Query 039848
Match_columns 164
No_of_seqs 109 out of 605
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 02:35:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039848.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039848hhsearch_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 4.2E-40 9E-45 266.9 15.0 149 6-164 2-158 (222)
2 PF04367 DUF502: Protein of un 100.0 9.6E-29 2.1E-33 182.0 11.1 96 68-164 2-98 (108)
3 PRK09824 PTS system beta-gluco 83.3 15 0.00033 34.8 10.7 85 30-117 219-305 (627)
4 TIGR02120 GspF general secreti 82.7 16 0.00035 31.9 10.1 23 88-110 242-264 (399)
5 PRK15350 type III secretion sy 80.9 18 0.00038 25.8 9.3 80 7-102 7-86 (88)
6 PRK05700 fliQ flagellar biosyn 80.7 18 0.00039 25.8 9.2 80 7-102 7-86 (89)
7 TIGR01402 fliQ flagellar biosy 80.6 18 0.00039 25.8 9.1 81 7-103 7-87 (88)
8 PRK12772 bifunctional flagella 79.8 22 0.00048 33.5 10.4 39 5-52 167-205 (609)
9 PRK06010 fliQ flagellar biosyn 79.5 20 0.00043 25.6 9.2 81 6-102 6-86 (88)
10 PRK11007 PTS system trehalose( 79.0 24 0.00053 32.3 10.2 86 29-117 231-319 (473)
11 PRK09796 PTS system cellobiose 79.0 27 0.00058 32.0 10.5 87 29-118 220-308 (472)
12 COG1459 PulF Type II secretory 78.4 39 0.00084 30.2 11.1 24 87-110 238-261 (397)
13 TIGR01403 fliQ_rel_III type II 76.2 24 0.00052 24.7 8.5 77 9-101 5-81 (81)
14 PRK09586 murP PTS system N-ace 76.2 35 0.00076 31.3 10.4 84 29-116 230-314 (476)
15 TIGR01996 PTS-II-BC-sucr PTS s 75.1 42 0.00092 30.4 10.6 85 30-117 230-316 (461)
16 COG4794 EscS Type III secretor 74.1 15 0.00032 26.3 5.9 72 26-104 17-88 (89)
17 TIGR00851 mtlA PTS system, man 74.0 44 0.00095 29.2 10.1 83 29-114 93-182 (338)
18 PRK12781 fliQ flagellar biosyn 73.9 29 0.00064 24.7 9.2 80 7-102 7-86 (88)
19 TIGR01992 PTS-IIBC-Tre PTS sys 73.0 44 0.00095 30.4 10.2 86 29-117 232-319 (462)
20 COG1987 FliQ Flagellar biosynt 72.3 33 0.00072 24.6 8.0 77 10-102 10-86 (89)
21 PRK15083 PTS system mannitol-s 68.7 19 0.00041 34.0 7.1 83 29-114 101-190 (639)
22 PRK10573 type IV pilin biogene 68.5 28 0.00062 30.4 7.8 18 91-108 244-261 (399)
23 TIGR01427 PTS_IIC_fructo PTS s 66.5 48 0.001 29.1 8.7 72 29-101 112-185 (346)
24 PRK15333 type III secretion sy 62.1 54 0.0012 23.3 8.5 77 10-102 8-84 (86)
25 PF05552 TM_helix: Conserved T 61.4 28 0.0006 21.8 4.8 27 68-94 18-44 (53)
26 PRK11404 putative PTS system 60.5 52 0.0011 30.2 8.1 69 29-100 228-302 (482)
27 COG1684 FliR Flagellar biosynt 59.2 1.1E+02 0.0023 26.0 9.2 41 2-51 167-207 (258)
28 TIGR02002 PTS-II-BC-glcB PTS s 54.1 1.4E+02 0.0031 27.4 9.9 85 30-115 135-223 (502)
29 PF02674 Colicin_V: Colicin V 51.9 82 0.0018 23.1 6.8 75 28-102 26-105 (146)
30 PRK09765 PTS system 2-O-a-mann 51.0 89 0.0019 29.6 8.2 70 30-101 381-456 (631)
31 TIGR01995 PTS-II-ABC-beta PTS 51.0 2E+02 0.0043 27.2 10.5 84 30-116 211-296 (610)
32 TIGR01183 ntrB nitrate ABC tra 50.2 78 0.0017 25.2 6.8 47 33-80 36-82 (202)
33 PRK10110 bifunctional PTS syst 43.2 2.6E+02 0.0055 26.1 9.8 85 30-118 148-238 (530)
34 TIGR02004 PTS-IIBC-malX PTS sy 40.5 3E+02 0.0065 25.5 9.8 88 29-118 138-229 (517)
35 PF09527 ATPase_gene1: Putativ 39.2 89 0.0019 19.5 4.5 19 68-86 11-29 (55)
36 COG0600 TauC ABC-type nitrate/ 39.2 2.3E+02 0.005 23.8 8.2 96 32-130 79-174 (258)
37 PRK15349 type III secretion sy 38.9 2.3E+02 0.005 23.6 8.9 74 4-87 171-244 (259)
38 PF12841 YvrJ: YvrJ protein fa 38.3 65 0.0014 19.4 3.5 24 31-54 8-31 (38)
39 PF02762 Cbl_N3: CBL proto-onc 37.7 91 0.002 22.0 4.6 40 107-150 11-50 (86)
40 TIGR00852 pts-Glc PTS system, 37.0 2.5E+02 0.0055 23.5 10.2 84 29-114 66-151 (289)
41 COG3768 Predicted membrane pro 36.7 2E+02 0.0043 25.5 7.5 65 5-86 58-122 (350)
42 TIGR02872 spore_ytvI sporulati 36.2 2.5E+02 0.0055 23.3 9.3 19 84-102 72-90 (341)
43 PF11872 DUF3392: Protein of u 36.1 1.8E+02 0.0038 21.5 7.6 68 6-83 37-105 (106)
44 PRK03072 heat shock protein Ht 34.8 2.8E+02 0.0061 23.4 8.5 34 105-143 71-104 (288)
45 PF01311 Bac_export_1: Bacteri 32.7 2.8E+02 0.0061 22.8 8.2 40 3-51 166-205 (249)
46 PRK10478 putative PTS system f 32.0 2.9E+02 0.0064 24.5 8.0 42 64-106 100-144 (359)
47 PRK10712 PTS system fructose-s 31.5 2.8E+02 0.0061 26.1 8.2 65 35-100 321-390 (563)
48 TIGR01400 fliR flagellar biosy 31.1 3E+02 0.0066 22.7 9.2 39 4-51 160-198 (245)
49 PRK14762 membrane protein; Pro 30.5 1E+02 0.0022 17.1 3.1 16 69-84 6-21 (27)
50 PRK15071 lipopolysaccharide AB 28.8 2.2E+02 0.0048 24.2 6.7 38 4-50 3-40 (356)
51 COG3763 Uncharacterized protei 27.9 1.6E+02 0.0034 20.3 4.4 47 65-117 5-51 (71)
52 PF06596 PsbX: Photosystem II 27.5 72 0.0016 19.4 2.4 26 6-40 5-30 (39)
53 PF01594 UPF0118: Domain of un 26.4 3.7E+02 0.0081 22.2 10.1 33 82-117 68-100 (327)
54 COG4956 Integral membrane prot 25.2 3.9E+02 0.0085 23.7 7.4 27 89-115 65-91 (356)
55 PHA03231 glycoprotein BALF4; P 24.7 1.8E+02 0.0039 28.8 5.8 48 40-87 682-729 (829)
56 PF06021 Gly_acyl_tr_N: Aralky 24.1 80 0.0017 25.9 2.9 54 89-153 9-64 (205)
57 COG2177 FtsX Cell division pro 23.3 4.6E+02 0.01 22.5 7.5 64 27-90 227-291 (297)
58 PF04459 DUF512: Protein of un 23.0 1.3E+02 0.0029 24.4 4.0 61 88-150 81-152 (204)
59 PF11241 DUF3043: Protein of u 22.3 2.4E+02 0.0053 22.4 5.2 14 30-43 81-94 (170)
60 PF14584 DUF4446: Protein of u 22.2 3.7E+02 0.0081 20.7 8.9 28 123-150 77-110 (151)
61 PRK05701 fliR flagellar biosyn 22.0 4.5E+02 0.0097 21.6 8.3 40 4-52 162-201 (242)
62 PRK09554 feoB ferrous iron tra 20.6 2.5E+02 0.0054 27.4 5.9 47 2-61 504-564 (772)
63 TIGR00834 ae anion exchange pr 20.5 6.3E+02 0.014 25.4 8.6 47 73-119 466-512 (900)
64 PHA01399 membrane protein P6 20.4 4.9E+02 0.011 21.5 9.0 15 63-77 56-70 (242)
65 PF11118 DUF2627: Protein of u 20.4 1.7E+02 0.0037 20.4 3.5 26 28-53 9-34 (77)
66 PF02419 PsbL: PsbL protein; 20.1 2.1E+02 0.0047 17.1 3.4 21 66-86 16-36 (37)
67 PF08693 SKG6: Transmembrane a 20.0 1.1E+02 0.0023 18.7 2.1 24 19-43 8-31 (40)
No 1
>COG2928 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=4.2e-40 Score=266.92 Aligned_cols=149 Identities=34% Similarity=0.643 Sum_probs=136.4
Q ss_pred HHHHHHHHHHhccccccccccceeehHHHHHHHHHHHHHHHHHHhhHhhh-------hhhccchhhHHHHHHHHHHHHHH
Q 039848 6 IRSWAWKKFMTGCDNLLTLFCGVILLPIAITFYLTWWFIHFVDGFFSPIY-------AHLGINISGLGFMTSITFIFLVG 78 (164)
Q Consensus 6 ~~~~l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl~~l~~~v~~~~~p~~-------~~~~~~ipglgl~~~l~li~~vG 78 (164)
.+..+||+|+||+ ++++|+++|+|+++|+++++|+++.|.+ .+++.++||+|+++++++++++|
T Consensus 2 ~~~~lk~~fltGL---------lvllPlaiT~~vv~~i~~~l~~~~~~~lp~~~~~~~~~~~~i~~lg~il~iili~l~G 72 (222)
T COG2928 2 GAKRLKKYFLTGL---------LVLLPLAITLWVVSWIFGLLDQFVGPLLPDRLRPAVYFPFNIPGLGVILAIILIFLLG 72 (222)
T ss_pred hHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHhhhhhccchhchhhcCchhhHHHHHHHHHHHHHHHH
Confidence 4677899999999 9999999999999999999999998854 23467799999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcchhhHHHHHHHHHHHHhCCCccCCCcCcEEEEEeCCCCeeEEEEEccccccC-CCCCC
Q 039848 79 VFMSSWLGASILSLGEWLIKKMPLISYIYSASKQISAAISPDQKTKAFKEVAIIRHPRIGESAIGFITSTLILH-GSSGQ 157 (164)
Q Consensus 79 ~l~~~~~g~~l~~~~e~ll~rIP~vk~IY~~iK~i~~~~~~~~~~~~f~~VVlVe~p~~g~~~iGFvT~~~~~~-~~~~~ 157 (164)
++++|.+||++++++|++++|||++|+||+++||++|++.+++ +++||+||+||||++|+|++||+|++...+ ++..+
T Consensus 73 ~l~~~~ig~~l~~~~d~~L~RiPlv~~IY~s~kqi~etll~~~-~~sfk~vvlVefP~~G~~~i~fvtg~~~~e~~~~~~ 151 (222)
T COG2928 73 FLARNMIGRSLLSLGDSLLRRIPLVKSIYKSAKQVVETLLSDQ-SGSFKQVVLVEFPRRGIWAIAFVTGEKAGELKEKEG 151 (222)
T ss_pred HHHHHHhhhHHHHHHHHHHccCccHHHHHHHHHHHHHHHHhcC-CccceeeEEEECCCCCcEEEEEeccCCCcchhcccC
Confidence 9999999999999999999999999999999999999999874 568999999999999999999999998764 34566
Q ss_pred CCeeeeC
Q 039848 158 EELCCVF 164 (164)
Q Consensus 158 ~~~v~Vy 164 (164)
+|+++||
T Consensus 152 ~~~v~Vf 158 (222)
T COG2928 152 RPMVAVF 158 (222)
T ss_pred CceEEEE
Confidence 7999998
No 2
>PF04367 DUF502: Protein of unknown function (DUF502); InterPro: IPR007462 This entry contains proteins that are predicted to be integral membrane proteins.
Probab=99.96 E-value=9.6e-29 Score=182.05 Aligned_cols=96 Identities=33% Similarity=0.593 Sum_probs=87.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhhHHHHHHHHHHHHhCCCccCCCcCcEEEEEeCCCCeeEEEEEcc
Q 039848 68 MTSITFIFLVGVFMSSWLGASILSLGEWLIKKMPLISYIYSASKQISAAISPDQKTKAFKEVAIIRHPRIGESAIGFITS 147 (164)
Q Consensus 68 ~~~l~li~~vG~l~~~~~g~~l~~~~e~ll~rIP~vk~IY~~iK~i~~~~~~~~~~~~f~~VVlVe~p~~g~~~iGFvT~ 147 (164)
++++++|+++|+++++++|+|+++++|+++.|||+||+||+++||+++++++++ +++|++||+||||++|+|++||+|+
T Consensus 2 l~~l~~i~~iG~l~~~~~g~~l~~~~e~ll~riP~v~~iY~~~k~~~~~~~~~~-~~~f~~vVlV~~p~~g~~~igFvT~ 80 (108)
T PF04367_consen 2 LILLLLIFLIGLLARNYFGKWLLNWLERLLQRIPLVKSIYSSIKQLVESFSGDK-KKSFKKVVLVEFPRPGMYVIGFVTG 80 (108)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCchHHHHHHHHHHHHHHhhcc-cccCCeEEEEEecCCCcEEEEEEec
Confidence 577899999999999999999999999999999999999999999999999985 4559999999999999999999999
Q ss_pred ccccC-CCCCCCCeeeeC
Q 039848 148 TLILH-GSSGQEELCCVF 164 (164)
Q Consensus 148 ~~~~~-~~~~~~~~v~Vy 164 (164)
++.++ ....++|+++||
T Consensus 81 ~~~~~~~~~~~~~~v~Vf 98 (108)
T PF04367_consen 81 EDPGELPGKTGEEMVAVF 98 (108)
T ss_pred cCcchhhccCCCCEEEEE
Confidence 98753 334456999997
No 3
>PRK09824 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional
Probab=83.34 E-value=15 Score=34.81 Aligned_cols=85 Identities=16% Similarity=0.305 Sum_probs=60.7
Q ss_pred ehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchh-hHHH
Q 039848 30 LLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMTS-ITFIFLVGVFMSSWLGASILSLGEWLIKKMPLI-SYIY 107 (164)
Q Consensus 30 llPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~~-l~li~~vG~l~~~~~g~~l~~~~e~ll~rIP~v-k~IY 107 (164)
++|+.++.|+..++-++++......++. .-.|-+.++++ .+.++++|=+.. +++..+-..+..+.+.-|.+ ..++
T Consensus 219 ViPiil~v~~~s~iEk~l~K~iP~~l~~--i~~P~ltlli~~pl~l~viGPig~-~i~~~l~~~i~~l~~~~~~i~g~i~ 295 (627)
T PRK09824 219 VIPIIFSAWLCSILERRLNAWLPSAIKN--FFTPLLCLMVIVPLTFLLIGPLAT-WLSELLAAGYQWLYQAVPAFAGAVM 295 (627)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHhHHHHHH-HHHHHHHHHHHHHHhhchHHHHHHH
Confidence 8999999999999999999998776664 34566666554 455666776665 57777777777777766644 3477
Q ss_pred HHHHHHHHHh
Q 039848 108 SASKQISAAI 117 (164)
Q Consensus 108 ~~iK~i~~~~ 117 (164)
.++-|.+=.+
T Consensus 296 g~~~~~lV~~ 305 (627)
T PRK09824 296 GAFWQVFVIF 305 (627)
T ss_pred HHHHHHHHHh
Confidence 7777755443
No 4
>TIGR02120 GspF general secretion pathway protein F. This membrane protein is a component of the terminal branch complex of the general secretion pathway (GSP), also known as the"Type II" secretion pathway. The GSP transports proteins (generally virulence-associated cell wall hydrolases) across the outer membrase of the bacterial cell. Transport across the inner membrane is often, but not exclusively handled by the Sec system. This model was constructed from the broader subfamily model, pfam00482 which includes components of pilin complexes (PilC) as well as other related genes. GspF is nearly always gene clustered with other GSP subunits. Some genes from Xylella and Xanthomonas strains score below the trusted cutoff due to excessive divergence from the family such that a sequence from Deinococcus which does not appear to be GspF scores higher.
Probab=82.70 E-value=16 Score=31.89 Aligned_cols=23 Identities=9% Similarity=0.109 Sum_probs=18.5
Q ss_pred HHHHHHHHHhhhcchhhHHHHHH
Q 039848 88 SILSLGEWLIKKMPLISYIYSAS 110 (164)
Q Consensus 88 ~l~~~~e~ll~rIP~vk~IY~~i 110 (164)
+.-...|+++.|+|+++++|...
T Consensus 242 ~~r~~~~~~l~kiP~~g~~~~~~ 264 (399)
T TIGR02120 242 AFRLRFDRRLLRLPVIGRLVRGL 264 (399)
T ss_pred HHHHHHHHHHhcccchHHHHHHH
Confidence 34457899999999999998754
No 5
>PRK15350 type III secretion system protein SsaS; Provisional
Probab=80.94 E-value=18 Score=25.83 Aligned_cols=80 Identities=11% Similarity=0.179 Sum_probs=47.8
Q ss_pred HHHHHHHHHhccccccccccceeehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHH
Q 039848 7 RSWAWKKFMTGCDNLLTLFCGVILLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMTSITFIFLVGVFMSSWLG 86 (164)
Q Consensus 7 ~~~l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~~l~li~~vG~l~~~~~g 86 (164)
-...++.+...+ .+..|+.+...++.-+.+.+...-+=- + .-+.++-=++.++++=.+...|..
T Consensus 7 ~~l~~~al~~~l---------~ls~P~L~~alvVGlvIsi~QA~TQIQ-E------qTLsFvPKliav~~~l~~~gpWm~ 70 (88)
T PRK15350 7 TQFVTQLLWIVL---------FTSMPVVLVASVVGVIVSLVQALTQIQ-D------QTLQFMIKLLAIAITLMVSYPWLS 70 (88)
T ss_pred HHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHH-H------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344566677777 889999998888777766554432100 0 112222222223333334445666
Q ss_pred HHHHHHHHHHhhhcch
Q 039848 87 ASILSLGEWLIKKMPL 102 (164)
Q Consensus 87 ~~l~~~~e~ll~rIP~ 102 (164)
+.+.++.+++++++|-
T Consensus 71 ~~l~~ft~~if~~i~~ 86 (88)
T PRK15350 71 GILLNYTRQIMLRIGE 86 (88)
T ss_pred HHHHHHHHHHHHhhhh
Confidence 7889999999999984
No 6
>PRK05700 fliQ flagellar biosynthesis protein FliQ; Validated
Probab=80.66 E-value=18 Score=25.79 Aligned_cols=80 Identities=11% Similarity=0.222 Sum_probs=49.3
Q ss_pred HHHHHHHHHhccccccccccceeehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHH
Q 039848 7 RSWAWKKFMTGCDNLLTLFCGVILLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMTSITFIFLVGVFMSSWLG 86 (164)
Q Consensus 7 ~~~l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~~l~li~~vG~l~~~~~g 86 (164)
-...|+.+...+ .+..|..+...++.-+.+.+...-+=- + .-++++-=++.++++=.+.-.|.+
T Consensus 7 ~~l~~~al~~~l---------~ls~P~l~~alvVGlvIsi~QA~TQIq-E------qTLsFvPKliav~~~l~~~g~Wm~ 70 (89)
T PRK05700 7 MDLFREAMKVAL---------MLAAPLLLVALVVGLVVSIFQAATQIN-E------QTLSFIPKILAVLLTLIIAGPWML 70 (89)
T ss_pred HHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHH-H------HHHHhHHHHHHHHHHHHHHHHHHH
Confidence 345566777777 888999998888777666555432100 0 112222222223333344456677
Q ss_pred HHHHHHHHHHhhhcch
Q 039848 87 ASILSLGEWLIKKMPL 102 (164)
Q Consensus 87 ~~l~~~~e~ll~rIP~ 102 (164)
+.+.++.+++++++|-
T Consensus 71 ~~l~~f~~~if~~i~~ 86 (89)
T PRK05700 71 NTLLDYTRTLFSNIPT 86 (89)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 7899999999999996
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=80.61 E-value=18 Score=25.76 Aligned_cols=81 Identities=12% Similarity=0.219 Sum_probs=49.6
Q ss_pred HHHHHHHHHhccccccccccceeehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHH
Q 039848 7 RSWAWKKFMTGCDNLLTLFCGVILLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMTSITFIFLVGVFMSSWLG 86 (164)
Q Consensus 7 ~~~l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~~l~li~~vG~l~~~~~g 86 (164)
-...++.+...+ .+..|..+.-.++.-+.+.+...-+= .. .-+.++-=++.++++-.+.-.|.+
T Consensus 7 ~~l~~~al~~~l---------~~s~P~l~~alvVGlvIsi~QA~TQI-----qE--qTLsFvPKliav~~~l~~~gpWm~ 70 (88)
T TIGR01402 7 LDLGREAIWLTL---------LLSAPVLLVALVVGLVISIFQAATQI-----QE--QTLSFIPKIIAILLALALLGPWML 70 (88)
T ss_pred HHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHH-----HH--HHHHhHHHHHHHHHHHHHHHHHHH
Confidence 344566777777 88899998887777766655443210 00 112222222333333344556677
Q ss_pred HHHHHHHHHHhhhcchh
Q 039848 87 ASILSLGEWLIKKMPLI 103 (164)
Q Consensus 87 ~~l~~~~e~ll~rIP~v 103 (164)
+.+.++.+++++++|-+
T Consensus 71 ~~l~~f~~~~f~~i~~~ 87 (88)
T TIGR01402 71 TKLLDFTREIFQRIPQG 87 (88)
T ss_pred HHHHHHHHHHHHHhhhh
Confidence 78999999999999963
No 8
>PRK12772 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional
Probab=79.76 E-value=22 Score=33.55 Aligned_cols=39 Identities=15% Similarity=0.209 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHhccccccccccceeehHHHHHHHHHHHHHHHHHHhhH
Q 039848 5 VIRSWAWKKFMTGCDNLLTLFCGVILLPIAITFYLTWWFIHFVDGFFS 52 (164)
Q Consensus 5 ~~~~~l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl~~l~~~v~~~~~ 52 (164)
.+.+++.+.|..|+ ..-+|+.+...++...++.+.....
T Consensus 167 ~~~~~~~~~F~~al---------~lAaP~i~~lll~~~~lGllsR~aP 205 (609)
T PRK12772 167 HVINVFIQYFYIGI---------KIAIPIVLIILITDLTLGLISRTVP 205 (609)
T ss_pred HHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHhCc
Confidence 45567788899999 9999999999999999998877653
No 9
>PRK06010 fliQ flagellar biosynthesis protein FliQ; Reviewed
Probab=79.46 E-value=20 Score=25.55 Aligned_cols=81 Identities=15% Similarity=0.130 Sum_probs=48.2
Q ss_pred HHHHHHHHHHhccccccccccceeehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHH
Q 039848 6 IRSWAWKKFMTGCDNLLTLFCGVILLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMTSITFIFLVGVFMSSWL 85 (164)
Q Consensus 6 ~~~~l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~~l~li~~vG~l~~~~~ 85 (164)
+-...++.+...+ .+.+|+.+.-.++.-+.+.+...-+=- + .-+.++-=++.++++=.+.-.|.
T Consensus 6 ~~~l~~~al~~~l---------~~s~P~L~~alvVGliIsi~QA~TQIq-E------qTLsFvPKliav~~~l~~~g~Wm 69 (88)
T PRK06010 6 ALDIVRDAIWTVL---------VASGPAVLAAMVVGVAIALFQALTQIQ-E------MTLTFVPKIVAIFVTLLLTLPFM 69 (88)
T ss_pred HHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHH-H------HHHHhHHHHHHHHHHHHHHHHHH
Confidence 3445667777777 899999998888777666554432100 0 11112211222222233344566
Q ss_pred HHHHHHHHHHHhhhcch
Q 039848 86 GASILSLGEWLIKKMPL 102 (164)
Q Consensus 86 g~~l~~~~e~ll~rIP~ 102 (164)
.+.+.++.+++++++|-
T Consensus 70 ~~~l~~f~~~if~~i~~ 86 (88)
T PRK06010 70 GAQISAFTLLIYSRIAG 86 (88)
T ss_pred HHHHHHHHHHHHHhhcc
Confidence 67888999999999984
No 10
>PRK11007 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional
Probab=79.04 E-value=24 Score=32.28 Aligned_cols=86 Identities=8% Similarity=0.091 Sum_probs=59.8
Q ss_pred eehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHhh-hc-chhhH
Q 039848 29 ILLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMTSITF-IFLVGVFMSSWLGASILSLGEWLIK-KM-PLISY 105 (164)
Q Consensus 29 vllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~~l~l-i~~vG~l~~~~~g~~l~~~~e~ll~-rI-P~vk~ 105 (164)
-++|+.++.|+..++-++++......++. .-.|-+.++++..+ ++++|=+.. +++..+-+.++.+.+ .. ++-.-
T Consensus 231 sViP~Il~v~~~s~iek~l~K~~P~~l~~--i~~Plltlli~~~l~l~viGPig~-~i~~~i~~~i~~L~~~~~~~ig~~ 307 (473)
T PRK11007 231 QVIPALLAGLALGFIETRLKRIVPDYLYL--VVVPVCSLILAVFLAHALIGPFGR-MIGDGVAFAVKALMTGSFAPIGAA 307 (473)
T ss_pred CcHHHHHHHHHHHHHHHHHHHhCcHHHHH--HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhcchHHHHHH
Confidence 57999999999999999999987655553 33577776655444 447775554 577777777777763 33 45667
Q ss_pred HHHHHHHHHHHh
Q 039848 106 IYSASKQISAAI 117 (164)
Q Consensus 106 IY~~iK~i~~~~ 117 (164)
++.++-|..=.+
T Consensus 308 i~g~~~~~lV~~ 319 (473)
T PRK11007 308 LFGFLYAPLVIT 319 (473)
T ss_pred HHHHHHHHHHHh
Confidence 788887765443
No 11
>PRK09796 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional
Probab=78.98 E-value=27 Score=32.01 Aligned_cols=87 Identities=16% Similarity=0.185 Sum_probs=58.9
Q ss_pred eehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc-hhhHH
Q 039848 29 ILLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMT-SITFIFLVGVFMSSWLGASILSLGEWLIKKMP-LISYI 106 (164)
Q Consensus 29 vllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~-~l~li~~vG~l~~~~~g~~l~~~~e~ll~rIP-~vk~I 106 (164)
-++|+.++.|+..++-+++++.....++. .-.|-+.+++ ..+.++++|=+.. +++..+-..++.+.+.-| +...+
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 TVIPALVMTWCLSYIERWVDRITPAVTKN--FLKPMLIVLIAAPLAILLIGPIGI-WIGSAISALVYTIHGYLGWLSVAI 296 (472)
T ss_pred chHHHHHHHHHHHHHHHHHHHhCHHHHHH--HHHHHHHHHHHHHHHHHhHHHHHH-HHHHHHHHHHHHHHhcchHHHHHH
Confidence 47999999999999999999988666554 2346555544 3444555565544 466666666666666554 56678
Q ss_pred HHHHHHHHHHhC
Q 039848 107 YSASKQISAAIS 118 (164)
Q Consensus 107 Y~~iK~i~~~~~ 118 (164)
+.+.-+..=.+.
T Consensus 297 ~g~~~~~lV~~G 308 (472)
T PRK09796 297 MGALWPLLVMTG 308 (472)
T ss_pred HHHHHHHHHHhc
Confidence 888888665543
No 12
>COG1459 PulF Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=78.42 E-value=39 Score=30.24 Aligned_cols=24 Identities=13% Similarity=0.131 Sum_probs=19.5
Q ss_pred HHHHHHHHHHhhhcchhhHHHHHH
Q 039848 87 ASILSLGEWLIKKMPLISYIYSAS 110 (164)
Q Consensus 87 ~~l~~~~e~ll~rIP~vk~IY~~i 110 (164)
.+.-...|+++.|+|+++.+....
T Consensus 238 ~~~r~~~~~~llrlP~~g~l~~~~ 261 (397)
T COG1459 238 PAGRRRLDRLLLRLPLFGKLVRKY 261 (397)
T ss_pred hHHHHHHHhHHhcCCcHHHHHHHH
Confidence 456677899999999999987743
No 13
>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=76.17 E-value=24 Score=24.73 Aligned_cols=77 Identities=16% Similarity=0.351 Sum_probs=43.9
Q ss_pred HHHHHHHhccccccccccceeehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 039848 9 WAWKKFMTGCDNLLTLFCGVILLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMTSITFIFLVGVFMSSWLGAS 88 (164)
Q Consensus 9 ~l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~~l~li~~vG~l~~~~~g~~ 88 (164)
..|+.+...+ .+-+|..+...++.-+.+.....-+=- + .-+.++-=++.++++=.+...|..+.
T Consensus 5 ~~~~al~~~l---------~~s~P~L~~alvVGLvIsi~QA~TQIq-E------qTLsFvPKliav~~~l~~~~pwm~~~ 68 (81)
T TIGR01403 5 LTNQALLLVL---------ILSLPPVLVAAIVGLLVSLLQALTQLQ-D------QTLPFAIKLIAVFITLMLTAGWLGAE 68 (81)
T ss_pred HHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHH-H------HHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 3456666677 888999998888777666554432100 0 11111111122222222334455667
Q ss_pred HHHHHHHHhhhcc
Q 039848 89 ILSLGEWLIKKMP 101 (164)
Q Consensus 89 l~~~~e~ll~rIP 101 (164)
+.++.+++++++|
T Consensus 69 l~~f~~~if~~i~ 81 (81)
T TIGR01403 69 ILNFANQIFTMIP 81 (81)
T ss_pred HHHHHHHHHhhCC
Confidence 8889999998887
No 14
>PRK09586 murP PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed
Probab=76.15 E-value=35 Score=31.27 Aligned_cols=84 Identities=13% Similarity=0.081 Sum_probs=55.8
Q ss_pred eehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhhHHH
Q 039848 29 ILLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMT-SITFIFLVGVFMSSWLGASILSLGEWLIKKMPLISYIY 107 (164)
Q Consensus 29 vllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~-~l~li~~vG~l~~~~~g~~l~~~~e~ll~rIP~vk~IY 107 (164)
-++|+.++.|+..++-++++++....++. .-.|-+.+++ ..+.++++|=+.. +++..+-..+..+... |+-.-++
T Consensus 230 sViPiil~v~~~s~iek~~~K~iP~~l~~--i~~P~ltlli~~p~~l~viGP~g~-~i~~~i~~~~~~l~~~-~~~~~i~ 305 (476)
T PRK09586 230 NIIGVLIAAIAGARIERMVRRFMPDDLDM--ILTSLITLLITGALAFLIIMPLGG-WLFEGMSWLFMHLNSN-PFGCAVL 305 (476)
T ss_pred chHHHHHHHHHHHHHHHHHHhhCHHHHHH--HHHHHHHHHHHHHHHHHhHHhHHH-HHHHHHHHHHHHHHhh-HHHHHHH
Confidence 57899999999999999999988666554 2345555543 3444555665543 4555555555554443 6667788
Q ss_pred HHHHHHHHH
Q 039848 108 SASKQISAA 116 (164)
Q Consensus 108 ~~iK~i~~~ 116 (164)
.++.|..=.
T Consensus 306 g~~~~~lV~ 314 (476)
T PRK09586 306 AGLFLIAVV 314 (476)
T ss_pred HHHHHHHhH
Confidence 888886543
No 15
>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=75.09 E-value=42 Score=30.40 Aligned_cols=85 Identities=13% Similarity=0.263 Sum_probs=58.8
Q ss_pred ehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc-hhhHHH
Q 039848 30 LLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMTS-ITFIFLVGVFMSSWLGASILSLGEWLIKKMP-LISYIY 107 (164)
Q Consensus 30 llPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~~-l~li~~vG~l~~~~~g~~l~~~~e~ll~rIP-~vk~IY 107 (164)
++|..++.|+..|+-++.+..+.+.++.+ -.|.+.++++ .+..+++|-+.. +++..+.+..+.+.+.-| +-.-+|
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 79999999999999888888877666643 4566666554 344445776665 566777777777766443 445578
Q ss_pred HHHHHHHHHh
Q 039848 108 SASKQISAAI 117 (164)
Q Consensus 108 ~~iK~i~~~~ 117 (164)
....+....+
T Consensus 307 G~l~~~Lv~~ 316 (461)
T TIGR01996 307 GGLYSLIVIT 316 (461)
T ss_pred HHHHHHHHHh
Confidence 8887775544
No 16
>COG4794 EscS Type III secretory pathway, component EscS [Intracellular trafficking and secretion]
Probab=74.12 E-value=15 Score=26.34 Aligned_cols=72 Identities=18% Similarity=0.283 Sum_probs=42.0
Q ss_pred cceeehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhh
Q 039848 26 CGVILLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMTSITFIFLVGVFMSSWLGASILSLGEWLIKKMPLIS 104 (164)
Q Consensus 26 ~~lvllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~~l~li~~vG~l~~~~~g~~l~~~~e~ll~rIP~vk 104 (164)
|++.-+|-++..-++.-+.+.+..+ .+.=.. -+++.+=++.++.+=.+...+.|..++++.|..+.++|..|
T Consensus 17 iLilSlPpvivAsvvGllVslvQA~----TQiQdQ---Tl~f~iKLl~V~~tl~lt~~Wlg~~ll~fa~~i~~~~~~~~ 88 (89)
T COG4794 17 ILILSLPPVIVASVVGLLVSLVQAL----TQIQDQ---TLPFGIKLLAVSATLFLTAGWLGATLLNFAEQIFLNIPKAR 88 (89)
T ss_pred HHHHhccHHHHHHHHHHHHHHHHHH----HHHHHh---HHHHHHHHHHHHHHHHHHhHHhHHHHHHHHHHHHHHhhhcc
Confidence 4466677777665555555544333 221011 12223323333333345667888899999999999999765
No 17
>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=74.00 E-value=44 Score=29.16 Aligned_cols=83 Identities=12% Similarity=0.041 Sum_probs=57.2
Q ss_pred eehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh--cch
Q 039848 29 ILLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFM----TSITFIFLVGVFMSSWLGASILSLGEWLIKK--MPL 102 (164)
Q Consensus 29 vllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~----~~l~li~~vG~l~~~~~g~~l~~~~e~ll~r--IP~ 102 (164)
-++|+.++.|+..++-+++++.+...++. .-.|-+.++ ...+..+++|=+.+ +++..+-+.++.+.+. -|.
T Consensus 93 sViP~il~v~~~s~iEk~l~K~iP~~l~~--i~~P~ltlli~li~~pl~l~viGPig~-~ig~~i~~~i~~l~~~~~~~~ 169 (338)
T TIGR00851 93 AMIMGPLGGWLIKKTDEFVQGKVKQGFEM--LVNNFSAGIIGFILTILAFEGIGPIVK-AISKILAAGVEAIVHAHLLPL 169 (338)
T ss_pred hHHHHHHHHHHHHHHHHHHHhhCcHHHHH--hHhhHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhCcchhH
Confidence 57999999999999999999988666554 234554442 23556677777766 5777888777877763 444
Q ss_pred -hhHHHHHHHHHH
Q 039848 103 -ISYIYSASKQIS 114 (164)
Q Consensus 103 -vk~IY~~iK~i~ 114 (164)
-.-+..+.-+++
T Consensus 170 ~~g~i~g~~~~~l 182 (338)
T TIGR00851 170 ASIFVEPAKILFL 182 (338)
T ss_pred HHHHHHHHHHHHH
Confidence 344555555544
No 18
>PRK12781 fliQ flagellar biosynthesis protein FliQ; Reviewed
Probab=73.88 E-value=29 Score=24.68 Aligned_cols=80 Identities=19% Similarity=0.156 Sum_probs=47.9
Q ss_pred HHHHHHHHHhccccccccccceeehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHH
Q 039848 7 RSWAWKKFMTGCDNLLTLFCGVILLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMTSITFIFLVGVFMSSWLG 86 (164)
Q Consensus 7 ~~~l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~~l~li~~vG~l~~~~~g 86 (164)
-...|+.+..-+ .+-+|..+.-.++.-+.+.+...-+= .. .-+.++-=++.++++=.+.-.|.+
T Consensus 7 i~~~~~al~~~l---------~ls~P~L~~alvVGlvIsi~QA~TQI-----QE--qTLsFvPKliav~~~l~~~~~wm~ 70 (88)
T PRK12781 7 LELVRAAIWTII---------VASGPAVGAAMLVGIAIALLQALTQI-----QE--VTLTFVPKIVVILIVMAVTGSFVG 70 (88)
T ss_pred HHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHH-----HH--HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566677777 88899998887777666655443210 00 112222222223333334455667
Q ss_pred HHHHHHHHHHhhhcch
Q 039848 87 ASILSLGEWLIKKMPL 102 (164)
Q Consensus 87 ~~l~~~~e~ll~rIP~ 102 (164)
+.+.++.++++.++|-
T Consensus 71 ~~l~~ft~~if~~i~~ 86 (88)
T PRK12781 71 AQIYAFTEMVYGRIES 86 (88)
T ss_pred HHHHHHHHHHHHhhcc
Confidence 7889999999999984
No 19
>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=72.99 E-value=44 Score=30.36 Aligned_cols=86 Identities=12% Similarity=0.101 Sum_probs=55.7
Q ss_pred eehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhhhcchh-hHH
Q 039848 29 ILLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMTSITFIF-LVGVFMSSWLGASILSLGEWLIKKMPLI-SYI 106 (164)
Q Consensus 29 vllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~~l~li~-~vG~l~~~~~g~~l~~~~e~ll~rIP~v-k~I 106 (164)
-++|..++.|+..++-++++..+...++.+ -.|-+.++++..+.+ ++|-+.. +++..+-+.+..+.+..|.+ .-+
T Consensus 232 sVip~Il~g~i~~yiek~~~k~lP~~l~~~--~vP~lt~lv~~~l~~~vigPi~~-~i~~~i~~~~~~l~~~~~~i~g~i 308 (462)
T TIGR01992 232 QVLPALLAGYVLAVIEKWLRKRVPDAIQLL--VVPPVSLLVTGFLAHAIIGPIGR-LIGNGITSGVTALFTSAAWLGGAI 308 (462)
T ss_pred cHHHHHHHHHHHHHHHHHHHcCChHHHHHH--HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhCcHHHHHH
Confidence 358999999999999888888766555542 456666554433333 4464433 45556665556666666654 448
Q ss_pred HHHHHHHHHHh
Q 039848 107 YSASKQISAAI 117 (164)
Q Consensus 107 Y~~iK~i~~~~ 117 (164)
|..+.+..=.+
T Consensus 309 ~G~l~~~lV~~ 319 (462)
T TIGR01992 309 FGLLYAPLVIT 319 (462)
T ss_pred HHHHHHHHHHh
Confidence 88888866544
No 20
>COG1987 FliQ Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=72.32 E-value=33 Score=24.58 Aligned_cols=77 Identities=14% Similarity=0.266 Sum_probs=46.6
Q ss_pred HHHHHHhccccccccccceeehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039848 10 AWKKFMTGCDNLLTLFCGVILLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMTSITFIFLVGVFMSSWLGASI 89 (164)
Q Consensus 10 l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~~l~li~~vG~l~~~~~g~~l 89 (164)
.++.+-.++ ....|..+...++.-+.......- +. .. .-+.++==++.++++-.+.--|.++.+
T Consensus 10 ~~~ai~~~L---------~l~~P~ll~alvvGLvIsifQA~T----QI-qE--qTLsFiPKIiai~~~l~~~gpWm~~~l 73 (89)
T COG1987 10 GQEAIWLVL---------MLSAPVLLVALVVGLVISIFQAAT----QI-QE--QTLSFIPKIIAVFLVLILLGPWMLNQL 73 (89)
T ss_pred HHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHH----HH-HH--HHHHhHHHHHHHHHHHHHHhHHHHHHH
Confidence 345556666 788898888777666555444332 10 00 112222223334444555566777899
Q ss_pred HHHHHHHhhhcch
Q 039848 90 LSLGEWLIKKMPL 102 (164)
Q Consensus 90 ~~~~e~ll~rIP~ 102 (164)
.++..++++|+|.
T Consensus 74 ~dft~~if~~i~~ 86 (89)
T COG1987 74 LDFTVTIFSNIPQ 86 (89)
T ss_pred HHHHHHHHHHHHh
Confidence 9999999999996
No 21
>PRK15083 PTS system mannitol-specific transporter subunit IICBA; Provisional
Probab=68.73 E-value=19 Score=33.98 Aligned_cols=83 Identities=13% Similarity=0.129 Sum_probs=57.3
Q ss_pred eehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh--cch
Q 039848 29 ILLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGF----MTSITFIFLVGVFMSSWLGASILSLGEWLIKK--MPL 102 (164)
Q Consensus 29 vllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl----~~~l~li~~vG~l~~~~~g~~l~~~~e~ll~r--IP~ 102 (164)
.++|..++.|+..|+-++++..++..++.+ -.|-+.+ +...+.++++|-... +++.++-+.++.+.+. .|.
T Consensus 101 svip~il~~~~~~~vek~l~k~ip~~l~~~--~~P~~tlli~~i~~~l~~~viGP~g~-~i~~~l~~~i~~l~~~~~~~~ 177 (639)
T PRK15083 101 AMIAGPLGGWAIKHFDRWVDGKIKSGFEML--VNNFSAGIIGMILAILAFLGIGPAVE-VLSKMLAAGVNFMVVHDLLPL 177 (639)
T ss_pred chHHHHHHHHHHHHHHHHHHhhccchhhHh--hhhHHHHHHHHHHHHHHheeeHHHHH-HHHHHHHHHHHHHHhCcchhH
Confidence 589999999999999999998886666542 2344332 234566777887776 5788888888887765 554
Q ss_pred h-hHHHHHHHHHH
Q 039848 103 I-SYIYSASKQIS 114 (164)
Q Consensus 103 v-k~IY~~iK~i~ 114 (164)
+ .-+.++.-+..
T Consensus 178 ~a~~i~~~~~~~l 190 (639)
T PRK15083 178 TSIFVEPAKILFL 190 (639)
T ss_pred HHHHHHHHHHHHH
Confidence 4 34555555554
No 22
>PRK10573 type IV pilin biogenesis protein; Provisional
Probab=68.46 E-value=28 Score=30.35 Aligned_cols=18 Identities=17% Similarity=0.383 Sum_probs=15.1
Q ss_pred HHHHHHhhhcchhhHHHH
Q 039848 91 SLGEWLIKKMPLISYIYS 108 (164)
Q Consensus 91 ~~~e~ll~rIP~vk~IY~ 108 (164)
.+.|+++.|+|+++.+|.
T Consensus 244 ~~~~~~l~~iP~~g~~~~ 261 (399)
T PRK10573 244 IREQRLLLRLPLVGSLIR 261 (399)
T ss_pred HHHHHHHhcCCeeccccc
Confidence 456899999999998776
No 23
>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=66.48 E-value=48 Score=29.10 Aligned_cols=72 Identities=10% Similarity=0.067 Sum_probs=50.4
Q ss_pred eehHHHHHHHHHHHHHHHHHHhhHhhhhhh--ccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 039848 29 ILLPIAITFYLTWWFIHFVDGFFSPIYAHL--GINISGLGFMTSITFIFLVGVFMSSWLGASILSLGEWLIKKMP 101 (164)
Q Consensus 29 vllPl~iTi~vl~~l~~~v~~~~~p~~~~~--~~~ipglgl~~~l~li~~vG~l~~~~~g~~l~~~~e~ll~rIP 101 (164)
-++|..++.|+..|+-+++++.+...++.+ -.-+|-++.+++.+..+++|-.. ++++..+-++++.+-+.-|
T Consensus 112 gII~gilag~~~~~lek~ikK~lP~~l~g~~~i~iiP~lt~li~~~~~~vigppi-~~i~~~l~~~l~~l~~~~~ 185 (346)
T TIGR01427 112 GIIAGFLAGYVVKGLQKYIKKKLPQSLRGLKPILIIPLLGTLIVGALIYGINIPV-AYLNYGLSNWLNIMGSPNA 185 (346)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhCcHHHHhCCceeehhHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhhhH
Confidence 348889999999999888887664444421 13467777776666677777777 5778788877777665544
No 24
>PRK15333 type III secretion system protein SpaQ; Provisional
Probab=62.15 E-value=54 Score=23.26 Aligned_cols=77 Identities=16% Similarity=0.106 Sum_probs=44.9
Q ss_pred HHHHHHhccccccccccceeehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039848 10 AWKKFMTGCDNLLTLFCGVILLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMTSITFIFLVGVFMSSWLGASI 89 (164)
Q Consensus 10 l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~~l~li~~vG~l~~~~~g~~l 89 (164)
.++.+...+ .+..|..+...++.-+.+.+...-+=- + .-+.++-=++.++++=.+.-.|.++.+
T Consensus 8 ~~~al~~~l---------~ls~P~L~valvVGlvIsi~QA~TQIQ-E------qTLsFvPKliav~~~l~~~~pwm~~~l 71 (86)
T PRK15333 8 GNKALYLVL---------ILSGWPTIVATIIGLLVGLFQTVTQLQ-E------QTLPFGIKLLGVCLCLFLLSGWYGEVL 71 (86)
T ss_pred HHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHH-H------HHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666 888899888877777666554432100 0 111222212222333334445667788
Q ss_pred HHHHHHHhhhcch
Q 039848 90 LSLGEWLIKKMPL 102 (164)
Q Consensus 90 ~~~~e~ll~rIP~ 102 (164)
.++.+++++.+|-
T Consensus 72 ~~f~~~if~~~~~ 84 (86)
T PRK15333 72 LSYGRQVIFLALA 84 (86)
T ss_pred HHHHHHHHHhhhc
Confidence 8899999988884
No 25
>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=61.35 E-value=28 Score=21.85 Aligned_cols=27 Identities=19% Similarity=0.395 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039848 68 MTSITFIFLVGVFMSSWLGASILSLGE 94 (164)
Q Consensus 68 ~~~l~li~~vG~l~~~~~g~~l~~~~e 94 (164)
++..++++++|+...+.+.+.+-+..+
T Consensus 18 iv~AilIl~vG~~va~~v~~~~~~~l~ 44 (53)
T PF05552_consen 18 IVGAILILIVGWWVAKFVRKLVRRLLE 44 (53)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566888999888776666655554
No 26
>PRK11404 putative PTS system transporter subunits IIBC; Provisional
Probab=60.54 E-value=52 Score=30.21 Aligned_cols=69 Identities=14% Similarity=0.147 Sum_probs=48.3
Q ss_pred eehHHHHHHHHHHHHHHHHHHhh-----HhhhhhhccchhhHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 039848 29 ILLPIAITFYLTWWFIHFVDGFF-----SPIYAHLGINISGLGFMTSI-TFIFLVGVFMSSWLGASILSLGEWLIKKM 100 (164)
Q Consensus 29 vllPl~iTi~vl~~l~~~v~~~~-----~p~~~~~~~~ipglgl~~~l-~li~~vG~l~~~~~g~~l~~~~e~ll~rI 100 (164)
-++|..++.|+..++.+++.++. ++..+. +-.|-++++++. +.++++|=... +++.++.+++..+.+.-
T Consensus 228 gflg~Il~g~~~gyv~k~lkki~~p~~~p~~~~~--~~~Pllt~li~~~l~~~viGP~~~-~i~~~l~~~l~~l~~~~ 302 (482)
T PRK11404 228 GFLGAVVLGLAIGYFVFWFRKVRLGKALQPLLGS--MLIPFVTLLVFGVLTYYVIGPVMS-DLMGGLLHFLNTIPPSM 302 (482)
T ss_pred cHHHHHHHHHHHHHHHHHHHhCCCCcchhhhcce--eeHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHccc
Confidence 56899999999999999999875 223332 346777776554 44557887776 57777777777665543
No 27
>COG1684 FliR Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=59.20 E-value=1.1e+02 Score=26.03 Aligned_cols=41 Identities=15% Similarity=0.160 Sum_probs=35.2
Q ss_pred hHHHHHHHHHHHHHhccccccccccceeehHHHHHHHHHHHHHHHHHHhh
Q 039848 2 LSKVIRSWAWKKFMTGCDNLLTLFCGVILLPIAITFYLTWWFIHFVDGFF 51 (164)
Q Consensus 2 ~~~~~~~~l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl~~l~~~v~~~~ 51 (164)
..+-+.+++...|..|+ ..-+|+.....++.-.++.++...
T Consensus 167 ~~~~l~~~l~~~F~~~l---------~iAlPii~~lLlvnlalGlv~R~~ 207 (258)
T COG1684 167 AFLLLAKALSAIFLIGL---------RLALPIIALLLLVNLALGLLNRLA 207 (258)
T ss_pred HHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHhcc
Confidence 34567788899999999 999999999999999999887765
No 28
>TIGR02002 PTS-II-BC-glcB PTS system, glucose-specific IIBC component. This model represents the combined B and C domains of the PTS transport system enzyme II specific for glucose transport. Many of the genes in this family also include an A domain as part of the same polypeptide and thus should be given the name "PTS system, glucose-specific IIABC component" while the B. subtilus enzyme also contains an enzyme III domain which appears to act independently of the enzyme II domains. This family is most closely related to the N-acetylglucosamine-specific PTS enzymes (TIGR01998).
Probab=54.11 E-value=1.4e+02 Score=27.43 Aligned_cols=85 Identities=8% Similarity=0.112 Sum_probs=54.0
Q ss_pred ehHHHHHHHHHHHHH-HHHHHhhHhhhhhh-c-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc-hhhH
Q 039848 30 LLPIAITFYLTWWFI-HFVDGFFSPIYAHL-G-INISGLGFMTSITFIFLVGVFMSSWLGASILSLGEWLIKKMP-LISY 105 (164)
Q Consensus 30 llPl~iTi~vl~~l~-~~v~~~~~p~~~~~-~-~~ipglgl~~~l~li~~vG~l~~~~~g~~l~~~~e~ll~rIP-~vk~ 105 (164)
++|..+..|+..|+. ++.+..+...++.+ | .-.|-+.+++++.+-+++|.+.. +++..+-+..+.+.+.-| +-.-
T Consensus 135 V~~~Il~g~i~a~l~nk~~~k~lP~~l~~f~G~rfvPiit~lv~~~l~~i~~~iwp-~i~~~i~~~~~~l~~~~~~~g~~ 213 (502)
T TIGR02002 135 VFGGIIIGAIAAYCYNRFYNIKLPEYLGFFAGKRFVPIITGLAAIVTGIVLSFIWP-PVQDALNTFSHWAAYQNPVVAFF 213 (502)
T ss_pred cHHHHHHHHHHHHHHHHHhcccCcHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHcCcHHHHH
Confidence 689999999999999 67777776666654 1 23566666555444444455444 455555555555555544 5556
Q ss_pred HHHHHHHHHH
Q 039848 106 IYSASKQISA 115 (164)
Q Consensus 106 IY~~iK~i~~ 115 (164)
+|....++.=
T Consensus 214 i~G~l~r~Lv 223 (502)
T TIGR02002 214 IFGFIERSLI 223 (502)
T ss_pred HHHHHHHHHH
Confidence 7887777543
No 29
>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=51.93 E-value=82 Score=23.06 Aligned_cols=75 Identities=11% Similarity=0.241 Sum_probs=33.2
Q ss_pred eeehHHHHHHHHHHHHHHHHHHhhHhhh-hhhccchhhHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHhhhcch
Q 039848 28 VILLPIAITFYLTWWFIHFVDGFFSPIY-AHLGINISGLGFMTSITFIFLVGVFMSSWL----GASILSLGEWLIKKMPL 102 (164)
Q Consensus 28 lvllPl~iTi~vl~~l~~~v~~~~~p~~-~~~~~~ipglgl~~~l~li~~vG~l~~~~~----g~~l~~~~e~ll~rIP~ 102 (164)
+-++=+.+.+++-.+..+.+.+.+.... ..-+...+.++++++.+++..++....+.+ .+...+..|+++.-+.+
T Consensus 26 ~~l~~~i~a~~~a~~~~~~~~~~l~~~~~~~~~~~~~~iaf~~~f~~~~~i~~~i~~~l~~~~~~~~~~~~dr~lG~~~G 105 (146)
T PF02674_consen 26 FSLIGLIVALFVAFLFYPPLAPFLSNYFSSLSPPFANIIAFIILFVLVYIIVRIIGKLLRRIVKKPFLGWLDRLLGALLG 105 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHH
Confidence 3344444555555555555544443322 000111234444444444444444444433 33444556665555443
No 30
>PRK09765 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional
Probab=51.03 E-value=89 Score=29.58 Aligned_cols=70 Identities=16% Similarity=0.263 Sum_probs=50.2
Q ss_pred ehHHHHHHHHHHHHHHHHHHhhHhhhhh----hc-cchhhHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 039848 30 LLPIAITFYLTWWFIHFVDGFFSPIYAH----LG-INISGLGFMTSI-TFIFLVGVFMSSWLGASILSLGEWLIKKMP 101 (164)
Q Consensus 30 llPl~iTi~vl~~l~~~v~~~~~p~~~~----~~-~~ipglgl~~~l-~li~~vG~l~~~~~g~~l~~~~e~ll~rIP 101 (164)
.+|..+..|+..|+..++++.+ |.-.. ++ .-+|-++++++. +.++++|-.. ++++..+-+++..+-+.-|
T Consensus 381 flg~Ii~~~l~gyv~~~l~k~i-p~~~~~~~~~~~~~~Pllt~li~~~l~~~viGp~~-~~i~~~l~~~l~~l~~~~~ 456 (631)
T PRK09765 381 FLGAVVGGLIAGYLMRWVKNHL-RLSSKFNGFLTFYLYPVLGTLGAGSLMLFVVGEPV-AWINNSLTAWLNGLSGSNA 456 (631)
T ss_pred cHHHHHHHHHHHHHHHHHHHHC-CCchhhhhhcCEEeehHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhhhH
Confidence 5899999999999999999877 43111 11 346888876654 4456888877 5788888888887766554
No 31
>TIGR01995 PTS-II-ABC-beta PTS system, beta-glucoside-specific IIABC component. This model represents a family of PTS enzyme II proteins in which all three domains are found in the same polypeptide chain and which appear to have a broad specificity for beta-glucosides including salicin (beta-D-glucose-1-salicylate) and arbutin (Hydroquinone-O-beta-D-glucopyranoside). These are distinct from the closely related sucrose-specific and trehalose-specific PTS transporters.
Probab=51.03 E-value=2e+02 Score=27.21 Aligned_cols=84 Identities=14% Similarity=0.254 Sum_probs=54.5
Q ss_pred ehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhhhcc-hhhHHH
Q 039848 30 LLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMTSI-TFIFLVGVFMSSWLGASILSLGEWLIKKMP-LISYIY 107 (164)
Q Consensus 30 llPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~~l-~li~~vG~l~~~~~g~~l~~~~e~ll~rIP-~vk~IY 107 (164)
++|..+..|+..++.+++++.+.+.++. .-.|.+.++++. +.++++|-... +++..+-+.+..+.+.-| +...+|
T Consensus 211 vip~Il~~~l~~~iek~~~k~vP~~l~~--~f~Pli~~li~~~l~l~vigPig~-~i~~~i~~~l~~l~~~~~~i~~~ii 287 (610)
T TIGR01995 211 VIPVILAVWLMSYVEKFLKKVIPGALKN--FLTPLLVMLITVPLTLLIIGPLGN-YAGEGISSGILFLYEVSPWLAGALL 287 (610)
T ss_pred HHHHHHHHHHHHHHHHHHHhhChHHHHH--HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhcchHHHHHHH
Confidence 5899999999999999999887666553 234665555433 33334565543 466666666666665554 345678
Q ss_pred HHHHHHHHH
Q 039848 108 SASKQISAA 116 (164)
Q Consensus 108 ~~iK~i~~~ 116 (164)
..+-++.=.
T Consensus 288 g~l~~~Lv~ 296 (610)
T TIGR01995 288 AALWPVLVM 296 (610)
T ss_pred HHHHHHHhh
Confidence 887775533
No 32
>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=50.21 E-value=78 Score=25.25 Aligned_cols=47 Identities=19% Similarity=0.246 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHHHHHHHHHHHHH
Q 039848 33 IAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMTSITFIFLVGVF 80 (164)
Q Consensus 33 l~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~~l~li~~vG~l 80 (164)
+++.+=+.-.....+++.+.|+.+.+ ..+|-++++..+.+.+-.|-.
T Consensus 36 ig~~lG~~~~~~~~~~~~~~p~~~~l-~~iP~~~~~pl~~~~fG~g~~ 82 (202)
T TIGR01183 36 IGIAVGILIGLSKFLNAALDPIFQVL-RTIPPLAWLPIALAAFQDAQP 82 (202)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-hhCCHHHHHHHHHHHHhcCch
Confidence 33333334445667888888887764 566777777666655555543
No 33
>PRK10110 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional
Probab=43.17 E-value=2.6e+02 Score=26.06 Aligned_cols=85 Identities=13% Similarity=0.122 Sum_probs=51.4
Q ss_pred ehHHHHHHHHHHHHHHHHHHh-hHhhhhhh-c-cchhhHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHhhhcchhh
Q 039848 30 LLPIAITFYLTWWFIHFVDGF-FSPIYAHL-G-INISGLGFMTSITFIFLVGVFM--SSWLGASILSLGEWLIKKMPLIS 104 (164)
Q Consensus 30 llPl~iTi~vl~~l~~~v~~~-~~p~~~~~-~-~~ipglgl~~~l~li~~vG~l~--~~~~g~~l~~~~e~ll~rIP~vk 104 (164)
++|..++.++..|+.+...+. +...++.+ | .-.|-+.+++. ..++++. -.=.+.+..+.+..+++.-|.+.
T Consensus 148 V~ggIi~g~i~a~l~~k~~k~~lP~~l~~f~G~rfvPiit~lv~----~~l~~i~~~iwP~~~~~~~~~~~~~~~~g~ig 223 (530)
T PRK10110 148 ILGAVIAGIIVWMLHERFHNIRLPDALAFFGGTRFVPIISSLVM----GLVGLVIPLVWPIFAMGISGLGHMINSAGDFG 223 (530)
T ss_pred hHHHHHHHHHHHHHHHHHhcccCcHHHHhcCCCccHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHhccHHH
Confidence 589999999999999998884 54444543 1 13565444433 2222222 22233445555566666666554
Q ss_pred H-HHHHHHHHHHHhC
Q 039848 105 Y-IYSASKQISAAIS 118 (164)
Q Consensus 105 ~-IY~~iK~i~~~~~ 118 (164)
. +|..+.+..=.+.
T Consensus 224 ~~i~G~l~r~LVp~G 238 (530)
T PRK10110 224 PMLFGTGERLLLPFG 238 (530)
T ss_pred HHHHHHHHHHHHHhc
Confidence 4 8999888766553
No 34
>TIGR02004 PTS-IIBC-malX PTS system, maltose and glucose-specific IIBC component. This model represents a family of PTS enzyme II fused B and C components including and most closely related to the MalX maltose and glucose-specific transporter of E. coli. A pair of paralogous genes from E. coli strain CFT073 score between trusted and noise and may have diverged sufficiently to have an altered substrate specificity.
Probab=40.54 E-value=3e+02 Score=25.51 Aligned_cols=88 Identities=10% Similarity=0.055 Sum_probs=55.0
Q ss_pred eehHHHHHHHHHHHHHHHHHHh-hHhhhhhhc--cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhhH
Q 039848 29 ILLPIAITFYLTWWFIHFVDGF-FSPIYAHLG--INISGLGFMTSITFIFLVGVFMSSWLGASILSLGEWLIKKMPLISY 105 (164)
Q Consensus 29 vllPl~iTi~vl~~l~~~v~~~-~~p~~~~~~--~~ipglgl~~~l~li~~vG~l~~~~~g~~l~~~~e~ll~rIP~vk~ 105 (164)
-++|..++.++..|+.+...+. +...++.++ .-.|-+.+++.+.+-+++ -.-+.......+.+..+++..|.+..
T Consensus 138 gV~ggIi~g~i~a~i~n~~~k~~lP~~L~ff~G~rfVPiit~li~~~l~~~~--p~~wp~~~~~i~~~~~~i~~~g~~g~ 215 (517)
T TIGR02004 138 GVLGAVIVGLIVYKLHNRFYTVQMPDALAFFGGARFVPIISALVLAVVGLVI--PLVWPLFALMIMAIGQLIQRSGIFGP 215 (517)
T ss_pred chHHHHHHHHHHHHHHHHHccccCchHHHHccCCcchHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHhcChHHH
Confidence 3689999999999999999985 544555441 135655444332222222 22334455666666666666665444
Q ss_pred -HHHHHHHHHHHhC
Q 039848 106 -IYSASKQISAAIS 118 (164)
Q Consensus 106 -IY~~iK~i~~~~~ 118 (164)
+|..+.+..=.+.
T Consensus 216 fiyG~l~rlLIp~G 229 (517)
T TIGR02004 216 FLFGSGERLLLPIG 229 (517)
T ss_pred HHHHHHHHHHHHhc
Confidence 8999999877664
No 35
>PF09527 ATPase_gene1: Putative F0F1-ATPase subunit (ATPase_gene1)
Probab=39.23 E-value=89 Score=19.49 Aligned_cols=19 Identities=26% Similarity=0.784 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 039848 68 MTSITFIFLVGVFMSSWLG 86 (164)
Q Consensus 68 ~~~l~li~~vG~l~~~~~g 86 (164)
+..+++.+.+|+...+..+
T Consensus 11 ~~~i~~g~~~G~~lD~~~~ 29 (55)
T PF09527_consen 11 AAPILVGFFLGYWLDKWFG 29 (55)
T ss_pred HHHHHHHHHHHHHHHHHcC
Confidence 3444445555555554444
No 36
>COG0600 TauC ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]
Probab=39.16 E-value=2.3e+02 Score=23.78 Aligned_cols=96 Identities=11% Similarity=0.154 Sum_probs=57.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhhHHHHHHH
Q 039848 32 PIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMTSITFIFLVGVFMSSWLGASILSLGEWLIKKMPLISYIYSASK 111 (164)
Q Consensus 32 Pl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~~l~li~~vG~l~~~~~g~~l~~~~e~ll~rIP~vk~IY~~iK 111 (164)
=+++.+=++-.....++..+.|++..+ ..+|-++++=.+++-|-.|-.+ ...--.+..++--.++-.=++|++=....
T Consensus 79 ~~gi~lgil~g~~~~~~~~l~P~i~~l-~~iP~lA~~Pl~ilwfG~g~~s-~i~i~~~~~ffpi~int~~Gvr~v~~~~~ 156 (258)
T COG0600 79 VLGIPLGILMGLSRLLERLLDPLVQVL-RPIPPLALAPLAILWFGIGETS-KIVIAVLGAFFPILINTLDGVRSVDPDLL 156 (258)
T ss_pred HHHHHHHHHHHhHHHHHHHHhHHHHHH-hcCCHHHHHHHHHHHHhCCcch-HHHHHHHHHHHHHHHHHHHHHHhCCHHHH
Confidence 344444445566677777888877653 5678888777777777777666 33333334444444455555666666666
Q ss_pred HHHHHhCCCccCCCcCcEE
Q 039848 112 QISAAISPDQKTKAFKEVA 130 (164)
Q Consensus 112 ~i~~~~~~~~~~~~f~~VV 130 (164)
|+.+++.-+ +.+-|.+|.
T Consensus 157 ~~ar~lgas-~~~~l~~v~ 174 (258)
T COG0600 157 ELARTLGAS-RWQILRKVI 174 (258)
T ss_pred HHHHHcCCC-HHHHhHhhc
Confidence 677776554 234455554
No 37
>PRK15349 type III secretion system protein SsaT; Provisional
Probab=38.93 E-value=2.3e+02 Score=23.63 Aligned_cols=74 Identities=11% Similarity=0.072 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHhccccccccccceeehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHHHHHHHHHHHHHHHH
Q 039848 4 KVIRSWAWKKFMTGCDNLLTLFCGVILLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMTSITFIFLVGVFMSS 83 (164)
Q Consensus 4 ~~~~~~l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~~l~li~~vG~l~~~ 83 (164)
+.+-++..+.|..|+ ..-+|+.+...+....++.+......+ +-+....|--.++..+++.+..+.+...
T Consensus 171 ~~~~~~~~~~f~~al---------~lAaP~i~~lll~~~~lGll~R~~PQl-nvf~l~~P~k~~~gl~~l~l~~~~~~~~ 240 (259)
T PRK15349 171 KYIQAEWRTLYQLCI---------SFSLPAIICMVLADLALGLLNRSAQQL-NVFFFSMPLKSILVLLTLLISFPYALHH 240 (259)
T ss_pred HHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHhCccc-chHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566778899999 999999999999999988887765322 2221222322223333444556666665
Q ss_pred HHHH
Q 039848 84 WLGA 87 (164)
Q Consensus 84 ~~g~ 87 (164)
+...
T Consensus 241 ~~~~ 244 (259)
T PRK15349 241 YLVE 244 (259)
T ss_pred HHHH
Confidence 4443
No 38
>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=38.31 E-value=65 Score=19.35 Aligned_cols=24 Identities=29% Similarity=0.455 Sum_probs=19.9
Q ss_pred hHHHHHHHHHHHHHHHHHHhhHhh
Q 039848 31 LPIAITFYLTWWFIHFVDGFFSPI 54 (164)
Q Consensus 31 lPl~iTi~vl~~l~~~v~~~~~p~ 54 (164)
.|+++++|++.-+=+.+|++...+
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 499999999999888888876544
No 39
>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=37.72 E-value=91 Score=22.00 Aligned_cols=40 Identities=20% Similarity=0.321 Sum_probs=27.9
Q ss_pred HHHHHHHHHHhCCCccCCCcCcEEEEEeCCCCeeEEEEEccccc
Q 039848 107 YSASKQISAAISPDQKTKAFKEVAIIRHPRIGESAIGFITSTLI 150 (164)
Q Consensus 107 Y~~iK~i~~~~~~~~~~~~f~~VVlVe~p~~g~~~iGFvT~~~~ 150 (164)
|.-+|...+.+..+. .++ +--.-.-|-|-|+||+||++..
T Consensus 11 Ydevk~~L~~~~~kp--GsY--iFRlSCTrLGQWAIGyV~~dg~ 50 (86)
T PF02762_consen 11 YDEVKARLQHYRDKP--GSY--IFRLSCTRLGQWAIGYVTQDGK 50 (86)
T ss_dssp HHHHHHHHGGGTTST--TEE--EEEEESSSTTSEEEEEEETTSE
T ss_pred HHHHHHHHHHHhCCc--ccE--EEeeccccccceeEEEEcCCCc
Confidence 777888888877542 222 3333356789999999999764
No 40
>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=37.03 E-value=2.5e+02 Score=23.55 Aligned_cols=84 Identities=13% Similarity=0.067 Sum_probs=43.2
Q ss_pred eehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhhhc-chhhHH
Q 039848 29 ILLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMTSITFIFLVGVFMSSWLGA-SILSLGEWLIKKM-PLISYI 106 (164)
Q Consensus 29 vllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~~l~li~~vG~l~~~~~g~-~l~~~~e~ll~rI-P~vk~I 106 (164)
.++|+.+.+|+.++.-++.+..+...++. +..|-...++...++++++.-.....+. .+-+..+.+-+.- +.---+
T Consensus 66 ~~~~ii~~~~~~~~~~k~~~~~lP~~l~~--~~~p~~~~li~~~~~~~v~~p~~~~~~~~~i~~~~~~i~~~~~~~g~~i 143 (289)
T TIGR00852 66 VVGPILVGAIALALHERFLDKKLPDVLGF--FLGPRFVVIIAGFVAILLIGPLGRVWPPVGISALLHWLYSAGGALGGAI 143 (289)
T ss_pred eeHHHHHHHHHHHHHHHHhhhhCchhhhh--cccchHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcchHHHHHH
Confidence 58999999999998888888776544443 2234444444433333333333333333 2222223222222 222345
Q ss_pred HHHHHHHH
Q 039848 107 YSASKQIS 114 (164)
Q Consensus 107 Y~~iK~i~ 114 (164)
|..+-|+.
T Consensus 144 ~g~l~~lL 151 (289)
T TIGR00852 144 FGFLYRLL 151 (289)
T ss_pred HHHHHHHH
Confidence 66655543
No 41
>COG3768 Predicted membrane protein [Function unknown]
Probab=36.65 E-value=2e+02 Score=25.45 Aligned_cols=65 Identities=18% Similarity=0.365 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHhccccccccccceeehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHHHHHHHHHHHHHHHHHHH
Q 039848 5 VIRSWAWKKFMTGCDNLLTLFCGVILLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGFMTSITFIFLVGVFMSSW 84 (164)
Q Consensus 5 ~~~~~l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl~~~l~li~~vG~l~~~~ 84 (164)
|-|+.+++.++++. .++.-+++..|-.-|+-+....- +|+++..-++ ..+++...+|.+.+-+
T Consensus 58 rpr~s~~k~~~~a~---------~vLf~~Av~~q~~qwi~d~~qr~-----dWl~~~a~~v---~~l~vlagv~~v~rEw 120 (350)
T COG3768 58 RPRSSFWKIMLGAG---------GVLFSLAVGLQSVQWIRDLFQRA-----DWLGLGAAAV---GALIVLAGVGSVVREW 120 (350)
T ss_pred cccchHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHh-----hHHHHHHHHH---HHHHHHHHHHHHHHHH
Confidence 44566789999888 77888888877777766644321 3333322222 3334444566666655
Q ss_pred HH
Q 039848 85 LG 86 (164)
Q Consensus 85 ~g 86 (164)
.+
T Consensus 121 ~r 122 (350)
T COG3768 121 RR 122 (350)
T ss_pred HH
Confidence 54
No 42
>TIGR02872 spore_ytvI sporulation integral membrane protein YtvI. Three lines of evidence show this protein to be involved in sporulation. First, it is under control of a sporulation-specific sigma factor, sigma-E. Second, mutation leads to a sporulation defect. Third, it if found in exactly those genomes whose bacteria are capable of sporulation, except for being absent in Clostridium acetobutylicum ATCC824. This protein has extensive hydrophobic regions and is likely an integral membrane protein.
Probab=36.16 E-value=2.5e+02 Score=23.27 Aligned_cols=19 Identities=21% Similarity=0.205 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHhhhcch
Q 039848 84 WLGASILSLGEWLIKKMPL 102 (164)
Q Consensus 84 ~~g~~l~~~~e~ll~rIP~ 102 (164)
.....+.+..+++.+++|-
T Consensus 72 ~l~~~l~~q~~~l~~~lp~ 90 (341)
T TIGR02872 72 ILVTELVTETIALAKNLPQ 90 (341)
T ss_pred HHHHHHHHHHHHHHHHhhH
Confidence 3455666666667777774
No 43
>PF11872 DUF3392: Protein of unknown function (DUF3392); InterPro: IPR021813 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 110 amino acids in length.
Probab=36.07 E-value=1.8e+02 Score=21.47 Aligned_cols=68 Identities=12% Similarity=0.241 Sum_probs=38.7
Q ss_pred HHHHHHHHHHhccccccccccceeehHHHHHHHHHHHHHHHHHHhhHhhhhhhccchhhHHH-HHHHHHHHHHHHHHHH
Q 039848 6 IRSWAWKKFMTGCDNLLTLFCGVILLPIAITFYLTWWFIHFVDGFFSPIYAHLGINISGLGF-MTSITFIFLVGVFMSS 83 (164)
Q Consensus 6 ~~~~l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~ipglgl-~~~l~li~~vG~l~~~ 83 (164)
+.+++ |+.++|. =+++=..+-+.+--+-++...-...|.+...=..+|..-+ ..++...+++|.+|++
T Consensus 37 IN~~l-rr~l~~~---------~Fi~Rt~~FIlicAFGYGll~v~~tP~l~~~L~~~~~~~l~~~vl~~F~~iG~lAqR 105 (106)
T PF11872_consen 37 INRFL-RRLLSGY---------HFILRTLAFILICAFGYGLLIVWLTPLLARQLAQLPNYWLAPVVLLSFILIGVLAQR 105 (106)
T ss_pred HHHHH-HHHhcCC---------ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHhcc
Confidence 34443 4456666 6666666666666777777777777776431112222222 2334445678988875
No 44
>PRK03072 heat shock protein HtpX; Provisional
Probab=34.77 E-value=2.8e+02 Score=23.40 Aligned_cols=34 Identities=18% Similarity=0.224 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHhCCCccCCCcCcEEEEEeCCCCeeEEE
Q 039848 105 YIYSASKQISAAISPDQKTKAFKEVAIIRHPRIGESAIG 143 (164)
Q Consensus 105 ~IY~~iK~i~~~~~~~~~~~~f~~VVlVe~p~~g~~~iG 143 (164)
.+|+.+.++.+...- +-.++..++-+..+.++.|
T Consensus 71 ~L~~~v~~la~~~g~-----p~p~vyv~~~~~~NAFa~G 104 (288)
T PRK03072 71 AMYRIVRELSTAARQ-----PMPRLYISPTAAPNAFATG 104 (288)
T ss_pred HHHHHHHHHHHHcCC-----CCCCEEEecCCCCceEEec
Confidence 356666665555421 1246776665555555555
No 45
>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=32.73 E-value=2.8e+02 Score=22.82 Aligned_cols=40 Identities=10% Similarity=0.036 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHhccccccccccceeehHHHHHHHHHHHHHHHHHHhh
Q 039848 3 SKVIRSWAWKKFMTGCDNLLTLFCGVILLPIAITFYLTWWFIHFVDGFF 51 (164)
Q Consensus 3 ~~~~~~~l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl~~l~~~v~~~~ 51 (164)
++-+-++..+.|..|+ ..-+|+.+...++.-.+..+....
T Consensus 166 ~~~~~~~~~~~f~~al---------~lAaP~i~~lll~~l~lG~l~R~~ 205 (249)
T PF01311_consen 166 LQFIIKLFGQMFSLAL---------QLAAPVIAALLLVDLALGLLSRAA 205 (249)
T ss_pred HHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHhC
Confidence 3455667788899999 999999999999998888887765
No 46
>PRK10478 putative PTS system fructose-like transporter subunit EIIC; Provisional
Probab=31.95 E-value=2.9e+02 Score=24.50 Aligned_cols=42 Identities=14% Similarity=0.372 Sum_probs=27.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHh--hhcchhhHH
Q 039848 64 GLGFMTSITFIFLVGVFMSSWLGA-SILSLGEWLI--KKMPLISYI 106 (164)
Q Consensus 64 glgl~~~l~li~~vG~l~~~~~g~-~l~~~~e~ll--~rIP~vk~I 106 (164)
+.|++-.++.=+++||+++ +..+ ++-+..+.+. -=+|++.++
T Consensus 100 ~~GFlGaii~G~laGy~v~-~lkki~lpk~l~~~~piliiP~l~~l 144 (359)
T PRK10478 100 GAGFFGALIAGIIGGIVVH-YLKKIPVHKVLRSVMPIFIIPIVGTL 144 (359)
T ss_pred CcchHHHHHHHHHHHHHHH-HHHhcCCchhhHhhcceeeeHHHHHH
Confidence 4566667778888999988 5555 4556666554 345665554
No 47
>PRK10712 PTS system fructose-specific transporter subunits IIBC; Provisional
Probab=31.48 E-value=2.8e+02 Score=26.07 Aligned_cols=65 Identities=11% Similarity=0.127 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHh--hHhhhhhh-c-cchhhHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 039848 35 ITFYLTWWFIHFVDGF--FSPIYAHL-G-INISGLGFMTS-ITFIFLVGVFMSSWLGASILSLGEWLIKKM 100 (164)
Q Consensus 35 iTi~vl~~l~~~v~~~--~~p~~~~~-~-~~ipglgl~~~-l~li~~vG~l~~~~~g~~l~~~~e~ll~rI 100 (164)
+..|+..++..++++. +...++-+ + +-+|-++++++ .+.++++|-... +++.++-+++..+-+.-
T Consensus 321 lag~lagyv~~~l~K~~~lP~~l~~l~piliiPllt~li~~~l~~~viGpp~~-~l~~~l~~~l~~l~~~~ 390 (563)
T PRK10712 321 IAGFLAGYVAKLISTKLKLPQSMEALKPILIIPLISSLVVGLAMIYLIGKPVA-GILEGLTHWLQTMGTAN 390 (563)
T ss_pred HHHHHHHHHHHHHHHhccCcHHHHhcCceeehhHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhhh
Confidence 6677777777777665 32222211 1 33677776654 344557777765 46667777766665443
No 48
>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=31.15 E-value=3e+02 Score=22.68 Aligned_cols=39 Identities=21% Similarity=0.281 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHhccccccccccceeehHHHHHHHHHHHHHHHHHHhh
Q 039848 4 KVIRSWAWKKFMTGCDNLLTLFCGVILLPIAITFYLTWWFIHFVDGFF 51 (164)
Q Consensus 4 ~~~~~~l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl~~l~~~v~~~~ 51 (164)
+.+.+...+.|..|+ -.-+|+.+...+..-.++.+....
T Consensus 160 ~~~~~~~~~~f~~a~---------~lAaPvi~~~ll~~~~lGll~R~~ 198 (245)
T TIGR01400 160 ELILKALSDMFLLGL---------LLALPIIAALLLVNLVLGLVNRAA 198 (245)
T ss_pred HHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHcc
Confidence 455667788899999 999999999999999998887765
No 49
>PRK14762 membrane protein; Provisional
Probab=30.48 E-value=1e+02 Score=17.05 Aligned_cols=16 Identities=25% Similarity=0.563 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHH
Q 039848 69 TSITFIFLVGVFMSSW 84 (164)
Q Consensus 69 ~~l~li~~vG~l~~~~ 84 (164)
-++.++|++|+++-+-
T Consensus 6 w~i~iifligllvvtg 21 (27)
T PRK14762 6 WAVLIIFLIGLLVVTG 21 (27)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3456778888877653
No 50
>PRK15071 lipopolysaccharide ABC transporter permease; Provisional
Probab=28.85 E-value=2.2e+02 Score=24.18 Aligned_cols=38 Identities=5% Similarity=0.128 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHhccccccccccceeehHHHHHHHHHHHHHHHHHHh
Q 039848 4 KVIRSWAWKKFMTGCDNLLTLFCGVILLPIAITFYLTWWFIHFVDGF 50 (164)
Q Consensus 4 ~~~~~~l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl~~l~~~v~~~ 50 (164)
+.+.+++-|.++... ++.+-....++++.++++.++.+
T Consensus 3 ~il~rYi~r~~l~~~---------~~~l~~l~~l~~~~~~~~~l~~~ 40 (356)
T PRK15071 3 GILDRYIGRTILSTI---------MLTLFMLVGLSGIIKFVDQLRKV 40 (356)
T ss_pred hHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHhhc
Confidence 456777777777777 66666666677777776665554
No 51
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.90 E-value=1.6e+02 Score=20.28 Aligned_cols=47 Identities=17% Similarity=0.266 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhhHHHHHHHHHHHHh
Q 039848 65 LGFMTSITFIFLVGVFMSSWLGASILSLGEWLIKKMPLISYIYSASKQISAAI 117 (164)
Q Consensus 65 lgl~~~l~li~~vG~l~~~~~g~~l~~~~e~ll~rIP~vk~IY~~iK~i~~~~ 117 (164)
+++ +.+++++++|.+.-.++.|+.. ++.+.+=|-++ =.++|.+..+.
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 344 4556677777777776666554 44454445433 13444444444
No 52
>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=27.51 E-value=72 Score=19.40 Aligned_cols=26 Identities=12% Similarity=0.337 Sum_probs=18.0
Q ss_pred HHHHHHHHHHhccccccccccceeehHHHHHHHHH
Q 039848 6 IRSWAWKKFMTGCDNLLTLFCGVILLPIAITFYLT 40 (164)
Q Consensus 6 ~~~~l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl 40 (164)
++.++..-+.+|+ +++.|+.+-+..+
T Consensus 5 L~nfl~Sl~aG~~---------iVv~~i~~ali~V 30 (39)
T PF06596_consen 5 LSNFLLSLVAGAV---------IVVIPIAGALIFV 30 (39)
T ss_dssp HHHHHHHHHHHH----------HHHHHHHHHHHHH
T ss_pred HHHHHHHHHhhhh---------hhhhhhhhheEEE
Confidence 5667777777777 8999987765443
No 53
>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=26.40 E-value=3.7e+02 Score=22.18 Aligned_cols=33 Identities=15% Similarity=0.110 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHHhhhcchhhHHHHHHHHHHHHh
Q 039848 82 SSWLGASILSLGEWLIKKMPLISYIYSASKQISAAI 117 (164)
Q Consensus 82 ~~~~g~~l~~~~e~ll~rIP~vk~IY~~iK~i~~~~ 117 (164)
-......+.+..+++.+.+| ...+.+++..+.+
T Consensus 68 ~~~~~~~i~~~~~~l~~~l~---~~~~~i~~~~~~~ 100 (327)
T PF01594_consen 68 FYLIIPQIIQQIQSLIENLP---QYLDKIKSWLNDL 100 (327)
T ss_pred HHHHHHHHHHHHHHHHHhhh---HHHHHhhhhhhcc
Confidence 33466777778888888888 3344444444443
No 54
>COG4956 Integral membrane protein (PIN domain superfamily) [General function prediction only]
Probab=25.20 E-value=3.9e+02 Score=23.68 Aligned_cols=27 Identities=22% Similarity=0.283 Sum_probs=19.2
Q ss_pred HHHHHHHHhhhcchhhHHHHHHHHHHH
Q 039848 89 ILSLGEWLIKKMPLISYIYSASKQISA 115 (164)
Q Consensus 89 l~~~~e~ll~rIP~vk~IY~~iK~i~~ 115 (164)
..+++|..+.|+|...-+|.++==++.
T Consensus 65 ~~~~le~~i~k~~~~~ilf~tiGLiiG 91 (356)
T COG4956 65 WLKRLEEQIRKLPVTTILFGTIGLIIG 91 (356)
T ss_pred HHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence 356678888888888888777655443
No 55
>PHA03231 glycoprotein BALF4; Provisional
Probab=24.66 E-value=1.8e+02 Score=28.81 Aligned_cols=48 Identities=10% Similarity=0.036 Sum_probs=31.5
Q ss_pred HHHHHHHHHHhhHhhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHH
Q 039848 40 TWWFIHFVDGFFSPIYAHLGINISGLGFMTSITFIFLVGVFMSSWLGA 87 (164)
Q Consensus 40 l~~l~~~v~~~~~p~~~~~~~~ipglgl~~~l~li~~vG~l~~~~~g~ 87 (164)
+.-+.+.+.++++.+..++..++-|+.++++++.+.++.+++.++.-+
T Consensus 682 v~~v~ga~~SiVsG~~sFl~NPFGg~~iillvia~vv~v~l~~rr~~~ 729 (829)
T PHA03231 682 VSGVAGAVGSIVSGVISFLKNPFGGLAIGLLVIAVLVAVFLAYRRVRR 729 (829)
T ss_pred hhhHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence 344445555555555566666667888888878788888887765443
No 56
>PF06021 Gly_acyl_tr_N: Aralkyl acyl-CoA:amino acid N-acyltransferase; InterPro: IPR015938 This entry represents mammalian-specific glycine N-acyltransferase (also called aralkyl acyl-CoA:amino acid N-acyltransferase; 2.3.1.13 from EC). Mitochondrial acyltransferases catalyse the transfer of an acyl group from acyl-CoA to the N terminus of glycine to produce N-acylglycine. These enzymes can conjugate a multitude of substrates to form a variety of N-acylglycines. The CoA derivatives of a number of aliphatic and aromatic acids, but not phenylacetyl-CoA or (indol-3-yl)acetyl-CoA, can act as donor [, ].; GO: 0047961 glycine N-acyltransferase activity, 0005739 mitochondrion
Probab=24.07 E-value=80 Score=25.92 Aligned_cols=54 Identities=19% Similarity=0.170 Sum_probs=34.8
Q ss_pred HHHHHHHHh-hhcchhhHHHHHHHHHHHHhCCCccCCCcCcEEEEE-eCCCCeeEEEEEccccccCC
Q 039848 89 ILSLGEWLI-KKMPLISYIYSASKQISAAISPDQKTKAFKEVAIIR-HPRIGESAIGFITSTLILHG 153 (164)
Q Consensus 89 l~~~~e~ll-~rIP~vk~IY~~iK~i~~~~~~~~~~~~f~~VVlVe-~p~~g~~~iGFvT~~~~~~~ 153 (164)
-++.+|+.| ..+|===.+|+++ +.=+.+++|+.=|+|+ || +..++ +|++..++.
T Consensus 9 ~Lq~Le~~L~k~~PeSLKVYG~V-------~~INrGNPf~~EVlVDsWP--dF~tV--ItRPqkq~m 64 (205)
T PF06021_consen 9 KLQILEKSLRKSFPESLKVYGAV-------FNINRGNPFNLEVLVDSWP--DFKTV--ITRPQKQEM 64 (205)
T ss_pred HHHHHHHHHHHhCchhheeeeEE-------EEecCCCCcceEEEEecCC--CceEE--EEccCcccc
Confidence 345566544 7788765667665 2223457899888998 88 55554 688776443
No 57
>COG2177 FtsX Cell division protein [Cell division and chromosome partitioning]
Probab=23.31 E-value=4.6e+02 Score=22.51 Aligned_cols=64 Identities=14% Similarity=0.145 Sum_probs=30.6
Q ss_pred ceeehHHHHHHHHHHHHHHHHHHhhHhhhhhhccc-hhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039848 27 GVILLPIAITFYLTWWFIHFVDGFFSPIYAHLGIN-ISGLGFMTSITFIFLVGVFMSSWLGASIL 90 (164)
Q Consensus 27 ~lvllPl~iTi~vl~~l~~~v~~~~~p~~~~~~~~-ipglgl~~~l~li~~vG~l~~~~~g~~l~ 90 (164)
+-.++|.++.-++++..-....+..+.....++.. ++--....+...+.++|++........-+
T Consensus 227 ~Ga~~~~~l~~~l~~~~~~~~~~~~~~~~~~f~~~~~~~~~~l~l~~~~~~iG~~~~~l~s~~~l 291 (297)
T COG2177 227 LGALIALALAALLLAGYRSSVNNVAPQFGQAFGLLGLGLDEVLLLLGILLLIGVLIAWLASLRHL 291 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35667888866633333333334333332322222 22233344555666677766654433333
No 58
>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=22.98 E-value=1.3e+02 Score=24.37 Aligned_cols=61 Identities=18% Similarity=0.121 Sum_probs=42.3
Q ss_pred HHHHHHHHHhhhcch---------hhHHHHHHHHHHHHhCCCccCCCcCcEEEEE--eCCCCeeEEEEEccccc
Q 039848 88 SILSLGEWLIKKMPL---------ISYIYSASKQISAAISPDQKTKAFKEVAIIR--HPRIGESAIGFITSTLI 150 (164)
Q Consensus 88 ~l~~~~e~ll~rIP~---------vk~IY~~iK~i~~~~~~~~~~~~f~~VVlVe--~p~~g~~~iGFvT~~~~ 150 (164)
.+.+-+++.+.+.|- =..-|..++++++.+ ++.++-.. +|+-|+ |.++.+-+-|.+|+++.
T Consensus 81 ~f~~e~~~~l~~l~~~~~~v~ivTG~la~~~l~~~~~~l-~~~~~~~v-~V~~V~N~fFG~~ItVaGLLTg~Di 152 (204)
T PF04459_consen 81 LFLDEWEEALRKLPKKPRRVTIVTGVLAYPFLKPLVEKL-NRIPGLEV-EVVPVKNRFFGGTITVAGLLTGQDI 152 (204)
T ss_pred HHHHHHHHHHhhcCCCCeeEEEEeeHHHHHHHHHHHHHH-hccCCCeE-EEEEeecCCCCCCeEEeeCccHHHH
Confidence 445556666666551 134699999999999 33222223 677777 67889999999999986
No 59
>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=22.29 E-value=2.4e+02 Score=22.42 Aligned_cols=14 Identities=14% Similarity=0.562 Sum_probs=11.2
Q ss_pred ehHHHHHHHHHHHH
Q 039848 30 LLPIAITFYLTWWF 43 (164)
Q Consensus 30 llPl~iTi~vl~~l 43 (164)
++|+++.+.++.++
T Consensus 81 fmP~alv~lv~~~v 94 (170)
T PF11241_consen 81 FMPVALVLLVLSFV 94 (170)
T ss_pred HHHHHHHHHHHHHH
Confidence 68888888877776
No 60
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=22.25 E-value=3.7e+02 Score=20.74 Aligned_cols=28 Identities=7% Similarity=0.108 Sum_probs=20.8
Q ss_pred CCCcCcEEEEEeC---C---CCeeEEEEEccccc
Q 039848 123 TKAFKEVAIIRHP---R---IGESAIGFITSTLI 150 (164)
Q Consensus 123 ~~~f~~VVlVe~p---~---~g~~~iGFvT~~~~ 150 (164)
...++++.+|+|. + +=+++++++-+++.
T Consensus 77 ~~~~~kvgvvRYnAF~dmGg~LSFslAlLD~~~n 110 (151)
T PF14584_consen 77 RNCVQKVGVVRYNAFEDMGGDLSFSLALLDDNNN 110 (151)
T ss_pred HhccceEEEEEccCcccccccceeeeEEEeCCCC
Confidence 4679999999974 2 33788888877664
No 61
>PRK05701 fliR flagellar biosynthesis protein FliR; Reviewed
Probab=22.05 E-value=4.5e+02 Score=21.60 Aligned_cols=40 Identities=15% Similarity=0.219 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHhccccccccccceeehHHHHHHHHHHHHHHHHHHhhH
Q 039848 4 KVIRSWAWKKFMTGCDNLLTLFCGVILLPIAITFYLTWWFIHFVDGFFS 52 (164)
Q Consensus 4 ~~~~~~l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl~~l~~~v~~~~~ 52 (164)
+.+-+.+...|..|+ .+-+|+.+...+..-..+.+.....
T Consensus 162 ~~~~~~~~~~f~~a~---------~lAaP~i~~~ll~~~~lGll~R~~P 201 (242)
T PRK05701 162 LLLAKALSAMFLIGL---------QLALPIIVLLLLVNLALGLINRTAP 201 (242)
T ss_pred HHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHcch
Confidence 345566778899999 9999999999999999988877653
No 62
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=20.57 E-value=2.5e+02 Score=27.39 Aligned_cols=47 Identities=13% Similarity=0.323 Sum_probs=29.8
Q ss_pred hHHHHHHHHHHHHHhccccccccccceeehHHHHHHHHHHHH--------------HHHHHHhhHhhhhhhccc
Q 039848 2 LSKVIRSWAWKKFMTGCDNLLTLFCGVILLPIAITFYLTWWF--------------IHFVDGFFSPIYAHLGIN 61 (164)
Q Consensus 2 ~~~~~~~~l~~~fl~Gl~~~~~~~~~lvllPl~iTi~vl~~l--------------~~~v~~~~~p~~~~~~~~ 61 (164)
.|+|.+.|+++. | -++++..+.+|++... ...+.+.+.|++..+|+.
T Consensus 504 ~w~r~~~Fl~~A---g----------~iI~~~~iviw~l~~~~~~g~~~~~~~~S~l~~ig~~i~Pi~~plG~~ 564 (772)
T PRK09554 504 TWQRLKGFVLRA---G----------KVIIIVSIFIGALNSFSLSGKIVDNINDSALASVSRVITPVLKPIGVH 564 (772)
T ss_pred HHHHHHHHHHHH---H----------HHHHHHHHHHHHHHhCCCccccccchhhhHHHHHHHHHHHHHhccCCC
Confidence 377777777663 2 3566777777777543 344555677887766664
No 63
>TIGR00834 ae anion exchange protein. They preferentially catalyze anion exchange (antiport) reactions, typically acting as HCO3-:Cl- antiporters, but also transporting a range of other inorganic and organic anions. Additionally, renal Na+:HCO3- cotransporters have been found to be members of the AE family. They catalyze the reabsorption of HCO3- in the renal proximal tubule.
Probab=20.53 E-value=6.3e+02 Score=25.39 Aligned_cols=47 Identities=13% Similarity=0.191 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhcchhhHHHHHHHHHHHHhCC
Q 039848 73 FIFLVGVFMSSWLGASILSLGEWLIKKMPLISYIYSASKQISAAISP 119 (164)
Q Consensus 73 li~~vG~l~~~~~g~~l~~~~e~ll~rIP~vk~IY~~iK~i~~~~~~ 119 (164)
+++++...-...+.|.+-++.|.++.-.--+--||+++|++++.+..
T Consensus 466 ~~~lla~~~~s~lvryiTRFTeEiFa~lIs~IFI~eai~~L~~~f~~ 512 (900)
T TIGR00834 466 LVLLLVATEGSFLVRYISRFTQEIFSFLISLIFIYETFSKLIKIFQE 512 (900)
T ss_pred HHHHHHHHhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34444444445667888888888888888888899999999998863
No 64
>PHA01399 membrane protein P6
Probab=20.43 E-value=4.9e+02 Score=21.45 Aligned_cols=15 Identities=27% Similarity=0.538 Sum_probs=6.8
Q ss_pred hhHHHHHHHHHHHHH
Q 039848 63 SGLGFMTSITFIFLV 77 (164)
Q Consensus 63 pglgl~~~l~li~~v 77 (164)
.-.|+++.++++.+.
T Consensus 56 s~ig~il~~il~~~~ 70 (242)
T PHA01399 56 SKIGIILIIILIIIA 70 (242)
T ss_pred HhccHHHHHHHHHHH
Confidence 345555444444433
No 65
>PF11118 DUF2627: Protein of unknown function (DUF2627); InterPro: IPR020138 This entry represents uncharacterised membrane proteins with no known function.
Probab=20.38 E-value=1.7e+02 Score=20.42 Aligned_cols=26 Identities=15% Similarity=0.207 Sum_probs=21.3
Q ss_pred eeehHHHHHHHHHHHHHHHHHHhhHh
Q 039848 28 VILLPIAITFYLTWWFIHFVDGFFSP 53 (164)
Q Consensus 28 lvllPl~iTi~vl~~l~~~v~~~~~p 53 (164)
+.++|-++-.|=+.+.=+.+-+.+.+
T Consensus 9 iLvIPg~~a~yGiklMRD~~F~~~~~ 34 (77)
T PF11118_consen 9 ILVIPGILAAYGIKLMRDTVFGILFS 34 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 88899999999999888887776533
No 66
>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=20.06 E-value=2.1e+02 Score=17.12 Aligned_cols=21 Identities=24% Similarity=0.477 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 039848 66 GFMTSITFIFLVGVFMSSWLG 86 (164)
Q Consensus 66 gl~~~l~li~~vG~l~~~~~g 86 (164)
++-..++++|++|.+.++++.
T Consensus 16 SLY~GLllifvl~vLFssyff 36 (37)
T PF02419_consen 16 SLYWGLLLIFVLAVLFSSYFF 36 (37)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHhhhhhc
Confidence 444567788889999888753
No 67
>PF08693 SKG6: Transmembrane alpha-helix domain; InterPro: IPR014805 SKG6 and AXL2 are membrane proteins that show polarised intracellular localisation [, ]. This entry represents the highly conserved transmembrane alpha-helical domain found in these proteins [, ]. The full-length AXL2 protein has a negative regulatory function in cytokinesis [].
Probab=20.01 E-value=1.1e+02 Score=18.75 Aligned_cols=24 Identities=13% Similarity=0.324 Sum_probs=17.5
Q ss_pred ccccccccceeehHHHHHHHHHHHH
Q 039848 19 DNLLTLFCGVILLPIAITFYLTWWF 43 (164)
Q Consensus 19 ~~~~~~~~~lvllPl~iTi~vl~~l 43 (164)
+|..+.+| -+.+|+++.+.++..+
T Consensus 8 ~~~vaIa~-~VvVPV~vI~~vl~~~ 31 (40)
T PF08693_consen 8 SNTVAIAV-GVVVPVGVIIIVLGAF 31 (40)
T ss_pred CceEEEEE-EEEechHHHHHHHHHH
Confidence 56667778 8888988887776443
Done!