Query psy16375
Match_columns 89
No_of_seqs 113 out of 200
Neff 4.8
Searched_HMMs 46136
Date Fri Aug 16 19:41:02 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16375.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16375hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00920 2A060605 3-hydroxy-3 99.9 3.4E-24 7.4E-29 183.5 3.7 86 4-89 107-192 (886)
2 PF12349 Sterol-sensing: Stero 99.9 1.1E-23 2.4E-28 148.2 3.3 84 5-88 24-108 (153)
3 KOG1934|consensus 99.9 4.2E-23 9.1E-28 177.1 4.3 84 6-89 302-385 (868)
4 PF02460 Patched: Patched fami 99.9 2.6E-23 5.7E-28 173.9 2.3 84 6-89 268-351 (798)
5 TIGR00918 2A060602 The Eukaryo 99.9 4.9E-23 1.1E-27 180.3 3.7 85 5-89 445-530 (1145)
6 TIGR00917 2A060601 Niemann-Pic 99.8 1.3E-19 2.9E-24 159.1 3.7 84 5-88 623-718 (1204)
7 KOG1933|consensus 99.7 2E-17 4.4E-22 145.6 1.8 83 6-88 601-686 (1201)
8 KOG1935|consensus 99.3 1E-12 2.2E-17 113.9 3.3 80 6-88 460-540 (1143)
9 TIGR00921 2A067 The (Largely A 98.1 3.9E-06 8.5E-11 69.3 4.2 85 4-88 234-319 (719)
10 TIGR00921 2A067 The (Largely A 97.7 3.9E-05 8.5E-10 63.4 3.8 85 4-88 608-692 (719)
11 COG1033 Predicted exporters of 96.8 0.0013 2.9E-08 56.9 4.0 83 6-88 239-322 (727)
12 PF03176 MMPL: MMPL family; I 96.5 0.0024 5.1E-08 48.4 3.3 65 24-88 209-274 (333)
13 TIGR03480 HpnN hopanoid biosyn 96.5 0.0021 4.5E-08 55.3 3.0 81 6-86 312-393 (862)
14 PF02460 Patched: Patched fami 95.7 0.012 2.5E-07 50.2 3.6 78 4-82 686-763 (798)
15 TIGR00833 actII Transport prot 95.6 0.0098 2.1E-07 51.8 2.8 67 22-88 237-304 (910)
16 TIGR00916 2A0604s01 protein-ex 95.4 0.012 2.5E-07 42.8 2.3 76 5-80 88-166 (192)
17 TIGR03480 HpnN hopanoid biosyn 95.0 0.023 4.9E-07 49.0 3.3 79 4-88 753-831 (862)
18 TIGR00918 2A060602 The Eukaryo 94.7 0.049 1.1E-06 49.4 4.7 72 4-77 1006-1077(1145)
19 COG1033 Predicted exporters of 93.6 0.096 2.1E-06 45.6 4.2 82 6-87 611-692 (727)
20 PRK13022 secF preprotein trans 90.3 0.15 3.3E-06 39.3 1.5 74 5-78 168-244 (289)
21 KOG1934|consensus 88.7 0.39 8.4E-06 42.7 2.9 82 4-87 718-801 (868)
22 PF02355 SecD_SecF: Protein ex 88.5 0.67 1.5E-05 33.8 3.7 70 4-75 71-145 (189)
23 PRK09579 multidrug efflux prot 87.8 0.67 1.4E-05 41.2 3.8 71 7-77 375-446 (1017)
24 PRK10614 multidrug efflux syst 87.7 0.47 1E-05 42.1 2.8 72 6-77 375-447 (1025)
25 PRK10555 aminoglycoside/multid 87.3 0.65 1.4E-05 41.4 3.4 71 6-76 381-453 (1037)
26 PRK09577 multidrug efflux prot 86.9 0.92 2E-05 40.4 4.2 71 7-77 381-453 (1032)
27 TIGR00966 3a0501s07 protein-ex 86.7 0.54 1.2E-05 35.2 2.3 74 6-79 140-216 (246)
28 TIGR00833 actII Transport prot 86.6 0.56 1.2E-05 41.1 2.6 67 21-88 808-874 (910)
29 PRK13024 bifunctional preprote 86.4 0.55 1.2E-05 40.8 2.5 81 5-85 306-387 (755)
30 PRK13023 bifunctional preprote 84.9 0.6 1.3E-05 41.0 2.0 76 3-78 316-392 (758)
31 TIGR01129 secD protein-export 82.5 2 4.2E-05 34.7 3.9 74 4-77 287-361 (397)
32 TIGR00915 2A0602 The (Largely 82.0 1.5 3.3E-05 39.1 3.4 70 8-77 383-454 (1044)
33 TIGR00917 2A060601 Niemann-Pic 81.9 2.8 6E-05 38.4 5.0 77 5-82 1091-1168(1204)
34 PRK08343 secD preprotein trans 81.3 2 4.3E-05 35.1 3.6 71 4-77 302-374 (417)
35 KOG3664|consensus 79.3 1.9 4.2E-05 39.1 3.1 63 19-81 383-464 (999)
36 PRK15127 multidrug efflux syst 78.9 1.8 3.9E-05 38.7 2.8 70 7-76 382-453 (1049)
37 PRK05812 secD preprotein trans 77.9 3.6 7.9E-05 34.4 4.2 75 4-78 372-447 (498)
38 PF00873 ACR_tran: AcrB/AcrD/A 75.4 1.1 2.3E-05 39.5 0.4 53 25-77 391-447 (1021)
39 PRK10503 multidrug efflux syst 75.3 3.8 8.3E-05 36.6 3.8 71 7-77 385-456 (1040)
40 PF03292 Pox_P4B: Poxvirus P4B 65.9 3 6.4E-05 36.4 1.0 26 2-27 367-406 (666)
41 PRK13024 bifunctional preprote 65.5 6.5 0.00014 34.3 3.1 74 3-77 616-693 (755)
42 PRK12933 secD preprotein trans 58.7 11 0.00023 32.7 3.1 75 3-79 478-556 (604)
43 TIGR00914 2A0601 heavy metal e 57.3 6 0.00013 35.3 1.5 67 9-77 387-464 (1051)
44 TIGR00914 2A0601 heavy metal e 57.3 11 0.00024 33.7 3.1 60 18-77 933-993 (1051)
45 COG1279 Lysine efflux permease 56.7 11 0.00024 28.5 2.6 41 25-80 15-55 (202)
46 PRK14726 bifunctional preprote 56.3 9.6 0.00021 34.1 2.6 74 4-79 411-487 (855)
47 COG0342 SecD Preprotein transl 55.3 12 0.00026 31.4 2.9 71 3-75 381-454 (506)
48 PRK08578 preprotein translocas 53.1 21 0.00046 27.5 3.7 53 5-60 176-229 (292)
49 COG3340 PepE Peptidase E [Amin 39.9 11 0.00024 29.0 0.3 39 26-64 87-125 (224)
50 COG0841 AcrB Cation/multidrug 39.1 18 0.0004 32.8 1.6 53 25-77 389-443 (1009)
51 PF08945 Bclx_interact: Bcl-x 38.6 19 0.00041 20.8 1.1 26 43-68 9-34 (40)
52 PRK12911 bifunctional preprote 30.3 45 0.00098 31.8 2.7 71 6-78 950-1023(1403)
53 PRK13021 secF preprotein trans 25.3 62 0.0013 25.3 2.3 69 6-76 168-241 (297)
54 TIGR03050 PS_I_psaK_plant phot 21.7 79 0.0017 20.8 1.9 22 67-88 9-30 (83)
55 PRK14726 bifunctional preprote 20.8 88 0.0019 28.2 2.6 73 4-76 712-787 (855)
No 1
>TIGR00920 2A060605 3-hydroxy-3-methylglutaryl-coenzyme A reductase.
Probab=99.89 E-value=3.4e-24 Score=183.50 Aligned_cols=86 Identities=22% Similarity=0.254 Sum_probs=80.9
Q ss_pred hhhhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhccCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhhcc
Q psy16375 4 LTQFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISIPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGLLTF 83 (89)
Q Consensus 4 ~~~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~~t~ 83 (89)
-+|+|+++|+++|+|.|++|||+|+||+||+|+|++.-.++++++++++||+++|++.||||++++++|+++|++|+++.
T Consensus 107 S~Gl~s~lG~~~t~I~eViPFLvLaIGVDnifiLa~~~~~t~~~~~v~eRIa~~l~~vGpSItltslte~l~F~vGtls~ 186 (886)
T TIGR00920 107 STAVIHFLGSELTGLNEALPFFLLLIDLSKASALAKFALSSNSQDEVRDNIARGMAILGPTITLDTVVETLVIGVGTMSG 186 (886)
T ss_pred HHHHHHHhCCcHHHHHHHHhHHHhhhchhhHHHHHhhhhccCCCCCHHHHHHHHHHHhccceeHHHHHHHHHHHHhccCC
Confidence 36899999999999999999999999999999997663388899999999999999999999999999999999999999
Q ss_pred CCcccC
Q psy16375 84 FPVIQI 89 (89)
Q Consensus 84 ~Pavq~ 89 (89)
|||||.
T Consensus 187 mPAV~~ 192 (886)
T TIGR00920 187 VRRLEV 192 (886)
T ss_pred CHHHHH
Confidence 999983
No 2
>PF12349 Sterol-sensing: Sterol-sensing domain of SREBP cleavage-activation
Probab=99.88 E-value=1.1e-23 Score=148.17 Aligned_cols=84 Identities=27% Similarity=0.402 Sum_probs=80.8
Q ss_pred hhhhhhcccchhh-hhhccceeeEeeecchhhhHhhhhhccCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhhcc
Q psy16375 5 TQFRKPNGVLPYF-IIIVLPYFIIIVGLENILVLTKSIISIPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGLLTF 83 (89)
Q Consensus 5 ~~~~s~~gv~~tl-i~eViPFLVl~IGvDniflit~av~~t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~~t~ 83 (89)
-++++++|++.++ ..|++|||+++||+||+|.++|+|.+++.+.++++|++++++++|||+++++++|+.+|.+|++++
T Consensus 24 ~~i~~~~g~~~~~~~~e~~PFlvl~iG~dn~f~l~~~~~~~~~~~~~~~ri~~al~~~G~si~~t~l~~~~af~~~~~~~ 103 (153)
T PF12349_consen 24 LGICSLFGVPFSLIPSEVLPFLVLGIGVDNMFVLARAVRRTPSSLPVPERIAEALSRVGPSILLTSLTEIVAFLIGAFSP 103 (153)
T ss_pred HHHHHHHcCccchhhHHHHHHHHHHHhhhHHHHHHHHHHHhcccccHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHhh
Confidence 3778999999999 679999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccc
Q psy16375 84 FPVIQ 88 (89)
Q Consensus 84 ~Pavq 88 (89)
+|++|
T Consensus 104 ~~~l~ 108 (153)
T PF12349_consen 104 VPALR 108 (153)
T ss_pred hHHHH
Confidence 99986
No 3
>KOG1934|consensus
Probab=99.87 E-value=4.2e-23 Score=177.06 Aligned_cols=84 Identities=21% Similarity=0.315 Sum_probs=81.2
Q ss_pred hhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhccCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhhccCC
Q psy16375 6 QFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISIPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGLLTFFP 85 (89)
Q Consensus 6 ~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~~t~~P 85 (89)
|+..+.|++..-|.-|+||||++||+||+|+|.+||++|++++++||||+++++++||||++|++|++++|++|++|+.|
T Consensus 302 G~l~~~G~~f~sI~~v~PFLvl~IGVDD~Flml~aW~rt~~~~~~~~Rm~~~laeag~SItITSlTn~lsFgiG~~T~~p 381 (868)
T KOG1934|consen 302 GLLFWCGFPFNSIVCVMPFLVLGIGVDDAFLMLAAWRRTSKKLSVEERMAETLAEAGPSITITSLTNVLSFGIGAITPTP 381 (868)
T ss_pred HHHHHcCCCCcceeeecchheeeecccHHHHHHHHHHhcCccCCHHHHHHHHHHHhcCeeeHHHHHHHHHHHhccCCCcH
Confidence 67788899888899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccC
Q psy16375 86 VIQI 89 (89)
Q Consensus 86 avq~ 89 (89)
|||+
T Consensus 382 ~v~~ 385 (868)
T KOG1934|consen 382 AVQI 385 (868)
T ss_pred HHHH
Confidence 9984
No 4
>PF02460 Patched: Patched family; InterPro: IPR003392 The transmembrane protein, patched, is a receptor for the morphogene Sonic Hedgehog. In Drosophila melanogaster, this protein associates with the smoothened protein to transduce hedgehog signals, leading to the activation of wingless, decapentaplegic and patched itself. It participates in cell interactions that establish pattern within the segment and imaginal disks during development. The mouse homologue may play a role in epidermal development. The human Niemann-Pick C1 protein, defects in which cause Niemann-Pick type II disease, is also a member of this family. This protein is involved in the intracellular trafficking of cholesterol, and may play a role in vesicular trafficking in glia, a process that may be crucial for maintaining the structural functional integrity of nerve terminals.; GO: 0008158 hedgehog receptor activity, 0016020 membrane
Probab=99.87 E-value=2.6e-23 Score=173.88 Aligned_cols=84 Identities=20% Similarity=0.368 Sum_probs=81.7
Q ss_pred hhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhccCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhhccCC
Q psy16375 6 QFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISIPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGLLTFFP 85 (89)
Q Consensus 6 ~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~~t~~P 85 (89)
|+++++|++.+.+.+++|||+++||+||+|+++++|++++++.+++||++++++++||||++|++|++++|++|+++++|
T Consensus 268 Gl~~~~G~~~~~i~~v~PFLvlgIGvDd~Fi~~~~~~~~~~~~~~~er~~~~l~~~g~SitiTslT~~~aF~ig~~t~~p 347 (798)
T PF02460_consen 268 GLLSLFGVPFNPIVLVIPFLVLGIGVDDMFIMIHAWRRTSPDLSVEERMAETLAEAGPSITITSLTNALAFAIGAITPIP 347 (798)
T ss_pred HHHHHcCccchhhHHHHHHHHHHHHHhceEEeHHHHhhhchhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcH
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccC
Q psy16375 86 VIQI 89 (89)
Q Consensus 86 avq~ 89 (89)
|||.
T Consensus 348 av~~ 351 (798)
T PF02460_consen 348 AVRS 351 (798)
T ss_pred HHHH
Confidence 9983
No 5
>TIGR00918 2A060602 The Eukaryotic (Putative) Sterol Transporter (EST) Family.
Probab=99.87 E-value=4.9e-23 Score=180.33 Aligned_cols=85 Identities=16% Similarity=0.252 Sum_probs=82.1
Q ss_pred hhhhhhcccchhhh-hhccceeeEeeecchhhhHhhhhhccCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhhcc
Q psy16375 5 TQFRKPNGVLPYFI-IIVLPYFIIIVGLENILVLTKSIISIPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGLLTF 83 (89)
Q Consensus 5 ~~~~s~~gv~~tli-~eViPFLVl~IGvDniflit~av~~t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~~t~ 83 (89)
.|+++++|++.|++ .+|+|||+|+||+||+|+|+|+|++++++.++++|+++++++.||||++|++||+++|++|++++
T Consensus 445 ~Gl~~~~Gi~fn~i~~~ViPFLvLgIGVDn~Fllv~~~~~t~~~~~v~~r~~~~l~~~g~SI~~tslt~~~aF~~ga~t~ 524 (1145)
T TIGR00918 445 LGLCALLGISFNAATTQVLPFLALGVGVDDVFLLAHAFSETGQNIPFEERTGECLKRTGASVVLTSISNVTAFFMAALIP 524 (1145)
T ss_pred HHHHHHhCCchhHHHHhhhhHHHhhhhhcchhHHHHHHhhcCccCCHHHHHHHHHHHhcceeeHHHHHHHHHHHHHhcCC
Confidence 58999999999995 79999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcccC
Q psy16375 84 FPVIQI 89 (89)
Q Consensus 84 ~Pavq~ 89 (89)
|||||.
T Consensus 525 ~Pavr~ 530 (1145)
T TIGR00918 525 IPALRA 530 (1145)
T ss_pred CHHHHH
Confidence 999973
No 6
>TIGR00917 2A060601 Niemann-Pick C type protein family. The model describes Niemann-Pick C type protein in eukaryotes. The defective protein has been associated with Niemann-Pick disease which is described in humans as autosomal recessive lipidosis. It is characterized by the lysosomal accumulation of unestrified cholesterol. It is an integral membrane protein, which indicates that this protein is most likely involved in cholesterol transport or acts as some component of cholesterol homeostasis.
Probab=99.77 E-value=1.3e-19 Score=159.14 Aligned_cols=84 Identities=23% Similarity=0.389 Sum_probs=77.8
Q ss_pred hhhhhhcccchhh-hhhccceeeEeeecchhhhHhhhhhccCC-----------CCCHHHHHHHHHhhhchHHHHHHHHH
Q psy16375 5 TQFRKPNGVLPYF-IIIVLPYFIIIVGLENILVLTKSIISIPS-----------HLDSKIRIAQGLSKEGWSITKNFFLE 72 (89)
Q Consensus 5 ~~~~s~~gv~~tl-i~eViPFLVl~IGvDniflit~av~~t~~-----------~~~v~~RIa~~ls~~G~SIt~t~lte 72 (89)
.|+++++|++.|+ +.|++||||++||+||+|+++++|.+... +.++++||+++++++||||++|++|+
T Consensus 623 ~Gl~~~~Gi~~t~i~~~v~PFLvL~IGVD~ifilv~~~~r~~~~~~~~~~~~~~~~~~~~ri~~~l~~~G~sI~ltslt~ 702 (1204)
T TIGR00917 623 VGVFSYIGLKATLIIMEVIPFLVLAVGVDNIFILVQTYQRLERFYREVGVDNEQELTLEQQLGRALGEVGPSITLASLSE 702 (1204)
T ss_pred HHHHHHhCCcchHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhccccccccccccCCHHHHHHHHHHHhhHHHHHHHHHH
Confidence 4889999999998 69999999999999999999999976432 23899999999999999999999999
Q ss_pred HHHHHHhhhccCCccc
Q psy16375 73 LTVLTAGLLTFFPVIQ 88 (89)
Q Consensus 73 i~~f~iG~~t~~Pavq 88 (89)
+++|++|+++++||||
T Consensus 703 ~~aF~~g~~s~~Pavr 718 (1204)
T TIGR00917 703 SLAFFLGALSKMPAVR 718 (1204)
T ss_pred HHHHHHHhccCChHHH
Confidence 9999999999999997
No 7
>KOG1933|consensus
Probab=99.66 E-value=2e-17 Score=145.65 Aligned_cols=83 Identities=24% Similarity=0.329 Sum_probs=79.1
Q ss_pred hhhhhcccchhh-hhhccceeeEeeecchhhhHhhhhhccCCC--CCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhhc
Q psy16375 6 QFRKPNGVLPYF-IIIVLPYFIIIVGLENILVLTKSIISIPSH--LDSKIRIAQGLSKEGWSITKNFFLELTVLTAGLLT 82 (89)
Q Consensus 6 ~~~s~~gv~~tl-i~eViPFLVl~IGvDniflit~av~~t~~~--~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~~t 82 (89)
|+||++|+++|+ +.||+||||+++|+||+|+++++..+.... .+.|+||..++.|.||||+.+++.|..+|.+|+++
T Consensus 601 g~FS~~gi~~t~i~i~VipflVlavgvdnifilv~~~qr~~~~~~~~~~~~I~~~l~~~~Psil~~slse~~~ff~g~~~ 680 (1201)
T KOG1933|consen 601 GFFSYLGITSTLIIIEVIPFLVLAVGVDNIFILVHTYQRDGRSKSEPLEQRIGSVLGEVGPSILLSSLSENFCFFLGAFV 680 (1201)
T ss_pred hHHHhhcchhhheeeeeeeeEEEEEeeccEEEEEeeecccccccCCCcccccchhhhccCcHHHHhHHHhhhHHhhhhcc
Confidence 699999999999 899999999999999999999999866555 88999999999999999999999999999999999
Q ss_pred cCCccc
Q psy16375 83 FFPVIQ 88 (89)
Q Consensus 83 ~~Pavq 88 (89)
.||||.
T Consensus 681 ~mPav~ 686 (1201)
T KOG1933|consen 681 DMPAVR 686 (1201)
T ss_pred cCccee
Confidence 999986
No 8
>KOG1935|consensus
Probab=99.31 E-value=1e-12 Score=113.89 Aligned_cols=80 Identities=13% Similarity=0.218 Sum_probs=75.0
Q ss_pred hhhhhcccchhh-hhhccceeeEeeecchhhhHhhhhhccCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhhccC
Q psy16375 6 QFRKPNGVLPYF-IIIVLPYFIIIVGLENILVLTKSIISIPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGLLTFF 84 (89)
Q Consensus 6 ~~~s~~gv~~tl-i~eViPFLVl~IGvDniflit~av~~t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~~t~~ 84 (89)
|+++++|+...- -..|.|||-|++|+||||+++|+..+..+. ++|+++-|+|.|+||..|++-++++|..|++.++
T Consensus 460 Gl~t~lGI~FNAAtTQVvPFLaLGlGVDd~FlL~hay~e~~~~---~~~~~~~lk~tG~Svl~tsinni~aF~~aallPI 536 (1143)
T KOG1935|consen 460 GLATLLGIEFNAATTQVVPFLALGLGVDDMFLLLHAYREVVKL---HEEMGELLKETGMSVLLTSINNILAFLMAALLPI 536 (1143)
T ss_pred hHHHHhceeeccccceeehhhhhccChhHHHHHHHHHHHHhhh---HHHHHHHHHHhCcchhHHHhhhHHHHHHHhhcCc
Confidence 788999998877 688999999999999999999999988764 9999999999999999999999999999999999
Q ss_pred Cccc
Q psy16375 85 PVIQ 88 (89)
Q Consensus 85 Pavq 88 (89)
||.+
T Consensus 537 PALr 540 (1143)
T KOG1935|consen 537 PALR 540 (1143)
T ss_pred HHHH
Confidence 9975
No 9
>TIGR00921 2A067 The (Largely Archaeal Putative) Hydrophobe/Amphiphile Efflux-3 (HAE3) Family. Characterized members of the RND superfamily all probably catalyze substrate efflux via an H+ antiport mechanism. These proteins are found ubiquitously in bacteria, archaea and eukaryotes. They fall into seven phylogenetic families, this family (2.A.6.7) consists of uncharacterised putative transporters, largely in the Archaea.
Probab=98.07 E-value=3.9e-06 Score=69.28 Aligned_cols=85 Identities=13% Similarity=0.107 Sum_probs=74.6
Q ss_pred hhhhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhc-cCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhhc
Q psy16375 4 LTQFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIIS-IPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGLLT 82 (89)
Q Consensus 4 ~~~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~-t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~~t 82 (89)
..|+..++|...+.+.-.+|.+++++|+|+-+.+.+.+++ .....+.++++.+++++.|++|+.+.+|-++.|+.-.++
T Consensus 234 ~~g~~~~~g~~l~~~~~~~~~l~lgi~vd~~ihl~~r~~~~~~~g~~~~~ai~~a~~~~g~~i~~t~~t~~~gf~~l~~s 313 (719)
T TIGR00921 234 VLGIMGWLGIPLYATTLLAVPMLIGVGIDYGIQTLNRYEEERDIGRAKGEAIVTAVRRTGRAVLIALLTTSAGFAALALS 313 (719)
T ss_pred HHHHHHHhCCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHcCCCHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHhc
Confidence 3577888999888888889999999999999888877653 456778999999999999999999999999999999999
Q ss_pred cCCccc
Q psy16375 83 FFPVIQ 88 (89)
Q Consensus 83 ~~Pavq 88 (89)
++|.+|
T Consensus 314 ~~~~~~ 319 (719)
T TIGR00921 314 EFPMVS 319 (719)
T ss_pred cChHHH
Confidence 998775
No 10
>TIGR00921 2A067 The (Largely Archaeal Putative) Hydrophobe/Amphiphile Efflux-3 (HAE3) Family. Characterized members of the RND superfamily all probably catalyze substrate efflux via an H+ antiport mechanism. These proteins are found ubiquitously in bacteria, archaea and eukaryotes. They fall into seven phylogenetic families, this family (2.A.6.7) consists of uncharacterised putative transporters, largely in the Archaea.
Probab=97.68 E-value=3.9e-05 Score=63.43 Aligned_cols=85 Identities=14% Similarity=0.204 Sum_probs=71.9
Q ss_pred hhhhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhccCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhhcc
Q psy16375 4 LTQFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISIPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGLLTF 83 (89)
Q Consensus 4 ~~~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~~t~ 83 (89)
..|+..++|++.+...-+..-+.+++|+|+-+.+.+.+++...+.+.++++.+++++.|++++.+.++-++.|+.-+++.
T Consensus 608 ~~g~~~~~gi~l~~~~~~~~~i~lGigvDy~i~~~~r~~~~~~~~~~~~ai~~a~~~~g~ai~~s~lt~~~gf~~l~~s~ 687 (719)
T TIGR00921 608 AIGLMGLRGIPSFLAMATTISIILGLGMDYSIHLAERYFEERKEHGPKEAITHTMERTGPGILFSGLTTAGGFLSLLLSH 687 (719)
T ss_pred HHHHHHHHcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhcc
Confidence 35677888998877666677799999999998888887765444678999999999999999999999999999989988
Q ss_pred CCccc
Q psy16375 84 FPVIQ 88 (89)
Q Consensus 84 ~Pavq 88 (89)
.|.+|
T Consensus 688 ~~~~~ 692 (719)
T TIGR00921 688 FPIMR 692 (719)
T ss_pred CHHHH
Confidence 88765
No 11
>COG1033 Predicted exporters of the RND superfamily [General function prediction only]
Probab=96.83 E-value=0.0013 Score=56.87 Aligned_cols=83 Identities=10% Similarity=0.071 Sum_probs=72.0
Q ss_pred hhhhhcccchhhhhhccceeeEeeecchhhhHhhhhh-ccCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhhccC
Q psy16375 6 QFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSII-SIPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGLLTFF 84 (89)
Q Consensus 6 ~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~-~t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~~t~~ 84 (89)
|+.-++|...|-.+-..|.+.+++|.|+-.-+.+... +.+...+.+|++.+++++.|+.+..+.+|...=|.-=+++.+
T Consensus 239 G~m~llG~plt~~s~~~~~llIgiGidy~vh~~nr~~ee~~~~~~~~eAv~~ai~~~g~avl~a~lTT~~GF~Sl~~s~i 318 (727)
T COG1033 239 GAMGLLGIPLTITTSAVPPLLIGIGIDYGVHFHNRYEEERRKGRTVEEAVVEAIKHTGPAVLIAALTTAAGFLSLLTSSI 318 (727)
T ss_pred HHHHHhCCCchhHHHHHHHHHhhhhhhHHHHHHHHHHHHHhcCCCHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHccc
Confidence 5677889888888889999999999999988888765 455558899999999999999999999999999976678888
Q ss_pred Cccc
Q psy16375 85 PVIQ 88 (89)
Q Consensus 85 Pavq 88 (89)
|+++
T Consensus 319 ~~i~ 322 (727)
T COG1033 319 PAIK 322 (727)
T ss_pred HHHH
Confidence 8764
No 12
>PF03176 MMPL: MMPL family; InterPro: IPR004869 Proteins of this entry are putative integral membrane proteins from bacteria. Several of the members are mycobacterial proteins. Many of the proteins contain two copies of this aligned region. The function of these proteins is not known, although it has been suggested that they may be involved in lipid transport [].; GO: 0016020 membrane
Probab=96.55 E-value=0.0024 Score=48.39 Aligned_cols=65 Identities=15% Similarity=0.236 Sum_probs=50.6
Q ss_pred eeeEeeecchhhhHhhhhh-ccCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhhccCCccc
Q psy16375 24 YFIIIVGLENILVLTKSII-SIPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGLLTFFPVIQ 88 (89)
Q Consensus 24 FLVl~IGvDniflit~av~-~t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~~t~~Pavq 88 (89)
.+.+++|+|.-..+.+-++ +-....+.++.+.+++++.|..|+.+.+|-+..|+.=.++..|.+|
T Consensus 209 ~l~lgvgidy~i~l~~r~ree~~~g~~~~~ai~~a~~~~g~~i~~s~ltt~~gf~~L~~s~~~~~~ 274 (333)
T PF03176_consen 209 VLLLGVGIDYSIHLINRYREELRRGMSRKEAIRRAVRSTGRAILLSALTTAIGFGSLLFSPFPPLR 274 (333)
T ss_pred hhHHHhhhhhHHHHHHHHHHHHHhccchHHHHHHHHhccCchhHHHHHHHHHHHHHHHHhhhhHHH
Confidence 3668899996666555554 3444567889999999999999999999999998876777776654
No 13
>TIGR03480 HpnN hopanoid biosynthesis associated RND transporter like protein HpnN. The genomes containing members of this family share the machinery for the biosynthesis of hopanoid lipids. Furthermore, the genes of this family are usually located proximal to other components of this biological process. The proteins appear to be related to the RND family of export proteins, particularly the hydrophobe/amphiphile efflux-3 (HAE3) family represented by TIGR00921.
Probab=96.50 E-value=0.0021 Score=55.26 Aligned_cols=81 Identities=10% Similarity=-0.005 Sum_probs=60.8
Q ss_pred hhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhc-cCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhhccC
Q psy16375 6 QFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIIS-IPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGLLTFF 84 (89)
Q Consensus 6 ~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~-t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~~t~~ 84 (89)
++..++|...+.++-+.|.+++++|+||-+.+.+...+ .....+.++.+.+++++.|++++.+.+|.+..|+.=.++.+
T Consensus 312 ~~~~l~~~~ln~~s~~~~~lliGi~vD~~I~~~~r~~e~~~~g~~~~~A~~~a~~~~~~~i~~s~lTt~~gf~~l~~~~~ 391 (862)
T TIGR03480 312 AFATLAVGHLNLISVAFAVLFIGLGVDFAIQFSLRYREERFRGGNHREALSVAARRMGAALLLAALATAAGFFAFLPTDY 391 (862)
T ss_pred HHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence 34455666666688889999999999997766655443 23345678899999999999999999999999864344444
Q ss_pred Cc
Q psy16375 85 PV 86 (89)
Q Consensus 85 Pa 86 (89)
|.
T Consensus 392 ~~ 393 (862)
T TIGR03480 392 KG 393 (862)
T ss_pred HH
Confidence 43
No 14
>PF02460 Patched: Patched family; InterPro: IPR003392 The transmembrane protein, patched, is a receptor for the morphogene Sonic Hedgehog. In Drosophila melanogaster, this protein associates with the smoothened protein to transduce hedgehog signals, leading to the activation of wingless, decapentaplegic and patched itself. It participates in cell interactions that establish pattern within the segment and imaginal disks during development. The mouse homologue may play a role in epidermal development. The human Niemann-Pick C1 protein, defects in which cause Niemann-Pick type II disease, is also a member of this family. This protein is involved in the intracellular trafficking of cholesterol, and may play a role in vesicular trafficking in glia, a process that may be crucial for maintaining the structural functional integrity of nerve terminals.; GO: 0008158 hedgehog receptor activity, 0016020 membrane
Probab=95.68 E-value=0.012 Score=50.24 Aligned_cols=78 Identities=14% Similarity=0.137 Sum_probs=63.1
Q ss_pred hhhhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhccCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhhc
Q psy16375 4 LTQFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISIPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGLLT 82 (89)
Q Consensus 4 ~~~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~~t 82 (89)
+-|+.+++|++..-++-+.=-+.++..+|=.--++++..++..+ +.++|+.++|++.|++++...++-+++...=+++
T Consensus 686 v~G~m~~~g~~l~~vs~v~l~~~iG~sVd~~~Hi~~~f~~~~~~-~~~~r~~~al~~~g~pv~~~~~st~l~~~~l~f~ 763 (798)
T PF02460_consen 686 VIGFMSLWGVDLDPVSMVNLIMSIGFSVDFSAHIAYAFVHSQGS-TRDERVAEALSSMGWPVLQGALSTFLGVLPLAFS 763 (798)
T ss_pred HHHhhhccccCcchHHHHHHHHHhchhhHHHHHHHHHheecccc-hHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHh
Confidence 34788999999888766665666777789999999999888765 8999999999999999999988887665443333
No 15
>TIGR00833 actII Transport protein. Characterized members of the RND superfamily all probably catalyze substrate efflux via an H+ antiport mechanism. These proteins are found ubiquitously in bacteria, archaea and eukaryotes. This sub-family includes the S. coelicolor ActII3 protein, which may play a role in drug resistance, and the M. tuberculosis MmpL7 protein, which catalyzes export of an outer membrane lipid, phthiocerol dimycocerosate.
Probab=95.57 E-value=0.0098 Score=51.81 Aligned_cols=67 Identities=18% Similarity=0.118 Sum_probs=53.4
Q ss_pred cceeeEeeecchhhhHhhhhhc-cCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhhccCCccc
Q psy16375 22 LPYFIIIVGLENILVLTKSIIS-IPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGLLTFFPVIQ 88 (89)
Q Consensus 22 iPFLVl~IGvDniflit~av~~-t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~~t~~Pavq 88 (89)
++-+++++|+|+-+.+.+.+++ .....+.++.+.+++++.|+.|+.+.+|-+..|+--.++..|.++
T Consensus 237 l~~l~lGl~vDy~I~lv~r~~ee~~~g~~~~~Av~~a~~~~g~~I~~s~lT~~~gf~~l~~~~~~~~~ 304 (910)
T TIGR00833 237 LTALVIGAGTDYAVFLTGRYHEERRKGESLEEAAAEALRGTGKAILGSALTVAVAFLALSLARLPSFK 304 (910)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccChHHH
Confidence 3467789999986666665543 344567889999999999999999999999999888888777554
No 16
>TIGR00916 2A0604s01 protein-export membrane protein, SecD/SecF family. The SecA,SecB,SecD,SecE,SecF,SecG and SecY proteins form the protein translocation appartus in prokaryotes. This family is specific for the SecD and SecF proteins.
Probab=95.39 E-value=0.012 Score=42.78 Aligned_cols=76 Identities=14% Similarity=-0.019 Sum_probs=62.3
Q ss_pred hhhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhcc-C--CCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhh
Q psy16375 5 TQFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISI-P--SHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGL 80 (89)
Q Consensus 5 ~~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t-~--~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~ 80 (89)
-+++.++|...+..+-.-+-+++++++||-+++....++. . ...+.++.+.++.++.++++..+.+|-+..|.-=.
T Consensus 88 ~g~m~l~G~~ln~~s~~glil~iGi~Vd~aIvv~e~~~~~~~~~~g~~~~~Av~~a~~~~~~~il~ttlTtii~f~pl~ 166 (192)
T TIGR00916 88 LGVLSLFGATLTLPGIAGLLTIIGYSVDDTVVIFDRIREELRKYKGRTFREAINLGINQTLSRIIDTNVTTLLAVLALY 166 (192)
T ss_pred HHHHHHHCCcccHHHHHHHHHHHHHhhcCeEEehHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567788888888777788888999999999888776542 2 45688999999999999999999999988876433
No 17
>TIGR03480 HpnN hopanoid biosynthesis associated RND transporter like protein HpnN. The genomes containing members of this family share the machinery for the biosynthesis of hopanoid lipids. Furthermore, the genes of this family are usually located proximal to other components of this biological process. The proteins appear to be related to the RND family of export proteins, particularly the hydrophobe/amphiphile efflux-3 (HAE3) family represented by TIGR00921.
Probab=95.02 E-value=0.023 Score=49.00 Aligned_cols=79 Identities=9% Similarity=-0.014 Sum_probs=60.7
Q ss_pred hhhhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhccCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhhcc
Q psy16375 4 LTQFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISIPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGLLTF 83 (89)
Q Consensus 4 ~~~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~~t~ 83 (89)
..++..++|++.++..-+.--++++||+|+-+.+.+.+++...+.. .. -++.|.+|+.+.+|-++.|+.=+++.
T Consensus 753 ~~g~m~~~gi~l~~~~~~~~~l~lGigVDy~I~~~~r~~~~~~~~~----~~--~~~~g~ai~~saltt~~gf~~l~~s~ 826 (862)
T TIGR03480 753 TVAAMVLLGIPFNFANIIALPLLLGLGVDFGIYMVHRWRNGVDSGN----LL--QSSTARAVFFSALTTATAFGSLAVSS 826 (862)
T ss_pred HHHHHHHHhccCcHHHHHHHHHHHhhhhhhHHHHHHHHHHhccchh----HH--HhhhHHHHHHHHHHHHHHHHHHHHhc
Confidence 3567788899998855555557799999999999998876532111 11 14679999999999999999999999
Q ss_pred CCccc
Q psy16375 84 FPVIQ 88 (89)
Q Consensus 84 ~Pavq 88 (89)
.|..+
T Consensus 827 ~~~~~ 831 (862)
T TIGR03480 827 HPGTA 831 (862)
T ss_pred CccHH
Confidence 99864
No 18
>TIGR00918 2A060602 The Eukaryotic (Putative) Sterol Transporter (EST) Family.
Probab=94.72 E-value=0.049 Score=49.43 Aligned_cols=72 Identities=14% Similarity=0.063 Sum_probs=60.1
Q ss_pred hhhhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhccCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHH
Q psy16375 4 LTQFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISIPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLT 77 (89)
Q Consensus 4 ~~~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~ 77 (89)
+-|+.+++|++.+.++-+.=-+-+++|||-..-++++..+... +.++|+.++|++.|++++...+|-++.+.
T Consensus 1006 v~G~M~lwgI~LnaVS~vnLimsIGisVefsaHI~~~F~~~~~--~r~eR~~~AL~~~G~pVl~g~lTT~lGvl 1077 (1145)
T TIGR00918 1006 LFGMMGLLGIKLSAIPVVILIASVGIGVEFTVHIALGFLTAIG--DRNRRAVLALEHMFAPVLDGALSTLLGVL 1077 (1145)
T ss_pred HHHHHHHHcCCccHHHHHHHHHHHhhhhhhhHHHHHHHHhcCC--CHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 4588899999999877777667799999999999999886543 46999999999999999999987755543
No 19
>COG1033 Predicted exporters of the RND superfamily [General function prediction only]
Probab=93.64 E-value=0.096 Score=45.61 Aligned_cols=82 Identities=16% Similarity=0.136 Sum_probs=67.8
Q ss_pred hhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhccCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhhccCC
Q psy16375 6 QFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISIPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGLLTFFP 85 (89)
Q Consensus 6 ~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~~t~~P 85 (89)
++--++|++.++....+==+++++|+|--+.+++...+.-.+...+|.+-+++++.|+.++-+.+|-..=|+.=.+++.|
T Consensus 611 ~~M~l~gI~~~~~ta~v~ai~lGiGvDYsIh~~ery~eer~~~~~~eAi~~t~~~~G~ail~s~ltt~~GF~aLi~S~f~ 690 (727)
T COG1033 611 GLMGLLGIPLTPATATLGAIILGIGVDYSIHITERYREERKKGGPKEAIETTVERTGKAILASALTTAIGFLALIFSPFP 690 (727)
T ss_pred HHHHHhCCchhHHHHHHHHHhhhccchhhhHHHHHHHHHHhcCCchHHHHHHHHhhchHHHHHHHHHHHHHHHHHhcCCH
Confidence 34557889999977778889999999999999998775443333889999999999999999999988888777777777
Q ss_pred cc
Q psy16375 86 VI 87 (89)
Q Consensus 86 av 87 (89)
.+
T Consensus 691 i~ 692 (727)
T COG1033 691 II 692 (727)
T ss_pred HH
Confidence 64
No 20
>PRK13022 secF preprotein translocase subunit SecF; Reviewed
Probab=90.35 E-value=0.15 Score=39.29 Aligned_cols=74 Identities=14% Similarity=-0.041 Sum_probs=59.5
Q ss_pred hhhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhcc---CCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHH
Q psy16375 5 TQFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISI---PSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTA 78 (89)
Q Consensus 5 ~~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t---~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~i 78 (89)
-++++++|...++.+-.-.-.++++.+||-+++...+++. .++.+.++.+.++.++....+..+++|-+..|.-
T Consensus 168 lg~~~l~g~~l~~~siaall~liG~sVnd~Ivv~drire~~~~~~~~~~~~av~~a~~~~~~~~l~TslTTl~~~l~ 244 (289)
T PRK13022 168 LGIFSLFQIEFDLTVIAALLTIIGYSLNDTVVVFDRIRENFRKIRRKTFAEIINLSINQTLSRTIITSLTTLLVVLA 244 (289)
T ss_pred HHHHHHHCCcccHHHHHHHHHHHHHheeceEEEeeHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678889999888555566677899999999998776542 2357899999999999999999999998877653
No 21
>KOG1934|consensus
Probab=88.66 E-value=0.39 Score=42.69 Aligned_cols=82 Identities=15% Similarity=0.137 Sum_probs=59.5
Q ss_pred hhhhhhhcccchhhhhhccceeeEeee--cchhhhHhhhhhccCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhh
Q psy16375 4 LTQFRKPNGVLPYFIIIVLPYFIIIVG--LENILVLTKSIISIPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGLL 81 (89)
Q Consensus 4 ~~~~~s~~gv~~tli~eViPFLVl~IG--vDniflit~av~~t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~~ 81 (89)
..|++|++||....|+-+- ++.+|| ||..--++-.......+.+.++|+..+|+..||.+..+.+.-+++...=++
T Consensus 718 V~G~lslW~V~LDpISmi~--iiMsIGFSVD~~AHi~yhy~~~~~~~t~~~Rv~~aL~~vgwPv~Qa~lSTiL~v~pL~~ 795 (868)
T KOG1934|consen 718 VFGFLSLWGVDLDPISMIT--IIMSIGFSVDFSAHVAYHYYQSRKSSTPRERLRSALSAVGWPVLQAGLSTILGVLPLLF 795 (868)
T ss_pred HhhhhHHhcCCccHHHHHH--HHHhCCceeeehhheeeeeEecCCCCCHHHHHHHHHHhhhhHHHhhhhHHHHHHHHHHh
Confidence 3588999999988754333 344555 566666666655555556899999999999999999999998888765555
Q ss_pred ccCCcc
Q psy16375 82 TFFPVI 87 (89)
Q Consensus 82 t~~Pav 87 (89)
++-..+
T Consensus 796 V~sYmv 801 (868)
T KOG1934|consen 796 VPSYMV 801 (868)
T ss_pred chHHHH
Confidence 544433
No 22
>PF02355 SecD_SecF: Protein export membrane protein; InterPro: IPR022813 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone protein (SecB), an ATPase (SecA), an integral membrane complex (SecCY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. The chaperone protein SecB [] is a highly acidic homotetrameric protein that exists as a "dimer of dimers" in the bacterial cytoplasm. SecB maintains preproteins in an unfolded state after translation, and targets these to the peripheral membrane protein ATPase SecA for secretion []. Together with SecY and SecG, SecE forms a multimeric channel through which preproteins are translocated, using both proton motive forces and ATP-driven secretion. The latter is mediated by SecA. The structure of the Escherichia coli SecYEG assembly revealed a sandwich of two membranes interacting through the extensive cytoplasmic domains []. Each membrane is composed of dimers of SecYEG. The monomeric complex contains 15 transmembrane helices. The SecD and SecF equivalents of the Gram-positive bacterium Bacillus subtilis are jointly present in one polypeptide, denoted SecDF, that is required to maintain a high capacity for protein secretion. Unlike the SecD subunit of the pre-protein translocase of E. coli, SecDF of B. subtilis was not required for the release of a mature secretory protein from the membrane, indicating that SecDF is involved in earlier translocation steps []. Comparison with SecD and SecF proteins from other organisms revealed the presence of 10 conserved regions in SecDF, some of which appear to be important for SecDF function. Interestingly, the SecDF protein of B. subtilis has 12 putative transmembrane domains. Thus, SecDF does not only show sequence similarity but also structural similarity to secondary solute transporters []. This entry represents bacterial SecD and SecF protein export membrane proteins and their archaeal homologues []. It is found in association with PF07549 from PFAM SecD and SecF proteins are part of the multimeric protein export complex comprising SecA, D, E, F, G, Y, and YajC []. SecD and SecF are required to maintain a proton motive force []. ; PDB: 3AQP_A 2RRN_A 3AQO_B.
Probab=88.53 E-value=0.67 Score=33.76 Aligned_cols=70 Identities=11% Similarity=0.012 Sum_probs=52.0
Q ss_pred hhhhhhhcccchhh--hhhccceeeEeeecchhhhHhhhhhcc---CCCCCHHHHHHHHHhhhchHHHHHHHHHHHH
Q psy16375 4 LTQFRKPNGVLPYF--IIIVLPYFIIIVGLENILVLTKSIISI---PSHLDSKIRIAQGLSKEGWSITKNFFLELTV 75 (89)
Q Consensus 4 ~~~~~s~~gv~~tl--i~eViPFLVl~IGvDniflit~av~~t---~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~ 75 (89)
.-++++++|.+.++ ++.. .++++-++||-.++...+++. +.+.+.++++.++.++.-..+..+.+|-+.+
T Consensus 71 ~l~~~~~~~~~l~l~~iaal--l~~iG~sVd~~IVifdRIre~~~~~~~~~~~~~~~~s~~~tl~r~i~t~~ttll~ 145 (189)
T PF02355_consen 71 TLGIFSLFGIELTLPSIAAL--LTIIGYSVDDNIVIFDRIREELRASRGKSLREAINISIKQTLSRTIDTSLTTLLA 145 (189)
T ss_dssp HHHHHHHHT-EE-HHHHHHH--HHHHHHHHHHHHHHHHHHHHHHCC-STS-HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHCCcccHHHHHHH--HHHHHHHHhcceeehHHHHHHhhhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45788899998888 4444 467788899999999988754 5678899999999999988777787775443
No 23
>PRK09579 multidrug efflux protein; Reviewed
Probab=87.78 E-value=0.67 Score=41.22 Aligned_cols=71 Identities=11% Similarity=0.088 Sum_probs=53.4
Q ss_pred hhhhcccchhhhhhccceeeEeeecchhhhHhhhhhc-cCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHH
Q psy16375 7 FRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIIS-IPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLT 77 (89)
Q Consensus 7 ~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~-t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~ 77 (89)
++.++|.....++-.-.-+.+++.+||-+++.....+ -....+..+.+.++.++.+++++.+.+|-++.|.
T Consensus 375 ~l~~~G~~ln~~sl~gli~~iGi~VddaIvv~e~i~~~~~~G~~~~~A~~~~~~~~~~pil~stlTti~~f~ 446 (1017)
T PRK09579 375 FMQMMGYSINLLTLLAMVLAIGLVVDDAIVVVENIHRHIEEGKSPFDAALEGAREIAMPVVSMTITLAAVYA 446 (1017)
T ss_pred HHHHhCCCchHHHHHHHHHhhheeecCcEEeHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456677666655555555677779998887776543 3345678899999999999999999999886653
No 24
>PRK10614 multidrug efflux system subunit MdtC; Provisional
Probab=87.75 E-value=0.47 Score=42.09 Aligned_cols=72 Identities=10% Similarity=0.083 Sum_probs=54.4
Q ss_pred hhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhc-cCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHH
Q psy16375 6 QFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIIS-IPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLT 77 (89)
Q Consensus 6 ~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~-t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~ 77 (89)
.++.++|...+.++-.-.-+.+++++||-+++.....+ -....+..+.+.++.++.+++++.+.+|-++.|.
T Consensus 375 ~~l~~~g~~ln~~sl~gl~~~iGi~Vd~aIvv~e~i~~~~~~g~~~~~A~~~~~~~~~~~i~~stltti~~f~ 447 (1025)
T PRK10614 375 AAMYLCGFSLNNLSLMALTIATGFVVDDAIVVLENISRHLEAGMKPLQAALQGVREVGFTVLSMSLSLVAVFL 447 (1025)
T ss_pred HHHHHhCCChhHHHHHHHHHHhheeecCcEEEEeHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45567788777755555556778889999998865443 2334567899999999999999999999887764
No 25
>PRK10555 aminoglycoside/multidrug efflux system; Provisional
Probab=87.32 E-value=0.65 Score=41.35 Aligned_cols=71 Identities=8% Similarity=0.053 Sum_probs=57.7
Q ss_pred hhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhcc--CCCCCHHHHHHHHHhhhchHHHHHHHHHHHHH
Q psy16375 6 QFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISI--PSHLDSKIRIAQGLSKEGWSITKNFFLELTVL 76 (89)
Q Consensus 6 ~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t--~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f 76 (89)
+++.++|.....++-.-+-+.+++.+||-+++.....+. ....+.++.+.++.++.+.+++.+.+|-++.|
T Consensus 381 ~~~~~~G~~ln~~sl~glii~iGi~Vd~aIvvve~i~~~~~~~G~~~~~Ai~~a~~~~~~~i~~stltti~~f 453 (1037)
T PRK10555 381 SVLYAFGYSINTLTMFAMVLAIGLLVDDAIVVVENVERIMSEEGLTPREATRKSMGQIQGALVGIAMVLSAVF 453 (1037)
T ss_pred HHHHHhCCChhHHHHHHHHHHhhheecCeEEeHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356677877777777777778888899999999987654 34568899999999999999999999877655
No 26
>PRK09577 multidrug efflux protein; Reviewed
Probab=86.89 E-value=0.92 Score=40.37 Aligned_cols=71 Identities=8% Similarity=0.060 Sum_probs=56.8
Q ss_pred hhhhcccchhhhhhccceeeEeeecchhhhHhhhhhcc--CCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHH
Q psy16375 7 FRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISI--PSHLDSKIRIAQGLSKEGWSITKNFFLELTVLT 77 (89)
Q Consensus 7 ~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t--~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~ 77 (89)
+..++|...+.++-.-.-+.+++.+||-+++.....+. ....+..+.+.++.++.+++++-+.+|-+..|.
T Consensus 381 ~m~~~g~~ln~~sl~gl~~~iGi~VD~aIvvie~i~~~~~~~G~~~~~A~~~a~~~~~~~i~~~tlt~~~~fl 453 (1032)
T PRK09577 381 VMLAAGFSINVLTMFGMVLAIGILVDDAIVVVENVERLMVEEGLSPYDATVKAMKQISGAIVGITVVLTSVFV 453 (1032)
T ss_pred HHHHhcccHHHHHHHHHHHheeeEecCcEEEehHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44557777777777777788899999999999987654 345677899999999999999998888877764
No 27
>TIGR00966 3a0501s07 protein-export membrane protein SecF. This bacterial protein is always found with the homologous protein-export membrane protein SecD. In numerous lineages, this protein occurs as a SecDF fusion protein.
Probab=86.74 E-value=0.54 Score=35.17 Aligned_cols=74 Identities=11% Similarity=-0.022 Sum_probs=56.4
Q ss_pred hhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhcc---CCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHh
Q psy16375 6 QFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISI---PSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAG 79 (89)
Q Consensus 6 ~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t---~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG 79 (89)
+++.++|...++.+-.---+++++.+||-+++....++. .+..+.++.+.++.++....+..+.+|-+..|.-=
T Consensus 140 ~~l~~~g~~ln~~sl~gli~~iGi~Vdd~Ivv~d~i~e~~~~~~~~~~~~a~~~a~~~~~~~ii~ttltti~~flpl 216 (246)
T TIGR00966 140 GVYSLFGIEVNLTTVAALLTIIGYSINDTVVVFDRIRENLRKYTRKTFTEVINLSINQTLSRTINTSLTTLLAVLAL 216 (246)
T ss_pred HHHHHHCCcccHHHHHHHHHHHHHhccCeEEEehHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445667777777555555567788999999988665532 23568889999999999999999999998887643
No 28
>TIGR00833 actII Transport protein. Characterized members of the RND superfamily all probably catalyze substrate efflux via an H+ antiport mechanism. These proteins are found ubiquitously in bacteria, archaea and eukaryotes. This sub-family includes the S. coelicolor ActII3 protein, which may play a role in drug resistance, and the M. tuberculosis MmpL7 protein, which catalyzes export of an outer membrane lipid, phthiocerol dimycocerosate.
Probab=86.61 E-value=0.56 Score=41.13 Aligned_cols=67 Identities=15% Similarity=0.154 Sum_probs=50.2
Q ss_pred ccceeeEeeecchhhhHhhhhhccCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhhccCCccc
Q psy16375 21 VLPYFIIIVGLENILVLTKSIISIPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGLLTFFPVIQ 88 (89)
Q Consensus 21 ViPFLVl~IGvDniflit~av~~t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~~t~~Pavq 88 (89)
.++-+.+++|+|.-..+.+-+++... ...++.+.+++++.|..|+.+.++-+..|+.-.+++.|.++
T Consensus 808 ~~~~il~glgvDY~I~l~sR~ree~~-~g~~~av~~a~~~tg~~I~~a~~~~~~~f~~l~~s~~~~l~ 874 (910)
T TIGR00833 808 GVFVLLVALGVDYNMLLVSRIKEESP-AGNRTGIIRALGSTGGVITAAGLVFAGTMAALASAQLTAIA 874 (910)
T ss_pred HHHHHHHHhhhchHHHHHHHHHHHHh-cCccHHHHHHHHHhHHHHHHHHHHHHHHHHHHHhcchHHHH
Confidence 34566688999966555555444322 22468899999999999999999999988888888877654
No 29
>PRK13024 bifunctional preprotein translocase subunit SecD/SecF; Reviewed
Probab=86.37 E-value=0.55 Score=40.80 Aligned_cols=81 Identities=10% Similarity=-0.050 Sum_probs=62.2
Q ss_pred hhhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhc-cCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhhhcc
Q psy16375 5 TQFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIIS-IPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGLLTF 83 (89)
Q Consensus 5 ~~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~-t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~~t~ 83 (89)
-+++.++|...++..-.-..+++++++||-.++....++ .....+.++.+.++.++...++..+.+|-+..|..=++..
T Consensus 306 l~~l~l~g~~l~l~siaglil~iGi~Vd~~Ivi~eri~e~l~~g~~~~~Ai~~a~~~~~~~il~t~lTTii~~lpL~~~g 385 (755)
T PRK13024 306 LGALSSLGAVLTLPGIAGLVLGIGMAVDANVLIFERIKEELRKGKSLKKAFKKGFKNAFSTILDSNITTLIAAAILFFFG 385 (755)
T ss_pred HHHHHHHCCCccHHHHHHHHHHHHHHHhCcEEehHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 366788899888865556677889999998888776543 2345578899999999999999999999988776544434
Q ss_pred CC
Q psy16375 84 FP 85 (89)
Q Consensus 84 ~P 85 (89)
.+
T Consensus 386 ~g 387 (755)
T PRK13024 386 TG 387 (755)
T ss_pred cc
Confidence 33
No 30
>PRK13023 bifunctional preprotein translocase subunit SecD/SecF; Reviewed
Probab=84.91 E-value=0.6 Score=40.95 Aligned_cols=76 Identities=11% Similarity=0.038 Sum_probs=59.5
Q ss_pred hhhhhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhcc-CCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHH
Q psy16375 3 MLTQFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISI-PSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTA 78 (89)
Q Consensus 3 ~~~~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t-~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~i 78 (89)
+.-++++++|...|+.+-.-=.+.+++++||-.++...+++. ....+.++.+.++.++..++|..+.+|-+..|..
T Consensus 316 ~tl~~l~l~g~~Lnl~siaGlIL~IGm~VD~~Ivi~Erireel~~G~~~~~Av~~g~~~~~~~Il~s~lTTlia~lp 392 (758)
T PRK13023 316 ILTAVLSLIGASISLASIAGLVLTIGLAVDAHILIYERVREDRRKGYSVVQAMESGFYRALSTIVDANLTTLIAALV 392 (758)
T ss_pred HHHHHHHHHCCCccHHHHHHHHHHHHHhccCcEEEeeHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345678888988888333333467789999999998877632 3346789999999999999999999999888765
No 31
>TIGR01129 secD protein-export membrane protein SecD. SecD from Mycobacterium tuberculosis has a long Pro-rich insert.
Probab=82.47 E-value=2 Score=34.74 Aligned_cols=74 Identities=11% Similarity=0.029 Sum_probs=56.0
Q ss_pred hhhhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhc-cCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHH
Q psy16375 4 LTQFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIIS-IPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLT 77 (89)
Q Consensus 4 ~~~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~-t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~ 77 (89)
.-++++++|...++.+-.==.+.+++.+||-.++..-+++ .....+.++.+.++.++..++|.-+.+|-+.+|.
T Consensus 287 ~l~~~~l~g~~l~l~siaglil~iG~~VD~~Ivi~erire~l~~g~~~~~Ai~~~~~~~~~~I~~s~lTtlia~l 361 (397)
T TIGR01129 287 ILAILSAFGATLTLPGIAGLILTIGMAVDANVLIYERIKEELRLGKSVRQAIEAGFERAFSTIFDANITTLIAAL 361 (397)
T ss_pred HHHHHHHHCCCccHHHHHHHHHHhheeeeceEEEeHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467888888888833333346778899999998886553 2334578899999999999999999998887654
No 32
>TIGR00915 2A0602 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family. This family is one of several subfamilies within the scope of pfam model pfam00873.
Probab=82.02 E-value=1.5 Score=39.07 Aligned_cols=70 Identities=9% Similarity=0.061 Sum_probs=50.5
Q ss_pred hhhcccchhhhhhccceeeEeeecchhhhHhhhhhcc--CCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHH
Q psy16375 8 RKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISI--PSHLDSKIRIAQGLSKEGWSITKNFFLELTVLT 77 (89)
Q Consensus 8 ~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t--~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~ 77 (89)
+.++|.....++-.-.-+.+++.+||-+++....++. ....+..+.+.++.++.+++++.+.+|-++.|.
T Consensus 383 ~~~~g~~ln~~sl~gli~~iGi~VD~aIvv~e~i~~~~~~~g~~~~~A~~~~~~~~~~~i~~ttltti~~fl 454 (1044)
T TIGR00915 383 LAAFGFSINTLTMFAMVLAIGLLVDDAIVVVENVERVMAEEGLPPKEATRKSMGQIQGALVGIAMVLSAVFV 454 (1044)
T ss_pred HHHhCCChhHHHHHHHHHHhhheecceEEEehHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445655555444444455566699999988876643 345678899999999999999999988876654
No 33
>TIGR00917 2A060601 Niemann-Pick C type protein family. The model describes Niemann-Pick C type protein in eukaryotes. The defective protein has been associated with Niemann-Pick disease which is described in humans as autosomal recessive lipidosis. It is characterized by the lysosomal accumulation of unestrified cholesterol. It is an integral membrane protein, which indicates that this protein is most likely involved in cholesterol transport or acts as some component of cholesterol homeostasis.
Probab=81.88 E-value=2.8 Score=38.43 Aligned_cols=77 Identities=10% Similarity=0.026 Sum_probs=52.3
Q ss_pred hhhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhccCCCCCHHHHHHHHHhhhchHHHHH-HHHHHHHHHHhhhc
Q psy16375 5 TQFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISIPSHLDSKIRIAQGLSKEGWSITKN-FFLELTVLTAGLLT 82 (89)
Q Consensus 5 ~~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t~~~~~v~~RIa~~ls~~G~SIt~t-~ltei~~f~iG~~t 82 (89)
-|+..++|++...++-+-=-+.+++++|=.--+.|+.... ...+.++|+.+++++.|++++-. .+|-++.|..=+++
T Consensus 1091 ~g~M~~~gisLN~vSlv~Li~avGisV~f~~hI~~~f~~~-~~~~~~~ra~~al~~vg~~v~~g~tlT~~~g~~~L~f~ 1168 (1204)
T TIGR00917 1091 VGIMHLWNISLNAVSVVNLVMAKGISIEFCSHINAQFSTS-KHFSRNHRAKEALGGMGSSVFSGITLTKLVGVVVLGFS 1168 (1204)
T ss_pred HHHHHHhCCCHhHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 4677888988877655554444455556555666665544 23467899999999999999988 56666665444433
No 34
>PRK08343 secD preprotein translocase subunit SecD; Reviewed
Probab=81.27 E-value=2 Score=35.09 Aligned_cols=71 Identities=11% Similarity=0.178 Sum_probs=52.9
Q ss_pred hhhhhhhcccchhh--hhhccceeeEeeecchhhhHhhhhhccCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHH
Q psy16375 4 LTQFRKPNGVLPYF--IIIVLPYFIIIVGLENILVLTKSIISIPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLT 77 (89)
Q Consensus 4 ~~~~~s~~gv~~tl--i~eViPFLVl~IGvDniflit~av~~t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~ 77 (89)
+-++++++|...|+ ++-. .+.+++++||-.++.....+.-. .+.++.+.++.+++..+|.-+.+|-+.++.
T Consensus 302 ~lg~l~l~g~tLtl~~IaGl--Il~iGmaVD~~IvI~e~i~~~~~-~~~~~ai~~g~~~a~~~Il~t~lTTiia~l 374 (417)
T PRK08343 302 ILGFAALIGWQLDLASIAGI--IAVIGTGVDDLIIITDEVLHEGK-VPSRKVFLSRIKRAFFIIFAAAATTIAAMS 374 (417)
T ss_pred HHHHHHHHCCCccHHHHHHH--HHHHHHeeeCcEEEhHHHHHhCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556778888887 4333 36678899999999977654422 256777888899999999999999887765
No 35
>KOG3664|consensus
Probab=79.34 E-value=1.9 Score=39.09 Aligned_cols=63 Identities=14% Similarity=0.074 Sum_probs=47.9
Q ss_pred hhccceeeEeeecchhhhHhhhhhc-------------------cCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHh
Q psy16375 19 IIVLPYFIIIVGLENILVLTKSIIS-------------------IPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAG 79 (89)
Q Consensus 19 ~eViPFLVl~IGvDniflit~av~~-------------------t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG 79 (89)
.-|-=+.+++||.||.|+.-+++.+ +......+.+.+..+..+.+|+.++.++-++.|..=
T Consensus 383 nlv~~vv~i~Ig~dd~fl~~~~~~~~~~r~l~~~~~~~~~~~~l~~~~~ll~~~~~l~~~h~~~smfvt~~~t~~~f~~~ 462 (999)
T KOG3664|consen 383 NLVAVVVIIGIGADDVFLFLKIYERSNLRMLHTQSQSASFFLELSDHTELLENVFALTLRHASFSMFVTSLTTACAFYAN 462 (999)
T ss_pred hhhheeeeeecccccceeehhhhhhhhHHHHHHHHhhcccccccccchhHHHHHHhhhhhhhhHHHHHHHHHHHhhhhhc
Confidence 3344467889999999999998821 111334568899999999999999999999888654
Q ss_pred hh
Q psy16375 80 LL 81 (89)
Q Consensus 80 ~~ 81 (89)
..
T Consensus 463 ~s 464 (999)
T KOG3664|consen 463 YS 464 (999)
T ss_pred cc
Confidence 43
No 36
>PRK15127 multidrug efflux system protein AcrB; Provisional
Probab=78.91 E-value=1.8 Score=38.67 Aligned_cols=70 Identities=9% Similarity=0.046 Sum_probs=53.3
Q ss_pred hhhhcccchhhhhhccceeeEeeecchhhhHhhhhhcc--CCCCCHHHHHHHHHhhhchHHHHHHHHHHHHH
Q psy16375 7 FRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISI--PSHLDSKIRIAQGLSKEGWSITKNFFLELTVL 76 (89)
Q Consensus 7 ~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t--~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f 76 (89)
++.++|.....++-.-.-+.+++.+||-+++.....+. ....+..+.+.++.++.+++++-+.+|-++.|
T Consensus 382 ~~~~~g~~ln~~sl~glil~iGi~VD~aIvvie~i~~~~~~~G~~~~~A~~~~~~~v~~~i~~~tltt~~~f 453 (1049)
T PRK15127 382 VLAAFGFSINTLTMFGMVLAIGLLVDDAIVVVENVERVMAEEGLPPKEATRKSMGQIQGALVGIAMVLSAVF 453 (1049)
T ss_pred HHHHhCCCHhHHHHHHHHHHHHhhccceEEEeHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456766666655555566788899999999987653 34567889999999999999999988877655
No 37
>PRK05812 secD preprotein translocase subunit SecD; Reviewed
Probab=77.90 E-value=3.6 Score=34.36 Aligned_cols=75 Identities=11% Similarity=0.022 Sum_probs=55.8
Q ss_pred hhhhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhc-cCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHH
Q psy16375 4 LTQFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIIS-IPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTA 78 (89)
Q Consensus 4 ~~~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~-t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~i 78 (89)
.-++++++|...|+..-.==.+.+++.+||-.++..-+++ .....+.++.+.++.++...+|.-+.+|-+..+..
T Consensus 372 ~l~~~~l~g~~l~l~siaGlil~iG~~VD~~IVI~ErIreel~~g~~~~~Ai~~~~~~~~~~Il~s~lTTlia~l~ 447 (498)
T PRK05812 372 ILAVLSLLGATLTLPGIAGIVLTIGMAVDANVLIFERIREELREGRSLRSAIEAGFKRAFSTILDSNITTLIAAII 447 (498)
T ss_pred HHHHHHHHCCCchHHHHHHHHHhheeEEeceEEEeHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467788898888822222246778899999999876553 23445788999999999999999998888777643
No 38
>PF00873 ACR_tran: AcrB/AcrD/AcrF family; InterPro: IPR001036 The Escherichia coli acrA and acrB genes encode a multi-drug efflux system that is believed to protect the bacterium against hydrophobic inhibitors []. The E. coli AcrB protein is a transporter that is energized by proton-motive force and that shows the widest substrate specificity among all known multidrug pumps, ranging from most of the currently used antibiotics, disinfectants, dyes, and detergents to simple solvents. The structure of ligand-free AcrB shows that it is a homotrimer of 110kDa per subunit. Each subunit contains 12 transmembrane helices and two large periplasmic domains (each exceeding 300 residues) between helices 1 and 2, and helices 7 and 8. X-ray analysis of the overexpressed AcrB protein demonstrated that the three periplasmic domains form, in the centre, a funnel-like structure and a connected narrow (or closed) pore. The pore is opened to the periplasm through three vestibules located at subunit interfaces. These vestibules were proposed to allow direct access of drugs from the periplasm as well as the outer leaflet of the cytoplasmic membrane. The three transmembrane domains of AcrB protomers form a large, 30A-wide central cavity that spans the cytoplasmic membrane and extends to the cytoplasm X-ray crystallographic structures of the trimeric AcrB pump from E. coli with four structurally diverse ligands demonstrated that three molecules of ligand bind simultaneously to the extremely large central cavity of 5000 cubic angstroms, primarily by hydrophobic, aromatic stacking and van der Waals interactions. Each ligand uses a slightly different subset of AcrB residues for binding. The bound ligand molecules often interact with each other, stabilising the binding. ; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2V50_B 1T9U_A 2HRT_B 3NOC_A 3NOG_A 4DX7_A 1OYD_A 3AOB_A 1T9V_A 4DX6_B ....
Probab=75.38 E-value=1.1 Score=39.51 Aligned_cols=53 Identities=13% Similarity=0.229 Sum_probs=43.9
Q ss_pred eeEeee--cchhhhHhhhhhcc-CC-CCCHHHHHHHHHhhhchHHHHHHHHHHHHHH
Q psy16375 25 FIIIVG--LENILVLTKSIISI-PS-HLDSKIRIAQGLSKEGWSITKNFFLELTVLT 77 (89)
Q Consensus 25 LVl~IG--vDniflit~av~~t-~~-~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~ 77 (89)
|++++| +||-+++....++. .. ..+..+...++.+|.+++++.+.+|-++.|.
T Consensus 391 l~laiG~lVDdaIVV~Eni~r~~~~~g~~~~~Aa~~~~~ev~~~i~~stlTti~vF~ 447 (1021)
T PF00873_consen 391 LILAIGMLVDDAIVVVENIYRHLEEEGKSPLEAAIEGTKEVAPPILASTLTTIAVFL 447 (1021)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred HHHhcccccccceehHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 455778 99999999987643 22 5667899999999999999999999998874
No 39
>PRK10503 multidrug efflux system subunit MdtB; Provisional
Probab=75.32 E-value=3.8 Score=36.65 Aligned_cols=71 Identities=11% Similarity=0.047 Sum_probs=52.1
Q ss_pred hhhhcccchhhhhhccceeeEeeecchhhhHhhhhhcc-CCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHH
Q psy16375 7 FRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISI-PSHLDSKIRIAQGLSKEGWSITKNFFLELTVLT 77 (89)
Q Consensus 7 ~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t-~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~ 77 (89)
++.++|.....++-.-.-+.+++.+||-+++.....+. ....+..+...++.++.++++..+.+|-++.|.
T Consensus 385 ~l~~~g~~ln~~sl~gl~~~iG~~Vd~aIvv~e~i~~~~~~g~~~~~aa~~~~~~~~~~vl~~tltti~~f~ 456 (1040)
T PRK10503 385 VMVFLDFSINNLTLMALTIATGFVVDDAIVVIENISRYIEKGEKPLAAALKGAGEIGFTIISLTFSLIAVLI 456 (1040)
T ss_pred HHHHhCCCHHHHHHHHHHHheeeeecCeEEEehhHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566776666555555556777799999998875532 334456788889999999999999998888774
No 40
>PF03292 Pox_P4B: Poxvirus P4B major core protein; InterPro: IPR004972 This family is the Poxvirus P4B major core protein. It is a precursor for one of the two most abundant structural components of the virion (major core proteins 4A and 4B).
Probab=65.89 E-value=3 Score=36.37 Aligned_cols=26 Identities=19% Similarity=0.397 Sum_probs=22.8
Q ss_pred hhhhhhhhhcccchhhhh--------------hccceeeE
Q psy16375 2 AMLTQFRKPNGVLPYFII--------------IVLPYFII 27 (89)
Q Consensus 2 ~~~~~~~s~~gv~~tli~--------------eViPFLVl 27 (89)
|||++++|.+|.|||+++ +-.||+|+
T Consensus 367 qmLasILSI~sfrPTLVsv~~~~~~~sydm~lQsVpyivv 406 (666)
T PF03292_consen 367 QMLASILSIFSFRPTLVSVPKPGSGNSYDMGLQSVPYIVV 406 (666)
T ss_pred HHHHHHHHHhcccceEEEecCCcccccccccccccceEEE
Confidence 699999999999999965 66788885
No 41
>PRK13024 bifunctional preprotein translocase subunit SecD/SecF; Reviewed
Probab=65.52 E-value=6.5 Score=34.32 Aligned_cols=74 Identities=14% Similarity=0.083 Sum_probs=56.5
Q ss_pred hhhhhhhhcccchhh-hhhccceeeEeeecchhhhHhhhhhcc---CCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHH
Q psy16375 3 MLTQFRKPNGVLPYF-IIIVLPYFIIIVGLENILVLTKSIISI---PSHLDSKIRIAQGLSKEGWSITKNFFLELTVLT 77 (89)
Q Consensus 3 ~~~~~~s~~gv~~tl-i~eViPFLVl~IGvDniflit~av~~t---~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~ 77 (89)
+.-|+++++|+..++ ....+ -.+++.++||-.++..-+++. .++.+.++.+.+++.+.......|++|-++.+.
T Consensus 616 i~~g~~~l~~~~~~~~~iaal-l~iiGysvndtIvi~dRirE~~~~~~~~~~~~~v~~si~~tl~rti~ts~tt~~~~~ 693 (755)
T PRK13024 616 IVIGFFSLFRLEVDLTFIAAI-LTIIGYSINDTVVVFDRIRENLRLYKKKDLREIVNKSINQTLSRTINTSLTTLLVLL 693 (755)
T ss_pred HHHHHHHHhcceEcHHHHHHH-HHHHhheeeceEEEEhHHHHHhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345889999999988 22222 256788999999998877653 356789999999999999888888888766553
No 42
>PRK12933 secD preprotein translocase subunit SecD; Reviewed
Probab=58.73 E-value=11 Score=32.67 Aligned_cols=75 Identities=11% Similarity=0.049 Sum_probs=56.0
Q ss_pred hhhhhhhhc-ccchhh--hhhccceeeEeeecchhhhHhhhhhcc-CCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHH
Q psy16375 3 MLTQFRKPN-GVLPYF--IIIVLPYFIIIVGLENILVLTKSIISI-PSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTA 78 (89)
Q Consensus 3 ~~~~~~s~~-gv~~tl--i~eViPFLVl~IGvDniflit~av~~t-~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~i 78 (89)
+.-++++++ |...|+ |+..+ |.++..+||-.++..-+++. ....+..+.+.++.+++.+.|.-+.+|-+.+|..
T Consensus 478 l~l~vmsll~G~tLtLpgIAGiI--LtIGmaVDanIVI~ERIrEel~~G~s~~~Ai~~G~~~a~~~IldanlTTlia~lp 555 (604)
T PRK12933 478 CLFGLLALIPGAVLTLPGIAGLV--LTVGMAVDTNVLIFERIKDKLKEGRSFAQAIDTGFDSAFSTIFDANFTTMITAVV 555 (604)
T ss_pred HHHHHHHHHhCCcccHHHHHHHH--HHHHhhccCcEEEehHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445677887 888888 44443 55678899999988766432 2234678889999999999999999998888654
Q ss_pred h
Q psy16375 79 G 79 (89)
Q Consensus 79 G 79 (89)
=
T Consensus 556 L 556 (604)
T PRK12933 556 L 556 (604)
T ss_pred H
Confidence 3
No 43
>TIGR00914 2A0601 heavy metal efflux pump (cobalt-zinc-cadmium). This model represents a family of H+/heavy metal cation antiporters. This family is one of several subfamilies within the scope of pfam model pfam00873.
Probab=57.33 E-value=6 Score=35.30 Aligned_cols=67 Identities=4% Similarity=-0.035 Sum_probs=47.1
Q ss_pred hhcccchhhhhhccceeeEeeecchhhhHhhhhhccCC------C-----CCHHHHHHHHHhhhchHHHHHHHHHHHHHH
Q psy16375 9 KPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISIPS------H-----LDSKIRIAQGLSKEGWSITKNFFLELTVLT 77 (89)
Q Consensus 9 s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t~~------~-----~~v~~RIa~~ls~~G~SIt~t~ltei~~f~ 77 (89)
.++|+....++-. -|++++-+||-+++.....+.-. . .+..+.+.++.++.+.+|+-+.+|-++.|.
T Consensus 387 ~~~g~sln~~sl~--~l~iGilVDdaIVvvE~i~r~~~~~~~~~g~~~~~~~~~~A~~~g~~~~~~pil~stlTti~~fl 464 (1051)
T TIGR00914 387 VFQGISANLMSLG--ALDFGLIVDGAVVIVENAHRRLAEAQHHHGRQLTLKERLHEVFAASREVRRPLIFGQLIITLVFL 464 (1051)
T ss_pred HHhCCcHHHHHHH--HHHHHhhhcCcEEeehHHHHHHHhcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555444432 35568889999998877543211 1 345577889999999999999999988875
No 44
>TIGR00914 2A0601 heavy metal efflux pump (cobalt-zinc-cadmium). This model represents a family of H+/heavy metal cation antiporters. This family is one of several subfamilies within the scope of pfam model pfam00873.
Probab=57.30 E-value=11 Score=33.66 Aligned_cols=60 Identities=12% Similarity=-0.052 Sum_probs=45.1
Q ss_pred hhhccceeeEeeecchhhhHhhhhhc-cCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHH
Q psy16375 18 IIIVLPYFIIIVGLENILVLTKSIIS-IPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLT 77 (89)
Q Consensus 18 i~eViPFLVl~IGvDniflit~av~~-t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~ 77 (89)
.+-.=..+.+++-+||-+++.....+ .....+.++.+.++-.+....|+.|++|-++.|.
T Consensus 933 ~s~~G~i~l~GivV~naIvlv~~~~~~~~~g~~~~~Ai~~a~~~r~rpIl~ttltti~g~l 993 (1051)
T TIGR00914 933 SAAVGFIALSGVAVLNGLVMISFIRKLLEEGPSLDEAVYEGALTRVRPVLMTALVASLGFV 993 (1051)
T ss_pred HHHHHHHHHHHHHHhhhhHHHHHHHHHHHcCCCHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence 33333444568889999999987663 3445778899999988888889999999988664
No 45
>COG1279 Lysine efflux permease [General function prediction only]
Probab=56.69 E-value=11 Score=28.49 Aligned_cols=41 Identities=20% Similarity=0.250 Sum_probs=28.0
Q ss_pred eeEeeecchhhhHhhhhhccCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHhh
Q psy16375 25 FIIIVGLENILVLTKSIISIPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAGL 80 (89)
Q Consensus 25 LVl~IGvDniflit~av~~t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG~ 80 (89)
|++.||..|.|++....++ ++.=+.+....+||+.....|.
T Consensus 15 LI~pIGaQNaFVl~QGi~r---------------~~~l~~~~~c~i~D~~Li~~gv 55 (202)
T COG1279 15 LILPIGAQNAFVLNQGIRR---------------EYVLPIALLCAISDIVLISAGV 55 (202)
T ss_pred HHHhccchhHHHHHHHHhh---------------ccHHHHHHHHHHHHHHHHHHHH
Confidence 4678999999999888766 2333455566667766655553
No 46
>PRK14726 bifunctional preprotein translocase subunit SecD/SecF; Provisional
Probab=56.34 E-value=9.6 Score=34.08 Aligned_cols=74 Identities=11% Similarity=0.027 Sum_probs=55.0
Q ss_pred hhhhhhhcccchhh--hhhccceeeEeeecchhhhHhhhhhcc-CCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHHh
Q psy16375 4 LTQFRKPNGVLPYF--IIIVLPYFIIIVGLENILVLTKSIISI-PSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTAG 79 (89)
Q Consensus 4 ~~~~~s~~gv~~tl--i~eViPFLVl~IGvDniflit~av~~t-~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~iG 79 (89)
.-++++++|...|+ |+-. -+.++..+||-.++..-+++. ....+..+.+.++.+|+..+|.-+.+|-+.+|..=
T Consensus 411 ~l~~l~l~g~tLnl~~IaGi--il~IGm~VD~~IVI~ErIreel~~G~s~~~Ai~~g~~~a~~~Il~s~lTTlia~lpL 487 (855)
T PRK14726 411 IIAVLSLLGATLTLPGIAGI--VLTIGMAVDSNVLIYERIREEEKTGHSLIQALDRGFSRALATIVDANVTILIAAVIL 487 (855)
T ss_pred HHHHHHHhCcceeHHHHHHH--HHHHHhhhCceEEeHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34677888988888 3333 245577788888888766542 23456778899999999999999999998886543
No 47
>COG0342 SecD Preprotein translocase subunit SecD [Intracellular trafficking and secretion]
Probab=55.35 E-value=12 Score=31.43 Aligned_cols=71 Identities=11% Similarity=0.066 Sum_probs=55.6
Q ss_pred hhhhhhhhcccchhh--hhhccceeeEeeecchhhhHhhhhhcc-CCCCCHHHHHHHHHhhhchHHHHHHHHHHHH
Q psy16375 3 MLTQFRKPNGVLPYF--IIIVLPYFIIIVGLENILVLTKSIISI-PSHLDSKIRIAQGLSKEGWSITKNFFLELTV 75 (89)
Q Consensus 3 ~~~~~~s~~gv~~tl--i~eViPFLVl~IGvDniflit~av~~t-~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~ 75 (89)
++-+.++++|-..|| |+-.+ |-++.+||.-.++...+.+. ....++.+++..+.+|+-.+|.=+.+|-+.+
T Consensus 381 lil~vls~lgatLtLpgIAGiI--LtIGmaVDaNVlI~ERIrEElr~G~s~~~ai~~G~~rAf~tI~DsN~TTlia 454 (506)
T COG0342 381 LILAVLSLLGATLTLPGIAGII--LTIGMAVDANVLIFERIREELRNGKSVLSAIDAGFKRAFSTILDSNATTLIA 454 (506)
T ss_pred HHHHHHHHhcccccchhhhHHH--HhhhhcccccEEeeHHHHHHHhcCccHHHHHHHHHHHHHHHHHHhchHHHHH
Confidence 566788889888888 77654 66777899999999887743 3347889999999999999998877776554
No 48
>PRK08578 preprotein translocase subunit SecF; Reviewed
Probab=53.05 E-value=21 Score=27.55 Aligned_cols=53 Identities=11% Similarity=0.125 Sum_probs=39.0
Q ss_pred hhhhhhcccchhh-hhhccceeeEeeecchhhhHhhhhhccCCCCCHHHHHHHHHhh
Q psy16375 5 TQFRKPNGVLPYF-IIIVLPYFIIIVGLENILVLTKSIISIPSHLDSKIRIAQGLSK 60 (89)
Q Consensus 5 ~~~~s~~gv~~tl-i~eViPFLVl~IGvDniflit~av~~t~~~~~v~~RIa~~ls~ 60 (89)
-++++++|...++ ..-.++ .++++.+||-.++..-+.+.. .+.++.+.+++++
T Consensus 176 lg~~~l~g~~ln~~~i~gll-~iiG~sVdd~IVv~dri~~~~--~~~~eai~~a~~~ 229 (292)
T PRK08578 176 LALMNLFGIELSLATVAALL-MLIGYSVDSDILLTTRVLKRR--GTFDESIKRAMRT 229 (292)
T ss_pred HHHHHHHCccccHHHHHHHH-HHHheeecCcEEEehHHHHcc--CCHHHHHHHHHHH
Confidence 3677888988888 233333 568999999998888776542 4788899999854
No 49
>COG3340 PepE Peptidase E [Amino acid transport and metabolism]
Probab=39.93 E-value=11 Score=28.99 Aligned_cols=39 Identities=28% Similarity=0.326 Sum_probs=35.3
Q ss_pred eEeeecchhhhHhhhhhccCCCCCHHHHHHHHHhhhchH
Q psy16375 26 IIIVGLENILVLTKSIISIPSHLDSKIRIAQGLSKEGWS 64 (89)
Q Consensus 26 Vl~IGvDniflit~av~~t~~~~~v~~RIa~~ls~~G~S 64 (89)
++.||=-|.|-+...|.++.-+..+.+|+..|.==+|||
T Consensus 87 ~IyVgGGNTF~LL~~lke~gld~iIr~~vk~G~~YiG~S 125 (224)
T COG3340 87 IIYVGGGNTFNLLQELKETGLDDIIRERVKAGTPYIGWS 125 (224)
T ss_pred EEEECCchHHHHHHHHHHhCcHHHHHHHHHcCCceEEec
Confidence 466788899999999999999999999999998888887
No 50
>COG0841 AcrB Cation/multidrug efflux pump [Defense mechanisms]
Probab=39.14 E-value=18 Score=32.77 Aligned_cols=53 Identities=11% Similarity=0.272 Sum_probs=41.7
Q ss_pred eeEeee--cchhhhHhhhhhccCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHH
Q psy16375 25 FIIIVG--LENILVLTKSIISIPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLT 77 (89)
Q Consensus 25 LVl~IG--vDniflit~av~~t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~ 77 (89)
|+|+|| |||-++.+.-+.+.-..++..+...++.+|.+..+.-+.++=+..|.
T Consensus 389 LiLAiGllVDDAIVVvENI~R~~~G~~p~~Aa~~a~~ei~~~via~TlvliaVF~ 443 (1009)
T COG0841 389 LVLAIGLLVDDAIVVVENIERHMRGLPPREAAEKAMGEIGGAVIAITLVLIAVFL 443 (1009)
T ss_pred HHHhhheeEeccEEEEeeEEeecCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555 68888888877663338888999999999999999988888777764
No 51
>PF08945 Bclx_interact: Bcl-x interacting, BH3 domain; InterPro: IPR015040 Apoptosis, or programmed cell death (PCD), is a common and evolutionarily conserved property of all metazoans []. In many biological processes, apoptosis is required to eliminate supernumerary or dangerous (such as pre-cancerous) cells and to promote normal development. Dysregulation of apoptosis can, therefore, contribute to the development of many major diseases including cancer, autoimmunity and neurodegenerative disorders. In most cases, proteins of the caspase family execute the genetic programme that leads to cell death. Bcl-2 proteins are central regulators of caspase activation, and play a key role in cell death by regulating the integrity of the mitochondrial and endoplasmic reticulum (ER) membranes []. At least 20 Bcl-2 proteins have been reported in mammals, and several others have been identified in viruses. Bcl-2 family proteins fall roughly into three subtypes, which either promote cell survival (anti-apoptotic) or trigger cell death (pro-apoptotic). All members contain at least one of four conserved motifs, termed Bcl-2 Homology (BH) domains. Bcl-2 subfamily proteins, which contain at least BH1 and BH2, promote cell survival by inhibiting the adapters needed for the activation of caspases. Pro-apoptotic members potentially exert their effects by displacing the adapters from the pro-survival proteins; these proteins belong either to the Bax subfamily, which contain BH1-BH3, or to the BH3 subfamily, which mostly only feature BH3 []. Thus, the balance between antagonistic family members is believed to play a role in determining cell fate. Members of the wider Bcl-2 family, which also includes Bcl-x, Bcl-w and Mcl-1, are described by their similarity to Bcl-2 protein, a member of the pro-survival Bcl-2 subfamily []. Full-length Bcl-2 proteins feature all four BH domains, seven alpha-helices, and a C-terminal hydrophobic motif that targets the protein to the outer mitochondrial membrane, ER and nuclear envelope. Members of this entry induce apoptosis. The isoform BimL is more potent than the isoform BimEL. They form heterodimers with a number of antiapoptotic Bcl-2 proteins including Mcl-1, Bcl-2, Bcl-X(L), BFL-1, and BHRF1, but do not heterodimerise with proapoptotic proteins such as BAD, BOK, BAX or BAK. They are peripheral membrane proteins, associated with intracytoplasmic membranes. The BH3 motif is required for Bcl-2 binding and cytotoxicity. After antigen-driven expansion, the majority of T cells involved in an immune response die rapidly by apoptosis dependent on the Bcl-2 related proteins; Bim and Bax or Bak []. Bcl-xL regulates Bax and Bim is an important regulator of bcl-x deficiency induced cell death during hematopoiesis and testicular development in mice []. Bim(L) displaces Bcl-x(L) in the mitochondria and promotes Bax translocation during TNFalpha-induced apoptosis []. A potent inhibitor of antiapoptotic Bcl-2 family members, including Bcl-X(L), is AT-101 []. The immunophilin protein FKBP8 and its splice variant are Bcl-XL-interacting proteins and regulate the apoptotic signalling pathways in the RPE []. This protein is a long alpha helix, required for interaction with Bcl-x. It is found in BAM, Bim and Bcl2-like protein 11 []. ; PDB: 2NL9_B 2V6Q_B 3KJ0_B 3KJ1_B 3FDL_B 3D7V_B 3IO8_D 2K7W_B 2VM6_B 3IO9_B ....
Probab=38.57 E-value=19 Score=20.76 Aligned_cols=26 Identities=27% Similarity=0.355 Sum_probs=16.3
Q ss_pred ccCCCCCHHHHHHHHHhhhchHHHHH
Q psy16375 43 SIPSHLDSKIRIAQGLSKEGWSITKN 68 (89)
Q Consensus 43 ~t~~~~~v~~RIa~~ls~~G~SIt~t 68 (89)
+.|.+++.|..||+-|.++|=..--+
T Consensus 9 ~~P~~~~PE~wiAqELRRIgDEFnas 34 (40)
T PF08945_consen 9 AEPVDMRPEIWIAQELRRIGDEFNAS 34 (40)
T ss_dssp ------HHHHHHHHHHHHHHHHHHHH
T ss_pred cCCccCCHHHHHHHHHHHHHHHhccc
Confidence 45677888999999999999665443
No 52
>PRK12911 bifunctional preprotein translocase subunit SecD/SecF; Reviewed
Probab=30.34 E-value=45 Score=31.76 Aligned_cols=71 Identities=6% Similarity=-0.055 Sum_probs=53.1
Q ss_pred hhhhhcccchhh--hhhccceeeEeeecchhhhHhhhhhc-cCCCCCHHHHHHHHHhhhchHHHHHHHHHHHHHHH
Q psy16375 6 QFRKPNGVLPYF--IIIVLPYFIIIVGLENILVLTKSIIS-IPSHLDSKIRIAQGLSKEGWSITKNFFLELTVLTA 78 (89)
Q Consensus 6 ~~~s~~gv~~tl--i~eViPFLVl~IGvDniflit~av~~-t~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f~i 78 (89)
+.++++|...|+ |+.+ .+.+++.+||-.++..-+.+ .....+..+.+.++.++...+|.-+.+|-+..+..
T Consensus 950 g~LsLlGitLTLpgIAGI--ILlIGmAVDdnIVIfERIREELr~Gksl~eAI~~G~~~afs~ILdTnLTTLIA~lP 1023 (1403)
T PRK12911 950 AALQYLDAPLTLSGLAGI--VLAMGMAVDANVLVFERIREEYLLSRSLSESVEAGYKKAFSAIFDSNLTTILASAL 1023 (1403)
T ss_pred HHHHHHCCCchHHHHHHH--HHHHHHhhcCCEEEehHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566788888888 3333 35667789999988865543 12245788999999999999999999998887654
No 53
>PRK13021 secF preprotein translocase subunit SecF; Reviewed
Probab=25.27 E-value=62 Score=25.34 Aligned_cols=69 Identities=13% Similarity=0.042 Sum_probs=44.9
Q ss_pred hhhhhcccchhh--hhhccceeeEeeecchhhhHhhhhhcc---CCCCCHHHHHHHHHhhhchHHHHHHHHHHHHH
Q psy16375 6 QFRKPNGVLPYF--IIIVLPYFIIIVGLENILVLTKSIISI---PSHLDSKIRIAQGLSKEGWSITKNFFLELTVL 76 (89)
Q Consensus 6 ~~~s~~gv~~tl--i~eViPFLVl~IGvDniflit~av~~t---~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f 76 (89)
+.++++|...++ ++..+ .++++.+||-.++..-.++. .++.+.+|.+.++.++.=..+..|++|-++.+
T Consensus 168 ~~l~l~g~~l~~~~iaglL--tliG~svnd~IVi~drire~~~~~~~~~~~e~i~~ai~~~lrr~l~TslTt~l~l 241 (297)
T PRK13021 168 AFFALTQMEFNLTVLAAVL--AILGYSLNDSIIIADRIRELLIAKPKLAIQEINNQAIVATFSRTMVTSGTTLMTV 241 (297)
T ss_pred HHHHHHCCCccHHHHHHHH--HHHHHeeeCCEEEeeHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666766665 33332 35677889988888776633 34567888888886666556777777666553
No 54
>TIGR03050 PS_I_psaK_plant photosystem I reaction center PsaK, plant form. This protein family is based on a model that separates the photosystem I PsaK subunit of chloroplasts from chloroplast PsaG protein and from Cyanobacterial PsaK, both of which show sequence similarity.
Probab=21.73 E-value=79 Score=20.85 Aligned_cols=22 Identities=18% Similarity=0.095 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHhhhccCCccc
Q psy16375 67 KNFFLELTVLTAGLLTFFPVIQ 88 (89)
Q Consensus 67 ~t~ltei~~f~iG~~t~~Pavq 88 (89)
+=..|+.+++++|-|+..|.++
T Consensus 9 IMi~~n~lal~~Grf~i~p~~~ 30 (83)
T TIGR03050 9 IMVTSTTLMLFAGRFGLAPSAN 30 (83)
T ss_pred HHHHHHHHHHHHHHHhcchhhh
Confidence 4457899999999999988764
No 55
>PRK14726 bifunctional preprotein translocase subunit SecD/SecF; Provisional
Probab=20.78 E-value=88 Score=28.19 Aligned_cols=73 Identities=12% Similarity=0.007 Sum_probs=44.7
Q ss_pred hhhhhhhcccchhhhhhccceeeEeeecchhhhHhhhhhcc---CCCCCHHHHHHHHHhhhchHHHHHHHHHHHHH
Q psy16375 4 LTQFRKPNGVLPYFIIIVLPYFIIIVGLENILVLTKSIISI---PSHLDSKIRIAQGLSKEGWSITKNFFLELTVL 76 (89)
Q Consensus 4 ~~~~~s~~gv~~tli~eViPFLVl~IGvDniflit~av~~t---~~~~~v~~RIa~~ls~~G~SIt~t~ltei~~f 76 (89)
.-|+++++|...++.+-.-=-.++++++||-.++..-+++. .+..+.++.+..++.+.-..+..|++|-++.+
T Consensus 712 ~~g~~~l~g~~ls~~~iaglLtliGysvndtIVi~DRIrE~~~~~~~~~~~~~~~~si~~tl~Rii~TslTTll~l 787 (855)
T PRK14726 712 TLGLFVLTGIEFNLTSIAAILTIVGYSLNDTVVVYDRVRENLRRYKKMPLPILIDASINQTLSRTVLTSATTLLAL 787 (855)
T ss_pred HHHHHHHHCCCccHHHHHHHHHHHHHeeeCcEEEehHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44778888988887222222246788999999998876532 23455444444444444444777777766654
Done!