Query 025146
Match_columns 257
No_of_seqs 120 out of 624
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 03:05:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025146.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025146hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG2928 Uncharacterized conser 100.0 3.7E-56 7.9E-61 391.7 20.0 194 46-240 4-206 (222)
2 PF04367 DUF502: Protein of un 100.0 3.2E-31 6.9E-36 211.9 12.3 106 96-202 1-108 (108)
3 PRK15350 type III secretion sy 89.0 9.4 0.0002 29.8 10.7 79 46-131 8-86 (88)
4 cd01277 HINT_subgroup HINT (hi 88.3 0.95 2.1E-05 34.5 4.7 41 186-226 19-60 (103)
5 TIGR02120 GspF general secreti 88.3 6.2 0.00013 37.6 11.2 23 117-139 242-264 (399)
6 PRK05700 fliQ flagellar biosyn 87.8 11 0.00025 29.3 10.5 79 46-131 8-86 (89)
7 TIGR01402 fliQ flagellar biosy 86.3 14 0.0003 28.8 10.5 79 46-131 8-86 (88)
8 PRK06010 fliQ flagellar biosyn 85.7 15 0.00033 28.6 10.8 79 46-131 8-86 (88)
9 cd01275 FHIT FHIT (fragile his 84.4 2 4.3E-05 34.5 4.8 44 186-229 19-63 (126)
10 PF08566 Pam17: Mitochondrial 83.9 18 0.0004 31.6 10.7 81 39-124 28-108 (173)
11 PRK12781 fliQ flagellar biosyn 83.6 19 0.00042 28.1 10.8 80 45-131 7-86 (88)
12 cd00468 HIT_like HIT family: H 83.3 2 4.4E-05 31.3 4.1 41 186-226 3-44 (86)
13 COG1459 PulF Type II secretory 83.0 6.7 0.00015 38.3 8.6 22 117-138 239-260 (397)
14 TIGR01403 fliQ_rel_III type II 82.6 20 0.00043 27.6 10.2 77 47-130 5-81 (81)
15 PRK09824 PTS system beta-gluco 81.6 11 0.00024 39.0 9.9 69 59-130 219-288 (627)
16 PF01230 HIT: HIT domain; Int 79.4 2.4 5.1E-05 32.3 3.4 41 186-226 11-52 (98)
17 COG1987 FliQ Flagellar biosynt 79.4 28 0.00062 27.3 10.5 78 47-131 9-86 (89)
18 PRK12772 bifunctional flagella 77.8 24 0.00052 36.4 11.0 42 39-80 163-204 (609)
19 PRK11007 PTS system trehalose( 77.7 16 0.00034 36.6 9.4 86 58-146 231-319 (473)
20 PRK09796 PTS system cellobiose 77.2 19 0.00042 36.0 9.8 84 58-144 220-305 (472)
21 PRK15333 type III secretion sy 76.9 33 0.00071 26.7 9.9 78 47-131 7-84 (86)
22 PRK10573 type IV pilin biogene 76.9 37 0.00079 32.4 11.4 18 120-137 244-261 (399)
23 PRK09586 murP PTS system N-ace 74.9 22 0.00048 35.6 9.6 82 58-143 230-312 (476)
24 TIGR01992 PTS-IIBC-Tre PTS sys 74.5 25 0.00053 34.9 9.8 85 59-146 233-319 (462)
25 PRK09765 PTS system 2-O-a-mann 74.1 15 0.00032 37.9 8.4 69 59-129 381-455 (631)
26 cd01276 PKCI_related Protein K 73.8 4.1 8.9E-05 31.1 3.3 34 186-219 19-53 (104)
27 TIGR02002 PTS-II-BC-glcB PTS s 71.9 25 0.00054 35.4 9.2 87 59-146 135-225 (502)
28 COG1684 FliR Flagellar biosynt 70.9 64 0.0014 29.9 10.9 42 39-80 166-207 (258)
29 PRK15083 PTS system mannitol-s 70.6 11 0.00024 38.9 6.5 83 58-143 101-190 (639)
30 TIGR01996 PTS-II-BC-sucr PTS s 70.0 42 0.00091 33.2 10.2 85 59-146 230-316 (461)
31 PF01311 Bac_export_1: Bacteri 69.7 87 0.0019 28.3 11.8 43 38-80 163-205 (249)
32 cd01278 aprataxin_related apra 69.7 9.3 0.0002 29.3 4.5 36 186-221 21-57 (104)
33 TIGR00851 mtlA PTS system, man 69.6 40 0.00087 32.1 9.7 83 58-143 93-182 (338)
34 PF02674 Colicin_V: Colicin V 63.1 60 0.0013 26.1 8.3 80 49-128 18-102 (146)
35 TIGR02004 PTS-IIBC-malX PTS sy 63.1 52 0.0011 33.3 9.4 89 59-149 139-231 (517)
36 PRK10687 purine nucleoside pho 62.6 11 0.00023 30.5 3.7 36 186-221 22-58 (119)
37 PRK11404 putative PTS system 62.6 33 0.00072 34.4 7.9 68 58-128 228-301 (482)
38 TIGR01427 PTS_IIC_fructo PTS s 61.9 43 0.00094 32.1 8.3 71 58-129 112-184 (346)
39 PRK15349 type III secretion sy 61.7 1.2E+02 0.0027 27.6 10.9 75 41-116 170-244 (259)
40 PF06596 PsbX: Photosystem II 59.5 24 0.00052 23.6 4.3 27 44-70 5-31 (39)
41 PF03596 Cad: Cadmium resistan 58.8 22 0.00047 31.5 5.2 84 94-195 34-118 (191)
42 TIGR01183 ntrB nitrate ABC tra 57.4 1.1E+02 0.0023 26.8 9.4 69 39-109 14-82 (202)
43 PRK15071 lipopolysaccharide AB 57.1 56 0.0012 30.5 8.1 39 41-79 2-40 (356)
44 PRK10110 bifunctional PTS syst 56.9 80 0.0017 32.1 9.6 87 59-147 148-238 (530)
45 PF05552 TM_helix: Conserved T 56.2 29 0.00063 23.9 4.5 26 97-122 18-43 (53)
46 TIGR01400 fliR flagellar biosy 55.6 1.6E+02 0.0035 26.6 11.1 42 39-80 157-198 (245)
47 COG3768 Predicted membrane pro 55.5 1.2E+02 0.0026 29.2 9.8 29 48-76 63-91 (350)
48 PRK05415 hypothetical protein; 55.4 1.1E+02 0.0024 29.5 9.7 27 49-76 67-93 (341)
49 COG4794 EscS Type III secretor 55.4 1E+02 0.0022 24.2 9.7 77 50-133 12-88 (89)
50 COG0537 Hit Diadenosine tetrap 54.7 23 0.0005 29.2 4.5 42 186-227 20-62 (138)
51 TIGR01995 PTS-II-ABC-beta PTS 53.8 1.1E+02 0.0023 31.7 10.0 80 59-141 211-292 (610)
52 PRK04949 putative sulfate tran 52.3 1.1E+02 0.0024 28.0 8.9 24 57-80 29-56 (251)
53 PF04459 DUF512: Protein of un 49.7 38 0.00082 30.2 5.3 82 134-225 107-191 (204)
54 TIGR00852 pts-Glc PTS system, 49.1 1.3E+02 0.0029 27.6 9.1 87 58-146 66-154 (289)
55 smart00743 Agenet Tudor-like d 49.1 85 0.0019 21.6 6.1 50 157-215 7-56 (61)
56 PF04854 DUF624: Protein of un 48.5 48 0.001 24.1 5.0 32 39-70 43-74 (77)
57 PF11947 DUF3464: Protein of u 47.8 1.7E+02 0.0037 25.1 8.8 51 55-113 66-116 (153)
58 PRK10478 putative PTS system f 47.4 91 0.002 30.3 7.9 33 40-72 3-35 (359)
59 PF01313 Bac_export_3: Bacteri 46.8 1.3E+02 0.0027 22.8 9.5 71 45-122 4-74 (76)
60 TIGR02790 nickel_nikC nickel A 45.6 1.6E+02 0.0035 26.4 8.9 21 39-59 52-72 (258)
61 TIGR01401 fliR_like_III type I 42.9 2.6E+02 0.0057 25.4 10.7 41 40-80 165-205 (253)
62 PRK05701 fliR flagellar biosyn 42.2 2.6E+02 0.0057 25.2 11.0 41 40-80 160-200 (242)
63 COG0600 TauC ABC-type nitrate/ 41.4 2.4E+02 0.0051 26.0 9.4 70 39-110 58-127 (258)
64 COG3763 Uncharacterized protei 40.3 68 0.0015 24.2 4.6 47 94-146 5-51 (71)
65 PRK01844 hypothetical protein; 39.7 61 0.0013 24.5 4.3 43 99-146 9-51 (72)
66 TIGR00822 EII-Sor PTS system, 39.5 2.3E+02 0.0049 26.4 8.9 66 51-116 144-221 (265)
67 TIGR02003 PTS-II-BC-unk1 PTS s 38.6 2.4E+02 0.0052 29.0 9.7 88 59-147 142-237 (548)
68 COG2928 Uncharacterized conser 37.9 3.2E+02 0.0069 24.9 9.7 39 40-78 2-40 (222)
69 PRK14762 membrane protein; Pro 37.8 54 0.0012 20.0 3.0 16 99-114 7-22 (27)
70 TIGR00437 feoB ferrous iron tr 36.3 2.6E+02 0.0056 28.7 9.6 47 39-89 467-522 (591)
71 TIGR00779 cad cadmium resistan 35.6 2.6E+02 0.0055 24.9 8.3 57 124-196 59-119 (193)
72 PF05283 MGC-24: Multi-glycosy 35.2 33 0.00072 30.3 2.6 25 50-74 161-185 (186)
73 PF03672 UPF0154: Uncharacteri 34.3 56 0.0012 24.1 3.3 43 99-146 2-44 (64)
74 PF11241 DUF3043: Protein of u 33.8 1.2E+02 0.0027 26.4 5.9 19 52-72 76-94 (170)
75 PF03739 YjgP_YjgQ: Predicted 33.6 2.2E+02 0.0047 26.2 7.9 31 50-80 5-35 (354)
76 PHA01399 membrane protein P6 33.4 3.6E+02 0.0079 24.3 12.7 13 207-219 185-197 (242)
77 PF03609 EII-Sor: PTS system s 32.8 2.8E+02 0.006 25.1 8.3 65 52-116 145-222 (238)
78 PRK15065 PTS system mannose-sp 32.8 3.4E+02 0.0073 25.2 8.9 26 91-116 189-222 (262)
79 PRK10417 nikC nickel transport 32.8 3.4E+02 0.0074 24.6 9.0 19 39-57 57-75 (272)
80 TIGR00439 ftsX putative protei 32.8 4.2E+02 0.009 24.8 9.9 27 97-123 281-307 (309)
81 PRK10160 taurine transporter s 32.7 3.8E+02 0.0082 24.3 9.9 67 39-107 75-141 (275)
82 PRK09757 PTS system N-acetylga 32.6 4E+02 0.0086 24.7 9.4 27 89-115 187-221 (267)
83 PF14584 DUF4446: Protein of u 32.5 3.1E+02 0.0067 23.2 8.6 26 153-178 78-109 (151)
84 PRK11365 ssuC alkanesulfonate 32.1 2.3E+02 0.005 25.4 7.7 67 39-107 57-123 (263)
85 PF01594 UPF0118: Domain of un 32.0 3.9E+02 0.0084 24.2 9.8 87 56-146 1-100 (327)
86 PF09527 ATPase_gene1: Putativ 31.5 1E+02 0.0022 21.2 4.1 9 55-63 7-15 (55)
87 TIGR01620 hyp_HI0043 conserved 31.2 3.6E+02 0.0078 25.5 8.9 27 50-76 15-41 (289)
88 COG2177 FtsX Cell division pro 30.8 4.6E+02 0.0099 24.7 10.8 57 55-112 226-284 (297)
89 PF06305 DUF1049: Protein of u 30.6 1E+02 0.0023 21.6 4.2 22 94-115 18-39 (68)
90 KOG0476 Cl- channel CLC-2 and 30.5 6.7E+02 0.014 27.3 11.4 43 36-78 76-118 (931)
91 PF07670 Gate: Nucleoside reco 30.4 1.4E+02 0.003 22.8 5.2 33 57-89 2-40 (109)
92 PRK00523 hypothetical protein; 29.4 1.1E+02 0.0025 23.0 4.3 42 100-146 11-52 (72)
93 PF04854 DUF624: Protein of un 29.2 1.6E+02 0.0034 21.3 5.1 34 34-67 42-75 (77)
94 COG4300 CadD Predicted permeas 28.6 1.5E+02 0.0032 26.5 5.5 72 110-196 60-131 (205)
95 PRK10845 colicin V production 28.5 3.6E+02 0.0079 22.8 8.4 31 49-79 21-51 (162)
96 TIGR03279 cyano_FeS_chp putati 28.2 1.8E+02 0.0038 29.1 6.6 83 133-224 328-412 (433)
97 PF02419 PsbL: PsbL protein; 28.2 98 0.0021 20.4 3.3 21 95-115 16-36 (37)
98 COG1286 CvpA Uncharacterized m 28.2 4E+02 0.0086 23.1 9.8 70 49-119 21-90 (182)
99 PF07662 Nucleos_tra2_C: Na+ d 27.9 4.5E+02 0.0097 23.6 8.9 49 36-88 39-87 (210)
100 CHL00114 psbX photosystem II p 27.4 33 0.00072 23.0 1.0 25 44-68 5-29 (39)
101 PRK10494 hypothetical protein; 27.4 4.8E+02 0.01 23.8 9.1 20 105-124 49-68 (259)
102 PRK09554 feoB ferrous iron tra 27.0 6E+02 0.013 27.1 10.7 48 39-90 503-564 (772)
103 PRK11026 ftsX cell division AB 27.0 5.2E+02 0.011 24.1 10.7 26 97-122 281-306 (309)
104 PF02355 SecD_SecF: Protein ex 26.6 4.3E+02 0.0093 22.9 9.8 68 36-123 120-187 (189)
105 PRK11720 galactose-1-phosphate 26.4 1E+02 0.0022 29.6 4.5 39 186-224 215-254 (346)
106 TIGR03745 conj_TIGR03745 integ 26.1 3.5E+02 0.0077 21.8 9.2 65 39-109 30-100 (104)
107 COG3224 Uncharacterized protei 25.7 2.7E+02 0.006 24.8 6.6 37 78-116 139-175 (195)
108 PF04971 Lysis_S: Lysis protei 25.4 1.7E+02 0.0036 21.9 4.5 41 67-115 16-56 (68)
109 PF14257 DUF4349: Domain of un 24.9 77 0.0017 28.6 3.3 17 56-72 240-256 (262)
110 PF04341 DUF485: Protein of un 24.9 3.2E+02 0.0069 20.9 6.5 21 60-80 19-39 (91)
111 PRK09881 D-ala-D-ala transport 24.9 5.1E+02 0.011 23.9 8.8 32 39-70 84-115 (296)
112 PF02762 Cbl_N3: CBL proto-onc 24.7 1E+02 0.0022 23.8 3.4 38 136-177 11-48 (86)
113 PHA03164 hypothetical protein; 24.6 1.7E+02 0.0036 22.6 4.4 44 16-59 24-69 (88)
114 PRK15050 2-aminoethylphosphona 24.1 5.4E+02 0.012 23.2 10.0 39 94-132 84-124 (296)
115 COG4818 Predicted membrane pro 24.0 3.8E+02 0.0083 21.5 7.1 8 128-135 88-95 (105)
116 PF08006 DUF1700: Protein of u 23.6 4.5E+02 0.0098 22.2 11.5 15 55-69 92-106 (181)
117 PF02304 Phage_B: Scaffold pro 23.5 75 0.0016 25.9 2.5 45 9-53 30-76 (117)
118 PRK00665 petG cytochrome b6-f 23.4 1.2E+02 0.0025 20.1 2.9 22 94-115 7-28 (37)
119 TIGR01998 PTS-II-BC-nag PTS sy 23.4 4.8E+02 0.01 26.1 8.8 87 59-146 115-204 (476)
120 TIGR00209 galT_1 galactose-1-p 22.9 1.4E+02 0.0029 28.7 4.7 38 186-223 215-253 (347)
121 CHL00008 petG cytochrome b6/f 22.8 1.2E+02 0.0026 20.0 2.9 22 94-115 7-28 (37)
122 PRK00753 psbL photosystem II r 22.3 1.2E+02 0.0026 20.2 2.8 21 94-114 17-37 (39)
123 COG1390 NtpE Archaeal/vacuolar 22.1 1.7E+02 0.0036 25.8 4.8 110 110-227 67-180 (194)
124 KOG1277 Endosomal membrane pro 22.1 2E+02 0.0044 29.3 5.7 28 45-72 357-384 (593)
125 PRK02463 OxaA-like protein pre 22.1 3.3E+02 0.0072 25.7 7.0 20 48-67 5-24 (307)
126 TIGR01427 PTS_IIC_fructo PTS s 22.0 7.1E+02 0.015 23.9 9.5 24 47-70 14-37 (346)
127 PF14018 DUF4234: Domain of un 22.0 3.1E+02 0.0068 19.7 9.0 60 60-120 10-70 (75)
128 cd00608 GalT Galactose-1-phosp 21.9 1.3E+02 0.0029 28.2 4.3 37 186-222 205-242 (329)
129 PRK15120 lipopolysaccharide AB 21.8 6.6E+02 0.014 23.5 9.1 35 46-80 5-39 (366)
130 COG2981 CysZ Uncharacterized p 21.7 4.7E+02 0.01 24.2 7.6 55 58-112 28-90 (250)
131 PRK12780 fliR flagellar biosyn 21.3 6.2E+02 0.013 23.0 11.8 42 39-80 167-208 (251)
132 PF12911 OppC_N: N-terminal TM 21.3 2E+02 0.0044 19.3 4.2 33 36-70 4-36 (56)
133 PF12841 YvrJ: YvrJ protein fa 21.1 1.7E+02 0.0036 19.4 3.4 24 60-83 8-31 (38)
134 PF02529 PetG: Cytochrome B6-F 20.8 1.6E+02 0.0036 19.4 3.3 21 94-114 7-27 (37)
135 COG3715 ManY Phosphotransferas 20.6 7.1E+02 0.015 23.3 8.9 65 49-113 142-218 (265)
136 PHA00003 B internal scaffoldin 20.4 1.1E+02 0.0024 25.0 2.9 46 8-53 32-79 (120)
137 PF07290 DUF1449: Protein of u 20.3 4.5E+02 0.0098 23.4 7.1 20 100-119 101-120 (202)
138 PRK10617 cytochrome c-type pro 20.1 2.7E+02 0.0059 24.7 5.7 10 40-49 10-19 (200)
139 PRK10905 cell division protein 20.0 72 0.0016 30.6 2.1 19 93-111 3-21 (328)
No 1
>COG2928 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=3.7e-56 Score=391.67 Aligned_cols=194 Identities=30% Similarity=0.635 Sum_probs=176.2
Q ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh-------hcccchhhhHHHHHHHHHHHHHHHHHHhhHHHH
Q 025146 46 SWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYA-------RLGVEIFGLGFLTSILFIFFVGVFASSWLGATV 118 (257)
Q Consensus 46 ~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~-------~lg~~ipglglli~llli~liG~La~~~~g~~l 118 (257)
+.+||+|++||++++|+++|+|+++|+++++|+++.|.+. +++.+++|+|+++.+++++++|++++|.+||++
T Consensus 4 ~~lk~~fltGLlvllPlaiT~~vv~~i~~~l~~~~~~~lp~~~~~~~~~~~~i~~lg~il~iili~l~G~l~~~~ig~~l 83 (222)
T COG2928 4 KRLKKYFLTGLLVLLPLAITLWVVSWIFGLLDQFVGPLLPDRLRPAVYFPFNIPGLGVILAIILIFLLGFLARNMIGRSL 83 (222)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccchhchhhcCchhhHHHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence 4478889999999999999999999999999999998652 346678999999999999999999999999999
Q ss_pred HHHHHHHhcccccchhhHHHHHHHHHHhCCCCCCCCcCcEEEEEeCCCCeeEEEEEccccccc-cCCCCCCeEEEEecCC
Q 025146 119 FWLGEWFIKRLPFMKHIYSASKQISAAISPDQNTSAFKEVAIIRHPRLGEYAFGFITSSVVLQ-RDHGDEELCSVYVPTN 197 (257)
Q Consensus 119 ~~~~e~ll~rIPlvksIY~siKql~~~~~~~~~~~~f~~VVLVe~P~~g~~~iGFvT~~~~~~-~~~~~~~~v~VfvPts 197 (257)
++++|++|+|||++|+||+++||+++++.+++ ..+||+||+||||++|+|++||+|++...+ ....++++++||+||+
T Consensus 84 ~~~~d~~L~RiPlv~~IY~s~kqi~etll~~~-~~sfk~vvlVefP~~G~~~i~fvtg~~~~e~~~~~~~~~v~VfvPTT 162 (222)
T COG2928 84 LSLGDSLLRRIPLVKSIYKSAKQVVETLLSDQ-SGSFKQVVLVEFPRRGIWAIAFVTGEKAGELKEKEGRPMVAVFVPTT 162 (222)
T ss_pred HHHHHHHHccCccHHHHHHHHHHHHHHHHhcC-CccceeeEEEECCCCCcEEEEEeccCCCcchhcccCCceEEEEcCCC
Confidence 99999999999999999999999999999864 458999999999999999999999986432 2244679999999999
Q ss_pred C-CCCceEEEEecCCeecCCCCHHHHHHHHhhhcccCCCCCCCC
Q 025146 198 H-LYIGDIFLVNSEEIIRPNLSVREGIEIIVSVGMTMPQVISPI 240 (257)
Q Consensus 198 P-ptsG~l~~Vp~~~V~~lDmsvEeAmk~iiS~Gv~~p~~~~~~ 240 (257)
| |||||+++||+||++++|||+|||+|+++|||++.|+.....
T Consensus 163 PNPTsGfl~~Vpkedi~~ldmtvEda~k~iIS~G~v~p~~~~~~ 206 (222)
T COG2928 163 PNPTSGFLLLVPKEDIVPLDMTVEDALKYIISGGVVAPDSLPAK 206 (222)
T ss_pred CCCCcceEEEEEHHHceeccccHHHHhheeeeccccCCCccccc
Confidence 9 899999999999999999999999999999999999855443
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=3.2e-31 Score=211.89 Aligned_cols=106 Identities=34% Similarity=0.635 Sum_probs=94.3
Q ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhcccccchhhHHHHHHHHHHhCCCCCCCCcCcEEEEEeCCCCeeEEEEEc
Q 025146 96 FLTSILFIFFVGVFASSWLGATVFWLGEWFIKRLPFMKHIYSASKQISAAISPDQNTSAFKEVAIIRHPRLGEYAFGFIT 175 (257)
Q Consensus 96 lli~llli~liG~La~~~~g~~l~~~~e~ll~rIPlvksIY~siKql~~~~~~~~~~~~f~~VVLVe~P~~g~~~iGFvT 175 (257)
+++++++||++|+++++++|+++++++|+++.|||+||+||+++||++++|+++++ ++|++||+||||++|+|++||+|
T Consensus 1 ~l~~l~~i~~iG~l~~~~~g~~l~~~~e~ll~riP~v~~iY~~~k~~~~~~~~~~~-~~f~~vVlV~~p~~g~~~igFvT 79 (108)
T PF04367_consen 1 FLILLLLIFLIGLLARNYFGKWLLNWLERLLQRIPLVKSIYSSIKQLVESFSGDKK-KSFKKVVLVEFPRPGMYVIGFVT 79 (108)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCchHHHHHHHHHHHHHHhhccc-ccCCeEEEEEecCCCcEEEEEEe
Confidence 35788999999999999999999999999999999999999999999999998754 45999999999999999999999
Q ss_pred cccccc-cCCCCCCeEEEEecCCC-CCCc
Q 025146 176 SSVVLQ-RDHGDEELCSVYVPTNH-LYIG 202 (257)
Q Consensus 176 ~~~~~~-~~~~~~~~v~VfvPtsP-ptsG 202 (257)
++...+ ....++++++||+|||| ||+|
T Consensus 80 ~~~~~~~~~~~~~~~v~VfvPtsPnPtsG 108 (108)
T PF04367_consen 80 GEDPGELPGKTGEEMVAVFVPTSPNPTSG 108 (108)
T ss_pred ccCcchhhccCCCCEEEEEeCCCCCCCCC
Confidence 987532 22234699999999999 5887
No 3
>PRK15350 type III secretion system protein SsaS; Provisional
Probab=88.98 E-value=9.4 Score=29.79 Aligned_cols=79 Identities=16% Similarity=0.228 Sum_probs=53.2
Q ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Q 025146 46 SWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVGVFASSWLGATVFWLGEWF 125 (257)
Q Consensus 46 ~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG~La~~~~g~~l~~~~e~l 125 (257)
...++.+...+.+.+|+.+.-.++.-+++.+....+ +-+ .-++++-=++.++++-+++-.|.++.+.++.+++
T Consensus 8 ~l~~~al~~~l~ls~P~L~~alvVGlvIsi~QA~TQ-IQE------qTLsFvPKliav~~~l~~~gpWm~~~l~~ft~~i 80 (88)
T PRK15350 8 QFVTQLLWIVLFTSMPVVLVASVVGVIVSLVQALTQ-IQD------QTLQFMIKLLAIAITLMVSYPWLSGILLNYTRQI 80 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346777999999999999988888876665543321 000 1234444444555555566677788888999999
Q ss_pred hccccc
Q 025146 126 IKRLPF 131 (257)
Q Consensus 126 l~rIPl 131 (257)
+.+||-
T Consensus 81 f~~i~~ 86 (88)
T PRK15350 81 MLRIGE 86 (88)
T ss_pred HHhhhh
Confidence 999884
No 4
>cd01277 HINT_subgroup HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life. Although the biochemical function has not been characterised for many of the members of this subgroup, the proteins from Yeast have been shown to be involved in secretion, peroxisome formation and gene expression.
Probab=88.34 E-value=0.95 Score=34.46 Aligned_cols=41 Identities=15% Similarity=0.246 Sum_probs=34.9
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHHHHHHH
Q 025146 186 DEELCSVYVPTNHLYIGDIFLVNSEEIIRP-NLSVREGIEII 226 (257)
Q Consensus 186 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEeAmk~i 226 (257)
+++...+|+|-.|..-|.++++|++-+..+ |++.||...+.
T Consensus 19 e~~~~~a~~~~~~~~pg~~lI~Pk~H~~~~~~l~~~e~~~l~ 60 (103)
T cd01277 19 EDDHVLAFLDINPASKGHTLVIPKKHYENLLDLDPEELAELI 60 (103)
T ss_pred eCCCEEEEECCCCCCCeeEEEEeccccCChhhCCHHHHHHHH
Confidence 467889999999998999999999999766 89998765554
No 5
>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=88.32 E-value=6.2 Score=37.65 Aligned_cols=23 Identities=13% Similarity=0.094 Sum_probs=18.2
Q ss_pred HHHHHHHHHhcccccchhhHHHH
Q 025146 117 TVFWLGEWFIKRLPFMKHIYSAS 139 (257)
Q Consensus 117 ~l~~~~e~ll~rIPlvksIY~si 139 (257)
+.-.++|+++.|||+++++|...
T Consensus 242 ~~r~~~~~~l~kiP~~g~~~~~~ 264 (399)
T TIGR02120 242 AFRLRFDRRLLRLPVIGRLVRGL 264 (399)
T ss_pred HHHHHHHHHHhcccchHHHHHHH
Confidence 34457899999999999998643
No 6
>PRK05700 fliQ flagellar biosynthesis protein FliQ; Validated
Probab=87.77 E-value=11 Score=29.34 Aligned_cols=79 Identities=14% Similarity=0.254 Sum_probs=54.2
Q ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Q 025146 46 SWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVGVFASSWLGATVFWLGEWF 125 (257)
Q Consensus 46 ~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG~La~~~~g~~l~~~~e~l 125 (257)
...++.+...+...+|+.++-.++.-+++.+....+ +. =.-++++-=++.++++-++.-.|.++.+.++.+++
T Consensus 8 ~l~~~al~~~l~ls~P~l~~alvVGlvIsi~QA~TQ-----Iq--EqTLsFvPKliav~~~l~~~g~Wm~~~l~~f~~~i 80 (89)
T PRK05700 8 DLFREAMKVALMLAAPLLLVALVVGLVVSIFQAATQ-----IN--EQTLSFIPKILAVLLTLIIAGPWMLNTLLDYTRTL 80 (89)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HH--HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 446777899999999999988888866665543321 10 01234444445555555566678888899999999
Q ss_pred hccccc
Q 025146 126 IKRLPF 131 (257)
Q Consensus 126 l~rIPl 131 (257)
+.+||-
T Consensus 81 f~~i~~ 86 (89)
T PRK05700 81 FSNIPT 86 (89)
T ss_pred HHHHHh
Confidence 999985
No 7
>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=86.34 E-value=14 Score=28.83 Aligned_cols=79 Identities=15% Similarity=0.220 Sum_probs=53.9
Q ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Q 025146 46 SWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVGVFASSWLGATVFWLGEWF 125 (257)
Q Consensus 46 ~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG~La~~~~g~~l~~~~e~l 125 (257)
...++.+...+.+.+|+.+.-.++.-+++.+.... . +. =.-++++-=++.++++-+++-.+.++.+.++.+++
T Consensus 8 ~l~~~al~~~l~~s~P~l~~alvVGlvIsi~QA~T----Q-Iq--EqTLsFvPKliav~~~l~~~gpWm~~~l~~f~~~~ 80 (88)
T TIGR01402 8 DLGREAIWLTLLLSAPVLLVALVVGLVISIFQAAT----Q-IQ--EQTLSFIPKIIAILLALALLGPWMLTKLLDFTREI 80 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----H-HH--HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34677789999999999988888876666553332 1 10 01234444445555555666678888899999999
Q ss_pred hccccc
Q 025146 126 IKRLPF 131 (257)
Q Consensus 126 l~rIPl 131 (257)
+.+||-
T Consensus 81 f~~i~~ 86 (88)
T TIGR01402 81 FQRIPQ 86 (88)
T ss_pred HHHhhh
Confidence 999986
No 8
>PRK06010 fliQ flagellar biosynthesis protein FliQ; Reviewed
Probab=85.67 E-value=15 Score=28.64 Aligned_cols=79 Identities=19% Similarity=0.210 Sum_probs=52.0
Q ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Q 025146 46 SWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVGVFASSWLGATVFWLGEWF 125 (257)
Q Consensus 46 ~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG~La~~~~g~~l~~~~e~l 125 (257)
...++.+...+.+.+|+.+.-.++.-+++.+....+ +-+ .-++++-=++.++++=++.-.|.++.+.++.+++
T Consensus 8 ~l~~~al~~~l~~s~P~L~~alvVGliIsi~QA~TQ-IqE------qTLsFvPKliav~~~l~~~g~Wm~~~l~~f~~~i 80 (88)
T PRK06010 8 DIVRDAIWTVLVASGPAVLAAMVVGVAIALFQALTQ-IQE------MTLTFVPKIVAIFVTLLLTLPFMGAQISAFTLLI 80 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHH------HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346777999999999999988888766665533321 000 1233333344444455555567778888999999
Q ss_pred hccccc
Q 025146 126 IKRLPF 131 (257)
Q Consensus 126 l~rIPl 131 (257)
+.+||-
T Consensus 81 f~~i~~ 86 (88)
T PRK06010 81 YSRIAG 86 (88)
T ss_pred HHhhcc
Confidence 999884
No 9
>cd01275 FHIT FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into three branches: the Hint branch, which consists of adenosine 5' -monophosphoramide hydrolases, the Fhit branch, that consists of diadenosine polyphosphate hydrolases, and the GalT branch consisting of specific nucloside monophosphate transferases. Fhit plays a very important role in the development of tumours. Infact, Fhit deletions are among the earliest and most frequent genetic alterations in the development of tumours.
Probab=84.42 E-value=2 Score=34.45 Aligned_cols=44 Identities=16% Similarity=0.144 Sum_probs=35.6
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHHHHHHHhhh
Q 025146 186 DEELCSVYVPTNHLYIGDIFLVNSEEIIRP-NLSVREGIEIIVSV 229 (257)
Q Consensus 186 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEeAmk~iiS~ 229 (257)
+++.+.+|+|-.|.+.|.++++|++.+..+ |++-||...+.-..
T Consensus 19 e~~~~~~~~~~~p~~~gh~lIiPk~H~~~~~~L~~~e~~~l~~~~ 63 (126)
T cd01275 19 RTKHSFAVVNLYPYNPGHVLVVPYRHVPRLEDLTPEEIADLFKLV 63 (126)
T ss_pred eCCCEEEEEcCCCCCCCcEEEEeccccCChhhCCHHHHHHHHHHH
Confidence 467889999999988999999999999765 89988766554333
No 10
>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=83.94 E-value=18 Score=31.61 Aligned_cols=81 Identities=16% Similarity=0.094 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhhHHHH
Q 025146 39 ACYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVGVFASSWLGATV 118 (257)
Q Consensus 39 ~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG~La~~~~g~~l 118 (257)
+-+.+||+.=+++ .++.-+|.+++-..+.|.|= ...-+.|.-..+|++ |.+...+..+.|-.+|+|+--.+|..+
T Consensus 28 ~~ffkLRk~rrr~---~~~~si~t~~~g~~~g~~yl-~~~~~D~~~~I~GlD-P~~~~g~~t~a~g~lG~L~GP~~G~~v 102 (173)
T PF08566_consen 28 NEFFKLRKSRRRI---NLVSSIPTGLLGSSAGWAYL-STIEIDPTQQIMGLD-PFMVYGLATLACGALGWLVGPSLGNQV 102 (173)
T ss_pred HHHHHHHHHhhHH---HHHhHHHHHHHHHHHHHHHH-hhccccccccccCcC-HHHHHHHHHHHHHHHHHHhcchHHHHH
Confidence 5556666653443 44555555555555555442 122223333333555 445556666789999999999999988
Q ss_pred HHHHHH
Q 025146 119 FWLGEW 124 (257)
Q Consensus 119 ~~~~e~ 124 (257)
++...+
T Consensus 103 f~l~~r 108 (173)
T PF08566_consen 103 FRLLNR 108 (173)
T ss_pred HHHHhH
Confidence 877654
No 11
>PRK12781 fliQ flagellar biosynthesis protein FliQ; Reviewed
Probab=83.56 E-value=19 Score=28.08 Aligned_cols=80 Identities=19% Similarity=0.224 Sum_probs=53.5
Q ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Q 025146 45 QSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVGVFASSWLGATVFWLGEW 124 (257)
Q Consensus 45 ~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG~La~~~~g~~l~~~~e~ 124 (257)
-...++.+...+.+-+|+.+.-.++.-+++.+.... . +. =.-++++-=++.++++=++.-.+.++.+.++.++
T Consensus 7 i~~~~~al~~~l~ls~P~L~~alvVGlvIsi~QA~T----Q-IQ--EqTLsFvPKliav~~~l~~~~~wm~~~l~~ft~~ 79 (88)
T PRK12781 7 LELVRAAIWTIIVASGPAVGAAMLVGIAIALLQALT----Q-IQ--EVTLTFVPKIVVILIVMAVTGSFVGAQIYAFTEM 79 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----H-HH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345677889999999999988888876666543322 1 10 0123444444455555556667788888999999
Q ss_pred Hhccccc
Q 025146 125 FIKRLPF 131 (257)
Q Consensus 125 ll~rIPl 131 (257)
++.+||-
T Consensus 80 if~~i~~ 86 (88)
T PRK12781 80 VYGRIES 86 (88)
T ss_pred HHHhhcc
Confidence 9999884
No 12
>cd00468 HIT_like HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified in the literacture into three major branches: the Hint branch, which consists of adenosine 5' -monophosphoramide hydrolases, the Fhit branch, that consists of diadenosine polyphosphate hydrolases, and the GalT branch consisting of specific nucloside monophosphate transferases. Further sequence analysis reveals several new closely related, yet uncharacterized subgroups.
Probab=83.32 E-value=2 Score=31.33 Aligned_cols=41 Identities=12% Similarity=0.190 Sum_probs=32.9
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHHHHHHH
Q 025146 186 DEELCSVYVPTNHLYIGDIFLVNSEEIIRP-NLSVREGIEII 226 (257)
Q Consensus 186 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEeAmk~i 226 (257)
+++.+.+|+|-.|...|-++++|++-+..+ |++.|+...+.
T Consensus 3 e~~~~~a~~~~~p~~~gh~lIipk~H~~~~~~l~~~~~~~l~ 44 (86)
T cd00468 3 DDEHSFAFVNLKPAAPGHVLVCPKRHVETLPDLDEALLADLV 44 (86)
T ss_pred ecCcEEEEECCCCCCCCcEEEeCchhhCChhHCCHHHHHHHH
Confidence 467889999999988999999999988665 88876554443
No 13
>COG1459 PulF Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=83.02 E-value=6.7 Score=38.27 Aligned_cols=22 Identities=14% Similarity=0.157 Sum_probs=17.9
Q ss_pred HHHHHHHHHhcccccchhhHHH
Q 025146 117 TVFWLGEWFIKRLPFMKHIYSA 138 (257)
Q Consensus 117 ~l~~~~e~ll~rIPlvksIY~s 138 (257)
+.-.+.|+++.|+|+++.+...
T Consensus 239 ~~r~~~~~~llrlP~~g~l~~~ 260 (397)
T COG1459 239 AGRRRLDRLLLRLPLFGKLVRK 260 (397)
T ss_pred HHHHHHHhHHhcCCcHHHHHHH
Confidence 4456789999999999998753
No 14
>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=82.62 E-value=20 Score=27.56 Aligned_cols=77 Identities=12% Similarity=0.344 Sum_probs=49.3
Q ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHh
Q 025146 47 WVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVGVFASSWLGATVFWLGEWFI 126 (257)
Q Consensus 47 ~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG~La~~~~g~~l~~~~e~ll 126 (257)
..++.+...+.+.+|+.+.-.++.-+.+.+....+ +-+ .-++++-=++.++++=++.-.+..+.+.++.++++
T Consensus 5 ~~~~al~~~l~~s~P~L~~alvVGLvIsi~QA~TQ-IqE------qTLsFvPKliav~~~l~~~~pwm~~~l~~f~~~if 77 (81)
T TIGR01403 5 LTNQALLLVLILSLPPVLVAAIVGLLVSLLQALTQ-LQD------QTLPFAIKLIAVFITLMLTAGWLGAEILNFANQIF 77 (81)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHH------HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35777889999999999988888766665533321 000 11333333334444444555667778888999999
Q ss_pred cccc
Q 025146 127 KRLP 130 (257)
Q Consensus 127 ~rIP 130 (257)
++||
T Consensus 78 ~~i~ 81 (81)
T TIGR01403 78 TMIP 81 (81)
T ss_pred hhCC
Confidence 8886
No 15
>PRK09824 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional
Probab=81.56 E-value=11 Score=39.01 Aligned_cols=69 Identities=13% Similarity=0.284 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHH-HHHHHHHHHHHHHhhHHHHHHHHHHHhcccc
Q 025146 59 LFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTS-ILFIFFVGVFASSWLGATVFWLGEWFIKRLP 130 (257)
Q Consensus 59 lLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~-llli~liG~La~~~~g~~l~~~~e~ll~rIP 130 (257)
++|+++++|+..|+-+++++++...++.+ -.|.+.++++ .+.++++|=+.. ++|..+-..+.++...-|
T Consensus 219 ViPiil~v~~~s~iEk~l~K~iP~~l~~i--~~P~ltlli~~pl~l~viGPig~-~i~~~l~~~i~~l~~~~~ 288 (627)
T PRK09824 219 VIPIIFSAWLCSILERRLNAWLPSAIKNF--FTPLLCLMVIVPLTFLLIGPLAT-WLSELLAAGYQWLYQAVP 288 (627)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhHHHHHH-HHHHHHHHHHHHHHhhch
Confidence 79999999999999999999876665543 1244444332 234444444432 344444444455554443
No 16
>PF01230 HIT: HIT domain; InterPro: IPR001310 The Histidine Triad (HIT) motif, His-x-His-x-His-x-x (x, a hydrophobic amino acid) was identified as being highly conserved in a variety of organisms []. Crystal structure of rabbit Hint, purified as an adenosine and AMP-binding protein, showed that proteins in the HIT superfamily are conserved as nucleotide-binding proteins and that Hint homologues, which are found in all forms of life, are structurally related to Fhit homologues and GalT-related enzymes, which have more restricted phylogenetic profiles []. Hint homologues including rabbit Hint and yeast Hnt1 hydrolyse adenosine 5' monophosphoramide substrates such as AMP-NH2 and AMP-lysine to AMP plus the amine product and function as positive regulators of Cdk7/Kin28 in vivo []. Fhit homologues are diadenosine polyphosphate hydrolases [] and function as tumour suppressors in human and mouse [] though the tumour suppressing function of Fhit does not depend on ApppA hydrolysis []. The third branch of the HIT superfamily, which includes GalT homologues, contains a related His-X-His-X-Gln motif and transfers nucleoside monophosphate moieties to phosphorylated second substrates rather than hydrolysing them [].; PDB: 3LB5_B 1EMS_A 1Y23_A 3ANO_B 1KPE_B 1KPC_A 4EQE_B 1KPA_A 1KPB_B 4EQG_B ....
Probab=79.41 E-value=2.4 Score=32.35 Aligned_cols=41 Identities=10% Similarity=0.284 Sum_probs=33.4
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHHHHHHH
Q 025146 186 DEELCSVYVPTNHLYIGDIFLVNSEEIIRP-NLSVREGIEII 226 (257)
Q Consensus 186 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEeAmk~i 226 (257)
+++.+.+|+...|.+-|.++++|++.+..+ |++-++...+.
T Consensus 11 e~~~~~~~~~~~p~~~gh~LVipk~H~~~l~dl~~~~~~~l~ 52 (98)
T PF01230_consen 11 EDDHFVAFLDIFPISPGHLLVIPKRHVESLSDLPPEERAELM 52 (98)
T ss_dssp E-SSEEEEEESSTSSTTEEEEEESSTGSSGGGSHHHHHHHHH
T ss_pred ECCCEEEEEcCCCCCCeEEEEEecccccchhcCCHHHHHHHH
Confidence 457788999998988999999999999886 88877766554
No 17
>COG1987 FliQ Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=79.36 E-value=28 Score=27.29 Aligned_cols=78 Identities=17% Similarity=0.232 Sum_probs=52.5
Q ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHh
Q 025146 47 WVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVGVFASSWLGATVFWLGEWFI 126 (257)
Q Consensus 47 ~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG~La~~~~g~~l~~~~e~ll 126 (257)
..++.+-.+|....|+.+.-.++.-++........ +-+ --+.++==++.++++..++--|.++++.++...++
T Consensus 9 i~~~ai~~~L~l~~P~ll~alvvGLvIsifQA~TQ-IqE------qTLsFiPKIiai~~~l~~~gpWm~~~l~dft~~if 81 (89)
T COG1987 9 IGQEAIWLVLMLSAPVLLVALVVGLVISIFQAATQ-IQE------QTLSFIPKIIAVFLVLILLGPWMLNQLLDFTVTIF 81 (89)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHH------HHHHhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 35667888999999998888887765554433211 000 01233334455666666777888899999999999
Q ss_pred ccccc
Q 025146 127 KRLPF 131 (257)
Q Consensus 127 ~rIPl 131 (257)
+|||.
T Consensus 82 ~~i~~ 86 (89)
T COG1987 82 SNIPQ 86 (89)
T ss_pred HHHHh
Confidence 99986
No 18
>PRK12772 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional
Probab=77.85 E-value=24 Score=36.37 Aligned_cols=42 Identities=12% Similarity=0.203 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025146 39 ACYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFF 80 (257)
Q Consensus 39 ~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l 80 (257)
..+..+.+++.+.|..|+...+|+++++.++...+.++.+..
T Consensus 163 ~~~~~~~~~~~~~F~~al~lAaP~i~~lll~~~~lGllsR~a 204 (609)
T PRK12772 163 ESIMHVINVFIQYFYIGIKIAIPIVLIILITDLTLGLISRTV 204 (609)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 445566677889999999999999999999998888887764
No 19
>PRK11007 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional
Probab=77.68 E-value=16 Score=36.58 Aligned_cols=86 Identities=8% Similarity=0.119 Sum_probs=56.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHH-HHHHHHHHHHhhHHHHHHHHHHHhc-cc-ccchh
Q 025146 58 VLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILF-IFFVGVFASSWLGATVFWLGEWFIK-RL-PFMKH 134 (257)
Q Consensus 58 vlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~lll-i~liG~La~~~~g~~l~~~~e~ll~-rI-Plvks 134 (257)
-++|++++.|+..|+.++++++....++.+ -.|.+.++++..+ ++++|=+. ++++..+-+.++++.. .. ++..-
T Consensus 231 sViP~Il~v~~~s~iek~l~K~~P~~l~~i--~~Plltlli~~~l~l~viGPig-~~i~~~i~~~i~~L~~~~~~~ig~~ 307 (473)
T PRK11007 231 QVIPALLAGLALGFIETRLKRIVPDYLYLV--VVPVCSLILAVFLAHALIGPFG-RMIGDGVAFAVKALMTGSFAPIGAA 307 (473)
T ss_pred CcHHHHHHHHHHHHHHHHHHHhCcHHHHHH--HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhcchHHHHHH
Confidence 579999999999999999999875555532 1355665554333 34666544 3566666666777663 33 45566
Q ss_pred hHHHHHHHHHHh
Q 025146 135 IYSASKQISAAI 146 (257)
Q Consensus 135 IY~siKql~~~~ 146 (257)
++..+-+..=.+
T Consensus 308 i~g~~~~~lV~~ 319 (473)
T PRK11007 308 LFGFLYAPLVIT 319 (473)
T ss_pred HHHHHHHHHHHh
Confidence 777777755443
No 20
>PRK09796 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional
Probab=77.15 E-value=19 Score=35.97 Aligned_cols=84 Identities=18% Similarity=0.165 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHH-HHHHHHHHHHHHHHhhHHHHHHHHHHHhcccc-cchhh
Q 025146 58 VLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLT-SILFIFFVGVFASSWLGATVFWLGEWFIKRLP-FMKHI 135 (257)
Q Consensus 58 vlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli-~llli~liG~La~~~~g~~l~~~~e~ll~rIP-lvksI 135 (257)
.++|+++++|+..++-++++++....++.+= .|.+.+++ ..+.++++|=+. +++|..+-..+.++.+.-| +..-|
T Consensus 220 sViPiil~v~~~s~vek~~~K~~P~~l~~i~--~P~ltlli~~pl~l~viGPig-~~i~~~i~~~i~~l~~~~~~i~g~i 296 (472)
T PRK09796 220 TVIPALVMTWCLSYIERWVDRITPAVTKNFL--KPMLIVLIAAPLAILLIGPIG-IWIGSAISALVYTIHGYLGWLSVAI 296 (472)
T ss_pred chHHHHHHHHHHHHHHHHHHHhCHHHHHHHH--HHHHHHHHHHHHHHHhHHHHH-HHHHHHHHHHHHHHHhcchHHHHHH
Confidence 3689999999999999999888766555321 24343332 233334444332 2444444455555554443 44556
Q ss_pred HHHHHHHHH
Q 025146 136 YSASKQISA 144 (257)
Q Consensus 136 Y~siKql~~ 144 (257)
+..+-+..=
T Consensus 297 ~g~~~~~lV 305 (472)
T PRK09796 297 MGALWPLLV 305 (472)
T ss_pred HHHHHHHHH
Confidence 666666543
No 21
>PRK15333 type III secretion system protein SpaQ; Provisional
Probab=76.87 E-value=33 Score=26.69 Aligned_cols=78 Identities=12% Similarity=0.059 Sum_probs=51.4
Q ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHh
Q 025146 47 WVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVGVFASSWLGATVFWLGEWFI 126 (257)
Q Consensus 47 ~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG~La~~~~g~~l~~~~e~ll 126 (257)
..++.+...+.+.+|+.+.-.++.-+++.+....+ +-+ .-+.++-=++.++++=++.-.+.++.+.++.++++
T Consensus 7 ~~~~al~~~l~ls~P~L~valvVGlvIsi~QA~TQ-IQE------qTLsFvPKliav~~~l~~~~pwm~~~l~~f~~~if 79 (86)
T PRK15333 7 AGNKALYLVLILSGWPTIVATIIGLLVGLFQTVTQ-LQE------QTLPFGIKLLGVCLCLFLLSGWYGEVLLSYGRQVI 79 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHH------HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35777889999999999888888766665533321 000 12344434444455555566777888889999999
Q ss_pred ccccc
Q 025146 127 KRLPF 131 (257)
Q Consensus 127 ~rIPl 131 (257)
..+|-
T Consensus 80 ~~~~~ 84 (86)
T PRK15333 80 FLALA 84 (86)
T ss_pred Hhhhc
Confidence 88874
No 22
>PRK10573 type IV pilin biogenesis protein; Provisional
Probab=76.86 E-value=37 Score=32.43 Aligned_cols=18 Identities=17% Similarity=0.344 Sum_probs=15.2
Q ss_pred HHHHHHhcccccchhhHH
Q 025146 120 WLGEWFIKRLPFMKHIYS 137 (257)
Q Consensus 120 ~~~e~ll~rIPlvksIY~ 137 (257)
.+.++++.|+|+++.+|.
T Consensus 244 ~~~~~~l~~iP~~g~~~~ 261 (399)
T PRK10573 244 IREQRLLLRLPLVGSLIR 261 (399)
T ss_pred HHHHHHHhcCCeeccccc
Confidence 457899999999998775
No 23
>PRK09586 murP PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed
Probab=74.87 E-value=22 Score=35.56 Aligned_cols=82 Identities=15% Similarity=0.166 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHH-HHHHHHHHHHHHHHhhHHHHHHHHHHHhcccccchhhH
Q 025146 58 VLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLT-SILFIFFVGVFASSWLGATVFWLGEWFIKRLPFMKHIY 136 (257)
Q Consensus 58 vlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli-~llli~liG~La~~~~g~~l~~~~e~ll~rIPlvksIY 136 (257)
-++|+.+++|+..++-++++++....++.+= .|.+.+++ ..+.++++|=+. +++|..+-+.+.++... ++..-++
T Consensus 230 sViPiil~v~~~s~iek~~~K~iP~~l~~i~--~P~ltlli~~p~~l~viGP~g-~~i~~~i~~~~~~l~~~-~~~~~i~ 305 (476)
T PRK09586 230 NIIGVLIAAIAGARIERMVRRFMPDDLDMIL--TSLITLLITGALAFLIIMPLG-GWLFEGMSWLFMHLNSN-PFGCAVL 305 (476)
T ss_pred chHHHHHHHHHHHHHHHHHHhhCHHHHHHHH--HHHHHHHHHHHHHHHhHHhHH-HHHHHHHHHHHHHHHhh-HHHHHHH
Confidence 4789999999999999999888766555321 23333332 233344444433 24444444444444433 5556666
Q ss_pred HHHHHHH
Q 025146 137 SASKQIS 143 (257)
Q Consensus 137 ~siKql~ 143 (257)
..+.+..
T Consensus 306 g~~~~~l 312 (476)
T PRK09586 306 AGLFLIA 312 (476)
T ss_pred HHHHHHH
Confidence 6666654
No 24
>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=74.51 E-value=25 Score=34.94 Aligned_cols=85 Identities=8% Similarity=0.069 Sum_probs=52.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHH-HHHHHHHHhhHHHHHHHHHHHhcccccc-hhhH
Q 025146 59 LFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIF-FVGVFASSWLGATVFWLGEWFIKRLPFM-KHIY 136 (257)
Q Consensus 59 lLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~-liG~La~~~~g~~l~~~~e~ll~rIPlv-ksIY 136 (257)
++|.+++.|+..++-+++++++...++.+ -.|.+.+++.+.+.+ ++|-+. .+++..+.+.+.++....|.+ .-+|
T Consensus 233 Vip~Il~g~i~~yiek~~~k~lP~~l~~~--~vP~lt~lv~~~l~~~vigPi~-~~i~~~i~~~~~~l~~~~~~i~g~i~ 309 (462)
T TIGR01992 233 VLPALLAGYVLAVIEKWLRKRVPDAIQLL--VVPPVSLLVTGFLAHAIIGPIG-RLIGNGITSGVTALFTSAAWLGGAIF 309 (462)
T ss_pred HHHHHHHHHHHHHHHHHHHcCChHHHHHH--HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhCcHHHHHHH
Confidence 58899999999999888888765555543 235555544433333 445432 345555555556666666644 4488
Q ss_pred HHHHHHHHHh
Q 025146 137 SASKQISAAI 146 (257)
Q Consensus 137 ~siKql~~~~ 146 (257)
..+-+..=.+
T Consensus 310 G~l~~~lV~~ 319 (462)
T TIGR01992 310 GLLYAPLVIT 319 (462)
T ss_pred HHHHHHHHHh
Confidence 8888766544
No 25
>PRK09765 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional
Probab=74.05 E-value=15 Score=37.90 Aligned_cols=69 Identities=16% Similarity=0.228 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhhc----c-cchhhhHHHHHH-HHHHHHHHHHHHhhHHHHHHHHHHHhccc
Q 025146 59 LFPVAVTFLVTWWFIEFVDSFFSPIYARL----G-VEIFGLGFLTSI-LFIFFVGVFASSWLGATVFWLGEWFIKRL 129 (257)
Q Consensus 59 lLPl~vTi~il~wl~~~vd~~l~pl~~~l----g-~~ipglglli~l-lli~liG~La~~~~g~~l~~~~e~ll~rI 129 (257)
++|.++..|+..|+.+++++++ |.-+.+ . +-+|.++++++. +.++++|-.. ++++..+.+++.++...-
T Consensus 381 flg~Ii~~~l~gyv~~~l~k~i-p~~~~~~~~~~~~~~Pllt~li~~~l~~~viGp~~-~~i~~~l~~~l~~l~~~~ 455 (631)
T PRK09765 381 FLGAVVGGLIAGYLMRWVKNHL-RLSSKFNGFLTFYLYPVLGTLGAGSLMLFVVGEPV-AWINNSLTAWLNGLSGSN 455 (631)
T ss_pred cHHHHHHHHHHHHHHHHHHHHC-CCchhhhhhcCEEeehHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhhh
Confidence 5788888888888888888876 321111 1 124777766554 4456888777 678888888888776653
No 26
>cd01276 PKCI_related Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a hydrophobic residue) that is a signature for this family. No enzymatic activity has been reported however, for PKCI and its related members.
Probab=73.83 E-value=4.1 Score=31.15 Aligned_cols=34 Identities=9% Similarity=0.115 Sum_probs=28.2
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCH
Q 025146 186 DEELCSVYVPTNHLYIGDIFLVNSEEIIRP-NLSV 219 (257)
Q Consensus 186 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-Dmsv 219 (257)
+++.+.+|+|..|...|.++++|++.+..+ |++.
T Consensus 19 e~~~~~a~~~~~p~~~gh~lIiPk~H~~~~~dl~~ 53 (104)
T cd01276 19 EDDEVLAFHDINPQAPVHILVIPKKHIASLSDATE 53 (104)
T ss_pred ECCCEEEEECCCCCCCCEEEEEecceeCChHHccc
Confidence 467889999999988999999999998665 6543
No 27
>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=71.88 E-value=25 Score=35.37 Aligned_cols=87 Identities=8% Similarity=0.026 Sum_probs=59.4
Q ss_pred HHHHHHHHHHHHHHH-HHHhhhhhhhhhhccc--chhhhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhcccc-cchh
Q 025146 59 LFPVAVTFLVTWWFI-EFVDSFFSPIYARLGV--EIFGLGFLTSILFIFFVGVFASSWLGATVFWLGEWFIKRLP-FMKH 134 (257)
Q Consensus 59 lLPl~vTi~il~wl~-~~vd~~l~pl~~~lg~--~ipglglli~llli~liG~La~~~~g~~l~~~~e~ll~rIP-lvks 134 (257)
++|.++..++..|++ ++.+..+...+++++. -.|.+.+++.+.+-+++|.+-. +++..+-+..+++.+.-| +-.-
T Consensus 135 V~~~Il~g~i~a~l~nk~~~k~lP~~l~~f~G~rfvPiit~lv~~~l~~i~~~iwp-~i~~~i~~~~~~l~~~~~~~g~~ 213 (502)
T TIGR02002 135 VFGGIIIGAIAAYCYNRFYNIKLPEYLGFFAGKRFVPIITGLAAIVTGIVLSFIWP-PVQDALNTFSHWAAYQNPVVAFF 213 (502)
T ss_pred cHHHHHHHHHHHHHHHHHhcccCcHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHcCcHHHHH
Confidence 589999999999999 7888887777776632 2566666655555555555543 566666666666665554 5566
Q ss_pred hHHHHHHHHHHh
Q 025146 135 IYSASKQISAAI 146 (257)
Q Consensus 135 IY~siKql~~~~ 146 (257)
+|..+.++.=.+
T Consensus 214 i~G~l~r~Lv~~ 225 (502)
T TIGR02002 214 IFGFIERSLIPF 225 (502)
T ss_pred HHHHHHHHHHHh
Confidence 898888866443
No 28
>COG1684 FliR Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=70.91 E-value=64 Score=29.87 Aligned_cols=42 Identities=14% Similarity=0.319 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025146 39 ACYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFF 80 (257)
Q Consensus 39 ~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l 80 (257)
+.+.-+-+++...|..|+..-+|++....+++-.+..+++..
T Consensus 166 ~~~~~l~~~l~~~F~~~l~iAlPii~~lLlvnlalGlv~R~~ 207 (258)
T COG1684 166 NAFLLLAKALSAIFLIGLRLALPIIALLLLVNLALGLLNRLA 207 (258)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 556666777888899999999999999999998888887754
No 29
>PRK15083 PTS system mannitol-specific transporter subunit IICBA; Provisional
Probab=70.55 E-value=11 Score=38.86 Aligned_cols=83 Identities=13% Similarity=0.051 Sum_probs=54.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhH----HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhcc--ccc
Q 025146 58 VLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLG----FLTSILFIFFVGVFASSWLGATVFWLGEWFIKR--LPF 131 (257)
Q Consensus 58 vlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglg----lli~llli~liG~La~~~~g~~l~~~~e~ll~r--IPl 131 (257)
.++|..++.|+..|+-+++++.+...++.+- .|.+. +++..+.++++|=+.. ++|..+-++++++... .|+
T Consensus 101 svip~il~~~~~~~vek~l~k~ip~~l~~~~--~P~~tlli~~i~~~l~~~viGP~g~-~i~~~l~~~i~~l~~~~~~~~ 177 (639)
T PRK15083 101 AMIAGPLGGWAIKHFDRWVDGKIKSGFEMLV--NNFSAGIIGMILAILAFLGIGPAVE-VLSKMLAAGVNFMVVHDLLPL 177 (639)
T ss_pred chHHHHHHHHHHHHHHHHHHhhccchhhHhh--hhHHHHHHHHHHHHHHheeeHHHHH-HHHHHHHHHHHHHHhCcchhH
Confidence 6899999999999999999888766665432 23322 2234566677777654 6777777777777765 444
Q ss_pred c-hhhHHHHHHHH
Q 025146 132 M-KHIYSASKQIS 143 (257)
Q Consensus 132 v-ksIY~siKql~ 143 (257)
+ .-++..+-++.
T Consensus 178 ~a~~i~~~~~~~l 190 (639)
T PRK15083 178 TSIFVEPAKILFL 190 (639)
T ss_pred HHHHHHHHHHHHH
Confidence 3 33445555544
No 30
>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=69.99 E-value=42 Score=33.24 Aligned_cols=85 Identities=14% Similarity=0.214 Sum_probs=57.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHH-HHHHHHHHHHHHHhhHHHHHHHHHHHhcccc-cchhhH
Q 025146 59 LFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTS-ILFIFFVGVFASSWLGATVFWLGEWFIKRLP-FMKHIY 136 (257)
Q Consensus 59 lLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~-llli~liG~La~~~~g~~l~~~~e~ll~rIP-lvksIY 136 (257)
++|..++.|+..|+-+++++.+...++.+ -.|.+.+++. ++.++++|.+.. +++..+.++.+++.+.-+ +..-+|
T Consensus 230 Vip~Il~g~i~~~iek~~~k~~P~~l~~~--~vP~l~~lv~~~l~~~vigp~~~-~i~~~i~~~~~~l~~~~~~i~~~i~ 306 (461)
T TIGR01996 230 VLPVLVAVWILAKIEKFLRKVVPNALDLL--LTPFLTLLITGFLTLLVIGPIGR-WVGDVLTDGLQWLYDLPGGLGGLLF 306 (461)
T ss_pred HHHHHHHHHHHHHHHHHHHHhchhhhhhh--hHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhccHHHHHHHH
Confidence 88999999999999889988877666543 2355555444 444445666644 566677777777766433 455688
Q ss_pred HHHHHHHHHh
Q 025146 137 SASKQISAAI 146 (257)
Q Consensus 137 ~siKql~~~~ 146 (257)
..+.++...+
T Consensus 307 G~l~~~Lv~~ 316 (461)
T TIGR01996 307 GGLYSLIVIT 316 (461)
T ss_pred HHHHHHHHHh
Confidence 8888875544
No 31
>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=69.71 E-value=87 Score=28.34 Aligned_cols=43 Identities=9% Similarity=0.115 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025146 38 KACYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFF 80 (257)
Q Consensus 38 ~~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l 80 (257)
...+..+-+++.+.|..|+...+|+++...++.-.+..+.+..
T Consensus 163 ~~~~~~~~~~~~~~f~~al~lAaP~i~~lll~~l~lG~l~R~~ 205 (249)
T PF01311_consen 163 EEALQFIIKLFGQMFSLALQLAAPVIAALLLVDLALGLLSRAA 205 (249)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 3566667777899999999999999999999998888877654
No 32
>cd01278 aprataxin_related aprataxin related: Aprataxin, a HINT family hydrolase is mutated in ataxia oculomotor apraxia syndrome. All the members of this subgroup have the conserved HxHxHxx (where x is a hydrophobic residue) signature motif. Members of this subgroup are predominantly eukaryotic in origin.
Probab=69.66 E-value=9.3 Score=29.26 Aligned_cols=36 Identities=11% Similarity=0.158 Sum_probs=30.0
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHH
Q 025146 186 DEELCSVYVPTNHLYIGDIFLVNSEEIIRP-NLSVRE 221 (257)
Q Consensus 186 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEe 221 (257)
.++.+.+|.|..|-+-|-+.++|++.+..+ |++.|+
T Consensus 21 ~~~~~~a~~~~~p~~~~h~lIiPk~h~~~~~~l~~~~ 57 (104)
T cd01278 21 EDDRVVVFKDIYPKARHHYLVIPKEHIASLKALTKED 57 (104)
T ss_pred eCCCEEEEECCCCCCCceEEEEecCCCCChHHCCHhH
Confidence 467889999999988899999999998665 777653
No 33
>TIGR00851 mtlA PTS system, mannitol-specific IIC component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. The Fru family is a large and complex family which includes several sequenced fructose and mannitol-specific permeases as well as several putative PTS permeases of unknown specificities.The Fru family PTS systems typically have 3 domains, IIA, IIB and IIC, which may be found as 1 or more proteins. The fructose and mannitol transporters form separate phylogenetic clusters in this family. This family is specific for the IIC domain of the mannitol PTS transporters.
Probab=69.64 E-value=40 Score=32.15 Aligned_cols=83 Identities=13% Similarity=-0.060 Sum_probs=54.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHH----HHHHHHHHHHHHHHHHhhHHHHHHHHHHHhcc--ccc
Q 025146 58 VLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGF----LTSILFIFFVGVFASSWLGATVFWLGEWFIKR--LPF 131 (257)
Q Consensus 58 vlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglgl----li~llli~liG~La~~~~g~~l~~~~e~ll~r--IPl 131 (257)
.++|+.+++|+..|+-+++++.+...++.+- .|.+.+ ++..+.++++|=+.. ++|+.+-+.++++.+. -|.
T Consensus 93 sViP~il~v~~~s~iEk~l~K~iP~~l~~i~--~P~ltlli~li~~pl~l~viGPig~-~ig~~i~~~i~~l~~~~~~~~ 169 (338)
T TIGR00851 93 AMIMGPLGGWLIKKTDEFVQGKVKQGFEMLV--NNFSAGIIGFILTILAFEGIGPIVK-AISKILAAGVEAIVHAHLLPL 169 (338)
T ss_pred hHHHHHHHHHHHHHHHHHHHhhCcHHHHHhH--hhHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhCcchhH
Confidence 7899999999999999999998866665431 243333 223555566666654 5677777777777763 333
Q ss_pred -chhhHHHHHHHH
Q 025146 132 -MKHIYSASKQIS 143 (257)
Q Consensus 132 -vksIY~siKql~ 143 (257)
-.-++...-++.
T Consensus 170 ~~g~i~g~~~~~l 182 (338)
T TIGR00851 170 ASIFVEPAKILFL 182 (338)
T ss_pred HHHHHHHHHHHHH
Confidence 344555555554
No 34
>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=63.10 E-value=60 Score=26.06 Aligned_cols=80 Identities=13% Similarity=0.237 Sum_probs=41.2
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhc-ccchhhhHHHHHHHHHHHHHHHHHHhhHH----HHHHHHH
Q 025146 49 SKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARL-GVEIFGLGFLTSILFIFFVGVFASSWLGA----TVFWLGE 123 (257)
Q Consensus 49 ~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~l-g~~ipglglli~llli~liG~La~~~~g~----~l~~~~e 123 (257)
+|=|+.-++-++=+++.+++-.+.+..+..++....... ..-...++++++.+++++++.+..+.+.+ ...++.|
T Consensus 18 ~rG~~~~~~~l~~~i~a~~~a~~~~~~~~~~l~~~~~~~~~~~~~~iaf~~~f~~~~~i~~~i~~~l~~~~~~~~~~~~d 97 (146)
T PF02674_consen 18 RRGFIRELFSLIGLIVALFVAFLFYPPLAPFLSNYFSSLSPPFANIIAFIILFVLVYIIVRIIGKLLRRIVKKPFLGWLD 97 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccHHH
Confidence 555666667777777777777777766655554422000 11123345555555555555544444443 3344455
Q ss_pred HHhcc
Q 025146 124 WFIKR 128 (257)
Q Consensus 124 ~ll~r 128 (257)
+++.-
T Consensus 98 r~lG~ 102 (146)
T PF02674_consen 98 RLLGA 102 (146)
T ss_pred HHHHH
Confidence 55443
No 35
>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=63.09 E-value=52 Score=33.29 Aligned_cols=89 Identities=10% Similarity=0.051 Sum_probs=57.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhh-hhhhhhhccc--chhhhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhcccccchh-
Q 025146 59 LFPVAVTFLVTWWFIEFVDSF-FSPIYARLGV--EIFGLGFLTSILFIFFVGVFASSWLGATVFWLGEWFIKRLPFMKH- 134 (257)
Q Consensus 59 lLPl~vTi~il~wl~~~vd~~-l~pl~~~lg~--~ipglglli~llli~liG~La~~~~g~~l~~~~e~ll~rIPlvks- 134 (257)
++|.+++.++..|+++...+. +...+.+++. -.|.+.+++.+.+-+++.+. ..+++..++.+.+++...+.++.
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 VLGAVIVGLIVYKLHNRFYTVQMPDALAFFGGARFVPIISALVLAVVGLVIPLV--WPLFALMIMAIGQLIQRSGIFGPF 216 (517)
T ss_pred hHHHHHHHHHHHHHHHHHccccCchHHHHccCCcchHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhcChHHHH
Confidence 689999999999999999885 5555655532 24555554443333333222 44556666666677766554444
Q ss_pred hHHHHHHHHHHhCCC
Q 025146 135 IYSASKQISAAISPD 149 (257)
Q Consensus 135 IY~siKql~~~~~~~ 149 (257)
+|..+.++.=-+--+
T Consensus 217 iyG~l~rlLIp~GLH 231 (517)
T TIGR02004 217 LFGSGERLLLPIGLH 231 (517)
T ss_pred HHHHHHHHHHHhccc
Confidence 899999987766433
No 36
>PRK10687 purine nucleoside phosphoramidase; Provisional
Probab=62.59 E-value=11 Score=30.49 Aligned_cols=36 Identities=14% Similarity=0.189 Sum_probs=31.2
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHH
Q 025146 186 DEELCSVYVPTNHLYIGDIFLVNSEEIIRP-NLSVRE 221 (257)
Q Consensus 186 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEe 221 (257)
+++.+.+|+-..|..-|-++++|++-+..+ |++.|+
T Consensus 22 edd~~~aflD~~P~~~GH~LViPK~H~~~l~dl~~~~ 58 (119)
T PRK10687 22 QDELVTAFRDISPQAPTHILIIPNILIPTVNDVSAEH 58 (119)
T ss_pred ECCCEEEEEcCCCCCCccEEEEehhHhCChhHCChHH
Confidence 468889999888988999999999998776 888885
No 37
>PRK11404 putative PTS system transporter subunits IIBC; Provisional
Probab=62.55 E-value=33 Score=34.39 Aligned_cols=68 Identities=15% Similarity=0.084 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhh-----hhhhhhcccchhhhHHHHHH-HHHHHHHHHHHHhhHHHHHHHHHHHhcc
Q 025146 58 VLFPVAVTFLVTWWFIEFVDSFF-----SPIYARLGVEIFGLGFLTSI-LFIFFVGVFASSWLGATVFWLGEWFIKR 128 (257)
Q Consensus 58 vlLPl~vTi~il~wl~~~vd~~l-----~pl~~~lg~~ipglglli~l-lli~liG~La~~~~g~~l~~~~e~ll~r 128 (257)
-++|.+++.|+..|+.++++++. ..+.+. +-.|.++++++. +.++++|=... +++..+.+++.++...
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 56899999999999999998875 223332 124667765543 44457777665 5676777777766554
No 38
>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=61.94 E-value=43 Score=32.09 Aligned_cols=71 Identities=11% Similarity=-0.025 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhhc-c-cchhhhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhccc
Q 025146 58 VLFPVAVTFLVTWWFIEFVDSFFSPIYARL-G-VEIFGLGFLTSILFIFFVGVFASSWLGATVFWLGEWFIKRL 129 (257)
Q Consensus 58 vlLPl~vTi~il~wl~~~vd~~l~pl~~~l-g-~~ipglglli~llli~liG~La~~~~g~~l~~~~e~ll~rI 129 (257)
-++|..++.|+..|+-+++++.+...++.+ + .-+|.+.++++.+..+++|-.. ++++..+-+++.++.+.-
T Consensus 112 gII~gilag~~~~~lek~ikK~lP~~l~g~~~i~iiP~lt~li~~~~~~vigppi-~~i~~~l~~~l~~l~~~~ 184 (346)
T TIGR01427 112 GIIAGFLAGYVVKGLQKYIKKKLPQSLRGLKPILIIPLLGTLIVGALIYGINIPV-AYLNYGLSNWLNIMGSPN 184 (346)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhCcHHHHhCCceeehhHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhhh
Confidence 356777777777777777766554444411 0 1246677766666677777776 678888888887776653
No 39
>PRK15349 type III secretion system protein SsaT; Provisional
Probab=61.74 E-value=1.2e+02 Score=27.64 Aligned_cols=75 Identities=5% Similarity=-0.017 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhhHH
Q 025146 41 YAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVGVFASSWLGA 116 (257)
Q Consensus 41 ~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG~La~~~~g~ 116 (257)
+..+.+++.+.|..|+...+|++++..++.-.+..+.+.. |=++.+-...|.-.++..+++.+.++.+...+...
T Consensus 170 ~~~~~~~~~~~f~~al~lAaP~i~~lll~~~~lGll~R~~-PQlnvf~l~~P~k~~~gl~~l~l~~~~~~~~~~~~ 244 (259)
T PRK15349 170 LKYIQAEWRTLYQLCISFSLPAIICMVLADLALGLLNRSA-QQLNVFFFSMPLKSILVLLTLLISFPYALHHYLVE 244 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556778899999999999999999998888877654 22221111123222233333445555565554443
No 40
>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=59.46 E-value=24 Score=23.62 Aligned_cols=27 Identities=15% Similarity=0.328 Sum_probs=18.5
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHHH
Q 025146 44 LQSWVSKKFMTGCVVLFPVAVTFLVTW 70 (257)
Q Consensus 44 l~~~i~~~Fl~GLlvlLPl~vTi~il~ 70 (257)
+++|+..-+.+|+++++|+++.+..+.
T Consensus 5 L~nfl~Sl~aG~~iVv~~i~~ali~VS 31 (39)
T PF06596_consen 5 LSNFLLSLVAGAVIVVIPIAGALIFVS 31 (39)
T ss_dssp HHHHHHHHHHHH-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhhhhhhhhhhhhheEEEe
Confidence 456666666677799999988766543
No 41
>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=58.79 E-value=22 Score=31.47 Aligned_cols=84 Identities=14% Similarity=0.124 Sum_probs=42.4
Q ss_pred hHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhcccccchhhHHHHHHHHHHhCCCCCCC-CcCcEEEEEeCCCCeeEEE
Q 025146 94 LGFLTSILFIFFVGVFASSWLGATVFWLGEWFIKRLPFMKHIYSASKQISAAISPDQNTS-AFKEVAIIRHPRLGEYAFG 172 (257)
Q Consensus 94 lglli~llli~liG~La~~~~g~~l~~~~e~ll~rIPlvksIY~siKql~~~~~~~~~~~-~f~~VVLVe~P~~g~~~iG 172 (257)
+|+.+++++-++.++.+...--.|+ =.+|.=+|+ |=.+|.+.+ ++++++ .-++-.--+-.+...+.++
T Consensus 34 lG~~~Lv~~Sl~~~~~l~~ip~~wi----LGlLGliPI----~lGi~~l~~---~~~~~e~~~~~~~~~~~~~~~i~~Va 102 (191)
T PF03596_consen 34 LGFTILVLASLLGAFGLLFIPPEWI----LGLLGLIPI----YLGIKALFS---GEDDDEEEAEEKLNSPKSNSLILTVA 102 (191)
T ss_pred HHHHHHHHHHHHHHHHHHhCCHHHH----HHHHHHHHH----HHHHHHHHc---CCCccccccccccccccccchhHHhh
Confidence 4555555444444444443222222 245777888 888887653 222111 1110000001123356666
Q ss_pred EEccccccccCCCCCCeEEEEec
Q 025146 173 FITSSVVLQRDHGDEELCSVYVP 195 (257)
Q Consensus 173 FvT~~~~~~~~~~~~~~v~VfvP 195 (257)
++|=- .+.|..+||+|
T Consensus 103 ~iTiA-------nGgDNigIYiP 118 (191)
T PF03596_consen 103 AITIA-------NGGDNIGIYIP 118 (191)
T ss_pred hhhhh-------cCCCeEEEeeh
Confidence 66642 26789999999
No 42
>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=57.38 E-value=1.1e+02 Score=26.83 Aligned_cols=69 Identities=14% Similarity=0.185 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHHHH
Q 025146 39 ACYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVGVF 109 (257)
Q Consensus 39 ~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG~L 109 (257)
.+++++..-+.|.++ |+.+-+-+.+.+-++-.....+++.+.|++..+ ..+|.++++.++++.|-.|-.
T Consensus 14 ~~~~~~~~Tl~r~~~-g~~ia~~ig~~lG~~~~~~~~~~~~~~p~~~~l-~~iP~~~~~pl~~~~fG~g~~ 82 (202)
T TIGR01183 14 GLFWQIIASLTRVAV-GFSIAAIIGIAVGILIGLSKFLNAALDPIFQVL-RTIPPLAWLPIALAAFQDAQP 82 (202)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhCCHHHHHHHHHHHHhcCch
Confidence 566666666666444 555555555555555566778888999988654 345666666665555555443
No 43
>PRK15071 lipopolysaccharide ABC transporter permease; Provisional
Probab=57.13 E-value=56 Score=30.49 Aligned_cols=39 Identities=8% Similarity=0.279 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhh
Q 025146 41 YAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSF 79 (257)
Q Consensus 41 ~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~ 79 (257)
|+.+..++-|.++..+++.+-..+.++++.++++.++.+
T Consensus 2 M~il~rYi~r~~l~~~~~~l~~l~~l~~~~~~~~~l~~~ 40 (356)
T PRK15071 2 FGILDRYIGRTILSTIMLTLFMLVGLSGIIKFVDQLRKV 40 (356)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 456777888888888888888888888888888776664
No 44
>PRK10110 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional
Probab=56.87 E-value=80 Score=32.06 Aligned_cols=87 Identities=9% Similarity=0.049 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhh-hhhhhhhcc-c-chhhhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhcccccchh-
Q 025146 59 LFPVAVTFLVTWWFIEFVDSF-FSPIYARLG-V-EIFGLGFLTSILFIFFVGVFASSWLGATVFWLGEWFIKRLPFMKH- 134 (257)
Q Consensus 59 lLPl~vTi~il~wl~~~vd~~-l~pl~~~lg-~-~ipglglli~llli~liG~La~~~~g~~l~~~~e~ll~rIPlvks- 134 (257)
++|.+++.++..|+++...+. +...+.+++ . -.|.+.+++.+.+-+++.+ -.=++..+.+.+.+++..-+.++.
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 588889999999999988774 555555542 1 2455544443333333211 123344444555666666554444
Q ss_pred hHHHHHHHHHHhC
Q 025146 135 IYSASKQISAAIS 147 (257)
Q Consensus 135 IY~siKql~~~~~ 147 (257)
+|..+.++.=.+-
T Consensus 226 i~G~l~r~LVp~G 238 (530)
T PRK10110 226 LFGTGERLLLPFG 238 (530)
T ss_pred HHHHHHHHHHHhc
Confidence 8999999776554
No 45
>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=56.20 E-value=29 Score=23.88 Aligned_cols=26 Identities=19% Similarity=0.353 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHH
Q 025146 97 LTSILFIFFVGVFASSWLGATVFWLG 122 (257)
Q Consensus 97 li~llli~liG~La~~~~g~~l~~~~ 122 (257)
++..++++++|++..+.+.+.+-+.+
T Consensus 18 iv~AilIl~vG~~va~~v~~~~~~~l 43 (53)
T PF05552_consen 18 IVGAILILIVGWWVAKFVRKLVRRLL 43 (53)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556678889888877765444433
No 46
>TIGR01400 fliR flagellar biosynthetic protein FliR. This model recognizes the FliR protein of bacterial flagellar biosynthesis. It distinguishes FliR from the homologous proteins bacterial type III protein secretion systems, known by names such as YopT, EscT, and HrcT.
Probab=55.59 E-value=1.6e+02 Score=26.64 Aligned_cols=42 Identities=14% Similarity=0.347 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025146 39 ACYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFF 80 (257)
Q Consensus 39 ~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l 80 (257)
+.++.+.+.+.+.|..|+...+|+++.+.++.-.+.++.+..
T Consensus 157 ~~~~~~~~~~~~~f~~a~~lAaPvi~~~ll~~~~lGll~R~~ 198 (245)
T TIGR01400 157 NFFELILKALSDMFLLGLLLALPIIAALLLVNLVLGLVNRAA 198 (245)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 334555666788899999999999999999998888887764
No 47
>COG3768 Predicted membrane protein [Function unknown]
Probab=55.49 E-value=1.2e+02 Score=29.19 Aligned_cols=29 Identities=24% Similarity=0.369 Sum_probs=23.8
Q ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Q 025146 48 VSKKFMTGCVVLFPVAVTFLVTWWFIEFV 76 (257)
Q Consensus 48 i~~~Fl~GLlvlLPl~vTi~il~wl~~~v 76 (257)
+.+.++++..+|.=+++.+|...|+-+..
T Consensus 63 ~~k~~~~a~~vLf~~Av~~q~~qwi~d~~ 91 (350)
T COG3768 63 FWKIMLGAGGVLFSLAVGLQSVQWIRDLF 91 (350)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45668889999999999999888887754
No 48
>PRK05415 hypothetical protein; Provisional
Probab=55.38 E-value=1.1e+02 Score=29.54 Aligned_cols=27 Identities=19% Similarity=0.194 Sum_probs=19.3
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHH
Q 025146 49 SKKFMTGCVVLFPVAVTFLVTWWFIEFV 76 (257)
Q Consensus 49 ~~~Fl~GLlvlLPl~vTi~il~wl~~~v 76 (257)
++.|.+++..++=+++..+ ..|+.+..
T Consensus 67 ~~~~~~~l~~l~~~~~~~~-~~~i~~~~ 93 (341)
T PRK05415 67 RKLLWGGLGLLGSLVVGQA-VQWLRDAF 93 (341)
T ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHHHH
Confidence 5568888888887777777 66665544
No 49
>COG4794 EscS Type III secretory pathway, component EscS [Intracellular trafficking and secretion]
Probab=55.36 E-value=1e+02 Score=24.24 Aligned_cols=77 Identities=17% Similarity=0.285 Sum_probs=47.8
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhccc
Q 025146 50 KKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVGVFASSWLGATVFWLGEWFIKRL 129 (257)
Q Consensus 50 ~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG~La~~~~g~~l~~~~e~ll~rI 129 (257)
+.+.-=|+.-+|-++.-.++.-+++++.... . +- + .-+++.+=++.++.+=++...+.|..++++.|.++.++
T Consensus 12 qaL~liLilSlPpvivAsvvGllVslvQA~T----Q-iQ-d-QTl~f~iKLl~V~~tl~lt~~Wlg~~ll~fa~~i~~~~ 84 (89)
T COG4794 12 QALWLILILSLPPVIVASVVGLLVSLVQALT----Q-IQ-D-QTLPFGIKLLAVSATLFLTAGWLGATLLNFAEQIFLNI 84 (89)
T ss_pred HHHHHHHHHhccHHHHHHHHHHHHHHHHHHH----H-HH-H-hHHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHh
Confidence 3344445666677666666655554443321 1 10 0 12455555555566666777899999999999999999
Q ss_pred ccch
Q 025146 130 PFMK 133 (257)
Q Consensus 130 Plvk 133 (257)
|..|
T Consensus 85 ~~~~ 88 (89)
T COG4794 85 PKAR 88 (89)
T ss_pred hhcc
Confidence 8765
No 50
>COG0537 Hit Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]
Probab=54.73 E-value=23 Score=29.24 Aligned_cols=42 Identities=12% Similarity=0.217 Sum_probs=34.8
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHHHHHHHh
Q 025146 186 DEELCSVYVPTNHLYIGDIFLVNSEEIIRP-NLSVREGIEIIV 227 (257)
Q Consensus 186 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEeAmk~ii 227 (257)
.++++.+|+=-.|.+-|.++++|++.+..+ |++.|+...+..
T Consensus 20 e~~~~~afld~~P~~~gH~LviPk~h~~~l~~l~~~~~~~l~~ 62 (138)
T COG0537 20 EDEHVLAFLDIYPAAPGHTLVIPKRHVSDLEDLDPEELAELFL 62 (138)
T ss_pred eCCCEEEEecCCCCCCCeEEEEeccchhhhhhCCHHHHHHHHH
Confidence 467789999989988999999999999887 899886655543
No 51
>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=53.78 E-value=1.1e+02 Score=31.70 Aligned_cols=80 Identities=13% Similarity=0.196 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHH-HHHHHHHHHHHHhhHHHHHHHHHHHhcccc-cchhhH
Q 025146 59 LFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSI-LFIFFVGVFASSWLGATVFWLGEWFIKRLP-FMKHIY 136 (257)
Q Consensus 59 lLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~l-lli~liG~La~~~~g~~l~~~~e~ll~rIP-lvksIY 136 (257)
++|..++.|+..++.+++++.+.+.++.+ -.|.+.+++.+ +.++++|-+. ++++..+..++.++...-| +..-+|
T Consensus 211 vip~Il~~~l~~~iek~~~k~vP~~l~~~--f~Pli~~li~~~l~l~vigPig-~~i~~~i~~~l~~l~~~~~~i~~~ii 287 (610)
T TIGR01995 211 VIPVILAVWLMSYVEKFLKKVIPGALKNF--LTPLLVMLITVPLTLLIIGPLG-NYAGEGISSGILFLYEVSPWLAGALL 287 (610)
T ss_pred HHHHHHHHHHHHHHHHHHHhhChHHHHHH--HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhcchHHHHHHH
Confidence 47888888888888888888766555432 13444444332 2233445443 3455555555555554443 233455
Q ss_pred HHHHH
Q 025146 137 SASKQ 141 (257)
Q Consensus 137 ~siKq 141 (257)
..+-+
T Consensus 288 g~l~~ 292 (610)
T TIGR01995 288 AALWP 292 (610)
T ss_pred HHHHH
Confidence 55554
No 52
>PRK04949 putative sulfate transport protein CysZ; Validated
Probab=52.26 E-value=1.1e+02 Score=28.00 Aligned_cols=24 Identities=25% Similarity=0.663 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHH----HHHHHHhhhh
Q 025146 57 VVLFPVAVTFLVTW----WFIEFVDSFF 80 (257)
Q Consensus 57 lvlLPl~vTi~il~----wl~~~vd~~l 80 (257)
++++|+++++.++. |+++.++.++
T Consensus 29 ~~liPl~inllLf~~~l~~~~~~~~~~l 56 (251)
T PRK04949 29 FVILPLLVNILLFGGAFWWLFTQLDAWI 56 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35677777766654 4444444443
No 53
>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=49.66 E-value=38 Score=30.17 Aligned_cols=82 Identities=15% Similarity=0.120 Sum_probs=53.2
Q ss_pred hhHHHHHHHHHHhCCCCCCCCcCcEEEEE--eCCCCeeEEEEEccccccccCCCCCCeEEEEecCCC-CCCceEEEEecC
Q 025146 134 HIYSASKQISAAISPDQNTSAFKEVAIIR--HPRLGEYAFGFITSSVVLQRDHGDEELCSVYVPTNH-LYIGDIFLVNSE 210 (257)
Q Consensus 134 sIY~siKql~~~~~~~~~~~~f~~VVLVe--~P~~g~~~iGFvT~~~~~~~~~~~~~~v~VfvPtsP-ptsG~l~~Vp~~ 210 (257)
.-|..++++++.+. ....-.. +|+-|+ |.+..+-+-|.+|+++..+.....+.--.+++|..- . ..+
T Consensus 107 la~~~l~~~~~~l~-~~~~~~v-~V~~V~N~fFG~~ItVaGLLTg~Dii~~L~~~~~~d~lllP~~ml~--------~~~ 176 (204)
T PF04459_consen 107 LAYPFLKPLVEKLN-RIPGLEV-EVVPVKNRFFGGTITVAGLLTGQDIIEQLKGKELGDLLLLPDVMLR--------HGE 176 (204)
T ss_pred HHHHHHHHHHHHHh-ccCCCeE-EEEEeecCCCCCCeEEeeCccHHHHHHHhCcCCCCCEEEECHHHhc--------CCC
Confidence 45889999999983 2222333 577775 778889999999998753322212222477888653 2 234
Q ss_pred CeecCCCCHHHHHHH
Q 025146 211 EIIRPNLSVREGIEI 225 (257)
Q Consensus 211 ~V~~lDmsvEeAmk~ 225 (257)
++.--|+|++|..+.
T Consensus 177 ~~fLDD~t~~el~~~ 191 (204)
T PF04459_consen 177 GVFLDDMTLEELEER 191 (204)
T ss_pred CccCCCCcHHHHHHH
Confidence 555558999987764
No 54
>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=49.11 E-value=1.3e+02 Score=27.63 Aligned_cols=87 Identities=9% Similarity=0.001 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhhHH-HHHHHHHHHhccc-ccchhh
Q 025146 58 VLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVGVFASSWLGA-TVFWLGEWFIKRL-PFMKHI 135 (257)
Q Consensus 58 vlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG~La~~~~g~-~l~~~~e~ll~rI-PlvksI 135 (257)
.++|+++.+++..++-++++..+...++.+. .|-+..++...++++++.....+++. .+-+..+++.+.- ++-.-+
T Consensus 66 ~~~~ii~~~~~~~~~~k~~~~~lP~~l~~~~--~p~~~~li~~~~~~~v~~p~~~~~~~~~i~~~~~~i~~~~~~~g~~i 143 (289)
T TIGR00852 66 VVGPILVGAIALALHERFLDKKLPDVLGFFL--GPRFVVIIAGFVAILLIGPLGRVWPPVGISALLHWLYSAGGALGGAI 143 (289)
T ss_pred eeHHHHHHHHHHHHHHHHhhhhCchhhhhcc--cchHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcchHHHHHH
Confidence 4789999999988888888776655554432 13333333333333333333333333 2333344443332 233457
Q ss_pred HHHHHHHHHHh
Q 025146 136 YSASKQISAAI 146 (257)
Q Consensus 136 Y~siKql~~~~ 146 (257)
|..+-|+.=.+
T Consensus 144 ~g~l~~lLv~~ 154 (289)
T TIGR00852 144 FGFLYRLLVPT 154 (289)
T ss_pred HHHHHHHHHHH
Confidence 87777765443
No 55
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=49.10 E-value=85 Score=21.62 Aligned_cols=50 Identities=8% Similarity=-0.130 Sum_probs=38.6
Q ss_pred cEEEEEeCCCCeeEEEEEccccccccCCCCCCeEEEEecCCCCCCceEEEEecCCeecC
Q 025146 157 EVAIIRHPRLGEYAFGFITSSVVLQRDHGDEELCSVYVPTNHLYIGDIFLVNSEEIIRP 215 (257)
Q Consensus 157 ~VVLVe~P~~g~~~iGFvT~~~~~~~~~~~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l 215 (257)
..|-+.++.+|.|--|-|++.. +++.+.|+.++ -..|....++.+++++.
T Consensus 7 ~~Ve~~~~~~~~W~~a~V~~~~-------~~~~~~V~~~~--~~~~~~e~v~~~~LRp~ 56 (61)
T smart00743 7 DRVEVFSKEEDSWWEAVVTKVL-------GDGKYLVRYLT--ESEPLKETVDWSDLRPH 56 (61)
T ss_pred CEEEEEECCCCEEEEEEEEEEC-------CCCEEEEEECC--CCcccEEEEeHHHcccC
Confidence 4677888889999999999863 35678999987 33556777888887765
No 56
>PF04854 DUF624: Protein of unknown function, DUF624; InterPro: IPR006938 This family consists of uncharacterised or hypothetical bacterial proteins.
Probab=48.52 E-value=48 Score=24.06 Aligned_cols=32 Identities=3% Similarity=0.073 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Q 025146 39 ACYAVLQSWVSKKFMTGCVVLFPVAVTFLVTW 70 (257)
Q Consensus 39 ~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~ 70 (257)
..++...+.+|++|.++...-++..+.+.++.
T Consensus 43 ~~~~~f~~~fk~nf~~~~~~~~~~~~~~~il~ 74 (77)
T PF04854_consen 43 YLFRDFWRAFKQNFKQSLLLGLILLLLLAILY 74 (77)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555567777777777777776666654
No 57
>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=47.78 E-value=1.7e+02 Score=25.07 Aligned_cols=51 Identities=22% Similarity=0.204 Sum_probs=32.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHh
Q 025146 55 GCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVGVFASSW 113 (257)
Q Consensus 55 GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG~La~~~ 113 (257)
++.+-+|.++-+.++...|-.+++- .+++|-...+++-++||.+|+|--+|
T Consensus 66 ~~~~GiP~~lG~~~f~~~y~l~~~~--------~~dvP~~~~~~~S~~~Fg~gllGisY 116 (153)
T PF11947_consen 66 AVFVGIPTALGVAVFVVFYYLKSRQ--------IVDVPPWAVLLVSLVFFGLGLLGISY 116 (153)
T ss_pred HHHhchHHHHHHHHHHHHHHHHhcc--------ccccCchHHHHHHHHHHHHHHHhhhh
Confidence 5566788888877776666555432 23455445555556788888876554
No 58
>PRK10478 putative PTS system fructose-like transporter subunit EIIC; Provisional
Probab=47.36 E-value=91 Score=30.25 Aligned_cols=33 Identities=15% Similarity=0.115 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Q 025146 40 CYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWF 72 (257)
Q Consensus 40 ~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl 72 (257)
.|++..+.+++++.+|+--.+|+++.-=++.-+
T Consensus 3 ~~~~~~~~~~~hlmtGvS~MlP~VvagGil~ai 35 (359)
T PRK10478 3 ELVQILKNTRQHLMTGVSHMIPFVVAGGILLAV 35 (359)
T ss_pred HHHHHHHHHHHHHHhChhHhHhHHHHHHHHHHH
Confidence 344444558999999999999999876665544
No 59
>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=46.84 E-value=1.3e+02 Score=22.85 Aligned_cols=71 Identities=15% Similarity=0.233 Sum_probs=41.8
Q ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Q 025146 45 QSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVGVFASSWLGATVFWLG 122 (257)
Q Consensus 45 ~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG~La~~~~g~~l~~~~ 122 (257)
-...|+.+...+...+|+.+.-.++.-+++.+....+ ..=.-++++-=++.++++-++.-.+.++.+.++.
T Consensus 4 i~l~r~al~~~l~~~~P~L~~alvvGlvIsi~QA~Tq-------IqEqTL~fvpKl~av~~~l~~~g~wm~~~l~~ft 74 (76)
T PF01313_consen 4 IDLLRQALWLVLMLSAPVLLVALVVGLVISIFQAATQ-------IQEQTLSFVPKLLAVFLVLLLFGPWMLQQLVDFT 74 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3457788999999999999988888766665543321 0112234443444444444444455555555554
No 60
>TIGR02790 nickel_nikC nickel ABC transporter, permease subunit NikC. This family consists of the NikC family of nickel ABC transporter permeases. Operons that contain this protein also contain a homologous permease subunit NikB. Nickel is used in cells as part of urease or certain hydrogenases or superoxide dismutases.
Probab=45.63 E-value=1.6e+02 Score=26.42 Aligned_cols=21 Identities=14% Similarity=0.088 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHhhHHHH
Q 025146 39 ACYAVLQSWVSKKFMTGCVVL 59 (257)
Q Consensus 39 ~~~~~l~~~i~~~Fl~GLlvl 59 (257)
..+.++..-.+.++.-+++..
T Consensus 52 dv~~~l~~g~~~TL~ia~~~~ 72 (258)
T TIGR02790 52 CIFSRLIFGARVSLGSALLVL 72 (258)
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 556666666666666665553
No 61
>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=42.85 E-value=2.6e+02 Score=25.43 Aligned_cols=41 Identities=10% Similarity=0.181 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025146 40 CYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFF 80 (257)
Q Consensus 40 ~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l 80 (257)
.++.+-+.+.+.|..|+-.-+|+++...+..-.+..+.+..
T Consensus 165 ~~~~~~~~~~~~f~~al~lAaPvi~~~ll~~l~lGllsR~~ 205 (253)
T TIGR01401 165 GLSFVLSQLDQMMALALLLAAPVIIVLFLIELALGLLSRFA 205 (253)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 44555566888899999999999999999998888877654
No 62
>PRK05701 fliR flagellar biosynthesis protein FliR; Reviewed
Probab=42.23 E-value=2.6e+02 Score=25.21 Aligned_cols=41 Identities=17% Similarity=0.342 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025146 40 CYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFF 80 (257)
Q Consensus 40 ~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l 80 (257)
.++.+-+.+.+.|..|+...+|+++...++.-.+..+.+..
T Consensus 160 ~~~~~~~~~~~~f~~a~~lAaP~i~~~ll~~~~lGll~R~~ 200 (242)
T PRK05701 160 AFLLLAKALSAMFLIGLQLALPIIVLLLLVNLALGLINRTA 200 (242)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 34555566788899999999999999999998888887764
No 63
>COG0600 TauC ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]
Probab=41.40 E-value=2.4e+02 Score=25.96 Aligned_cols=70 Identities=11% Similarity=0.195 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHHHHH
Q 025146 39 ACYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVGVFA 110 (257)
Q Consensus 39 ~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG~La 110 (257)
.++.+....+.| .+.|++.-.=+.+.+-++-...+.++..+.|++..+ ..+|-++++=++++.|-.|-.+
T Consensus 58 ~L~~~~~~Sl~r-v~~Gf~la~~~gi~lgil~g~~~~~~~~l~P~i~~l-~~iP~lA~~Pl~ilwfG~g~~s 127 (258)
T COG0600 58 ELFQHLLASLLR-VLLGFALAAVLGIPLGILMGLSRLLERLLDPLVQVL-RPIPPLALAPLAILWFGIGETS 127 (258)
T ss_pred hHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHhHHHHHHHHhHHHHHH-hcCCHHHHHHHHHHHHhCCcch
Confidence 566666666655 455666666667777777777788888888887543 3455556555555555555544
No 64
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.32 E-value=68 Score=24.17 Aligned_cols=47 Identities=13% Similarity=0.247 Sum_probs=28.6
Q ss_pred hHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhcccccchhhHHHHHHHHHHh
Q 025146 94 LGFLTSILFIFFVGVFASSWLGATVFWLGEWFIKRLPFMKHIYSASKQISAAI 146 (257)
Q Consensus 94 lglli~llli~liG~La~~~~g~~l~~~~e~ll~rIPlvksIY~siKql~~~~ 146 (257)
+++ +++++++++|++.-.++.|+.. ++.+.+=|=+. =.++|-+....
T Consensus 5 lai-l~ivl~ll~G~~~G~fiark~~---~k~lk~NPpin--e~~iR~M~~qm 51 (71)
T COG3763 5 LAI-LLIVLALLAGLIGGFFIARKQM---KKQLKDNPPIN--EEMIRMMMAQM 51 (71)
T ss_pred HHH-HHHHHHHHHHHHHHHHHHHHHH---HHHHhhCCCCC--HHHHHHHHHHh
Confidence 455 5667788888888888887544 56565555433 13444444443
No 65
>PRK01844 hypothetical protein; Provisional
Probab=39.74 E-value=61 Score=24.49 Aligned_cols=43 Identities=9% Similarity=0.115 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHhcccccchhhHHHHHHHHHHh
Q 025146 99 SILFIFFVGVFASSWLGATVFWLGEWFIKRLPFMKHIYSASKQISAAI 146 (257)
Q Consensus 99 ~llli~liG~La~~~~g~~l~~~~e~ll~rIPlvksIY~siKql~~~~ 146 (257)
++++++++|++.--+++| +++|+-|.+=|=+.- ..+|.+..+.
T Consensus 9 l~I~~li~G~~~Gff~ar---k~~~k~lk~NPpine--~mir~Mm~QM 51 (72)
T PRK01844 9 VGVVALVAGVALGFFIAR---KYMMNYLQKNPPINE--QMLKMMMMQM 51 (72)
T ss_pred HHHHHHHHHHHHHHHHHH---HHHHHHHHHCCCCCH--HHHHHHHHHh
Confidence 344678888888888877 445777777654331 3445544444
No 66
>TIGR00822 EII-Sor PTS system, mannose/fructose/sorbose family, IIC component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. The Man (PTS splinter group) family is unique in several respects among PTS permease families. It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine,N-acetylglucosamine, and other sugars. Other members of this family can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the sorbose-specific IIC subunits of this family of PTS transporters.
Probab=39.46 E-value=2.3e+02 Score=26.39 Aligned_cols=66 Identities=14% Similarity=0.232 Sum_probs=33.4
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhh-h---hcccchhhhHHHHH--------HHHHHHHHHHHHHhhHH
Q 025146 51 KFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIY-A---RLGVEIFGLGFLTS--------ILFIFFVGVFASSWLGA 116 (257)
Q Consensus 51 ~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~-~---~lg~~ipglglli~--------llli~liG~La~~~~g~ 116 (257)
.++.+++..+|..+.+|+=.-.++.+.+.+...+ + ..|.-.|.+|+.++ ...-|++|++...|++-
T Consensus 144 ~~~~~~~~~i~~fla~~~G~~~v~~il~~iP~~v~~Gl~vaggmLPAvGfAmLl~~m~~k~~~~ff~lGF~laayl~l 221 (265)
T TIGR00822 144 MLIQALRVAIPALIVALVSQSAVQAMLKAIPEVVTHGLQIAGGIIVVVGYAMVLRMMFKAYLMPFFYLGFLFAAYTDF 221 (265)
T ss_pred HHHHHHHHHHHHHHHHHcCHHHHHHHHHHCHHHHHHHHHHHHhhHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHhCC
Confidence 3444555555554444432323333333322221 1 11333677787665 45567888888887653
No 67
>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=38.55 E-value=2.4e+02 Score=28.95 Aligned_cols=88 Identities=10% Similarity=0.124 Sum_probs=55.3
Q ss_pred HHHHHHHHHHHHHHHHHHhh--hhhhhhhhcc--cchhhhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHh---cccc-
Q 025146 59 LFPVAVTFLVTWWFIEFVDS--FFSPIYARLG--VEIFGLGFLTSILFIFFVGVFASSWLGATVFWLGEWFI---KRLP- 130 (257)
Q Consensus 59 lLPl~vTi~il~wl~~~vd~--~l~pl~~~lg--~~ipglglli~llli~liG~La~~~~g~~l~~~~e~ll---~rIP- 130 (257)
++|.+++.++..|+++...+ .+...+.+++ +-.|.+.+++.+.+-++.+++-= +++..+-+..+++. ..-|
T Consensus 142 VfggIi~g~i~a~l~n~~~~~k~lP~~L~ff~G~RfVPilt~lv~i~l~~i~~~iwP-~i~~gI~~~~~~i~~~g~~~~~ 220 (548)
T TIGR02003 142 VFVGIIAGFLGATAYNKYYNYDKLPEALAFFNGKRFVPFVVILRSIFTAIILSLLWP-FIQSGINEFGMWIAASKDSAPI 220 (548)
T ss_pred hHHHHHHHHHHHHHHHHHhccccCcHHHHHccCCcchHhHHHHHHHHHHHHHHHHhH-HHHHHHHHHHHHHHhcCCccch
Confidence 58999999999999999843 4555566552 12455555544443333333333 56666666666666 3334
Q ss_pred cchhhHHHHHHHHHHhC
Q 025146 131 FMKHIYSASKQISAAIS 147 (257)
Q Consensus 131 lvksIY~siKql~~~~~ 147 (257)
+-.-+|..+.++.=-+-
T Consensus 221 ~g~fiyG~l~rlLIp~G 237 (548)
T TIGR02003 221 LAPFLYGTLERLLLPFG 237 (548)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 55568999988765553
No 68
>COG2928 Uncharacterized conserved protein [Function unknown]
Probab=37.92 E-value=3.2e+02 Score=24.94 Aligned_cols=39 Identities=10% Similarity=0.037 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhh
Q 025146 40 CYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDS 78 (257)
Q Consensus 40 ~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~ 78 (257)
.++++|+++-.=++-=+=+.+=++++.|++.|+-+++..
T Consensus 2 ~~~~lk~~fltGLlvllPlaiT~~vv~~i~~~l~~~~~~ 40 (222)
T COG2928 2 GAKRLKKYFLTGLLVLLPLAITLWVVSWIFGLLDQFVGP 40 (222)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 367899999999999999999999999999999999874
No 69
>PRK14762 membrane protein; Provisional
Probab=37.76 E-value=54 Score=19.99 Aligned_cols=16 Identities=25% Similarity=0.710 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHhh
Q 025146 99 SILFIFFVGVFASSWL 114 (257)
Q Consensus 99 ~llli~liG~La~~~~ 114 (257)
.++++|++|+++-+-+
T Consensus 7 ~i~iifligllvvtgv 22 (27)
T PRK14762 7 AVLIIFLIGLLVVTGV 22 (27)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4566788888866543
No 70
>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=36.33 E-value=2.6e+02 Score=28.67 Aligned_cols=47 Identities=17% Similarity=0.362 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH---------HHHHHhhhhhhhhhhccc
Q 025146 39 ACYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWW---------FIEFVDSFFSPIYARLGV 89 (257)
Q Consensus 39 ~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~w---------l~~~vd~~l~pl~~~lg~ 89 (257)
+.|.|.+.|+++ -.-+++...+.+|++.. +...+.+.+.|++..+|.
T Consensus 467 ~~w~r~~~fl~~----A~~ii~~~siviw~l~~~~~~~~~~S~l~~~g~~~~P~~~p~g~ 522 (591)
T TIGR00437 467 QTWTRLRSFIKK----AGTIIVIGSVLIWFLSSFPGGKILESWLAAIGSIMAPLFVPLGK 522 (591)
T ss_pred HHHHHHHHHHHH----HHHHHHHHHHHHHHHHhCCCCchhhhHHHHHHHHHHHHHHHhcC
Confidence 566666666544 34455555566665544 345566677888877765
No 71
>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=35.65 E-value=2.6e+02 Score=24.89 Aligned_cols=57 Identities=16% Similarity=0.219 Sum_probs=32.0
Q ss_pred HHhcccccchhhHHHHHHHHHHhCCCCCCCCcCcEEEE--EeC--CCCeeEEEEEccccccccCCCCCCeEEEEecC
Q 025146 124 WFIKRLPFMKHIYSASKQISAAISPDQNTSAFKEVAII--RHP--RLGEYAFGFITSSVVLQRDHGDEELCSVYVPT 196 (257)
Q Consensus 124 ~ll~rIPlvksIY~siKql~~~~~~~~~~~~f~~VVLV--e~P--~~g~~~iGFvT~~~~~~~~~~~~~~v~VfvPt 196 (257)
.+|.=+|+ |=.+|...+ ++++.+ ++.+.- +-+ ++-.+.++.+|=- .+.|...||+|-
T Consensus 59 GlLGliPI----~lGi~~l~~---~~~~~~--~~~~~~~~~~~~~~~~~~~Va~iTiA-------nGgDNIgIYvPl 119 (193)
T TIGR00779 59 GLLGLIPI----YLGIKVAIK---GECDED--ERAILSLNESGKLNKLFLTVAFITIA-------SGADNIGIYVPY 119 (193)
T ss_pred hHHhHHHH----HHHHHHHhc---cccccc--ccccccccccccCCCceEEEEEEEEe-------ccCceeEEEeee
Confidence 55677887 888887766 222211 111100 001 1224677787743 267889999993
No 72
>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=35.18 E-value=33 Score=30.31 Aligned_cols=25 Identities=20% Similarity=0.389 Sum_probs=21.4
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHHH
Q 025146 50 KKFMTGCVVLFPVAVTFLVTWWFIE 74 (257)
Q Consensus 50 ~~Fl~GLlvlLPl~vTi~il~wl~~ 74 (257)
-.||+|++..|=+..++|++|.+++
T Consensus 161 ~SFiGGIVL~LGv~aI~ff~~KF~k 185 (186)
T PF05283_consen 161 ASFIGGIVLTLGVLAIIFFLYKFCK 185 (186)
T ss_pred hhhhhHHHHHHHHHHHHHHHhhhcc
Confidence 4599999999999988888887764
No 73
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=34.27 E-value=56 Score=24.14 Aligned_cols=43 Identities=14% Similarity=0.210 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHhcccccchhhHHHHHHHHHHh
Q 025146 99 SILFIFFVGVFASSWLGATVFWLGEWFIKRLPFMKHIYSASKQISAAI 146 (257)
Q Consensus 99 ~llli~liG~La~~~~g~~l~~~~e~ll~rIPlvksIY~siKql~~~~ 146 (257)
++++++++|+++-.+++++ .+++-+.+=|=+. =..+|.+....
T Consensus 2 ~iilali~G~~~Gff~ar~---~~~k~l~~NPpin--e~mir~M~~QM 44 (64)
T PF03672_consen 2 LIILALIVGAVIGFFIARK---YMEKQLKENPPIN--EKMIRAMMMQM 44 (64)
T ss_pred hHHHHHHHHHHHHHHHHHH---HHHHHHHHCCCCC--HHHHHHHHHHh
Confidence 3556777888777777774 4466665544322 13444444443
No 74
>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=33.77 E-value=1.2e+02 Score=26.37 Aligned_cols=19 Identities=26% Similarity=0.438 Sum_probs=13.2
Q ss_pred HHhhHHHHHHHHHHHHHHHHH
Q 025146 52 FMTGCVVLFPVAVTFLVTWWF 72 (257)
Q Consensus 52 Fl~GLlvlLPl~vTi~il~wl 72 (257)
.+++ +++|+++.+.++.++
T Consensus 76 ~i~e--~fmP~alv~lv~~~v 94 (170)
T PF11241_consen 76 NIGE--FFMPVALVLLVLSFV 94 (170)
T ss_pred chHH--HHHHHHHHHHHHHHH
Confidence 4444 357888888887766
No 75
>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=33.56 E-value=2.2e+02 Score=26.19 Aligned_cols=31 Identities=16% Similarity=0.376 Sum_probs=18.1
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025146 50 KKFMTGCVVLFPVAVTFLVTWWFIEFVDSFF 80 (257)
Q Consensus 50 ~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l 80 (257)
+.|+.=.++.+=....++++..+++.++.++
T Consensus 5 ~~~l~~f~~~l~~~~~i~~~~~l~~~l~~~~ 35 (354)
T PF03739_consen 5 KEFLKTFLLVLLSFTGIFLIIDLFELLDDFL 35 (354)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344445555555666666666666666653
No 76
>PHA01399 membrane protein P6
Probab=33.38 E-value=3.6e+02 Score=24.29 Aligned_cols=13 Identities=23% Similarity=0.463 Sum_probs=5.8
Q ss_pred EecCCeecCCCCH
Q 025146 207 VNSEEIIRPNLSV 219 (257)
Q Consensus 207 Vp~~~V~~lDmsv 219 (257)
.-+|-.+...+.+
T Consensus 185 lgkdglil~gl~v 197 (242)
T PHA01399 185 LGKDGLILAGLAV 197 (242)
T ss_pred hCCCCeeeechHh
Confidence 3444444444443
No 77
>PF03609 EII-Sor: PTS system sorbose-specific iic component; InterPro: IPR004700 Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families. It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of Escherichia coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the sorbose-specific IIC subunits of this family of PTS transporters.; GO: 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016021 integral to membrane
Probab=32.85 E-value=2.8e+02 Score=25.11 Aligned_cols=65 Identities=15% Similarity=0.214 Sum_probs=36.5
Q ss_pred HHhhHHHHHH-HHHHHHHHHHHHHHHhhhhhhhh-hh---cccchhhhHHHHH--------HHHHHHHHHHHHHhhHH
Q 025146 52 FMTGCVVLFP-VAVTFLVTWWFIEFVDSFFSPIY-AR---LGVEIFGLGFLTS--------ILFIFFVGVFASSWLGA 116 (257)
Q Consensus 52 Fl~GLlvlLP-l~vTi~il~wl~~~vd~~l~pl~-~~---lg~~ipglglli~--------llli~liG~La~~~~g~ 116 (257)
++..+...+| ..+.+|+=...++.+-+.+.+.+ +- .+.-.|.+|+.++ ..-.|++|++...|++-
T Consensus 145 ~~~~~~~~v~~~fl~~~~G~~~v~~~~~~iP~~v~~gl~vagg~LPAvGfAmll~~~~~k~~~~ff~~GF~l~~yl~l 222 (238)
T PF03609_consen 145 ILFFLIYFVPPVFLAVYFGSDAVQALLNAIPEWVLNGLNVAGGMLPAVGFAMLLKMMWKKKYIPFFFLGFVLAAYLGL 222 (238)
T ss_pred HHHHHHHHHHHHHHHHhcCHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHCC
Confidence 5666666667 66656655555555444443322 11 1222566776654 34567778887777653
No 78
>PRK15065 PTS system mannose-specific transporter subunit IIC; Provisional
Probab=32.84 E-value=3.4e+02 Score=25.19 Aligned_cols=26 Identities=15% Similarity=0.482 Sum_probs=18.7
Q ss_pred hhhhHHHHH--------HHHHHHHHHHHHHhhHH
Q 025146 91 IFGLGFLTS--------ILFIFFVGVFASSWLGA 116 (257)
Q Consensus 91 ipglglli~--------llli~liG~La~~~~g~ 116 (257)
.|.+|+.++ ...-|++|++...|++-
T Consensus 189 LPAvGfAmLl~~i~~k~~~~ff~lGFvl~ayl~l 222 (262)
T PRK15065 189 IVVVGYAMVINMMATRELMPFFYLGFVLAAFTNL 222 (262)
T ss_pred HHHHHHHHHHHHHhccchHHHHHHHHHHHHHhCC
Confidence 577887765 45667888888887753
No 79
>PRK10417 nikC nickel transporter permease NikC; Provisional
Probab=32.83 E-value=3.4e+02 Score=24.62 Aligned_cols=19 Identities=5% Similarity=-0.050 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHhhHH
Q 025146 39 ACYAVLQSWVSKKFMTGCV 57 (257)
Q Consensus 39 ~~~~~l~~~i~~~Fl~GLl 57 (257)
..+.++..-.+.++.-+++
T Consensus 57 dv~s~l~~g~~~TL~~~~~ 75 (272)
T PRK10417 57 DIFSRLMAGTRVSLGSVMA 75 (272)
T ss_pred cHHHHHHHHHHHHHHHHHH
Confidence 4555655555555544443
No 80
>TIGR00439 ftsX putative protein insertion permease FtsX. FtsX is an integral membrane protein encoded in the same operon as signal recognition particle docking protein FtsY and FtsE. It belongs to a family of predicted permeases and may play a role in the insertion of proteins required for potassium transport, cell division, and other activities. FtsE is a hydrophilic nucleotide-binding protein that associates with the inner membrane by means of association with FtsX.
Probab=32.82 E-value=4.2e+02 Score=24.79 Aligned_cols=27 Identities=11% Similarity=-0.037 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHH
Q 025146 97 LTSILFIFFVGVFASSWLGATVFWLGE 123 (257)
Q Consensus 97 li~llli~liG~La~~~~g~~l~~~~e 123 (257)
++++++-.++|+++..+.-++.++.+|
T Consensus 281 ~~l~~~g~~lg~lgs~~s~~r~Lr~~~ 307 (309)
T TIGR00439 281 GLLLGFCIALGVVGAWLATTQHLLCFK 307 (309)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 344555577888888777777666553
No 81
>PRK10160 taurine transporter subunit; Provisional
Probab=32.65 E-value=3.8e+02 Score=24.29 Aligned_cols=67 Identities=10% Similarity=0.213 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHH
Q 025146 39 ACYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVG 107 (257)
Q Consensus 39 ~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG 107 (257)
.+++.+...+.+.++ |.++-+-+++.+-++......+++.+.|++..+ ..+|.+.++.++++.+-.|
T Consensus 75 ~l~~~l~~Tl~~~~~-g~~ia~~ig~~lg~~~~~~~~~~~~l~~~~~~l-~~iP~i~~~pl~~~~fG~g 141 (275)
T PRK10160 75 TLWQHLAASLTRIVL-ALLAAVVIGIPVGIAMGLSPTVRGILDPLIELY-RPVPPLAYLPLMVIWFGIG 141 (275)
T ss_pred hHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH-hhCCHHHHHHHHHHHHcCC
Confidence 455555555544433 333333333333333333556777777776542 3356555554444444443
No 82
>PRK09757 PTS system N-acetylgalactosamine-specific transporter subunit IIC; Provisional
Probab=32.60 E-value=4e+02 Score=24.72 Aligned_cols=27 Identities=11% Similarity=0.165 Sum_probs=19.4
Q ss_pred cchhhhHHHHH--------HHHHHHHHHHHHHhhH
Q 025146 89 VEIFGLGFLTS--------ILFIFFVGVFASSWLG 115 (257)
Q Consensus 89 ~~ipglglli~--------llli~liG~La~~~~g 115 (257)
.-.|.+|+.++ ...-|++|++...|++
T Consensus 187 gmLPAvGfAmLl~~m~~k~~~~ff~lGF~l~ayl~ 221 (267)
T PRK09757 187 GILPAVGFGLLLRVMFKAQYIPYLIAGFLFVCYIQ 221 (267)
T ss_pred chHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHhC
Confidence 33677787665 4566788998888876
No 83
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=32.54 E-value=3.1e+02 Score=23.24 Aligned_cols=26 Identities=8% Similarity=0.255 Sum_probs=19.7
Q ss_pred CCcCcEEEEEeCC------CCeeEEEEEcccc
Q 025146 153 SAFKEVAIIRHPR------LGEYAFGFITSSV 178 (257)
Q Consensus 153 ~~f~~VVLVe~P~------~g~~~iGFvT~~~ 178 (257)
..++++.+|+|.- +=+++++++-+++
T Consensus 78 ~~~~kvgvvRYnAF~dmGg~LSFslAlLD~~~ 109 (151)
T PF14584_consen 78 NCVQKVGVVRYNAFEDMGGDLSFSLALLDDNN 109 (151)
T ss_pred hccceEEEEEccCcccccccceeeeEEEeCCC
Confidence 6789999999752 2278888888764
No 84
>PRK11365 ssuC alkanesulfonate transporter permease subunit; Provisional
Probab=32.14 E-value=2.3e+02 Score=25.43 Aligned_cols=67 Identities=6% Similarity=0.039 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHH
Q 025146 39 ACYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVG 107 (257)
Q Consensus 39 ~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG 107 (257)
.+++++...+.+. +.|++.-+-+++.+-++....+.+|+.+.|+... ...+|.+.++.+++..|-.|
T Consensus 57 ~l~~~l~~Tl~~~-~~g~~la~~igi~lGi~~~~~~~~~~~~~~~~~~-~~siP~~~~~~lli~~fg~~ 123 (263)
T PRK11365 57 ELWQHLAISSWRA-LIGFSIGGSLGLILGLISGLSRWGERLLDTSIQM-LRNVPHLALIPLVILWFGID 123 (263)
T ss_pred cHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhCCHHHHHHHHHHHHcCC
Confidence 4566666665553 3466666666666666666667888888887654 23355555554444444433
No 85
>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=31.99 E-value=3.9e+02 Score=24.17 Aligned_cols=87 Identities=16% Similarity=0.310 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHH-HHhh---------hhhhhhhhcccch---hhhHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Q 025146 56 CVVLFPVAVTFLVTWWFIE-FVDS---------FFSPIYARLGVEI---FGLGFLTSILFIFFVGVFASSWLGATVFWLG 122 (257)
Q Consensus 56 LlvlLPl~vTi~il~wl~~-~vd~---------~l~pl~~~lg~~i---pglglli~llli~liG~La~~~~g~~l~~~~ 122 (257)
++.++=+++.++.++|.++ ++.- .+.|+.+++ ... ..++.++++++++++=.+.-..++..+.+..
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 HHHhcccccchhhHHHHHHHHHHh
Q 025146 123 EWFIKRLPFMKHIYSASKQISAAI 146 (257)
Q Consensus 123 e~ll~rIPlvksIY~siKql~~~~ 146 (257)
+++.+.+| ...+.+++..+.+
T Consensus 80 ~~l~~~l~---~~~~~i~~~~~~~ 100 (327)
T PF01594_consen 80 QSLIENLP---QYLDKIKSWLNDL 100 (327)
T ss_pred HHHHHhhh---HHHHHhhhhhhcc
No 86
>PF09527 ATPase_gene1: Putative F0F1-ATPase subunit (ATPase_gene1)
Probab=31.50 E-value=1e+02 Score=21.18 Aligned_cols=9 Identities=22% Similarity=0.497 Sum_probs=3.7
Q ss_pred hHHHHHHHH
Q 025146 55 GCVVLFPVA 63 (257)
Q Consensus 55 GLlvlLPl~ 63 (257)
|+-.++|++
T Consensus 7 g~~~~~~i~ 15 (55)
T PF09527_consen 7 GFTMAAPIL 15 (55)
T ss_pred HHHHHHHHH
Confidence 344444443
No 87
>TIGR01620 hyp_HI0043 conserved hypothetical protein, TIGR01620. This model includes putative membrane proteins from alpha and gamma proteobacteria, each making up their own clade. The two clades have less than 25% identity between them. We could not find support for the assignment to the sequence from Brucella of being a GTP-binding protein.
Probab=31.23 E-value=3.6e+02 Score=25.49 Aligned_cols=27 Identities=22% Similarity=0.298 Sum_probs=19.0
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHH
Q 025146 50 KKFMTGCVVLFPVAVTFLVTWWFIEFV 76 (257)
Q Consensus 50 ~~Fl~GLlvlLPl~vTi~il~wl~~~v 76 (257)
+.|+.+++.++=+++.++...|+.+.+
T Consensus 15 ~~~~~~~~~l~~~~~~~~~~~~i~~~~ 41 (289)
T TIGR01620 15 KLGLGALGVLFGLAFVLQAVQWIRNLF 41 (289)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 447778888877777777777666654
No 88
>COG2177 FtsX Cell division protein [Cell division and chromosome partitioning]
Probab=30.80 E-value=4.6e+02 Score=24.66 Aligned_cols=57 Identities=14% Similarity=0.022 Sum_probs=26.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhhhhhhh-hhcccch-hhhHHHHHHHHHHHHHHHHHH
Q 025146 55 GCVVLFPVAVTFLVTWWFIEFVDSFFSPIY-ARLGVEI-FGLGFLTSILFIFFVGVFASS 112 (257)
Q Consensus 55 GLlvlLPl~vTi~il~wl~~~vd~~l~pl~-~~lg~~i-pglglli~llli~liG~La~~ 112 (257)
-+-.++|.++.-+ +.|.|+..-+.+.|.+ ..++... +-..+..+...|.++|++...
T Consensus 226 l~Ga~~~~~l~~~-l~~~~~~~~~~~~~~~~~~f~~~~~~~~~~l~l~~~~~~iG~~~~~ 284 (297)
T COG2177 226 LLGALIALALAAL-LLAGYRSSVNNVAPQFGQAFGLLGLGLDEVLLLLGILLLIGVLIAW 284 (297)
T ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhhhhhcCCchHHHHHHHHHHHHHHHHHH
Confidence 3445677777555 3333333333333332 2222222 223344455566677776554
No 89
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=30.65 E-value=1e+02 Score=21.63 Aligned_cols=22 Identities=27% Similarity=0.363 Sum_probs=15.4
Q ss_pred hHHHHHHHHHHHHHHHHHHhhH
Q 025146 94 LGFLTSILFIFFVGVFASSWLG 115 (257)
Q Consensus 94 lglli~llli~liG~La~~~~g 115 (257)
+.+.++++++|++|+++-..++
T Consensus 18 ~pl~l~il~~f~~G~llg~l~~ 39 (68)
T PF06305_consen 18 LPLGLLILIAFLLGALLGWLLS 39 (68)
T ss_pred chHHHHHHHHHHHHHHHHHHHH
Confidence 6667777778888887665443
No 90
>KOG0476 consensus Cl- channel CLC-2 and related proteins (CLC superfamily) [Inorganic ion transport and metabolism]
Probab=30.51 E-value=6.7e+02 Score=27.31 Aligned_cols=43 Identities=9% Similarity=-0.005 Sum_probs=36.7
Q ss_pred chHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhh
Q 025146 36 TRKACYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDS 78 (257)
Q Consensus 36 ~~~~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~ 78 (257)
+++.|.+|..||+.+.+..--+++.=|.+...++.|..+....
T Consensus 76 ~~~~~~~r~~q~i~r~l~eDW~flalLG~imAlvS~~mD~ai~ 118 (931)
T KOG0476|consen 76 TCQEFLTRQMQNIVRKLGEDWFFLALLGVIMALVSIGMDMAIE 118 (931)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3458889999999999999999999999999999998876433
No 91
>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=30.40 E-value=1.4e+02 Score=22.75 Aligned_cols=33 Identities=21% Similarity=0.717 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHH------HHhhhhhhhhhhccc
Q 025146 57 VVLFPVAVTFLVTWWFIE------FVDSFFSPIYARLGV 89 (257)
Q Consensus 57 lvlLPl~vTi~il~wl~~------~vd~~l~pl~~~lg~ 89 (257)
.-++|+++...++.|+.. .+.+++.|+++.+|.
T Consensus 2 ~~~~p~i~~~~~l~~iL~~~g~l~~i~~~l~P~~~~lgL 40 (109)
T PF07670_consen 2 LRALPIIIPFSILIWILEESGLLERISRLLEPLFRPLGL 40 (109)
T ss_dssp HHTHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHH--
T ss_pred eeeHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhcCC
Confidence 345666666666666554 566678888877654
No 92
>PRK00523 hypothetical protein; Provisional
Probab=29.43 E-value=1.1e+02 Score=23.03 Aligned_cols=42 Identities=10% Similarity=0.120 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHhcccccchhhHHHHHHHHHHh
Q 025146 100 ILFIFFVGVFASSWLGATVFWLGEWFIKRLPFMKHIYSASKQISAAI 146 (257)
Q Consensus 100 llli~liG~La~~~~g~~l~~~~e~ll~rIPlvksIY~siKql~~~~ 146 (257)
+++++++|++.--+++|+ .+|+-+.+=|=+. =..+|.+..+.
T Consensus 11 ~i~~li~G~~~Gffiark---~~~k~l~~NPpin--e~mir~M~~QM 52 (72)
T PRK00523 11 GIPLLIVGGIIGYFVSKK---MFKKQIRENPPIT--ENMIRAMYMQM 52 (72)
T ss_pred HHHHHHHHHHHHHHHHHH---HHHHHHHHCcCCC--HHHHHHHHHHh
Confidence 344578888888777774 4566666444322 13445544444
No 93
>PF04854 DUF624: Protein of unknown function, DUF624; InterPro: IPR006938 This family consists of uncharacterised or hypothetical bacterial proteins.
Probab=29.20 E-value=1.6e+02 Score=21.29 Aligned_cols=34 Identities=12% Similarity=0.325 Sum_probs=28.5
Q ss_pred CcchHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Q 025146 34 SSTRKACYAVLQSWVSKKFMTGCVVLFPVAVTFL 67 (257)
Q Consensus 34 ~~~~~~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~ 67 (257)
.+.-+.+++..|+.+++....|++.++-.++..+
T Consensus 42 ~~~~~~f~~~fk~nf~~~~~~~~~~~~~~~il~~ 75 (77)
T PF04854_consen 42 SYLFRDFWRAFKQNFKQSLLLGLILLLLLAILYV 75 (77)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3477899999999999999999999888777653
No 94
>COG4300 CadD Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]
Probab=28.58 E-value=1.5e+02 Score=26.52 Aligned_cols=72 Identities=15% Similarity=0.118 Sum_probs=40.6
Q ss_pred HHHhhHHHHHHHHHHHhcccccchhhHHHHHHHHHHhCCCCCCCCcCcEEEEEeCCCCeeEEEEEccccccccCCCCCCe
Q 025146 110 ASSWLGATVFWLGEWFIKRLPFMKHIYSASKQISAAISPDQNTSAFKEVAIIRHPRLGEYAFGFITSSVVLQRDHGDEEL 189 (257)
Q Consensus 110 a~~~~g~~l~~~~e~ll~rIPlvksIY~siKql~~~~~~~~~~~~f~~VVLVe~P~~g~~~iGFvT~~~~~~~~~~~~~~ 189 (257)
+-+++-+ +|+-.++.-||+ |=.+|-....=. ++++.. ++----+-.++..|.++-+|=-+ -+.|.
T Consensus 60 v~~fvp~---e~I~glLGLIPi----~LGik~l~~~d~-d~e~~~-~e~L~~~~~k~lv~tV~~vT~As------cG~DN 124 (205)
T COG4300 60 VLNFVPE---EWILGLLGLIPI----YLGIKVLILGDD-DGEEEA-KEELAFKKNKNLVGTVAIVTFAS------CGADN 124 (205)
T ss_pred HHhhCcH---HHHHHHHhHHHH----HHhhHHhhcccC-cCchhh-hHHHHhccccceEEEEEEEEEec------cCCcc
Confidence 3344444 444567788898 888887654311 111111 11000023356788888888532 26788
Q ss_pred EEEEecC
Q 025146 190 CSVYVPT 196 (257)
Q Consensus 190 v~VfvPt 196 (257)
..||+|-
T Consensus 125 IgvyvP~ 131 (205)
T COG4300 125 IGVFVPY 131 (205)
T ss_pred eEEEeee
Confidence 9999993
No 95
>PRK10845 colicin V production protein; Provisional
Probab=28.53 E-value=3.6e+02 Score=22.76 Aligned_cols=31 Identities=13% Similarity=0.373 Sum_probs=14.8
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHhhh
Q 025146 49 SKKFMTGCVVLFPVAVTFLVTWWFIEFVDSF 79 (257)
Q Consensus 49 ~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~ 79 (257)
+|=|+.=++-++=.++.+++-.+.++.+...
T Consensus 21 ~RGfv~ev~sl~g~i~a~~~A~~~~~~la~~ 51 (162)
T PRK10845 21 IRGFVREALSLVTWGCAFFVASHYYTYLSVW 51 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444445555555555555555444333
No 96
>TIGR03279 cyano_FeS_chp putative FeS-containing Cyanobacterial-specific oxidoreductase. Members of this protein family are predicted FeS-containing oxidoreductases of unknown function, apparently restricted to and universal across the Cyanobacteria. The high trusted cutoff score for this model, 700 bits, excludes homologs from other lineages. This exclusion seems justified because a significant number of sequence positions are simultaneously unique to and invariant across the Cyanobacteria, suggesting a specialized, conserved function, perhaps related to photosynthesis. A distantly related protein family, TIGR03278, in universal in and restricted to archaeal methanogens, and may be linked to methanogenesis.
Probab=28.24 E-value=1.8e+02 Score=29.07 Aligned_cols=83 Identities=14% Similarity=0.129 Sum_probs=51.0
Q ss_pred hhhHHHHHHHHHHhCCCCCCCCcCcEEEEE--eCCCCeeEEEEEccccccccCCCCCCeEEEEecCCCCCCceEEEEecC
Q 025146 133 KHIYSASKQISAAISPDQNTSAFKEVAIIR--HPRLGEYAFGFITSSVVLQRDHGDEELCSVYVPTNHLYIGDIFLVNSE 210 (257)
Q Consensus 133 ksIY~siKql~~~~~~~~~~~~f~~VVLVe--~P~~g~~~iGFvT~~~~~~~~~~~~~~v~VfvPtsPptsG~l~~Vp~~ 210 (257)
.+.|..++++++.+.... .-.. +|+-|+ |.++.+-+-|.+|+++......+.+---.+.+|..---.| +
T Consensus 328 ~~~~~~~~~~~~~l~~~~-~~~v-~v~~i~N~ffG~~vtV~GLltg~Dii~~l~~~~~gd~lliP~~ml~~~-------~ 398 (433)
T TIGR03279 328 NAVEQAFEPLVERLNAVE-GLEL-DLHGLASDYWGQEITVTGLLTGQDLIAGLKGKDLGDGLLLPSVMLKHG-------E 398 (433)
T ss_pred ccHHHHHHHHHHHHhcCC-CcEE-EEEEeccCCCCCCeeEeecccHHHHHHHhCCCCCCCeEEecHHHhcCC-------C
Confidence 357999999999987542 2222 355554 7788999999999987532211111112677777641122 3
Q ss_pred CeecCCCCHHHHHH
Q 025146 211 EIIRPNLSVREGIE 224 (257)
Q Consensus 211 ~V~~lDmsvEeAmk 224 (257)
++.-=|||+||.-+
T Consensus 399 ~~fLDd~t~~~l~~ 412 (433)
T TIGR03279 399 LVFLDDLTVEEVAE 412 (433)
T ss_pred CeECCCCcHHHHHH
Confidence 34444788888654
No 97
>PF02419 PsbL: PsbL protein; InterPro: IPR003372 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbL found in PSII. PsbL is located in a gene cluster with PsbE, PsbF and PsbJ (PsbEFJL). Both PsbL and PsbJ (IPR002682 from INTERPRO) are essential for proper assembly of the OEC. Mutations in PsbL prevent the formation of both PSII core dimers and PSII-light harvesting complex []. In addition, both PsbL and PsbJ are involved in the unidirectional flow of electrons, where PsbJ regulates the forward electron flow from D2 (Qa) to the plastoquinone pool, and PsbL prevents the reduction of PSII by back electron flow from plastoquinol protecting PSII from photo-inactivation [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_L 3A0B_l 3ARC_l 1S5L_l 2AXT_l 3BZ2_L 4FBY_L 3PRQ_L 3PRR_L 3KZI_L ....
Probab=28.23 E-value=98 Score=20.44 Aligned_cols=21 Identities=29% Similarity=0.475 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhH
Q 025146 95 GFLTSILFIFFVGVFASSWLG 115 (257)
Q Consensus 95 glli~llli~liG~La~~~~g 115 (257)
++-..+++||++|++..+++.
T Consensus 16 SLY~GLllifvl~vLFssyff 36 (37)
T PF02419_consen 16 SLYWGLLLIFVLAVLFSSYFF 36 (37)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHhhhhhc
Confidence 455567788999999888753
No 98
>COG1286 CvpA Uncharacterized membrane protein, required for colicin V production [General function prediction only]
Probab=28.15 E-value=4e+02 Score=23.10 Aligned_cols=70 Identities=13% Similarity=0.262 Sum_probs=32.7
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhhHHHHH
Q 025146 49 SKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVGVFASSWLGATVF 119 (257)
Q Consensus 49 ~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG~La~~~~g~~l~ 119 (257)
+|=|+..++-++=.++..|+-+..+.-+-..+...+++ +....+.+.+++....+++|......++..+.
T Consensus 21 ~RGfi~e~~sl~s~i~a~~vA~~fy~~~~~~~~~~i~~-~~~~~~~~~~~~f~~~l~v~~~i~~~i~~~i~ 90 (182)
T COG1286 21 RRGFIREVLSLLSWILAAFVASLFYKPLAPLLREYIPY-PNIAIGIAIAIFFVILLIVGAFVNSLIAFLII 90 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHcCC-hhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45556666666666666666665555443333322211 11123444444444444445544444444433
No 99
>PF07662 Nucleos_tra2_C: Na+ dependent nucleoside transporter C-terminus; InterPro: IPR011657 This entry consists of nucleoside transport proteins. Q62773 from SWISSPROT is a purine-specific Na+-nucleoside cotransporter localised to the bile canalicular membrane []. Q62674 from SWISSPROT is a Na+-dependent nucleoside transporter selective for pyrimidine nucleosides and adenosine. It also transports the anti-viral nucleoside analogues AZT and ddC []. This entry covers the C terminus of this family of transporters.; PDB: 3TIJ_A.
Probab=27.87 E-value=4.5e+02 Score=23.62 Aligned_cols=49 Identities=10% Similarity=0.219 Sum_probs=35.1
Q ss_pred chHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcc
Q 025146 36 TRKACYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLG 88 (257)
Q Consensus 36 ~~~~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg 88 (257)
.+++++.. +.+.-..|+=+.+=++..+..+.-++.++|+.+..+-.++|
T Consensus 39 ~~~n~~~A----~~~Ga~~g~~la~~I~a~LIafvalial~N~~l~~ig~~~g 87 (210)
T PF07662_consen 39 EPQNFFDA----ISNGALDGLKLALNIGAMLIAFVALIALLNGVLGWIGSLFG 87 (210)
T ss_dssp --SSHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGT
T ss_pred ccCCHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Confidence 45577766 45557888888888888888888888888888877655444
No 100
>CHL00114 psbX photosystem II protein X; Reviewed
Probab=27.37 E-value=33 Score=22.95 Aligned_cols=25 Identities=16% Similarity=0.575 Sum_probs=16.3
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHHH
Q 025146 44 LQSWVSKKFMTGCVVLFPVAVTFLV 68 (257)
Q Consensus 44 l~~~i~~~Fl~GLlvlLPl~vTi~i 68 (257)
|.+|+..-+.+++++++|+.+.+.+
T Consensus 5 LsnF~~SL~~Ga~ivvipi~~aLif 29 (39)
T CHL00114 5 LSAFINSLLLGAIIVVIPITLALLF 29 (39)
T ss_pred HHHHHHHHHHHHHHhHHHhhhheEE
Confidence 4555655566667778898765543
No 101
>PRK10494 hypothetical protein; Provisional
Probab=27.35 E-value=4.8e+02 Score=23.76 Aligned_cols=20 Identities=5% Similarity=-0.154 Sum_probs=12.8
Q ss_pred HHHHHHHHhhHHHHHHHHHH
Q 025146 105 FVGVFASSWLGATVFWLGEW 124 (257)
Q Consensus 105 liG~La~~~~g~~l~~~~e~ 124 (257)
++-+++...++.++...+|+
T Consensus 49 ~l~l~s~~~~~~~Ll~~LE~ 68 (259)
T PRK10494 49 ALLLLSLQPVADRLLRPIES 68 (259)
T ss_pred HHHHHhhhHHHHHHHHHHhc
Confidence 34445556777777777775
No 102
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=27.03 E-value=6e+02 Score=27.10 Aligned_cols=48 Identities=17% Similarity=0.311 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH--------------HHHHhhhhhhhhhhcccc
Q 025146 39 ACYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWF--------------IEFVDSFFSPIYARLGVE 90 (257)
Q Consensus 39 ~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl--------------~~~vd~~l~pl~~~lg~~ 90 (257)
+-|.|.+.| +..---++++..+.+|++..+ ...+.+.+.|++..+|++
T Consensus 503 ~~w~r~~~F----l~~Ag~iI~~~~iviw~l~~~~~~g~~~~~~~~S~l~~ig~~i~Pi~~plG~~ 564 (772)
T PRK09554 503 QTWQRLKGF----VLRAGKVIIIVSIFIGALNSFSLSGKIVDNINDSALASVSRVITPVLKPIGVH 564 (772)
T ss_pred HHHHHHHHH----HHHHHHHHHHHHHHHHHHHhCCCccccccchhhhHHHHHHHHHHHHHhccCCC
Confidence 455565555 444455666777777777543 344556778888777764
No 103
>PRK11026 ftsX cell division ABC transporter subunit FtsX; Provisional
Probab=26.99 E-value=5.2e+02 Score=24.11 Aligned_cols=26 Identities=15% Similarity=0.011 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHH
Q 025146 97 LTSILFIFFVGVFASSWLGATVFWLG 122 (257)
Q Consensus 97 li~llli~liG~La~~~~g~~l~~~~ 122 (257)
+.++++..++|+++..+-.++.++.+
T Consensus 281 ~~l~~~~~~ig~l~s~~s~~r~L~~~ 306 (309)
T PRK11026 281 LLLLLVCSMIGWVAAWLATVQHLRRF 306 (309)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455567888888887777776654
No 104
>PF02355 SecD_SecF: Protein export membrane protein; InterPro: IPR022813 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone protein (SecB), an ATPase (SecA), an integral membrane complex (SecCY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. The chaperone protein SecB [] is a highly acidic homotetrameric protein that exists as a "dimer of dimers" in the bacterial cytoplasm. SecB maintains preproteins in an unfolded state after translation, and targets these to the peripheral membrane protein ATPase SecA for secretion []. Together with SecY and SecG, SecE forms a multimeric channel through which preproteins are translocated, using both proton motive forces and ATP-driven secretion. The latter is mediated by SecA. The structure of the Escherichia coli SecYEG assembly revealed a sandwich of two membranes interacting through the extensive cytoplasmic domains []. Each membrane is composed of dimers of SecYEG. The monomeric complex contains 15 transmembrane helices. The SecD and SecF equivalents of the Gram-positive bacterium Bacillus subtilis are jointly present in one polypeptide, denoted SecDF, that is required to maintain a high capacity for protein secretion. Unlike the SecD subunit of the pre-protein translocase of E. coli, SecDF of B. subtilis was not required for the release of a mature secretory protein from the membrane, indicating that SecDF is involved in earlier translocation steps []. Comparison with SecD and SecF proteins from other organisms revealed the presence of 10 conserved regions in SecDF, some of which appear to be important for SecDF function. Interestingly, the SecDF protein of B. subtilis has 12 putative transmembrane domains. Thus, SecDF does not only show sequence similarity but also structural similarity to secondary solute transporters []. This entry represents bacterial SecD and SecF protein export membrane proteins and their archaeal homologues []. It is found in association with PF07549 from PFAM SecD and SecF proteins are part of the multimeric protein export complex comprising SecA, D, E, F, G, Y, and YajC []. SecD and SecF are required to maintain a proton motive force []. ; PDB: 3AQP_A 2RRN_A 3AQO_B.
Probab=26.58 E-value=4.3e+02 Score=22.94 Aligned_cols=68 Identities=15% Similarity=0.234 Sum_probs=43.0
Q ss_pred chHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhhH
Q 025146 36 TRKACYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVGVFASSWLG 115 (257)
Q Consensus 36 ~~~~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG~La~~~~g 115 (257)
.+.++..-+++.++|++.+.+.++++.+..++.-. . ..-++.+.+++=.++|...+.++.
T Consensus 120 ~~~~~~~s~~~tl~r~i~t~~ttll~~~~L~~~g~------------------~--~l~~Fa~~l~iGvi~~~~ss~~ia 179 (189)
T PF02355_consen 120 LREAINISIKQTLSRTIDTSLTTLLAALILFFFGG------------------G--SLKGFALTLIIGVIIGTYSSLFIA 179 (189)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--------------------C--HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc------------------c--hHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45577777778888888888776666543322111 1 112444455555778888888888
Q ss_pred HHHHHHHH
Q 025146 116 ATVFWLGE 123 (257)
Q Consensus 116 ~~l~~~~e 123 (257)
+.++.+++
T Consensus 180 ~~l~~~l~ 187 (189)
T PF02355_consen 180 RPLLYWLV 187 (189)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHh
Confidence 88777664
No 105
>PRK11720 galactose-1-phosphate uridylyltransferase; Provisional
Probab=26.45 E-value=1e+02 Score=29.56 Aligned_cols=39 Identities=15% Similarity=0.187 Sum_probs=32.5
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHHHHH
Q 025146 186 DEELCSVYVPTNHLYIGDIFLVNSEEIIRP-NLSVREGIE 224 (257)
Q Consensus 186 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEeAmk 224 (257)
+++...+|+|-+|-+-|-+.++|++.+..+ |++-|+...
T Consensus 215 End~fvAf~p~~p~~P~h~lIiPKrH~~~~~dl~dee~~~ 254 (346)
T PRK11720 215 ETEHWLAVVPYWAAWPFETLLLPKAHVLRLTDLTDAQRDD 254 (346)
T ss_pred ECCCEEEEeccccCCCCeEEEecccCCCChhhCCHHHHHH
Confidence 367889999999988899999999999776 888876543
No 106
>TIGR03745 conj_TIGR03745 integrating conjugative element membrane protein, PFL_4702 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in a region flanked by markers of conjugative transfer and/or transposition.
Probab=26.09 E-value=3.5e+02 Score=21.82 Aligned_cols=65 Identities=9% Similarity=0.125 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh------hcccchhhhHHHHHHHHHHHHHHH
Q 025146 39 ACYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYA------RLGVEIFGLGFLTSILFIFFVGVF 109 (257)
Q Consensus 39 ~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~------~lg~~ipglglli~llli~liG~L 109 (257)
.+|.- +|+|+-.|.+.+-=++..+.++.-....+..+- -+-+ -+|. .-.+|.+++++.+++++-.
T Consensus 30 g~~~t----ik~Y~~dg~~llgL~i~a~aFi~Va~~a~~ty~-Ei~~Gk~~W~~fg~-~v~VGviLLv~vIwLltkA 100 (104)
T TIGR03745 30 GIMQT----IKNYGYDGGILLGLLIAAIAFIGVAYHALGTYH-EIRTGKATWGDFGA-TVVVGAILLVVIIWLLTKA 100 (104)
T ss_pred CHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHcchhhHHhCcc-hhhhHhHHHHHHHHHHHHH
Confidence 57766 555566676666555555555544444443321 1110 1111 2356777777777776543
No 107
>COG3224 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.72 E-value=2.7e+02 Score=24.77 Aligned_cols=37 Identities=8% Similarity=0.121 Sum_probs=23.1
Q ss_pred hhhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhhHH
Q 025146 78 SFFSPIYARLGVEIFGLGFLTSILFIFFVGVFASSWLGA 116 (257)
Q Consensus 78 ~~l~pl~~~lg~~ipglglli~llli~liG~La~~~~g~ 116 (257)
.+++|.++.+ ..+...++..++.|.+.++++--.+-+
T Consensus 139 ~~~gp~l~~~--~l~~~~Li~t~~~v~LltYf~iP~vs~ 175 (195)
T COG3224 139 LLLGPKLGFL--PLPTRVLIGTLCSVSLLTYFVIPLVSR 175 (195)
T ss_pred HhhccccCCC--CccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455655443 345567777888888888876554443
No 108
>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=25.40 E-value=1.7e+02 Score=21.94 Aligned_cols=41 Identities=15% Similarity=0.460 Sum_probs=22.9
Q ss_pred HHHHHHHHHHhhhhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHhhH
Q 025146 67 LVTWWFIEFVDSFFSPIYARLGVEIFGLGFLTSILFIFFVGVFASSWLG 115 (257)
Q Consensus 67 ~il~wl~~~vd~~l~pl~~~lg~~ipglglli~llli~liG~La~~~~g 115 (257)
-+.+|+++++|.+- +..|-.+|++..+ ++-+++++.+.|+-
T Consensus 16 ~~~~wl~~lld~~s-------p~qW~aIGvi~gi-~~~~lt~ltN~YFK 56 (68)
T PF04971_consen 16 SAGYWLLQLLDQFS-------PSQWAAIGVIGGI-FFGLLTYLTNLYFK 56 (68)
T ss_pred hHHHHHHHHHhccC-------cccchhHHHHHHH-HHHHHHHHhHhhhh
Confidence 35677777776652 3334445655543 34566666665554
No 109
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=24.93 E-value=77 Score=28.57 Aligned_cols=17 Identities=24% Similarity=0.200 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHHHHH
Q 025146 56 CVVLFPVAVTFLVTWWF 72 (257)
Q Consensus 56 LlvlLPl~vTi~il~wl 72 (257)
+++++|+++.+.++.|+
T Consensus 240 l~~l~p~~~~~~~~~~~ 256 (262)
T PF14257_consen 240 LVGLLPWLPLILIIGLL 256 (262)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34444444444444443
No 110
>PF04341 DUF485: Protein of unknown function, DUF485; InterPro: IPR007436 This family includes several putative integral membrane proteins.
Probab=24.88 E-value=3.2e+02 Score=20.87 Aligned_cols=21 Identities=24% Similarity=0.610 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhh
Q 025146 60 FPVAVTFLVTWWFIEFVDSFF 80 (257)
Q Consensus 60 LPl~vTi~il~wl~~~vd~~l 80 (257)
.|+.+...+.+..|-.+..+.
T Consensus 19 ~~l~~i~l~~y~~~~ll~a~~ 39 (91)
T PF04341_consen 19 WPLSAIFLVLYFGFVLLSAFA 39 (91)
T ss_pred HHHHHHHHHHHHHHHHHHHHC
Confidence 444555555555555444443
No 111
>PRK09881 D-ala-D-ala transporter subunit; Provisional
Probab=24.86 E-value=5.1e+02 Score=23.92 Aligned_cols=32 Identities=9% Similarity=0.027 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Q 025146 39 ACYAVLQSWVSKKFMTGCVVLFPVAVTFLVTW 70 (257)
Q Consensus 39 ~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~ 70 (257)
..+.|+..-.+.++.-+++..+=-.+.-.++.
T Consensus 84 Dv~~rl~~g~~~sl~ia~~~~~is~iiG~~lG 115 (296)
T PRK09881 84 DLFSRVLVGSQQSILAGLVVVAIAGMIGSLLG 115 (296)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56677776667777666655554433333333
No 112
>PF02762 Cbl_N3: CBL proto-oncogene N-terminus, SH2-like domain; InterPro: IPR014742 Cbl (Casitas B-lineage lymphoma) is an adaptor protein that functions as a negative regulator of many signalling pathways that start from receptors at the cell surface. The N-terminal region of Cbl contains a Cbl-type phosphotyrosine-binding (Cbl-PTB) domain, which is composed of three evolutionarily conserved domains: an N-terminal four-helix bundle (4H) domain, an EF hand-like calcium-binding domain, and a divergent SH2-like domain. The calcium-bound EF-hand wedges between the 4H and SH2 domains, and roughly determines their relative orientation. The Cbl-PTB domain has also been named Cbl N-terminal (Cbl-N) or tyrosine kinase binding (TKB) domain [, ]. The N-terminal 4H domain contains four long alpha-helices. The C and D helices in this domain pack against the adjacent EF-hand-like domain, and a highly conserved loop connecting the A and B helices contacts the SH2-like domain. The EF-hand motif is similar to classical EF-hand proteins. The SH2-like domain retains the general helix-sheet-helix architecture of the SH2 fold, but lacks the secondary beta-sheet, comprising beta-strands D', E and F, and also a prominent BG loop []. This entry represents the SH2-like domain.; PDB: 3PFV_A 3VGO_A 3PLF_B 2Y1M_A 2CBL_A 3BUX_B 3BUN_B 3BUM_B 3OB1_B 3BUW_B ....
Probab=24.69 E-value=1e+02 Score=23.82 Aligned_cols=38 Identities=21% Similarity=0.461 Sum_probs=25.2
Q ss_pred HHHHHHHHHHhCCCCCCCCcCcEEEEEeCCCCeeEEEEEccc
Q 025146 136 YSASKQISAAISPDQNTSAFKEVAIIRHPRLGEYAFGFITSS 177 (257)
Q Consensus 136 Y~siKql~~~~~~~~~~~~f~~VVLVe~P~~g~~~iGFvT~~ 177 (257)
|.-+|...+.+..+. .++ +--.---+-|-|+||+||.+
T Consensus 11 Ydevk~~L~~~~~kp--GsY--iFRlSCTrLGQWAIGyV~~d 48 (86)
T PF02762_consen 11 YDEVKARLQHYRDKP--GSY--IFRLSCTRLGQWAIGYVTQD 48 (86)
T ss_dssp HHHHHHHHGGGTTST--TEE--EEEEESSSTTSEEEEEEETT
T ss_pred HHHHHHHHHHHhCCc--ccE--EEeeccccccceeEEEEcCC
Confidence 788888888876432 222 22223346799999999985
No 113
>PHA03164 hypothetical protein; Provisional
Probab=24.63 E-value=1.7e+02 Score=22.62 Aligned_cols=44 Identities=18% Similarity=0.180 Sum_probs=22.2
Q ss_pred CCCCCCCCCCCCCCCCC--CCcchHHHHHHHHHHHHHHHHhhHHHH
Q 025146 16 LTPHDPEDVPKSPPHSP--NSSTRKACYAVLQSWVSKKFMTGCVVL 59 (257)
Q Consensus 16 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~i~~~Fl~GLlvl 59 (257)
..||..||.+--.--++ .+++.-+.|+.-|+-+.=..++||++.
T Consensus 24 VspH~~NdtsfveclpPpqisrtawnlwnnrRktftFlvLtgLaIa 69 (88)
T PHA03164 24 VSPHQENDTSFVECLPPPQISRTAWNLWNNRRKTFTFLVLTGLAIA 69 (88)
T ss_pred cccccccCcccceecCCcccCchhHHHHHhhhheeehHHHHHHHHH
Confidence 45676665432111111 144666777665554433456776654
No 114
>PRK15050 2-aminoethylphosphonate transport system permease PhnU; Provisional
Probab=24.13 E-value=5.4e+02 Score=23.24 Aligned_cols=39 Identities=8% Similarity=-0.054 Sum_probs=19.6
Q ss_pred hHHHHHHHHHHHHHHHHHHh--hHHHHHHHHHHHhcccccc
Q 025146 94 LGFLTSILFIFFVGVFASSW--LGATVFWLGEWFIKRLPFM 132 (257)
Q Consensus 94 lglli~llli~liG~La~~~--~g~~l~~~~e~ll~rIPlv 132 (257)
++.++.+++.+.+|++..++ -+++++..+=.+..-+|.+
T Consensus 84 ~~~~l~~~~g~~~a~~~~~~~~~~~~~~~~~~~~~~~iP~~ 124 (296)
T PRK15050 84 ASTAGCLVLGVLLALVLAFVPFPGASLVGRFIDTFVAFPSF 124 (296)
T ss_pred HHHHHHHHHHHHHHHHHHcccCchHHHHHHHHHHHHHHHHH
Confidence 34444555566666665432 2344444433445567754
No 115
>COG4818 Predicted membrane protein [Function unknown]
Probab=24.02 E-value=3.8e+02 Score=21.52 Aligned_cols=8 Identities=38% Similarity=0.804 Sum_probs=4.8
Q ss_pred ccccchhh
Q 025146 128 RLPFMKHI 135 (257)
Q Consensus 128 rIPlvksI 135 (257)
|+|+++.|
T Consensus 88 KlPv~Gdi 95 (105)
T COG4818 88 KLPVVGDI 95 (105)
T ss_pred cCceechH
Confidence 67776544
No 116
>PF08006 DUF1700: Protein of unknown function (DUF1700); InterPro: IPR012963 This family contains many hypothetical bacterial proteins and two putative membrane proteins (Q6GFD0 from SWISSPROT and Q6G806 from SWISSPROT).
Probab=23.56 E-value=4.5e+02 Score=22.16 Aligned_cols=15 Identities=0% Similarity=0.450 Sum_probs=7.4
Q ss_pred hHHHHHHHHHHHHHH
Q 025146 55 GCVVLFPVAVTFLVT 69 (257)
Q Consensus 55 GLlvlLPl~vTi~il 69 (257)
++.+++|+.++++.+
T Consensus 92 ~~~~vl~~~~~~~~~ 106 (181)
T PF08006_consen 92 SFIIVLAILIVLILL 106 (181)
T ss_pred HHHHHHHHHHHHHHH
Confidence 444555555554443
No 117
>PF02304 Phage_B: Scaffold protein B; InterPro: IPR003513 This is a family of proteins from single-stranded DNA bacteriophages. Scaffold proteins B and D are required for procapsid formation. Sixty copies of the internal scaffold protein B are found in the procapsid.; GO: 0019069 viral capsid assembly, 0046729 viral procapsid; PDB: 1CD3_B 1AL0_B.
Probab=23.47 E-value=75 Score=25.91 Aligned_cols=45 Identities=11% Similarity=0.177 Sum_probs=13.4
Q ss_pred cccCCCCCCCCCCCCCCCCCCCCCC--CcchHHHHHHHHHHHHHHHH
Q 025146 9 SSSLSQGLTPHDPEDVPKSPPHSPN--SSTRKACYAVLQSWVSKKFM 53 (257)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~i~~~Fl 53 (257)
.|+.+|+..|.|++---.+|.-|+. ++-++...+.-+..+.|.|-
T Consensus 30 gs~~~~~~~gt~p~~LR~~~~~~d~E~ERQk~~~iE~~ka~~~R~FG 76 (117)
T PF02304_consen 30 GSPEQGVPSGTEPNGLRRDPVQSDSEAERQKRIDIEAGKAACARRFG 76 (117)
T ss_dssp -----------------------------HHHHHHHHHHHHHHHHHH
T ss_pred CCcccCCCCCCCccccccCcccchHHHHHHHHHHHHHHHHHHHHHcC
Confidence 4678888888888777666666555 44555777888888888873
No 118
>PRK00665 petG cytochrome b6-f complex subunit PetG; Reviewed
Probab=23.44 E-value=1.2e+02 Score=20.10 Aligned_cols=22 Identities=18% Similarity=0.602 Sum_probs=17.5
Q ss_pred hHHHHHHHHHHHHHHHHHHhhH
Q 025146 94 LGFLTSILFIFFVGVFASSWLG 115 (257)
Q Consensus 94 lglli~llli~liG~La~~~~g 115 (257)
.|+++.++-+.++|+++..|.-
T Consensus 7 ~GiVLGlipiTl~GlfvaAylQ 28 (37)
T PRK00665 7 CGIVLGLIPVTLAGLFVAAWNQ 28 (37)
T ss_pred hhHHHHhHHHHHHHHHHHHHHH
Confidence 5778888889999999887653
No 119
>TIGR01998 PTS-II-BC-nag PTS system, N-acetylglucosamine-specific IIBC component. This model represents the combined B and C domains of the PTS transport system enzyme II specific for N-acetylglucosamine 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, N-acetylglucosamine-specific IIABC component". This family is most closely related to the glucose-specific PTS enzymes.
Probab=23.41 E-value=4.8e+02 Score=26.11 Aligned_cols=87 Identities=10% Similarity=0.034 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHHHH-HHHhhhhhhhhhhccc--chhhhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhcccccchhh
Q 025146 59 LFPVAVTFLVTWWFI-EFVDSFFSPIYARLGV--EIFGLGFLTSILFIFFVGVFASSWLGATVFWLGEWFIKRLPFMKHI 135 (257)
Q Consensus 59 lLPl~vTi~il~wl~-~~vd~~l~pl~~~lg~--~ipglglli~llli~liG~La~~~~g~~l~~~~e~ll~rIPlvksI 135 (257)
+.+-+++.++..|++ ++.+..+...+++++. -.|.+.+++.+.+-+++|.+- .+++..+-+..+.+-..=|+-.-+
T Consensus 115 vF~gIi~g~i~a~iy~k~~~iklP~~l~~f~G~rfvPiit~li~~~l~~~~~~iw-p~i~~~I~~~~~~i~~~g~~g~~i 193 (476)
T TIGR01998 115 VFVGILAGLIAGALYNRFSEIKLPEALSFFSGKRLVPIMAGFVGLVLAALLGYVW-PTLYGGIVAFGESISGLGALGAGI 193 (476)
T ss_pred HHHHHHHHHHHHHHHHHHheeECcchhhhcccchHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhcchHHHHH
Confidence 455666778888887 4444444444444421 245555555444444455433 445554444444332222344467
Q ss_pred HHHHHHHHHHh
Q 025146 136 YSASKQISAAI 146 (257)
Q Consensus 136 Y~siKql~~~~ 146 (257)
|..+.++.-.+
T Consensus 194 yG~l~rlLip~ 204 (476)
T TIGR01998 194 YGFLNRLLIPT 204 (476)
T ss_pred HHHHHHHHHHh
Confidence 88877766544
No 120
>TIGR00209 galT_1 galactose-1-phosphate uridylyltransferase, family 1. This enzyme is involved in glucose and galactose interconversion. This model describes one of two extremely distantly related branches of the model pfam01087 from PFAM.
Probab=22.90 E-value=1.4e+02 Score=28.67 Aligned_cols=38 Identities=16% Similarity=0.220 Sum_probs=31.7
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHHHH
Q 025146 186 DEELCSVYVPTNHLYIGDIFLVNSEEIIRP-NLSVREGI 223 (257)
Q Consensus 186 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEeAm 223 (257)
+++.+.+|+|-.|-+-|-+.++|++-+..+ |++-++..
T Consensus 215 End~fvAf~p~~p~~Pgh~lIiPKrH~~~~~dl~d~e~~ 253 (347)
T TIGR00209 215 ETEHWIAVVPYWAIWPFETLLLPKAHVLRITDLTDAQRS 253 (347)
T ss_pred ECCCEEEEeccCCCCCCeEEEeeccCCCChhhCCHHHHH
Confidence 367899999999988999999999999765 78777543
No 121
>CHL00008 petG cytochrome b6/f complex subunit V
Probab=22.80 E-value=1.2e+02 Score=20.04 Aligned_cols=22 Identities=23% Similarity=0.628 Sum_probs=17.5
Q ss_pred hHHHHHHHHHHHHHHHHHHhhH
Q 025146 94 LGFLTSILFIFFVGVFASSWLG 115 (257)
Q Consensus 94 lglli~llli~liG~La~~~~g 115 (257)
.|+++.++-+.++|+++..|+-
T Consensus 7 ~GiVLGlipvTl~GlfvaAylQ 28 (37)
T CHL00008 7 FGIVLGLIPITLAGLFVTAYLQ 28 (37)
T ss_pred hhHHHHhHHHHHHHHHHHHHHH
Confidence 5777888889999999887653
No 122
>PRK00753 psbL photosystem II reaction center L; Provisional
Probab=22.29 E-value=1.2e+02 Score=20.20 Aligned_cols=21 Identities=24% Similarity=0.649 Sum_probs=15.9
Q ss_pred hHHHHHHHHHHHHHHHHHHhh
Q 025146 94 LGFLTSILFIFFVGVFASSWL 114 (257)
Q Consensus 94 lglli~llli~liG~La~~~~ 114 (257)
-++-..++++|++|++.++|+
T Consensus 17 TSLy~GlLlifvl~vLFssYf 37 (39)
T PRK00753 17 TSLYLGLLLVFVLGILFSSYF 37 (39)
T ss_pred hhHHHHHHHHHHHHHHHHhhc
Confidence 355556778899999988875
No 123
>COG1390 NtpE Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]
Probab=22.15 E-value=1.7e+02 Score=25.83 Aligned_cols=110 Identities=12% Similarity=0.029 Sum_probs=60.4
Q ss_pred HHHhhHHHHHHHHHHHhcccccchhhHHHHHHHHHHhCCCCCCCCc---CcEEEEEeCCCCeeEEEEEccccccc-cCCC
Q 025146 110 ASSWLGATVFWLGEWFIKRLPFMKHIYSASKQISAAISPDQNTSAF---KEVAIIRHPRLGEYAFGFITSSVVLQ-RDHG 185 (257)
Q Consensus 110 a~~~~g~~l~~~~e~ll~rIPlvksIY~siKql~~~~~~~~~~~~f---~~VVLVe~P~~g~~~iGFvT~~~~~~-~~~~ 185 (257)
|..-..+.++...+.++.. +|+.+++-+..+.++.+...+ -..++.++... ..+-+....+..- ....
T Consensus 67 A~le~r~~~Le~~ee~l~~------~~~~~~e~L~~i~~~~~~~~l~~ll~~~~~~~~~~--~~iV~~~e~d~~~v~~~~ 138 (194)
T COG1390 67 ALLEARRKLLEAKEEILES------VFEAVEEKLRNIASDPEYESLQELLIEALEKLLGG--ELVVYLNEKDKALVEQIL 138 (194)
T ss_pred HHHHHHHHHHHHHHHHHHH------HHHHHHHHHHcCcCCcchHHHHHHHHHHHHhcCCC--CeEEEeCcccHHHHHHHH
Confidence 3344555666666666554 466666666666554332221 11223344322 2222222221100 0000
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecCCCCHHHHHHHHh
Q 025146 186 DEELCSVYVPTNHLYIGDIFLVNSEEIIRPNLSVREGIEIIV 227 (257)
Q Consensus 186 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~lDmsvEeAmk~ii 227 (257)
.+..+.+.+.-+.++.|.+++..++--..+|.|++.-+..+.
T Consensus 139 ~~~~~~~~~~~~~d~~GGvvv~~~dG~i~~dnt~~sil~~~~ 180 (194)
T COG1390 139 RELKIGVELGEGIDIIGGVVVESRDGKIRLDNTFESILERVL 180 (194)
T ss_pred hhcccchhccccCCCcceEEEEeCCCceeecCcHHHHHHHHH
Confidence 113456666666788999999999999999999998887653
No 124
>KOG1277 consensus Endosomal membrane proteins, EMP70 [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.10 E-value=2e+02 Score=29.29 Aligned_cols=28 Identities=18% Similarity=0.320 Sum_probs=24.9
Q ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHH
Q 025146 45 QSWVSKKFMTGCVVLFPVAVTFLVTWWF 72 (257)
Q Consensus 45 ~~~i~~~Fl~GLlvlLPl~vTi~il~wl 72 (257)
+.|+|+-++++-++-.|+..|..+++.+
T Consensus 357 ~~Wik~m~lta~Lfp~~~~~t~~~~N~v 384 (593)
T KOG1277|consen 357 RRWIKNMLLTASLFPVPVFGTAFLLNTV 384 (593)
T ss_pred HHHHHHHHHHhhhhhHHHHHHHHHHHHH
Confidence 6799999999999999999998887754
No 125
>PRK02463 OxaA-like protein precursor; Provisional
Probab=22.06 E-value=3.3e+02 Score=25.72 Aligned_cols=20 Identities=10% Similarity=0.198 Sum_probs=15.8
Q ss_pred HHHHHHhhHHHHHHHHHHHH
Q 025146 48 VSKKFMTGCVVLFPVAVTFL 67 (257)
Q Consensus 48 i~~~Fl~GLlvlLPl~vTi~ 67 (257)
.||..+.|+++.+.+++|--
T Consensus 5 ~k~~~~~~~~~~~~~~lsgc 24 (307)
T PRK02463 5 LKRILFSGLALSMLLTLTGC 24 (307)
T ss_pred HHHHHHHHHHHHHHHHHhcc
Confidence 46668888888888888874
No 126
>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=22.05 E-value=7.1e+02 Score=23.86 Aligned_cols=24 Identities=21% Similarity=0.286 Sum_probs=18.7
Q ss_pred HHHHHHHhhHHHHHHHHHHHHHHH
Q 025146 47 WVSKKFMTGCVVLFPVAVTFLVTW 70 (257)
Q Consensus 47 ~i~~~Fl~GLlvlLPl~vTi~il~ 70 (257)
-++|++.+|+--.+|+++.-=++-
T Consensus 14 ~~~~~lm~gis~miP~ivagGll~ 37 (346)
T TIGR01427 14 GIYKHLLTGVSYMLPFVVAGGIII 37 (346)
T ss_pred HHHHHHHhchHHHHHHHHHHHHHH
Confidence 378889999999999988764443
No 127
>PF14018 DUF4234: Domain of unknown function (DUF4234)
Probab=21.95 E-value=3.1e+02 Score=19.73 Aligned_cols=60 Identities=15% Similarity=0.178 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhhhh-cccchhhhHHHHHHHHHHHHHHHHHHhhHHHHHH
Q 025146 60 FPVAVTFLVTWWFIEFVDSFFSPIYAR-LGVEIFGLGFLTSILFIFFVGVFASSWLGATVFW 120 (257)
Q Consensus 60 LPl~vTi~il~wl~~~vd~~l~pl~~~-lg~~ipglglli~llli~liG~La~~~~g~~l~~ 120 (257)
-=+..-+|-++|+++.-+.+= .+... .+..-..+.+++.++.|-+.++..-...++++-+
T Consensus 10 siiT~GIY~l~W~y~~~~~~~-~~~~~~~~~~~~~~~lll~ilt~gi~~i~w~~k~~~~i~~ 70 (75)
T PF14018_consen 10 SIITCGIYGLYWLYKIWKELN-QLTGRIISPRSMTLWLLLSILTCGIYSIYWAYKLGNRINE 70 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-HHhcCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334667899999998776632 11111 0111123444445555556666655555555543
No 128
>cd00608 GalT Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme contains two identical subunits. It also demonstrates that the active site is formed by amino acid residues from both subunits of the dimer.
Probab=21.85 E-value=1.3e+02 Score=28.23 Aligned_cols=37 Identities=16% Similarity=0.194 Sum_probs=29.8
Q ss_pred CCCeEEEEecCCCCCCceEEEEecCCeecC-CCCHHHH
Q 025146 186 DEELCSVYVPTNHLYIGDIFLVNSEEIIRP-NLSVREG 222 (257)
Q Consensus 186 ~~~~v~VfvPtsPptsG~l~~Vp~~~V~~l-DmsvEeA 222 (257)
+++...+|+|-+|-+-|-+.++|++-+..+ |++-++.
T Consensus 205 end~~va~~p~~~~~P~e~lIiPKrH~~~~~dl~~~e~ 242 (329)
T cd00608 205 ENEHFVAVVPFWARWPFEVHILPKRHVSRFTDLTDEER 242 (329)
T ss_pred eCCCEEEEEecCCCCCcEEEEecCCCcCChhHCCHHHH
Confidence 357789999999977789999999988665 7777654
No 129
>PRK15120 lipopolysaccharide ABC transporter permease LptF; Provisional
Probab=21.83 E-value=6.6e+02 Score=23.52 Aligned_cols=35 Identities=0% Similarity=0.157 Sum_probs=22.6
Q ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025146 46 SWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFF 80 (257)
Q Consensus 46 ~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l 80 (257)
.+|.|.++...++.+=+.+.++++.-+++.+|.+.
T Consensus 5 RYi~re~l~~~~~~l~~l~~i~~~~~l~~~l~~~~ 39 (366)
T PRK15120 5 RYLVRETLKSQLAILFILLLIFFCQKLVRILGAAV 39 (366)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35666666666666666666777777777666654
No 130
>COG2981 CysZ Uncharacterized protein involved in cysteine biosynthesis [Amino acid transport and metabolism]
Probab=21.67 E-value=4.7e+02 Score=24.25 Aligned_cols=55 Identities=15% Similarity=0.370 Sum_probs=25.2
Q ss_pred HHHHHHHHHHH----HHHHHHHHhhhhhhhhhhcccch----hhhHHHHHHHHHHHHHHHHHH
Q 025146 58 VLFPVAVTFLV----TWWFIEFVDSFFSPIYARLGVEI----FGLGFLTSILFIFFVGVFASS 112 (257)
Q Consensus 58 vlLPl~vTi~i----l~wl~~~vd~~l~pl~~~lg~~i----pglglli~llli~liG~La~~ 112 (257)
+++|+.+-+.+ .+|+++..+.++.-+.++++-.. ..+..+..+.+..+.|++.++
T Consensus 28 vilpLl~ni~L~~gl~~~~~~~~~~wid~Lm~~iPdWl~wLs~v~~~la~L~lll~~~~lfs~ 90 (250)
T COG2981 28 VILPLLLNILLWGGLFWLLFSQALPWIDTLMPGIPDWLGWLSYLLWILAVLLLLLVFAFLFST 90 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45565554444 45566666555544444332111 123334444444555555443
No 131
>PRK12780 fliR flagellar biosynthesis protein FliR; Reviewed
Probab=21.31 E-value=6.2e+02 Score=22.95 Aligned_cols=42 Identities=12% Similarity=0.156 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhh
Q 025146 39 ACYAVLQSWVSKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFF 80 (257)
Q Consensus 39 ~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l 80 (257)
+.++.+.+++.+.|..|+..-+|++++..+..-.+..+.+..
T Consensus 167 ~~~~~~~~~~~~~f~~al~lAaP~i~~lll~~l~lGll~R~~ 208 (251)
T PRK12780 167 TALVQLVDQLSEAFTLALRIASPFIIYSVIVNLAVGLVNKLT 208 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 334556677888999999999999999999998888887764
No 132
>PF12911 OppC_N: N-terminal TM domain of oligopeptide transport permease C
Probab=21.28 E-value=2e+02 Score=19.32 Aligned_cols=33 Identities=12% Similarity=0.166 Sum_probs=19.4
Q ss_pred chHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Q 025146 36 TRKACYAVLQSWVSKKFMTGCVVLFPVAVTFLVTW 70 (257)
Q Consensus 36 ~~~~~~~~l~~~i~~~Fl~GLlvlLPl~vTi~il~ 70 (257)
+-+..|+++++. +..+.|+++++=+++...+--
T Consensus 4 ~~~~~~~~f~~n--k~a~~gl~il~~~vl~ai~~p 36 (56)
T PF12911_consen 4 PWKDAWRRFRRN--KLAVIGLIILLILVLLAIFAP 36 (56)
T ss_pred HHHHHHHHHHhC--chHHHHHHHHHHHHHHHHHHH
Confidence 445677777664 556667776665554444433
No 133
>PF12841 YvrJ: YvrJ protein family; InterPro: IPR024419 This entry is represents a family of uncharacterised protein. The function of the Bacillus subtilis YvrJ protein is not known, but its expression is regulated by the cell envelope stress-inducible sigma factor YvrI [].
Probab=21.11 E-value=1.7e+02 Score=19.37 Aligned_cols=24 Identities=25% Similarity=0.400 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhh
Q 025146 60 FPVAVTFLVTWWFIEFVDSFFSPI 83 (257)
Q Consensus 60 LPl~vTi~il~wl~~~vd~~l~pl 83 (257)
.|+++++|++.-+=+.+|.+...+
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 599999999998888787765443
No 134
>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=20.85 E-value=1.6e+02 Score=19.43 Aligned_cols=21 Identities=19% Similarity=0.588 Sum_probs=16.9
Q ss_pred hHHHHHHHHHHHHHHHHHHhh
Q 025146 94 LGFLTSILFIFFVGVFASSWL 114 (257)
Q Consensus 94 lglli~llli~liG~La~~~~ 114 (257)
.|+++.++-+.++|+++..|.
T Consensus 7 ~GiVlGli~vtl~Glfv~Ay~ 27 (37)
T PF02529_consen 7 SGIVLGLIPVTLAGLFVAAYL 27 (37)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHhHHHHHHHHHHHHHH
Confidence 578888888999999887654
No 135
>COG3715 ManY Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]
Probab=20.56 E-value=7.1e+02 Score=23.30 Aligned_cols=65 Identities=12% Similarity=0.212 Sum_probs=37.3
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh-hc---ccchhhhHHHHH--------HHHHHHHHHHHHHh
Q 025146 49 SKKFMTGCVVLFPVAVTFLVTWWFIEFVDSFFSPIYA-RL---GVEIFGLGFLTS--------ILFIFFVGVFASSW 113 (257)
Q Consensus 49 ~~~Fl~GLlvlLPl~vTi~il~wl~~~vd~~l~pl~~-~l---g~~ipglglli~--------llli~liG~La~~~ 113 (257)
..-++.++...+|..+..|+-.-.++++.+.+.+.+. -+ |.-+|.+|+.++ +.--|++|++...|
T Consensus 142 ~~~~~~~~~~~ipaf~~~~~g~~~V~~~l~aiP~~l~~GL~vaGgmlpavGfAmll~~M~~k~~~pff~lGFv~aay 218 (265)
T COG3715 142 GALLLQALRIAIPAFLVAYFGSSAVQSLLDAIPEWLTNGLAVAGGMLPAVGFAMLLNMMAKKELIPFFFLGFVLAAY 218 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhchHHHhhhhhHhcchhHHHHHHHHHHHHHhcchhHHHHHHHHHHHH
Confidence 3446778888889988888865555544444433332 11 223566776654 33445666665544
No 136
>PHA00003 B internal scaffolding protein
Probab=20.39 E-value=1.1e+02 Score=25.03 Aligned_cols=46 Identities=15% Similarity=0.236 Sum_probs=33.2
Q ss_pred ccccCCCCCCCCCCCCCCCCCCCCCCCc--chHHHHHHHHHHHHHHHH
Q 025146 8 TSSSLSQGLTPHDPEDVPKSPPHSPNSS--TRKACYAVLQSWVSKKFM 53 (257)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~l~~~i~~~Fl 53 (257)
..|+.++++.|.|++---+.|+-++.+. -++...+.-+...+|.|-
T Consensus 32 n~s~~~g~~~~t~p~gLRrdpvq~d~EaERqkr~~iEagk~~c~RrFG 79 (120)
T PHA00003 32 NGSSVQGVANGTDPSGLRRDPVQQDLEAERQKRADIEAGKAICARRFG 79 (120)
T ss_pred CCCcccCCCCCCCccccccCcccchHHHHHHHHHHHHHHHHHHHHHcC
Confidence 3567888888888877767777666644 445777777888888773
No 137
>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=20.30 E-value=4.5e+02 Score=23.36 Aligned_cols=20 Identities=20% Similarity=0.482 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHhhHHHHH
Q 025146 100 ILFIFFVGVFASSWLGATVF 119 (257)
Q Consensus 100 llli~liG~La~~~~g~~l~ 119 (257)
+.+++++++...++.|+.+-
T Consensus 101 ~~~al~~sl~~~~~~~~~la 120 (202)
T PF07290_consen 101 APVALFLSLFFTRYLGRPLA 120 (202)
T ss_pred HHHHHHHHHHHHHHHhHHHH
Confidence 34466667776666665443
No 138
>PRK10617 cytochrome c-type protein NapC; Provisional
Probab=20.10 E-value=2.7e+02 Score=24.74 Aligned_cols=10 Identities=20% Similarity=0.275 Sum_probs=6.4
Q ss_pred HHHHHHHHHH
Q 025146 40 CYAVLQSWVS 49 (257)
Q Consensus 40 ~~~~l~~~i~ 49 (257)
.++++++|++
T Consensus 10 ~~~~~~~~~~ 19 (200)
T PRK10617 10 LIKRLWKWWR 19 (200)
T ss_pred HHHHHHHHHH
Confidence 5667777764
No 139
>PRK10905 cell division protein DamX; Validated
Probab=20.01 E-value=72 Score=30.62 Aligned_cols=19 Identities=32% Similarity=0.558 Sum_probs=14.9
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 025146 93 GLGFLTSILFIFFVGVFAS 111 (257)
Q Consensus 93 glglli~llli~liG~La~ 111 (257)
|+|+++++|||+.||-..+
T Consensus 3 GiGilVLlLLIigIgSALk 21 (328)
T PRK10905 3 GVGILVLLLLIIGIGSALK 21 (328)
T ss_pred chhHHHHHHHHHHHhHhhc
Confidence 6888888888888887654
Done!