Query 023824
Match_columns 276
No_of_seqs 125 out of 588
Neff 8.3
Searched_HMMs 46136
Date Fri Mar 29 06:55:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023824.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023824hhsearch_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 7.6E-62 1.7E-66 430.9 40.4 268 5-275 1-276 (276)
2 KOG3126 Porin/voltage-dependen 100.0 8.2E-63 1.8E-67 427.2 30.9 272 2-276 1-281 (281)
3 cd07303 Porin3 Eukaryotic pori 100.0 2.7E-52 5.9E-57 368.8 34.7 259 7-274 1-273 (274)
4 PF01459 Porin_3: Eukaryotic p 100.0 6.5E-47 1.4E-51 334.6 38.1 260 4-269 1-273 (273)
5 cd07305 Porin3_Tom40 Transloca 100.0 1.7E-41 3.6E-46 301.2 33.3 261 3-275 2-279 (279)
6 KOG3296 Translocase of outer m 100.0 4.5E-29 9.7E-34 218.1 7.8 256 3-275 28-308 (308)
7 TIGR00989 3a0801s07tom40 mitoc 99.5 1.3E-12 2.8E-17 104.7 14.9 143 3-149 2-161 (161)
8 cd07305 Porin3_Tom40 Transloca 99.3 5.4E-09 1.2E-13 93.0 27.2 182 86-274 34-228 (279)
9 cd07306 Porin3_VDAC Voltage-de 98.9 3.5E-06 7.7E-11 74.8 26.8 175 37-217 88-273 (276)
10 PF01459 Porin_3: Eukaryotic p 98.8 1.1E-05 2.4E-10 71.1 26.1 164 103-274 54-227 (273)
11 cd07303 Porin3 Eukaryotic pori 98.4 0.00039 8.5E-09 61.7 24.3 129 137-272 88-218 (274)
12 KOG3126 Porin/voltage-dependen 97.6 0.025 5.5E-07 50.0 20.1 152 50-205 108-265 (281)
13 TIGR00989 3a0801s07tom40 mitoc 97.1 0.029 6.2E-07 45.4 13.3 95 104-204 58-160 (161)
14 PRK10716 long-chain fatty acid 93.9 4 8.7E-05 38.7 16.1 75 180-259 287-363 (435)
15 KOG3296 Translocase of outer m 93.6 0.053 1.2E-06 48.4 2.7 133 138-274 105-255 (308)
16 COG2067 FadL Long-chain fatty 87.4 8.1 0.00018 36.7 11.1 75 180-259 286-363 (440)
17 PF12519 DUF3722: Protein of u 86.1 2.1 4.5E-05 37.6 5.9 64 138-204 190-259 (260)
18 COG2067 FadL Long-chain fatty 84.6 27 0.00059 33.2 13.0 47 180-228 339-398 (440)
19 PF10082 DUF2320: Uncharacteri 82.5 40 0.00086 30.9 21.6 46 230-275 329-380 (381)
20 PF03349 Toluene_X: Outer memb 79.6 53 0.0011 30.5 18.3 79 180-260 270-352 (427)
21 PF13609 Porin_4: Gram-negativ 78.3 46 0.001 29.1 12.6 47 209-256 248-304 (311)
22 cd00342 gram_neg_porins Porins 77.5 51 0.0011 29.2 16.3 48 211-258 237-296 (329)
23 PF10082 DUF2320: Uncharacteri 71.8 81 0.0018 28.9 16.5 80 196-276 259-344 (381)
24 PF04357 DUF490: Family of unk 69.5 41 0.00089 30.7 9.6 60 182-244 316-378 (379)
25 PF11383 DUF3187: Protein of u 69.0 92 0.002 28.3 14.8 67 208-274 235-315 (319)
26 PRK03761 LPS assembly outer me 67.4 1.5E+02 0.0033 30.3 15.9 81 137-219 612-715 (778)
27 cd00342 gram_neg_porins Porins 67.1 90 0.002 27.6 19.1 72 156-229 201-291 (329)
28 PF13557 Phenol_MetA_deg: Puta 65.3 84 0.0018 26.6 13.2 38 236-275 210-247 (248)
29 PF03349 Toluene_X: Outer memb 65.2 1.2E+02 0.0025 28.2 14.2 30 228-257 263-292 (427)
30 PF06178 KdgM: Oligogalacturon 65.0 26 0.00056 30.0 6.7 78 179-256 61-156 (218)
31 PF03895 YadA_anchor: YadA-lik 61.4 53 0.0012 22.9 7.9 34 197-232 28-61 (78)
32 PF11854 DUF3374: Protein of u 60.7 1.9E+02 0.0041 29.0 14.3 104 102-213 447-555 (637)
33 PRK10993 outer membrane protea 59.5 1.4E+02 0.003 27.1 16.3 181 66-259 62-272 (314)
34 TIGR03014 EpsL exopolysacchari 56.1 1.7E+02 0.0037 27.1 11.4 80 181-261 232-317 (381)
35 PRK04423 organic solvent toler 53.3 1.9E+02 0.004 29.9 11.5 82 137-220 628-720 (798)
36 PF13557 Phenol_MetA_deg: Puta 51.3 1.5E+02 0.0032 25.0 9.5 46 185-232 170-230 (248)
37 PF14052 Caps_assemb_Wzi: Caps 47.1 1.6E+02 0.0034 27.9 9.4 42 234-275 399-442 (443)
38 PF11383 DUF3187: Protein of u 42.1 2.7E+02 0.0058 25.3 16.7 67 182-255 240-315 (319)
39 PF05275 CopB: Copper resistan 42.0 1.3E+02 0.0028 25.7 7.1 80 180-259 55-146 (210)
40 PRK14574 hmsH outer membrane p 40.5 3.3E+02 0.0071 28.3 11.1 34 232-265 772-807 (822)
41 PRK15318 intimin-like protein 39.4 4.3E+02 0.0092 26.8 13.4 38 137-174 167-205 (730)
42 PF03895 YadA_anchor: YadA-lik 38.9 1.3E+02 0.0029 20.9 6.4 28 232-259 37-64 (78)
43 TIGR03519 Bac_Flav_fam_1 Bacte 38.3 2.8E+02 0.0062 24.5 13.7 61 196-273 227-291 (292)
44 TIGR03014 EpsL exopolysacchari 37.9 3.3E+02 0.0072 25.2 16.9 118 141-261 216-360 (381)
45 PRK14574 hmsH outer membrane p 37.2 5E+02 0.011 27.0 13.0 101 157-259 592-718 (822)
46 PF11924 DUF3442: Protein of u 36.4 1.1E+02 0.0023 27.2 6.1 38 235-274 95-133 (280)
47 PRK10177 putative invasin; Pro 34.7 2.7E+02 0.0059 26.6 8.6 32 86-117 226-260 (465)
48 PRK09980 ompL outer membrane p 34.6 1.9E+02 0.0041 25.0 7.1 51 179-229 71-122 (230)
49 PF04575 DUF560: Protein of un 34.4 3.1E+02 0.0068 23.8 15.8 81 180-262 118-220 (285)
50 PRK15318 intimin-like protein 34.3 2.2E+02 0.0048 28.8 8.2 32 86-117 226-260 (730)
51 PF01278 Omptin: Omptin family 34.3 3.4E+02 0.0075 24.3 16.9 117 136-259 121-251 (294)
52 PF13609 Porin_4: Gram-negativ 33.9 3.1E+02 0.0068 23.7 16.9 8 158-165 186-193 (311)
53 PF04453 OstA_C: Organic solve 33.4 3.7E+02 0.0081 24.4 11.7 32 136-167 316-347 (388)
54 PRK10049 pgaA outer membrane p 33.1 5.4E+02 0.012 26.2 13.6 104 154-259 532-661 (765)
55 PRK10993 outer membrane protea 32.1 3.9E+02 0.0085 24.3 13.6 74 181-258 133-209 (314)
56 PRK09408 ompX outer membrane p 31.8 2.9E+02 0.0062 22.6 14.2 25 235-259 130-154 (171)
57 PF11886 DUF3406: Domain of un 30.4 3.9E+02 0.0084 23.7 13.3 11 26-36 60-70 (273)
58 PF09381 Porin_OmpG: Outer mem 29.1 1.6E+02 0.0036 26.0 5.7 65 210-274 224-299 (301)
59 cd01347 ligand_gated_channel T 27.3 5.4E+02 0.012 24.4 9.9 71 157-233 318-403 (635)
60 PRK10716 long-chain fatty acid 27.0 5.4E+02 0.012 24.3 21.5 26 86-113 219-244 (435)
61 PRK10159 outer membrane phosph 26.8 4.9E+02 0.011 23.7 17.2 65 211-275 266-350 (351)
62 PF11751 DUF3308: Protein of u 26.6 4.3E+02 0.0092 22.9 13.4 50 213-262 211-260 (274)
63 TIGR03509 OMP_MtrB_PioB decahe 25.6 6.9E+02 0.015 25.0 14.4 21 211-231 583-603 (649)
64 PF11924 DUF3442: Protein of u 25.5 4.7E+02 0.01 23.1 16.1 127 137-275 105-248 (280)
65 PF03687 UPF0164: Uncharacteri 25.1 4.4E+02 0.0094 24.0 7.8 12 207-218 212-223 (331)
66 cd01347 ligand_gated_channel T 24.8 5.2E+02 0.011 24.6 9.2 59 197-261 301-361 (635)
67 TIGR01414 autotrans_barl outer 24.2 5.8E+02 0.012 23.6 11.7 65 195-259 334-411 (429)
68 PRK04423 organic solvent toler 23.5 8.4E+02 0.018 25.3 12.3 98 76-174 618-729 (798)
69 PRK10049 pgaA outer membrane p 22.2 8.5E+02 0.018 24.8 15.7 34 232-265 715-750 (765)
70 PF06178 KdgM: Oligogalacturon 20.8 5.3E+02 0.011 21.9 17.0 19 27-45 25-43 (218)
71 PF05420 BCSC_C: Cellulose syn 20.3 2.9E+02 0.0062 25.4 6.0 42 180-223 298-341 (342)
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=7.6e-62 Score=430.90 Aligned_cols=268 Identities=39% Similarity=0.590 Sum_probs=256.2
Q ss_pred CCCcccccccccccccCCCCCc-ceEEEEEecCCCeEEEEEEEecC--CeeeeEEEEEEEEeCeEEEEEEcCCCceEEEE
Q 023824 5 PGLFADIGKKAKDLLTKDYNAD-QKISISTYSGAGVALTSTAVKKG--GLSAGDVAAQYKYKNVLFDVKVDTESNILTTF 81 (276)
Q Consensus 5 P~~f~dl~K~akdll~k~y~~~-~~l~~~t~~~~g~~~~~~~~~~~--~~~~g~~~~k~~~~~~~~~~~~~t~~~l~~~i 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 99999999999999999998876 79999999999999999999999999999999
Q ss_pred EEcc-ccCCceEEEEEEec---CCCceeEEEEEcccceeEEEEEecCCCCeEEEEEEeccCcceeeeEEEEEcCCCccee
Q 023824 82 TLTE-ILPSTKAIASLKVP---DYNSGKLEVQYFHDHATFTSAIALNQSPCIDVTATIGTPSIAFGAEAGYDTTSGNFTK 157 (276)
Q Consensus 82 ~~~~-~~~Glk~~~~~~~p---~~~~~k~~~~y~~~~~~~~~~~~l~~~p~~~~s~~~~~~~~~lG~e~~yd~~~~~~~~ 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 66999999999875 3589999999999999999999988789999999999999999999999998888999
Q ss_pred eEEEEEEeCCCcEEEEEEcCCCCeEEEEEEEEeCCccceeEEEEEEEEccCCccEEEEEEEEeeCCCCeEEEEEcCCcee
Q 023824 158 YTAGISVTKPDSCASIILGDKGDTIRASYVHHLDNLKKSAAVGEITRRFSTNENTFTVGGSYAVDHLTVVKAKLNNHGKL 237 (276)
Q Consensus 158 ~~~a~~y~~~~~~~~~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~~~ld~~~~~Kakv~s~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-GKTLRGSYFHKVSPRL--AVGAKVTWYSGTNETTFAVGGQYALDPDALVKAKVNNDGQL 237 (276)
T ss_pred EEEEEEEecCCeEEEEEECC-CCEEEEEEEEEcCCCe--EEEEEEEEecCCCCcEEEEEEEEEcCCCCEEEEEECCCceE
Confidence 99999999999999999999 8999999999999996 99999999998899999999999999899999999999999
Q ss_pred EEEEEEEecCCeEEEEEEEeecccCC-CCCeeEEEEEEe
Q 023824 238 GALLQHEVIPKSLLTISSEVDTKALE-KTPRFGLAIALK 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 99999999999999999999999886 569999999986
No 2
>KOG3126 consensus Porin/voltage-dependent anion-selective channel protein [Inorganic ion transport and metabolism]
Probab=100.00 E-value=8.2e-63 Score=427.19 Aligned_cols=272 Identities=31% Similarity=0.452 Sum_probs=259.1
Q ss_pred CCCCCCcccccccccccccCCCCCc-ceEEEEEecCCCeEEEEEEEecC--CeeeeEEEEEEEEe--CeEEEEEEcCCCc
Q 023824 2 SKGPGLFADIGKKAKDLLTKDYNAD-QKISISTYSGAGVALTSTAVKKG--GLSAGDVAAQYKYK--NVLFDVKVDTESN 76 (276)
Q Consensus 2 ~~~P~~f~dl~K~akdll~k~y~~~-~~l~~~t~~~~g~~~~~~~~~~~--~~~~g~~~~k~~~~--~~~~~~~~~t~~~ 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 6999999999999999999999998 89999999999999999998774 69999999999998 7999999999999
Q ss_pred eEEEEEEcc-ccCCceEEEEEEecC---CCceeEEEEEcccceeEEEEEecCCCCeEEEEEEeccCcceeeeEEEEEcCC
Q 023824 77 ILTTFTLTE-ILPSTKAIASLKVPD---YNSGKLEVQYFHDHATFTSAIALNQSPCIDVTATIGTPSIAFGAEAGYDTTS 152 (276)
Q Consensus 77 l~~~i~~~~-~~~Glk~~~~~~~p~---~~~~k~~~~y~~~~~~~~~~~~l~~~p~~~~s~~~~~~~~~lG~e~~yd~~~ 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 999999988 999999999999866 6899999999999999998654557999999999999999999999999999
Q ss_pred CcceeeEEEEEEeCCCcEEEEEEcCCCCeEEEEEEEEeCCccceeEEEEEEEEccCCccEEEEEEEEeeCCCCeEEEEEc
Q 023824 153 GNFTKYTAGISVTKPDSCASIILGDKGDTIRASYVHHLDNLKKSAAVGEITRRFSTNENTFTVGGSYAVDHLTVVKAKLN 232 (276)
Q Consensus 153 ~~~~~~~~a~~y~~~~~~~~~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~~~ld~~~~~Kakv~ 232 (276)
+.+++|+++++|.++++++++.++| .+.+.+|+|||+++.+ +++++++|.....+++++||.+|.+|+.++|||||+
T Consensus 161 ~~~t~~n~~lgy~~~d~~l~~~~nn-~~~~~~s~yq~v~~~~--~~~~~~~~~~~~~~~~~~igt~Y~lD~~t~VkAKVn 237 (281)
T KOG3126|consen 161 GKLTKYNAALGYTTEDFTLHLNLNN-GTEFLASIYQRVNEKL--ETGANAEWIAGSSNTRFTIGTKYALDPDTSVKAKVN 237 (281)
T ss_pred CcEeeEEEEEEeecCCcEEEEEecc-cchhhhhhhhhhcchh--eeeeeEEEeecCCccEEEEEEEeccCCCceeeeeec
Confidence 9999999999999999999999988 7999999999999996 999999999888899999999999999999999999
Q ss_pred CCceeEEEEEEEecCCeEEEEEEEeecccCCCCCeeEEEEEEeC
Q 023824 233 NHGKLGALLQHEVIPKSLLTISSEVDTKALEKTPRFGLAIALKP 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 99999999999999999999999999999877799999999998
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=2.7e-52 Score=368.75 Aligned_cols=259 Identities=20% Similarity=0.317 Sum_probs=238.6
Q ss_pred CcccccccccccccCCCCCcceEEEEEecCCCeEEEEEEEec------CCeeeeEEEEEEEEe--CeEEEEEEcCCCceE
Q 023824 7 LFADIGKKAKDLLTKDYNADQKISISTYSGAGVALTSTAVKK------GGLSAGDVAAQYKYK--NVLFDVKVDTESNIL 78 (276)
Q Consensus 7 ~f~dl~K~akdll~k~y~~~~~l~~~t~~~~g~~~~~~~~~~------~~~~~g~~~~k~~~~--~~~~~~~~~t~~~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 5999999999999999999999999998876 699998654 358999999998764 699999999999999
Q ss_pred EEEEEcc-ccCCceEEEEEEe-cC--CCceeEEEEEcccceeEEEEEecCCCCeEEEEEEeccCcceeeeEEEEEcCCCc
Q 023824 79 TTFTLTE-ILPSTKAIASLKV-PD--YNSGKLEVQYFHDHATFTSAIALNQSPCIDVTATIGTPSIAFGAEAGYDTTSGN 154 (276)
Q Consensus 79 ~~i~~~~-~~~Glk~~~~~~~-p~--~~~~k~~~~y~~~~~~~~~~~~l~~~p~~~~s~~~~~~~~~lG~e~~yd~~~~~ 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 9999999 8899999999987 43 36889999999999998888765 5899999999999999999999999876 5
Q ss_pred ceeeEEEEEEeC--CCcEEEEEEcCCCCeEEEEEEEEeCCccceeEEEEEEEEccCCccEEEEEEEEeeCCCCeEEEEEc
Q 023824 155 FTKYTAGISVTK--PDSCASIILGDKGDTIRASYVHHLDNLKKSAAVGEITRRFSTNENTFTVGGSYAVDHLTVVKAKLN 232 (276)
Q Consensus 155 ~~~~~~a~~y~~--~~~~~~~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~~~ld~~~~~Kakv~ 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-GTEFGGSIYHKVNDKL--EVGVNLAATAGNSNTRFGIAAKYQVDPDACFSASVN 233 (274)
T ss_pred ccccceEEEEEccCCCeEEEEEEcC-CCeEEEEEEEEcCCce--EEEEEEEeeccCCccEEEEEEEEecCCCCEEEEEEC
Confidence 789999999999 89999999988 8999999999999996 999999999888999999999999998999999999
Q ss_pred CCceeEEEEEEEecCCeEEEEEEEeecccCCCCCeeEEEEEE
Q 023824 233 NHGKLGALLQHEVIPKSLLTISSEVDTKALEKTPRFGLAIAL 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 NSSLVGLGYTQTLKPGIKLTLSALLDHKA--GGHKLGLGLEF 273 (274)
T ss_pred CCceEEEEEEEEcCCCcEEEEEEEecCCC--CCeeEEEEEEe
Confidence 99999999999999999999999999964 67999999987
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=6.5e-47 Score=334.58 Aligned_cols=260 Identities=33% Similarity=0.465 Sum_probs=233.8
Q ss_pred CCCCcccccccccccccCCCCCc-ceEEEEEecCCCeEEEEEEEec--CC-eeeeEEEEEEEEeCeEEEEEEcCCCceEE
Q 023824 4 GPGLFADIGKKAKDLLTKDYNAD-QKISISTYSGAGVALTSTAVKK--GG-LSAGDVAAQYKYKNVLFDVKVDTESNILT 79 (276)
Q Consensus 4 ~P~~f~dl~K~akdll~k~y~~~-~~l~~~t~~~~g~~~~~~~~~~--~~-~~~g~~~~k~~~~~~~~~~~~~t~~~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 79999999999999999999887 9999999999999999999766 45 79999999998 6788899999999999
Q ss_pred EEEEcc-ccCCceEEEEEEec-CC--CceeEEEEEcccceeEEEEEecCCCCeEEEEEEeccC-cceeeeEEEEEcCCCc
Q 023824 80 TFTLTE-ILPSTKAIASLKVP-DY--NSGKLEVQYFHDHATFTSAIALNQSPCIDVTATIGTP-SIAFGAEAGYDTTSGN 154 (276)
Q Consensus 80 ~i~~~~-~~~Glk~~~~~~~p-~~--~~~k~~~~y~~~~~~~~~~~~l~~~p~~~~s~~~~~~-~~~lG~e~~yd~~~~~ 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 999999 99999999999864 42 6999999999999999999987558999999999765 9999999999999888
Q ss_pred ceeeEEEEEEeCC----CcEEEEEEcCCCCeEEEEEEEEeCCccceeEEEEEEEEccCCccEEEEEEEEeeCCCCeEEEE
Q 023824 155 FTKYTAGISVTKP----DSCASIILGDKGDTIRASYVHHLDNLKKSAAVGEITRRFSTNENTFTVGGSYAVDHLTVVKAK 230 (276)
Q Consensus 155 ~~~~~~a~~y~~~----~~~~~~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~~~ld~~~~~Kak 230 (276)
+.+|+++++|..+ ++++++++.++.+.+++||||++++++ ++|+|++++...++++++||++|.+++.++||||
T Consensus 159 ~~~~~~~~~~~~~Y~~~~~~~~~~~~~~~~~l~~sy~~k~~~~~--~~g~e~~~~~~~~~~~~~vG~~~~l~~~~~vk~k 236 (273)
T PF01459_consen 159 SSKYNAGLSYAARYTHPDYTASATLSNNFGTLTASYFQKVNDKL--QLGAELTYNLSSRESTFTVGYQYKLDDSSTVKAK 236 (273)
T ss_dssp EEEEEEEEEEEET----TEEEEEEE-ETTTEEEEEEEEESSTTE--EEEEEEEEETTCCEEEEEEEEEEEECTTEEEEEE
T ss_pred cCcceEEEEEeccccceeEEEEEEEcCCCCEEEEEEEEEeccce--eeeeeeeecccCCCceEEEEEEEEcCcccEEEEE
Confidence 9999999999888 999999996558999999999999996 9999999999999999999999999877799999
Q ss_pred EcCCceeEEEEEEEecCCeEEEEEEEeecccCCCCCeeE
Q 023824 231 LNNHGKLGALLQHEVIPKSLLTISSEVDTKALEKTPRFG 269 (276)
Q Consensus 231 v~s~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 VDSNGRVSASYEQKLNPGVTLTLSAELDHKNN--NHKFG 273 (273)
T ss_dssp EETTSEEEEEEEEEECTTEEEEEEEEECTT-C---EEEE
T ss_pred EcCCCEEEEEEEEecCCCcEEEEEEEEccCCC--CCCcC
Confidence 99999999999999999999999999999774 69998
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=1.7e-41 Score=301.15 Aligned_cols=261 Identities=19% Similarity=0.293 Sum_probs=228.5
Q ss_pred CCCCCcccccccccccccCCCCCcceEEEEEecCCCeEEEEEEEec--C-C-eeeeEEEEEEEEeC--eEEEEEEcCCCc
Q 023824 3 KGPGLFADIGKKAKDLLTKDYNADQKISISTYSGAGVALTSTAVKK--G-G-LSAGDVAAQYKYKN--VLFDVKVDTESN 76 (276)
Q Consensus 3 ~~P~~f~dl~K~akdll~k~y~~~~~l~~~t~~~~g~~~~~~~~~~--~-~-~~~g~~~~k~~~~~--~~~~~~~~t~~~ 76 (276)
.+|++|+||+|+|||++..+|..|.+++++..-. ..|.++++-. . + ...-.+.+.|..+. ..+..++|++++
T Consensus 2 ~nPg~~e~l~~e~k~~~~~~~~~G~r~~~~k~ls--~~f~~shs~~lg~~~~~~~y~f~a~y~~~~~~~~~~~~id~~g~ 79 (279)
T cd07305 2 PNPGTFEELHREVKEVFPLDFFDGFRLDVNKGLS--PHFQVSHSLHLGSSSLTSSYQFGATYVGDKQYPFLQGDIDNDGN 79 (279)
T ss_pred cCCccHHHHHHHHHHhcCccccccEEEEEccccC--cCeeEEEEEEECCCCCCCCcEeeeEEecCCCcEEEEEEeCCCCc
Confidence 5899999999999999999998789999988544 4566666433 2 1 23456777787777 899999999999
Q ss_pred eEEEEEEccccCCceEEEEEEecC--CCceeEEEEEcccceeEEEEEecCCCCe-EEEEEEec-------cCcceeeeEE
Q 023824 77 ILTTFTLTEILPSTKAIASLKVPD--YNSGKLEVQYFHDHATFTSAIALNQSPC-IDVTATIG-------TPSIAFGAEA 146 (276)
Q Consensus 77 l~~~i~~~~~~~Glk~~~~~~~p~--~~~~k~~~~y~~~~~~~~~~~~l~~~p~-~~~s~~~~-------~~~~~lG~e~ 146 (276)
+.+++... +.+.++.++.+++++ ....+++.+|+++++++.+.+ .+|. ++.+++++ +|+|++|+|+
T Consensus 80 l~~~~~~~-~~~~~~~k~~~~~~~~~~~~~q~~~dy~g~d~t~~l~~---~n~~~~~~sg~~~~~ylq~vt~~l~lG~E~ 155 (279)
T cd07305 80 LNARIIHQ-LGDRLRSKLQAQLQDSKFNMSQLELDYRGDDFTASLKL---ANPDILNETGIYVASYLQSVTPKLALGGEL 155 (279)
T ss_pred eeEEEEec-cCcceEEEEEEEecCCCceeEEEEEEEcCCceEEEEEE---eCCCcccccEEEEEEEEEEccCcEEEEEEE
Confidence 99999866 999999999998866 357899999999999988776 3563 56666665 8999999999
Q ss_pred EEEc-CCCcceeeEEEEEEeCCCcEEEEEEcCCCCeEEEEEEEEeCCccceeEEEEEEEEccCCccEEEEEEEEeeCCCC
Q 023824 147 GYDT-TSGNFTKYTAGISVTKPDSCASIILGDKGDTIRASYVHHLDNLKKSAAVGEITRRFSTNENTFTVGGSYAVDHLT 225 (276)
Q Consensus 147 ~yd~-~~~~~~~~~~a~~y~~~~~~~~~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~~~ld~~~ 225 (276)
.|+. +.++++.++++++|+.++|++++++.+ .+.+.+|||||++|++ ++|+|++|+...+++.+++|++|.++ ++
T Consensus 156 ~~~~~~~~~~~~~~~~~rY~~~d~~~s~~l~~-~~~l~asY~~kvs~~l--~lG~el~~~~~~~es~~tvg~~y~~~-~~ 231 (279)
T cd07305 156 VYQRVPGNGISVLSYAARYTAGNWIASGQLGA-QGGLHLSYYRKLSDKL--QLGVELELNLRTRESTATLGYQYDFR-QS 231 (279)
T ss_pred EEEEcCCCCceeEEEEEEEccCCEEEEEEEcC-CCeEEEEEEEEcccce--EeeeeeeecccCCceeEEEEEEEEcC-CC
Confidence 9996 577899999999999999999999999 4899999999999996 99999999999999999999999996 99
Q ss_pred eEEEEEcCCceeEEEEEEEecCCeEEEEEEEeecccCCCCCeeEEEEEEe
Q 023824 226 VVKAKLNNHGKLGALLQHEVIPKSLLTISSEVDTKALEKTPRFGLAIALK 275 (276)
Q Consensus 226 ~~Kakv~s~g~v~~~~~~~l~~~~~l~ls~~~d~~~~~~~~k~G~~l~~~ 275 (276)
++||+||++|+|+++||++|+|++++++|+++|+++ +.+|||+||.|.
T Consensus 232 ~~k~~ids~g~v~~~~e~~l~~~~~l~ls~~~d~~~--~~~kfG~gl~i~ 279 (279)
T cd07305 232 RFRGSIDSNGKVSAVLEKRLPLPLSLLLSGELNHVK--NDYKFGFGLTIG 279 (279)
T ss_pred EEEEEEcCCCEEEEEEEEecCCCeEEEEEEEEcccC--CcceEEEEEEeC
Confidence 999999999999999999999999999999999964 679999999874
No 6
>KOG3296 consensus Translocase of outer mitochondrial membrane complex, subunit TOM40 [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.95 E-value=4.5e-29 Score=218.14 Aligned_cols=256 Identities=14% Similarity=0.211 Sum_probs=202.3
Q ss_pred CCCCCcccccccccccc-----------cCCC----CCcceEEEEEecCCCeEEEEEEEecCCeeeeEEEEEEEEeCeEE
Q 023824 3 KGPGLFADIGKKAKDLL-----------TKDY----NADQKISISTYSGAGVALTSTAVKKGGLSAGDVAAQYKYKNVLF 67 (276)
Q Consensus 3 ~~P~~f~dl~K~akdll-----------~k~y----~~~~~l~~~t~~~~g~~~~~~~~~~~~~~~g~~~~k~~~~~~~~ 67 (276)
.||++|++|+++|+ ++ +|+. ..++.+.++...+.|+.|.+++ .+..+..+......+
T Consensus 28 ~Npgt~e~L~~~~~-~~p~~~~g~kl~v~k~Ls~~fqvs~t~~ls~~~~sg~~fg~ty-------~~~~q~~~~~~~~il 99 (308)
T KOG3296|consen 28 LNPGTVEELHSEAS-VDPTLSEGVKLGVNKGLSNHFQVSPTFVLSHIAASGYRFGPTY-------VYTFQASPTEAFLIL 99 (308)
T ss_pred CCcHHHHHhhhhhc-cCceeecceEeeecccccCceEeccceecccCccccceeccce-------eeeeccccCCCcceE
Confidence 48999999999996 43 2332 2346777777777788887776 344444444444677
Q ss_pred EEEEcCCCceEEEEEEccccCCceEEEEEEecCCCceeEEEEEcccceeEEEEEecC-CCCeEEEEEEe-------ccCc
Q 023824 68 DVKVDTESNILTTFTLTEILPSTKAIASLKVPDYNSGKLEVQYFHDHATFTSAIALN-QSPCIDVTATI-------GTPS 139 (276)
Q Consensus 68 ~~~~~t~~~l~~~i~~~~~~~Glk~~~~~~~p~~~~~k~~~~y~~~~~~~~~~~~l~-~~p~~~~s~~~-------~~~~ 139 (276)
-..+|++|.+.+++..+ +.++++.++..++++.+ .++-+|..+++....+..+. .+|.+..++++ .++.
T Consensus 100 ~G~vD~~Gslna~l~~~-l~~~Lr~K~~~q~~~~k--~ve~q~~~e~~g~d~t~~~~~~n~~~~~sgi~v~~~lqsvT~~ 176 (308)
T KOG3296|consen 100 RGDVDNDGSLNARLIHQ-LTDNLRSKVALQIQQSK--EVESQVTGEYRGRDYTLTLPLGNPDLGESGIYVASYLQSVTPR 176 (308)
T ss_pred EEecCCCCchhheeecc-cchhhHHHHHHHhcchh--hhccccccceecccccccccccCcccccchHHHHHHHhhhccc
Confidence 78899999999998654 88898887766665522 45555555555554444332 47776566654 5899
Q ss_pred ceeeeEEEEEc-CCCcceeeEEEEEEeCCCcEEEEEEcCCCCeEEEEEEEEeCCccceeEEEEEEEEccCCccEEEEEEE
Q 023824 140 IAFGAEAGYDT-TSGNFTKYTAGISVTKPDSCASIILGDKGDTIRASYVHHLDNLKKSAAVGEITRRFSTNENTFTVGGS 218 (276)
Q Consensus 140 ~~lG~e~~yd~-~~~~~~~~~~a~~y~~~~~~~~~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~ 218 (276)
|++|+|+.|.. +....+..++++||...+|++++++.. ..++++||||..+++ +.|+|+.++..-+++..+++++
T Consensus 177 LsLG~El~~~~~~~~~~s~ls~a~RY~~~~~~~~~t~g~--~g~~~~y~~r~~~~~--~~~ve~~~~~~~~~~~~t~a~~ 252 (308)
T KOG3296|consen 177 LSLGGELLYQRRPGPEESGLSYAGRYEHSNWDATVTLGQ--QGLTGTYYQRAVEKL--QMGVEFETNTRLQSTDVTAAYG 252 (308)
T ss_pred ccccceeEeccCCCccccceeeeeeeeecceeeEEeccc--ccceehhhhhhhhhh--ccceeEeeecccCCcceEEEEE
Confidence 99999999987 445667899999999999999999976 488899999999996 9999999998888999999999
Q ss_pred Eee-CCCCeEEEEEcCCceeEEEEEEEecCCeEEEEEEEeecccCCCCCeeEEEEEEe
Q 023824 219 YAV-DHLTVVKAKLNNHGKLGALLQHEVIPKSLLTISSEVDTKALEKTPRFGLAIALK 275 (276)
Q Consensus 219 ~~l-d~~~~~Kakv~s~g~v~~~~~~~l~~~~~l~ls~~~d~~~~~~~~k~G~~l~~~ 275 (276)
|++ .+++.+|++||++|.|++.+|++|.+.+++.+|+++||.+ ..+|||+||++.
T Consensus 253 ~~l~~~~s~~rg~vDSn~~v~~~lek~L~l~l~~~ls~~lnh~k--~~~~~G~gl~~~ 308 (308)
T KOG3296|consen 253 YDLPTAQSVFRGSVDSNWSVGAVLEKKLPLPLTLALSAELNHVK--NDFKFGFGLTIG 308 (308)
T ss_pred eeccCccceEEEEeccCceehhhhHhhcCCCceeeeeeeecccc--cccccceeEEeC
Confidence 998 4789999999999999999999997789999999999955 569999999873
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=99.49 E-value=1.3e-12 Score=104.74 Aligned_cols=143 Identities=14% Similarity=0.207 Sum_probs=108.5
Q ss_pred CCCCCcccccccc-cccccCCCCC-cceEEEEEecCCCeEEEEEEEecCCe--eee-EEEEEEEEeCeEEEEEEcCCCce
Q 023824 3 KGPGLFADIGKKA-KDLLTKDYNA-DQKISISTYSGAGVALTSTAVKKGGL--SAG-DVAAQYKYKNVLFDVKVDTESNI 77 (276)
Q Consensus 3 ~~P~~f~dl~K~a-kdll~k~y~~-~~~l~~~t~~~~g~~~~~~~~~~~~~--~~g-~~~~k~~~~~~~~~~~~~t~~~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 9999999988 48999987632345788888654221 111 12223332346788999999999
Q ss_pred EEEEEEccccCCceEEEEEEecC--CCceeEEEEEcccceeEEEEEecCCCCeE-EE--EEEe-------ccCcceeeeE
Q 023824 78 LTTFTLTEILPSTKAIASLKVPD--YNSGKLEVQYFHDHATFTSAIALNQSPCI-DV--TATI-------GTPSIAFGAE 145 (276)
Q Consensus 78 ~~~i~~~~~~~Glk~~~~~~~p~--~~~~k~~~~y~~~~~~~~~~~~l~~~p~~-~~--s~~~-------~~~~~~lG~e 145 (276)
.+++..+ +.+.++.++.+++.+ ....+++.+|+++++++.+++. +|.+ +. ++++ .+|+++||+|
T Consensus 82 ~ar~~~~-~~~~~~~K~~~Q~~~~~~~~~Q~e~DY~G~Dft~~lk~~---Np~~~~~~~sGi~v~sylQsVTp~LaLG~E 157 (161)
T TIGR00989 82 STRLNYR-WGDRTISKVQFQISGGQPDMCQFEHDHLGDDFSASLKAI---NPSFLEKGLTGIFVGSYLQSVTPRLGLGLE 157 (161)
T ss_pred EEEEEEe-eCcceeEEEEEEecCCCCceEEEEEEecCCeEEEEEEEc---CcccccccceEEEEEeeeehhCcceeeeee
Confidence 9999775 999999999998643 3688999999999999998883 6663 32 4443 5899999999
Q ss_pred EEEE
Q 023824 146 AGYD 149 (276)
Q Consensus 146 ~~yd 149 (276)
+.|+
T Consensus 158 ~~yq 161 (161)
T TIGR00989 158 ALWQ 161 (161)
T ss_pred eEeC
Confidence 9984
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=99.30 E-value=5.4e-09 Score=92.96 Aligned_cols=182 Identities=15% Similarity=0.174 Sum_probs=129.7
Q ss_pred ccCCceEEEEEEecC---CCceeEEEEEcccc--eeEEEEEecCCCCeEEEEEEec-cCcceeeeEEEEEcCCCcceeeE
Q 023824 86 ILPSTKAIASLKVPD---YNSGKLEVQYFHDH--ATFTSAIALNQSPCIDVTATIG-TPSIAFGAEAGYDTTSGNFTKYT 159 (276)
Q Consensus 86 ~~~Glk~~~~~~~p~---~~~~k~~~~y~~~~--~~~~~~~~l~~~p~~~~s~~~~-~~~~~lG~e~~yd~~~~~~~~~~ 159 (276)
+.|.+.+.=...+.. ....++.+.|..+. ..+..+++ ..-.+++..... .+++..-. ..+........+.
T Consensus 34 ls~~f~~shs~~lg~~~~~~~y~f~a~y~~~~~~~~~~~~id--~~g~l~~~~~~~~~~~~~~k~--~~~~~~~~~~~~q 109 (279)
T cd07305 34 LSPHFQVSHSLHLGSSSLTSSYQFGATYVGDKQYPFLQGDID--NDGNLNARIIHQLGDRLRSKL--QAQLQDSKFNMSQ 109 (279)
T ss_pred cCcCeeEEEEEEECCCCCCCCcEeeeEEecCCCcEEEEEEeC--CCCceeEEEEeccCcceEEEE--EEEecCCCceeEE
Confidence 556655543333321 24678899999988 77777775 222344444332 23444444 4444444667899
Q ss_pred EEEEEeCCCcEEEEEEcCC-----CCeEEEEEEEEeCCccceeEEEEEEEE--ccCCccEEEEEEEEeeCCCCeEEEEEc
Q 023824 160 AGISVTKPDSCASIILGDK-----GDTIRASYVHHLDNLKKSAAVGEITRR--FSTNENTFTVGGSYAVDHLTVVKAKLN 232 (276)
Q Consensus 160 ~a~~y~~~~~~~~~~~~~~-----~~~~~~Sy~~kv~~~~~~~~g~e~~~~--~~~~~~~~~vG~~~~ld~~~~~Kakv~ 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 LELDYRGDDFTASLKLANPDILNETGIYVASYLQSVTPKL--ALGGELVYQRVPGNGISVLSYAARYTA-GNWIASGQLG 186 (279)
T ss_pred EEEEEcCCceEEEEEEeCCCcccccEEEEEEEEEEccCcE--EEEEEEEEEEcCCCCceeEEEEEEEcc-CCEEEEEEEc
Confidence 9999999999999997653 2788999999999997 999999998 5678899999999998 5888999999
Q ss_pred CCceeEEEEEEEecCCeEEEEEEEeecccCCCCCeeEEEEEE
Q 023824 233 NHGKLGALLQHEVIPKSLLTISSEVDTKALEKTPRFGLAIAL 274 (276)
Q Consensus 233 s~g~v~~~~~~~l~~~~~l~ls~~~d~~~~~~~~k~G~~l~~ 274 (276)
+.+.+.++|-|+++|++.+..-.+.+...-+....+|....+
T Consensus 187 ~~~~l~asY~~kvs~~l~lG~el~~~~~~~es~~tvg~~y~~ 228 (279)
T cd07305 187 AQGGLHLSYYRKLSDKLQLGVELELNLRTRESTATLGYQYDF 228 (279)
T ss_pred CCCeEEEEEEEEcccceEeeeeeeecccCCceeEEEEEEEEc
Confidence 999999999999999766665555554321111455554443
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=98.90 E-value=3.5e-06 Score=74.82 Aligned_cols=175 Identities=14% Similarity=0.192 Sum_probs=117.3
Q ss_pred CCeEEEEEEEec--CCeeeeEEEEEEEEeCeEEEEEEcCC--CceEEEEEEccccCCceEEEEEEe--cC--CCceeEEE
Q 023824 37 AGVALTSTAVKK--GGLSAGDVAAQYKYKNVLFDVKVDTE--SNILTTFTLTEILPSTKAIASLKV--PD--YNSGKLEV 108 (276)
Q Consensus 37 ~g~~~~~~~~~~--~~~~~g~~~~k~~~~~~~~~~~~~t~--~~l~~~i~~~~~~~Glk~~~~~~~--p~--~~~~k~~~ 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 455555444323 35678888888887755555554432 2244444443 366665555543 21 24667889
Q ss_pred EEcccceeEEEEEecCCCCeEEEEEEe-ccCcceeeeEEEEEcCCCcceeeEEEEEEeCC-CcEEEEEEcCCCCeEEEEE
Q 023824 109 QYFHDHATFTSAIALNQSPCIDVTATI-GTPSIAFGAEAGYDTTSGNFTKYTAGISVTKP-DSCASIILGDKGDTIRASY 186 (276)
Q Consensus 109 ~y~~~~~~~~~~~~l~~~p~~~~s~~~-~~~~~~lG~e~~yd~~~~~~~~~~~a~~y~~~-~~~~~~~~~~~~~~~~~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-TTFAVGGQYALDPDALVKAKVNN-DGQLGLSY 241 (276)
T ss_pred EEecCCeEEEEEEC--CCCEEEEEEEEEcCCCeEEEEEEEEecCCCC-cEEEEEEEEEcCCCCEEEEEECC-CceEEEEE
Confidence 99999999888774 34557778766 4578999999999975544 689999999865 5999999988 58999999
Q ss_pred EEEeCCccceeEEEEEEEE-ccCCccEEEEEE
Q 023824 187 VHHLDNLKKSAAVGEITRR-FSTNENTFTVGG 217 (276)
Q Consensus 187 ~~kv~~~~~~~~g~e~~~~-~~~~~~~~~vG~ 217 (276)
.|+++|++.+.+++++.+. +..+...+.+|.
T Consensus 242 ~~kl~~~v~~tls~~~d~~~~~~~~~K~G~~l 273 (276)
T cd07306 242 QHKLRPGVTLTLSAGFDAKNLNQGGHKFGLSL 273 (276)
T ss_pred EEEcCCCcEEEEEEEeeccCcCCCCCeEEEEE
Confidence 9999999744555555542 122444454444
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=98.79 E-value=1.1e-05 Score=71.09 Aligned_cols=164 Identities=20% Similarity=0.158 Sum_probs=112.0
Q ss_pred ceeEEEEEcccceeEEEEEecCCCCeEEEEEEe---ccCcceeeeEEEEEcCCCcceeeEEEEEEeCCCcEEEEEEcC-C
Q 023824 103 SGKLEVQYFHDHATFTSAIALNQSPCIDVTATI---GTPSIAFGAEAGYDTTSGNFTKYTAGISVTKPDSCASIILGD-K 178 (276)
Q Consensus 103 ~~k~~~~y~~~~~~~~~~~~l~~~p~~~~s~~~---~~~~~~lG~e~~yd~~~~~~~~~~~a~~y~~~~~~~~~~~~~-~ 178 (276)
..+++..|......+..++ .+.....+-+ ..+++.+=.++.+...+ ....+.+.+.|..+++.+.+.+.+ .
T Consensus 54 ~~~~~~~~~~~~~~~~~~~----d~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~~l~~~y~~~~~~~~~~~~~~~ 128 (273)
T PF01459_consen 54 SYSFGAKYKGPKLTVKGDT----DNDGNLEASVRNKLSPGLKLKLSAQLSPGS-GKKSAQLEADYKGDDFNATFKVDNDN 128 (273)
T ss_dssp EEEEEEEEECEEEEEEEET----TTEEEEEEEEESSTTTTEEEEEEEEE-TTT-S-EEEEEEEEEEETTEEEEEEEEEST
T ss_pred ceEEEEEEeCceeeEEEEe----CCcccEEEEEecccCcceEEEEEEEEeecC-CceeeEEEEEEecCCEEEEEEEcccC
Confidence 5667777774433333322 4554444443 35776666665554322 236799999999999999999874 2
Q ss_pred CCeEEEEEEEEeCCccceeEEEEEEEEccCCccE-----EEEEEEEeeCCCCeEEEEE-cCCceeEEEEEEEecCCeEEE
Q 023824 179 GDTIRASYVHHLDNLKKSAAVGEITRRFSTNENT-----FTVGGSYAVDHLTVVKAKL-NNHGKLGALLQHEVIPKSLLT 252 (276)
Q Consensus 179 ~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~-----~~vG~~~~ld~~~~~Kakv-~s~g~v~~~~~~~l~~~~~l~ 252 (276)
...+.+||.+.+.|++ .+|+|+.|+...++.. +.++.+|.- ++.++-+.+ ++.+.+.++|-|++++.+.+.
T Consensus 129 ~~~~~~s~~~~v~~~~--~lG~e~~~~~~~~~~~~~~~~~~~~~~Y~~-~~~~~~~~~~~~~~~l~~sy~~k~~~~~~~g 205 (273)
T PF01459_consen 129 NPIFNASYVQSVTPNL--ALGAEATYDLSSGKSSKYNAGLSYAARYTH-PDYTASATLSNNFGTLTASYFQKVNDKLQLG 205 (273)
T ss_dssp S-EEEEEEEEEET-TE--EEEEEEEEETTTTCEEEEEEEEEEEET-----TEEEEEEE-ETTTEEEEEEEEESSTTEEEE
T ss_pred CCcEEEEEEEeccccE--EEEEEEEEecccCCcCcceEEEEEeccccc-eeEEEEEEEcCCCCEEEEEEEEEeccceeee
Confidence 4889999999999997 9999999998776655 444454443 699999999 689999999999999999998
Q ss_pred EEEEeecccCCCCCeeEEEEEE
Q 023824 253 ISSEVDTKALEKTPRFGLAIAL 274 (276)
Q Consensus 253 ls~~~d~~~~~~~~k~G~~l~~ 274 (276)
.-.+.+...-+....+|+...+
T Consensus 206 ~e~~~~~~~~~~~~~vG~~~~l 227 (273)
T PF01459_consen 206 AELTYNLSSRESTFTVGYQYKL 227 (273)
T ss_dssp EEEEEETTCCEEEEEEEEEEEE
T ss_pred eeeeecccCCCceEEEEEEEEc
Confidence 8888887431111344444444
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=98.39 E-value=0.00039 Score=61.69 Aligned_cols=129 Identities=10% Similarity=0.081 Sum_probs=94.0
Q ss_pred cCcceeeeEEEEEcCCCcceeeEEEEEEeCCCcEEEEEEcCCCCeEEEEEEEEeCCccceeEEEEEEEEccCC--ccEEE
Q 023824 137 TPSIAFGAEAGYDTTSGNFTKYTAGISVTKPDSCASIILGDKGDTIRASYVHHLDNLKKSAAVGEITRRFSTN--ENTFT 214 (276)
Q Consensus 137 ~~~~~lG~e~~yd~~~~~~~~~~~a~~y~~~~~~~~~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~--~~~~~ 214 (276)
.+++.+=.++.++..+ ......+-..|..+++.+.+.+.+ ..-+-.++.+-..++| .+|+|+.|+...+ +..+.
T Consensus 88 ~~glk~~~~~~~~~~~-~~~~~q~~~~y~~~~~~~~l~~~~-~gp~v~~~~~~g~~~~--~~G~e~~yd~~~~~~~~~~~ 163 (274)
T cd07303 88 SRGLKSTFDSSFSPNT-GKKNAKIKTGYKRINLGCDVDFDI-AGPLIRGALVLGYEGW--LAGYQMVFETVSRVTQSNFA 163 (274)
T ss_pred CCCeEEEEEEEECCCC-ccEEEEEeccEEcCCeeEEEEeec-CCCEEEEEEEEeecce--EEEEEEEEeccccccccceE
Confidence 5777777787776433 345678888999999999999976 3566678889999997 9999999987443 33444
Q ss_pred EEEEEeeCCCCeEEEEEcCCceeEEEEEEEecCCeEEEEEEEeecccCCCCCeeEEEE
Q 023824 215 VGGSYAVDHLTVVKAKLNNHGKLGALLQHEVIPKSLLTISSEVDTKALEKTPRFGLAI 272 (276)
Q Consensus 215 vG~~~~ld~~~~~Kakv~s~g~v~~~~~~~l~~~~~l~ls~~~d~~~~~~~~k~G~~l 272 (276)
+|+.-.. ++...-+++++-+.+.++|-|+++|++.+..-.+.+.+. ....+.+|.
T Consensus 164 ~~y~~~y-~d~~~s~~l~~~~~l~~Sy~hkvs~~~~~g~e~~~~~~~--~e~~~~vG~ 218 (274)
T cd07303 164 VGYKTDY-NEFQAHTNVNDGTEFGGSIYHKVNDKLEVGVNLAATAGN--SNTRFGIAA 218 (274)
T ss_pred EEEEccC-CCeEEEEEEcCCCeEEEEEEEEcCCceEEEEEEEeeccC--CccEEEEEE
Confidence 4433222 567778889888999999999999988877777777532 234444443
No 12
>KOG3126 consensus Porin/voltage-dependent anion-selective channel protein [Inorganic ion transport and metabolism]
Probab=97.58 E-value=0.025 Score=49.98 Aligned_cols=152 Identities=15% Similarity=0.173 Sum_probs=93.3
Q ss_pred CeeeeEEEEEEEEeCeEEEE-EEcCCCc-eEEEEEE--ccccCCceEEEEEEecCCCceeEEEEEcccceeEEEEEecCC
Q 023824 50 GLSAGDVAAQYKYKNVLFDV-KVDTESN-ILTTFTL--TEILPSTKAIASLKVPDYNSGKLEVQYFHDHATFTSAIALNQ 125 (276)
Q Consensus 50 ~~~~g~~~~k~~~~~~~~~~-~~~t~~~-l~~~i~~--~~~~~Glk~~~~~~~p~~~~~k~~~~y~~~~~~~~~~~~l~~ 125 (276)
+..+|.++..|.++..++.. .....+. +.....+ ++++-|..+.+++.--.-....+.+.|..+++.+.+.++ +
T Consensus 108 ~~ks~Klk~~y~~~~~~~~~~~~~~~~P~i~~s~v~g~~g~l~G~~~~fDt~~~~~t~~n~~lgy~~~d~~l~~~~n--n 185 (281)
T KOG3126|consen 108 GKKSGKLKLSYARDHFNLGADDFLTANPLILGSLVLGHEGWLLGYETTFDTASGKLTKYNAALGYTTEDFTLHLNLN--N 185 (281)
T ss_pred cccceeeecccccccceeeeccccccCCeEEEEEEecccceEEEEeEEEeccCCcEeeEEEEEEeecCCcEEEEEec--c
Confidence 45566666666654333332 1112222 2222222 223333333333321112455678889999988887763 3
Q ss_pred CCeEEEEEEec-cCcceeeeEEEEEcCCCcceeeEEEEEEe-CCCcEEEEEEcCCCCeEEEEEEEEeCCccceeEEEEEE
Q 023824 126 SPCIDVTATIG-TPSIAFGAEAGYDTTSGNFTKYTAGISVT-KPDSCASIILGDKGDTIRASYVHHLDNLKKSAAVGEIT 203 (276)
Q Consensus 126 ~p~~~~s~~~~-~~~~~lG~e~~yd~~~~~~~~~~~a~~y~-~~~~~~~~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~ 203 (276)
.-.+..|.-.. ...+..|.++.|..... -+.+++|.+|. .++..+-+++++ .+.+.+.|-|++.|...+.+++++.
T Consensus 186 ~~~~~~s~yq~v~~~~~~~~~~~~~~~~~-~~~~~igt~Y~lD~~t~VkAKVnn-~g~~gl~yq~~lrp~i~~t~s~~~d 263 (281)
T KOG3126|consen 186 GTEFLASIYQRVNEKLETGANAEWIAGSS-NTRFTIGTKYALDPDTSVKAKVNN-AGLAGLGYQQTLRPGIKVTLSAEFD 263 (281)
T ss_pred cchhhhhhhhhhcchheeeeeEEEeecCC-ccEEEEEEEeccCCCceeeeeecC-CceeeEEEEEecCCCcEEEEEEEEe
Confidence 33344444332 34589999999987654 56799999997 467889999998 6999999999999997555666655
Q ss_pred EE
Q 023824 204 RR 205 (276)
Q Consensus 204 ~~ 205 (276)
..
T Consensus 264 ~~ 265 (281)
T KOG3126|consen 264 GK 265 (281)
T ss_pred cc
Confidence 53
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=97.06 E-value=0.029 Score=45.43 Aligned_cols=95 Identities=7% Similarity=-0.061 Sum_probs=59.5
Q ss_pred eeEEEEEcccceeEEEEEecCCCCeEEEEEEe-ccCcceeeeEEEEEcCCCcceeeEEEEEEeCCCcEEEEEEcCCC---
Q 023824 104 GKLEVQYFHDHATFTSAIALNQSPCIDVTATI-GTPSIAFGAEAGYDTTSGNFTKYTAGISVTKPDSCASIILGDKG--- 179 (276)
Q Consensus 104 ~k~~~~y~~~~~~~~~~~~l~~~p~~~~s~~~-~~~~~~lG~e~~yd~~~~~~~~~~~a~~y~~~~~~~~~~~~~~~--- 179 (276)
-.+++.|..+..-+-.+|+ +.-.+++.... -.+++..=+++.. ..++...+-+-..|+..||++++++.|..
T Consensus 58 Y~FgA~y~~~~~~l~G~id--~dG~l~ar~~~~~~~~~~~K~~~Q~--~~~~~~~~Q~e~DY~G~Dft~~lk~~Np~~~~ 133 (161)
T TIGR00989 58 YAFSALFGTNQLFAQGNLD--NDGAVSTRLNYRWGDRTISKVQFQI--SGGQPDMCQFEHDHLGDDFSASLKAINPSFLE 133 (161)
T ss_pred ceeeeEecCCcEEEEEEeC--CCCCEEEEEEEeeCcceeEEEEEEe--cCCCCceEEEEEEecCCeEEEEEEEcCccccc
Confidence 4555566665554445553 22223333222 1244333333322 23334566677999999999999987621
Q ss_pred ----CeEEEEEEEEeCCccceeEEEEEEE
Q 023824 180 ----DTIRASYVHHLDNLKKSAAVGEITR 204 (276)
Q Consensus 180 ----~~~~~Sy~~kv~~~~~~~~g~e~~~ 204 (276)
..+.++|.|.|.|+| ++|+|+.|
T Consensus 134 ~~~sGi~v~sylQsVTp~L--aLG~E~~y 160 (161)
T TIGR00989 134 KGLTGIFVGSYLQSVTPRL--GLGLEALW 160 (161)
T ss_pred ccceEEEEEeeeehhCcce--eeeeeeEe
Confidence 267899999999998 99999988
No 14
>PRK10716 long-chain fatty acid outer membrane transporter; Provisional
Probab=93.87 E-value=4 Score=38.67 Aligned_cols=75 Identities=4% Similarity=-0.138 Sum_probs=49.1
Q ss_pred CeEEEEEEEEeCCccceeEEEEEEEEccCCccEEEEEEEEeeCCC--CeEEEEEcCCceeEEEEEEEecCCeEEEEEEEe
Q 023824 180 DTIRASYVHHLDNLKKSAAVGEITRRFSTNENTFTVGGSYAVDHL--TVVKAKLNNHGKLGALLQHEVIPKSLLTISSEV 257 (276)
Q Consensus 180 ~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~~~ld~~--~~~Kakv~s~g~v~~~~~~~l~~~~~l~ls~~~ 257 (276)
+.+.++..|+++|+| .+.+.+.|...+.=..+.+-. . +.. ...--.-.+.+.+++..++++++.+++..+...
T Consensus 287 ~~~~lg~~~~~~~~~--~l~~d~~wt~WS~~~~l~i~~--~-~g~~~~~~~~~w~D~w~~~~G~~Y~~n~~l~LRaG~~y 361 (435)
T PRK10716 287 EMWEVSGYNRVAPQW--AIHYSLAYTSWSQFQELKATS--S-NGDTLFQKHEGFKDAYRIALGTTYYYDDNWTFRTGIAF 361 (435)
T ss_pred cEEEEEeEEecCCcE--EEEEEEEEeeecccceEEEEe--C-CCcceecccccceeeeEEEeeEEEECCCCeEEEEeeEe
Confidence 677899999999997 999999987655433333311 0 000 011112356677778888888888888888877
Q ss_pred ec
Q 023824 258 DT 259 (276)
Q Consensus 258 d~ 259 (276)
|.
T Consensus 362 d~ 363 (435)
T PRK10716 362 DD 363 (435)
T ss_pred cc
Confidence 73
No 15
>KOG3296 consensus Translocase of outer mitochondrial membrane complex, subunit TOM40 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.59 E-value=0.053 Score=48.43 Aligned_cols=133 Identities=15% Similarity=0.138 Sum_probs=87.7
Q ss_pred CcceeeeEEEEEcC------------CCcceeeEEEEEEeCCCcEEEEEEcCC----CCeEEEEEEEEeCCccceeEEEE
Q 023824 138 PSIAFGAEAGYDTT------------SGNFTKYTAGISVTKPDSCASIILGDK----GDTIRASYVHHLDNLKKSAAVGE 201 (276)
Q Consensus 138 ~~~~lG~e~~yd~~------------~~~~~~~~~a~~y~~~~~~~~~~~~~~----~~~~~~Sy~~kv~~~~~~~~g~e 201 (276)
..-.+.+.+.++.. .+.+-.+..-..|...++++++...+- .+.+.++|.|.+.++| ++|+|
T Consensus 105 ~~Gslna~l~~~l~~~Lr~K~~~q~~~~k~ve~q~~~e~~g~d~t~~~~~~n~~~~~sgi~v~~~lqsvT~~L--sLG~E 182 (308)
T KOG3296|consen 105 NDGSLNARLIHQLTDNLRSKVALQIQQSKEVESQVTGEYRGRDYTLTLPLGNPDLGESGIYVASYLQSVTPRL--SLGGE 182 (308)
T ss_pred CCCchhheeecccchhhHHHHHHHhcchhhhccccccceecccccccccccCcccccchHHHHHHHhhhcccc--cccce
Confidence 33566666666543 223345677788888888888887641 2456678999999998 99999
Q ss_pred EEEEc--cCCccEEEEEEEEeeCCCCeEEEEEcCCceeEEEEEEEecCCeEEEEEEEeecccCCCCCeeEEEEEE
Q 023824 202 ITRRF--STNENTFTVGGSYAVDHLTVVKAKLNNHGKLGALLQHEVIPKSLLTISSEVDTKALEKTPRFGLAIAL 274 (276)
Q Consensus 202 ~~~~~--~~~~~~~~vG~~~~ld~~~~~Kakv~s~g~v~~~~~~~l~~~~~l~ls~~~d~~~~~~~~k~G~~l~~ 274 (276)
+-|.. ...++.++++++|.. .+...-+-....|.-+..| +|..+.+......+.|..-=+...-+++++.+
T Consensus 183 l~~~~~~~~~~s~ls~a~RY~~-~~~~~~~t~g~~g~~~~y~-~r~~~~~~~~ve~~~~~~~~~~~~t~a~~~~l 255 (308)
T KOG3296|consen 183 LLYQRRPGPEESGLSYAGRYEH-SNWDATVTLGQQGLTGTYY-QRAVEKLQMGVEFETNTRLQSTDVTAAYGYDL 255 (308)
T ss_pred eEeccCCCccccceeeeeeeee-cceeeEEecccccceehhh-hhhhhhhccceeEeeecccCCcceEEEEEeec
Confidence 99976 457899999999998 3444455555555444444 66667777777777766321112445554443
No 16
>COG2067 FadL Long-chain fatty acid transport protein [Lipid metabolism]
Probab=87.39 E-value=8.1 Score=36.68 Aligned_cols=75 Identities=9% Similarity=-0.079 Sum_probs=52.6
Q ss_pred CeEEEEEEEEeCCccceeEEEEEEEEccCCccEEEEEEEEeeCCCCeEEEEE---cCCceeEEEEEEEecCCeEEEEEEE
Q 023824 180 DTIRASYVHHLDNLKKSAAVGEITRRFSTNENTFTVGGSYAVDHLTVVKAKL---NNHGKLGALLQHEVIPKSLLTISSE 256 (276)
Q Consensus 180 ~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~~~ld~~~~~Kakv---~s~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 ASAELSGQHKVADQW--AIHGSVKWTDWSSFDKLDFVFT---FGKTLFAKTEDGYRDTWTVALGTTYKFNDQWTLRAGIA 360 (440)
T ss_pred cEEEEeeeeccCCCe--EEEEEEEEeeccCCceEEEEEc---CCCccccccccccccccEEeeeceeEcCccceEeeeee
Confidence 577889999999998 9999999987664444444332 2233333333 3677778888888888888888877
Q ss_pred eec
Q 023824 257 VDT 259 (276)
Q Consensus 257 ~d~ 259 (276)
.|.
T Consensus 361 yD~ 363 (440)
T COG2067 361 YDQ 363 (440)
T ss_pred ecC
Confidence 776
No 17
>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=86.15 E-value=2.1 Score=37.60 Aligned_cols=64 Identities=14% Similarity=0.136 Sum_probs=52.7
Q ss_pred CcceeeeEEEEEcCCCcceeeEEEEEEeC------CCcEEEEEEcCCCCeEEEEEEEEeCCccceeEEEEEEE
Q 023824 138 PSIAFGAEAGYDTTSGNFTKYTAGISVTK------PDSCASIILGDKGDTIRASYVHHLDNLKKSAAVGEITR 204 (276)
Q Consensus 138 ~~~~lG~e~~yd~~~~~~~~~~~a~~y~~------~~~~~~~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~ 204 (276)
..|.+|+|+-|-...+. -..+.|+||.. ..+++++++++-++.+..+|--|.++.. +++.++++
T Consensus 190 ~r~S~GaE~yys~~~ks-~G~STglRf~Tlp~~tg~PlTlTlt~NPl~GhiSstYs~k~s~~~--a~~SrfdF 259 (260)
T PF12519_consen 190 GRFSAGAELYYSALNKS-PGCSTGLRFCTLPAHTGKPLTLTLTLNPLMGHISSTYSVKASPNS--AFCSRFDF 259 (260)
T ss_pred ceEeeccEEEEEeeccC-CcccceeEEEecCCCCCCCeEEEEEeccccccchheeeeeccCCc--eEEeeccc
Confidence 38999999999765443 36899999964 4789999999988999999999999985 88777654
No 18
>COG2067 FadL Long-chain fatty acid transport protein [Lipid metabolism]
Probab=84.57 E-value=27 Score=33.22 Aligned_cols=47 Identities=15% Similarity=0.088 Sum_probs=23.1
Q ss_pred CeEEEEEEEEeCCccceeEEEEEEEEcc-------------CCccEEEEEEEEeeCCCCeEE
Q 023824 180 DTIRASYVHHLDNLKKSAAVGEITRRFS-------------TNENTFTVGGSYAVDHLTVVK 228 (276)
Q Consensus 180 ~~~~~Sy~~kv~~~~~~~~g~e~~~~~~-------------~~~~~~~vG~~~~ld~~~~~K 228 (276)
-++....-|+++|+| ++-+-+.|+.. .....+++|..|+++++..|.
T Consensus 339 wt~a~G~~Y~~nd~~--tlragiayD~s~s~~~~~~~~iPd~Dr~~~s~G~~Y~~t~n~~vd 398 (440)
T COG2067 339 WTVALGTTYKFNDQW--TLRAGIAYDQSPSPAQNRSISIPDTDRWWLSLGTTYKFTKNLEVD 398 (440)
T ss_pred cEEeeeceeEcCccc--eEeeeeeecCCCCcccccccccCCCCcEEEeCccEEecCCCeEEE
Confidence 445555556666666 33333334211 122345666666666555544
No 19
>PF10082 DUF2320: Uncharacterized protein conserved in bacteria (DUF2320); InterPro: IPR018759 This domain has no known function.
Probab=82.45 E-value=40 Score=30.92 Aligned_cols=46 Identities=13% Similarity=0.138 Sum_probs=35.4
Q ss_pred EEcCCceeEEEEEEEecCCeEEEEEEEeecccCC--C----CCeeEEEEEEe
Q 023824 230 KLNNHGKLGALLQHEVIPKSLLTISSEVDTKALE--K----TPRFGLAIALK 275 (276)
Q Consensus 230 kv~s~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 7778888999999999999999988877765411 1 26888888764
No 20
>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=79.57 E-value=53 Score=30.52 Aligned_cols=79 Identities=5% Similarity=-0.082 Sum_probs=50.5
Q ss_pred CeEEEEEEEEeCCccceeEEEEEEEEccCCccEE-EEEEEEee---CCCCeEEEEEcCCceeEEEEEEEecCCeEEEEEE
Q 023824 180 DTIRASYVHHLDNLKKSAAVGEITRRFSTNENTF-TVGGSYAV---DHLTVVKAKLNNHGKLGALLQHEVIPKSLLTISS 255 (276)
Q Consensus 180 ~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~-~vG~~~~l---d~~~~~Kakv~s~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 ASLSLGVAYRFTDKL--LLSADYEWTDWSSFDNLYNDQFTFANGNGSTNNNIPFNWKDTWVYRLGAEYKFNDKLTLRAGY 347 (427)
T ss_dssp EEEEEEEEEESSSSE--EEEEEEEEEEGGG-SCEEEEEEEETTECTEEEEEEE---EEEEEEEEEEEEESSSSEEEEEEE
T ss_pred eeEEEEEEEecCCCE--EEEEEEEEEEhhhhhhhcccccccccccccccccCCCCccchheeeeeeEEEcCcCEEEEEEE
Confidence 577888999999997 99999999754432222 11111110 0123344455667778888888999998888888
Q ss_pred Eeecc
Q 023824 256 EVDTK 260 (276)
Q Consensus 256 ~~d~~ 260 (276)
..|..
T Consensus 348 ~y~~s 352 (427)
T PF03349_consen 348 AYDSS 352 (427)
T ss_dssp EEEE-
T ss_pred EEecc
Confidence 88874
No 21
>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=78.26 E-value=46 Score=29.11 Aligned_cols=47 Identities=11% Similarity=0.131 Sum_probs=29.7
Q ss_pred CccEEEEEEEEeeCCCCeEEEEEcC----------CceeEEEEEEEecCCeEEEEEEE
Q 023824 209 NENTFTVGGSYAVDHLTVVKAKLNN----------HGKLGALLQHEVIPKSLLTISSE 256 (276)
Q Consensus 209 ~~~~~~vG~~~~ld~~~~~Kakv~s----------~g~v~~~~~~~l~~~~~l~ls~~ 256 (276)
....+.+++.|.+ +..++.+.... .-.+++.+++++.|++.+-+...
T Consensus 248 ~~~~~~~~~~Y~~-~~~~~~~~y~~~~~~~~~~~~~~~~~~g~~Y~~~~~~~~~a~y~ 304 (311)
T PF13609_consen 248 DQDAYYVGAAYTF-GKWTLYAGYGYSDSADGSDDDATSYAVGVDYDFSKNTSLYAEYA 304 (311)
T ss_dssp EEEEEEEEEEEEE-TTEEEEEEEEEEEE-GCCTEEEEEEEEEEEEEEETTEEEEEEEE
T ss_pred cceEEEEEEEEEe-CCEEEEEEEEEEEccCCCCCCeEEEEEEEEEEcCCCEEEEEEEE
Confidence 4456667777777 45666665432 22377778888888777665553
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=77.49 E-value=51 Score=29.19 Aligned_cols=48 Identities=10% Similarity=0.124 Sum_probs=27.7
Q ss_pred cEEEEEEEEeeCCCCeEEEEEc------------CCceeEEEEEEEecCCeEEEEEEEee
Q 023824 211 NTFTVGGSYAVDHLTVVKAKLN------------NHGKLGALLQHEVIPKSLLTISSEVD 258 (276)
Q Consensus 211 ~~~~vG~~~~ld~~~~~Kakv~------------s~g~v~~~~~~~l~~~~~l~ls~~~d 258 (276)
....+|++|.+.+...+.+-.. ..-.+.+.+++.+.|.+.+-.....+
T Consensus 237 ~~~~lga~Y~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~G~~Y~~~~~~~l~~~y~~~ 296 (329)
T cd00342 237 NGYELGATYQLTPALRLGAAYYYTKDRNDGGGDGKANQVALGADYALSKRTDLYAEYGYQ 296 (329)
T ss_pred EEEEEeEEEEcCCceEEEEEEEEEeccCCCCCCCCeEEEEEEEeEeeccchhheeeeeee
Confidence 4566777777755555555321 11236677777777776665555433
No 23
>PF10082 DUF2320: Uncharacterized protein conserved in bacteria (DUF2320); InterPro: IPR018759 This domain has no known function.
Probab=71.83 E-value=81 Score=28.85 Aligned_cols=80 Identities=15% Similarity=0.192 Sum_probs=52.7
Q ss_pred eeEEEEEEEEccCCccEEEEEEEEeeCCCCeEEEEEcCCceeEEEEEEEecCCeEEEEEEEeecccCCC------CCeeE
Q 023824 196 SAAVGEITRRFSTNENTFTVGGSYAVDHLTVVKAKLNNHGKLGALLQHEVIPKSLLTISSEVDTKALEK------TPRFG 269 (276)
Q Consensus 196 ~~~g~e~~~~~~~~~~~~~vG~~~~ld~~~~~Kakv~s~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 366666666644 45777888877775443333333334567888899999999999999887766432 14667
Q ss_pred EEEEEeC
Q 023824 270 LAIALKP 276 (276)
Q Consensus 270 ~~l~~~~ 276 (276)
+++...|
T Consensus 338 ~~~~y~~ 344 (381)
T PF10082_consen 338 LGLTYRL 344 (381)
T ss_pred EEEEEEe
Confidence 7666543
No 24
>PF04357 DUF490: Family of unknown function (DUF490); InterPro: IPR007452 This family contains several proteins of uncharacterised function.
Probab=69.49 E-value=41 Score=30.69 Aligned_cols=60 Identities=5% Similarity=0.024 Sum_probs=34.0
Q ss_pred EEEEEEEEeCCccceeEEEEEEEEccCCccEEEEEEEEeeCCCCeEEEEEcCC--ce-eEEEEEEE
Q 023824 182 IRASYVHHLDNLKKSAAVGEITRRFSTNENTFTVGGSYAVDHLTVVKAKLNNH--GK-LGALLQHE 244 (276)
Q Consensus 182 ~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~~~ld~~~~~Kakv~s~--g~-v~~~~~~~ 244 (276)
....+=.++++++ .+..+..+.... +..-.+..+|+|++...+++++++. +. +++.|+.+
T Consensus 316 ~~~~~gk~l~~~l--~i~~~~~~~~~~-~~~~~~~l~y~l~~~~~l~~~~~~~~~~~g~~l~y~~~ 378 (379)
T PF04357_consen 316 TSVTVGKYLSDRL--YISYQFGVDLGG-SQTGEFSLEYRLNPNLSLRGSSDSGNTSQGVDLIYRKD 378 (379)
T ss_pred eEEEEEEecCCCE--EEEEEEeecCCC-CceEEEEEEEEEcCCEEEEEEEEcCCCceEEEEEEEEE
Confidence 3444455667765 555554443221 1124666777777777777777554 54 56666544
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=68.96 E-value=92 Score=28.32 Aligned_cols=67 Identities=16% Similarity=0.179 Sum_probs=46.7
Q ss_pred CCccEEEEEEEEeeCCCCeEEEEEcC--------------CceeEEEEEEEecCCeEEEEEEEeecccCCCCCeeEEEEE
Q 023824 208 TNENTFTVGGSYAVDHLTVVKAKLNN--------------HGKLGALLQHEVIPKSLLTISSEVDTKALEKTPRFGLAIA 273 (276)
Q Consensus 208 ~~~~~~~vG~~~~ld~~~~~Kakv~s--------------~g~v~~~~~~~l~~~~~l~ls~~~d~~~~~~~~k~G~~l~ 273 (276)
.....+.+|++|++.++..++++++. ...+.+.|+.++.++..+.++..=|.-+++..+-|+|.+.
T Consensus 235 ~~~~~~~~g~~y~~~~~~~l~~q~~~~qg~~~~~~~l~~~s~e~~lG~r~~~~~~~alei~~~En~~~~dnS~Diaf~l~ 314 (319)
T PF11383_consen 235 NNTWFGGLGYGYQLTENHSLLAQYDYYQGFYDSSSELSEPSNELTLGYRYQLSERSALEISVIENLFNVDNSPDIAFHLG 314 (319)
T ss_pred cceEEEEEEEEEEecCCEEEEEEEEEeeccccCchhhcccceEEEeeeEEEEcCCceEEEEEEecccccCCCCCeEEEEE
Confidence 34556778888888778888887764 3457788888888888888888666644444466655554
Q ss_pred E
Q 023824 274 L 274 (276)
Q Consensus 274 ~ 274 (276)
+
T Consensus 315 l 315 (319)
T PF11383_consen 315 L 315 (319)
T ss_pred E
Confidence 4
No 26
>PRK03761 LPS assembly outer membrane complex protein LptD; Provisional
Probab=67.40 E-value=1.5e+02 Score=30.33 Aligned_cols=81 Identities=11% Similarity=0.094 Sum_probs=50.7
Q ss_pred cCcceeeeEEEEEcCCCcceeeEEEEEEeCCCc-EEEEEEc---------------------CCCCeEEEEEEEEeCCcc
Q 023824 137 TPSIAFGAEAGYDTTSGNFTKYTAGISVTKPDS-CASIILG---------------------DKGDTIRASYVHHLDNLK 194 (276)
Q Consensus 137 ~~~~~lG~e~~yd~~~~~~~~~~~a~~y~~~~~-~~~~~~~---------------------~~~~~~~~Sy~~kv~~~~ 194 (276)
.+.|.+.+++.||...+.+.+.++.++|..+.. .+.+... .....+.+|...+++++|
T Consensus 612 ~~~~~~~~~~~~d~~~~~~~r~~~~l~y~~~~~~~~~~~Yry~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~l~~~w 691 (778)
T PRK03761 612 SDRWGLRGGIQYDTRLDSVALANSSLEYRRDEDRLIQLNYRYASPEYIQATLPSYYSAEIYQQGISQVGAVASWPIADRW 691 (778)
T ss_pred cCCEEEeeeEEECCCCChhheEEEEEEEeCCCCcEEEeEeEEecchhhhcccccccccccccCCcceeeEEEEEEecCcE
Confidence 577999999999988888888999998876554 3222210 001345566666677776
Q ss_pred ceeEEEEEEEEccCC-ccEEEEEEEE
Q 023824 195 KSAAVGEITRRFSTN-ENTFTVGGSY 219 (276)
Q Consensus 195 ~~~~g~e~~~~~~~~-~~~~~vG~~~ 219 (276)
.+.+...+++..+ .....+|.+|
T Consensus 692 --~~~g~~~ydl~~~~~~~~~~Gl~Y 715 (778)
T PRK03761 692 --SIVGAYYYDTKANKPAEQLLGLQY 715 (778)
T ss_pred --EEEEEEEeeCcCChhhhhhcCeee
Confidence 6666666665432 2334444444
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=67.09 E-value=90 Score=27.56 Aligned_cols=72 Identities=17% Similarity=0.046 Sum_probs=42.1
Q ss_pred eeeEEEEEEeCCCcEEEEEEcC------------CCCeEEEEEEEEeCCccceeEEEEEEEEcc-------CCccEEEEE
Q 023824 156 TKYTAGISVTKPDSCASIILGD------------KGDTIRASYVHHLDNLKKSAAVGEITRRFS-------TNENTFTVG 216 (276)
Q Consensus 156 ~~~~~a~~y~~~~~~~~~~~~~------------~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~-------~~~~~~~vG 216 (276)
..+.+++.|....+.+.+.... ....+.++.-+++++.+ .+.+...+.-. .....+.+|
T Consensus 201 ~~~~~ga~Y~~~~~~v~a~y~~~~~~~~~~~~~~~~~~~~lga~Y~~~~~~--~~~~~y~~~~~~~~~~~~~~~~~~~~G 278 (329)
T cd00342 201 RAYGAGASYDFGGLKLGAGYTNTRNDNGGGGGSAKFNGYELGATYQLTPAL--RLGAAYYYTKDRNDGGGDGKANQVALG 278 (329)
T ss_pred EEEEEEEEEEEccEEEEEEEEEEEccCCCCCCceEEEEEEEeEEEEcCCce--EEEEEEEEEeccCCCCCCCCeEEEEEE
Confidence 3455666665555555443211 11344555667777664 66666665421 234678899
Q ss_pred EEEeeCCCCeEEE
Q 023824 217 GSYAVDHLTVVKA 229 (276)
Q Consensus 217 ~~~~ld~~~~~Ka 229 (276)
+.|.+.+.+.+-+
T Consensus 279 ~~Y~~~~~~~l~~ 291 (329)
T cd00342 279 ADYALSKRTDLYA 291 (329)
T ss_pred EeEeeccchhhee
Confidence 9999987766654
No 28
>PF13557 Phenol_MetA_deg: Putative MetA-pathway of phenol degradation
Probab=65.33 E-value=84 Score=26.56 Aligned_cols=38 Identities=18% Similarity=0.183 Sum_probs=24.8
Q ss_pred eeEEEEEEEecCCeEEEEEEEeecccCCCCCeeEEEEEEe
Q 023824 236 KLGALLQHEVIPKSLLTISSEVDTKALEKTPRFGLAIALK 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 YLGPGVSYQLSPNLSLDAGVGRGLAA--RNTFEGNGVQLR 247 (248)
T ss_pred EEEEEEEEEEcCCeEEEEEEEeeeec--cceeeeeEEEEe
Confidence 36677777888887777777777521 335566666554
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=65.22 E-value=1.2e+02 Score=28.18 Aligned_cols=30 Identities=20% Similarity=0.128 Sum_probs=14.2
Q ss_pred EEEEcCCceeEEEEEEEecCCeEEEEEEEe
Q 023824 228 KAKLNNHGKLGALLQHEVIPKSLLTISSEV 257 (276)
Q Consensus 228 Kakv~s~g~v~~~~~~~l~~~~~l~ls~~~ 257 (276)
+.+++--..+.+.+.+++.|++.+.+..+.
T Consensus 263 ~~~~~~P~~~~~g~~~~~~~~~~l~~d~~~ 292 (427)
T PF03349_consen 263 EVDLDLPASLSLGVAYRFTDKLLLSADYEW 292 (427)
T ss_dssp EEEEEB-EEEEEEEEEESSSSEEEEEEEEE
T ss_pred eeeeeeceeEEEEEEEecCCCEEEEEEEEE
Confidence 334444445555555555555555444443
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=64.97 E-value=26 Score=29.98 Aligned_cols=78 Identities=10% Similarity=0.044 Sum_probs=46.7
Q ss_pred CCeEEEEEEEEeCCccceeEEEEEEEEccCCccEEEEEEEEeeCCCCeEEEEE----------cCC--------ceeEEE
Q 023824 179 GDTIRASYVHHLDNLKKSAAVGEITRRFSTNENTFTVGGSYAVDHLTVVKAKL----------NNH--------GKLGAL 240 (276)
Q Consensus 179 ~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~~~ld~~~~~Kakv----------~s~--------g~v~~~ 240 (276)
+.++.++|..|+++++-++.|..+.+......=..-|-..|.++++..+-+|- +.+ -++.+-
T Consensus 61 g~E~~~~y~~k~~d~~~l~PG~~~~~~s~~~~yrPylk~~Y~fd~~~~~~~RYRy~~~~~~~~~~~~~~~~~~~~r~d~~ 140 (218)
T PF06178_consen 61 GNEFEISYRYKLNDNFTLQPGFSLESNSDGTQYRPYLKLGYKFDNGLSVSGRYRYDYQNYSSDDLDGDKDNNDRHRFDLW 140 (218)
T ss_dssp EEEEEEEE-EESSSSEEEEEEEEEEEETTEEEEEEEEEEEEEECTTEEEEEEEEEEEESS-EE-TTS-EE---EEEEEEE
T ss_pred eeEEEEEEEEEcCCCEEEecceEEEECCCccEEeeEEEEEEEecCCEEEEEEeecceEccCCcccCCccccCccEEEEEE
Confidence 57899999999999886788888777644333334444555666554444432 111 145555
Q ss_pred EEEEecCCeEEEEEEE
Q 023824 241 LQHEVIPKSLLTISSE 256 (276)
Q Consensus 241 ~~~~l~~~~~l~ls~~ 256 (276)
+-.++.+.+.+..-..
T Consensus 141 i~Y~~~~~~~~~y~~~ 156 (218)
T PF06178_consen 141 IGYKFNDDWSLSYNPV 156 (218)
T ss_dssp EEEE-SSSEEEEEEEE
T ss_pred EEEEEcCCEEEEEEEE
Confidence 6667766666666665
No 31
>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=61.35 E-value=53 Score=22.94 Aligned_cols=34 Identities=21% Similarity=0.268 Sum_probs=18.9
Q ss_pred eEEEEEEEEccCCccEEEEEEEEeeCCCCeEEEEEc
Q 023824 197 AAVGEITRRFSTNENTFTVGGSYAVDHLTVVKAKLN 232 (276)
Q Consensus 197 ~~g~e~~~~~~~~~~~~~vG~~~~ld~~~~~Kakv~ 232 (276)
.+++-+.+ -..+..+.+|++|.++++..+++.+.
T Consensus 28 ~~~~g~G~--y~g~~A~A~G~~~~~~~~~~~~~~~s 61 (78)
T PF03895_consen 28 SVGVGVGT--YRGESAVAVGASYRPNENVMVNAGVS 61 (78)
T ss_dssp EEEEEEEE--ETTEEEEEEEEEEE-TSSEEEEEEEE
T ss_pred EEEEEEEe--eCCcccEEEEEEEEeCCCEEEEEEEE
Confidence 45554444 34666677777777665555555444
No 32
>PF11854 DUF3374: Protein of unknown function (DUF3374); InterPro: IPR020016 Members of this protein family are integral proteins of the bacterial outer membrane, associated with multi-haem 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 decahaem cytochrome MtrA and large, surface-exposed decahaem cytochrome MtrC.
Probab=60.70 E-value=1.9e+02 Score=29.04 Aligned_cols=104 Identities=17% Similarity=0.120 Sum_probs=55.6
Q ss_pred CceeEEEEEcccceeEEEEEecCCCCe--EEEEEEe-ccCcceeeeEEEEEcCCCcceeeEEEEEEeCCCcEEEEEEcCC
Q 023824 102 NSGKLEVQYFHDHATFTSAIALNQSPC--IDVTATI-GTPSIAFGAEAGYDTTSGNFTKYTAGISVTKPDSCASIILGDK 178 (276)
Q Consensus 102 ~~~k~~~~y~~~~~~~~~~~~l~~~p~--~~~s~~~-~~~~~~lG~e~~yd~~~~~~~~~~~a~~y~~~~~~~~~~~~~~ 178 (276)
-+..+.++|..+++.- ..++|..... +..++.+ ..+.+.+-+-..++....... -..++..++| ...+.++
T Consensus 447 l~l~~~~~~~~DdY~~-t~~GL~~~~~~~~~ld~~y~~~~~l~~~af~~~q~~~s~Q~---gs~~~~~~~W--~~~~~D~ 520 (637)
T PF11854_consen 447 LSLSLSGRYANDDYDD-TDIGLTESDDYGYDLDASYQPSDDLSLYAFYNQQWIDSDQA---GSQNFSTPDW--TSDTEDK 520 (637)
T ss_pred eEEeEEEEEccCCCCC-cccccccceeeeeeeeEEEEECCCeEEEEEEEeEeehhhhc---cccCccCCCc--cccccce
Confidence 3566667777777654 3455542222 2223322 256666666666554321111 1123334556 3344555
Q ss_pred CCeEEEEEEEE--eCCccceeEEEEEEEEccCCccEE
Q 023824 179 GDTIRASYVHH--LDNLKKSAAVGEITRRFSTNENTF 213 (276)
Q Consensus 179 ~~~~~~Sy~~k--v~~~~~~~~g~e~~~~~~~~~~~~ 213 (276)
...+.+.+-+. +.++| .+|+..+|.....+...
T Consensus 521 ~~~~G~G~~~~~l~~~kL--~lg~dYsys~~~s~~~~ 555 (637)
T PF11854_consen 521 VTTVGAGFSYQGLMDDKL--SLGLDYSYSDSDSDTDV 555 (637)
T ss_pred eEEEEeceEeecccCccE--EEeeeEEEecCccceEe
Confidence 56777665554 67776 99999999765444443
No 33
>PRK10993 outer membrane protease; Reviewed
Probab=59.53 E-value=1.4e+02 Score=27.13 Aligned_cols=181 Identities=15% Similarity=0.149 Sum_probs=95.4
Q ss_pred EEEEEEcCCCceEEEEEEccccCCceEEEEEE--ecCCCceeE-EEE--------EcccceeEEEEEecCCCCeEEEE-E
Q 023824 66 LFDVKVDTESNILTTFTLTEILPSTKAIASLK--VPDYNSGKL-EVQ--------YFHDHATFTSAIALNQSPCIDVT-A 133 (276)
Q Consensus 66 ~~~~~~~t~~~l~~~i~~~~~~~Glk~~~~~~--~p~~~~~k~-~~~--------y~~~~~~~~~~~~l~~~p~~~~s-~ 133 (276)
.++.+.++..-|+++++.+ +.|.+++..+.+ ++. .++++ .=+ |.+...+-+.+++.-+.=.++.. .
T Consensus 62 qLdW~~~n~~iik~~~~~~-~~~~lsl~a~gw~~l~s-~~G~M~DyDWl~~~~~~wt~~S~h~~t~l~ya~e~dln~~~w 139 (314)
T PRK10993 62 QLDWKIKNAAIIKGDINWD-LLPRLSLGASGWTTLAS-GGGHMVDYDWLDSSQPGWTDRSHHPDTDLNYANEFDLNLKGW 139 (314)
T ss_pred EeeccccCceEEEeecccc-cccceEEeeeEEEEEec-CCCccccccccCCCCCCCcceecCCCCchhhhhhcceeccee
Confidence 3344444444466777665 888888887754 332 12221 222 22222221222221112223333 3
Q ss_pred EeccCcceeeeEEEEEcCCCcceeeEEEEEEe--CC---CcEEEEEEcCCCCeEEEEEEEEeCCccceeEEEEEEEEccC
Q 023824 134 TIGTPSIAFGAEAGYDTTSGNFTKYTAGISVT--KP---DSCASIILGDKGDTIRASYVHHLDNLKKSAAVGEITRRFST 208 (276)
Q Consensus 134 ~~~~~~~~lG~e~~yd~~~~~~~~~~~a~~y~--~~---~~~~~~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~ 208 (276)
.+.-++..+|.-+.|+.. +++-.+.++.|. .. +-..+ +-+ +....+|-|+..-- -+|...+++..
T Consensus 140 ~l~~~~yklG~~aGyqy~--~~sw~A~GG~y~Y~~~~~r~~~g~--fPd--~~~~I~Y~Q~f~~p---yiGL~g~y~~~- 209 (314)
T PRK10993 140 LLQNPNYRLGVMAGYQET--RFSWTAYGGSYIYSNGGFRDDIGT--FPD--GERGIGYKQRFKMP---YIGLTGSYRYD- 209 (314)
T ss_pred eecCCCceeeeEeeeEEE--eceeEccCceEEcCCCCCCCCccc--cCC--CccceeeEEEecce---eeeEEEEEEec-
Confidence 445677888888888754 333344455443 33 22222 222 56678999998754 66666666653
Q ss_pred CccEEEEEEEEee-----------CCCCeEEEEEcCCcee--EEEEEEEecCCeEEEEEEEeec
Q 023824 209 NENTFTVGGSYAV-----------DHLTVVKAKLNNHGKL--GALLQHEVIPKSLLTISSEVDT 259 (276)
Q Consensus 209 ~~~~~~vG~~~~l-----------d~~~~~Kakv~s~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 233333333321 1356777777665544 5566678889888888876543
No 34
>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=56.06 E-value=1.7e+02 Score=27.11 Aligned_cols=80 Identities=6% Similarity=-0.011 Sum_probs=37.9
Q ss_pred eEEEEEEEEeCCc------cceeEEEEEEEEccCCccEEEEEEEEeeCCCCeEEEEEcCCceeEEEEEEEecCCeEEEEE
Q 023824 181 TIRASYVHHLDNL------KKSAAVGEITRRFSTNENTFTVGGSYAVDHLTVVKAKLNNHGKLGALLQHEVIPKSLLTIS 254 (276)
Q Consensus 181 ~~~~Sy~~kv~~~------~~~~~g~e~~~~~~~~~~~~~vG~~~~ld~~~~~Kakv~s~g~v~~~~~~~l~~~~~l~ls 254 (276)
.+.++|.+|--+. -++..++.+.|.+. ..+++.+.....+.+...+-+--.-.-.+++...+++.+++.+.++
T Consensus 232 ~~~~gy~~k~~d~~~~~Dfsg~~~~~~~~w~pt-~~t~l~l~~sr~~~~~~~~~~~y~~~~~~~l~~~~~~~~~v~~~~~ 310 (381)
T TIGR03014 232 QGSIGYVDREHDHLSQRDFSGVIGRLNADWMVT-GKTSLNAAISRELANYQTVTSSYYRNRGTSIGPTWQATSKIAVRGR 310 (381)
T ss_pred EEEEeEEeccccccccCCccceeEEEEEEEccc-CcEEEEEEEEeccCCccccccceEEEEEEEEeeEeeccceEEEEEE
Confidence 4455555554332 12344555555432 4455555555555322211111111123556666677777777766
Q ss_pred EEeeccc
Q 023824 255 SEVDTKA 261 (276)
Q Consensus 255 ~~~d~~~ 261 (276)
...--.+
T Consensus 311 ~~y~~~d 317 (381)
T TIGR03014 311 LDYEERD 317 (381)
T ss_pred EEEEEee
Confidence 6544433
No 35
>PRK04423 organic solvent tolerance protein; Provisional
Probab=53.27 E-value=1.9e+02 Score=29.95 Aligned_cols=82 Identities=13% Similarity=0.112 Sum_probs=53.6
Q ss_pred cCcceeeeEEEEEcCCCcceeeEEEEEEeCC-CcEEEEEEc---------CCCCeEEEEEEEEeCCccceeEEEEEEEEc
Q 023824 137 TPSIAFGAEAGYDTTSGNFTKYTAGISVTKP-DSCASIILG---------DKGDTIRASYVHHLDNLKKSAAVGEITRRF 206 (276)
Q Consensus 137 ~~~~~lG~e~~yd~~~~~~~~~~~a~~y~~~-~~~~~~~~~---------~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~ 206 (276)
.+.|.+.+++.||...+++.+.++.++|..+ ...+.+... +....+.+|...+++++| .+.+...|++
T Consensus 628 ~~~~~l~~~~~~d~~~~r~~~~~~~~~y~~~~~~~~nl~Yry~~~~~~~~~~~eq~~~s~~~pi~~~W--~~~g~~~ydl 705 (798)
T PRK04423 628 NDRWTLGATYQWNPNSRREDLASLRTRYLLPNDGIINLAYRYRRNLIDNSDQLKQADFSFLYPINPRW--SAVGRYYYSL 705 (798)
T ss_pred cCcEEEEeEEEECCccCcceeEEEEEEEcCCCCcEEEEEEEEecccccccCChhheeEEEEEEecCCE--EEEEEEEEeC
Confidence 6789999999999877777777788888754 334333321 112467777777888887 7777777776
Q ss_pred cCC-ccEEEEEEEEe
Q 023824 207 STN-ENTFTVGGSYA 220 (276)
Q Consensus 207 ~~~-~~~~~vG~~~~ 220 (276)
..+ .....+|.+|.
T Consensus 706 ~~~~~~e~~~GleY~ 720 (798)
T PRK04423 706 LDKKPLEIIGGVQWD 720 (798)
T ss_pred cCCcchhhhcCcEEc
Confidence 432 23334444443
No 36
>PF13557 Phenol_MetA_deg: Putative MetA-pathway of phenol degradation
Probab=51.25 E-value=1.5e+02 Score=24.99 Aligned_cols=46 Identities=15% Similarity=-0.052 Sum_probs=29.2
Q ss_pred EEEEEeCCccceeEEEEEEEE---------------ccCCccEEEEEEEEeeCCCCeEEEEEc
Q 023824 185 SYVHHLDNLKKSAAVGEITRR---------------FSTNENTFTVGGSYAVDHLTVVKAKLN 232 (276)
Q Consensus 185 Sy~~kv~~~~~~~~g~e~~~~---------------~~~~~~~~~vG~~~~ld~~~~~Kakv~ 232 (276)
.+-+++++++ .+++|..+. .......+..|..|.+.++..+.+.+.
T Consensus 170 ~~~y~~~~~~--~~~~~~~~~~~~~~~d~~~g~~~~~~~~~~~~~~gv~y~~~~~~~l~~~~~ 230 (248)
T PF13557_consen 170 ALSYALTPKL--SLGLEGYGYYDQLTDDKGNGVDNGSRQNSFYLGPGVSYQLSPNLSLDAGVG 230 (248)
T ss_pred EEEEEcCcce--EEeEEeEEEEeeccccccCCccCCCccceEEEEEEEEEEEcCCeEEEEEEE
Confidence 3445667765 777776632 233566788888898877766655543
No 37
>PF14052 Caps_assemb_Wzi: Capsule assembly protein Wzi
Probab=47.12 E-value=1.6e+02 Score=27.89 Aligned_cols=42 Identities=17% Similarity=0.093 Sum_probs=28.9
Q ss_pred CceeEEEEE-EEecCCeEEEEEEEeecccCC-CCCeeEEEEEEe
Q 023824 234 HGKLGALLQ-HEVIPKSLLTISSEVDTKALE-KTPRFGLAIALK 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 445666663 677788999999999986433 235677777654
No 38
>PF11383 DUF3187: Protein of unknown function (DUF3187); InterPro: IPR021523 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=42.07 E-value=2.7e+02 Score=25.31 Aligned_cols=67 Identities=12% Similarity=0.108 Sum_probs=43.1
Q ss_pred EEEEEEEEeCCccceeEEEEEEEEc---------cCCccEEEEEEEEeeCCCCeEEEEEcCCceeEEEEEEEecCCeEEE
Q 023824 182 IRASYVHHLDNLKKSAAVGEITRRF---------STNENTFTVGGSYAVDHLTVVKAKLNNHGKLGALLQHEVIPKSLLT 252 (276)
Q Consensus 182 ~~~Sy~~kv~~~~~~~~g~e~~~~~---------~~~~~~~~vG~~~~ld~~~~~Kakv~s~g~v~~~~~~~l~~~~~l~ 252 (276)
..++|=.++.+++ .+-+|+.+.- .+....+++|++|.+.+++.+-.-+-.|.. ...=+|.|+|.
T Consensus 240 ~~~g~~y~~~~~~--~l~~q~~~~qg~~~~~~~l~~~s~e~~lG~r~~~~~~~alei~~~En~~-----~~dnS~Diaf~ 312 (319)
T PF11383_consen 240 GGLGYGYQLTENH--SLLAQYDYYQGFYDSSSELSEPSNELTLGYRYQLSERSALEISVIENLF-----NVDNSPDIAFH 312 (319)
T ss_pred EEEEEEEEecCCE--EEEEEEEEeeccccCchhhcccceEEEeeeEEEEcCCceEEEEEEeccc-----ccCCCCCeEEE
Confidence 3456777888885 8888887742 235688999999999767766655544430 01114556666
Q ss_pred EEE
Q 023824 253 ISS 255 (276)
Q Consensus 253 ls~ 255 (276)
++.
T Consensus 313 l~l 315 (319)
T PF11383_consen 313 LGL 315 (319)
T ss_pred EEE
Confidence 554
No 39
>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=41.95 E-value=1.3e+02 Score=25.66 Aligned_cols=80 Identities=13% Similarity=0.059 Sum_probs=51.8
Q ss_pred CeEEEEEEEEeCCccceeEEEEEEEEccCCccEEEEEEEEeeCC--CCeEEEEEcCCceeEEE----EEEEec------C
Q 023824 180 DTIRASYVHHLDNLKKSAAVGEITRRFSTNENTFTVGGSYAVDH--LTVVKAKLNNHGKLGAL----LQHEVI------P 247 (276)
Q Consensus 180 ~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~~~ld~--~~~~Kakv~s~g~v~~~----~~~~l~------~ 247 (276)
..+.+-|-|.++|-|.+++|+...+......+-..+|.+--..- .+-..+-|+++|.+++- |+-.|. |
T Consensus 55 ~e~q~lysr~is~fwd~q~GvR~d~~~~~~r~~~~iG~qGLAPY~FE~da~lyvs~~G~~~~r~e~eydlllTqrLiLqP 134 (210)
T PF05275_consen 55 AEIQALYSRAISPFWDVQAGVRYDFRPGPDRTWAVIGVQGLAPYWFEVDATLYVSEDGDVAARLEAEYDLLLTQRLILQP 134 (210)
T ss_pred heeeeecccccCccceEEEEeEeecCCCCCceEEEEEEEEcCcceEeeeeeEEEcCCCcEEEEEEEEeeeeeeeeEEEEE
Confidence 45777888999998888999999887665677788887643311 23445567888866543 333333 5
Q ss_pred CeEEEEEEEeec
Q 023824 248 KSLLTISSEVDT 259 (276)
Q Consensus 248 ~~~l~ls~~~d~ 259 (276)
.+.+.+.++=|+
T Consensus 135 ~~E~~~~~~d~~ 146 (210)
T PF05275_consen 135 RLEANAAAQDDP 146 (210)
T ss_pred eEEEEEEeccch
Confidence 555555554443
No 40
>PRK14574 hmsH outer membrane protein; Provisional
Probab=40.55 E-value=3.3e+02 Score=28.28 Aligned_cols=34 Identities=12% Similarity=-0.061 Sum_probs=25.0
Q ss_pred cCCceeEEEEEEEec--CCeEEEEEEEeecccCCCC
Q 023824 232 NNHGKLGALLQHEVI--PKSLLTISSEVDTKALEKT 265 (276)
Q Consensus 232 ~s~g~v~~~~~~~l~--~~~~l~ls~~~d~~~~~~~ 265 (276)
.+...+++.|+|+|+ +.+.++.+...+-.--++.
T Consensus 772 ~~~~~~~~~Y~h~w~~~~~~~~~ygi~~~~~~YDG~ 807 (822)
T PRK14574 772 GNGLVTTAGYGQRVQWNDVIDTGVAVVYDKRPYDGK 807 (822)
T ss_pred CCCCcceeeeeeEEEECCceeEEEEEEecCCCCCCC
Confidence 446678999999887 6688888888876544544
No 41
>PRK15318 intimin-like protein SinH; Provisional
Probab=39.36 E-value=4.3e+02 Score=26.85 Aligned_cols=38 Identities=13% Similarity=-0.032 Sum_probs=25.8
Q ss_pred cCcceeeeEEEEEcC-CCcceeeEEEEEEeCCCcEEEEE
Q 023824 137 TPSIAFGAEAGYDTT-SGNFTKYTAGISVTKPDSCASII 174 (276)
Q Consensus 137 ~~~~~lG~e~~yd~~-~~~~~~~~~a~~y~~~~~~~~~~ 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 577899999999854 34456677777776555544443
No 42
>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=38.88 E-value=1.3e+02 Score=20.87 Aligned_cols=28 Identities=0% Similarity=-0.052 Sum_probs=21.8
Q ss_pred cCCceeEEEEEEEecCCeEEEEEEEeec
Q 023824 232 NNHGKLGALLQHEVIPKSLLTISSEVDT 259 (276)
Q Consensus 232 ~s~g~v~~~~~~~l~~~~~l~ls~~~d~ 259 (276)
+...-+++.+.+++++++.+.++..++.
T Consensus 37 ~g~~A~A~G~~~~~~~~~~~~~~~s~~~ 64 (78)
T PF03895_consen 37 RGESAVAVGASYRPNENVMVNAGVSYGS 64 (78)
T ss_dssp TTEEEEEEEEEEE-TSSEEEEEEEEEET
T ss_pred CCcccEEEEEEEEeCCCEEEEEEEEecC
Confidence 4455688899999999999999998754
No 43
>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=38.35 E-value=2.8e+02 Score=24.53 Aligned_cols=61 Identities=10% Similarity=0.116 Sum_probs=36.2
Q ss_pred eeEEEEEEEEccCCccEEEEEEEEeeCCCCeEEEEEcCCceeEEEEEEEecCCeEEEEEEEeecccCC----CCCeeEEE
Q 023824 196 SAAVGEITRRFSTNENTFTVGGSYAVDHLTVVKAKLNNHGKLGALLQHEVIPKSLLTISSEVDTKALE----KTPRFGLA 271 (276)
Q Consensus 196 ~~~g~e~~~~~~~~~~~~~vG~~~~ld~~~~~Kakv~s~g~v~~~~~~~l~~~~~l~ls~~~d~~~~~----~~~k~G~~ 271 (276)
..+++++.++ ..+.+|+.|..++ -+.+...-++.+++.+..+-++....+. ..|-+.++
T Consensus 227 ~d~~~~~~~~-----~~~~~G~~Yr~~~------------ai~~~~G~~~~~~~~igysYd~~~s~l~~~~~gshEi~l~ 289 (292)
T TIGR03519 227 LDLGANALYN-----DKLWAGAGYRGND------------AVIGLVGFNLNKRLSIGYSYDFSTSSLSAYNGGSHEISVS 289 (292)
T ss_pred EEEeEEEEEe-----eeEEEEEEecCCC------------cEEEEEEEEeCCCEEEEEEEeeEcccccCCCCCcEEEEEE
Confidence 5777777774 2378888887632 2444455566555666666666654432 12666665
Q ss_pred EE
Q 023824 272 IA 273 (276)
Q Consensus 272 l~ 273 (276)
+.
T Consensus 290 y~ 291 (292)
T TIGR03519 290 YR 291 (292)
T ss_pred Ee
Confidence 54
No 44
>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=37.91 E-value=3.3e+02 Score=25.19 Aligned_cols=118 Identities=9% Similarity=-0.001 Sum_probs=66.2
Q ss_pred eeeeEEEEEcCCCcceeeEEEEEEeCC-------------CcEEEEEEcCC-CCeEEEEEEEEeCCcc--------ceeE
Q 023824 141 AFGAEAGYDTTSGNFTKYTAGISVTKP-------------DSCASIILGDK-GDTIRASYVHHLDNLK--------KSAA 198 (276)
Q Consensus 141 ~lG~e~~yd~~~~~~~~~~~a~~y~~~-------------~~~~~~~~~~~-~~~~~~Sy~~kv~~~~--------~~~~ 198 (276)
.++..+.|+... .+..++.++|... .|.+.+..... ...+.++..+.+.+-- ..++
T Consensus 216 ~~~lg~~w~~tg--kt~~~~~~gy~~k~~d~~~~~Dfsg~~~~~~~~w~pt~~t~l~l~~sr~~~~~~~~~~~y~~~~~~ 293 (381)
T TIGR03014 216 EHELRFDWAVTG--KSKLQGSIGYVDREHDHLSQRDFSGVIGRLNADWMVTGKTSLNAAISRELANYQTVTSSYYRNRGT 293 (381)
T ss_pred eeeeceEEEecc--cEEEEEEEeEEeccccccccCCccceeEEEEEEEcccCcEEEEEEEEeccCCccccccceEEEEEE
Confidence 333333455432 3566777777543 23333333221 3556666666654411 0144
Q ss_pred EEEEEEEccCCccEEEEEEEEeeC--CCCeE---EEEEcCCceeEEEEEEEecCCeEEEEEEEeeccc
Q 023824 199 VGEITRRFSTNENTFTVGGSYAVD--HLTVV---KAKLNNHGKLGALLQHEVIPKSLLTISSEVDTKA 261 (276)
Q Consensus 199 g~e~~~~~~~~~~~~~vG~~~~ld--~~~~~---Kakv~s~g~v~~~~~~~l~~~~~l~ls~~~d~~~ 261 (276)
++.+.|.+ .....+.+++.|.-+ ++..+ .+|=|....+.+.+..++++.+.+.+..+...++
T Consensus 294 ~l~~~~~~-~~~v~~~~~~~y~~~dY~g~~~~~~~~R~D~~~~~~~~~~Y~~~~~~~~~l~~~~~~rd 360 (381)
T TIGR03014 294 SIGPTWQA-TSKIAVRGRLDYEERDFEGDPLVGPPARSDRTRSGSLSLDWSPVRAVRISAAFQREKRD 360 (381)
T ss_pred EEeeEeec-cceEEEEEEEEEEEeeccCccccCCCccccceEEEEEEEEEEEcceEEEEEEEEEEecc
Confidence 55555554 344566666666652 12001 2477777888888888999999888888777654
No 45
>PRK14574 hmsH outer membrane protein; Provisional
Probab=37.21 E-value=5e+02 Score=27.00 Aligned_cols=101 Identities=13% Similarity=0.059 Sum_probs=67.2
Q ss_pred eeEEEEEEeCCCcEEEEEEcC----CC--CeEEEEEEEEeCCccceeEEEEEEEEcc----------CCccEEEEEEEEe
Q 023824 157 KYTAGISVTKPDSCASIILGD----KG--DTIRASYVHHLDNLKKSAAVGEITRRFS----------TNENTFTVGGSYA 220 (276)
Q Consensus 157 ~~~~a~~y~~~~~~~~~~~~~----~~--~~~~~Sy~~kv~~~~~~~~g~e~~~~~~----------~~~~~~~vG~~~~ 220 (276)
..-+|+.|...+..+.+.+.. ++ ...++|+.+.+||.| ++++++..+.. -....+.++..|.
T Consensus 592 ~~~~G~e~~~r~~~~~~e~~~~~~g~g~k~g~r~~~~~~~nD~W--~~~~~~~~~~~~tPlrA~~~gv~~~~~~~~~~yr 669 (822)
T PRK14574 592 ILRLGGEWTSRDHWVEGEISNQNYGNGNKVGARLSTWYDLNDHW--RVGGQVERLAKDTPLRALKNKVTANSASAYVFWK 669 (822)
T ss_pred eeeccceEEecCceEEEEeehhhcCCCCCcCceEEEEecCCCce--eeeeeeecCCCCCCHHHHHcCCcceecceEEEEE
Confidence 345777888888777775541 12 236678888899999 99999988542 1445677778888
Q ss_pred eCCCCeEEEEEcC----Cc----eeEEEEEEEec--CCeEEEEEEEeec
Q 023824 221 VDHLTVVKAKLNN----HG----KLGALLQHEVI--PKSLLTISSEVDT 259 (276)
Q Consensus 221 ld~~~~~Kakv~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 8766656555432 33 37777788865 6666666655554
No 46
>PF11924 DUF3442: Protein of unknown function (DUF3442); InterPro: IPR024519 This domain is found in uncharacterised proteins, as well as intimin and invasin proteins. Intimin is believed to mediate adherence and it is necessary for the production of attaching and effacing lesions on tissue culture cells []. Invasin is a protein that allows enteric bacteria to penetrate cultured mammalian cells []. The entry of invasin in the cell is mediated by binding several beta-1 chain integrins [].; PDB: 4E1T_A 4E1S_A.
Probab=36.40 E-value=1.1e+02 Score=27.20 Aligned_cols=38 Identities=24% Similarity=0.373 Sum_probs=25.4
Q ss_pred ceeEEEEEEEecCCeEEEEEEEeecccCCCC-CeeEEEEEE
Q 023824 235 GKLGALLQHEVIPKSLLTISSEVDTKALEKT-PRFGLAIAL 274 (276)
Q Consensus 235 g~v~~~~~~~l~~~~~l~ls~~~d~~~~~~~-~k~G~~l~~ 274 (276)
+.+++.|.+ +++.+.+.+-+-+|+ +++.. .++|+|+++
T Consensus 95 ~N~GlG~R~-~~~~~~~G~N~FyD~-~~~~~~~R~~~G~E~ 133 (280)
T PF11924_consen 95 GNLGLGYRH-LNDNWMLGYNAFYDY-DFSRNHQRLGLGAEY 133 (280)
T ss_dssp EEEEEEEEE-EETTEEEEEEEEEEE-ETTTTEEEEEEEEEE
T ss_pred EEEeEEEEe-cCCCeEEEeEEEEec-CCCCCcceeeeeeEe
Confidence 446666666 567777777788887 34444 478888775
No 47
>PRK10177 putative invasin; Provisional
Probab=34.67 E-value=2.7e+02 Score=26.63 Aligned_cols=32 Identities=19% Similarity=0.351 Sum_probs=22.5
Q ss_pred ccCCceEEEEEEecC--CCceeEEEE-EcccceeE
Q 023824 86 ILPSTKAIASLKVPD--YNSGKLEVQ-YFHDHATF 117 (276)
Q Consensus 86 ~~~Glk~~~~~~~p~--~~~~k~~~~-y~~~~~~~ 117 (276)
.+.|..+.++..+|. .-.+++..+ |.++.+.+
T Consensus 226 PA~G~Dirae~~LP~ypqLggkl~yEQY~Gd~V~L 260 (465)
T PRK10177 226 MARGYDITAQMRLPFYQHLNTSVSVEQYFGDRVDL 260 (465)
T ss_pred cCCceeeEeeEecCcCcccCceEEEEEEeCCeEEe
Confidence 889999888888775 235555544 77776655
No 48
>PRK09980 ompL outer membrane porin L; Provisional
Probab=34.56 E-value=1.9e+02 Score=25.00 Aligned_cols=51 Identities=10% Similarity=0.029 Sum_probs=28.4
Q ss_pred CCeEEEEEE-EEeCCccceeEEEEEEEEccCCccEEEEEEEEeeCCCCeEEE
Q 023824 179 GDTIRASYV-HHLDNLKKSAAVGEITRRFSTNENTFTVGGSYAVDHLTVVKA 229 (276)
Q Consensus 179 ~~~~~~Sy~-~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~~~ld~~~~~Ka 229 (276)
+..+.++|. .|+++++..+-|.-+........=..-|-++|.++++..+-+
T Consensus 71 ~~E~~~sY~~~k~~d~~tl~PG~~~~s~s~~~~Y~PyLr~~y~f~~~~~~~~ 122 (230)
T PRK09980 71 YNEIEGWYPLFKPTDKLTIQPGGLINDKSIGSGGAVYLDVNYKFTPWFNLTV 122 (230)
T ss_pred ceEEEEEEEeEecCCCEEEecceEEEecCCCceEeeEEEEEEEECCCeEEEE
Confidence 578888995 599998755666666654332222222334444444443333
No 49
>PF04575 DUF560: Protein of unknown function (DUF560); InterPro: IPR007655 This is a family of hypothetical bacterial proteins.
Probab=34.45 E-value=3.1e+02 Score=23.84 Aligned_cols=81 Identities=11% Similarity=-0.037 Sum_probs=46.3
Q ss_pred CeEEEEEEEEeCCccceeEEEEEEEEcc---------CCccEEEEEEEEeeCCCCeEEEEEcC-------------Ccee
Q 023824 180 DTIRASYVHHLDNLKKSAAVGEITRRFS---------TNENTFTVGGSYAVDHLTVVKAKLNN-------------HGKL 237 (276)
Q Consensus 180 ~~~~~Sy~~kv~~~~~~~~g~e~~~~~~---------~~~~~~~vG~~~~ld~~~~~Kakv~s-------------~g~v 237 (276)
-.+.+++-+.+++++ ++.+.+++... .....+.++..|.+++...+-+-++- ...+
T Consensus 118 ~G~~~~~~~~l~~~~--~~~~~~~~~~~~y~~~~~~dg~~~~~~~t~~~~~~~~~~~~~g~~~~~~~~~~~~~sy~~~g~ 195 (285)
T PF04575_consen 118 YGASLSWSYWLSPRW--QLSGSLEYKRKRYRQRSDRDGDRYSASLTLIYAPNPRWYLFGGLDYGREDARDKSYSYDRYGL 195 (285)
T ss_pred ccEEEEEEEEcCCCe--EEEEEeeeehhhcCccccCCccEEEEEEEEEEEcCCCcEEEEeEEEeeeccccccccceeeeE
Confidence 345566667777776 55555554321 23344555566666555554443332 3336
Q ss_pred EEEEEEEecCCeEEEEEEEeecccC
Q 023824 238 GALLQHEVIPKSLLTISSEVDTKAL 262 (276)
Q Consensus 238 ~~~~~~~l~~~~~l~ls~~~d~~~~ 262 (276)
.+.+.+.|.+++.+.+++...-++.
T Consensus 196 r~g~~~~~~~g~~~~~~~~~~~r~y 220 (285)
T PF04575_consen 196 RLGWSQEWPGGLSTRLSASYRRRDY 220 (285)
T ss_pred EEEEEEEecCCeEEEEEEEEEeeec
Confidence 7777788877877777776665443
No 50
>PRK15318 intimin-like protein SinH; Provisional
Probab=34.34 E-value=2.2e+02 Score=28.79 Aligned_cols=32 Identities=25% Similarity=0.229 Sum_probs=20.8
Q ss_pred ccCCceEEEEEEecC--CCceeEEE-EEcccceeE
Q 023824 86 ILPSTKAIASLKVPD--YNSGKLEV-QYFHDHATF 117 (276)
Q Consensus 86 ~~~Glk~~~~~~~p~--~~~~k~~~-~y~~~~~~~ 117 (276)
.+.|..+.++..+|. .-.+++.. +|.++.+.+
T Consensus 226 PAnG~DIraegyLPayPqLG~kl~YEQY~Gd~V~L 260 (730)
T PRK15318 226 PARGWDIRAEGWLPAYPQLGGKLVYEQYYGDEVAL 260 (730)
T ss_pred cCCceeeEeeEecccCcccCceEEEEEecCceeee
Confidence 788999888887776 23555544 365655444
No 51
>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=34.33 E-value=3.4e+02 Score=24.31 Aligned_cols=117 Identities=15% Similarity=0.123 Sum_probs=62.5
Q ss_pred ccCcceeeeEEEEEcCCCcceeeEEEEEEeCCCcE-EEEEEcCCCCeEEEEEEEEeCCccceeEEEEEEEEccCCccEEE
Q 023824 136 GTPSIAFGAEAGYDTTSGNFTKYTAGISVTKPDSC-ASIILGDKGDTIRASYVHHLDNLKKSAAVGEITRRFSTNENTFT 214 (276)
Q Consensus 136 ~~~~~~lG~e~~yd~~~~~~~~~~~a~~y~~~~~~-~~~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~ 214 (276)
..+++.+|..+.|+-..-..+.+.-...|..+.+. .....-+ +.-..+|=|++.=- -+|.+..++.. .-.+.
T Consensus 121 ~~~~~~i~~~aGyqy~~~~w~A~gG~y~Y~~~~~~~~~g~fP~--~~~~IsY~Q~f~~p---yiGL~~~yr~~--~~~ls 193 (294)
T PF01278_consen 121 KEPNYRIGPMAGYQYTRFSWTAYGGYYQYSNGGFRDSSGTFPD--GEKGISYKQRFPMP---YIGLAGSYRYN--RFELS 193 (294)
T ss_dssp EETTEEEEEEEEEEEEEEEEEEES-EEEETTTTSS-EEEE--T--T-CEEEEEEEEEEE---EEEEEEEEEET--TEEEE
T ss_pred cCCCEEEEEEcceEEEEeeEEeCCceEECCCCCcccccccCCC--CcceeeeeeEEEEE---EEeEEEEEEcC--CEEEE
Confidence 35778888888887533222222223334444411 1222222 33456888887532 66777777643 23344
Q ss_pred EEEEEee-----------CCCCeEEEEEcCCcee--EEEEEEEecCCeEEEEEEEeec
Q 023824 215 VGGSYAV-----------DHLTVVKAKLNNHGKL--GALLQHEVIPKSLLTISSEVDT 259 (276)
Q Consensus 215 vG~~~~l-----------d~~~~~Kakv~s~g~v--~~~~~~~l~~~~~l~ls~~~d~ 259 (276)
+..+|.. -++.+++=++++..-+ ++.....+.|++.+-+.+..+-
T Consensus 194 ~~~k~s~~v~a~d~D~H~lR~l~F~d~~~~~~~~~~~~~~~Y~~tp~~~l~~e~~y~~ 251 (294)
T PF01278_consen 194 ASLKYSPWVRANDNDEHYLRNLTFRDKMKNSNYYSLSLNAGYYLTPNASLFVEGSYNK 251 (294)
T ss_dssp EEEEEEEEEEEEEEEEECCCTEEEEEEEEEEEEEEEEEEEEEECCTTEEEEEEEEEEE
T ss_pred EEEEEeEEeEeecchhHhhccCcchhhcCCcceEEEEEEEEEEeCCCeEEEEEEEEEE
Confidence 4433322 2467777777664443 3445567888888887776553
No 52
>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=33.93 E-value=3.1e+02 Score=23.71 Aligned_cols=8 Identities=50% Similarity=0.729 Sum_probs=3.5
Q ss_pred eEEEEEEe
Q 023824 158 YTAGISVT 165 (276)
Q Consensus 158 ~~~a~~y~ 165 (276)
|.+++.|.
T Consensus 186 ~~~~~~Y~ 193 (311)
T PF13609_consen 186 YGAGASYS 193 (311)
T ss_dssp EEEEEEEE
T ss_pred eEEEEEEE
Confidence 44444444
No 53
>PF04453 OstA_C: Organic solvent tolerance protein; InterPro: IPR007543 This family is involved in organic solvent tolerance in bacteria. The region contains several highly conserved, potentially catalytic, residues. ostA is one of a number of genes that confer organic solvent tolerance in Escherichia coli [, ]. This protein has significant medical importance since endoscopes are disinfected by pre-cleaning and soaking them in glutaraldehyde. Tolerant bacteria may, therefore, survive this disinfecting procedure [].; GO: 0010033 response to organic substance, 0016044 cellular membrane organization, 0019867 outer membrane
Probab=33.41 E-value=3.7e+02 Score=24.42 Aligned_cols=32 Identities=9% Similarity=0.287 Sum_probs=26.3
Q ss_pred ccCcceeeeEEEEEcCCCcceeeEEEEEEeCC
Q 023824 136 GTPSIAFGAEAGYDTTSGNFTKYTAGISVTKP 167 (276)
Q Consensus 136 ~~~~~~lG~e~~yd~~~~~~~~~~~a~~y~~~ 167 (276)
..++|.+.+.+.||...+++...++.+.|..+
T Consensus 316 ~~~~l~l~~~~~yd~~~~~~~~~~~~~~~~~~ 347 (388)
T PF04453_consen 316 PNDNLSLSSDTQYDPYDNRISRSNVSLSYRPD 347 (388)
T ss_pred ecCCEEEEEEEEECCCCCceEEEEEEEEEEcC
Confidence 45778899999999888888888888888765
No 54
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=33.12 E-value=5.4e+02 Score=26.22 Aligned_cols=104 Identities=11% Similarity=-0.005 Sum_probs=70.4
Q ss_pred cceeeEEEEEEeCCCcEEEEEEcC----CC--CeEEEEEEEEeCCccceeEEEEEEEEcc----------CCccEEEEEE
Q 023824 154 NFTKYTAGISVTKPDSCASIILGD----KG--DTIRASYVHHLDNLKKSAAVGEITRRFS----------TNENTFTVGG 217 (276)
Q Consensus 154 ~~~~~~~a~~y~~~~~~~~~~~~~----~~--~~~~~Sy~~kv~~~~~~~~g~e~~~~~~----------~~~~~~~vG~ 217 (276)
....+-+|+-|...+..+.+.+.. .+ ...+++..+.+||.| ++++++..+.. -....+.+++
T Consensus 532 ~~~~~g~G~e~~~~~~~~e~~~~~~~~~~~~~~g~~~~~~~~~nd~w--~~~~~~~~~~~~~plra~~~~~~~~~~~~~~ 609 (765)
T PRK10049 532 IVRDWLAGVEWRSRDIWLEAELSERVFGHEHKPGARLSGWYDFNDNW--RIGGSLERLSHRTPLRALKNGVTANGGQGYV 609 (765)
T ss_pred eEEEEeeeeEEEecceeEEEEeeccccCCCCCcccEEEeeeccCCCe--eeeceeecCCCCCCHHHHHcCCccccceEEE
Confidence 334567888888888888876631 12 236688999999999 99999988542 1345677777
Q ss_pred EEeeCCCCeEEEEEc----C----CceeEEEEEEEec--CCeEEEEEEEeec
Q 023824 218 SYAVDHLTVVKAKLN----N----HGKLGALLQHEVI--PKSLLTISSEVDT 259 (276)
Q Consensus 218 ~~~ld~~~~~Kakv~----s----~g~v~~~~~~~l~--~~~~l~ls~~~d~ 259 (276)
.|.-++...+...+. | ...+++..++++- |.+++.++..+..
T Consensus 610 ~~~~~e~~~~~~~~~~~~fsD~N~r~~~~~~~~~~~~~~p~~~~~~~~~~~~ 661 (765)
T PRK10049 610 RWYQNERREYGVSWAFSDFSDGNRRQEYSLSGQERLWSSPYLIVDFLPSLYY 661 (765)
T ss_pred EEeEcceEEEEeeeeeecccCCchhhheeceeeEEeecCCeEEEeeceEEee
Confidence 788776555555443 1 2337788888865 6677776666655
No 55
>PRK10993 outer membrane protease; Reviewed
Probab=32.09 E-value=3.9e+02 Score=24.27 Aligned_cols=74 Identities=16% Similarity=-0.012 Sum_probs=43.5
Q ss_pred eEEEEEEEEeCCccceeEEEEEEEEccCCccEEEEEEEEeeCCCCeEEEEE--cCCceeEEEEEEEec-CCeEEEEEEEe
Q 023824 181 TIRASYVHHLDNLKKSAAVGEITRRFSTNENTFTVGGSYAVDHLTVVKAKL--NNHGKLGALLQHEVI-PKSLLTISSEV 257 (276)
Q Consensus 181 ~~~~Sy~~kv~~~~~~~~g~e~~~~~~~~~~~~~vG~~~~ld~~~~~Kakv--~s~g~v~~~~~~~l~-~~~~l~ls~~~ 257 (276)
++.+.+.---+++. .+|+-+.++. .+..--+-|+.|.-+++.. |..+ =.++.++..|+|+|. |.+-|+.+..+
T Consensus 133 dln~~~w~l~~~~y--klG~~aGyqy-~~~sw~A~GG~y~Y~~~~~-r~~~g~fPd~~~~I~Y~Q~f~~pyiGL~g~y~~ 208 (314)
T PRK10993 133 DLNLKGWLLQNPNY--RLGVMAGYQE-TRFSWTAYGGSYIYSNGGF-RDDIGTFPDGERGIGYKQRFKMPYIGLTGSYRY 208 (314)
T ss_pred ceecceeeecCCCc--eeeeEeeeEE-EeceeEccCceEEcCCCCC-CCCccccCCCccceeeEEEecceeeeEEEEEEe
Confidence 45566665556664 7777777753 2344446677776643322 3322 147889999999995 34544444444
Q ss_pred e
Q 023824 258 D 258 (276)
Q Consensus 258 d 258 (276)
+
T Consensus 209 ~ 209 (314)
T PRK10993 209 D 209 (314)
T ss_pred c
Confidence 3
No 56
>PRK09408 ompX outer membrane protein X; Provisional
Probab=31.80 E-value=2.9e+02 Score=22.62 Aligned_cols=25 Identities=28% Similarity=0.182 Sum_probs=18.2
Q ss_pred ceeEEEEEEEecCCeEEEEEEEeec
Q 023824 235 GKLGALLQHEVIPKSLLTISSEVDT 259 (276)
Q Consensus 235 g~v~~~~~~~l~~~~~l~ls~~~d~ 259 (276)
...++..|..+.+++.+-++-|-..
T Consensus 130 ~~yGAGvq~np~~nv~id~~Ye~S~ 154 (171)
T PRK09408 130 FSYGAGLQFNPMENVALDFSYEQSR 154 (171)
T ss_pred EEEEeeEEEEecCCEEEEEEEEEee
Confidence 4477888888888888877766543
No 57
>PF11886 DUF3406: Domain of unknown function (DUF3406); InterPro: IPR024283 This C-terminal domain is found in chloroplast protein import component Toc86/159 [] and homologue Toc90 [], and in some uncharacterised proteins.
Probab=30.44 E-value=3.9e+02 Score=23.68 Aligned_cols=11 Identities=0% Similarity=0.111 Sum_probs=5.7
Q ss_pred cceEEEEEecC
Q 023824 26 DQKISISTYSG 36 (276)
Q Consensus 26 ~~~l~~~t~~~ 36 (276)
...++++.+.|
T Consensus 60 E~~~~l~~~~p 70 (273)
T PF11886_consen 60 ERSLVLKKKIP 70 (273)
T ss_pred hheehhhcCCc
Confidence 35556655543
No 58
>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=29.10 E-value=1.6e+02 Score=26.01 Aligned_cols=65 Identities=12% Similarity=0.108 Sum_probs=38.2
Q ss_pred ccEEEEEEEEeeCC------CCeEEEEEcCCceeEEEEEEEecCCeEEEEEEEeeccc--CCC---CCeeEEEEEE
Q 023824 210 ENTFTVGGSYAVDH------LTVVKAKLNNHGKLGALLQHEVIPKSLLTISSEVDTKA--LEK---TPRFGLAIAL 274 (276)
Q Consensus 210 ~~~~~vG~~~~ld~------~~~~Kakv~s~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 45555555555532 11112222334679999999999998888766444422 111 1666888864
No 59
>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=27.34 E-value=5.4e+02 Score=24.41 Aligned_cols=71 Identities=10% Similarity=-0.005 Sum_probs=37.8
Q ss_pred eeEEEEEEeCCCcEEEEEEcCCCCeEEEEEEEEeCCccceeEEEEEEEEccC---------------CccEEEEEEEEee
Q 023824 157 KYTAGISVTKPDSCASIILGDKGDTIRASYVHHLDNLKKSAAVGEITRRFST---------------NENTFTVGGSYAV 221 (276)
Q Consensus 157 ~~~~a~~y~~~~~~~~~~~~~~~~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~---------------~~~~~~vG~~~~l 221 (276)
.+.+|+.|...+.. .. ...+-+.+-.++.+++.+.+|+.+++.... ......++..|++
T Consensus 318 ~l~~G~~~~~~~~~-----~~-~~~~y~~~~~~~~~~~~l~~G~R~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~y~~ 391 (635)
T cd01347 318 TLTLGVEYRREELD-----EK-QTALYAQDTIELTDDLTLTLGLRYDHYDQDSKDTIAGGTTAKKSYSHWSPSLGLVYKL 391 (635)
T ss_pred EEEEeeEEeccccc-----cc-eeeeEEEEEEeccCceEEEEEEEEEEEEeccccccccccccccccceeccceeEEEEc
Confidence 45566666554433 11 122334444567777777888888875321 1234445555566
Q ss_pred CCCCeEEEEEcC
Q 023824 222 DHLTVVKAKLNN 233 (276)
Q Consensus 222 d~~~~~Kakv~s 233 (276)
.+...+++.+..
T Consensus 392 ~~~~~~~~~~~~ 403 (635)
T cd01347 392 TDGLSLYASYSQ 403 (635)
T ss_pred CCCEEEEEEeee
Confidence 555555554433
No 60
>PRK10716 long-chain fatty acid outer membrane transporter; Provisional
Probab=27.00 E-value=5.4e+02 Score=24.29 Aligned_cols=26 Identities=8% Similarity=-0.018 Sum_probs=12.9
Q ss_pred ccCCceEEEEEEecCCCceeEEEEEccc
Q 023824 86 ILPSTKAIASLKVPDYNSGKLEVQYFHD 113 (276)
Q Consensus 86 ~~~Glk~~~~~~~p~~~~~k~~~~y~~~ 113 (276)
..-|..+-+..+.++ ..++.+.|+.+
T Consensus 219 ~g~G~nlG~~y~~~~--~~r~GlsYrSk 244 (435)
T PRK10716 219 WGFGWNAGILYELDK--NNRYALTYRSE 244 (435)
T ss_pred ceeeEEEEEEEecCC--CCEEEEEEeec
Confidence 344444443333322 46667777655
No 61
>PRK10159 outer membrane phosphoporin protein E; Provisional
Probab=26.76 E-value=4.9e+02 Score=23.70 Aligned_cols=65 Identities=5% Similarity=-0.008 Sum_probs=41.8
Q ss_pred cEEEEEEEEeeCCCCeEEEEE-----------cC---CceeEEEEEEEecCCeEEEEEEEeecccC------CCCCeeEE
Q 023824 211 NTFTVGGSYAVDHLTVVKAKL-----------NN---HGKLGALLQHEVIPKSLLTISSEVDTKAL------EKTPRFGL 270 (276)
Q Consensus 211 ~~~~vG~~~~ld~~~~~Kakv-----------~s---~g~v~~~~~~~l~~~~~l~ls~~~d~~~~------~~~~k~G~ 270 (276)
..+.+|++|++.+...+.+-. +. ...+.+.+++.|+++..+-+....+..+- +..-.+|+
T Consensus 266 ~~~~~ga~y~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~lg~~Y~LSKrT~~Ya~y~~~~~~~~~~~~~~~dd~~~~ 345 (351)
T PRK10159 266 QNFEAVAQYQFDFGLRPSLGYVLSKGKDIEGIGDEDLVNYIDVGATYYFNKNMSAFVDYKINQLDSDNKLNINNDDIVAV 345 (351)
T ss_pred EEEEEEEEEeecCCcceEeeEEEEcccccccCCCcceeEEEEEeeEEEEcCCeeEEEEEeecccccccccCCCcCCeEEE
Confidence 457888888887644443221 11 12677899999999988776666665321 11247888
Q ss_pred EEEEe
Q 023824 271 AIALK 275 (276)
Q Consensus 271 ~l~~~ 275 (276)
||.++
T Consensus 346 g~ry~ 350 (351)
T PRK10159 346 GMTYQ 350 (351)
T ss_pred EeEEE
Confidence 88764
No 62
>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=26.58 E-value=4.3e+02 Score=22.93 Aligned_cols=50 Identities=8% Similarity=0.127 Sum_probs=27.5
Q ss_pred EEEEEEEeeCCCCeEEEEEcCCceeEEEEEEEecCCeEEEEEEEeecccC
Q 023824 213 FTVGGSYAVDHLTVVKAKLNNHGKLGALLQHEVIPKSLLTISSEVDTKAL 262 (276)
Q Consensus 213 ~~vG~~~~ld~~~~~Kakv~s~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 55555555543333333333555556666666666677777666665443
No 63
>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=25.57 E-value=6.9e+02 Score=25.02 Aligned_cols=21 Identities=10% Similarity=0.324 Sum_probs=13.0
Q ss_pred cEEEEEEEEeeCCCCeEEEEE
Q 023824 211 NTFTVGGSYAVDHLTVVKAKL 231 (276)
Q Consensus 211 ~~~~vG~~~~ld~~~~~Kakv 231 (276)
..+.++++|+++++..+++.+
T Consensus 583 ~~l~l~a~Y~~~~~l~l~l~~ 603 (649)
T TIGR03509 583 HRLKLYGKYQLSKSSSLRLDY 603 (649)
T ss_pred EEEEEEEEEecCCCeEEEEEE
Confidence 446677777776666655444
No 64
>PF11924 DUF3442: Protein of unknown function (DUF3442); InterPro: IPR024519 This domain is found in uncharacterised proteins, as well as intimin and invasin proteins. Intimin is believed to mediate adherence and it is necessary for the production of attaching and effacing lesions on tissue culture cells []. Invasin is a protein that allows enteric bacteria to penetrate cultured mammalian cells []. The entry of invasin in the cell is mediated by binding several beta-1 chain integrins [].; PDB: 4E1T_A 4E1S_A.
Probab=25.47 E-value=4.7e+02 Score=23.07 Aligned_cols=127 Identities=18% Similarity=0.126 Sum_probs=63.2
Q ss_pred cCcceeeeEEEEEcC-CCcceeeEEEEEEeCCCcEEEEEEcCCCCeEEEEEEEEeCCcc----------ceeEEEEE--E
Q 023824 137 TPSIAFGAEAGYDTT-SGNFTKYTAGISVTKPDSCASIILGDKGDTIRASYVHHLDNLK----------KSAAVGEI--T 203 (276)
Q Consensus 137 ~~~~~lG~e~~yd~~-~~~~~~~~~a~~y~~~~~~~~~~~~~~~~~~~~Sy~~kv~~~~----------~~~~g~e~--~ 203 (276)
.++|.+|+.+-||.. +....+.++|+-|-...|.+++. +|+.+++.- ++.-|.++ .
T Consensus 105 ~~~~~~G~N~FyD~~~~~~~~R~~~G~E~~~~~~~l~~N-----------~Y~pls~~~~~~~~~~~~Er~~~G~Di~~~ 173 (280)
T PF11924_consen 105 NDNWMLGYNAFYDYDFSRNHQRLGLGAEYWSDYLDLRAN-----------GYFPLSDWKDSSDSEDYEERPANGYDIEVG 173 (280)
T ss_dssp ETTEEEEEEEEEEEETTTTEEEEEEEEEEEETTEEEEEE-----------EEEE-S--EE-SSSTT-EEEE--EEEEEEE
T ss_pred CCCeEEEeEEEEecCCCCCcceeeeeeEeEeccceeEee-----------eEEecCCccccCcccchhhhcccceeEEEE
Confidence 388999999999953 34567788888776666665554 333333210 01222222 2
Q ss_pred EEccC-CccEEEEE-EEEeeCCCCeE--EEEEcCCceeEEEEEEEecCCeEEEEEEEeecccCCCCCeeEEEEEEe
Q 023824 204 RRFST-NENTFTVG-GSYAVDHLTVV--KAKLNNHGKLGALLQHEVIPKSLLTISSEVDTKALEKTPRFGLAIALK 275 (276)
Q Consensus 204 ~~~~~-~~~~~~vG-~~~~ld~~~~~--Kakv~s~g~v~~~~~~~l~~~~~l~ls~~~d~~~~~~~~k~G~~l~~~ 275 (276)
+.+.. ..-.+.+. .+|.-++-..+ ..+-.+...+.+.++.++.|.+++.+.-..+-.. .....+++++.+.
T Consensus 174 ~~lp~~~~~~~~l~~~~y~g~~v~lf~~~~~~~~~~~~~~gl~y~p~p~lt~~~~~~~~~~~-~~~t~~~l~l~y~ 248 (280)
T PF11924_consen 174 GRLPNYPQLGAYLKYEQYYGDNVDLFGSDNRQKNPHGVTLGLEYTPIPLLTLGAGYQDDNGR-GSDTFFGLNLNYP 248 (280)
T ss_dssp EEETTEEEEEEEEEEEEE-SSSB-TT-TTS-BSS-EEEEEEEEEEEETTEEEEEEEEEEGGG-EEEEEEEEEEEEE
T ss_pred EecCCCCCcceEEEEEeecCCcccccCCccCcCCcceEEEEEEEEecCcEEEEEEEEccCCC-ccceEEEEEEEEe
Confidence 22211 11112222 23333320000 0112234445666666778888888877666533 1236777777764
No 65
>PF03687 UPF0164: Uncharacterised protein family (UPF0164); InterPro: IPR005362 This family of uncharacterised proteins are only found in Treponema pallidum. They contain a putative signal peptide so may be secreted proteins.
Probab=25.07 E-value=4.4e+02 Score=24.02 Aligned_cols=12 Identities=42% Similarity=0.515 Sum_probs=6.8
Q ss_pred cCCccEEEEEEE
Q 023824 207 STNENTFTVGGS 218 (276)
Q Consensus 207 ~~~~~~~~vG~~ 218 (276)
.++|+.+.+|..
T Consensus 212 ~S~EpNl~~Gl~ 223 (331)
T PF03687_consen 212 SSREPNLSVGLS 223 (331)
T ss_pred ccCCCCcEEeEE
Confidence 345666666653
No 66
>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=24.79 E-value=5.2e+02 Score=24.55 Aligned_cols=59 Identities=22% Similarity=0.208 Sum_probs=36.4
Q ss_pred eEEEEEEEEccC--CccEEEEEEEEeeCCCCeEEEEEcCCceeEEEEEEEecCCeEEEEEEEeeccc
Q 023824 197 AAVGEITRRFST--NENTFTVGGSYAVDHLTVVKAKLNNHGKLGALLQHEVIPKSLLTISSEVDTKA 261 (276)
Q Consensus 197 ~~g~e~~~~~~~--~~~~~~vG~~~~ld~~~~~Kakv~s~g~v~~~~~~~l~~~~~l~ls~~~d~~~ 261 (276)
.+.+++.+.+.. ....+.+|++|.-+... .+...+-+-++.++.+.+.+.+++..|.-.
T Consensus 301 ~~~~~~~~~~~~~~~~~~l~~G~~~~~~~~~------~~~~~~y~~~~~~~~~~~~l~~G~R~~~~~ 361 (635)
T cd01347 301 GFDAGLNAPFGTGPVAHTLTLGVEYRREELD------EKQTALYAQDTIELTDDLTLTLGLRYDHYD 361 (635)
T ss_pred eeecceeEEcccCCccEEEEEeeEEeccccc------cceeeeEEEEEEeccCceEEEEEEEEEEEE
Confidence 334444444433 25789999998875432 333334455566666788888888877643
No 67
>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=24.15 E-value=5.8e+02 Score=23.61 Aligned_cols=65 Identities=9% Similarity=0.061 Sum_probs=43.1
Q ss_pred ceeEEEEEEEEccC-----CccEEEEEEEEeeCCCCeEE-------EEEc-CCceeEEEEEEEecCCeEEEEEEEeec
Q 023824 195 KSAAVGEITRRFST-----NENTFTVGGSYAVDHLTVVK-------AKLN-NHGKLGALLQHEVIPKSLLTISSEVDT 259 (276)
Q Consensus 195 ~~~~g~e~~~~~~~-----~~~~~~vG~~~~ld~~~~~K-------akv~-s~g~v~~~~~~~l~~~~~l~ls~~~d~ 259 (276)
...+|+++.+.+.. -.+.+.++++|.+.++..++ ..++ +.+.+.+.++.++.+++.+.+..+...
T Consensus 334 ~~~lG~r~~~~~~~~~~~~~~p~~~~~~~~~f~~~~~~~~~g~~~~~~~~~~~~~~~~G~~~~~~~~~~l~~~~~~~~ 411 (429)
T TIGR01414 334 QGRLGLRVGYQFDLGTGRAVKPYLKANVLHEFKGGTGVRVNGVTIRTDFSGTRGEYGVGVNAKIKSNLSLYADVDYQK 411 (429)
T ss_pred EEEEEEEEEeEeccCCCcEEeEEEEEEEEEecCCCCeEEECCEEeeccCCCcEEEEeeEEEEEECCCEEEEEEEEEec
Confidence 35888888876432 35778888999886433333 1122 244688888889998877777776654
No 68
>PRK04423 organic solvent tolerance protein; Provisional
Probab=23.46 E-value=8.4e+02 Score=25.25 Aligned_cols=98 Identities=11% Similarity=0.062 Sum_probs=59.7
Q ss_pred ceEEEEEEccccCCceEEEEEEe-cCC---CceeEEEEEcccc---eeEEEEEe--c--CCCC--eEEEEEEec-cCcce
Q 023824 76 NILTTFTLTEILPSTKAIASLKV-PDY---NSGKLEVQYFHDH---ATFTSAIA--L--NQSP--CIDVTATIG-TPSIA 141 (276)
Q Consensus 76 ~l~~~i~~~~~~~Glk~~~~~~~-p~~---~~~k~~~~y~~~~---~~~~~~~~--l--~~~p--~~~~s~~~~-~~~~~ 141 (276)
.+.+++.+. +.+++.+...++. |+. ..+.+.++|..+. +++..... . ...+ -+..++.+. .++|.
T Consensus 618 D~v~~~~~~-~~~~~~l~~~~~~d~~~~r~~~~~~~~~y~~~~~~~~nl~Yry~~~~~~~~~~~eq~~~s~~~pi~~~W~ 696 (798)
T PRK04423 618 AWVADANYM-INDRWTLGATYQWNPNSRREDLASLRTRYLLPNDGIINLAYRYRRNLIDNSDQLKQADFSFLYPINPRWS 696 (798)
T ss_pred ceEEEEEEE-ecCcEEEEeEEEECCccCcceeEEEEEEEcCCCCcEEEEEEEEecccccccCChhheeEEEEEEecCCEE
Confidence 355555554 6667776666654 331 2333555665432 22222110 0 0011 256677664 68899
Q ss_pred eeeEEEEEcCCCcceeeEEEEEEeCCCcEEEEE
Q 023824 142 FGAEAGYDTTSGNFTKYTAGISVTKPDSCASII 174 (276)
Q Consensus 142 lG~e~~yd~~~~~~~~~~~a~~y~~~~~~~~~~ 174 (276)
+.+...||....+....-+|+.|...=|.+.+.
T Consensus 697 ~~g~~~ydl~~~~~~e~~~GleY~~~Cw~~~l~ 729 (798)
T PRK04423 697 AVGRYYYSLLDKKPLEIIGGVQWDSCCLAVRAL 729 (798)
T ss_pred EEEEEEEeCcCCcchhhhcCcEEcCCceEEEEE
Confidence 999999999888888888999998877777763
No 69
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=22.19 E-value=8.5e+02 Score=24.83 Aligned_cols=34 Identities=3% Similarity=-0.122 Sum_probs=22.5
Q ss_pred cCCceeEEEEEEEec--CCeEEEEEEEeecccCCCC
Q 023824 232 NNHGKLGALLQHEVI--PKSLLTISSEVDTKALEKT 265 (276)
Q Consensus 232 ~s~g~v~~~~~~~l~--~~~~l~ls~~~d~~~~~~~ 265 (276)
.+....++.|+|+|+ +.+.++.+...+-.--++.
T Consensus 715 ~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~YDg~ 750 (765)
T PRK10049 715 GTGAITQLGYGQRISWNDVIDAGATLRWDKRPYDGD 750 (765)
T ss_pred CCCcceeeeeeeEEEEccceeeeeeeeecCCCCCCC
Confidence 345668899976655 6688877777765434443
No 70
>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=20.80 E-value=5.3e+02 Score=21.94 Aligned_cols=19 Identities=21% Similarity=0.351 Sum_probs=12.9
Q ss_pred ceEEEEEecCCCeEEEEEE
Q 023824 27 QKISISTYSGAGVALTSTA 45 (276)
Q Consensus 27 ~~l~~~t~~~~g~~~~~~~ 45 (276)
-+|.++....+|.-|.+..
T Consensus 25 dRi~~sh~f~nG~g~~~E~ 43 (218)
T PF06178_consen 25 DRIKVSHRFDNGFGFSVEA 43 (218)
T ss_dssp EEEEEEEE-TTSEEEEEEE
T ss_pred EEEEEEEEccCCcEEEEEE
Confidence 4677777778887776655
No 71
>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=20.26 E-value=2.9e+02 Score=25.44 Aligned_cols=42 Identities=19% Similarity=0.059 Sum_probs=30.4
Q ss_pred CeEEEEEEEEeCCccceeEEEEEEEEccC--CccEEEEEEEEeeCC
Q 023824 180 DTIRASYVHHLDNLKKSAAVGEITRRFST--NENTFTVGGSYAVDH 223 (276)
Q Consensus 180 ~~~~~Sy~~kv~~~~~~~~g~e~~~~~~~--~~~~~~vG~~~~ld~ 223 (276)
-.+.+..-++++++| .+|+++.++... .+..+.+-.+|.+++
T Consensus 298 y~l~a~~eyrls~~~--~lGg~~~~~~s~dY~~~~~~lylRY~f~~ 341 (342)
T PF05420_consen 298 YSLRAAVEYRLSPHW--FLGGGLDIDNSGDYNPSHAMLYLRYSFDP 341 (342)
T ss_pred EEEEEEEEEEecCCE--EEEEEEehhhcCCCCcceEEEEEEEeccC
Confidence 345566778888886 888888886543 567777778887754
Done!