Query 023854
Match_columns 276
No_of_seqs 126 out of 612
Neff 8.3
Searched_HMMs 46136
Date Fri Mar 29 07:08:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023854.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023854hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd07306 Porin3_VDAC Voltage-de 100.0 4.6E-61 1E-65 425.6 41.0 268 5-275 1-276 (276)
2 KOG3126 Porin/voltage-dependen 100.0 5.9E-60 1.3E-64 409.0 31.1 272 2-276 1-281 (281)
3 cd07303 Porin3 Eukaryotic pori 100.0 3.8E-52 8.1E-57 367.6 35.2 259 7-274 1-273 (274)
4 PF01459 Porin_3: Eukaryotic p 100.0 2.2E-47 4.8E-52 337.4 39.1 260 4-269 1-273 (273)
5 cd07305 Porin3_Tom40 Transloca 100.0 2.1E-45 4.5E-50 326.0 32.9 262 3-275 2-279 (279)
6 KOG3296 Translocase of outer m 100.0 1.3E-33 2.7E-38 246.4 8.5 255 3-275 28-308 (308)
7 TIGR00989 3a0801s07tom40 mitoc 99.7 1.3E-16 2.9E-21 127.4 13.7 142 3-149 2-161 (161)
8 cd07305 Porin3_Tom40 Transloca 99.3 5.3E-09 1.1E-13 93.0 26.5 167 86-259 34-213 (279)
9 cd07306 Porin3_VDAC Voltage-de 98.9 1.4E-06 2.9E-11 77.4 25.6 172 37-216 88-272 (276)
10 PF01459 Porin_3: Eukaryotic p 98.9 7.5E-06 1.6E-10 72.1 28.7 162 103-274 54-225 (273)
11 cd07303 Porin3 Eukaryotic pori 98.4 0.0006 1.3E-08 60.5 26.1 132 137-275 88-221 (274)
12 KOG3126 Porin/voltage-dependen 97.2 0.093 2E-06 46.4 19.3 97 104-204 166-264 (281)
13 TIGR00989 3a0801s07tom40 mitoc 97.2 0.013 2.8E-07 47.4 12.3 65 137-205 90-161 (161)
14 KOG3296 Translocase of outer m 95.0 0.015 3.4E-07 51.8 2.4 134 137-274 104-255 (308)
15 PF10082 DUF2320: Uncharacteri 93.6 5.9 0.00013 36.4 21.2 46 230-275 329-380 (381)
16 PF12519 DUF3722: Protein of u 93.2 1.8 3.9E-05 37.9 11.4 66 137-205 189-260 (260)
17 PRK10993 outer membrane protea 87.7 21 0.00046 32.3 13.5 180 67-259 63-272 (314)
18 PRK10716 long-chain fatty acid 84.9 20 0.00043 34.0 12.5 76 179-259 286-363 (435)
19 PF11383 DUF3187: Protein of u 84.2 32 0.0007 31.2 14.9 64 209-272 236-313 (319)
20 COG2067 FadL Long-chain fatty 84.0 37 0.00081 32.3 13.7 94 130-229 289-399 (440)
21 COG2067 FadL Long-chain fatty 81.7 30 0.00065 32.9 12.1 76 180-260 286-364 (440)
22 cd00342 gram_neg_porins Porins 80.8 40 0.00087 29.9 17.4 21 236-256 274-294 (329)
23 PF05275 CopB: Copper resistan 77.0 31 0.00068 29.3 9.7 78 181-259 56-140 (210)
24 PF13609 Porin_4: Gram-negativ 76.2 53 0.0011 28.7 13.5 45 210-255 249-303 (311)
25 PF11383 DUF3187: Protein of u 75.9 62 0.0014 29.4 14.1 53 181-235 239-300 (319)
26 PF04338 DUF481: Protein of un 75.7 38 0.00082 27.9 10.0 21 239-259 167-187 (210)
27 cd00342 gram_neg_porins Porins 74.6 61 0.0013 28.7 19.2 72 156-229 201-291 (329)
28 PF10082 DUF2320: Uncharacteri 73.7 73 0.0016 29.1 17.6 79 196-275 259-343 (381)
29 PF03349 Toluene_X: Outer memb 71.9 85 0.0018 29.1 15.4 32 226-257 261-292 (427)
30 PF06178 KdgM: Oligogalacturon 69.5 18 0.00039 31.0 6.6 79 178-256 60-156 (218)
31 PF04357 DUF490: Family of unk 69.3 48 0.001 30.2 10.0 61 181-244 315-378 (379)
32 PF03349 Toluene_X: Outer memb 68.6 1E+02 0.0022 28.6 18.1 94 180-275 270-378 (427)
33 PRK03761 LPS assembly outer me 68.0 1.5E+02 0.0032 30.4 14.5 99 136-247 611-732 (778)
34 PF13557 Phenol_MetA_deg: Puta 67.8 75 0.0016 26.9 13.7 38 236-275 210-247 (248)
35 TIGR03014 EpsL exopolysacchari 59.3 1.5E+02 0.0033 27.5 12.9 25 237-261 255-279 (381)
36 PF01278 Omptin: Omptin family 58.7 1.4E+02 0.003 26.8 22.4 184 68-259 40-251 (294)
37 PF14052 Caps_assemb_Wzi: Caps 57.9 1E+02 0.0022 29.2 10.0 42 234-275 399-442 (443)
38 PRK04423 organic solvent toler 57.7 1.6E+02 0.0035 30.4 11.9 83 136-220 627-720 (798)
39 PRK10716 long-chain fatty acid 53.6 2E+02 0.0044 27.2 18.0 17 136-152 161-177 (435)
40 PRK15318 intimin-like protein 50.0 2.9E+02 0.0063 28.0 14.9 38 137-174 167-205 (730)
41 TIGR03014 EpsL exopolysacchari 46.8 2.4E+02 0.0052 26.1 16.9 63 198-261 293-360 (381)
42 TIGR03519 Bac_Flav_fam_1 Bacte 43.5 2.4E+02 0.0051 25.0 13.8 123 127-274 154-292 (292)
43 PRK09980 ompL outer membrane p 42.7 1.2E+02 0.0027 26.1 7.2 29 178-206 70-99 (230)
44 PF03895 YadA_anchor: YadA-lik 41.6 1.2E+02 0.0026 21.1 8.4 25 208-232 37-61 (78)
45 TIGR03509 OMP_MtrB_PioB decahe 40.6 3.9E+02 0.0085 26.8 13.8 63 211-275 583-648 (649)
46 PF04575 DUF560: Protein of un 39.9 2.5E+02 0.0055 24.4 16.5 27 236-262 194-220 (285)
47 PF03895 YadA_anchor: YadA-lik 39.2 1.3E+02 0.0028 20.9 7.2 39 233-274 38-76 (78)
48 PF13505 OMP_b-brl: Outer memb 39.2 1.7E+02 0.0038 22.3 13.8 26 233-258 129-154 (176)
49 PF05420 BCSC_C: Cellulose syn 37.5 1.1E+02 0.0023 28.2 6.3 41 181-223 299-341 (342)
50 PF09381 Porin_OmpG: Outer mem 36.0 1.2E+02 0.0025 26.9 5.9 65 210-274 224-299 (301)
51 PF13557 Phenol_MetA_deg: Puta 35.2 2.7E+02 0.0059 23.4 11.7 45 185-231 170-229 (248)
52 PF06178 KdgM: Oligogalacturon 32.2 3.2E+02 0.0069 23.3 9.3 29 231-259 58-86 (218)
53 PF13609 Porin_4: Gram-negativ 29.7 3.7E+02 0.008 23.2 18.3 10 157-166 185-194 (311)
54 PRK14574 hmsH outer membrane p 28.5 6.9E+02 0.015 26.0 12.0 101 157-259 592-718 (822)
55 PRK12580 outer membrane protea 27.4 4.7E+02 0.01 23.7 15.7 181 67-259 63-269 (312)
56 TIGR01414 autotrans_barl outer 27.0 5.1E+02 0.011 24.0 11.9 64 196-259 335-411 (429)
57 PF11751 DUF3308: Protein of u 26.9 4.2E+02 0.0091 23.0 13.5 50 213-262 211-260 (274)
58 cd01347 ligand_gated_channel T 23.1 6.5E+02 0.014 23.8 10.3 25 182-206 337-361 (635)
59 PRK10993 outer membrane protea 23.1 5.7E+02 0.012 23.2 12.9 73 181-257 133-208 (314)
60 PF02530 Porin_2: Porin subfam 23.0 6.1E+02 0.013 23.5 12.1 114 137-259 236-352 (379)
61 PF06980 DUF1302: Protein of u 22.7 3.9E+02 0.0084 26.4 7.8 35 126-166 496-530 (554)
No 1
>cd07306 Porin3_VDAC Voltage-dependent anion channel of the outer mitochondrial membrane. The voltage-dependent anion channel (VDAC) regulates the flux of mostly anionic metabolites through the outer mitochondrial membrane, which is highly permeable to small molecules. VDAC is the most abundant protein in the outer membrane, and membrane potentials can toggle VDAC between open or high-conducting and closed or low-conducting forms. VDAC binds to and is regulated in part by hexokinase, an interaction that renders mitochondria less susceptible to pro-apoptotic signals, most likely by intefering with VDAC's capability to respond to Bcl-2 family proteins. While VDAC appears to play a key role in mitochondrially induced cell death, a proposed involvement in forming the mitochondrial permeability transition pore, which is characteristic for damaged mitochondria and apoptosis, has been challenged by more recent studies.
Probab=100.00 E-value=4.6e-61 Score=425.61 Aligned_cols=268 Identities=40% Similarity=0.601 Sum_probs=255.7
Q ss_pred CCcccccccccccccccCCCCc-eeEEEEEecCCCcEEEEEEEecC--ceeEEEEEEEEeecCeEEEEEEcCCCcEEEEE
Q 023854 5 PGLYSEIGKKARDLLYKDYQSD-HKFTVTTYTSAGVAITSSGVKKG--ELFLADVSTQLKNKNITTDVKVDTNSNLFTTI 81 (276)
Q Consensus 5 P~~f~dl~K~akdll~k~y~~~-~~l~~~~~~~~g~~f~~~~~~~~--~~~~g~~e~~~~~~~~~~~~~~~~~~~l~~~~ 81 (276)
||+|.||+|.|||||+|||+|+ |+|+|++++++|++|++++...+ +++.|.+|++|+.++++++++|+++|++.+++
T Consensus 1 p~~f~digK~akDll~k~y~~g~~kl~~~tk~~~gv~~~~~g~~~~~~~~~~g~~e~k~~~~~~t~~~k~~t~n~l~t~v 80 (276)
T cd07306 1 PPTYFDIGKSAKDLLTKGYNFGAWKLDVKTKTPNGVEFTSTGSKKPDTGKVSGSLEAKYKIKGLTLTQKWNTDNVLLTEI 80 (276)
T ss_pred CCceeccccchhhcccCCCCCCCEEEEEEEECCCCeEEEEEEEeCCCCceEEEEEEEEEEeCCEEEEEEEeCCCceeEEE
Confidence 8999999999999999999965 99999999999999999999876 69999999999999999999999999999999
Q ss_pred EEcC-CCCCceEEEEEEcc---CCCCceEEEEEeecceeeeEEEecCCCCeEEEEEEEccCceEEEEEEEEEcCCCccee
Q 023854 82 TVDE-PAPGLKSIFSFIVP---DQRSGKVELQYQHEYAGISTGIGFTANPIVNFSGVVGNNSVALGTDLSFDTATGNFTK 157 (276)
Q Consensus 82 ~~~~-~~~glk~~~~~~~~---~~~~~~~~~~y~~~~~~~~~~~~~~~~p~~~~s~v~~~~~~~~G~e~~y~~~~~~~~~ 157 (276)
++++ ++||+|+.+++.+| +.++++++++|+|+++++++++++..+|.++.++++++++|++|+|+.||..++++++
T Consensus 81 ~~~~~~~~glk~~~~~~~~p~~~~~s~kl~~~y~~~~~~~~~~v~~~~~p~~~~s~~~g~~~~~~G~e~~yd~~~~~~~~ 160 (276)
T cd07306 81 TIEDLLAPGLKLTLDTTFPPNTGKKSGKLKAGYKHDPININADVDLNKGPLVGASAVLGYKGFLLGAEVVYDTAKSKFTK 160 (276)
T ss_pred EECcccCCcceEEEEEEECCCCCCceEEEEEEEecCCeeEEEEecccCCCeeEEEEEecccceEEEEEEEEeccCCcEee
Confidence 9999 66999999999975 3689999999999999999999998789999999999999999999999999888999
Q ss_pred eEeEEEEEeCCeEEEEEEcCCCCeEEEEEEEEeCCCcceeEEEEEEEeecCCceEEEEEEEEeeCCCCeEEEEEcCCceE
Q 023854 158 CNAGLSYTHTDLIASLTLNDKGDTLNASYYHIVSPLTNTAVGAELTHSFSSNENTLTIGTQHALDPLTSVKARVNNYGRA 237 (276)
Q Consensus 158 ~~~~~~y~~~~~~~s~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~y~ld~~~~~Kakvds~g~v 237 (276)
|+++++|+.+||++++++.+ ++.+.+|||||++++ +++|+|+.|++..++++++||+||.+++++++|||||++|.+
T Consensus 161 ~~~~~~Y~~~d~~~s~~l~~-~~~l~~S~~~kv~~~--l~~g~e~~~~~~~~~~~~~vg~~y~l~~~~~vkakv~~~g~v 237 (276)
T cd07306 161 YNFALGYTNGDFELSLKLNN-GKTLRGSYFHKVSPR--LAVGAKVTWYSGTNETTFAVGGQYALDPDALVKAKVNNDGQL 237 (276)
T ss_pred EEEEEEEecCCeEEEEEECC-CCEEEEEEEEEcCCC--eEEEEEEEEecCCCCcEEEEEEEEEcCCCCEEEEEECCCceE
Confidence 99999999999999999985 789999999999999 899999999998899999999999998889999999999999
Q ss_pred EEEEEEEecCCeEEEEEEEEeccccC-CCCeeEEEEEEc
Q 023854 238 SALIQHEWRPKSLFTISGEVDTRAIE-KSAKIGLALALK 275 (276)
Q Consensus 238 ~~~~~~~l~~~~~l~ls~~~d~~~~~-~~~K~G~~l~~~ 275 (276)
+++|+++|+|++++++|+++|++++. +.||||++|+|+
T Consensus 238 ~~~y~~kl~~~v~~tls~~~d~~~~~~~~~K~G~~l~~~ 276 (276)
T cd07306 238 GLSYQHKLRPGVTLTLSAGFDAKNLNQGGHKFGLSLSLK 276 (276)
T ss_pred EEEEEEEcCCCcEEEEEEEeeccCcCCCCCeEEEEEEeC
Confidence 99999999999999999999999884 799999999986
No 2
>KOG3126 consensus Porin/voltage-dependent anion-selective channel protein [Inorganic ion transport and metabolism]
Probab=100.00 E-value=5.9e-60 Score=409.02 Aligned_cols=272 Identities=39% Similarity=0.523 Sum_probs=256.7
Q ss_pred CCCCCcccccccccccccccCCCCc-eeEEEEEecCCCcEEEEEEEecC--ceeEEEEEEEEeec--CeEEEEEEcCCCc
Q 023854 2 VKGPGLYSEIGKKARDLLYKDYQSD-HKFTVTTYTSAGVAITSSGVKKG--ELFLADVSTQLKNK--NITTDVKVDTNSN 76 (276)
Q Consensus 2 ~~~P~~f~dl~K~akdll~k~y~~~-~~l~~~~~~~~g~~f~~~~~~~~--~~~~g~~e~~~~~~--~~~~~~~~~~~~~ 76 (276)
+|.||+|.||||.|||||+|||+++ |++++++++.+|++|++++.... +++.|++|++|+.+ |++++++|+|+++
T Consensus 1 ~~~pp~y~digK~ArDl~~kgy~~g~~~~~~~t~t~~gv~ftssg~~~~~~~~v~gsle~k~~~~~~glt~t~kw~Tdn~ 80 (281)
T KOG3126|consen 1 MMAPPTYADLGKLARDLFNKGYGFGLWKLDLKTKTESGVEFTSSGSVNTDTGKVKGSLETKYKDKDYGLTLTEKWNTDNT 80 (281)
T ss_pred CCCCcchhhhhhHHHHHhhCCCCCCcEEEEEEeeccCcEEEEeeeccccceeeeeeeeEEEEeeccCceEEEEEeecCCc
Confidence 4899999999999999999999998 89999999999999999998654 59999999999988 8999999999999
Q ss_pred EEEEEEEcC-CCCCceEEEEEEccC---CCCceEEEEEeecceeeeEEEecCCCCeEEEEEEEccCceEEEEEEEEEcCC
Q 023854 77 LFTTITVDE-PAPGLKSIFSFIVPD---QRSGKVELQYQHEYAGISTGIGFTANPIVNFSGVVGNNSVALGTDLSFDTAT 152 (276)
Q Consensus 77 l~~~~~~~~-~~~glk~~~~~~~~~---~~~~~~~~~y~~~~~~~~~~~~~~~~p~~~~s~v~~~~~~~~G~e~~y~~~~ 152 (276)
|.++|++++ ++||+|+.+..++|+ ++++|++++|.|+.+++.+...+.++|.+.+++|+++++|++|+|+.||...
T Consensus 81 L~t~I~~~~~~~pglk~~~~~s~~p~~~~ks~Klk~~y~~~~~~~~~~~~~~~~P~i~~s~v~g~~g~l~G~~~~fDt~~ 160 (281)
T KOG3126|consen 81 LGTEITVEDQLAPGLKLTLDSSFSPNTGKKSGKLKLSYARDHFNLGADDFLTANPLILGSLVLGHEGWLLGYETTFDTAS 160 (281)
T ss_pred cceEEEEccccCCceEEEEEEeecCcccccceeeecccccccceeeeccccccCCeEEEEEEecccceEEEEeEEEeccC
Confidence 999999977 999999999999765 7899999999999999988643457999999999999999999999999999
Q ss_pred CcceeeEeEEEEEeCCeEEEEEEcCCCCeEEEEEEEEeCCCcceeEEEEEEEeecCCceEEEEEEEEeeCCCCeEEEEEc
Q 023854 153 GNFTKCNAGLSYTHTDLIASLTLNDKGDTLNASYYHIVSPLTNTAVGAELTHSFSSNENTLTIGTQHALDPLTSVKARVN 232 (276)
Q Consensus 153 ~~~~~~~~~~~y~~~~~~~s~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~y~ld~~~~~Kakvd 232 (276)
+.+++|+++++|.++++++++.++ +++.+.+|+|||+++. +++++++.|.....+++++||.||.+|+.++|||||+
T Consensus 161 ~~~t~~n~~lgy~~~d~~l~~~~n-n~~~~~~s~yq~v~~~--~~~~~~~~~~~~~~~~~~~igt~Y~lD~~t~VkAKVn 237 (281)
T KOG3126|consen 161 GKLTKYNAALGYTTEDFTLHLNLN-NGTEFLASIYQRVNEK--LETGANAEWIAGSSNTRFTIGTKYALDPDTSVKAKVN 237 (281)
T ss_pred CcEeeEEEEEEeecCCcEEEEEec-ccchhhhhhhhhhcch--heeeeeEEEeecCCccEEEEEEEeccCCCceeeeeec
Confidence 999999999999999999999997 5679999999999999 8999999999988899999999999999999999999
Q ss_pred CCceEEEEEEEEecCCeEEEEEEEEeccccCCCCeeEEEEEEcC
Q 023854 233 NYGRASALIQHEWRPKSLFTISGEVDTRAIEKSAKIGLALALKP 276 (276)
Q Consensus 233 s~g~v~~~~~~~l~~~~~l~ls~~~d~~~~~~~~K~G~~l~~~~ 276 (276)
++|+++++|+|+|+|++++++|+++|.++++..||||++|+|+|
T Consensus 238 n~g~~gl~yq~~lrp~i~~t~s~~~d~~~~~~~hK~Glsl~~~~ 281 (281)
T KOG3126|consen 238 NAGLAGLGYQQTLRPGIKVTLSAEFDGKALDAGHKFGLSLALKP 281 (281)
T ss_pred CCceeeEEEEEecCCCcEEEEEEEEeccCCCCCcceeEEEeecC
Confidence 99999999999999999999999999999955599999999997
No 3
>cd07303 Porin3 Eukaryotic porin family that forms channels in the mitochondrial outer membrane. The porin family 3 contains two sub-families that play vital roles in the mitochondrial outer membrane, a translocase for unfolded pre-proteins (Tom40) and the voltage-dependent anion channel (VDAC) that regulates the flux of mostly anionic metabolites through the outer mitochondrial membrane.
Probab=100.00 E-value=3.8e-52 Score=367.57 Aligned_cols=259 Identities=27% Similarity=0.392 Sum_probs=231.5
Q ss_pred cccccccccccccccCCCCceeEEEEEecCCCcEEEEEEEec------CceeEEEEEEEEeec--CeEEEEEEcCCCcEE
Q 023854 7 LYSEIGKKARDLLYKDYQSDHKFTVTTYTSAGVAITSSGVKK------GELFLADVSTQLKNK--NITTDVKVDTNSNLF 78 (276)
Q Consensus 7 ~f~dl~K~akdll~k~y~~~~~l~~~~~~~~g~~f~~~~~~~------~~~~~g~~e~~~~~~--~~~~~~~~~~~~~l~ 78 (276)
+|+||+|+|||||++||++++|++|++.+++ +|++++... ...+.+.++++|.+. +++++.+|++++++.
T Consensus 1 ~~~digk~ardll~~~~~~g~k~~v~~~~~~--~f~~s~~~~~~~~~~~~~~~~~~~~k~~~~~~~~t~~~~~~~dn~~~ 78 (274)
T cd07303 1 TYAELGKSARDLFTKGYGGGIKLDVKTKSEL--EFTSSGSANTETIESTTKVGGSLETKYRWSPYGLTFTEKWNTDNTLG 78 (274)
T ss_pred ChhHhhhhhHHhcccCCCCCEEEEEEecCCC--ccEEcccccccccCCCceEEEEEEEeeeecCCCeEEEEEEEcCCcce
Confidence 5899999999999999999999999999776 688888753 347888999988653 799999999999999
Q ss_pred EEEEEcC-CCCCceEEEEEEccC---CCCceEEEEEeecceeeeEEEecCCCCeEEEEEEEccCceEEEEEEEEEcCCCc
Q 023854 79 TTITVDE-PAPGLKSIFSFIVPD---QRSGKVELQYQHEYAGISTGIGFTANPIVNFSGVVGNNSVALGTDLSFDTATGN 154 (276)
Q Consensus 79 ~~~~~~~-~~~glk~~~~~~~~~---~~~~~~~~~y~~~~~~~~~~~~~~~~p~~~~s~v~~~~~~~~G~e~~y~~~~~~ 154 (276)
+++++.+ +.||+|+++++++++ .+.++++.+|+++.+.++..++. ++|.+..+++.++++|++|+|+.||+++ .
T Consensus 79 ~~~~~~~~~~~glk~~~~~~~~~~~~~~~~q~~~~y~~~~~~~~l~~~~-~gp~v~~~~~~g~~~~~~G~e~~yd~~~-~ 156 (274)
T cd07303 79 LEITVEDQLSRGLKSTFDSSFSPNTGKKNAKIKTGYKRINLGCDVDFDI-AGPLIRGALVLGYEGWLAGYQMVFETVS-R 156 (274)
T ss_pred EEEEEecccCCCeEEEEEEEECCCCccEEEEEeccEEcCCeeEEEEeec-CCCEEEEEEEEeecceEEEEEEEEeccc-c
Confidence 9999988 899999999998732 35666777777776665555543 5899999999999999999999999986 5
Q ss_pred ceeeEeEEEEEe--CCeEEEEEEcCCCCeEEEEEEEEeCCCcceeEEEEEEEeecCCceEEEEEEEEeeCCCCeEEEEEc
Q 023854 155 FTKCNAGLSYTH--TDLIASLTLNDKGDTLNASYYHIVSPLTNTAVGAELTHSFSSNENTLTIGTQHALDPLTSVKARVN 232 (276)
Q Consensus 155 ~~~~~~~~~y~~--~~~~~s~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~y~ld~~~~~Kakvd 232 (276)
.++++++++|.. +||++++++.+ ++.+.+|||||++|+ +++|+|++|+.++++++++||+||.+++++++|||||
T Consensus 157 ~~~~~~~~~y~~~y~d~~~s~~l~~-~~~l~~Sy~hkvs~~--~~~g~e~~~~~~~~e~~~~vG~~y~l~~~~~vkakid 233 (274)
T cd07303 157 VTQSNFAVGYKTDYNEFQAHTNVND-GTEFGGSIYHKVNDK--LEVGVNLAATAGNSNTRFGIAAKYQVDPDACFSASVN 233 (274)
T ss_pred ccccceEEEEEccCCCeEEEEEEcC-CCeEEEEEEEEcCCc--eEEEEEEEeeccCCccEEEEEEEEecCCCCEEEEEEC
Confidence 689999999999 89999999975 789999999999999 9999999999888999999999999988899999999
Q ss_pred CCceEEEEEEEEecCCeEEEEEEEEeccccCCCCeeEEEEEE
Q 023854 233 NYGRASALIQHEWRPKSLFTISGEVDTRAIEKSAKIGLALAL 274 (276)
Q Consensus 233 s~g~v~~~~~~~l~~~~~l~ls~~~d~~~~~~~~K~G~~l~~ 274 (276)
++|.|+++||++|+|+++|++|+++|++ +++||||+||+|
T Consensus 234 s~g~v~~~~~~~l~~~~~ltls~~~D~~--~~~~KfG~gl~~ 273 (274)
T cd07303 234 NSSLVGLGYTQTLKPGIKLTLSALLDHK--AGGHKLGLGLEF 273 (274)
T ss_pred CCceEEEEEEEEcCCCcEEEEEEEecCC--CCCeeEEEEEEe
Confidence 9999999999999999999999999996 789999999987
No 4
>PF01459 Porin_3: Eukaryotic porin; InterPro: IPR001925 The major protein of the outer mitochondrial membrane of eukaryotes is a porin that forms a voltage-dependent anion-selective channel (VDAC) that behaves as a general diffusion pore for small hydrophilic molecules [, , , ]. The channel adopts an open conformation at low or zero membrane potential and a closed conformation at potentials above 30-40 mV. This protein contains about 280 amino acids and its sequence is composed of between 12 to 16 beta-strands that span the mitochondrial outer membrane. Yeast contains two members of this family (genes POR1 and POR2); vertebrates have at least three members (genes VDAC1, VDAC2 and VDAC3) [].; GO: 0008308 voltage-gated anion channel activity, 0006820 anion transport, 0044070 regulation of anion transport, 0055085 transmembrane transport, 0005741 mitochondrial outer membrane; PDB: 3EMN_X 2K4T_A 2JK4_A.
Probab=100.00 E-value=2.2e-47 Score=337.36 Aligned_cols=260 Identities=35% Similarity=0.467 Sum_probs=228.2
Q ss_pred CCCcccccccccccccccCCCCc-eeEEEEEecCCCcEEEEEEEec--Cc-eeEEEEEEEEeecCeEEEEEEcCCCcEEE
Q 023854 4 GPGLYSEIGKKARDLLYKDYQSD-HKFTVTTYTSAGVAITSSGVKK--GE-LFLADVSTQLKNKNITTDVKVDTNSNLFT 79 (276)
Q Consensus 4 ~P~~f~dl~K~akdll~k~y~~~-~~l~~~~~~~~g~~f~~~~~~~--~~-~~~g~~e~~~~~~~~~~~~~~~~~~~l~~ 79 (276)
+||.|+||+|+|||||+++|+|+ ++|+|++++++++.|++++... .+ .+.+.++++|. +..++..|+.++.+.+
T Consensus 1 nP~~f~dl~k~akdll~~~y~f~g~kl~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~d~~~~~ 78 (273)
T PF01459_consen 1 NPGSFEDLGKEAKDLLPKDYNFDGFKLDVKKKTPNGPNFTVSHSFSLGTSVPSSYSFGAKYK--GPKLTVKGDTDNDGNL 78 (273)
T ss_dssp -S-SCCCCCHCCHHHHCTTSSTTEEEEEEEEE-TTCEEEEEEEEEETTTT--EEEEEEEEEE--CEEEEEEEETTTEEEE
T ss_pred CCCChHHHhHHHHHhccCCCCCcCEEEEEEecccCcceEEEEEEEecCCCCccceEEEEEEe--CceeeEEEEeCCcccE
Confidence 79999999999999999999987 9999999999999999999864 44 79999999998 6666677777777777
Q ss_pred EEEEcC-CCCCceEEEEEEccC---CCCceEEEEEeecceeeeEEEecCCCCeEEEEEEEc-cCceEEEEEEEEEcCCCc
Q 023854 80 TITVDE-PAPGLKSIFSFIVPD---QRSGKVELQYQHEYAGISTGIGFTANPIVNFSGVVG-NNSVALGTDLSFDTATGN 154 (276)
Q Consensus 80 ~~~~~~-~~~glk~~~~~~~~~---~~~~~~~~~y~~~~~~~~~~~~~~~~p~~~~s~v~~-~~~~~~G~e~~y~~~~~~ 154 (276)
++++.+ +.|++++++.+++++ .+..+++++|+++.+++.++++...+|.+.++.+.+ .|+|++|+|+.||.....
T Consensus 79 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~~~~~~s~~~~v~~~~~lG~e~~~~~~~~~ 158 (273)
T PF01459_consen 79 EASVRNKLSPGLKLKLSAQLSPGSGKKSAQLEADYKGDDFNATFKVDNDNNPIFNASYVQSVTPNLALGAEATYDLSSGK 158 (273)
T ss_dssp EEEEESSTTTTEEEEEEEEE-TTTS-EEEEEEEEEEETTEEEEEEEEESTS-EEEEEEEEEET-TEEEEEEEEEETTTTC
T ss_pred EEEEecccCcceEEEEEEEEeecCCceeeEEEEEEecCCEEEEEEEcccCCCcEEEEEEEeccccEEEEEEEEEecccCC
Confidence 777777 899999999998643 268899999999999999999875589999999885 569999999999999888
Q ss_pred ceeeEeEEEEEeC----CeEEEEEEcCCCCeEEEEEEEEeCCCcceeEEEEEEEeecCCceEEEEEEEEeeCCCCeEEEE
Q 023854 155 FTKCNAGLSYTHT----DLIASLTLNDKGDTLNASYYHIVSPLTNTAVGAELTHSFSSNENTLTIGTQHALDPLTSVKAR 230 (276)
Q Consensus 155 ~~~~~~~~~y~~~----~~~~s~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~y~ld~~~~~Kak 230 (276)
+.+|+++++|..+ ++++++++.++...+.+|||||++++ +++|+|+.|++..+++.++||++|.+++.++||+|
T Consensus 159 ~~~~~~~~~~~~~Y~~~~~~~~~~~~~~~~~l~~sy~~k~~~~--~~~g~e~~~~~~~~~~~~~vG~~~~l~~~~~vk~k 236 (273)
T PF01459_consen 159 SSKYNAGLSYAARYTHPDYTASATLSNNFGTLTASYFQKVNDK--LQLGAELTYNLSSRESTFTVGYQYKLDDSSTVKAK 236 (273)
T ss_dssp EEEEEEEEEEEET----TEEEEEEE-ETTTEEEEEEEEESSTT--EEEEEEEEEETTCCEEEEEEEEEEEECTTEEEEEE
T ss_pred cCcceEEEEEeccccceeEEEEEEEcCCCCEEEEEEEEEeccc--eeeeeeeeecccCCCceEEEEEEEEcCcccEEEEE
Confidence 9999999999888 99999999656789999999999999 99999999999999999999999999777799999
Q ss_pred EcCCceEEEEEEEEecCCeEEEEEEEEeccccCCCCeeE
Q 023854 231 VNNYGRASALIQHEWRPKSLFTISGEVDTRAIEKSAKIG 269 (276)
Q Consensus 231 vds~g~v~~~~~~~l~~~~~l~ls~~~d~~~~~~~~K~G 269 (276)
||++|+|+++||++|+|++++++|+++|+++ ..||||
T Consensus 237 vds~g~v~~~~~~~l~~~~~l~ls~~~d~~~--~~~KfG 273 (273)
T PF01459_consen 237 VDSNGRVSASYEQKLNPGVTLTLSAELDHKN--NNHKFG 273 (273)
T ss_dssp EETTSEEEEEEEEEECTTEEEEEEEEECTT---C-EEEE
T ss_pred EcCCCEEEEEEEEecCCCcEEEEEEEEccCC--CCCCcC
Confidence 9999999999999999999999999999974 489998
No 5
>cd07305 Porin3_Tom40 Translocase of outer mitochondrial membrane 40 (Tom40). Tom40 forms a channel in the mitochondrial outer membrane with a pore about 1.5 to 2.5 nanometers wide. It functions as a transport channel for unfolded protein chains and forms a complex with Tom5, Tom6, Tom7, and Tom22. The primary receptors Tom20 and Tom70 recruit the unfolded precursor protein from the mitochondrial-import stimulating factor (MSF) or cytosolic Hsc70. The precursor passes through the Tom40 channel and through another channel in the inner membrane, formed by Tim23, to be finally translocated into the mitochondrial matrix. The process depends on a proton motive force across the inner membrane and requires a contact site where the outer and inner membranes come close. Tom40 is also involved in inserting outer membrane proteins into the membrane, most likely not via a lateral opening in the pore, but by transfering precursor proteins to an outer membrane sorting and assembly machinery.
Probab=100.00 E-value=2.1e-45 Score=325.95 Aligned_cols=262 Identities=21% Similarity=0.315 Sum_probs=222.9
Q ss_pred CCCCcccccccccccccccCCCCceeEEEEEecCCCcEEEEEEEe-cCc-eeEEEEEEEEeecC--eEEEEEEcCCCcEE
Q 023854 3 KGPGLYSEIGKKARDLLYKDYQSDHKFTVTTYTSAGVAITSSGVK-KGE-LFLADVSTQLKNKN--ITTDVKVDTNSNLF 78 (276)
Q Consensus 3 ~~P~~f~dl~K~akdll~k~y~~~~~l~~~~~~~~g~~f~~~~~~-~~~-~~~g~~e~~~~~~~--~~~~~~~~~~~~l~ 78 (276)
++|+.|+||+|+||||+..+|..|.|+++.....+...++.+... ... .....+.+.|..+. +++.+++|++|+|+
T Consensus 2 ~nPg~~e~l~~e~k~~~~~~~~~G~r~~~~k~ls~~f~~shs~~lg~~~~~~~y~f~a~y~~~~~~~~~~~~id~~g~l~ 81 (279)
T cd07305 2 PNPGTFEELHREVKEVFPLDFFDGFRLDVNKGLSPHFQVSHSLHLGSSSLTSSYQFGATYVGDKQYPFLQGDIDNDGNLN 81 (279)
T ss_pred cCCccHHHHHHHHHHhcCccccccEEEEEccccCcCeeEEEEEEECCCCCCCCcEeeeEEecCCCcEEEEEEeCCCCcee
Confidence 689999999999999999999888999998865544444444332 222 34567777798888 99999999999999
Q ss_pred EEEEEcCCCCCceEEEEEEccCC--CCceEEEEEeecceeeeEEEecC-CCCe-EEEEEEEc-------cCceEEEEEEE
Q 023854 79 TTITVDEPAPGLKSIFSFIVPDQ--RSGKVELQYQHEYAGISTGIGFT-ANPI-VNFSGVVG-------NNSVALGTDLS 147 (276)
Q Consensus 79 ~~~~~~~~~~glk~~~~~~~~~~--~~~~~~~~y~~~~~~~~~~~~~~-~~p~-~~~s~v~~-------~~~~~~G~e~~ 147 (276)
+++.++ +.+.+++++.+++++. ...+++++|.++ ++++.++ .+|. ++.+++++ +|+|++|+|+.
T Consensus 82 ~~~~~~-~~~~~~~k~~~~~~~~~~~~~q~~~dy~g~----d~t~~l~~~n~~~~~~sg~~~~~ylq~vt~~l~lG~E~~ 156 (279)
T cd07305 82 ARIIHQ-LGDRLRSKLQAQLQDSKFNMSQLELDYRGD----DFTASLKLANPDILNETGIYVASYLQSVTPKLALGGELV 156 (279)
T ss_pred EEEEec-cCcceEEEEEEEecCCCceeEEEEEEEcCC----ceEEEEEEeCCCcccccEEEEEEEEEEccCcEEEEEEEE
Confidence 999999 9999999999988653 234455555555 5555555 5674 45666665 99999999999
Q ss_pred EEc-CCCcceeeEeEEEEEeCCeEEEEEEcCCCCeEEEEEEEEeCCCcceeEEEEEEEeecCCceEEEEEEEEeeCCCCe
Q 023854 148 FDT-ATGNFTKCNAGLSYTHTDLIASLTLNDKGDTLNASYYHIVSPLTNTAVGAELTHSFSSNENTLTIGTQHALDPLTS 226 (276)
Q Consensus 148 y~~-~~~~~~~~~~~~~y~~~~~~~s~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~y~ld~~~~ 226 (276)
|++ ++.+++.+++++||+.++|++++++.+. ..+.+|||||++++ +++|+|+.|+..++++.+++|+||.+ ++++
T Consensus 157 ~~~~~~~~~~~~~~~~rY~~~d~~~s~~l~~~-~~l~asY~~kvs~~--l~lG~el~~~~~~~es~~tvg~~y~~-~~~~ 232 (279)
T cd07305 157 YQRVPGNGISVLSYAARYTAGNWIASGQLGAQ-GGLHLSYYRKLSDK--LQLGVELELNLRTRESTATLGYQYDF-RQSR 232 (279)
T ss_pred EEEcCCCCceeEEEEEEEccCCEEEEEEEcCC-CeEEEEEEEEcccc--eEeeeeeeecccCCceeEEEEEEEEc-CCCE
Confidence 996 5678899999999999999999999865 59999999999999 99999999999999999999999999 5999
Q ss_pred EEEEEcCCceEEEEEEEEecCCeEEEEEEEEeccccCCCCeeEEEEEEc
Q 023854 227 VKARVNNYGRASALIQHEWRPKSLFTISGEVDTRAIEKSAKIGLALALK 275 (276)
Q Consensus 227 ~Kakvds~g~v~~~~~~~l~~~~~l~ls~~~d~~~~~~~~K~G~~l~~~ 275 (276)
+||+||++|.|+++||++|+|++++++|+++|++ ++++|||+||+|.
T Consensus 233 ~k~~ids~g~v~~~~e~~l~~~~~l~ls~~~d~~--~~~~kfG~gl~i~ 279 (279)
T cd07305 233 FRGSIDSNGKVSAVLEKRLPLPLSLLLSGELNHV--KNDYKFGFGLTIG 279 (279)
T ss_pred EEEEEcCCCEEEEEEEEecCCCeEEEEEEEEccc--CCcceEEEEEEeC
Confidence 9999999999999999999999999999999996 6899999999974
No 6
>KOG3296 consensus Translocase of outer mitochondrial membrane complex, subunit TOM40 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.3e-33 Score=246.44 Aligned_cols=255 Identities=18% Similarity=0.246 Sum_probs=208.6
Q ss_pred CCCCcccccccccccccccCCCCceeEEEEE----------------ecCCCcEEEEEEEecCceeEEEEEEEEeecCeE
Q 023854 3 KGPGLYSEIGKKARDLLYKDYQSDHKFTVTT----------------YTSAGVAITSSGVKKGELFLADVSTQLKNKNIT 66 (276)
Q Consensus 3 ~~P~~f~dl~K~akdll~k~y~~~~~l~~~~----------------~~~~g~~f~~~~~~~~~~~~g~~e~~~~~~~~~ 66 (276)
.||+++++|+++|+ ++.. +.++.+++++. ..+.|+.|..++ .+..+..+..+.+.
T Consensus 28 ~Npgt~e~L~~~~~-~~p~-~~~g~kl~v~k~Ls~~fqvs~t~~ls~~~~sg~~fg~ty-------~~~~q~~~~~~~~i 98 (308)
T KOG3296|consen 28 LNPGTVEELHSEAS-VDPT-LSEGVKLGVNKGLSNHFQVSPTFVLSHIAASGYRFGPTY-------VYTFQASPTEAFLI 98 (308)
T ss_pred CCcHHHHHhhhhhc-cCce-eecceEeeecccccCceEeccceecccCccccceeccce-------eeeeccccCCCcce
Confidence 48999999999997 4321 12233444433 333444444333 23444445455688
Q ss_pred EEEEEcCCCcEEEEEEEcCCCCCceEEEEEEccCCCCceEEEEEeecceeeeEEEecC-CCCeEEEEEEE-------ccC
Q 023854 67 TDVKVDTNSNLFTTITVDEPAPGLKSIFSFIVPDQRSGKVELQYQHEYAGISTGIGFT-ANPIVNFSGVV-------GNN 138 (276)
Q Consensus 67 ~~~~~~~~~~l~~~~~~~~~~~glk~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~-~~p~~~~s~v~-------~~~ 138 (276)
+.+.+|++|++.+++.++ +.++++.++..++.+ +..++.|+..++++.+.+..+. .+|.+..++++ ++|
T Consensus 99 l~G~vD~~Gslna~l~~~-l~~~Lr~K~~~q~~~--~k~ve~q~~~e~~g~d~t~~~~~~n~~~~~sgi~v~~~lqsvT~ 175 (308)
T KOG3296|consen 99 LRGDVDNDGSLNARLIHQ-LTDNLRSKVALQIQQ--SKEVESQVTGEYRGRDYTLTLPLGNPDLGESGIYVASYLQSVTP 175 (308)
T ss_pred EEEecCCCCchhheeecc-cchhhHHHHHHHhcc--hhhhccccccceecccccccccccCcccccchHHHHHHHhhhcc
Confidence 999999999999999999 999998877776643 4489999999999999888876 68887666655 499
Q ss_pred ceEEEEEEEEEc-CCCcceeeEeEEEEEeCCeEEEEEEcCCCCeEEEEEEEEeCCCcceeEEEEEEEeecCCceEEEEEE
Q 023854 139 SVALGTDLSFDT-ATGNFTKCNAGLSYTHTDLIASLTLNDKGDTLNASYYHIVSPLTNTAVGAELTHSFSSNENTLTIGT 217 (276)
Q Consensus 139 ~~~~G~e~~y~~-~~~~~~~~~~~~~y~~~~~~~s~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~ 217 (276)
+|++|+|+.|.. .+......+.+.||...+|++++++.. ...+++||||..++ ++.|+|+.++..-+++..++++
T Consensus 176 ~LsLG~El~~~~~~~~~~s~ls~a~RY~~~~~~~~~t~g~--~g~~~~y~~r~~~~--~~~~ve~~~~~~~~~~~~t~a~ 251 (308)
T KOG3296|consen 176 RLSLGGELLYQRRPGPEESGLSYAGRYEHSNWDATVTLGQ--QGLTGTYYQRAVEK--LQMGVEFETNTRLQSTDVTAAY 251 (308)
T ss_pred cccccceeEeccCCCccccceeeeeeeeecceeeEEeccc--ccceehhhhhhhhh--hccceeEeeecccCCcceEEEE
Confidence 999999999998 455677889999999999999999974 37889999999999 8999999999988899999999
Q ss_pred EEee-CCCCeEEEEEcCCceEEEEEEEEecCCeEEEEEEEEeccccCCCCeeEEEEEEc
Q 023854 218 QHAL-DPLTSVKARVNNYGRASALIQHEWRPKSLFTISGEVDTRAIEKSAKIGLALALK 275 (276)
Q Consensus 218 ~y~l-d~~~~~Kakvds~g~v~~~~~~~l~~~~~l~ls~~~d~~~~~~~~K~G~~l~~~ 275 (276)
+|++ .+++.+|++||+||.|++.+|+||.+++++.+|+++||. +.++|||+||++.
T Consensus 252 ~~~l~~~~s~~rg~vDSn~~v~~~lek~L~l~l~~~ls~~lnh~--k~~~~~G~gl~~~ 308 (308)
T KOG3296|consen 252 GYDLPTAQSVFRGSVDSNWSVGAVLEKKLPLPLTLALSAELNHV--KNDFKFGFGLTIG 308 (308)
T ss_pred EeeccCccceEEEEeccCceehhhhHhhcCCCceeeeeeeeccc--ccccccceeEEeC
Confidence 9998 678999999999999999999999779999999999995 8899999999874
No 7
>TIGR00989 3a0801s07tom40 mitochondrial import receptor subunit Tom40. translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family is specific for the Tom40 proteins.
Probab=99.72 E-value=1.3e-16 Score=127.42 Aligned_cols=142 Identities=16% Similarity=0.178 Sum_probs=108.4
Q ss_pred CCCCccccccccc-ccccccCCCCc-eeEEEEEecCCCcEEEEEEEe---cCceeEEEEEEEEeecCeEEEEEEcCCCcE
Q 023854 3 KGPGLYSEIGKKA-RDLLYKDYQSD-HKFTVTTYTSAGVAITSSGVK---KGELFLADVSTQLKNKNITTDVKVDTNSNL 77 (276)
Q Consensus 3 ~~P~~f~dl~K~a-kdll~k~y~~~-~~l~~~~~~~~g~~f~~~~~~---~~~~~~g~~e~~~~~~~~~~~~~~~~~~~l 77 (276)
.||++|++|+|+| ||++.+.|.|+ .|+++.....-+..|.++++- ........+.+.|..+.+.+.+++|++|+|
T Consensus 2 ~nPGt~E~l~re~~rdv~l~~~~FeG~R~d~~K~~~ls~~FqvSHs~~mgs~~~p~Y~FgA~y~~~~~~l~G~id~dG~l 81 (161)
T TIGR00989 2 SNPGTIENLAKEVSRDTLLSNYMFTGLRADVTKAFSLAPLFQVSHQFAMGSQRLPPYAFSALFGTNQLFAQGNLDNDGAV 81 (161)
T ss_pred cCCccHHHHHHHHhhhcccCccccccEEEEEecccccCCceeEEEEEEeCCCCCCCceeeeEecCCcEEEEEEeCCCCCE
Confidence 5899999999999 99999999885 899998874335678888752 222233455555776778999999999999
Q ss_pred EEEEEEcCCCCCceEEEEEEccC--CCCceEEEEEeecceeeeEEEecC-CCCeE-E--EEEEE-------ccCceEEEE
Q 023854 78 FTTITVDEPAPGLKSIFSFIVPD--QRSGKVELQYQHEYAGISTGIGFT-ANPIV-N--FSGVV-------GNNSVALGT 144 (276)
Q Consensus 78 ~~~~~~~~~~~glk~~~~~~~~~--~~~~~~~~~y~~~~~~~~~~~~~~-~~p~~-~--~s~v~-------~~~~~~~G~ 144 (276)
++++.++ |.+.++.++++++.+ ....+++.+|+.+++ ++.++ .+|.+ + +++++ +||++++|+
T Consensus 82 ~ar~~~~-~~~~~~~K~~~Q~~~~~~~~~Q~e~DY~G~Df----t~~lk~~Np~~~~~~~sGi~v~sylQsVTp~LaLG~ 156 (161)
T TIGR00989 82 STRLNYR-WGDRTISKVQFQISGGQPDMCQFEHDHLGDDF----SASLKAINPSFLEKGLTGIFVGSYLQSVTPRLGLGL 156 (161)
T ss_pred EEEEEEe-eCcceeEEEEEEecCCCCceEEEEEEecCCeE----EEEEEEcCcccccccceEEEEEeeeehhCcceeeee
Confidence 9999999 999999999888643 245567777777755 44444 47774 3 25554 499999999
Q ss_pred EEEEE
Q 023854 145 DLSFD 149 (276)
Q Consensus 145 e~~y~ 149 (276)
|+.|+
T Consensus 157 E~~yq 161 (161)
T TIGR00989 157 EALWQ 161 (161)
T ss_pred eeEeC
Confidence 99985
No 8
>cd07305 Porin3_Tom40 Translocase of outer mitochondrial membrane 40 (Tom40). Tom40 forms a channel in the mitochondrial outer membrane with a pore about 1.5 to 2.5 nanometers wide. It functions as a transport channel for unfolded protein chains and forms a complex with Tom5, Tom6, Tom7, and Tom22. The primary receptors Tom20 and Tom70 recruit the unfolded precursor protein from the mitochondrial-import stimulating factor (MSF) or cytosolic Hsc70. The precursor passes through the Tom40 channel and through another channel in the inner membrane, formed by Tim23, to be finally translocated into the mitochondrial matrix. The process depends on a proton motive force across the inner membrane and requires a contact site where the outer and inner membranes come close. Tom40 is also involved in inserting outer membrane proteins into the membrane, most likely not via a lateral opening in the pore, but by transfering precursor proteins to an outer membrane sorting and assembly machinery.
Probab=99.29 E-value=5.3e-09 Score=92.98 Aligned_cols=167 Identities=16% Similarity=0.137 Sum_probs=121.3
Q ss_pred CCCCceEEEEEEccC---CCCceEEEEEeecc--eeeeEEEecCCCCeEEEEEEE-ccCceEEEEEEEEEcCCCcceeeE
Q 023854 86 PAPGLKSIFSFIVPD---QRSGKVELQYQHEY--AGISTGIGFTANPIVNFSGVV-GNNSVALGTDLSFDTATGNFTKCN 159 (276)
Q Consensus 86 ~~~glk~~~~~~~~~---~~~~~~~~~y~~~~--~~~~~~~~~~~~p~~~~s~v~-~~~~~~~G~e~~y~~~~~~~~~~~ 159 (276)
+.|.+.+.=.+.+.. ....++.+.|..+. .-+..+++-. -.+++.... -.+++..-..+. ........+.
T Consensus 34 ls~~f~~shs~~lg~~~~~~~y~f~a~y~~~~~~~~~~~~id~~--g~l~~~~~~~~~~~~~~k~~~~--~~~~~~~~~q 109 (279)
T cd07305 34 LSPHFQVSHSLHLGSSSLTSSYQFGATYVGDKQYPFLQGDIDND--GNLNARIIHQLGDRLRSKLQAQ--LQDSKFNMSQ 109 (279)
T ss_pred cCcCeeEEEEEEECCCCCCCCcEeeeEEecCCCcEEEEEEeCCC--CceeEEEEeccCcceEEEEEEE--ecCCCceeEE
Confidence 666665555444322 23567888888887 5556655532 223333332 234554444444 4434567788
Q ss_pred eEEEEEeCCeEEEEEEcCCC-----CeEEEEEEEEeCCCcceeEEEEEEEe--ecCCceEEEEEEEEeeCCCCeEEEEEc
Q 023854 160 AGLSYTHTDLIASLTLNDKG-----DTLNASYYHIVSPLTNTAVGAELTHS--FSSNENTLTIGTQHALDPLTSVKARVN 232 (276)
Q Consensus 160 ~~~~y~~~~~~~s~~~~~~~-----~~~~~Sy~~kv~~~~~~~~g~e~~~~--~~~~~~~~~vG~~y~ld~~~~~Kakvd 232 (276)
+...|..++|++++++.+.. ..+.++|.|+++++ +++|+|+.|. ...+.+..++|++|.- ++.++.+.++
T Consensus 110 ~~~dy~g~d~t~~l~~~n~~~~~~sg~~~~~ylq~vt~~--l~lG~E~~~~~~~~~~~~~~~~~~rY~~-~d~~~s~~l~ 186 (279)
T cd07305 110 LELDYRGDDFTASLKLANPDILNETGIYVASYLQSVTPK--LALGGELVYQRVPGNGISVLSYAARYTA-GNWIASGQLG 186 (279)
T ss_pred EEEEEcCCceEEEEEEeCCCcccccEEEEEEEEEEccCc--EEEEEEEEEEEcCCCCceeEEEEEEEcc-CCEEEEEEEc
Confidence 99999999999999965431 48899999999999 8999999999 5678889999999999 7888999999
Q ss_pred CCceEEEEEEEEecCCeEEEEEEEEec
Q 023854 233 NYGRASALIQHEWRPKSLFTISGEVDT 259 (276)
Q Consensus 233 s~g~v~~~~~~~l~~~~~l~ls~~~d~ 259 (276)
+.+.+.++|-|+++|++.+..-.+.+.
T Consensus 187 ~~~~l~asY~~kvs~~l~lG~el~~~~ 213 (279)
T cd07305 187 AQGGLHLSYYRKLSDKLQLGVELELNL 213 (279)
T ss_pred CCCeEEEEEEEEcccceEeeeeeeecc
Confidence 999999999999999755555544444
No 9
>cd07306 Porin3_VDAC Voltage-dependent anion channel of the outer mitochondrial membrane. The voltage-dependent anion channel (VDAC) regulates the flux of mostly anionic metabolites through the outer mitochondrial membrane, which is highly permeable to small molecules. VDAC is the most abundant protein in the outer membrane, and membrane potentials can toggle VDAC between open or high-conducting and closed or low-conducting forms. VDAC binds to and is regulated in part by hexokinase, an interaction that renders mitochondria less susceptible to pro-apoptotic signals, most likely by intefering with VDAC's capability to respond to Bcl-2 family proteins. While VDAC appears to play a key role in mitochondrially induced cell death, a proposed involvement in forming the mitochondrial permeability transition pore, which is characteristic for damaged mitochondria and apoptosis, has been challenged by more recent studies.
Probab=98.94 E-value=1.4e-06 Score=77.44 Aligned_cols=172 Identities=15% Similarity=0.176 Sum_probs=113.2
Q ss_pred CCcEEEEEEEec--CceeEEEEEEEEeecCeEEEEEEcCC--CcEEEEEEEcCCCCCceEEEEEEc--cCC--CCceEEE
Q 023854 37 AGVAITSSGVKK--GELFLADVSTQLKNKNITTDVKVDTN--SNLFTTITVDEPAPGLKSIFSFIV--PDQ--RSGKVEL 108 (276)
Q Consensus 37 ~g~~f~~~~~~~--~~~~~g~~e~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~glk~~~~~~~--~~~--~~~~~~~ 108 (276)
.|++....+.-. .+...+.++..|..+.+.+...++-. -.+...+.+. .+++-+-.++.+ ... ....+.+
T Consensus 88 ~glk~~~~~~~~p~~~~~s~kl~~~y~~~~~~~~~~v~~~~~p~~~~s~~~g--~~~~~~G~e~~yd~~~~~~~~~~~~~ 165 (276)
T cd07306 88 PGLKLTLDTTFPPNTGKKSGKLKAGYKHDPININADVDLNKGPLVGASAVLG--YKGFLLGAEVVYDTAKSKFTKYNFAL 165 (276)
T ss_pred CcceEEEEEEECCCCCCceEEEEEEEecCCeeEEEEecccCCCeeEEEEEec--ccceEEEEEEEEeccCCcEeeEEEEE
Confidence 455555554322 35677888888887766555554443 3344444444 366666555553 111 2345778
Q ss_pred EEeecceeeeEEEecCCCCeEEEEEEE-ccCceEEEEEEEEEcCCCcceeeEeEEEEEeC-CeEEEEEEcCCCCeEEEEE
Q 023854 109 QYQHEYAGISTGIGFTANPIVNFSGVV-GNNSVALGTDLSFDTATGNFTKCNAGLSYTHT-DLIASLTLNDKGDTLNASY 186 (276)
Q Consensus 109 ~y~~~~~~~~~~~~~~~~p~~~~s~v~-~~~~~~~G~e~~y~~~~~~~~~~~~~~~y~~~-~~~~s~~~~~~~~~~~~Sy 186 (276)
.|.++.+.+...+. ....+.+|..- ..+++++|+|+.|+...+. ..+++|++|.-+ ++.+.+++++++ .+.++|
T Consensus 166 ~Y~~~d~~~s~~l~--~~~~l~~S~~~kv~~~l~~g~e~~~~~~~~~-~~~~vg~~y~l~~~~~vkakv~~~g-~v~~~y 241 (276)
T cd07306 166 GYTNGDFELSLKLN--NGKTLRGSYFHKVSPRLAVGAKVTWYSGTNE-TTFAVGGQYALDPDALVKAKVNNDG-QLGLSY 241 (276)
T ss_pred EEecCCeEEEEEEC--CCCEEEEEEEEEcCCCeEEEEEEEEecCCCC-cEEEEEEEEEcCCCCEEEEEECCCc-eEEEEE
Confidence 89888776555543 23456777554 6899999999999986544 689999999866 499999998776 999999
Q ss_pred EEEeCCCcceeEEEEEEEeecC---CceEEEEE
Q 023854 187 YHIVSPLTNTAVGAELTHSFSS---NENTLTIG 216 (276)
Q Consensus 187 ~~kv~~~~~~~~g~e~~~~~~~---~~~~~~vG 216 (276)
.|+++|+ +.+......+... +...+.+|
T Consensus 242 ~~kl~~~--v~~tls~~~d~~~~~~~~~K~G~~ 272 (276)
T cd07306 242 QHKLRPG--VTLTLSAGFDAKNLNQGGHKFGLS 272 (276)
T ss_pred EEEcCCC--cEEEEEEEeeccCcCCCCCeEEEE
Confidence 9999999 5555554444333 44445444
No 10
>PF01459 Porin_3: Eukaryotic porin; InterPro: IPR001925 The major protein of the outer mitochondrial membrane of eukaryotes is a porin that forms a voltage-dependent anion-selective channel (VDAC) that behaves as a general diffusion pore for small hydrophilic molecules [, , , ]. The channel adopts an open conformation at low or zero membrane potential and a closed conformation at potentials above 30-40 mV. This protein contains about 280 amino acids and its sequence is composed of between 12 to 16 beta-strands that span the mitochondrial outer membrane. Yeast contains two members of this family (genes POR1 and POR2); vertebrates have at least three members (genes VDAC1, VDAC2 and VDAC3) [].; GO: 0008308 voltage-gated anion channel activity, 0006820 anion transport, 0044070 regulation of anion transport, 0055085 transmembrane transport, 0005741 mitochondrial outer membrane; PDB: 3EMN_X 2K4T_A 2JK4_A.
Probab=98.90 E-value=7.5e-06 Score=72.13 Aligned_cols=162 Identities=18% Similarity=0.208 Sum_probs=111.0
Q ss_pred CceEEEEEeecceeeeEEEecCCCCeEEEEEEE---ccCceEEEEEEEEEcCCCcceeeEeEEEEEeCCeEEEEEEcC-C
Q 023854 103 SGKVELQYQHEYAGISTGIGFTANPIVNFSGVV---GNNSVALGTDLSFDTATGNFTKCNAGLSYTHTDLIASLTLND-K 178 (276)
Q Consensus 103 ~~~~~~~y~~~~~~~~~~~~~~~~p~~~~s~v~---~~~~~~~G~e~~y~~~~~~~~~~~~~~~y~~~~~~~s~~~~~-~ 178 (276)
...++..|..... ....++ .+.....+.+ ..+++.+=.+..+.... ....+.+.+.|..+++.+.+.+.. .
T Consensus 54 ~~~~~~~~~~~~~--~~~~~~--d~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~~l~~~y~~~~~~~~~~~~~~~ 128 (273)
T PF01459_consen 54 SYSFGAKYKGPKL--TVKGDT--DNDGNLEASVRNKLSPGLKLKLSAQLSPGS-GKKSAQLEADYKGDDFNATFKVDNDN 128 (273)
T ss_dssp EEEEEEEEECEEE--EEEEET--TTEEEEEEEEESSTTTTEEEEEEEEE-TTT-S-EEEEEEEEEEETTEEEEEEEEEST
T ss_pred ceEEEEEEeCcee--eEEEEe--CCcccEEEEEecccCcceEEEEEEEEeecC-CceeeEEEEEEecCCEEEEEEEcccC
Confidence 3456666663322 222233 4444444333 36776666666654432 236788899999999999999874 1
Q ss_pred CCeEEEEEEEEeCCCcceeEEEEEEEeecCCceE-----EEEEEEEeeCCCCeEEEEE-cCCceEEEEEEEEecCCeEEE
Q 023854 179 GDTLNASYYHIVSPLTNTAVGAELTHSFSSNENT-----LTIGTQHALDPLTSVKARV-NNYGRASALIQHEWRPKSLFT 252 (276)
Q Consensus 179 ~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~-----~~vG~~y~ld~~~~~Kakv-ds~g~v~~~~~~~l~~~~~l~ 252 (276)
...+.+||.+.+.|+ +.+|+|+.|+...++.. +.++.+|.- ++.++-+++ ++.+.+.++|-|++++.+.+.
T Consensus 129 ~~~~~~s~~~~v~~~--~~lG~e~~~~~~~~~~~~~~~~~~~~~~Y~~-~~~~~~~~~~~~~~~l~~sy~~k~~~~~~~g 205 (273)
T PF01459_consen 129 NPIFNASYVQSVTPN--LALGAEATYDLSSGKSSKYNAGLSYAARYTH-PDYTASATLSNNFGTLTASYFQKVNDKLQLG 205 (273)
T ss_dssp S-EEEEEEEEEET-T--EEEEEEEEEETTTTCEEEEEEEEEEEET-----TEEEEEEE-ETTTEEEEEEEEESSTTEEEE
T ss_pred CCcEEEEEEEecccc--EEEEEEEEEecccCCcCcceEEEEEeccccc-eeEEEEEEEcCCCCEEEEEEEEEeccceeee
Confidence 358999999999999 89999999998876665 444444443 699999999 789999999999999999988
Q ss_pred EEEEEeccccCCCCeeEEEEEE
Q 023854 253 ISGEVDTRAIEKSAKIGLALAL 274 (276)
Q Consensus 253 ls~~~d~~~~~~~~K~G~~l~~ 274 (276)
.-.+.+.. .....+.+|...
T Consensus 206 ~e~~~~~~--~~~~~~~vG~~~ 225 (273)
T PF01459_consen 206 AELTYNLS--SRESTFTVGYQY 225 (273)
T ss_dssp EEEEEETT--CCEEEEEEEEEE
T ss_pred eeeeeccc--CCCceEEEEEEE
Confidence 88888874 334555555544
No 11
>cd07303 Porin3 Eukaryotic porin family that forms channels in the mitochondrial outer membrane. The porin family 3 contains two sub-families that play vital roles in the mitochondrial outer membrane, a translocase for unfolded pre-proteins (Tom40) and the voltage-dependent anion channel (VDAC) that regulates the flux of mostly anionic metabolites through the outer mitochondrial membrane.
Probab=98.41 E-value=0.0006 Score=60.47 Aligned_cols=132 Identities=14% Similarity=0.153 Sum_probs=96.3
Q ss_pred cCceEEEEEEEEEcCCCcceeeEeEEEEEeCCeEEEEEEcCCCCeEEEEEEEEeCCCcceeEEEEEEEeecCC--ceEEE
Q 023854 137 NNSVALGTDLSFDTATGNFTKCNAGLSYTHTDLIASLTLNDKGDTLNASYYHIVSPLTNTAVGAELTHSFSSN--ENTLT 214 (276)
Q Consensus 137 ~~~~~~G~e~~y~~~~~~~~~~~~~~~y~~~~~~~s~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~--~~~~~ 214 (276)
.+++..=.++.++..++ .....+-..|..+++.+.+.+...+ -+..++.+-+.++ +.+|+|+.|+..++ +..+.
T Consensus 88 ~~glk~~~~~~~~~~~~-~~~~q~~~~y~~~~~~~~l~~~~~g-p~v~~~~~~g~~~--~~~G~e~~yd~~~~~~~~~~~ 163 (274)
T cd07303 88 SRGLKSTFDSSFSPNTG-KKNAKIKTGYKRINLGCDVDFDIAG-PLIRGALVLGYEG--WLAGYQMVFETVSRVTQSNFA 163 (274)
T ss_pred CCCeEEEEEEEECCCCc-cEEEEEeccEEcCCeeEEEEeecCC-CEEEEEEEEeecc--eEEEEEEEEeccccccccceE
Confidence 68888888888865332 2445556689999999999996444 6667888999999 89999999997543 33455
Q ss_pred EEEEEeeCCCCeEEEEEcCCceEEEEEEEEecCCeEEEEEEEEeccccCCCCeeEEEEEEc
Q 023854 215 IGTQHALDPLTSVKARVNNYGRASALIQHEWRPKSLFTISGEVDTRAIEKSAKIGLALALK 275 (276)
Q Consensus 215 vG~~y~ld~~~~~Kakvds~g~v~~~~~~~l~~~~~l~ls~~~d~~~~~~~~K~G~~l~~~ 275 (276)
+|+.-.. ++..+-+++++-+.+.++|-||++|.+.+.+-.+.+.+ ..+..+.+|...+
T Consensus 164 ~~y~~~y-~d~~~s~~l~~~~~l~~Sy~hkvs~~~~~g~e~~~~~~--~~e~~~~vG~~y~ 221 (274)
T cd07303 164 VGYKTDY-NEFQAHTNVNDGTEFGGSIYHKVNDKLEVGVNLAATAG--NSNTRFGIAAKYQ 221 (274)
T ss_pred EEEEccC-CCeEEEEEEcCCCeEEEEEEEEcCCceEEEEEEEeecc--CCccEEEEEEEEe
Confidence 5543333 56677888988899999999999998877777666653 3455666655443
No 12
>KOG3126 consensus Porin/voltage-dependent anion-selective channel protein [Inorganic ion transport and metabolism]
Probab=97.23 E-value=0.093 Score=46.43 Aligned_cols=97 Identities=16% Similarity=0.195 Sum_probs=65.7
Q ss_pred ceEEEEEeecceeeeEEEecCCCCeEEEEEEE-ccCceEEEEEEEEEcCCCcceeeEeEEEEEe-CCeEEEEEEcCCCCe
Q 023854 104 GKVELQYQHEYAGISTGIGFTANPIVNFSGVV-GNNSVALGTDLSFDTATGNFTKCNAGLSYTH-TDLIASLTLNDKGDT 181 (276)
Q Consensus 104 ~~~~~~y~~~~~~~~~~~~~~~~p~~~~s~v~-~~~~~~~G~e~~y~~~~~~~~~~~~~~~y~~-~~~~~s~~~~~~~~~ 181 (276)
-.+.+.|..+.+.+...++ ..-.+..|... ....+..|.++.|..... -+.+++|.+|.- ++..+.+++++.+ .
T Consensus 166 ~n~~lgy~~~d~~l~~~~n--n~~~~~~s~yq~v~~~~~~~~~~~~~~~~~-~~~~~igt~Y~lD~~t~VkAKVnn~g-~ 241 (281)
T KOG3126|consen 166 YNAALGYTTEDFTLHLNLN--NGTEFLASIYQRVNEKLETGANAEWIAGSS-NTRFTIGTKYALDPDTSVKAKVNNAG-L 241 (281)
T ss_pred EEEEEEeecCCcEEEEEec--ccchhhhhhhhhhcchheeeeeEEEeecCC-ccEEEEEEEeccCCCceeeeeecCCc-e
Confidence 3466777777665444442 11223333222 355589999999998755 578999999975 5778999998654 9
Q ss_pred EEEEEEEEeCCCcceeEEEEEEE
Q 023854 182 LNASYYHIVSPLTNTAVGAELTH 204 (276)
Q Consensus 182 ~~~Sy~~kv~~~~~~~~g~e~~~ 204 (276)
+.+.|-|++.|...+.+++++..
T Consensus 242 ~gl~yq~~lrp~i~~t~s~~~d~ 264 (281)
T KOG3126|consen 242 AGLGYQQTLRPGIKVTLSAEFDG 264 (281)
T ss_pred eeEEEEEecCCCcEEEEEEEEec
Confidence 99999999999944444444443
No 13
>TIGR00989 3a0801s07tom40 mitochondrial import receptor subunit Tom40. translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family is specific for the Tom40 proteins.
Probab=97.17 E-value=0.013 Score=47.35 Aligned_cols=65 Identities=18% Similarity=0.231 Sum_probs=46.0
Q ss_pred cCceEEEEEEEEEcCCCcceeeEeEEEEEeCCeEEEEEEcCCC-------CeEEEEEEEEeCCCcceeEEEEEEEe
Q 023854 137 NNSVALGTDLSFDTATGNFTKCNAGLSYTHTDLIASLTLNDKG-------DTLNASYYHIVSPLTNTAVGAELTHS 205 (276)
Q Consensus 137 ~~~~~~G~e~~y~~~~~~~~~~~~~~~y~~~~~~~s~~~~~~~-------~~~~~Sy~~kv~~~~~~~~g~e~~~~ 205 (276)
.+++..=.++... .++...+-+-.-|+..||++++++.+.. ..+.+||.|.|.|+ +++|.|+.|.
T Consensus 90 ~~~~~~K~~~Q~~--~~~~~~~Q~e~DY~G~Dft~~lk~~Np~~~~~~~sGi~v~sylQsVTp~--LaLG~E~~yq 161 (161)
T TIGR00989 90 GDRTISKVQFQIS--GGQPDMCQFEHDHLGDDFSASLKAINPSFLEKGLTGIFVGSYLQSVTPR--LGLGLEALWQ 161 (161)
T ss_pred CcceeEEEEEEec--CCCCceEEEEEEecCCeEEEEEEEcCcccccccceEEEEEeeeehhCcc--eeeeeeeEeC
Confidence 4444444333332 2223455566899999999999987421 15689999999999 8999999984
No 14
>KOG3296 consensus Translocase of outer mitochondrial membrane complex, subunit TOM40 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.02 E-value=0.015 Score=51.76 Aligned_cols=134 Identities=17% Similarity=0.174 Sum_probs=89.8
Q ss_pred cCceEEEEEEEEEcCC------------CcceeeEeEEEEEeCCeEEEEEEcC-C---CCeEEEEEEEEeCCCcceeEEE
Q 023854 137 NNSVALGTDLSFDTAT------------GNFTKCNAGLSYTHTDLIASLTLND-K---GDTLNASYYHIVSPLTNTAVGA 200 (276)
Q Consensus 137 ~~~~~~G~e~~y~~~~------------~~~~~~~~~~~y~~~~~~~s~~~~~-~---~~~~~~Sy~~kv~~~~~~~~g~ 200 (276)
-..-.+.+.+.|+... ++...+..-..|...++.+++...+ + -..+.++|.|.+.++ +++|+
T Consensus 104 D~~Gslna~l~~~l~~~Lr~K~~~q~~~~k~ve~q~~~e~~g~d~t~~~~~~n~~~~~sgi~v~~~lqsvT~~--LsLG~ 181 (308)
T KOG3296|consen 104 DNDGSLNARLIHQLTDNLRSKVALQIQQSKEVESQVTGEYRGRDYTLTLPLGNPDLGESGIYVASYLQSVTPR--LSLGG 181 (308)
T ss_pred CCCCchhheeecccchhhHHHHHHHhcchhhhccccccceecccccccccccCcccccchHHHHHHHhhhccc--ccccc
Confidence 4445667777665542 3344566667788888888877652 1 125567999999999 89999
Q ss_pred EEEEee--cCCceEEEEEEEEeeCCCCeEEEEEcCCceEEEEEEEEecCCeEEEEEEEEeccccCCCCeeEEEEEE
Q 023854 201 ELTHSF--SSNENTLTIGTQHALDPLTSVKARVNNYGRASALIQHEWRPKSLFTISGEVDTRAIEKSAKIGLALAL 274 (276)
Q Consensus 201 e~~~~~--~~~~~~~~vG~~y~ld~~~~~Kakvds~g~v~~~~~~~l~~~~~l~ls~~~d~~~~~~~~K~G~~l~~ 274 (276)
|+.|.. ...+..++..+||.. .....-+-....|.- +.|-+|+.+++...+..+.|..--+...-+++++.+
T Consensus 182 El~~~~~~~~~~s~ls~a~RY~~-~~~~~~~t~g~~g~~-~~y~~r~~~~~~~~ve~~~~~~~~~~~~t~a~~~~l 255 (308)
T KOG3296|consen 182 ELLYQRRPGPEESGLSYAGRYEH-SNWDATVTLGQQGLT-GTYYQRAVEKLQMGVEFETNTRLQSTDVTAAYGYDL 255 (308)
T ss_pred eeEeccCCCccccceeeeeeeee-cceeeEEecccccce-ehhhhhhhhhhccceeEeeecccCCcceEEEEEeec
Confidence 999997 347888999999998 444444555555443 445577778888877777777411334555555544
No 15
>PF10082 DUF2320: Uncharacterized protein conserved in bacteria (DUF2320); InterPro: IPR018759 This domain has no known function.
Probab=93.57 E-value=5.9 Score=36.41 Aligned_cols=46 Identities=13% Similarity=0.132 Sum_probs=36.0
Q ss_pred EEcCCceEEEEEEEEecCCeEEEEEEEEeccccC------CCCeeEEEEEEc
Q 023854 230 RVNNYGRASALIQHEWRPKSLFTISGEVDTRAIE------KSAKIGLALALK 275 (276)
Q Consensus 230 kvds~g~v~~~~~~~l~~~~~l~ls~~~d~~~~~------~~~K~G~~l~~~ 275 (276)
+-|.-..+++.++.++++.+.+.+.....-++-+ ..+.+++++.++
T Consensus 329 r~D~~~~~~~~~~y~~~r~~~~~~~y~~~~~~S~~~~~~y~~n~v~l~l~~~ 380 (381)
T PF10082_consen 329 REDDTYSAGLGLTYRLNRWLSLSAGYRYEDRDSNIPSYDYDRNRVGLGLTYQ 380 (381)
T ss_pred ceeeEEEEEEEEEEEecCCEEEEEEEEEEEeeCCCCCCceEeEEEEEEEEEE
Confidence 7788888999999999999999888887775321 236888888764
No 16
>PF12519 DUF3722: Protein of unknown function (DUF3722) ; InterPro: IPR022197 This family of proteins is found in eukaryotes. Proteins in this family are typically between 415 and 473 amino acids in length.
Probab=93.19 E-value=1.8 Score=37.91 Aligned_cols=66 Identities=21% Similarity=0.361 Sum_probs=54.1
Q ss_pred cCceEEEEEEEEEcCCCcceeeEeEEEEEe------CCeEEEEEEcCCCCeEEEEEEEEeCCCcceeEEEEEEEe
Q 023854 137 NNSVALGTDLSFDTATGNFTKCNAGLSYTH------TDLIASLTLNDKGDTLNASYYHIVSPLTNTAVGAELTHS 205 (276)
Q Consensus 137 ~~~~~~G~e~~y~~~~~~~~~~~~~~~y~~------~~~~~s~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~ 205 (276)
..+|.+|+|+-|-...+ -...+.|+||.+ ..+++++++++-...+..+|--|.++. +++++++.++
T Consensus 189 ~~r~S~GaE~yys~~~k-s~G~STglRf~Tlp~~tg~PlTlTlt~NPl~GhiSstYs~k~s~~--~a~~SrfdFN 260 (260)
T PF12519_consen 189 YGRFSAGAELYYSALNK-SPGCSTGLRFCTLPAHTGKPLTLTLTLNPLMGHISSTYSVKASPN--SAFCSRFDFN 260 (260)
T ss_pred cceEeeccEEEEEeecc-CCcccceeEEEecCCCCCCCeEEEEEeccccccchheeeeeccCC--ceEEeecccC
Confidence 34999999999977543 357889999965 458999999987668999999999999 8888877653
No 17
>PRK10993 outer membrane protease; Reviewed
Probab=87.66 E-value=21 Score=32.26 Aligned_cols=180 Identities=15% Similarity=0.107 Sum_probs=99.7
Q ss_pred EEEEEcCCCcEEEEEEEcCCCCCceEEEEEE--ccCCCCce-EEEE--------EeecceeeeEEEecCCCCeEEEEE-E
Q 023854 67 TDVKVDTNSNLFTTITVDEPAPGLKSIFSFI--VPDQRSGK-VELQ--------YQHEYAGISTGIGFTANPIVNFSG-V 134 (276)
Q Consensus 67 ~~~~~~~~~~l~~~~~~~~~~~glk~~~~~~--~~~~~~~~-~~~~--------y~~~~~~~~~~~~~~~~p~~~~s~-v 134 (276)
+..++++..-|++++..+ +.|.|++..+.. +.+ .+++ ..=+ |.+...+-+.+++--..-.++... .
T Consensus 63 LdW~~~n~~iik~~~~~~-~~~~lsl~a~gw~~l~s-~~G~M~DyDWl~~~~~~wt~~S~h~~t~l~ya~e~dln~~~w~ 140 (314)
T PRK10993 63 LDWKIKNAAIIKGDINWD-LLPRLSLGASGWTTLAS-GGGHMVDYDWLDSSQPGWTDRSHHPDTDLNYANEFDLNLKGWL 140 (314)
T ss_pred eeccccCceEEEeecccc-cccceEEeeeEEEEEec-CCCccccccccCCCCCCCcceecCCCCchhhhhhcceecceee
Confidence 445555666688888888 899999888764 332 1111 1111 333333323333211122333333 3
Q ss_pred EccCceEEEEEEEEEcCCCcceeeEeEEEEEe--C---CeEEEEEEcCCCCeEEEEEEEEeCCCcceeEEEEEEEeecCC
Q 023854 135 VGNNSVALGTDLSFDTATGNFTKCNAGLSYTH--T---DLIASLTLNDKGDTLNASYYHIVSPLTNTAVGAELTHSFSSN 209 (276)
Q Consensus 135 ~~~~~~~~G~e~~y~~~~~~~~~~~~~~~y~~--~---~~~~s~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~ 209 (276)
+..++..+|.-+.|+...- .-.+.|+.|.. . +.+.+ -+.+ ....+|-|+..-- -+|...++...
T Consensus 141 l~~~~yklG~~aGyqy~~~--sw~A~GG~y~Y~~~~~r~~~g~---fPd~-~~~I~Y~Q~f~~p---yiGL~g~y~~~-- 209 (314)
T PRK10993 141 LQNPNYRLGVMAGYQETRF--SWTAYGGSYIYSNGGFRDDIGT---FPDG-ERGIGYKQRFKMP---YIGLTGSYRYD-- 209 (314)
T ss_pred ecCCCceeeeEeeeEEEec--eeEccCceEEcCCCCCCCCccc---cCCC-ccceeeEEEecce---eeeEEEEEEec--
Confidence 4688888999888877533 33344555543 3 22222 2443 6668999998533 45555555543
Q ss_pred ceEEEEEEEEee-----------CCCCeEEEEEcCCceE--EEEEEEEecCCeEEEEEEEEec
Q 023854 210 ENTLTIGTQHAL-----------DPLTSVKARVNNYGRA--SALIQHEWRPKSLFTISGEVDT 259 (276)
Q Consensus 210 ~~~~~vG~~y~l-----------d~~~~~Kakvds~g~v--~~~~~~~l~~~~~l~ls~~~d~ 259 (276)
.-.+....+|.. -++.++|-++++.-.. .+.....+.|++++-+++....
T Consensus 210 ~~ef~~~~kys~wv~a~d~D~H~lR~ltF~d~~~~s~y~~l~~~agY~vTp~~~v~v~~~y~~ 272 (314)
T PRK10993 210 DFEFGGLLKYSGWVSASDNDEHYLRNLTFRDKFKNSPYYSASINAGYYVTPNAKLYVEGAYNR 272 (314)
T ss_pred cEEEeeEeecceeEeecccchhhcccccchhcccCCceeEEEEEEeEEeCCCeEEEEEEEEEE
Confidence 233333333322 1456677666665444 5667778889888888877654
No 18
>PRK10716 long-chain fatty acid outer membrane transporter; Provisional
Probab=84.91 E-value=20 Score=33.96 Aligned_cols=76 Identities=14% Similarity=0.023 Sum_probs=48.3
Q ss_pred CCeEEEEEEEEeCCCcceeEEEEEEEeecCCceEEEEEEEEeeCCC--CeEEEEEcCCceEEEEEEEEecCCeEEEEEEE
Q 023854 179 GDTLNASYYHIVSPLTNTAVGAELTHSFSSNENTLTIGTQHALDPL--TSVKARVNNYGRASALIQHEWRPKSLFTISGE 256 (276)
Q Consensus 179 ~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~y~ld~~--~~~Kakvds~g~v~~~~~~~l~~~~~l~ls~~ 256 (276)
-+.+.++..|+++|+ +.+.+.+.|..=+.=..+.+- .. ... ...--.-++.+.+++..++++++.++|..+..
T Consensus 286 P~~~~lg~~~~~~~~--~~l~~d~~wt~WS~~~~l~i~--~~-~g~~~~~~~~~w~D~w~~~~G~~Y~~n~~l~LRaG~~ 360 (435)
T PRK10716 286 PEMWEVSGYNRVAPQ--WAIHYSLAYTSWSQFQELKAT--SS-NGDTLFQKHEGFKDAYRIALGTTYYYDDNWTFRTGIA 360 (435)
T ss_pred CcEEEEEeEEecCCc--EEEEEEEEEeeecccceEEEE--eC-CCcceecccccceeeeEEEeeEEEECCCCeEEEEeeE
Confidence 367789999999999 888998888643321122221 00 000 01112245667788888888888888888888
Q ss_pred Eec
Q 023854 257 VDT 259 (276)
Q Consensus 257 ~d~ 259 (276)
.|-
T Consensus 361 yd~ 363 (435)
T PRK10716 361 FDD 363 (435)
T ss_pred ecc
Confidence 873
No 19
>PF11383 DUF3187: Protein of unknown function (DUF3187); InterPro: IPR021523 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=84.23 E-value=32 Score=31.21 Aligned_cols=64 Identities=17% Similarity=0.082 Sum_probs=39.3
Q ss_pred CceEEEEEEEEeeCCCCeEEEEEcC--------------CceEEEEEEEEecCCeEEEEEEEEeccccCCCCeeEEEE
Q 023854 209 NENTLTIGTQHALDPLTSVKARVNN--------------YGRASALIQHEWRPKSLFTISGEVDTRAIEKSAKIGLAL 272 (276)
Q Consensus 209 ~~~~~~vG~~y~ld~~~~~Kakvds--------------~g~v~~~~~~~l~~~~~l~ls~~~d~~~~~~~~K~G~~l 272 (276)
....+.+|++|++.+...++++++. ...+.+.|..++.++..+.++..=|..+++..+-|++.+
T Consensus 236 ~~~~~~~g~~y~~~~~~~l~~q~~~~qg~~~~~~~l~~~s~e~~lG~r~~~~~~~alei~~~En~~~~dnS~Diaf~l 313 (319)
T PF11383_consen 236 NTWFGGLGYGYQLTENHSLLAQYDYYQGFYDSSSELSEPSNELTLGYRYQLSERSALEISVIENLFNVDNSPDIAFHL 313 (319)
T ss_pred ceEEEEEEEEEEecCCEEEEEEEEEeeccccCchhhcccceEEEeeeEEEEcCCceEEEEEEecccccCCCCCeEEEE
Confidence 3445666777776666666666653 244667777777777777777766664454444444443
No 20
>COG2067 FadL Long-chain fatty acid transport protein [Lipid metabolism]
Probab=84.03 E-value=37 Score=32.27 Aligned_cols=94 Identities=15% Similarity=0.088 Sum_probs=52.8
Q ss_pred EEEEEE-ccCceEEEEEEEEEcCCCcceeeEeEEEEEeCCeEEEEE---EcCCCCeEEEEEEEEeCCCcceeEEEEEEEe
Q 023854 130 NFSGVV-GNNSVALGTDLSFDTATGNFTKCNAGLSYTHTDLIASLT---LNDKGDTLNASYYHIVSPLTNTAVGAELTHS 205 (276)
Q Consensus 130 ~~s~v~-~~~~~~~G~e~~y~~~~~~~~~~~~~~~y~~~~~~~s~~---~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~ 205 (276)
+.+... ..++|++.+.+.|-.= +++.+..+... ...-..... .. ++-.+.+.--|+++|+ +++.+-+.|+
T Consensus 289 el~~~~~~~d~w~~~~s~~wT~W-S~f~~l~~~~~--~~~~~~~~~~~~yr-D~wt~a~G~~Y~~nd~--~tlragiayD 362 (440)
T COG2067 289 ELSGQHKVADQWAIHGSVKWTDW-SSFDKLDFVFT--FGKTLFAKTEDGYR-DTWTVALGTTYKFNDQ--WTLRAGIAYD 362 (440)
T ss_pred EEeeeeccCCCeEEEEEEEEeec-cCCceEEEEEc--CCCccccccccccc-cccEEeeeceeEcCcc--ceEeeeeeec
Confidence 444333 4888888888887432 12334443222 111111111 22 2346666777888888 5566656676
Q ss_pred ec-------------CCceEEEEEEEEeeCCCCeEEE
Q 023854 206 FS-------------SNENTLTIGTQHALDPLTSVKA 229 (276)
Q Consensus 206 ~~-------------~~~~~~~vG~~y~ld~~~~~Ka 229 (276)
.. .....+++|..|+++++..|.+
T Consensus 363 ~s~s~~~~~~~~iPd~Dr~~~s~G~~Y~~t~n~~vd~ 399 (440)
T COG2067 363 QSPSPAQNRSISIPDTDRWWLSLGTTYKFTKNLEVDA 399 (440)
T ss_pred CCCCcccccccccCCCCcEEEeCccEEecCCCeEEEE
Confidence 33 2334578888888887776654
No 21
>COG2067 FadL Long-chain fatty acid transport protein [Lipid metabolism]
Probab=81.73 E-value=30 Score=32.88 Aligned_cols=76 Identities=11% Similarity=-0.087 Sum_probs=53.9
Q ss_pred CeEEEEEEEEeCCCcceeEEEEEEEeecCCceEEEEEEEEeeCCCCeEEEEE---cCCceEEEEEEEEecCCeEEEEEEE
Q 023854 180 DTLNASYYHIVSPLTNTAVGAELTHSFSSNENTLTIGTQHALDPLTSVKARV---NNYGRASALIQHEWRPKSLFTISGE 256 (276)
Q Consensus 180 ~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~y~ld~~~~~Kakv---ds~g~v~~~~~~~l~~~~~l~ls~~ 256 (276)
+.+..+++||++|+ +.+...+.|..=++=..+.+-.. +....+.... .+.+.+++..++++++.+++..+-.
T Consensus 286 ~~~el~~~~~~~d~--w~~~~s~~wT~WS~f~~l~~~~~---~~~~~~~~~~~~yrD~wt~a~G~~Y~~nd~~tlragia 360 (440)
T COG2067 286 ASAELSGQHKVADQ--WAIHGSVKWTDWSSFDKLDFVFT---FGKTLFAKTEDGYRDTWTVALGTTYKFNDQWTLRAGIA 360 (440)
T ss_pred cEEEEeeeeccCCC--eEEEEEEEEeeccCCceEEEEEc---CCCccccccccccccccEEeeeceeEcCccceEeeeee
Confidence 57889999999999 89999999886554333443322 2334444433 3677888888888888888888888
Q ss_pred Eecc
Q 023854 257 VDTR 260 (276)
Q Consensus 257 ~d~~ 260 (276)
.|..
T Consensus 361 yD~s 364 (440)
T COG2067 361 YDQS 364 (440)
T ss_pred ecCC
Confidence 7763
No 22
>cd00342 gram_neg_porins Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers are stabilized by hytrophillic clamping of Loop L2. Loop 3 bends into the pore, creating an elliptical constriction of about 7 x 11A, large enough to allow passage of a glucose molecule without steric hindrance. Removal of the C-terminal residue (usuallly F) destabilizes the trimer and removal of the 16th beta-sheet abolishes trimerization. Unlike typical membrane proteins, porins lack long hydrophobic stretches. Short turns are found at the smooth, periplasmic end, longer irregular loops are found at the rough, extracellular end. C-terminal residue forms salt bridge with N-terminus.
Probab=80.79 E-value=40 Score=29.86 Aligned_cols=21 Identities=0% Similarity=-0.181 Sum_probs=11.3
Q ss_pred eEEEEEEEEecCCeEEEEEEE
Q 023854 236 RASALIQHEWRPKSLFTISGE 256 (276)
Q Consensus 236 ~v~~~~~~~l~~~~~l~ls~~ 256 (276)
.+.+.+++.+.|.+.+.+...
T Consensus 274 ~~~~G~~Y~~~~~~~l~~~y~ 294 (329)
T cd00342 274 QVALGADYALSKRTDLYAEYG 294 (329)
T ss_pred EEEEEEeEeeccchhheeeee
Confidence 355556666666555544443
No 23
>PF05275 CopB: Copper resistance protein B precursor (CopB); InterPro: IPR007939 This family consists of several bacterial copper resistance proteins. Copper is essential and serves as a cofactor for more than 30 enzymes yet a surplus of copper is toxic and leads to free radical formation and oxidation of biomolecules. Therefore, copper homeostasis is a key requisite for every organism. CopB serves to extrude copper when it approaches toxic levels [] and has been shown to act as an ATPase (3.6.1.3 from EC).; GO: 0005507 copper ion binding, 0006878 cellular copper ion homeostasis, 0009279 cell outer membrane
Probab=76.99 E-value=31 Score=29.33 Aligned_cols=78 Identities=17% Similarity=0.197 Sum_probs=56.3
Q ss_pred eEEEEEEEEeCCCcceeEEEEEEEeecCCceEEEEEEEEeeCC---CCeEEEEEcCCceEE----EEEEEEecCCeEEEE
Q 023854 181 TLNASYYHIVSPLTNTAVGAELTHSFSSNENTLTIGTQHALDP---LTSVKARVNNYGRAS----ALIQHEWRPKSLFTI 253 (276)
Q Consensus 181 ~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~y~ld~---~~~~Kakvds~g~v~----~~~~~~l~~~~~l~l 253 (276)
.+.+-|-|-++|=+.+++|+...+......+-+.+|.+--. | .+-..+-|+++|.++ +.|+..|...+.|.=
T Consensus 56 e~q~lysr~is~fwd~q~GvR~d~~~~~~r~~~~iG~qGLA-PY~FE~da~lyvs~~G~~~~r~e~eydlllTqrLiLqP 134 (210)
T PF05275_consen 56 EIQALYSRAISPFWDVQAGVRYDFRPGPDRTWAVIGVQGLA-PYWFEVDATLYVSEDGDVAARLEAEYDLLLTQRLILQP 134 (210)
T ss_pred eeeeecccccCccceEEEEeEeecCCCCCceEEEEEEEEcC-cceEeeeeeEEEcCCCcEEEEEEEEeeeeeeeeEEEEE
Confidence 67888999999988899999888877766778888887433 2 344567788888665 455556666666666
Q ss_pred EEEEec
Q 023854 254 SGEVDT 259 (276)
Q Consensus 254 s~~~d~ 259 (276)
..+++.
T Consensus 135 ~~E~~~ 140 (210)
T PF05275_consen 135 RLEANA 140 (210)
T ss_pred eEEEEE
Confidence 666665
No 24
>PF13609 Porin_4: Gram-negative porin; PDB: 2FGR_A 2FGQ_X 1E54_A 2POR_A 3POR_A 1PRN_A 6PRN_A 8PRN_A 1H6S_1 3PRN_A ....
Probab=76.17 E-value=53 Score=28.71 Aligned_cols=45 Identities=4% Similarity=0.006 Sum_probs=26.5
Q ss_pred ceEEEEEEEEeeCCCCeEEEEEcC----------CceEEEEEEEEecCCeEEEEEE
Q 023854 210 ENTLTIGTQHALDPLTSVKARVNN----------YGRASALIQHEWRPKSLFTISG 255 (276)
Q Consensus 210 ~~~~~vG~~y~ld~~~~~Kakvds----------~g~v~~~~~~~l~~~~~l~ls~ 255 (276)
.....++..|.+ +..++.+.... .-.+++.++++|.|++++-+..
T Consensus 249 ~~~~~~~~~Y~~-~~~~~~~~y~~~~~~~~~~~~~~~~~~g~~Y~~~~~~~~~a~y 303 (311)
T PF13609_consen 249 QDAYYVGAAYTF-GKWTLYAGYGYSDSADGSDDDATSYAVGVDYDFSKNTSLYAEY 303 (311)
T ss_dssp EEEEEEEEEEEE-TTEEEEEEEEEEEE-GCCTEEEEEEEEEEEEEEETTEEEEEEE
T ss_pred ceEEEEEEEEEe-CCEEEEEEEEEEEccCCCCCCeEEEEEEEEEEcCCCEEEEEEE
Confidence 345566666666 45555555432 2236777777887776665543
No 25
>PF11383 DUF3187: Protein of unknown function (DUF3187); InterPro: IPR021523 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=75.85 E-value=62 Score=29.37 Aligned_cols=53 Identities=15% Similarity=0.046 Sum_probs=39.4
Q ss_pred eEEEEEEEEeCCCcceeEEEEEEEeec---------CCceEEEEEEEEeeCCCCeEEEEEcCCc
Q 023854 181 TLNASYYHIVSPLTNTAVGAELTHSFS---------SNENTLTIGTQHALDPLTSVKARVNNYG 235 (276)
Q Consensus 181 ~~~~Sy~~kv~~~~~~~~g~e~~~~~~---------~~~~~~~vG~~y~ld~~~~~Kakvds~g 235 (276)
...++|=.+++++ ..+-+++.+.-. .....+++|++|.+.+.+.+-.-+-.|.
T Consensus 239 ~~~~g~~y~~~~~--~~l~~q~~~~qg~~~~~~~l~~~s~e~~lG~r~~~~~~~alei~~~En~ 300 (319)
T PF11383_consen 239 FGGLGYGYQLTEN--HSLLAQYDYYQGFYDSSSELSEPSNELTLGYRYQLSERSALEISVIENL 300 (319)
T ss_pred EEEEEEEEEecCC--EEEEEEEEEeeccccCchhhcccceEEEeeeEEEEcCCceEEEEEEecc
Confidence 3456788899999 888888887632 3457899999999977776666655554
No 26
>PF04338 DUF481: Protein of unknown function, DUF481; InterPro: IPR007433 This family includes several proteins of uncharacterised function.
Probab=75.67 E-value=38 Score=27.91 Aligned_cols=21 Identities=10% Similarity=0.033 Sum_probs=16.0
Q ss_pred EEEEEEecCCeEEEEEEEEec
Q 023854 239 ALIQHEWRPKSLFTISGEVDT 259 (276)
Q Consensus 239 ~~~~~~l~~~~~l~ls~~~d~ 259 (276)
+.++.+|.+++.+.++.+.++
T Consensus 167 ~~l~~~l~~~l~l~~~~~~~y 187 (210)
T PF04338_consen 167 TGLKVKLTKNLSLSLSYNYDY 187 (210)
T ss_pred EEEEEEEeccEEEEEEEEEEE
Confidence 566677778888888887777
No 27
>cd00342 gram_neg_porins Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers are stabilized by hytrophillic clamping of Loop L2. Loop 3 bends into the pore, creating an elliptical constriction of about 7 x 11A, large enough to allow passage of a glucose molecule without steric hindrance. Removal of the C-terminal residue (usuallly F) destabilizes the trimer and removal of the 16th beta-sheet abolishes trimerization. Unlike typical membrane proteins, porins lack long hydrophobic stretches. Short turns are found at the smooth, periplasmic end, longer irregular loops are found at the rough, extracellular end. C-terminal residue forms salt bridge with N-terminus.
Probab=74.63 E-value=61 Score=28.67 Aligned_cols=72 Identities=21% Similarity=0.208 Sum_probs=40.7
Q ss_pred eeeEeEEEEEeCCeEEEEEEc------------CCCCeEEEEEEEEeCCCcceeEEEEEEEeec-------CCceEEEEE
Q 023854 156 TKCNAGLSYTHTDLIASLTLN------------DKGDTLNASYYHIVSPLTNTAVGAELTHSFS-------SNENTLTIG 216 (276)
Q Consensus 156 ~~~~~~~~y~~~~~~~s~~~~------------~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~-------~~~~~~~vG 216 (276)
..+.+++.|....+.+.+... .....+.++.-+++++. +.+.+...+... .....+.+|
T Consensus 201 ~~~~~ga~Y~~~~~~v~a~y~~~~~~~~~~~~~~~~~~~~lga~Y~~~~~--~~~~~~y~~~~~~~~~~~~~~~~~~~~G 278 (329)
T cd00342 201 RAYGAGASYDFGGLKLGAGYTNTRNDNGGGGGSAKFNGYELGATYQLTPA--LRLGAAYYYTKDRNDGGGDGKANQVALG 278 (329)
T ss_pred EEEEEEEEEEEccEEEEEEEEEEEccCCCCCCceEEEEEEEeEEEEcCCc--eEEEEEEEEEeccCCCCCCCCeEEEEEE
Confidence 345555666555554444321 01124455566777766 566666665432 234578888
Q ss_pred EEEeeCCCCeEEE
Q 023854 217 TQHALDPLTSVKA 229 (276)
Q Consensus 217 ~~y~ld~~~~~Ka 229 (276)
+.|.|.+.+.+-+
T Consensus 279 ~~Y~~~~~~~l~~ 291 (329)
T cd00342 279 ADYALSKRTDLYA 291 (329)
T ss_pred EeEeeccchhhee
Confidence 8888877655543
No 28
>PF10082 DUF2320: Uncharacterized protein conserved in bacteria (DUF2320); InterPro: IPR018759 This domain has no known function.
Probab=73.75 E-value=73 Score=29.15 Aligned_cols=79 Identities=19% Similarity=0.249 Sum_probs=54.6
Q ss_pred eeEEEEEEEeecCCceEEEEEEEEeeCCCCeEEEEEcCCceEEEEEEEEecCCeEEEEEEEEeccccCC------CCeeE
Q 023854 196 TAVGAELTHSFSSNENTLTIGTQHALDPLTSVKARVNNYGRASALIQHEWRPKSLFTISGEVDTRAIEK------SAKIG 269 (276)
Q Consensus 196 ~~~g~e~~~~~~~~~~~~~vG~~y~ld~~~~~Kakvds~g~v~~~~~~~l~~~~~l~ls~~~d~~~~~~------~~K~G 269 (276)
+.+.+.+.|.+. ..+++++.+...+.+....-+--.-.-.+++.+.|+|++++.+.+.+.....+..+ .+-+|
T Consensus 259 ~~~~~~l~w~pt-~~t~~~l~~~r~~~~~~~~~~~~~~~~~~~~~~~h~~~~~l~~~~~~~~~~~~y~~~~r~D~~~~~~ 337 (381)
T PF10082_consen 259 PSWDASLTWSPT-PKTTVTLSASRSIEESTDAGGSYVRTTSVSLGWTHQLTPRLSLSLSAGYENRDYQGSDREDDTYSAG 337 (381)
T ss_pred eEEEEEEEEecc-CceEEEEEEEEEEcCcccCCCcEEEEEEEEEEEEEEeeeeEEEEEEEEEEEeEcCCCCceeeEEEEE
Confidence 566777777764 45778888888875443333333444567888999999999999999988766532 25667
Q ss_pred EEEEEc
Q 023854 270 LALALK 275 (276)
Q Consensus 270 ~~l~~~ 275 (276)
+++...
T Consensus 338 ~~~~y~ 343 (381)
T PF10082_consen 338 LGLTYR 343 (381)
T ss_pred EEEEEE
Confidence 776654
No 29
>PF03349 Toluene_X: Outer membrane protein transport protein (OMPP1/FadL/TodX); InterPro: IPR005017 This family includes TodX from Pseudomonas putida (strain F1/ATCC 700007) Q51971 from SWISSPROT and TbuX from Burkholderia pickettii (Ralstonia pickettii) (Pseudomonas pickettii) PKO1 Q9RBW8 from SWISSPROT. These are membrane proteins of uncertain function that are involved in toluene catabolism. Related proteins involved in the degradation of similar aromatic hydrocarbons are also in this family, such as CymD O33458 from SWISSPROT.; PDB: 2R88_A 1T16_B 2R4N_B 2R4P_B 3PGU_A 2R4L_A 3DWN_B 2R4O_A 3PF1_B 3PGS_A ....
Probab=71.95 E-value=85 Score=29.12 Aligned_cols=32 Identities=13% Similarity=0.012 Sum_probs=21.0
Q ss_pred eEEEEEcCCceEEEEEEEEecCCeEEEEEEEE
Q 023854 226 SVKARVNNYGRASALIQHEWRPKSLFTISGEV 257 (276)
Q Consensus 226 ~~Kakvds~g~v~~~~~~~l~~~~~l~ls~~~ 257 (276)
..+.+++.=..+.+.+.+++.|++.+.+..+.
T Consensus 261 ~~~~~~~~P~~~~~g~~~~~~~~~~l~~d~~~ 292 (427)
T PF03349_consen 261 DGEVDLDLPASLSLGVAYRFTDKLLLSADYEW 292 (427)
T ss_dssp EEEEEEEB-EEEEEEEEEESSSSEEEEEEEEE
T ss_pred cceeeeeeceeEEEEEEEecCCCEEEEEEEEE
Confidence 34556666667777777777777777666655
No 30
>PF06178 KdgM: Oligogalacturonate-specific porin protein (KdgM); InterPro: IPR009331 This family consists of several bacterial proteins which are homologous to the oligogalacturonate-specific porin protein KdgM (Q934G3 from SWISSPROT) from Erwinia chrysanthemi. The phytopathogenic Gram-negative bacteria E. chrysanthemi secretes pectinases, which are able to degrade the pectic polymers of plant cell walls, and uses the degradation products as a carbon source for growth. KdgM is a major outer membrane protein, whose synthesis is strongly induced in the presence of pectic derivatives. KdgM behaves like a voltage-dependent porin that is slightly selective for anions and that exhibits fast block in the presence of trigalacturonate. In contrast to most porins, KdgM seems to be monomeric [].; PDB: 2WJQ_A 2WJR_A.
Probab=69.50 E-value=18 Score=30.95 Aligned_cols=79 Identities=14% Similarity=0.071 Sum_probs=46.4
Q ss_pred CCCeEEEEEEEEeCCCcceeEEEEEEEeecCCceEEEEEEEEeeCCCCeEEEEE----------cCC--------ceEEE
Q 023854 178 KGDTLNASYYHIVSPLTNTAVGAELTHSFSSNENTLTIGTQHALDPLTSVKARV----------NNY--------GRASA 239 (276)
Q Consensus 178 ~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~y~ld~~~~~Kakv----------ds~--------g~v~~ 239 (276)
++.++.++|..|+++++-++.|..+.+......-..-|-..|.++++..+-+|- +.+ -++.+
T Consensus 60 ng~E~~~~y~~k~~d~~~l~PG~~~~~~s~~~~yrPylk~~Y~fd~~~~~~~RYRy~~~~~~~~~~~~~~~~~~~~r~d~ 139 (218)
T PF06178_consen 60 NGNEFEISYRYKLNDNFTLQPGFSLESNSDGTQYRPYLKLGYKFDNGLSVSGRYRYDYQNYSSDDLDGDKDNNDRHRFDL 139 (218)
T ss_dssp -EEEEEEEE-EESSSSEEEEEEEEEEEETTEEEEEEEEEEEEEECTTEEEEEEEEEEEESS-EE-TTS-EE---EEEEEE
T ss_pred ceeEEEEEEEEEcCCCEEEecceEEEECCCccEEeeEEEEEEEecCCEEEEEEeecceEccCCcccCCccccCccEEEEE
Confidence 567899999999999866777777666543322233344446665554433332 111 25666
Q ss_pred EEEEEecCCeEEEEEEE
Q 023854 240 LIQHEWRPKSLFTISGE 256 (276)
Q Consensus 240 ~~~~~l~~~~~l~ls~~ 256 (276)
-+-.++.+.+.+..-..
T Consensus 140 ~i~Y~~~~~~~~~y~~~ 156 (218)
T PF06178_consen 140 WIGYKFNDDWSLSYNPV 156 (218)
T ss_dssp EEEEE-SSSEEEEEEEE
T ss_pred EEEEEEcCCEEEEEEEE
Confidence 77778877777777666
No 31
>PF04357 DUF490: Family of unknown function (DUF490); InterPro: IPR007452 This family contains several proteins of uncharacterised function.
Probab=69.26 E-value=48 Score=30.20 Aligned_cols=61 Identities=8% Similarity=0.113 Sum_probs=36.4
Q ss_pred eEEEEEEEEeCCCcceeEEEEEEEeecCCceEEEEEEEEeeCCCCeEEEEEcCC--ce-EEEEEEEE
Q 023854 181 TLNASYYHIVSPLTNTAVGAELTHSFSSNENTLTIGTQHALDPLTSVKARVNNY--GR-ASALIQHE 244 (276)
Q Consensus 181 ~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~y~ld~~~~~Kakvds~--g~-v~~~~~~~ 244 (276)
......=.+++++ +.+..+..+..... ..-.+..+|.|.+...+++++++. +. +++.|+.+
T Consensus 315 ~~~~~~gk~l~~~--l~i~~~~~~~~~~~-~~~~~~l~y~l~~~~~l~~~~~~~~~~~g~~l~y~~~ 378 (379)
T PF04357_consen 315 DTSVTVGKYLSDR--LYISYQFGVDLGGS-QTGEFSLEYRLNPNLSLRGSSDSGNTSQGVDLIYRKD 378 (379)
T ss_pred ceEEEEEEecCCC--EEEEEEEeecCCCC-ceEEEEEEEEEcCCEEEEEEEEcCCCceEEEEEEEEE
Confidence 3445555666777 55555544443222 124666778887788888888555 54 66666554
No 32
>PF03349 Toluene_X: Outer membrane protein transport protein (OMPP1/FadL/TodX); InterPro: IPR005017 This family includes TodX from Pseudomonas putida (strain F1/ATCC 700007) Q51971 from SWISSPROT and TbuX from Burkholderia pickettii (Ralstonia pickettii) (Pseudomonas pickettii) PKO1 Q9RBW8 from SWISSPROT. These are membrane proteins of uncertain function that are involved in toluene catabolism. Related proteins involved in the degradation of similar aromatic hydrocarbons are also in this family, such as CymD O33458 from SWISSPROT.; PDB: 2R88_A 1T16_B 2R4N_B 2R4P_B 3PGU_A 2R4L_A 3DWN_B 2R4O_A 3PF1_B 3PGS_A ....
Probab=68.65 E-value=1e+02 Score=28.64 Aligned_cols=94 Identities=9% Similarity=-0.038 Sum_probs=57.7
Q ss_pred CeEEEEEEEEeCCCcceeEEEEEEEeecCC-ceEEEEEEEEee---CCCCeEEEEEcCCceEEEEEEEEecCCeEEEEEE
Q 023854 180 DTLNASYYHIVSPLTNTAVGAELTHSFSSN-ENTLTIGTQHAL---DPLTSVKARVNNYGRASALIQHEWRPKSLFTISG 255 (276)
Q Consensus 180 ~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~-~~~~~vG~~y~l---d~~~~~Kakvds~g~v~~~~~~~l~~~~~l~ls~ 255 (276)
..+.+++.|+++++ +.+.+++.|..=+. +........... .....+.-..++.+.+.+..|.+++|.+++..+.
T Consensus 270 ~~~~~g~~~~~~~~--~~l~~d~~~~~WS~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~lG~~Y~~~~~l~lr~G~ 347 (427)
T PF03349_consen 270 ASLSLGVAYRFTDK--LLLSADYEWTDWSSFDNLYNDQFTFANGNGSTNNNIPFNWKDTWVYRLGAEYKFNDKLTLRAGY 347 (427)
T ss_dssp EEEEEEEEEESSSS--EEEEEEEEEEEGGG-SCEEEEEEEETTECTEEEEEEE---EEEEEEEEEEEEESSSSEEEEEEE
T ss_pred eeEEEEEEEecCCC--EEEEEEEEEEEhhhhhhhcccccccccccccccccCCCCccchheeeeeeEEEcCcCEEEEEEE
Confidence 57888999999999 88999999874322 111111111110 0123444555667788888899999999999888
Q ss_pred EEeccccC-----------CCCeeEEEEEEc
Q 023854 256 EVDTRAIE-----------KSAKIGLALALK 275 (276)
Q Consensus 256 ~~d~~~~~-----------~~~K~G~~l~~~ 275 (276)
..|..-.+ ..+-+++|+.++
T Consensus 348 ~y~~sp~~~~~~~~~~p~~~~~~~s~G~~y~ 378 (427)
T PF03349_consen 348 AYDSSPIPDETRDPLLPDTDRHWLSAGAGYR 378 (427)
T ss_dssp EEEE-SS-CCC-BSSS--SSEEEEEEEEEEE
T ss_pred EEeccccCccccchhhccCCcEEEEEeeEEE
Confidence 88874221 125666666654
No 33
>PRK03761 LPS assembly outer membrane complex protein LptD; Provisional
Probab=68.00 E-value=1.5e+02 Score=30.41 Aligned_cols=99 Identities=11% Similarity=0.061 Sum_probs=66.2
Q ss_pred ccCceEEEEEEEEEcCCCcceeeEeEEEEEeCCe-EEEEEE---------------------cCCCCeEEEEEEEEeCCC
Q 023854 136 GNNSVALGTDLSFDTATGNFTKCNAGLSYTHTDL-IASLTL---------------------NDKGDTLNASYYHIVSPL 193 (276)
Q Consensus 136 ~~~~~~~G~e~~y~~~~~~~~~~~~~~~y~~~~~-~~s~~~---------------------~~~~~~~~~Sy~~kv~~~ 193 (276)
..+.|.+.+++.||.....+.+.++.++|..+.. .+.+.. ......+.+|...+++++
T Consensus 611 ~~~~~~~~~~~~~d~~~~~~~r~~~~l~y~~~~~~~~~~~Yry~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~l~~~ 690 (778)
T PRK03761 611 ISDRWGLRGGIQYDTRLDSVALANSSLEYRRDEDRLIQLNYRYASPEYIQATLPSYYSAEIYQQGISQVGAVASWPIADR 690 (778)
T ss_pred ecCCEEEeeeEEECCCCChhheEEEEEEEeCCCCcEEEeEeEEecchhhhcccccccccccccCCcceeeEEEEEEecCc
Confidence 3788999999999998888888888888876554 222211 001135677888888888
Q ss_pred cceeEEEEEEEeecCC-ceEEEEEEEEeeCCCCeEEEEEcCCceEEEEEEEEecC
Q 023854 194 TNTAVGAELTHSFSSN-ENTLTIGTQHALDPLTSVKARVNNYGRASALIQHEWRP 247 (276)
Q Consensus 194 ~~~~~g~e~~~~~~~~-~~~~~vG~~y~ld~~~~~Kakvds~g~v~~~~~~~l~~ 247 (276)
+.+.+...|++..+ .....+|.+|.= .+ |.+.++|++.+.+
T Consensus 691 --w~~~g~~~ydl~~~~~~~~~~Gl~Y~~--~C---------w~~~~~~~r~~~~ 732 (778)
T PRK03761 691 --WSIVGAYYYDTKANKPAEQLLGLQYNS--CC---------WAIGVGYERKLTG 732 (778)
T ss_pred --EEEEEEEEeeCcCChhhhhhcCeeecC--ce---------EEEEEEEEEEecc
Confidence 78888888887643 334566666642 11 4566777777644
No 34
>PF13557 Phenol_MetA_deg: Putative MetA-pathway of phenol degradation
Probab=67.83 E-value=75 Score=26.88 Aligned_cols=38 Identities=8% Similarity=0.035 Sum_probs=24.7
Q ss_pred eEEEEEEEEecCCeEEEEEEEEeccccCCCCeeEEEEEEc
Q 023854 236 RASALIQHEWRPKSLFTISGEVDTRAIEKSAKIGLALALK 275 (276)
Q Consensus 236 ~v~~~~~~~l~~~~~l~ls~~~d~~~~~~~~K~G~~l~~~ 275 (276)
.++..+...++|++.+.++...+.. ..+.-.|.++.++
T Consensus 210 ~~~~gv~y~~~~~~~l~~~~~~~~~--~~~~~~~~~~~~r 247 (248)
T PF13557_consen 210 YLGPGVSYQLSPNLSLDAGVGRGLA--ARNTFEGNGVQLR 247 (248)
T ss_pred EEEEEEEEEEcCCeEEEEEEEeeee--ccceeeeeEEEEe
Confidence 3667777777787777777777763 3345556665543
No 35
>TIGR03014 EpsL exopolysaccharide biosynthesis operon protein EpsL. The epsL gene is described as a component of the methanolan exopolysaccharide biosynthesis operon in Methylobacillus sp strain 12S, although no other information regarding its possible function is suggested. Homologs of this gene are found in several other exopolysaccharide operons in a small number of species. These operons contain a subset of the methanolan operon genes by homology and synteny, including the epsH gene which is proposed to act as an "exosortase" directing proteins with a C-terminal tag (PEP-CTERM) to the exopolysaccharide layer. Each of the genomes in which these genes and epsL are found also encode genes with these C-terminal tags.
Probab=59.33 E-value=1.5e+02 Score=27.47 Aligned_cols=25 Identities=4% Similarity=-0.149 Sum_probs=16.7
Q ss_pred EEEEEEEEecCCeEEEEEEEEeccc
Q 023854 237 ASALIQHEWRPKSLFTISGEVDTRA 261 (276)
Q Consensus 237 v~~~~~~~l~~~~~l~ls~~~d~~~ 261 (276)
+.+.++.++.++.+|++++.-...+
T Consensus 255 ~~~~~~w~pt~~t~l~l~~sr~~~~ 279 (381)
T TIGR03014 255 GRLNADWMVTGKTSLNAAISRELAN 279 (381)
T ss_pred EEEEEEEcccCcEEEEEEEEeccCC
Confidence 5566777777777777776666543
No 36
>PF01278 Omptin: Omptin family; InterPro: IPR000036 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belongs to the MEROPS family A26 (clan AF). The omptin family, comprises a number of novel outer membrane-associated serine proteases that are distinct from trypsin-like proteases in that they cleave polypeptides between two basically-charged amino acids []. The enzyme is sensitive to the serine protease inhibitor diisopropylfluoro-phosphate, to divalent cations such as Cu2+, Zn2+ and Fe2+ [], and is temperature regulated, activity decreasing at lower temperatures [, ]. Temperature regulation is most prominently shown in the Yersinia pestis coagulase/fibrinolysin protein, where coagulase activity is prevalent below 30 degrees Celsius, and fibrinolysin (protease) activity is prevalent above this point, the optimum temperature being 37 degrees []. It is possible that this assists in 'flea blockage' and transmission of the bacteria to animals []. The Escherichia coli OmpT has previously been classified as a serine protease with Ser(99) and His(212) as active site residues. The X-ray structure of the enzyme is inconsistent with this classification, and the involvement of a nucleophilic water molecule that is activated by the Asp(210)/His(212) catalytic dyad classifies this as a aspartic endopeptidase where activity is also strongly dependent on Asp(83) and Asp(85). Both may function in binding of the water molecule and/or oxyanion stabilisation. The proposed mechanism implies a novel proteolytic catalytic site [, ].; GO: 0004175 endopeptidase activity, 0006508 proteolysis, 0009279 cell outer membrane; PDB: 1I78_A 2X4M_C 2X55_A 2X56_A 4DCB_A.
Probab=58.74 E-value=1.4e+02 Score=26.84 Aligned_cols=184 Identities=13% Similarity=0.102 Sum_probs=94.3
Q ss_pred EEEEcCCCc--EEEEEEEcCCCCCceEEEEEE--ccCCCCceEEEEEeecc---------eeeeEEEecCCCCeEEEEEE
Q 023854 68 DVKVDTNSN--LFTTITVDEPAPGLKSIFSFI--VPDQRSGKVELQYQHEY---------AGISTGIGFTANPIVNFSGV 134 (276)
Q Consensus 68 ~~~~~~~~~--l~~~~~~~~~~~glk~~~~~~--~~~~~~~~~~~~y~~~~---------~~~~~~~~~~~~p~~~~s~v 134 (276)
+..|..+|. |.+.++++ +.+++.+.++.. +|......-.-++..+. .|-+..++--..-.++....
T Consensus 40 qLdW~~~n~~il~~~~~~~-~~~~l~l~~~g~~~~~~~sG~M~D~DWl~~~~~~~~T~~S~H~~t~l~~~~~~dl~~~~~ 118 (294)
T PF01278_consen 40 QLDWKIKNVPILKADISWD-LMPWLSLGASGWTGLPSGSGNMEDYDWLNPDQPDDWTHFSHHPDTRLNYANEFDLNIKYW 118 (294)
T ss_dssp EEEEEEEEEEEEEEEEEEE-CCTTEEEEEEEEEESSSEEEEEEEEE---TTSTTS-SEEEEECCEEEEEEEEEEEEEEEE
T ss_pred EEecccCCceEEEEEEEEE-ecCCEEEEEEEEEEecCCCCcEEeecccCCCCCCCCcccccCCcchhhhhheeeeeeeEE
Confidence 345666665 78888887 788988888765 34322222233333221 01112221100112333333
Q ss_pred E-ccCceEEEEEEEEEcCCCcceeeEeEEEEEeCCeE-EEEEEcCCCCeEEEEEEEEeCCCcceeEEEEEEEeecCCceE
Q 023854 135 V-GNNSVALGTDLSFDTATGNFTKCNAGLSYTHTDLI-ASLTLNDKGDTLNASYYHIVSPLTNTAVGAELTHSFSSNENT 212 (276)
Q Consensus 135 ~-~~~~~~~G~e~~y~~~~~~~~~~~~~~~y~~~~~~-~s~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~ 212 (276)
+ ..+++.+|..+.|+....+.+.+.-...|....+. .....- .+ .-..+|=|++. - .-+|.++.|... .-.
T Consensus 119 ~~~~~~~~i~~~aGyqy~~~~w~A~gG~y~Y~~~~~~~~~g~fP-~~-~~~IsY~Q~f~-~--pyiGL~~~yr~~--~~~ 191 (294)
T PF01278_consen 119 FLKEPNYRIGPMAGYQYTRFSWTAYGGYYQYSNGGFRDSSGTFP-DG-EKGISYKQRFP-M--PYIGLAGSYRYN--RFE 191 (294)
T ss_dssp EEEETTEEEEEEEEEEEEEEEEEEES-EEEETTTTSS-EEEE---TT--CEEEEEEEEE-E--EEEEEEEEEEET--TEE
T ss_pred EEcCCCEEEEEEcceEEEEeeEEeCCceEECCCCCcccccccCC-CC-cceeeeeeEEE-E--EEEeEEEEEEcC--CEE
Confidence 3 58888888888887653333333223333333311 122222 22 34468888873 2 255666666543 233
Q ss_pred EEEEEEEee-----------CCCCeEEEEEcCCceE--EEEEEEEecCCeEEEEEEEEec
Q 023854 213 LTIGTQHAL-----------DPLTSVKARVNNYGRA--SALIQHEWRPKSLFTISGEVDT 259 (276)
Q Consensus 213 ~~vG~~y~l-----------d~~~~~Kakvds~g~v--~~~~~~~l~~~~~l~ls~~~d~ 259 (276)
+.+..+|.. -++.+++=++++..-+ ++.....+.|++.+-+.+..+.
T Consensus 192 ls~~~k~s~~v~a~d~D~H~lR~l~F~d~~~~~~~~~~~~~~~Y~~tp~~~l~~e~~y~~ 251 (294)
T PF01278_consen 192 LSASLKYSPWVRANDNDEHYLRNLTFRDKMKNSNYYSLSLNAGYYLTPNASLFVEGSYNK 251 (294)
T ss_dssp EEEEEEEEEEEEEEEEEEECCCTEEEEEEEEEEEEEEEEEEEEEECCTTEEEEEEEEEEE
T ss_pred EEEEEEEeEEeEeecchhHhhccCcchhhcCCcceEEEEEEEEEEeCCCeEEEEEEEEEE
Confidence 444333322 2567777777665444 3555667888888888887664
No 37
>PF14052 Caps_assemb_Wzi: Capsule assembly protein Wzi
Probab=57.88 E-value=1e+02 Score=29.17 Aligned_cols=42 Identities=14% Similarity=-0.003 Sum_probs=29.1
Q ss_pred CceEEEEEE-EEecCCeEEEEEEEEeccccC-CCCeeEEEEEEc
Q 023854 234 YGRASALIQ-HEWRPKSLFTISGEVDTRAIE-KSAKIGLALALK 275 (276)
Q Consensus 234 ~g~v~~~~~-~~l~~~~~l~ls~~~d~~~~~-~~~K~G~~l~~~ 275 (276)
...+.+.|+ ..+.+.+.+.++..+|.-++. ....+|++|.++
T Consensus 399 ~~~~~~~~~~~~~~~~~~l~~~~~~d~~~~~~~~~~~g~~l~~~ 442 (443)
T PF14052_consen 399 SFYLELSYQSPSLNGGWSLGASVGYDNGDIPLYDDNFGAGLSVR 442 (443)
T ss_pred EEEEEEEEEcccccCCEEEEEEEEEecccccccCCCCCcEEEEe
Confidence 345566663 677789999999999986442 356667766653
No 38
>PRK04423 organic solvent tolerance protein; Provisional
Probab=57.71 E-value=1.6e+02 Score=30.39 Aligned_cols=83 Identities=16% Similarity=0.133 Sum_probs=56.4
Q ss_pred ccCceEEEEEEEEEcCCCcceeeEeEEEEEeC-CeEEEEEEc---------CCCCeEEEEEEEEeCCCcceeEEEEEEEe
Q 023854 136 GNNSVALGTDLSFDTATGNFTKCNAGLSYTHT-DLIASLTLN---------DKGDTLNASYYHIVSPLTNTAVGAELTHS 205 (276)
Q Consensus 136 ~~~~~~~G~e~~y~~~~~~~~~~~~~~~y~~~-~~~~s~~~~---------~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~ 205 (276)
..+.|.+.+++.||.....+...+++++|..+ ...+.+... ...+.+.+|...+++++ +.+.+...|+
T Consensus 627 ~~~~~~l~~~~~~d~~~~r~~~~~~~~~y~~~~~~~~nl~Yry~~~~~~~~~~~eq~~~s~~~pi~~~--W~~~g~~~yd 704 (798)
T PRK04423 627 INDRWTLGATYQWNPNSRREDLASLRTRYLLPNDGIINLAYRYRRNLIDNSDQLKQADFSFLYPINPR--WSAVGRYYYS 704 (798)
T ss_pred ecCcEEEEeEEEECCccCcceeEEEEEEEcCCCCcEEEEEEEEecccccccCChhheeEEEEEEecCC--EEEEEEEEEe
Confidence 48899999999999887667777777888643 223333221 11246788888889999 7888888888
Q ss_pred ecCC-ceEEEEEEEEe
Q 023854 206 FSSN-ENTLTIGTQHA 220 (276)
Q Consensus 206 ~~~~-~~~~~vG~~y~ 220 (276)
+..+ .....+|.+|.
T Consensus 705 l~~~~~~e~~~GleY~ 720 (798)
T PRK04423 705 LLDKKPLEIIGGVQWD 720 (798)
T ss_pred CcCCcchhhhcCcEEc
Confidence 7643 33445555554
No 39
>PRK10716 long-chain fatty acid outer membrane transporter; Provisional
Probab=53.60 E-value=2e+02 Score=27.19 Aligned_cols=17 Identities=24% Similarity=0.215 Sum_probs=12.9
Q ss_pred ccCceEEEEEEEEEcCC
Q 023854 136 GNNSVALGTDLSFDTAT 152 (276)
Q Consensus 136 ~~~~~~~G~e~~y~~~~ 152 (276)
..++|++|+.+.++...
T Consensus 161 i~d~lSiG~G~~~~y~~ 177 (435)
T PRK10716 161 LNNAFSFGLGFNAVYAR 177 (435)
T ss_pred cCCcEEEEEeEEEEEEE
Confidence 48889999988766653
No 40
>PRK15318 intimin-like protein SinH; Provisional
Probab=49.96 E-value=2.9e+02 Score=27.95 Aligned_cols=38 Identities=18% Similarity=0.086 Sum_probs=26.8
Q ss_pred cCceEEEEEEEEEcC-CCcceeeEeEEEEEeCCeEEEEE
Q 023854 137 NNSVALGTDLSFDTA-TGNFTKCNAGLSYTHTDLIASLT 174 (276)
Q Consensus 137 ~~~~~~G~e~~y~~~-~~~~~~~~~~~~y~~~~~~~s~~ 174 (276)
..+|.+|+.+.||.. ++...+..+|+-|-.+.+.+++.
T Consensus 167 ~~~wMlG~NaFyD~d~s~~h~R~GlGaE~w~dyLkLsAN 205 (730)
T PRK15318 167 FGKWLLGGNIFYDYDFTRGHRRLGLGTEAWTDYLKFSGN 205 (730)
T ss_pred CCCEEEEeEEEEccCCCCCcceeeeeeEEEecceEEEEE
Confidence 678999999999976 44556777777776555444443
No 41
>TIGR03014 EpsL exopolysaccharide biosynthesis operon protein EpsL. The epsL gene is described as a component of the methanolan exopolysaccharide biosynthesis operon in Methylobacillus sp strain 12S, although no other information regarding its possible function is suggested. Homologs of this gene are found in several other exopolysaccharide operons in a small number of species. These operons contain a subset of the methanolan operon genes by homology and synteny, including the epsH gene which is proposed to act as an "exosortase" directing proteins with a C-terminal tag (PEP-CTERM) to the exopolysaccharide layer. Each of the genomes in which these genes and epsL are found also encode genes with these C-terminal tags.
Probab=46.84 E-value=2.4e+02 Score=26.12 Aligned_cols=63 Identities=8% Similarity=-0.092 Sum_probs=36.9
Q ss_pred EEEEEEEeecCCceEEEEEEEEeeC--CCCe---EEEEEcCCceEEEEEEEEecCCeEEEEEEEEeccc
Q 023854 198 VGAELTHSFSSNENTLTIGTQHALD--PLTS---VKARVNNYGRASALIQHEWRPKSLFTISGEVDTRA 261 (276)
Q Consensus 198 ~g~e~~~~~~~~~~~~~vG~~y~ld--~~~~---~Kakvds~g~v~~~~~~~l~~~~~l~ls~~~d~~~ 261 (276)
+++...|.. .....+.+++.|.-+ +... ..++=|....+++.+..++++.+.+.+..+...++
T Consensus 293 ~~l~~~~~~-~~~v~~~~~~~y~~~dY~g~~~~~~~~R~D~~~~~~~~~~Y~~~~~~~~~l~~~~~~rd 360 (381)
T TIGR03014 293 TSIGPTWQA-TSKIAVRGRLDYEERDFEGDPLVGPPARSDRTRSGSLSLDWSPVRAVRISAAFQREKRD 360 (381)
T ss_pred EEEeeEeec-cceEEEEEEEEEEEeeccCccccCCCccccceEEEEEEEEEEEcceEEEEEEEEEEecc
Confidence 333344444 344455555555441 1100 02477777778888888888888777777776643
No 42
>TIGR03519 Bac_Flav_fam_1 Bacteroidetes-specific putative membrane protein. This model describes a protein family unique to, and greatly expanded in, the Bacteriodetes. Species in this lineage include several, such as Cytophaga hutchinsonii and Flavobacterium johnsoniae, that exhibit a poorly understood rapid gliding phenotype. Several members of this protein family are found in operons with other genes whose loss leads to a loss a this motility.
Probab=43.50 E-value=2.4e+02 Score=25.05 Aligned_cols=123 Identities=11% Similarity=0.024 Sum_probs=66.0
Q ss_pred CeEEEEEEEccCceEEEEEEEEEcC-------C---CcceeeEeEEEEEeCCeEEEEEEcCCCCeEEEEEEEE-eCC-Cc
Q 023854 127 PIVNFSGVVGNNSVALGTDLSFDTA-------T---GNFTKCNAGLSYTHTDLIASLTLNDKGDTLNASYYHI-VSP-LT 194 (276)
Q Consensus 127 p~~~~s~v~~~~~~~~G~e~~y~~~-------~---~~~~~~~~~~~y~~~~~~~s~~~~~~~~~~~~Sy~~k-v~~-~~ 194 (276)
|.+.....+-.++|-+|..+---.. . ..-..+.+.++|+-+- ++. -.+.-+.+-| ... ..
T Consensus 154 ~d~~~G~~~~~~~~y~G~S~~nl~~~~~~~~~~~~~~~~~~~~~~aGy~~~l-------~~~-~~i~Ps~l~~~~~~~~~ 225 (292)
T TIGR03519 154 PDFGAGIYYYSDKFYFGLSVPNLNQPNFSFGDSDNSKLPRHYYLTAGYKFPL-------NEE-IKITPSILYKYQKGAPF 225 (292)
T ss_pred eeeeEEEEEecCCEEEEEEhHHhCCcccccccccccccceEEEEEeeEEEEC-------CCC-cEEEeEEEEEEecCCce
Confidence 5555555666778888776542111 0 1113455555654321 122 2344444433 322 22
Q ss_pred ceeEEEEEEEeecCCceEEEEEEEEeeCCCCeEEEEEcCCceEEEEEEEEecCCeEEEEEEEEecccc----CCCCeeEE
Q 023854 195 NTAVGAELTHSFSSNENTLTIGTQHALDPLTSVKARVNNYGRASALIQHEWRPKSLFTISGEVDTRAI----EKSAKIGL 270 (276)
Q Consensus 195 ~~~~g~e~~~~~~~~~~~~~vG~~y~ld~~~~~Kakvds~g~v~~~~~~~l~~~~~l~ls~~~d~~~~----~~~~K~G~ 270 (276)
.+.+++++.+.. .+.+|+.|..++ -+.+...-++.+++.+..+=++...++ .+.|-+.+
T Consensus 226 ~~d~~~~~~~~~-----~~~~G~~Yr~~~------------ai~~~~G~~~~~~~~igysYd~~~s~l~~~~~gshEi~l 288 (292)
T TIGR03519 226 QLDLGANALYND-----KLWAGAGYRGND------------AVIGLVGFNLNKRLSIGYSYDFSTSSLSAYNGGSHEISV 288 (292)
T ss_pred EEEEeEEEEEee-----eEEEEEEecCCC------------cEEEEEEEEeCCCEEEEEEEeeEcccccCCCCCcEEEEE
Confidence 367777777752 377787787632 255556666666666666666665443 24577777
Q ss_pred EEEE
Q 023854 271 ALAL 274 (276)
Q Consensus 271 ~l~~ 274 (276)
++.|
T Consensus 289 ~y~f 292 (292)
T TIGR03519 289 SYRF 292 (292)
T ss_pred EEeC
Confidence 7643
No 43
>PRK09980 ompL outer membrane porin L; Provisional
Probab=42.67 E-value=1.2e+02 Score=26.11 Aligned_cols=29 Identities=7% Similarity=-0.007 Sum_probs=19.2
Q ss_pred CCCeEEEEEE-EEeCCCcceeEEEEEEEee
Q 023854 178 KGDTLNASYY-HIVSPLTNTAVGAELTHSF 206 (276)
Q Consensus 178 ~~~~~~~Sy~-~kv~~~~~~~~g~e~~~~~ 206 (276)
++.++.+||. .|+++++-++-|.-+....
T Consensus 70 ~~~E~~~sY~~~k~~d~~tl~PG~~~~s~s 99 (230)
T PRK09980 70 GYNEIEGWYPLFKPTDKLTIQPGGLINDKS 99 (230)
T ss_pred cceEEEEEEEeEecCCCEEEecceEEEecC
Confidence 4567888885 5999885555566555543
No 44
>PF03895 YadA_anchor: YadA-like C-terminal region; InterPro: IPR005594 This region represents the C-terminal 120 amino acids of a family of surface-exposed bacterial proteins. YadA, an adhesin from Yersinia, was the first member of this family to be characterised. UspA2 from Moraxella was second. The Eib immunoglobulin-binding proteins from E. coli were third, followed by the DsrA proteins of Haemophilus ducreyi, amongst others. These proteins are homologous at their C-terminal and have predicted signal sequences, but they diverge elsewhere. The C-terminal 9 amino acids, consisting of alternating hydrophobic amino acids ending in F or W, comprise a targeting motif for the outer membrane of the Gram negative cell envelope. This region is important for oligomerisation [].; PDB: 3LT6_C 3LT7_B 3H7X_D 3H7Z_A 2GR8_E 2GR7_F 3EMO_C 2XZR_A.
Probab=41.58 E-value=1.2e+02 Score=21.10 Aligned_cols=25 Identities=20% Similarity=0.272 Sum_probs=12.5
Q ss_pred CCceEEEEEEEEeeCCCCeEEEEEc
Q 023854 208 SNENTLTIGTQHALDPLTSVKARVN 232 (276)
Q Consensus 208 ~~~~~~~vG~~y~ld~~~~~Kakvd 232 (276)
.++..+++|++|.++++..+++.+.
T Consensus 37 ~g~~A~A~G~~~~~~~~~~~~~~~s 61 (78)
T PF03895_consen 37 RGESAVAVGASYRPNENVMVNAGVS 61 (78)
T ss_dssp TTEEEEEEEEEEE-TSSEEEEEEEE
T ss_pred CCcccEEEEEEEEeCCCEEEEEEEE
Confidence 3555666666666654444444433
No 45
>TIGR03509 OMP_MtrB_PioB decaheme-associated outer membrane protein, MtrB/PioB family. Members of this protein family are integral proteins of the bacterial outer membrane, associated with multiheme c-type cytochromes involved in electron transfer. The MtrB protein of Shewanella oneidensis MR-1 (SO1776) has been shown to form a complex with 1:1:1 stochiometry with the small, periplasmic decaheme cytochrome MtrA and large, surface-exposed decaheme cytochrome MtrC.
Probab=40.58 E-value=3.9e+02 Score=26.76 Aligned_cols=63 Identities=10% Similarity=0.053 Sum_probs=32.9
Q ss_pred eEEEEEEEEeeCCCCeEEEEEcCCceEEEEEE-EEecC--CeEEEEEEEEeccccCCCCeeEEEEEEc
Q 023854 211 NTLTIGTQHALDPLTSVKARVNNYGRASALIQ-HEWRP--KSLFTISGEVDTRAIEKSAKIGLALALK 275 (276)
Q Consensus 211 ~~~~vG~~y~ld~~~~~Kakvds~g~v~~~~~-~~l~~--~~~l~ls~~~d~~~~~~~~K~G~~l~~~ 275 (276)
..+.++++|+++++..+++.+..+-...-=|+ ..+.+ ...+..=+.++|. =..|.+|+.+.++
T Consensus 583 ~~l~l~a~Y~~~~~l~l~l~~~~eny~d~Dy~~~~~~~~~~~~~~~~g~~~~~--Y~ah~~~~s~~y~ 648 (649)
T TIGR03509 583 HRLKLYGKYQLSKSSSLRLDYRYERYSDNDYAYNNTAYDTIATVTTLGDQNPN--YNAHYLGVSYSYL 648 (649)
T ss_pred EEEEEEEEEecCCCeEEEEEEEEEEEeecchhhcCCCcccccccccccccCCC--ceeeEEEEEEEEe
Confidence 45777888888777776555522222222221 12222 1222222455552 2368999999876
No 46
>PF04575 DUF560: Protein of unknown function (DUF560); InterPro: IPR007655 This is a family of hypothetical bacterial proteins.
Probab=39.88 E-value=2.5e+02 Score=24.40 Aligned_cols=27 Identities=15% Similarity=0.089 Sum_probs=19.3
Q ss_pred eEEEEEEEEecCCeEEEEEEEEecccc
Q 023854 236 RASALIQHEWRPKSLFTISGEVDTRAI 262 (276)
Q Consensus 236 ~v~~~~~~~l~~~~~l~ls~~~d~~~~ 262 (276)
.+.+.+.+.+.+++.+.+++...-++.
T Consensus 194 g~r~g~~~~~~~g~~~~~~~~~~~r~y 220 (285)
T PF04575_consen 194 GLRLGWSQEWPGGLSTRLSASYRRRDY 220 (285)
T ss_pred eEEEEEEEEecCCeEEEEEEEEEeeec
Confidence 366777778877888888777766544
No 47
>PF03895 YadA_anchor: YadA-like C-terminal region; InterPro: IPR005594 This region represents the C-terminal 120 amino acids of a family of surface-exposed bacterial proteins. YadA, an adhesin from Yersinia, was the first member of this family to be characterised. UspA2 from Moraxella was second. The Eib immunoglobulin-binding proteins from E. coli were third, followed by the DsrA proteins of Haemophilus ducreyi, amongst others. These proteins are homologous at their C-terminal and have predicted signal sequences, but they diverge elsewhere. The C-terminal 9 amino acids, consisting of alternating hydrophobic amino acids ending in F or W, comprise a targeting motif for the outer membrane of the Gram negative cell envelope. This region is important for oligomerisation [].; PDB: 3LT6_C 3LT7_B 3H7X_D 3H7Z_A 2GR8_E 2GR7_F 3EMO_C 2XZR_A.
Probab=39.25 E-value=1.3e+02 Score=20.90 Aligned_cols=39 Identities=3% Similarity=-0.060 Sum_probs=25.8
Q ss_pred CCceEEEEEEEEecCCeEEEEEEEEeccccCCCCeeEEEEEE
Q 023854 233 NYGRASALIQHEWRPKSLFTISGEVDTRAIEKSAKIGLALAL 274 (276)
Q Consensus 233 s~g~v~~~~~~~l~~~~~l~ls~~~d~~~~~~~~K~G~~l~~ 274 (276)
...-+++.+.+++++++.+.++..++. .++.-+|+|+.+
T Consensus 38 g~~A~A~G~~~~~~~~~~~~~~~s~~~---~~~~~~~~G~~~ 76 (78)
T PF03895_consen 38 GESAVAVGASYRPNENVMVNAGVSYGS---GGDVGAGAGVSY 76 (78)
T ss_dssp TEEEEEEEEEEE-TSSEEEEEEEEEET---TS--EEEEEEEE
T ss_pred CcccEEEEEEEEeCCCEEEEEEEEecC---CCCEEEEEEEEe
Confidence 444678889999999999999999854 444544444443
No 48
>PF13505 OMP_b-brl: Outer membrane protein beta-barrel domain; PDB: 3DZM_A 2LHF_A 1Q9F_A 1ORM_A 1Q9G_A 1QJ9_A 1QJ8_A 3QRA_A 3QRC_B.
Probab=39.15 E-value=1.7e+02 Score=22.28 Aligned_cols=26 Identities=4% Similarity=-0.281 Sum_probs=18.7
Q ss_pred CCceEEEEEEEEecCCeEEEEEEEEe
Q 023854 233 NYGRASALIQHEWRPKSLFTISGEVD 258 (276)
Q Consensus 233 s~g~v~~~~~~~l~~~~~l~ls~~~d 258 (276)
....+++.++.++++++.+.+..+..
T Consensus 129 ~~~~~g~G~~y~~~~~~~l~~~y~~~ 154 (176)
T PF13505_consen 129 FGFGLGAGVEYNISDNFSLNAEYRYT 154 (176)
T ss_dssp EEEEEEEEEEEESSTTEEEEEEEEEE
T ss_pred eEEEEEEEEEEEECCCEEEEEEEEEE
Confidence 34457788888999988877666553
No 49
>PF05420 BCSC_C: Cellulose synthase operon protein C C-terminus (BCSC_C); InterPro: IPR008410 This entry contains the C-terminal regions of several bacterial cellulose synthase operon C (BCSC) proteins. BCSC is involved in cellulose synthesis although the exact function of this protein is unknown [].; GO: 0030244 cellulose biosynthetic process, 0019867 outer membrane
Probab=37.49 E-value=1.1e+02 Score=28.22 Aligned_cols=41 Identities=24% Similarity=0.237 Sum_probs=34.1
Q ss_pred eEEEEEEEEeCCCcceeEEEEEEEeecC--CceEEEEEEEEeeCC
Q 023854 181 TLNASYYHIVSPLTNTAVGAELTHSFSS--NENTLTIGTQHALDP 223 (276)
Q Consensus 181 ~~~~Sy~~kv~~~~~~~~g~e~~~~~~~--~~~~~~vG~~y~ld~ 223 (276)
.+.+..-+|++++ +.+|+++.++... .+..+.+-.+|.+++
T Consensus 299 ~l~a~~eyrls~~--~~lGg~~~~~~s~dY~~~~~~lylRY~f~~ 341 (342)
T PF05420_consen 299 SLRAAVEYRLSPH--WFLGGGLDIDNSGDYNPSHAMLYLRYSFDP 341 (342)
T ss_pred EEEEEEEEEecCC--EEEEEEEehhhcCCCCcceEEEEEEEeccC
Confidence 4566777999999 8999999998765 688889999998865
No 50
>PF09381 Porin_OmpG: Outer membrane protein G (OmpG); InterPro: IPR018981 Porins are channel proteins in the outer membrane of Gram-negative bacteria which mediate the uptake of molecules required for growth and survival. Escherichia coli OmpG forms a 14 stranded beta-barrel and in contrast to most porins, appears to function as a monomer []. The central pore of OmpG is wider than other E. coli porins and it is speculated that it may form a non-specific channel for the transport of larger oligosaccharides []. ; PDB: 2IWV_C 2F1C_X 2JQY_A 2IWW_B 2WVP_A 2X9K_A.
Probab=35.99 E-value=1.2e+02 Score=26.88 Aligned_cols=65 Identities=15% Similarity=0.156 Sum_probs=41.5
Q ss_pred ceEEEEEEEEeeCC------CCeEEEEEcCCceEEEEEEEEecCCeEEEEEEEEecccc-CC----CCeeEEEEEE
Q 023854 210 ENTLTIGTQHALDP------LTSVKARVNNYGRASALIQHEWRPKSLFTISGEVDTRAI-EK----SAKIGLALAL 274 (276)
Q Consensus 210 ~~~~~vG~~y~ld~------~~~~Kakvds~g~v~~~~~~~l~~~~~l~ls~~~d~~~~-~~----~~K~G~~l~~ 274 (276)
..+++==.|+-||+ +.-..=...+.-++++++++.+.|+++++|--.....+= ++ -|.-|+|++.
T Consensus 224 ~~tiTPY~R~~LD~w~n~dw~~~~~re~~~~~RlGll~~~~~~~glsmtLEYAYE~q~hd~g~~~kfHy~GvGv~Y 299 (301)
T PF09381_consen 224 NTTITPYTRIGLDRWSNWDWQDDLEREGHDFTRLGLLYEYDFPNGLSMTLEYAYEWQDHDEGDSDKFHYTGVGVNY 299 (301)
T ss_dssp TEEEEEEEEEEEEEEESTTTTTSSS-EEEEEEEEEEEEEEESSSSEEEEEEEEEEEEEESSSSSEEEEEEEEEEEE
T ss_pred CceeccceEeeeecccccccccchhhcCCccceeEEEEecccCCCcEEEEeeeeehhhccCCcccceeeeccceee
Confidence 45555555665543 222333344557899999999999999988766655321 22 3777888875
No 51
>PF13557 Phenol_MetA_deg: Putative MetA-pathway of phenol degradation
Probab=35.24 E-value=2.7e+02 Score=23.35 Aligned_cols=45 Identities=24% Similarity=0.180 Sum_probs=27.7
Q ss_pred EEEEEeCCCcceeEEEEEEEe---------------ecCCceEEEEEEEEeeCCCCeEEEEE
Q 023854 185 SYYHIVSPLTNTAVGAELTHS---------------FSSNENTLTIGTQHALDPLTSVKARV 231 (276)
Q Consensus 185 Sy~~kv~~~~~~~~g~e~~~~---------------~~~~~~~~~vG~~y~ld~~~~~Kakv 231 (276)
.+-++++++ +.+++|..+. .+.....+..|..|.+.++..+.+.+
T Consensus 170 ~~~y~~~~~--~~~~~~~~~~~~~~~~d~~~g~~~~~~~~~~~~~~gv~y~~~~~~~l~~~~ 229 (248)
T PF13557_consen 170 ALSYALTPK--LSLGLEGYGYYDQLTDDKGNGVDNGSRQNSFYLGPGVSYQLSPNLSLDAGV 229 (248)
T ss_pred EEEEEcCcc--eEEeEEeEEEEeeccccccCCccCCCccceEEEEEEEEEEEcCCeEEEEEE
Confidence 334566666 5666666632 22356678888889987665555544
No 52
>PF06178 KdgM: Oligogalacturonate-specific porin protein (KdgM); InterPro: IPR009331 This family consists of several bacterial proteins which are homologous to the oligogalacturonate-specific porin protein KdgM (Q934G3 from SWISSPROT) from Erwinia chrysanthemi. The phytopathogenic Gram-negative bacteria E. chrysanthemi secretes pectinases, which are able to degrade the pectic polymers of plant cell walls, and uses the degradation products as a carbon source for growth. KdgM is a major outer membrane protein, whose synthesis is strongly induced in the presence of pectic derivatives. KdgM behaves like a voltage-dependent porin that is slightly selective for anions and that exhibits fast block in the presence of trigalacturonate. In contrast to most porins, KdgM seems to be monomeric [].; PDB: 2WJQ_A 2WJR_A.
Probab=32.21 E-value=3.2e+02 Score=23.27 Aligned_cols=29 Identities=7% Similarity=-0.042 Sum_probs=14.7
Q ss_pred EcCCceEEEEEEEEecCCeEEEEEEEEec
Q 023854 231 VNNYGRASALIQHEWRPKSLFTISGEVDT 259 (276)
Q Consensus 231 vds~g~v~~~~~~~l~~~~~l~ls~~~d~ 259 (276)
+.+--.+.+.|..+|+++++|+-+..++.
T Consensus 58 ~~ng~E~~~~y~~k~~d~~~l~PG~~~~~ 86 (218)
T PF06178_consen 58 VSNGNEFEISYRYKLNDNFTLQPGFSLES 86 (218)
T ss_dssp ---EEEEEEEE-EESSSSEEEEEEEEEEE
T ss_pred ccceeEEEEEEEEEcCCCEEEecceEEEE
Confidence 33444455556666666666666666655
No 53
>PF13609 Porin_4: Gram-negative porin; PDB: 2FGR_A 2FGQ_X 1E54_A 2POR_A 3POR_A 1PRN_A 6PRN_A 8PRN_A 1H6S_1 3PRN_A ....
Probab=29.74 E-value=3.7e+02 Score=23.24 Aligned_cols=10 Identities=40% Similarity=0.580 Sum_probs=4.7
Q ss_pred eeEeEEEEEe
Q 023854 157 KCNAGLSYTH 166 (276)
Q Consensus 157 ~~~~~~~y~~ 166 (276)
.|.+++.|..
T Consensus 185 ~~~~~~~Y~~ 194 (311)
T PF13609_consen 185 VYGAGASYSF 194 (311)
T ss_dssp EEEEEEEEEE
T ss_pred ceEEEEEEEc
Confidence 3444445543
No 54
>PRK14574 hmsH outer membrane protein; Provisional
Probab=28.55 E-value=6.9e+02 Score=25.98 Aligned_cols=101 Identities=12% Similarity=0.019 Sum_probs=65.9
Q ss_pred eeEeEEEEEeCCeEEEEEEc----CCC--CeEEEEEEEEeCCCcceeEEEEEEEeecC----------CceEEEEEEEEe
Q 023854 157 KCNAGLSYTHTDLIASLTLN----DKG--DTLNASYYHIVSPLTNTAVGAELTHSFSS----------NENTLTIGTQHA 220 (276)
Q Consensus 157 ~~~~~~~y~~~~~~~s~~~~----~~~--~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~----------~~~~~~vG~~y~ 220 (276)
..-+|+.|...+..+.+.+. .++ ....+|+++.+|+. +++++++..+... ....+.++..|.
T Consensus 592 ~~~~G~e~~~r~~~~~~e~~~~~~g~g~k~g~r~~~~~~~nD~--W~~~~~~~~~~~~tPlrA~~~gv~~~~~~~~~~yr 669 (822)
T PRK14574 592 ILRLGGEWTSRDHWVEGEISNQNYGNGNKVGARLSTWYDLNDH--WRVGGQVERLAKDTPLRALKNKVTANSASAYVFWK 669 (822)
T ss_pred eeeccceEEecCceEEEEeehhhcCCCCCcCceEEEEecCCCc--eeeeeeeecCCCCCCHHHHHcCCcceecceEEEEE
Confidence 34567777777777777544 112 23667888999999 7999988886331 334566777777
Q ss_pred eCCCCeEEEEEc----CCce----EEEEEEEEec--CCeEEEEEEEEec
Q 023854 221 LDPLTSVKARVN----NYGR----ASALIQHEWR--PKSLFTISGEVDT 259 (276)
Q Consensus 221 ld~~~~~Kakvd----s~g~----v~~~~~~~l~--~~~~l~ls~~~d~ 259 (276)
-++...++..+. |||+ +++..+++|- |.+++.+...+..
T Consensus 670 ~~e~r~~~~~~~~~~fsDgN~R~~~~~~~~~rl~~~p~~~~d~~~~~~~ 718 (822)
T PRK14574 670 ADDKRDAELSVTPSRFSDGNNRWEYEFNGRQRIWTGPYLTADFNLGLAA 718 (822)
T ss_pred EccceEEEeeeeecccCCCchhhhhhcceeEEeecCCeEEEecceEEee
Confidence 766655555553 3443 7788888866 6676666666655
No 55
>PRK12580 outer membrane protease; Reviewed
Probab=27.36 E-value=4.7e+02 Score=23.68 Aligned_cols=181 Identities=11% Similarity=0.074 Sum_probs=96.2
Q ss_pred EEEEEcCCCcEEEEEEEcCCCCCceEEEEEEc--cCCCCceEEEEE--------eecceeeeEEEecCCCCeEEEEEEE-
Q 023854 67 TDVKVDTNSNLFTTITVDEPAPGLKSIFSFIV--PDQRSGKVELQY--------QHEYAGISTGIGFTANPIVNFSGVV- 135 (276)
Q Consensus 67 ~~~~~~~~~~l~~~~~~~~~~~glk~~~~~~~--~~~~~~~~~~~y--------~~~~~~~~~~~~~~~~p~~~~s~v~- 135 (276)
+..++++.-.+.+++..+ +.|.+++..+... .+.......-++ .+...|=+..++--..-+++..+.+
T Consensus 63 LdWk~~N~aiikg~i~wd-~~~~ltl~a~gwttl~~g~g~M~DyDW~~~~~~~WTd~S~hp~T~LnyanefDln~k~W~l 141 (312)
T PRK12580 63 LDWKIKNVAILKGDISWD-PYSFLTLNARGWTSLASGSGNMDDYDWMNENQSEWTDHSSHPATNVNHANEYDLNVKGWLL 141 (312)
T ss_pred eeccccCceEEeeecccc-cccceEEcceEEEEEccCCcccccccccCCCCCCCcccccCCCCcccchhhcceecceeee
Confidence 344455555577777777 8899888887752 211111111111 1222222332222112234444433
Q ss_pred ccCceEEEEEEEEEcCCCcceeeEeEEEEEeCCeEEEEEEcCCCCeEEEEEEEEeCCCcceeEEEEEEEeecCCceEEEE
Q 023854 136 GNNSVALGTDLSFDTATGNFTKCNAGLSYTHTDLIASLTLNDKGDTLNASYYHIVSPLTNTAVGAELTHSFSSNENTLTI 215 (276)
Q Consensus 136 ~~~~~~~G~e~~y~~~~~~~~~~~~~~~y~~~~~~~s~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~v 215 (276)
..++..+|.-+.|+...-+.+.+--...|.....+.+ -+.+ ....+|=||+.=- =+|..-.|... .+++
T Consensus 142 ~~~~y~lgv~aGyQ~t~~sw~a~GGsy~Y~~~~~~g~---fPd~-~~gIgYkQrf~mp---YiGL~g~Yr~~----~fef 210 (312)
T PRK12580 142 QDENYKAGITAGYQETRFSWTATGGSYSYNNGAYTGN---FPKG-VRVIGYNQRFSMP---YIGLAGQYRIN----DFEL 210 (312)
T ss_pred cCCCeeEeeeecceeeeeeEEecccceEecCCCceee---cCCC-ccceeeeEecccc---eeeeeeEEEEe----eEEE
Confidence 6888899999999876443333222233455553222 2343 5556888887532 34444444432 2333
Q ss_pred EEEEeeC-------------CCCeEEEEEcCCceEEEE--EEEEecCCeEEEEEEEEec
Q 023854 216 GTQHALD-------------PLTSVKARVNNYGRASAL--IQHEWRPKSLFTISGEVDT 259 (276)
Q Consensus 216 G~~y~ld-------------~~~~~Kakvds~g~v~~~--~~~~l~~~~~l~ls~~~d~ 259 (276)
++..+.. ++.++|-++++.-..++. .-..+.|+.++-+.+..+.
T Consensus 211 ~~~lK~S~wv~a~D~DeHy~RnltF~e~~~ns~yys~~~~agYyvtpnak~f~e~~~~k 269 (312)
T PRK12580 211 NALFKFSDWVRAHDNDEHYMRDLTFREKTSGSRYYGTVINAGYYVTPNAKVFAEFTYSK 269 (312)
T ss_pred eeEEEecceEeccccchhhhccceehhhccCCccEEEEEecceEecCCeeEEEEEEEEe
Confidence 3322221 568888888877665543 4457888888888777654
No 56
>TIGR01414 autotrans_barl outer membrane autotransporter barrel domain. A number of Gram-negative bacterial proteins, mostly found in pathogens and associated with virulence, contain a conserved C-terminal domain that integrates into the outer membrane and enables the N-terminal region to be delivered across the membrane. This C-terminal autotransporter domain is about 400 amino acids in length and includes the aromatic amino acid-rich OMP signal, typically ending with a Phe or Trp residue, at the extreme C-terminus.
Probab=26.96 E-value=5.1e+02 Score=23.95 Aligned_cols=64 Identities=11% Similarity=0.116 Sum_probs=42.2
Q ss_pred eeEEEEEEEeecC-----CceEEEEEEEEeeCCCCeEE-------EEEc-CCceEEEEEEEEecCCeEEEEEEEEec
Q 023854 196 TAVGAELTHSFSS-----NENTLTIGTQHALDPLTSVK-------ARVN-NYGRASALIQHEWRPKSLFTISGEVDT 259 (276)
Q Consensus 196 ~~~g~e~~~~~~~-----~~~~~~vG~~y~ld~~~~~K-------akvd-s~g~v~~~~~~~l~~~~~l~ls~~~d~ 259 (276)
..+|+++.+.... -.+.+.+++++.+.....++ ..++ +.+.+++.++.++.+++.+.+..+...
T Consensus 335 ~~lG~r~~~~~~~~~~~~~~p~~~~~~~~~f~~~~~~~~~g~~~~~~~~~~~~~~~~G~~~~~~~~~~l~~~~~~~~ 411 (429)
T TIGR01414 335 GRLGLRVGYQFDLGTGRAVKPYLKANVLHEFKGGTGVRVNGVTIRTDFSGTRGEYGVGVNAKIKSNLSLYADVDYQK 411 (429)
T ss_pred EEEEEEEEeEeccCCCcEEeEEEEEEEEEecCCCCeEEECCEEeeccCCCcEEEEeeEEEEEECCCEEEEEEEEEec
Confidence 6778888876442 25668888888885433332 1222 334688888889998877777666655
No 57
>PF11751 DUF3308: Protein of unknown function (DUF3308); InterPro: IPR019861 This entry describes a protein family unique to, and greatly expanded in, the Bacteriodetes. Species in this lineage include several, such as Cytophaga hutchinsonii and Cytophaga johnsonae (Flavobacterium johnsoniae), that exhibit a poorly understood rapid gliding phenotype. Several members of this protein family are found in operons with other genes whose loss leads to a loss of the rapid gliding phenotype.
Probab=26.88 E-value=4.2e+02 Score=22.95 Aligned_cols=50 Identities=10% Similarity=0.040 Sum_probs=28.6
Q ss_pred EEEEEEEeeCCCCeEEEEEcCCceEEEEEEEEecCCeEEEEEEEEecccc
Q 023854 213 LTIGTQHALDPLTSVKARVNNYGRASALIQHEWRPKSLFTISGEVDTRAI 262 (276)
Q Consensus 213 ~~vG~~y~ld~~~~~Kakvds~g~v~~~~~~~l~~~~~l~ls~~~d~~~~ 262 (276)
+.+|+.+.+++.-.+=+-..+..-+.+.+.-++.+++.+..+=++...++
T Consensus 211 ~~~~~~~~~~~~~~~G~~yr~~~a~~~~~g~~~~~~~~igysYd~~~s~l 260 (274)
T PF11751_consen 211 LDIGAMFRYNDRFWAGLGYRSNDAFSFMLGFNLKNNFRIGYSYDFNLSNL 260 (274)
T ss_pred EEEEEEEEEeeeEEEEEEEeCCCcEEEEEEEEECCCEEEEEEEeeecccc
Confidence 55555555433333333344556666666677766777777776666544
No 58
>cd01347 ligand_gated_channel TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel. Energy (proton-motive force) and TonB-dependent conformational alteration of channel (parts of plug, and loops 7 and 8) allow passage of ligand. FepA residues 12-18 form the TonB box, which mediates the interaction with the TonB-containing inner membrane complex. TonB preferentially interacts with ligand-bound receptors. Transport thru the channel may resemble passage thru an air lock. In this model, ligand binding leads to closure of the extracellular end of pore, then a TonB-mediated signal facillitates opening of the interior side of pore, deforming the N-terminal plug and allowing passage of the ligand to the periplasm. Such a mechanism would prevent the free diffusion of small molecules thru the pore.
Probab=23.10 E-value=6.5e+02 Score=23.84 Aligned_cols=25 Identities=16% Similarity=0.001 Sum_probs=16.4
Q ss_pred EEEEEEEEeCCCcceeEEEEEEEee
Q 023854 182 LNASYYHIVSPLTNTAVGAELTHSF 206 (276)
Q Consensus 182 ~~~Sy~~kv~~~~~~~~g~e~~~~~ 206 (276)
+-+.+-.++.+++.+.+|++.++..
T Consensus 337 ~y~~~~~~~~~~~~l~~G~R~~~~~ 361 (635)
T cd01347 337 LYAQDTIELTDDLTLTLGLRYDHYD 361 (635)
T ss_pred eEEEEEEeccCceEEEEEEEEEEEE
Confidence 3345556677766678888777654
No 59
>PRK10993 outer membrane protease; Reviewed
Probab=23.09 E-value=5.7e+02 Score=23.20 Aligned_cols=73 Identities=12% Similarity=0.007 Sum_probs=44.0
Q ss_pred eEEEEEEEEeCCCcceeEEEEEEEeecCCceEEEEEEEEeeCCCCeEEEEE--cCCceEEEEEEEEec-CCeEEEEEEEE
Q 023854 181 TLNASYYHIVSPLTNTAVGAELTHSFSSNENTLTIGTQHALDPLTSVKARV--NNYGRASALIQHEWR-PKSLFTISGEV 257 (276)
Q Consensus 181 ~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~y~ld~~~~~Kakv--ds~g~v~~~~~~~l~-~~~~l~ls~~~ 257 (276)
.+.+.++--.+++ ..+|+-+.|+. .+..--+.|+.|..+.+.. |..+ =.++.++..|+|++. |-+-|+.+-.+
T Consensus 133 dln~~~w~l~~~~--yklG~~aGyqy-~~~sw~A~GG~y~Y~~~~~-r~~~g~fPd~~~~I~Y~Q~f~~pyiGL~g~y~~ 208 (314)
T PRK10993 133 DLNLKGWLLQNPN--YRLGVMAGYQE-TRFSWTAYGGSYIYSNGGF-RDDIGTFPDGERGIGYKQRFKMPYIGLTGSYRY 208 (314)
T ss_pred ceecceeeecCCC--ceeeeEeeeEE-EeceeEccCceEEcCCCCC-CCCccccCCCccceeeEEEecceeeeEEEEEEe
Confidence 5666677666777 56777777764 3444456777777643311 2211 157889999999995 34444444433
No 60
>PF02530 Porin_2: Porin subfamily; InterPro: IPR003684 This family consists of porins from the alpha subdivision of Proteobacteria the members of this family are related to Gram-negative porins []. The porins form large aqueous channels in the cell membrane allowing the selective entry of hydrophilic compounds this so called 'molecular sieve' is found in the cell walls of Gram-negative bacteria.; GO: 0015288 porin activity, 0006810 transport, 0016020 membrane
Probab=23.03 E-value=6.1e+02 Score=23.46 Aligned_cols=114 Identities=14% Similarity=0.098 Sum_probs=62.7
Q ss_pred cCceEEEEEEEEEcCCCcceeeEeEEEEEeC--CeEEE-EEEcCCCCeEEEEEEEEeCCCcceeEEEEEEEeecCCceEE
Q 023854 137 NNSVALGTDLSFDTATGNFTKCNAGLSYTHT--DLIAS-LTLNDKGDTLNASYYHIVSPLTNTAVGAELTHSFSSNENTL 213 (276)
Q Consensus 137 ~~~~~~G~e~~y~~~~~~~~~~~~~~~y~~~--~~~~s-~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~ 213 (276)
.-+|.+++.+.++...+ ..+.+.+.|... .|.-. .... ..+.++|.|.-+++ +.+.+.+.+.. ..+..+
T Consensus 236 ~~Gwav~~~~~~~~~~~--d~l~~q~~Yg~G~~~Y~g~~~~~~---~~~~~~~~~~w~~~--w~~~~~~~~~~-t~~~~~ 307 (379)
T PF02530_consen 236 KWGWAVQAGGKINLGDG--DSLYFQATYGDGAGRYTGSSINLT---SAFDGAYYHNWNPQ--WRSYGGYQYNF-TDKVTI 307 (379)
T ss_pred ceeEEEEEEEEEEECCC--CEEEEEEEEECCchhccCCcccce---eeccceeeeccCcc--eeeeEEEEEcc-cCceeE
Confidence 34566666666665432 234444455443 22111 1111 12678999999999 67777777664 356677
Q ss_pred EEEEEEeeCCCCeEEEEEcCCceEEEEEEEEecCCeEEEEEEEEec
Q 023854 214 TIGTQHALDPLTSVKARVNNYGRASALIQHEWRPKSLFTISGEVDT 259 (276)
Q Consensus 214 ~vG~~y~ld~~~~~Kakvds~g~v~~~~~~~l~~~~~l~ls~~~d~ 259 (276)
+.+++|.. .....-..=.+.+.+++-+...+.|++.+.+......
T Consensus 308 ~~~~s~~~-~~~~~~~~~~~~~~v~anl~w~pv~~l~ig~E~~Y~~ 352 (379)
T PF02530_consen 308 TLGASYAV-GDSANGNDDFNIWQVGANLFWSPVKNLDIGAEYQYTD 352 (379)
T ss_pred echhhccc-cccccccCCCcEEEEEEEEEEEECCCcEEEEEEEEEe
Confidence 77777722 1111111112345567777777777877766554443
No 61
>PF06980 DUF1302: Protein of unknown function (DUF1302); InterPro: IPR010727 This family contains a number of hypothetical bacterial proteins of unknown function that are approximately 600 residues long. Most family members seem to be from Pseudomonas.
Probab=22.68 E-value=3.9e+02 Score=26.36 Aligned_cols=35 Identities=31% Similarity=0.366 Sum_probs=23.5
Q ss_pred CCeEEEEEEEccCceEEEEEEEEEcCCCcceeeEeEEEEEe
Q 023854 126 NPIVNFSGVVGNNSVALGTDLSFDTATGNFTKCNAGLSYTH 166 (276)
Q Consensus 126 ~p~~~~s~v~~~~~~~~G~e~~y~~~~~~~~~~~~~~~y~~ 166 (276)
.|......+=+.+.+.+|..+.|+ .+|.+.++|+.
T Consensus 496 sp~~~~~f~eg~~s~slgl~~~y~------~~~~~~l~Yt~ 530 (554)
T PF06980_consen 496 SPDPGGGFNEGRKSLSLGLNADYL------NKYQASLSYTN 530 (554)
T ss_pred cCccccccccCCceEEEEEEEEee------cceEEEeEEEE
Confidence 444332334468888899998885 36888888864
Done!