Query 043789
Match_columns 199
No_of_seqs 110 out of 447
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 08:21:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043789.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043789hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3142 Prenylated rab accepto 100.0 1.9E-50 4E-55 331.6 17.2 180 1-181 1-183 (187)
2 PF03208 PRA1: PRA1 family pro 100.0 1.9E-36 4E-41 241.4 17.0 147 28-174 2-149 (153)
3 COG5130 YIP3 Prenylated rab ac 99.9 5.8E-24 1.3E-28 167.0 10.1 139 27-166 22-160 (169)
4 KOG4050 Glutamate transporter 99.9 6.3E-22 1.4E-26 158.4 12.3 134 30-165 15-154 (188)
5 COG1575 MenA 1,4-dihydroxy-2-n 77.6 14 0.0003 33.1 8.1 107 54-167 91-198 (303)
6 PF02300 Fumarate_red_C: Fumar 68.7 35 0.00077 26.8 7.5 48 80-127 60-112 (129)
7 PRK07419 1,4-dihydroxy-2-napht 68.4 56 0.0012 29.0 9.7 16 110-125 139-154 (304)
8 PRK13591 ubiA prenyltransferas 65.7 55 0.0012 29.4 9.1 14 37-50 77-92 (307)
9 COG1955 FlaJ Archaeal flagella 63.7 48 0.001 31.9 8.7 62 18-79 119-180 (527)
10 PRK11715 inner membrane protei 61.7 83 0.0018 29.6 9.9 88 68-162 304-401 (436)
11 COG4452 CreD Inner membrane pr 60.9 1.3E+02 0.0027 28.2 10.5 89 68-163 298-396 (443)
12 PF06123 CreD: Inner membrane 59.2 1E+02 0.0022 29.0 9.9 88 68-162 298-395 (430)
13 PLN02922 prenyltransferase 51.4 1.7E+02 0.0037 26.1 9.8 12 110-121 143-154 (315)
14 PRK04987 fumarate reductase su 49.0 90 0.0019 24.6 6.7 49 79-127 60-113 (130)
15 cd00546 QFR_TypeD_subunitC Qui 47.7 70 0.0015 25.0 5.9 48 80-127 57-109 (124)
16 PRK13603 fumarate reductase su 47.1 69 0.0015 25.1 5.7 50 79-128 56-110 (126)
17 PRK12887 ubiA tocopherol phyty 46.2 2.1E+02 0.0046 25.3 10.7 13 37-49 72-86 (308)
18 PF01040 UbiA: UbiA prenyltran 45.9 1.7E+02 0.0036 24.0 9.6 11 82-92 88-98 (257)
19 TIGR00751 menA 1,4-dihydroxy-2 45.0 1.9E+02 0.0042 25.3 9.0 9 110-118 129-137 (284)
20 TIGR02235 menA_cyano-plnt 1,4- 44.4 2.2E+02 0.0047 24.9 9.8 19 156-176 173-191 (285)
21 PF05879 RHD3: Root hair defec 39.8 57 0.0012 32.7 5.3 24 80-103 666-689 (742)
22 PF07305 DUF1454: Protein of u 37.5 84 0.0018 26.5 5.2 45 20-65 47-91 (200)
23 TIGR03750 conj_TIGR03750 conju 34.1 1.7E+02 0.0037 22.4 6.0 48 109-156 11-63 (111)
24 PF09991 DUF2232: Predicted me 32.7 1.9E+02 0.0042 24.2 7.0 28 137-164 54-81 (290)
25 COG4129 Predicted membrane pro 31.1 4E+02 0.0087 24.1 10.3 48 46-100 48-96 (332)
26 PF06645 SPC12: Microsomal sig 30.0 1.7E+02 0.0037 20.6 5.2 31 127-157 20-50 (76)
27 TIGR01294 P_lamban phospholamb 29.1 1.1E+02 0.0023 20.0 3.5 29 55-83 20-48 (52)
28 PRK13592 ubiA prenyltransferas 29.0 2.8E+02 0.0062 24.8 7.5 18 149-166 182-199 (299)
29 KOG1288 Amino acid transporter 26.8 5.5E+02 0.012 26.3 9.5 33 129-161 493-525 (945)
30 PF00664 ABC_membrane: ABC tra 25.5 3.3E+02 0.0072 21.3 8.1 42 51-92 96-147 (275)
31 PF04140 ICMT: Isoprenylcystei 25.3 1.4E+02 0.0029 21.7 4.1 20 68-87 47-67 (94)
32 PF11241 DUF3043: Protein of u 25.1 2.7E+02 0.0058 22.9 6.1 40 45-84 53-94 (170)
33 PF07019 Rab5ip: Rab5-interact 24.8 1.7E+02 0.0036 20.5 4.4 44 121-164 7-50 (81)
34 TIGR02203 MsbA_lipidA lipid A 24.2 4.5E+02 0.0097 24.7 8.4 41 51-91 109-159 (571)
35 PF04272 Phospholamban: Phosph 23.9 1.2E+02 0.0026 19.7 3.0 25 59-83 24-48 (52)
36 PF14017 DUF4233: Protein of u 23.6 1.5E+02 0.0033 22.3 4.2 29 78-106 69-97 (107)
37 PRK13105 ubiA prenyltransferas 23.3 5.1E+02 0.011 22.7 9.7 13 169-181 183-195 (282)
38 COG0382 UbiA 4-hydroxybenzoate 23.1 4.9E+02 0.011 22.4 11.0 27 141-167 166-192 (289)
39 PRK05951 ubiA prenyltransferas 23.1 5E+02 0.011 22.6 9.6 13 169-181 194-206 (296)
40 PF04791 LMBR1: LMBR1-like mem 22.5 5.8E+02 0.013 23.4 8.7 32 34-68 95-128 (471)
41 PF05777 Acp26Ab: Drosophila a 22.5 63 0.0014 23.5 1.7 14 69-82 2-15 (90)
42 PF11368 DUF3169: Protein of u 22.4 4.1E+02 0.0088 22.5 7.1 45 60-104 190-238 (248)
43 PRK13823 conjugal transfer pro 21.9 1.9E+02 0.0041 21.4 4.3 48 110-164 15-63 (94)
44 PRK06041 flagellar assembly pr 20.9 7.6E+02 0.017 23.8 9.9 45 35-79 158-202 (553)
45 cd01785 PDZ_GEF_RA Ubiquitin-l 20.5 19 0.00042 26.1 -1.2 24 46-69 61-84 (85)
No 1
>KOG3142 consensus Prenylated rab acceptor 1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.9e-50 Score=331.61 Aligned_cols=180 Identities=42% Similarity=0.737 Sum_probs=171.0
Q ss_pred CCCCCCCCCCCCC---CCCchhhHHHHHHHhhCCCCCCChhHhhccCCCCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 043789 1 MTTYGTIPTETPE---LSSQPLSTRVKRLIESGFGTPRPWDEFIQIQSIKLPTSFANFIERIQSNAAFYRMNYAVIILSI 77 (199)
Q Consensus 1 m~~~gt~p~~~~~---~~~~~~~s~~~~~~~~~l~~~RPw~eF~~~~~fs~P~s~~~a~~Rv~~Nl~yF~~NY~li~~~~ 77 (199)
|+++|+.|+.+.+ .+..++.++++|++++.+++.|||+||+|+++|++|++++|+.+|+++|+.|||.||++++.++
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lst~RpW~ef~d~~~fs~P~s~s~a~sRi~~Nl~yF~~NY~~iv~~~ 80 (187)
T KOG3142|consen 1 MTNQGAPPPSSSPSQALSVESISSRAKQTIQSGLSTRRPWSEFFDRSAFSRPRSLSDATSRIKRNLSYFRVNYVIIVAIL 80 (187)
T ss_pred CCCCCCCCCCCCcccccchhhHHHHHHHHHHHHHhccCCHHHHHcccccCCCccHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 8889999865444 3333678889999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhhHHHHHHHHHHHHHHHHHHhcCCCceEEcCeeehhHHHHHHHHHHHHHHHHHhchhhHHHHHHHHHHHHHHH
Q 043789 78 IVVSLFWNPVSLIILIILIAAWLFLYFLRDGDRLVVYGFVIDDRILMTALLPGTIAFLFLTDVTKNIIIGLCIGTVVIAA 157 (199)
Q Consensus 78 ~~~~ll~~P~~ll~l~~~~~~~~~l~~~~~~~~~~i~gr~~~~~~~~~~l~~~s~~ll~~t~~~~~l~~~l~~s~~vil~ 157 (199)
.++++++||++|+++++.+++|+++|+.||+ |++++||+++++++++++++++++++|+++++.+++|++++|+++|+.
T Consensus 81 ~~~sLi~~P~~Livl~~lv~~w~~LY~~rd~-pLvlfgr~i~d~~~l~~L~~~ti~~lflt~~~~~l~~~l~~g~~vv~~ 159 (187)
T KOG3142|consen 81 LFLSLITHPLSLIVLLALVAAWLFLYFLRDE-PLVLFGRQISDREVLIGLVLITIPVLFLTSAGSNLLWALGAGLVVVLI 159 (187)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHheeeecCC-CeEEeeEEecCcchhhhHHHHHHHHHHHhhHHHHHHHHHHHhHHHHHh
Confidence 9999999999999999999999999999977 999999999999999999999999999999999999999999999999
Q ss_pred hhcccCCCCCCcchhhhhhcCccc
Q 043789 158 HAGFRSTDDMFSADDEERLGSLQS 181 (199)
Q Consensus 158 HA~~R~~~~~f~dE~~~~~~~~~~ 181 (199)
||+||++||+|.|||++.-+|++|
T Consensus 160 Haafr~~ddLF~dee~~~~~gl~s 183 (187)
T KOG3142|consen 160 HAAFRNTDDLFLDEEEAAASGLLS 183 (187)
T ss_pred HHHHhChHhhhhhhhhcccccccc
Confidence 999999999999999999899998
No 2
>PF03208 PRA1: PRA1 family protein; InterPro: IPR004895 This family includes yeast hypothetical proteins and the uncharacterised rat prenylated rab acceptor protein PRA1.
Probab=100.00 E-value=1.9e-36 Score=241.43 Aligned_cols=147 Identities=31% Similarity=0.576 Sum_probs=137.6
Q ss_pred hhCCCCCCChhHhhccCCCCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHhcC
Q 043789 28 ESGFGTPRPWDEFIQIQSIKLPTSFANFIERIQSNAAFYRMNYAVIILSIIVVSLFWNPVSLIILIILIAAWLFLYFLRD 107 (199)
Q Consensus 28 ~~~l~~~RPw~eF~~~~~fs~P~s~~~a~~Rv~~Nl~yF~~NY~li~~~~~~~~ll~~P~~ll~l~~~~~~~~~l~~~~~ 107 (199)
+++++++|||+||+|.++|+.|+|.+|+.+|+++|+.|||+||+++++++++++++++|+.++++++++++|++++..++
T Consensus 2 ~~~~~~~Rpw~eF~~~~~fs~P~~~~~~~~Ri~~Nl~~F~~NY~~i~~~~~~~~ll~~P~~l~~~~~~~~~~~~~~~~~~ 81 (153)
T PF03208_consen 2 QSRLSPLRPWREFFDTSRFSVPSSFSEAKSRIKRNLSYFQTNYLLIFLLLFLIFLLTNPFFLLVLLLVVALWAFIYKSRK 81 (153)
T ss_pred ccccCCCCCHHHHhCccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 46789999999999999999999999999999999999999999999999999999999999999999999999888776
Q ss_pred -CCceEEcCeeehhHHHHHHHHHHHHHHHHHhchhhHHHHHHHHHHHHHHHhhcccCCCCCCcchhhh
Q 043789 108 -GDRLVVYGFVIDDRILMTALLPGTIAFLFLTDVTKNIIIGLCIGTVVIAAHAGFRSTDDMFSADDEE 174 (199)
Q Consensus 108 -~~~~~i~gr~~~~~~~~~~l~~~s~~ll~~t~~~~~l~~~l~~s~~vil~HA~~R~~~~~f~dE~~~ 174 (199)
++++++.|+++++++++.++.+++++++++++++.+++|+++++++++++||+||+||+.+.||+|.
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~l~~~l~~~~~lvl~HA~~r~~~~~~~~e~~~ 149 (153)
T PF03208_consen 82 ENDPIVIGGRKISPRQVLLALLIVSILLLFFTSAGLTLFWSLGASVLLVLLHASFREPDLKNKEENEI 149 (153)
T ss_pred cCcchhccCcccCHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhcCCccchhhhhHH
Confidence 3489999999999999999999999999999999999999999999999999999998876666653
No 3
>COG5130 YIP3 Prenylated rab acceptor 1 and related proteins [Intracellular trafficking and secretion / Signal transduction mechanisms]
Probab=99.91 E-value=5.8e-24 Score=166.99 Aligned_cols=139 Identities=24% Similarity=0.285 Sum_probs=127.6
Q ss_pred HhhCCCCCCChhHhhccCCCCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHhc
Q 043789 27 IESGFGTPRPWDEFIQIQSIKLPTSFANFIERIQSNAAFYRMNYAVIILSIIVVSLFWNPVSLIILIILIAAWLFLYFLR 106 (199)
Q Consensus 27 ~~~~l~~~RPw~eF~~~~~fs~P~s~~~a~~Rv~~Nl~yF~~NY~li~~~~~~~~ll~~P~~ll~l~~~~~~~~~l~~~~ 106 (199)
..+.++..+.-+||||..|.++|++++|+++|+-.|++||+.||..+...+.+|.+++||.+++++.+..++.+.+...|
T Consensus 22 ~~q~L~~~~~~~eFfni~rIs~PqNf~eaqsRv~~Nl~rFssnYlaiia~l~iy~ll~nllLlivIgivvaGvygi~kl~ 101 (169)
T COG5130 22 IKQALGDKDVTREFFNIGRISVPQNFNEAQSRVFANLDRFSSNYLAIIAILTIYYLLYNLLLLIVIGIVVAGVYGIRKLR 101 (169)
T ss_pred HHHHhcCcccHHHHhccccccCCcchHHHHHHHHhhHHHHhhhHHHHHHHHHHHHHHHhHHHHHHHhhhhheeeehhhcc
Confidence 34456678888999999999999999999999999999999999999999999999999999999988888888888888
Q ss_pred CCCceEEcCeeehhHHHHHHHHHHHHHHHHHhchhhHHHHHHHHHHHHHHHhhcccCCCC
Q 043789 107 DGDRLVVYGFVIDDRILMTALLPGTIAFLFLTDVTKNIIIGLCIGTVVIAAHAGFRSTDD 166 (199)
Q Consensus 107 ~~~~~~i~gr~~~~~~~~~~l~~~s~~ll~~t~~~~~l~~~l~~s~~vil~HA~~R~~~~ 166 (199)
.+ |.+..-+..+.+++|++++++.+++.++.+++.+++|..++|+++++.||++..+.-
T Consensus 102 g~-~lv~~~~~~~~~~ly~glvcvlip~gffaspI~tllwl~gas~v~vfgHAal~e~p~ 160 (169)
T COG5130 102 GR-PLVCNIELEPRSVLYAGLVCVLIPFGFFASPIVTLLWLSGASGVVVFGHAALLEEPL 160 (169)
T ss_pred cC-ccccccceeecchhhhhHHHHHHHHHHHHhHHHHHHHHHhcceeEeechHHHcCCcc
Confidence 88 777766677788999999999999999999999999999999999999999999863
No 4
>KOG4050 consensus Glutamate transporter EAAC1-interacting protein GTRAP3-18 [Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=99.88 E-value=6.3e-22 Score=158.39 Aligned_cols=134 Identities=16% Similarity=0.280 Sum_probs=108.7
Q ss_pred CCCCCCChhHhh-ccCCCCCC--CCHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH--H-H
Q 043789 30 GFGTPRPWDEFI-QIQSIKLP--TSFANFIERIQSNAAFYRMNYAVIILSIIVVSLFWNPVSLIILIILIAAWLF--L-Y 103 (199)
Q Consensus 30 ~l~~~RPw~eF~-~~~~fs~P--~s~~~a~~Rv~~Nl~yF~~NY~li~~~~~~~~ll~~P~~ll~l~~~~~~~~~--l-~ 103 (199)
++++.|.|+||+ +.+||..| +|+++|++|+.+|+.|||+||++.++.++.+..+.+|.-+++.++..++... + .
T Consensus 15 ~lpPlRa~ddF~lgS~Rfa~Pd~~D~~kW~nRVisNLLYyQTNYfv~~it~~~l~~f~sp~~iilglivvvlvi~~liwa 94 (188)
T KOG4050|consen 15 ELPPLRALDDFLLGSDRFARPDFNDFKKWNNRVISNLLYYQTNYFVTFITLFLLHGFISPQDIILGLIVVVLVIGTLIWA 94 (188)
T ss_pred CCCcchhHHHhccCcccccCCCCccHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHH
Confidence 789999999999 89999999 7999999999999999999999999999999999999777644333322211 1 1
Q ss_pred HhcCCCceEEcCeeehhHHHHHHHHHHHHHHHHHhchhhHHHHHHHHHHHHHHHhhcccCCC
Q 043789 104 FLRDGDRLVVYGFVIDDRILMTALLPGTIAFLFLTDVTKNIIIGLCIGTVVIAAHAGFRSTD 165 (199)
Q Consensus 104 ~~~~~~~~~i~gr~~~~~~~~~~l~~~s~~ll~~t~~~~~l~~~l~~s~~vil~HA~~R~~~ 165 (199)
...++ .++-.+ +-.|...+++...++.++++..|+..++.+++..+++++++||++|.+|
T Consensus 95 ~~~~a-~~krmr-~~hp~~~l~gvllv~yfli~v~~~vlv~~F~il~Pv~L~lvHASLRLRn 154 (188)
T KOG4050|consen 95 ASADA-NIKRMR-TDHPLVTLAGVLLVGYFLISVFGGVLVFAFAILFPVLLVLVHASLRLRN 154 (188)
T ss_pred HhccH-HHHHHh-hcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 12232 344332 3346777788888899999999999999999999999999999999996
No 5
>COG1575 MenA 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]
Probab=77.61 E-value=14 Score=33.10 Aligned_cols=107 Identities=11% Similarity=0.048 Sum_probs=52.9
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhH-HHHHHHHHHHHHHHHHHhcCCCceEEcCeeehhHHHHHHHHHHHH
Q 043789 54 NFIERIQSNAAFYRMNYAVIILSIIVVSLFWNPV-SLIILIILIAAWLFLYFLRDGDRLVVYGFVIDDRILMTALLPGTI 132 (199)
Q Consensus 54 ~a~~Rv~~Nl~yF~~NY~li~~~~~~~~ll~~P~-~ll~l~~~~~~~~~l~~~~~~~~~~i~gr~~~~~~~~~~l~~~s~ 132 (199)
+.+.|..-++.-+ -|....++...++..+++. ..+.+++++++|.| +.. |.-++...+-+-.+......+.+
T Consensus 91 ~~k~~~~l~l~l~--~~~g~~llg~~~~~~s~~~~l~lG~l~~~~g~~Y----TgG-p~PlgY~gLGEi~~~vffG~l~v 163 (303)
T COG1575 91 SMKPALILSLALF--LLAGLALLGVILAALSDWLVLLLGLLCIAAGILY----TGG-PFPLGYMGLGEIFVGVFFGPLIV 163 (303)
T ss_pred cCCHHHHHHHHHH--HHHHHHHHHHHHHHHhhhHHHHHHHHHHHheeee----ccC-CcCcccCCHHHHHHHHHHHHHHH
Confidence 3445555444332 2344444444455566665 33344444455533 333 44444455555544444444444
Q ss_pred HHHHHhchhhHHHHHHHHHHHHHHHhhcccCCCCC
Q 043789 133 AFLFLTDVTKNIIIGLCIGTVVIAAHAGFRSTDDM 167 (199)
Q Consensus 133 ~ll~~t~~~~~l~~~l~~s~~vil~HA~~R~~~~~ 167 (199)
..-++......--..+..++.+.++-+....-||.
T Consensus 164 ~g~~yiqt~~~~~~~ll~slp~gil~~~Il~aNNi 198 (303)
T COG1575 164 LGAYYIQTGRLSWAILLPSLPVGILIANILLANNL 198 (303)
T ss_pred HHHHHHhcccchHHHHHHHHHHHHHHHHHHHhccc
Confidence 44455544433334566666666666666666654
No 6
>PF02300 Fumarate_red_C: Fumarate reductase subunit C; InterPro: IPR003510 Fumarate reductase is a membrane-bound flavoenzyme consisting of four subunits, A-B. A and B comprise the membrane-extrinsic catalytic domain and C and D link the catalytic centres to the electron-transport chain. This family consists of the 15kDa hydrophobic subunit C.; GO: 0016020 membrane; PDB: 1KFY_O 1L0V_O 3P4S_O 2B76_O 3CIR_O 3P4R_C 1KF6_O 3P4P_C 3P4Q_C.
Probab=68.69 E-value=35 Score=26.83 Aligned_cols=48 Identities=25% Similarity=0.385 Sum_probs=24.4
Q ss_pred HHHhhhhHHHHHHHHHHHHHHH---H-HHhcCC-CceEEcCeeehhHHHHHHH
Q 043789 80 VSLFWNPVSLIILIILIAAWLF---L-YFLRDG-DRLVVYGFVIDDRILMTAL 127 (199)
Q Consensus 80 ~~ll~~P~~ll~l~~~~~~~~~---l-~~~~~~-~~~~i~gr~~~~~~~~~~l 127 (199)
+..+.||+.+++=++.+++.++ - +..-++ -++.++|+.++++.+..+.
T Consensus 60 ~~fl~nP~vv~lnliaLaa~L~Ha~TwF~l~Pkam~i~v~~~~v~~~~i~~~~ 112 (129)
T PF02300_consen 60 LAFLQNPIVVILNLIALAAALLHAKTWFELAPKAMPIIVGGERVPPRPIVKGL 112 (129)
T ss_dssp HHHHTSHHHHHHHHHHHHHHHHHHHHHHHHGGGG---EETTEE--SHHHHHHH
T ss_pred HHHHcCcHHHHHHHHHHHHHHHHHHHHHHHchhhhhhhcCCeeCCHHHHHHHH
Confidence 4567889777754444433322 0 111222 2688899999988766544
No 7
>PRK07419 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional
Probab=68.35 E-value=56 Score=29.00 Aligned_cols=16 Identities=0% Similarity=-0.137 Sum_probs=8.1
Q ss_pred ceEEcCeeehhHHHHH
Q 043789 110 RLVVYGFVIDDRILMT 125 (199)
Q Consensus 110 ~~~i~gr~~~~~~~~~ 125 (199)
|..+..+..-+-.+..
T Consensus 139 P~~l~y~gLGE~~v~l 154 (304)
T PRK07419 139 PFRLGYQGLGEPLCFL 154 (304)
T ss_pred CcccCCCCchHHHHHH
Confidence 5565555554443333
No 8
>PRK13591 ubiA prenyltransferase; Provisional
Probab=65.75 E-value=55 Score=29.36 Aligned_cols=14 Identities=7% Similarity=0.193 Sum_probs=9.6
Q ss_pred hhHhhcc--CCCCCCC
Q 043789 37 WDEFIQI--QSIKLPT 50 (199)
Q Consensus 37 w~eF~~~--~~fs~P~ 50 (199)
.+|++|. ++.+.|.
T Consensus 77 iNd~~D~eiD~IN~P~ 92 (307)
T PRK13591 77 LDRALDSEEDAVNRSE 92 (307)
T ss_pred HhhhccchhhhccCcc
Confidence 3578865 5788883
No 9
>COG1955 FlaJ Archaeal flagella assembly protein J [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=63.67 E-value=48 Score=31.91 Aligned_cols=62 Identities=10% Similarity=0.178 Sum_probs=46.7
Q ss_pred hhhHHHHHHHhhCCCCCCChhHhhccCCCCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 043789 18 PLSTRVKRLIESGFGTPRPWDEFIQIQSIKLPTSFANFIERIQSNAAFYRMNYAVIILSIIV 79 (199)
Q Consensus 18 ~~~s~~~~~~~~~l~~~RPw~eF~~~~~fs~P~s~~~a~~Rv~~Nl~yF~~NY~li~~~~~~ 79 (199)
+.++...+++...+..--+-.||+.......=++.+...+|.-++++-|+.=|.-+..-+.+
T Consensus 119 ~~l~dfL~Rla~ai~sGe~~~eFl~~E~~~~~~~y~~~Yer~LeSl~~~~diY~sll~S~tf 180 (527)
T COG1955 119 EILADFLDRLAYALDSGEDLKEFLEREQDTTMDEYETEYERALESLDVWKDIYVSLLVSLTF 180 (527)
T ss_pred HHHHHHHHHHHHhhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555566677777888888877766777788899999999999999999765544433
No 10
>PRK11715 inner membrane protein; Provisional
Probab=61.67 E-value=83 Score=29.60 Aligned_cols=88 Identities=17% Similarity=0.329 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHHh---------hhhHHHHHHHHHHHHHHHHHH-hcCCCceEEcCeeehhHHHHHHHHHHHHHHHHH
Q 043789 68 MNYAVIILSIIVVSLF---------WNPVSLIILIILIAAWLFLYF-LRDGDRLVVYGFVIDDRILMTALLPGTIAFLFL 137 (199)
Q Consensus 68 ~NY~li~~~~~~~~ll---------~~P~~ll~l~~~~~~~~~l~~-~~~~~~~~i~gr~~~~~~~~~~l~~~s~~ll~~ 137 (199)
..|.++|+++.+.+++ .||+--+...+..++++.+.. ..++ +. +...-+.+++.++.+.-+|.
T Consensus 304 ~KYgiLFI~LTF~~fFlfE~~~~~~iHpiQYlLVGlAl~lFYLLLLSlSEH--ig-----F~~AYliAa~a~v~li~~Y~ 376 (436)
T PRK11715 304 VKYAILFIALTFAAFFLFELLKKLRIHPVQYLLVGLALVLFYLLLLSLSEH--IG-----FTLAYLIAALACVLLIGFYL 376 (436)
T ss_pred HhHHHHHHHHHHHHHHHHHHhcCceecHHHHHHHHHHHHHHHHHHHHHHhh--hc-----hHHHHHHHHHHHHHHHHHHH
Confidence 4578888777776643 478655554444444433222 2222 21 22344455556666666666
Q ss_pred hchhhHHHHHHHHHHHHHHHhhccc
Q 043789 138 TDVTKNIIIGLCIGTVVIAAHAGFR 162 (199)
Q Consensus 138 t~~~~~l~~~l~~s~~vil~HA~~R 162 (199)
.++...--.++++++.+.++-|.+.
T Consensus 377 ~~vl~~~k~g~~~~~~L~~LYg~Ly 401 (436)
T PRK11715 377 SAVLRSWKRGLLFAAALAALYGVLY 401 (436)
T ss_pred HHHHhcchHHHHHHHHHHHHHHHHH
Confidence 6655555555555555555555444
No 11
>COG4452 CreD Inner membrane protein involved in colicin E2 resistance [Defense mechanisms]
Probab=60.86 E-value=1.3e+02 Score=28.21 Aligned_cols=89 Identities=16% Similarity=0.356 Sum_probs=51.4
Q ss_pred HHHHHHHHHHHHHHHh---------hhhHHHHHHHHHHHHHHHHHH-hcCCCceEEcCeeehhHHHHHHHHHHHHHHHHH
Q 043789 68 MNYAVIILSIIVVSLF---------WNPVSLIILIILIAAWLFLYF-LRDGDRLVVYGFVIDDRILMTALLPGTIAFLFL 137 (199)
Q Consensus 68 ~NY~li~~~~~~~~ll---------~~P~~ll~l~~~~~~~~~l~~-~~~~~~~~i~gr~~~~~~~~~~l~~~s~~ll~~ 137 (199)
.-|.++++.+.+...+ .||+.-++..+.+++++.+.. ...+ + |.+ ..-+...++++...-+|+
T Consensus 298 ~kYaIlfI~Ltf~afFifE~lt~~~~Hp~QY~LVGlsLv~FYLLLLaLsEH----i-GFt--~Ayl~aSla~a~l~~~YL 370 (443)
T COG4452 298 TKYAILFIGLTFMAFFIFEVLTGQRLHPMQYLLVGLSLVMFYLLLLALSEH----I-GFT--VAYLIASLAGALLNGIYL 370 (443)
T ss_pred HHHHHHHHHHHHHHHhhhhhhcccccchHHHHHHHHHHHHHHHHHHHHHhh----c-CcC--HHHHHHHHHHHHHHHHHH
Confidence 3477777776665543 488776665555555543322 2233 2 333 344445555555566777
Q ss_pred hchhhHHHHHHHHHHHHHHHhhcccC
Q 043789 138 TDVTKNIIIGLCIGTVVIAAHAGFRS 163 (199)
Q Consensus 138 t~~~~~l~~~l~~s~~vil~HA~~R~ 163 (199)
+.+...--.+++..+++.++.+.+.-
T Consensus 371 ~avl~~~~~g~~f~~~L~~lygvm~g 396 (443)
T COG4452 371 QAVLRGWRNGLLFFLALLLLYGVMFG 396 (443)
T ss_pred HHHHhhhhhhHHHHHHHHHHHHHHHH
Confidence 77666666667777666666666654
No 12
>PF06123 CreD: Inner membrane protein CreD; InterPro: IPR010364 This family consists of several bacterial CreD or Cet inner membrane proteins. Dominant mutations of the cet gene of Escherichia coli result in tolerance to colicin E2 and increased amounts of an inner membrane protein with a Mr of 42,000. The cet gene is shown to be in the same operon as the phoM gene, which is required in a phoR background for expression of the structural gene for alkaline phosphatase, phoA. Although the Cet protein is not required for phoA expression, it has been suggested that the Cet protein has an enhancing effect on the transcription of phoA [].
Probab=59.16 E-value=1e+02 Score=28.97 Aligned_cols=88 Identities=17% Similarity=0.344 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHHh---------hhhHHHHHHHHHHHHHHHHHH-hcCCCceEEcCeeehhHHHHHHHHHHHHHHHHH
Q 043789 68 MNYAVIILSIIVVSLF---------WNPVSLIILIILIAAWLFLYF-LRDGDRLVVYGFVIDDRILMTALLPGTIAFLFL 137 (199)
Q Consensus 68 ~NY~li~~~~~~~~ll---------~~P~~ll~l~~~~~~~~~l~~-~~~~~~~~i~gr~~~~~~~~~~l~~~s~~ll~~ 137 (199)
.-|.++|+++.+.+++ .||+--+...+...+++.+.. ..++ +. +...-..+++.++.++.+|.
T Consensus 298 ~KYgiLFI~LTF~~fflfE~~~~~~iHpiQY~LVGlAl~lFYlLLLSlSEh--i~-----F~~AYliAa~a~i~Li~~Y~ 370 (430)
T PF06123_consen 298 VKYGILFIGLTFLAFFLFELLSKLRIHPIQYLLVGLALVLFYLLLLSLSEH--IG-----FNLAYLIAALACIGLISLYL 370 (430)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHhh--hc-----hHHHHHHHHHHHHHHHHHHH
Confidence 3478888877776653 478655544444444432222 2222 11 22334445555556666666
Q ss_pred hchhhHHHHHHHHHHHHHHHhhccc
Q 043789 138 TDVTKNIIIGLCIGTVVIAAHAGFR 162 (199)
Q Consensus 138 t~~~~~l~~~l~~s~~vil~HA~~R 162 (199)
.++...-=.+++++.++.++-+.+.
T Consensus 371 ~~vl~~~k~~~~~~~~L~~LY~~Ly 395 (430)
T PF06123_consen 371 SSVLKSWKRGLIFAGLLAALYGFLY 395 (430)
T ss_pred HHHHhcchHHHHHHHHHHHHHHHHH
Confidence 5555444455555555555554443
No 13
>PLN02922 prenyltransferase
Probab=51.37 E-value=1.7e+02 Score=26.07 Aligned_cols=12 Identities=0% Similarity=-0.189 Sum_probs=6.2
Q ss_pred ceEEcCeeehhH
Q 043789 110 RLVVYGFVIDDR 121 (199)
Q Consensus 110 ~~~i~gr~~~~~ 121 (199)
|..+..+.+-+-
T Consensus 143 P~pl~y~gLGE~ 154 (315)
T PLN02922 143 PFRLSYKGLGEP 154 (315)
T ss_pred CcccccCcchHH
Confidence 555555555443
No 14
>PRK04987 fumarate reductase subunit C; Provisional
Probab=49.01 E-value=90 Score=24.63 Aligned_cols=49 Identities=27% Similarity=0.384 Sum_probs=28.4
Q ss_pred HHHHhhhhHHHHHHHHHHHHHHH-H---HHhcCC-CceEEcCeeehhHHHHHHH
Q 043789 79 VVSLFWNPVSLIILIILIAAWLF-L---YFLRDG-DRLVVYGFVIDDRILMTAL 127 (199)
Q Consensus 79 ~~~ll~~P~~ll~l~~~~~~~~~-l---~~~~~~-~~~~i~gr~~~~~~~~~~l 127 (199)
.+..+.||+.+++=++.+++.++ - +...++ -|+.+.|+.++++.+..++
T Consensus 60 f~~flqnPiv~~lniiaL~a~LlHa~TwF~~~Pka~~i~v~~~~l~~~~ii~~~ 113 (130)
T PRK04987 60 FVSFLQNPIVVILNIITLAAALLHTKTWFEMAPKAANIIVKDEKMGPEPIIKAL 113 (130)
T ss_pred HHHHHhCcHHHHHHHHHHHHHHHHHHHHHHHcchhheeeecCccCChHHHHHHH
Confidence 34567899877765444443322 0 112222 2577889999888665544
No 15
>cd00546 QFR_TypeD_subunitC Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine oxidoreductase (SQR). QFRs oxidize low potential quinols such as menaquinol and are involved in anaerobic respiration with fumarate as the terminal electron acceptor. SQR and QFR share a common subunit arrangement, composed of a flavoprotein catalytic subunit, an iron-sulfur protein and one or two hydrophobic transmembrane subunits. Members of this subfamily are classified as Type D as they contain two transmembrane subunits (C and D) and no heme groups. The structural arrangement allows efficient electron transfer between the catalytic subunit, through iron-sulfur centers, and the transmembrane subunit containing the electron donor (quinol). The quinone binding site resides in the transmembrane subunits.
Probab=47.71 E-value=70 Score=25.03 Aligned_cols=48 Identities=27% Similarity=0.398 Sum_probs=27.6
Q ss_pred HHHhhhhHHHHHHHHHHHHHHH-H---HHhcCC-CceEEcCeeehhHHHHHHH
Q 043789 80 VSLFWNPVSLIILIILIAAWLF-L---YFLRDG-DRLVVYGFVIDDRILMTAL 127 (199)
Q Consensus 80 ~~ll~~P~~ll~l~~~~~~~~~-l---~~~~~~-~~~~i~gr~~~~~~~~~~l 127 (199)
+..+.||+.+++=++.+++.++ - +...++ -++.+.|+.++++.+..++
T Consensus 57 ~~flqnPiv~~lniiaL~a~L~Ha~TwF~~~Pkam~i~v~~~~l~~~~iv~~~ 109 (124)
T cd00546 57 VSFLQNPIVVLLNIIALAAALLHAKTWFEMAPKVMNIIVKGERVPPEAITKAL 109 (124)
T ss_pred HHHHhCcHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccCccCChHHHHHHH
Confidence 4567899877765444443322 0 111222 2577788888887665444
No 16
>PRK13603 fumarate reductase subunit C; Provisional
Probab=47.09 E-value=69 Score=25.12 Aligned_cols=50 Identities=14% Similarity=0.214 Sum_probs=28.7
Q ss_pred HHHHhhhhHHHHHHHHHHHHHHH-H---HHhcCC-CceEEcCeeehhHHHHHHHH
Q 043789 79 VVSLFWNPVSLIILIILIAAWLF-L---YFLRDG-DRLVVYGFVIDDRILMTALL 128 (199)
Q Consensus 79 ~~~ll~~P~~ll~l~~~~~~~~~-l---~~~~~~-~~~~i~gr~~~~~~~~~~l~ 128 (199)
.+..+.||+.+++=++.+++.++ - +...++ -++.+.|+.++++.+..++-
T Consensus 56 f~~flqnPivv~lniiaL~a~L~Ha~TwF~~~Pkam~I~v~~~~l~~~~iv~~~w 110 (126)
T PRK13603 56 FLDFSANPVVVVLNVVALSFLLLHAVTWFGSAPRAMVIQVRGRRVPARAVLAGHY 110 (126)
T ss_pred HHHHHhCcHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccCCcCChHHHHHHHH
Confidence 34567899877765544444322 0 111222 25777888888886655543
No 17
>PRK12887 ubiA tocopherol phytyltransferase; Reviewed
Probab=46.19 E-value=2.1e+02 Score=25.29 Aligned_cols=13 Identities=23% Similarity=0.526 Sum_probs=7.2
Q ss_pred hhHhhcc--CCCCCC
Q 043789 37 WDEFIQI--QSIKLP 49 (199)
Q Consensus 37 w~eF~~~--~~fs~P 49 (199)
++|++|. ++.++|
T Consensus 72 iNd~~D~~iD~inkp 86 (308)
T PRK12887 72 LNQLTDIEIDRINKP 86 (308)
T ss_pred HhhhhhHHHHhcCCC
Confidence 5666654 455554
No 18
>PF01040 UbiA: UbiA prenyltransferase family; InterPro: IPR000537 The UbiA family of prenyltransferases includes bacterial 4-hydroxybenzoate octaprenyltransferase (gene ubiA); yeast mitochondrial para-hydroxybenzoate--polyprenyltransferase (gene COQ2); and protohaem IX farnesyltransferase (haem O synthase) from yeast and mammals(gene COX10), and from bacteria (genes cyoE or ctaB) [, ]. These are integral membrane proteins, which probably contain seven transmembrane segments. The signature is also found in cytochrome C oxidase assembly factor. The complexity of cytochrome C oxidase requires assistance in building the complex, and this is carried out by the cytochrome C oxidase assembly factor.; GO: 0004659 prenyltransferase activity, 0016021 integral to membrane
Probab=45.91 E-value=1.7e+02 Score=24.02 Aligned_cols=11 Identities=45% Similarity=0.688 Sum_probs=5.7
Q ss_pred HhhhhHHHHHH
Q 043789 82 LFWNPVSLIIL 92 (199)
Q Consensus 82 ll~~P~~ll~l 92 (199)
...+|..+++.
T Consensus 88 ~~~~~~~~~~~ 98 (257)
T PF01040_consen 88 LLLGPWFLLIL 98 (257)
T ss_pred HhcCchhHHHH
Confidence 55666444443
No 19
>TIGR00751 menA 1,4-dihydroxy-2-naphthoate octaprenyltransferase. This membrane-associated enzyme converts 1,4-dihydroxy-2-naphthoic acid (DHNA) to demethylmenaquinone, a step in menaquinone biosynthesis.
Probab=45.02 E-value=1.9e+02 Score=25.25 Aligned_cols=9 Identities=0% Similarity=-0.588 Sum_probs=4.0
Q ss_pred ceEEcCeee
Q 043789 110 RLVVYGFVI 118 (199)
Q Consensus 110 ~~~i~gr~~ 118 (199)
|..+..+.+
T Consensus 129 P~~l~y~gL 137 (284)
T TIGR00751 129 SKPYGYAGL 137 (284)
T ss_pred CCccccCch
Confidence 444444443
No 20
>TIGR02235 menA_cyano-plnt 1,4-dihydroxy-2-naphthoate phytyltransferase. This family of phytyltransferases, found in plants and cyanobacteria, are involved in the biosythesis of phylloquinone (Vitamin K1). Phylloquinone is a critical component of photosystem I. The closely related MenA enzyme from bacteria transfers a prenyl group (which only differs in the saturation of the isoprenyl groups) in the biosynthesis of menaquinone. Activity towards both substrates in certain organisms should be considered a possibility.
Probab=44.35 E-value=2.2e+02 Score=24.93 Aligned_cols=19 Identities=11% Similarity=0.093 Sum_probs=8.5
Q ss_pred HHhhcccCCCCCCcchhhhhh
Q 043789 156 AAHAGFRSTDDMFSADDEERL 176 (199)
Q Consensus 156 l~HA~~R~~~~~f~dE~~~~~ 176 (199)
+.++.+.. || ++|.|++..
T Consensus 173 ~~~~iL~~-Nn-~rD~e~D~~ 191 (285)
T TIGR02235 173 ATTLILFC-SH-FHQVEDDLA 191 (285)
T ss_pred HHHHHHHh-cC-CccchhHHH
Confidence 34444444 33 466555443
No 21
>PF05879 RHD3: Root hair defective 3 GTP-binding protein (RHD3); InterPro: IPR008803 This family consists of several eukaryotic root hair defective 3 like GTP-binding proteins. It has been speculated that the RHD3 protein is a member of a novel class of GTP-binding proteins that is widespread in eukaryotes and required for regulated cell enlargement []. The family also contains the homologous Saccharomyces cerevisiae synthetic construct enhancement of YOP1 (SEY1) protein which is involved in membrane trafficking [].; GO: 0016817 hydrolase activity, acting on acid anhydrides
Probab=39.77 E-value=57 Score=32.66 Aligned_cols=24 Identities=29% Similarity=0.656 Sum_probs=17.1
Q ss_pred HHHhhhhHHHHHHHHHHHHHHHHH
Q 043789 80 VSLFWNPVSLIILIILIAAWLFLY 103 (199)
Q Consensus 80 ~~ll~~P~~ll~l~~~~~~~~~l~ 103 (199)
..++.||+.+.++++++++.+.+|
T Consensus 666 m~vLrnPl~~~l~li~~~~~~~~~ 689 (742)
T PF05879_consen 666 MAVLRNPLYFTLLLILGGGFYVLY 689 (742)
T ss_pred HHHHHChHHHHHHHHHHHHHHHHH
Confidence 567788887777777776666555
No 22
>PF07305 DUF1454: Protein of unknown function (DUF1454); InterPro: IPR009918 This family consists of several Enterobacterial sequences of around 200 residues in length, which are often known as YiiQ proteins. The function of this family is unknown.
Probab=37.47 E-value=84 Score=26.46 Aligned_cols=45 Identities=16% Similarity=0.149 Sum_probs=32.4
Q ss_pred hHHHHHHHhhCCCCCCChhHhhccCCCCCCCCHHHHHHHHHHhHHH
Q 043789 20 STRVKRLIESGFGTPRPWDEFIQIQSIKLPTSFANFIERIQSNAAF 65 (199)
Q Consensus 20 ~s~~~~~~~~~l~~~RPw~eF~~~~~fs~P~s~~~a~~Rv~~Nl~y 65 (199)
+...||.... -.+-.|..||--.+.=.....+-++.+||+.||+-
T Consensus 47 I~~FRekyN~-~Np~Lpl~EfraI~~~~~~~~ltRAASkINe~LYa 91 (200)
T PF07305_consen 47 IPQFREKYNQ-DNPTLPLNEFRAIDSKDDKAPLTRAASKINENLYA 91 (200)
T ss_pred HHHHHHHhhh-cCCCcchhheeeeccCCCcchhhHHHHHhhhHHHH
Confidence 6667776653 34567999999665444445588999999999853
No 23
>TIGR03750 conj_TIGR03750 conjugative transfer region protein, TIGR03750 family. Members of this protein family are found occasionally on plasmids. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=34.15 E-value=1.7e+02 Score=22.39 Aligned_cols=48 Identities=15% Similarity=0.202 Sum_probs=24.6
Q ss_pred CceEEcCeeehhHHHHHHHH-----HHHHHHHHHhchhhHHHHHHHHHHHHHH
Q 043789 109 DRLVVYGFVIDDRILMTALL-----PGTIAFLFLTDVTKNIIIGLCIGTVVIA 156 (199)
Q Consensus 109 ~~~~i~gr~~~~~~~~~~l~-----~~s~~ll~~t~~~~~l~~~l~~s~~vil 156 (199)
||.++.|-+.+..-+.+++. ++++++.+.++.+..+..+..++..+++
T Consensus 11 ePvV~rGlT~~El~~~~~~~~~~gl~~g~~l~~~~~~w~~~p~~~lig~~l~v 63 (111)
T TIGR03750 11 EPVVFRGLTADELGVAAGVGLAAGLVLGLLLALLAGPWALIPTGALLGPILVV 63 (111)
T ss_pred CCceecccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 48888888776654443332 2333444555544444444444443333
No 24
>PF09991 DUF2232: Predicted membrane protein (DUF2232); InterPro: IPR018710 This family of bacterial and eukaryotic proteins has no known fucntion; however this signature belongs to a Pfam Gx transporter clan.
Probab=32.67 E-value=1.9e+02 Score=24.21 Aligned_cols=28 Identities=11% Similarity=0.035 Sum_probs=13.7
Q ss_pred HhchhhHHHHHHHHHHHHHHHhhcccCC
Q 043789 137 LTDVTKNIIIGLCIGTVVIAAHAGFRST 164 (199)
Q Consensus 137 ~t~~~~~l~~~l~~s~~vil~HA~~R~~ 164 (199)
+.|....++..+..+....+++-.+|+.
T Consensus 54 ~~~~~~~~~~~~~~~l~g~~lg~~~~~~ 81 (290)
T PF09991_consen 54 FGGPVSALFYLLFFGLPGLVLGYLLRKK 81 (290)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 3443444555555555554555555544
No 25
>COG4129 Predicted membrane protein [Function unknown]
Probab=31.08 E-value=4e+02 Score=24.09 Aligned_cols=48 Identities=23% Similarity=0.438 Sum_probs=28.1
Q ss_pred CCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHh-hhhHHHHHHHHHHHHHH
Q 043789 46 IKLPTSFANFIERIQSNAAFYRMNYAVIILSIIVVSLF-WNPVSLIILIILIAAWL 100 (199)
Q Consensus 46 fs~P~s~~~a~~Rv~~Nl~yF~~NY~li~~~~~~~~ll-~~P~~ll~l~~~~~~~~ 100 (199)
-+.++|+..+.+|+-.| -+-+++.+++..++ .+|+.+-+.++.+..+.
T Consensus 48 ~t~~~s~~~~~~r~~g~-------~iG~~~a~l~~~l~g~~~~~~~v~~~i~i~~~ 96 (332)
T COG4129 48 PTIKRSLKRALQRLLGN-------ALGAILAVLFFLLFGQNPIAFGVVLLIIIPLL 96 (332)
T ss_pred CcchHHHHHHHHHHHHH-------HHHHHHHHHHHHHcCccHHHHHHHHHHHHHHH
Confidence 34556666666666554 45555555555555 88877666555554443
No 26
>PF06645 SPC12: Microsomal signal peptidase 12 kDa subunit (SPC12); InterPro: IPR009542 This family consists of several microsomal signal peptidase 12 kDa subunit proteins. Translocation of polypeptide chains across the endoplasmic reticulum (ER) membrane is triggered by signal sequences. Subsequently, signal recognition particle interacts with its membrane receptor and the ribosome-bound nascent chain is targeted to the ER where it is transferred into a protein-conducting channel. At some point, a second signal sequence recognition event takes place in the membrane and translocation of the nascent chain through the membrane occurs. The signal sequence of most secretory and membrane proteins is cleaved off at this stage. Cleavage occurs by the signal peptidase complex (SPC) as soon as the lumenal domain of the translocating polypeptide is large enough to expose its cleavage site to the enzyme. The signal peptidase complex is possibly also involved in proteolytic events in the ER membrane other than the processing of the signal sequence, for example the further digestion of the cleaved signal peptide or the degradation of membrane proteins. Mammalian signal peptidase is as a complex of five different polypeptide chains. This family represents the 12 kDa subunit (SPC12).; GO: 0008233 peptidase activity, 0006465 signal peptide processing, 0005787 signal peptidase complex, 0016021 integral to membrane
Probab=29.95 E-value=1.7e+02 Score=20.55 Aligned_cols=31 Identities=10% Similarity=-0.051 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHhchhhHHHHHHHHHHHHHHH
Q 043789 127 LLPGTIAFLFLTDVTKNIIIGLCIGTVVIAA 157 (199)
Q Consensus 127 l~~~s~~ll~~t~~~~~l~~~l~~s~~vil~ 157 (199)
..+++.+.=|+++.....+.+.+++++++++
T Consensus 20 ~~iisfi~Gy~~q~~~~~~~~~~~g~~~~~l 50 (76)
T PF06645_consen 20 SAIISFIVGYITQSFSYTFYIYGAGVVLTLL 50 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444444556666666666666666655543
No 27
>TIGR01294 P_lamban phospholamban. This model represents the short (52 residue) transmembrane phosphoprotein phospholamban. Phospholamban, in its unphosphorylated form, inhibits SERCA2, the cardiac sarcoplasmic reticulum Ca-ATPase.
Probab=29.10 E-value=1.1e+02 Score=19.96 Aligned_cols=29 Identities=10% Similarity=0.426 Sum_probs=20.1
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHh
Q 043789 55 FIERIQSNAAFYRMNYAVIILSIIVVSLF 83 (199)
Q Consensus 55 a~~Rv~~Nl~yF~~NY~li~~~~~~~~ll 83 (199)
.....+.|+..--.|+.++.+-++++|++
T Consensus 20 ~~~qar~~lq~lfvnf~lilicllli~ii 48 (52)
T TIGR01294 20 MPQQARQNLQNLFINFCLILICLLLICII 48 (52)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33446778888888888877766666654
No 28
>PRK13592 ubiA prenyltransferase; Provisional
Probab=28.98 E-value=2.8e+02 Score=24.80 Aligned_cols=18 Identities=6% Similarity=-0.248 Sum_probs=11.6
Q ss_pred HHHHHHHHHhhcccCCCC
Q 043789 149 CIGTVVIAAHAGFRSTDD 166 (199)
Q Consensus 149 ~~s~~vil~HA~~R~~~~ 166 (199)
..+.+..+.-=..|+-+|
T Consensus 182 l~afl~~l~rEI~KdieD 199 (299)
T PRK13592 182 FTMYFPSLIWEVCRKIRA 199 (299)
T ss_pred HHHHHHHHHHHHHHhhcC
Confidence 355566666666777777
No 29
>KOG1288 consensus Amino acid transporters [Amino acid transport and metabolism]
Probab=26.76 E-value=5.5e+02 Score=26.30 Aligned_cols=33 Identities=21% Similarity=0.235 Sum_probs=24.6
Q ss_pred HHHHHHHHHhchhhHHHHHHHHHHHHHHHhhcc
Q 043789 129 PGTIAFLFLTDVTKNIIIGLCIGTVVIAAHAGF 161 (199)
Q Consensus 129 ~~s~~ll~~t~~~~~l~~~l~~s~~vil~HA~~ 161 (199)
+.++..++..+.+..-...+....+++++|.--
T Consensus 493 l~s~~mMfvVd~~~A~~~~l~~~iLv~~lh~~~ 525 (945)
T KOG1288|consen 493 LLSLGMMFVVDRINASISFLLMGILVVVLHYFS 525 (945)
T ss_pred HHHHhhhheecchhhhHHHHHHHHHHHHHhhcC
Confidence 355666666777777777888889999999754
No 30
>PF00664 ABC_membrane: ABC transporter transmembrane region; InterPro: IPR001140 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). A variety of ATP-binding transport proteins have a six transmembrane helical region. They are all integral membrane proteins involved in a variety of transport systems. Members of this family include; the cystic fibrosis transmembrane conductance regulator (CFTR), bacterial leukotoxin secretion ATP-binding protein, multidrug resistance proteins, the yeast leptomycin B resistance protein, the mammalian sulphonylurea receptor and antigen peptide transporter 2. Many of these proteins have two such regions.; GO: 0005524 ATP binding, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0006810 transport, 0055085 transmembrane transport, 0016021 integral to membrane; PDB: 3G61_B 3G5U_B 3G60_A 3B60_D 3QF4_B 2HYD_A 2ONJ_A 4A82_B 4AA3_A 2YL4_A.
Probab=25.45 E-value=3.3e+02 Score=21.26 Aligned_cols=42 Identities=17% Similarity=0.222 Sum_probs=23.7
Q ss_pred CHHHHHHHHHHhHHHHHHHHH----------HHHHHHHHHHHhhhhHHHHHH
Q 043789 51 SFANFIERIQSNAAFYRMNYA----------VIILSIIVVSLFWNPVSLIIL 92 (199)
Q Consensus 51 s~~~a~~Rv~~Nl~yF~~NY~----------li~~~~~~~~ll~~P~~ll~l 92 (199)
+.+|..+|+.+.++..+..|. +.+++.+.+.+..+|...++.
T Consensus 96 ~~g~l~~~i~~d~~~i~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~l~l~~ 147 (275)
T PF00664_consen 96 SSGELLSRITNDIEQIENFLSSSLFQIISSIISIIFSLILLFFISWKLALIL 147 (275)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTHHHHH
T ss_pred cccccccccccccccccccccccccccccccchhhhhhhccccccccccccc
Confidence 568999999977766554442 122233344455788444433
No 31
>PF04140 ICMT: Isoprenylcysteine carboxyl methyltransferase (ICMT) family ; InterPro: IPR007269 The isoprenylcysteine o-methyltransferase (2.1.1.100 from EC) carries out carboyxl methylation of cleaved eukaryotic proteins that terminate in a CaaX motif. In Saccharomyces cerevisiae (Baker's yeast) this methylation is carried out by Ste14p, an integral endoplasmic reticulum membrane protein. Ste14p is the founding member of the isoprenylcysteine carboxyl methyltransferase (ICMT) family, whose members share significant sequence homology [].; GO: 0004671 protein C-terminal S-isoprenylcysteine carboxyl O-methyltransferase activity, 0006481 C-terminal protein methylation, 0016021 integral to membrane; PDB: 4A2N_B.
Probab=25.35 E-value=1.4e+02 Score=21.71 Aligned_cols=20 Identities=25% Similarity=0.198 Sum_probs=12.1
Q ss_pred HHHHH-HHHHHHHHHHhhhhH
Q 043789 68 MNYAV-IILSIIVVSLFWNPV 87 (199)
Q Consensus 68 ~NY~l-i~~~~~~~~ll~~P~ 87 (199)
=||+. +...+....++.|+.
T Consensus 47 P~Y~g~~~~~~~~~~ll~~~~ 67 (94)
T PF04140_consen 47 PSYLGNIIWELGGQLLLFNAW 67 (94)
T ss_dssp HHHHH-HHHHHHHHHHHHT-H
T ss_pred chHHHHHHHHHHHHHHHHhHH
Confidence 36777 555555667778883
No 32
>PF11241 DUF3043: Protein of unknown function (DUF3043); InterPro: IPR021403 Some members in this family of proteins with unknown function are annotated as membrane proteins. This cannot be confirmed.
Probab=25.12 E-value=2.7e+02 Score=22.91 Aligned_cols=40 Identities=8% Similarity=0.017 Sum_probs=21.6
Q ss_pred CCCCCCCHHHHHHHHHHhH--HHHHHHHHHHHHHHHHHHHhh
Q 043789 45 SIKLPTSFANFIERIQSNA--AFYRMNYAVIILSIIVVSLFW 84 (199)
Q Consensus 45 ~fs~P~s~~~a~~Rv~~Nl--~yF~~NY~li~~~~~~~~ll~ 84 (199)
++=.|+|.+....=++.-+ .+.=++|++-+++++++..+.
T Consensus 53 ryLp~RDrGP~Rr~vRD~VDsR~~i~e~fmP~alv~lv~~~v 94 (170)
T PF11241_consen 53 RYLPPRDRGPVRRYVRDYVDSRRNIGEFFMPVALVLLVLSFV 94 (170)
T ss_pred hcCCcccccchhhhhhhhhhcccchHHHHHHHHHHHHHHHHH
Confidence 4555555555444444433 344566777666666655544
No 33
>PF07019 Rab5ip: Rab5-interacting protein (Rab5ip)
Probab=24.82 E-value=1.7e+02 Score=20.46 Aligned_cols=44 Identities=20% Similarity=-0.012 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHhchhhHHHHHHHHHHHHHHHhhcccCC
Q 043789 121 RILMTALLPGTIAFLFLTDVTKNIIIGLCIGTVVIAAHAGFRST 164 (199)
Q Consensus 121 ~~~~~~l~~~s~~ll~~t~~~~~l~~~l~~s~~vil~HA~~R~~ 164 (199)
|+....+..++.-++=++|...-++..+...+.-.+.++...++
T Consensus 7 r~~~a~~~Gi~aGILgLtg~~Gf~~f~~~~~~~s~~~~~~~~~~ 50 (81)
T PF07019_consen 7 RQIIALLAGIAAGILGLTGLYGFIFFFLSSFLVSLLYYAKAGFP 50 (81)
T ss_pred HHHHHHHHHHHhhhcccccHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 34455555566656666765544554444444444555544444
No 34
>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA. This family consists of a single polypeptide chain transporter in the ATP-binding cassette (ABC) transporter family, MsbA, which exports lipid A. It may also act in multidrug resistance. Lipid A, a part of lipopolysaccharide, is found in the outer leaflet of the outer membrane of most Gram-negative bacteria. Members of this family are restricted to the Proteobacteria (although lipid A is more broadly distributed) and often are clustered with lipid A biosynthesis genes.
Probab=24.22 E-value=4.5e+02 Score=24.65 Aligned_cols=41 Identities=12% Similarity=0.266 Sum_probs=23.7
Q ss_pred CHHHHHHHHHHhHHHHHHHHH----------HHHHHHHHHHHhhhhHHHHH
Q 043789 51 SFANFIERIQSNAAFYRMNYA----------VIILSIIVVSLFWNPVSLII 91 (199)
Q Consensus 51 s~~~a~~Rv~~Nl~yF~~NY~----------li~~~~~~~~ll~~P~~ll~ 91 (199)
+.++..+|+...+...+.+|. +.+++.+++.+..+|...++
T Consensus 109 ~~g~~~~~l~~di~~i~~~~~~~~~~~i~~~~~~~~~~~~l~~~~~~l~~i 159 (571)
T TIGR02203 109 PTGTLLSRITFDSEQVASAATDAFIVLVRETLTVIGLFIVLLYYSWQLTLI 159 (571)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 457889998877766665553 22223334445677754443
No 35
>PF04272 Phospholamban: Phospholamban; InterPro: IPR005984 Phospholamban (PLB) is a small protein (52 amino acids) that regulates the affinity of the cardiac sarcoplasmic reticulum Ca2+-ATPase (SERCA2a) for calcium. PLB is present in cardiac myocytes, in slow-twitch and smooth muscle and is expressed also in aorta endothelial cells in which it could play a role in tissue relaxation. The phosphorylation/dephosphorylation of phospholamban removes and restores, respectively, its inhibitory activity on SERCA2a. It has in fact been shown that phospholamban, in its non-phosphorylated form, binds to SERCA2a and inhibits this pump by lowering its affinity for Ca2+, whereas the phosphorylated form does not exert the inhibition. PLB is phosphorylated at two sites, namely at Ser-16 for a cAMP-dependent phosphokinase and at Thr-17 for a Ca2+/calmodulin-dependent phosphokinase, phosphorylation at Ser-16 being a prerequisite for the phosphorylation at Thr-17. The structure of a 36-amino-acid-long N-terminal fragment of human phospholamban phosphorylated at Ser-16 and Thr-17 and Cys36Ser mutated was determined from nuclear magnetic resonance data. The peptide assumes a conformation characterised by two alpha-helices connected by an irregular strand, which comprises the amino acids from Arg-13 to Pro-21. The proline is in a trans conformation. The two phosphate groups on Ser-16 and Thr-17 are shown to interact preferably with the side chains of Arg-14 and Arg-13, respectively [].; GO: 0005246 calcium channel regulator activity, 0042030 ATPase inhibitor activity, 0006816 calcium ion transport, 0016020 membrane; PDB: 1N7L_A 1FJP_A 1FJK_A 2HYN_C 1ZLL_D 1PLP_A 3O7L_I.
Probab=23.93 E-value=1.2e+02 Score=19.74 Aligned_cols=25 Identities=12% Similarity=0.442 Sum_probs=17.5
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHh
Q 043789 59 IQSNAAFYRMNYAVIILSIIVVSLF 83 (199)
Q Consensus 59 v~~Nl~yF~~NY~li~~~~~~~~ll 83 (199)
.+.|+.---.|+.+|.+-+++++++
T Consensus 24 a~qnlqelfvnfclilicllli~ii 48 (52)
T PF04272_consen 24 ARQNLQELFVNFCLILICLLLICII 48 (52)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677877778888777666665554
No 36
>PF14017 DUF4233: Protein of unknown function (DUF4233)
Probab=23.64 E-value=1.5e+02 Score=22.32 Aligned_cols=29 Identities=21% Similarity=0.621 Sum_probs=21.3
Q ss_pred HHHHHhhhhHHHHHHHHHHHHHHHHHHhc
Q 043789 78 IVVSLFWNPVSLIILIILIAAWLFLYFLR 106 (199)
Q Consensus 78 ~~~~ll~~P~~ll~l~~~~~~~~~l~~~~ 106 (199)
.+.+.+.+|...++.++..+.|.|....+
T Consensus 69 ~i~~g~v~p~m~vvG~iF~~~W~~~l~lg 97 (107)
T PF14017_consen 69 LIAGGFVHPAMFVVGVIFAAVWWYALYLG 97 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55677889987787788888887665544
No 37
>PRK13105 ubiA prenyltransferase; Reviewed
Probab=23.30 E-value=5.1e+02 Score=22.70 Aligned_cols=13 Identities=15% Similarity=0.115 Sum_probs=6.5
Q ss_pred cchhhhhhcCccc
Q 043789 169 SADDEERLGSLQS 181 (199)
Q Consensus 169 ~dE~~~~~~~~~~ 181 (199)
+|-|.....|.-+
T Consensus 183 rDie~Dr~~G~~T 195 (282)
T PRK13105 183 QDVVADREAGIAS 195 (282)
T ss_pred cchHhHHHcCCcc
Confidence 4444444456655
No 38
>COG0382 UbiA 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]
Probab=23.15 E-value=4.9e+02 Score=22.41 Aligned_cols=27 Identities=7% Similarity=-0.107 Sum_probs=19.3
Q ss_pred hhHHHHHHHHHHHHHHHhhcccCCCCC
Q 043789 141 TKNIIIGLCIGTVVIAAHAGFRSTDDM 167 (199)
Q Consensus 141 ~~~l~~~l~~s~~vil~HA~~R~~~~~ 167 (199)
.....+......+-++.+....+-+|.
T Consensus 166 ~~~~~~l~~~~~l~~~~~~~i~~~~D~ 192 (289)
T COG0382 166 PLLAWLLLLAAILWTLGYDIIYAIQDI 192 (289)
T ss_pred chHHHHHHHHHHHHHHHHHHHHhccCc
Confidence 344555666677788888888888776
No 39
>PRK05951 ubiA prenyltransferase; Reviewed
Probab=23.14 E-value=5e+02 Score=22.58 Aligned_cols=13 Identities=0% Similarity=0.141 Sum_probs=5.6
Q ss_pred cchhhhhhcCccc
Q 043789 169 SADDEERLGSLQS 181 (199)
Q Consensus 169 ~dE~~~~~~~~~~ 181 (199)
+|.|++.-.|..+
T Consensus 194 ~D~e~D~~~G~~T 206 (296)
T PRK05951 194 RDIEDDERKGIPT 206 (296)
T ss_pred ccchhHHHCCCee
Confidence 4444433345444
No 40
>PF04791 LMBR1: LMBR1-like membrane protein; InterPro: IPR006876 This group of uncharacterised proteins have a conserved C-terminal region which is found in LMBR1 and in the lipocalin-1 receptor. LMBR1 was thought to play a role in preaxial polydactyly, but recent evidence now suggests this not to be the case [].
Probab=22.48 E-value=5.8e+02 Score=23.40 Aligned_cols=32 Identities=13% Similarity=0.339 Sum_probs=21.3
Q ss_pred CCChhHhh-ccCCCCCCCCHHH-HHHHHHHhHHHHHH
Q 043789 34 PRPWDEFI-QIQSIKLPTSFAN-FIERIQSNAAFYRM 68 (199)
Q Consensus 34 ~RPw~eF~-~~~~fs~P~s~~~-a~~Rv~~Nl~yF~~ 68 (199)
.-|+..|+ +.+.|+.- ++ +++|+++|+.+|..
T Consensus 95 ilPf~~~y~es~~~~~~---~k~l~~~l~~n~~~~~~ 128 (471)
T PF04791_consen 95 ILPFAQFYYESGDFTPK---GKGLKSSLKENLIYYLI 128 (471)
T ss_pred HHHHHHHHHHcCCcccc---cccHHHHHHHHHHHHHH
Confidence 36776444 55555432 33 99999999988653
No 41
>PF05777 Acp26Ab: Drosophila accessory gland-specific peptide 26Ab (Acp26Ab); InterPro: IPR008392 This family consists of accessory gland-specific 26Ab peptides or male accessory gland secretory protein 355B from different Drosophila species. Drosophila males, like males of most other insects, transfer a group of specific proteins (Acp26Ab and Acp26Aa in Drosophila) to the females during mating. These proteins are produced primarily in the accessory gland and are likely to influence the female's reproduction [].; GO: 0007617 mating behavior, 0005576 extracellular region
Probab=22.47 E-value=63 Score=23.55 Aligned_cols=14 Identities=29% Similarity=0.517 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHH
Q 043789 69 NYAVIILSIIVVSL 82 (199)
Q Consensus 69 NY~li~~~~~~~~l 82 (199)
||+++..++.|+|+
T Consensus 2 nyf~~l~if~cicl 15 (90)
T PF05777_consen 2 NYFVVLCIFSCICL 15 (90)
T ss_pred cchhhHHHHHHHHH
Confidence 77777666666665
No 42
>PF11368 DUF3169: Protein of unknown function (DUF3169); InterPro: IPR021509 Some members in this family of proteins are annotated as membrane proteins however this cannot be confirmed. Currently there is no known function.
Probab=22.37 E-value=4.1e+02 Score=22.47 Aligned_cols=45 Identities=18% Similarity=0.541 Sum_probs=24.3
Q ss_pred HHhHHHH-HHHHHH---HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHH
Q 043789 60 QSNAAFY-RMNYAV---IILSIIVVSLFWNPVSLIILIILIAAWLFLYF 104 (199)
Q Consensus 60 ~~Nl~yF-~~NY~l---i~~~~~~~~ll~~P~~ll~l~~~~~~~~~l~~ 104 (199)
+.+-+-| +.|..+ +.+++.++++.++-.-++.++++.+.|.+...
T Consensus 190 ~~~yk~~~~ln~~ll~~~~~~l~i~s~~t~~~q~la~lvl~~I~iyi~v 238 (248)
T PF11368_consen 190 EASYKIYFKLNQYLLPILYILLFIYSLLTGENQLLAILVLIIIWIYINV 238 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHHH
Confidence 3444444 447444 33344455666655556666666677766543
No 43
>PRK13823 conjugal transfer protein TrbD; Provisional
Probab=21.86 E-value=1.9e+02 Score=21.39 Aligned_cols=48 Identities=17% Similarity=0.064 Sum_probs=22.0
Q ss_pred ceEEcCeeehhHHHHHHHHHHHHHHHHHhchhhHHHHHHHHHHHH-HHHhhcccCC
Q 043789 110 RLVVYGFVIDDRILMTALLPGTIAFLFLTDVTKNIIIGLCIGTVV-IAAHAGFRST 164 (199)
Q Consensus 110 ~~~i~gr~~~~~~~~~~l~~~s~~ll~~t~~~~~l~~~l~~s~~v-il~HA~~R~~ 164 (199)
|.-++|- +|++..+-..++..+.+ +.-..++..+++++ +++|..+|..
T Consensus 15 p~Ll~Ga---~R~l~i~~g~la~~l~~----g~~~~~a~~~gl~lw~v~h~~l~~m 63 (94)
T PRK13823 15 PNLFMGG---DRELVMFSGLLAGILIF----VAQTWRAALFGIALWFGALFALRLM 63 (94)
T ss_pred cHhhCCc---chHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5555554 45544443333333322 12233334444433 6667766654
No 44
>PRK06041 flagellar assembly protein J; Reviewed
Probab=20.93 E-value=7.6e+02 Score=23.82 Aligned_cols=45 Identities=20% Similarity=0.415 Sum_probs=30.2
Q ss_pred CChhHhhccCCCCCCCCHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 043789 35 RPWDEFIQIQSIKLPTSFANFIERIQSNAAFYRMNYAVIILSIIV 79 (199)
Q Consensus 35 RPw~eF~~~~~fs~P~s~~~a~~Rv~~Nl~yF~~NY~li~~~~~~ 79 (199)
-+..||+..+.-..=++.+...+|.-+++.-+..=|+.+++...+
T Consensus 158 ~~l~~fL~~e~~~~~~~~~~~~~~~le~L~~~~E~Yvt~lvs~~l 202 (553)
T PRK06041 158 EPLKEFLKQEQDTVMEDYKTFYERALYSLDVWKDLYVSLLLSVTF 202 (553)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 366666643222233455667889999999999999877665443
No 45
>cd01785 PDZ_GEF_RA Ubiquitin-like domain of PDZ_GEF_RA. PDZ_GEF_RA PDZ-GEF is a guanine nucleotide exchange factor (GEF) characterised by the presence of a PSD-95/DlgA/ZO-1 (PDZ) domain, a Ras-association (RA) domain and a region related to a cyclic nucleotide binding domain (RCBD). RA-GEF exchanges nucleotides of both Rap1 and Rap2, but is also thought to mediate cAMP-induced Ras activation. The RA domain interacts with Rap1 and also contributes to the membrane localization of RA-GEF. This domain may function in a positive feedback loop.
Probab=20.49 E-value=19 Score=26.12 Aligned_cols=24 Identities=38% Similarity=0.643 Sum_probs=20.3
Q ss_pred CCCCCCHHHHHHHHHHhHHHHHHH
Q 043789 46 IKLPTSFANFIERIQSNAAFYRMN 69 (199)
Q Consensus 46 fs~P~s~~~a~~Rv~~Nl~yF~~N 69 (199)
=..|..++++.+||.-|=+||--|
T Consensus 61 rRLPdql~~La~RI~Ln~RYYLKn 84 (85)
T cd01785 61 RRLPDQLQNLAERIQLSSRYYLKN 84 (85)
T ss_pred ccCCHHHHHHHHhhcccceEEecc
Confidence 358999999999999999998443
Done!