Query 028637
Match_columns 206
No_of_seqs 108 out of 612
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 14:38:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028637.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028637hhsearch_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 1.9E-44 4.1E-49 307.0 18.9 158 46-204 3-171 (222)
2 PF04367 DUF502: Protein of un 100.0 1.1E-31 2.3E-36 207.2 12.3 103 97-200 1-106 (108)
3 TIGR02120 GspF general secreti 90.0 5.1 0.00011 36.8 11.4 22 119-140 243-264 (399)
4 PRK15350 type III secretion sy 88.7 8.5 0.00019 28.9 11.2 79 47-132 8-86 (88)
5 PRK05700 fliQ flagellar biosyn 88.5 8.8 0.00019 28.9 11.1 79 47-132 8-86 (89)
6 TIGR01402 fliQ flagellar biosy 87.8 9.8 0.00021 28.6 11.1 80 47-133 8-87 (88)
7 PF11947 DUF3464: Protein of u 86.4 7.8 0.00017 32.0 9.1 70 30-113 46-115 (153)
8 PRK12772 bifunctional flagella 86.1 19 0.00042 35.7 13.3 40 42-81 165-204 (609)
9 PRK06010 fliQ flagellar biosyn 85.6 13 0.00029 27.9 11.3 79 47-132 8-86 (88)
10 PRK09824 PTS system beta-gluco 85.3 8.2 0.00018 38.4 10.4 84 60-146 219-304 (627)
11 PRK12781 fliQ flagellar biosyn 84.4 15 0.00033 27.6 11.3 79 46-131 7-85 (88)
12 TIGR01403 fliQ_rel_III type II 82.8 17 0.00037 26.9 10.9 77 47-131 4-81 (81)
13 COG1684 FliR Flagellar biosynt 81.6 27 0.00058 31.2 11.2 43 39-81 165-207 (258)
14 PRK10573 type IV pilin biogene 81.1 17 0.00036 33.4 10.1 18 121-138 244-261 (399)
15 PRK11007 PTS system trehalose( 80.9 15 0.00032 35.4 9.9 85 59-146 231-318 (473)
16 PRK09796 PTS system cellobiose 80.6 17 0.00038 34.9 10.3 85 60-147 221-307 (472)
17 TIGR01992 PTS-IIBC-Tre PTS sys 80.6 17 0.00037 34.7 10.2 85 60-147 233-319 (462)
18 PRK15333 type III secretion sy 80.5 22 0.00047 26.7 10.4 79 47-132 6-84 (86)
19 PRK09586 murP PTS system N-ace 79.7 19 0.0004 34.8 10.2 83 59-145 230-313 (476)
20 COG1459 PulF Type II secretory 78.6 35 0.00076 32.1 11.5 23 118-140 239-261 (397)
21 TIGR01996 PTS-II-BC-sucr PTS s 78.1 26 0.00057 33.3 10.6 85 60-147 230-316 (461)
22 TIGR00851 mtlA PTS system, man 76.7 30 0.00064 31.8 10.2 83 59-144 93-182 (338)
23 COG1987 FliQ Flagellar biosynt 74.1 36 0.00078 25.8 11.1 78 48-132 9-86 (89)
24 PF01311 Bac_export_1: Bacteri 73.3 62 0.0013 28.2 12.1 43 39-81 163-205 (249)
25 PRK15083 PTS system mannitol-s 73.0 23 0.0005 35.1 9.1 83 59-144 101-190 (639)
26 PF02674 Colicin_V: Colicin V 71.8 44 0.00096 25.8 10.5 83 49-131 17-104 (146)
27 PRK09765 PTS system 2-O-a-mann 71.5 24 0.00053 35.0 8.9 70 60-131 381-456 (631)
28 TIGR02002 PTS-II-BC-glcB PTS s 68.8 40 0.00087 32.6 9.5 86 60-146 135-224 (502)
29 PRK11404 putative PTS system 66.5 31 0.00067 33.3 8.2 68 59-129 228-301 (482)
30 PF10329 DUF2417: Region of un 63.2 72 0.0016 28.1 9.2 16 14-29 14-29 (232)
31 PRK10110 bifunctional PTS syst 62.6 73 0.0016 31.1 10.0 87 60-148 148-238 (530)
32 TIGR01427 PTS_IIC_fructo PTS s 59.8 59 0.0013 30.0 8.5 72 59-131 112-185 (346)
33 PF08566 Pam17: Mitochondrial 58.3 1.1E+02 0.0024 25.8 9.1 67 57-125 42-108 (173)
34 TIGR02004 PTS-IIBC-malX PTS sy 57.5 92 0.002 30.3 9.7 89 60-150 139-231 (517)
35 PF05552 TM_helix: Conserved T 57.0 27 0.0006 23.1 4.4 24 99-122 19-42 (53)
36 cd02433 Nodulin-21_like_2 Nodu 56.5 77 0.0017 27.6 8.2 62 34-120 148-209 (234)
37 TIGR01995 PTS-II-ABC-beta PTS 56.1 1.2E+02 0.0027 30.0 10.5 84 60-146 211-296 (610)
38 PRK15071 lipopolysaccharide AB 54.5 77 0.0017 28.4 8.2 40 42-81 2-41 (356)
39 PRK10263 DNA translocase FtsK; 53.7 3.4E+02 0.0074 29.9 14.3 30 95-126 161-190 (1355)
40 PRK15349 type III secretion sy 53.6 1.6E+02 0.0034 25.9 12.0 39 43-81 171-209 (259)
41 PF09527 ATPase_gene1: Putativ 53.3 64 0.0014 21.3 6.2 18 100-117 13-30 (55)
42 PRK10617 cytochrome c-type pro 51.7 41 0.00089 28.8 5.7 20 33-52 2-21 (200)
43 COG4300 CadD Predicted permeas 51.2 86 0.0019 27.0 7.4 65 121-195 67-131 (205)
44 COG4794 EscS Type III secretor 50.0 1.1E+02 0.0024 23.2 10.5 77 51-134 12-88 (89)
45 PF11872 DUF3392: Protein of u 47.1 95 0.002 24.2 6.5 63 50-113 41-105 (106)
46 PF03213 Pox_P35: Poxvirus P35 46.5 37 0.0008 31.3 4.8 69 35-127 251-320 (325)
47 TIGR00852 pts-Glc PTS system, 44.9 2.1E+02 0.0046 25.3 9.4 27 59-85 66-92 (289)
48 PF03596 Cad: Cadmium resistan 43.1 71 0.0015 27.2 5.8 60 124-195 59-119 (191)
49 PRK05415 hypothetical protein; 42.4 2.9E+02 0.0062 25.7 10.5 28 49-77 66-93 (341)
50 PF14257 DUF4349: Domain of un 41.2 72 0.0015 27.6 5.7 17 57-73 240-256 (262)
51 COG3768 Predicted membrane pro 40.9 2.2E+02 0.0047 26.6 8.8 34 44-77 58-91 (350)
52 PF06024 DUF912: Nucleopolyhed 40.8 10 0.00022 28.8 0.3 25 50-74 61-85 (101)
53 PRK05122 major facilitator sup 40.8 1.4E+02 0.003 26.3 7.5 21 24-44 1-21 (399)
54 TIGR02003 PTS-II-BC-unk1 PTS s 40.5 2.5E+02 0.0054 27.8 9.7 88 60-148 142-237 (548)
55 TIGR01400 fliR flagellar biosy 40.3 2.5E+02 0.0054 24.4 12.3 40 42-81 159-198 (245)
56 COG2981 CysZ Uncharacterized p 40.2 2.4E+02 0.0053 25.2 8.7 54 59-112 28-89 (250)
57 PHA02688 ORF059 IMV protein VP 39.3 48 0.001 30.6 4.4 69 35-127 249-318 (323)
58 TIGR00779 cad cadmium resistan 38.5 2.5E+02 0.0055 24.0 9.0 60 122-195 56-119 (193)
59 PRK10845 colicin V production 37.4 2.3E+02 0.0049 23.1 8.8 77 50-128 21-101 (162)
60 COG1286 CvpA Uncharacterized m 36.4 2.5E+02 0.0055 23.4 10.2 70 49-119 20-89 (182)
61 PF04109 APG9: Autophagy prote 36.2 1.3E+02 0.0027 28.3 6.7 46 34-80 106-151 (370)
62 PF07136 DUF1385: Protein of u 36.1 3.1E+02 0.0066 24.2 9.1 23 49-71 49-71 (236)
63 PF04854 DUF624: Protein of un 35.8 1.2E+02 0.0027 21.0 5.3 32 41-72 44-75 (77)
64 cd02432 Nodulin-21_like_1 Nodu 35.0 2.9E+02 0.0063 23.7 9.2 66 35-126 135-201 (218)
65 PF06596 PsbX: Photosystem II 34.9 1.2E+02 0.0025 19.6 4.4 24 47-70 7-30 (39)
66 PF03547 Mem_trans: Membrane t 34.8 3.3E+02 0.0072 24.3 9.5 29 46-74 235-263 (385)
67 PF03739 YjgP_YjgQ: Predicted 34.7 2E+02 0.0044 25.3 7.7 32 50-81 4-35 (354)
68 cd02434 Nodulin-21_like_3 Nodu 34.5 2.8E+02 0.006 23.9 8.2 74 34-126 132-207 (225)
69 PF15446 zf-PHD-like: PHD/FYVE 33.9 18 0.0004 30.5 0.8 14 15-28 101-114 (175)
70 PRK05701 fliR flagellar biosyn 33.6 3.2E+02 0.0069 23.7 11.1 40 42-81 161-200 (242)
71 PRK14762 membrane protein; Pro 33.5 67 0.0015 18.9 2.8 14 100-113 7-20 (27)
72 TIGR01183 ntrB nitrate ABC tra 32.0 3E+02 0.0066 23.0 10.2 67 40-108 14-80 (202)
73 PRK10478 putative PTS system f 31.9 2.3E+02 0.005 26.5 7.7 29 45-73 7-35 (359)
74 PF04971 Lysis_S: Lysis protei 29.8 1.3E+02 0.0029 21.7 4.5 41 68-116 16-56 (68)
75 TIGR01401 fliR_like_III type I 29.3 3.9E+02 0.0085 23.4 11.6 41 41-81 165-205 (253)
76 PF04459 DUF512: Protein of un 29.1 80 0.0017 27.1 3.9 61 135-197 107-171 (204)
77 PRK02463 OxaA-like protein pre 28.9 2E+02 0.0043 26.2 6.6 22 47-68 3-24 (307)
78 cd02435 CCC1 CCC1. CCC1: This 27.9 3.5E+02 0.0075 23.7 7.8 58 35-117 152-209 (241)
79 PF11241 DUF3043: Protein of u 27.9 1.9E+02 0.0041 24.3 5.8 15 59-73 80-94 (170)
80 PRK09554 feoB ferrous iron tra 27.4 3.6E+02 0.0079 27.6 8.8 55 37-91 496-564 (772)
81 PF12841 YvrJ: YvrJ protein fa 27.3 96 0.0021 19.7 3.1 24 61-84 8-31 (38)
82 COG3763 Uncharacterized protei 27.3 1.2E+02 0.0027 22.0 4.0 35 95-133 5-39 (71)
83 KOG0476 Cl- channel CLC-2 and 27.1 7.6E+02 0.016 26.0 12.1 46 36-81 75-120 (931)
84 KOG3044 Uncharacterized conser 25.8 66 0.0014 29.3 2.9 50 6-56 224-273 (307)
85 TIGR00437 feoB ferrous iron tr 25.6 5E+02 0.011 25.6 9.2 54 37-90 460-522 (591)
86 PF00672 HAMP: HAMP domain; I 25.3 1.1E+02 0.0023 20.3 3.3 26 97-122 5-30 (70)
87 KOG3249 Uncharacterized conser 25.2 2.7E+02 0.0058 23.6 6.2 30 9-38 56-86 (181)
88 smart00743 Agenet Tudor-like d 25.1 2.1E+02 0.0045 18.8 5.6 36 158-198 7-44 (61)
89 PRK15082 glutathione ABC trans 24.8 4.9E+02 0.011 23.1 9.5 37 96-133 109-148 (301)
90 PF12670 DUF3792: Protein of u 24.6 3.2E+02 0.007 20.9 6.5 49 93-149 40-89 (116)
91 PF12729 4HB_MCP_1: Four helix 24.4 3.1E+02 0.0067 20.6 7.2 41 95-136 10-51 (181)
92 COG1174 OpuBB ABC-type proline 24.2 1.8E+02 0.0039 25.5 5.2 115 37-165 20-141 (221)
93 PF05283 MGC-24: Multi-glycosy 23.1 81 0.0018 26.9 2.8 26 50-75 160-185 (186)
94 COG2928 Uncharacterized conser 23.1 5.2E+02 0.011 22.7 9.9 38 42-79 3-40 (222)
95 PF07290 DUF1449: Protein of u 22.8 3.6E+02 0.0077 23.1 6.7 16 104-119 104-119 (202)
96 COG0387 ChaA Ca2+/H+ antiporte 22.7 4.2E+02 0.0092 25.0 7.7 30 69-98 232-261 (368)
97 PRK15120 lipopolysaccharide AB 22.5 4.3E+02 0.0094 23.8 7.7 34 48-81 6-39 (366)
98 PF01594 UPF0118: Domain of un 22.3 5.2E+02 0.011 22.4 9.7 93 57-153 1-106 (327)
99 PF01770 Folate_carrier: Reduc 22.3 6.8E+02 0.015 23.8 9.7 34 37-77 228-261 (412)
100 PRK00665 petG cytochrome b6-f 21.7 1.3E+02 0.0029 19.1 2.9 21 95-115 7-27 (37)
101 PRK10987 regulatory protein Am 21.5 4.8E+02 0.01 23.2 7.6 41 35-75 21-62 (284)
102 PF07670 Gate: Nucleoside reco 21.4 2.2E+02 0.0048 20.7 4.7 33 58-90 2-40 (109)
103 PF01313 Bac_export_3: Bacteri 21.3 3.3E+02 0.0072 19.8 10.4 36 46-81 4-39 (76)
104 PF05328 CybS: CybS; InterPro 21.1 4.3E+02 0.0093 21.0 8.6 19 49-67 37-55 (132)
105 PRK01844 hypothetical protein; 21.0 2.3E+02 0.0049 20.6 4.4 29 102-133 11-39 (72)
106 CHL00008 petG cytochrome b6/f 21.0 1.4E+02 0.003 19.0 2.8 21 95-115 7-27 (37)
107 PRK12780 fliR flagellar biosyn 20.6 5.7E+02 0.012 22.3 11.7 40 42-81 169-208 (251)
108 PF02529 PetG: Cytochrome B6-F 20.6 1.7E+02 0.0037 18.7 3.2 21 94-114 6-26 (37)
109 TIGR00267 conserved hypothetic 20.5 4E+02 0.0087 21.8 6.4 27 94-120 120-146 (169)
110 PRK00523 hypothetical protein; 20.3 2.8E+02 0.006 20.2 4.7 25 104-131 14-38 (72)
No 1
>COG2928 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.9e-44 Score=307.03 Aligned_cols=158 Identities=28% Similarity=0.595 Sum_probs=142.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhh-------hccchhhhhHHHHHHHHHHHHHHHHHhhhhhH
Q 028637 46 QSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYE-------HLGFDIFGLGFITSLVFVFLVGVFVSSWLGST 118 (206)
Q Consensus 46 ~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~-------~lg~~~pglgili~l~li~~vG~la~~~~g~~ 118 (206)
++++||+|+|||++++|+++|+|+++|+++++|+++.|.+. +++.+++++|+++++++++++|+++++.+||+
T Consensus 3 ~~~lk~~fltGLlvllPlaiT~~vv~~i~~~l~~~~~~~lp~~~~~~~~~~~~i~~lg~il~iili~l~G~l~~~~ig~~ 82 (222)
T COG2928 3 AKRLKKYFLTGLLVLLPLAITLWVVSWIFGLLDQFVGPLLPDRLRPAVYFPFNIPGLGVILAIILIFLLGFLARNMIGRS 82 (222)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccchhchhhcCchhhHHHHHHHHHHHHHHHHHHHHHHhhhH
Confidence 45689999999999999999999999999999999998553 23567899999999999999999999999999
Q ss_pred HHHHHHHHHhhcchhhHHHHHHHHHHHHhCCCCCCcCcCcEEEEEeCCCCeeEEEEEecccccc---ccCCcEEEEEecC
Q 028637 119 VFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTVTLQ---IMEMKSYVVFLSQ 195 (206)
Q Consensus 119 i~~~~e~ll~rIPvV~sIY~siKqi~~~~~~~~~~~~f~~VVlVe~P~~g~~~iGFvT~~~~~~---~~~~~~v~VFvPt 195 (206)
+++++|++++|||++|+||+++||+++++.++++ ++||+||+||||++|+|++||+|++...+ ..++++++||+||
T Consensus 83 l~~~~d~~L~RiPlv~~IY~s~kqi~etll~~~~-~sfk~vvlVefP~~G~~~i~fvtg~~~~e~~~~~~~~~v~VfvPT 161 (222)
T COG2928 83 LLSLGDSLLRRIPLVKSIYKSAKQVVETLLSDQS-GSFKQVVLVEFPRRGIWAIAFVTGEKAGELKEKEGRPMVAVFVPT 161 (222)
T ss_pred HHHHHHHHHccCccHHHHHHHHHHHHHHHHhcCC-ccceeeEEEECCCCCcEEEEEeccCCCcchhcccCCceEEEEcCC
Confidence 9999999999999999999999999999998764 58999999999999999999999987433 3346999999999
Q ss_pred CCCc-cceEE
Q 028637 196 QTIY-ILVIY 204 (206)
Q Consensus 196 sPn~-~G~~~ 204 (206)
|||| +|++.
T Consensus 162 TPNPTsGfl~ 171 (222)
T COG2928 162 TPNPTSGFLL 171 (222)
T ss_pred CCCCCcceEE
Confidence 9999 56543
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=1.1e-31 Score=207.25 Aligned_cols=103 Identities=27% Similarity=0.539 Sum_probs=93.2
Q ss_pred HHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhhcchhhHHHHHHHHHHHHhCCCCCCcCcCcEEEEEeCCCCeeEEEEEe
Q 028637 97 FITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFIT 176 (206)
Q Consensus 97 ili~l~li~~vG~la~~~~g~~i~~~~e~ll~rIPvV~sIY~siKqi~~~~~~~~~~~~f~~VVlVe~P~~g~~~iGFvT 176 (206)
+++++++|+++|+++++++|+++++++|+++.|||+||+||+++||++++|+++++ ++|++||+||||++|+|++||+|
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 35688899999999999999999999999999999999999999999999999864 45999999999999999999999
Q ss_pred cccccc---ccCCcEEEEEecCCCCcc
Q 028637 177 STVTLQ---IMEMKSYVVFLSQQTIYI 200 (206)
Q Consensus 177 ~~~~~~---~~~~~~v~VFvPtsPn~~ 200 (206)
++...+ ..++++++||+||||||+
T Consensus 80 ~~~~~~~~~~~~~~~v~VfvPtsPnPt 106 (108)
T PF04367_consen 80 GEDPGELPGKTGEEMVAVFVPTSPNPT 106 (108)
T ss_pred ccCcchhhccCCCCEEEEEeCCCCCCC
Confidence 997543 234599999999999964
No 3
>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=89.98 E-value=5.1 Score=36.78 Aligned_cols=22 Identities=14% Similarity=0.102 Sum_probs=18.2
Q ss_pred HHHHHHHHHhhcchhhHHHHHH
Q 028637 119 VFWVGEWFIKRMPFVRHLYSAS 140 (206)
Q Consensus 119 i~~~~e~ll~rIPvV~sIY~si 140 (206)
.-...|+++.|+|+++++|...
T Consensus 243 ~r~~~~~~l~kiP~~g~~~~~~ 264 (399)
T TIGR02120 243 FRLRFDRRLLRLPVIGRLVRGL 264 (399)
T ss_pred HHHHHHHHHhcccchHHHHHHH
Confidence 4457899999999999998754
No 4
>PRK15350 type III secretion system protein SsaS; Provisional
Probab=88.70 E-value=8.5 Score=28.95 Aligned_cols=79 Identities=13% Similarity=0.173 Sum_probs=48.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Q 028637 47 SWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWF 126 (206)
Q Consensus 47 ~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li~~vG~la~~~~g~~i~~~~e~l 126 (206)
...++.+...+.+.+|+.+.-.++..+.+.+....+= .-.-+.++-=++.++++=++...+..+.+.++.+++
T Consensus 8 ~l~~~al~~~l~ls~P~L~~alvVGlvIsi~QA~TQI-------QEqTLsFvPKliav~~~l~~~gpWm~~~l~~ft~~i 80 (88)
T PRK15350 8 QFVTQLLWIVLFTSMPVVLVASVVGVIVSLVQALTQI-------QDQTLQFMIKLLAIAITLMVSYPWLSGILLNYTRQI 80 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467889999999999998888887777765553310 001112221122222222233345557788899999
Q ss_pred Hhhcch
Q 028637 127 IKRMPF 132 (206)
Q Consensus 127 l~rIPv 132 (206)
+.+||-
T Consensus 81 f~~i~~ 86 (88)
T PRK15350 81 MLRIGE 86 (88)
T ss_pred HHhhhh
Confidence 999883
No 5
>PRK05700 fliQ flagellar biosynthesis protein FliQ; Validated
Probab=88.53 E-value=8.8 Score=28.89 Aligned_cols=79 Identities=13% Similarity=0.222 Sum_probs=50.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Q 028637 47 SWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWF 126 (206)
Q Consensus 47 ~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li~~vG~la~~~~g~~i~~~~e~l 126 (206)
...|+.+...+.+.+|+.+.-.++.-+.+.+....+= .-.-++++-=++.++++=++.-.+.++.+.++.+++
T Consensus 8 ~l~~~al~~~l~ls~P~l~~alvVGlvIsi~QA~TQI-------qEqTLsFvPKliav~~~l~~~g~Wm~~~l~~f~~~i 80 (89)
T PRK05700 8 DLFREAMKVALMLAAPLLLVALVVGLVVSIFQAATQI-------NEQTLSFIPKILAVLLTLIIAGPWMLNTLLDYTRTL 80 (89)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4468889999999999998888887777765543310 011122222222222333334446667888999999
Q ss_pred Hhhcch
Q 028637 127 IKRMPF 132 (206)
Q Consensus 127 l~rIPv 132 (206)
+++||-
T Consensus 81 f~~i~~ 86 (89)
T PRK05700 81 FSNIPT 86 (89)
T ss_pred HHHHHh
Confidence 999985
No 6
>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=87.80 E-value=9.8 Score=28.60 Aligned_cols=80 Identities=11% Similarity=0.183 Sum_probs=50.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Q 028637 47 SWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWF 126 (206)
Q Consensus 47 ~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li~~vG~la~~~~g~~i~~~~e~l 126 (206)
...++.+...+.+.+|+.+.-.++..+.+.+....+= .-.-+.++-=++.++++-++.-.+.++.+.++.+++
T Consensus 8 ~l~~~al~~~l~~s~P~l~~alvVGlvIsi~QA~TQI-------qEqTLsFvPKliav~~~l~~~gpWm~~~l~~f~~~~ 80 (88)
T TIGR01402 8 DLGREAIWLTLLLSAPVLLVALVVGLVISIFQAATQI-------QEQTLSFIPKIIAILLALALLGPWMLTKLLDFTREI 80 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4467889999999999988888887777765543310 011122222222222333334445667788899999
Q ss_pred Hhhcchh
Q 028637 127 IKRMPFV 133 (206)
Q Consensus 127 l~rIPvV 133 (206)
+.+||-+
T Consensus 81 f~~i~~~ 87 (88)
T TIGR01402 81 FQRIPQG 87 (88)
T ss_pred HHHhhhh
Confidence 9999853
No 7
>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=86.35 E-value=7.8 Score=32.02 Aligned_cols=70 Identities=13% Similarity=0.115 Sum_probs=38.7
Q ss_pred CCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHHHHHHH
Q 028637 30 PTSSASSTRQACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGV 109 (206)
Q Consensus 30 ~~~~~~~~~~~~~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li~~vG~ 109 (206)
.......-.+....|+++++ ++.+-+|.++-+-++...+-.+++-. .++|--..+++-++||.+|+
T Consensus 46 ~~~~~~~IP~~Vs~RM~rRm------~~~~GiP~~lG~~~f~~~y~l~~~~~--------~dvP~~~~~~~S~~~Fg~gl 111 (153)
T PF11947_consen 46 RDEDDSAIPEVVSNRMLRRM------AVFVGIPTALGVAVFVVFYYLKSRQI--------VDVPPWAVLLVSLVFFGLGL 111 (153)
T ss_pred ccccccccCHHHHHHHHHHH------HHHhchHHHHHHHHHHHHHHHHhccc--------cccCchHHHHHHHHHHHHHH
Confidence 44455556677777775554 56677888877666666555544422 23332223333344666666
Q ss_pred HHHh
Q 028637 110 FVSS 113 (206)
Q Consensus 110 la~~ 113 (206)
+.-+
T Consensus 112 lGis 115 (153)
T PF11947_consen 112 LGIS 115 (153)
T ss_pred Hhhh
Confidence 5433
No 8
>PRK12772 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional
Probab=86.07 E-value=19 Score=35.67 Aligned_cols=40 Identities=13% Similarity=0.194 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028637 42 CYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (206)
Q Consensus 42 ~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~ 81 (206)
+..+.+.+.+.|..|+..-+|+++...++...++.++...
T Consensus 165 ~~~~~~~~~~~F~~al~lAaP~i~~lll~~~~lGllsR~a 204 (609)
T PRK12772 165 IMHVINVFIQYFYIGIKIAIPIVLIILITDLTLGLISRTV 204 (609)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 4555667888999999999999999999999999888765
No 9
>PRK06010 fliQ flagellar biosynthesis protein FliQ; Reviewed
Probab=85.58 E-value=13 Score=27.91 Aligned_cols=79 Identities=11% Similarity=0.160 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Q 028637 47 SWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWF 126 (206)
Q Consensus 47 ~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li~~vG~la~~~~g~~i~~~~e~l 126 (206)
...++.+...+.+.+|+.+.-.++..+.+.+....+= .-.-+.++-=++.++++=++.-.+..+.+.++.+++
T Consensus 8 ~l~~~al~~~l~~s~P~L~~alvVGliIsi~QA~TQI-------qEqTLsFvPKliav~~~l~~~g~Wm~~~l~~f~~~i 80 (88)
T PRK06010 8 DIVRDAIWTVLVASGPAVLAAMVVGVAIALFQALTQI-------QEMTLTFVPKIVAIFVTLLLTLPFMGAQISAFTLLI 80 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467889999999999998888887777765543310 001111221112222222223344557788899999
Q ss_pred Hhhcch
Q 028637 127 IKRMPF 132 (206)
Q Consensus 127 l~rIPv 132 (206)
+.+||-
T Consensus 81 f~~i~~ 86 (88)
T PRK06010 81 YSRIAG 86 (88)
T ss_pred HHhhcc
Confidence 999883
No 10
>PRK09824 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional
Probab=85.25 E-value=8.2 Score=38.44 Aligned_cols=84 Identities=13% Similarity=0.278 Sum_probs=53.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHH-HHHHHHHHHHHhhhhhHHHHHHHHHHhhcchh-hHHH
Q 028637 60 LFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSL-VFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFV-RHLY 137 (206)
Q Consensus 60 llPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l-~li~~vG~la~~~~g~~i~~~~e~ll~rIPvV-~sIY 137 (206)
++|++++.|+..|+-+|++......++. +-.|.+.+++++ +.++++|=+.. ++|..+-..++++.+.-|.+ .-|+
T Consensus 219 ViPiil~v~~~s~iEk~l~K~iP~~l~~--i~~P~ltlli~~pl~l~viGPig~-~i~~~l~~~i~~l~~~~~~i~g~i~ 295 (627)
T PRK09824 219 VIPIIFSAWLCSILERRLNAWLPSAIKN--FFTPLLCLMVIVPLTFLLIGPLAT-WLSELLAAGYQWLYQAVPAFAGAVM 295 (627)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHhHHHHHH-HHHHHHHHHHHHHHhhchHHHHHHH
Confidence 7999999999999999999987555443 234554444433 34445555543 46666666777777766643 3366
Q ss_pred HHHHHHHHH
Q 028637 138 SASKQISAA 146 (206)
Q Consensus 138 ~siKqi~~~ 146 (206)
..+-+++=.
T Consensus 296 g~~~~~lV~ 304 (627)
T PRK09824 296 GAFWQVFVI 304 (627)
T ss_pred HHHHHHHHH
Confidence 666665433
No 11
>PRK12781 fliQ flagellar biosynthesis protein FliQ; Reviewed
Probab=84.42 E-value=15 Score=27.60 Aligned_cols=79 Identities=14% Similarity=0.210 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHH
Q 028637 46 QSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEW 125 (206)
Q Consensus 46 ~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li~~vG~la~~~~g~~i~~~~e~ 125 (206)
....|+.+...+.+-+|+.+.-.++.-+.+.+....+= .-.-+.++-=++.++++=++.-.+.++.+.++.++
T Consensus 7 i~~~~~al~~~l~ls~P~L~~alvVGlvIsi~QA~TQI-------QEqTLsFvPKliav~~~l~~~~~wm~~~l~~ft~~ 79 (88)
T PRK12781 7 LELVRAAIWTIIVASGPAVGAAMLVGIAIALLQALTQI-------QEVTLTFVPKIVVILIVMAVTGSFVGAQIYAFTEM 79 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34568889999999999988888887777765543310 00112222222222222233344556778889999
Q ss_pred HHhhcc
Q 028637 126 FIKRMP 131 (206)
Q Consensus 126 ll~rIP 131 (206)
++.+||
T Consensus 80 if~~i~ 85 (88)
T PRK12781 80 VYGRIE 85 (88)
T ss_pred HHHhhc
Confidence 999988
No 12
>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=82.84 E-value=17 Score=26.92 Aligned_cols=77 Identities=14% Similarity=0.315 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh-ccchhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHH
Q 028637 47 SWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEH-LGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEW 125 (206)
Q Consensus 47 ~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~-lg~~~pglgili~l~li~~vG~la~~~~g~~i~~~~e~ 125 (206)
...++.+...+.+.+|+.+.-.++.-+.+.+....+= -+. +.+--..+ ++.+.+++..+ +..+.+.++.++
T Consensus 4 ~~~~~al~~~l~~s~P~L~~alvVGLvIsi~QA~TQI-qEqTLsFvPKli--av~~~l~~~~p-----wm~~~l~~f~~~ 75 (81)
T TIGR01403 4 QLTNQALLLVLILSLPPVLVAAIVGLLVSLLQALTQL-QDQTLPFAIKLI--AVFITLMLTAG-----WLGAEILNFANQ 75 (81)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHhHHHHH--HHHHHHHHHHH-----HHHHHHHHHHHH
Confidence 3467888999999999998888887777765553310 000 01111111 12223333344 444677789999
Q ss_pred HHhhcc
Q 028637 126 FIKRMP 131 (206)
Q Consensus 126 ll~rIP 131 (206)
++++||
T Consensus 76 if~~i~ 81 (81)
T TIGR01403 76 IFTMIP 81 (81)
T ss_pred HHhhCC
Confidence 998887
No 13
>COG1684 FliR Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=81.59 E-value=27 Score=31.15 Aligned_cols=43 Identities=12% Similarity=0.267 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028637 39 QACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (206)
Q Consensus 39 ~~~~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~ 81 (206)
++.+.-+.+++...|..|+..-+|++....+++-.++.+++..
T Consensus 165 ~~~~~~l~~~l~~~F~~~l~iAlPii~~lLlvnlalGlv~R~~ 207 (258)
T COG1684 165 DNAFLLLAKALSAIFLIGLRLALPIIALLLLVNLALGLLNRLA 207 (258)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3456677778899999999999999999999999999888765
No 14
>PRK10573 type IV pilin biogenesis protein; Provisional
Probab=81.14 E-value=17 Score=33.44 Aligned_cols=18 Identities=22% Similarity=0.383 Sum_probs=15.3
Q ss_pred HHHHHHHhhcchhhHHHH
Q 028637 121 WVGEWFIKRMPFVRHLYS 138 (206)
Q Consensus 121 ~~~e~ll~rIPvV~sIY~ 138 (206)
...++++.|+|+++.+|.
T Consensus 244 ~~~~~~l~~iP~~g~~~~ 261 (399)
T PRK10573 244 IREQRLLLRLPLVGSLIR 261 (399)
T ss_pred HHHHHHHhcCCeeccccc
Confidence 467899999999998776
No 15
>PRK11007 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional
Probab=80.87 E-value=15 Score=35.41 Aligned_cols=85 Identities=11% Similarity=0.117 Sum_probs=55.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHHH-HHHHHHHhhhhhHHHHHHHHHHh-hc-chhhH
Q 028637 59 VLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVF-LVGVFVSSWLGSTVFWVGEWFIK-RM-PFVRH 135 (206)
Q Consensus 59 vllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li~-~vG~la~~~~g~~i~~~~e~ll~-rI-PvV~s 135 (206)
.++|++++.|+..|+-++++......++. .-.|.+.++++..+.+ ++|=+.. +++..+-+.++++.+ .. ++-.-
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 QVIPALLAGLALGFIETRLKRIVPDYLYL--VVVPVCSLILAVFLAHALIGPFGR-MIGDGVAFAVKALMTGSFAPIGAA 307 (473)
T ss_pred CcHHHHHHHHHHHHHHHHHHHhCcHHHHH--HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhcchHHHHHH
Confidence 57899999999999999999986444432 2345555555544433 5665543 566666667777763 33 45566
Q ss_pred HHHHHHHHHHH
Q 028637 136 LYSASKQISAA 146 (206)
Q Consensus 136 IY~siKqi~~~ 146 (206)
++..+.|+.=.
T Consensus 308 i~g~~~~~lV~ 318 (473)
T PRK11007 308 LFGFLYAPLVI 318 (473)
T ss_pred HHHHHHHHHHH
Confidence 77777775543
No 16
>PRK09796 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional
Probab=80.59 E-value=17 Score=34.93 Aligned_cols=85 Identities=14% Similarity=0.164 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHH-HHHHHHHHHHHHhhhhhHHHHHHHHHHhhcc-hhhHHH
Q 028637 60 LFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITS-LVFVFLVGVFVSSWLGSTVFWVGEWFIKRMP-FVRHLY 137 (206)
Q Consensus 60 llPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~-l~li~~vG~la~~~~g~~i~~~~e~ll~rIP-vV~sIY 137 (206)
++|++++.|+..++-++++......++. .-.|.+.++++ .+.++++|=+.. ++|..+...++++.+.-| +..-|+
T Consensus 221 ViPiil~v~~~s~vek~~~K~~P~~l~~--i~~P~ltlli~~pl~l~viGPig~-~i~~~i~~~i~~l~~~~~~i~g~i~ 297 (472)
T PRK09796 221 VIPALVMTWCLSYIERWVDRITPAVTKN--FLKPMLIVLIAAPLAILLIGPIGI-WIGSAISALVYTIHGYLGWLSVAIM 297 (472)
T ss_pred hHHHHHHHHHHHHHHHHHHHhCHHHHHH--HHHHHHHHHHHHHHHHHhHHHHHH-HHHHHHHHHHHHHHhcchHHHHHHH
Confidence 6899999999999999988877544432 22343333332 222333444332 455555566666666554 556777
Q ss_pred HHHHHHHHHh
Q 028637 138 SASKQISAAI 147 (206)
Q Consensus 138 ~siKqi~~~~ 147 (206)
..+-++.=.+
T Consensus 298 g~~~~~lV~~ 307 (472)
T PRK09796 298 GALWPLLVMT 307 (472)
T ss_pred HHHHHHHHHh
Confidence 7777765443
No 17
>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=80.58 E-value=17 Score=34.72 Aligned_cols=85 Identities=4% Similarity=0.069 Sum_probs=53.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHHH-HHHHHHHhhhhhHHHHHHHHHHhhcchhh-HHH
Q 028637 60 LFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVF-LVGVFVSSWLGSTVFWVGEWFIKRMPFVR-HLY 137 (206)
Q Consensus 60 llPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li~-~vG~la~~~~g~~i~~~~e~ll~rIPvV~-sIY 137 (206)
++|.+++.|+..|+-++++..+...+.. +-.|.+.+++++.+.+ ++|-+.. +++..+.+.+.++.+..|.+. -+|
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 VLPALLAGYVLAVIEKWLRKRVPDAIQL--LVVPPVSLLVTGFLAHAIIGPIGR-LIGNGITSGVTALFTSAAWLGGAIF 309 (462)
T ss_pred HHHHHHHHHHHHHHHHHHHcCChHHHHH--HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhCcHHHHHHH
Confidence 5889999999999988888865444432 2345555554444333 3454432 456666666677777676544 488
Q ss_pred HHHHHHHHHh
Q 028637 138 SASKQISAAI 147 (206)
Q Consensus 138 ~siKqi~~~~ 147 (206)
..+.++.=.+
T Consensus 310 G~l~~~lV~~ 319 (462)
T TIGR01992 310 GLLYAPLVIT 319 (462)
T ss_pred HHHHHHHHHh
Confidence 8888766543
No 18
>PRK15333 type III secretion system protein SpaQ; Provisional
Probab=80.50 E-value=22 Score=26.67 Aligned_cols=79 Identities=16% Similarity=0.026 Sum_probs=47.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Q 028637 47 SWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWF 126 (206)
Q Consensus 47 ~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li~~vG~la~~~~g~~i~~~~e~l 126 (206)
...++.+...+.+.+|+.+.-.++.-+.+.+....+= .-.-+.++-=++.++++=++.-.+.++.+.++.+++
T Consensus 6 ~~~~~al~~~l~ls~P~L~valvVGlvIsi~QA~TQI-------QEqTLsFvPKliav~~~l~~~~pwm~~~l~~f~~~i 78 (86)
T PRK15333 6 FAGNKALYLVLILSGWPTIVATIIGLLVGLFQTVTQL-------QEQTLPFGIKLLGVCLCLFLLSGWYGEVLLSYGRQV 78 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3457888899999999988888877777765543310 001122222222222222333445567788899999
Q ss_pred Hhhcch
Q 028637 127 IKRMPF 132 (206)
Q Consensus 127 l~rIPv 132 (206)
+..+|-
T Consensus 79 f~~~~~ 84 (86)
T PRK15333 79 IFLALA 84 (86)
T ss_pred HHhhhc
Confidence 988873
No 19
>PRK09586 murP PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed
Probab=79.72 E-value=19 Score=34.77 Aligned_cols=83 Identities=11% Similarity=0.133 Sum_probs=48.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHH-HHHHHHHHHHHHhhhhhHHHHHHHHHHhhcchhhHHH
Q 028637 59 VLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITS-LVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRHLY 137 (206)
Q Consensus 59 vllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~-l~li~~vG~la~~~~g~~i~~~~e~ll~rIPvV~sIY 137 (206)
.++|++++.|+..++-++++......++. .-.|.+.++++ .+.++++|=+. +++|..+-+.+.++... ++..-++
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 NIIGVLIAAIAGARIERMVRRFMPDDLDM--ILTSLITLLITGALAFLIIMPLG-GWLFEGMSWLFMHLNSN-PFGCAVL 305 (476)
T ss_pred chHHHHHHHHHHHHHHHHHHhhCHHHHHH--HHHHHHHHHHHHHHHHHhHHhHH-HHHHHHHHHHHHHHHhh-HHHHHHH
Confidence 46799999999999999988877544432 12333333322 22233344333 24455544555555543 6667777
Q ss_pred HHHHHHHH
Q 028637 138 SASKQISA 145 (206)
Q Consensus 138 ~siKqi~~ 145 (206)
..+.+..=
T Consensus 306 g~~~~~lV 313 (476)
T PRK09586 306 AGLFLIAV 313 (476)
T ss_pred HHHHHHHh
Confidence 77777653
No 20
>COG1459 PulF Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=78.56 E-value=35 Score=32.11 Aligned_cols=23 Identities=13% Similarity=0.105 Sum_probs=18.6
Q ss_pred HHHHHHHHHHhhcchhhHHHHHH
Q 028637 118 TVFWVGEWFIKRMPFVRHLYSAS 140 (206)
Q Consensus 118 ~i~~~~e~ll~rIPvV~sIY~si 140 (206)
+.-...|+++.|+|+++.+....
T Consensus 239 ~~r~~~~~~llrlP~~g~l~~~~ 261 (397)
T COG1459 239 AGRRRLDRLLLRLPLFGKLVRKY 261 (397)
T ss_pred HHHHHHHhHHhcCCcHHHHHHHH
Confidence 34568999999999999987743
No 21
>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=78.06 E-value=26 Score=33.35 Aligned_cols=85 Identities=14% Similarity=0.232 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHH-HHHHHHHHHHHHhhhhhHHHHHHHHHHhhcc-hhhHHH
Q 028637 60 LFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITS-LVFVFLVGVFVSSWLGSTVFWVGEWFIKRMP-FVRHLY 137 (206)
Q Consensus 60 llPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~-l~li~~vG~la~~~~g~~i~~~~e~ll~rIP-vV~sIY 137 (206)
++|.+++.|+..|+-++++..+...++.+ -.|.+.++++ ++.++++|-+.. +++..+.+.++++.+.-+ +..-+|
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 78999999999999888887775555432 3455555544 333444676654 566777777777776443 455688
Q ss_pred HHHHHHHHHh
Q 028637 138 SASKQISAAI 147 (206)
Q Consensus 138 ~siKqi~~~~ 147 (206)
..+.++...+
T Consensus 307 G~l~~~Lv~~ 316 (461)
T TIGR01996 307 GGLYSLIVIT 316 (461)
T ss_pred HHHHHHHHHh
Confidence 8888775543
No 22
>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=76.74 E-value=30 Score=31.81 Aligned_cols=83 Identities=12% Similarity=-0.005 Sum_probs=50.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHH----HHHHHHHHHHHHHhhhhhHHHHHHHHHHhh--cch
Q 028637 59 VLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFIT----SLVFVFLVGVFVSSWLGSTVFWVGEWFIKR--MPF 132 (206)
Q Consensus 59 vllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili----~l~li~~vG~la~~~~g~~i~~~~e~ll~r--IPv 132 (206)
.++|++++.|+..|+-+++++.....++. .-.|.+.+++ ..+.++++|=+.. ++|+.+-+.++++.+. -|.
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 AMIMGPLGGWLIKKTDEFVQGKVKQGFEM--LVNNFSAGIIGFILTILAFEGIGPIVK-AISKILAAGVEAIVHAHLLPL 169 (338)
T ss_pred hHHHHHHHHHHHHHHHHHHHhhCcHHHHH--hHhhHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhCcchhH
Confidence 78999999999999999999977554432 2234433322 2444555665554 5666666777777762 343
Q ss_pred -hhHHHHHHHHHH
Q 028637 133 -VRHLYSASKQIS 144 (206)
Q Consensus 133 -V~sIY~siKqi~ 144 (206)
-.-+....-++.
T Consensus 170 ~~g~i~g~~~~~l 182 (338)
T TIGR00851 170 ASIFVEPAKILFL 182 (338)
T ss_pred HHHHHHHHHHHHH
Confidence 334444444444
No 23
>COG1987 FliQ Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=74.10 E-value=36 Score=25.77 Aligned_cols=78 Identities=14% Similarity=0.217 Sum_probs=48.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Q 028637 48 WISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFI 127 (206)
Q Consensus 48 ~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li~~vG~la~~~~g~~i~~~~e~ll 127 (206)
-.++.+-.+|...+|+.+.-.++.-+...+....+ ..-.-+.++==++.++++-.++--+.++.+.++...++
T Consensus 9 i~~~ai~~~L~l~~P~ll~alvvGLvIsifQA~TQ-------IqEqTLsFiPKIiai~~~l~~~gpWm~~~l~dft~~if 81 (89)
T COG1987 9 IGQEAIWLVLMLSAPVLLVALVVGLVISIFQAATQ-------IQEQTLSFIPKIIAVFLVLILLGPWMLNQLLDFTVTIF 81 (89)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 36777888999999998887777666665443321 00111222212223333334444566788889999999
Q ss_pred hhcch
Q 028637 128 KRMPF 132 (206)
Q Consensus 128 ~rIPv 132 (206)
+|||.
T Consensus 82 ~~i~~ 86 (89)
T COG1987 82 SNIPQ 86 (89)
T ss_pred HHHHh
Confidence 99995
No 24
>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=73.25 E-value=62 Score=28.15 Aligned_cols=43 Identities=7% Similarity=0.080 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028637 39 QACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (206)
Q Consensus 39 ~~~~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~ 81 (206)
+.......+.+.+.|..|+..-+|+++...++.-.++.+.+..
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 4555566677889999999999999999999999999887765
No 25
>PRK15083 PTS system mannitol-specific transporter subunit IICBA; Provisional
Probab=72.99 E-value=23 Score=35.13 Aligned_cols=83 Identities=14% Similarity=0.117 Sum_probs=54.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhH----HHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhh--cch
Q 028637 59 VLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLG----FITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKR--MPF 132 (206)
Q Consensus 59 vllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglg----ili~l~li~~vG~la~~~~g~~i~~~~e~ll~r--IPv 132 (206)
.++|.+++.|+..|+-++++..+...++.+ -.|.+. ++...+.++++|=+.. ++|..+-+.++++.+. .|.
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 AMIAGPLGGWAIKHFDRWVDGKIKSGFEML--VNNFSAGIIGMILAILAFLGIGPAVE-VLSKMLAAGVNFMVVHDLLPL 177 (639)
T ss_pred chHHHHHHHHHHHHHHHHHHhhccchhhHh--hhhHHHHHHHHHHHHHHheeeHHHHH-HHHHHHHHHHHHHHhCcchhH
Confidence 689999999999999999888776555431 223322 2233455666777764 6777777788887765 444
Q ss_pred h-hHHHHHHHHHH
Q 028637 133 V-RHLYSASKQIS 144 (206)
Q Consensus 133 V-~sIY~siKqi~ 144 (206)
+ .-+..+.-++.
T Consensus 178 ~a~~i~~~~~~~l 190 (639)
T PRK15083 178 TSIFVEPAKILFL 190 (639)
T ss_pred HHHHHHHHHHHHH
Confidence 3 34455555554
No 26
>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=71.78 E-value=44 Score=25.80 Aligned_cols=83 Identities=13% Similarity=0.221 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh-hhccchhhhhHHHHHHHHHHHHHHHHHhh----hhhHHHHHH
Q 028637 49 ISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLY-EHLGFDIFGLGFITSLVFVFLVGVFVSSW----LGSTVFWVG 123 (206)
Q Consensus 49 l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~-~~lg~~~pglgili~l~li~~vG~la~~~----~g~~i~~~~ 123 (206)
.+|=|+.-++-++=+++.+++-.+....+...+.... ..-......++++++.++++.++....+. ..+...+..
T Consensus 17 ~~rG~~~~~~~l~~~i~a~~~a~~~~~~~~~~l~~~~~~~~~~~~~~iaf~~~f~~~~~i~~~i~~~l~~~~~~~~~~~~ 96 (146)
T PF02674_consen 17 YRRGFIRELFSLIGLIVALFVAFLFYPPLAPFLSNYFSSLSPPFANIIAFIILFVLVYIIVRIIGKLLRRIVKKPFLGWL 96 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccHH
Confidence 3556667777777777777777777776666664432 10012233445555544444444444333 333355566
Q ss_pred HHHHhhcc
Q 028637 124 EWFIKRMP 131 (206)
Q Consensus 124 e~ll~rIP 131 (206)
|+++.-+.
T Consensus 97 dr~lG~~~ 104 (146)
T PF02674_consen 97 DRLLGALL 104 (146)
T ss_pred HHHHHHHH
Confidence 66665443
No 27
>PRK09765 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional
Probab=71.53 E-value=24 Score=35.00 Aligned_cols=70 Identities=16% Similarity=0.227 Sum_probs=48.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhc----c-chhhhhHHHHHHHH-HHHHHHHHHhhhhhHHHHHHHHHHhhcc
Q 028637 60 LFPVAVTFFITWWFVQFVDGFFSPLYEHL----G-FDIFGLGFITSLVF-VFLVGVFVSSWLGSTVFWVGEWFIKRMP 131 (206)
Q Consensus 60 llPl~lTi~Il~wl~~~vd~~~~p~~~~l----g-~~~pglgili~l~l-i~~vG~la~~~~g~~i~~~~e~ll~rIP 131 (206)
++|.++..|+..|+..+++..+ |.-+.+ . .-.|.++++++..+ ++++|-.. ++++..+.+++.++.+.-+
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 6888999999999999988877 432111 1 23677777766544 45788777 4778888888887766544
No 28
>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=68.83 E-value=40 Score=32.63 Aligned_cols=86 Identities=8% Similarity=0.055 Sum_probs=57.4
Q ss_pred HHHHHHHHHHHHHHH-HHHHhhhhhhhhhc-c-chhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhhcc-hhhH
Q 028637 60 LFPVAVTFFITWWFV-QFVDGFFSPLYEHL-G-FDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMP-FVRH 135 (206)
Q Consensus 60 llPl~lTi~Il~wl~-~~vd~~~~p~~~~l-g-~~~pglgili~l~li~~vG~la~~~~g~~i~~~~e~ll~rIP-vV~s 135 (206)
++|.++..++..|+. ++.+..+...+..+ | +-.|.+.+++.+.+-+++|.+-. +++..+.+..+.+.+.-| +-.-
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 67777665555555 2 23666666665555555555543 566666677777766554 5566
Q ss_pred HHHHHHHHHHH
Q 028637 136 LYSASKQISAA 146 (206)
Q Consensus 136 IY~siKqi~~~ 146 (206)
+|..+.++.=.
T Consensus 214 i~G~l~r~Lv~ 224 (502)
T TIGR02002 214 IFGFIERSLIP 224 (502)
T ss_pred HHHHHHHHHHH
Confidence 88887776543
No 29
>PRK11404 putative PTS system transporter subunits IIBC; Provisional
Probab=66.45 E-value=31 Score=33.31 Aligned_cols=68 Identities=13% Similarity=0.029 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhh-----hhhhccchhhhhHHHHHHHH-HHHHHHHHHhhhhhHHHHHHHHHHhh
Q 028637 59 VLFPVAVTFFITWWFVQFVDGFFSP-----LYEHLGFDIFGLGFITSLVF-VFLVGVFVSSWLGSTVFWVGEWFIKR 129 (206)
Q Consensus 59 vllPl~lTi~Il~wl~~~vd~~~~p-----~~~~lg~~~pglgili~l~l-i~~vG~la~~~~g~~i~~~~e~ll~r 129 (206)
-++|.+++.|+..|+.+++++..-| +.+. +-.|.++++++..+ ++++|=... +++..+.+++.++...
T Consensus 228 gflg~Il~g~~~gyv~k~lkki~~p~~~p~~~~~--~~~Pllt~li~~~l~~~viGP~~~-~i~~~l~~~l~~l~~~ 301 (482)
T PRK11404 228 GFLGAVVLGLAIGYFVFWFRKVRLGKALQPLLGS--MLIPFVTLLVFGVLTYYVIGPVMS-DLMGGLLHFLNTIPPS 301 (482)
T ss_pred cHHHHHHHHHHHHHHHHHHHhCCCCcchhhhcce--eeHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHcc
Confidence 4689999999999999999886522 2221 33677666655444 446776665 5666666666666553
No 30
>PF10329 DUF2417: Region of unknown function (DUF2417); InterPro: IPR019431 This entry represents a family of fungal proteins with no known function. In some cases these proteins also contain an alpha/beta hydrolase fold (IPR000073 from INTERPRO).
Probab=63.23 E-value=72 Score=28.07 Aligned_cols=16 Identities=31% Similarity=0.569 Sum_probs=11.7
Q ss_pred ccCCCCCCCCCCCCCC
Q 028637 14 QAENGGEDPEDPVKSP 29 (206)
Q Consensus 14 ~~~~~~~~~~~~~~~~ 29 (206)
...++-.||+||..||
T Consensus 14 ~~~~~~l~pddp~vsp 29 (232)
T PF10329_consen 14 SSNDPYLSPDDPAVSP 29 (232)
T ss_pred cccCCCCCCCCcccCc
Confidence 3455678899998776
No 31
>PRK10110 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional
Probab=62.56 E-value=73 Score=31.15 Aligned_cols=87 Identities=7% Similarity=0.025 Sum_probs=53.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhh-hhhhc-c-chhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhhcchhhH-
Q 028637 60 LFPVAVTFFITWWFVQFVDGFFSP-LYEHL-G-FDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRH- 135 (206)
Q Consensus 60 llPl~lTi~Il~wl~~~vd~~~~p-~~~~l-g-~~~pglgili~l~li~~vG~la~~~~g~~i~~~~e~ll~rIPvV~s- 135 (206)
++|.+++.++..|+.+...+..-| .+..+ | +-.|.+.+++.+.+-+++.+ -.-.+..+.+.+.+++...+.+..
T Consensus 148 V~ggIi~g~i~a~l~~k~~k~~lP~~l~~f~G~rfvPiit~lv~~~l~~i~~~--iwP~~~~~~~~~~~~~~~~g~ig~~ 225 (530)
T PRK10110 148 ILGAVIAGIIVWMLHERFHNIRLPDALAFFGGTRFVPIISSLVMGLVGLVIPL--VWPIFAMGISGLGHMINSAGDFGPM 225 (530)
T ss_pred hHHHHHHHHHHHHHHHHHhcccCcHHHHhcCCCccHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHhccHHHHH
Confidence 588889999999999998885434 44443 2 23565544444333333321 224445555666677776665554
Q ss_pred HHHHHHHHHHHhC
Q 028637 136 LYSASKQISAAIS 148 (206)
Q Consensus 136 IY~siKqi~~~~~ 148 (206)
+|..+.++.=.+-
T Consensus 226 i~G~l~r~LVp~G 238 (530)
T PRK10110 226 LFGTGERLLLPFG 238 (530)
T ss_pred HHHHHHHHHHHhc
Confidence 8999988776554
No 32
>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=59.82 E-value=59 Score=30.01 Aligned_cols=72 Identities=8% Similarity=0.006 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhhhc-c-chhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhhcc
Q 028637 59 VLFPVAVTFFITWWFVQFVDGFFSPLYEHL-G-FDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMP 131 (206)
Q Consensus 59 vllPl~lTi~Il~wl~~~vd~~~~p~~~~l-g-~~~pglgili~l~li~~vG~la~~~~g~~i~~~~e~ll~rIP 131 (206)
-++|..++.|+..|+-++++..+...++.+ + .-.|.+..+++.+..+++|-.. ++++..+-++++++.+.-|
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 356677777777777776665443333210 1 2357777776666667777766 4777777777777766444
No 33
>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=58.25 E-value=1.1e+02 Score=25.79 Aligned_cols=67 Identities=18% Similarity=0.133 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHH
Q 028637 57 CVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEW 125 (206)
Q Consensus 57 LlvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li~~vG~la~~~~g~~i~~~~e~ 125 (206)
++.-+|..+.-..+.|.+= ...-+.|.-..+|++- .+...+..+.|-.+|+++--.+|..++++..+
T Consensus 42 ~~~si~t~~~g~~~g~~yl-~~~~~D~~~~I~GlDP-~~~~g~~t~a~g~lG~L~GP~~G~~vf~l~~r 108 (173)
T PF08566_consen 42 LVSSIPTGLLGSSAGWAYL-STIEIDPTQQIMGLDP-FMVYGLATLACGALGWLVGPSLGNQVFRLLNR 108 (173)
T ss_pred HHhHHHHHHHHHHHHHHHH-hhccccccccccCcCH-HHHHHHHHHHHHHHHHHhcchHHHHHHHHHhH
Confidence 3444444444444444331 1222223333345542 22233445668889999999999988887775
No 34
>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=57.46 E-value=92 Score=30.34 Aligned_cols=89 Identities=9% Similarity=0.036 Sum_probs=56.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhh-hhhhhhhc-c-chhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhhcchhhH-
Q 028637 60 LFPVAVTFFITWWFVQFVDGF-FSPLYEHL-G-FDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRH- 135 (206)
Q Consensus 60 llPl~lTi~Il~wl~~~vd~~-~~p~~~~l-g-~~~pglgili~l~li~~vG~la~~~~g~~i~~~~e~ll~rIPvV~s- 135 (206)
++|.+++.++..|+.++..+. +...+..+ | +-.|.+.+++.+.+-+++ -.-+..++..++.+.+++...+.++.
T Consensus 139 V~ggIi~g~i~a~i~n~~~k~~lP~~L~ff~G~rfVPiit~li~~~l~~~~--p~~wp~~~~~i~~~~~~i~~~g~~g~f 216 (517)
T TIGR02004 139 VLGAVIVGLIVYKLHNRFYTVQMPDALAFFGGARFVPIISALVLAVVGLVI--PLVWPLFALMIMAIGQLIQRSGIFGPF 216 (517)
T ss_pred hHHHHHHHHHHHHHHHHHccccCchHHHHccCCcchHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHhcChHHHH
Confidence 689999999999999999985 43344444 2 235554444433333332 22234555666667777776665544
Q ss_pred HHHHHHHHHHHhCCC
Q 028637 136 LYSASKQISAAISPD 150 (206)
Q Consensus 136 IY~siKqi~~~~~~~ 150 (206)
+|..+.++.=.+--+
T Consensus 217 iyG~l~rlLIp~GLH 231 (517)
T TIGR02004 217 LFGSGERLLLPIGLH 231 (517)
T ss_pred HHHHHHHHHHHhccc
Confidence 899999988776543
No 35
>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=57.02 E-value=27 Score=23.09 Aligned_cols=24 Identities=17% Similarity=0.437 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHhhhhhHHHHH
Q 028637 99 TSLVFVFLVGVFVSSWLGSTVFWV 122 (206)
Q Consensus 99 i~l~li~~vG~la~~~~g~~i~~~ 122 (206)
+..++++++|++..+.+.+.+-+.
T Consensus 19 v~AilIl~vG~~va~~v~~~~~~~ 42 (53)
T PF05552_consen 19 VGAILILIVGWWVAKFVRKLVRRL 42 (53)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344567888998877766544333
No 36
>cd02433 Nodulin-21_like_2 Nodulin-21 and CCC1-related protein family. Nodulin-21_like_2: This is a family of proteins closely related to nodulin-21, a plant nodule-specific protein that may be involved in symbiotic nitrogen fixation. This family is also related to CCC1, a yeast vacuole transmembrane protein that functions as an iron and manganese transporter.
Probab=56.49 E-value=77 Score=27.64 Aligned_cols=62 Identities=8% Similarity=0.017 Sum_probs=38.5
Q ss_pred CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHh
Q 028637 34 ASSTRQACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSS 113 (206)
Q Consensus 34 ~~~~~~~~~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li~~vG~la~~ 113 (206)
.||-+.|+. ..-.+++.|++-++|..+.. +. .....+.++++++.++++|++..+
T Consensus 148 ~~P~~aAl~-----sflsF~ig~liPLLPf~~~~---------------~~-----~~~~~~s~~~~~~~L~~lG~~~a~ 202 (234)
T cd02433 148 GNPWSAAVS-----SFLLFALGALIPVLPFLFGM---------------SG-----LAALVLSVLLVGLALLATGAVTGL 202 (234)
T ss_pred CCHHHHHHH-----HHHHHHHHHHHHHHHHHHhc---------------ch-----hHHHHHHHHHHHHHHHHHHHHHHh
Confidence 356666665 35678999999999963210 00 011234566777778888888776
Q ss_pred hhhhHHH
Q 028637 114 WLGSTVF 120 (206)
Q Consensus 114 ~~g~~i~ 120 (206)
+-++...
T Consensus 203 ~s~~~~~ 209 (234)
T cd02433 203 LSGRSPG 209 (234)
T ss_pred hCCCcHH
Confidence 6665543
No 37
>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=56.12 E-value=1.2e+02 Score=30.04 Aligned_cols=84 Identities=12% Similarity=0.220 Sum_probs=50.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHH-HHHHHHHHHhhhhhHHHHHHHHHHhhcc-hhhHHH
Q 028637 60 LFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVF-VFLVGVFVSSWLGSTVFWVGEWFIKRMP-FVRHLY 137 (206)
Q Consensus 60 llPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~l-i~~vG~la~~~~g~~i~~~~e~ll~rIP-vV~sIY 137 (206)
++|.++..|+..++.++++..+.+.+.. .-.|.+.++++..+ ++++|-+.. +++..+.+.+.++.+.-| +..-+|
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 VIPVILAVWLMSYVEKFLKKVIPGALKN--FLTPLLVMLITVPLTLLIIGPLGN-YAGEGISSGILFLYEVSPWLAGALL 287 (610)
T ss_pred HHHHHHHHHHHHHHHHHHHhhChHHHHH--HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhcchHHHHHHH
Confidence 4788888888888888888765444432 23455444443332 334565543 456666667777766554 345678
Q ss_pred HHHHHHHHH
Q 028637 138 SASKQISAA 146 (206)
Q Consensus 138 ~siKqi~~~ 146 (206)
..+-++.=.
T Consensus 288 g~l~~~Lv~ 296 (610)
T TIGR01995 288 AALWPVLVM 296 (610)
T ss_pred HHHHHHHhh
Confidence 777775533
No 38
>PRK15071 lipopolysaccharide ABC transporter permease; Provisional
Probab=54.52 E-value=77 Score=28.43 Aligned_cols=40 Identities=13% Similarity=0.112 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028637 42 CYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (206)
Q Consensus 42 ~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~ 81 (206)
|+.+-+.+.|.++...++.+-..+.++++.++++-++.+.
T Consensus 2 M~il~rYi~r~~l~~~~~~l~~l~~l~~~~~~~~~l~~~~ 41 (356)
T PRK15071 2 FGILDRYIGRTILSTIMLTLFMLVGLSGIIKFVDQLRKVG 41 (356)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 3445556778888888888778888888888888776654
No 39
>PRK10263 DNA translocase FtsK; Provisional
Probab=53.72 E-value=3.4e+02 Score=29.90 Aligned_cols=30 Identities=20% Similarity=0.278 Sum_probs=18.9
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Q 028637 95 LGFITSLVFVFLVGVFVSSWLGSTVFWVGEWF 126 (206)
Q Consensus 95 lgili~l~li~~vG~la~~~~g~~i~~~~e~l 126 (206)
.|..+++++++++|++. +.+..++++++++
T Consensus 161 vGa~LILLlllLIGLiL--lTglSwlsIleri 190 (1355)
T PRK10263 161 SGGTIALLCVWAAGLTL--FTGWSWVTIAEKL 190 (1355)
T ss_pred HHHHHHHHHHHHHHHHH--HHhhHHHHHHHHH
Confidence 45566667777778776 3445566666655
No 40
>PRK15349 type III secretion system protein SsaT; Provisional
Probab=53.59 E-value=1.6e+02 Score=25.93 Aligned_cols=39 Identities=5% Similarity=0.010 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028637 43 YVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (206)
Q Consensus 43 ~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~ 81 (206)
....+.+.+.|..|+..-+|+++...++...++.+++..
T Consensus 171 ~~~~~~~~~~f~~al~lAaP~i~~lll~~~~lGll~R~~ 209 (259)
T PRK15349 171 KYIQAEWRTLYQLCISFSLPAIICMVLADLALGLLNRSA 209 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 344455778899999999999999999999999887765
No 41
>PF09527 ATPase_gene1: Putative F0F1-ATPase subunit (ATPase_gene1)
Probab=53.29 E-value=64 Score=21.33 Aligned_cols=18 Identities=22% Similarity=0.896 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHHhhhhh
Q 028637 100 SLVFVFLVGVFVSSWLGS 117 (206)
Q Consensus 100 ~l~li~~vG~la~~~~g~ 117 (206)
.+++.+.+|+...+..+.
T Consensus 13 ~i~~g~~~G~~lD~~~~t 30 (55)
T PF09527_consen 13 PILVGFFLGYWLDKWFGT 30 (55)
T ss_pred HHHHHHHHHHHHHHHcCC
Confidence 333444444444444443
No 42
>PRK10617 cytochrome c-type protein NapC; Provisional
Probab=51.69 E-value=41 Score=28.83 Aligned_cols=20 Identities=15% Similarity=0.202 Sum_probs=14.0
Q ss_pred CCCccHHHHHHHHHHHHHHH
Q 028637 33 SASSTRQACCYVLQSWISKK 52 (206)
Q Consensus 33 ~~~~~~~~~~~rl~~~l~~~ 52 (206)
+||+.+++.++|+++++++.
T Consensus 2 ~~~~~~~~~~~~~~~~~~k~ 21 (200)
T PRK10617 2 GNSDRKPGLIKRLWKWWRTP 21 (200)
T ss_pred CCCcCChHHHHHHHHHHHhh
Confidence 56667777788888776443
No 43
>COG4300 CadD Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]
Probab=51.19 E-value=86 Score=27.01 Aligned_cols=65 Identities=12% Similarity=0.015 Sum_probs=38.9
Q ss_pred HHHHHHHhhcchhhHHHHHHHHHHHHhCCCCCCcCcCcEEEEEeCCCCeeEEEEEeccccccccCCcEEEEEecC
Q 028637 121 WVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTVTLQIMEMKSYVVFLSQ 195 (206)
Q Consensus 121 ~~~e~ll~rIPvV~sIY~siKqi~~~~~~~~~~~~f~~VVlVe~P~~g~~~iGFvT~~~~~~~~~~~~v~VFvPt 195 (206)
++.-.++.-||+ |=.+|-+..-=..+ + +.-++----+-.++..+.++-+|=.+ -+.|.+.||+|-
T Consensus 67 e~I~glLGLIPi----~LGik~l~~~d~d~-e-~~~~e~L~~~~~k~lv~tV~~vT~As----cG~DNIgvyvP~ 131 (205)
T COG4300 67 EWILGLLGLIPI----YLGIKVLILGDDDG-E-EEAKEELAFKKNKNLVGTVAIVTFAS----CGADNIGVFVPY 131 (205)
T ss_pred HHHHHHHhHHHH----HHhhHHhhcccCcC-c-hhhhHHHHhccccceEEEEEEEEEec----cCCcceEEEeee
Confidence 456667888997 88888765332211 1 11111110134567888888888541 256889999994
No 44
>COG4794 EscS Type III secretory pathway, component EscS [Intracellular trafficking and secretion]
Probab=50.04 E-value=1.1e+02 Score=23.15 Aligned_cols=77 Identities=19% Similarity=0.257 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhhc
Q 028637 51 KKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRM 130 (206)
Q Consensus 51 ~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li~~vG~la~~~~g~~i~~~~e~ll~rI 130 (206)
+.+.-=|+.-+|-++.--++.-+.+++.. +...=.. -+++.+=++.++.+=++...+.|..++++.|.++.++
T Consensus 12 qaL~liLilSlPpvivAsvvGllVslvQA----~TQiQdQ---Tl~f~iKLl~V~~tl~lt~~Wlg~~ll~fa~~i~~~~ 84 (89)
T COG4794 12 QALWLILILSLPPVIVASVVGLLVSLVQA----LTQIQDQ---TLPFGIKLLAVSATLFLTAGWLGATLLNFAEQIFLNI 84 (89)
T ss_pred HHHHHHHHHhccHHHHHHHHHHHHHHHHH----HHHHHHh---HHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHh
Confidence 34444566667776655555555544433 3211011 2233333333444444566788899999999999999
Q ss_pred chhh
Q 028637 131 PFVR 134 (206)
Q Consensus 131 PvV~ 134 (206)
|..|
T Consensus 85 ~~~~ 88 (89)
T COG4794 85 PKAR 88 (89)
T ss_pred hhcc
Confidence 9765
No 45
>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=47.09 E-value=95 Score=24.18 Aligned_cols=63 Identities=14% Similarity=0.280 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhc--cchhhhhHHHHHHHHHHHHHHHHHh
Q 028637 50 SKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHL--GFDIFGLGFITSLVFVFLVGVFVSS 113 (206)
Q Consensus 50 ~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~l--g~~~pglgili~l~li~~vG~la~~ 113 (206)
-|..+.|.=+++=..+-+.+..+-++++.-...|.+... ..+...++.+ +++..+++|.+|++
T Consensus 41 lrr~l~~~~Fi~Rt~~FIlicAFGYGll~v~~tP~l~~~L~~~~~~~l~~~-vl~~F~~iG~lAqR 105 (106)
T PF11872_consen 41 LRRLLSGYHFILRTLAFILICAFGYGLLIVWLTPLLARQLAQLPNYWLAPV-VLLSFILIGVLAQR 105 (106)
T ss_pred HHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHH-HHHHHHHHHHHhcc
Confidence 344566667777777777888888888888888876431 1222223333 44556779999875
No 46
>PF03213 Pox_P35: Poxvirus P35 protein; InterPro: IPR004900 The Poxvirus P35 protein is an immunodominant envelope protein. It binds to heparan sulphate on the cell surface to provide virion attachment to target cell [].; GO: 0019031 viral envelope
Probab=46.50 E-value=37 Score=31.32 Aligned_cols=69 Identities=26% Similarity=0.467 Sum_probs=40.3
Q ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcc-chhhhhHHHHHHHHHHHHHHHHHh
Q 028637 35 SSTRQACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLG-FDIFGLGFITSLVFVFLVGVFVSS 113 (206)
Q Consensus 35 ~~~~~~~~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg-~~~pglgili~l~li~~vG~la~~ 113 (206)
++.|+.+++|+-+|+.++|=... --+..|++.++| +++..+|+++++.+++++=+-+.
T Consensus 251 ~~~~~~~wsrl~~Wla~~~P~~~--------------------y~lttPLfSfFGlfDInv~g~~iil~ii~l~iF~vn- 309 (325)
T PF03213_consen 251 NEMKNSIWSRLGKWLAKRFPGAY--------------------YFLTTPLFSFFGLFDINVIGVIIILFIIILVIFDVN- 309 (325)
T ss_pred hhhhhhHHHHHHHHHHhhCCCch--------------------hhhhchHHHHcccchhHHHHHHHHHHHHHHHHhcCC-
Confidence 46778888888888777654321 113357777777 46777777665554444422232
Q ss_pred hhhhHHHHHHHHHH
Q 028637 114 WLGSTVFWVGEWFI 127 (206)
Q Consensus 114 ~~g~~i~~~~e~ll 127 (206)
.+++|++-.++
T Consensus 310 ---SkllWFLaG~l 320 (325)
T PF03213_consen 310 ---SKLLWFLAGIL 320 (325)
T ss_pred ---chHHHHHHHhH
Confidence 45666655443
No 47
>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=44.93 E-value=2.1e+02 Score=25.27 Aligned_cols=27 Identities=19% Similarity=0.202 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 028637 59 VLFPVAVTFFITWWFVQFVDGFFSPLY 85 (206)
Q Consensus 59 vllPl~lTi~Il~wl~~~vd~~~~p~~ 85 (206)
.++|+++.+++..++-++++..+...+
T Consensus 66 ~~~~ii~~~~~~~~~~k~~~~~lP~~l 92 (289)
T TIGR00852 66 VVGPILVGAIALALHERFLDKKLPDVL 92 (289)
T ss_pred eeHHHHHHHHHHHHHHHHhhhhCchhh
Confidence 478999999988888888877664433
No 48
>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=43.09 E-value=71 Score=27.18 Aligned_cols=60 Identities=12% Similarity=0.067 Sum_probs=33.0
Q ss_pred HHHHhhcchhhHHHHHHHHHHHHhCCCCCCc-CcCcEEEEEeCCCCeeEEEEEeccccccccCCcEEEEEecC
Q 028637 124 EWFIKRMPFVRHLYSASKQISAAISPDQNTT-AFKEVAIIRHPRVGEYAFGFITSTVTLQIMEMKSYVVFLSQ 195 (206)
Q Consensus 124 e~ll~rIPvV~sIY~siKqi~~~~~~~~~~~-~f~~VVlVe~P~~g~~~iGFvT~~~~~~~~~~~~v~VFvPt 195 (206)
=.++.=+|+ |=.+|.+. .++++++ .-++-.--+-.+...+.++++|=. .+.|.++||+|-
T Consensus 59 LGlLGliPI----~lGi~~l~---~~~~~~e~~~~~~~~~~~~~~~i~~Va~iTiA-----nGgDNigIYiP~ 119 (191)
T PF03596_consen 59 LGLLGLIPI----YLGIKALF---SGEDDDEEEAEEKLNSPKSNSLILTVAAITIA-----NGGDNIGIYIPL 119 (191)
T ss_pred HHHHHHHHH----HHHHHHHH---cCCCccccccccccccccccchhHHhhhhhhh-----cCCCeEEEeehh
Confidence 355777886 88888764 3332211 111000001112346677777754 367999999994
No 49
>PRK05415 hypothetical protein; Provisional
Probab=42.43 E-value=2.9e+02 Score=25.74 Aligned_cols=28 Identities=18% Similarity=0.137 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028637 49 ISKKFMTGCVVLFPVAVTFFITWWFVQFV 77 (206)
Q Consensus 49 l~~~FltGLlvllPl~lTi~Il~wl~~~v 77 (206)
.++.|.+++..++=+++..+ .-|+.+.+
T Consensus 66 w~~~~~~~l~~l~~~~~~~~-~~~i~~~~ 93 (341)
T PRK05415 66 WRKLLWGGLGLLGSLVVGQA-VQWLRDAF 93 (341)
T ss_pred HHHHHHHHHHHHHHHHHHHH-HHHHHHHH
Confidence 46778888888877777666 55555543
No 50
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=41.21 E-value=72 Score=27.65 Aligned_cols=17 Identities=24% Similarity=0.178 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHHHHH
Q 028637 57 CVVLFPVAVTFFITWWF 73 (206)
Q Consensus 57 LlvllPl~lTi~Il~wl 73 (206)
++.++|+++.+.++.|+
T Consensus 240 l~~l~p~~~~~~~~~~~ 256 (262)
T PF14257_consen 240 LVGLLPWLPLILIIGLL 256 (262)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33334444333333333
No 51
>COG3768 Predicted membrane protein [Function unknown]
Probab=40.88 E-value=2.2e+02 Score=26.59 Aligned_cols=34 Identities=24% Similarity=0.255 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028637 44 VLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFV 77 (206)
Q Consensus 44 rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~v 77 (206)
|-+.++.|.++++..+++-+++-.|-.-|+-+..
T Consensus 58 rpr~s~~k~~~~a~~vLf~~Av~~q~~qwi~d~~ 91 (350)
T COG3768 58 RPRSSFWKIMLGAGGVLFSLAVGLQSVQWIRDLF 91 (350)
T ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455678899999999988888877777776643
No 52
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=40.84 E-value=10 Score=28.79 Aligned_cols=25 Identities=12% Similarity=0.401 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 028637 50 SKKFMTGCVVLFPVAVTFFITWWFV 74 (206)
Q Consensus 50 ~~~FltGLlvllPl~lTi~Il~wl~ 74 (206)
-...+.|++.++=+.+.+|++++++
T Consensus 61 ~~iili~lls~v~IlVily~IyYFV 85 (101)
T PF06024_consen 61 GNIILISLLSFVCILVILYAIYYFV 85 (101)
T ss_pred ccchHHHHHHHHHHHHHHhhheEEE
Confidence 3457778888888888888877643
No 53
>PRK05122 major facilitator superfamily transporter; Provisional
Probab=40.79 E-value=1.4e+02 Score=26.32 Aligned_cols=21 Identities=29% Similarity=0.366 Sum_probs=17.3
Q ss_pred CCCCCCCCCCCCccHHHHHHH
Q 028637 24 DPVKSPPTSSASSTRQACCYV 44 (206)
Q Consensus 24 ~~~~~~~~~~~~~~~~~~~~r 44 (206)
+||..||+||-+.+|+-...-
T Consensus 1 ~~~~~~~~~~~~~~~~~~~l~ 21 (399)
T PRK05122 1 EPVAEPALSGLRLTLRIVSIV 21 (399)
T ss_pred CCCcchhhccCcccHHHHHHH
Confidence 589999999999998876643
No 54
>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=40.46 E-value=2.5e+02 Score=27.77 Aligned_cols=88 Identities=11% Similarity=0.195 Sum_probs=53.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhh--hhhhhhhc-c-chhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHH---hhcc-
Q 028637 60 LFPVAVTFFITWWFVQFVDGF--FSPLYEHL-G-FDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFI---KRMP- 131 (206)
Q Consensus 60 llPl~lTi~Il~wl~~~vd~~--~~p~~~~l-g-~~~pglgili~l~li~~vG~la~~~~g~~i~~~~e~ll---~rIP- 131 (206)
++|.+++.++..|+.++.-+. +...+..+ | +..|.+.+++.+.+-++.+++-= +++..+-+..+++. ...|
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 589999999999999998443 43344444 2 23566555544443333333322 55565666666666 3334
Q ss_pred hhhHHHHHHHHHHHHhC
Q 028637 132 FVRHLYSASKQISAAIS 148 (206)
Q Consensus 132 vV~sIY~siKqi~~~~~ 148 (206)
+-.-+|..+.++.=.+-
T Consensus 221 ~g~fiyG~l~rlLIp~G 237 (548)
T TIGR02003 221 LAPFLYGTLERLLLPFG 237 (548)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 55568888888765543
No 55
>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=40.34 E-value=2.5e+02 Score=24.42 Aligned_cols=40 Identities=13% Similarity=0.286 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028637 42 CYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (206)
Q Consensus 42 ~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~ 81 (206)
...+.+.+.+.|..|+-.-+|+++...++.-.++.+++..
T Consensus 159 ~~~~~~~~~~~f~~a~~lAaPvi~~~ll~~~~lGll~R~~ 198 (245)
T TIGR01400 159 FELILKALSDMFLLGLLLALPIIAALLLVNLVLGLVNRAA 198 (245)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 3455566788899999999999999999999999888765
No 56
>COG2981 CysZ Uncharacterized protein involved in cysteine biosynthesis [Amino acid transport and metabolism]
Probab=40.22 E-value=2.4e+02 Score=25.15 Aligned_cols=54 Identities=17% Similarity=0.413 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHH----HHHHHHHHhhhhhhhhh----ccchhhhhHHHHHHHHHHHHHHHHH
Q 028637 59 VLFPVAVTFFIT----WWFVQFVDGFFSPLYEH----LGFDIFGLGFITSLVFVFLVGVFVS 112 (206)
Q Consensus 59 vllPl~lTi~Il----~wl~~~vd~~~~p~~~~----lg~~~pglgili~l~li~~vG~la~ 112 (206)
+++|+.+-+.+. +|+++..+..+.-+.++ +++.-..+.++..+.++.+.|++.+
T Consensus 28 vilpLl~ni~L~~gl~~~~~~~~~~wid~Lm~~iPdWl~wLs~v~~~la~L~lll~~~~lfs 89 (250)
T COG2981 28 VILPLLLNILLWGGLFWLLFSQALPWIDTLMPGIPDWLGWLSYLLWILAVLLLLLVFAFLFS 89 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556666555444 44444333333222222 2333334445555555556666643
No 57
>PHA02688 ORF059 IMV protein VP55; Provisional
Probab=39.34 E-value=48 Score=30.57 Aligned_cols=69 Identities=23% Similarity=0.404 Sum_probs=38.4
Q ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhcc-chhhhhHHHHHHHHHHHHHHHHHh
Q 028637 35 SSTRQACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLG-FDIFGLGFITSLVFVFLVGVFVSS 113 (206)
Q Consensus 35 ~~~~~~~~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg-~~~pglgili~l~li~~vG~la~~ 113 (206)
.++|+.+++|+-+|+.++|=... --+..|++.++| +++..+|+++++.++.++=+-+.
T Consensus 249 ~~~~~~lwsrl~~Wla~~~P~~~--------------------y~lttPLfSfFGlfDInv~gviiil~ii~l~IF~vn- 307 (323)
T PHA02688 249 KEMKNSLWSRLGTWLAKRYPGFY--------------------YFLTTPLFSFFGLFDINVIGVIIILFIIVLLIFDVN- 307 (323)
T ss_pred hhhhhhHHHHHHHHHHhhCCchh--------------------eeecchHHHhhccchhHHHHHHHHHHHHHHHHhcCC-
Confidence 56777788887777666543221 113357777777 45777666655444433333333
Q ss_pred hhhhHHHHHHHHHH
Q 028637 114 WLGSTVFWVGEWFI 127 (206)
Q Consensus 114 ~~g~~i~~~~e~ll 127 (206)
.+++|++-.++
T Consensus 308 ---SkLlWFLaG~l 318 (323)
T PHA02688 308 ---SKLLWFLAGTL 318 (323)
T ss_pred ---chHHHHHHHhH
Confidence 45666655443
No 58
>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=38.53 E-value=2.5e+02 Score=23.99 Aligned_cols=60 Identities=10% Similarity=0.058 Sum_probs=33.9
Q ss_pred HHHHHHhhcchhhHHHHHHHHHHHHhCCCCCCcCcCcEEE--EEeC--CCCeeEEEEEeccccccccCCcEEEEEecC
Q 028637 122 VGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAI--IRHP--RVGEYAFGFITSTVTLQIMEMKSYVVFLSQ 195 (206)
Q Consensus 122 ~~e~ll~rIPvV~sIY~siKqi~~~~~~~~~~~~f~~VVl--Ve~P--~~g~~~iGFvT~~~~~~~~~~~~v~VFvPt 195 (206)
+.=.++.=+|+ |=.+|.+.+ ++++ ++ ++.+. -+-+ ++-.+.++.+|=. .++|..+||+|-
T Consensus 56 wIlGlLGliPI----~lGi~~l~~---~~~~-~~-~~~~~~~~~~~~~~~~~~~Va~iTiA-----nGgDNIgIYvPl 119 (193)
T TIGR00779 56 WVLGLLGLIPI----YLGIKVAIK---GECD-ED-ERAILSLNESGKLNKLFLTVAFITIA-----SGADNIGIYVPY 119 (193)
T ss_pred HHHhHHhHHHH----HHHHHHHhc---cccc-cc-ccccccccccccCCCceEEEEEEEEe-----ccCceeEEEeee
Confidence 33356777886 888887766 2322 11 11110 0011 1224788888754 367999999994
No 59
>PRK10845 colicin V production protein; Provisional
Probab=37.42 E-value=2.3e+02 Score=23.10 Aligned_cols=77 Identities=10% Similarity=0.231 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHH----HHHHHHHHhhhhhHHHHHHHH
Q 028637 50 SKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFV----FLVGVFVSSWLGSTVFWVGEW 125 (206)
Q Consensus 50 ~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li----~~vG~la~~~~g~~i~~~~e~ 125 (206)
+|=|++=++-++=.++-+++-.+..+.+...+....+ .....+.+++++++++ -+++.+.+..+....++..||
T Consensus 21 ~RGfv~ev~sl~g~i~a~~~A~~~~~~la~~l~~~~~--~~~~~~~af~~iFi~v~~~~~i~~~~l~~l~~~~~Lg~~dr 98 (162)
T PRK10845 21 IRGFVREALSLVTWGCAFFVASHYYTYLSVWFTGFED--ELVRNGIAIAVLFIATLIVGAIVNYVIGQLVEKTGLSGTDR 98 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCchHHH
Confidence 4445555555555666666666666555444322110 0112234444433333 444444444444444556666
Q ss_pred HHh
Q 028637 126 FIK 128 (206)
Q Consensus 126 ll~ 128 (206)
++.
T Consensus 99 ~lG 101 (162)
T PRK10845 99 VLG 101 (162)
T ss_pred HHH
Confidence 655
No 60
>COG1286 CvpA Uncharacterized membrane protein, required for colicin V production [General function prediction only]
Probab=36.41 E-value=2.5e+02 Score=23.39 Aligned_cols=70 Identities=16% Similarity=0.303 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHhhhhhHH
Q 028637 49 ISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTV 119 (206)
Q Consensus 49 l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li~~vG~la~~~~g~~i 119 (206)
++|=|+..++-++=.++.+|+-+..+.-+...+....++ +....+.++++.......+|......++..+
T Consensus 20 ~~RGfi~e~~sl~s~i~a~~vA~~fy~~~~~~~~~~i~~-~~~~~~~~~~~~f~~~l~v~~~i~~~i~~~i 89 (182)
T COG1286 20 LRRGFIREVLSLLSWILAAFVASLFYKPLAPLLREYIPY-PNIAIGIAIAIFFVILLIVGAFVNSLIAFLI 89 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHcCC-hhHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455566666666666666666666665443333322211 1123344444444444444444444444443
No 61
>PF04109 APG9: Autophagy protein Apg9 ; InterPro: IPR007241 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg9 plays a direct role in the formation of the cytoplasm to vacuole targeting and autophagic vesicles, possibly serving as a marker for a specialised compartment essential for these vesicle-mediated alternative targeting pathways [].
Probab=36.22 E-value=1.3e+02 Score=28.32 Aligned_cols=46 Identities=17% Similarity=0.342 Sum_probs=34.7
Q ss_pred CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 028637 34 ASSTRQACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGF 80 (206)
Q Consensus 34 ~~~~~~~~~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~ 80 (206)
.+++|..+-.+++++++-.-+.-+ ++.|+++...+++++|+-.+.+
T Consensus 106 ~~~~r~~l~~~Lr~Rf~~~gi~nl-ll~Pfi~i~~il~~ff~y~e~~ 151 (370)
T PF04109_consen 106 KNSRRKELAEELRKRFRLAGILNL-LLSPFILIYQILYFFFKYAEEF 151 (370)
T ss_pred ChhhHHHHHHHHHHHHHHHHHHHH-HHhHHHHHHHHHHHHHHHHHHH
Confidence 456788888888777654444333 4889999999999999987764
No 62
>PF07136 DUF1385: Protein of unknown function (DUF1385); InterPro: IPR010787 This family contains a number of hypothetical bacterial proteins of unknown function approximately 300 residues in length. Some family members are predicted to be metal-dependent.
Probab=36.13 E-value=3.1e+02 Score=24.25 Aligned_cols=23 Identities=17% Similarity=0.312 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 028637 49 ISKKFMTGCVVLFPVAVTFFITW 71 (206)
Q Consensus 49 l~~~FltGLlvllPl~lTi~Il~ 71 (206)
+.=-+--|+.+++|..++-++-.
T Consensus 49 ~s~~~~i~lF~~lP~~l~~~~~~ 71 (236)
T PF07136_consen 49 LSLALAIGLFVVLPTFLAGLLKR 71 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34446678888888887777633
No 63
>PF04854 DUF624: Protein of unknown function, DUF624; InterPro: IPR006938 This family consists of uncharacterised or hypothetical bacterial proteins.
Probab=35.76 E-value=1.2e+02 Score=21.01 Aligned_cols=32 Identities=6% Similarity=0.002 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028637 41 CCYVLQSWISKKFMTGCVVLFPVAVTFFITWW 72 (206)
Q Consensus 41 ~~~rl~~~l~~~FltGLlvllPl~lTi~Il~w 72 (206)
.+++-.+.+|++|.++...-++..+.+.++.+
T Consensus 44 ~~~~f~~~fk~nf~~~~~~~~~~~~~~~il~~ 75 (77)
T PF04854_consen 44 LFRDFWRAFKQNFKQSLLLGLILLLLLAILYV 75 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666677899999999988888877776653
No 64
>cd02432 Nodulin-21_like_1 Nodulin-21 and CCC1-related protein family. Nodulin-21_like_1: This is a family of proteins closely related to nodulin-21, a plant nodule-specific protein that may be involved in symbiotic nitrogen fixation. This family is also related to CCC1, a yeast vacuole transmembrane protein that functions as an iron and manganese transporter.
Probab=35.05 E-value=2.9e+02 Score=23.70 Aligned_cols=66 Identities=12% Similarity=0.101 Sum_probs=40.3
Q ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHhh
Q 028637 35 SSTRQACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSW 114 (206)
Q Consensus 35 ~~~~~~~~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li~~vG~la~~~ 114 (206)
||-+.|+. ..-.+++.|++=++|..+ . +.. . .-...++++.+.++++|++..+.
T Consensus 135 ~p~~aal~-----s~~sf~lg~liPllpy~~--------~---~~~---------~-~~~~s~~~~~~aL~~~G~~~a~~ 188 (218)
T cd02432 135 NPWQAALA-----SAISFSVGALLPLLAILL--------A---PAA---------W-KVPVTIIATLLALALTGYVSARL 188 (218)
T ss_pred CHHHHHHH-----HHHHHHHHHHHHHHHHHH--------h---cch---------H-HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555555 356889999999999542 0 100 0 11335666778888899998877
Q ss_pred hhhHHHH-HHHHH
Q 028637 115 LGSTVFW-VGEWF 126 (206)
Q Consensus 115 ~g~~i~~-~~e~l 126 (206)
-++...+ .++.+
T Consensus 189 ~~~~~~~~~l~~~ 201 (218)
T cd02432 189 GGASVLRAILRNV 201 (218)
T ss_pred CCCCHHHHHHHHH
Confidence 7766443 34443
No 65
>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=34.92 E-value=1.2e+02 Score=19.63 Aligned_cols=24 Identities=13% Similarity=0.358 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 028637 47 SWISKKFMTGCVVLFPVAVTFFIT 70 (206)
Q Consensus 47 ~~l~~~FltGLlvllPl~lTi~Il 70 (206)
+++-.-+..|+++++|+.+-+..+
T Consensus 7 nfl~Sl~aG~~iVv~~i~~ali~V 30 (39)
T PF06596_consen 7 NFLLSLVAGAVIVVIPIAGALIFV 30 (39)
T ss_dssp HHHHHHHHHH-HHHHHHHHHHHHH
T ss_pred HHHHHHHhhhhhhhhhhhhheEEE
Confidence 334333444559999988765543
No 66
>PF03547 Mem_trans: Membrane transport protein; InterPro: IPR004776 This entry represents a mostly uncharacterised family of membrane transport proteins found in eukaryotes, bacteria and archaea. Most characterised members of this family are the PIN components of auxin efflux systems from plants. These carriers are saturable, auxin-specific, and localized to the basal ends of auxin transport-competent cells [, ]. Plants typically posses several of these proteins, each displaying a unique tissue-specific expression pattern. They are expressed in almost all plant tissues including vascular tissues and roots, and influence many processes including the establishment of embryonic polarity, plant growth, apical hook formation in seedlings and the photo- and gravitrophic responses. These plant proteins are typically 600-700 amino acyl residues long and exhibit 8-12 transmembrane segments.; GO: 0055085 transmembrane transport, 0016021 integral to membrane
Probab=34.83 E-value=3.3e+02 Score=24.29 Aligned_cols=29 Identities=10% Similarity=-0.040 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028637 46 QSWISKKFMTGCVVLFPVAVTFFITWWFV 74 (206)
Q Consensus 46 ~~~l~~~FltGLlvllPl~lTi~Il~wl~ 74 (206)
.+.+++.|..=.+.-.-+++.+-++.+..
T Consensus 235 ~~~~~~~~~nP~~~a~~lgli~~~~~~~~ 263 (385)
T PF03547_consen 235 KKSILKLFKNPPLIAIILGLIIGLIPPLR 263 (385)
T ss_pred HHHHHHHHhCcHHHHHHHHHHHHHHHHhc
Confidence 33445555555554444555444444443
No 67
>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=34.68 E-value=2e+02 Score=25.29 Aligned_cols=32 Identities=16% Similarity=0.372 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028637 50 SKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (206)
Q Consensus 50 ~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~ 81 (206)
.+.|+.=.++.+=....++++..+++.++.+.
T Consensus 4 ~~~~l~~f~~~l~~~~~i~~~~~l~~~l~~~~ 35 (354)
T PF03739_consen 4 LKEFLKTFLLVLLSFTGIFLIIDLFELLDDFL 35 (354)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555666666777777777777664
No 68
>cd02434 Nodulin-21_like_3 Nodulin-21 and CCC1-related protein family. Nodulin-21_like_3: This is a family of proteins closely related to nodulin-21, a plant nodule-specific protein that may be involved in symbiotic nitrogen fixation. This family is also related to CCC1, a yeast vacuole transmembrane protein that functions as an iron and manganese transporter.
Probab=34.53 E-value=2.8e+02 Score=23.87 Aligned_cols=74 Identities=16% Similarity=0.234 Sum_probs=40.9
Q ss_pred CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHH-HHHHHHHHHHHHH
Q 028637 34 ASSTRQACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFIT-SLVFVFLVGVFVS 112 (206)
Q Consensus 34 ~~~~~~~~~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili-~l~li~~vG~la~ 112 (206)
.||-+.|+. .+-.+++.|++-++|..+... .+ ...........++++ +++.++++|++..
T Consensus 132 ~~P~~aAl~-----sflsf~~ggliPLlp~~~~~~-----------~~---~~~~~~~~~~~s~~~~~~~~L~~~G~~~~ 192 (225)
T cd02434 132 PSPLKTALV-----TFLSFLVFGIIPLLPYLLGLY-----------YY---SQKEIDSVFALSILIFVAFTLFLLGSFKS 192 (225)
T ss_pred CCHHHHHHH-----HHHHHHHHHHHHHHHHHHccc-----------cc---ccccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666 356778889888888532110 00 000011112334444 7777888999887
Q ss_pred hhhhhHHH-HHHHHH
Q 028637 113 SWLGSTVF-WVGEWF 126 (206)
Q Consensus 113 ~~~g~~i~-~~~e~l 126 (206)
+..+++.. ..++.+
T Consensus 193 ~~~~~~~~~~~l~~~ 207 (225)
T cd02434 193 KLYNGKWIISGIIML 207 (225)
T ss_pred HhcCCchHHHHHHHH
Confidence 77766544 334443
No 69
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=33.94 E-value=18 Score=30.48 Aligned_cols=14 Identities=57% Similarity=0.957 Sum_probs=12.1
Q ss_pred cCCCCCCCCCCCCC
Q 028637 15 AENGGEDPEDPVKS 28 (206)
Q Consensus 15 ~~~~~~~~~~~~~~ 28 (206)
.||||+||..||..
T Consensus 101 eeNgG~DPit~Vd~ 114 (175)
T PF15446_consen 101 EENGGVDPITPVDP 114 (175)
T ss_pred HHcCCCCCCccCCH
Confidence 58999999999864
No 70
>PRK05701 fliR flagellar biosynthesis protein FliR; Reviewed
Probab=33.63 E-value=3.2e+02 Score=23.70 Aligned_cols=40 Identities=15% Similarity=0.291 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028637 42 CYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (206)
Q Consensus 42 ~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~ 81 (206)
.....+.+...|..|+..-+|+++...++...++.+++..
T Consensus 161 ~~~~~~~~~~~f~~a~~lAaP~i~~~ll~~~~lGll~R~~ 200 (242)
T PRK05701 161 FLLLAKALSAMFLIGLQLALPIIVLLLLVNLALGLINRTA 200 (242)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 3455667888999999999999999999999999888766
No 71
>PRK14762 membrane protein; Provisional
Probab=33.48 E-value=67 Score=18.90 Aligned_cols=14 Identities=29% Similarity=0.885 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHh
Q 028637 100 SLVFVFLVGVFVSS 113 (206)
Q Consensus 100 ~l~li~~vG~la~~ 113 (206)
+++++|++|+++-+
T Consensus 7 ~i~iifligllvvt 20 (27)
T PRK14762 7 AVLIIFLIGLLVVT 20 (27)
T ss_pred HHHHHHHHHHHHHH
Confidence 45667888888754
No 72
>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=31.99 E-value=3e+02 Score=22.98 Aligned_cols=67 Identities=10% Similarity=0.181 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHHHHHH
Q 028637 40 ACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVG 108 (206)
Q Consensus 40 ~~~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li~~vG 108 (206)
.+..+....+.|.++ |+.+-+-+.+.+=++.....++++.+.|++.. -..+|.++++-++++.+-.|
T Consensus 14 ~~~~~~~~Tl~r~~~-g~~ia~~ig~~lG~~~~~~~~~~~~~~p~~~~-l~~iP~~~~~pl~~~~fG~g 80 (202)
T TIGR01183 14 GLFWQIIASLTRVAV-GFSIAAIIGIAVGILIGLSKFLNAALDPIFQV-LRTIPPLAWLPIALAAFQDA 80 (202)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhCCHHHHHHHHHHHHhcC
Confidence 466667777776554 44444444444444445667888899888743 24456655555544444333
No 73
>PRK10478 putative PTS system fructose-like transporter subunit EIIC; Provisional
Probab=31.88 E-value=2.3e+02 Score=26.46 Aligned_cols=29 Identities=21% Similarity=0.176 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028637 45 LQSWISKKFMTGCVVLFPVAVTFFITWWF 73 (206)
Q Consensus 45 l~~~l~~~FltGLlvllPl~lTi~Il~wl 73 (206)
..+.++|.+.+|+--.+|+++.-=++.=+
T Consensus 7 ~~~~~~~hlmtGvS~MlP~VvagGil~ai 35 (359)
T PRK10478 7 ILKNTRQHLMTGVSHMIPFVVAGGILLAV 35 (359)
T ss_pred HHHHHHHHHHhChhHhHhHHHHHHHHHHH
Confidence 55678999999999999998875554443
No 74
>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=29.76 E-value=1.3e+02 Score=21.66 Aligned_cols=41 Identities=20% Similarity=0.421 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHhhhh
Q 028637 68 FITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLG 116 (206)
Q Consensus 68 ~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li~~vG~la~~~~g 116 (206)
-+.+|+++++|.+- +..+..+|++..+ ++-++++++..+.-
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 35678888777654 2234444555433 24556666655443
No 75
>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=29.28 E-value=3.9e+02 Score=23.38 Aligned_cols=41 Identities=12% Similarity=0.185 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028637 41 CCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (206)
Q Consensus 41 ~~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~ 81 (206)
......+.+.+.|..|+-.-+|+++...++.-.++.+++..
T Consensus 165 ~~~~~~~~~~~~f~~al~lAaPvi~~~ll~~l~lGllsR~~ 205 (253)
T TIGR01401 165 GLSFVLSQLDQMMALALLLAAPVIIVLFLIELALGLLSRFA 205 (253)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34555666888999999999999999999999999887765
No 76
>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=29.08 E-value=80 Score=27.05 Aligned_cols=61 Identities=13% Similarity=0.087 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHhCCCCCCcCcCcEEEEE--eCCCCeeEEEEEeccccc-cccCC-cEEEEEecCCC
Q 028637 135 HLYSASKQISAAISPDQNTTAFKEVAIIR--HPRVGEYAFGFITSTVTL-QIMEM-KSYVVFLSQQT 197 (206)
Q Consensus 135 sIY~siKqi~~~~~~~~~~~~f~~VVlVe--~P~~g~~~iGFvT~~~~~-~~~~~-~~v~VFvPtsP 197 (206)
.-|..++++++.+ .+...-.. +|+-|+ |-.+..-+-|.+|+++.. +..+. .--.+++|...
T Consensus 107 la~~~l~~~~~~l-~~~~~~~v-~V~~V~N~fFG~~ItVaGLLTg~Dii~~L~~~~~~d~lllP~~m 171 (204)
T PF04459_consen 107 LAYPFLKPLVEKL-NRIPGLEV-EVVPVKNRFFGGTITVAGLLTGQDIIEQLKGKELGDLLLLPDVM 171 (204)
T ss_pred HHHHHHHHHHHHH-hccCCCeE-EEEEeecCCCCCCeEEeeCccHHHHHHHhCcCCCCCEEEECHHH
Confidence 4689999999999 33222222 477776 667899999999999853 32222 11468888643
No 77
>PRK02463 OxaA-like protein precursor; Provisional
Probab=28.93 E-value=2e+02 Score=26.18 Aligned_cols=22 Identities=9% Similarity=0.155 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 028637 47 SWISKKFMTGCVVLFPVAVTFF 68 (206)
Q Consensus 47 ~~l~~~FltGLlvllPl~lTi~ 68 (206)
+..||..+.|+++.+.+++|.-
T Consensus 3 ~~~k~~~~~~~~~~~~~~lsgc 24 (307)
T PRK02463 3 KTLKRILFSGLALSMLLTLTGC 24 (307)
T ss_pred hHHHHHHHHHHHHHHHHHHhcc
Confidence 3467778889999999988874
No 78
>cd02435 CCC1 CCC1. CCC1: This domain is present in the CCC1, an iron and manganese transporter of Saccharomyces cerevisiae. CCC1 is a transmembrane protein that is located in the vacuole and transfers the iron and manganese ions from the cytosol to the vacuole. This domain may be unique to certain fungi and plants.
Probab=27.87 E-value=3.5e+02 Score=23.66 Aligned_cols=58 Identities=22% Similarity=0.278 Sum_probs=34.8
Q ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHhh
Q 028637 35 SSTRQACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSW 114 (206)
Q Consensus 35 ~~~~~~~~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li~~vG~la~~~ 114 (206)
+|-..|+. ..-.+++.|++-++|..+. .+. ...-...++++++.++++|++..+.
T Consensus 152 ~p~~aAl~-----s~lsf~lG~liPLlPy~~~---------------~~~-----~~a~~~si~l~~~aL~ilG~~~s~~ 206 (241)
T cd02435 152 RALISALT-----IGLSYFIGGLIPLLPYFFV---------------STV-----GEALLLSVIVTLVALFVFGYVKTWF 206 (241)
T ss_pred CHHHHHHH-----HHHHHHHHHHHHHHHHHHc---------------cch-----hHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34444544 2456788888888885311 000 0112345677778888899988766
Q ss_pred hhh
Q 028637 115 LGS 117 (206)
Q Consensus 115 ~g~ 117 (206)
-++
T Consensus 207 s~~ 209 (241)
T cd02435 207 TGG 209 (241)
T ss_pred cCC
Confidence 544
No 79
>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=27.86 E-value=1.9e+02 Score=24.31 Aligned_cols=15 Identities=20% Similarity=0.558 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHH
Q 028637 59 VLFPVAVTFFITWWF 73 (206)
Q Consensus 59 vllPl~lTi~Il~wl 73 (206)
+++|+++.+.++.++
T Consensus 80 ~fmP~alv~lv~~~v 94 (170)
T PF11241_consen 80 FFMPVALVLLVLSFV 94 (170)
T ss_pred HHHHHHHHHHHHHHH
Confidence 357888887777776
No 80
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=27.43 E-value=3.6e+02 Score=27.65 Aligned_cols=55 Identities=11% Similarity=0.093 Sum_probs=36.5
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHhhhhhhhhhccch
Q 028637 37 TRQACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWF--------------VQFVDGFFSPLYEHLGFD 91 (206)
Q Consensus 37 ~~~~~~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl--------------~~~vd~~~~p~~~~lg~~ 91 (206)
+-+..+.+...+.|..+.+---++++..+.+|++..+ ...+.+.+.|++..+|+.
T Consensus 496 ~~~~v~~~~w~r~~~Fl~~Ag~iI~~~~iviw~l~~~~~~g~~~~~~~~S~l~~ig~~i~Pi~~plG~~ 564 (772)
T PRK09554 496 HLKSLLIQTWQRLKGFVLRAGKVIIIVSIFIGALNSFSLSGKIVDNINDSALASVSRVITPVLKPIGVH 564 (772)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccccccchhhhHHHHHHHHHHHHHhccCCC
Confidence 4456666777777666666667777777777777644 344555677888777764
No 81
>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=27.28 E-value=96 Score=19.73 Aligned_cols=24 Identities=21% Similarity=0.469 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhh
Q 028637 61 FPVAVTFFITWWFVQFVDGFFSPL 84 (206)
Q Consensus 61 lPl~lTi~Il~wl~~~vd~~~~p~ 84 (206)
.|+++++|++.-+=+.+|.+...+
T Consensus 8 FPi~va~yLL~R~E~kld~L~~~i 31 (38)
T PF12841_consen 8 FPIAVAIYLLVRIEKKLDELTESI 31 (38)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHH
Confidence 599999999999988888876554
No 82
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.27 E-value=1.2e+02 Score=21.97 Aligned_cols=35 Identities=17% Similarity=0.264 Sum_probs=19.0
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhhcchh
Q 028637 95 LGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFV 133 (206)
Q Consensus 95 lgili~l~li~~vG~la~~~~g~~i~~~~e~ll~rIPvV 133 (206)
+++ +.+.+++++|++.-.++.|+ ..++.+..=|=+
T Consensus 5 lai-l~ivl~ll~G~~~G~fiark---~~~k~lk~NPpi 39 (71)
T COG3763 5 LAI-LLIVLALLAGLIGGFFIARK---QMKKQLKDNPPI 39 (71)
T ss_pred HHH-HHHHHHHHHHHHHHHHHHHH---HHHHHHhhCCCC
Confidence 444 44455666676666566663 445555544443
No 83
>KOG0476 consensus Cl- channel CLC-2 and related proteins (CLC superfamily) [Inorganic ion transport and metabolism]
Probab=27.10 E-value=7.6e+02 Score=25.99 Aligned_cols=46 Identities=13% Similarity=-0.050 Sum_probs=38.2
Q ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028637 36 STRQACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (206)
Q Consensus 36 ~~~~~~~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~ 81 (206)
++++.|+.|..+++++.+..--+++.=+.+...++.|.++.....+
T Consensus 75 ~~~~~~~~r~~q~i~r~l~eDW~flalLG~imAlvS~~mD~ai~~~ 120 (931)
T KOG0476|consen 75 ETCQEFLTRQMQNIVRKLGEDWFFLALLGVIMALVSIGMDMAIESL 120 (931)
T ss_pred HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4568899999999999988888899999999999999988654433
No 84
>KOG3044 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.79 E-value=66 Score=29.31 Aligned_cols=50 Identities=26% Similarity=0.364 Sum_probs=37.9
Q ss_pred ccccccccccCCCCCCCCCCCCCCCCCCCCccHHHHHHHHHHHHHHHHHHH
Q 028637 6 ESTSIPLSQAENGGEDPEDPVKSPPTSSASSTRQACCYVLQSWISKKFMTG 56 (206)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rl~~~l~~~FltG 56 (206)
+...++-+|.+|. .|-++---|.|+--|++.|+-++...-+.+...||.|
T Consensus 224 eea~~e~e~s~~d-~de~~qk~s~~~v~~peErq~Lr~EFtS~M~QkFLsG 273 (307)
T KOG3044|consen 224 EEAKIEAEQSDND-LDEAPQKISTPEVYNPEERQVLRREFTSFMQQKFLSG 273 (307)
T ss_pred hhccchhhhcccc-cccchhhccCcccCChHHHHHHHHHHHHHHHHHhhcC
Confidence 3445666655543 3444446788999999999999999999999999987
No 85
>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=25.58 E-value=5e+02 Score=25.58 Aligned_cols=54 Identities=9% Similarity=0.131 Sum_probs=32.8
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHhhhhhhhhhccc
Q 028637 37 TRQACCYVLQSWISKKFMTGCVVLFPVAVTFFITWW---------FVQFVDGFFSPLYEHLGF 90 (206)
Q Consensus 37 ~~~~~~~rl~~~l~~~FltGLlvllPl~lTi~Il~w---------l~~~vd~~~~p~~~~lg~ 90 (206)
+-+..+.+...+.+..+.+-.-+++...+.+|++.. +...+.+.+.|++..+|.
T Consensus 460 ~~r~v~~~~w~r~~~fl~~A~~ii~~~siviw~l~~~~~~~~~~S~l~~~g~~~~P~~~p~g~ 522 (591)
T TIGR00437 460 RFRVVFIQTWTRLRSFIKKAGTIIVIGSVLIWFLSSFPGGKILESWLAAIGSIMAPLFVPLGK 522 (591)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCchhhhHHHHHHHHHHHHHHHhcC
Confidence 334555555566555555555566666666665555 355566677888876666
No 86
>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=25.34 E-value=1.1e+02 Score=20.26 Aligned_cols=26 Identities=12% Similarity=0.302 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHhhhhhHHHHH
Q 028637 97 FITSLVFVFLVGVFVSSWLGSTVFWV 122 (206)
Q Consensus 97 ili~l~li~~vG~la~~~~g~~i~~~ 122 (206)
++++++++.+++++..+.+.+.+-+.
T Consensus 5 ~~~~~~~~~~~~~~~~~~i~~pl~~l 30 (70)
T PF00672_consen 5 FLIILLLSLLLAWLLARRITRPLRRL 30 (70)
T ss_dssp HHHHHHHHHHHHHH--HTTCCCHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555556666655555544433
No 87
>KOG3249 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.23 E-value=2.7e+02 Score=23.59 Aligned_cols=30 Identities=37% Similarity=0.467 Sum_probs=23.0
Q ss_pred cccccccCCCCCCCCCCCCC-CCCCCCCccH
Q 028637 9 SIPLSQAENGGEDPEDPVKS-PPTSSASSTR 38 (206)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~ 38 (206)
.+|-+++|+-..|+.++++. -|++|.+++|
T Consensus 56 ~~~npr~es~~~~~~e~v~e~qP~~St~~t~ 86 (181)
T KOG3249|consen 56 VIPNPRAESFDDDDDEDVPEKQPPSSTRWTR 86 (181)
T ss_pred ecCCCchhhccCCccccCchhcCCccccccc
Confidence 56888999988877777653 5677778877
No 88
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=25.07 E-value=2.1e+02 Score=18.83 Aligned_cols=36 Identities=8% Similarity=0.078 Sum_probs=28.4
Q ss_pred cEEEEEeCCCCeeEEEEEeccccccccCCcEEEEEecC--CCC
Q 028637 158 EVAIIRHPRVGEYAFGFITSTVTLQIMEMKSYVVFLSQ--QTI 198 (206)
Q Consensus 158 ~VVlVe~P~~g~~~iGFvT~~~~~~~~~~~~v~VFvPt--sPn 198 (206)
..|-+.++.+|.|--|-|++.. +++.+.|+.++ .++
T Consensus 7 ~~Ve~~~~~~~~W~~a~V~~~~-----~~~~~~V~~~~~~~~~ 44 (61)
T smart00743 7 DRVEVFSKEEDSWWEAVVTKVL-----GDGKYLVRYLTESEPL 44 (61)
T ss_pred CEEEEEECCCCEEEEEEEEEEC-----CCCEEEEEECCCCccc
Confidence 4688888889999999999863 35678898888 553
No 89
>PRK15082 glutathione ABC transporter permease GsiD; Provisional
Probab=24.85 E-value=4.9e+02 Score=23.08 Aligned_cols=37 Identities=5% Similarity=0.013 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhH---HHHHHHHHHhhcchh
Q 028637 96 GFITSLVFVFLVGVFVSSWLGST---VFWVGEWFIKRMPFV 133 (206)
Q Consensus 96 gili~l~li~~vG~la~~~~g~~---i~~~~e~ll~rIPvV 133 (206)
+.++.+++-..+|+++..+ +++ ++..+-.++.-+|.+
T Consensus 109 a~~ia~iiG~~lG~~ag~~-~~~~d~~l~~l~~~~~aiP~~ 148 (301)
T PRK15082 109 SVAIGAAIGTVLGLLAGYY-EGWWDRIIMRICDVLFAFPGI 148 (301)
T ss_pred HHHHHHHHHHHHHHHHHHh-CCHHHHHHHHHHHHHHHHHHH
Confidence 3334444445567766543 222 333333444566654
No 90
>PF12670 DUF3792: Protein of unknown function (DUF3792); InterPro: IPR023804 Members of this family of strongly hydrophobic putative transmembrane protein average about 125 amino acids in length and occur mostly, but not exclusively, in the Firmicutes. Members are quite diverse in sequence. Their function is unknown.
Probab=24.60 E-value=3.2e+02 Score=20.85 Aligned_cols=49 Identities=20% Similarity=0.114 Sum_probs=26.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHhhhhhH-HHHHHHHHHhhcchhhHHHHHHHHHHHHhCC
Q 028637 93 FGLGFITSLVFVFLVGVFVSSWLGST-VFWVGEWFIKRMPFVRHLYSASKQISAAISP 149 (206)
Q Consensus 93 pglgili~l~li~~vG~la~~~~g~~-i~~~~e~ll~rIPvV~sIY~siKqi~~~~~~ 149 (206)
+.+..++.++.+++-|+.+.+..++| +++=. .++-+|-.+==++..+..
T Consensus 40 ~~~~~~i~~ls~~~GG~~a~~~~~~kG~l~G~--------~~Gl~y~~il~lis~~~~ 89 (116)
T PF12670_consen 40 PWLVVIIYILSVFIGGFYAGRKAGSKGWLHGL--------LVGLLYFLILLLISFLFG 89 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHccchHHHHH--------HHHHHHHHHHHHHHHHHc
Confidence 34445666666777777766666655 22211 223345555555555544
No 91
>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=24.43 E-value=3.1e+02 Score=20.57 Aligned_cols=41 Identities=22% Similarity=0.243 Sum_probs=19.7
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHh-hcchhhHH
Q 028637 95 LGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIK-RMPFVRHL 136 (206)
Q Consensus 95 lgili~l~li~~vG~la~~~~g~~i~~~~e~ll~-rIPvV~sI 136 (206)
++++++++++.++|.++-.. -+.+-+..+.+.+ ++|.+..+
T Consensus 10 ~~f~~~~~l~~~~~~~~~~~-l~~~~~~~~~i~~~~~~~~~~~ 51 (181)
T PF12729_consen 10 LGFGLIILLLLIVGIVGLYS-LSQINQNVEEIYENNLPSIELL 51 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhhhHHHHHH
Confidence 34555555555566554332 2334445555543 45555443
No 92
>COG1174 OpuBB ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]
Probab=24.16 E-value=1.8e+02 Score=25.50 Aligned_cols=115 Identities=11% Similarity=0.169 Sum_probs=59.8
Q ss_pred cHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHh
Q 028637 37 TRQACCYVLQSWISKKFMTGC---VVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSS 113 (206)
Q Consensus 37 ~~~~~~~rl~~~l~~~FltGL---lvllPl~lTi~Il~wl~~~vd~~~~p~~~~lg~~~pglgili~l~li~~vG~la~~ 113 (206)
+++.++....+++.-.+++-+ ++=+|+.+.+.=- +.+.+....+.+ +.+.+|-++++.+++-++-+|..-
T Consensus 20 ~~~~~~~~~~~Hl~l~~~a~~~a~~igVplGIl~~r~----~~~~~~v~~v~n-v~qTiPslAllallip~~GiG~~P-- 92 (221)
T COG1174 20 RQDYLLALTLQHLLLVLLAVLIAILIGVPLGILVTRS----RRLAGLVLGVAN-VLQTIPSLALLALLIPVLGIGLTP-- 92 (221)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh----HHHHHHHHHHHH-HHhhchHHHHHHHHHHHhcCCccH--
Confidence 456777777777655554433 3334554433322 233333322221 245567666655544444433321
Q ss_pred hhhhHHHHHHHHHHhhcchhhHHHHHHHHHHHHhC----CCCCCcCcCcEEEEEeC
Q 028637 114 WLGSTVFWVGEWFIKRMPFVRHLYSASKQISAAIS----PDQNTTAFKEVAIIRHP 165 (206)
Q Consensus 114 ~~g~~i~~~~e~ll~rIPvV~sIY~siKqi~~~~~----~~~~~~~f~~VVlVe~P 165 (206)
.++..+ +..-.|++|+-|..++++=+.+. +-+. +++|+.-.||+|
T Consensus 93 ----AiiAL~--lYsLLPIvrNT~~GL~~V~~~v~EAa~gmGM-T~~Q~L~~VelP 141 (221)
T COG1174 93 ----AIIALF--LYSLLPIVRNTYTGLASVPPSVIEAARGMGM-TRWQRLLKVELP 141 (221)
T ss_pred ----HHHHHH--HHHHhHHHHHHHHHHhcCCHHHHHHHHhcCC-CHHHHHHHhhcc
Confidence 122322 23457999999999988655442 2222 346666777877
No 93
>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=23.11 E-value=81 Score=26.85 Aligned_cols=26 Identities=23% Similarity=0.482 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028637 50 SKKFMTGCVVLFPVAVTFFITWWFVQ 75 (206)
Q Consensus 50 ~~~FltGLlvllPl~lTi~Il~wl~~ 75 (206)
--.|+.|++..|=+...+|++|.+++
T Consensus 160 ~~SFiGGIVL~LGv~aI~ff~~KF~k 185 (186)
T PF05283_consen 160 AASFIGGIVLTLGVLAIIFFLYKFCK 185 (186)
T ss_pred hhhhhhHHHHHHHHHHHHHHHhhhcc
Confidence 45799999999999888888877654
No 94
>COG2928 Uncharacterized conserved protein [Function unknown]
Probab=23.07 E-value=5.2e+02 Score=22.71 Aligned_cols=38 Identities=16% Similarity=0.116 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028637 42 CYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDG 79 (206)
Q Consensus 42 ~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~ 79 (206)
++|+++.+..=++-=+=+.+=+++..|++.|+-+++..
T Consensus 3 ~~~lk~~fltGLlvllPlaiT~~vv~~i~~~l~~~~~~ 40 (222)
T COG2928 3 AKRLKKYFLTGLLVLLPLAITLWVVSWIFGLLDQFVGP 40 (222)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 67889999999999999999999999999999999985
No 95
>PF07290 DUF1449: Protein of unknown function (DUF1449); InterPro: IPR010840 This family consists of several bacterial proteins of around 210 residues in length. The function of this family is unknown.
Probab=22.82 E-value=3.6e+02 Score=23.12 Aligned_cols=16 Identities=19% Similarity=0.685 Sum_probs=8.1
Q ss_pred HHHHHHHHHhhhhhHH
Q 028637 104 VFLVGVFVSSWLGSTV 119 (206)
Q Consensus 104 i~~vG~la~~~~g~~i 119 (206)
.+++++...++.|+.+
T Consensus 104 al~~sl~~~~~~~~~l 119 (202)
T PF07290_consen 104 ALFLSLFFTRYLGRPL 119 (202)
T ss_pred HHHHHHHHHHHHhHHH
Confidence 4445555555555433
No 96
>COG0387 ChaA Ca2+/H+ antiporter [Inorganic ion transport and metabolism]
Probab=22.70 E-value=4.2e+02 Score=24.97 Aligned_cols=30 Identities=20% Similarity=0.286 Sum_probs=13.2
Q ss_pred HHHHHHHHHHhhhhhhhhhccchhhhhHHH
Q 028637 69 ITWWFVQFVDGFFSPLYEHLGFDIFGLGFI 98 (206)
Q Consensus 69 Il~wl~~~vd~~~~p~~~~lg~~~pglgil 98 (206)
.+.++-+...+.+.-.+..+|.....+|++
T Consensus 232 ~v~~lae~lv~~le~~l~~~g~~~~F~G~i 261 (368)
T COG0387 232 LVALLAEILVGSLEAVLESLGAPPAFVGLI 261 (368)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCHHHHHHH
Confidence 344444444444444444444444344443
No 97
>PRK15120 lipopolysaccharide ABC transporter permease LptF; Provisional
Probab=22.52 E-value=4.3e+02 Score=23.80 Aligned_cols=34 Identities=6% Similarity=0.239 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028637 48 WISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (206)
Q Consensus 48 ~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~ 81 (206)
.+.|.++...++.+=+.+.++++.-+++.+|.+.
T Consensus 6 Yi~re~l~~~~~~l~~l~~i~~~~~l~~~l~~~~ 39 (366)
T PRK15120 6 YLVRETLKSQLAILFILLLIFFCQKLVRILGAAV 39 (366)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555555555555566666666666666654
No 98
>PF01594 UPF0118: Domain of unknown function DUF20; InterPro: IPR002549 This is a family of hypothetical proteins. A number of the sequence records state they are transmembrane proteins or putative permeases. It is not clear what source suggested that these proteins might be permeases and this information should be treated with caution.
Probab=22.35 E-value=5.2e+02 Score=22.41 Aligned_cols=93 Identities=16% Similarity=0.297 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHH-HHHhhh---------hhhhhhccch---hhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHH
Q 028637 57 CVVLFPVAVTFFITWWFVQ-FVDGFF---------SPLYEHLGFD---IFGLGFITSLVFVFLVGVFVSSWLGSTVFWVG 123 (206)
Q Consensus 57 LlvllPl~lTi~Il~wl~~-~vd~~~---------~p~~~~lg~~---~pglgili~l~li~~vG~la~~~~g~~i~~~~ 123 (206)
++.++=+++.++.++|.++ .+.-++ .|+.+++ .. -..++.++++++++++=.+.-......+.+-.
T Consensus 1 ~~~~~~~~l~~~~~~~~~~~~~~p~~~a~~la~~~~p~~~~l-~~~~~~r~la~~l~~~~~~~il~l~~~~~~~~i~~~~ 79 (327)
T PF01594_consen 1 ILIILILLLLLFLFLWFISPFLLPFVLALVLAYLLNPLVRFL-RRFGIPRSLAALLVLLLLLLILVLLFYLIIPQIIQQI 79 (327)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHhhcchhhHHHHHHHHHHHHhCCCCCC
Q 028637 124 EWFIKRMPFVRHLYSASKQISAAISPDQNT 153 (206)
Q Consensus 124 e~ll~rIPvV~sIY~siKqi~~~~~~~~~~ 153 (206)
+.+.+.+| ...+.+++..+.+....+.
T Consensus 80 ~~l~~~l~---~~~~~i~~~~~~~~~~~~~ 106 (327)
T PF01594_consen 80 QSLIENLP---QYLDKIKSWLNDLPSWLQE 106 (327)
T ss_pred HHHHHhhh---HHHHHhhhhhhccchhhhh
No 99
>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=22.33 E-value=6.8e+02 Score=23.80 Aligned_cols=34 Identities=12% Similarity=0.287 Sum_probs=20.2
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028637 37 TRQACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFV 77 (206)
Q Consensus 37 ~~~~~~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~v 77 (206)
.+.....++.+.+++.+-.-.+ ..|-+||.+...
T Consensus 228 ~~~~~l~~l~~~~~~~y~~~~l-------l~WSlWWa~atc 261 (412)
T PF01770_consen 228 SRKSVLRLLWKDFKSCYSNPRL-------LLWSLWWAFATC 261 (412)
T ss_pred hHHHHHHHHHHHHHHHhcCchH-------HHHHHHHHHHHh
Confidence 3444446666666665555443 347788888754
No 100
>PRK00665 petG cytochrome b6-f complex subunit PetG; Reviewed
Probab=21.68 E-value=1.3e+02 Score=19.11 Aligned_cols=21 Identities=38% Similarity=0.779 Sum_probs=15.7
Q ss_pred hHHHHHHHHHHHHHHHHHhhh
Q 028637 95 LGFITSLVFVFLVGVFVSSWL 115 (206)
Q Consensus 95 lgili~l~li~~vG~la~~~~ 115 (206)
.|+++-++-+++.|+++..++
T Consensus 7 ~GiVLGlipiTl~GlfvaAyl 27 (37)
T PRK00665 7 CGIVLGLIPVTLAGLFVAAWN 27 (37)
T ss_pred hhHHHHhHHHHHHHHHHHHHH
Confidence 467777788888999876553
No 101
>PRK10987 regulatory protein AmpE; Provisional
Probab=21.52 E-value=4.8e+02 Score=23.15 Aligned_cols=41 Identities=10% Similarity=0.130 Sum_probs=22.5
Q ss_pred CccHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028637 35 SSTRQACCYVLQSWI-SKKFMTGCVVLFPVAVTFFITWWFVQ 75 (206)
Q Consensus 35 ~~~~~~~~~rl~~~l-~~~FltGLlvllPl~lTi~Il~wl~~ 75 (206)
+.+++.+..+..+.. +...++-++.++|-++.+++++|+..
T Consensus 21 ~~~~d~~~~~~~~~~~~~~~~~~~l~vl~p~l~~~l~~~~l~ 62 (284)
T PRK10987 21 HWQLDHRLEAFFRRKKHFSLLRTLLALLLPMLVVFLLLWLLQ 62 (284)
T ss_pred hhhhhHHHHHHHhccccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555554332221 22344557777777777777777654
No 102
>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=21.42 E-value=2.2e+02 Score=20.68 Aligned_cols=33 Identities=24% Similarity=0.704 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHH------HHHhhhhhhhhhccc
Q 028637 58 VVLFPVAVTFFITWWFVQ------FVDGFFSPLYEHLGF 90 (206)
Q Consensus 58 lvllPl~lTi~Il~wl~~------~vd~~~~p~~~~lg~ 90 (206)
.-++|+++...++.|+.. .+...+.|++..+|.
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 446777777777777765 455577888766554
No 103
>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=21.33 E-value=3.3e+02 Score=19.78 Aligned_cols=36 Identities=6% Similarity=0.063 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028637 46 QSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (206)
Q Consensus 46 ~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~ 81 (206)
....|+.+...+...+|+.+.-.++.-+.+.+....
T Consensus 4 i~l~r~al~~~l~~~~P~L~~alvvGlvIsi~QA~T 39 (76)
T PF01313_consen 4 IDLLRQALWLVLMLSAPVLLVALVVGLVISIFQAAT 39 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345788899999999999988888887777655543
No 104
>PF05328 CybS: CybS; InterPro: IPR007992 This family consists of several eukaryotic succinate dehydrogenase [ubiquinone] cytochrome B small subunit, mitochondrial precursor (CybS) proteins. SDHD encodes the small subunit (cybS) of cytochrome b in succinate-ubiquinone oxidoreductase (mitochondrial complex II). Mitochondrial complex II is involved in the Krebs cycle and in the aerobic electron transport chain. It contains four proteins. The catalytic core consists of a flavoprotein and an iron-sulphur protein; these proteins are anchored to the mitochondrial inner membrane by the large subunit of cytochrome b (cybL) and cybS, which together comprise the haem-protein cytochrome b. Mutations in the SDHD gene can lead to hereditary paraganglioma, characterised by the development of benign, vascularised tumours in the head and neck [].; GO: 0005506 iron ion binding, 0020037 heme binding, 0006099 tricarboxylic acid cycle, 0005740 mitochondrial envelope, 0016021 integral to membrane; PDB: 3AE7_D 3AEB_D 3AEC_D 3AE6_D 3AE4_D 3AE3_D 3AEG_D 3SFD_D 3AE9_D 1ZOY_D ....
Probab=21.13 E-value=4.3e+02 Score=21.01 Aligned_cols=19 Identities=16% Similarity=0.244 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 028637 49 ISKKFMTGCVVLFPVAVTF 67 (206)
Q Consensus 49 l~~~FltGLlvllPl~lTi 67 (206)
+-|.+-.+|+-++|+.+..
T Consensus 37 ~ER~~a~~Llpl~~~~~~~ 55 (132)
T PF05328_consen 37 FERIVAAALLPLIPAAFAS 55 (132)
T ss_dssp HHHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 5677788998888887766
No 105
>PRK01844 hypothetical protein; Provisional
Probab=21.02 E-value=2.3e+02 Score=20.65 Aligned_cols=29 Identities=14% Similarity=0.282 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHhhhhhHHHHHHHHHHhhcchh
Q 028637 102 VFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFV 133 (206)
Q Consensus 102 ~li~~vG~la~~~~g~~i~~~~e~ll~rIPvV 133 (206)
++.+++|.+.--++.| +.+|+-+.+=|=+
T Consensus 11 I~~li~G~~~Gff~ar---k~~~k~lk~NPpi 39 (72)
T PRK01844 11 VVALVAGVALGFFIAR---KYMMNYLQKNPPI 39 (72)
T ss_pred HHHHHHHHHHHHHHHH---HHHHHHHHHCCCC
Confidence 3456666666666666 4566666666543
No 106
>CHL00008 petG cytochrome b6/f complex subunit V
Probab=20.95 E-value=1.4e+02 Score=19.03 Aligned_cols=21 Identities=33% Similarity=0.787 Sum_probs=15.7
Q ss_pred hHHHHHHHHHHHHHHHHHhhh
Q 028637 95 LGFITSLVFVFLVGVFVSSWL 115 (206)
Q Consensus 95 lgili~l~li~~vG~la~~~~ 115 (206)
.|+++-++-+++.|+++..++
T Consensus 7 ~GiVLGlipvTl~GlfvaAyl 27 (37)
T CHL00008 7 FGIVLGLIPITLAGLFVTAYL 27 (37)
T ss_pred hhHHHHhHHHHHHHHHHHHHH
Confidence 467777788888998876553
No 107
>PRK12780 fliR flagellar biosynthesis protein FliR; Reviewed
Probab=20.63 E-value=5.7e+02 Score=22.29 Aligned_cols=40 Identities=18% Similarity=0.125 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 028637 42 CYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF 81 (206)
Q Consensus 42 ~~rl~~~l~~~FltGLlvllPl~lTi~Il~wl~~~vd~~~ 81 (206)
...+.+.+...|..|+..-+|++++..+..-.++.+++..
T Consensus 169 ~~~~~~~~~~~f~~al~lAaP~i~~lll~~l~lGll~R~~ 208 (251)
T PRK12780 169 LVQLVDQLSEAFTLALRIASPFIIYSVIVNLAVGLVNKLT 208 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4556667888999999999999999999999999888766
No 108
>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=20.58 E-value=1.7e+02 Score=18.66 Aligned_cols=21 Identities=33% Similarity=0.588 Sum_probs=15.8
Q ss_pred hhHHHHHHHHHHHHHHHHHhh
Q 028637 94 GLGFITSLVFVFLVGVFVSSW 114 (206)
Q Consensus 94 glgili~l~li~~vG~la~~~ 114 (206)
..|+++-++-+.++|+++..+
T Consensus 6 L~GiVlGli~vtl~Glfv~Ay 26 (37)
T PF02529_consen 6 LSGIVLGLIPVTLAGLFVAAY 26 (37)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhHHHHhHHHHHHHHHHHHH
Confidence 356777788888899887654
No 109
>TIGR00267 conserved hypothetical protein TIGR00267. This family is represented in three of the first four completed archaeal genomes, with two members in A. fulgidus.
Probab=20.53 E-value=4e+02 Score=21.81 Aligned_cols=27 Identities=11% Similarity=0.365 Sum_probs=20.6
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhhhHHH
Q 028637 94 GLGFITSLVFVFLVGVFVSSWLGSTVF 120 (206)
Q Consensus 94 glgili~l~li~~vG~la~~~~g~~i~ 120 (206)
.+.++++++.++++|++..+.-+++..
T Consensus 120 ~~s~~~~~~~L~ilG~~~a~~s~~~~~ 146 (169)
T TIGR00267 120 IVTVLLTLIALLVLGVYLGRISRENIL 146 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCcHH
Confidence 456777888899999998877776654
No 110
>PRK00523 hypothetical protein; Provisional
Probab=20.32 E-value=2.8e+02 Score=20.20 Aligned_cols=25 Identities=16% Similarity=0.299 Sum_probs=14.3
Q ss_pred HHHHHHHHHhhhhhHHHHHHHHHHhhcc
Q 028637 104 VFLVGVFVSSWLGSTVFWVGEWFIKRMP 131 (206)
Q Consensus 104 i~~vG~la~~~~g~~i~~~~e~ll~rIP 131 (206)
++++|.+.--++.| +.+|+-+..=|
T Consensus 14 ~li~G~~~Gffiar---k~~~k~l~~NP 38 (72)
T PRK00523 14 LLIVGGIIGYFVSK---KMFKKQIRENP 38 (72)
T ss_pred HHHHHHHHHHHHHH---HHHHHHHHHCc
Confidence 46667666666666 34555555333
Done!