Query 028921
Match_columns 202
No_of_seqs 108 out of 448
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 04:39:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028921.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028921hhsearch_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 2.8E-51 6E-56 336.8 17.6 186 6-192 1-186 (187)
2 PF03208 PRA1: PRA1 family pro 100.0 6.5E-37 1.4E-41 244.5 16.9 147 37-183 2-150 (153)
3 COG5130 YIP3 Prenylated rab ac 99.9 7.7E-24 1.7E-28 166.3 10.3 147 34-181 20-166 (169)
4 KOG4050 Glutamate transporter 99.8 3.7E-20 8.1E-25 148.3 13.0 134 39-173 15-154 (188)
5 COG1575 MenA 1,4-dihydroxy-2-n 87.7 2.8 6.1E-05 37.5 7.8 104 63-172 91-195 (303)
6 PF07305 DUF1454: Protein of u 77.3 5.8 0.00013 33.3 5.2 61 13-74 27-91 (200)
7 PRK07419 1,4-dihydroxy-2-napht 76.8 17 0.00037 32.3 8.5 32 100-135 125-156 (304)
8 PRK13591 ubiA prenyltransferas 76.1 27 0.00059 31.3 9.5 12 47-58 78-91 (307)
9 PRK12887 ubiA tocopherol phyty 71.4 64 0.0014 28.6 10.8 36 89-128 114-150 (308)
10 PLN02922 prenyltransferase 67.2 50 0.0011 29.5 9.2 35 96-134 125-159 (315)
11 PF15187 Augurin: Oesophageal 61.4 4.4 9.5E-05 30.8 1.2 55 25-79 28-89 (114)
12 TIGR02235 menA_cyano-plnt 1,4- 60.3 73 0.0016 28.0 8.9 32 100-135 112-143 (285)
13 TIGR00751 menA 1,4-dihydroxy-2 54.3 81 0.0018 27.7 8.1 35 96-134 111-145 (284)
14 COG1955 FlaJ Archaeal flagella 52.2 1.3E+02 0.0029 29.0 9.6 52 35-86 127-178 (527)
15 PF02300 Fumarate_red_C: Fumar 49.6 1.2E+02 0.0026 23.9 7.4 46 91-136 62-113 (129)
16 PF01040 UbiA: UbiA prenyltran 49.1 1.2E+02 0.0026 25.0 8.1 20 91-110 88-108 (257)
17 PRK11715 inner membrane protei 48.7 2.1E+02 0.0046 27.0 10.3 87 77-169 304-400 (436)
18 PRK13592 ubiA prenyltransferas 48.3 1E+02 0.0022 27.6 7.8 18 157-174 182-199 (299)
19 PF06123 CreD: Inner membrane 46.4 2.5E+02 0.0055 26.4 10.4 87 77-169 298-394 (430)
20 PF03522 KCl_Cotrans_1: K-Cl C 43.5 11 0.00023 22.2 0.6 18 166-184 5-22 (30)
21 KOG0054 Multidrug resistance-a 39.8 2E+02 0.0043 31.2 9.4 66 43-111 902-974 (1381)
22 COG0382 UbiA 4-hydroxybenzoate 37.7 2.7E+02 0.0058 24.1 11.2 26 150-175 167-192 (289)
23 PRK06080 1,4-dihydroxy-2-napht 35.8 2.6E+02 0.0056 24.1 8.4 15 161-175 179-193 (293)
24 COG5415 Predicted integral mem 34.7 2.5E+02 0.0054 24.2 7.6 44 62-105 28-79 (251)
25 COG4129 Predicted membrane pro 34.6 3.5E+02 0.0076 24.5 10.3 45 65-109 51-96 (332)
26 TIGR03750 conj_TIGR03750 conju 32.2 2.2E+02 0.0049 21.7 6.4 51 114-164 8-63 (111)
27 COG4452 CreD Inner membrane pr 32.1 4.4E+02 0.0095 24.8 11.2 88 77-170 298-395 (443)
28 PF05879 RHD3: Root hair defec 32.0 97 0.0021 31.1 5.6 26 88-113 665-690 (742)
29 TIGR01294 P_lamban phospholamb 31.7 81 0.0017 20.5 3.3 29 64-92 20-48 (52)
30 PRK06041 flagellar assembly pr 31.1 4.9E+02 0.011 25.1 10.8 61 25-89 143-203 (553)
31 PRK04987 fumarate reductase su 30.9 2.4E+02 0.0051 22.3 6.5 47 89-135 61-113 (130)
32 cd00546 QFR_TypeD_subunitC Qui 30.4 1.7E+02 0.0037 22.9 5.6 47 89-135 57-109 (124)
33 PF06645 SPC12: Microsomal sig 29.4 2E+02 0.0044 20.2 5.7 30 136-165 21-50 (76)
34 PF11368 DUF3169: Protein of u 29.3 3.2E+02 0.0069 23.2 7.7 46 68-113 189-238 (248)
35 COG0659 SUL1 Sulfate permease 28.9 3.2E+02 0.007 26.4 8.4 34 139-172 386-419 (554)
36 PRK13603 fumarate reductase su 28.9 2E+02 0.0042 22.6 5.7 48 89-136 57-110 (126)
37 KOG1288 Amino acid transporter 28.3 5E+02 0.011 26.6 9.5 35 135-169 491-525 (945)
38 PRK13823 conjugal transfer pro 27.8 1.7E+02 0.0037 21.6 5.0 48 117-171 14-62 (94)
39 PF11992 DUF3488: Domain of un 26.7 4.5E+02 0.0098 23.3 10.3 36 78-113 9-45 (325)
40 PF01124 MAPEG: MAPEG family; 25.9 2.6E+02 0.0057 20.3 7.0 37 56-92 39-75 (129)
41 PF04272 Phospholamban: Phosph 25.2 89 0.0019 20.3 2.6 25 68-92 24-48 (52)
42 cd01785 PDZ_GEF_RA Ubiquitin-l 25.0 17 0.00037 26.4 -0.8 25 54-78 60-84 (85)
43 CHL00114 psbX photosystem II p 24.6 94 0.002 19.5 2.6 21 146-166 2-22 (39)
44 cd07451 CRD_SMO Cysteine-rich 24.3 56 0.0012 25.7 1.9 49 22-72 75-125 (132)
45 PF10318 7TM_GPCR_Srh: Serpent 23.2 3E+02 0.0065 23.5 6.6 19 54-73 146-164 (302)
46 PF04140 ICMT: Isoprenylcystei 22.9 3E+02 0.0065 19.9 5.6 20 77-96 47-67 (94)
47 PF09622 DUF2391: Putative int 22.5 3.8E+02 0.0082 23.6 7.0 27 149-175 100-126 (267)
48 PRK13387 1,4-dihydroxy-2-napht 21.7 5.7E+02 0.012 22.7 9.5 16 115-130 131-146 (317)
49 PF06596 PsbX: Photosystem II 21.7 1.5E+02 0.0032 18.6 3.0 19 146-164 2-20 (39)
50 PF04530 Viral_Beta_CD: Viral 21.5 1.6E+02 0.0035 22.9 4.0 28 62-89 34-61 (122)
51 PF11674 DUF3270: Protein of u 21.4 3.1E+02 0.0067 20.2 5.3 19 147-165 65-83 (90)
52 PF04791 LMBR1: LMBR1-like mem 21.0 6E+02 0.013 23.3 8.5 34 43-79 95-130 (471)
53 PF12264 Waikav_capsid_1: Waik 20.5 56 0.0012 26.9 1.3 25 53-77 45-69 (197)
54 TIGR02203 MsbA_lipidA lipid A 20.5 5.6E+02 0.012 24.1 8.2 21 60-80 109-129 (571)
55 PF05777 Acp26Ab: Drosophila a 20.4 74 0.0016 23.2 1.8 15 78-92 2-16 (90)
56 PF00664 ABC_membrane: ABC tra 20.3 4.3E+02 0.0092 20.7 7.7 21 59-79 95-115 (275)
57 PF09726 Macoilin: Transmembra 20.2 4.2E+02 0.0091 26.6 7.5 40 75-114 75-114 (697)
58 TIGR01476 chlor_syn_BchG bacte 20.1 3.8E+02 0.0082 23.0 6.5 12 99-110 111-122 (283)
No 1
>KOG3142 consensus Prenylated rab acceptor 1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=2.8e-51 Score=336.82 Aligned_cols=186 Identities=47% Similarity=0.760 Sum_probs=175.3
Q ss_pred CCCCCCCCCCCCCCCCCCchHHHHHHHHhhhhcccCCCCChhHhhcCCCCCCCCCHHHHHHHHHhhHhhHHHHHHHHHHH
Q 028921 6 PPHYGSLPPTSTSPTYVPPTTAFLTRARDTTQSVFSTRRPWRELLDIHAITRPSSVGEATIHLKRNLCYFRVNYAMIVLA 85 (202)
Q Consensus 6 ~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~RPw~eF~~~~~fs~P~s~~~a~~Ri~~Nl~yF~~NY~li~~~ 85 (202)
|+.+|..|+++.... .++.+...++.+|++++.++++|||+||+|+++|++|+|++|+.+|+++|+.|||.||.+++.+
T Consensus 1 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~lst~RpW~ef~d~~~fs~P~s~s~a~sRi~~Nl~yF~~NY~~iv~~ 79 (187)
T KOG3142|consen 1 MTNQGAPPPSSSPSQ-ALSVESISSRAKQTIQSGLSTRRPWSEFFDRSAFSRPRSLSDATSRIKRNLSYFRVNYVIIVAI 79 (187)
T ss_pred CCCCCCCCCCCCccc-ccchhhHHHHHHHHHHHHHhccCCHHHHHcccccCCCccHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 456777776444432 5677899999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHhcCCCeEecceeechhHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Q 028921 86 ILFLSLLWHPVSMIVFIVVFIAWFFLYFFRDGPLVVFHRTVDDRVLLGILGVVTIVSLVLTHVWLNVLVSLLIGFFIVGL 165 (202)
Q Consensus 86 l~~i~ll~~P~~Li~l~~~~~~~~~l~~~~~~p~~i~gr~~~~~~~~~~l~~vs~~ll~~t~~~~~l~~~l~~s~~vvll 165 (202)
+.++++++||++|+++++++++|+++|+.||+|++++||+++++++++++++++++++|+++++.+++|++++|+++|+.
T Consensus 80 ~~~~sLi~~P~~Livl~~lv~~w~~LY~~rd~pLvlfgr~i~d~~~l~~L~~~ti~~lflt~~~~~l~~~l~~g~~vv~~ 159 (187)
T KOG3142|consen 80 LLFLSLITHPLSLIVLLALVAAWLFLYFLRDEPLVLFGRQISDREVLIGLVLITIPVLFLTSAGSNLLWALGAGLVVVLI 159 (187)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHheeeecCCCeEEeeEEecCcchhhhHHHHHHHHHHHhhHHHHHHHHHHHhHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhccCCCCCccCcccccCCCceeeec
Q 028921 166 HAAFRGTEDLYCDEGEVADNGLFSVVG 192 (202)
Q Consensus 166 HA~~R~~~~l~~de~~~~~~g~~~~~~ 192 (202)
||+||++||+|.||||+..+|++++.+
T Consensus 160 Haafr~~ddLF~dee~~~~~gl~s~~~ 186 (187)
T KOG3142|consen 160 HAAFRNTDDLFLDEEEAAASGLLSFSS 186 (187)
T ss_pred HHHHhChHhhhhhhhhcccccccccCC
Confidence 999999999999999999899998765
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=6.5e-37 Score=244.52 Aligned_cols=147 Identities=37% Similarity=0.595 Sum_probs=138.5
Q ss_pred hcccCCCCChhHhhcCCCCCCCCCHHHHHHHHHhhHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHhcC
Q 028921 37 QSVFSTRRPWRELLDIHAITRPSSVGEATIHLKRNLCYFRVNYAMIVLAILFLSLLWHPVSMIVFIVVFIAWFFLYFFRD 116 (202)
Q Consensus 37 ~~~l~~~RPw~eF~~~~~fs~P~s~~~a~~Ri~~Nl~yF~~NY~li~~~l~~i~ll~~P~~Li~l~~~~~~~~~l~~~~~ 116 (202)
+++++++|||+||+|.++|+.|+|.+++.+|+++|+.||++||++++++++++++++||..++++++++++|++++..++
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 46789999999999999999999999999999999999999999999999999999999999999999999999998876
Q ss_pred --CCeEecceeechhHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhhccCCCCCccCccccc
Q 028921 117 --GPLVVFHRTVDDRVLLGILGVVTIVSLVLTHVWLNVLVSLLIGFFIVGLHAAFRGTEDLYCDEGEVA 183 (202)
Q Consensus 117 --~p~~i~gr~~~~~~~~~~l~~vs~~ll~~t~~~~~l~~~l~~s~~vvllHA~~R~~~~l~~de~~~~ 183 (202)
+++.+.++++++++++.++.+++++++++++++.+++|+++++++++++||+||++|+++.+|+|..
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~l~~~l~~~~~lvl~HA~~r~~~~~~~~e~~~~ 150 (153)
T PF03208_consen 82 ENDPIVIGGRKISPRQVLLALLIVSILLLFFTSAGLTLFWSLGASVLLVLLHASFREPDLKNKEENEIE 150 (153)
T ss_pred cCcchhccCcccCHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhcCCccchhhhhHHh
Confidence 8899999999999999999999999999999999999999999999999999999988766666654
No 3
>COG5130 YIP3 Prenylated rab acceptor 1 and related proteins [Intracellular trafficking and secretion / Signal transduction mechanisms]
Probab=99.90 E-value=7.7e-24 Score=166.31 Aligned_cols=147 Identities=23% Similarity=0.182 Sum_probs=132.1
Q ss_pred hhhhcccCCCCChhHhhcCCCCCCCCCHHHHHHHHHhhHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 028921 34 DTTQSVFSTRRPWRELLDIHAITRPSSVGEATIHLKRNLCYFRVNYAMIVLAILFLSLLWHPVSMIVFIVVFIAWFFLYF 113 (202)
Q Consensus 34 ~~~~~~l~~~RPw~eF~~~~~fs~P~s~~~a~~Ri~~Nl~yF~~NY~li~~~l~~i~ll~~P~~Li~l~~~~~~~~~l~~ 113 (202)
.+..+.+++.+.-+||||..|.++|++++|+.+|+-.|++||+.||..+...+..|.+++||.+|+++.+..++.+-+.+
T Consensus 20 ~s~~q~L~~~~~~~eFfni~rIs~PqNf~eaqsRv~~Nl~rFssnYlaiia~l~iy~ll~nllLlivIgivvaGvygi~k 99 (169)
T COG5130 20 RSIKQALGDKDVTREFFNIGRISVPQNFNEAQSRVFANLDRFSSNYLAIIAILTIYYLLYNLLLLIVIGIVVAGVYGIRK 99 (169)
T ss_pred HHHHHHhcCcccHHHHhccccccCCcchHHHHHHHHhhHHHHhhhHHHHHHHHHHHHHHHhHHHHHHHhhhhheeeehhh
Confidence 33444577789999999999999999999999999999999999999999999999999999999988888888877888
Q ss_pred hcCCCeEecceeechhHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhhccCCCCCccCccc
Q 028921 114 FRDGPLVVFHRTVDDRVLLGILGVVTIVSLVLTHVWLNVLVSLLIGFFIVGLHAAFRGTEDLYCDEGE 181 (202)
Q Consensus 114 ~~~~p~~i~gr~~~~~~~~~~l~~vs~~ll~~t~~~~~l~~~l~~s~~vvllHA~~R~~~~l~~de~~ 181 (202)
.|++|++...+..+.+..|++++++-+++-++.+.+.+++|..++|+.+++.||++..++-. .|+||
T Consensus 100 l~g~~lv~~~~~~~~~~ly~glvcvlip~gffaspI~tllwl~gas~v~vfgHAal~e~p~e-~~fee 166 (169)
T COG5130 100 LRGRPLVCNIELEPRSVLYAGLVCVLIPFGFFASPIVTLLWLSGASGVVVFGHAALLEEPLE-KDFEE 166 (169)
T ss_pred cccCccccccceeecchhhhhHHHHHHHHHHHHhHHHHHHHHHhcceeEeechHHHcCCccc-cchhh
Confidence 89999999888889999999999999999999999999999999999999999999986433 34443
No 4
>KOG4050 consensus Glutamate transporter EAAC1-interacting protein GTRAP3-18 [Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=99.84 E-value=3.7e-20 Score=148.27 Aligned_cols=134 Identities=20% Similarity=0.261 Sum_probs=106.3
Q ss_pred ccCCCCChhHhh-cCCCCCCC--CCHHHHHHHHHhhHhhHHHHHHHHHHHHHHHHHHHhHHHHHHH-HHHH-HHHHHHHH
Q 028921 39 VFSTRRPWRELL-DIHAITRP--SSVGEATIHLKRNLCYFRVNYAMIVLAILFLSLLWHPVSMIVF-IVVF-IAWFFLYF 113 (202)
Q Consensus 39 ~l~~~RPw~eF~-~~~~fs~P--~s~~~a~~Ri~~Nl~yF~~NY~li~~~l~~i~ll~~P~~Li~l-~~~~-~~~~~l~~ 113 (202)
.+++.|.|+||+ +.+||..| .|+++|.+|+.+|+.|||+||++.++..+.+..+.+|..++.- ++.+ +.-..++.
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 578999999998 78999999 7999999999999999999999999999999999999887742 1111 11112222
Q ss_pred hc-CCCeEecceeechhHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhhccCCC
Q 028921 114 FR-DGPLVVFHRTVDDRVLLGILGVVTIVSLVLTHVWLNVLVSLLIGFFIVGLHAAFRGTE 173 (202)
Q Consensus 114 ~~-~~p~~i~gr~~~~~~~~~~l~~vs~~ll~~t~~~~~l~~~l~~s~~vvllHA~~R~~~ 173 (202)
.. ++.++ .-|+-+|...+.+...++.+++++.++..++.+++..++++++.||++|.++
T Consensus 95 ~~~~a~~k-rmr~~hp~~~l~gvllv~yfli~v~~~vlv~~F~il~Pv~L~lvHASLRLRn 154 (188)
T KOG4050|consen 95 ASADANIK-RMRTDHPLVTLAGVLLVGYFLISVFGGVLVFAFAILFPVLLVLVHASLRLRN 154 (188)
T ss_pred HhccHHHH-HHhhcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 22 22222 2244556777777888888999999999999999999999999999999884
No 5
>COG1575 MenA 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]
Probab=87.72 E-value=2.8 Score=37.53 Aligned_cols=104 Identities=13% Similarity=0.070 Sum_probs=54.9
Q ss_pred HHHHHHHhhHhhHHHHHHHHHHHHHHHHHHHhHH-HHHHHHHHHHHHHHHHHhcCCCeEecceeechhHHHHHHHHHHHH
Q 028921 63 EATIHLKRNLCYFRVNYAMIVLAILFLSLLWHPV-SMIVFIVVFIAWFFLYFFRDGPLVVFHRTVDDRVLLGILGVVTIV 141 (202)
Q Consensus 63 ~a~~Ri~~Nl~yF~~NY~li~~~l~~i~ll~~P~-~Li~l~~~~~~~~~l~~~~~~p~~i~gr~~~~~~~~~~l~~vs~~ 141 (202)
+.+.|..-++.-+ -|....++.+.++..+++. .++.+++++++|.| .+.|..+....+.+-.....+..+.+.
T Consensus 91 ~~k~~~~l~l~l~--~~~g~~llg~~~~~~s~~~~l~lG~l~~~~g~~Y----TgGp~PlgY~gLGEi~~~vffG~l~v~ 164 (303)
T COG1575 91 SMKPALILSLALF--LLAGLALLGVILAALSDWLVLLLGLLCIAAGILY----TGGPFPLGYMGLGEIFVGVFFGPLIVL 164 (303)
T ss_pred cCCHHHHHHHHHH--HHHHHHHHHHHHHHHhhhHHHHHHHHHHHheeee----ccCCcCcccCCHHHHHHHHHHHHHHHH
Confidence 3444444444332 2344444444455556666 44456666666665 666766666677776666666655555
Q ss_pred HHHHhhhHHHHHHHHHHHHHHHHHhhhccCC
Q 028921 142 SLVLTHVWLNVLVSLLIGFFIVGLHAAFRGT 172 (202)
Q Consensus 142 ll~~t~~~~~l~~~l~~s~~vvllHA~~R~~ 172 (202)
.-++.+....-...+..|+.+.++-+.....
T Consensus 165 g~~yiqt~~~~~~~ll~slp~gil~~~Il~a 195 (303)
T COG1575 165 GAYYIQTGRLSWAILLPSLPVGILIANILLA 195 (303)
T ss_pred HHHHHhcccchHHHHHHHHHHHHHHHHHHHh
Confidence 5555554333333444455444444444443
No 6
>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=77.26 E-value=5.8 Score=33.26 Aligned_cols=61 Identities=18% Similarity=0.269 Sum_probs=44.1
Q ss_pred CCCCCCCCC----CCchHHHHHHHHhhhhcccCCCCChhHhhcCCCCCCCCCHHHHHHHHHhhHhh
Q 028921 13 PPTSTSPTY----VPPTTAFLTRARDTTQSVFSTRRPWRELLDIHAITRPSSVGEATIHLKRNLCY 74 (202)
Q Consensus 13 p~~~~~~~~----~~~~~~~~~~~~~~~~~~l~~~RPw~eF~~~~~fs~P~s~~~a~~Ri~~Nl~y 74 (202)
|.++++++| -|.+-.-|...||+....-+ -.|..||--.+.=.-...+-++.+||++||.-
T Consensus 27 ~~~~~~apYLl~gAPtFd~TI~~FRekyN~~Np-~Lpl~EfraI~~~~~~~~ltRAASkINe~LYa 91 (200)
T PF07305_consen 27 PETPPTAPYLLPGAPTFDLTIPQFREKYNQDNP-TLPLNEFRAIDSKDDKAPLTRAASKINENLYA 91 (200)
T ss_pred CCCCCccchhcCCCCcccccHHHHHHHhhhcCC-CcchhheeeeccCCCcchhhHHHHHhhhHHHH
Confidence 666666666 46677889999999865444 47899998554333444578999999999853
No 7
>PRK07419 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional
Probab=76.76 E-value=17 Score=32.32 Aligned_cols=32 Identities=9% Similarity=0.365 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHhcCCCeEecceeechhHHHHHH
Q 028921 100 VFIVVFIAWFFLYFFRDGPLVVFHRTVDDRVLLGIL 135 (202)
Q Consensus 100 ~l~~~~~~~~~l~~~~~~p~~i~gr~~~~~~~~~~l 135 (202)
.+++...+|.| ...|..+..+...+-.+....
T Consensus 125 g~~g~~~~~~Y----T~gP~~l~y~gLGE~~v~l~~ 156 (304)
T PRK07419 125 VLLCCFLGYLY----QGPPFRLGYQGLGEPLCFLAF 156 (304)
T ss_pred HHHHHHHhhec----cCCCcccCCCCchHHHHHHHH
Confidence 34444444443 567777777776655554443
No 8
>PRK13591 ubiA prenyltransferase; Provisional
Probab=76.06 E-value=27 Score=31.31 Aligned_cols=12 Identities=33% Similarity=0.482 Sum_probs=8.3
Q ss_pred hHhhcC--CCCCCC
Q 028921 47 RELLDI--HAITRP 58 (202)
Q Consensus 47 ~eF~~~--~~fs~P 58 (202)
.|++|. ++.+.|
T Consensus 78 Nd~~D~eiD~IN~P 91 (307)
T PRK13591 78 DRALDSEEDAVNRS 91 (307)
T ss_pred hhhccchhhhccCc
Confidence 567765 567877
No 9
>PRK12887 ubiA tocopherol phytyltransferase; Reviewed
Probab=71.38 E-value=64 Score=28.62 Aligned_cols=36 Identities=19% Similarity=0.159 Sum_probs=16.5
Q ss_pred HHHHHhHHHHHH-HHHHHHHHHHHHHhcCCCeEecceeech
Q 028921 89 LSLLWHPVSMIV-FIVVFIAWFFLYFFRDGPLVVFHRTVDD 128 (202)
Q Consensus 89 i~ll~~P~~Li~-l~~~~~~~~~l~~~~~~p~~i~gr~~~~ 128 (202)
+.+..+|..+.. ++.+.+++.| +-.|.....+..-+
T Consensus 114 la~~~~~~~~~~~~~~~~lg~~Y----s~pP~rlKr~~~~~ 150 (308)
T PRK12887 114 LAALLGPWLLITVGISLLIGTAY----SLPPIRLKRFPLLA 150 (308)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHH----cCCchhhcccchhH
Confidence 334456554433 3444455554 22344554555444
No 10
>PLN02922 prenyltransferase
Probab=67.25 E-value=50 Score=29.49 Aligned_cols=35 Identities=6% Similarity=0.270 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCeEecceeechhHHHHH
Q 028921 96 VSMIVFIVVFIAWFFLYFFRDGPLVVFHRTVDDRVLLGI 134 (202)
Q Consensus 96 ~~Li~l~~~~~~~~~l~~~~~~p~~i~gr~~~~~~~~~~ 134 (202)
++++.++++..+|.| ...|..+..+...+-.+...
T Consensus 125 ~l~iG~~g~~~~~~Y----t~gP~pl~y~gLGE~~v~i~ 159 (315)
T PLN02922 125 VILLLAAAILCGYVY----QCPPFRLSYKGLGEPLCFAA 159 (315)
T ss_pred HHHHHHHHHHHHHHH----hcCCcccccCcchHHHHHHH
Confidence 333344444555544 55677777776665554433
No 11
>PF15187 Augurin: Oesophageal cancer-related gene 4
Probab=61.44 E-value=4.4 Score=30.75 Aligned_cols=55 Identities=15% Similarity=0.390 Sum_probs=45.9
Q ss_pred hHHHHHHHHhhhhcccCCCCC----h-hHhh--cCCCCCCCCCHHHHHHHHHhhHhhHHHHH
Q 028921 25 TTAFLTRARDTTQSVFSTRRP----W-RELL--DIHAITRPSSVGEATIHLKRNLCYFRVNY 79 (202)
Q Consensus 25 ~~~~~~~~~~~~~~~l~~~RP----w-~eF~--~~~~fs~P~s~~~a~~Ri~~Nl~yF~~NY 79 (202)
+++|+...|...+..|..-|| | ..|+ +++.-.+-.+++=|.+|-+.+-.|||.+|
T Consensus 28 AkeFL~~l~R~kR~lWDRsrPdVQQW~qQFlYmGFDEak~E~DlsYWm~~~R~~~~~~QhHY 89 (114)
T PF15187_consen 28 AKEFLASLKRQKRQLWDRSRPDVQQWYQQFLYMGFDEAKFEDDLSYWMNRARSGDQYYQHHY 89 (114)
T ss_pred HHHHHHHhhhHHHhhhccCCHHHHHHHHHHHHhcchHHHhhhhHHHHHhcCcCccchhhhcc
Confidence 679999999998899999999 7 4566 56666666789999999999999988877
No 12
>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=60.33 E-value=73 Score=27.96 Aligned_cols=32 Identities=9% Similarity=0.272 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHhcCCCeEecceeechhHHHHHH
Q 028921 100 VFIVVFIAWFFLYFFRDGPLVVFHRTVDDRVLLGIL 135 (202)
Q Consensus 100 ~l~~~~~~~~~l~~~~~~p~~i~gr~~~~~~~~~~l 135 (202)
.++....+|.| ...|..+..+...+-.+....
T Consensus 112 g~~g~~~~~~Y----t~gP~~l~y~gLGE~~v~l~~ 143 (285)
T TIGR02235 112 VGLCCFLGYLY----QGPPFRLGYQGLGEPICWLCF 143 (285)
T ss_pred HHHHHHHHHhh----cCCCcccCCCCccHHHHHHHH
Confidence 34444444443 556777766666554444443
No 13
>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=54.33 E-value=81 Score=27.67 Aligned_cols=35 Identities=11% Similarity=-0.020 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCeEecceeechhHHHHH
Q 028921 96 VSMIVFIVVFIAWFFLYFFRDGPLVVFHRTVDDRVLLGI 134 (202)
Q Consensus 96 ~~Li~l~~~~~~~~~l~~~~~~p~~i~gr~~~~~~~~~~ 134 (202)
+..+.++....+|.| ...|..+..+.+.+-.+...
T Consensus 111 ~l~lg~~~~~~~~~Y----t~gP~~l~y~gLGE~~v~i~ 145 (284)
T TIGR00751 111 FIALGALCIAAAITY----TVGSKPYGYAGLGDISVLVF 145 (284)
T ss_pred HHHHHHHHHHHhHhh----cCCCCccccCchHHHHHHHH
Confidence 334445544555544 55666666555554444333
No 14
>COG1955 FlaJ Archaeal flagella assembly protein J [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=52.16 E-value=1.3e+02 Score=29.00 Aligned_cols=52 Identities=10% Similarity=0.112 Sum_probs=38.0
Q ss_pred hhhcccCCCCChhHhhcCCCCCCCCCHHHHHHHHHhhHhhHHHHHHHHHHHH
Q 028921 35 TTQSVFSTRRPWRELLDIHAITRPSSVGEATIHLKRNLCYFRVNYAMIVLAI 86 (202)
Q Consensus 35 ~~~~~l~~~RPw~eF~~~~~fs~P~s~~~a~~Ri~~Nl~yF~~NY~li~~~l 86 (202)
++...++.--+-.||+..+....=++.+...+|.-++++-|+.=|.-+..-+
T Consensus 127 Rla~ai~sGe~~~eFl~~E~~~~~~~y~~~Yer~LeSl~~~~diY~sll~S~ 178 (527)
T COG1955 127 RLAYALDSGEDLKEFLEREQDTTMDEYETEYERALESLDVWKDIYVSLLVSL 178 (527)
T ss_pred HHHHhhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333455556778888766556657788899999999999999997655443
No 15
>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=49.55 E-value=1.2e+02 Score=23.93 Aligned_cols=46 Identities=20% Similarity=0.297 Sum_probs=21.9
Q ss_pred HHHhHHHHHHHHHHHHHHHH-----HHHh-cCCCeEecceeechhHHHHHHH
Q 028921 91 LLWHPVSMIVFIVVFIAWFF-----LYFF-RDGPLVVFHRTVDDRVLLGILG 136 (202)
Q Consensus 91 ll~~P~~Li~l~~~~~~~~~-----l~~~-~~~p~~i~gr~~~~~~~~~~l~ 136 (202)
.+.||+.++.-++..++..| .-.. +.-|+.++|+.++++.+..+.-
T Consensus 62 fl~nP~vv~lnliaLaa~L~Ha~TwF~l~Pkam~i~v~~~~v~~~~i~~~~w 113 (129)
T PF02300_consen 62 FLQNPIVVILNLIALAAALLHAKTWFELAPKAMPIIVGGERVPPRPIVKGLW 113 (129)
T ss_dssp HHTSHHHHHHHHHHHHHHHHHHHHHHHHGGGG---EETTEE--SHHHHHHHH
T ss_pred HHcCcHHHHHHHHHHHHHHHHHHHHHHHchhhhhhhcCCeeCCHHHHHHHHH
Confidence 44588888763333222211 1111 2346889999999887654433
No 16
>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=49.10 E-value=1.2e+02 Score=24.97 Aligned_cols=20 Identities=15% Similarity=0.587 Sum_probs=9.5
Q ss_pred HHHhHHHHHHHHH-HHHHHHH
Q 028921 91 LLWHPVSMIVFIV-VFIAWFF 110 (202)
Q Consensus 91 ll~~P~~Li~l~~-~~~~~~~ 110 (202)
...+|..++..++ ...++.|
T Consensus 88 ~~~~~~~~~~~~~~~~~~~~Y 108 (257)
T PF01040_consen 88 LLLGPWFLLILLLGFLLGLLY 108 (257)
T ss_pred HhcCchhHHHHHHHHHHHHHH
Confidence 4456665554433 3333444
No 17
>PRK11715 inner membrane protein; Provisional
Probab=48.66 E-value=2.1e+02 Score=26.96 Aligned_cols=87 Identities=21% Similarity=0.380 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHHHH---------hHHHHHHHHHHHHHHHHHHHhc-CCCeEecceeechhHHHHHHHHHHHHHHHHh
Q 028921 77 VNYAMIVLAILFLSLLW---------HPVSMIVFIVVFIAWFFLYFFR-DGPLVVFHRTVDDRVLLGILGVVTIVSLVLT 146 (202)
Q Consensus 77 ~NY~li~~~l~~i~ll~---------~P~~Li~l~~~~~~~~~l~~~~-~~p~~i~gr~~~~~~~~~~l~~vs~~ll~~t 146 (202)
..|.++++++.+.+++. ||+--+.+ .++...+|+.... .+. -.+.......++.++.++-+|..
T Consensus 304 ~KYgiLFI~LTF~~fFlfE~~~~~~iHpiQYlLV-GlAl~lFYLLLLSlSEH-----igF~~AYliAa~a~v~li~~Y~~ 377 (436)
T PRK11715 304 VKYAILFIALTFAAFFLFELLKKLRIHPVQYLLV-GLALVLFYLLLLSLSEH-----IGFTLAYLIAALACVLLIGFYLS 377 (436)
T ss_pred HhHHHHHHHHHHHHHHHHHHhcCceecHHHHHHH-HHHHHHHHHHHHHHHhh-----hchHHHHHHHHHHHHHHHHHHHH
Confidence 45788877777766652 77654433 3333334444333 221 12234444555555555555555
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhc
Q 028921 147 HVWLNVLVSLLIGFFIVGLHAAF 169 (202)
Q Consensus 147 ~~~~~l~~~l~~s~~vvllHA~~ 169 (202)
.+...-=.++.+++.+..+-|.+
T Consensus 378 ~vl~~~k~g~~~~~~L~~LYg~L 400 (436)
T PRK11715 378 AVLRSWKRGLLFAAALAALYGVL 400 (436)
T ss_pred HHHhcchHHHHHHHHHHHHHHHH
Confidence 54444444444444444444443
No 18
>PRK13592 ubiA prenyltransferase; Provisional
Probab=48.33 E-value=1e+02 Score=27.59 Aligned_cols=18 Identities=11% Similarity=0.121 Sum_probs=11.1
Q ss_pred HHHHHHHHHhhhccCCCC
Q 028921 157 LIGFFIVGLHAAFRGTED 174 (202)
Q Consensus 157 ~~s~~vvllHA~~R~~~~ 174 (202)
..+.+..+.-=..|+-||
T Consensus 182 l~afl~~l~rEI~KdieD 199 (299)
T PRK13592 182 FTMYFPSLIWEVCRKIRA 199 (299)
T ss_pred HHHHHHHHHHHHHHhhcC
Confidence 345556666666677677
No 19
>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=46.38 E-value=2.5e+02 Score=26.41 Aligned_cols=87 Identities=18% Similarity=0.401 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHHHHHHH---------hHHHHHHHHHHHHHHHHHHHhc-CCCeEecceeechhHHHHHHHHHHHHHHHHh
Q 028921 77 VNYAMIVLAILFLSLLW---------HPVSMIVFIVVFIAWFFLYFFR-DGPLVVFHRTVDDRVLLGILGVVTIVSLVLT 146 (202)
Q Consensus 77 ~NY~li~~~l~~i~ll~---------~P~~Li~l~~~~~~~~~l~~~~-~~p~~i~gr~~~~~~~~~~l~~vs~~ll~~t 146 (202)
.-|.++++++.+.+++. ||+--+.+ .++...+|+.... .+. -.+........+.++.++.+|..
T Consensus 298 ~KYgiLFI~LTF~~fflfE~~~~~~iHpiQY~LV-GlAl~lFYlLLLSlSEh-----i~F~~AYliAa~a~i~Li~~Y~~ 371 (430)
T PF06123_consen 298 VKYGILFIGLTFLAFFLFELLSKLRIHPIQYLLV-GLALVLFYLLLLSLSEH-----IGFNLAYLIAALACIGLISLYLS 371 (430)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHH-HHHHHHHHHHHHHHHhh-----hchHHHHHHHHHHHHHHHHHHHH
Confidence 34788887777776653 67654433 3333333443332 121 12233444455555555555554
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhc
Q 028921 147 HVWLNVLVSLLIGFFIVGLHAAF 169 (202)
Q Consensus 147 ~~~~~l~~~l~~s~~vvllHA~~ 169 (202)
++.-.-=.+++++..+.++-+.+
T Consensus 372 ~vl~~~k~~~~~~~~L~~LY~~L 394 (430)
T PF06123_consen 372 SVLKSWKRGLIFAGLLAALYGFL 394 (430)
T ss_pred HHHhcchHHHHHHHHHHHHHHHH
Confidence 44444444444444444444433
No 20
>PF03522 KCl_Cotrans_1: K-Cl Co-transporter type 1 (KCC1); InterPro: IPR018491 The K-Cl co-transporter (KCC) mediates the coupled movement of K+ and Cl- ions across the plasma membrane of many animal cells. This transport is involved in the regulatory volume decrease in response to cell swelling in red blood cells, and has been proposed to play a role in the vectorial movement of Cl- across kidney epithelia. The transport process involves one for one electroneutral movement of K+ together with Cl-, and, in all known mammalian cells, the net movement is outward []. In neurones, it appears to play a unique role in maintaining low intracellular Cl-concentration, which is required for the functioning of Cl- dependent fast synaptic inhibition, mediated by certain neurotransmitters, such as gamma-aminobutyric acid (GABA) and glycine. Three isoforms of the K-Cl co-transporter have been described, termed KCC1 KCC2, and KCC3, containing 1085, 1116 and 1150 amino acids, respectively. They are predicted to have 12 transmembrane (TM) regions in a central hydrophobic domain, together with hydrophilic N- and C-termini that are likely cytoplasmic. Comparison of their sequences with those of other ion-tranporting membrane proteins reveals that they are part of a new superfamily of cation-chloride co-transporters, which includes the Na-Cl and Na-K-2Cl co-transporters. KCC1 and KCC3 are widely expressed in human tissues, while KCC2 is are expressed only in brain neurones, making it likely that this is the isoform responsible for maintaining low Cl- concentration in neurones [, , ]. KCC1 is widely expressed in human tissues, and when heterologously expressed, possesses the functional characteristics of the well-studied red blood cell K-Cl co-transporter, including stimulation by both swelling and N-ethylmaleimide. Several splice variants have also been identified. KCC3 is widely expressed in human tissues and, like KCC1, is stimulated by both swelling and N-ethylmaleimide. The induction of KCC3 is up-regulated by vascular endothelial growth factor and down-regulated by tumour necrosis factor. Defects in KCC3 are linked to agenesis of the corpus callosum with peripheral neuropathy []. This disorder is characterised by severe progressive sensorimotor neuropathy, mental retardation, dysmorphic features and complete or partial agenesis of the corpus callosum.; GO: 0005215 transporter activity, 0006811 ion transport, 0016020 membrane
Probab=43.51 E-value=11 Score=22.23 Aligned_cols=18 Identities=44% Similarity=0.687 Sum_probs=12.6
Q ss_pred hhhccCCCCCccCcccccC
Q 028921 166 HAAFRGTEDLYCDEGEVAD 184 (202)
Q Consensus 166 HA~~R~~~~l~~de~~~~~ 184 (202)
|..+|. ++++.||||+..
T Consensus 5 ~S~lrl-~SlySDeeeE~~ 22 (30)
T PF03522_consen 5 HSILRL-ESLYSDEEEETE 22 (30)
T ss_pred cceeee-eccccCcccccc
Confidence 556655 678889988753
No 21
>KOG0054 consensus Multidrug resistance-associated protein/mitoxantrone resistance protein, ABC superfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=39.78 E-value=2e+02 Score=31.24 Aligned_cols=66 Identities=15% Similarity=0.296 Sum_probs=48.0
Q ss_pred CCChhHhhcC-------CCCCCCCCHHHHHHHHHhhHhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 028921 43 RRPWRELLDI-------HAITRPSSVGEATIHLKRNLCYFRVNYAMIVLAILFLSLLWHPVSMIVFIVVFIAWFFL 111 (202)
Q Consensus 43 ~RPw~eF~~~-------~~fs~P~s~~~a~~Ri~~Nl~yF~~NY~li~~~l~~i~ll~~P~~Li~l~~~~~~~~~l 111 (202)
.|..-.|||. +|||+ |.+.+-.++-.++..|-.|.+-+..++.+++. .+|+.++..+.+.++++++
T Consensus 902 lrapm~FFdtTP~GRILNRFSk--D~~~vD~~Lp~~~~~~~~~~~~~l~~~~vi~~-~~P~fli~~~pl~v~~~~~ 974 (1381)
T KOG0054|consen 902 LRAPMSFFDTTPTGRILNRFSK--DIDTVDVLLPFTLEFFLQSLLNVLGILVVISY-VTPWFLIAIIPLGVIYYFV 974 (1381)
T ss_pred HhCcchhcCCCCccchhhhccc--chHHHHHhhHHHHHHHHHHHHHHHHHHHHhhH-HhHHHHHHHHHHHHHHHHH
Confidence 4666778876 47776 88888888888999888888777766665554 5677777766666655544
No 22
>COG0382 UbiA 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]
Probab=37.69 E-value=2.7e+02 Score=24.07 Aligned_cols=26 Identities=15% Similarity=0.069 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHhhhccCCCCC
Q 028921 150 LNVLVSLLIGFFIVGLHAAFRGTEDL 175 (202)
Q Consensus 150 ~~l~~~l~~s~~vvllHA~~R~~~~l 175 (202)
....+......+-++.+..+.+-+|.
T Consensus 167 ~~~~~l~~~~~l~~~~~~~i~~~~D~ 192 (289)
T COG0382 167 LLAWLLLLAAILWTLGYDIIYAIQDI 192 (289)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhccCc
Confidence 34445555666778888888888886
No 23
>PRK06080 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated
Probab=35.83 E-value=2.6e+02 Score=24.11 Aligned_cols=15 Identities=13% Similarity=0.326 Sum_probs=8.1
Q ss_pred HHHHHhhhccCCCCC
Q 028921 161 FIVGLHAAFRGTEDL 175 (202)
Q Consensus 161 ~vvllHA~~R~~~~l 175 (202)
+.+..+-...+-.|.
T Consensus 179 l~~~~~~~~n~~~D~ 193 (293)
T PRK06080 179 LLIGAVLLANNIRDI 193 (293)
T ss_pred HHHHHHHHhcCCCcc
Confidence 445555555555564
No 24
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=34.73 E-value=2.5e+02 Score=24.20 Aligned_cols=44 Identities=20% Similarity=0.322 Sum_probs=29.8
Q ss_pred HHHHHHHHhhHhhHHHHHHHHHHHHHHHHH---HH-----hHHHHHHHHHHH
Q 028921 62 GEATIHLKRNLCYFRVNYAMIVLAILFLSL---LW-----HPVSMIVFIVVF 105 (202)
Q Consensus 62 ~~a~~Ri~~Nl~yF~~NY~li~~~l~~i~l---l~-----~P~~Li~l~~~~ 105 (202)
+.+..|+..-+...++||.+--+++.++.+ ++ .|..-|.+.+++
T Consensus 28 ~~~~~~~qs~l~~~~~r~tv~slAl~~l~~S~iy~~~~~y~~~~~It~~llg 79 (251)
T COG5415 28 DVALKKSQSILSQWQSRLTVYSLALTVLALSYIYWEYHGYRPYLVITALLLG 79 (251)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhhccccchhHHHHHHHHh
Confidence 455677788889999999998888877732 23 455555444433
No 25
>COG4129 Predicted membrane protein [Function unknown]
Probab=34.64 E-value=3.5e+02 Score=24.50 Aligned_cols=45 Identities=29% Similarity=0.417 Sum_probs=27.0
Q ss_pred HHHHHhhHhhHHHHHHHHHHHHHHHHHH-HhHHHHHHHHHHHHHHH
Q 028921 65 TIHLKRNLCYFRVNYAMIVLAILFLSLL-WHPVSMIVFIVVFIAWF 109 (202)
Q Consensus 65 ~~Ri~~Nl~yF~~NY~li~~~l~~i~ll-~~P~~Li~l~~~~~~~~ 109 (202)
.++++.=.+...+|-+-+.+++++..++ ++|+.+-+.++.+....
T Consensus 51 ~~s~~~~~~r~~g~~iG~~~a~l~~~l~g~~~~~~~v~~~i~i~~~ 96 (332)
T COG4129 51 KRSLKRALQRLLGNALGAILAVLFFLLFGQNPIAFGVVLLIIIPLL 96 (332)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHH
Confidence 3344444445556666667776666666 78887766555544444
No 26
>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=32.18 E-value=2.2e+02 Score=21.74 Aligned_cols=51 Identities=20% Similarity=0.311 Sum_probs=27.2
Q ss_pred hcCCCeEecceeechhHHHHHHHH-----HHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 028921 114 FRDGPLVVFHRTVDDRVLLGILGV-----VTIVSLVLTHVWLNVLVSLLIGFFIVG 164 (202)
Q Consensus 114 ~~~~p~~i~gr~~~~~~~~~~l~~-----vs~~ll~~t~~~~~l~~~l~~s~~vvl 164 (202)
.+.||.++.|-+.++--+.+++.. +++++.++++.+..+..+..++.++++
T Consensus 8 LN~ePvV~rGlT~~El~~~~~~~~~~gl~~g~~l~~~~~~w~~~p~~~lig~~l~v 63 (111)
T TIGR03750 8 LNREPVVFRGLTADELGVAAGVGLAAGLVLGLLLALLAGPWALIPTGALLGPILVV 63 (111)
T ss_pred hcCCCceecccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467899998887776554433322 233333445544444444444444443
No 27
>COG4452 CreD Inner membrane protein involved in colicin E2 resistance [Defense mechanisms]
Probab=32.05 E-value=4.4e+02 Score=24.80 Aligned_cols=88 Identities=17% Similarity=0.305 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHHH---------HhHHHHHHHHHHHHHHHHHHHhc-CCCeEecceeechhHHHHHHHHHHHHHHHHh
Q 028921 77 VNYAMIVLAILFLSLL---------WHPVSMIVFIVVFIAWFFLYFFR-DGPLVVFHRTVDDRVLLGILGVVTIVSLVLT 146 (202)
Q Consensus 77 ~NY~li~~~l~~i~ll---------~~P~~Li~l~~~~~~~~~l~~~~-~~p~~i~gr~~~~~~~~~~l~~vs~~ll~~t 146 (202)
.-|.++++.+.+...+ .||+--+..-+.. ..+|+.... .+ +.-++...+..-+.++...-+|+.
T Consensus 298 ~kYaIlfI~Ltf~afFifE~lt~~~~Hp~QY~LVGlsL-v~FYLLLLaLsE-----HiGFt~Ayl~aSla~a~l~~~YL~ 371 (443)
T COG4452 298 TKYAILFIGLTFMAFFIFEVLTGQRLHPMQYLLVGLSL-VMFYLLLLALSE-----HIGFTVAYLIASLAGALLNGIYLQ 371 (443)
T ss_pred HHHHHHHHHHHHHHHhhhhhhcccccchHHHHHHHHHH-HHHHHHHHHHHh-----hcCcCHHHHHHHHHHHHHHHHHHH
Confidence 3477777666655543 2777555432222 233333322 11 112234444444444444555666
Q ss_pred hhHHHHHHHHHHHHHHHHHhhhcc
Q 028921 147 HVWLNVLVSLLIGFFIVGLHAAFR 170 (202)
Q Consensus 147 ~~~~~l~~~l~~s~~vvllHA~~R 170 (202)
.+...--.++++.+++.++.+.+.
T Consensus 372 avl~~~~~g~~f~~~L~~lygvm~ 395 (443)
T COG4452 372 AVLRGWRNGLLFFLALLLLYGVMF 395 (443)
T ss_pred HHHhhhhhhHHHHHHHHHHHHHHH
Confidence 555555555555555555555544
No 28
>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=32.03 E-value=97 Score=31.09 Aligned_cols=26 Identities=19% Similarity=0.579 Sum_probs=18.1
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHH
Q 028921 88 FLSLLWHPVSMIVFIVVFIAWFFLYF 113 (202)
Q Consensus 88 ~i~ll~~P~~Li~l~~~~~~~~~l~~ 113 (202)
+.+++.||+.+..+++++++.+.+|.
T Consensus 665 ~m~vLrnPl~~~l~li~~~~~~~~~~ 690 (742)
T PF05879_consen 665 FMAVLRNPLYFTLLLILGGGFYVLYQ 690 (742)
T ss_pred HHHHHHChHHHHHHHHHHHHHHHHHH
Confidence 45677899888877777666665553
No 29
>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=31.73 E-value=81 Score=20.49 Aligned_cols=29 Identities=17% Similarity=0.532 Sum_probs=20.3
Q ss_pred HHHHHHhhHhhHHHHHHHHHHHHHHHHHH
Q 028921 64 ATIHLKRNLCYFRVNYAMIVLAILFLSLL 92 (202)
Q Consensus 64 a~~Ri~~Nl~yF~~NY~li~~~l~~i~ll 92 (202)
.....+.|+.---.|+.++.+-++++|++
T Consensus 20 ~~~qar~~lq~lfvnf~lilicllli~ii 48 (52)
T TIGR01294 20 MPQQARQNLQNLFINFCLILICLLLICII 48 (52)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33446788888888888877666666654
No 30
>PRK06041 flagellar assembly protein J; Reviewed
Probab=31.14 E-value=4.9e+02 Score=25.14 Aligned_cols=61 Identities=20% Similarity=0.206 Sum_probs=40.4
Q ss_pred hHHHHHHHHhhhhcccCCCCChhHhhcCCCCCCCCCHHHHHHHHHhhHhhHHHHHHHHHHHHHHH
Q 028921 25 TTAFLTRARDTTQSVFSTRRPWRELLDIHAITRPSSVGEATIHLKRNLCYFRVNYAMIVLAILFL 89 (202)
Q Consensus 25 ~~~~~~~~~~~~~~~l~~~RPw~eF~~~~~fs~P~s~~~a~~Ri~~Nl~yF~~NY~li~~~l~~i 89 (202)
.++|+++....++++ -+..||+..+.-..=++.+...+|.-+++.-+..=|+.+++...+.
T Consensus 143 l~~fl~~l~~~i~sG----~~l~~fL~~e~~~~~~~~~~~~~~~le~L~~~~E~Yvt~lvs~~l~ 203 (553)
T PRK06041 143 FADFLDRLAYSIDSG----EPLKEFLKQEQDTVMEDYKTFYERALYSLDVWKDLYVSLLLSVTFV 203 (553)
T ss_pred HHHHHHHHHHHHhCC----CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 447777766665432 3677887533222334566778999999999999998776654333
No 31
>PRK04987 fumarate reductase subunit C; Provisional
Probab=30.91 E-value=2.4e+02 Score=22.29 Aligned_cols=47 Identities=19% Similarity=0.429 Sum_probs=26.0
Q ss_pred HHHHHhHHHHHHHHHHHHHHHH--H-HH-h--cCCCeEecceeechhHHHHHH
Q 028921 89 LSLLWHPVSMIVFIVVFIAWFF--L-YF-F--RDGPLVVFHRTVDDRVLLGIL 135 (202)
Q Consensus 89 i~ll~~P~~Li~l~~~~~~~~~--l-~~-~--~~~p~~i~gr~~~~~~~~~~l 135 (202)
+..+.||+.++.-++..++.++ . .+ . +.-|+.++|++++++.+..++
T Consensus 61 ~~flqnPiv~~lniiaL~a~LlHa~TwF~~~Pka~~i~v~~~~l~~~~ii~~~ 113 (130)
T PRK04987 61 VSFLQNPIVVILNIITLAAALLHTKTWFEMAPKAANIIVKDEKMGPEPIIKAL 113 (130)
T ss_pred HHHHhCcHHHHHHHHHHHHHHHHHHHHHHHcchhheeeecCccCChHHHHHHH
Confidence 3455689888863333222211 1 11 1 123588889999888765443
No 32
>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=30.43 E-value=1.7e+02 Score=22.90 Aligned_cols=47 Identities=19% Similarity=0.352 Sum_probs=25.4
Q ss_pred HHHHHhHHHHHHHHHHHHHHHH--H-HH-h--cCCCeEecceeechhHHHHHH
Q 028921 89 LSLLWHPVSMIVFIVVFIAWFF--L-YF-F--RDGPLVVFHRTVDDRVLLGIL 135 (202)
Q Consensus 89 i~ll~~P~~Li~l~~~~~~~~~--l-~~-~--~~~p~~i~gr~~~~~~~~~~l 135 (202)
+..+.||+.++.-++..++.++ . .+ . +.-|+.++|++++++.+..++
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 3445689888763333222211 1 11 1 123577889988887765443
No 33
>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=29.43 E-value=2e+02 Score=20.18 Aligned_cols=30 Identities=10% Similarity=0.163 Sum_probs=16.6
Q ss_pred HHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Q 028921 136 GVVTIVSLVLTHVWLNVLVSLLIGFFIVGL 165 (202)
Q Consensus 136 ~~vs~~ll~~t~~~~~l~~~l~~s~~vvll 165 (202)
.+++.+.=|+++.....+.+.+++++++++
T Consensus 21 ~iisfi~Gy~~q~~~~~~~~~~~g~~~~~l 50 (76)
T PF06645_consen 21 AIISFIVGYITQSFSYTFYIYGAGVVLTLL 50 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 334444445666666666666666655543
No 34
>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=29.27 E-value=3.2e+02 Score=23.17 Aligned_cols=46 Identities=15% Similarity=0.457 Sum_probs=25.1
Q ss_pred HHhhHhhH-HHHHHHH---HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 028921 68 LKRNLCYF-RVNYAMI---VLAILFLSLLWHPVSMIVFIVVFIAWFFLYF 113 (202)
Q Consensus 68 i~~Nl~yF-~~NY~li---~~~l~~i~ll~~P~~Li~l~~~~~~~~~l~~ 113 (202)
.+.+.+-| +.|..++ .+++..+++.++-.-+++++++.+.|.|...
T Consensus 189 y~~~yk~~~~ln~~ll~~~~~~l~i~s~~t~~~q~la~lvl~~I~iyi~v 238 (248)
T PF11368_consen 189 YEASYKIYFKLNQYLLPILYILLFIYSLLTGENQLLAILVLIIIWIYINV 238 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHHH
Confidence 34455445 4474443 3344455555655556666666777776543
No 35
>COG0659 SUL1 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]
Probab=28.93 E-value=3.2e+02 Score=26.42 Aligned_cols=34 Identities=15% Similarity=0.190 Sum_probs=23.4
Q ss_pred HHHHHHHhhhHHHHHHHHHHHHHHHHHhhhccCC
Q 028921 139 TIVSLVLTHVWLNVLVSLLIGFFIVGLHAAFRGT 172 (202)
Q Consensus 139 s~~ll~~t~~~~~l~~~l~~s~~vvllHA~~R~~ 172 (202)
+....++.+....+..++.++++..+-|.+-...
T Consensus 386 t~~~tv~~~l~~GV~vGi~ls~~~~i~r~s~~~~ 419 (554)
T COG0659 386 TALLTVFFDLVIGVVVGILLACLLFIRRISRPSI 419 (554)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHH
Confidence 3344455677777888888888888877766443
No 36
>PRK13603 fumarate reductase subunit C; Provisional
Probab=28.86 E-value=2e+02 Score=22.64 Aligned_cols=48 Identities=23% Similarity=0.280 Sum_probs=26.4
Q ss_pred HHHHHhHHHHHHHHHHHHHHHH--H-HH-h--cCCCeEecceeechhHHHHHHH
Q 028921 89 LSLLWHPVSMIVFIVVFIAWFF--L-YF-F--RDGPLVVFHRTVDDRVLLGILG 136 (202)
Q Consensus 89 i~ll~~P~~Li~l~~~~~~~~~--l-~~-~--~~~p~~i~gr~~~~~~~~~~l~ 136 (202)
+..+.||+.++.-++..++.++ . .+ . +.-|+.++|++++++.+..+.-
T Consensus 57 ~~flqnPivv~lniiaL~a~L~Ha~TwF~~~Pkam~I~v~~~~l~~~~iv~~~w 110 (126)
T PRK13603 57 LDFSANPVVVVLNVVALSFLLLHAVTWFGSAPRAMVIQVRGRRVPARAVLAGHY 110 (126)
T ss_pred HHHHhCcHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccCCcCChHHHHHHHH
Confidence 3456689888864333222221 1 11 1 1235788899998887655443
No 37
>KOG1288 consensus Amino acid transporters [Amino acid transport and metabolism]
Probab=28.32 E-value=5e+02 Score=26.63 Aligned_cols=35 Identities=17% Similarity=0.169 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhhc
Q 028921 135 LGVVTIVSLVLTHVWLNVLVSLLIGFFIVGLHAAF 169 (202)
Q Consensus 135 l~~vs~~ll~~t~~~~~l~~~l~~s~~vvllHA~~ 169 (202)
-++.++..++.-+.+..-...+....+++++|.--
T Consensus 491 G~l~s~~mMfvVd~~~A~~~~l~~~iLv~~lh~~~ 525 (945)
T KOG1288|consen 491 GVLLSLGMMFVVDRINASISFLLMGILVVVLHYFS 525 (945)
T ss_pred HHHHHHhhhheecchhhhHHHHHHHHHHHHHhhcC
Confidence 33445555565677777777778888999999743
No 38
>PRK13823 conjugal transfer protein TrbD; Provisional
Probab=27.78 E-value=1.7e+02 Score=21.64 Aligned_cols=48 Identities=21% Similarity=0.257 Sum_probs=22.3
Q ss_pred CCeEecceeechhHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-HHHhhhccC
Q 028921 117 GPLVVFHRTVDDRVLLGILGVVTIVSLVLTHVWLNVLVSLLIGFFI-VGLHAAFRG 171 (202)
Q Consensus 117 ~p~~i~gr~~~~~~~~~~l~~vs~~ll~~t~~~~~l~~~l~~s~~v-vllHA~~R~ 171 (202)
+|.-++|- +|++.++-..++..+.+ +....++..+++++ ++.|..+|.
T Consensus 14 rp~Ll~Ga---~R~l~i~~g~la~~l~~----g~~~~~a~~~gl~lw~v~h~~l~~ 62 (94)
T PRK13823 14 RPNLFMGG---DRELVMFSGLLAGILIF----VAQTWRAALFGIALWFGALFALRL 62 (94)
T ss_pred ccHhhCCc---chHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444443 55555544444443322 22333344444444 666666654
No 39
>PF11992 DUF3488: Domain of unknown function (DUF3488); InterPro: IPR021878 This presumed domain is functionally uncharacterised. This domain is found in bacteria. This domain is typically between 323 to 339 amino acids in length. This domain is found associated with PF01841 from PFAM. This domain has a conserved PLW sequence motif. This domain contains 6 transmembrane helices.
Probab=26.71 E-value=4.5e+02 Score=23.26 Aligned_cols=36 Identities=31% Similarity=0.621 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHh-HHHHHHHHHHHHHHHHHHH
Q 028921 78 NYAMIVLAILFLSLLWH-PVSMIVFIVVFIAWFFLYF 113 (202)
Q Consensus 78 NY~li~~~l~~i~ll~~-P~~Li~l~~~~~~~~~l~~ 113 (202)
.++++..++.+.....+ |..++++.+++++|-++..
T Consensus 9 ~~ll~~~~~~~l~~~~~lp~w~~~~~~~~~~~~~~~~ 45 (325)
T PF11992_consen 9 LWLLLALALALLPLAPHLPLWVIVFFAAALLWRLLLW 45 (325)
T ss_pred HHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHH
Confidence 34554455555555433 6556666666666766543
No 40
>PF01124 MAPEG: MAPEG family; InterPro: IPR001129 This entry represents a widespread superfamily known as MAPEG (Membrane Associated Proteins in Eicosanoid and Glutathione metabolism) []. Included are: 5-lipoxygenase activating protein (gene FLAP), which seems to be required for the activation of 5-lipoxygenase. Leukotriene C4 synthase (2.5.1.37 from EC), which catalyses the production of LTC4 from LTA4. Microsomal glutathione S-transferase II (2.5.1.18 from EC) (GST-II), which also produces LTC4 from LTA4. Prostaglandin E synthase, which catalyses the synthesis of PGE2 from PGH2 (produced by cyclooxygenase from arachidonic acid). Because of structural similarities in the active sites of FLAP, LTC4 synthase and PGE synthase, substrates for each enzyme can compete with one another and modulate synthetic activity.; PDB: 3DWW_A 2Q7R_D 2Q7M_B 2PNO_J 3B29_A 3HKK_A 2UUI_A 3PCV_A 2UUH_A 3LEO_A ....
Probab=25.88 E-value=2.6e+02 Score=20.26 Aligned_cols=37 Identities=19% Similarity=0.246 Sum_probs=29.4
Q ss_pred CCCCCHHHHHHHHHhhHhhHHHHHHHHHHHHHHHHHH
Q 028921 56 TRPSSVGEATIHLKRNLCYFRVNYAMIVLAILFLSLL 92 (202)
Q Consensus 56 s~P~s~~~a~~Ri~~Nl~yF~~NY~li~~~l~~i~ll 92 (202)
..+++.++..+|.++.....-.|+.+...++.+..+.
T Consensus 39 ~~~~~~~~~~~R~~ra~~N~~E~~~~f~~~~~~~~~~ 75 (129)
T PF01124_consen 39 DNPPTLPPWLERAQRAHQNFLENLPLFLVAVLLAILT 75 (129)
T ss_dssp SSTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_pred cccccCcHHHHHHHHHHHhhHhhHHHHHHHHHHHHHh
Confidence 4455568899999999999999998888777766665
No 41
>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=25.22 E-value=89 Score=20.29 Aligned_cols=25 Identities=24% Similarity=0.620 Sum_probs=17.9
Q ss_pred HHhhHhhHHHHHHHHHHHHHHHHHH
Q 028921 68 LKRNLCYFRVNYAMIVLAILFLSLL 92 (202)
Q Consensus 68 i~~Nl~yF~~NY~li~~~l~~i~ll 92 (202)
.+.|+.---.|+.++.+-+++++++
T Consensus 24 a~qnlqelfvnfclilicllli~ii 48 (52)
T PF04272_consen 24 ARQNLQELFVNFCLILICLLLICII 48 (52)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5778888888888777666665554
No 42
>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=24.96 E-value=17 Score=26.42 Aligned_cols=25 Identities=12% Similarity=0.186 Sum_probs=21.0
Q ss_pred CCCCCCCHHHHHHHHHhhHhhHHHH
Q 028921 54 AITRPSSVGEATIHLKRNLCYFRVN 78 (202)
Q Consensus 54 ~fs~P~s~~~a~~Ri~~Nl~yF~~N 78 (202)
.=.+|..++++.+||.-|=+||--|
T Consensus 60 QrRLPdql~~La~RI~Ln~RYYLKn 84 (85)
T cd01785 60 QRRLPDQLQNLAERIQLSSRYYLKN 84 (85)
T ss_pred eccCCHHHHHHHHhhcccceEEecc
Confidence 3468999999999999999998543
No 43
>CHL00114 psbX photosystem II protein X; Reviewed
Probab=24.57 E-value=94 Score=19.47 Aligned_cols=21 Identities=33% Similarity=0.352 Sum_probs=15.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHh
Q 028921 146 THVWLNVLVSLLIGFFIVGLH 166 (202)
Q Consensus 146 t~~~~~l~~~l~~s~~vvllH 166 (202)
|....+++|++.++.+++++-
T Consensus 2 TpSLsnF~~SL~~Ga~ivvip 22 (39)
T CHL00114 2 TPSLSAFINSLLLGAIIVVIP 22 (39)
T ss_pred ChhHHHHHHHHHHHHHHhHHH
Confidence 456778888888888776644
No 44
>cd07451 CRD_SMO Cysteine-rich domain of the smoothened receptor (Smo) integral membrane protein. The cysteine-rich domain (CRD) is part of the smoothened receptor (Smo), an integral membrane protein and one of the key players in the Hedgehog (Hh) signaling pathway, critical for development, cell growth and migration, as well as stem cell maintenance. The CRD of Smo is conserved in vertebrates and can also be identified in invertebrates. The precise function of the CRD in Smo is unknown. Mutations in the Drosophila CRD disrupt Smo activity in vivo, while deletion of the CRD in mammalian cells does not seem to affect the activity of overexpressed Smo.
Probab=24.28 E-value=56 Score=25.74 Aligned_cols=49 Identities=20% Similarity=0.287 Sum_probs=33.1
Q ss_pred CCchHHHHHHHHhhhhcccCCCCChhHhhcCCCCCCC-CC-HHHHHHHHHhhH
Q 028921 22 VPPTTAFLTRARDTTQSVFSTRRPWRELLDIHAITRP-SS-VGEATIHLKRNL 72 (202)
Q Consensus 22 ~~~~~~~~~~~~~~~~~~l~~~RPw~eF~~~~~fs~P-~s-~~~a~~Ri~~Nl 72 (202)
.++-++.=+++|+.-...+... +|.||++.++|..+ ++ .+++. -++.|+
T Consensus 75 ~~PCRslCe~vr~~C~~~m~~~-~WP~~L~C~~~p~~~~~C~~~~~-~~~~n~ 125 (132)
T cd07451 75 ELPSQEMCQATRGPCKIVENER-GWPDFLRCDNDRFPPRGCKNDVR-ELKFNT 125 (132)
T ss_pred cCCCHHHHHHHHHHHHHHHHcC-CCCCcCcCCCCCCccccCCCHHH-HhhccC
Confidence 3445777777887766555554 89999999988776 32 33444 366665
No 45
>PF10318 7TM_GPCR_Srh: Serpentine type 7TM GPCR chemoreceptor Srh; InterPro: IPR019422 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). The nematode Caenorhabditis elegans has only 14 types of chemosensory neuron, yet is able to sense and respond to several hundred different chemicals because each neuron detects several stimuli []. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' []. Chemoreception in C. elegans is mediated by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs). More than 1300 potential chemoreceptor genes have been identified in C. elegans, which are generally prefixed sr for serpentine receptor. The receptor superfamilies include Sra (Sra, Srb, Srab, Sre), Str (Srh, Str, Sri, Srd, Srj, Srm, Srn) and Srg (Srx, Srt, Srg, Sru, Srv, Srxa), as well as the families Srw, Srz, Srbc, Srsx and Srr [, , ]. Many of these proteins have homologues in Caenorhabditis briggsae. Srh is part of the Str superfamily of chemoreceptors [].
Probab=23.24 E-value=3e+02 Score=23.47 Aligned_cols=19 Identities=16% Similarity=0.181 Sum_probs=15.2
Q ss_pred CCCCCCCHHHHHHHHHhhHh
Q 028921 54 AITRPSSVGEATIHLKRNLC 73 (202)
Q Consensus 54 ~fs~P~s~~~a~~Ri~~Nl~ 73 (202)
-++.| |++++++++.++..
T Consensus 146 ~~~~p-dQ~~~k~~~~~~~p 164 (302)
T PF10318_consen 146 YLSIP-DQEEAKQEVLKKYP 164 (302)
T ss_pred hcCCc-cHHHHHHHHHhhcc
Confidence 36777 89999999888774
No 46
>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=22.89 E-value=3e+02 Score=19.88 Aligned_cols=20 Identities=20% Similarity=0.145 Sum_probs=12.8
Q ss_pred HHHHH-HHHHHHHHHHHHhHH
Q 028921 77 VNYAM-IVLAILFLSLLWHPV 96 (202)
Q Consensus 77 ~NY~l-i~~~l~~i~ll~~P~ 96 (202)
=||.. +...+....++.|+.
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 47777 555566677778884
No 47
>PF09622 DUF2391: Putative integral membrane protein (DUF2391); InterPro: IPR024464 Members of this protein family are found in archaea and bacteria. Their function is unknown.
Probab=22.52 E-value=3.8e+02 Score=23.65 Aligned_cols=27 Identities=11% Similarity=-0.041 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhccCCCCC
Q 028921 149 WLNVLVSLLIGFFIVGLHAAFRGTEDL 175 (202)
Q Consensus 149 ~~~l~~~l~~s~~vvllHA~~R~~~~l 175 (202)
+-.++-++-+|...++.-+-+...++.
T Consensus 100 gkiiv~~vP~siGa~la~~~L~~~~~~ 126 (267)
T PF09622_consen 100 GKIIVQSVPASIGAALARSQLGGDSDE 126 (267)
T ss_pred HhheeeEecHHHHHHHHHHHcCCCCCc
Confidence 556666777888888999999876554
No 48
>PRK13387 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional
Probab=21.74 E-value=5.7e+02 Score=22.68 Aligned_cols=16 Identities=19% Similarity=0.347 Sum_probs=9.6
Q ss_pred cCCCeEecceeechhH
Q 028921 115 RDGPLVVFHRTVDDRV 130 (202)
Q Consensus 115 ~~~p~~i~gr~~~~~~ 130 (202)
...|..+..+.+.+-.
T Consensus 131 t~gP~~l~y~gLGe~~ 146 (317)
T PRK13387 131 TGGPLPLSRMPLGEIF 146 (317)
T ss_pred cCCCcccccCccHHHH
Confidence 5566666666665544
No 49
>PF06596 PsbX: Photosystem II reaction centre X protein (PsbX); InterPro: IPR009518 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. The low molecular weight transmembrane protein PsbX found in PSII is associated with the oxygen-evolving complex. Its expression is light-regulated. PsbX appears to be involved in the regulation of the amount of PSII [], and may be involved in the binding or turnover of quinone molecules at the Qb (PsbA) site [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0016020 membrane; PDB: 3ARC_x 3A0H_X 3A0B_X 3PRR_X 1S5L_x 4FBY_j 3PRQ_X 3KZI_X 3BZ2_X 3BZ1_X.
Probab=21.66 E-value=1.5e+02 Score=18.59 Aligned_cols=19 Identities=42% Similarity=0.405 Sum_probs=9.9
Q ss_pred hhhHHHHHHHHHHHHHHHH
Q 028921 146 THVWLNVLVSLLIGFFIVG 164 (202)
Q Consensus 146 t~~~~~l~~~l~~s~~vvl 164 (202)
+....++++++.++.++|+
T Consensus 2 TpSL~nfl~Sl~aG~~iVv 20 (39)
T PF06596_consen 2 TPSLSNFLLSLVAGAVIVV 20 (39)
T ss_dssp -HHHHHHHHHHHHHH-HHH
T ss_pred CHhHHHHHHHHHhhhhhhh
Confidence 3445566666666664443
No 50
>PF04530 Viral_Beta_CD: Viral Beta C/D like family; InterPro: IPR007617 This is a family of ssRNA positive-strand viral proteins. Conserved region is found in the Beta C and Beta D transcripts.
Probab=21.50 E-value=1.6e+02 Score=22.95 Aligned_cols=28 Identities=21% Similarity=0.240 Sum_probs=19.3
Q ss_pred HHHHHHHHhhHhhHHHHHHHHHHHHHHH
Q 028921 62 GEATIHLKRNLCYFRVNYAMIVLAILFL 89 (202)
Q Consensus 62 ~~a~~Ri~~Nl~yF~~NY~li~~~l~~i 89 (202)
++.++|...-+.-|..||.+++.++..+
T Consensus 34 e~t~~~~~~~~sv~~~~y~l~~~~v~~L 61 (122)
T PF04530_consen 34 EMTARRETTFLSVLNDNYVLFVCAVCML 61 (122)
T ss_pred hHhhhhhcchhhhhhhhHHHHHHHHHHH
Confidence 3344443334889999999988877665
No 51
>PF11674 DUF3270: Protein of unknown function (DUF3270); InterPro: IPR021688 This family of proteins with unknown function appears to be restricted to Streptococcus.
Probab=21.45 E-value=3.1e+02 Score=20.20 Aligned_cols=19 Identities=21% Similarity=0.394 Sum_probs=11.7
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 028921 147 HVWLNVLVSLLIGFFIVGL 165 (202)
Q Consensus 147 ~~~~~l~~~l~~s~~vvll 165 (202)
+....+.+++++|+.+..+
T Consensus 65 ~t~~Af~~Ai~~Sl~~~~~ 83 (90)
T PF11674_consen 65 NTFWAFPLAILISLAITQL 83 (90)
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 4566667777777665543
No 52
>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=21.03 E-value=6e+02 Score=23.34 Aligned_cols=34 Identities=24% Similarity=0.378 Sum_probs=22.4
Q ss_pred CCChhHhh-cCCCCCCCCCHHH-HHHHHHhhHhhHHHHH
Q 028921 43 RRPWRELL-DIHAITRPSSVGE-ATIHLKRNLCYFRVNY 79 (202)
Q Consensus 43 ~RPw~eF~-~~~~fs~P~s~~~-a~~Ri~~Nl~yF~~NY 79 (202)
.-|...|. +.+.|+.- ++ +.+|+++|+.+|..=.
T Consensus 95 ilPf~~~y~es~~~~~~---~k~l~~~l~~n~~~~~~~~ 130 (471)
T PF04791_consen 95 ILPFAQFYYESGDFTPK---GKGLKSSLKENLIYYLIFA 130 (471)
T ss_pred HHHHHHHHHHcCCcccc---cccHHHHHHHHHHHHHHHH
Confidence 46775544 55555532 33 9999999999876543
No 53
>PF12264 Waikav_capsid_1: Waikavirus capsid protein 1; InterPro: IPR024379 This entry represents capsid protein 1 of Rice tungro spherical virus [].
Probab=20.52 E-value=56 Score=26.85 Aligned_cols=25 Identities=28% Similarity=0.448 Sum_probs=23.0
Q ss_pred CCCCCCCCHHHHHHHHHhhHhhHHH
Q 028921 53 HAITRPSSVGEATIHLKRNLCYFRV 77 (202)
Q Consensus 53 ~~fs~P~s~~~a~~Ri~~Nl~yF~~ 77 (202)
..|++|+++=...+|++.=+.|||.
T Consensus 45 ~~~~lP~DlW~~NsRl~d~msYFQY 69 (197)
T PF12264_consen 45 KTFSLPSDLWAANSRLKDIMSYFQY 69 (197)
T ss_pred eeccCcHHHhhhhhHHHHHHHHhhe
Confidence 6799999999999999999999985
No 54
>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=20.46 E-value=5.6e+02 Score=24.05 Aligned_cols=21 Identities=5% Similarity=-0.078 Sum_probs=14.6
Q ss_pred CHHHHHHHHHhhHhhHHHHHH
Q 028921 60 SVGEATIHLKRNLCYFRVNYA 80 (202)
Q Consensus 60 s~~~a~~Ri~~Nl~yF~~NY~ 80 (202)
+.++..+|+...+...+.+|.
T Consensus 109 ~~g~~~~~l~~di~~i~~~~~ 129 (571)
T TIGR02203 109 PTGTLLSRITFDSEQVASAAT 129 (571)
T ss_pred CchHHHHHHHHHHHHHHHHHH
Confidence 457888998877666665553
No 55
>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=20.40 E-value=74 Score=23.16 Aligned_cols=15 Identities=20% Similarity=0.397 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHH
Q 028921 78 NYAMIVLAILFLSLL 92 (202)
Q Consensus 78 NY~li~~~l~~i~ll 92 (202)
||+++..++.++|+.
T Consensus 2 nyf~~l~if~cicl~ 16 (90)
T PF05777_consen 2 NYFVVLCIFSCICLW 16 (90)
T ss_pred cchhhHHHHHHHHHH
Confidence 788877777777764
No 56
>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=20.33 E-value=4.3e+02 Score=20.66 Aligned_cols=21 Identities=14% Similarity=0.132 Sum_probs=14.4
Q ss_pred CCHHHHHHHHHhhHhhHHHHH
Q 028921 59 SSVGEATIHLKRNLCYFRVNY 79 (202)
Q Consensus 59 ~s~~~a~~Ri~~Nl~yF~~NY 79 (202)
.+.+|..+|+.++.+..+..|
T Consensus 95 ~~~g~l~~~i~~d~~~i~~~~ 115 (275)
T PF00664_consen 95 NSSGELLSRITNDIEQIENFL 115 (275)
T ss_dssp S-HHHHHHHHHHHHHHHHHHH
T ss_pred hcccccccccccccccccccc
Confidence 356899999997776655444
No 57
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=20.17 E-value=4.2e+02 Score=26.56 Aligned_cols=40 Identities=20% Similarity=0.450 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHh
Q 028921 75 FRVNYAMIVLAILFLSLLWHPVSMIVFIVVFIAWFFLYFF 114 (202)
Q Consensus 75 F~~NY~li~~~l~~i~ll~~P~~Li~l~~~~~~~~~l~~~ 114 (202)
|..=++.+++..-++|+++=|+-.+.+++....|..+...
T Consensus 75 ~~~~~~~~~~~~d~~~~~~~p~~~~~~~~~~~v~~~~~~~ 114 (697)
T PF09726_consen 75 FSVFFVCIAFTSDLICLFFIPVHWLFFAASTYVWVQYVWH 114 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhh
Confidence 4455555555566677777777777777777667654443
No 58
>TIGR01476 chlor_syn_BchG bacteriochlorophyll/chlorophyll synthetase. This model describes a subfamily of a large family of polyprenyltransferases (pfam01040) that also includes 4-hydroxybenzoate octaprenyltransferase and protoheme IX farnesyltransferase (heme O synthase). Members of this family are found exclusively in photosynthetic organisms, including a single copy in Arabidopsis thaliana.
Probab=20.10 E-value=3.8e+02 Score=23.03 Aligned_cols=12 Identities=8% Similarity=0.357 Sum_probs=4.9
Q ss_pred HHHHHHHHHHHH
Q 028921 99 IVFIVVFIAWFF 110 (202)
Q Consensus 99 i~l~~~~~~~~~ 110 (202)
+.++....+|.|
T Consensus 111 l~~~~~~~~~~Y 122 (283)
T TIGR01476 111 FTVVGIVLAVIY 122 (283)
T ss_pred HHHHHHHHhhee
Confidence 333334444443
Done!