Query 026818
Match_columns 232
No_of_seqs 150 out of 378
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 13:09:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026818.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026818hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2887 Membrane protein invol 100.0 1.7E-49 3.7E-54 337.2 16.9 171 55-226 3-174 (175)
2 COG5102 SFT2 Membrane protein 100.0 2.8E-36 6E-41 256.6 14.0 158 46-229 41-199 (201)
3 PF04178 Got1: Got1/Sft2-like 100.0 8.7E-35 1.9E-39 233.3 13.0 115 107-221 3-118 (118)
4 KOG1743 Ferric reductase-like 91.2 0.72 1.6E-05 38.7 6.2 105 104-217 14-129 (137)
5 COG5120 GOT1 Membrane protein 87.2 0.95 2.1E-05 37.3 4.1 65 105-178 15-79 (129)
6 TIGR02908 CoxD_Bacillus cytoch 64.3 39 0.00085 27.5 7.2 65 151-215 14-86 (110)
7 COG2917 Intracellular septatio 48.8 1.3E+02 0.0029 26.5 8.4 70 127-198 76-167 (180)
8 PRK10582 cytochrome o ubiquino 43.0 1.1E+02 0.0024 24.6 6.6 47 161-207 14-68 (109)
9 PRK15033 tricarballylate utili 42.5 3.4E+02 0.0073 26.7 10.9 85 127-212 272-360 (389)
10 PF14143 YrhC: YrhC-like prote 37.2 1.2E+02 0.0027 22.9 5.6 56 102-160 16-71 (72)
11 PF13347 MFS_2: MFS/sugar tran 35.7 3.5E+02 0.0077 24.9 12.0 82 119-205 252-335 (428)
12 TIGR02847 CyoD cytochrome o ub 35.5 1.9E+02 0.0041 22.8 6.7 44 164-207 6-57 (96)
13 PF03839 Sec62: Translocation 34.2 1.2E+02 0.0025 27.5 6.0 12 91-102 107-118 (224)
14 KOG2927 Membrane component of 33.6 72 0.0016 31.0 4.7 29 113-142 202-230 (372)
15 PF10754 DUF2569: Protein of u 33.6 2.7E+02 0.0059 22.9 10.0 22 94-115 4-25 (149)
16 TIGR00869 sec62 protein transl 31.0 1.7E+02 0.0037 26.7 6.5 45 91-142 115-159 (232)
17 PHA02764 hypothetical protein; 28.9 2.6E+02 0.0056 27.4 7.6 89 120-214 168-258 (399)
18 PF10031 DUF2273: Small integr 28.5 1.6E+02 0.0034 20.7 4.6 40 157-196 3-42 (51)
19 PF05977 MFS_3: Transmembrane 26.7 6.4E+02 0.014 25.0 12.8 61 117-182 239-304 (524)
20 PF09323 DUF1980: Domain of un 26.2 3.9E+02 0.0085 22.6 7.6 50 99-149 3-52 (182)
21 PF05255 UPF0220: Uncharacteri 25.6 1.9E+02 0.0042 24.8 5.6 58 90-148 94-156 (166)
22 TIGR02901 QoxD cytochrome aa3 25.5 3.1E+02 0.0067 21.5 6.3 41 165-205 9-57 (94)
23 COG5547 Small integral membran 25.3 2.8E+02 0.0062 20.4 5.6 40 160-199 6-45 (62)
24 COG3125 CyoD Heme/copper-type 25.1 3E+02 0.0065 22.5 6.3 43 163-205 18-68 (111)
25 PF05915 DUF872: Eukaryotic pr 24.9 1.8E+02 0.0038 23.6 5.0 24 95-118 42-65 (115)
26 PF04647 AgrB: Accessory gene 24.5 4.1E+02 0.0089 22.0 7.8 15 144-158 114-128 (185)
27 PF12221 HflK_N: Bacterial mem 24.2 42 0.00092 22.8 1.1 20 52-71 20-39 (42)
28 PF04156 IncA: IncA protein; 24.2 4.2E+02 0.0091 22.0 7.8 22 93-115 2-23 (191)
29 COG4652 Uncharacterized protei 23.9 8.7E+02 0.019 25.6 11.5 16 95-110 217-232 (657)
30 PF12676 DUF3796: Protein of u 23.3 2.4E+02 0.0052 22.9 5.5 54 161-214 55-112 (118)
31 PF05975 EcsB: Bacterial ABC t 22.5 6.6E+02 0.014 23.7 12.6 79 118-197 119-198 (386)
32 PF10003 DUF2244: Integral mem 22.4 2.6E+02 0.0056 22.9 5.6 29 174-202 23-51 (140)
33 PF10277 Frag1: Frag1/DRAM/Sfk 21.8 4.6E+02 0.0099 21.6 9.8 46 161-206 159-204 (215)
34 PF11674 DUF3270: Protein of u 21.6 4E+02 0.0088 20.9 7.3 18 83-100 25-42 (90)
35 PF11023 DUF2614: Protein of u 21.4 3.1E+02 0.0067 22.6 5.7 23 160-182 34-56 (114)
36 TIGR02484 CitB CitB domain pro 20.2 8.2E+02 0.018 23.9 10.9 82 129-212 254-341 (372)
No 1
>KOG2887 consensus Membrane protein involved in ER to Golgi transport [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.7e-49 Score=337.16 Aligned_cols=171 Identities=44% Similarity=0.683 Sum_probs=154.5
Q ss_pred HHHHhhhhcccccccceeec-cccccCCccccccCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHH
Q 026818 55 IESAVRSANDTVSGTFNVVS-KGVRDLPGNLQSATSTVPSGKALMYFGLFLASGVFFIFIAFTMFLPVMVLMPQKFALCF 133 (232)
Q Consensus 55 ~~~~~~s~~~~~s~~~~~~~-~g~~~~~~~~qs~~~~Ls~~qRl~gF~~c~~~g~~f~~ls~~lflPll~l~P~KFAllf 133 (232)
-..+.+++||.++|....-. .+.++.|+..|++.++||++||+++|++|++.|++|++++.++| |+....|||||++|
T Consensus 3 ~l~~~~~~~~~~sg~d~~~~~~~~~~~~~~~~~~~fsLs~~qR~~~F~~cl~~gv~c~~l~~~lf-~v~~~~~~kFal~~ 81 (175)
T KOG2887|consen 3 KLRSARSANDVLSGQDPGDHQTEERSFTSDLQESTFSLSRTQRIMGFGICLAGGVLCFLLAMVLF-PVLVVSPRKFALLY 81 (175)
T ss_pred hhhhhHhhhhcccCCCCCccccccccchhhhhhhhccCcHHHHHHHHHHHHHHHHHHHHHHHHHH-HhcccccceeehhH
Confidence 34444566666666654332 35567788889888999999999999999999999999998775 88888999999999
Q ss_pred hhhHHHHHhHhhhhhcHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhcCCCchh
Q 026818 134 TVGCGFIIGSFFALRGPKNQLAHMSSKERLPFTLGFIGSMAGTIYVSMVLHSYILSVLFSVIQVLALAYYAISYFPGGSA 213 (232)
Q Consensus 134 TlGsil~l~S~~FL~GP~~qlk~M~s~~Rl~~Ti~Yi~Slv~TLy~al~~~s~iLtll~~iiQ~~AllwY~lSYiP~G~~ 213 (232)
|+||+++++|++||+||++|+|||++|+|+++|+.|++++++|||+|+++||++|+++++|+|++|++||++||||||++
T Consensus 82 TlGnll~i~sf~fLmGP~~ql~~m~~p~Rl~~T~~~l~~~~~Tly~al~~ks~iLtllf~ilq~laliwYslSyiP~g~~ 161 (175)
T KOG2887|consen 82 TLGNLLAIGSFAFLMGPVSQLKHMFSPERLPATLSYLATMVLTLYVALWLKSKILTLLFCILQVLALIWYSLSYIPFGRS 161 (175)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHhcChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q 026818 214 GMKFLSSALTSSV 226 (232)
Q Consensus 214 ~lk~~~s~~~s~~ 226 (232)
|++++.+++.+..
T Consensus 162 gv~~~~s~~~~s~ 174 (175)
T KOG2887|consen 162 GVSKLSSAFTSSL 174 (175)
T ss_pred HHHHHHHHHHHhc
Confidence 9999999998864
No 2
>COG5102 SFT2 Membrane protein involved in ER to Golgi transport [Intracellular trafficking and secretion]
Probab=100.00 E-value=2.8e-36 Score=256.60 Aligned_cols=158 Identities=27% Similarity=0.412 Sum_probs=142.0
Q ss_pred CCCCcc-cccHHHHhhhhcccccccceeeccccccCCccccccCCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 026818 46 GSGLAF-GFDIESAVRSANDTVSGTFNVVSKGVRDLPGNLQSATSTVPSGKALMYFGLFLASGVFFIFIAFTMFLPVMVL 124 (232)
Q Consensus 46 ~~~~~~-~~d~~~~~~s~~~~~s~~~~~~~~g~~~~~~~~qs~~~~Ls~~qRl~gF~~c~~~g~~f~~ls~~lflPll~l 124 (232)
|+..|. .+|+|+ ..+|+||| ||++||...|.+|+..+..|+.++.+|| |++.+
T Consensus 41 yq~~pt~~~dl~~--------------------~~q~s~F~-----Lsr~eR~vlF~~ClLGa~ac~a~~~fmf-pVl~l 94 (201)
T COG5102 41 YQMFPTRKYDLEH--------------------YFQSSEFG-----LSRFERAVLFSACLLGAGACSAFLYFMF-PVLRL 94 (201)
T ss_pred ccccccccccccc--------------------ccccchhh-----HHHHHHHHHHHHHHhhhHHHHHHHHHHH-HHHhc
Confidence 666666 577766 34566666 9999999999999555555665555565 99999
Q ss_pred chhhHHHHHhhhHHHHHhHhhhhhcHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 026818 125 MPQKFALCFTVGCGFIIGSFFALRGPKNQLAHMSSKERLPFTLGFIGSMAGTIYVSMVLHSYILSVLFSVIQVLALAYYA 204 (232)
Q Consensus 125 ~P~KFAllfTlGsil~l~S~~FL~GP~~qlk~M~s~~Rl~~Ti~Yi~Slv~TLy~al~~~s~iLtll~~iiQ~~AllwY~ 204 (232)
+||||.++||+||++++.++++|.||.+|+||++++||+|.+.-|+++.++|+|+++..|+++|+|.|+++|++++++|.
T Consensus 95 kPrkFiLlwTmgslLfvl~Fg~l~Gf~ayl~~Lts~erlp~s~~ff~t~l~Tiy~~~k~k~t~L~i~f~~l~vvsfi~y~ 174 (201)
T COG5102 95 KPRKFILLWTMGSLLFVLMFGFLLGFRAYLEGLTSKERLPHSSWFFGTTLLTIYVVLKYKRTLLNIAFCFLQVVSFIMYS 174 (201)
T ss_pred CccceeeehhHHHHHHHHHHHHHHhHHHHHHhhhhhhccchhHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhcCCCchhHHHHHHHHHHHHHHhh
Q 026818 205 ISYFPGGSAGMKFLSSALTSSVMRC 229 (232)
Q Consensus 205 lSYiP~G~~~lk~~~s~~~s~~~~~ 229 (232)
++|||||.+|++.+.++..+++.+-
T Consensus 175 itffPfGt~gvs~~~sm~~~s~~~~ 199 (201)
T COG5102 175 ITFFPFGTSGVSSIISMFFKSLSNW 199 (201)
T ss_pred HHhcCCCchHHHHHHHHHHHHHhcc
Confidence 9999999999999999999988763
No 3
>PF04178 Got1: Got1/Sft2-like family ; InterPro: IPR007305 Traffic through the yeast Golgi complex depends on a member of the syntaxin family of SNARE proteins, Sed5, present in early Golgi cisternae. Got1 is thought to facilitate Sed5-dependent fusion events []. This is a family of sequences derived from eukaryotic proteins. They are similar to a region of a SNARE-like protein required for traffic through the Golgi complex, SFT2 protein (P38166 from SWISSPROT) []. This is a conserved protein with four putative transmembrane helices, thought to be involved in vesicular transport in later Golgi compartments []. ; GO: 0016192 vesicle-mediated transport
Probab=100.00 E-value=8.7e-35 Score=233.29 Aligned_cols=115 Identities=38% Similarity=0.651 Sum_probs=107.0
Q ss_pred HHHHHHHH-HHHHHHHhhhchhhHHHHHhhhHHHHHhHhhhhhcHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHHHhh
Q 026818 107 GVFFIFIA-FTMFLPVMVLMPQKFALCFTVGCGFIIGSFFALRGPKNQLAHMSSKERLPFTLGFIGSMAGTIYVSMVLHS 185 (232)
Q Consensus 107 g~~f~~ls-~~lflPll~l~P~KFAllfTlGsil~l~S~~FL~GP~~qlk~M~s~~Rl~~Ti~Yi~Slv~TLy~al~~~s 185 (232)
|++|++++ ++.++|++..+|+|||++||+||+++++|++||+||++|+|+|++|||+++|++|++++++|+|+++++|+
T Consensus 3 G~~~~~l~~~~~~~~~~~~~~~kFa~l~tlGnil~l~s~~fL~Gp~~q~k~m~~~~R~~~t~~y~~~l~~tl~~~~~~~~ 82 (118)
T PF04178_consen 3 GIICFFLSLIFFFLGVLLFFPRKFAILYTLGNILFLASTFFLIGPKKQFKFMFSPKRLIATIIYFISLILTLYFAFILKS 82 (118)
T ss_pred ehHHHHHHHHHHHhhhhhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHHHHHHhh
Confidence 55555666 34567888899999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHH
Q 026818 186 YILSVLFSVIQVLALAYYAISYFPGGSAGMKFLSSA 221 (232)
Q Consensus 186 ~iLtll~~iiQ~~AllwY~lSYiP~G~~~lk~~~s~ 221 (232)
++++++++++|++|++||++||||+||+++|.++++
T Consensus 83 ~~l~llf~~~q~~al~wy~~s~iP~g~~~~~~~~~~ 118 (118)
T PF04178_consen 83 YGLTLLFSIFQFPALIWYLLSYIPFGRPGLKKFFSM 118 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCChHHHHHHHhcC
Confidence 999999999999999999999999999999998763
No 4
>KOG1743 consensus Ferric reductase-like proteins [Inorganic ion transport and metabolism]
Probab=91.16 E-value=0.72 Score=38.66 Aligned_cols=105 Identities=20% Similarity=0.345 Sum_probs=74.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhhchhhHHHHHhhhHHHHHhHhhhhhcHHHHHHhhcCCCchHHHHHHHHHHHHHHH----H
Q 026818 104 LASGVFFIFIAFTMFLPVMVLMPQKFALCFTVGCGFIIGSFFALRGPKNQLAHMSSKERLPFTLGFIGSMAGTIY----V 179 (232)
Q Consensus 104 ~~~g~~f~~ls~~lflPll~l~P~KFAllfTlGsil~l~S~~FL~GP~~qlk~M~s~~Rl~~Ti~Yi~Slv~TLy----~ 179 (232)
.+.|++|+++..+++.. .-+-++||++++.+..++.|.++-+.-.++++|.--|+.|....+.+|+ .
T Consensus 14 TgfG~ff~l~Gii~ffD---------~aLLa~GNlLfi~GvsliiG~~~t~~FF~r~~k~kGti~F~~G~l~vl~~wPi~ 84 (137)
T KOG1743|consen 14 TGFGVFFFLFGIILFFD---------KALLAMGNLLFIIGVSLIIGFRKTMQFFFRRQKMKGTISFLGGVLLVLFGWPIF 84 (137)
T ss_pred echhHHHHHHHHHHHHh---------hHHHHhcchHHHHhHHHhhcchhhhhhheehhhcceeeehhhhHHHHHHhhHHH
Confidence 45677777777654421 1355789999999999999999999999999999999999999988884 5
Q ss_pred HHHHhhHHHHHHHH-----HHHHHHHHH--HHHhcCCCchhHHHH
Q 026818 180 SMVLHSYILSVLFS-----VIQVLALAY--YAISYFPGGSAGMKF 217 (232)
Q Consensus 180 al~~~s~iLtll~~-----iiQ~~Allw--Y~lSYiP~G~~~lk~ 217 (232)
.+.+..|.+-+++- +++++--+= =.+-+.|+=|.-+..
T Consensus 85 Gm~lE~~Gff~LF~gF~P~i~~flrs~p~lG~i~~~p~i~~~~dr 129 (137)
T KOG1743|consen 85 GMILETYGFFVLFRGFFPVIVVFLRSIPVLGWILNLPGIRSFLDR 129 (137)
T ss_pred HHHHHHHHHHHHHhhhhHHHHHHHHcCccccccccCccHHHHHHH
Confidence 66677776666554 233332111 124566766655543
No 5
>COG5120 GOT1 Membrane protein involved in Golgi transport [Intracellular trafficking and secretion]
Probab=87.19 E-value=0.95 Score=37.32 Aligned_cols=65 Identities=15% Similarity=0.317 Sum_probs=51.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhchhhHHHHHhhhHHHHHhHhhhhhcHHHHHHhhcCCCchHHHHHHHHHHHHHHH
Q 026818 105 ASGVFFIFIAFTMFLPVMVLMPQKFALCFTVGCGFIIGSFFALRGPKNQLAHMSSKERLPFTLGFIGSMAGTIY 178 (232)
Q Consensus 105 ~~g~~f~~ls~~lflPll~l~P~KFAllfTlGsil~l~S~~FL~GP~~qlk~M~s~~Rl~~Ti~Yi~Slv~TLy 178 (232)
.+|..++.+..++|. -+ -+-.+||++.+.+.+.+.|..+-.--...|||+--++.|.....+++|
T Consensus 15 ~~Gflffl~Gif~ff----Dr-----aLl~lGNlL~iiG~fliags~ks~~fflRp~k~~Gsv~F~~G~ll~l~ 79 (129)
T COG5120 15 SIGFLFFLVGIFLFF----DR-----ALLILGNLLMIIGIFLIAGSRKSMFFFLRPEKIQGSVIFAMGVLLLLY 79 (129)
T ss_pred ehhHHHHHHHHHHHh----hh-----HHHHhcCHHHHHHHHHHhcccceEEEEEchhHhhhhHHHHHHHHHHHH
Confidence 455666666654432 12 245789999999999999999888888899999999999999998886
No 6
>TIGR02908 CoxD_Bacillus cytochrome c oxidase, subunit IVB. This model represents a small clade of cytochrome oxidase subunit IV's found in the Bacilli.
Probab=64.26 E-value=39 Score=27.51 Aligned_cols=65 Identities=14% Similarity=0.059 Sum_probs=46.2
Q ss_pred HHHHHhhcCCCchHHHHHHHHHHHHHHHHHHHHh--------hHHHHHHHHHHHHHHHHHHHHhcCCCchhHH
Q 026818 151 KNQLAHMSSKERLPFTLGFIGSMAGTIYVSMVLH--------SYILSVLFSVIQVLALAYYAISYFPGGSAGM 215 (232)
Q Consensus 151 ~~qlk~M~s~~Rl~~Ti~Yi~Slv~TLy~al~~~--------s~iLtll~~iiQ~~AllwY~lSYiP~G~~~l 215 (232)
..|-|+--+++..-+.+.|+.|+++|+..=...- .....++++++|++-=++|-+=-=.-|++-+
T Consensus 14 ~~~~~~~~~~~~k~yviGFiLSiiLT~I~F~~V~~~~l~~~~~~~~I~~lAvvQi~VqL~yFLHm~~k~~~~~ 86 (110)
T TIGR02908 14 LEFQKAKNAEEMKKQIVTFALMIFLTLIAFFAVMLDEIDKWFVIPFILLLAAVQVAFQLYYFMHMKDKGHEVP 86 (110)
T ss_pred HHHHHHHhcccHHHHHHHHHHHHHHHHHHHHHHHhccCChhHHHHHHHHHHHHHHHHHHHHheeeCCCccchH
Confidence 4556666677777899999999999986533321 2456788999999988888655444555544
No 7
>COG2917 Intracellular septation protein A [Cell division and chromosome partitioning]
Probab=48.84 E-value=1.3e+02 Score=26.48 Aligned_cols=70 Identities=26% Similarity=0.354 Sum_probs=54.6
Q ss_pred hhHHHHHhhhHHHHHhHhhhhhcHHHHHHhhcCCC-chH----------HHHHHHHHHHHHHHHHHHH-----------h
Q 026818 127 QKFALCFTVGCGFIIGSFFALRGPKNQLAHMSSKE-RLP----------FTLGFIGSMAGTIYVSMVL-----------H 184 (232)
Q Consensus 127 ~KFAllfTlGsil~l~S~~FL~GP~~qlk~M~s~~-Rl~----------~Ti~Yi~Slv~TLy~al~~-----------~ 184 (232)
.|=.+.|.+..+..++|-.+.+-|. +|.|+++| |+| ..+.|+.+.++-+|.+..+ .
T Consensus 76 wK~TIi~~lFa~~Llgs~~~~~k~l--ik~~lg~~l~Lp~~~W~~Ln~~W~~FFlf~ai~N~yV~~~fs~d~WV~FKvfG 153 (180)
T COG2917 76 WKPTIIYWLFALVLLGSQFLFKKPL--IKRMLGKELQLPEEVWRKLNLRWALFFLFCAIANEYVARNFSTDTWVNFKVFG 153 (180)
T ss_pred eeHHHHHHHHHHHHHHHHHHhcCcH--HHHHHHhhhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCeEEEeehhh
Confidence 4778899999998888766666554 88888776 333 5678889999999999875 4
Q ss_pred hHHHHHHHHHHHHH
Q 026818 185 SYILSVLFSVIQVL 198 (232)
Q Consensus 185 s~iLtll~~iiQ~~ 198 (232)
...+|+++.++|..
T Consensus 154 ~~~ltlvf~l~q~~ 167 (180)
T COG2917 154 LTPLTLIFTLIQGP 167 (180)
T ss_pred hhHHHHHHHHHHHH
Confidence 56789999999975
No 8
>PRK10582 cytochrome o ubiquinol oxidase subunit IV; Provisional
Probab=42.97 E-value=1.1e+02 Score=24.65 Aligned_cols=47 Identities=19% Similarity=0.159 Sum_probs=32.5
Q ss_pred CchHHHHHHHHHHHHHHHHHH-HH-----h--hHHHHHHHHHHHHHHHHHHHHhc
Q 026818 161 ERLPFTLGFIGSMAGTIYVSM-VL-----H--SYILSVLFSVIQVLALAYYAISY 207 (232)
Q Consensus 161 ~Rl~~Ti~Yi~Slv~TLy~al-~~-----~--s~iLtll~~iiQ~~AllwY~lSY 207 (232)
+..-+-+.|+.|+++|+..=. +. + .+...++++++|++.-++|-+=-
T Consensus 14 s~k~yviGFiLSliLT~i~F~lv~~~~~~~~~~~~~i~~lA~vQi~VqL~~FLHl 68 (109)
T PRK10582 14 SVKTYMTGFILSIILTVIPFWMVMTGAASPAVILGTILAMAVVQILVHLVCFLHM 68 (109)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHccCChhHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 344567899999999974332 22 1 24456688999999988886543
No 9
>PRK15033 tricarballylate utilization protein B; Provisional
Probab=42.48 E-value=3.4e+02 Score=26.66 Aligned_cols=85 Identities=16% Similarity=0.057 Sum_probs=42.6
Q ss_pred hhHHHHHhhhHHHHHhHhhhhhcHHHHHHhhcCCCc-hHHHHHHHHHHHHHHHHHHHH---hhHHHHHHHHHHHHHHHHH
Q 026818 127 QKFALCFTVGCGFIIGSFFALRGPKNQLAHMSSKER-LPFTLGFIGSMAGTIYVSMVL---HSYILSVLFSVIQVLALAY 202 (232)
Q Consensus 127 ~KFAllfTlGsil~l~S~~FL~GP~~qlk~M~s~~R-l~~Ti~Yi~Slv~TLy~al~~---~s~iLtll~~iiQ~~Allw 202 (232)
...-++.++|.|..+.+..-+.--+...+..-...+ ...=-.|++.+.+|=...+.+ +.+..-.+...+ -+..++
T Consensus 272 s~~klLg~vGgi~LliG~~gl~~~~~R~d~~~~~~~~~~~D~~Fl~lL~lv~~TGL~~~~~R~t~am~~~l~l-HL~~V~ 350 (389)
T PRK15033 272 SLPVLLGTLGGIGLLIGPAGLLWLNLRRHPLHGDAAQKPMDRGFIALLFLTSASGLALLAGRDTSAMALLLAL-HLGVVM 350 (389)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccccccccchHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHH-HHHHHH
Confidence 457788999998887764222222222222111111 111233555555555555533 333222233333 345567
Q ss_pred HHHhcCCCch
Q 026818 203 YAISYFPGGS 212 (232)
Q Consensus 203 Y~lSYiP~G~ 212 (232)
..+-|.||++
T Consensus 351 ~LF~~lPysK 360 (389)
T PRK15033 351 ALFLTLPYGK 360 (389)
T ss_pred HHHHHhhHHH
Confidence 7777899985
No 10
>PF14143 YrhC: YrhC-like protein
Probab=37.25 E-value=1.2e+02 Score=22.86 Aligned_cols=56 Identities=18% Similarity=0.339 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHhhhHHHHHhHhhhhhcHHHHHHhhcCC
Q 026818 102 LFLASGVFFIFIAFTMFLPVMVLMPQKFALCFTVGCGFIIGSFFALRGPKNQLAHMSSK 160 (232)
Q Consensus 102 ~c~~~g~~f~~ls~~lflPll~l~P~KFAllfTlGsil~l~S~~FL~GP~~qlk~M~s~ 160 (232)
+++++|.++.+... +|.-...+.+-.++...-.++..+|+.|.+=-+++-|++.+.
T Consensus 16 vLLAvs~FlYiG~v---iP~~~~~~~~~~~m~~~~~~~l~~a~~f~~rs~~~~~~L~E~ 71 (72)
T PF14143_consen 16 VLLAVSTFLYIGTV---IPIGAKETAQKYIMMGAICIFLAGAFLFFRRSKKYQKKLEEE 71 (72)
T ss_pred HHHHHHHHHHHHhh---CCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 45677777765543 587666777777777777777888888887777666666554
No 11
>PF13347 MFS_2: MFS/sugar transport protein
Probab=35.73 E-value=3.5e+02 Score=24.86 Aligned_cols=82 Identities=12% Similarity=0.175 Sum_probs=46.9
Q ss_pred HHHhhhchhhHHHHHhhhHHHHHhHhhhhhcHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHHH--hhHHHHHHHHHHH
Q 026818 119 LPVMVLMPQKFALCFTVGCGFIIGSFFALRGPKNQLAHMSSKERLPFTLGFIGSMAGTIYVSMVL--HSYILSVLFSVIQ 196 (232)
Q Consensus 119 lPll~l~P~KFAllfTlGsil~l~S~~FL~GP~~qlk~M~s~~Rl~~Ti~Yi~Slv~TLy~al~~--~s~iLtll~~iiQ 196 (232)
.--.+..+...+.+..+..+..+++..+. + .+.+-++++| ...+.++...+..+...+.. +...+.++..+..
T Consensus 252 ~~~vl~~~~~~~~~~~~~~~~~~v~~~~~-~---~l~~r~gk~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~g 326 (428)
T PF13347_consen 252 FTYVLGNEGLISIFMLIFFVASIVGSPLW-G---RLSKRFGKKK-VYIIGLLLAALGFLLLFFLGPGSPWLVLILFILAG 326 (428)
T ss_pred HHHHhcCchhhHHHHHHHHHHHHHHHHHH-H---HHHHHcccee-ehhhhHHHHHHHHHHHHHHHhhhHHHHHHHHHHhH
Confidence 34445567777777777777666655544 2 2333445555 55666666666666666664 3444555555555
Q ss_pred HHHHHHHHH
Q 026818 197 VLALAYYAI 205 (232)
Q Consensus 197 ~~AllwY~l 205 (232)
+..-..+.+
T Consensus 327 i~~~~~~~~ 335 (428)
T PF13347_consen 327 IGYGAFFVI 335 (428)
T ss_pred hhhcccccc
Confidence 555444433
No 12
>TIGR02847 CyoD cytochrome o ubiquinol oxidase subunit IV. Cytochrome o terminal oxidase complex is the component of the aerobic respiratory chain which reacts with oxygen, reducing it to water with the concomitant transport of 4 protons across the membrane. Also known as the cytochrome bo complex, cytochrome o ubiquinol oxidase contains four subunits, two heme b cofactors and a copper atom which is believed to be the oxygen active site. This complex is structurally related to the cytochrome caa3 oxidases which utilize cytochrome c as the reductant and contain heme a cofactors, as well as the intermediate form aa3 oxidases which also react directly with quinones as the reductant.
Probab=35.54 E-value=1.9e+02 Score=22.79 Aligned_cols=44 Identities=18% Similarity=0.437 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHHH-HHHHh-------hHHHHHHHHHHHHHHHHHHHHhc
Q 026818 164 PFTLGFIGSMAGTIYV-SMVLH-------SYILSVLFSVIQVLALAYYAISY 207 (232)
Q Consensus 164 ~~Ti~Yi~Slv~TLy~-al~~~-------s~iLtll~~iiQ~~AllwY~lSY 207 (232)
-+-+.|+.|+++|+.. .++.. .+...+.++++|++.-+.|-+=-
T Consensus 6 ~yviGFiLsliLT~i~F~~v~~~~~~~~~~~~~i~~~A~iQi~vqL~~FlHl 57 (96)
T TIGR02847 6 SYLIGFVLSVILTAIPFGLVMSGTLSKGLTLVIIIVLAVVQILVHLVFFLHL 57 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHccCCHhHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4568899999999643 33331 34567788999999988886543
No 13
>PF03839 Sec62: Translocation protein Sec62; InterPro: IPR004728 Members of the NSCC2 family have been sequenced from various yeast, fungal and animals species including Saccharomyces cerevisiae, Drosophila melanogaster and Homo sapiens. These proteins are the Sec62 proteins, believed to be associated with the Sec61 and Sec63 constituents of the general protein secretary systems of yeast microsomes. They are also the non-selective cation (NS) channels of the mammalian cytoplasmic membrane. The yeast Sec62 protein has been shown to be essential for cell growth. The mammalian NS channel proteins have been implicated in platelet derived growth factor(PGDF) dependent single channel current in fibroblasts. These channels are essentially closed in serum deprived tissue-culture cells and are specifically opened by exposure to PDGF. These channels are reported to exhibit equal selectivity for Na+, K+ and Cs+ with low permeability to Ca2+, and no permeability to anions.; GO: 0008565 protein transporter activity, 0015031 protein transport, 0016021 integral to membrane
Probab=34.16 E-value=1.2e+02 Score=27.47 Aligned_cols=12 Identities=25% Similarity=0.005 Sum_probs=6.4
Q ss_pred CChHHHHHHHHH
Q 026818 91 VPSGKALMYFGL 102 (232)
Q Consensus 91 Ls~~qRl~gF~~ 102 (232)
-+..+-++++++
T Consensus 107 ~~~~~~l~~~~~ 118 (224)
T PF03839_consen 107 SPLMQYLIGALL 118 (224)
T ss_pred CcHHHHHHHHHH
Confidence 455555655544
No 14
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.59 E-value=72 Score=31.03 Aligned_cols=29 Identities=17% Similarity=0.382 Sum_probs=16.9
Q ss_pred HHHHHHHHHhhhchhhHHHHHhhhHHHHHh
Q 026818 113 IAFTMFLPVMVLMPQKFALCFTVGCGFIIG 142 (232)
Q Consensus 113 ls~~lflPll~l~P~KFAllfTlGsil~l~ 142 (232)
+++.+| |+.-.+-|+=...+++|-..+++
T Consensus 202 laivLF-PLWP~~mR~gvyY~sig~~gfl~ 230 (372)
T KOG2927|consen 202 LAIVLF-PLWPRRMRQGVYYLSIGAGGFLA 230 (372)
T ss_pred HHHHhc-ccCcHHHhcceeeeecchhHHHH
Confidence 343333 76666667777777776544443
No 15
>PF10754 DUF2569: Protein of unknown function (DUF2569); InterPro: IPR019690 This entry represents a protein that is conserved in bacteria. The function is not known, but several members are annotated as being YdgK or a homologue thereof and associated to the inner membrane. This signature also matches proteins that are described as transglutaminase-like enzymes, although this could not be confirmed.
Probab=33.57 E-value=2.7e+02 Score=22.89 Aligned_cols=22 Identities=9% Similarity=0.085 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 026818 94 GKALMYFGLFLASGVFFIFIAF 115 (232)
Q Consensus 94 ~qRl~gF~~c~~~g~~f~~ls~ 115 (232)
.||+.|..+..++|.++..+..
T Consensus 4 ~~~IGGWL~lp~iglils~l~~ 25 (149)
T PF10754_consen 4 PQGIGGWLILPAIGLILSPLST 25 (149)
T ss_pred CCCcchHHHHHHHHHHHHHHHH
Confidence 3588888888888888765553
No 16
>TIGR00869 sec62 protein translocation protein, Sec62 family. protein secretary systems of yeast microsomes. They are also the non-selective cation (NS) channels of the mammalian cytoplasmic membrane. The yeast Sec62 protein has been shown to be essential for cell growth. The mammalian NS channel proteins has been implicated in platelet derived growth factor(PGDF) dependent single channel current in fibroblasts. These channels are essentially closed in serum deprived tissue-culture cells and are specifically opened by exposure to PDGF. These channels are reported to exhibit equal selectivity for Na+, K+ and Cs+ with low permeability to Ca2+, and no permeability to anions.
Probab=30.99 E-value=1.7e+02 Score=26.66 Aligned_cols=45 Identities=20% Similarity=0.278 Sum_probs=22.3
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHhhhHHHHHh
Q 026818 91 VPSGKALMYFGLFLASGVFFIFIAFTMFLPVMVLMPQKFALCFTVGCGFIIG 142 (232)
Q Consensus 91 Ls~~qRl~gF~~c~~~g~~f~~ls~~lflPll~l~P~KFAllfTlGsil~l~ 142 (232)
-+..+-++++++.++ +++..+| |+.-..-+.-...-++|-+.+++
T Consensus 115 ~~~~~~l~~~~~~~~------ila~~lF-PlWP~~~r~gv~YlS~~~lgll~ 159 (232)
T TIGR00869 115 RPYMDYLIVILVVSI------ILALVLF-PLWPRFMRRGSWYLSLGALGIIG 159 (232)
T ss_pred CcHHHHHHHHHHHHH------HHHHhhc-ccChHHHhHhHHHHHHHHHHHHH
Confidence 455555655544332 2333333 65544545555555666555544
No 17
>PHA02764 hypothetical protein; Provisional
Probab=28.92 E-value=2.6e+02 Score=27.43 Aligned_cols=89 Identities=16% Similarity=0.242 Sum_probs=57.5
Q ss_pred HHhhhchhhHHHHHhhhHHHH--HhHhhhhhcHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Q 026818 120 PVMVLMPQKFALCFTVGCGFI--IGSFFALRGPKNQLAHMSSKERLPFTLGFIGSMAGTIYVSMVLHSYILSVLFSVIQV 197 (232)
Q Consensus 120 Pll~l~P~KFAllfTlGsil~--l~S~~FL~GP~~qlk~M~s~~Rl~~Ti~Yi~Slv~TLy~al~~~s~iLtll~~iiQ~ 197 (232)
|.+-...+.|.+-.|+-+.+. +..+.|..-|. |...=....+--+-+.|++|-..|.....+..-+=+.+++++
T Consensus 168 ~s~n~~~~~f~~snt~~~a~~~~l~~~~fi~a~~-y~~~ei~n~~k~~~~gyf~s~~~~~~~~ii~sy~n~~il~~~--- 243 (399)
T PHA02764 168 KSFNFQYQNFTISNTLLSALLFDLSAFIFINAIS-YIAGEIKNIKKSSMIGYFVSYGIVAILSIIDSYSNLNILFAL--- 243 (399)
T ss_pred cceeEEEcceeehHHHHHHHHHHHHHHHHhccHH-HHHHHhhcchhhhhhhhHHHHHHHHHHHHHHhhhhHHHHHHH---
Confidence 555556678888888876554 33444455554 333333333445788999999999887777543346666655
Q ss_pred HHHHHHHHhcCCCchhH
Q 026818 198 LALAYYAISYFPGGSAG 214 (232)
Q Consensus 198 ~AllwY~lSYiP~G~~~ 214 (232)
+..|| ++|.|-..+-
T Consensus 244 -~~~w~-~~y~~~~~~~ 258 (399)
T PHA02764 244 -MPIWF-FSYMPIANKI 258 (399)
T ss_pred -HHHHH-Hhheeeecch
Confidence 89999 5898876543
No 18
>PF10031 DUF2273: Small integral membrane protein (DUF2273); InterPro: IPR018730 Members of this family of hypothetical bacterial proteins have no known function.
Probab=28.49 E-value=1.6e+02 Score=20.65 Aligned_cols=40 Identities=18% Similarity=0.301 Sum_probs=27.9
Q ss_pred hcCCCchHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Q 026818 157 MSSKERLPFTLGFIGSMAGTIYVSMVLHSYILSVLFSVIQ 196 (232)
Q Consensus 157 M~s~~Rl~~Ti~Yi~Slv~TLy~al~~~s~iLtll~~iiQ 196 (232)
..++.|-...-.-++-+++.++..+.+-++++.+++.++=
T Consensus 3 ~~~~~~~~iiG~~~G~ila~l~l~~GF~~tl~i~~~~~iG 42 (51)
T PF10031_consen 3 FWKNHRGKIIGGLIGLILALLILTFGFWKTLFILLFAAIG 42 (51)
T ss_pred HHHHCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445565555666666777778888888888888877653
No 19
>PF05977 MFS_3: Transmembrane secretion effector; InterPro: IPR010290 This family consists of the enterobactin exporter EntS proteins and putative permeases all belonging to the major facilitator superfamily. EntS exports the siderophore enterobactin out of the cell. The genetic locus entS was changed from ybdA so as to reflect its relevant biological function [].
Probab=26.75 E-value=6.4e+02 Score=25.04 Aligned_cols=61 Identities=15% Similarity=0.108 Sum_probs=35.1
Q ss_pred HHHHHhh-----hchhhHHHHHhhhHHHHHhHhhhhhcHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHH
Q 026818 117 MFLPVMV-----LMPQKFALCFTVGCGFIIGSFFALRGPKNQLAHMSSKERLPFTLGFIGSMAGTIYVSMV 182 (232)
Q Consensus 117 lflPll~-----l~P~KFAllfTlGsil~l~S~~FL~GP~~qlk~M~s~~Rl~~Ti~Yi~Slv~TLy~al~ 182 (232)
..+|++. ..+.-|+++.+...+-.+++...+. .+++-++++|++.....+. -+.++..++.
T Consensus 239 aLlPl~a~~~l~~~a~~yGll~a~~gvGai~Gal~~~----~l~~~~~~~~lv~~~~~~~-a~~~~~lal~ 304 (524)
T PF05977_consen 239 ALLPLFARDVLGGGASGYGLLLAAFGVGAILGALLLP----RLRRRLSSRRLVLLASLLF-ALALLLLALS 304 (524)
T ss_pred HhhhHHHHHHhCCcHHHHHHHHHHHHHHHHHHHHHHH----HhhcccCcchhhHHHHHHH-HHHHHHHhcc
Confidence 3457665 3577888888777777666665432 2556667777655443332 2333444444
No 20
>PF09323 DUF1980: Domain of unknown function (DUF1980); InterPro: IPR015402 Members of this occur in gene pairs with members of PF03773 from PFAM. The N-terminal region contains several predicted transmembrane helix regions while the few invariant residues (G, CxxD, and W) occur in the C-terminal region. Members of this family are found in a set of prokaryotic hypothetical proteins. Their exact function has not, as yet, been defined.
Probab=26.17 E-value=3.9e+02 Score=22.55 Aligned_cols=50 Identities=14% Similarity=0.336 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhchhhHHHHHhhhHHHHHhHhhhhhc
Q 026818 99 YFGLFLASGVFFIFIAFTMFLPVMVLMPQKFALCFTVGCGFIIGSFFALRG 149 (232)
Q Consensus 99 gF~~c~~~g~~f~~ls~~lflPll~l~P~KFAllfTlGsil~l~S~~FL~G 149 (232)
-+.++++.|++++-+-..==+ ...++|+-+.+++--+-++++.+..-+..
T Consensus 3 r~liL~~~~~l~~~l~~sG~i-~~YI~P~~~~~~~~a~i~l~ilai~q~~~ 52 (182)
T PF09323_consen 3 RFLILLGFGILLFYLILSGKI-LLYIHPRYIPLLYFAAILLLILAIVQLWR 52 (182)
T ss_pred HHHHHHHHHHHHHHHHHhCcH-HHHhCccHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666666666444322111 23479999999888888888777765554
No 21
>PF05255 UPF0220: Uncharacterised protein family (UPF0220); InterPro: IPR007919 This family of proteins is functionally uncharacterised.
Probab=25.56 E-value=1.9e+02 Score=24.81 Aligned_cols=58 Identities=14% Similarity=-0.053 Sum_probs=31.1
Q ss_pred CCChHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhhh----chhhHHHHHhhhHHHHHhHhhhhh
Q 026818 90 TVPSGKALMYFGLFLASGVFFIFIA-FTMFLPVMVL----MPQKFALCFTVGCGFIIGSFFALR 148 (232)
Q Consensus 90 ~Ls~~qRl~gF~~c~~~g~~f~~ls-~~lflPll~l----~P~KFAllfTlGsil~l~S~~FL~ 148 (232)
...++.|+..|+.+.. ++-....| .+++.+.+.- .+.--++---+.|++++.|...++
T Consensus 94 ~~~~~aR~~LFigf~l-~fggl~~s~~vli~~yv~~~~~~~~~~~Gva~vlqN~lI~~Sslvl~ 156 (166)
T PF05255_consen 94 GGAWRARLWLFIGFAL-SFGGLAGSVWVLILKYVVPQYTKPTLWPGVANVLQNALIFLSSLVLW 156 (166)
T ss_pred chhHHHHHHHHHHHHH-HHHHHHHHHHHhhcccccCCCCCCCcccccHHHHHHHHHHHHHHHHH
Confidence 4678889877655322 22222222 2233333322 112345666778888888877764
No 22
>TIGR02901 QoxD cytochrome aa3 quinol oxidase, subunit IV. This family (QoxD) encodes subunit IV of the aa3-type quinone oxidase, one of several bacterial terminal oxidases. This complex couples oxidation of reduced quinones with the reduction of molecular oxygen to water and the pumping of protons to form a proton gradient utilized for ATP production. aa3-type oxidases contain two heme a cofactors as well as copper atoms in the active site.
Probab=25.53 E-value=3.1e+02 Score=21.52 Aligned_cols=41 Identities=22% Similarity=0.219 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHH-HHHH-------hhHHHHHHHHHHHHHHHHHHHH
Q 026818 165 FTLGFIGSMAGTIYV-SMVL-------HSYILSVLFSVIQVLALAYYAI 205 (232)
Q Consensus 165 ~Ti~Yi~Slv~TLy~-al~~-------~s~iLtll~~iiQ~~AllwY~l 205 (232)
+-+.|+.|+++|+.. .++. ......++++++|++--+.|=+
T Consensus 9 yviGFiLSiiLT~i~F~~v~~~~~~~~~~~~~i~~lA~iQi~VqL~~FL 57 (94)
T TIGR02901 9 HVNGFILSLLLTFLALWVALYSDLPLAMGLTIIIIFAFIQAGLQLIMFM 57 (94)
T ss_pred HHHHHHHHHHHHHHHHHHHHHccCChhHHHHHHHHHHHHHHHHHHHHhe
Confidence 467899999999643 3322 1234567778999988777754
No 23
>COG5547 Small integral membrane protein [Function unknown]
Probab=25.26 E-value=2.8e+02 Score=20.45 Aligned_cols=40 Identities=18% Similarity=0.385 Sum_probs=29.1
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Q 026818 160 KERLPFTLGFIGSMAGTIYVSMVLHSYILSVLFSVIQVLA 199 (232)
Q Consensus 160 ~~Rl~~Ti~Yi~Slv~TLy~al~~~s~iLtll~~iiQ~~A 199 (232)
+-|.|--...+.-+++-++.++.+-+++++++.+.+-+-.
T Consensus 6 ~fkypIIgglvglliAili~t~GfwKtilviil~~lGv~i 45 (62)
T COG5547 6 KFKYPIIGGLVGLLIAILILTFGFWKTILVIILILLGVYI 45 (62)
T ss_pred HhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555556667788888888888999998888776543
No 24
>COG3125 CyoD Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]
Probab=25.12 E-value=3e+02 Score=22.52 Aligned_cols=43 Identities=26% Similarity=0.368 Sum_probs=30.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHH--------hhHHHHHHHHHHHHHHHHHHHH
Q 026818 163 LPFTLGFIGSMAGTIYVSMVL--------HSYILSVLFSVIQVLALAYYAI 205 (232)
Q Consensus 163 l~~Ti~Yi~Slv~TLy~al~~--------~s~iLtll~~iiQ~~AllwY~l 205 (232)
.-+.+.|+.|+++|+..=... -..+..+.++++|++-=+.|-+
T Consensus 18 k~y~iGFvLsIiLT~ipF~~vm~~~~~~~~~~~~i~~lA~iQi~vqLvyFl 68 (111)
T COG3125 18 KSYLIGFVLSIILTLIPFWVVMTGALSSTVTLIIILGLAVIQILVHLVYFL 68 (111)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccchhhHHHHHHHHHHHHHHHHHHHHh
Confidence 346899999999998643321 3446778889999887776644
No 25
>PF05915 DUF872: Eukaryotic protein of unknown function (DUF872); InterPro: IPR008590 This entry represents several uncharacterised eukaryotic transmembrane proteins. The function of this currently unknown.
Probab=24.90 E-value=1.8e+02 Score=23.58 Aligned_cols=24 Identities=25% Similarity=0.472 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 026818 95 KALMYFGLFLASGVFFIFIAFTMF 118 (232)
Q Consensus 95 qRl~gF~~c~~~g~~f~~ls~~lf 118 (232)
+-+..-+.++++|.++++++..++
T Consensus 42 K~I~la~~Lli~G~~li~~g~l~~ 65 (115)
T PF05915_consen 42 KSIALAVFLLIFGTVLIIIGLLLF 65 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444556777887777776544
No 26
>PF04647 AgrB: Accessory gene regulator B; InterPro: IPR006741 The accessory gene regulator (agr) of Staphylococcus aureus is the central regulatory system that controls the gene expression for a large set of virulence factors. The arg locus consists of two transcripts: RNAII and RNAIII. RNAII encodes four genes (agrA, B, C, and D) whose gene products assemble a quorum sensing system. At low cell density, the agr genes are continuously expressed at basal levels. A signal molecule, autoinducing peptide (AIP), produced and secreted by the bacteria, accumulates outside of the cells. When the cell density increases and the AIP concentration reaches a threshold, it activates the agr response, i.e. activation of secreted protein gene expression and subsequent repression of cell wall-associated protein genes. AgrB and AgrD are essential for the production of the autoinducing peptide which functions as a signal for quorum sensing. AgrB is a transmembrane protein [] involved in the proteolytic processing of AgrD, and may have both proteolytic and transporter activities, facilitating the export of the processed AgrD peptide []. ; GO: 0016020 membrane
Probab=24.48 E-value=4.1e+02 Score=22.00 Aligned_cols=15 Identities=7% Similarity=0.098 Sum_probs=8.8
Q ss_pred hhhhhcHHHHHHhhc
Q 026818 144 FFALRGPKNQLAHMS 158 (232)
Q Consensus 144 ~~FL~GP~~qlk~M~ 158 (232)
.....+|...=++-.
T Consensus 114 ~i~~~aPv~~~~kpl 128 (185)
T PF04647_consen 114 IIIIYAPVDTPNKPL 128 (185)
T ss_pred HHHHhcccccccCcC
Confidence 345567776655544
No 27
>PF12221 HflK_N: Bacterial membrane protein N terminal; InterPro: IPR020980 HflK is a bacterial membrane protein which is thought, together with the HflC protein, to form a membrane protease complex whose activity is modulated by the GTPase HflX []. This entry represents the N-terminal, membrane-spanning, region of of HflK responsible for anchoring the protein in the bacterial membrane. It is often found in association with PF01145 from PFAM.
Probab=24.21 E-value=42 Score=22.80 Aligned_cols=20 Identities=25% Similarity=0.466 Sum_probs=18.1
Q ss_pred cccHHHHhhhhcccccccce
Q 026818 52 GFDIESAVRSANDTVSGTFN 71 (232)
Q Consensus 52 ~~d~~~~~~s~~~~~s~~~~ 71 (232)
..||++.++.+++++.+.|.
T Consensus 20 PPDLdel~r~l~~kl~~~fg 39 (42)
T PF12221_consen 20 PPDLDELFRKLQDKLGGLFG 39 (42)
T ss_pred CCCHHHHHHHHHHHHhcccC
Confidence 68999999999999998874
No 28
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=24.21 E-value=4.2e+02 Score=22.05 Aligned_cols=22 Identities=9% Similarity=0.283 Sum_probs=12.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q 026818 93 SGKALMYFGLFLASGVFFIFIAF 115 (232)
Q Consensus 93 ~~qRl~gF~~c~~~g~~f~~ls~ 115 (232)
+.+|++. ++++++|+++...+.
T Consensus 2 ~~~~i~~-i~~iilgilli~~gI 23 (191)
T PF04156_consen 2 KKQRIIS-IILIILGILLIASGI 23 (191)
T ss_pred hhHHHHH-HHHHHHHHHHHHHHH
Confidence 3444444 666777877554443
No 29
>COG4652 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.92 E-value=8.7e+02 Score=25.60 Aligned_cols=16 Identities=25% Similarity=0.590 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHHHHH
Q 026818 95 KALMYFGLFLASGVFF 110 (232)
Q Consensus 95 qRl~gF~~c~~~g~~f 110 (232)
+|+.++++....|.++
T Consensus 217 ~~L~~~~il~i~~l~f 232 (657)
T COG4652 217 SRLLGFSILWILGLLF 232 (657)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 4444444444444443
No 30
>PF12676 DUF3796: Protein of unknown function (DUF3796); InterPro: IPR024257 This family of proteins is functionally uncharacterised. This family of proteins is found in bacteria. Proteins in this family are approximately 120 amino acids in length.
Probab=23.30 E-value=2.4e+02 Score=22.89 Aligned_cols=54 Identities=17% Similarity=0.232 Sum_probs=36.6
Q ss_pred CchHHHHHHHHHHHHHHHHHHHH----hhHHHHHHHHHHHHHHHHHHHHhcCCCchhH
Q 026818 161 ERLPFTLGFIGSMAGTIYVSMVL----HSYILSVLFSVIQVLALAYYAISYFPGGSAG 214 (232)
Q Consensus 161 ~Rl~~Ti~Yi~Slv~TLy~al~~----~s~iLtll~~iiQ~~AllwY~lSYiP~G~~~ 214 (232)
+|.-++..++++++.+....++. +..+.+++..+.=.++++-|+++|.=+.++.
T Consensus 55 ~~kAa~~af~v~l~~~~ii~l~~~i~~~~~~~~~~i~i~~~i~l~vf~~~~~~ye~~e 112 (118)
T PF12676_consen 55 VRKAASRAFFVALILLFIILLISMIFDNLELITILIAIAFAIALLVFAISYLYYEYRE 112 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHhccH
Confidence 45567777777777666555443 3345677777888888888999887666543
No 31
>PF05975 EcsB: Bacterial ABC transporter protein EcsB; InterPro: IPR010288 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). This family consists of several bacterial ABC transporter proteins which are homologous to the EcsB protein of Bacillus subtilis. EcsB is thought to encode a hydrophobic protein with six membrane-spanning helices in a pattern found in other hydrophobic components of ABC transporters [].
Probab=22.48 E-value=6.6e+02 Score=23.67 Aligned_cols=79 Identities=16% Similarity=0.100 Sum_probs=46.8
Q ss_pred HHHHhhh-chhhHHHHHhhhHHHHHhHhhhhhcHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Q 026818 118 FLPVMVL-MPQKFALCFTVGCGFIIGSFFALRGPKNQLAHMSSKERLPFTLGFIGSMAGTIYVSMVLHSYILSVLFSVIQ 196 (232)
Q Consensus 118 flPll~l-~P~KFAllfTlGsil~l~S~~FL~GP~~qlk~M~s~~Rl~~Ti~Yi~Slv~TLy~al~~~s~iLtll~~iiQ 196 (232)
..|++.. .....+-...+.-.+..+-...+..=....++- .+.|..-...+...-+..+|..+........++..++-
T Consensus 119 l~Pl~~~~~~~~~~~~~~~~~~l~~lK~~~l~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 197 (386)
T PF05975_consen 119 LLPLLMQVYGFSFWEFLLLLLFLLALKWWNLLLKWQELRFQ-PKWRRWKRLLRLILNALILYLLLWLSPWLLLILALLLL 197 (386)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3477662 222344444444444444445454444334333 56788888999999999999999877654444444443
Q ss_pred H
Q 026818 197 V 197 (232)
Q Consensus 197 ~ 197 (232)
+
T Consensus 198 ~ 198 (386)
T PF05975_consen 198 I 198 (386)
T ss_pred H
Confidence 3
No 32
>PF10003 DUF2244: Integral membrane protein (DUF2244); InterPro: IPR019253 This entry consists of various bacterial putative membrane proteins with no known function.
Probab=22.42 E-value=2.6e+02 Score=22.88 Aligned_cols=29 Identities=28% Similarity=0.324 Sum_probs=19.5
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Q 026818 174 AGTIYVSMVLHSYILSVLFSVIQVLALAY 202 (232)
Q Consensus 174 v~TLy~al~~~s~iLtll~~iiQ~~Allw 202 (232)
.++.-.++.+.-...++.|+.++++++.|
T Consensus 23 ~~~~a~~f~~~GaW~Vl~F~glev~~l~~ 51 (140)
T PF10003_consen 23 SLIIAIAFLLMGAWPVLPFAGLEVLALWY 51 (140)
T ss_pred HHHHHHHHHHhchHHHHHHHHHHHHHHHH
Confidence 33334445556678899999999766544
No 33
>PF10277 Frag1: Frag1/DRAM/Sfk1 family; InterPro: IPR019402 This entry includes Frag1, DRAM and Sfk1 proteins. Frag1 (FGF receptor activating protein 1) is a protein that is conserved from fungi to humans. There are four potential iso-prenylation sites throughout the peptide, CILW (x2), CIIW and CIGL. Frag1 is a membrane-spanning protein that is ubiquitously expressed in adult tissues suggesting an important cellular function []. DRAM is a family of proteins conserved from nematodes to humans with six hydrophobic transmembrane regions and an endoplasmic reticulum signal peptide. It is a lysosomal protein that induces macro-autophagy as an effector of p53-mediated death, where p53 is the tumour-suppressor gene that is frequently mutated in cancer. Expression of DRAM is stress-induced []. This region is also part of a family of small plasma membrane proteins, referred to as Sfk1, that may act together with or upstream of Stt4p to generate normal levels of the essential phospholipid PI4P, thus allowing proper localisation of Stt4p to the actin cytoskeleton [, ].
Probab=21.84 E-value=4.6e+02 Score=21.60 Aligned_cols=46 Identities=13% Similarity=0.056 Sum_probs=29.4
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHh
Q 026818 161 ERLPFTLGFIGSMAGTIYVSMVLHSYILSVLFSVIQVLALAYYAIS 206 (232)
Q Consensus 161 ~Rl~~Ti~Yi~Slv~TLy~al~~~s~iLtll~~iiQ~~AllwY~lS 206 (232)
-|+...++.+++.+...++-...+.+..-.++++.|++..+.+.+-
T Consensus 159 ~r~~~~~~~~i~~i~~~~~~~~~~~~~~~~~~ai~Ew~~~~~~~~f 204 (215)
T PF10277_consen 159 LRLILLVISIICFISFIVFFILHNFYGAYSIFAIFEWVLVFSNILF 204 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHH
Confidence 3555666666666666665555444445677888888877766543
No 34
>PF11674 DUF3270: Protein of unknown function (DUF3270); InterPro: IPR021688 This family of proteins with unknown function appears to be restricted to Streptococcus.
Probab=21.63 E-value=4e+02 Score=20.91 Aligned_cols=18 Identities=22% Similarity=0.433 Sum_probs=9.5
Q ss_pred cccccCCCCChHHHHHHH
Q 026818 83 NLQSATSTVPSGKALMYF 100 (232)
Q Consensus 83 ~~qs~~~~Ls~~qRl~gF 100 (232)
.+|....+-++-+-++.|
T Consensus 25 e~q~~~~~~~kL~ELlFF 42 (90)
T PF11674_consen 25 EYQPENQSSAKLKELLFF 42 (90)
T ss_pred hccccccccchHHHHHHH
Confidence 455555555555555555
No 35
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=21.37 E-value=3.1e+02 Score=22.60 Aligned_cols=23 Identities=4% Similarity=0.060 Sum_probs=13.5
Q ss_pred CCchHHHHHHHHHHHHHHHHHHH
Q 026818 160 KERLPFTLGFIGSMAGTIYVSMV 182 (232)
Q Consensus 160 ~~Rl~~Ti~Yi~Slv~TLy~al~ 182 (232)
..+++.++.++..+++.+.++.+
T Consensus 34 ~~~~im~ifmllG~L~~l~S~~V 56 (114)
T PF11023_consen 34 ASPIIMVIFMLLGLLAILASTAV 56 (114)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666666655555444
No 36
>TIGR02484 CitB CitB domain protein. CobZ is essential for cobalamin biosynthesis (by knockout of the R. capsulatus gene ) and is complemented by the characterized precorrin 3B synthase CobG. The enzyme has been shown to contain flavin, heme and Fe-S cluster cofactors and is believed to require dioxygen as a substrate. This model identifies the C-terminal domain of the R. capsulatus CobZ, which, in most other species exists as a separate gene adjacent to CobZ.
Probab=20.16 E-value=8.2e+02 Score=23.89 Aligned_cols=82 Identities=13% Similarity=0.035 Sum_probs=41.2
Q ss_pred HHHHHhhhHHHHHhHhhhhhcHHHHHHhhc--CCCchHHHHHHHHHHHH---HHHHHHHHhhHHH-HHHHHHHHHHHHHH
Q 026818 129 FALCFTVGCGFIIGSFFALRGPKNQLAHMS--SKERLPFTLGFIGSMAG---TIYVSMVLHSYIL-SVLFSVIQVLALAY 202 (232)
Q Consensus 129 FAllfTlGsil~l~S~~FL~GP~~qlk~M~--s~~Rl~~Ti~Yi~Slv~---TLy~al~~~s~iL-tll~~iiQ~~Allw 202 (232)
.-++=++|.|..+.+..-|..-+...+..- ++.....=-.|+.-+.+ |=+....++.+.. .. ...+.+ ..++
T Consensus 254 pklLG~~GGi~Ll~G~~~l~~l~~R~~~~~~~~~~~~~~D~~fl~lL~lv~~TGl~l~~~R~t~~m~~-ll~lHL-g~V~ 331 (372)
T TIGR02484 254 PVILGLVGGVAMLAGAAGLSGLEARADPEPLKTPAMLRSDRFLLGQLALLAGTGLALLALRDTPAMGL-LLALHL-GAVA 331 (372)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCcccccccccccchHHHHHHHHHHHHHHHHHHHHcCcHHHHH-HHHHHH-HHHH
Confidence 456667777777766665555555544322 11112122223322222 2233344455443 44 444444 4566
Q ss_pred HHHhcCCCch
Q 026818 203 YAISYFPGGS 212 (232)
Q Consensus 203 Y~lSYiP~G~ 212 (232)
..+-|.||++
T Consensus 332 ~lF~~lPysK 341 (372)
T TIGR02484 332 GAFLGLPFSK 341 (372)
T ss_pred HHHHHccHHH
Confidence 7777899995
Done!