Query 034408
Match_columns 95
No_of_seqs 127 out of 1006
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 02:32:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034408.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034408hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0534 NorM Na+-driven multid 99.3 9.5E-12 2.1E-16 98.5 8.8 65 28-93 12-76 (455)
2 PRK10189 MATE family multidrug 99.1 4.7E-10 1E-14 89.1 9.5 68 25-93 19-88 (478)
3 PRK10367 DNA-damage-inducible 99.1 5E-10 1.1E-14 88.1 8.1 64 28-92 4-68 (441)
4 KOG1347 Uncharacterized membra 99.0 5.6E-10 1.2E-14 89.6 6.8 69 25-93 20-88 (473)
5 PRK00187 multidrug efflux prot 99.0 4E-09 8.7E-14 83.1 9.6 63 29-92 6-68 (464)
6 PRK01766 multidrug efflux prot 98.8 5.7E-08 1.2E-12 75.6 9.8 65 27-92 6-70 (456)
7 PRK09575 vmrA multidrug efflux 98.7 4.2E-08 9.2E-13 76.9 8.0 61 30-91 9-70 (453)
8 PRK00187 multidrug efflux prot 98.6 2.1E-07 4.5E-12 73.4 8.9 65 28-93 231-295 (464)
9 PRK01766 multidrug efflux prot 98.3 3.4E-06 7.3E-11 65.7 8.3 65 28-93 234-298 (456)
10 PF01554 MatE: MatE; InterPro 97.9 9.6E-06 2.1E-10 54.2 3.3 52 41-93 1-52 (162)
11 COG0534 NorM Na+-driven multid 97.9 6.2E-05 1.3E-09 59.8 8.1 67 26-93 234-300 (455)
12 PRK10367 DNA-damage-inducible 97.9 9.9E-05 2.1E-09 58.2 8.6 63 30-93 229-291 (441)
13 PRK10189 MATE family multidrug 97.7 0.0002 4.4E-09 57.0 8.5 65 28-93 254-318 (478)
14 TIGR00797 matE putative efflux 97.7 0.00034 7.5E-09 51.7 8.8 54 28-81 211-264 (342)
15 TIGR00797 matE putative efflux 97.4 0.00076 1.6E-08 49.9 6.9 52 41-93 1-52 (342)
16 PRK09575 vmrA multidrug efflux 97.3 0.0017 3.7E-08 51.0 8.6 65 28-93 229-294 (453)
17 PRK15099 O-antigen translocase 97.2 0.0042 9.1E-08 47.8 9.7 63 29-91 211-274 (416)
18 TIGR01695 mviN integral membra 97.1 0.0043 9.3E-08 48.4 8.6 53 29-81 219-271 (502)
19 PF01943 Polysacc_synt: Polysa 96.9 0.019 4E-07 40.4 9.5 53 29-81 201-254 (273)
20 TIGR02900 spore_V_B stage V sp 96.3 0.015 3.2E-07 45.1 6.7 46 36-81 2-48 (488)
21 TIGR01695 mviN integral membra 96.2 0.031 6.6E-07 43.6 7.6 47 35-81 2-50 (502)
22 PRK10459 colanic acid exporter 95.5 0.087 1.9E-06 41.3 7.7 52 29-80 203-255 (492)
23 TIGR02900 spore_V_B stage V sp 95.3 0.14 3E-06 39.7 8.3 35 29-63 221-255 (488)
24 PF13440 Polysacc_synt_3: Poly 95.1 0.43 9.4E-06 33.3 9.7 48 34-81 184-232 (251)
25 PF03023 MVIN: MviN-like prote 94.7 0.36 7.8E-06 38.3 9.1 52 30-81 195-246 (451)
26 COG2244 RfbX Membrane protein 93.7 0.29 6.3E-06 38.1 6.7 49 29-77 209-258 (480)
27 KOG1347 Uncharacterized membra 80.0 11 0.00023 30.7 7.4 63 29-92 243-307 (473)
28 COG0728 MviN Uncharacterized m 77.8 22 0.00049 29.5 8.7 52 30-81 229-280 (518)
29 PRK15099 O-antigen translocase 59.1 44 0.00096 25.6 6.4 50 42-91 10-60 (416)
30 PF01943 Polysacc_synt: Polysa 55.6 66 0.0014 22.2 7.4 53 39-91 5-58 (273)
31 PF11712 Vma12: Endoplasmic re 52.4 56 0.0012 22.1 5.4 24 44-67 79-102 (142)
32 PRK10459 colanic acid exporter 41.9 1.4E+02 0.0029 23.4 6.7 40 42-81 14-54 (492)
33 PF07260 ANKH: Progressive ank 41.9 1.4E+02 0.0029 23.9 6.6 49 31-80 9-61 (345)
34 PF02487 CLN3: CLN3 protein; 35.5 1E+02 0.0022 24.8 5.2 31 28-58 238-270 (402)
35 PF04142 Nuc_sug_transp: Nucle 32.7 1.4E+02 0.0031 22.0 5.3 27 24-50 6-32 (244)
36 COG2244 RfbX Membrane protein 29.3 1.2E+02 0.0027 23.4 4.7 51 31-81 4-55 (480)
37 KOG3970 Predicted E3 ubiquitin 26.2 2.3E+02 0.0051 21.7 5.4 32 35-66 249-280 (299)
38 PF04172 LrgB: LrgB-like famil 25.6 2.8E+02 0.006 20.4 8.5 37 27-63 65-101 (215)
39 PRK04288 antiholin-like protei 25.5 2.9E+02 0.0063 20.7 8.0 37 27-63 81-117 (232)
40 COG1346 LrgB Putative effector 24.6 3.1E+02 0.0067 20.7 6.4 37 27-63 78-114 (230)
41 PF10797 YhfT: Protein of unkn 21.2 48 0.001 27.1 1.0 37 56-92 33-69 (420)
No 1
>COG0534 NorM Na+-driven multidrug efflux pump [Defense mechanisms]
Probab=99.31 E-value=9.5e-12 Score=98.50 Aligned_cols=65 Identities=23% Similarity=0.227 Sum_probs=58.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcChhHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 034408 28 LWVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHIGATQLAAYSLVFTVLLRFANGILVSTLYLF 93 (95)
Q Consensus 28 ~~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~lG~~aLAavsla~~~~~~~~~~~~~Gl~~a~ 93 (95)
...+.|+++++++|++++|+++.+++++|++|+||+|++++||++++++++++. +++..|+++|.
T Consensus 12 ~~~~~k~l~~la~P~i~~~l~~~l~~~vD~~~vG~~~~~alaav~la~~i~~~~-~~~~~gl~~g~ 76 (455)
T COG0534 12 FKKILKLLLKLAIPIILGNLLQTLYGLVDTFMVGHLGAEALAAVGLANPIFFLI-IAIFIGLGTGT 76 (455)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH-HHHHHHHHHhH
Confidence 455899999999999999999999999999999999999999999999999876 66666666654
No 2
>PRK10189 MATE family multidrug exporter; Provisional
Probab=99.11 E-value=4.7e-10 Score=89.07 Aligned_cols=68 Identities=12% Similarity=0.163 Sum_probs=59.2
Q ss_pred HHhHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcChhHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 034408 25 RQKLWVE--SKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHIGATQLAAYSLVFTVLLRFANGILVSTLYLF 93 (95)
Q Consensus 25 ~~~~~~e--~k~ll~la~P~ils~l~~~~~~ivdtifvG~lG~~aLAavsla~~~~~~~~~~~~~Gl~~a~ 93 (95)
|++.|+. .|+++++++|++++++++.+++++|++|+||+|++++||+++++++.++. +.+..|+++|.
T Consensus 19 ~~~~~~~~~~k~il~la~P~~~~~~~~~~~~~vd~~~vg~lG~~alAA~~i~~~i~~~~-~~~~~gl~~g~ 88 (478)
T PRK10189 19 KRKSYRVLFWREITPLAVPIFIENLCVLLMGVLSTFLVSWLGKEAMAGVGLADSFNMVI-MAFFAAIDLGT 88 (478)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHH-HHHHHHHHHHH
Confidence 5667765 89999999999999999999999999999999999999999999997765 66666666553
No 3
>PRK10367 DNA-damage-inducible SOS response protein; Provisional
Probab=99.08 E-value=5e-10 Score=88.07 Aligned_cols=64 Identities=27% Similarity=0.306 Sum_probs=54.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc-ChhHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034408 28 LWVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHI-GATQLAAYSLVFTVLLRFANGILVSTLYL 92 (95)
Q Consensus 28 ~~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~l-G~~aLAavsla~~~~~~~~~~~~~Gl~~a 92 (95)
.|++.|+++|+++|++++|+++.+++++|++|+||+ |++++||++++.++.+.. +.+..|++.|
T Consensus 4 ~~~~~k~il~la~P~~~~~~~~~~~~~vd~~~vg~l~g~~alAa~~l~~~i~~~~-~~~~~~~~~g 68 (441)
T PRK10367 4 LTSSDKALWRLALPMIFSNITVPLLGLVDTAVIGHLDSPVYLGGVAVGATATSFL-FMLLLFLRMS 68 (441)
T ss_pred ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHH-HHHHHHHHHH
Confidence 367899999999999999999999999999999999 677999999999887754 4444444443
No 4
>KOG1347 consensus Uncharacterized membrane protein, predicted efflux pump [General function prediction only]
Probab=99.03 E-value=5.6e-10 Score=89.62 Aligned_cols=69 Identities=35% Similarity=0.357 Sum_probs=64.5
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcChhHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 034408 25 RQKLWVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHIGATQLAAYSLVFTVLLRFANGILVSTLYLF 93 (95)
Q Consensus 25 ~~~~~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~lG~~aLAavsla~~~~~~~~~~~~~Gl~~a~ 93 (95)
++..+.|.|+++++|.|+++.++.+++.+++|++|+||+|+.+||++++++++.+.+++++..|+..+-
T Consensus 20 ~~~~~~e~k~l~~ia~P~i~~~~~~~~~~~is~~f~GhlG~leLaa~sla~s~~n~~~~s~~~gl~~al 88 (473)
T KOG1347|consen 20 FSQLVTESKELARLALPAILTFLAQPLLSLVSTAFAGHLGNLELASVSLANSFANITGVSILLGLQLAL 88 (473)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhhccccchHHHHHHHHHHhhcccchHHhhccchhh
Confidence 344588999999999999999999999999999999999999999999999999999999999998763
No 5
>PRK00187 multidrug efflux protein NorA; Provisional
Probab=98.98 E-value=4e-09 Score=83.12 Aligned_cols=63 Identities=17% Similarity=0.173 Sum_probs=56.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcChhHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034408 29 WVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHIGATQLAAYSLVFTVLLRFANGILVSTLYL 92 (95)
Q Consensus 29 ~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~lG~~aLAavsla~~~~~~~~~~~~~Gl~~a 92 (95)
+++.|+++++++|.+++++++.+++++|++|+||+|++++||++++.++.+++ ..+..|++.|
T Consensus 6 ~~~~k~il~~a~P~~~~~~~~~~~~~~d~~~v~~lg~~alAa~~i~~~i~~~~-~~~~~gl~~~ 68 (464)
T PRK00187 6 TTELKAILRLAGPLIASQLAHMLMVFTDTLMMGRLGPEALAGGGLGAASYSFV-SIFCVGVIAA 68 (464)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHH-HHHHHHHHHH
Confidence 46899999999999999999999999999999999999999999999998765 5555666554
No 6
>PRK01766 multidrug efflux protein; Reviewed
Probab=98.78 E-value=5.7e-08 Score=75.60 Aligned_cols=65 Identities=22% Similarity=0.266 Sum_probs=55.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcChhHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034408 27 KLWVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHIGATQLAAYSLVFTVLLRFANGILVSTLYL 92 (95)
Q Consensus 27 ~~~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~lG~~aLAavsla~~~~~~~~~~~~~Gl~~a 92 (95)
+++++.|+++++++|.+++++++.+++.+|++++||+|++++||++++.++.... +.+..|++.|
T Consensus 6 ~~~~~~~~il~~~~P~~~~~~~~~~~~~~d~~~i~~~g~~~laa~~~~~~~~~~~-~~~~~g~~~a 70 (456)
T PRK01766 6 KYKSEARQLLALALPILLAQVAQTAMGFVDTVMAGGVSATDLAAVAIGTSIWLPV-ILFGHGLLLA 70 (456)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHH-HHHHHHHHHH
Confidence 4566899999999999999999999999999999999999999999998876543 4445555444
No 7
>PRK09575 vmrA multidrug efflux pump VmrA; Reviewed
Probab=98.74 E-value=4.2e-08 Score=76.92 Aligned_cols=61 Identities=25% Similarity=0.335 Sum_probs=52.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc-ChhHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034408 30 VESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHI-GATQLAAYSLVFTVLLRFANGILVSTLY 91 (95)
Q Consensus 30 ~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~l-G~~aLAavsla~~~~~~~~~~~~~Gl~~ 91 (95)
+..|+++++++|++++++++.+++++|++|+||+ |++++||+++++++.++. +++..|++.
T Consensus 9 ~~~k~i~~l~~P~~~~~l~~~l~~~~d~~~lg~~~g~~~laa~~~~~~~~~~~-~~~~~~~~~ 70 (453)
T PRK09575 9 SIYRTFWRYTIPSIAAMLVNGLYQIVDGIFIGHYVGAEGLAGINMAWPVIGII-LGIGLMVGM 70 (453)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHH-HHHHHHHhc
Confidence 4679999999999999999999999999999995 999999999999988754 344444433
No 8
>PRK00187 multidrug efflux protein NorA; Provisional
Probab=98.63 E-value=2.1e-07 Score=73.42 Aligned_cols=65 Identities=23% Similarity=0.268 Sum_probs=57.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcChhHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 034408 28 LWVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHIGATQLAAYSLVFTVLLRFANGILVSTLYLF 93 (95)
Q Consensus 28 ~~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~lG~~aLAavsla~~~~~~~~~~~~~Gl~~a~ 93 (95)
.++..|+++|+++|..+.++++.....+|+.++||+|++++||.++++++.+++ +.+..|++.|.
T Consensus 231 ~~~~~k~il~lg~P~~~~~~~~~~~~~i~~~~i~~~G~~alAa~~i~~~i~~l~-~~~~~gi~~a~ 295 (464)
T PRK00187 231 SRAALRELWRLGLPIGGTYAVEVGLFTFAALCMGALGSTQLAAHQIALQIVSVA-FMVPVGLSYAV 295 (464)
T ss_pred CHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHH-HHHHHHHHHHH
Confidence 456789999999999999999999999999999999999999999999988865 66666666654
No 9
>PRK01766 multidrug efflux protein; Reviewed
Probab=98.32 E-value=3.4e-06 Score=65.69 Aligned_cols=65 Identities=17% Similarity=0.209 Sum_probs=57.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcChhHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 034408 28 LWVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHIGATQLAAYSLVFTVLLRFANGILVSTLYLF 93 (95)
Q Consensus 28 ~~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~lG~~aLAavsla~~~~~~~~~~~~~Gl~~a~ 93 (95)
.++..|+++++++|..++++.+.....++..+++++|++++||.+++.++.++. +.+..|++.|.
T Consensus 234 ~~~~~k~il~l~~P~~~~~~~~~~~~~~~~~~~~~~G~~~lAa~~i~~~i~~~~-~~~~~gl~~a~ 298 (456)
T PRK01766 234 DWAVIKRLLKLGLPIGLAIFFEVSLFAVVTLLVSPLGTVTVAAHQIALNFSSLL-FMLPLSLAMAL 298 (456)
T ss_pred CHHHHHHHHHccchHHHHHHHHHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHH-HHHHHHHHHHH
Confidence 466789999999999999999999999999999999999999999999988766 66666766654
No 10
>PF01554 MatE: MatE; InterPro: IPR002528 Characterised members of the Multi Antimicrobial Extrusion (MATE) family function as drug/sodium antiporters. These proteins mediate resistance to a wide range of cationic dyes, fluroquinolones, aminoglycosides and other structurally diverse antibodies and drugs. MATE proteins are found in bacteria, archaea and eukaryotes. These proteins are predicted to have 12 alpha-helical transmembrane regions, some of the animal proteins may have an additional C-terminal helix. ; GO: 0015238 drug transmembrane transporter activity, 0015297 antiporter activity, 0006855 drug transmembrane transport, 0055085 transmembrane transport, 0016020 membrane; PDB: 3MKU_B 3MKT_B.
Probab=97.93 E-value=9.6e-06 Score=54.17 Aligned_cols=52 Identities=15% Similarity=0.302 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcChhHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 034408 41 PAIFTRFSSFGLNVVSQAFIGHIGATQLAAYSLVFTVLLRFANGILVSTLYLF 93 (95)
Q Consensus 41 P~ils~l~~~~~~ivdtifvG~lG~~aLAavsla~~~~~~~~~~~~~Gl~~a~ 93 (95)
|.+++++++.+.+++|+.++||+|++++|+.+++..+.++. +.+..|++.|.
T Consensus 1 P~~~~~~~~~~~~~~~~~~~~~~g~~~~a~~~i~~~~~~~~-~~~~~g~~~a~ 52 (162)
T PF01554_consen 1 PIALMQLLQVLGFIIDTIFVGRLGPEALAAYGIASSIFSIL-FMLIFGLATAL 52 (162)
T ss_dssp HHHHHHHHHHHHHHHHHHCCHCCTTCCCCHCCHHHHHHHHH-HHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHH-hhhcccccccc
Confidence 89999999999999999999999999999999999999876 55677776654
No 11
>COG0534 NorM Na+-driven multidrug efflux pump [Defense mechanisms]
Probab=97.91 E-value=6.2e-05 Score=59.84 Aligned_cols=67 Identities=13% Similarity=0.092 Sum_probs=60.0
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcChhHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 034408 26 QKLWVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHIGATQLAAYSLVFTVLLRFANGILVSTLYLF 93 (95)
Q Consensus 26 ~~~~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~lG~~aLAavsla~~~~~~~~~~~~~Gl~~a~ 93 (95)
+..|+..|+++|+++|..++++.......+-+.+++++|++++||.+++..+..+. +.+..|++.|.
T Consensus 234 ~~~~~~~~~i~~lG~p~~~~~~~~~~~~~~~~~~~~~~G~~~lAa~~i~~~i~~~~-~~~~~gi~~a~ 300 (455)
T COG0534 234 KPDRKLLKEILRLGLPIFLESLSESLGFLLLTLFVARLGTVALAAYGIALRIASFI-FMPPFGIAQAV 300 (455)
T ss_pred CCCHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHH-HHHHHHHHHHH
Confidence 34568999999999999999999999999999999999999999999999998877 77777777664
No 12
>PRK10367 DNA-damage-inducible SOS response protein; Provisional
Probab=97.87 E-value=9.9e-05 Score=58.20 Aligned_cols=63 Identities=11% Similarity=0.035 Sum_probs=55.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcChhHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 034408 30 VESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHIGATQLAAYSLVFTVLLRFANGILVSTLYLF 93 (95)
Q Consensus 30 ~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~lG~~aLAavsla~~~~~~~~~~~~~Gl~~a~ 93 (95)
...|+++|+++|..+++.+......+-+.+++++|++++||.+++..+..+. +.+..|++.|.
T Consensus 229 ~~~~~il~ig~P~~~~~~~~~~~~~~~~~~~~~~G~~alAa~~I~~~i~~~~-~~~~~gl~~a~ 291 (441)
T PRK10367 229 GNFRRLLALNRDIMLRSLLLQLCFGAITVLGARLGSDIIAVNAVLMTLLTFT-AYALDGFAYAV 291 (441)
T ss_pred HHHHHHHHhCchHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHH-HHHHHhHHHHH
Confidence 4679999999999999999999999999999999999999999999988776 66677777664
No 13
>PRK10189 MATE family multidrug exporter; Provisional
Probab=97.74 E-value=0.0002 Score=57.05 Aligned_cols=65 Identities=14% Similarity=0.080 Sum_probs=55.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcChhHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 034408 28 LWVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHIGATQLAAYSLVFTVLLRFANGILVSTLYLF 93 (95)
Q Consensus 28 ~~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~lG~~aLAavsla~~~~~~~~~~~~~Gl~~a~ 93 (95)
.++..|+++|+++|..++++....-.++-+.+++++|+.++||.+++.++..+. +....|++.|.
T Consensus 254 ~~~~~~~il~iG~P~~~~~~~~~~~~~~~~~~~~~~G~~~~Aa~~I~~~i~~~~-~~~~~gi~~A~ 318 (478)
T PRK10189 254 NFAIIWEVMGIGIPASIESVLFNGGKLLTQMFVAGMGTSVIAGNFIAFSIAALI-NLPGNALGSAS 318 (478)
T ss_pred CHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHH-HHHHHHHHHHH
Confidence 356889999999999999999888888888999999999999999999988765 55666666654
No 14
>TIGR00797 matE putative efflux protein, MATE family. The MATE family consists of probable efflux proteins including a functionally characterized multi drug efflux system from Vibrio parahaemolyticus, a putative ethionine resistance protein of Saccharomyces cerevisiae, and the functionally uncharacterized DNA damage-inducible protein F (DinF) of E. coli. These proteins have 12 probable TMS.
Probab=97.70 E-value=0.00034 Score=51.73 Aligned_cols=54 Identities=19% Similarity=0.217 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcChhHHHHHHHHHHHHHHH
Q 034408 28 LWVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHIGATQLAAYSLVFTVLLRF 81 (95)
Q Consensus 28 ~~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~lG~~aLAavsla~~~~~~~ 81 (95)
.++..|+++++++|.++.++.......+|+.+++++|+.++++.+++..+..+.
T Consensus 211 ~~~~~k~~~~~~~P~~~~~l~~~~~~~~~~~i~~~~g~~~v~~~~~a~~~~~~~ 264 (342)
T TIGR00797 211 DWEVLKRLLKLGLPIAFRVILESLSFALLALLVARLGSIALAAHQIALNVESLL 264 (342)
T ss_pred CHHHHHHHHHhCchHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHH
Confidence 356889999999999999999999999999999999999999999988877643
No 15
>TIGR00797 matE putative efflux protein, MATE family. The MATE family consists of probable efflux proteins including a functionally characterized multi drug efflux system from Vibrio parahaemolyticus, a putative ethionine resistance protein of Saccharomyces cerevisiae, and the functionally uncharacterized DNA damage-inducible protein F (DinF) of E. coli. These proteins have 12 probable TMS.
Probab=97.38 E-value=0.00076 Score=49.89 Aligned_cols=52 Identities=35% Similarity=0.425 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcChhHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 034408 41 PAIFTRFSSFGLNVVSQAFIGHIGATQLAAYSLVFTVLLRFANGILVSTLYLF 93 (95)
Q Consensus 41 P~ils~l~~~~~~ivdtifvG~lG~~aLAavsla~~~~~~~~~~~~~Gl~~a~ 93 (95)
|..+++++..+++.+|++++|++|++++++.+++..+.++. ..+..|++.+.
T Consensus 1 p~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~a~~i~~~~-~~~~~~i~~~~ 52 (342)
T TIGR00797 1 PAILANILQPLLGLVDTAFVGHLGPVDLAAVSLGSSVFMFL-FSILMGLGTAT 52 (342)
T ss_pred ChHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhHHHHHHH-HHHHHHHHHhH
Confidence 88999999999999999999999999999999998876644 44555555543
No 16
>PRK09575 vmrA multidrug efflux pump VmrA; Reviewed
Probab=97.32 E-value=0.0017 Score=51.00 Aligned_cols=65 Identities=11% Similarity=0.173 Sum_probs=54.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCh-hHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 034408 28 LWVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHIGA-TQLAAYSLVFTVLLRFANGILVSTLYLF 93 (95)
Q Consensus 28 ~~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~lG~-~aLAavsla~~~~~~~~~~~~~Gl~~a~ 93 (95)
.+...|+++++++|..+.++...+...+-..+++++|+ +++||.++++++.+++ +.+..|++.|.
T Consensus 229 ~~~~~~~il~ig~P~~~~~~~~~~~~~~~~~~~~~~g~~~~lAa~~i~~~i~~~~-~~~~~gi~~a~ 294 (453)
T PRK09575 229 NWSLAPKIVLLGSSSFFMYLYGSFVVALHNRLFMEYGSALTVGAYAIVGYLMVLY-YLVAEGIAEGM 294 (453)
T ss_pred CHHHHHHHHHhChhHHHHHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHH-HHHHHHHHHhh
Confidence 35678999999999999999988888888888999995 5899999999887765 66666666654
No 17
>PRK15099 O-antigen translocase; Provisional
Probab=97.23 E-value=0.0042 Score=47.84 Aligned_cols=63 Identities=13% Similarity=-0.009 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hcChhHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034408 29 WVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIG-HIGATQLAAYSLVFTVLLRFANGILVSTLY 91 (95)
Q Consensus 29 ~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG-~lG~~aLAavsla~~~~~~~~~~~~~Gl~~ 91 (95)
++..|+++++++|..++++........|..+++ ++|++++++.+.+..+.......+..++..
T Consensus 211 ~~~~k~ll~~g~p~~~~~~~~~i~~~~~~~~l~~~~g~~~vg~y~~a~~i~~~~~~~~~~~~~~ 274 (416)
T PRK15099 211 NGLAGQLGKFTLMALITSVTLPVAYVMMRNLLAAHYSWDEVGIWQGVSSISDAYLQFITASFSV 274 (416)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 556899999999999999999999999999997 799999999999999865332333444443
No 18
>TIGR01695 mviN integral membrane protein MviN. This model represents MviN, a family of integral membrane proteins predicted to have ten or more transmembrane regions. Although frequently listed as a virulence protein, it is not restricted to pathogens and it is an essential protein in Sinorhizobium meliloti. In a number of species its gene is adjacent to that of the uridylyltransferase GlnD, the signal-transducing enzyme that performs the key modification to the nitrogen regulatory protein PII.
Probab=97.09 E-value=0.0043 Score=48.40 Aligned_cols=53 Identities=9% Similarity=-0.019 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcChhHHHHHHHHHHHHHHH
Q 034408 29 WVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHIGATQLAAYSLVFTVLLRF 81 (95)
Q Consensus 29 ~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~lG~~aLAavsla~~~~~~~ 81 (95)
++..|++++.++|..++++.......+|+.+.+++|..++++.+.+..+..+.
T Consensus 219 ~~~~k~~l~~~~p~~~~~~~~~~~~~id~~~~~~~~~~~v~~~~~a~~l~~~~ 271 (502)
T TIGR01695 219 DPGLKRFLKLFLPTTLGSSASQITLLINTALASFLEIGSVSALYYANRIYQLP 271 (502)
T ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHH
Confidence 35789999999999999999999999999998888999999999988877654
No 19
>PF01943 Polysacc_synt: Polysaccharide biosynthesis protein; InterPro: IPR002797 Members of this family are integral membrane proteins [], and many are implicated in the production of polysaccharide. The family includes RfbX part of the O antigen biosynthesis operon [], and SpoVB from Bacillus subtilis (Q00758 from SWISSPROT), which is involved in spore cortex biosynthesis [].; GO: 0000271 polysaccharide biosynthetic process, 0016020 membrane
Probab=96.86 E-value=0.019 Score=40.37 Aligned_cols=53 Identities=15% Similarity=0.260 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc-ChhHHHHHHHHHHHHHHH
Q 034408 29 WVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHI-GATQLAAYSLVFTVLLRF 81 (95)
Q Consensus 29 ~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~l-G~~aLAavsla~~~~~~~ 81 (95)
++..|++++.++|..++.+...++.-+|.++++++ |.++++-.+++..+....
T Consensus 201 ~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~ii~~~~g~~~vg~Y~~a~~l~~~~ 254 (273)
T PF01943_consen 201 KKFFKEILRFGLPLFLSSLLSWLYSQIDRLIIGYFLGPEAVGIYSVAYRLASAI 254 (273)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhCCHHHHHHHHHHHHHHHHH
Confidence 66899999999999999999999999999999995 888999999998887654
No 20
>TIGR02900 spore_V_B stage V sporulation protein B. SpoVB is the stage V sporulation protein B of the bacterial endopore formation program in Bacillus subtilis and various other Firmcutes. It is nearly universal among endospore-formers. Paralogs with rather high sequence similarity to SpoVB exist, including YkvU in B. subtilis and a number of proteins in the genus Clostridium. Member sequences for the seed alignment were chosen to select those proteins, no more than one to a genome, closest to B. subtilis SpoVB in a neighbor joining tree.
Probab=96.35 E-value=0.015 Score=45.13 Aligned_cols=46 Identities=11% Similarity=0.202 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh-cChhHHHHHHHHHHHHHHH
Q 034408 36 WIVAAPAIFTRFSSFGLNVVSQAFIGH-IGATQLAAYSLVFTVLLRF 81 (95)
Q Consensus 36 l~la~P~ils~l~~~~~~ivdtifvG~-lG~~aLAavsla~~~~~~~ 81 (95)
+|-+.|.+++++++.+++++|+++++| +|++++++++++.++...+
T Consensus 2 ~~~~~~~~~~~~~~~~~~~i~~~~l~r~Lg~~~~G~~~~~~~~~~~~ 48 (488)
T TIGR02900 2 LKGTFILTIANLITRILGFIFRIVLSRILGAEGVGLYGMAMPIYFLF 48 (488)
T ss_pred hHhHHHHHHHHHHHHHHHHHHHHHHHHHhCHHHhhHHHHHHHHHHHH
Confidence 466899999999999999999999999 6999999999999887654
No 21
>TIGR01695 mviN integral membrane protein MviN. This model represents MviN, a family of integral membrane proteins predicted to have ten or more transmembrane regions. Although frequently listed as a virulence protein, it is not restricted to pathogens and it is an essential protein in Sinorhizobium meliloti. In a number of species its gene is adjacent to that of the uridylyltransferase GlnD, the signal-transducing enzyme that performs the key modification to the nitrogen regulatory protein PII.
Probab=96.15 E-value=0.031 Score=43.62 Aligned_cols=47 Identities=21% Similarity=0.181 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh-cChhHH-HHHHHHHHHHHHH
Q 034408 35 LWIVAAPAIFTRFSSFGLNVVSQAFIGH-IGATQL-AAYSLVFTVLLRF 81 (95)
Q Consensus 35 ll~la~P~ils~l~~~~~~ivdtifvG~-lG~~aL-Aavsla~~~~~~~ 81 (95)
++|-+.=..++++++.+++++|.++++| +|++++ ++++++.++.+.+
T Consensus 2 ~~k~~~i~~~~~~~~~~~~~~~~~~~a~~lG~~~~~~~~~~~~~i~~~~ 50 (502)
T TIGR01695 2 LLKSTLIVSLGTLFSRITGFVRDAIIASAFGAGLTADAFNVAFVIPNFF 50 (502)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCChHhhHHHHHHHHHHHH
Confidence 4566667789999999999999999999 899999 7999999988654
No 22
>PRK10459 colanic acid exporter; Provisional
Probab=95.48 E-value=0.087 Score=41.29 Aligned_cols=52 Identities=21% Similarity=0.257 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-cChhHHHHHHHHHHHHHH
Q 034408 29 WVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGH-IGATQLAAYSLVFTVLLR 80 (95)
Q Consensus 29 ~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~-lG~~aLAavsla~~~~~~ 80 (95)
++..|++++.++|.+.+++...+++-+|++++|+ +|+.+++..+.+..+..+
T Consensus 203 ~~~~k~ll~~~~~~~~~~~~~~~~~~~d~~~lg~~lg~~~vG~Y~~A~~l~~~ 255 (492)
T PRK10459 203 LASVKPNLSFGAWQTAERIINYLNTNIDTILIGRILGAEVLGGYNLAYNVATV 255 (492)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHHhcCchhhhhHhhchHhhhhHHHHHHHHHH
Confidence 3567999999999999999999999999999998 588899998888877664
No 23
>TIGR02900 spore_V_B stage V sporulation protein B. SpoVB is the stage V sporulation protein B of the bacterial endopore formation program in Bacillus subtilis and various other Firmcutes. It is nearly universal among endospore-formers. Paralogs with rather high sequence similarity to SpoVB exist, including YkvU in B. subtilis and a number of proteins in the genus Clostridium. Member sequences for the seed alignment were chosen to select those proteins, no more than one to a genome, closest to B. subtilis SpoVB in a neighbor joining tree.
Probab=95.35 E-value=0.14 Score=39.71 Aligned_cols=35 Identities=17% Similarity=0.156 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034408 29 WVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHI 63 (95)
Q Consensus 29 ~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~l 63 (95)
++..|++++.++|..++++.....+.+|++++|+.
T Consensus 221 ~~~~k~l~~~~~p~~l~~~~~~~~~~~d~~ii~~~ 255 (488)
T TIGR02900 221 KALLFDLFSVSLPLTLSRFIGSLLYFLETLLVPQR 255 (488)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45789999999999999999999999999999984
No 24
>PF13440 Polysacc_synt_3: Polysaccharide biosynthesis protein
Probab=95.14 E-value=0.43 Score=33.28 Aligned_cols=48 Identities=19% Similarity=0.282 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh-cChhHHHHHHHHHHHHHHH
Q 034408 34 KLWIVAAPAIFTRFSSFGLNVVSQAFIGH-IGATQLAAYSLVFTVLLRF 81 (95)
Q Consensus 34 ~ll~la~P~ils~l~~~~~~ivdtifvG~-lG~~aLAavsla~~~~~~~ 81 (95)
+.+|.+.|..++++......-+|.++++. +|.++++-.+++..+....
T Consensus 184 ~~~~~~~~~~~~~~~~~~~~~~~~~li~~~l~~~~~g~y~~a~~l~~~~ 232 (251)
T PF13440_consen 184 RLLKYGLPFSLSSLLSWLLSQIDRLLIGYFLGPEAVGIYSVAQRLASLP 232 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHH
Confidence 38999999999999999999999999999 8999999999988877644
No 25
>PF03023 MVIN: MviN-like protein; InterPro: IPR004268 This entry represents MviN, a family of integral membrane proteins predicted to have ten or more transmembrane regions. Although frequently listed as a virulence protein, it is not restricted to pathogens and it is an essential protein in Sinorhizobium meliloti. In a number of species its gene is adjacent to that of the uridylyltransferase GlnD, the signal-transducing enzyme that performs the key modification to the nitrogen regulatory protein PII []. Disruption of the MviN open reading frame results in flagellar structures that contain only the basal body and hook complex that lack the flagellum; suggesting that MviN might be involved in flagellin export or assembly []. Genome comparison studies led to MviN being predicted to be a peptidoglycan lipid II flippase though currently there is no direct evidence to support this annotation [].
Probab=94.66 E-value=0.36 Score=38.33 Aligned_cols=52 Identities=15% Similarity=0.130 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcChhHHHHHHHHHHHHHHH
Q 034408 30 VESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHIGATQLAAYSLVFTVLLRF 81 (95)
Q Consensus 30 ~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~lG~~aLAavsla~~~~~~~ 81 (95)
++.|++++...|.+++.....+..++|+.+.+++++-.+++..-+..+..+.
T Consensus 195 ~~~~~~~~~~~p~~l~~~~~qi~~lv~~~laS~l~~G~vs~l~YA~~l~~lp 246 (451)
T PF03023_consen 195 PNLKRFLKLAIPLLLSSSISQINILVDRALASFLGEGSVSALNYAQRLYQLP 246 (451)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHH
Confidence 3689999999999999999999999999999999999999999999988764
No 26
>COG2244 RfbX Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]
Probab=93.72 E-value=0.29 Score=38.10 Aligned_cols=49 Identities=18% Similarity=0.327 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc-ChhHHHHHHHHHHH
Q 034408 29 WVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHI-GATQLAAYSLVFTV 77 (95)
Q Consensus 29 ~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~l-G~~aLAavsla~~~ 77 (95)
.+..|++++.++|..++.+...+.+-+|++++|+. |+++++-.+.+..+
T Consensus 209 ~~~~~~~l~~~~p~~~~~~~~~l~~~~D~~~i~~~l~~~~vG~Y~~a~~i 258 (480)
T COG2244 209 LALLKELLRFGLPLLLSSLLNFLFTNIDTLLLGLFLGPAQVGIYSAAQRL 258 (480)
T ss_pred hHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHhhhhHheecccccHH
Confidence 56899999999999999999999999999999984 76676666633333
No 27
>KOG1347 consensus Uncharacterized membrane protein, predicted efflux pump [General function prediction only]
Probab=80.00 E-value=11 Score=30.71 Aligned_cols=63 Identities=13% Similarity=0.032 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCh--hHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034408 29 WVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHIGA--TQLAAYSLVFTVLLRFANGILVSTLYL 92 (95)
Q Consensus 29 ~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~lG~--~aLAavsla~~~~~~~~~~~~~Gl~~a 92 (95)
.+..+.++|+++|-.+..-++.-+.-+-....|.+++ .++++-++........ +.+..|++.|
T Consensus 243 ~~~~~~~~~lai~s~~miclE~w~~eil~l~~G~l~np~~~~~~~sI~~~~~~~~-~~~~~~~~~a 307 (473)
T KOG1347|consen 243 FDSWGPFFALAIPSAVMICLEWWAYEILVLLAGLLGNAKVSLASQSICLEIGGWH-LMIPGAFSAA 307 (473)
T ss_pred hhhHHHHHHHhhcchheeHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHH-HHHhhhhhhh
Confidence 6678899999999999999999999999999999985 5788888877766543 3334444443
No 28
>COG0728 MviN Uncharacterized membrane protein, putative virulence factor [General function prediction only]
Probab=77.82 E-value=22 Score=29.52 Aligned_cols=52 Identities=10% Similarity=-0.035 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcChhHHHHHHHHHHHHHHH
Q 034408 30 VESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHIGATQLAAYSLVFTVLLRF 81 (95)
Q Consensus 30 ~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~lG~~aLAavsla~~~~~~~ 81 (95)
+..|++.+...|.+++..++-+..++|+.+.+.+.+-..+...-+.-++.+-
T Consensus 229 ~~lk~~~~~~~p~~l~~sisQi~lli~~~iAS~l~~Gsis~l~YA~rl~qlP 280 (518)
T COG0728 229 PGLKRFLKLMLPALLGVSISQINLLIDTAIASFLAEGSVSWLYYADRLYQLP 280 (518)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhh
Confidence 5889999999999999999999999999999999988888888888877653
No 29
>PRK15099 O-antigen translocase; Provisional
Probab=59.12 E-value=44 Score=25.59 Aligned_cols=50 Identities=4% Similarity=0.035 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhh-cChhHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034408 42 AIFTRFSSFGLNVVSQAFIGH-IGATQLAAYSLVFTVLLRFANGILVSTLY 91 (95)
Q Consensus 42 ~ils~l~~~~~~ivdtifvG~-lG~~aLAavsla~~~~~~~~~~~~~Gl~~ 91 (95)
...++++..+.++.-...+.| +|+++.+.++...++..++......|+..
T Consensus 10 ~~~~~~~~~~~~~l~~~i~ar~Lg~~~~G~~~~~~~~i~~~~~~~~~G~~~ 60 (416)
T PRK15099 10 TAASTLVKIGAGLLVVKLLAVSFGPAGVGQAGNFRQLITVLGVLAGAGIFN 60 (416)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHHHHHHHcCCccc
Confidence 344566666666666666666 58888888888887776553333444433
No 30
>PF01943 Polysacc_synt: Polysaccharide biosynthesis protein; InterPro: IPR002797 Members of this family are integral membrane proteins [], and many are implicated in the production of polysaccharide. The family includes RfbX part of the O antigen biosynthesis operon [], and SpoVB from Bacillus subtilis (Q00758 from SWISSPROT), which is involved in spore cortex biosynthesis [].; GO: 0000271 polysaccharide biosynthetic process, 0016020 membrane
Probab=55.57 E-value=66 Score=22.17 Aligned_cols=53 Identities=9% Similarity=0.137 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh-cChhHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034408 39 AAPAIFTRFSSFGLNVVSQAFIGH-IGATQLAAYSLVFTVLLRFANGILVSTLY 91 (95)
Q Consensus 39 a~P~ils~l~~~~~~ivdtifvG~-lG~~aLAavsla~~~~~~~~~~~~~Gl~~ 91 (95)
+.=...++++....+++-..++.| +|+++.+-.++..++..+...-.-.|+..
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~il~r~l~~~~~G~~~~~~~~~~~~~~~~~~G~~~ 58 (273)
T PF01943_consen 5 SLWLFLSNILSALIGFITIPILARYLGPEEYGIYSLALSIVSLLSILADLGLSQ 58 (273)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCHHHhHHHHHHHHHHHHHHHHHhhhhHH
Confidence 334566777778888888888887 58888888888888776553333344443
No 31
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=52.40 E-value=56 Score=22.08 Aligned_cols=24 Identities=17% Similarity=0.120 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHhhcChhH
Q 034408 44 FTRFSSFGLNVVSQAFIGHIGATQ 67 (95)
Q Consensus 44 ls~l~~~~~~ivdtifvG~lG~~a 67 (95)
++.+++++++++.+++.|..+...
T Consensus 79 ls~v~Nilvsv~~~~~~~~~~~~~ 102 (142)
T PF11712_consen 79 LSTVFNILVSVFAVFFAGWYWAGY 102 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566777777777777755443
No 32
>PRK10459 colanic acid exporter; Provisional
Probab=41.93 E-value=1.4e+02 Score=23.38 Aligned_cols=40 Identities=10% Similarity=0.226 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhh-cChhHHHHHHHHHHHHHHH
Q 034408 42 AIFTRFSSFGLNVVSQAFIGH-IGATQLAAYSLVFTVLLRF 81 (95)
Q Consensus 42 ~ils~l~~~~~~ivdtifvG~-lG~~aLAavsla~~~~~~~ 81 (95)
..++++.....+++....+.| +|+++..-++.+.++..++
T Consensus 14 ~~~~~~~~~~~~~i~~~ilaR~L~p~~~G~~~~~~~~~~~~ 54 (492)
T PRK10459 14 TAISTVIIIGLQLVQLTVLARILDNHQFGLLTMSLVIIGFA 54 (492)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCHHHccHHHHHHHHHHHH
Confidence 466777777777777777777 5888888888877776654
No 33
>PF07260 ANKH: Progressive ankylosis protein (ANKH); InterPro: IPR009887 This family consists of several progressive ankylosis protein (ANK or ANKH) sequences. The ANK protein spans the outer cell membrane and shuttles inorganic pyrophosphate (PPi), a major inhibitor of physiologic and pathologic calcification, bone mineralisation and bone resorption []. Mutations in ANK are thought to give rise to Craniometaphyseal dysplasia (CMD) which is a rare skeletal disorder characterised by progressive thickening and increased mineral density of craniofacial bones and abnormally developed metaphyses in long bones [].; GO: 0015114 phosphate ion transmembrane transporter activity, 0035435 phosphate ion transmembrane transport, 0016021 integral to membrane
Probab=41.91 E-value=1.4e+02 Score=23.92 Aligned_cols=49 Identities=14% Similarity=0.226 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhhcCh---hHHHHHHHHHHHHHH
Q 034408 31 ESKKLWIVAAPAIFTRFSSFG-LNVVSQAFIGHIGA---TQLAAYSLVFTVLLR 80 (95)
Q Consensus 31 e~k~ll~la~P~ils~l~~~~-~~ivdtifvG~lG~---~aLAavsla~~~~~~ 80 (95)
.++.+.++-+|+.++.++.-+ -+++|.. +.+-.+ +.||+.+++.++.-.
T Consensus 9 ~y~~li~F~iPLa~ts~~~dl~~qiiNag-LAr~~e~~vetLAsfglA~sL~lf 61 (345)
T PF07260_consen 9 SYWPLIRFFIPLAITSLAMDLGEQIINAG-LARVQEDPVETLASFGLAYSLMLF 61 (345)
T ss_pred hHHHHHHHHHHHHHHHHHHhccHHHHHHH-HhhccchHHHHHHHHHHHHHHHHH
Confidence 567888999999998775433 3444443 334332 249999999987643
No 34
>PF02487 CLN3: CLN3 protein; InterPro: IPR003492 Batten's disease, the juvenile variant of neuronal ceroid lipofuscionosis (NCL), is a recessively inherited disorder affecting children of 5-10 years of age. The disease is characterised by progressive loss of vision, seizures and psychomotor disturbances. Biochemically, the disease is characterised by lysosomal accumulation of hydrophobic material, mainly ATP synthase subunit C, largely in the brain but also in other tissues. The disease is fatal within a decade []. Mutations in the CLN3 gene are believed to cause Batten's disease []. The CLN3 gene, with a predicted 438-residue product, maps to chromosome p16p12.1. The gene contains at least 15 exons spanning 15kb and is highly conserved in mammals []. A 1.02kb deletion in the CLN3 gene, occurring in either one or both alleles, is found in 85% of Batten disease chromosomes causing a frameshift generating a predicted translated product of 181 amino acid residues [, ]. 22 other mutations, including deletions, insertions and point mutations, have been reported. It has been suggested that such mutations result in severely truncated CLN3 proteins, or affect its structure/conformation [, ]. CLN3 proteins, which are believed to associate in complexes, are heavily glycosylated lysosomal membrane proteins [], containing complex Asn-linked oligosaccharides []. Extensive glycosylation is important for the stability of these lysosomal proteins in the highly hydrolytic lysosomal lumen. Lysosomal sequestration of active lysosomal enzymes, transport of degraded molecules from the lysosomes, and fusion and fission between lysosomes and other organelles. The CLN3 protein is a 43kDa, highly hydrophobic, multi-transmembrane (TM), phosphorylated protein []. Hydrophobicity analysis predicts 6-9 TM segments, suggesting that CLN3 is a TM protein that may function as a chaperone or signal transducer. The majority of putative phosphorylation sites are found in the N-terminal domain, encompassing 150 residues []. Phosphorylation is believed to be important for membrane compartment interaction, in the formation of functional complexes, and in regulation and interactions with other proteins []. CLN3 contains several motifs that may undergo lipid post-translational modifications (PTMs). PTMs contribute to targeting and anchoring of modified proteins to distinct biological membranes []. There are three general classes of lipid modification: N-terminal myristoylation, C-terminal prenylation, and palmitoylation of cysteine residues. Such modifications are believed to be a common form of PTM occurring in 0.5% of all cellular proteins, including brain tissue []. The C terminus of the CLN3 contains various lipid modification sites: C435, target for prenylation; G419, target for myristoylation; and C414, target for palmitoylation []. Prenylation results in protein hydrophobicity, influences interaction with upstream regulatory proteins and downstream effectors, facilitates protein-protein interaction (multisubunit assembly) and promotes anchoring to membrane lipids. The prenylation motif, Cys-A-A-X, is highly conserved within CLN3 protein sequences of different species []. Species with known CLN3 protein homologues include: Homo sapiens, Canis familiaris, Mus musculus, Saccharomyces cerevisiae and Drosophila melanogaster.; GO: 0016020 membrane
Probab=35.47 E-value=1e+02 Score=24.79 Aligned_cols=31 Identities=16% Similarity=0.185 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHH
Q 034408 28 LWVESKKLWIVAAPAIFTRFSSFGL--NVVSQA 58 (95)
Q Consensus 28 ~~~e~k~ll~la~P~ils~l~~~~~--~ivdti 58 (95)
.++..|.+++.-+|+.+..+.+|.. ++.+++
T Consensus 238 k~~~~k~Ll~ymiPL~lVY~aEY~InqGv~~tl 270 (402)
T PF02487_consen 238 KLKRLKPLLWYMIPLFLVYFAEYFINQGVAPTL 270 (402)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHh
Confidence 3456777888999999999999976 455554
No 35
>PF04142 Nuc_sug_transp: Nucleotide-sugar transporter; InterPro: IPR007271 This family of membrane proteins transport nucleotide sugars from the cytoplasm into golgi vesicles. P78382 from SWISSPROT transports CMP-sialic acid, P78381 from SWISSPROT transports UDP-galactose and Q9Y2D2 from SWISSPROT transports UDP-GlcNAc. This family has some but not complete overlap with the UDP-galactose transporter family IPR004689 from INTERPRO.; GO: 0005351 sugar:hydrogen symporter activity, 0008643 carbohydrate transport, 0000139 Golgi membrane, 0016021 integral to membrane
Probab=32.71 E-value=1.4e+02 Score=21.95 Aligned_cols=27 Identities=19% Similarity=0.457 Sum_probs=20.6
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 034408 24 FRQKLWVESKKLWIVAAPAIFTRFSSF 50 (95)
Q Consensus 24 ~~~~~~~e~k~ll~la~P~ils~l~~~ 50 (95)
.+...|...|..+++++|..+-.+-+.
T Consensus 6 ~~~~~~~~~~~~~~~~vPA~lY~~qn~ 32 (244)
T PF04142_consen 6 LKDEVWKSPKDTLKLAVPALLYAIQNN 32 (244)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 345678889999999999998644433
No 36
>COG2244 RfbX Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]
Probab=29.34 E-value=1.2e+02 Score=23.40 Aligned_cols=51 Identities=20% Similarity=0.273 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-cChhHHHHHHHHHHHHHHH
Q 034408 31 ESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGH-IGATQLAAYSLVFTVLLRF 81 (95)
Q Consensus 31 e~k~ll~la~P~ils~l~~~~~~ivdtifvG~-lG~~aLAavsla~~~~~~~ 81 (95)
..+++.|-+.=...+++.+...+++-.....| +|+++.+-.+.+.++..++
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~~lar~lg~~~~G~~~~~~~~~~~~ 55 (480)
T COG2244 4 LKKKLIKGALWLLLGTLISALLGLITIPLLARLLGPEGFGLYALALAIIGLF 55 (480)
T ss_pred HHHHHHhhchHHHHHHHHHHHHHHHHHHHHHHHhCcccceeeehHHHHHHHH
Confidence 45667777777788888888888888888887 6988888888888887765
No 37
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=26.22 E-value=2.3e+02 Score=21.72 Aligned_cols=32 Identities=19% Similarity=0.069 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcChh
Q 034408 35 LWIVAAPAIFTRFSSFGLNVVSQAFIGHIGAT 66 (95)
Q Consensus 35 ll~la~P~ils~l~~~~~~ivdtifvG~lG~~ 66 (95)
.+|.++=+++--++.++..+.-.-.+|+-|++
T Consensus 249 ~~~ra~fli~lgvLafi~~i~lM~rlGr~g~d 280 (299)
T KOG3970|consen 249 AKKRALFLIFLGVLAFITIIMLMKRLGRSGED 280 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcccccc
Confidence 45566655555555444444444445554443
No 38
>PF04172 LrgB: LrgB-like family ; InterPro: IPR007300 The two products of the lrgAB operon are potential membrane proteins, and LrgA and LrgB are both thought to control murein hydrolase activity and penicillin tolerance [].
Probab=25.64 E-value=2.8e+02 Score=20.43 Aligned_cols=37 Identities=11% Similarity=0.154 Sum_probs=33.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034408 27 KLWVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHI 63 (95)
Q Consensus 27 ~~~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~l 63 (95)
+.+++.+.+.|...|++.+.+.-...++.....++++
T Consensus 65 PLY~~~~~l~~~~~~il~~~~~g~~~~~~~~~~l~~~ 101 (215)
T PF04172_consen 65 PLYRQRRLLKKNWIPILVGVLVGSLVSIFSAVLLARL 101 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567888899999999999999999999999999983
No 39
>PRK04288 antiholin-like protein LrgB; Provisional
Probab=25.54 E-value=2.9e+02 Score=20.68 Aligned_cols=37 Identities=8% Similarity=-0.088 Sum_probs=33.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034408 27 KLWVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHI 63 (95)
Q Consensus 27 ~~~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~l 63 (95)
+..+..+.+-|.-.|+.++.++-...+++..+.++++
T Consensus 81 PLY~q~~~lk~~~~~Il~~~~vG~~~~i~s~~~la~~ 117 (232)
T PRK04288 81 PLYKKRDVLKKYWWQILGGIVVGSVCSVLIIYLVAKL 117 (232)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567788899999999999999999999999999984
No 40
>COG1346 LrgB Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]
Probab=24.58 E-value=3.1e+02 Score=20.66 Aligned_cols=37 Identities=8% Similarity=0.127 Sum_probs=33.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034408 27 KLWVESKKLWIVAAPAIFTRFSSFGLNVVSQAFIGHI 63 (95)
Q Consensus 27 ~~~~e~k~ll~la~P~ils~l~~~~~~ivdtifvG~l 63 (95)
+.++..+++-|...|++.+.++-...+++..+.++++
T Consensus 78 PLYkq~~~ik~~w~~I~~g~~vGs~~ai~s~~llak~ 114 (230)
T COG1346 78 PLYKQRHLIKRHWKPILAGVLVGSVVAIISGVLLAKL 114 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677888899999999999999999999999999983
No 41
>PF10797 YhfT: Protein of unknown function; InterPro: IPR019733 This entry contains predicted inner membrane proteins, whose function is unknown.
Probab=21.17 E-value=48 Score=27.06 Aligned_cols=37 Identities=24% Similarity=0.188 Sum_probs=28.3
Q ss_pred HHHHHhhcChhHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034408 56 SQAFIGHIGATQLAAYSLVFTVLLRFANGILVSTLYL 92 (95)
Q Consensus 56 dtifvG~lG~~aLAavsla~~~~~~~~~~~~~Gl~~a 92 (95)
-.++=||....|+|+.+.+.++=.+.++++.+-++++
T Consensus 33 Pe~lEGrm~R~elaatsFalSfGlVigfGIp~sl~t~ 69 (420)
T PF10797_consen 33 PEYLEGRMTRKELAATSFALSFGLVIGFGIPFSLSTG 69 (420)
T ss_pred HHHhcCcccHHHHHHHHHHHhhHhheEeccchhhhhh
Confidence 3455689999999999999888777777766665543
Done!