Query 029745
Match_columns 188
No_of_seqs 105 out of 446
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 03:00:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029745.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029745hhsearch_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 4.2E-49 9.1E-54 319.1 16.1 169 7-175 18-186 (187)
2 PF03208 PRA1: PRA1 family pro 100.0 3.8E-38 8.3E-43 248.0 16.8 148 20-167 2-151 (153)
3 COG5130 YIP3 Prenylated rab ac 99.9 7.2E-24 1.6E-28 164.1 10.6 146 18-164 21-166 (169)
4 KOG4050 Glutamate transporter 99.9 3.6E-23 7.8E-28 163.1 13.0 137 19-156 12-154 (188)
5 COG1575 MenA 1,4-dihydroxy-2-n 75.0 21 0.00045 31.6 8.3 113 45-163 90-202 (303)
6 COG1955 FlaJ Archaeal flagella 73.7 24 0.00053 33.4 8.8 62 8-69 117-178 (527)
7 PRK07419 1,4-dihydroxy-2-napht 60.7 66 0.0014 28.1 8.6 14 98-111 136-149 (304)
8 PRK11715 inner membrane protei 53.6 1.6E+02 0.0034 27.4 10.1 94 39-145 291-393 (436)
9 PF02300 Fumarate_red_C: Fumar 53.0 1E+02 0.0022 23.9 7.4 50 73-122 61-116 (129)
10 PF06123 CreD: Inner membrane 52.0 1.8E+02 0.004 26.9 10.3 102 39-153 285-399 (430)
11 PF09991 DUF2232: Predicted me 48.3 1.2E+02 0.0026 25.1 8.0 44 113-156 39-82 (290)
12 TIGR02235 menA_cyano-plnt 1,4- 38.2 2.6E+02 0.0057 24.1 8.7 14 98-111 123-136 (285)
13 COG4452 CreD Inner membrane pr 38.1 3.3E+02 0.0071 25.2 9.9 89 60-153 298-395 (443)
14 PF06645 SPC12: Microsomal sig 37.3 1.4E+02 0.0031 20.7 5.9 35 114-148 16-50 (76)
15 CHL00114 psbX photosystem II p 34.9 46 0.001 20.5 2.4 21 129-149 2-22 (39)
16 PF11833 DUF3353: Protein of u 32.1 2.5E+02 0.0055 23.0 7.2 18 6-23 33-50 (194)
17 PF11368 DUF3169: Protein of u 31.9 2.4E+02 0.0052 23.6 7.3 46 51-96 189-238 (248)
18 cd01785 PDZ_GEF_RA Ubiquitin-l 31.6 8.5 0.00018 27.5 -1.3 24 38-61 61-84 (85)
19 PF05879 RHD3: Root hair defec 31.0 96 0.0021 30.6 5.3 26 71-96 665-690 (742)
20 COG0382 UbiA 4-hydroxybenzoate 30.3 3.4E+02 0.0074 23.0 11.5 26 133-158 167-192 (289)
21 PF06596 PsbX: Photosystem II 29.4 92 0.002 19.2 3.1 20 129-148 2-21 (39)
22 PRK13591 ubiA prenyltransferas 28.8 4.1E+02 0.0089 23.5 9.8 12 30-41 78-91 (307)
23 TIGR02203 MsbA_lipidA lipid A 27.7 4.9E+02 0.011 24.0 9.9 45 43-87 109-163 (571)
24 PF07854 DUF1646: Protein of u 26.5 4.8E+02 0.01 23.5 9.1 26 129-154 110-135 (347)
25 PF04791 LMBR1: LMBR1-like mem 25.6 4.3E+02 0.0094 23.9 8.3 35 27-64 96-132 (471)
26 COG0659 SUL1 Sulfate permease 23.8 4.7E+02 0.01 25.0 8.4 75 76-155 345-419 (554)
27 PF08566 Pam17: Mitochondrial 23.7 4E+02 0.0087 21.7 9.3 43 87-131 53-96 (173)
28 COG4605 CeuC ABC-type enteroch 23.4 2.8E+02 0.0061 24.6 6.2 43 27-71 145-187 (316)
29 PF00664 ABC_membrane: ABC tra 23.0 3.6E+02 0.0077 20.8 7.7 46 42-87 95-150 (275)
30 PF11674 DUF3270: Protein of u 23.0 2.8E+02 0.006 20.1 5.2 18 129-146 64-81 (90)
31 PRK13603 fumarate reductase su 22.7 3.2E+02 0.0069 21.1 5.7 51 72-122 57-113 (126)
32 PF14017 DUF4233: Protein of u 22.6 1.5E+02 0.0032 22.1 3.9 29 70-98 69-97 (107)
33 PRK04987 fumarate reductase su 22.4 3.8E+02 0.0082 20.8 6.5 50 72-121 61-116 (130)
34 cd00546 QFR_TypeD_subunitC Qui 22.2 3.4E+02 0.0074 20.9 5.8 50 72-121 57-112 (124)
35 COG5415 Predicted integral mem 22.1 4.9E+02 0.011 22.1 7.5 44 45-88 28-79 (251)
36 PF04530 Viral_Beta_CD: Viral 22.0 1.2E+02 0.0027 23.3 3.3 28 45-72 34-61 (122)
37 PF04140 ICMT: Isoprenylcystei 21.8 3E+02 0.0066 19.5 5.4 19 61-79 48-67 (94)
38 COG5594 Uncharacterized integr 21.7 5.1E+02 0.011 26.2 8.2 50 61-111 611-665 (827)
39 PF07305 DUF1454: Protein of u 21.1 1.3E+02 0.0029 24.9 3.6 41 13-56 48-90 (200)
40 PF08372 PRT_C: Plant phosphor 21.1 3E+02 0.0064 21.9 5.5 28 58-85 95-122 (156)
41 PRK13823 conjugal transfer pro 21.1 2.9E+02 0.0063 20.1 5.1 48 100-154 14-62 (94)
42 TIGR01294 P_lamban phospholamb 21.0 1.9E+02 0.0042 18.5 3.5 29 47-75 20-48 (52)
43 KOG1606 Stationary phase-induc 20.7 78 0.0017 27.0 2.2 32 24-55 110-146 (296)
44 PF14256 YwiC: YwiC-like prote 20.6 3.9E+02 0.0084 20.3 6.6 45 113-157 63-107 (129)
45 PRK10522 multidrug transporter 20.6 6.9E+02 0.015 23.2 9.2 39 13-59 81-119 (547)
46 PRK10789 putative multidrug tr 20.5 7.1E+02 0.015 23.3 10.0 26 27-59 82-107 (569)
47 PF04602 Arabinose_trans: Myco 20.1 35 0.00075 33.3 0.0 108 19-157 474-590 (656)
No 1
>KOG3142 consensus Prenylated rab acceptor 1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.2e-49 Score=319.10 Aligned_cols=169 Identities=49% Similarity=0.740 Sum_probs=164.4
Q ss_pred CchhhHHhHHHhhhhccCCCCChhhhhCcCCCCCCCChhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 029745 7 SDTGFLSRVKRTTQSINATRRPWSDFLDLSAFNLPLSLSDATTRITQNLTHFRSNYAVITLLALFLSLIYHPVSIIVFLL 86 (188)
Q Consensus 7 ~~~~~~~~~~~~~~~~l~~~RPw~eF~~~~~fs~P~s~~~~~~Ri~~Nl~yF~~NY~li~~~~~~~~ll~~P~~Li~l~~ 86 (188)
+-+++.+|.+|+.+..+++.|||+||+|.++|++|+|++|+.+|+++|+.|||.||++++.++..+++++||++|+++++
T Consensus 18 ~~~~~~~~~~~~~~~~lst~RpW~ef~d~~~fs~P~s~s~a~sRi~~Nl~yF~~NY~~iv~~~~~~sLi~~P~~Livl~~ 97 (187)
T KOG3142|consen 18 SVESISSRAKQTIQSGLSTRRPWSEFFDRSAFSRPRSLSDATSRIKRNLSYFRVNYVIIVAILLFLSLITHPLSLIVLLA 97 (187)
T ss_pred chhhHHHHHHHHHHHHHhccCCHHHHHcccccCCCccHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 45778889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhccCCCeeecceechHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCCCccCCCCC
Q 029745 87 TLVAWFFLYFARDDPLTVLGFQVDDRVVIGALFAVTVTGLVLTHVWVNVLVSVVVGAVLVILHAWFRSTDDLVMEDQESP 166 (188)
Q Consensus 87 ~~~~~~~i~~~~~~pl~i~g~~~~~~~~~~~l~~vt~~ll~~~~~~~~l~~~l~~s~~vvl~HA~~R~~~~l~~~e~e~~ 166 (188)
.+++|+++|+.||+|++++||++++++++++++++|++++|+++++.+++|++++|+++|+.||+||++||+|+||||+.
T Consensus 98 lv~~w~~LY~~rd~pLvlfgr~i~d~~~l~~L~~~ti~~lflt~~~~~l~~~l~~g~~vv~~Haafr~~ddLF~dee~~~ 177 (187)
T KOG3142|consen 98 LVAAWLFLYFLRDEPLVLFGRQISDREVLIGLVLITIPVLFLTSAGSNLLWALGAGLVVVLIHAAFRNTDDLFLDEEEAA 177 (187)
T ss_pred HHHHHHheeeecCCCeEEeeEEecCcchhhhHHHHHHHHHHHhhHHHHHHHHHHHhHHHHHhHHHHhChHhhhhhhhhcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccceecC
Q 029745 167 FGVLLDDLG 175 (188)
Q Consensus 167 ~~~~~~~~~ 175 (188)
.+|++++.+
T Consensus 178 ~~gl~s~~~ 186 (187)
T KOG3142|consen 178 ASGLLSFSS 186 (187)
T ss_pred cccccccCC
Confidence 899998754
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=3.8e-38 Score=247.99 Aligned_cols=148 Identities=36% Similarity=0.596 Sum_probs=141.0
Q ss_pred hhccCCCCChhhhhCcCCCCCCCChhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhccC
Q 029745 20 QSINATRRPWSDFLDLSAFNLPLSLSDATTRITQNLTHFRSNYAVITLLALFLSLIYHPVSIIVFLLTLVAWFFLYFARD 99 (188)
Q Consensus 20 ~~~l~~~RPw~eF~~~~~fs~P~s~~~~~~Ri~~Nl~yF~~NY~li~~~~~~~~ll~~P~~Li~l~~~~~~~~~i~~~~~ 99 (188)
+.+++++|||+||+|.++|+.|+|.+|+.+|+++|+.|||+||++++++++++++++||..++++++++++|.+++..++
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 56889999999999999999999999999999999999999999999999999999999999999999999999998765
Q ss_pred --CCeeecceechHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCCCccCCCCCC
Q 029745 100 --DPLTVLGFQVDDRVVIGALFAVTVTGLVLTHVWVNVLVSVVVGAVLVILHAWFRSTDDLVMEDQESPF 167 (188)
Q Consensus 100 --~pl~i~g~~~~~~~~~~~l~~vt~~ll~~~~~~~~l~~~l~~s~~vvl~HA~~R~~~~l~~~e~e~~~ 167 (188)
+|+.+.|+++++++++.++.+++++++++++++.+++|+++++++++++||+||+||++..+|+|.++
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~l~~~l~~~~~lvl~HA~~r~~~~~~~~e~~~~~ 151 (153)
T PF03208_consen 82 ENDPIVIGGRKISPRQVLLALLIVSILLLFFTSAGLTLFWSLGASVLLVLLHASFREPDLKNKEENEIES 151 (153)
T ss_pred cCcchhccCcccCHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhcCCccchhhhhHHhc
Confidence 78999999999999999999999999999999999999999999999999999999998888888764
No 3
>COG5130 YIP3 Prenylated rab acceptor 1 and related proteins [Intracellular trafficking and secretion / Signal transduction mechanisms]
Probab=99.91 E-value=7.2e-24 Score=164.05 Aligned_cols=146 Identities=19% Similarity=0.225 Sum_probs=132.0
Q ss_pred hhhhccCCCCChhhhhCcCCCCCCCChhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhc
Q 029745 18 TTQSINATRRPWSDFLDLSAFNLPLSLSDATTRITQNLTHFRSNYAVITLLALFLSLIYHPVSIIVFLLTLVAWFFLYFA 97 (188)
Q Consensus 18 ~~~~~l~~~RPw~eF~~~~~fs~P~s~~~~~~Ri~~Nl~yF~~NY~li~~~~~~~~ll~~P~~Li~l~~~~~~~~~i~~~ 97 (188)
+....+.+.+.-+||||..|.|+|+|++|+.+|+-.|+.||..||..++..+..|.+++||.+++++.+.+++.+-+.+.
T Consensus 21 s~~q~L~~~~~~~eFfni~rIs~PqNf~eaqsRv~~Nl~rFssnYlaiia~l~iy~ll~nllLlivIgivvaGvygi~kl 100 (169)
T COG5130 21 SIKQALGDKDVTREFFNIGRISVPQNFNEAQSRVFANLDRFSSNYLAIIAILTIYYLLYNLLLLIVIGIVVAGVYGIRKL 100 (169)
T ss_pred HHHHHhcCcccHHHHhccccccCCcchHHHHHHHHhhHHHHhhhHHHHHHHHHHHHHHHhHHHHHHHhhhhheeeehhhc
Confidence 44556778899999999999999999999999999999999999999999999999999999999999999988888888
Q ss_pred cCCCeeecceechHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCCCccCCC
Q 029745 98 RDDPLTVLGFQVDDRVVIGALFAVTVTGLVLTHVWVNVLVSVVVGAVLVILHAWFRSTDDLVMEDQE 164 (188)
Q Consensus 98 ~~~pl~i~g~~~~~~~~~~~l~~vt~~ll~~~~~~~~l~~~l~~s~~vvl~HA~~R~~~~l~~~e~e 164 (188)
|++|++..-+..+..+++.+++++.+++.++.++..+++|..++|.++++.||++..++-. .|+||
T Consensus 101 ~g~~lv~~~~~~~~~~ly~glvcvlip~gffaspI~tllwl~gas~v~vfgHAal~e~p~e-~~fee 166 (169)
T COG5130 101 RGRPLVCNIELEPRSVLYAGLVCVLIPFGFFASPIVTLLWLSGASGVVVFGHAALLEEPLE-KDFEE 166 (169)
T ss_pred ccCccccccceeecchhhhhHHHHHHHHHHHHhHHHHHHHHHhcceeEeechHHHcCCccc-cchhh
Confidence 9889887777777889999999999999999999999999999999999999999986432 44443
No 4
>KOG4050 consensus Glutamate transporter EAAC1-interacting protein GTRAP3-18 [Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=99.90 E-value=3.6e-23 Score=163.11 Aligned_cols=137 Identities=20% Similarity=0.266 Sum_probs=115.6
Q ss_pred hhhccCCCCChhhhh-CcCCCCCC--CChhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH--H
Q 029745 19 TQSINATRRPWSDFL-DLSAFNLP--LSLSDATTRITQNLTHFRSNYAVITLLALFLSLIYHPVSIIVFLLTLVAWF--F 93 (188)
Q Consensus 19 ~~~~l~~~RPw~eF~-~~~~fs~P--~s~~~~~~Ri~~Nl~yF~~NY~li~~~~~~~~ll~~P~~Li~l~~~~~~~~--~ 93 (188)
-+-+++|+|.|+||+ +++||..| +|+++|.+|+.+|+.|||+||++.++..+++..+.+|..+++.++..++.. .
T Consensus 12 ~~v~lpPlRa~ddF~lgS~Rfa~Pd~~D~~kW~nRVisNLLYyQTNYfv~~it~~~l~~f~sp~~iilglivvvlvi~~l 91 (188)
T KOG4050|consen 12 NGVELPPLRALDDFLLGSDRFARPDFNDFKKWNNRVISNLLYYQTNYFVTFITLFLLHGFISPQDIILGLIVVVLVIGTL 91 (188)
T ss_pred cCCCCCcchhHHHhccCcccccCCCCccHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHH
Confidence 456799999999999 99999999 899999999999999999999999999999999999999888776543222 3
Q ss_pred HHhcc-CCCeeecceechHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCC
Q 029745 94 LYFAR-DDPLTVLGFQVDDRVVIGALFAVTVTGLVLTHVWVNVLVSVVVGAVLVILHAWFRSTD 156 (188)
Q Consensus 94 i~~~~-~~pl~i~g~~~~~~~~~~~l~~vt~~ll~~~~~~~~l~~~l~~s~~vvl~HA~~R~~~ 156 (188)
++... ++.++...+++ |...+++...++.+++++.++..++.+++..+++++++||++|.++
T Consensus 92 iwa~~~~a~~krmr~~h-p~~~l~gvllv~yfli~v~~~vlv~~F~il~Pv~L~lvHASLRLRn 154 (188)
T KOG4050|consen 92 IWAASADANIKRMRTDH-PLVTLAGVLLVGYFLISVFGGVLVFAFAILFPVLLVLVHASLRLRN 154 (188)
T ss_pred HHHHhccHHHHHHhhcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 33222 33455455555 4578888889999999999999999999999999999999999874
No 5
>COG1575 MenA 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]
Probab=75.04 E-value=21 Score=31.58 Aligned_cols=113 Identities=17% Similarity=0.122 Sum_probs=56.2
Q ss_pred hHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhccCCCeeecceechHHHHHHHHHHHHHH
Q 029745 45 SDATTRITQNLTHFRSNYAVITLLALFLSLIYHPVSIIVFLLTLVAWFFLYFARDDPLTVLGFQVDDRVVIGALFAVTVT 124 (188)
Q Consensus 45 ~~~~~Ri~~Nl~yF~~NY~li~~~~~~~~ll~~P~~Li~l~~~~~~~~~i~~~~~~pl~i~g~~~~~~~~~~~l~~vt~~ 124 (188)
++.+.|...++.-+ -|....++...++..+++..+...++++ ...+.| .++|..++-..+.+--+......+.+.
T Consensus 90 ~~~k~~~~l~l~l~--~~~g~~llg~~~~~~s~~~~l~lG~l~~-~~g~~Y--TgGp~PlgY~gLGEi~~~vffG~l~v~ 164 (303)
T COG1575 90 QSMKPALILSLALF--LLAGLALLGVILAALSDWLVLLLGLLCI-AAGILY--TGGPFPLGYMGLGEIFVGVFFGPLIVL 164 (303)
T ss_pred ccCCHHHHHHHHHH--HHHHHHHHHHHHHHHhhhHHHHHHHHHH-Hheeee--ccCCcCcccCCHHHHHHHHHHHHHHHH
Confidence 34455555554432 2333344444444555666333333322 222333 456766666666665555555555554
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCCCCccCC
Q 029745 125 GLVLTHVWVNVLVSVVVGAVLVILHAWFRSTDDLVMEDQ 163 (188)
Q Consensus 125 ll~~~~~~~~l~~~l~~s~~vvl~HA~~R~~~~l~~~e~ 163 (188)
.-++..+...-...+..++.+.++-+.....|++ +|-|
T Consensus 165 g~~yiqt~~~~~~~ll~slp~gil~~~Il~aNNi-rDie 202 (303)
T COG1575 165 GAYYIQTGRLSWAILLPSLPVGILIANILLANNL-RDIE 202 (303)
T ss_pred HHHHHhcccchHHHHHHHHHHHHHHHHHHHhccc-ccch
Confidence 4455554333333555666666666666666555 4433
No 6
>COG1955 FlaJ Archaeal flagella assembly protein J [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=73.69 E-value=24 Score=33.37 Aligned_cols=62 Identities=10% Similarity=0.080 Sum_probs=49.6
Q ss_pred chhhHHhHHHhhhhccCCCCChhhhhCcCCCCCCCChhHHHHHHHHhHHHHHHHHHHHHHHH
Q 029745 8 DTGFLSRVKRTTQSINATRRPWSDFLDLSAFNLPLSLSDATTRITQNLTHFRSNYAVITLLA 69 (188)
Q Consensus 8 ~~~~~~~~~~~~~~~l~~~RPw~eF~~~~~fs~P~s~~~~~~Ri~~Nl~yF~~NY~li~~~~ 69 (188)
+-++++...+++...+..--|..||+..+....=++.+...+|.-++++-|+.=|.-+..-+
T Consensus 117 ~~~~l~dfL~Rla~ai~sGe~~~eFl~~E~~~~~~~y~~~Yer~LeSl~~~~diY~sll~S~ 178 (527)
T COG1955 117 PSEILADFLDRLAYALDSGEDLKEFLEREQDTTMDEYETEYERALESLDVWKDIYVSLLVSL 178 (527)
T ss_pred cHHHHHHHHHHHHHhhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55666666667777777888999999777777777889999999999999999998665433
No 7
>PRK07419 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Provisional
Probab=60.73 E-value=66 Score=28.15 Aligned_cols=14 Identities=7% Similarity=0.114 Sum_probs=8.3
Q ss_pred cCCCeeecceechH
Q 029745 98 RDDPLTVLGFQVDD 111 (188)
Q Consensus 98 ~~~pl~i~g~~~~~ 111 (188)
...|..+..+.+.+
T Consensus 136 T~gP~~l~y~gLGE 149 (304)
T PRK07419 136 QGPPFRLGYQGLGE 149 (304)
T ss_pred cCCCcccCCCCchH
Confidence 44677665555555
No 8
>PRK11715 inner membrane protein; Provisional
Probab=53.62 E-value=1.6e+02 Score=27.38 Aligned_cols=94 Identities=23% Similarity=0.364 Sum_probs=47.4
Q ss_pred CCCCChhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH---------HhHHHHHHHHHHHHHHHHHHhccCCCeeecceec
Q 029745 39 NLPLSLSDATTRITQNLTHFRSNYAVITLLALFLSLI---------YHPVSIIVFLLTLVAWFFLYFARDDPLTVLGFQV 109 (188)
Q Consensus 39 s~P~s~~~~~~Ri~~Nl~yF~~NY~li~~~~~~~~ll---------~~P~~Li~l~~~~~~~~~i~~~~~~pl~i~g~~~ 109 (188)
--|-|.-.-.+|- ..|.++++++.+.+++ .||+-=+.+.+..+.++.+...=.+.+ .+
T Consensus 291 ~~PVd~Y~~~~RA--------~KYgiLFI~LTF~~fFlfE~~~~~~iHpiQYlLVGlAl~lFYLLLLSlSEHi-----gF 357 (436)
T PRK11715 291 IDPVDQYQKTERA--------VKYAILFIALTFAAFFLFELLKKLRIHPVQYLLVGLALVLFYLLLLSLSEHI-----GF 357 (436)
T ss_pred eccccHHHHHHHH--------HhHHHHHHHHHHHHHHHHHHhcCceecHHHHHHHHHHHHHHHHHHHHHHhhh-----ch
Confidence 3455555555554 3588888777766665 389876655555554443332211112 12
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 029745 110 DDRVVIGALFAVTVTGLVLTHVWVNVLVSVVVGAVL 145 (188)
Q Consensus 110 ~~~~~~~~l~~vt~~ll~~~~~~~~l~~~l~~s~~v 145 (188)
........++++..+-+|...+...-=.++.++..+
T Consensus 358 ~~AYliAa~a~v~li~~Y~~~vl~~~k~g~~~~~~L 393 (436)
T PRK11715 358 TLAYLIAALACVLLIGFYLSAVLRSWKRGLLFAAAL 393 (436)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence 233444555555555556555443333333333333
No 9
>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=53.02 E-value=1e+02 Score=23.94 Aligned_cols=50 Identities=28% Similarity=0.507 Sum_probs=24.4
Q ss_pred HHHHhHHHHHHHHHHHHHHH-----HHHhc-cCCCeeecceechHHHHHHHHHHHH
Q 029745 73 SLIYHPVSIIVFLLTLVAWF-----FLYFA-RDDPLTVLGFQVDDRVVIGALFAVT 122 (188)
Q Consensus 73 ~ll~~P~~Li~l~~~~~~~~-----~i~~~-~~~pl~i~g~~~~~~~~~~~l~~vt 122 (188)
..+.||+.++.=+++.++.. |+... +.-|+.++|+.++++.+..+.-+++
T Consensus 61 ~fl~nP~vv~lnliaLaa~L~Ha~TwF~l~Pkam~i~v~~~~v~~~~i~~~~w~~~ 116 (129)
T PF02300_consen 61 AFLQNPIVVILNLIALAAALLHAKTWFELAPKAMPIIVGGERVPPRPIVKGLWAAT 116 (129)
T ss_dssp HHHTSHHHHHHHHHHHHHHHHHHHHHHHHGGGG---EETTEE--SHHHHHHHHHHH
T ss_pred HHHcCcHHHHHHHHHHHHHHHHHHHHHHHchhhhhhhcCCeeCCHHHHHHHHHHHH
Confidence 34568877766555443211 12211 2346888999999876655444433
No 10
>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=52.02 E-value=1.8e+02 Score=26.88 Aligned_cols=102 Identities=19% Similarity=0.359 Sum_probs=50.0
Q ss_pred CCCCChhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH---------HhHHHHHHHHHHHHHHHHHHhccCCCeeecceec
Q 029745 39 NLPLSLSDATTRITQNLTHFRSNYAVITLLALFLSLI---------YHPVSIIVFLLTLVAWFFLYFARDDPLTVLGFQV 109 (188)
Q Consensus 39 s~P~s~~~~~~Ri~~Nl~yF~~NY~li~~~~~~~~ll---------~~P~~Li~l~~~~~~~~~i~~~~~~pl~i~g~~~ 109 (188)
--|-|.-.-.+|- .-|.++++++.+.+++ .||+-=+.+.+..+.++.+...=.+.+ .+
T Consensus 285 ~~Pvd~Y~~~~Ra--------~KYgiLFI~LTF~~fflfE~~~~~~iHpiQY~LVGlAl~lFYlLLLSlSEhi-----~F 351 (430)
T PF06123_consen 285 IEPVDHYQKSERA--------VKYGILFIGLTFLAFFLFELLSKLRIHPIQYLLVGLALVLFYLLLLSLSEHI-----GF 351 (430)
T ss_pred eccccHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHhhh-----ch
Confidence 3455544445553 3588888777777665 489876655555554443332111111 12
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHhhhcc
Q 029745 110 DDRVVIGALFAVTVTGLVLTHVWVN----VLVSVVVGAVLVILHAWFR 153 (188)
Q Consensus 110 ~~~~~~~~l~~vt~~ll~~~~~~~~----l~~~l~~s~~vvl~HA~~R 153 (188)
........+++++.+.+|..+.... +..+..++++-..+...++
T Consensus 352 ~~AYliAa~a~i~Li~~Y~~~vl~~~k~~~~~~~~L~~LY~~Ly~lLq 399 (430)
T PF06123_consen 352 NLAYLIAALACIGLISLYLSSVLKSWKRGLIFAGLLAALYGFLYVLLQ 399 (430)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHH
Confidence 2234444555555555555444333 3333333333444444433
No 11
>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=48.28 E-value=1.2e+02 Score=25.13 Aligned_cols=44 Identities=16% Similarity=0.082 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCC
Q 029745 113 VVIGALFAVTVTGLVLTHVWVNVLVSVVVGAVLVILHAWFRSTD 156 (188)
Q Consensus 113 ~~~~~l~~vt~~ll~~~~~~~~l~~~l~~s~~vvl~HA~~R~~~ 156 (188)
.......+.++....+.+....++..+..+..-.+++-.+|+..
T Consensus 39 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~g~~lg~~~~~~~ 82 (290)
T PF09991_consen 39 YGLIALLAAAVLLALFGGPVSALFYLLFFGLPGLVLGYLLRKKR 82 (290)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 44444444444444455656667777766666666666666643
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=38.18 E-value=2.6e+02 Score=24.08 Aligned_cols=14 Identities=7% Similarity=0.114 Sum_probs=7.6
Q ss_pred cCCCeeecceechH
Q 029745 98 RDDPLTVLGFQVDD 111 (188)
Q Consensus 98 ~~~pl~i~g~~~~~ 111 (188)
...|..+..+.+.+
T Consensus 123 t~gP~~l~y~gLGE 136 (285)
T TIGR02235 123 QGPPFRLGYQGLGE 136 (285)
T ss_pred cCCCcccCCCCccH
Confidence 44666665555544
No 13
>COG4452 CreD Inner membrane protein involved in colicin E2 resistance [Defense mechanisms]
Probab=38.15 E-value=3.3e+02 Score=25.20 Aligned_cols=89 Identities=21% Similarity=0.395 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHHHHHH---------HhHHHHHHHHHHHHHHHHHHhccCCCeeecceechHHHHHHHHHHHHHHHHHHHH
Q 029745 60 SNYAVITLLALFLSLI---------YHPVSIIVFLLTLVAWFFLYFARDDPLTVLGFQVDDRVVIGALFAVTVTGLVLTH 130 (188)
Q Consensus 60 ~NY~li~~~~~~~~ll---------~~P~~Li~l~~~~~~~~~i~~~~~~pl~i~g~~~~~~~~~~~l~~vt~~ll~~~~ 130 (188)
.-|.++++.+.+.+.+ .||+--+...+..+.++.+...=.+. + |.+ ...+..-+.++...-+|+..
T Consensus 298 ~kYaIlfI~Ltf~afFifE~lt~~~~Hp~QY~LVGlsLv~FYLLLLaLsEH--i-GFt--~Ayl~aSla~a~l~~~YL~a 372 (443)
T COG4452 298 TKYAILFIGLTFMAFFIFEVLTGQRLHPMQYLLVGLSLVMFYLLLLALSEH--I-GFT--VAYLIASLAGALLNGIYLQA 372 (443)
T ss_pred HHHHHHHHHHHHHHHhhhhhhcccccchHHHHHHHHHHHHHHHHHHHHHhh--c-CcC--HHHHHHHHHHHHHHHHHHHH
Confidence 4577777776666554 48987766665555444333211111 1 332 23444455555555666666
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcc
Q 029745 131 VWVNVLVSVVVGAVLVILHAWFR 153 (188)
Q Consensus 131 ~~~~l~~~l~~s~~vvl~HA~~R 153 (188)
+...--.+++..+.+.++-+.+.
T Consensus 373 vl~~~~~g~~f~~~L~~lygvm~ 395 (443)
T COG4452 373 VLRGWRNGLLFFLALLLLYGVMF 395 (443)
T ss_pred HHhhhhhhHHHHHHHHHHHHHHH
Confidence 55555555555555555555443
No 14
>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=37.27 E-value=1.4e+02 Score=20.69 Aligned_cols=35 Identities=14% Similarity=0.127 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 029745 114 VIGALFAVTVTGLVLTHVWVNVLVSVVVGAVLVIL 148 (188)
Q Consensus 114 ~~~~l~~vt~~ll~~~~~~~~l~~~l~~s~~vvl~ 148 (188)
.+.+..+++.+.=|++......+.+.+++++++++
T Consensus 16 il~~~~iisfi~Gy~~q~~~~~~~~~~~g~~~~~l 50 (76)
T PF06645_consen 16 ILIISAIISFIVGYITQSFSYTFYIYGAGVVLTLL 50 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34444555656667777777777777777766654
No 15
>CHL00114 psbX photosystem II protein X; Reviewed
Probab=34.91 E-value=46 Score=20.50 Aligned_cols=21 Identities=24% Similarity=0.474 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 029745 129 THVWVNVLVSVVVGAVLVILH 149 (188)
Q Consensus 129 ~~~~~~l~~~l~~s~~vvl~H 149 (188)
|.+..+++|++.++.+++++-
T Consensus 2 TpSLsnF~~SL~~Ga~ivvip 22 (39)
T CHL00114 2 TPSLSAFINSLLLGAIIVVIP 22 (39)
T ss_pred ChhHHHHHHHHHHHHHHhHHH
Confidence 567788999999998877654
No 16
>PF11833 DUF3353: Protein of unknown function (DUF3353); InterPro: IPR021788 This family of proteins are functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 205 to 258 amino acids in length.
Probab=32.14 E-value=2.5e+02 Score=22.99 Aligned_cols=18 Identities=17% Similarity=0.257 Sum_probs=10.4
Q ss_pred CCchhhHHhHHHhhhhcc
Q 029745 6 ASDTGFLSRVKRTTQSIN 23 (188)
Q Consensus 6 ~~~~~~~~~~~~~~~~~l 23 (188)
|-|.=+++|.+++.+-++
T Consensus 33 AYD~ILM~rL~~Rq~Gki 50 (194)
T PF11833_consen 33 AYDAILMERLRQRQKGKI 50 (194)
T ss_pred HHHHHHHHHHHHHHcCCC
Confidence 345566677776655444
No 17
>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=31.88 E-value=2.4e+02 Score=23.55 Aligned_cols=46 Identities=13% Similarity=0.395 Sum_probs=26.1
Q ss_pred HHHhHHHHHH-HHHHHH---HHHHHHHHHHhHHHHHHHHHHHHHHHHHHh
Q 029745 51 ITQNLTHFRS-NYAVIT---LLALFLSLIYHPVSIIVFLLTLVAWFFLYF 96 (188)
Q Consensus 51 i~~Nl~yF~~-NY~li~---~~~~~~~ll~~P~~Li~l~~~~~~~~~i~~ 96 (188)
.+.+.+-|+. |..++. +++..+.+.++-.-+++++++.+.|.+...
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 3455555544 744433 444455556655556666677777776653
No 18
>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=31.63 E-value=8.5 Score=27.50 Aligned_cols=24 Identities=25% Similarity=0.292 Sum_probs=20.2
Q ss_pred CCCCCChhHHHHHHHHhHHHHHHH
Q 029745 38 FNLPLSLSDATTRITQNLTHFRSN 61 (188)
Q Consensus 38 fs~P~s~~~~~~Ri~~Nl~yF~~N 61 (188)
=.+|..++++.+||.-|=+||--|
T Consensus 61 rRLPdql~~La~RI~Ln~RYYLKn 84 (85)
T cd01785 61 RRLPDQLQNLAERIQLSSRYYLKN 84 (85)
T ss_pred ccCCHHHHHHHHhhcccceEEecc
Confidence 367888999999999999998443
No 19
>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=31.04 E-value=96 Score=30.64 Aligned_cols=26 Identities=19% Similarity=0.550 Sum_probs=19.0
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHh
Q 029745 71 FLSLIYHPVSIIVFLLTLVAWFFLYF 96 (188)
Q Consensus 71 ~~~ll~~P~~Li~l~~~~~~~~~i~~ 96 (188)
+.+++.||+.+.++++++++.+.+|.
T Consensus 665 ~m~vLrnPl~~~l~li~~~~~~~~~~ 690 (742)
T PF05879_consen 665 FMAVLRNPLYFTLLLILGGGFYVLYQ 690 (742)
T ss_pred HHHHHHChHHHHHHHHHHHHHHHHHH
Confidence 45667889888888777776666663
No 20
>COG0382 UbiA 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]
Probab=30.27 E-value=3.4e+02 Score=23.04 Aligned_cols=26 Identities=4% Similarity=0.061 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHhhhcccCCCC
Q 029745 133 VNVLVSVVVGAVLVILHAWFRSTDDL 158 (188)
Q Consensus 133 ~~l~~~l~~s~~vvl~HA~~R~~~~l 158 (188)
....+-.....+-+..+....+-+|.
T Consensus 167 ~~~~~l~~~~~l~~~~~~~i~~~~D~ 192 (289)
T COG0382 167 LLAWLLLLAAILWTLGYDIIYAIQDI 192 (289)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhccCc
Confidence 33444555556677777777777774
No 21
>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=29.44 E-value=92 Score=19.19 Aligned_cols=20 Identities=45% Similarity=0.674 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 029745 129 THVWVNVLVSVVVGAVLVIL 148 (188)
Q Consensus 129 ~~~~~~l~~~l~~s~~vvl~ 148 (188)
|.+..++++++.++.+++++
T Consensus 2 TpSL~nfl~Sl~aG~~iVv~ 21 (39)
T PF06596_consen 2 TPSLSNFLLSLVAGAVIVVI 21 (39)
T ss_dssp -HHHHHHHHHHHHHH-HHHH
T ss_pred CHhHHHHHHHHHhhhhhhhh
Confidence 55667778888777744443
No 22
>PRK13591 ubiA prenyltransferase; Provisional
Probab=28.77 E-value=4.1e+02 Score=23.48 Aligned_cols=12 Identities=33% Similarity=0.266 Sum_probs=7.6
Q ss_pred hhhhCc--CCCCCC
Q 029745 30 SDFLDL--SAFNLP 41 (188)
Q Consensus 30 ~eF~~~--~~fs~P 41 (188)
+|++|. ++.+.|
T Consensus 78 Nd~~D~eiD~IN~P 91 (307)
T PRK13591 78 DRALDSEEDAVNRS 91 (307)
T ss_pred hhhccchhhhccCc
Confidence 466643 567777
No 23
>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=27.68 E-value=4.9e+02 Score=24.03 Aligned_cols=45 Identities=13% Similarity=0.115 Sum_probs=24.9
Q ss_pred ChhHHHHHHHHhHHHHHHHHHH----------HHHHHHHHHHHHhHHHHHHHHHH
Q 029745 43 SLSDATTRITQNLTHFRSNYAV----------ITLLALFLSLIYHPVSIIVFLLT 87 (188)
Q Consensus 43 s~~~~~~Ri~~Nl~yF~~NY~l----------i~~~~~~~~ll~~P~~Li~l~~~ 87 (188)
+.++..+|+...+...+.+|.- .+++++++.+..+|.+.++.+++
T Consensus 109 ~~g~~~~~l~~di~~i~~~~~~~~~~~i~~~~~~~~~~~~l~~~~~~l~~i~l~~ 163 (571)
T TIGR02203 109 PTGTLLSRITFDSEQVASAATDAFIVLVRETLTVIGLFIVLLYYSWQLTLIVVVM 163 (571)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 4588899988776666655531 12223333444677655544433
No 24
>PF07854 DUF1646: Protein of unknown function (DUF1646); InterPro: IPR012443 Some of the members of this family are hypothetical bacterial and archaeal proteins, but others are annotated as being cation transporters expressed by the archaeon Methanosarcina mazei (Methanosarcina frisia) (Q8PXG5 from SWISSPROT, Q8PXG7 from SWISSPROT and Q8PXG8 from SWISSPROT).
Probab=26.46 E-value=4.8e+02 Score=23.53 Aligned_cols=26 Identities=8% Similarity=0.156 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhccc
Q 029745 129 THVWVNVLVSVVVGAVLVILHAWFRS 154 (188)
Q Consensus 129 ~~~~~~l~~~l~~s~~vvl~HA~~R~ 154 (188)
.|-.+.+..++.+++.++-+-..++.
T Consensus 110 LGL~SSiITAIIAAliLvEIv~~lpl 135 (347)
T PF07854_consen 110 LGLSSSIITAIIAALILVEIVNALPL 135 (347)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 35556677777777777666555554
No 25
>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=25.55 E-value=4.3e+02 Score=23.93 Aligned_cols=35 Identities=11% Similarity=0.238 Sum_probs=22.6
Q ss_pred CChh-hhhCcCCCCCCCChhH-HHHHHHHhHHHHHHHHHH
Q 029745 27 RPWS-DFLDLSAFNLPLSLSD-ATTRITQNLTHFRSNYAV 64 (188)
Q Consensus 27 RPw~-eF~~~~~fs~P~s~~~-~~~Ri~~Nl~yF~~NY~l 64 (188)
-|.. +|.+.+.|+.. ++ +.+|+++|+.+|..-.++
T Consensus 96 lPf~~~y~es~~~~~~---~k~l~~~l~~n~~~~~~~~~i 132 (471)
T PF04791_consen 96 LPFAQFYYESGDFTPK---GKGLKSSLKENLIYYLIFAII 132 (471)
T ss_pred HHHHHHHHHcCCcccc---cccHHHHHHHHHHHHHHHHHH
Confidence 4554 33366655532 33 899999999998755443
No 26
>COG0659 SUL1 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]
Probab=23.78 E-value=4.7e+02 Score=24.95 Aligned_cols=75 Identities=21% Similarity=0.292 Sum_probs=40.7
Q ss_pred HhHHHHHHHHHHHHHHHHHHhccCCCeeecceechHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccC
Q 029745 76 YHPVSIIVFLLTLVAWFFLYFARDDPLTVLGFQVDDRVVIGALFAVTVTGLVLTHVWVNVLVSVVVGAVLVILHAWFRST 155 (188)
Q Consensus 76 ~~P~~Li~l~~~~~~~~~i~~~~~~pl~i~g~~~~~~~~~~~l~~vt~~ll~~~~~~~~l~~~l~~s~~vvl~HA~~R~~ 155 (188)
.=|...++.++..++|-.+.... +...-|...+... .+.+++.+...+.+....+..++.++++..+-|.+-...
T Consensus 345 ~IP~a~Laavli~v~~~l~~~~~---~~~~~~~~~~~e~--~v~~~t~~~tv~~~l~~GV~vGi~ls~~~~i~r~s~~~~ 419 (554)
T COG0659 345 YIPLAALAAVLILVGWGLLDWSL---LKPLLRKLPRGEL--LVLLTTALLTVFFDLVIGVVVGILLACLLFIRRISRPSI 419 (554)
T ss_pred hCcHHHHHHHHHHHHHHhccHHH---HHHHHhcCCchhH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHH
Confidence 34777777766666666554221 1110111122222 223333333345677778888888888888877766543
No 27
>PF08566 Pam17: Mitochondrial import protein Pam17; InterPro: IPR013875 The presequence translocase-associated motor (PAM) drives the completion of preprotein translocation into the mitochondrial matrix. The Pam17 subunit is required for formation of a stable complex between cochaperones Pam16 and Pam18 and promotes the association of Pam16-Pam18 with the presequence translocase []. Mitochondria lacking Pam17 are selectively impaired in the import of matrix proteins [].
Probab=23.72 E-value=4e+02 Score=21.66 Aligned_cols=43 Identities=21% Similarity=0.235 Sum_probs=23.4
Q ss_pred HHHHHHHHHhccCCC-eeecceechHHHHHHHHHHHHHHHHHHHHH
Q 029745 87 TLVAWFFLYFARDDP-LTVLGFQVDDRVVIGALFAVTVTGLVLTHV 131 (188)
Q Consensus 87 ~~~~~~~i~~~~~~p-l~i~g~~~~~~~~~~~l~~vt~~ll~~~~~ 131 (188)
+.++|.++.-..-|| -.|+|. ++-.++.+..+.+..+=|+.|+
T Consensus 53 ~~~g~~yl~~~~~D~~~~I~Gl--DP~~~~g~~t~a~g~lG~L~GP 96 (173)
T PF08566_consen 53 SSAGWAYLSTIEIDPTQQIMGL--DPFMVYGLATLACGALGWLVGP 96 (173)
T ss_pred HHHHHHHHhhccccccccccCc--CHHHHHHHHHHHHHHHHHHhcc
Confidence 344555555433344 233454 4666666666666666666664
No 28
>COG4605 CeuC ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]
Probab=23.36 E-value=2.8e+02 Score=24.61 Aligned_cols=43 Identities=16% Similarity=0.292 Sum_probs=32.8
Q ss_pred CChhhhhCcCCCCCCCChhHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 029745 27 RPWSDFLDLSAFNLPLSLSDATTRITQNLTHFRSNYAVITLLALF 71 (188)
Q Consensus 27 RPw~eF~~~~~fs~P~s~~~~~~Ri~~Nl~yF~~NY~li~~~~~~ 71 (188)
|+.+.|. ++.==|..+..+.+|+-.+.+.=.++++.+...+..
T Consensus 145 rSiSsfm--q~liDPneF~~lQ~~mFAsFn~int~ll~i~a~i~~ 187 (316)
T COG4605 145 RSISSFM--QRLIDPNEFAILQARMFASFNNINTELLAIAAIILL 187 (316)
T ss_pred HHHHHHH--HHHcChHHHHHHHHHHHhhhhccCccHHHHHHHHHH
Confidence 5556666 555668889999999999999988888877655443
No 29
>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=23.01 E-value=3.6e+02 Score=20.79 Aligned_cols=46 Identities=15% Similarity=0.244 Sum_probs=26.1
Q ss_pred CChhHHHHHHHHhHHHHHHHHHH----------HHHHHHHHHHHHhHHHHHHHHHH
Q 029745 42 LSLSDATTRITQNLTHFRSNYAV----------ITLLALFLSLIYHPVSIIVFLLT 87 (188)
Q Consensus 42 ~s~~~~~~Ri~~Nl~yF~~NY~l----------i~~~~~~~~ll~~P~~Li~l~~~ 87 (188)
.+.+|..+|+.++.+..+..|.- .++..+.+.+..+|...+..+++
T Consensus 95 ~~~g~l~~~i~~d~~~i~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~l~l~~l~~ 150 (275)
T PF00664_consen 95 NSSGELLSRITNDIEQIENFLSSSLFQIISSIISIIFSLILLFFISWKLALILLII 150 (275)
T ss_dssp S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTHHHHHHHH
T ss_pred hcccccccccccccccccccccccccccccccchhhhhhhcccccccccccccchh
Confidence 45689999999777665544432 12222333444677766665543
No 30
>PF11674 DUF3270: Protein of unknown function (DUF3270); InterPro: IPR021688 This family of proteins with unknown function appears to be restricted to Streptococcus.
Probab=23.00 E-value=2.8e+02 Score=20.13 Aligned_cols=18 Identities=0% Similarity=0.213 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 029745 129 THVWVNVLVSVVVGAVLV 146 (188)
Q Consensus 129 ~~~~~~l~~~l~~s~~vv 146 (188)
.+..+.+.+++++|+.+.
T Consensus 64 l~t~~Af~~Ai~~Sl~~~ 81 (90)
T PF11674_consen 64 LNTFWAFPLAILISLAIT 81 (90)
T ss_pred hhHHHHHHHHHHHHHHHH
Confidence 344556666666665544
No 31
>PRK13603 fumarate reductase subunit C; Provisional
Probab=22.66 E-value=3.2e+02 Score=21.14 Aligned_cols=51 Identities=24% Similarity=0.325 Sum_probs=28.0
Q ss_pred HHHHHhHHHHHHHHHHHHHHHH-----HHhc-cCCCeeecceechHHHHHHHHHHHH
Q 029745 72 LSLIYHPVSIIVFLLTLVAWFF-----LYFA-RDDPLTVLGFQVDDRVVIGALFAVT 122 (188)
Q Consensus 72 ~~ll~~P~~Li~l~~~~~~~~~-----i~~~-~~~pl~i~g~~~~~~~~~~~l~~vt 122 (188)
+..+.||+.++.=++..++..+ +... +.-|+.+.|+.++++.+..+.-+++
T Consensus 57 ~~flqnPivv~lniiaL~a~L~Ha~TwF~~~Pkam~I~v~~~~l~~~~iv~~~wa~~ 113 (126)
T PRK13603 57 LDFSANPVVVVLNVVALSFLLLHAVTWFGSAPRAMVIQVRGRRVPARAVLAGHYAAW 113 (126)
T ss_pred HHHHhCcHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccCCcCChHHHHHHHHHHH
Confidence 3456789887766655432211 1111 1235677888888866655444433
No 32
>PF14017 DUF4233: Protein of unknown function (DUF4233)
Probab=22.58 E-value=1.5e+02 Score=22.07 Aligned_cols=29 Identities=17% Similarity=0.464 Sum_probs=22.6
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHhcc
Q 029745 70 LFLSLIYHPVSIIVFLLTLVAWFFLYFAR 98 (188)
Q Consensus 70 ~~~~ll~~P~~Li~l~~~~~~~~~i~~~~ 98 (188)
.....+.+|...++.++..+.|.|....+
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 55567789988888888888888887653
No 33
>PRK04987 fumarate reductase subunit C; Provisional
Probab=22.35 E-value=3.8e+02 Score=20.83 Aligned_cols=50 Identities=26% Similarity=0.440 Sum_probs=27.6
Q ss_pred HHHHHhHHHHHHHHHHHHHHHH-----HHhc-cCCCeeecceechHHHHHHHHHHH
Q 029745 72 LSLIYHPVSIIVFLLTLVAWFF-----LYFA-RDDPLTVLGFQVDDRVVIGALFAV 121 (188)
Q Consensus 72 ~~ll~~P~~Li~l~~~~~~~~~-----i~~~-~~~pl~i~g~~~~~~~~~~~l~~v 121 (188)
+..+.||+.++.=++..++..+ +... +.-|+.+.|+.++++.+..+.-++
T Consensus 61 ~~flqnPiv~~lniiaL~a~LlHa~TwF~~~Pka~~i~v~~~~l~~~~ii~~~wa~ 116 (130)
T PRK04987 61 VSFLQNPIVVILNIITLAAALLHTKTWFEMAPKAANIIVKDEKMGPEPIIKALWAV 116 (130)
T ss_pred HHHHhCcHHHHHHHHHHHHHHHHHHHHHHHcchhheeeecCccCChHHHHHHHHHH
Confidence 3456789887766655432211 1111 123577788888886655444333
No 34
>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=22.18 E-value=3.4e+02 Score=20.88 Aligned_cols=50 Identities=24% Similarity=0.416 Sum_probs=27.1
Q ss_pred HHHHHhHHHHHHHHHHHHHHHH-----HHhc-cCCCeeecceechHHHHHHHHHHH
Q 029745 72 LSLIYHPVSIIVFLLTLVAWFF-----LYFA-RDDPLTVLGFQVDDRVVIGALFAV 121 (188)
Q Consensus 72 ~~ll~~P~~Li~l~~~~~~~~~-----i~~~-~~~pl~i~g~~~~~~~~~~~l~~v 121 (188)
+..+.||+.++.=++..++..+ +... +.-|+.+.|+.++++.+..+.-++
T Consensus 57 ~~flqnPiv~~lniiaL~a~L~Ha~TwF~~~Pkam~i~v~~~~l~~~~iv~~~wa~ 112 (124)
T cd00546 57 VSFLQNPIVVLLNIIALAAALLHAKTWFEMAPKVMNIIVKGERVPPEAITKALWAV 112 (124)
T ss_pred HHHHhCcHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccCccCChHHHHHHHHHH
Confidence 3456788887766655432211 1111 123467788888886655444333
No 35
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=22.15 E-value=4.9e+02 Score=22.10 Aligned_cols=44 Identities=27% Similarity=0.327 Sum_probs=30.5
Q ss_pred hHHHHHHHHhHHHHHHHHHHHHHHHHHH--HHH-H-----hHHHHHHHHHHH
Q 029745 45 SDATTRITQNLTHFRSNYAVITLLALFL--SLI-Y-----HPVSIIVFLLTL 88 (188)
Q Consensus 45 ~~~~~Ri~~Nl~yF~~NY~li~~~~~~~--~ll-~-----~P~~Li~l~~~~ 88 (188)
+....|++.-+..-++||.+--+++..+ +.+ | .|...|++.++.
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 4556778888899999999988777776 222 2 566666655544
No 36
>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=21.99 E-value=1.2e+02 Score=23.25 Aligned_cols=28 Identities=21% Similarity=0.262 Sum_probs=19.2
Q ss_pred hHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 029745 45 SDATTRITQNLTHFRSNYAVITLLALFL 72 (188)
Q Consensus 45 ~~~~~Ri~~Nl~yF~~NY~li~~~~~~~ 72 (188)
++..+|...=+.-|..||.++++.+..+
T Consensus 34 e~t~~~~~~~~sv~~~~y~l~~~~v~~L 61 (122)
T PF04530_consen 34 EMTARRETTFLSVLNDNYVLFVCAVCML 61 (122)
T ss_pred hHhhhhhcchhhhhhhhHHHHHHHHHHH
Confidence 3334443333889999999998877665
No 37
>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=21.84 E-value=3e+02 Score=19.53 Aligned_cols=19 Identities=16% Similarity=0.009 Sum_probs=11.7
Q ss_pred HHHH-HHHHHHHHHHHHhHH
Q 029745 61 NYAV-ITLLALFLSLIYHPV 79 (188)
Q Consensus 61 NY~l-i~~~~~~~~ll~~P~ 79 (188)
||.. +...+....++.||.
T Consensus 48 ~Y~g~~~~~~~~~~ll~~~~ 67 (94)
T PF04140_consen 48 SYLGNIIWELGGQLLLFNAW 67 (94)
T ss_dssp HHHH-HHHHHHHHHHHHT-H
T ss_pred hHHHHHHHHHHHHHHHHhHH
Confidence 6777 455556667778883
No 38
>COG5594 Uncharacterized integral membrane protein [Function unknown]
Probab=21.70 E-value=5.1e+02 Score=26.20 Aligned_cols=50 Identities=8% Similarity=0.050 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHh-----ccCCCeeecceechH
Q 029745 61 NYAVITLLALFLSLIYHPVSIIVFLLTLVAWFFLYF-----ARDDPLTVLGFQVDD 111 (188)
Q Consensus 61 NY~li~~~~~~~~ll~~P~~Li~l~~~~~~~~~i~~-----~~~~pl~i~g~~~~~ 111 (188)
=|.+++++.++|+.+.-++++. .++.+..-++.|+ ..+.+-.-+|+-.+.
T Consensus 611 ~~~~l~~I~icYSiisPlILlf-~~v~F~~~ylaykY~l~Yv~~~~~es~G~~w~~ 665 (827)
T COG5594 611 QPILLFTITICYSIISPLILLF-GAVYFILNYLAYKYNLIYVSNHSPESGGGYWPR 665 (827)
T ss_pred hhHHHHHHHHHHHHHhHHHHHH-HHHHHHHHHHHHHHHhhhccCCCcccCCCccHH
Confidence 3677888888887776555444 3433333333332 124455556665554
No 39
>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=21.14 E-value=1.3e+02 Score=24.91 Aligned_cols=41 Identities=24% Similarity=0.382 Sum_probs=27.9
Q ss_pred HhHHHhhhhccCCCCChhhhh--CcCCCCCCCChhHHHHHHHHhHH
Q 029745 13 SRVKRTTQSINATRRPWSDFL--DLSAFNLPLSLSDATTRITQNLT 56 (188)
Q Consensus 13 ~~~~~~~~~~l~~~RPw~eF~--~~~~fs~P~s~~~~~~Ri~~Nl~ 56 (188)
...|+.....- +..|..||- +...-+.| +-++.+||+.|++
T Consensus 48 ~~FRekyN~~N-p~Lpl~EfraI~~~~~~~~--ltRAASkINe~LY 90 (200)
T PF07305_consen 48 PQFREKYNQDN-PTLPLNEFRAIDSKDDKAP--LTRAASKINENLY 90 (200)
T ss_pred HHHHHHhhhcC-CCcchhheeeeccCCCcch--hhHHHHHhhhHHH
Confidence 33455555444 448999996 55544444 7899999999974
No 40
>PF08372 PRT_C: Plant phosphoribosyltransferase C-terminal; InterPro: IPR013583 This domain is found at the C terminus of phosphoribosyltransferases and phosphoribosyltransferase-like proteins. It contains putative transmembrane regions. It often appears together with calcium-ion dependent C2 domains (IPR000008 from INTERPRO).
Probab=21.11 E-value=3e+02 Score=21.93 Aligned_cols=28 Identities=18% Similarity=0.326 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 029745 58 FRSNYAVITLLALFLSLIYHPVSIIVFL 85 (188)
Q Consensus 58 F~~NY~li~~~~~~~~ll~~P~~Li~l~ 85 (188)
..+..+++++++.+++++.-|+-.++++
T Consensus 95 ~aT~lf~~~clv~avvly~vP~r~l~l~ 122 (156)
T PF08372_consen 95 RATALFVVFCLVAAVVLYFVPFRVLVLI 122 (156)
T ss_pred cHHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence 4677788888899999999998766433
No 41
>PRK13823 conjugal transfer protein TrbD; Provisional
Probab=21.11 E-value=2.9e+02 Score=20.09 Aligned_cols=48 Identities=15% Similarity=0.017 Sum_probs=22.5
Q ss_pred CCeeecceechHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhhhccc
Q 029745 100 DPLTVLGFQVDDRVVIGALFAVTVTGLVLTHVWVNVLVSVVVGAVL-VILHAWFRS 154 (188)
Q Consensus 100 ~pl~i~g~~~~~~~~~~~l~~vt~~ll~~~~~~~~l~~~l~~s~~v-vl~HA~~R~ 154 (188)
+|.-++|- +|++.++-..++..+++ +....++..+++++ ++.|..+|.
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 45555554 34554444444444332 22333344444444 566666653
No 42
>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=20.97 E-value=1.9e+02 Score=18.45 Aligned_cols=29 Identities=24% Similarity=0.441 Sum_probs=18.6
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 029745 47 ATTRITQNLTHFRSNYAVITLLALFLSLI 75 (188)
Q Consensus 47 ~~~Ri~~Nl~yF~~NY~li~~~~~~~~ll 75 (188)
....-+.|+.---.|+.++.+-+.+++++
T Consensus 20 ~~~qar~~lq~lfvnf~lilicllli~ii 48 (52)
T TIGR01294 20 MPQQARQNLQNLFINFCLILICLLLICII 48 (52)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33446778877778887776655555543
No 43
>KOG1606 consensus Stationary phase-induced protein, SOR/SNZ family [Coenzyme transport and metabolism]
Probab=20.74 E-value=78 Score=27.02 Aligned_cols=32 Identities=25% Similarity=0.521 Sum_probs=27.1
Q ss_pred CCCCChhhhhCcCCCCCC-----CChhHHHHHHHHhH
Q 029745 24 ATRRPWSDFLDLSAFNLP-----LSLSDATTRITQNL 55 (188)
Q Consensus 24 ~~~RPw~eF~~~~~fs~P-----~s~~~~~~Ri~~Nl 55 (188)
-++.-|+.+++..+|..| +++.|+.+||++-.
T Consensus 110 lt~AD~~hhI~KhnFkvPFvCG~rdlGEALRRI~EGA 146 (296)
T KOG1606|consen 110 LTPADWDHHIEKHNFKVPFVCGCRDLGEALRRIREGA 146 (296)
T ss_pred cccccccchhhhhcCcCceeeccccHHHHHHHHhhch
Confidence 345669999999999999 89999999998654
No 44
>PF14256 YwiC: YwiC-like protein
Probab=20.61 E-value=3.9e+02 Score=20.31 Aligned_cols=45 Identities=16% Similarity=-0.001 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccCCC
Q 029745 113 VVIGALFAVTVTGLVLTHVWVNVLVSVVVGAVLVILHAWFRSTDD 157 (188)
Q Consensus 113 ~~~~~l~~vt~~ll~~~~~~~~l~~~l~~s~~vvl~HA~~R~~~~ 157 (188)
..|.++.++..+...........+..+.++.+.+-+-.+-|+.|-
T Consensus 63 ~~Yg~~a~~~~l~~l~~~p~ll~~~~~~~pl~~v~~~~~~~~~eR 107 (129)
T PF14256_consen 63 LIYGAIALVFGLPALLYAPRLLWWALLFLPLFAVNLYFAKRKRER 107 (129)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhcCch
Confidence 445555554444444455544444456666667777777776544
No 45
>PRK10522 multidrug transporter membrane component/ATP-binding component; Provisional
Probab=20.60 E-value=6.9e+02 Score=23.18 Aligned_cols=39 Identities=8% Similarity=0.043 Sum_probs=20.4
Q ss_pred HhHHHhhhhccCCCCChhhhhCcCCCCCCCChhHHHHHHHHhHHHHH
Q 029745 13 SRVKRTTQSINATRRPWSDFLDLSAFNLPLSLSDATTRITQNLTHFR 59 (188)
Q Consensus 13 ~~~~~~~~~~l~~~RPw~eF~~~~~fs~P~s~~~~~~Ri~~Nl~yF~ 59 (188)
.+.++.+-+++-+ .|++.|-+ .+..|..+|+...+....
T Consensus 81 ~~lR~~l~~~ll~-~~~~~~~~-------~~~g~~lsrl~~dv~~i~ 119 (547)
T PRK10522 81 YRLRSEFIKRILD-THVERIEQ-------LGSASLLASLTSDVRNIT 119 (547)
T ss_pred HHHHHHHHHHHHh-CCHHHHhc-------cCccchHHHHHhhHHHHH
Confidence 3444443333333 46666632 234677777776665544
No 46
>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional
Probab=20.47 E-value=7.1e+02 Score=23.27 Aligned_cols=26 Identities=15% Similarity=0.133 Sum_probs=16.9
Q ss_pred CChhhhhCcCCCCCCCChhHHHHHHHHhHHHHH
Q 029745 27 RPWSDFLDLSAFNLPLSLSDATTRITQNLTHFR 59 (188)
Q Consensus 27 RPw~eF~~~~~fs~P~s~~~~~~Ri~~Nl~yF~ 59 (188)
.|++.|-+ .+.+++.+|+.+.+...+
T Consensus 82 ~~~~~~~~-------~~~g~i~srl~~Dv~~i~ 107 (569)
T PRK10789 82 QHPEFYLR-------HRTGDLMARATNDVDRVV 107 (569)
T ss_pred CCHHHHcC-------CCHHHHHHHHHHhHHHHH
Confidence 56665532 345889999977776554
No 47
>PF04602 Arabinose_trans: Mycobacterial cell wall arabinan synthesis protein; InterPro: IPR007680 Arabinosyltransferase is involved in arabinogalactan (AG) biosynthesis pathway in mycobacteria. AG is a component of the macromolecular assembly of the mycolyl-AG-peptidoglycan complex of the cell wall. This enzyme has important clinical applications as it is believed to be the target of the antimycobacterial drug Ethambutol [].; GO: 0016763 transferase activity, transferring pentosyl groups, 0009252 peptidoglycan biosynthetic process, 0016021 integral to membrane; PDB: 3BYW_A.
Probab=20.06 E-value=35 Score=33.25 Aligned_cols=108 Identities=17% Similarity=0.182 Sum_probs=0.0
Q ss_pred hhhccCCCCCh-hhhhCcCCCCCCCChhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhc
Q 029745 19 TQSINATRRPW-SDFLDLSAFNLPLSLSDATTRITQNLTHFRSNYAVITLLALFLSLIYHPVSIIVFLLTLVAWFFLYFA 97 (188)
Q Consensus 19 ~~~~l~~~RPw-~eF~~~~~fs~P~s~~~~~~Ri~~Nl~yF~~NY~li~~~~~~~~ll~~P~~Li~l~~~~~~~~~i~~~ 97 (188)
++....|-.|| +||......-.|.-...+.+|+- +++..+++.... .+...
T Consensus 474 vr~~vGPs~~Wy~E~~RY~~L~~~t~DGslaRRf~--------------------------vll~~l~l~~~~--~~lLr 525 (656)
T PF04602_consen 474 VRTAVGPSLPWYQEFLRYYFLFNPTVDGSLARRFP--------------------------VLLMLLCLFVVV--AVLLR 525 (656)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHhCCCchhhhhHHHHHHHhCCCCCchHHHHHH--------------------------HHHHHHHHHHHH--HHHhc
Confidence 66678888998 58887766666643455566642 222222221111 11111
Q ss_pred cCCCeeecceechHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHhhhcccCCC
Q 029745 98 RDDPLTVLGFQVDDRVVIGALFAVTVTGLVLTHVWVNVLV--------SVVVGAVLVILHAWFRSTDD 157 (188)
Q Consensus 98 ~~~pl~i~g~~~~~~~~~~~l~~vt~~ll~~~~~~~~l~~--------~l~~s~~vvl~HA~~R~~~~ 157 (188)
| -++.|-.-.+...+.+..+++++++.++.--++--+ ++.+-..+.+.|.++|.+-+
T Consensus 526 r---~ripG~a~gP~~Rlvg~~~~~l~~l~FTPTKWThhFGv~AGlaaalaAlaava~~~~alrs~Rn 590 (656)
T PF04602_consen 526 R---GRIPGVARGPSWRLVGVTAGTLFLLMFTPTKWTHHFGVFAGLAAALAALAAVAVSRSALRSRRN 590 (656)
T ss_dssp --------------------------------------------------------------------
T ss_pred C---CCCCCcccChHHHHHHHHHHHHHHHHcCCCcchhhhhHHHHHHHHHHHHHHHHHHHhhhccHHH
Confidence 2 123454455556677888888888877654333333 22233344555667776533
Done!