Query 022438
Match_columns 297
No_of_seqs 217 out of 1573
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 03:32:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022438.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022438hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK02944 OxaA-like protein pre 100.0 2.1E-42 4.6E-47 320.5 20.0 159 96-292 29-191 (255)
2 PRK00145 putative inner membra 100.0 4E-41 8.6E-46 306.4 18.3 157 104-292 2-160 (223)
3 PRK01318 membrane protein inse 100.0 3.9E-41 8.4E-46 338.5 18.1 158 98-293 296-459 (521)
4 PRK01001 putative inner membra 100.0 7.5E-41 1.6E-45 343.1 18.5 175 99-293 546-722 (795)
5 PRK01622 OxaA-like protein pre 100.0 2.2E-39 4.8E-44 300.4 19.0 155 98-292 32-196 (256)
6 TIGR03592 yidC_oxa1_cterm memb 100.0 5E-39 1.1E-43 283.4 15.4 131 130-292 1-131 (181)
7 PRK02463 OxaA-like protein pre 100.0 2E-37 4.4E-42 294.0 18.6 153 101-293 34-198 (307)
8 PRK02201 putative inner membra 100.0 2E-37 4.4E-42 298.8 17.4 168 99-291 99-275 (357)
9 PF02096 60KD_IMP: 60Kd inner 100.0 8.6E-37 1.9E-41 270.4 14.0 137 130-291 2-139 (198)
10 COG0706 YidC Preprotein transl 100.0 4.7E-36 1E-40 285.2 17.1 160 99-293 83-244 (314)
11 PRK01315 putative inner membra 100.0 1E-35 2.2E-40 284.6 18.1 184 100-289 4-195 (329)
12 PRK03449 putative inner membra 100.0 5.1E-35 1.1E-39 277.2 18.1 119 104-222 2-123 (304)
13 PRK00247 putative inner membra 100.0 2.5E-32 5.4E-37 268.5 18.0 187 104-292 2-207 (429)
14 PRK02654 putative inner membra 100.0 1.3E-30 2.8E-35 248.4 13.9 114 100-220 2-119 (375)
15 KOG1239 Inner membrane protein 99.8 6.6E-20 1.4E-24 178.5 13.1 155 99-291 77-239 (372)
16 KOG1239 Inner membrane protein 98.5 5.1E-08 1.1E-12 95.6 3.2 195 100-295 4-201 (372)
17 COG1422 Predicted membrane pro 97.7 0.00045 9.8E-09 62.7 10.9 92 129-221 44-143 (201)
18 PF01956 DUF106: Integral memb 91.7 0.8 1.7E-05 39.8 7.5 89 130-218 14-112 (168)
19 TIGR03593 yidC_nterm membrane 83.6 0.84 1.8E-05 44.3 2.7 24 99-122 342-365 (366)
20 COG1422 Predicted membrane pro 77.0 55 0.0012 30.1 11.9 65 155-222 76-148 (201)
21 PF09973 DUF2208: Predicted me 75.8 15 0.00033 34.4 8.2 85 127-220 21-111 (233)
22 PF05280 FlhC: Flagellar trans 74.1 5.3 0.00011 35.7 4.5 39 182-220 37-86 (175)
23 PRK13454 F0F1 ATP synthase sub 59.8 61 0.0013 28.7 8.4 43 134-176 40-90 (181)
24 PRK12772 bifunctional flagella 58.2 27 0.00057 37.0 6.6 23 168-190 481-509 (609)
25 PF09958 DUF2192: Uncharacteri 54.6 22 0.00047 33.4 4.7 44 160-203 10-53 (231)
26 COG3105 Uncharacterized protei 54.0 52 0.0011 28.5 6.5 37 132-176 16-52 (138)
27 TIGR01404 FlhB_rel_III type II 53.6 41 0.00089 33.1 6.7 24 168-191 217-246 (342)
28 PRK09108 type III secretion sy 52.6 44 0.00096 33.0 6.8 12 168-179 220-234 (353)
29 PRK12721 secretion system appa 51.5 29 0.00062 34.3 5.3 28 147-179 202-232 (349)
30 TIGR00328 flhB flagellar biosy 50.8 46 0.001 32.8 6.6 12 168-179 218-232 (347)
31 COG1377 FlhB Flagellar biosynt 48.6 69 0.0015 32.0 7.4 28 147-179 209-239 (363)
32 KOG4075 Cytochrome c oxidase, 48.2 44 0.00095 29.9 5.4 61 158-218 49-123 (167)
33 PF05190 MutS_IV: MutS family 48.0 29 0.00062 26.2 3.8 36 163-198 2-37 (92)
34 PRK08156 type III secretion sy 47.9 55 0.0012 32.5 6.6 23 168-190 213-241 (361)
35 PRK13109 flhB flagellar biosyn 47.2 62 0.0013 32.1 6.9 12 168-179 227-241 (358)
36 PRK05702 flhB flagellar biosyn 46.2 63 0.0014 32.0 6.7 12 168-179 225-239 (359)
37 PRK12468 flhB flagellar biosyn 45.6 66 0.0014 32.3 6.8 23 168-190 225-253 (386)
38 PF14335 DUF4391: Domain of un 45.0 34 0.00073 31.2 4.4 39 153-191 177-220 (221)
39 PF01988 VIT1: VIT family; In 44.5 1.9E+02 0.0041 26.1 9.2 23 173-195 73-95 (213)
40 PF06472 ABC_membrane_2: ABC t 44.4 1.2E+02 0.0025 28.5 8.0 37 136-172 181-217 (281)
41 PRK06298 type III secretion sy 44.3 67 0.0015 31.8 6.6 23 168-190 219-247 (356)
42 PHA01750 hypothetical protein 43.7 1.4E+02 0.003 23.1 6.7 47 146-192 23-72 (75)
43 cd02434 Nodulin-21_like_3 Nodu 43.2 34 0.00074 31.5 4.2 21 174-194 75-95 (225)
44 PRK13453 F0F1 ATP synthase sub 42.3 1.5E+02 0.0032 26.0 7.8 18 136-153 29-46 (173)
45 COG3707 AmiR Response regulato 42.2 69 0.0015 29.4 5.8 49 146-195 113-161 (194)
46 PF05752 Calici_MSP: Calicivir 41.7 55 0.0012 29.3 5.0 43 153-195 23-65 (167)
47 KOG1532 GTPase XAB1, interacts 41.6 1.4E+02 0.003 29.5 8.0 90 100-201 217-309 (366)
48 PRK09174 F0F1 ATP synthase sub 40.0 2.1E+02 0.0045 26.1 8.7 44 133-176 61-112 (204)
49 PF06695 Sm_multidrug_ex: Puta 39.8 1.5E+02 0.0033 24.7 7.2 61 128-193 13-73 (121)
50 KOG3817 Uncharacterized conser 39.6 1.2E+02 0.0026 30.6 7.5 70 131-200 277-352 (452)
51 PF05377 FlaC_arch: Flagella a 37.6 96 0.0021 22.9 4.9 37 160-197 16-54 (55)
52 TIGR03142 cytochro_ccmI cytoch 37.2 1.4E+02 0.0031 24.4 6.6 45 132-176 3-54 (117)
53 PF06936 Selenoprotein_S: Sele 36.6 67 0.0015 29.2 4.9 15 130-144 35-49 (190)
54 PRK12722 transcriptional activ 35.9 2E+02 0.0043 26.2 7.7 38 183-220 38-86 (187)
55 cd02433 Nodulin-21_like_2 Nodu 34.7 53 0.0011 30.6 4.0 20 176-195 94-113 (234)
56 PHA00327 minor capsid protein 34.3 74 0.0016 28.7 4.6 43 153-198 37-79 (187)
57 COG1333 ResB ResB protein requ 33.1 2.1E+02 0.0045 29.7 8.2 104 130-235 56-180 (478)
58 PRK02201 putative inner membra 33.0 5.1E+02 0.011 25.8 10.8 15 275-289 263-277 (357)
59 COG4879 Uncharacterized protei 32.9 1.2E+02 0.0026 28.2 5.8 25 177-201 30-54 (243)
60 PF00153 Mito_carr: Mitochondr 31.7 36 0.00078 25.6 2.0 73 136-219 12-89 (95)
61 cd02432 Nodulin-21_like_1 Nodu 31.7 68 0.0015 29.5 4.2 21 176-196 82-102 (218)
62 PF05529 Bap31: B-cell recepto 30.6 2.5E+02 0.0054 24.7 7.5 14 132-145 108-121 (192)
63 PRK06771 hypothetical protein; 28.9 1.7E+02 0.0038 23.8 5.5 46 131-176 3-48 (93)
64 PRK08476 F0F1 ATP synthase sub 28.2 3.7E+02 0.008 22.7 8.0 43 134-176 16-66 (141)
65 PF00816 Histone_HNS: H-NS his 27.7 65 0.0014 25.2 2.9 20 177-196 21-40 (93)
66 PRK12860 transcriptional activ 27.5 2.6E+02 0.0056 25.5 7.1 37 183-219 38-85 (189)
67 PF04420 CHD5: CHD5-like prote 26.5 1.5E+02 0.0033 25.8 5.3 23 154-176 36-58 (161)
68 TIGR00828 EIID-AGA PTS system, 26.5 2.3E+02 0.0049 27.2 6.8 41 155-198 22-68 (271)
69 CHL00118 atpG ATP synthase CF0 25.5 3.9E+02 0.0083 22.8 7.6 19 134-152 31-49 (156)
70 PRK12495 hypothetical protein; 25.3 91 0.002 29.2 3.8 43 166-210 9-53 (226)
71 PF11460 DUF3007: Protein of u 25.0 3.5E+02 0.0076 22.5 6.8 36 141-176 54-89 (104)
72 PF06305 DUF1049: Protein of u 24.9 2.7E+02 0.0058 20.0 5.7 21 154-174 44-64 (68)
73 PF08479 POTRA_2: POTRA domain 24.8 80 0.0017 23.5 2.9 30 166-195 18-53 (76)
74 PRK14472 F0F1 ATP synthase sub 24.2 3.9E+02 0.0085 23.2 7.5 21 134-154 27-47 (175)
75 PF10112 Halogen_Hydrol: 5-bro 23.8 5.1E+02 0.011 22.9 8.6 16 181-196 106-121 (199)
76 PRK07353 F0F1 ATP synthase sub 23.7 4.2E+02 0.0091 21.8 7.6 20 133-152 13-32 (140)
77 PF11853 DUF3373: Protein of u 23.0 1E+02 0.0022 32.0 4.0 21 156-176 29-49 (489)
78 PRK09855 PTS system N-acetylga 23.0 1E+02 0.0023 29.3 3.8 30 170-199 42-71 (263)
79 PF05609 LAP1C: Lamina-associa 21.8 1.4E+02 0.0031 30.8 4.7 40 155-194 242-285 (465)
80 PRK01001 putative inner membra 21.4 8.3E+02 0.018 27.1 10.5 62 104-168 555-620 (795)
81 KOG3088 Secretory carrier memb 21.2 58 0.0013 31.7 1.7 45 154-199 60-107 (313)
82 PRK06569 F0F1 ATP synthase sub 21.2 5.2E+02 0.011 22.8 7.6 43 134-176 19-69 (155)
83 cd00922 Cyt_c_Oxidase_IV Cytoc 20.9 2.2E+02 0.0048 24.4 5.1 60 162-221 28-99 (136)
84 PF01312 Bac_export_2: FlhB Hr 20.6 1.1E+02 0.0024 30.0 3.6 39 136-179 193-234 (343)
85 PRK11103 PTS system mannose-sp 20.4 3.1E+02 0.0067 26.4 6.5 40 156-198 33-78 (282)
86 PF10225 DUF2215: Uncharacteri 20.4 3E+02 0.0065 25.8 6.3 100 98-198 116-225 (249)
No 1
>PRK02944 OxaA-like protein precursor; Validated
Probab=100.00 E-value=2.1e-42 Score=320.51 Aligned_cols=159 Identities=30% Similarity=0.664 Sum_probs=147.1
Q ss_pred ccccCCCchHHHHHHHHHHHHHHHHhhhcccCCcchHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhh
Q 022438 96 ATQKNGGWFGFISEAMEFVLKILKDGIDAVHVPYSYGFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYA 175 (297)
Q Consensus 96 a~~~~gGw~~~i~~p~~~vL~~lh~~l~~~g~~~~Wg~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk 175 (297)
+.+.+|.|+++|+.|++++++++|..+ +.|||++|+++|+++|++++|++++|+|+++||+++|||+++||||||
T Consensus 29 ~~~~~g~~~~~~~~p~~~~l~~i~~~~-----g~~wg~aIi~~TiivR~illPl~~~q~~~~~km~~iqPe~~~iq~kyk 103 (255)
T PRK02944 29 TPKSTGFWNEYFVYPLSQLITYFANLF-----GSNYGLAIIVVTLLIRLLILPLMIKQTKSTKAMQALQPEMQKLKEKYS 103 (255)
T ss_pred CCCCCCcHHHHHHHHHHHHHHHHHHHh-----CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHc
Confidence 346778899999999999999999876 358999999999999999999999999999999999999999999999
Q ss_pred cC----HHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHHHHHHHHHhhhhhccccCccccccCCCCcchhhhhccCCCc
Q 022438 176 GN----QERIQLETSRLYRQAGVNPLAGCLPTLATIPVWIGLYQALSNVANEGLLTEGFFWIPSLSGPTTIAARQSGSGI 251 (297)
Q Consensus 176 ~D----~q~~q~E~~~LyKk~gvnPl~gcLp~LiQiPIfi~lf~~Lr~m~~~~l~~~gflW~~dLs~pDp~~~~~~g~~~ 251 (297)
+| ++++|+|++++||||||||++||+|+++|+|||+++|+++|++. ++.+++|+|+ ||+.+|
T Consensus 104 ~~~~~~~~k~~~e~~~Lyk~~gvnP~~g~lp~liQ~Pifi~lf~~i~~~~--~l~~~~flW~-dLs~~D----------- 169 (255)
T PRK02944 104 SKDQATQQKLQQEMMQLFQKNGVNPLAGCLPIFIQMPILIAFYHAIMRTS--EISKHSFLWF-DLGQAD----------- 169 (255)
T ss_pred CCCHHHHHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHHHHHHHhhH--HHhhcCCCcc-ccCcch-----------
Confidence 74 56889999999999999999999999999999999999999875 4788999999 999998
Q ss_pred cccccccCCCCCCCCcchhhHHHHHHHHHHHHHHHhhhcCC
Q 022438 252 SWLLPFVDGHPPLGWHDTAAYLVLPVLLVVSQYASMELMKP 292 (297)
Q Consensus 252 ~~~~p~~~~~~~~gw~~~~~y~ILPil~~~s~~ls~kl~~~ 292 (297)
||++||++++++++++++++..
T Consensus 170 -------------------p~~iLPil~~~~~~~~~~~~~~ 191 (255)
T PRK02944 170 -------------------PYYILPIVAGITTFIQQKLMMA 191 (255)
T ss_pred -------------------HHHHHHHHHHHHHHHHHHhccc
Confidence 5789999999999999998653
No 2
>PRK00145 putative inner membrane protein translocase component YidC; Provisional
Probab=100.00 E-value=4e-41 Score=306.39 Aligned_cols=157 Identities=36% Similarity=0.694 Sum_probs=144.1
Q ss_pred hHHHHHHHHHHHHHHHHhhhccc--CCcchHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhhcCHHHH
Q 022438 104 FGFISEAMEFVLKILKDGIDAVH--VPYSYGFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYAGNQERI 181 (297)
Q Consensus 104 ~~~i~~p~~~vL~~lh~~l~~~g--~~~~Wg~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk~D~q~~ 181 (297)
++++.+++..+++++|+.+..++ .++|||+||+++|+++|++++|++++|+|+++||+++|||+++||||||+|++|+
T Consensus 2 ~~~i~~~~~~~l~~~~~~~~~~~~~~g~~w~~sIi~~tiivR~~l~Pl~~~q~~~~~km~~iqP~~~~i~~k~k~d~~~~ 81 (223)
T PRK00145 2 MRYLNNAFVQFFKFIHGFVSSVISNPNFSYGIAIILVTLIIRLLILPLNIKQTKSSLRMNEIQPEIKKLQAKYKNDPQKL 81 (223)
T ss_pred chHHHHHHHHHHHHHHHHHHHhhccCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHccHHHH
Confidence 35677788888888888775432 3579999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHcCCCCCcchHHHHHHHHHHHHHHHHHHhhhhhccccCccccccCCCCcchhhhhccCCCccccccccCCC
Q 022438 182 QLETSRLYRQAGVNPLAGCLPTLATIPVWIGLYQALSNVANEGLLTEGFFWIPSLSGPTTIAARQSGSGISWLLPFVDGH 261 (297)
Q Consensus 182 q~E~~~LyKk~gvnPl~gcLp~LiQiPIfi~lf~~Lr~m~~~~l~~~gflW~~dLs~pDp~~~~~~g~~~~~~~p~~~~~ 261 (297)
|+|++++||||||||++||+|+++|+|+|+++|+++|+++ ++.++||+|++||+.+|
T Consensus 82 ~~e~~~Lyk~~~inp~~~~lp~liQiPif~~l~~~i~~~~--~~~~~~flW~~dLt~~D--------------------- 138 (223)
T PRK00145 82 QQEMMKLYKEKGVNPLGGCLPLLIQWPILIALYYVFNNLT--GINGVSFLWIKDLAKPD--------------------- 138 (223)
T ss_pred HHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHHhh--hccCCCccChhhccCcc---------------------
Confidence 9999999999999999999999999999999999999985 47899999999999999
Q ss_pred CCCCCcchhhHHHHHHHHHHHHHHHhhhcCC
Q 022438 262 PPLGWHDTAAYLVLPVLLVVSQYASMELMKP 292 (297)
Q Consensus 262 ~~~gw~~~~~y~ILPil~~~s~~ls~kl~~~ 292 (297)
+|++||++++++++++++++.+
T Consensus 139 ---------p~~iLPil~~~~~~l~~~~~~~ 160 (223)
T PRK00145 139 ---------ITWILPILSGATTYLSGYLMTK 160 (223)
T ss_pred ---------hHHHHHHHHHHHHHHHHHHcCC
Confidence 5789999999999999998854
No 3
>PRK01318 membrane protein insertase; Provisional
Probab=100.00 E-value=3.9e-41 Score=338.53 Aligned_cols=158 Identities=37% Similarity=0.726 Sum_probs=147.9
Q ss_pred ccCCCchHHHHHHHHHHHHHHHHhhhcccCCcchHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhhcC
Q 022438 98 QKNGGWFGFISEAMEFVLKILKDGIDAVHVPYSYGFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYAGN 177 (297)
Q Consensus 98 ~~~gGw~~~i~~p~~~vL~~lh~~l~~~g~~~~Wg~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk~D 177 (297)
.-++||+.+++.|+.++|+++|..+ .|||++||++|+++|++++|++++|+|+++||+++||||++||||||+|
T Consensus 296 ~~~~G~~~~~~~pl~~~L~~i~~~~------g~wg~aIillTiiiR~il~Pl~~~s~~s~~km~~lqP~~~~i~~kyk~d 369 (521)
T PRK01318 296 AVDYGWLWFITKPLFWLLDFLHSFV------GNWGWAIILLTIIVKLLLFPLTYKSYVSMAKMKVLQPKMQELKEKYKDD 369 (521)
T ss_pred hcccCcHHHHHHHHHHHHHHHHHhc------ccHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHhHhh
Confidence 3579999999999999999999875 2899999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHHHHHHHHHhhhhhccccCccc-cccCCCCcchhhhhccCCCcccccc
Q 022438 178 QERIQLETSRLYRQAGVNPLAGCLPTLATIPVWIGLYQALSNVANEGLLTEGFF-WIPSLSGPTTIAARQSGSGISWLLP 256 (297)
Q Consensus 178 ~q~~q~E~~~LyKk~gvnPl~gcLp~LiQiPIfi~lf~~Lr~m~~~~l~~~gfl-W~~dLs~pDp~~~~~~g~~~~~~~p 256 (297)
++++|+|+++|||||||||++||+|+|+|+||||++|++++++. ++.+++|+ ||+||+.+||
T Consensus 370 ~~k~~~e~~~LYKk~~vnPl~gclp~liQiPifialy~~l~~~~--el~~~~fl~Wi~DLs~~Dp--------------- 432 (521)
T PRK01318 370 PQKMQQEMMELYKKEKVNPLGGCLPILIQIPIFFALYKVLLVSI--ELRHAPFIGWIHDLSAPDP--------------- 432 (521)
T ss_pred HHHHHHHHHHHHHHcCCCccchhHHHHHHHHHHHHHHHHHHHHH--HhccCchheeecccccccc---------------
Confidence 99999999999999999999999999999999999999999875 47889998 9999999995
Q ss_pred ccCCCCCCCCcchhhHHHH-----HHHHHHHHHHHhhhcCCC
Q 022438 257 FVDGHPPLGWHDTAAYLVL-----PVLLVVSQYASMELMKPP 293 (297)
Q Consensus 257 ~~~~~~~~gw~~~~~y~IL-----Pil~~~s~~ls~kl~~~~ 293 (297)
|+|| ||++++++++++++++++
T Consensus 433 ---------------~~il~~~~lPil~~~~~~~~~~l~~~~ 459 (521)
T PRK01318 433 ---------------YFILHIGLLPILMGITMFLQQKLNPTP 459 (521)
T ss_pred ---------------chhHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 3455 999999999999998654
No 4
>PRK01001 putative inner membrane protein translocase component YidC; Provisional
Probab=100.00 E-value=7.5e-41 Score=343.15 Aligned_cols=175 Identities=34% Similarity=0.612 Sum_probs=148.1
Q ss_pred cCCCchHHHHHHHHHHHHHHHHhhhcccCCcchHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhhcCH
Q 022438 99 KNGGWFGFISEAMEFVLKILKDGIDAVHVPYSYGFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYAGNQ 178 (297)
Q Consensus 99 ~~gGw~~~i~~p~~~vL~~lh~~l~~~g~~~~Wg~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk~D~ 178 (297)
..+||+++|+.|+.+++.++...+..+ ..|||++||++||+||++++|++++|+++++||+++||||++||||||+|+
T Consensus 546 ~~~GWf~fI~~Pia~~L~~ll~~fh~l--~GnwGlAIILlTIIVRLlLlPLtiKS~kSmaKMq~LQPemqeIQeKYKdD~ 623 (795)
T PRK01001 546 TFRGFFSFITEPFAALLFIIMKFFKFL--TGSWGISIILLTVFLKLLLYPLNAWSIRSMRRMQKLSPYIQEIQQKYKKEP 623 (795)
T ss_pred hhccHHHHHHHHHHHHHHHHHHHHHhh--cchHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhHHHHHHHHHhHhHH
Confidence 346999999999876664443333211 238999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHHHHHHHHHhhhhhccccCccc--cccCCCCcchhhhhccCCCcccccc
Q 022438 179 ERIQLETSRLYRQAGVNPLAGCLPTLATIPVWIGLYQALSNVANEGLLTEGFF--WIPSLSGPTTIAARQSGSGISWLLP 256 (297)
Q Consensus 179 q~~q~E~~~LyKk~gvnPl~gcLp~LiQiPIfi~lf~~Lr~m~~~~l~~~gfl--W~~dLs~pDp~~~~~~g~~~~~~~p 256 (297)
+++|+|+|+|||||||||++||+|+|+|+|||+++|+++|++. ++...+|+ |++||+.+||+. +|.++
T Consensus 624 qK~QqEmMkLYKe~GVNPl~GCLPmLIQmPIFfALY~vL~~si--eLRgasFLpgWI~DLSapDplf--------~~~~~ 693 (795)
T PRK01001 624 KRAQMEIMALYKTNKVNPITGCLPLLIQLPFLIAMFDLLKSSF--LLRGASFIPGWIDNLTAPDVLF--------SWETP 693 (795)
T ss_pred HHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHHHHHHHHhH--HhcCCchhhhhHhhccCCCccc--------ccccc
Confidence 9999999999999999999999999999999999999999875 46778898 999999999853 23332
Q ss_pred ccCCCCCCCCcchhhHHHHHHHHHHHHHHHhhhcCCC
Q 022438 257 FVDGHPPLGWHDTAAYLVLPVLLVVSQYASMELMKPP 293 (297)
Q Consensus 257 ~~~~~~~~gw~~~~~y~ILPil~~~s~~ls~kl~~~~ 293 (297)
.. ..| .+++|||||+++++++++++++++
T Consensus 694 i~----FiG----d~i~ILPILmgvtmflqqkls~~~ 722 (795)
T PRK01001 694 IW----FIG----NEFHLLPILLGVVMFAQQKISSLK 722 (795)
T ss_pred cc----ccc----cchhHHHHHHHHHHHHHHHhcccC
Confidence 11 111 267899999999999999998643
No 5
>PRK01622 OxaA-like protein precursor; Validated
Probab=100.00 E-value=2.2e-39 Score=300.42 Aligned_cols=155 Identities=28% Similarity=0.566 Sum_probs=142.5
Q ss_pred ccCCCchHHHHHHHHHHHHHHHHhhhcccCCcchHHHHHHHHHHHHHHhhhccHHHHHH----HHHHHhccHHHHHHHHH
Q 022438 98 QKNGGWFGFISEAMEFVLKILKDGIDAVHVPYSYGFAIILLTVIVKVATFPLTKKQVES----TLAMQNLQPKIKAIQQR 173 (297)
Q Consensus 98 ~~~gGw~~~i~~p~~~vL~~lh~~l~~~g~~~~Wg~aIIllTI~VRlillPL~i~q~rs----s~Km~~lqPel~~Iqek 173 (297)
..+|+|++++++|+.++++++|+.+ +.|||+||+++|+++|++++|++++|+|+ ++||+++|||+++||||
T Consensus 32 ~~~~~~~~~~~~p~~~ll~~l~~~~-----~~~wg~aIil~TiiiR~illPl~i~q~ks~~~~~~km~~iqP~l~~iq~k 106 (256)
T PRK01622 32 HSDGFFDHYFVYPFSFLIQFVAHHI-----GGSYGIAIIIVTLIIRSLMIPLAVSQYKSQRGMQEKMAVMKPELDKIQAK 106 (256)
T ss_pred CCCchHHHHHHHHHHHHHHHHHHHh-----cccHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhCHHHHHHHHH
Confidence 4678888999999999999999876 35899999999999999999999999999 89999999999999999
Q ss_pred hhc--CHH---HHHHHHHHHHHHcCCCCCc-chHHHHHHHHHHHHHHHHHHhhhhhccccCccccccCCCCcchhhhhcc
Q 022438 174 YAG--NQE---RIQLETSRLYRQAGVNPLA-GCLPTLATIPVWIGLYQALSNVANEGLLTEGFFWIPSLSGPTTIAARQS 247 (297)
Q Consensus 174 yk~--D~q---~~q~E~~~LyKk~gvnPl~-gcLp~LiQiPIfi~lf~~Lr~m~~~~l~~~gflW~~dLs~pDp~~~~~~ 247 (297)
||+ |++ ++|+|++++||||||||++ ||+|+++|+|||+++|+++|++ +++.++||+|+ ||+.+|
T Consensus 107 yk~~~d~~~~~~~~~e~~~Lyk~~gi~P~~~g~lp~liQ~Pif~~lf~~lr~~--~~l~~~~flW~-dLs~~D------- 176 (256)
T PRK01622 107 LKVTKDLEKQKEYQKEMMELYKSGNINPLAMGCLPLLIQMPILSAFYYAIRRT--EEIASHSFLWF-NLGHAD------- 176 (256)
T ss_pred HhccCCHHHHHHHHHHHHHHHHHcCCCCchhhHHHHHHHHHHHHHHHHHHHhC--hhccCCCceee-CCcchh-------
Confidence 997 433 5889999999999999999 9999999999999999999997 45889999999 998877
Q ss_pred CCCccccccccCCCCCCCCcchhhHHHHHHHHHHHHHHHhhhcCC
Q 022438 248 GSGISWLLPFVDGHPPLGWHDTAAYLVLPVLLVVSQYASMELMKP 292 (297)
Q Consensus 248 g~~~~~~~p~~~~~~~~gw~~~~~y~ILPil~~~s~~ls~kl~~~ 292 (297)
+|||++++++++++++++++
T Consensus 177 -------------------------~ILPil~~~~~~~~~~~~~~ 196 (256)
T PRK01622 177 -------------------------HILPIIAGLTYFIQMKVSQS 196 (256)
T ss_pred -------------------------HHHHHHHHHHHHHHHHHcCC
Confidence 48999999999999998874
No 6
>TIGR03592 yidC_oxa1_cterm membrane protein insertase, YidC/Oxa1 family, C-terminal domain. This model describes full-length from some species, and the C-terminal region only from other species, of the YidC/Oxa1 family of proteins. This domain appears to be univeral among bacteria (although absent from Archaea). The well-characterized YidC protein from Escherichia coli and its close homologs contain a large N-terminal periplasmic domain in addition to the region modeled here.
Probab=100.00 E-value=5e-39 Score=283.37 Aligned_cols=131 Identities=44% Similarity=0.813 Sum_probs=126.0
Q ss_pred chHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhhcCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHH
Q 022438 130 SYGFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYAGNQERIQLETSRLYRQAGVNPLAGCLPTLATIPV 209 (297)
Q Consensus 130 ~Wg~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk~D~q~~q~E~~~LyKk~gvnPl~gcLp~LiQiPI 209 (297)
|||++|+++|+++|++++|++++|+|+++||+++|||++++|||||+|++|+|+|++++|||||+||++||+|+++|+|+
T Consensus 1 ~w~~sIi~~ti~vR~~~~Pl~~~~~~~~~km~~i~P~~~~i~~k~k~~~~~~~~e~~~l~k~~~~~p~~~~lp~liQ~Pi 80 (181)
T TIGR03592 1 NWGLAIILLTIIVRLLLLPLTLKQYKSMRKMQELQPKLKEIQEKYKDDPQKLQQEMMKLYKEEGVNPLGGCLPLLIQMPI 80 (181)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhhhhccccCccccccCCCCcchhhhhccCCCccccccccCCCCCCCCcchhhHHHHHHHHHHHHHHHhhh
Q 022438 210 WIGLYQALSNVANEGLLTEGFFWIPSLSGPTTIAARQSGSGISWLLPFVDGHPPLGWHDTAAYLVLPVLLVVSQYASMEL 289 (297)
Q Consensus 210 fi~lf~~Lr~m~~~~l~~~gflW~~dLs~pDp~~~~~~g~~~~~~~p~~~~~~~~gw~~~~~y~ILPil~~~s~~ls~kl 289 (297)
|+++|+++|++. ++.++||+||+||+.+| ||++||+++++++++++++
T Consensus 81 f~~~~~~lr~~~--~l~~~~flW~~dL~~~D------------------------------p~~iLPii~~~~~~~~~~~ 128 (181)
T TIGR03592 81 FIALYQVLRRSI--ELRHAPFLWIKDLSAPD------------------------------PYYILPILMGATMFLQQKL 128 (181)
T ss_pred HHHHHHHHHhhH--HhccCCCcCccccCccc------------------------------HHHHHHHHHHHHHHHHHHh
Confidence 999999999974 58899999999999999 5789999999999999998
Q ss_pred cCC
Q 022438 290 MKP 292 (297)
Q Consensus 290 ~~~ 292 (297)
+..
T Consensus 129 ~~~ 131 (181)
T TIGR03592 129 SPS 131 (181)
T ss_pred cCC
Confidence 754
No 7
>PRK02463 OxaA-like protein precursor; Provisional
Probab=100.00 E-value=2e-37 Score=294.05 Aligned_cols=153 Identities=28% Similarity=0.496 Sum_probs=136.1
Q ss_pred CCc-hHHHHHHHHHHHHHHHHhhhcccCCcchHHHHHHHHHHHHHHhhhccHHHHHH----HHHHHhccHHHHHHHHHhh
Q 022438 101 GGW-FGFISEAMEFVLKILKDGIDAVHVPYSYGFAIILLTVIVKVATFPLTKKQVES----TLAMQNLQPKIKAIQQRYA 175 (297)
Q Consensus 101 gGw-~~~i~~p~~~vL~~lh~~l~~~g~~~~Wg~aIIllTI~VRlillPL~i~q~rs----s~Km~~lqPel~~Iqekyk 175 (297)
+|| ++++++|+.++++++|+.+ +.+||+|||++||+||++++|++++|+++ ++||+++|||+++||||||
T Consensus 34 ~g~~~~~l~~p~~~~l~~i~~~~-----g~~~GlaII~~TiivRlillPL~i~q~~ka~~~~~KM~~lqPe~~~Iq~Kyk 108 (307)
T PRK02463 34 TGFIWNFLGAPMSYFIDYFANNL-----GLGFGLAIIIVTIIVRLIILPLGLYQSWKATYQSEKMAYLKPVFEPINERLK 108 (307)
T ss_pred CchHHHHHHHHHHHHHHHHHHHc-----CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhChhHHHHHHHHh
Confidence 565 5799999999999999866 35899999999999999999999988865 6899999999999999999
Q ss_pred cC-----HHHHHHHHHHHHHHcCCCCCc--chHHHHHHHHHHHHHHHHHHhhhhhccccCccccccCCCCcchhhhhccC
Q 022438 176 GN-----QERIQLETSRLYRQAGVNPLA--GCLPTLATIPVWIGLYQALSNVANEGLLTEGFFWIPSLSGPTTIAARQSG 248 (297)
Q Consensus 176 ~D-----~q~~q~E~~~LyKk~gvnPl~--gcLp~LiQiPIfi~lf~~Lr~m~~~~l~~~gflW~~dLs~pDp~~~~~~g 248 (297)
++ ++++|+|++++||||||||++ ||+|+|+|+|||+++|+++|.. +++.+++|+|+ ||+.||
T Consensus 109 ~~~~~~~~~~~q~em~~lyke~ginp~~~~GCLP~LIQ~PIf~aly~ai~~~--~~l~~~~flwi-dL~~p~-------- 177 (307)
T PRK02463 109 NATTQEEKMAAQTELMAAQRENGISMLGGIGCLPLLIQMPFFSALYFAAQYT--KGVSTSTFLGI-DLGSPS-------- 177 (307)
T ss_pred cCCChHHHHHHHHHHHHHHHHcCCCCccccchHHHHHHHHHHHHHHHHHhcc--hhhccCCeeee-ecCchh--------
Confidence 73 335789999999999999998 8999999999999999999974 57899999999 897654
Q ss_pred CCccccccccCCCCCCCCcchhhHHHHHHHHHHHHHHHhhhcCCC
Q 022438 249 SGISWLLPFVDGHPPLGWHDTAAYLVLPVLLVVSQYASMELMKPP 293 (297)
Q Consensus 249 ~~~~~~~p~~~~~~~~gw~~~~~y~ILPil~~~s~~ls~kl~~~~ 293 (297)
++||+++++++++++++++..
T Consensus 178 ------------------------~iLpii~~v~~~~q~~~~~~~ 198 (307)
T PRK02463 178 ------------------------LVLTAIIGVLYFFQSWLSMMG 198 (307)
T ss_pred ------------------------HHHHHHHHHHHHHHHHHhccC
Confidence 689999999999999987643
No 8
>PRK02201 putative inner membrane protein translocase component YidC; Provisional
Probab=100.00 E-value=2e-37 Score=298.83 Aligned_cols=168 Identities=20% Similarity=0.361 Sum_probs=143.6
Q ss_pred cCCC-chHHHHHHHHHHHHHHH--HhhhcccCCcchHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhh
Q 022438 99 KNGG-WFGFISEAMEFVLKILK--DGIDAVHVPYSYGFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYA 175 (297)
Q Consensus 99 ~~gG-w~~~i~~p~~~vL~~lh--~~l~~~g~~~~Wg~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk 175 (297)
-++| |+++|++|+.+++.++| ...+ ...|++||+|||++|+++|++++|++++|+++++||+++|||+++||+|||
T Consensus 99 ~~~G~f~~~~v~P~~~il~~i~~~~~~~-~~~G~~w~laII~~TiivRlillPl~~k~~~s~~km~~lqPel~~Iq~Kyk 177 (357)
T PRK02201 99 WKYGPFYGLFVYPIAQIILSIMASQSLS-ELYGWSTILAIIVVVLIIRLISFLITFKSTFNQEKQEELQGKKAKIDAKYK 177 (357)
T ss_pred eccchHHHHHHHHHHHHHHHHHHhcccc-CcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHh
Confidence 3455 77999999999999996 2221 124679999999999999999999999999999999999999999999999
Q ss_pred cC------HHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHHHHHHHHHhhhhhccccCccccccCCCCcchhhhhccCC
Q 022438 176 GN------QERIQLETSRLYRQAGVNPLAGCLPTLATIPVWIGLYQALSNVANEGLLTEGFFWIPSLSGPTTIAARQSGS 249 (297)
Q Consensus 176 ~D------~q~~q~E~~~LyKk~gvnPl~gcLp~LiQiPIfi~lf~~Lr~m~~~~l~~~gflW~~dLs~pDp~~~~~~g~ 249 (297)
+| ++++|+|+++|||||||||++||+|+|+|+|||+++|+++|.+. ++....|+|+ ||+.+|+..
T Consensus 178 ~~~~d~~~~~k~q~e~~~Lykk~ginP~~gclP~LiQ~Pif~aly~vl~~~~--~l~~~~flgi-dLs~~~~~~------ 248 (357)
T PRK02201 178 DYKKDKQMKQRKQQEIQELYKKHNISPFSPFVQMFVTLPIFIAVYRVVQSLP--SIKVTTWLGI-DLSATSWQE------ 248 (357)
T ss_pred cccCCHHHHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHhhH--hhccCCCccc-ccCCCChhh------
Confidence 76 67899999999999999999999999999999999999999874 4778999999 999988421
Q ss_pred CccccccccCCCCCCCCcchhhHHHHHHHHHHHHHHHhhhcC
Q 022438 250 GISWLLPFVDGHPPLGWHDTAAYLVLPVLLVVSQYASMELMK 291 (297)
Q Consensus 250 ~~~~~~p~~~~~~~~gw~~~~~y~ILPil~~~s~~ls~kl~~ 291 (297)
++ .+..+|++++++++++|++++++++
T Consensus 249 ----~~-----------~~~~~~l~l~ii~~~~~~ls~~l~~ 275 (357)
T PRK02201 249 ----IF-----------AGNWIYLPILIIVVPVQALSQLLPQ 275 (357)
T ss_pred ----hc-----------cccchHHHHHHHHHHHHHHHHHHHH
Confidence 11 1122788888999988888887753
No 9
>PF02096 60KD_IMP: 60Kd inner membrane protein; InterPro: IPR001708 This family of proteins is required for the insertion of integral membrane proteins into cellular membranes. Many of these integral membrane proteins are associated with respiratory chain complexes, for example a large number of members of this family play an essential role in the activity and assembly of cytochrome c oxidase. Stage III sporulation protein J (SP3J) is a probable lipoprotein, rich in basic and hydrophobic amino acids. Mutations in the protein abolish the transcription of prespore-specific genes transcribed by the sigma G form of RNA polymerase []. SP3J could be involved in a signal transduction pathway coupling gene expression in the prespore to events in the mother cell, or it may be necessary for essential metabolic interactions between the two cells []. The protein shows a high degree of similarity to Bacillus subtilis YQJG, to yeast OXA1 and also to bacterial 60 kDa inner-membrane proteins [, , , ]. ; GO: 0051205 protein insertion into membrane, 0016021 integral to membrane
Probab=100.00 E-value=8.6e-37 Score=270.40 Aligned_cols=137 Identities=45% Similarity=0.861 Sum_probs=130.1
Q ss_pred chHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhhcCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHH
Q 022438 130 SYGFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYAGNQERIQLETSRLYRQAGVNPLAGCLPTLATIPV 209 (297)
Q Consensus 130 ~Wg~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk~D~q~~q~E~~~LyKk~gvnPl~gcLp~LiQiPI 209 (297)
|||++|+++|+++|++++|++++|+|+++||+++|||+++|||||++|++++++|++++||||||||+++|+|+++|+|+
T Consensus 2 sW~~aIil~ti~vR~~~~Pl~i~~~~~~~k~~~~~P~l~~i~~k~~~~~~~~~~~~~~l~k~~~~~p~~~~~~~liq~Pi 81 (198)
T PF02096_consen 2 SWGLAIILTTILVRLILLPLSIKQQRSSAKMQELQPELKEIQEKYKEDQQKMQQEMQKLYKKHGVNPLKGCLPPLIQIPI 81 (198)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhhh-hccccCccccccCCCCcchhhhhccCCCccccccccCCCCCCCCcchhhHHHHHHHHHHHHHHHhh
Q 022438 210 WIGLYQALSNVAN-EGLLTEGFFWIPSLSGPTTIAARQSGSGISWLLPFVDGHPPLGWHDTAAYLVLPVLLVVSQYASME 288 (297)
Q Consensus 210 fi~lf~~Lr~m~~-~~l~~~gflW~~dLs~pDp~~~~~~g~~~~~~~p~~~~~~~~gw~~~~~y~ILPil~~~s~~ls~k 288 (297)
|+++|+++|++++ +++.++||+|++||+.+|+. .+ .||++||++++++++++++
T Consensus 82 f~~~~~~lr~~~~~~~~~~~g~lw~~dL~~~D~~---------------------~~----~p~~iLPil~~~~~~~~~~ 136 (198)
T PF02096_consen 82 FIGLFRALRRMAEVPSLATGGFLWFPDLTAPDPT---------------------MG----LPYFILPILAGASMFLNQE 136 (198)
T ss_pred HHHHHHHHHHHHHhcccccCceeChHhcCCCCcc---------------------ch----hHHHHHHHHHHHHHHHHHH
Confidence 9999999999987 67889999999999999963 12 3899999999999999999
Q ss_pred hcC
Q 022438 289 LMK 291 (297)
Q Consensus 289 l~~ 291 (297)
++.
T Consensus 137 ~~~ 139 (198)
T PF02096_consen 137 LSM 139 (198)
T ss_pred HHH
Confidence 974
No 10
>COG0706 YidC Preprotein translocase subunit YidC [Intracellular trafficking and secretion]
Probab=100.00 E-value=4.7e-36 Score=285.24 Aligned_cols=160 Identities=38% Similarity=0.646 Sum_probs=145.1
Q ss_pred cCCCchHHHHHHHHHHHHHHHHhhhcccCCcchHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhh-cC
Q 022438 99 KNGGWFGFISEAMEFVLKILKDGIDAVHVPYSYGFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYA-GN 177 (297)
Q Consensus 99 ~~gGw~~~i~~p~~~vL~~lh~~l~~~g~~~~Wg~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk-~D 177 (297)
.++||+.++..++..+++++|... +.+||++|+++|++||++++|++.++.++++||+++|||+++|||||| +|
T Consensus 83 ~~~~~f~~~~~~~~~~~~~~~~~~-----g~n~G~sIi~~ti~vRl~i~Pl~~~~~~s~~km~~lqP~~~~i~~kyk~~~ 157 (314)
T COG0706 83 SDYGWFWNILAPLFPLLLFIDSFS-----GLNWGLSIILLTIIVRLLIFPLSQKSTRSMAKMQELQPKIKEIQEKYKGTD 157 (314)
T ss_pred cchhhHHHHHHHHHHHHHHHHHhc-----CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhChhHHHHHHHhCCCC
Confidence 478999988888888888887654 238999999999999999999999999999999999999999999999 89
Q ss_pred HHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHHHHHHHHHhhhhhccccCccc-cccCCCCcchhhhhccCCCcccccc
Q 022438 178 QERIQLETSRLYRQAGVNPLAGCLPTLATIPVWIGLYQALSNVANEGLLTEGFF-WIPSLSGPTTIAARQSGSGISWLLP 256 (297)
Q Consensus 178 ~q~~q~E~~~LyKk~gvnPl~gcLp~LiQiPIfi~lf~~Lr~m~~~~l~~~gfl-W~~dLs~pDp~~~~~~g~~~~~~~p 256 (297)
++++|+|+++|||||||||+.||+|+++|+|||+++|+++++.. .+..++|+ |+.||+.+||.
T Consensus 158 ~~~~q~e~~~Lyk~~~vnPl~gclP~liQ~Pifialy~~l~~~~--~l~~~~f~~w~~dl~~~dp~-------------- 221 (314)
T COG0706 158 KQKQQQEMMKLYKKHKVNPLAGCLPLLIQMPIFIALYYVLRSTV--ELRGAPFLGWITDLSLPDPD-------------- 221 (314)
T ss_pred HHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHHHHHHhcc--cccccchhhhhhcccCCCCc--------------
Confidence 99999999999999999999999999999999999999999875 47777887 99999999962
Q ss_pred ccCCCCCCCCcchhhHHHHHHHHHHHHHHHhhhcCCC
Q 022438 257 FVDGHPPLGWHDTAAYLVLPVLLVVSQYASMELMKPP 293 (297)
Q Consensus 257 ~~~~~~~~gw~~~~~y~ILPil~~~s~~ls~kl~~~~ 293 (297)
..+++||++++++++++++++.+
T Consensus 222 --------------~~~~~pii~gv~~f~q~~ls~~~ 244 (314)
T COG0706 222 --------------YILLLPILAGVTMFLQQKLSPRN 244 (314)
T ss_pred --------------hhhHHHHHHHHHHHHHHHhcccc
Confidence 22367999999999999999773
No 11
>PRK01315 putative inner membrane protein translocase component YidC; Provisional
Probab=100.00 E-value=1e-35 Score=284.63 Aligned_cols=184 Identities=26% Similarity=0.423 Sum_probs=134.8
Q ss_pred CCCchHHHHHHHHHHH----HHHHHhhhcc-c--CCcchHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHH
Q 022438 100 NGGWFGFISEAMEFVL----KILKDGIDAV-H--VPYSYGFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQ 172 (297)
Q Consensus 100 ~gGw~~~i~~p~~~vL----~~lh~~l~~~-g--~~~~Wg~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqe 172 (297)
-++||++|++|++|++ .++|..++.+ + .+++||+|||++|+++|++++|++++|+|+++||+++|||+++||+
T Consensus 4 ~~~~~~~i~~P~~~~l~~il~~~h~ll~~~~~~~tGl~w~~aIi~~Ti~vR~~l~Pl~i~q~~~~~km~~lqPe~~~iq~ 83 (329)
T PRK01315 4 LADFGSAIMTPLYWVISGILVLFHTLLGFLFGPDSGLTWVLSIVGLVIVIRALLIPLFVKQIKSQRNMQEIQPKMKKIQE 83 (329)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHH
Confidence 3579999999988877 5557665432 2 3579999999999999999999999999999999999999999999
Q ss_pred HhhcCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHHHHHHHHHhhhhhccccCccccccCCCCcchhhhhccCCCcc
Q 022438 173 RYAGNQERIQLETSRLYRQAGVNPLAGCLPTLATIPVWIGLYQALSNVANEGLLTEGFFWIPSLSGPTTIAARQSGSGIS 252 (297)
Q Consensus 173 kyk~D~q~~q~E~~~LyKk~gvnPl~gcLp~LiQiPIfi~lf~~Lr~m~~~~l~~~gflW~~dLs~pDp~~~~~~g~~~~ 252 (297)
|||+|++++++|+++|||||||||+++|+|+|+|+|||+++|+++|+++.. ...-.+|.+++... -..+.-+|..++
T Consensus 84 kyk~~~~~~~~e~~~Lykk~ginp~~gclp~liQ~Pif~alf~~l~~~~~~--~~~~~~~~~~~~~s-~~~~~~fg~~L~ 160 (329)
T PRK01315 84 KYKGDRERMSQEMMKLYKETGTNPLSSCLPLLLQMPIFFALYRVLDSAASR--GDGIGPINPPLLES-FRHAHIFGAPLA 160 (329)
T ss_pred HHHhHHHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHHHHHHHHHHhc--cccccchhhhHHHh-hhcccccccccc
Confidence 999999999999999999999999999999999999999999999986531 11112233222210 000000010001
Q ss_pred ccccccCCCCCCCCcc-hhhHHHHHHHHHHHHHHHhhh
Q 022438 253 WLLPFVDGHPPLGWHD-TAAYLVLPVLLVVSQYASMEL 289 (297)
Q Consensus 253 ~~~p~~~~~~~~gw~~-~~~y~ILPil~~~s~~ls~kl 289 (297)
. +|.... ..++.+ .+.++|||++++++||++++.
T Consensus 161 ~--~f~~~~-~~~~~~~~ii~~iL~il~~~~~~~~q~~ 195 (329)
T PRK01315 161 A--TFLQAL-NAGNTAVQVVAAVLIILMSASQFITQLQ 195 (329)
T ss_pred c--cccccc-cccccchHHHHHHHHHHHHHHHHHHHHH
Confidence 0 010000 012212 246789999999999999864
No 12
>PRK03449 putative inner membrane protein translocase component YidC; Provisional
Probab=100.00 E-value=5.1e-35 Score=277.23 Aligned_cols=119 Identities=29% Similarity=0.617 Sum_probs=109.9
Q ss_pred hHHHHHHHHHHHHHHHHhhhcc---cCCcchHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhhcCHHH
Q 022438 104 FGFISEAMEFVLKILKDGIDAV---HVPYSYGFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYAGNQER 180 (297)
Q Consensus 104 ~~~i~~p~~~vL~~lh~~l~~~---g~~~~Wg~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk~D~q~ 180 (297)
+.++.+|+.+++.++|+.++.+ +.+++||+||+++|+++|++++|++++|+|+++||+++|||+++||||||+|+++
T Consensus 2 l~~~~~P~~~~l~~~~~~~~~~l~~~~Gl~w~~aIil~TiivR~~l~Pl~i~q~ks~~km~~lqP~l~~iq~kyk~~~~~ 81 (304)
T PRK03449 2 LDFIYYPVSAILWFWHKLFSFVLGPDNGFAWALSVMFLVFTLRALLYKPFVRQIRTTRKMQELQPQIKALQKKYGNDRQK 81 (304)
T ss_pred hhhHHHHHHHHHHHHHHHHHhhcCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHhhhhHHH
Confidence 4567889999999999876421 2367999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHcCCCCCcchHHHHHHHHHHHHHHHHHHhhhh
Q 022438 181 IQLETSRLYRQAGVNPLAGCLPTLATIPVWIGLYQALSNVAN 222 (297)
Q Consensus 181 ~q~E~~~LyKk~gvnPl~gcLp~LiQiPIfi~lf~~Lr~m~~ 222 (297)
+|+|+++|||||||||++||+|+|+|+|||+++|+++|+++.
T Consensus 82 ~~~e~~~Lyk~~gvnP~~gclP~liQlPi~~~ly~~ir~~~~ 123 (304)
T PRK03449 82 MALEMQKLQKEHGFNPILGCLPMLAQIPVFLGLFHVLRSFNR 123 (304)
T ss_pred HHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 999999999999999999999999999999999999999854
No 13
>PRK00247 putative inner membrane protein translocase component YidC; Validated
Probab=100.00 E-value=2.5e-32 Score=268.47 Aligned_cols=187 Identities=25% Similarity=0.348 Sum_probs=139.8
Q ss_pred hHHHHHHHHHHHHHHHHhhhc-cc--CCcchHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhhcC---
Q 022438 104 FGFISEAMEFVLKILKDGIDA-VH--VPYSYGFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYAGN--- 177 (297)
Q Consensus 104 ~~~i~~p~~~vL~~lh~~l~~-~g--~~~~Wg~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk~D--- 177 (297)
+++|++|+++++.++|..++. +| .+++||++|+++||+||++++|++++|+++++||+.+|||+++||+|||++
T Consensus 2 ~~~~~~Pvs~vm~~~h~~~~~~~G~~~~l~W~isIi~ltiiVRliLlPL~~~q~ks~~km~~lqPel~~iq~kyk~~~d~ 81 (429)
T PRK00247 2 LDIFIYPVSGVMKLWHLLLHNVLGLDDSLAWFASLFGLVITVRAIIAPFTWQQYKSGRTAAHIRPKRKALREEYKGKTDE 81 (429)
T ss_pred ccHHHHHHHHHHHHHHHHHhccccCcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHhcCCCH
Confidence 567899999999999988774 44 257899999999999999999999999999999999999999999999974
Q ss_pred --HHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHHHHHHHHHhhhh--hccccCccccccCCCCcchhh---hhccCCC
Q 022438 178 --QERIQLETSRLYRQAGVNPLAGCLPTLATIPVWIGLYQALSNVAN--EGLLTEGFFWIPSLSGPTTIA---ARQSGSG 250 (297)
Q Consensus 178 --~q~~q~E~~~LyKk~gvnPl~gcLp~LiQiPIfi~lf~~Lr~m~~--~~l~~~gflW~~dLs~pDp~~---~~~~g~~ 250 (297)
++++|+|+++|||||||||+.||+|+|+|+|||+++|++||+|+. +|+.+..+.|+--|+.+|--. +.-+|..
T Consensus 82 e~~~~~qqe~~~LyKe~ginP~~gcLP~LIQiPIfigLy~vir~ma~~~~Gl~~~~~~~ig~l~~~~v~sfl~a~~fGvp 161 (429)
T PRK00247 82 ASIRELQQKQKDLNKEYGYNPLAGCVPALIQIPVFLGLYQVLLRMARPEGGLENPVHQPIGFLTSEEVESFLQGRVFNVP 161 (429)
T ss_pred HHHHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHHHHHHHhccccCCccccccccccccCCHHHHHHHHhccccCCC
Confidence 457899999999999999999999999999999999999999975 455555455666666655321 1112222
Q ss_pred ccccccccCCCCCCCCc----chhhHHHHH--HHHHHHHHHHhhhcCC
Q 022438 251 ISWLLPFVDGHPPLGWH----DTAAYLVLP--VLLVVSQYASMELMKP 292 (297)
Q Consensus 251 ~~~~~p~~~~~~~~gw~----~~~~y~ILP--il~~~s~~ls~kl~~~ 292 (297)
++--+ .+.. ....|. ....+++|| +++++.+++++++++-
T Consensus 162 L~~~~-sm~~-e~~~~~~~~~~~v~~~ilPlii~a~vft~i~~~~s~~ 207 (429)
T PRK00247 162 LPAYV-SMPA-EQLAYLGTTQATVLAFVLPLFIAAAVFTAINMAMSTY 207 (429)
T ss_pred ccccc-ccch-hhhhhccCCccchHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 22000 0000 000111 123467777 5566666788888753
No 14
>PRK02654 putative inner membrane protein translocase component YidC; Provisional
Probab=99.97 E-value=1.3e-30 Score=248.39 Aligned_cols=114 Identities=32% Similarity=0.564 Sum_probs=107.4
Q ss_pred CCCchHHHHHHHHHHHHHHHHhhhcccCCcchHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHH----HHHHHhh
Q 022438 100 NGGWFGFISEAMEFVLKILKDGIDAVHVPYSYGFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIK----AIQQRYA 175 (297)
Q Consensus 100 ~gGw~~~i~~p~~~vL~~lh~~l~~~g~~~~Wg~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~----~Iqekyk 175 (297)
|+||..+..+++.++++++|..+ .+||++|+++|+++|++++|++++|+|+++||+.+||||+ +||||||
T Consensus 2 dfG~g~i~~~il~~iL~f~y~~v------gswGlAIIllTIIVRlIL~PLsikQ~KS~~KM~~LQPemqkk~~eIqeKYK 75 (375)
T PRK02654 2 DFGIGFISNNVMLPILDFFYGIV------PSYGLAIVALTLVIRFALYPLSAGSIRNMRRMKIAQPVMQKRQAEIQERYK 75 (375)
T ss_pred CcchHHHHHhHHHHHHHHHHHhc------chHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCchhhhHHHHHHHHhc
Confidence 68997777789999999999865 3899999999999999999999999999999999999985 7999999
Q ss_pred cCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHHHHHHHHHhh
Q 022438 176 GNQERIQLETSRLYRQAGVNPLAGCLPTLATIPVWIGLYQALSNV 220 (297)
Q Consensus 176 ~D~q~~q~E~~~LyKk~gvnPl~gcLp~LiQiPIfi~lf~~Lr~m 220 (297)
+|++++|+|+++|||||| ||++||+|+|+|+|||+++|+++|+.
T Consensus 76 dDpqk~QqEmmkLYKE~G-NPlaGCLP~LIQmPIF~aLY~~LR~s 119 (375)
T PRK02654 76 NDPQKQQEEMGKLMKEFG-NPLAGCLPLLVQMPILFALFATLRGS 119 (375)
T ss_pred CCHHHHHHHHHHHHHHcC-CChhhHHHHHHHHHHHHHHHHHHHhC
Confidence 999999999999999999 99999999999999999999999984
No 15
>KOG1239 consensus Inner membrane protein translocase involved in respiratory chain assembly [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.82 E-value=6.6e-20 Score=178.51 Aligned_cols=155 Identities=19% Similarity=0.334 Sum_probs=133.9
Q ss_pred cCCCchHHHHHHHHHHHHHHHHhhhcccCCcchHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhhcC-
Q 022438 99 KNGGWFGFISEAMEFVLKILKDGIDAVHVPYSYGFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYAGN- 177 (297)
Q Consensus 99 ~~gGw~~~i~~p~~~vL~~lh~~l~~~g~~~~Wg~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk~D- 177 (297)
...+|.. +..+++.++.+|+.. +.+||.+|+..|+.+|.+++|+.++++|+.+|+.++.|||.++.++.+.-
T Consensus 77 ~~~~~~p--~~~lq~~l~~~h~~~-----g~pww~~i~~~t~~ir~~i~~~~~~~~~~~akls~~~~~mp~~~~~l~~a~ 149 (372)
T KOG1239|consen 77 ALSSWRP--VATLQNELERLHVYS-----GLPWWASIVATTVLIRSLITPLLTNSQKNEAKLSKIFPEMPSLGEELGEAA 149 (372)
T ss_pred HhcccCc--hhHHHHHHHHHHHHh-----CCcchHHHHHhHhhHhhhhhhHHHhhhhHHHHHhhcCcccHHHHHHHHhhh
Confidence 3445554 567889999999976 46999999999999999999999999999999999999999999988751
Q ss_pred -----HHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHHHHHHHHHhhhh--hccccCccccccCCCCcchhhhhccCCC
Q 022438 178 -----QERIQLETSRLYRQAGVNPLAGCLPTLATIPVWIGLYQALSNVAN--EGLLTEGFFWIPSLSGPTTIAARQSGSG 250 (297)
Q Consensus 178 -----~q~~q~E~~~LyKk~gvnPl~gcLp~LiQiPIfi~lf~~Lr~m~~--~~l~~~gflW~~dLs~pDp~~~~~~g~~ 250 (297)
....|+|+++++|+||++| +...-+++|.|+|++.|.++|.|+. +++.++|++||+||+.+|
T Consensus 150 ~~~~~~~~~q~~~~~l~~~~~v~~-~~l~~~v~q~~l~~sff~air~ma~~v~~f~t~g~~wf~dLt~~d---------- 218 (372)
T KOG1239|consen 150 QDNNALLSWQEEQKLLVKKYGVKP-KQLALPVVQGPLFISFFMAIRVMAVPVPSFTTGGLLWFPDLTGPD---------- 218 (372)
T ss_pred ccccchHHHHHHHHhhhhhcCCCc-chhhhhhhcchhHHHHHHHHHHhhccccccchhhHHhcccccccC----------
Confidence 2356778999999999999 9888888999999999999999985 577888999999999999
Q ss_pred ccccccccCCCCCCCCcchhhHHHHHHHHHHHHHHHhhhcC
Q 022438 251 ISWLLPFVDGHPPLGWHDTAAYLVLPVLLVVSQYASMELMK 291 (297)
Q Consensus 251 ~~~~~p~~~~~~~~gw~~~~~y~ILPil~~~s~~ls~kl~~ 291 (297)
+|+++|+++.+++...+++..
T Consensus 219 --------------------p~~ilp~it~~~~~~~~~~~~ 239 (372)
T KOG1239|consen 219 --------------------PLYILPGITLATLTLFIELGA 239 (372)
T ss_pred --------------------cchhhHHHHHHHHHHHHHHHH
Confidence 467888888888887777653
No 16
>KOG1239 consensus Inner membrane protein translocase involved in respiratory chain assembly [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=98.52 E-value=5.1e-08 Score=95.58 Aligned_cols=195 Identities=26% Similarity=0.278 Sum_probs=173.3
Q ss_pred CCCchHHHHHHHHHHHHHHHHhhhcccCCcchHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhhcCHH
Q 022438 100 NGGWFGFISEAMEFVLKILKDGIDAVHVPYSYGFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYAGNQE 179 (297)
Q Consensus 100 ~gGw~~~i~~p~~~vL~~lh~~l~~~g~~~~Wg~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk~D~q 179 (297)
.+.|+.......+..+..++.....++....++.++...|+++.+...|+...+..+..-++..+|....+...+...+.
T Consensus 4 ~~~~~~~~~~~~~~~l~l~~~~~r~~s~~~~~~~~~~~~t~~~~~~~~p~~~~~~~s~~v~~~~~~~~~~~~~~~~~~~p 83 (372)
T KOG1239|consen 4 SNLWFFAISSLQEMRLFLLRPSCRSVSSPGFSGFSVFLRTILVKLTNSPLSQPEASSTSVVATVSPIIEGILLALSSWRP 83 (372)
T ss_pred cccCchhhhhhhhHHHhhhcccccccccCCcccccccceeeccccccCCCCcCcccchHHHHhhchhHHHHHHHhcccCc
Confidence 57888888888888888888776667777789999999999999999999998899999999999999998888888665
Q ss_pred --HHHHHHHHHHHHcCCCCCcchHHHHHHHHHHHHHHHHHHhhhhhccccCccccccCCCCcchhhhhccCCCccccccc
Q 022438 180 --RIQLETSRLYRQAGVNPLAGCLPTLATIPVWIGLYQALSNVANEGLLTEGFFWIPSLSGPTTIAARQSGSGISWLLPF 257 (297)
Q Consensus 180 --~~q~E~~~LyKk~gvnPl~gcLp~LiQiPIfi~lf~~Lr~m~~~~l~~~gflW~~dLs~pDp~~~~~~g~~~~~~~p~ 257 (297)
.+|.++.++|+-.|++.+.+|....+-++..+..|.+.++ .+....+.+++|++.+..+-..++++.+.+++|.+++
T Consensus 84 ~~~lq~~l~~~h~~~g~pww~~i~~~t~~ir~~i~~~~~~~~-~~~akls~~~~~mp~~~~~l~~a~~~~~~~~~~q~~~ 162 (372)
T KOG1239|consen 84 VATLQNELERLHVYSGLPWWASIVATTVLIRSLITPLLTNSQ-KNEAKLSKIFPEMPSLGEELGEAAQDNNALLSWQEEQ 162 (372)
T ss_pred hhHHHHHHHHHHHHhCCcchHHHHHhHhhHhhhhhhHHHhhh-hHHHHHhhcCcccHHHHHHHHhhhccccchHHHHHHH
Confidence 8999999999999999999999999999999999999986 5556678899999999888878888888889999999
Q ss_pred cCCCCCCCCc-chhhHHHHHHHHHHHHHHHhhhcCCCCC
Q 022438 258 VDGHPPLGWH-DTAAYLVLPVLLVVSQYASMELMKPPQA 295 (297)
Q Consensus 258 ~~~~~~~gw~-~~~~y~ILPil~~~s~~ls~kl~~~~~~ 295 (297)
.+++.+-||. +...+.+++....+++|+..+.|..|..
T Consensus 163 ~~l~~~~~v~~~~l~~~v~q~~l~~sff~air~ma~~v~ 201 (372)
T KOG1239|consen 163 KLLVKKYGVKPKQLALPVVQGPLFISFFMAIRVMAVPVP 201 (372)
T ss_pred HhhhhhcCCCcchhhhhhhcchhHHHHHHHHHHhhcccc
Confidence 8998888998 8889999999999999999999986654
No 17
>COG1422 Predicted membrane protein [Function unknown]
Probab=97.68 E-value=0.00045 Score=62.69 Aligned_cols=92 Identities=15% Similarity=0.161 Sum_probs=59.8
Q ss_pred cchHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhhc-----CH---HHHHHHHHHHHHHcCCCCCcch
Q 022438 129 YSYGFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYAG-----NQ---ERIQLETSRLYRQAGVNPLAGC 200 (297)
Q Consensus 129 ~~Wg~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk~-----D~---q~~q~E~~~LyKk~gvnPl~gc 200 (297)
.+.-++|.++.+++=+.+ -+.-+-....+||+++|.+++|.||++++ |. +|+|+|++|+..+..--..-.+
T Consensus 44 ~~p~lvilV~avi~gl~~-~i~~~~liD~ekm~~~qk~m~efq~e~~eA~~~~d~~~lkkLq~~qmem~~~Q~elmk~qf 122 (201)
T COG1422 44 LPPHLVILVAAVITGLYI-TILQKLLIDQEKMKELQKMMKEFQKEFREAQESGDMKKLKKLQEKQMEMMDDQRELMKMQF 122 (201)
T ss_pred cccHHHHHHHHHHHHHHH-HHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 566677777777765432 22233345678999999999999998875 42 3566666555554432222245
Q ss_pred HHHHHHHHHHHHHHHHHHhhh
Q 022438 201 LPTLATIPVWIGLYQALSNVA 221 (297)
Q Consensus 201 Lp~LiQiPIfi~lf~~Lr~m~ 221 (297)
-||+.++++.|-+|.-+|...
T Consensus 123 kPM~~~~v~tI~~F~Wl~~~~ 143 (201)
T COG1422 123 KPMLYISVLTIPFFAWLRWFV 143 (201)
T ss_pred hhHHHHHHHHHHHHHHHHHHH
Confidence 688888888777777777654
No 18
>PF01956 DUF106: Integral membrane protein DUF106; InterPro: IPR002809 This entry represents a group of eukaryotic and archaeal proteins that have no known function. Members are predicted to be integral membrane proteins.; GO: 0016020 membrane
Probab=91.70 E-value=0.8 Score=39.78 Aligned_cols=89 Identities=11% Similarity=0.164 Sum_probs=39.6
Q ss_pred chHHHHHHHHHHHHHHhhhccHH-----HHHHHHHHHhccHHHHHHHHHhhc-CHHHHHHHHHHHHHHcCCCCCcchHHH
Q 022438 130 SYGFAIILLTVIVKVATFPLTKK-----QVESTLAMQNLQPKIKAIQQRYAG-NQERIQLETSRLYRQAGVNPLAGCLPT 203 (297)
Q Consensus 130 ~Wg~aIIllTI~VRlillPL~i~-----q~rss~Km~~lqPel~~Iqekyk~-D~q~~q~E~~~LyKk~gvnPl~gcLp~ 203 (297)
|.-+.|+++.++.-++.-=+... ..+.+.++++++-+.++++++... ..++.+++.+++.++..--....+-|+
T Consensus 14 P~~i~v~~~~~~~~~~s~l~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~mK~~ 93 (168)
T PF01956_consen 14 PITIVVFLIAILRGLISELLQKFLIDRKMDKYQKRMKEFQKRYRELRKNGDFKKPKKLEKRQMELMEKQQEMMMMMMKPM 93 (168)
T ss_pred CHHHHHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHHHHcCCccCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 55555555555555433222221 233445555566666666554332 234455444444443221122223344
Q ss_pred H----HHHHHHHHHHHHHH
Q 022438 204 L----ATIPVWIGLYQALS 218 (297)
Q Consensus 204 L----iQiPIfi~lf~~Lr 218 (297)
+ +|+++|..+++...
T Consensus 94 ~~~~v~~i~i~~wi~~~f~ 112 (168)
T PF01956_consen 94 FVTMVPQIPIFYWINYFFS 112 (168)
T ss_pred HHHHHHHHHHHHHHHHHhh
Confidence 4 45555554444444
No 19
>TIGR03593 yidC_nterm membrane protein insertase, YidC/Oxa1 family, N-terminal domain. Essentially all bacteria have a member of the YidC family, whose C-terminal domain is modeled by TIGR03592. The two copies are found in endospore-forming bacteria such as Bacillus subtilis appear redundant during vegetative growth, although the member designated spoIIIJ (stage III sporulation protein J) has a distinct role in spore formation. YidC, its mitochondrial homolog Oxa1, and its chloroplast homolog direct insertion into the bacterial/organellar inner (or only) membrane. This model describes an N-terminal sequence region, including a large periplasmic domain lacking in YidC members from Gram-positive species. The multifunctional YidC protein acts both with and independently of the Sec system.
Probab=83.64 E-value=0.84 Score=44.25 Aligned_cols=24 Identities=21% Similarity=0.563 Sum_probs=22.1
Q ss_pred cCCCchHHHHHHHHHHHHHHHHhh
Q 022438 99 KNGGWFGFISEAMEFVLKILKDGI 122 (297)
Q Consensus 99 ~~gGw~~~i~~p~~~vL~~lh~~l 122 (297)
-|+||+.+|+.|+-++|+++|.++
T Consensus 342 VDyGw~~~iakPlf~lL~~~~~~v 365 (366)
T TIGR03593 342 VDYGWLWFIAKPLFWLLDFFHSLV 365 (366)
T ss_pred EeeecHHHHHHHHHHHHHHHHHhc
Confidence 579999999999999999999865
No 20
>COG1422 Predicted membrane protein [Function unknown]
Probab=76.98 E-value=55 Score=30.13 Aligned_cols=65 Identities=17% Similarity=0.196 Sum_probs=45.3
Q ss_pred HHHHHHHhccHHHHHHHH--------HhhcCHHHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHHHHHHHHHhhhh
Q 022438 155 ESTLAMQNLQPKIKAIQQ--------RYAGNQERIQLETSRLYRQAGVNPLAGCLPTLATIPVWIGLYQALSNVAN 222 (297)
Q Consensus 155 rss~Km~~lqPel~~Iqe--------kyk~D~q~~q~E~~~LyKk~gvnPl~gcLp~LiQiPIfi~lf~~Lr~m~~ 222 (297)
+-+..|++.|.|.+|.+| |.++.++++.+.+.+++|..=- |+. .-..+.+|+|.-+++-++....
T Consensus 76 ~~qk~m~efq~e~~eA~~~~d~~~lkkLq~~qmem~~~Q~elmk~qfk-PM~--~~~v~tI~~F~Wl~~~~~~~~~ 148 (201)
T COG1422 76 ELQKMMKEFQKEFREAQESGDMKKLKKLQEKQMEMMDDQRELMKMQFK-PML--YISVLTIPFFAWLRWFVGTGGY 148 (201)
T ss_pred HHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHhhh-hHH--HHHHHHHHHHHHHHHHHccCcc
Confidence 445577788888888775 3344566777777777776533 543 2345689999999999998754
No 21
>PF09973 DUF2208: Predicted membrane protein (DUF2208); InterPro: IPR009198 There are currently no experimental data for members of this group or their homologues. However, these proteins are predicted to contain three or more transmembrane segments.
Probab=75.84 E-value=15 Score=34.36 Aligned_cols=85 Identities=13% Similarity=0.200 Sum_probs=45.2
Q ss_pred CCcchHHHHHHHHHHHHHHhhhccHHHHH-HHHHHHhc---cHHHHH--HHHHhhcCHHHHHHHHHHHHHHcCCCCCcch
Q 022438 127 VPYSYGFAIILLTVIVKVATFPLTKKQVE-STLAMQNL---QPKIKA--IQQRYAGNQERIQLETSRLYRQAGVNPLAGC 200 (297)
Q Consensus 127 ~~~~Wg~aIIllTI~VRlillPL~i~q~r-ss~Km~~l---qPel~~--Iqekyk~D~q~~q~E~~~LyKk~gvnPl~gc 200 (297)
.|..||..+++-.++.=.+++-.+.++.+ ..+.++++ +|-.+| ..|-...| +++++|+++..|.. +
T Consensus 21 ~p~y~~~~filYfiv~~~i~~~~~~Rs~rr~~~~~~Ei~~g~~L~eEk~~~kl~~kD-~el~~E~~~~~k~~-------~ 92 (233)
T PF09973_consen 21 FPQYYFEVFILYFIVFFGIMIVMGIRSYRRGRKPRSEISKGRPLFEEKNANKLMEKD-KELQKEYKKQMKAS-------M 92 (233)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHhhhhccCCcccHHHHhcCCcccccccHHHHHHhC-HHHHHHHHHHHHHH-------H
Confidence 35567787777777777777777766666 11122221 121210 01111112 45667888877754 3
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 022438 201 LPTLATIPVWIGLYQALSNV 220 (297)
Q Consensus 201 Lp~LiQiPIfi~lf~~Lr~m 220 (297)
+++ +-+|+++.++..+++.
T Consensus 93 ~~l-l~~~i~ii~~~~~~~~ 111 (233)
T PF09973_consen 93 MNL-LILPIYIILFFLLYPY 111 (233)
T ss_pred HHH-HHHHHHHHHHHHHHHh
Confidence 333 3466777666666543
No 22
>PF05280 FlhC: Flagellar transcriptional activator (FlhC); InterPro: IPR007944 This family consists of several bacterial flagellar transcriptional activator (FlhC) proteins. FlhC combines with FlhD to form a regulatory complex in Escherichia coli, this complex has been shown to be a global regulator involved in many cellular processes as well as a flagellar transcriptional activator [].; GO: 0003677 DNA binding, 0030092 regulation of flagellum assembly, 0045893 positive regulation of transcription, DNA-dependent; PDB: 2AVU_E.
Probab=74.14 E-value=5.3 Score=35.73 Aligned_cols=39 Identities=31% Similarity=0.571 Sum_probs=24.6
Q ss_pred HHHHHHHHHH-cCCCCCcchHHHH----------HHHHHHHHHHHHHHhh
Q 022438 182 QLETSRLYRQ-AGVNPLAGCLPTL----------ATIPVWIGLYQALSNV 220 (297)
Q Consensus 182 q~E~~~LyKk-~gvnPl~gcLp~L----------iQiPIfi~lf~~Lr~m 220 (297)
+.++.+|||| +|++|-+|.+|.- ++.-+|+.+|+.+++.
T Consensus 37 ~~rl~~Lykel~G~sppkG~lP~S~~wf~t~~~~ihaSlf~~lY~~l~~~ 86 (175)
T PF05280_consen 37 RERLRRLYKELHGVSPPKGMLPFSTDWFMTWQPNIHASLFMNLYRFLRKN 86 (175)
T ss_dssp HHHHHHHHHHHCSS----S-----THHHHSCHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHcCCCCCCCCCCCchhHHhcchHHHHHHHHHHHHHHHHhc
Confidence 3467899999 8999999998742 6888899999988853
No 23
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=59.76 E-value=61 Score=28.70 Aligned_cols=43 Identities=12% Similarity=0.254 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHhhhccHHHHHHHH--------HHHhccHHHHHHHHHhhc
Q 022438 134 AIILLTVIVKVATFPLTKKQVESTL--------AMQNLQPKIKAIQQRYAG 176 (297)
Q Consensus 134 aIIllTI~VRlillPL~i~q~rss~--------Km~~lqPel~~Iqekyk~ 176 (297)
+.+++.++++-+++|...+.....+ ...+.+-+.++++++|+.
T Consensus 40 ~F~iL~~ll~k~l~~PI~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~eye~ 90 (181)
T PRK13454 40 TLVAIYFVLTRVALPRIGAVLAERQGTITNDLAAAEELKQKAVEAEKAYNK 90 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555556556664443332221 223355555666666653
No 24
>PRK12772 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional
Probab=58.18 E-value=27 Score=36.98 Aligned_cols=23 Identities=9% Similarity=0.367 Sum_probs=12.8
Q ss_pred HHHHHHhhc---CHH---HHHHHHHHHHH
Q 022438 168 KAIQQRYAG---NQE---RIQLETSRLYR 190 (297)
Q Consensus 168 ~~Iqekyk~---D~q---~~q~E~~~LyK 190 (297)
+|+|++||+ |+| |.+|.++|+.+
T Consensus 481 qEvK~E~Ke~EGdP~iK~r~R~~~re~~~ 509 (609)
T PRK12772 481 QEVKEEYKQDEGDPQIKAKIKQKQREMAM 509 (609)
T ss_pred HHHHHHHHhccCCHHHHHHHHHHHHHHHH
Confidence 666777775 665 33344444444
No 25
>PF09958 DUF2192: Uncharacterized protein conserved in archaea (DUF2192); InterPro: IPR018693 This family of various hypothetical archaeal proteins has no known function.
Probab=54.63 E-value=22 Score=33.40 Aligned_cols=44 Identities=16% Similarity=0.271 Sum_probs=30.7
Q ss_pred HHhccHHHHHHHHHhhcCHHHHHHHHHHHHHHcCCCCCcchHHH
Q 022438 160 MQNLQPKIKAIQQRYAGNQERIQLETSRLYRQAGVNPLAGCLPT 203 (297)
Q Consensus 160 m~~lqPel~~Iqekyk~D~q~~q~E~~~LyKk~gvnPl~gcLp~ 203 (297)
.+.+---+.++-++-.-|++++-..+++.|+++|+.|++|.-|.
T Consensus 10 I~va~~l~~~il~~~~~~R~~lv~~L~~~Y~~~gIeP~RG~s~~ 53 (231)
T PF09958_consen 10 IEVATDLWSRILRGEVLDREELVELLREVYEENGIEPFRGLSPP 53 (231)
T ss_pred HHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHcCCCcCCCCCcc
Confidence 33333344444444222788999999999999999999997653
No 26
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=54.02 E-value=52 Score=28.47 Aligned_cols=37 Identities=19% Similarity=0.277 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhhc
Q 022438 132 GFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYAG 176 (297)
Q Consensus 132 g~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk~ 176 (297)
.++|++..+++|+ +- ++.++.+++|-||++.|.++.+
T Consensus 16 vvGi~IG~li~Rl-----t~---~~~k~q~~~q~ELe~~K~~ld~ 52 (138)
T COG3105 16 VVGIIIGALIARL-----TN---RKLKQQQKLQYELEKVKAQLDE 52 (138)
T ss_pred HHHHHHHHHHHHH-----cc---hhhhhHHHHHHHHHHHHHHHHH
Confidence 4456666666665 22 2333334556677777665543
No 27
>TIGR01404 FlhB_rel_III type III secretion protein, YscU/HrpY 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 FlhB (TIGRFAMs model TIGR00328). This model may not identify all type III secretion system FlhB homologs.
Probab=53.58 E-value=41 Score=33.06 Aligned_cols=24 Identities=8% Similarity=0.279 Sum_probs=12.7
Q ss_pred HHHHHHhhc---CHH---HHHHHHHHHHHH
Q 022438 168 KAIQQRYAG---NQE---RIQLETSRLYRQ 191 (297)
Q Consensus 168 ~~Iqekyk~---D~q---~~q~E~~~LyKk 191 (297)
+|+|++||+ |++ |.++.++++.++
T Consensus 217 qEvKdE~Ke~EGdP~iK~r~R~~~re~~~~ 246 (342)
T TIGR01404 217 DEVKREYKEQEGDPEIKSKRRELHQEILSE 246 (342)
T ss_pred HHHHHHHHhccCCHHHHHHHHHHHHHHHHh
Confidence 556667764 765 344444444443
No 28
>PRK09108 type III secretion system protein HrcU; Validated
Probab=52.62 E-value=44 Score=33.02 Aligned_cols=12 Identities=0% Similarity=0.169 Sum_probs=7.8
Q ss_pred HHHHHHhhc---CHH
Q 022438 168 KAIQQRYAG---NQE 179 (297)
Q Consensus 168 ~~Iqekyk~---D~q 179 (297)
+|+|++||+ |++
T Consensus 220 qEvK~E~K~~EGdP~ 234 (353)
T PRK09108 220 DEVKREHKESEGDPH 234 (353)
T ss_pred HHHHHHHHhccCCHH
Confidence 566667775 765
No 29
>PRK12721 secretion system apparatus protein SsaU; Reviewed
Probab=51.45 E-value=29 Score=34.27 Aligned_cols=28 Identities=18% Similarity=0.485 Sum_probs=14.9
Q ss_pred hhccHHHHHHHHHHHhccHHHHHHHHHhhc---CHH
Q 022438 147 FPLTKKQVESTLAMQNLQPKIKAIQQRYAG---NQE 179 (297)
Q Consensus 147 lPL~i~q~rss~Km~~lqPel~~Iqekyk~---D~q 179 (297)
++...++.....||.. +|+|++||+ |+|
T Consensus 202 ~~~qr~~~~k~lkMsk-----qEvKdE~Ke~EGdP~ 232 (349)
T PRK12721 202 YSFQRYKIMKQLKMSK-----DDVKQEYKDSEGDPE 232 (349)
T ss_pred HHHHHHHHHHHCCCCH-----HHHHHHHHhccCCHH
Confidence 4444444444444432 566667775 765
No 30
>TIGR00328 flhB flagellar biosynthetic protein FlhB. FlhB and its functionally equivalent orthologs, from among a larger superfamily of proteins involved in type III protein export systems, are specifically involved in flagellar protein export. The seed members are restricted and the trusted cutoff is set high such that the proteins gathered by this model play roles specifically related to flagellar structures. Full-length homologs scoring below the trusted cutoff are involved in peptide export but not necessarily in the creation of flagella.
Probab=50.85 E-value=46 Score=32.80 Aligned_cols=12 Identities=8% Similarity=0.324 Sum_probs=7.9
Q ss_pred HHHHHHhhc---CHH
Q 022438 168 KAIQQRYAG---NQE 179 (297)
Q Consensus 168 ~~Iqekyk~---D~q 179 (297)
+|+|++||+ |++
T Consensus 218 qEVKdE~K~~EGdP~ 232 (347)
T TIGR00328 218 QEVKDELKQSEGDPE 232 (347)
T ss_pred HHHHHHHHhccCCHH
Confidence 666667775 665
No 31
>COG1377 FlhB Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=48.63 E-value=69 Score=32.01 Aligned_cols=28 Identities=18% Similarity=0.299 Sum_probs=15.0
Q ss_pred hhccHHHHHHHHHHHhccHHHHHHHHHhhc---CHH
Q 022438 147 FPLTKKQVESTLAMQNLQPKIKAIQQRYAG---NQE 179 (297)
Q Consensus 147 lPL~i~q~rss~Km~~lqPel~~Iqekyk~---D~q 179 (297)
++....+....-||. -+|++++||+ |++
T Consensus 209 ~~~qr~~~~k~lkMt-----KqEVKdE~K~sEGdPe 239 (363)
T COG1377 209 YFYQRFQYIKKLKMT-----KQEVKDEYKQSEGDPE 239 (363)
T ss_pred HHHHHHHHHHHccCc-----HHHHHHHHhhccCChh
Confidence 444444444444443 3666677775 655
No 32
>KOG4075 consensus Cytochrome c oxidase, subunit IV/COX5b [Energy production and conversion]
Probab=48.16 E-value=44 Score=29.92 Aligned_cols=61 Identities=20% Similarity=0.363 Sum_probs=43.5
Q ss_pred HHHHhccHHHHHHHHHhhcCHHHH-HHHHHHHHH----------HcCCCCCc---chHHHHHHHHHHHHHHHHHH
Q 022438 158 LAMQNLQPKIKAIQQRYAGNQERI-QLETSRLYR----------QAGVNPLA---GCLPTLATIPVWIGLYQALS 218 (297)
Q Consensus 158 ~Km~~lqPel~~Iqekyk~D~q~~-q~E~~~LyK----------k~gvnPl~---gcLp~LiQiPIfi~lf~~Lr 218 (297)
.+..+.++++++|+||-|.|-..+ ..|.+++|+ +.+.|-++ ||.-.|+=+-+++++|.-+|
T Consensus 49 ~~~~e~~~~~~aL~eKek~~Wk~LS~~EKkalYrisF~et~ae~~~~~~ewKtv~g~~~~f~Gl~~~v~l~~~v~ 123 (167)
T KOG4075|consen 49 IRFRELSAEIKALREKEKAPWKQLSTEEKKALYRISFGETFAERNRGSNEWKTVFGVAGFFLGLTISVILFGKVR 123 (167)
T ss_pred hhhhcccHHHHHHHHHhcCChhhcCHHHHHHHHHHHhccccccccCCCCcccchhhHHHHHHHHHHHHHHHHhhe
Confidence 345688899999999999875544 356677776 23444455 44567777888888888887
No 33
>PF05190 MutS_IV: MutS family domain IV C-terminus.; InterPro: IPR007861 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication []. MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base []. MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch []. MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level []. Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure [], and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein [].This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions []. Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts []. This entry represents the clamp domain (domain 4) found in proteins of the MutS family. The clamp domain is inserted within the core domain at the top of the lever helices. It has a beta-sheet structure [].; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 2WTU_A 1OH7_A 1OH5_B 1W7A_B 1NG9_A 1OH8_B 1WBD_A 1WB9_A 3K0S_A 1OH6_A ....
Probab=47.99 E-value=29 Score=26.18 Aligned_cols=36 Identities=11% Similarity=0.355 Sum_probs=29.5
Q ss_pred ccHHHHHHHHHhhcCHHHHHHHHHHHHHHcCCCCCc
Q 022438 163 LQPKIKAIQQRYAGNQERIQLETSRLYRQAGVNPLA 198 (297)
Q Consensus 163 lqPel~~Iqekyk~D~q~~q~E~~~LyKk~gvnPl~ 198 (297)
.-|++++++++|++-.+.++....++-++.+++.++
T Consensus 2 ~d~~Ld~~~~~~~~~~~~l~~~~~~~~~~~~~~~lk 37 (92)
T PF05190_consen 2 FDEELDELREEYEEIEEELEELLEEIRKKLGIPSLK 37 (92)
T ss_dssp SSHHHHHHHHHHHHHHHHHHHHHHHHHHHCT-TTBE
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcEE
Confidence 358899999999988888888899999999996654
No 34
>PRK08156 type III secretion system protein SpaS; Validated
Probab=47.88 E-value=55 Score=32.55 Aligned_cols=23 Identities=13% Similarity=0.345 Sum_probs=12.2
Q ss_pred HHHHHHhhc---CHH---HHHHHHHHHHH
Q 022438 168 KAIQQRYAG---NQE---RIQLETSRLYR 190 (297)
Q Consensus 168 ~~Iqekyk~---D~q---~~q~E~~~LyK 190 (297)
+|+|++||+ |++ |.++.++++.+
T Consensus 213 qEvKdE~Ke~EGdP~iK~r~R~~~re~a~ 241 (361)
T PRK08156 213 QEVKREYKEQEGNPEIKSKRREAHQEILS 241 (361)
T ss_pred HHHHHHHHhccCCHHHHHHHHHHHHHHHH
Confidence 566667775 765 33333444443
No 35
>PRK13109 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=47.20 E-value=62 Score=32.10 Aligned_cols=12 Identities=8% Similarity=0.194 Sum_probs=7.9
Q ss_pred HHHHHHhhc---CHH
Q 022438 168 KAIQQRYAG---NQE 179 (297)
Q Consensus 168 ~~Iqekyk~---D~q 179 (297)
+|+|++||+ |++
T Consensus 227 qEVKdE~Ke~EGdP~ 241 (358)
T PRK13109 227 QEIKDEHKQAEGDPS 241 (358)
T ss_pred HHHHHHHHhccCCHH
Confidence 666667775 765
No 36
>PRK05702 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=46.16 E-value=63 Score=32.04 Aligned_cols=12 Identities=8% Similarity=0.263 Sum_probs=8.0
Q ss_pred HHHHHHhhc---CHH
Q 022438 168 KAIQQRYAG---NQE 179 (297)
Q Consensus 168 ~~Iqekyk~---D~q 179 (297)
+|+|++||+ |++
T Consensus 225 qEVKdE~Ke~EGdP~ 239 (359)
T PRK05702 225 QEVKDEHKQSEGDPE 239 (359)
T ss_pred HHHHHHHHhccCCHH
Confidence 566667775 765
No 37
>PRK12468 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=45.59 E-value=66 Score=32.26 Aligned_cols=23 Identities=17% Similarity=0.440 Sum_probs=11.9
Q ss_pred HHHHHHhhc---CHH---HHHHHHHHHHH
Q 022438 168 KAIQQRYAG---NQE---RIQLETSRLYR 190 (297)
Q Consensus 168 ~~Iqekyk~---D~q---~~q~E~~~LyK 190 (297)
+|+|++||+ |++ |.++.++++.+
T Consensus 225 qEvKdE~K~~EGdP~iK~r~Rq~~re~a~ 253 (386)
T PRK12468 225 QDIRDEFKNQEGDPHVKGRIRQQQRAMAR 253 (386)
T ss_pred HHHHHHHHhccCCHHHHHHHHHHHHHHHH
Confidence 556666764 765 33333444444
No 38
>PF14335 DUF4391: Domain of unknown function (DUF4391)
Probab=45.03 E-value=34 Score=31.19 Aligned_cols=39 Identities=13% Similarity=0.335 Sum_probs=30.3
Q ss_pred HHHHHHHHHhccHHHHHHHHHhhcC-----HHHHHHHHHHHHHH
Q 022438 153 QVESTLAMQNLQPKIKAIQQRYAGN-----QERIQLETSRLYRQ 191 (297)
Q Consensus 153 q~rss~Km~~lqPel~~Iqekyk~D-----~q~~q~E~~~LyKk 191 (297)
......++.+++-|+++++++.+.. +-+++.|++++.+|
T Consensus 177 ~~~~~~~i~~L~kei~~L~~~~~kEkq~nrkveln~elk~l~~e 220 (221)
T PF14335_consen 177 RIERLEQIEKLEKEIAKLKKKIKKEKQFNRKVELNTELKKLKKE 220 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhc
Confidence 3455678888999999999998863 33788888888875
No 39
>PF01988 VIT1: VIT family; InterPro: IPR008217 Proteins containing this entry have no known function and are predicted to be integral membrane proteins. They include the Ccc1 protein from Saccharomyces cerevisiae (Baker's yeast) (P47818 from SWISSPROT) that may have a role in regulating calcium levels [].
Probab=44.54 E-value=1.9e+02 Score=26.06 Aligned_cols=23 Identities=26% Similarity=0.437 Sum_probs=12.0
Q ss_pred HhhcCHHHHHHHHHHHHHHcCCC
Q 022438 173 RYAGNQERIQLETSRLYRQAGVN 195 (297)
Q Consensus 173 kyk~D~q~~q~E~~~LyKk~gvn 195 (297)
+..+++|+-.+|+.++|+++|++
T Consensus 73 e~~~~pe~e~~el~~iy~~~Gl~ 95 (213)
T PF01988_consen 73 ELENNPEEEKEELVEIYRAKGLS 95 (213)
T ss_pred HHHhChHhHHHHHHHHHHHCCCC
Confidence 33445555555555555555544
No 40
>PF06472 ABC_membrane_2: ABC transporter transmembrane region 2; InterPro: IPR010509 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This region covers the N terminus and first two membrane regions of a small family of ABC transporters. Mutations in this domain in P28288 from SWISSPROT are believed responsible for Zellweger Syndrome-2 []; mutations in P33897 from SWISSPROT are responsible for recessive X-linked adrenoleukodystrophy []. A Saccharomyces cerevisiae protein containing this domain is involved in the import of long-chain fatty acids [].; GO: 0006810 transport, 0016020 membrane
Probab=44.42 E-value=1.2e+02 Score=28.49 Aligned_cols=37 Identities=19% Similarity=0.209 Sum_probs=29.1
Q ss_pred HHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHH
Q 022438 136 ILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQ 172 (297)
Q Consensus 136 IllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqe 172 (297)
++.|++.+.+-=|+.-...+.+++-++.+-.+..+++
T Consensus 181 ~~~t~~~~~ig~~l~~l~~~~q~~Ea~fR~~l~r~r~ 217 (281)
T PF06472_consen 181 ILGTLITHWIGPPLGRLNAEQQRLEADFRYALVRLRE 217 (281)
T ss_pred HHHHHHHHHHhhhhHHHHHHHHHhhchHHHHHHHHHH
Confidence 5677788888888888888888888887777766654
No 41
>PRK06298 type III secretion system protein; Validated
Probab=44.28 E-value=67 Score=31.82 Aligned_cols=23 Identities=17% Similarity=0.232 Sum_probs=12.2
Q ss_pred HHHHHHhhc---CHH---HHHHHHHHHHH
Q 022438 168 KAIQQRYAG---NQE---RIQLETSRLYR 190 (297)
Q Consensus 168 ~~Iqekyk~---D~q---~~q~E~~~LyK 190 (297)
+|+|++||+ |++ |.++.++++.+
T Consensus 219 qEvKdE~K~~EGdP~iK~rrR~~~re~~~ 247 (356)
T PRK06298 219 FEVKQEFKDTEGNPEIKGRRRQIAQEIAY 247 (356)
T ss_pred HHHHHHHHhccCCHHHHHHHHHHHHHHHH
Confidence 566667775 765 33333444443
No 42
>PHA01750 hypothetical protein
Probab=43.67 E-value=1.4e+02 Score=23.10 Aligned_cols=47 Identities=11% Similarity=0.188 Sum_probs=24.5
Q ss_pred hhhccHHHHHHHHHHHhccHHHHHHHHHhhc---CHHHHHHHHHHHHHHc
Q 022438 146 TFPLTKKQVESTLAMQNLQPKIKAIQQRYAG---NQERIQLETSRLYRQA 192 (297)
Q Consensus 146 llPL~i~q~rss~Km~~lqPel~~Iqekyk~---D~q~~q~E~~~LyKk~ 192 (297)
-+-+-++|.-.-+--.-.|.|++.++.+..+ .+..++++.+++-|+-
T Consensus 23 qlYlKIKq~lkdAvkeIV~~ELdNL~~ei~~~kikqDnl~~qv~eik~k~ 72 (75)
T PHA01750 23 QLYLKIKQALKDAVKEIVNSELDNLKTEIEELKIKQDELSRQVEEIKRKL 72 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Confidence 3444455654444444455555555444432 2334667777776654
No 43
>cd02434 Nodulin-21_like_3 Nodulin-21 and CCC1-related protein family. Nodulin-21_like_3: This is a family of proteins closely related to nodulin-21, a plant nodule-specific protein that may be involved in symbiotic nitrogen fixation. This family is also related to CCC1, a yeast vacuole transmembrane protein that functions as an iron and manganese transporter.
Probab=43.21 E-value=34 Score=31.47 Aligned_cols=21 Identities=19% Similarity=0.265 Sum_probs=9.6
Q ss_pred hhcCHHHHHHHHHHHHHHcCC
Q 022438 174 YAGNQERIQLETSRLYRQAGV 194 (297)
Q Consensus 174 yk~D~q~~q~E~~~LyKk~gv 194 (297)
.++++|+-++|+.++|+++|.
T Consensus 75 i~~~pe~E~~el~~iy~~kG~ 95 (225)
T cd02434 75 IENYPEGEKSEMVEIYSLKGL 95 (225)
T ss_pred HHhCcHHHHHHHHHHHHHcCC
Confidence 334444444445555544443
No 44
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=42.30 E-value=1.5e+02 Score=25.98 Aligned_cols=18 Identities=22% Similarity=0.253 Sum_probs=9.0
Q ss_pred HHHHHHHHHHhhhccHHH
Q 022438 136 ILLTVIVKVATFPLTKKQ 153 (297)
Q Consensus 136 IllTI~VRlillPL~i~q 153 (297)
+++.++++-+++|...+.
T Consensus 29 liL~~lL~~~l~~pi~~~ 46 (173)
T PRK13453 29 IVLLALLKKFAWGPLKDV 46 (173)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 444455555555555443
No 45
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms]
Probab=42.24 E-value=69 Score=29.36 Aligned_cols=49 Identities=14% Similarity=0.290 Sum_probs=34.6
Q ss_pred hhhccHHHHHHHHHHHhccHHHHHHHHHhhcCHHHHHHHHHHHHHHcCCC
Q 022438 146 TFPLTKKQVESTLAMQNLQPKIKAIQQRYAGNQERIQLETSRLYRQAGVN 195 (297)
Q Consensus 146 llPL~i~q~rss~Km~~lqPel~~Iqekyk~D~q~~q~E~~~LyKk~gvn 195 (297)
++|.--.++.+-..++.++-|++++|+|..+ ++...+..-=|+++||++
T Consensus 113 l~p~L~vA~srf~~~~~L~~el~~~k~~L~~-rK~ierAKglLM~~~g~s 161 (194)
T COG3707 113 LLPILDVAVSRFEERRALRRELAKLKDRLEE-RKVIERAKGLLMKRRGLS 161 (194)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhCCC
Confidence 4455555667777888888999999988866 445555555677777775
No 46
>PF05752 Calici_MSP: Calicivirus minor structural protein; InterPro: IPR008437 This family consists of minor structural proteins largely from the Caliciviridaei family of viruses, including Sapporo virus (Hu/Chiba/041413/2004/JP) and Sapporo virus (Hu/Ehime/04-1680/2004/JP). These viruses cause gastroenteritis. The function of this family is unknown.
Probab=41.67 E-value=55 Score=29.30 Aligned_cols=43 Identities=23% Similarity=0.301 Sum_probs=29.9
Q ss_pred HHHHHHHHHhccHHHHHHHHHhhcCHHHHHHHHHHHHHHcCCC
Q 022438 153 QVESTLAMQNLQPKIKAIQQRYAGNQERIQLETSRLYRQAGVN 195 (297)
Q Consensus 153 q~rss~Km~~lqPel~~Iqekyk~D~q~~q~E~~~LyKk~gvn 195 (297)
.+.-..|+-+++.+-.+|++++-+.+|+++++.+++-++--+|
T Consensus 23 nIV~qqrqv~~~~~Qn~lqq~w~~kqe~Lq~~~~dls~~La~n 65 (167)
T PF05752_consen 23 NIVAQQRQVDQLEKQNQLQQQWMNKQEQLQRRQQDLSRDLAVN 65 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 4444555555556667777777777788888888887776665
No 47
>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]
Probab=41.55 E-value=1.4e+02 Score=29.53 Aligned_cols=90 Identities=16% Similarity=0.240 Sum_probs=60.6
Q ss_pred CCCchHHHHHHHHHHHHHHHHhhhcccCC--cchHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhhc-
Q 022438 100 NGGWFGFISEAMEFVLKILKDGIDAVHVP--YSYGFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYAG- 176 (297)
Q Consensus 100 ~gGw~~~i~~p~~~vL~~lh~~l~~~g~~--~~Wg~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk~- 176 (297)
+.++++.+++-|+..|+-++..+..++.. ...|..=.+..|- ..--.+..+-+|+.++.++.-+.
T Consensus 217 ~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~ddf~~av~------------~~vdEy~~~ykp~~Ek~k~~k~~~ 284 (366)
T KOG1532|consen 217 ESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGFDDFFTAVD------------ESVDEYEEEYKPEYEKKKAEKRLA 284 (366)
T ss_pred ccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcHHHHHHHHH------------HHHHHHHHHhhhHHHHHHHHHHHH
Confidence 56788888888999999898887766531 2344443333221 22346778889998877654433
Q ss_pred CHHHHHHHHHHHHHHcCCCCCcchH
Q 022438 177 NQERIQLETSRLYRQAGVNPLAGCL 201 (297)
Q Consensus 177 D~q~~q~E~~~LyKk~gvnPl~gcL 201 (297)
+.++.++++.++.|.-+++++++-.
T Consensus 285 ee~~k~k~le~l~kdm~~~~~~~d~ 309 (366)
T KOG1532|consen 285 EEERKKKQLEKLMKDMHVSPLKNDV 309 (366)
T ss_pred HHHhhhhhHHHHHhccCcccccCCC
Confidence 3445566788999999999986543
No 48
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=39.99 E-value=2.1e+02 Score=26.06 Aligned_cols=44 Identities=14% Similarity=0.185 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHhhhccHHHHHHHH--------HHHhccHHHHHHHHHhhc
Q 022438 133 FAIILLTVIVKVATFPLTKKQVESTL--------AMQNLQPKIKAIQQRYAG 176 (297)
Q Consensus 133 ~aIIllTI~VRlillPL~i~q~rss~--------Km~~lqPel~~Iqekyk~ 176 (297)
++.+++.++++-+++|...+-....+ .-.+.+-+.++++++|+.
T Consensus 61 I~FliL~~lL~k~~~~pI~~vLe~R~~~I~~~L~~Ae~~k~eAe~~~~~ye~ 112 (204)
T PRK09174 61 ITFGLFYLFMSRVILPRIGGIIETRRDRIAQDLDQAARLKQEADAAVAAYEQ 112 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555666666666665443332221 122244555556666653
No 49
>PF06695 Sm_multidrug_ex: Putative small multi-drug export protein; InterPro: IPR009577 This family contains a small number of putative small multi-drug export proteins.
Probab=39.83 E-value=1.5e+02 Score=24.65 Aligned_cols=61 Identities=15% Similarity=0.158 Sum_probs=30.2
Q ss_pred CcchHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhhcCHHHHHHHHHHHHHHcC
Q 022438 128 PYSYGFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYAGNQERIQLETSRLYRQAG 193 (297)
Q Consensus 128 ~~~Wg~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk~D~q~~q~E~~~LyKk~g 193 (297)
++||+.++++. ++-.++..|+.+.-.+...+--+-.|.++++-++..+..+ +-++..+|+|
T Consensus 13 Gl~p~~~~~~~-~lGN~l~vp~i~~~~~~i~~~l~~~~~~~~~~~~~~~k~~----~~~~~i~kyg 73 (121)
T PF06695_consen 13 GLPPWEAFLLA-FLGNILPVPFILLFLDKILKWLKRKPWLKKFYEWLEKKAE----KKSKKIEKYG 73 (121)
T ss_pred CCCHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH----HHHHHHHHHh
Confidence 45676555554 4455666666665554443332224455544444332111 2455566665
No 50
>KOG3817 consensus Uncharacterized conserved protein [Function unknown]
Probab=39.55 E-value=1.2e+02 Score=30.64 Aligned_cols=70 Identities=10% Similarity=0.174 Sum_probs=41.0
Q ss_pred hHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHH--HHHhhc--C--HHHHHHHHHHHHHHcCCCCCcch
Q 022438 131 YGFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAI--QQRYAG--N--QERIQLETSRLYRQAGVNPLAGC 200 (297)
Q Consensus 131 Wg~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~~I--qekyk~--D--~q~~q~E~~~LyKk~gvnPl~gc 200 (297)
...|+|+..+.-..+-+|+....+..-+--+..+|--.++ +|.|+. + ..+.-.|+++.-++-++++|+-.
T Consensus 277 ~a~A~iI~~lc~~~l~~pIrw~~~~~~kv~r~fkpl~rRlLtEeEYeeQaeveT~kaLaeLReycnkpd~~~Wkvv 352 (452)
T KOG3817|consen 277 AAIAAIIMVLCFVALYFPIRWTNQIKFKVRRRFKPLKRRLLTEEEYEEQAEVETSKALAELREYCNKPDCKQWKVV 352 (452)
T ss_pred HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhhcCHHHHHHHHHHHHHHHHHHHHHHhCCCCCchhhhh
Confidence 3446677777777888998875543222222233322222 445654 2 22455678888899999998743
No 51
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=37.61 E-value=96 Score=22.93 Aligned_cols=37 Identities=16% Similarity=0.289 Sum_probs=20.3
Q ss_pred HHhccHHHHHHHHHhhcCHHHHHHHHHHHHH--HcCCCCC
Q 022438 160 MQNLQPKIKAIQQRYAGNQERIQLETSRLYR--QAGVNPL 197 (297)
Q Consensus 160 m~~lqPel~~Iqekyk~D~q~~q~E~~~LyK--k~gvnPl 197 (297)
+..+|-|.++|++...+ -++-=++++.||. .++|||+
T Consensus 16 i~tvk~en~~i~~~ve~-i~envk~ll~lYE~Vs~~iNPF 54 (55)
T PF05377_consen 16 INTVKKENEEISESVEK-IEENVKDLLSLYEVVSNQINPF 54 (55)
T ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHccCCCC
Confidence 34445555555443322 1111256788887 6899996
No 52
>TIGR03142 cytochro_ccmI cytochrome c-type biogenesis protein CcmI. This TPR repeat-containing protein is the CcmI protein (also called CycH) of c-type cytochrome biogenesis. CcmI is thought to act as an apo-cytochrome c chaperone. This model describes the N-terminal region of the protein, Members of this protein family
Probab=37.25 E-value=1.4e+02 Score=24.45 Aligned_cols=45 Identities=16% Similarity=0.304 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHH-HHhhhccHHH------HHHHHHHHhccHHHHHHHHHhhc
Q 022438 132 GFAIILLTVIVK-VATFPLTKKQ------VESTLAMQNLQPKIKAIQQRYAG 176 (297)
Q Consensus 132 g~aIIllTI~VR-lillPL~i~q------~rss~Km~~lqPel~~Iqekyk~ 176 (297)
|+.+.++++++= ++++|+.-.. .+...-..-.+-+++|+.+...+
T Consensus 3 Wl~~a~l~~~a~~~v~~pl~r~~~~~~~~~~~~~n~~iyr~qL~ELe~d~~~ 54 (117)
T TIGR03142 3 WIVAALLTLVALLFLLLPLLRRRRAAATVDRDELNLAVYRDRLAELERDLAE 54 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCccccccccHHHHHHHHHHHHHHHHHHHHHc
Confidence 444444444443 5556775321 11223344577788888776554
No 53
>PF06936 Selenoprotein_S: Selenoprotein S (SelS); InterPro: IPR009703 This family consists of several mammalian selenoprotein S (SelS) sequences. SelS is a plasma membrane protein and is present in a variety of tissues and cell types. These proteins are involved in the degradation process of misfolded endoplasmic reticulum (ER) luminal proteins which participate in the transfer of misfolded proteins from the ER to the cytosol, where they are destroyed by the proteasome in a ubiquitin-dependent manner []. They probably serve as a linker between DER1, which mediates the retro-translocation of misfolded proteins into the cytosol, and the ATPase complex VCP, which mediates the translocation and ubiquitination.; GO: 0008430 selenium binding, 0006886 intracellular protein transport, 0030176 integral to endoplasmic reticulum membrane; PDB: 2Q2F_A.
Probab=36.64 E-value=67 Score=29.20 Aligned_cols=15 Identities=27% Similarity=0.651 Sum_probs=0.0
Q ss_pred chHHHHHHHHHHHHH
Q 022438 130 SYGFAIILLTVIVKV 144 (297)
Q Consensus 130 ~Wg~aIIllTI~VRl 144 (297)
+|||-|++.+|++=+
T Consensus 35 ~yGWyil~~~I~ly~ 49 (190)
T PF06936_consen 35 SYGWYILFGCILLYL 49 (190)
T ss_dssp ---------------
T ss_pred HhCHHHHHHHHHHHH
Confidence 456666655555443
No 54
>PRK12722 transcriptional activator FlhC; Provisional
Probab=35.91 E-value=2e+02 Score=26.23 Aligned_cols=38 Identities=29% Similarity=0.495 Sum_probs=30.4
Q ss_pred HHHHHHHHHc-CCCCCcchHHH----------HHHHHHHHHHHHHHHhh
Q 022438 183 LETSRLYRQA-GVNPLAGCLPT----------LATIPVWIGLYQALSNV 220 (297)
Q Consensus 183 ~E~~~LyKk~-gvnPl~gcLp~----------LiQiPIfi~lf~~Lr~m 220 (297)
.++.+||||- |++|=+|.+|. =++--+|+.+|+.+...
T Consensus 38 ~rl~~Lyke~~G~spPkG~lP~S~dWF~tw~~nihsSlf~~iY~~l~~~ 86 (187)
T PRK12722 38 ERLIKLYKELRGVSPPKGMLPFSTDWFMTWEPNIHSSLFYNIYQFLLKT 86 (187)
T ss_pred HHHHHHHHHHcCCCCCCCCCCCchHHHcccchhhHHHHHHHHHHHHHHc
Confidence 4567899987 99998998872 26788899999988854
No 55
>cd02433 Nodulin-21_like_2 Nodulin-21 and CCC1-related protein family. Nodulin-21_like_2: This is a family of proteins closely related to nodulin-21, a plant nodule-specific protein that may be involved in symbiotic nitrogen fixation. This family is also related to CCC1, a yeast vacuole transmembrane protein that functions as an iron and manganese transporter.
Probab=34.68 E-value=53 Score=30.57 Aligned_cols=20 Identities=20% Similarity=0.333 Sum_probs=9.4
Q ss_pred cCHHHHHHHHHHHHHHcCCC
Q 022438 176 GNQERIQLETSRLYRQAGVN 195 (297)
Q Consensus 176 ~D~q~~q~E~~~LyKk~gvn 195 (297)
+++++-++|+.++|+++|++
T Consensus 94 ~~p~~e~~el~~iy~~~G~~ 113 (234)
T cd02433 94 KHPLEEAAELALIYRAKGLD 113 (234)
T ss_pred hCcHHHHHHHHHHHHHcCCC
Confidence 34444444555555544444
No 56
>PHA00327 minor capsid protein
Probab=34.34 E-value=74 Score=28.65 Aligned_cols=43 Identities=21% Similarity=0.309 Sum_probs=27.7
Q ss_pred HHHHHHHHHhccHHHHHHHHHhhcCHHHHHHHHHHHHHHcCCCCCc
Q 022438 153 QVESTLAMQNLQPKIKAIQQRYAGNQERIQLETSRLYRQAGVNPLA 198 (297)
Q Consensus 153 q~rss~Km~~lqPel~~Iqekyk~D~q~~q~E~~~LyKk~gvnPl~ 198 (297)
+++.-+-+++|.-+-.++|||+.+. ..|++ ++=+|+.|+||+.
T Consensus 37 aqkqNa~~~~ia~rqmafQErMSnT--A~qR~-~eDmkkAGLNpLl 79 (187)
T PHA00327 37 AQKQNATAKQIARRQMAFQERMSNT--AYQRA-MEDMKKAGLNPLL 79 (187)
T ss_pred HHhhhHHHHHHHHHHHHHHHHhhhH--HHHHH-HHHHHHcCccHHH
Confidence 4566666666666667777777663 23333 4456889999853
No 57
>COG1333 ResB ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]
Probab=33.12 E-value=2.1e+02 Score=29.75 Aligned_cols=104 Identities=21% Similarity=0.229 Sum_probs=56.2
Q ss_pred chHHHHHHHHHHHH--HHhhhccHHHHHHHHHHHhccHHHHHHHHHhh-----cCHHHHHHHHHHHHHHcCCC-------
Q 022438 130 SYGFAIILLTVIVK--VATFPLTKKQVESTLAMQNLQPKIKAIQQRYA-----GNQERIQLETSRLYRQAGVN------- 195 (297)
Q Consensus 130 ~Wg~aIIllTI~VR--lillPL~i~q~rss~Km~~lqPel~~Iqekyk-----~D~q~~q~E~~~LyKk~gvn------- 195 (297)
+||...++..+.|- ++++|=++.-+|+.+-+...+|.--+=+++.+ .++++....+.++-++.++.
T Consensus 56 SwWfl~iivlL~VSLv~C~lpr~~~~~ra~r~~~~~~p~~l~r~~h~~~~~v~~~~~~~~~~i~~~L~~~~~kir~e~~~ 135 (478)
T COG1333 56 SWWFLAIIVLLGVSLVGCSLPRFPALYRALRAKPVRAPRNLARLRHSAELDVKIDPEAVKAKIEKLLRGKGYKIREEGSV 135 (478)
T ss_pred HHHHHHHHHHHHHHHHhhcccccHHHHHHhhcccccCchhHHhhhccCccccCCchHHHHHHHHHHHhcCCeEEEeccce
Confidence 78887777666666 66788887777766655455554322122222 13343444444443332221
Q ss_pred -C------CcchHHHHHHHHHHHHHHHHHHhhhhhccccCccccccC
Q 022438 196 -P------LAGCLPTLATIPVWIGLYQALSNVANEGLLTEGFFWIPS 235 (297)
Q Consensus 196 -P------l~gcLp~LiQiPIfi~lf~~Lr~m~~~~l~~~gflW~~d 235 (297)
- +.-.-|.+.-+-+.+.+-.++-.+..+|+..+. |++|
T Consensus 136 ~i~AeKG~~~r~G~ii~HiaLliil~Gal~~~~~~Gm~~~~--~V~~ 180 (478)
T COG1333 136 SIAAEKGRFSRWGPIIFHIALLIILVGALLDFFYEGMVVGE--IVPD 180 (478)
T ss_pred eEEeccccccchhhHHHHHHHHHHHHHHHHhhcccceeEeE--EecC
Confidence 1 112347777788777777777664344544433 6665
No 58
>PRK02201 putative inner membrane protein translocase component YidC; Provisional
Probab=33.04 E-value=5.1e+02 Score=25.84 Aligned_cols=15 Identities=20% Similarity=0.107 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHhhh
Q 022438 275 LPVLLVVSQYASMEL 289 (297)
Q Consensus 275 LPil~~~s~~ls~kl 289 (297)
..++..+++++++++
T Consensus 263 ~~~~~~ls~~l~~~l 277 (357)
T PRK02201 263 VVPVQALSQLLPQIL 277 (357)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444444444433
No 59
>COG4879 Uncharacterized protein conserved in archaea [Function unknown]
Probab=32.88 E-value=1.2e+02 Score=28.23 Aligned_cols=25 Identities=20% Similarity=0.465 Sum_probs=20.9
Q ss_pred CHHHHHHHHHHHHHHcCCCCCcchH
Q 022438 177 NQERIQLETSRLYRQAGVNPLAGCL 201 (297)
Q Consensus 177 D~q~~q~E~~~LyKk~gvnPl~gcL 201 (297)
.++.+-.+++..|++.||.|++|+=
T Consensus 30 sRe~~ieilk~vY~~~~IkPfrG~n 54 (243)
T COG4879 30 SRESLIEILKTVYKERGIKPFRGLN 54 (243)
T ss_pred hHHHHHHHHHHHHHHcCCCcccCCC
Confidence 4566777899999999999999853
No 60
>PF00153 Mito_carr: Mitochondrial carrier protein; InterPro: IPR018108 A variety of substrate carrier proteins that are involved in energy transfer are found in the inner mitochondrial membrane or integral to the membrane of other eukaryotic organelles such as the peroxisome [, , , , , ]. Such proteins include: ADP, ATP carrier protein (ADP/ATP translocase); 2-oxoglutarate/malate carrier protein; phosphate carrier protein; tricarboxylate transport protein (or citrate transport protein); Graves disease carrier protein; yeast mitochondrial proteins MRS3 and MRS4; yeast mitochondrial FAD carrier protein; and many others. Structurally, these proteins can consist of up to three tandem repeats of a domain of approximately 100 residues, each domain containing two transmembrane regions.; PDB: 2LCK_A 2C3E_A 1OKC_A.
Probab=31.73 E-value=36 Score=25.59 Aligned_cols=73 Identities=19% Similarity=0.315 Sum_probs=38.5
Q ss_pred HHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhhcCHHHHHHHHHHHHHHcCCCC-CcchHHHHHHHHH----H
Q 022438 136 ILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYAGNQERIQLETSRLYRQAGVNP-LAGCLPTLATIPV----W 210 (297)
Q Consensus 136 IllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk~D~q~~q~E~~~LyKk~gvnP-l~gcLp~LiQiPI----f 210 (297)
.+...+..+++.|+-.--.+.+ ..+...+...+...+-..++||++|+.- ++|+.+.++.... .
T Consensus 12 ~~ag~~~~~~~~Pld~ik~~~q-----------~~~~~~~~~~~~~~~~~~~i~~~~G~~~ly~G~~~~~~~~~~~~~~~ 80 (95)
T PF00153_consen 12 ALAGAISTLVTYPLDTIKTRMQ-----------SESPSGKQPYQGVWQCLRKIYKEEGIRGLYRGFGPSLLRSIPYTAIY 80 (95)
T ss_dssp HHHHHHHHHHCHHHHHHHHHHH-----------CCSCCCCSS-SSHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhHHHHHhHhhc-----------ccccccccccccccccccccchhhhhccccCChHHHHHHHHHHHHHH
Confidence 3444556777888866432222 0000000112334566788999998875 4687777664444 3
Q ss_pred HHHHHHHHh
Q 022438 211 IGLYQALSN 219 (297)
Q Consensus 211 i~lf~~Lr~ 219 (297)
+++|..+++
T Consensus 81 ~~~~~~~~~ 89 (95)
T PF00153_consen 81 FGLYEYLKR 89 (95)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 444444443
No 61
>cd02432 Nodulin-21_like_1 Nodulin-21 and CCC1-related protein family. Nodulin-21_like_1: This is a family of proteins closely related to nodulin-21, a plant nodule-specific protein that may be involved in symbiotic nitrogen fixation. This family is also related to CCC1, a yeast vacuole transmembrane protein that functions as an iron and manganese transporter.
Probab=31.73 E-value=68 Score=29.48 Aligned_cols=21 Identities=24% Similarity=0.464 Sum_probs=10.5
Q ss_pred cCHHHHHHHHHHHHHHcCCCC
Q 022438 176 GNQERIQLETSRLYRQAGVNP 196 (297)
Q Consensus 176 ~D~q~~q~E~~~LyKk~gvnP 196 (297)
+++++-++|+.++|+++|++|
T Consensus 82 ~~p~~e~~el~~~~~~~G~~~ 102 (218)
T cd02432 82 EDPEAELEELADIYEERGLSP 102 (218)
T ss_pred hCcHHHHHHHHHHHHHcCCCH
Confidence 344444455555555555443
No 62
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=30.61 E-value=2.5e+02 Score=24.72 Aligned_cols=14 Identities=50% Similarity=0.740 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHH
Q 022438 132 GFAIILLTVIVKVA 145 (297)
Q Consensus 132 g~aIIllTI~VRli 145 (297)
|.++.+.-++-|+.
T Consensus 108 Gf~LfL~l~I~r~~ 121 (192)
T PF05529_consen 108 GFALFLSLVIRRVH 121 (192)
T ss_pred HHHHHHHHHHHHHH
Confidence 44555555555544
No 63
>PRK06771 hypothetical protein; Provisional
Probab=28.87 E-value=1.7e+02 Score=23.80 Aligned_cols=46 Identities=11% Similarity=0.117 Sum_probs=27.9
Q ss_pred hHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhhc
Q 022438 131 YGFAIILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYAG 176 (297)
Q Consensus 131 Wg~aIIllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk~ 176 (297)
||.-|++..+..=.+..-++-...+..++.+.++-+++.|.++..-
T Consensus 3 ~~ili~~~~~~~i~i~~~l~~~~~~~~~~~k~ie~~L~~I~~~~Gi 48 (93)
T PRK06771 3 FWMIIPIAIFGFIYIVEKLTKIEKKTDARLKRMEDRLQLITKEMGI 48 (93)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 4544444333333333333444456777888888899999888763
No 64
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=28.23 E-value=3.7e+02 Score=22.73 Aligned_cols=43 Identities=14% Similarity=0.210 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHhhhccHHHHHHHH--------HHHhccHHHHHHHHHhhc
Q 022438 134 AIILLTVIVKVATFPLTKKQVESTL--------AMQNLQPKIKAIQQRYAG 176 (297)
Q Consensus 134 aIIllTI~VRlillPL~i~q~rss~--------Km~~lqPel~~Iqekyk~ 176 (297)
..+++.++++-+++|...+-....+ .-.+.+-+.++++++|..
T Consensus 16 ~Flil~~~l~kfl~kPi~~~l~~R~~~I~~~l~~A~~~~~ea~~~~~e~e~ 66 (141)
T PRK08476 16 VFLLLIVILNSWLYKPLLKFMDNRNASIKNDLEKVKTNSSDVSEIEHEIET 66 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455556666666666655443321 222355566666666653
No 65
>PF00816 Histone_HNS: H-NS histone family Partial NMR structure.; InterPro: IPR001801 The histone-like nucleoid-structuring (H-NS) protein belongs to a family of bacterial proteins that play a role in the formation of nucleoid structure and affect gene expression under certain conditions [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2LEV_A 1HNS_A 1LR1_B 1HNR_A 1NI8_A 1OV9_A 2JR1_A 3NR7_A 2L93_A 2L92_A.
Probab=27.67 E-value=65 Score=25.19 Aligned_cols=20 Identities=25% Similarity=0.444 Sum_probs=14.4
Q ss_pred CHHHHHHHHHHHHHHcCCCC
Q 022438 177 NQERIQLETSRLYRQAGVNP 196 (297)
Q Consensus 177 D~q~~q~E~~~LyKk~gvnP 196 (297)
..++.-.++.++.+++|+++
T Consensus 21 e~~~~~~~i~~~~~~~Gis~ 40 (93)
T PF00816_consen 21 EREEAIAEIRELMAEYGISP 40 (93)
T ss_dssp CCHHHHHHHHHHHHHTT--H
T ss_pred HHHHHHHHHHHHHHHhCCCH
Confidence 34567788999999999985
No 66
>PRK12860 transcriptional activator FlhC; Provisional
Probab=27.51 E-value=2.6e+02 Score=25.53 Aligned_cols=37 Identities=32% Similarity=0.537 Sum_probs=30.4
Q ss_pred HHHHHHHHHc-CCCCCcchHHH----------HHHHHHHHHHHHHHHh
Q 022438 183 LETSRLYRQA-GVNPLAGCLPT----------LATIPVWIGLYQALSN 219 (297)
Q Consensus 183 ~E~~~LyKk~-gvnPl~gcLp~----------LiQiPIfi~lf~~Lr~ 219 (297)
.++.++|||- |++|=+|.+|. =++.-+|+.+|+.+++
T Consensus 38 ~rl~~Lyke~~G~SpPkG~lP~S~dWF~tw~~nihsSlf~~iY~~l~~ 85 (189)
T PRK12860 38 DRLIRLYKEVRGVSPPKGMLPFSTDWFMTWLANIHASLFYNAYRFLKN 85 (189)
T ss_pred HHHHHHHHHHcCCCCCCCCCCCchHHHcCchhhhHHHHHHHHHHHHHh
Confidence 4678999987 99998998874 2688889999998875
No 67
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=26.47 E-value=1.5e+02 Score=25.79 Aligned_cols=23 Identities=13% Similarity=0.251 Sum_probs=18.6
Q ss_pred HHHHHHHHhccHHHHHHHHHhhc
Q 022438 154 VESTLAMQNLQPKIKAIQQRYAG 176 (297)
Q Consensus 154 ~rss~Km~~lqPel~~Iqekyk~ 176 (297)
.+..++.+++|-|+++++++.++
T Consensus 36 ~~~~~~~~~l~~Ei~~l~~E~~~ 58 (161)
T PF04420_consen 36 SKSSKEQRQLRKEILQLKRELNA 58 (161)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHTT
T ss_pred ccccHHHHHHHHHHHHHHHHHHc
Confidence 66778888899999999888775
No 68
>TIGR00828 EIID-AGA PTS system, mannose/fructose/sorbose family, IID component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. The Man family is unique in several respects among PTS permease families.It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine,N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IID subunits of this family of PTS transporters.
Probab=26.45 E-value=2.3e+02 Score=27.17 Aligned_cols=41 Identities=17% Similarity=0.169 Sum_probs=25.0
Q ss_pred HHHHHHHh------ccHHHHHHHHHhhcCHHHHHHHHHHHHHHcCCCCCc
Q 022438 155 ESTLAMQN------LQPKIKAIQQRYAGNQERIQLETSRLYRQAGVNPLA 198 (297)
Q Consensus 155 rss~Km~~------lqPel~~Iqekyk~D~q~~q~E~~~LyKk~gvnPl~ 198 (297)
-|-+|||. +-|.+ +|-|++|+|++++.+++=..=+|.+|.-
T Consensus 22 ~NyErmQ~~gf~~~m~P~L---~KlY~~d~e~~~~Alkrhl~fFNT~p~~ 68 (271)
T TIGR00828 22 FNFERMQALGFCYAMIPAI---KKLYPDDKAGRSAALKRHLEFFNTHPNL 68 (271)
T ss_pred ccHHHHhhHhHHHHHHHHH---HHHcCCCHHHHHHHHHHHHHHHCCCchh
Confidence 34456665 34444 4458777777666666655557888753
No 69
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=25.49 E-value=3.9e+02 Score=22.84 Aligned_cols=19 Identities=21% Similarity=0.401 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHhhhccHH
Q 022438 134 AIILLTVIVKVATFPLTKK 152 (297)
Q Consensus 134 aIIllTI~VRlillPL~i~ 152 (297)
..+++.++++-+++|...+
T Consensus 31 nFliL~~lL~k~l~~Pi~~ 49 (156)
T CHL00118 31 QFLLLMVLLNIILYKPLLK 49 (156)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4445555556555555443
No 70
>PRK12495 hypothetical protein; Provisional
Probab=25.34 E-value=91 Score=29.23 Aligned_cols=43 Identities=16% Similarity=0.298 Sum_probs=26.1
Q ss_pred HHHHHHHHhhcCHHH--HHHHHHHHHHHcCCCCCcchHHHHHHHHHH
Q 022438 166 KIKAIQQRYAGNQER--IQLETSRLYRQAGVNPLAGCLPTLATIPVW 210 (297)
Q Consensus 166 el~~Iqekyk~D~q~--~q~E~~~LyKk~gvnPl~gcLp~LiQiPIf 210 (297)
|=+||+|||..|+++ .-++|.+|..+....--.-|- -+=.|||
T Consensus 9 EREkLREKye~d~~~R~~~~~ma~lL~~gatmsa~hC~--~CG~PIp 53 (226)
T PRK12495 9 EREKLREKYEQDEQKREATERMSELLLQGATMTNAHCD--ECGDPIF 53 (226)
T ss_pred HHHHHHHHHhhhHHHHHHHHHHHHHHHhhcccchhhcc--cccCccc
Confidence 447899999987654 335666777666554445562 2344454
No 71
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=25.01 E-value=3.5e+02 Score=22.51 Aligned_cols=36 Identities=19% Similarity=0.101 Sum_probs=19.5
Q ss_pred HHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhhc
Q 022438 141 IVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYAG 176 (297)
Q Consensus 141 ~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk~ 176 (297)
+.|+++=-.+..+++..-+-+--+-.-+++|+|+.+
T Consensus 54 lfRV~t~~MTy~~Q~k~Ye~a~~~~~~~~lqkRle~ 89 (104)
T PF11460_consen 54 LFRVVTGKMTYMQQRKDYEEAVDQLTNEELQKRLEE 89 (104)
T ss_pred HhhhccCCCcHHHHHHHHHHHHHHHhHHHHHHHHHh
Confidence 446655555555555554444333333567777765
No 72
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=24.90 E-value=2.7e+02 Score=20.02 Aligned_cols=21 Identities=10% Similarity=0.311 Sum_probs=12.0
Q ss_pred HHHHHHHHhccHHHHHHHHHh
Q 022438 154 VESTLAMQNLQPKIKAIQQRY 174 (297)
Q Consensus 154 ~rss~Km~~lqPel~~Iqeky 174 (297)
.+..++.++++.++++++++.
T Consensus 44 ~~~r~~~~~~~k~l~~le~e~ 64 (68)
T PF06305_consen 44 LRLRRRIRRLRKELKKLEKEL 64 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 444555555566776666554
No 73
>PF08479 POTRA_2: POTRA domain, ShlB-type; InterPro: IPR013686 The POTRA domain (for polypeptide-transport-associated domain) is found towards the N terminus of ShlB family proteins (IPR005565 from INTERPRO). ShlB is important in the secretion and activation of the haemolysin ShlA. It has been postulated that the POTRA domain has a chaperone-like function over ShlA; it may fold back into the C-terminal beta-barrel channel []. ; PDB: 2X8X_X 2QDZ_A 3NJT_A 3MC8_A 3MC9_B.
Probab=24.78 E-value=80 Score=23.50 Aligned_cols=30 Identities=23% Similarity=0.470 Sum_probs=22.3
Q ss_pred HHHHHHHHhhc------CHHHHHHHHHHHHHHcCCC
Q 022438 166 KIKAIQQRYAG------NQERIQLETSRLYRQAGVN 195 (297)
Q Consensus 166 el~~Iqekyk~------D~q~~q~E~~~LyKk~gvn 195 (297)
+++++-+.|.+ |-+++.+++.+.|+++|+-
T Consensus 18 ~l~~~~~~~~g~~l~~~~l~~~~~~l~~~y~~~GY~ 53 (76)
T PF08479_consen 18 ELQAILAPYIGRCLTLADLQQLADALTNYYREKGYI 53 (76)
T ss_dssp HHHHHHGGGTTSBB-HHHHHHHHHHHHHHHHHTT-T
T ss_pred HHHHHHHHhcCCCcCHHHHHHHHHHHHHHHHHcCce
Confidence 67777777765 3456778999999999975
No 74
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=24.22 E-value=3.9e+02 Score=23.16 Aligned_cols=21 Identities=10% Similarity=0.249 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHhhhccHHHH
Q 022438 134 AIILLTVIVKVATFPLTKKQV 154 (297)
Q Consensus 134 aIIllTI~VRlillPL~i~q~ 154 (297)
..+++.++++-+++|...+..
T Consensus 27 ~Flil~~lL~~~l~kpi~~~l 47 (175)
T PRK14472 27 TFVIVLLILKKIAWGPILSAL 47 (175)
T ss_pred HHHHHHHHHHHHhHHHHHHHH
Confidence 334445555555666655443
No 75
>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds.
Probab=23.79 E-value=5.1e+02 Score=22.86 Aligned_cols=16 Identities=19% Similarity=0.465 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHcCCCC
Q 022438 181 IQLETSRLYRQAGVNP 196 (297)
Q Consensus 181 ~q~E~~~LyKk~gvnP 196 (297)
+++-.+++++.-.-+|
T Consensus 106 ~~~~~~~I~~~v~~~P 121 (199)
T PF10112_consen 106 IEKIARRIFKYVEKDP 121 (199)
T ss_pred HHHHHHHHHHHHHHCH
Confidence 3344455555444455
No 76
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=23.65 E-value=4.2e+02 Score=21.81 Aligned_cols=20 Identities=25% Similarity=0.371 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHhhhccHH
Q 022438 133 FAIILLTVIVKVATFPLTKK 152 (297)
Q Consensus 133 ~aIIllTI~VRlillPL~i~ 152 (297)
+.++++.++++.+++|....
T Consensus 13 i~flil~~ll~~~l~~pi~~ 32 (140)
T PRK07353 13 VQFVLLTFILNALFYKPVGK 32 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34555566666555555433
No 77
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=22.99 E-value=1e+02 Score=32.03 Aligned_cols=21 Identities=5% Similarity=0.202 Sum_probs=17.0
Q ss_pred HHHHHHhccHHHHHHHHHhhc
Q 022438 156 STLAMQNLQPKIKAIQQRYAG 176 (297)
Q Consensus 156 ss~Km~~lqPel~~Iqekyk~ 176 (297)
..+|+++|+.|+++||++.++
T Consensus 29 ~~qkie~L~kql~~Lk~q~~~ 49 (489)
T PF11853_consen 29 LLQKIEALKKQLEELKAQQDD 49 (489)
T ss_pred HHHHHHHHHHHHHHHHHhhcc
Confidence 345899999999999988664
No 78
>PRK09855 PTS system N-acetylgalactosamine-specific transporter subunit IID; Provisional
Probab=22.96 E-value=1e+02 Score=29.31 Aligned_cols=30 Identities=7% Similarity=0.111 Sum_probs=21.2
Q ss_pred HHHHhhcCHHHHHHHHHHHHHHcCCCCCcc
Q 022438 170 IQQRYAGNQERIQLETSRLYRQAGVNPLAG 199 (297)
Q Consensus 170 Iqekyk~D~q~~q~E~~~LyKk~gvnPl~g 199 (297)
++|-|++|+|++++.+++=.+=+|++|.-+
T Consensus 42 L~KlY~~~~e~~~~Al~rHl~ffNT~p~~~ 71 (263)
T PRK09855 42 LKKIYKDDKPGLSAAMKDNLEFINTHPNLV 71 (263)
T ss_pred HHHHcCCCHHHHHHHHHHHHHHHCCCchhh
Confidence 344688888877777777666689998543
No 79
>PF05609 LAP1C: Lamina-associated polypeptide 1C (LAP1C); InterPro: IPR008662 This entry contains Rattus norvegicus LAP1C proteins and several uncharacterised highly related sequences from both Mus sp. and humans. Lamina-associated polypeptide 1s (LAP1s), also known as Torsin-1A-interacting protein 1, are type 2 integral membrane proteins with a single membrane-spanning region of the inner nuclear membrane []. LAP1s bind to both A- and B-type lamins and have a putative role in the membrane attachment and assembly of the nuclear lamina [].
Probab=21.78 E-value=1.4e+02 Score=30.82 Aligned_cols=40 Identities=15% Similarity=0.301 Sum_probs=26.9
Q ss_pred HHHHHHHhccHHHHHHHHHhhcCHH----HHHHHHHHHHHHcCC
Q 022438 155 ESTLAMQNLQPKIKAIQQRYAGNQE----RIQLETSRLYRQAGV 194 (297)
Q Consensus 155 rss~Km~~lqPel~~Iqekyk~D~q----~~q~E~~~LyKk~gv 194 (297)
....+++.++-+|+.||++|.+-.+ +.+.-..+-++...-
T Consensus 242 ~~~~~~~~f~~~~~~Lk~~fp~Q~~~lW~~~~~~l~~hln~~~p 285 (465)
T PF05609_consen 242 PENTALENFQDQIEQLKDKFPSQDEELWKRSRTFLEKHLNASHP 285 (465)
T ss_pred ccchHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHhcCCC
Confidence 4456888899999999999997333 444445555554443
No 80
>PRK01001 putative inner membrane protein translocase component YidC; Provisional
Probab=21.36 E-value=8.3e+02 Score=27.15 Aligned_cols=62 Identities=11% Similarity=0.111 Sum_probs=30.7
Q ss_pred hHHHHHHHHHHHHHHHHhhhcccCCcchHHHHHHHHHHHHHHhhhccHHHHHHHH----HHHhccHHHH
Q 022438 104 FGFISEAMEFVLKILKDGIDAVHVPYSYGFAIILLTVIVKVATFPLTKKQVESTL----AMQNLQPKIK 168 (297)
Q Consensus 104 ~~~i~~p~~~vL~~lh~~l~~~g~~~~Wg~aIIllTI~VRlillPL~i~q~rss~----Km~~lqPel~ 168 (297)
..++...+.++++++|..++++|+.. -.++|++=.++.-+- . -..++++.++ +|+++|.+.+
T Consensus 555 ~~Pia~~L~~ll~~fh~l~GnwGlAI-ILlTIIVRLlLlPLt-i-KS~kSmaKMq~LQPemqeIQeKYK 620 (795)
T PRK01001 555 TEPFAALLFIIMKFFKFLTGSWGISI-ILLTVFLKLLLYPLN-A-WSIRSMRRMQKLSPYIQEIQQKYK 620 (795)
T ss_pred HHHHHHHHHHHHHHHHhhcchHHHHH-HHHHHHHHHHHhccH-H-HHHHHHHHHHHhhHHHHHHHHHhH
Confidence 45666777777777777666655311 234444433333221 1 2334444444 4444554443
No 81
>KOG3088 consensus Secretory carrier membrane protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.21 E-value=58 Score=31.74 Aligned_cols=45 Identities=16% Similarity=0.221 Sum_probs=24.2
Q ss_pred HHHHHHHHhccHHHHHHHHHhhcCHHHHHHHHHH---HHHHcCCCCCcc
Q 022438 154 VESTLAMQNLQPKIKAIQQRYAGNQERIQLETSR---LYRQAGVNPLAG 199 (297)
Q Consensus 154 ~rss~Km~~lqPel~~Iqekyk~D~q~~q~E~~~---LyKk~gvnPl~g 199 (297)
....+|.++|+.+-+||+.|-.+ -+|.++|+++ .-|++|--|+-.
T Consensus 60 ~~~~~kq~eL~~rqeEL~Rke~E-LdRREr~~a~~g~~~~~nNWPPLP~ 107 (313)
T KOG3088|consen 60 KDLAKKQAELLKKQEELRRKEQE-LDRRERALARAGIVIRENNWPPLPS 107 (313)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH-HhHHHHHHhhccCcccccCCCCCCC
Confidence 34455777777777777655333 2223333333 445777775443
No 82
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=21.19 E-value=5.2e+02 Score=22.78 Aligned_cols=43 Identities=14% Similarity=0.199 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHhhhccHHHHHHHH--------HHHhccHHHHHHHHHhhc
Q 022438 134 AIILLTVIVKVATFPLTKKQVESTL--------AMQNLQPKIKAIQQRYAG 176 (297)
Q Consensus 134 aIIllTI~VRlillPL~i~q~rss~--------Km~~lqPel~~Iqekyk~ 176 (297)
+.+++.++++-+++|-..+-....+ ...+.+-+.+++++.|+.
T Consensus 19 ~FlILy~ll~kf~~ppI~~iLe~R~~~I~~~L~~Ae~~k~eAe~l~a~ye~ 69 (155)
T PRK06569 19 TFGLLYIFVYKFITPKAEEIFNNRQTNIQDNITQADTLTIEVEKLNKYYNE 69 (155)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 4455666777667766554332221 233355666666666653
No 83
>cd00922 Cyt_c_Oxidase_IV Cytochrome c oxidase subunit IV. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit IV is the largest of the nuclear-encoded subunits. It binds ATP at the matrix side, leading to an allosteric inhibition of enzyme activity at high intramitochondrial ATP/ADP ratios. In mammals, subunit IV has a lung-specific isoform and a ubiquitously expressed isoform.
Probab=20.94 E-value=2.2e+02 Score=24.37 Aligned_cols=60 Identities=22% Similarity=0.325 Sum_probs=35.8
Q ss_pred hccHHHHHHHHHhhcCHHHHH-HHHHHHHH----HcCCC------CCcchH-HHHHHHHHHHHHHHHHHhhh
Q 022438 162 NLQPKIKAIQQRYAGNQERIQ-LETSRLYR----QAGVN------PLAGCL-PTLATIPVWIGLYQALSNVA 221 (297)
Q Consensus 162 ~lqPel~~Iqekyk~D~q~~q-~E~~~LyK----k~gvn------Pl~gcL-p~LiQiPIfi~lf~~Lr~m~ 221 (297)
+..+++++|++|.|+|-+++. +|.+.+|+ +++-. =++.++ ..++-+-+.+++|..+|..+
T Consensus 28 e~~~~~~~Lrekek~dW~~LT~~EKkAlY~isfg~~~~e~~~~~~ewk~v~~~~~~~i~~s~~~~~~~r~~~ 99 (136)
T cd00922 28 ELSAEIKALREKEKGDWKQLTLEEKKALYRISFGETGPEMNAPTGEWKTVFGGVLAFIGITGVIFGLQRAFV 99 (136)
T ss_pred cchHHHHHHHHHhhCCHhhCCHHHHhhHhhhhhccccccccCCCccHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 677899999999999877653 45566665 22211 123333 23334445556666667544
No 84
>PF01312 Bac_export_2: FlhB HrpN YscU SpaS Family; InterPro: IPR006135 Salmonella, and related proteobacteria, secrete large amounts of proteins into the culture media. The major secreted proteins are either flagellar proteins or virulence factors [], secreted through the flagellar or virulence export structures respectively. Both secretion systems penetrate the inner and outer membranes and their components bear substantial sequence similarity. Both the flagellar and needle like pilus look fairly similar to each other []. 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. It is believed that the family of type III flagellar and pilus inner membrane proteins are used as structural moieties in a complex with several other subunits []. One such set of inner membrane proteins, labeled "S" here for nomenclature purposes, includes the Salmonella and Shigella SpaS, the Yersinia YscU, Rhizobium Y4YO, and the Erwinia HrcU genes, Salmonella FlhB and Escherichia coli EscU [, , , ]. Many of the proteins, in this entry, undergo autocatalytic cleavage promoted by cyclization of a conserved asparagine. These proteins belong to the MEROPS peptidase family N6. ; GO: 0009306 protein secretion, 0016020 membrane; PDB: 3C03_C 3BZT_A 3BZV_B 3BZP_A 3BZX_B 3BZL_B 3C00_A 3BZR_A 3BZY_A 3BZO_A ....
Probab=20.60 E-value=1.1e+02 Score=30.00 Aligned_cols=39 Identities=13% Similarity=0.316 Sum_probs=7.5
Q ss_pred HHHHHHHHHHhhhccHHHHHHHHHHHhccHHHHHHHHHhhc---CHH
Q 022438 136 ILLTVIVKVATFPLTKKQVESTLAMQNLQPKIKAIQQRYAG---NQE 179 (297)
Q Consensus 136 IllTI~VRlillPL~i~q~rss~Km~~lqPel~~Iqekyk~---D~q 179 (297)
.+..+++=++=++...++.....||.. +|+|++||+ |++
T Consensus 193 ~~~~~via~~D~~~qr~~~~k~lkMsk-----qEvK~E~Ke~EGdP~ 234 (343)
T PF01312_consen 193 LAALLVIAAIDFAYQRFEFEKKLKMSK-----QEVKDEHKESEGDPE 234 (343)
T ss_dssp ------------------------HHH-----HHH--HHHCCCC-HH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCCH-----HHHHHHHHhccCCHH
Confidence 333334444446666666666666653 667777775 654
No 85
>PRK11103 PTS system mannose-specific transporter subunit IID; Provisional
Probab=20.42 E-value=3.1e+02 Score=26.45 Aligned_cols=40 Identities=23% Similarity=0.291 Sum_probs=24.8
Q ss_pred HHHHHHh------ccHHHHHHHHHhhcCHHHHHHHHHHHHHHcCCCCCc
Q 022438 156 STLAMQN------LQPKIKAIQQRYAGNQERIQLETSRLYRQAGVNPLA 198 (297)
Q Consensus 156 ss~Km~~------lqPel~~Iqekyk~D~q~~q~E~~~LyKk~gvnPl~ 198 (297)
|-+|||. +-|-+ +|-|++|+|+.++.+++=.+=+|.+|.-
T Consensus 33 NyErmQ~~gf~~sm~P~L---kKlY~~d~e~~~~Al~Rhl~fFNT~p~~ 78 (282)
T PRK11103 33 NFERMQALGFCFSMVPAI---RRLYPENNEARKQAIKRHLEFFNTHPYV 78 (282)
T ss_pred CHHHHhhHhHHHHHHHHH---HHHcCCCHHHHHHHHHHHHHHHCCCchh
Confidence 4456665 33444 4458777777666666655567888743
No 86
>PF10225 DUF2215: Uncharacterized conserved protein (DUF2215); InterPro: IPR024233 This entry represents a domain that is found in a number of different proteins, including a family of transmembrane proteins.
Probab=20.41 E-value=3e+02 Score=25.79 Aligned_cols=100 Identities=13% Similarity=0.189 Sum_probs=48.4
Q ss_pred ccCCCchH-HHHHHHHHHHHHHHHhhhccc-CCcchHHHHHHHHHHHHHHhhhccHHHHHHHHHHH-hc--cHHHHHH-H
Q 022438 98 QKNGGWFG-FISEAMEFVLKILKDGIDAVH-VPYSYGFAIILLTVIVKVATFPLTKKQVESTLAMQ-NL--QPKIKAI-Q 171 (297)
Q Consensus 98 ~~~gGw~~-~i~~p~~~vL~~lh~~l~~~g-~~~~Wg~aIIllTI~VRlillPL~i~q~rss~Km~-~l--qPel~~I-q 171 (297)
-.-||+-+ -..+.+.|.|..+--.+=-.+ ..-.-+++++++.++.+.+..|........ +|++ .. .|+-..+ +
T Consensus 116 y~~gp~~~~rs~~~v~W~Lqligl~lI~~ss~~~~~a~~~i~~~l~~~~l~~~~~~~~~~~-~~~~~~~~~p~~rr~Lte 194 (249)
T PF10225_consen 116 YRYGPPVDPRSRNFVKWALQLIGLVLIYFSSQDPEFAFAAIILLLLWKSLYYPISWLKRVR-RKYRRRFTSPPKRRLLTE 194 (249)
T ss_pred cccCCCccHhHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHhhhHHHHHHHHH-HHHhheecCCCccccccc
Confidence 33455542 233455565555432221000 012456777788888888777777543222 2222 12 3444444 3
Q ss_pred HHhhc-C---HHHHHHHHHHHHHHcCCCCCc
Q 022438 172 QRYAG-N---QERIQLETSRLYRQAGVNPLA 198 (297)
Q Consensus 172 ekyk~-D---~q~~q~E~~~LyKk~gvnPl~ 198 (297)
|+|++ . .++.-+|+++.-+.-++|+++
T Consensus 195 eEy~~q~~~eT~kaL~eLr~~c~sp~~~~W~ 225 (249)
T PF10225_consen 195 EEYEEQGERETRKALEELREYCNSPDCNSWK 225 (249)
T ss_pred cchhhcchHhHHHHHHHHHHHhCCCCCCcch
Confidence 45554 1 223334555555556666664
Done!