro: IPR006938 This family consists of uncharacterised or hypothetical bacterial proteins.
Probab=26.26 E-value=1.9e+02 Score=20.80 Aligned_cols=33 Identities=9% Similarity=0.229 Sum_probs=28.0
Q ss_pred CchHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Q 025129 36 STRQACCYVLQSWISKKFMTGCVVLFPVAVTFF 68 (257)
Q Consensus 36 ~~~~~~~~~~~~~i~~~Fl~GLlvlLPl~lTi~ 68 (257)
+.-+.+|+.+|+.+++....|++.++-.++..+
T Consensus 43 ~~~~~f~~~fk~nf~~~~~~~~~~~~~~~il~~ 75 (77)
T PF04854_consen 43 YLFRDFWRAFKQNFKQSLLLGLILLLLLAILYV 75 (77)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467799999999999999999999888777653
No 97
>PF11241 DUF3043: Protein of unknown function (DUF3043); InterPro: IPR021403 Some members in this family of proteins with unknown function are annotated as membrane proteins. This cannot be confirmed.
Probab=26.16 E-value=1.5e+02 Score=25.75 Aligned_cols=21 Identities=14% Similarity=0.431 Sum_probs=13.9
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHH
Q 025129 51 KKFMTGCVVLFPVAVTFFITWWF 73 (257)
Q Consensus 51 ~~Fl~GLlvlLPl~lTi~vl~wl 73 (257)
++.+.++ ++|+++.+.++.++
T Consensus 74 R~~i~e~--fmP~alv~lv~~~v 94 (170)
T PF11241_consen 74 RRNIGEF--FMPVALVLLVLSFV 94 (170)
T ss_pred ccchHHH--HHHHHHHHHHHHHH
Confidence 3344443 57888888887766
No 98
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=26.03 E-value=1.3e+02 Score=26.96 Aligned_cols=17 Identities=24% Similarity=0.178 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHHHHHH
Q 025129 57 CVVLFPVAVTFFITWWF 73 (257)
Q Consensus 57 LlvlLPl~lTi~vl~wl 73 (257)
+++++|+++.+.++.|+
T Consensus 240 l~~l~p~~~~~~~~~~~ 256 (262)
T PF14257_consen 240 LVGLLPWLPLILIIGLL 256 (262)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33444444444444433
No 99
>PRK00753 psbL photosystem II reaction center L; Provisional
Probab=25.91 E-value=93 Score=20.66 Aligned_cols=21 Identities=29% Similarity=0.630 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHhhhh
Q 025129 96 GFITSLVFVFLVGVFVSSWLG 116 (257)
Q Consensus 96 gll~~llli~liG~la~~~ig 116 (257)
++-..++++|++|++.++|+.
T Consensus 18 SLy~GlLlifvl~vLFssYff 38 (39)
T PRK00753 18 SLYLGLLLVFVLGILFSSYFF 38 (39)
T ss_pred hHHHHHHHHHHHHHHHHhhcc
Confidence 444566788999999888753
No 100
>PRK00665 petG cytochrome b6-f complex subunit PetG; Reviewed
Probab=25.75 E-value=95 Score=20.45 Aligned_cols=21 Identities=38% Similarity=0.779 Sum_probs=16.7
Q ss_pred hHHHHHHHHHHHHHHHHHhhh
Q 025129 95 LGFITSLVFVFLVGVFVSSWL 115 (257)
Q Consensus 95 lgll~~llli~liG~la~~~i 115 (257)
.|+++.++-+.++|+++..|.
T Consensus 7 ~GiVLGlipiTl~GlfvaAyl 27 (37)
T PRK00665 7 CGIVLGLIPVTLAGLFVAAWN 27 (37)
T ss_pred hhHHHHhHHHHHHHHHHHHHH
Confidence 477778888899999887664
No 101
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=25.26 E-value=1.5e+02 Score=20.71 Aligned_cols=20 Identities=20% Similarity=0.366 Sum_probs=13.4
Q ss_pred hHHHHHHHHHHHHHHHHHhh
Q 025129 95 LGFITSLVFVFLVGVFVSSW 114 (257)
Q Consensus 95 lgll~~llli~liG~la~~~ 114 (257)
+.+.++++++|++|+++-..
T Consensus 18 ~pl~l~il~~f~~G~llg~l 37 (68)
T PF06305_consen 18 LPLGLLILIAFLLGALLGWL 37 (68)
T ss_pred chHHHHHHHHHHHHHHHHHH
Confidence 55666677777777776543
No 102
>CHL00008 petG cytochrome b6/f complex subunit V
Probab=25.01 E-value=98 Score=20.38 Aligned_cols=21 Identities=33% Similarity=0.787 Sum_probs=16.7
Q ss_pred hHHHHHHHHHHHHHHHHHhhh
Q 025129 95 LGFITSLVFVFLVGVFVSSWL 115 (257)
Q Consensus 95 lgll~~llli~liG~la~~~i 115 (257)
.|+++.++-+.++|+++..|.
T Consensus 7 ~GiVLGlipvTl~GlfvaAyl 27 (37)
T CHL00008 7 FGIVLGLIPITLAGLFVTAYL 27 (37)
T ss_pred hhHHHHhHHHHHHHHHHHHHH
Confidence 477778888899999887664
No 103
>PLN02643 ADP-glucose phosphorylase
Probab=24.83 E-value=1.2e+02 Score=28.84 Aligned_cols=38 Identities=5% Similarity=0.133 Sum_probs=31.3
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHHHH
Q 025129 187 DEELCSVFVPTNHLYIGDIFLVSSKEIIRP-NLSIREGI 224 (257)
Q Consensus 187 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEeAm 224 (257)
.++...+|+|-+|-.-|-+.++|++.+..+ |++-+|..
T Consensus 214 en~~f~Af~p~ap~~P~evlIiPKrH~~~~~dl~~~e~~ 252 (336)
T PLN02643 214 ESSHFVSIAPFAATFPFEIWIIPRDHSSNFHEIDDDKAV 252 (336)
T ss_pred eCCCEEEEeccccCCCCEEEEEeccccCChhhCCHHHHH
Confidence 367889999999977799999999999665 88877543
No 104
>PF04341 DUF485: Protein of unknown function, DUF485; InterPro: IPR007436 This family includes several putative integral membrane proteins.
Probab=24.73 E-value=3.2e+02 Score=20.84 Aligned_cols=20 Identities=15% Similarity=0.622 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 025129 61 FPVAVTFFITWWFVQFVDGF 80 (257)
Q Consensus 61 LPl~lTi~vl~wl~~~vd~~ 80 (257)
.|+.+...+.+..|-.+..+
T Consensus 19 ~~l~~i~l~~y~~~~ll~a~ 38 (91)
T PF04341_consen 19 WPLSAIFLVLYFGFVLLSAF 38 (91)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444455555555444443
No 105
>PRK10905 cell division protein DamX; Validated
Probab=24.32 E-value=52 Score=31.50 Aligned_cols=19 Identities=21% Similarity=0.571 Sum_probs=15.8
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 025129 94 GLGFITSLVFVFLVGVFVS 112 (257)
Q Consensus 94 glgll~~llli~liG~la~ 112 (257)
|+|++++|+||+.||-..+
T Consensus 3 GiGilVLlLLIigIgSALk 21 (328)
T PRK10905 3 GVGILVLLLLIIGIGSALK 21 (328)
T ss_pred chhHHHHHHHHHHHhHhhc
Confidence 7899888888888887765
No 106
>PRK11901 hypothetical protein; Reviewed
Probab=24.21 E-value=56 Score=31.32 Aligned_cols=20 Identities=20% Similarity=0.629 Sum_probs=15.7
Q ss_pred hhhHHHHHHHHHHHHHHHHH
Q 025129 93 FGLGFITSLVFVFLVGVFVS 112 (257)
Q Consensus 93 pglgll~~llli~liG~la~ 112 (257)
-|+|++++|++|+.||-..+
T Consensus 40 iGiGilVLlLLIi~IgSALk 59 (327)
T PRK11901 40 IGIGILVLLLLIIAIGSALK 59 (327)
T ss_pred HHHHHHHHHHHHHHHhhhcc
Confidence 37888888888888887654
No 107
>PF14018 DUF4234: Domain of unknown function (DUF4234)
Probab=23.52 E-value=2.9e+02 Score=19.90 Aligned_cols=61 Identities=8% Similarity=0.101 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHHHHHHhhhhhHHHHH
Q 025129 62 PVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWV 122 (257)
Q Consensus 62 Pl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG~la~~~ig~~l~~~ 122 (257)
=+..-+|.++|+++.-+.+=.-.-+..+..-..+.+++.++.|-+.++..-...++++-+.
T Consensus 11 iiT~GIY~l~W~y~~~~~~~~~~~~~~~~~~~~~~lll~ilt~gi~~i~w~~k~~~~i~~~ 71 (75)
T PF14018_consen 11 IITCGIYGLYWLYKIWKELNQLTGRIISPRSMTLWLLLSILTCGIYSIYWAYKLGNRINEE 71 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3466789999999887663211111111112233444444445555555554455555443
No 108
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=23.51 E-value=88 Score=23.04 Aligned_cols=29 Identities=17% Similarity=0.362 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHhhhhhHHHHHHHhhhchhce
Q 025129 101 LVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPF 132 (257)
Q Consensus 101 llli~liG~la~~~ig~~l~~~~e~ll~rIPl 132 (257)
+++++++|+++-.+++++ .+++-+.+=|=
T Consensus 3 iilali~G~~~Gff~ar~---~~~k~l~~NPp 31 (64)
T PF03672_consen 3 IILALIVGAVIGFFIARK---YMEKQLKENPP 31 (64)
T ss_pred HHHHHHHHHHHHHHHHHH---HHHHHHHHCCC
Confidence 445666676666666663 45555555443
No 109
>PF03609 EII-Sor: PTS system sorbose-specific iic component; InterPro: IPR004700 Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families. It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of Escherichia coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the sorbose-specific IIC subunits of this family of PTS transporters.; GO: 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016021 integral to membrane
Probab=23.22 E-value=4.5e+02 Score=23.74 Aligned_cols=65 Identities=18% Similarity=0.258 Sum_probs=34.4
Q ss_pred HHhhHHHHHH-HHHHHHHHHHHHHHHhhhhhhhh-hcc---cccchhhHHHHH--------HHHHHHHHHHHHhhhhh
Q 025129 53 FMTGCVVLFP-VAVTFFITWWFVQFVDGFFSPLY-EHL---GFDIFGLGFITS--------LVFVFLVGVFVSSWLGS 117 (257)
Q Consensus 53 Fl~GLlvlLP-l~lTi~vl~wl~~~vd~~l~pl~-~~l---~~~ipglgll~~--------llli~liG~la~~~ig~ 117 (257)
++..+...+| ..+.+|.=....+.+-+.+.+.+ +-+ +.-.|.+|+.++ ..-.|++|++...|++=
T Consensus 145 ~~~~~~~~v~~~fl~~~~G~~~v~~~~~~iP~~v~~gl~vagg~LPAvGfAmll~~~~~k~~~~ff~~GF~l~~yl~l 222 (238)
T PF03609_consen 145 ILFFLIYFVPPVFLAVYFGSDAVQALLNAIPEWVLNGLNVAGGMLPAVGFAMLLKMMWKKKYIPFFFLGFVLAAYLGL 222 (238)
T ss_pred HHHHHHHHHHHHHHHHhcCHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHCC
Confidence 5666666677 66656655555444434332222 111 122466666543 34567778887777653
No 110
>TIGR00437 feoB ferrous iron transporter FeoB. FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum.
Probab=23.18 E-value=3.6e+02 Score=27.66 Aligned_cols=47 Identities=19% Similarity=0.305 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH---------HHHHHhhhhhhhhhcccc
Q 025129 40 ACCYVLQSWISKKFMTGCVVLFPVAVTFFITWW---------FVQFVDGFFSPLYEHLGF 90 (257)
Q Consensus 40 ~~~~~~~~~i~~~Fl~GLlvlLPl~lTi~vl~w---------l~~~vd~~l~pl~~~l~~ 90 (257)
..|.|++.|+++- .-+++...+.+|++.. +...+.+.+.|++..+|.
T Consensus 467 ~~w~r~~~fl~~A----~~ii~~~siviw~l~~~~~~~~~~S~l~~~g~~~~P~~~p~g~ 522 (591)
T TIGR00437 467 QTWTRLRSFIKKA----GTIIVIGSVLIWFLSSFPGGKILESWLAAIGSIMAPLFVPLGK 522 (591)
T ss_pred HHHHHHHHHHHHH----HHHHHHHHHHHHHHHhCCCCchhhhHHHHHHHHHHHHHHHhcC
Confidence 6677777775543 3444555555555543 345566677888877665
No 111
>PF01770 Folate_carrier: Reduced folate carrier; InterPro: IPR002666 The reduced folate carrier (a transmembrane glycoprotein) transports reduced folate into mammalian cells via the carrier mediated mechanism (as opposed to the receptor mediated mechanism) it also transports cytotoxic folate analogues used in chemotherapy [], such as methotrexate (MTX). Mammalian cells have an absolute requirement for exogenous folates which are needed for growth, and biosynthesis of macromolecules [].; GO: 0005542 folic acid binding, 0008518 reduced folate carrier activity, 0006810 transport, 0016020 membrane
Probab=22.94 E-value=4.7e+02 Score=25.81 Aligned_cols=46 Identities=11% Similarity=0.338 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHH-----hhhhhhhhhccc----cc-----chhhHHHHHHHHHHHHHHH
Q 025129 65 VTFFITWWFVQFV-----DGFFSPLYEHLG----FD-----IFGLGFITSLVFVFLVGVF 110 (257)
Q Consensus 65 lTi~vl~wl~~~v-----d~~l~pl~~~l~----~~-----ipglgll~~llli~liG~l 110 (257)
+..|-+||.++.. .+..+.+...+. .. +..+.-++..+..+.+|++
T Consensus 249 ll~WSlWWa~atcgy~qv~nYvQ~LW~~v~~~~~~~vYNG~VeA~~tllgA~~al~~g~v 308 (412)
T PF01770_consen 249 LLLWSLWWAFATCGYYQVINYVQSLWDTVPPSDNESVYNGAVEAASTLLGAIAALLAGYV 308 (412)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHhcCCCCCCcccchHHHHHHHHHHHHHHHHHhHh
Confidence 3458888888754 444455544330 00 2233334444556666666
No 112
>PRK15065 PTS system mannose-specific transporter subunit IIC; Provisional
Probab=22.88 E-value=5.7e+02 Score=23.68 Aligned_cols=27 Identities=19% Similarity=0.427 Sum_probs=18.1
Q ss_pred chhhHHHHH--------HHHHHHHHHHHHhhhhhH
Q 025129 92 IFGLGFITS--------LVFVFLVGVFVSSWLGST 118 (257)
Q Consensus 92 ipglgll~~--------llli~liG~la~~~ig~~ 118 (257)
.|.+|+.++ ...-|++|++...|++-.
T Consensus 189 LPAvGfAmLl~~i~~k~~~~ff~lGFvl~ayl~l~ 223 (262)
T PRK15065 189 IVVVGYAMVINMMATRELMPFFYLGFVLAAFTNLN 223 (262)
T ss_pred HHHHHHHHHHHHHhccchHHHHHHHHHHHHHhCCc
Confidence 577777553 345678888888877543
No 113
>PRK11365 ssuC alkanesulfonate transporter permease subunit; Provisional
Probab=22.79 E-value=3.7e+02 Score=24.12 Aligned_cols=67 Identities=7% Similarity=0.011 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcccccchhhHHHHHHHHHHHHH
Q 025129 40 ACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVG 108 (257)
Q Consensus 40 ~~~~~~~~~i~~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~l~pl~~~l~~~ipglgll~~llli~liG 108 (257)
.+++++..-+.+ .+.|++.-+-+.+.+-++......+|..+.|+... ...+|-+.+..+++..|..|
T Consensus 57 ~l~~~l~~Tl~~-~~~g~~la~~igi~lGi~~~~~~~~~~~~~~~~~~-~~siP~~~~~~lli~~fg~~ 123 (263)
T PRK11365 57 ELWQHLAISSWR-ALIGFSIGGSLGLILGLISGLSRWGERLLDTSIQM-LRNVPHLALIPLVILWFGID 123 (263)
T ss_pred cHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhCCHHHHHHHHHHHHcCC
Confidence 455555555444 33456666666666666655566788888887644 23456555544444444433
No 114
>PF05283 MGC-24: Multi-glycosylated core protein 24 (MGC-24); InterPro: IPR007947 CD164 is a mucin-like receptor, or sialomucin, with specificity in receptor/ ligand interactions that depends on the structural characteristics of the mucin-like receptor. Its functions include mediating, or regulating, haematopoietic progenitor cell adhesion and the negative regulation of their growth and/or-differentiation. It exists in the native state as a disulphide- linked homodimer of two 80-85kDa subunits. It is usually expressed by CD34+ and CD341o/- haematopoietic stem cells and associated microenvironmental cells. It contains, in its extracellular region, two mucin domains (I and II) linked by a non-mucin domain, which has been predicted to contain intra- disulphide bridges. This receptor may play a key role in haematopoiesis by facilitating the adhesion of human CD34+ cells to bone marrow stroma and by negatively regulating CD34+ CD341o/- haematopoietic progenitor cell proliferation. These effects involve the CD164 class I and/or II epitopes recognised by the monoclonal antibodies (mAbs) 105A5 and 103B2/9E10. These epitopes are carbohydrate-dependent and are located on the N-terminal mucin domain I [, ]. It has been found that murine MGC-24v and rat endolyn share significant sequence similarities with human CD164. However, CD164 lacks the consensus glycosaminoglycan (GAG)-attachment site found in MGC-24; it is possible that GAG-association is responsible for the high molecular weight of the epithelial-derived MGC-24 glycoprotein []. Genomic structure studies have placed CD164 within the mucin-subgroup that comprises multiple exons, and demonstrate the diverse chromosomal distribution of this family of molecules. Molecules with such multiple exons may have sophisticated regulatory mechanisms that involve not only post-translational modifications of the oligosaccharide side chains, but also differential exon usage. Although differences in the intron and exon sizes are seen between the mouse and human genes, the predicted proteins are similar in size and structure, maintaining functionally important motifs that regulate cell proliferation or subcellular distribution []. CD164 is a gene whose expression depends on differential usage of poly- adenylation sites within the 3'-UTR. The conserved distribution of the 3.2- and 1.2-kb CD164 transcripts between mouse and human suggests that (i) a mechanism may exist to regulate tissue-specific polyadenylation, and (ii) differences in polyadenylation are important for the expression and function of CD164 in different tissues. Two other aspects of the structure of CD164 are of particular interest. First, it shares one of several conserved features of a cytokine-binding pocket - in this respect, it is notable that evidence exists for a class of cell-surface sialomucin modulators that directly interact with growth factor receptors to regulate their response to physiological ligands. Second, its cytoplasmic tail contains a C-terminal YHTL motif found in many endocytic membrane proteins or receptors. These Tyr-based motifs bind to adaptor proteins, which mediate the sorting of membrane proteins into transport vesicles from the plasma membrane to the endosomes, and between intracellular compartments.
Probab=22.72 E-value=74 Score=28.08 Aligned_cols=25 Identities=24% Similarity=0.486 Sum_probs=20.6
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHHH
Q 025129 51 KKFMTGCVVLFPVAVTFFITWWFVQ 75 (257)
Q Consensus 51 ~~Fl~GLlvlLPl~lTi~vl~wl~~ 75 (257)
-.||+|++..|=+...+|++|.+++
T Consensus 161 ~SFiGGIVL~LGv~aI~ff~~KF~k 185 (186)
T PF05283_consen 161 ASFIGGIVLTLGVLAIIFFLYKFCK 185 (186)
T ss_pred hhhhhHHHHHHHHHHHHHHHhhhcc
Confidence 3599999999999888888887653
No 115
>PF02529 PetG: Cytochrome B6-F complex subunit 5; InterPro: IPR003683 This family consists of cytochrome b6/f complex subunit 5 (PetG). The cytochrome bf complex, found in green plants, eukaryotic algae and cyanobacteria, connects photosystem I to photosystem II in the electron transport chain, functioning as a plastoquinol:plastocyanin/cytochrome c6 oxidoreductase []. The purified complex from the unicellular alga Chlamydomonas reinhardtii contains seven subunits; namely four high molecular weight subunits (cytochrome f, Rieske iron-sulphur protein, cytochrome b6, and subunit IV) and three approximately miniproteins (PetG, PetL, and PetX) []. Stoichiometry measurements are consistent with every subunit being present as two copies per b6/f dimer. The absence of PetG affects either the assembly or stability of the cytochrome bf complex in C. reinhardtii [].; GO: 0009512 cytochrome b6f complex; PDB: 1Q90_G 2ZT9_G 1VF5_G 2D2C_G 2E74_G 2E75_G 2E76_G.
Probab=22.48 E-value=1.4e+02 Score=19.70 Aligned_cols=21 Identities=38% Similarity=0.721 Sum_probs=16.7
Q ss_pred hHHHHHHHHHHHHHHHHHhhh
Q 025129 95 LGFITSLVFVFLVGVFVSSWL 115 (257)
Q Consensus 95 lgll~~llli~liG~la~~~i 115 (257)
.|+++.++-+.++|+++..|.
T Consensus 7 ~GiVlGli~vtl~Glfv~Ay~ 27 (37)
T PF02529_consen 7 SGIVLGLIPVTLAGLFVAAYL 27 (37)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHhHHHHHHHHHHHHHH
Confidence 577888888899999887653
No 116
>PF12841 YvrJ: YvrJ protein family; InterPro: IPR024419 This entry is represents a family of uncharacterised protein. The function of the Bacillus subtilis YvrJ protein is not known, but its expression is regulated by the cell envelope stress-inducible sigma factor YvrI [].
Probab=21.98 E-value=1.4e+02 Score=19.70 Aligned_cols=23 Identities=22% Similarity=0.449 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhh
Q 025129 61 FPVAVTFFITWWFVQFVDGFFSP 83 (257)
Q Consensus 61 LPl~lTi~vl~wl~~~vd~~l~p 83 (257)
.|+++++|++.-+=+.+|.+...
T Consensus 8 FPi~va~yLL~R~E~kld~L~~~ 30 (38)
T PF12841_consen 8 FPIAVAIYLLVRIEKKLDELTES 30 (38)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHH
Confidence 59999999999888777776544
No 117
>PF00672 HAMP: HAMP domain; InterPro: IPR003660 The HAMP linker domain (present in Histidine kinases, Adenyl cyclases, Methyl-accepting proteins and Phosphatases) is an approximately 50-amino acid alpha-helical region. It is found in bacterial sensor and chemotaxis proteins and in eukaryotic histidine kinases. The bacterial proteins are usually integral membrane proteins and part of a two-component signal transduction pathway. One or several copies of the HAMP domain can be found in association with other domains, such as the histidine kinase domain, the bacterial chemotaxis sensory transducer domain, the PAS repeat, the EAL domain, the GGDEF domain, the protein phosphatase 2C-like domain, the guanylate cyclase domain, or the response regulatory domain. It has been suggested that the HAMP domain possesses a role of regulating the phosphorylation or methylation of homodimeric receptors by transmitting the conformational changes in periplasmic ligand-binding domains to cytoplasmic signalling kinase and methyl-acceptor domains.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016021 integral to membrane; PDB: 3PJX_A 3PJW_A 3ZX6_B 2Y20_B 2Y0Q_D 2Y21_H 3ZRW_C 2L7H_B 2LFS_B 2L7I_B ....
Probab=21.86 E-value=1.4e+02 Score=20.49 Aligned_cols=25 Identities=8% Similarity=0.220 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHhhhhhHHHHH
Q 025129 98 ITSLVFVFLVGVFVSSWLGSTVFWV 122 (257)
Q Consensus 98 l~~llli~liG~la~~~ig~~l~~~ 122 (257)
+++++++++++++..+.+.+.+-+.
T Consensus 6 ~~~~~~~~~~~~~~~~~i~~pl~~l 30 (70)
T PF00672_consen 6 LIILLLSLLLAWLLARRITRPLRRL 30 (70)
T ss_dssp HHHHHHHHHHHHH--HTTCCCHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555556666555555544433
No 118
>PF02762 Cbl_N3: CBL proto-oncogene N-terminus, SH2-like domain; InterPro: IPR014742 Cbl (Casitas B-lineage lymphoma) is an adaptor protein that functions as a negative regulator of many signalling pathways that start from receptors at the cell surface. The N-terminal region of Cbl contains a Cbl-type phosphotyrosine-binding (Cbl-PTB) domain, which is composed of three evolutionarily conserved domains: an N-terminal four-helix bundle (4H) domain, an EF hand-like calcium-binding domain, and a divergent SH2-like domain. The calcium-bound EF-hand wedges between the 4H and SH2 domains, and roughly determines their relative orientation. The Cbl-PTB domain has also been named Cbl N-terminal (Cbl-N) or tyrosine kinase binding (TKB) domain [, ]. The N-terminal 4H domain contains four long alpha-helices. The C and D helices in this domain pack against the adjacent EF-hand-like domain, and a highly conserved loop connecting the A and B helices contacts the SH2-like domain. The EF-hand motif is similar to classical EF-hand proteins. The SH2-like domain retains the general helix-sheet-helix architecture of the SH2 fold, but lacks the secondary beta-sheet, comprising beta-strands D', E and F, and also a prominent BG loop []. This entry represents the SH2-like domain.; PDB: 3PFV_A 3VGO_A 3PLF_B 2Y1M_A 2CBL_A 3BUX_B 3BUN_B 3BUM_B 3OB1_B 3BUW_B ....
Probab=21.73 E-value=2.5e+02 Score=21.67 Aligned_cols=38 Identities=18% Similarity=0.356 Sum_probs=26.1
Q ss_pred HHHHHHHHHHhCCCCCCCCcCcEEEEEeCCCCeeEEEEEccc
Q 025129 137 YSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITST 178 (257)
Q Consensus 137 Y~siKq~~~~f~~~~~~~~f~~VVlVe~P~~g~~~iGFvT~~ 178 (257)
|.-+|...+.+..+. .+ =+--...-+-|-|+||+||.+
T Consensus 11 Ydevk~~L~~~~~kp--Gs--YiFRlSCTrLGQWAIGyV~~d 48 (86)
T PF02762_consen 11 YDEVKARLQHYRDKP--GS--YIFRLSCTRLGQWAIGYVTQD 48 (86)
T ss_dssp HHHHHHHHGGGTTST--TE--EEEEEESSSTTSEEEEEEETT
T ss_pred HHHHHHHHHHHhCCc--cc--EEEeeccccccceeEEEEcCC
Confidence 777888888876331 22 233345667899999999965
No 119
>TIGR02872 spore_ytvI sporulation integral membrane protein YtvI. Three lines of evidence show this protein to be involved in sporulation. First, it is under control of a sporulation-specific sigma factor, sigma-E. Second, mutation leads to a sporulation defect. Third, it if found in exactly those genomes whose bacteria are capable of sporulation, except for being absent in Clostridium acetobutylicum ATCC824. This protein has extensive hydrophobic regions and is likely an integral membrane protein.
Probab=21.27 E-value=6.2e+02 Score=22.88 Aligned_cols=19 Identities=16% Similarity=0.036 Sum_probs=11.2
Q ss_pred hhhhHHHHHHHhhhchhce
Q 025129 114 WLGSTVFWVGEWFIKRMPF 132 (257)
Q Consensus 114 ~ig~~l~~~~e~ll~rIPl 132 (257)
+++..+.+..+++.+++|-
T Consensus 72 ~l~~~l~~q~~~l~~~lp~ 90 (341)
T TIGR02872 72 ILVTELVTETIALAKNLPQ 90 (341)
T ss_pred HHHHHHHHHHHHHHHHhhH
Confidence 3445555566666666664
No 120
>PRK02507 proton extrusion protein PcxA; Provisional
Probab=21.26 E-value=1.8e+02 Score=28.98 Aligned_cols=44 Identities=18% Similarity=0.458 Sum_probs=33.6
Q ss_pred CCchHHHHHHHHHHHH--------HHHHhhHHHHHHHHHHHHHHHHHHHHHhhh
Q 025129 35 SSTRQACCYVLQSWIS--------KKFMTGCVVLFPVAVTFFITWWFVQFVDGF 80 (257)
Q Consensus 35 ~~~~~~~~~~~~~~i~--------~~Fl~GLlvlLPl~lTi~vl~wl~~~vd~~ 80 (257)
|+||| |+.+-.++. +.|+..++...|+++=...=+|+|+.++.+
T Consensus 358 HSphG--WEvll~~i~~HfGl~~n~~~I~lFVaTfPViLDTiFKYWIFRyLNRi 409 (422)
T PRK02507 358 HSPHG--WEVILEGIARHFGLPENRNFIFLFIATFPVILDTIFKYWIFRYLNRI 409 (422)
T ss_pred CCchh--HHHHHHHHHHhcCCCcccchHHHHHhhhhHHHHHHHHHHHHhhccCC
Confidence 66776 333444443 458999999999999999999999998653
No 121
>KOG1277 consensus Endosomal membrane proteins, EMP70 [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.07 E-value=2.3e+02 Score=28.85 Aligned_cols=29 Identities=24% Similarity=0.338 Sum_probs=25.6
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Q 025129 45 LQSWISKKFMTGCVVLFPVAVTFFITWWF 73 (257)
Q Consensus 45 ~~~~i~~~Fl~GLlvlLPl~lTi~vl~wl 73 (257)
-+.|+|+-++++.++-.|+..|.++++.+
T Consensus 356 G~~Wik~m~lta~Lfp~~~~~t~~~~N~v 384 (593)
T KOG1277|consen 356 GRRWIKNMLLTASLFPVPVFGTAFLLNTV 384 (593)
T ss_pred cHHHHHHHHHHhhhhhHHHHHHHHHHHHH
Confidence 46799999999999999999998888755
No 122
>CHL00038 psbL photosystem II protein L
Probab=20.64 E-value=1.5e+02 Score=19.64 Aligned_cols=20 Identities=20% Similarity=0.589 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 025129 96 GFITSLVFVFLVGVFVSSWL 115 (257)
Q Consensus 96 gll~~llli~liG~la~~~i 115 (257)
++-..+++||++|++.++|+
T Consensus 17 SLy~GLLlifvl~vlfssyf 36 (38)
T CHL00038 17 SLYWGLLLIFVLAVLFSNYF 36 (38)
T ss_pred hHHHHHHHHHHHHHHHHHHh
Confidence 34446677888999888875
No 123
>COG1390 NtpE Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]
Probab=20.63 E-value=1.7e+02 Score=25.73 Aligned_cols=110 Identities=13% Similarity=0.059 Sum_probs=60.6
Q ss_pred HHhhhhhHHHHHHHhhhchhceehhhHHHHHHHHHHhCCCCCCCCc---CcEEEEEeCCCCeeEEEEEccccccc-cCCC
Q 025129 111 VSSWLGSTVFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAF---KEVAIIRHPRVGEYAFGFITSTVTLQ-KDNG 186 (257)
Q Consensus 111 a~~~ig~~l~~~~e~ll~rIPlVksIY~siKq~~~~f~~~~~~~~f---~~VVlVe~P~~g~~~iGFvT~~~~~~-~~~~ 186 (257)
|.....+.+++..+.++.. +|+..++-+..+.++++...+ -+.++.++. |...+-+....+..- ....
T Consensus 67 A~le~r~~~Le~~ee~l~~------~~~~~~e~L~~i~~~~~~~~l~~ll~~~~~~~~--~~~~iV~~~e~d~~~v~~~~ 138 (194)
T COG1390 67 ALLEARRKLLEAKEEILES------VFEAVEEKLRNIASDPEYESLQELLIEALEKLL--GGELVVYLNEKDKALVEQIL 138 (194)
T ss_pred HHHHHHHHHHHHHHHHHHH------HHHHHHHHHHcCcCCcchHHHHHHHHHHHHhcC--CCCeEEEeCcccHHHHHHHH
Confidence 3344555566666665554 466666666666554322221 122333442 222332322222100 0000
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecCCCCHHHHHHHHh
Q 025129 187 DEELCSVFVPTNHLYIGDIFLVSSKEIIRPNLSIREGIEIIV 228 (257)
Q Consensus 187 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~lDmsvEeAmk~ii 228 (257)
.+..+.+.+.-+..+.|.+++..++--+.+|.|++.-|..+.
T Consensus 139 ~~~~~~~~~~~~~d~~GGvvv~~~dG~i~~dnt~~sil~~~~ 180 (194)
T COG1390 139 RELKIGVELGEGIDIIGGVVVESRDGKIRLDNTFESILERVL 180 (194)
T ss_pred hhcccchhccccCCCcceEEEEeCCCceeecCcHHHHHHHHH
Confidence 113456666666778999999999999999999998887653
No 124
>PRK09757 PTS system N-acetylgalactosamine-specific transporter subunit IIC; Provisional
Probab=20.26 E-value=6.9e+02 Score=23.10 Aligned_cols=25 Identities=12% Similarity=0.320 Sum_probs=17.6
Q ss_pred chhhHHHHH--------HHHHHHHHHHHHhhhh
Q 025129 92 IFGLGFITS--------LVFVFLVGVFVSSWLG 116 (257)
Q Consensus 92 ipglgll~~--------llli~liG~la~~~ig 116 (257)
.|.+|+.++ ...-|++|++...|++
T Consensus 189 LPAvGfAmLl~~m~~k~~~~ff~lGF~l~ayl~ 221 (267)
T PRK09757 189 LPAVGFGLLLRVMFKAQYIPYLIAGFLFVCYIQ 221 (267)
T ss_pred HHHHHHHHHHHHHhhcchHHHHHHHHHHHHHhC
Confidence 577776553 3456788988888876
No 125
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=20.19 E-value=3.7e+02 Score=20.94 Aligned_cols=41 Identities=24% Similarity=0.311 Sum_probs=19.0
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhHHHHHHHhhhc-hhceehhh
Q 025129 95 LGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIK-RMPFVRHL 136 (257)
Q Consensus 95 lgll~~llli~liG~la~~~ig~~l~~~~e~ll~-rIPlVksI 136 (257)
+++++++++++++|+++-..+ +.+-+..+.+.. ++|.+..+
T Consensus 10 ~~f~~~~~l~~~~~~~~~~~l-~~~~~~~~~i~~~~~~~~~~~ 51 (181)
T PF12729_consen 10 LGFGLIILLLLIVGIVGLYSL-SQINQNVEEIYENNLPSIELL 51 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhhhHHHHHH
Confidence 344445555555555544322 334444555443 35554433
No 126
>PF12911 OppC_N: N-terminal TM domain of oligopeptide transport permease C
Probab=20.08 E-value=2.3e+02 Score=19.07 Aligned_cols=32 Identities=9% Similarity=0.130 Sum_probs=19.1
Q ss_pred chHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Q 025129 37 TRQACCYVLQSWISKKFMTGCVVLFPVAVTFFIT 70 (257)
Q Consensus 37 ~~~~~~~~~~~~i~~~Fl~GLlvlLPl~lTi~vl 70 (257)
+-+..|+++++. +..+.|+++++=+++...+-
T Consensus 4 ~~~~~~~~f~~n--k~a~~gl~il~~~vl~ai~~ 35 (56)
T PF12911_consen 4 PWKDAWRRFRRN--KLAVIGLIILLILVLLAIFA 35 (56)
T ss_pred HHHHHHHHHHhC--chHHHHHHHHHHHHHHHHHH
Confidence 445677777664 55666777666554444333
Done!