Query gi|254780722|ref|YP_003065135.1| pilus assembly protein [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 187
No_of_seqs 118 out of 2435
Neff 9.5
Searched_HMMs 39220
Date Sun May 29 22:21:40 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780722.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG4965 TadB Flp pilus assembl 100.0 1.1E-34 2.9E-39 232.9 22.3 187 1-187 123-309 (309)
2 TIGR02120 GspF general secreti 99.8 1.2E-16 3E-21 121.8 18.2 137 13-157 75-212 (414)
3 PRK10573 type IV pilin biogene 99.7 2.8E-15 7.1E-20 113.3 20.3 136 14-157 58-194 (397)
4 COG1459 PulF Type II secretory 99.7 3.4E-14 8.7E-19 106.6 20.3 136 13-156 57-193 (397)
5 PRK06041 flagellar assembly pr 99.6 4.4E-12 1.1E-16 93.6 22.2 147 3-149 63-212 (547)
6 COG2064 TadC Flp pilus assembl 99.6 1.9E-12 4.9E-17 95.7 19.2 129 2-130 161-292 (320)
7 pfam00482 GSPII_F Bacterial ty 99.5 2.7E-12 6.9E-17 94.8 14.0 122 19-144 1-123 (125)
8 PRK06041 flagellar assembly pr 99.5 1.5E-10 3.9E-15 84.0 22.8 121 3-123 312-433 (547)
9 COG1955 FlaJ Archaeal flagella 99.2 2.4E-08 6.1E-13 70.5 20.5 119 5-123 43-163 (527)
10 PRK10573 type IV pilin biogene 99.2 7.4E-09 1.9E-13 73.7 16.4 111 14-130 261-372 (397)
11 TIGR02120 GspF general secreti 99.1 3.8E-09 9.7E-14 75.4 14.2 126 16-150 281-407 (414)
12 COG1955 FlaJ Archaeal flagella 99.0 1.5E-07 3.8E-12 65.6 17.8 119 3-121 290-409 (527)
13 COG1459 PulF Type II secretory 99.0 1E-07 2.6E-12 66.6 16.7 112 14-131 261-373 (397)
14 pfam09548 Spore_III_AB Stage I 97.2 0.018 4.7E-07 34.2 17.8 71 5-76 23-96 (170)
15 PRK08307 stage III sporulation 96.6 0.052 1.3E-06 31.4 17.9 71 5-76 25-98 (172)
16 TIGR02833 spore_III_AB stage I 96.6 0.053 1.4E-06 31.3 15.0 70 5-75 23-95 (170)
17 PRK09546 zntB zinc transporter 92.6 0.73 1.9E-05 24.3 15.2 135 47-182 182-323 (327)
18 COG0598 CorA Mg2+ and Co2+ tra 89.4 1.5 3.8E-05 22.4 16.9 119 62-181 196-318 (322)
19 pfam06840 DUF1241 Protein of u 73.1 6.4 0.00016 18.5 7.4 97 27-124 29-127 (154)
20 COG5336 Uncharacterized protei 66.5 8.9 0.00023 17.6 7.2 25 155-181 70-94 (116)
21 KOG4025 consensus 66.0 9.1 0.00023 17.6 6.0 101 24-124 29-131 (207)
22 PRK11085 magnesium/nickel/coba 61.9 11 0.00028 17.1 13.8 54 127-181 258-311 (316)
23 pfam01544 CorA CorA-like Mg2+ 49.2 18 0.00045 15.8 18.3 37 127-164 235-271 (291)
24 pfam00745 GlutR_dimer Glutamyl 47.2 19 0.00048 15.6 9.7 90 11-106 6-95 (101)
25 PRK10862 SoxR reducing system 46.9 19 0.00049 15.6 6.6 49 130-184 78-126 (158)
26 TIGR01852 lipid_A_lpxA acyl-[a 46.8 19 0.00049 15.6 3.7 39 20-58 210-250 (257)
27 pfam11241 DUF3043 Protein of u 46.4 19 0.0005 15.5 6.0 20 165-184 108-127 (168)
28 pfam12169 DNA_pol3_gamma3 DNA 43.4 22 0.00055 15.2 5.4 30 46-75 28-57 (143)
29 pfam03564 DUF1759 Protein of u 42.0 23 0.00058 15.1 10.3 102 14-119 6-112 (146)
30 PRK13940 glutamyl-tRNA reducta 38.4 26 0.00066 14.8 10.4 66 31-96 332-397 (414)
31 TIGR01280 xseB exodeoxyribonuc 37.0 27 0.00069 14.6 3.3 28 47-74 7-35 (69)
32 pfam06781 UPF0233 Uncharacteri 35.5 29 0.00073 14.5 3.6 53 125-180 29-84 (87)
33 TIGR02606 antidote_CC2985 puta 31.4 34 0.00086 14.1 5.7 43 79-122 8-51 (77)
34 TIGR02163 napH_ ferredoxin-typ 29.1 37 0.00094 13.8 5.8 57 95-154 77-142 (263)
35 PRK08374 homoserine dehydrogen 28.6 30 0.00076 14.4 1.4 20 52-71 173-192 (316)
36 KOG2603 consensus 28.3 38 0.00097 13.7 2.6 74 102-178 155-229 (331)
37 PRK10747 putative protoheme IX 27.1 40 0.001 13.6 2.9 23 15-37 99-122 (398)
38 pfam06267 DUF1028 Family of un 25.9 42 0.0011 13.5 4.5 31 17-47 47-77 (190)
39 PRK00159 putative septation in 25.9 42 0.0011 13.5 3.4 23 158-180 62-84 (87)
40 COG5001 Predicted signal trans 25.9 42 0.0011 13.5 2.0 16 62-77 87-102 (663)
41 COG1043 LpxA Acyl-[acyl carrie 25.6 43 0.0011 13.4 3.9 19 25-43 219-237 (260)
42 COG0177 Nth Predicted EndoIII- 25.5 43 0.0011 13.4 4.7 33 47-79 29-61 (211)
43 pfam10443 RNA12 RNA12 protein. 25.3 43 0.0011 13.4 3.7 35 51-85 271-305 (428)
44 TIGR02968 succ_dehyd_anc succi 25.0 44 0.0011 13.4 6.4 50 125-174 10-62 (105)
45 cd04391 RhoGAP_ARHGAP18 RhoGAP 22.0 50 0.0013 13.0 1.5 62 15-82 21-96 (216)
46 cd04389 RhoGAP_KIAA1688 RhoGAP 21.9 50 0.0013 13.0 1.9 61 15-81 20-92 (187)
47 TIGR01129 secD protein-export 20.8 53 0.0013 12.8 2.9 28 19-47 335-362 (522)
48 COG1644 RPB10 DNA-directed RNA 20.8 53 0.0013 12.8 3.1 29 46-74 12-40 (63)
49 PRK00045 hemA glutamyl-tRNA re 20.1 55 0.0014 12.8 10.5 65 31-95 339-403 (429)
No 1
>COG4965 TadB Flp pilus assembly protein TadB [Intracellular trafficking and secretion]
Probab=100.00 E-value=1.1e-34 Score=232.93 Aligned_cols=187 Identities=47% Similarity=0.818 Sum_probs=182.8
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHH
Q ss_conf 91699999999999999999999999956999899999999924842899999999986303888899999775348734
Q gi|254780722|r 1 MKHLIKKRTAKFLDDFPNALDIIVRSVRAGLPVSDAVAVIVGQSSDPVRSEFRRVIETQHLGLSLSESISRMVRYMPLQE 80 (187)
Q Consensus 1 l~~~~~~R~~~~~~~l~~~l~~l~~~l~aG~sl~~Al~~~a~~~~~~l~~e~~~i~~~~~~G~~~~~al~~~~~~~~~~~ 80 (187)
+++..+||.+++.+|||++++.+...+++|.++++|++.+++++++|++.||..++++.+.|.++++|+.+..+++|.++
T Consensus 123 ~~~~~~rr~krf~~qlP~aLdlivr~l~aG~~l~dAl~~~~~e~~~Pl~~ef~~i~~~~~~G~~~~~a~~~~~er~p~~e 202 (309)
T COG4965 123 LRSRRARRLKRFGQQLPEALDLIVRALRAGAPLPDALRLAAKETPEPLGTEFTLITDRQQLGIDLPAALLRMYERYPLEE 202 (309)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHH
T ss_conf 99999999999999766999999988657998799999998608985678999999999839984699999998378236
Q ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHCCCH
Q ss_conf 79999999998742574689999999999999999999999864345677999999999999999978789999950800
Q gi|254780722|r 81 VSFFSTVISVQSQLGGNLSEALANLSRILRDRKNMKAKVQALSMEAKASAWIIGSLPFCVSTLVYFTSPGYMNVLINDPR 160 (187)
Q Consensus 81 ~~~~~~~l~~~~~~gg~~~~~L~~la~~~~~~~~~~~~~~~~~a~~~~~~~i~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 160 (187)
+..|...+..+.++|||+.+.+.+++..+++++++++|+++.++++|++++|++.+|+++.++++..+|+++.++|++|.
T Consensus 203 l~fl~ivi~iq~~~GGnL~e~l~~ls~vireRkk~~~Kv~AlsaEaRmSA~Il~~lP~~v~~li~~~~P~~l~~lw~dp~ 282 (309)
T COG4965 203 LYFLAIVISIQSRHGGNLSELLDNLSRVIRERKKMKAKVRALSAEARMSAWILGALPLLVGLLIYLLSPDYLSFLWTDPT 282 (309)
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHCCCC
T ss_conf 88999999988762878999999999999999999999998634111688999983599999999819378999835997
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 899999999999999999999812769
Q gi|254780722|r 161 GHMLLGVAAAFMLIGIMVMRLMINFDV 187 (187)
Q Consensus 161 G~~~l~~~~~~~~~g~~~i~~~~~~~v 187 (187)
|+++++++++..++|++|++||++.++
T Consensus 283 G~~ll~~~~~~~~iG~lim~km~~~~~ 309 (309)
T COG4965 283 GRFLLVASAGWELIGILIMRKMLNFDF 309 (309)
T ss_pred CCEEHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf 766307999999989999999966779
No 2
>TIGR02120 GspF general secretion pathway protein F; InterPro: IPR011850 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. GspF nearly always clusters with other GSP subunits. However, some genes from Xylella and Xanthomonas strains are excluded from this entry due to excessive divergence.; GO: 0008565 protein transporter activity, 0015628 protein secretion by the type II secretion system, 0015627 type II protein secretion system complex.
Probab=99.77 E-value=1.2e-16 Score=121.78 Aligned_cols=137 Identities=17% Similarity=0.257 Sum_probs=122.2
Q ss_pred HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCC-HHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf 9999999999999995699989999999992484-289999999998630388889999977534873479999999998
Q gi|254780722|r 13 LDDFPNALDIIVRSVRAGLPVSDAVAVIVGQSSD-PVRSEFRRVIETQHLGLSLSESISRMVRYMPLQEVSFFSTVISVQ 91 (187)
Q Consensus 13 ~~~l~~~l~~l~~~l~aG~sl~~Al~~~a~~~~~-~l~~e~~~i~~~~~~G~~~~~al~~~~~~~~~~~~~~~~~~l~~~ 91 (187)
..|+..+.++++.++.||.|+++|+..+.++.+. .+++.+..+-.++..|.++.+||.+..+.+ ..+..+|+.+
T Consensus 75 ~~~la~~TRQLATLl~AglPLeeaL~~l~~Q~e~~~~~~~l~~iR~~v~eG~~La~AL~~~P~~F-----~~lYralV~A 149 (414)
T TIGR02120 75 RAELALFTRQLATLLGAGLPLEEALAALLEQAEKPRLKSVLAAIRSRVLEGKSLADALAQEPRLF-----PPLYRALVAA 149 (414)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHCCCCCC-----CHHHHHHHHH
T ss_conf 99999999999999985340999999999625957899999999999861811689985088998-----8788999996
Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHC
Q ss_conf 742574689999999999999999999999864345677999999999999999978789999950
Q gi|254780722|r 92 SQLGGNLSEALANLSRILRDRKNMKAKVQALSMEAKASAWIIGSLPFCVSTLVYFTSPGYMNVLIN 157 (187)
Q Consensus 92 ~~~gg~~~~~L~~la~~~~~~~~~~~~~~~~~a~~~~~~~i~~~~~~~~~~~l~~~~~~~~~~~~~ 157 (187)
+|.+|++..+|+++||++|+++.++.|+..+..|| ++++.....++.+++.++.|...+.|-+
T Consensus 150 GE~SG~L~~VL~RLADylE~rq~lr~Ki~~AliYP---a~l~vVa~~vv~~Ll~~VVPkvV~~F~~ 212 (414)
T TIGR02120 150 GEASGALDAVLERLADYLEERQALRSKITTALIYP---AVLTVVAIGVVIFLLAYVVPKVVEQFAH 212 (414)
T ss_pred HCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHCCCEECHHHC
T ss_conf 12478824689999889999999999999987658---9999999999999994204440310231
No 3
>PRK10573 type IV pilin biogenesis protein; Provisional
Probab=99.73 E-value=2.8e-15 Score=113.28 Aligned_cols=136 Identities=15% Similarity=0.277 Sum_probs=118.3
Q ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCC-HHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Q ss_conf 999999999999995699989999999992484-2899999999986303888899999775348734799999999987
Q gi|254780722|r 14 DDFPNALDIIVRSVRAGLPVSDAVAVIVGQSSD-PVRSEFRRVIETQHLGLSLSESISRMVRYMPLQEVSFFSTVISVQS 92 (187)
Q Consensus 14 ~~l~~~l~~l~~~l~aG~sl~~Al~~~a~~~~~-~l~~e~~~i~~~~~~G~~~~~al~~~~~~~~~~~~~~~~~~l~~~~ 92 (187)
+++..|+++++.+++||.|+.+|++.++++..+ .+++.+..+..+++.|.++++|+.+..+-+ ..+...++.++
T Consensus 58 ~~l~~f~~qLa~ll~aGipl~~aL~~l~~~~~~~~~~~~l~~i~~~l~~G~sls~Al~~~~~~F-----p~~~~~mv~aG 132 (397)
T PRK10573 58 EQSAEIIRQLATLLQAGLPLSEGLQLLAEQHPSKQWQALLQELAHQLEQGVAFSEALLQWPHVF-----PPLYQAMIRTG 132 (397)
T ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHCCCCC-----CHHHHHHHHHH
T ss_conf 7999999999999986999999999998537786899999999999869831899998571628-----87999999998
Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHC
Q ss_conf 42574689999999999999999999999864345677999999999999999978789999950
Q gi|254780722|r 93 QLGGNLSEALANLSRILRDRKNMKAKVQALSMEAKASAWIIGSLPFCVSTLVYFTSPGYMNVLIN 157 (187)
Q Consensus 93 ~~gg~~~~~L~~la~~~~~~~~~~~~~~~~~a~~~~~~~i~~~~~~~~~~~l~~~~~~~~~~~~~ 157 (187)
|.+|++.++|++++++++++.++++++++++.|| ++++.....++.+++.++.|.+...|-+
T Consensus 133 E~sG~L~~~l~~la~~~e~~~~~r~ki~~Al~YP---~~l~~~~i~v~~~ll~~VvP~f~~if~~ 194 (397)
T PRK10573 133 ELTGKLDECCFQLARQQEAQQQLTKKVKKALRYP---LIILAVALLVVVAMLHFVLPEFAAIYQS 194 (397)
T ss_pred HHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCC---HHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf 7107799999999999999999999999999701---9999999999999999997647663134
No 4
>COG1459 PulF Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=99.68 E-value=3.4e-14 Score=106.57 Aligned_cols=136 Identities=18% Similarity=0.339 Sum_probs=121.0
Q ss_pred HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCC-HHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf 9999999999999995699989999999992484-289999999998630388889999977534873479999999998
Q gi|254780722|r 13 LDDFPNALDIIVRSVRAGLPVSDAVAVIVGQSSD-PVRSEFRRVIETQHLGLSLSESISRMVRYMPLQEVSFFSTVISVQ 91 (187)
Q Consensus 13 ~~~l~~~l~~l~~~l~aG~sl~~Al~~~a~~~~~-~l~~e~~~i~~~~~~G~~~~~al~~~~~~~~~~~~~~~~~~l~~~ 91 (187)
.+++..+.++++.++.+|.|+.+|+..++++.++ ..++.+..+..+++.|.|+++|++.+.+-+ ..+...++.+
T Consensus 57 ~~~l~~f~~qLa~Ll~aG~pL~~aL~~l~~q~~~~~~~~~l~~i~~~l~~G~sls~al~~~~~~F-----~~~~~~~v~~ 131 (397)
T COG1459 57 KKDLALFTRQLATLLKAGLPLYEALEILADQAPNPKLKQVLTSILEELESGKSLSEALAQLPGVF-----PDLYVAMVAA 131 (397)
T ss_pred HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHCCCCC-----CHHHHHHHHH
T ss_conf 89999999999999977880999999998618887899999999999977883899997676658-----9799999999
Q ss_pred HHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHH
Q ss_conf 74257468999999999999999999999986434567799999999999999997878999995
Q gi|254780722|r 92 SQLGGNLSEALANLSRILRDRKNMKAKVQALSMEAKASAWIIGSLPFCVSTLVYFTSPGYMNVLI 156 (187)
Q Consensus 92 ~~~gg~~~~~L~~la~~~~~~~~~~~~~~~~~a~~~~~~~i~~~~~~~~~~~l~~~~~~~~~~~~ 156 (187)
+|.+|++.++|++++++++++.++++|++.+..|| ..++++...++++++.++.|.+...+-
T Consensus 132 gE~~G~L~~~l~~la~y~e~~~~lr~Ki~~Al~YP---~vll~v~~~v~~~Ll~~VvP~f~~if~ 193 (397)
T COG1459 132 GERSGNLDEVLQRLAKYLEKQAALRKKIKSALIYP---LVLLVVALVVVLFLLIFVVPQFAEIFE 193 (397)
T ss_pred HHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHCCHHHHHH
T ss_conf 97148779999999999999999999999998732---999999999999999987136899986
No 5
>PRK06041 flagellar assembly protein J; Reviewed
Probab=99.58 E-value=4.4e-12 Score=93.57 Aligned_cols=147 Identities=14% Similarity=0.132 Sum_probs=121.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH--CCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHCCCH
Q ss_conf 69999999999999999999999995699989999999992--48428999999999863-0388889999977534873
Q gi|254780722|r 3 HLIKKRTAKFLDDFPNALDIIVRSVRAGLPVSDAVAVIVGQ--SSDPVRSEFRRVIETQH-LGLSLSESISRMVRYMPLQ 79 (187)
Q Consensus 3 ~~~~~R~~~~~~~l~~~l~~l~~~l~aG~sl~~Al~~~a~~--~~~~l~~e~~~i~~~~~-~G~~~~~al~~~~~~~~~~ 79 (187)
....+|+.++++++|.++..|+....++.+..+-++.++++ ..|++++|++++...++ +|.++.+|++..++|+|++
T Consensus 63 ~~~~~~~~~I~~~m~~~iT~M~~LSt~~~~r~~if~~Ls~~~ey~G~la~e~~kI~~Lv~~w~~sl~eA~r~~A~rtpS~ 142 (547)
T PRK06041 63 IKLDSKRLKINNDLLFFITYMAVLSTADLDRDEIFRYLSEEKEYLGQLSKEFKKIYVLVKKWNYSLAEACRFLAKRTPSD 142 (547)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCH
T ss_conf 88754899888630899999999982699989999998843122068899999999999986816899999997629977
Q ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH
Q ss_conf 4799999999987425746899999999999999999999998643456779999999999999999787
Q gi|254780722|r 80 EVSFFSTVISVQSQLGGNLSEALANLSRILRDRKNMKAKVQALSMEAKASAWIIGSLPFCVSTLVYFTSP 149 (187)
Q Consensus 80 ~~~~~~~~l~~~~~~gg~~~~~L~~la~~~~~~~~~~~~~~~~~a~~~~~~~i~~~~~~~~~~~l~~~~~ 149 (187)
.+++|..-+..+.++|+++.+.|++-.+...++.+...|..-+....-.++|+....-..++.+...+.|
T Consensus 143 ~~~dFLdRlA~si~SG~~~~eFL~~Eq~~~~~~y~~~ye~~LesLd~~~e~YvSll~S~~f~~v~~~I~~ 212 (547)
T PRK06041 143 RLSDFLDRLAYSIDSGEPLKEFLKQEQDTVMEIYKTFYERALESLDKWKDAYVSLLLSVTFVATFIIISP 212 (547)
T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 9999999999888669987999999999999999999999999999999999999999999999999999
No 6
>COG2064 TadC Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=99.56 E-value=1.9e-12 Score=95.74 Aligned_cols=129 Identities=23% Similarity=0.342 Sum_probs=113.9
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCC--HHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCH
Q ss_conf 169999999999999999999999995699989999999992484--289999999998630388889999977534873
Q gi|254780722|r 2 KHLIKKRTAKFLDDFPNALDIIVRSVRAGLPVSDAVAVIVGQSSD--PVRSEFRRVIETQHLGLSLSESISRMVRYMPLQ 79 (187)
Q Consensus 2 ~~~~~~R~~~~~~~l~~~l~~l~~~l~aG~sl~~Al~~~a~~~~~--~l~~e~~~i~~~~~~G~~~~~al~~~~~~~~~~ 79 (187)
+...++|.+++++++|++++.++.+.++|.++.+|++.++++.++ ++++++..+..++..|.+..+++..++.+.+..
T Consensus 161 ~~~~~~r~~~i~~~~p~~l~~~~~~~~~G~~l~~al~~va~~~~~~~~l~~~~~~~~~~~~~g~~~~~al~~~~~~~~~~ 240 (320)
T COG2064 161 SLALKKRLKEIARELPDFLRLMAVCLEAGLSLADALKRVADELYGQRILAEELARTTAELSLGLSIEEALIRLAVRLGSD 240 (320)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH
T ss_conf 99998621358998899999999998828789999999987332338899999999999876997799999998744349
Q ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Q ss_conf 479999999998742574689999999999999999999-999864345677
Q gi|254780722|r 80 EVSFFSTVISVQSQLGGNLSEALANLSRILRDRKNMKAK-VQALSMEAKASA 130 (187)
Q Consensus 80 ~~~~~~~~l~~~~~~gg~~~~~L~~la~~~~~~~~~~~~-~~~~~a~~~~~~ 130 (187)
+.+.++..+.++.+.|+++.+.+...+..+....+++.. .+.......+..
T Consensus 241 ~~~~~~~~l~~~~~~g~~l~~~l~~~~~~~~~~~~l~~~~~~~~~i~~~~~~ 292 (320)
T COG2064 241 EVKRVVSLLTQALESGGSLADALRVLSMELSRETRLKLGEIRAGKIGVGILL 292 (320)
T ss_pred HHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 9999999999998833209999999999999998899998899988879999
No 7
>pfam00482 GSPII_F Bacterial type II secretion system protein F domain. The original family covered both the regions found by the current model. The splitting of the family has allowed the related FlaJ_arch (archaeal FlaJ family) to be merged with it. Proteins with this domain in form a platform for the type II secretion machinery, as well as the type IV pili and the archaeal flagellae. This domain seems to show some similarity to pfam00664, but this may just be due to similarities in the TM helices (personal obs: C Yeats).
Probab=99.47 E-value=2.7e-12 Score=94.84 Aligned_cols=122 Identities=25% Similarity=0.414 Sum_probs=109.0
Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHC-CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCC
Q ss_conf 99999999956999899999999924-84289999999998630388889999977534873479999999998742574
Q gi|254780722|r 19 ALDIIVRSVRAGLPVSDAVAVIVGQS-SDPVRSEFRRVIETQHLGLSLSESISRMVRYMPLQEVSFFSTVISVQSQLGGN 97 (187)
Q Consensus 19 ~l~~l~~~l~aG~sl~~Al~~~a~~~-~~~l~~e~~~i~~~~~~G~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~gg~ 97 (187)
|++.++.++++|.++.+|++.+++.. .++++++++.+.++++.|.++.+++. +++.+.++.++..+..+.+.||+
T Consensus 1 fl~~l~~~~~sG~~l~~al~~~~~~~~~~~l~~~~~~i~~~l~~G~~~~~al~----~~~~~~~~~~~~~~~~~~~~gg~ 76 (125)
T pfam00482 1 FLRQLATLLRAGLPLLEALEILAEEAENGPLREELKRIRERLREGGSLSEALA----RTPLSEFPPLLVALIAAGESGGN 76 (125)
T ss_pred CHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCHHHHHHH----HCCCCCCCHHHHHHHHHHHHCCC
T ss_conf 98989999986998999999998664898999999999999980860999997----66711299999999999987585
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 68999999999999999999999986434567799999999999999
Q gi|254780722|r 98 LSEALANLSRILRDRKNMKAKVQALSMEAKASAWIIGSLPFCVSTLV 144 (187)
Q Consensus 98 ~~~~L~~la~~~~~~~~~~~~~~~~~a~~~~~~~i~~~~~~~~~~~l 144 (187)
+.+.|..+++.++++.+.+.+....+.+|.+..++..+++++++.++
T Consensus 77 l~~~l~~~a~~~~~~~~~~~~~~~~~~~~~~~i~~~~~i~~~~~~~~ 123 (125)
T pfam00482 77 LAEVLERLADYLEERRELRRKILAALLYPLILLVVALLVLLILLAIL 123 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEE
T ss_conf 99999999999999999999999999989999999999999998300
No 8
>PRK06041 flagellar assembly protein J; Reviewed
Probab=99.47 E-value=1.5e-10 Score=84.04 Aligned_cols=121 Identities=15% Similarity=0.165 Sum_probs=110.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHH
Q ss_conf 699999999999999999999999956-9998999999999248428999999999863038888999997753487347
Q gi|254780722|r 3 HLIKKRTAKFLDDFPNALDIIVRSVRA-GLPVSDAVAVIVGQSSDPVRSEFRRVIETQHLGLSLSESISRMVRYMPLQEV 81 (187)
Q Consensus 3 ~~~~~R~~~~~~~l~~~l~~l~~~l~a-G~sl~~Al~~~a~~~~~~l~~e~~~i~~~~~~G~~~~~al~~~~~~~~~~~~ 81 (187)
++.++|.++.++.+|+|++.+.+..++ |.++.++++.+.+...|+++++.+++.++++.|.+.+.|++.|...++|.-.
T Consensus 312 ~~eE~~I~rrD~~fP~FIRsLGss~~a~G~t~~~aL~~L~~~dfG~L~~~I~~LykRL~~~id~~~aW~~F~~etgS~LI 391 (547)
T PRK06041 312 RRDEGNIIRRDENFPAFIRSLGSSVSAKGGTLTDALKYLDKKDFGPLTPDINELYKRLNLRLDSKKAWRKFIADTGSYLI 391 (547)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHCCCCHHH
T ss_conf 99998888766212899999877744247769999999655246556688999999987589878899988754354999
Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 999999999874257468999999999999999999999986
Q gi|254780722|r 82 SFFSTVISVQSQLGGNLSEALANLSRILRDRKNMKAKVQALS 123 (187)
Q Consensus 82 ~~~~~~l~~~~~~gg~~~~~L~~la~~~~~~~~~~~~~~~~~ 123 (187)
+.+......+.+.||+..++-+-.++..++-..+|+|.....
T Consensus 392 ~~fs~if~~~~~lGG~p~~vgeiiS~n~~~iv~LR~kR~q~~ 433 (547)
T PRK06041 392 QKFSEIFRDAVELGGDPDVVGEIISSNFLEIVLLRMKRYQSV 433 (547)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999999998499989999999888999999999999999
No 9
>COG1955 FlaJ Archaeal flagella assembly protein J [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=99.19 E-value=2.4e-08 Score=70.51 Aligned_cols=119 Identities=18% Similarity=0.242 Sum_probs=100.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH-CCCHHHHHHHHHHHHH-HCCCCHHHHHHHHHHHCCCHHHH
Q ss_conf 999999999999999999999995699989999999992-4842899999999986-30388889999977534873479
Q gi|254780722|r 5 IKKRTAKFLDDFPNALDIIVRSVRAGLPVSDAVAVIVGQ-SSDPVRSEFRRVIETQ-HLGLSLSESISRMVRYMPLQEVS 82 (187)
Q Consensus 5 ~~~R~~~~~~~l~~~l~~l~~~l~aG~sl~~Al~~~a~~-~~~~l~~e~~~i~~~~-~~G~~~~~al~~~~~~~~~~~~~ 82 (187)
.++++.+++++++.++-.|+....++.+..+.+..++++ .+||.++||+++..-. ++|.++.+|.+-.++++|++.++
T Consensus 43 ~d~k~~~in~~l~f~lt~m~~LsTs~i~r~~If~~ls~~~eyg~~~~~f~kI~~L~~~Wgy~~a~Ac~~iA~k~~~~~l~ 122 (527)
T COG1955 43 RDSKKNRINSDLLFFLTYMASLSTSDIPRDDIFRILSRKEEYGPLRKEFRKIYNLVDKWGYSLAEACRFIAKKTPSEILA 122 (527)
T ss_pred HHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCHHHHH
T ss_conf 26777521312699999999996069988999999654152124899999999999986845689999998609679999
Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 99999999874257468999999999999999999999986
Q gi|254780722|r 83 FFSTVISVQSQLGGNLSEALANLSRILRDRKNMKAKVQALS 123 (187)
Q Consensus 83 ~~~~~l~~~~~~gg~~~~~L~~la~~~~~~~~~~~~~~~~~ 123 (187)
.|..-+..+..+|-++.|.|.+-.+...++.+...+..-..
T Consensus 123 dfL~Rla~ai~sGe~~~eFl~~E~~~~~~~y~~~Yer~LeS 163 (527)
T COG1955 123 DFLDRLAYALDSGEDLKEFLEREQDTTMDEYETEYERALES 163 (527)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 99999987742587379999999999999999999999988
No 10
>PRK10573 type IV pilin biogenesis protein; Provisional
Probab=99.15 E-value=7.4e-09 Score=73.65 Aligned_cols=111 Identities=14% Similarity=0.130 Sum_probs=96.3
Q ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCC-HHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Q ss_conf 999999999999995699989999999992484-2899999999986303888899999775348734799999999987
Q gi|254780722|r 14 DDFPNALDIIVRSVRAGLPVSDAVAVIVGQSSD-PVRSEFRRVIETQHLGLSLSESISRMVRYMPLQEVSFFSTVISVQS 92 (187)
Q Consensus 14 ~~l~~~l~~l~~~l~aG~sl~~Al~~~a~~~~~-~l~~e~~~i~~~~~~G~~~~~al~~~~~~~~~~~~~~~~~~l~~~~ 92 (187)
..+..|.+.++.++++|.++.+|++...+...+ .+++.++.+..+++.|.++++++.+ ++.|...+..++..+
T Consensus 261 ~~~~rf~~~L~~ll~sGv~l~~AL~~~~~~~~n~~~~~~l~~~~~~v~~G~sls~al~~------~~~fp~~~~~mi~vG 334 (397)
T PRK10573 261 QKLSQIFTILALTQSAGIPFLQGLESAAESIRCPYWQQALTQIQHQISQGHPIWLALKN------HGEFSPLCLQLVRTG 334 (397)
T ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCHHHHHHH------CCCCCHHHHHHHHHH
T ss_conf 99999999999998689979999999998758999999999999998769328999873------799989999999998
Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 42574689999999999999999999999864345677
Q gi|254780722|r 93 QLGGNLSEALANLSRILRDRKNMKAKVQALSMEAKASA 130 (187)
Q Consensus 93 ~~gg~~~~~L~~la~~~~~~~~~~~~~~~~~a~~~~~~ 130 (187)
|.+|++.+.|.++++.++++.+.+-+.-....+|.+..
T Consensus 335 EesG~L~~~L~~~a~~ye~~~~~~i~~l~~llEPili~ 372 (397)
T PRK10573 335 EESGSLDLMLENLAHHHRQQTLALADNLAALLEPLLLI 372 (397)
T ss_pred HHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 65264999999999999999999999999999899999
No 11
>TIGR02120 GspF general secretion pathway protein F; InterPro: IPR011850 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. GspF nearly always clusters with other GSP subunits. However, some genes from Xylella and Xanthomonas strains are excluded from this entry due to excessive divergence.; GO: 0008565 protein transporter activity, 0015628 protein secretion by the type II secretion system, 0015627 type II protein secretion system complex.
Probab=99.13 E-value=3.8e-09 Score=75.44 Aligned_cols=126 Identities=11% Similarity=0.080 Sum_probs=108.0
Q ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHCCC-HHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHC
Q ss_conf 9999999999995699989999999992484-289999999998630388889999977534873479999999998742
Q gi|254780722|r 16 FPNALDIIVRSVRAGLPVSDAVAVIVGQSSD-PVRSEFRRVIETQHLGLSLSESISRMVRYMPLQEVSFFSTVISVQSQL 94 (187)
Q Consensus 16 l~~~l~~l~~~l~aG~sl~~Al~~~a~~~~~-~l~~e~~~i~~~~~~G~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~ 94 (187)
..-|.+.++.+.+||.|+-+|++.+.+...| +++..+++...+++.|.+++.||+ .++.|..+...|+.++|.
T Consensus 281 ~ARfArTL~iL~~SGVPlL~AL~~a~~~~~N~~lr~~v~~a~~~VREG~sLs~AL~------~~~~FPP~l~hmiasGE~ 354 (414)
T TIGR02120 281 TARFARTLSILLSSGVPLLRALQIARETLTNRALRAAVEDAAARVREGGSLSRALR------ASKLFPPLLVHMIASGEK 354 (414)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHH------CCCCCHHHHHHHHHHHCC
T ss_conf 99999999999860189999999999998759999999999997225547898862------156643799899877247
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHH
Q ss_conf 57468999999999999999999999986434567799999999999999997878
Q gi|254780722|r 95 GGNLSEALANLSRILRDRKNMKAKVQALSMEAKASAWIIGSLPFCVSTLVYFTSPG 150 (187)
Q Consensus 95 gg~~~~~L~~la~~~~~~~~~~~~~~~~~a~~~~~~~i~~~~~~~~~~~l~~~~~~ 150 (187)
+|++.+.|.+.||+.|.+.+.+-..-....+| ..|+++-.++.++++.++-|=
T Consensus 355 sG~L~~ML~RAAd~~ere~e~~~~~~~~LLEP---lLIv~MGgvVl~IVlAvLlPI 407 (414)
T TIGR02120 355 SGQLETMLERAADNQEREFERRVATLLALLEP---LLIVVMGGVVLFIVLAVLLPI 407 (414)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH
T ss_conf 89807789998638899999999999998879---999999999999999998689
No 12
>COG1955 FlaJ Archaeal flagella assembly protein J [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=99.00 E-value=1.5e-07 Score=65.62 Aligned_cols=119 Identities=13% Similarity=0.180 Sum_probs=107.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHH
Q ss_conf 69999999999999999999999995-69998999999999248428999999999863038888999997753487347
Q gi|254780722|r 3 HLIKKRTAKFLDDFPNALDIIVRSVR-AGLPVSDAVAVIVGQSSDPVRSEFRRVIETQHLGLSLSESISRMVRYMPLQEV 81 (187)
Q Consensus 3 ~~~~~R~~~~~~~l~~~l~~l~~~l~-aG~sl~~Al~~~a~~~~~~l~~e~~~i~~~~~~G~~~~~al~~~~~~~~~~~~ 81 (187)
+..+++-++.++.+|.|+|.+....+ .|.++.+|++.+-++..|++++..++..+++..|.+...|.+.|...++|.-.
T Consensus 290 ~~~E~kI~~rDe~F~~FIRSLgss~sa~G~~l~~aLe~l~~~nfG~L~~~I~~LYkRL~~gids~~aW~~F~aeTGS~LI 369 (527)
T COG1955 290 RKEERKINRRDEAFPSFIRSLGSSLSAVGNTLVEALEALDRHNFGILTEDIRRLYKRLAMGIDSNKAWRLFSAETGSYLI 369 (527)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHH
T ss_conf 58877775377667999998612342202459999998634224003177999999987168988899885047466999
Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 9999999998742574689999999999999999999999
Q gi|254780722|r 82 SFFSTVISVQSQLGGNLSEALANLSRILRDRKNMKAKVQA 121 (187)
Q Consensus 82 ~~~~~~l~~~~~~gg~~~~~L~~la~~~~~~~~~~~~~~~ 121 (187)
..+......+.+-|||....=+-.++..++-..+|++...
T Consensus 370 ~~~S~if~d~i~lGGdp~~~GeiIS~n~~~iv~LR~kR~q 409 (527)
T COG1955 370 SKFSEIFTDAIDLGGDPDVVGEIISENFLEIVLLRKKREQ 409 (527)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 9999999999971898789999987727999999999987
No 13
>COG1459 PulF Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=98.99 E-value=1e-07 Score=66.64 Aligned_cols=112 Identities=14% Similarity=0.206 Sum_probs=96.4
Q ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCH-HHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Q ss_conf 9999999999999956999899999999924842-899999999986303888899999775348734799999999987
Q gi|254780722|r 14 DDFPNALDIIVRSVRAGLPVSDAVAVIVGQSSDP-VRSEFRRVIETQHLGLSLSESISRMVRYMPLQEVSFFSTVISVQS 92 (187)
Q Consensus 14 ~~l~~~l~~l~~~l~aG~sl~~Al~~~a~~~~~~-l~~e~~~i~~~~~~G~~~~~al~~~~~~~~~~~~~~~~~~l~~~~ 92 (187)
-....|.+.++.++++|.|+.+|+...++...++ .+...+.+..+++.|.+++.|+++ .+.|...+..++..+
T Consensus 261 ~~~arf~rtl~~Ll~sGvpl~~aL~i~~~~~~~~~~~~~~~~~~~~v~~G~sl~~al~~------~~~Fp~~~~~mi~~G 334 (397)
T COG1459 261 YALARFARTLGTLLSSGVPLLEALDIAAETVSNAFLRQALEEIIQEVREGGSLSQALEK------TGLFPPLLLQMIAVG 334 (397)
T ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCHHHHHHHHH------CCCCHHHHHHHHHHH
T ss_conf 99999999999999789839999999876237499999999999999857569999873------689819999999983
Q ss_pred HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 425746899999999999999999999998643456779
Q gi|254780722|r 93 QLGGNLSEALANLSRILRDRKNMKAKVQALSMEAKASAW 131 (187)
Q Consensus 93 ~~gg~~~~~L~~la~~~~~~~~~~~~~~~~~a~~~~~~~ 131 (187)
|..|++.+.|.+.|+.++++-+.+-+.-....+|-+..+
T Consensus 335 EesG~L~~mL~~~A~~~~~~~~~~i~~l~~llEP~l~i~ 373 (397)
T COG1459 335 EESGKLDEMLEKVADFYEEEVERKIDKLTSLLEPLLIIF 373 (397)
T ss_pred HHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 431668999999999999999999999999998999999
No 14
>pfam09548 Spore_III_AB Stage III sporulation protein AB (spore_III_AB). SpoIIIAB represents the stage III sporulation protein AB, which is encoded in a spore formation operon: spoIIIAABCDEFGH that is under sigma G regulation. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.
Probab=97.16 E-value=0.018 Score=34.18 Aligned_cols=71 Identities=23% Similarity=0.383 Sum_probs=55.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHC
Q ss_conf 999999999999999999999995-69998999999999248428999999999863--0388889999977534
Q gi|254780722|r 5 IKKRTAKFLDDFPNALDIIVRSVR-AGLPVSDAVAVIVGQSSDPVRSEFRRVIETQH--LGLSLSESISRMVRYM 76 (187)
Q Consensus 5 ~~~R~~~~~~~l~~~l~~l~~~l~-aG~sl~~Al~~~a~~~~~~l~~e~~~i~~~~~--~G~~~~~al~~~~~~~ 76 (187)
.++|.+.+ +++-.++..+..... +..|+++|+..+++..++|++.-|..+..++. .|.|+.+++++-.+..
T Consensus 23 ~~~R~~~L-~~l~~~l~~L~~EI~Y~~tpL~eal~~i~~~~~~~~~~~f~~~a~~L~~~~g~s~~e~w~~~~~~~ 96 (170)
T pfam09548 23 YKERPKQL-RELINALQSLEAEISYGATPLPEALERIASKSEKPVSELFERAAERLEKNEGITAYEAWEEALEEL 96 (170)
T ss_pred HHHHHHHH-HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
T ss_conf 99999999-999999999999998818989999999987557439999999999886178998999999999987
No 15
>PRK08307 stage III sporulation protein SpoAB; Provisional
Probab=96.62 E-value=0.052 Score=31.40 Aligned_cols=71 Identities=18% Similarity=0.286 Sum_probs=55.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHC
Q ss_conf 9999999999999999999999956-99989999999992484289999999998630--388889999977534
Q gi|254780722|r 5 IKKRTAKFLDDFPNALDIIVRSVRA-GLPVSDAVAVIVGQSSDPVRSEFRRVIETQHL--GLSLSESISRMVRYM 76 (187)
Q Consensus 5 ~~~R~~~~~~~l~~~l~~l~~~l~a-G~sl~~Al~~~a~~~~~~l~~e~~~i~~~~~~--G~~~~~al~~~~~~~ 76 (187)
.++|.+++ +++-.++..+.....- ..|+++|+..+++..++|+++-|..+..++.. |.+..+++++-.+..
T Consensus 25 ~~~R~~qL-~~l~~~l~~L~~EI~Y~~tpL~eal~~i~~~~~~~~~~~f~~~a~~L~~~~g~s~~e~W~~~~~~~ 98 (172)
T PRK08307 25 YKERPRQL-RELKAALQSLEAEIMYGHTPLPEALENIAKKSPKPISTLFQRFAERLEKGEVETVYEAWEKSLKEN 98 (172)
T ss_pred HHHHHHHH-HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
T ss_conf 99999999-999999999999998808989999999987557339999999999987378998999999999987
No 16
>TIGR02833 spore_III_AB stage III sporulation protein AB; InterPro: IPR014198 This entry represents the stage III sporulation protein AB, which is encoded in a spore formation operon: spoIIIAABCDEFGH that is under sigma G regulation . A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species..
Probab=96.61 E-value=0.053 Score=31.34 Aligned_cols=70 Identities=24% Similarity=0.358 Sum_probs=55.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHH
Q ss_conf 99999999999999999999999569-9989999999992484289999999998630--38888999997753
Q gi|254780722|r 5 IKKRTAKFLDDFPNALDIIVRSVRAG-LPVSDAVAVIVGQSSDPVRSEFRRVIETQHL--GLSLSESISRMVRY 75 (187)
Q Consensus 5 ~~~R~~~~~~~l~~~l~~l~~~l~aG-~sl~~Al~~~a~~~~~~l~~e~~~i~~~~~~--G~~~~~al~~~~~~ 75 (187)
-++|.++ -+++-.++..+-+...-| -|+++|++.+|+..+.|++.-|..+..+++. |.++.+|+...-+.
T Consensus 23 ~~~R~~~-Lr~l~~AL~~L~~EI~Y~~TPL~ea~~~iA~~~~~pv~~lF~~~s~~L~~~~~~~v~~Aw~~~l~e 95 (170)
T TIGR02833 23 FKERPRQ-LRQLKNALQSLEAEIVYGHTPLPEAFKKIAKKSPKPVNKLFESASERLKEGEGETVYEAWKKALNE 95 (170)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHH
T ss_conf 9887999-999999999999730178764689999999741524899999999872268999988899999987
No 17
>PRK09546 zntB zinc transporter; Reviewed
Probab=92.62 E-value=0.73 Score=24.34 Aligned_cols=135 Identities=10% Similarity=-0.051 Sum_probs=60.3
Q ss_pred HHHHHHHHHHHHH----HCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHH---HHHHHHHHHHHHHHH
Q ss_conf 2899999999986----303888899999775348734799999999987425746899999---999999999999999
Q gi|254780722|r 47 PVRSEFRRVIETQ----HLGLSLSESISRMVRYMPLQEVSFFSTVISVQSQLGGNLSEALAN---LSRILRDRKNMKAKV 119 (187)
Q Consensus 47 ~l~~e~~~i~~~~----~~G~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~gg~~~~~L~~---la~~~~~~~~~~~~~ 119 (187)
|.+.++..+-+++ +.=.|..+++.++.+.-...--......+....+.=....+.+.. .+..+.++.......
T Consensus 182 ~~r~~L~~lRR~~i~LRR~l~Pqr~~l~~L~~~~~~~l~~~~~~~lrd~~d~l~r~~e~ld~~rer~~~l~d~~~~~~se 261 (327)
T PRK09546 182 PPRGFLALLRKQLIVMRRYMAPQRDVYARLASERLPWMSDDDRRRMQDIADRLGRGLDDLDACIARTGVMADEIAQVMAE 261 (327)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 11448999999999999988779999999972687558967889999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 998643456779999999999999999787899999508008999999999999999999998
Q gi|254780722|r 120 QALSMEAKASAWIIGSLPFCVSTLVYFTSPGYMNVLINDPRGHMLLGVAAAFMLIGIMVMRLM 182 (187)
Q Consensus 120 ~~~~a~~~~~~~i~~~~~~~~~~~l~~~~~~~~~~~~~~~~G~~~l~~~~~~~~~g~~~i~~~ 182 (187)
+........++.-..++|..++.-++.+|-+.+ +..+.+.|-.++....+..+++.+|..|-
T Consensus 262 ~~N~~~~~Lsvia~IFLPltfltGl~GMN~~gm-Pg~~~~~gf~~~~~~m~~~~~~~~~~frr 323 (327)
T PRK09546 262 ALNRRTYTMSLMAMVFLPSTFLTGLFGVNLGGI-PGGGWPFGFSIFCILLVVLIGGVAWWLKR 323 (327)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999999999999987999872214677999-88788607999999999999999999998
No 18
>COG0598 CorA Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]
Probab=89.37 E-value=1.5 Score=22.39 Aligned_cols=119 Identities=13% Similarity=-0.060 Sum_probs=62.6
Q ss_pred CCCHHHHHHHHHHHCC---CHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 3888899999775348---7347999999999874257468999999999999999999999986434567799999999
Q gi|254780722|r 62 GLSLSESISRMVRYMP---LQEVSFFSTVISVQSQLGGNLSEALANLSRILRDRKNMKAKVQALSMEAKASAWIIGSLPF 138 (187)
Q Consensus 62 G~~~~~al~~~~~~~~---~~~~~~~~~~l~~~~~~gg~~~~~L~~la~~~~~~~~~~~~~~~~~a~~~~~~~i~~~~~~ 138 (187)
=.+..+++..+.+... .++.+....-+.....+..+..+.+....+.+.+.....-..+.-......+..-+.++|.
T Consensus 196 l~~~~~~l~~l~~~~~~~~~~~~~~~l~dv~~~~~~~~~~~~~~~~~l~~l~d~~~s~is~~~N~imk~LTi~s~iflPp 275 (322)
T COG0598 196 LAPLRDVLLRLARRPLDWLSEEDREYLRDVLDHLTQLIEMLEALRERLSSLLDAYLSLINNNQNEIMKILTIVSTIFLPP 275 (322)
T ss_pred HHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 87799999999743732279889999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHCHHHHHHHHCCCHHHHHHHHHHHHHHHH-HHHHHH
Q ss_conf 9999999978789999950800899999999999999-999999
Q gi|254780722|r 139 CVSTLVYFTSPGYMNVLINDPRGHMLLGVAAAFMLIG-IMVMRL 181 (187)
Q Consensus 139 ~~~~~l~~~~~~~~~~~~~~~~G~~~l~~~~~~~~~g-~~~i~~ 181 (187)
.++.-++.||-.+ -+..+.+.|-++..+..++.+++ +||.+|
T Consensus 276 TlIagiyGMNf~~-mPel~~~~Gy~~~l~~m~~~~~~~~~~frr 318 (322)
T COG0598 276 TLITGFYGMNFKG-MPELDWPYGYPIALILMLLLALLLYLYFRR 318 (322)
T ss_pred HHHHHHCCCCCCC-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 9998221368899-988788258999999999999999999998
No 19
>pfam06840 DUF1241 Protein of unknown function (DUF1241). This family consists of several programmed cell death 10 protein (PDCD10 or TFAR15) sequences. The function of this family is unknown.
Probab=73.07 E-value=6.4 Score=18.49 Aligned_cols=97 Identities=15% Similarity=0.167 Sum_probs=66.5
Q ss_pred HHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHH--HHHHHHHHHHHCCCCHHHHHHH
Q ss_conf 95699989999999992484289999999998630388889999977534873479--9999999987425746899999
Q gi|254780722|r 27 VRAGLPVSDAVAVIVGQSSDPVRSEFRRVIETQHLGLSLSESISRMVRYMPLQEVS--FFSTVISVQSQLGGNLSEALAN 104 (187)
Q Consensus 27 l~aG~sl~~Al~~~a~~~~~~l~~e~~~i~~~~~~G~~~~~al~~~~~~~~~~~~~--~~~~~l~~~~~~gg~~~~~L~~ 104 (187)
..+..++..||..+-.+.+|-..+-+..+.++...+.++.+++.+++...+. ++. +--.-+..-.+....+..+|.+
T Consensus 29 ~~a~q~Lr~Af~kaE~~~PGf~~d~v~~il~~~~~~iN~~EslLR~a~~~~~-Ey~~~r~e~~f~eL~~kA~~LK~ILSr 107 (154)
T pfam06840 29 VDAAQKLRAAFTKAEKENPGFTYDLVKGILRKSDLEVNLNESLLRMAGTSTD-EYRLTRTEPEFQELNKKARALKTILSR 107 (154)
T ss_pred HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCCCHHHHHHHHCCCCHH-HHHHCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 8999999999999872189669999999998146776767999987258615-542126768899999999999999973
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q ss_conf 99999999999999999864
Q gi|254780722|r 105 LSRILRDRKNMKAKVQALSM 124 (187)
Q Consensus 105 la~~~~~~~~~~~~~~~~~a 124 (187)
+-+.+.++..+-.-++-...
T Consensus 108 IPDEi~DR~~FLeTIK~IAs 127 (154)
T pfam06840 108 IPDEINDRKAFLETIKDIAS 127 (154)
T ss_pred CCHHHHCHHHHHHHHHHHHH
T ss_conf 97876344889999999999
No 20
>COG5336 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=66.53 E-value=8.9 Score=17.62 Aligned_cols=25 Identities=12% Similarity=0.098 Sum_probs=12.9
Q ss_pred HHCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 950800899999999999999999999
Q gi|254780722|r 155 LINDPRGHMLLGVAAAFMLIGIMVMRL 181 (187)
Q Consensus 155 ~~~~~~G~~~l~~~~~~~~~g~~~i~~ 181 (187)
+-++|+|++++... -+..|+..++|
T Consensus 70 agTsPwglIv~lll--Gf~AG~lnv~R 94 (116)
T COG5336 70 AGTSPWGLIVFLLL--GFGAGVLNVLR 94 (116)
T ss_pred CCCCCHHHHHHHHH--HHHHHHHHHHH
T ss_conf 17886799999999--99899999999
No 21
>KOG4025 consensus
Probab=65.99 E-value=9.1 Score=17.55 Aligned_cols=101 Identities=14% Similarity=0.154 Sum_probs=65.3
Q ss_pred HHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHH--HHHHHHHHHHCCCCHHHH
Q ss_conf 999956999899999999924842899999999986303888899999775348734799--999999987425746899
Q gi|254780722|r 24 VRSVRAGLPVSDAVAVIVGQSSDPVRSEFRRVIETQHLGLSLSESISRMVRYMPLQEVSF--FSTVISVQSQLGGNLSEA 101 (187)
Q Consensus 24 ~~~l~aG~sl~~Al~~~a~~~~~~l~~e~~~i~~~~~~G~~~~~al~~~~~~~~~~~~~~--~~~~l~~~~~~gg~~~~~ 101 (187)
..-.+|..++..|+..+-+..+|-+.+-...++.+-+...++.+++.++....+..++.. .-.-.....+..-.+..+
T Consensus 29 R~d~~Aaq~LrtA~~k~Eq~nPgf~yD~~~~il~~~~l~VNl~Es~LRm~~~~d~ney~v~r~E~~fqeLn~ka~aLk~i 108 (207)
T KOG4025 29 RDDPRAAQALRTALTKCEQANPGFLYDFTKVILDDSELSVNLQESYLRMHDTSDTNEYIVSRYEQDFQELNKKAIALKRI 108 (207)
T ss_pred CCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCCHHHHHHCCCCCCHHHHHHHHHHHHHH
T ss_conf 24806899999999888613970899999999740010100679999761256445675408773479998999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 99999999999999999999864
Q gi|254780722|r 102 LANLSRILRDRKNMKAKVQALSM 124 (187)
Q Consensus 102 L~~la~~~~~~~~~~~~~~~~~a 124 (187)
|.+.-+.+.++..+-..++-..+
T Consensus 109 LSriPdEinDR~~FLeTIK~IAS 131 (207)
T KOG4025 109 LSRIPDEINDRHAFLETIKLIAS 131 (207)
T ss_pred HHHCCHHHHHHHHHHHHHHHHHH
T ss_conf 98686856169999999999999
No 22
>PRK11085 magnesium/nickel/cobalt transporter CorA; Provisional
Probab=61.88 E-value=11 Score=17.08 Aligned_cols=54 Identities=11% Similarity=-0.116 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 5677999999999999999978789999950800899999999999999999999
Q gi|254780722|r 127 KASAWIIGSLPFCVSTLVYFTSPGYMNVLINDPRGHMLLGVAAAFMLIGIMVMRL 181 (187)
Q Consensus 127 ~~~~~i~~~~~~~~~~~l~~~~~~~~~~~~~~~~G~~~l~~~~~~~~~g~~~i~~ 181 (187)
+.++.-+.++|..++.-++.||=+++ +-.+.+.|-++.....+..+++.+|..|
T Consensus 258 iltv~a~if~ppTlIagIYGMNF~~m-Pel~~~~gy~~~~~~m~~~~~~~~~~Fk 311 (316)
T PRK11085 258 IFSVVSVVFLPPTLVASSYGMNFEFM-PELKWSFGYPGAIILMILAGLAPYLYFK 311 (316)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCC-CCCCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 99999999986999982513687878-5547751599999999999999999998
No 23
>pfam01544 CorA CorA-like Mg2+ transporter protein. The CorA transport system is the primary Mg2+ influx system of Salmonella typhimurium and Escherichia coli. CorA is virtually ubiquitous in the Bacteria and Archaea. There are also eukaryotic relatives of this protein. The family includes the MRS2 protein from yeast, which is thought to be an RNA splicing protein. However its membership of this family suggests that its effect on splicing is due to altered magnesium levels in the cell.
Probab=49.22 E-value=18 Score=15.80 Aligned_cols=37 Identities=19% Similarity=0.025 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHCHHHHHHHHCCCHHHHH
Q ss_conf 56779999999999999999787899999508008999
Q gi|254780722|r 127 KASAWIIGSLPFCVSTLVYFTSPGYMNVLINDPRGHML 164 (187)
Q Consensus 127 ~~~~~i~~~~~~~~~~~l~~~~~~~~~~~~~~~~G~~~ 164 (187)
+.++.-+.++|+.++.-++.+|-.++ +..+.+.|...
T Consensus 235 ~LTiis~iflP~tlI~GiyGMNf~~m-P~l~~~~gy~~ 271 (291)
T pfam01544 235 VLTVVSAIFLPLTLITGIYGMNFKGM-PELEWPYGYPF 271 (291)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCC-CCCCCCCHHHH
T ss_conf 99999999999999986630588999-88899744899
No 24
>pfam00745 GlutR_dimer Glutamyl-tRNAGlu reductase, dimerization domain.
Probab=47.23 E-value=19 Score=15.61 Aligned_cols=90 Identities=14% Similarity=0.237 Sum_probs=61.3
Q ss_pred HHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHH
Q ss_conf 99999999999999999569998999999999248428999999999863038888999997753487347999999999
Q gi|254780722|r 11 KFLDDFPNALDIIVRSVRAGLPVSDAVAVIVGQSSDPVRSEFRRVIETQHLGLSLSESISRMVRYMPLQEVSFFSTVISV 90 (187)
Q Consensus 11 ~~~~~l~~~l~~l~~~l~aG~sl~~Al~~~a~~~~~~l~~e~~~i~~~~~~G~~~~~al~~~~~~~~~~~~~~~~~~l~~ 90 (187)
-+++++..|..-+.. ......+...-+....--..|+.+..+....|.+..+++..+..+.-..-++.....+..
T Consensus 6 II~ee~~~f~~w~~~-----~~~~p~I~~lr~~~e~i~~~El~ka~~~l~~~~~~~~~i~~~~~~l~nKllh~P~~~Lk~ 80 (101)
T pfam00745 6 IIEEEVEEFLEWLKS-----LAVVPTIRALREKAEEIREEELERALKKLDLGEDPEEVLEKLARSLTNKLLHAPTVALRE 80 (101)
T ss_pred HHHHHHHHHHHHHHH-----CCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999999999987-----645389999999999999999999987437985289999999999999987889999999
Q ss_pred HHHCCCCHHHHHHHHH
Q ss_conf 8742574689999999
Q gi|254780722|r 91 QSQLGGNLSEALANLS 106 (187)
Q Consensus 91 ~~~~gg~~~~~L~~la 106 (187)
+...|.+ .+.+..+.
T Consensus 81 ~a~~~~~-~~~i~~~~ 95 (101)
T pfam00745 81 AAEEGDG-DELLDALR 95 (101)
T ss_pred HHHCCCH-HHHHHHHH
T ss_conf 8868879-99999999
No 25
>PRK10862 SoxR reducing system protein RseC; Provisional
Probab=46.87 E-value=19 Score=15.57 Aligned_cols=49 Identities=16% Similarity=0.011 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf 7999999999999999978789999950800899999999999999999999812
Q gi|254780722|r 130 AWIIGSLPFCVSTLVYFTSPGYMNVLINDPRGHMLLGVAAAFMLIGIMVMRLMIN 184 (187)
Q Consensus 130 ~~i~~~~~~~~~~~l~~~~~~~~~~~~~~~~G~~~l~~~~~~~~~g~~~i~~~~~ 184 (187)
++++..+|++.+++...+ ...++++- ...+..++.....|++++|+.++
T Consensus 78 a~lvYllPLl~l~~ga~l----~~~l~~se--l~~il~a~~G~~~gf~~~R~~s~ 126 (158)
T PRK10862 78 ALLVYMSPLVGLFLGAAL----FQLLFGSD--LAALCGAVLGGVGGFLLARGYSR 126 (158)
T ss_pred HHHHHHHHHHHHHHHHHH----HHHHCCCC--HHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999999999999999----99970153--99999999999999999999999
No 26
>TIGR01852 lipid_A_lpxA acyl-[acyl-carrier-protein]--UDP-N-acetylglucosamine O-acyltransferase; InterPro: IPR010137 This entry describes LpxA, an enzyme for the biosynthesis of lipid A, a component of lipopolysaccharide (LPS) in the outer membrane outer leaflet of most Gram-negative bacteria. Some differences are found between lipid A of different species, but this protein represents the first step (from UDP-N-acetyl-D-glucosamine) and appears to be conserved in function. Proteins from this family contain many copies of the bacterial transferase hexapeptide repeat.; GO: 0008780 acyl-[acyl-carrier-protein]-UDP-N-acetylglucosamine O-acyltransferase activity, 0008610 lipid biosynthetic process.
Probab=46.82 E-value=19 Score=15.57 Aligned_cols=39 Identities=23% Similarity=0.339 Sum_probs=22.0
Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHH-CCC-HHHHHHHHHHHH
Q ss_conf 999999995699989999999992-484-289999999998
Q gi|254780722|r 20 LDIIVRSVRAGLPVSDAVAVIVGQ-SSD-PVRSEFRRVIET 58 (187)
Q Consensus 20 l~~l~~~l~aG~sl~~Al~~~a~~-~~~-~l~~e~~~i~~~ 58 (187)
-+..-.+.+++.++.+|++.++++ ..+ |--++|-.+.++
T Consensus 210 ~~ayr~lfr~~~~~~~~~~~v~e~P~~~~~~v~~~~~FI~~ 250 (257)
T TIGR01852 210 KKAYRLLFRSGLPLQEALQQVAEEPYEDNPEVKEIVDFIRE 250 (257)
T ss_pred HHHHHHHHCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHCC
T ss_conf 99988761799898999999983513377579999998607
No 27
>pfam11241 DUF3043 Protein of unknown function (DUF3043). Some members in this family of proteins with unknown function are annotated as membrane proteins. This cannot be confirmed.
Probab=46.41 E-value=19 Score=15.53 Aligned_cols=20 Identities=20% Similarity=0.282 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHHC
Q ss_conf 99999999999999999812
Q gi|254780722|r 165 LGVAAAFMLIGIMVMRLMIN 184 (187)
Q Consensus 165 l~~~~~~~~~g~~~i~~~~~ 184 (187)
+++.++..+=|+++.+++-|
T Consensus 108 ~~~~~~~viD~~~l~r~vkk 127 (168)
T pfam11241 108 LVLILVMVIDGILLGRRVKR 127 (168)
T ss_pred HHHHHHHHHHHHHHHHHHHH
T ss_conf 99999999999999999999
No 28
>pfam12169 DNA_pol3_gamma3 DNA polymerase III subunits gamma and tau domain III. This domain family is found in bacteria, and is approximately 110 amino acids in length. The family is found in association with pfam00004. Domains I-III are shared between the tau and the gamma subunits, while most of the DnaB-binding Domain IV and all of the alpha-interacting Domain V are unique to tau.
Probab=43.43 E-value=22 Score=15.24 Aligned_cols=30 Identities=3% Similarity=0.063 Sum_probs=14.8
Q ss_pred CHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Q ss_conf 428999999999863038888999997753
Q gi|254780722|r 46 DPVRSEFRRVIETQHLGLSLSESISRMVRY 75 (187)
Q Consensus 46 ~~l~~e~~~i~~~~~~G~~~~~al~~~~~~ 75 (187)
+..++.+..+..-.+.|.++..-++++.+.
T Consensus 28 ~d~~~~l~~l~~l~~~G~d~~~~l~~L~~~ 57 (143)
T pfam12169 28 GDAAAALAEFRDQYAAGADPVVVLRDLLEL 57 (143)
T ss_pred CCHHHHHHHHHHHHHHCCCHHHHHHHHHHH
T ss_conf 899999999999998798999999999999
No 29
>pfam03564 DUF1759 Protein of unknown function (DUF1759). This is a family of proteins of unknown function.
Probab=42.01 E-value=23 Score=15.11 Aligned_cols=102 Identities=5% Similarity=0.006 Sum_probs=71.8
Q ss_pred HHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHCCCHHH--HHHHHHH
Q ss_conf 9999999999999956--9998999999999248428999999999863-038888999997753487347--9999999
Q gi|254780722|r 14 DDFPNALDIIVRSVRA--GLPVSDAVAVIVGQSSDPVRSEFRRVIETQH-LGLSLSESISRMVRYMPLQEV--SFFSTVI 88 (187)
Q Consensus 14 ~~l~~~l~~l~~~l~a--G~sl~~Al~~~a~~~~~~l~~e~~~i~~~~~-~G~~~~~al~~~~~~~~~~~~--~~~~~~l 88 (187)
.++|.|.+........ .++-.+-+..+-....|+..+.++ .+. .+.+.+.|.+.+.+||+.+.. +.....+
T Consensus 6 ~~w~~F~~~F~~~i~~~~~l~~~~Kl~yL~~~L~G~A~~~V~----~l~~t~~nY~~A~~~L~~Ry~n~rli~~s~~~~l 81 (146)
T pfam03564 6 KEWQAFWELFESLIHSKTDLPEIQKFNYLKSALEGEAATLVT----HLPITAANYDVAWEALKERYDNPRVIIRSLLNKL 81 (146)
T ss_pred HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCCHHHHHHH----CCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_conf 888999999999997279998789999999985861999987----1667877999999999987128889999999999
Q ss_pred HHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 9987425746899999999999999999999
Q gi|254780722|r 89 SVQSQLGGNLSEALANLSRILRDRKNMKAKV 119 (187)
Q Consensus 89 ~~~~~~gg~~~~~L~~la~~~~~~~~~~~~~ 119 (187)
...-....+-...|+.+.+.++...+.-+.+
T Consensus 82 ~~lp~~~~~s~~~Lr~l~d~~~~~i~aL~~L 112 (146)
T pfam03564 82 MKLPSTNNDSVSQLRRLYDEANEIIRQLEQL 112 (146)
T ss_pred HCCCCCCCCCHHHHHHHHHHHHHHHHHHHHC
T ss_conf 8286788888999999999999999999985
No 30
>PRK13940 glutamyl-tRNA reductase; Provisional
Probab=38.41 E-value=26 Score=14.76 Aligned_cols=66 Identities=12% Similarity=0.146 Sum_probs=37.9
Q ss_pred CCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCC
Q ss_conf 998999999999248428999999999863038888999997753487347999999999874257
Q gi|254780722|r 31 LPVSDAVAVIVGQSSDPVRSEFRRVIETQHLGLSLSESISRMVRYMPLQEVSFFSTVISVQSQLGG 96 (187)
Q Consensus 31 ~sl~~Al~~~a~~~~~~l~~e~~~i~~~~~~G~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~gg 96 (187)
......+...-+....-...|+++..+++..|.+.+++++.+..+.-.+-++.-...+..+.+.|.
T Consensus 332 ~~~~p~I~~lr~~a~~i~~~Eler~l~kl~~~~~~~e~ie~l~~~i~nklLH~Pt~~lk~aa~~g~ 397 (414)
T PRK13940 332 IISNSAIKELFQKADGLVDLSLEKSLAKIRNGKDAEEIIKRFAYEIKKKVLHYPVVGMKEASKQGR 397 (414)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf 525079999999999999999999985268999899999999999999984799999998775687
No 31
>TIGR01280 xseB exodeoxyribonuclease VII, small subunit; InterPro: IPR003761 Exonuclease VII 3.1.11.6 from EC is composed of two non-identical subunits; one large subunit and 4 small ones . Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides.; GO: 0008855 exodeoxyribonuclease VII activity, 0006308 DNA catabolic process, 0009318 exodeoxyribonuclease VII complex.
Probab=37.03 E-value=27 Score=14.63 Aligned_cols=28 Identities=25% Similarity=0.457 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHCC-CCHHHHHHHHHH
Q ss_conf 2899999999986303-888899999775
Q gi|254780722|r 47 PVRSEFRRVIETQHLG-LSLSESISRMVR 74 (187)
Q Consensus 47 ~l~~e~~~i~~~~~~G-~~~~~al~~~~~ 74 (187)
..-+++..|++.++.| .++++|+..+-+
T Consensus 7 ~~l~eLE~iV~~LE~G~~~LE~al~~fer 35 (69)
T TIGR01280 7 EALSELEQIVQKLESGDLALEEALNLFER 35 (69)
T ss_pred HHHHHHHHHHHHHHCCCCCHHHHHHHHHH
T ss_conf 89999999998773589767889999888
No 32
>pfam06781 UPF0233 Uncharacterized protein family (UPF0233).
Probab=35.52 E-value=29 Score=14.48 Aligned_cols=53 Identities=11% Similarity=0.109 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCHHHHH---HHHCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 34567799999999999999997878999---995080089999999999999999999
Q gi|254780722|r 125 EAKASAWIIGSLPFCVSTLVYFTSPGYMN---VLINDPRGHMLLGVAAAFMLIGIMVMR 180 (187)
Q Consensus 125 ~~~~~~~i~~~~~~~~~~~l~~~~~~~~~---~~~~~~~G~~~l~~~~~~~~~g~~~i~ 180 (187)
.|+..+.++..+.++-++.+++ -+.. .+.-...|..=+.++++++++|+.+.-
T Consensus 29 sp~W~~p~m~~lm~iGL~Wivv---~Yls~~~~~pi~~lg~WN~~iGfg~i~~Gf~mtt 84 (87)
T pfam06781 29 SPVWFVPLMVGLMLLGLLWLVV---YYLSGGQILPMPDLGAWNILIGFGLMIVGFLMTT 84 (87)
T ss_pred CCCCHHHHHHHHHHHHHHHHHH---HHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHC
T ss_conf 9861999999999999999999---9861687888855431699999999999998942
No 33
>TIGR02606 antidote_CC2985 putative addiction module antidote protein, CC2985 family; InterPro: IPR005360 Proteins in this entry are almost always found adjacent to a plasmid stabilisation protein (IPR007712 from INTERPRO), which is the killing partner of an addiction module for plasmid stabilisation. Proteins in this entry, therefore, are putative addiction module antidote proteins. Some are encoded on plasmids or in prophage regions, but others appear to be chromosomal. A genome may contain several identical copies, for example four are found in Magnetococcus sp. MC-1. This entry is named after one member, CC2985 of Caulobacter crescentus CB15..
Probab=31.43 E-value=34 Score=14.06 Aligned_cols=43 Identities=23% Similarity=0.365 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH-HHHHHHH
Q ss_conf 3479999999998742574689999999999999999-9999998
Q gi|254780722|r 79 QEVSFFSTVISVQSQLGGNLSEALANLSRILRDRKNM-KAKVQAL 122 (187)
Q Consensus 79 ~~~~~~~~~l~~~~~~gg~~~~~L~~la~~~~~~~~~-~~~~~~~ 122 (187)
+.|..|+...+.++.+ |+..++++..=+.++++... +.++.+.
T Consensus 8 ~~l~~Fi~~qv~sGRY-gsaSEVvR~aLRlLee~E~r~~~k~~aL 51 (77)
T TIGR02606 8 EHLESFIDSQVQSGRY-GSASEVVRAALRLLEERETRARLKLEAL 51 (77)
T ss_pred HHHHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 7889999998760799-9863699999986199998999999999
No 34
>TIGR02163 napH_ ferredoxin-type protein, NapH/MauN family; InterPro: IPR011886 Most members of this family are the NapH protein, found next to NapG,in operons that encode the periplasmic nitrate reductase. Some species with this reductase lack NapC but accomplish electron transfer to NapAB in some other manner, likely to involve NapH, NapG, and/or some other protein. A few members of this protein are designated MauN and are found in methylamine utilization operons in species that appear to lack a periplasmic nitrate reductase.; GO: 0005506 iron ion binding, 0006118 electron transport.
Probab=29.11 E-value=37 Score=13.82 Aligned_cols=57 Identities=19% Similarity=0.303 Sum_probs=37.5
Q ss_pred CCCH-------HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHH
Q ss_conf 5746-------8999999999999999999999--9864345677999999999999999978789999
Q gi|254780722|r 95 GGNL-------SEALANLSRILRDRKNMKAKVQ--ALSMEAKASAWIIGSLPFCVSTLVYFTSPGYMNV 154 (187)
Q Consensus 95 gg~~-------~~~L~~la~~~~~~~~~~~~~~--~~~a~~~~~~~i~~~~~~~~~~~l~~~~~~~~~~ 154 (187)
||.. .+...+.|+.+|++..+++..+ .--.+.|+-..++..+.-.+.+.+.+ |++++
T Consensus 77 ggRaFCsWVCP~N~vTD~A~wLr~KL~~~~~~~~r~l~r~~RY~~L~~~LllS~~~G~l~w---E~~nP 142 (263)
T TIGR02163 77 GGRAFCSWVCPLNLVTDLAAWLRRKLGIKKSIKERLLPRNLRYWVLVLVLLLSFLSGLLIW---EWVNP 142 (263)
T ss_pred HHHHEEEEECCCCCHHHHHHHHHHHHCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHH---HHHCH
T ss_conf 5200245454886411258999986134123564038854049999999999999706777---67442
No 35
>PRK08374 homoserine dehydrogenase; Provisional
Probab=28.58 E-value=30 Score=14.37 Aligned_cols=20 Identities=10% Similarity=0.228 Sum_probs=7.2
Q ss_pred HHHHHHHHHCCCCHHHHHHH
Q ss_conf 99999986303888899999
Q gi|254780722|r 52 FRRVIETQHLGLSLSESISR 71 (187)
Q Consensus 52 ~~~i~~~~~~G~~~~~al~~ 71 (187)
...+..+++.|.++++++.+
T Consensus 173 ~NyILt~me~g~~f~eal~e 192 (316)
T PRK08374 173 TTFILTRMEKGKTFEEALEE 192 (316)
T ss_pred HHHHHHHHHCCCCHHHHHHH
T ss_conf 89999999759989999999
No 36
>KOG2603 consensus
Probab=28.25 E-value=38 Score=13.73 Aligned_cols=74 Identities=15% Similarity=0.216 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHCCCHHHHHHHHHHHHHH-HHHHH
Q ss_conf 999999999999999999998643456779999999999999999787899999508008999999999999-99999
Q gi|254780722|r 102 LANLSRILRDRKNMKAKVQALSMEAKASAWIIGSLPFCVSTLVYFTSPGYMNVLINDPRGHMLLGVAAAFML-IGIMV 178 (187)
Q Consensus 102 L~~la~~~~~~~~~~~~~~~~~a~~~~~~~i~~~~~~~~~~~l~~~~~~~~~~~~~~~~G~~~l~~~~~~~~-~g~~~ 178 (187)
-+..++.++++-+... ++..-.|-++..++.++.+.+..++..........+. +..+...+..++.+.. .|..|
T Consensus 155 Ae~iaqfv~~~tkv~v--~si~rPp~~s~~iivaliva~i~~li~~k~~~l~fl~-~r~~w~~lsl~i~f~~iSG~M~ 229 (331)
T KOG2603 155 AEQIAQFVADRTKVNV--RSIQRPPNYSKPIIVALIVALIGGLIYKKRSNLTFLS-NRTIWAVLSLFIVFFMISGQMW 229 (331)
T ss_pred HHHHHHHHHHHHHHEE--EEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHH-HHHHHHHHHHHHEEEEECHHHH
T ss_conf 9999999987654012--0011587566106999999999999988760540566-6789999877602232003688
No 37
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=27.10 E-value=40 Score=13.60 Aligned_cols=23 Identities=13% Similarity=0.390 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHCC-CCHHHHH
Q ss_conf 9999999999999569-9989999
Q gi|254780722|r 15 DFPNALDIIVRSVRAG-LPVSDAV 37 (187)
Q Consensus 15 ~l~~~l~~l~~~l~aG-~sl~~Al 37 (187)
++..+-..+......+ .|+.+.+
T Consensus 99 ~~~~AeK~l~k~a~~~~~pllnyL 122 (398)
T PRK10747 99 DYQQVEKLMAKNADHAEQPVVNYL 122 (398)
T ss_pred CHHHHHHHHHHHCCCCCCHHHHHH
T ss_conf 999999999863435677488999
No 38
>pfam06267 DUF1028 Family of unknown function (DUF1028). Family of bacterial and archaeal proteins with unknown function. Some members are associated with a C-terminal peptidoglycan binding domain. So perhaps this could be an enzyme involved in peptidoglycan metabolism.
Probab=25.95 E-value=42 Score=13.47 Aligned_cols=31 Identities=16% Similarity=0.192 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHCCCH
Q ss_conf 9999999999956999899999999924842
Q gi|254780722|r 17 PNALDIIVRSVRAGLPVSDAVAVIVGQSSDP 47 (187)
Q Consensus 17 ~~~l~~l~~~l~aG~sl~~Al~~~a~~~~~~ 47 (187)
|.+=...-..+..|.+..+++..+....+++
T Consensus 47 p~lg~~~L~~l~~G~~~~~al~~l~~~D~~~ 77 (190)
T pfam06267 47 PALGPDGLDLLEQGLSAEEALARLLAADPGR 77 (190)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHCCCCC
T ss_conf 4346999999986999899999997059996
No 39
>PRK00159 putative septation inhibitor protein; Reviewed
Probab=25.88 E-value=42 Score=13.47 Aligned_cols=23 Identities=22% Similarity=0.400 Sum_probs=17.4
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 80089999999999999999999
Q gi|254780722|r 158 DPRGHMLLGVAAAFMLIGIMVMR 180 (187)
Q Consensus 158 ~~~G~~~l~~~~~~~~~g~~~i~ 180 (187)
...|..=+.++++++++|+.+.-
T Consensus 62 ~~lG~WN~~IGFg~i~~Gf~mtt 84 (87)
T PRK00159 62 ADLGPWNYAIGFAFMITGLLMTM 84 (87)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHC
T ss_conf 76560599999999999998951
No 40
>COG5001 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]
Probab=25.88 E-value=42 Score=13.46 Aligned_cols=16 Identities=6% Similarity=0.050 Sum_probs=8.5
Q ss_pred CCCHHHHHHHHHHHCC
Q ss_conf 3888899999775348
Q gi|254780722|r 62 GLSLSESISRMVRYMP 77 (187)
Q Consensus 62 G~~~~~al~~~~~~~~ 77 (187)
+.+++.|+..+++...
T Consensus 87 dp~PE~Al~aL~rTnr 102 (663)
T COG5001 87 DPDPERALRALARTNR 102 (663)
T ss_pred CCCHHHHHHHHHHHHH
T ss_conf 9887899999872326
No 41
>COG1043 LpxA Acyl-[acyl carrier protein]
Probab=25.57 E-value=43 Score=13.43 Aligned_cols=19 Identities=26% Similarity=0.420 Sum_probs=9.6
Q ss_pred HHHHCCCCHHHHHHHHHHH
Q ss_conf 9995699989999999992
Q gi|254780722|r 25 RSVRAGLPVSDAVAVIVGQ 43 (187)
Q Consensus 25 ~~l~aG~sl~~Al~~~a~~ 43 (187)
...++|.++.++++.+.++
T Consensus 219 ~lfr~~~~~~e~~~~i~~~ 237 (260)
T COG1043 219 LLFRSGLTLREALEEIAEE 237 (260)
T ss_pred HHEECCCCHHHHHHHHHHH
T ss_conf 9801898889999999988
No 42
>COG0177 Nth Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]
Probab=25.54 E-value=43 Score=13.43 Aligned_cols=33 Identities=9% Similarity=0.191 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCH
Q ss_conf 289999999998630388889999977534873
Q gi|254780722|r 47 PVRSEFRRVIETQHLGLSLSESISRMVRYMPLQ 79 (187)
Q Consensus 47 ~l~~e~~~i~~~~~~G~~~~~al~~~~~~~~~~ 79 (187)
|+.--+..+..+.........|...+-++++.+
T Consensus 29 pf~lLva~iLSaqttD~~vn~at~~Lf~~~~t~ 61 (211)
T COG0177 29 PFELLVAVILSAQTTDEVVNKATPALFKRYPTP 61 (211)
T ss_pred CHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCH
T ss_conf 389999999944674488999999999975999
No 43
>pfam10443 RNA12 RNA12 protein. This family includes RNA12 from S. cerevisiae. That protein contains an RRM domain. This region is C-terminal to that and includes a P-loop motif suggesting this region binds to NTP. The RNA12 proteins is involved in pre-rRNA maturation.
Probab=25.29 E-value=43 Score=13.40 Aligned_cols=35 Identities=14% Similarity=0.245 Sum_probs=18.3
Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHH
Q ss_conf 99999998630388889999977534873479999
Q gi|254780722|r 51 EFRRVIETQHLGLSLSESISRMVRYMPLQEVSFFS 85 (187)
Q Consensus 51 e~~~i~~~~~~G~~~~~al~~~~~~~~~~~~~~~~ 85 (187)
.++-++++++.|.++.+|+++.-.+..+.-.+.|.
T Consensus 271 DLe~l~rRiksGesp~~Av~~iI~Qsa~eI~k~fl 305 (428)
T pfam10443 271 DLQALARRIKSGESPEEAVSDIISQAASEILKMFL 305 (428)
T ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHC
T ss_conf 99999999875898799999999989999999980
No 44
>TIGR02968 succ_dehyd_anc succinate dehydrogenase, hydrophobic membrane anchor protein; InterPro: IPR014312 In Escherichia coli and many other bacteria, two small, hydrophobic, mutually homologous subunits of succinate dehydrogenase (a TCA cycle enzyme) are SdhC and SdhD. This entry is the SdhD, the hydrophobic membrane anchor protein. SdhC is apocytochrome b558, which also plays a role in anchoring the complex..
Probab=24.96 E-value=44 Score=13.36 Aligned_cols=50 Identities=10% Similarity=0.106 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCHHHHH---HHHCCCHHHHHHHHHHHHHHH
Q ss_conf 34567799999999999999997878999---995080089999999999999
Q gi|254780722|r 125 EAKASAWIIGSLPFCVSTLVYFTSPGYMN---VLINDPRGHMLLGVAAAFMLI 174 (187)
Q Consensus 125 ~~~~~~~i~~~~~~~~~~~l~~~~~~~~~---~~~~~~~G~~~l~~~~~~~~~ 174 (187)
-.|.++.++....+.++..+....+..++ .++++|..++.....+.+...
T Consensus 10 ~QR~TAv~~~~y~~~~~~~~~~~~~~~Y~~w~~~f~~~~~~~~~~l~l~~~~~ 62 (105)
T TIGR02968 10 LQRVTAVVLALYTIFLIGFLLALPGATYEAWRALFAHPWMKIFTLLALLALLY 62 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHH
T ss_conf 99999999999999999999955899989999998664999999999999999
No 45
>cd04391 RhoGAP_ARHGAP18 RhoGAP_ARHGAP18: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of ArhGAP18-like proteins. The function of ArhGAP18 is unknown. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=22.00 E-value=50 Score=13.00 Aligned_cols=62 Identities=8% Similarity=0.172 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHH-CCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-------------CCCHHHHHHHHHHHCCCHH
Q ss_conf 99999999999995-699989999999992484289999999998630-------------3888899999775348734
Q gi|254780722|r 15 DFPNALDIIVRSVR-AGLPVSDAVAVIVGQSSDPVRSEFRRVIETQHL-------------GLSLSESISRMVRYMPLQE 80 (187)
Q Consensus 15 ~l~~~l~~l~~~l~-aG~sl~~Al~~~a~~~~~~l~~e~~~i~~~~~~-------------G~~~~~al~~~~~~~~~~~ 80 (187)
++|.++..+...+. -|...+--++..+ -..+.+.+..+++. -.++...|+.+-+..|.|-
T Consensus 21 ~IP~ii~~~i~~L~~~gl~~EGIFRvsG------s~~~i~~L~~~~d~~~~~~~~~~~~~~~h~vA~lLK~fLReLP~PL 94 (216)
T cd04391 21 KVPLIFQKLINKLEERGLETEGILRIPG------SAQRVKFLCQELEAKFYEGTFLWDQVKQHDAASLLKLFIRELPQPL 94 (216)
T ss_pred CCCHHHHHHHHHHHHHCCCCCCEEECCC------CHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCC
T ss_conf 8895999999999983888577220478------5999999999985246778665123761569999999996199877
Q ss_pred HH
Q ss_conf 79
Q gi|254780722|r 81 VS 82 (187)
Q Consensus 81 ~~ 82 (187)
+.
T Consensus 95 i~ 96 (216)
T cd04391 95 LT 96 (216)
T ss_pred CC
T ss_conf 89
No 46
>cd04389 RhoGAP_KIAA1688 RhoGAP_KIAA1688: GTPase-activator protein (GAP) domain for Rho-like GTPases found in KIAA1688-like proteins; KIAA1688 is a protein of unknown function that contains a RhoGAP domain and a myosin tail homology 4 (MyTH4) domain. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=21.92 E-value=50 Score=12.99 Aligned_cols=61 Identities=11% Similarity=0.064 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHH-H-CCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC----------CCHHHHHHHHHHHCCCHHH
Q ss_conf 9999999999999-5-6999899999999924842899999999986303----------8888999997753487347
Q gi|254780722|r 15 DFPNALDIIVRSV-R-AGLPVSDAVAVIVGQSSDPVRSEFRRVIETQHLG----------LSLSESISRMVRYMPLQEV 81 (187)
Q Consensus 15 ~l~~~l~~l~~~l-~-aG~sl~~Al~~~a~~~~~~l~~e~~~i~~~~~~G----------~~~~~al~~~~~~~~~~~~ 81 (187)
.+|..+..+...+ + .|...+--++.. | -..+++++..+.+.| .++...|+.+-+..|.|-+
T Consensus 20 ~VP~iv~~~~~~l~~~~gl~~EGIFR~s-----G-s~~~i~~l~~~~d~g~~~~~~~~d~h~vA~lLK~flR~Lp~pLi 92 (187)
T cd04389 20 KLPWILTFLSEKVLALGGFQTEGIFRVP-----G-DIDEVNELKLRVDQWDYPLSGLEDPHVPASLLKLWLRELEEPLI 92 (187)
T ss_pred CCCHHHHHHHHHHHHHCCCCCCCEEEEC-----C-CHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCC
T ss_conf 8796999999999992898637424607-----8-69999999999836898755567788999999999982898788
No 47
>TIGR01129 secD protein-export membrane protein SecD; InterPro: IPR005791 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. This entry describes the SecD family of transport proteins. Members of this family are highly variable in length immediately after the well-conserved motif LGLGLXGG at the amino-terminal end of this model. Archaeal homologs are not included in the seed. SecD from Mycobacterium tuberculosis has a long Pro-rich insert. ; GO: 0015450 P-P-bond-hydrolysis-driven protein transmembrane transporter activity, 0006886 intracellular protein transport, 0009276 1-2nm peptidoglycan-based cell wall.
Probab=20.79 E-value=53 Score=12.85 Aligned_cols=28 Identities=11% Similarity=0.313 Sum_probs=16.4
Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHCCCH
Q ss_conf 99999999956999899999999924842
Q gi|254780722|r 19 ALDIIVRSVRAGLPVSDAVAVIVGQSSDP 47 (187)
Q Consensus 19 ~l~~l~~~l~aG~sl~~Al~~~a~~~~~~ 47 (187)
--++|+..|++| +++..++...+++=||
T Consensus 335 eA~dLA~~LR~G-aLP~~~~~~e~r~iGP 362 (522)
T TIGR01129 335 EANDLALLLRSG-ALPAPLQILEERTIGP 362 (522)
T ss_pred HHHHHHHHHHHH-HCCCCCEEEEEEEECH
T ss_conf 999999998775-1254607851022045
No 48
>COG1644 RPB10 DNA-directed RNA polymerase, subunit N (RpoN/RPB10) [Transcription]
Probab=20.79 E-value=53 Score=12.85 Aligned_cols=29 Identities=7% Similarity=0.058 Sum_probs=25.1
Q ss_pred CHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf 42899999999986303888899999775
Q gi|254780722|r 46 DPVRSEFRRVIETQHLGLSLSESISRMVR 74 (187)
Q Consensus 46 ~~l~~e~~~i~~~~~~G~~~~~al~~~~~ 74 (187)
.+++.-++...+.++.|.++.++|++++-
T Consensus 12 kvi~~~w~~y~~rv~~ge~p~~vLDdLGv 40 (63)
T COG1644 12 KVIGHKWEEYKRRVEEGEDPGEVLDDLGV 40 (63)
T ss_pred CCHHHHHHHHHHHHHCCCCHHHHHHHHCC
T ss_conf 78788899999999848988888887081
No 49
>PRK00045 hemA glutamyl-tRNA reductase; Reviewed
Probab=20.08 E-value=55 Score=12.75 Aligned_cols=65 Identities=15% Similarity=0.219 Sum_probs=37.3
Q ss_pred CCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCC
Q ss_conf 99899999999924842899999999986303888899999775348734799999999987425
Q gi|254780722|r 31 LPVSDAVAVIVGQSSDPVRSEFRRVIETQHLGLSLSESISRMVRYMPLQEVSFFSTVISVQSQLG 95 (187)
Q Consensus 31 ~sl~~Al~~~a~~~~~~l~~e~~~i~~~~~~G~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~g 95 (187)
..+...+..+-+....-..+|+++..+++..+....+.++.+.++.-.+-++.....+..+.+.|
T Consensus 339 ~~~~p~I~~lr~~~~~i~~~El~ra~~kl~~~~~~~~~ie~~~~~l~nkllh~P~~~lk~~a~~~ 403 (429)
T PRK00045 339 LEVVPTIRALREQAEEIREEELERALKKLALGEDEEEVLEKLARSLVNKLLHAPTVRLKEAAEEG 403 (429)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf 74638999999999999999999999641799508999999999999999889999999865368
Done!