Query 027293
Match_columns 225
No_of_seqs 113 out of 134
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 07:46:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027293.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027293hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04483 DUF565: Protein of un 99.9 3.3E-23 7.2E-28 149.5 6.0 59 143-203 1-59 (60)
2 TIGR00870 trp transient-recept 74.9 33 0.00072 34.4 10.7 112 97-211 403-533 (743)
3 COG3619 Predicted membrane pro 61.4 47 0.001 29.9 7.9 57 94-150 141-204 (226)
4 COG3619 Predicted membrane pro 55.3 56 0.0012 29.4 7.3 44 98-141 149-199 (226)
5 TIGR00400 mgtE Mg2+ transporte 48.5 60 0.0013 31.2 6.8 36 117-152 282-317 (449)
6 TIGR03469 HonB hopene-associat 47.5 2E+02 0.0043 26.6 9.8 43 66-114 242-284 (384)
7 PF09925 DUF2157: Predicted me 45.0 1.7E+02 0.0036 23.7 9.7 98 107-207 16-120 (145)
8 KOG4112 Signal peptidase subun 44.8 11 0.00024 30.4 1.1 24 188-211 37-60 (101)
9 PF11712 Vma12: Endoplasmic re 38.4 1.2E+02 0.0026 24.7 6.2 20 149-168 116-135 (142)
10 PF11833 DUF3353: Protein of u 35.9 99 0.0021 27.1 5.6 51 107-157 130-185 (194)
11 TIGR00383 corA magnesium Mg(2+ 34.8 2.2E+02 0.0047 25.4 7.8 73 97-169 238-314 (318)
12 PF11982 DUF3483: Domain of un 34.2 78 0.0017 28.9 4.8 25 115-139 126-150 (224)
13 KOG3609 Receptor-activated Ca2 33.6 4.4E+02 0.0095 28.5 10.7 103 105-208 406-526 (822)
14 PF06912 DUF1275: Protein of u 32.5 2.2E+02 0.0048 23.9 7.1 61 98-158 140-203 (209)
15 PF05052 MerE: MerE protein; 32.3 75 0.0016 24.6 3.7 35 126-162 33-67 (75)
16 PF07787 DUF1625: Protein of u 31.8 2.3E+02 0.0051 25.0 7.4 96 71-169 134-248 (248)
17 COG0598 CorA Mg2+ and Co2+ tra 31.5 1.8E+02 0.0039 26.6 6.8 77 94-170 239-320 (322)
18 COG0818 DgkA Diacylglycerol ki 31.2 3.1E+02 0.0067 22.8 7.7 66 95-166 8-76 (123)
19 TIGR00807 malonate_madL malona 31.2 1.1E+02 0.0024 25.7 4.8 38 121-158 7-44 (125)
20 PF01595 DUF21: Domain of unkn 31.0 2.3E+02 0.005 22.7 6.7 30 93-122 26-58 (183)
21 KOG3676 Ca2+-permeable cation 30.9 2.4E+02 0.0052 30.2 8.3 64 148-213 504-570 (782)
22 TIGR02161 napC_nirT periplasmi 30.8 72 0.0016 27.8 3.9 30 107-138 3-32 (185)
23 PRK15071 lipopolysaccharide AB 30.6 1.1E+02 0.0025 27.7 5.4 16 112-127 267-282 (356)
24 PF02009 Rifin_STEVOR: Rifin/s 29.9 50 0.0011 30.9 3.0 21 150-172 266-286 (299)
25 TIGR02245 HAD_IIID1 HAD-superf 28.5 16 0.00034 32.0 -0.5 20 203-223 49-68 (195)
26 PRK05585 yajC preprotein trans 27.2 51 0.0011 26.3 2.2 23 165-190 34-56 (106)
27 PF03817 MadL: Malonate transp 26.9 1.4E+02 0.0031 25.1 4.8 38 121-158 7-44 (125)
28 PTZ00046 rifin; Provisional 26.3 62 0.0014 31.3 3.0 19 153-173 328-346 (358)
29 TIGR01477 RIFIN variant surfac 26.1 64 0.0014 31.2 3.0 21 151-173 321-341 (353)
30 PRK10617 cytochrome c-type pro 26.0 1E+02 0.0022 27.3 4.1 31 107-139 12-42 (200)
31 TIGR02251 HIF-SF_euk Dullard-l 25.1 21 0.00047 29.3 -0.3 20 203-223 46-65 (162)
32 PF13150 DUF3989: Protein of u 25.0 2.1E+02 0.0045 22.1 5.2 19 103-121 5-23 (85)
33 PF04246 RseC_MucC: Positive r 24.9 1.2E+02 0.0027 24.1 4.1 43 122-168 77-119 (135)
34 PF01544 CorA: CorA-like Mg2+ 24.3 1.7E+02 0.0036 25.0 5.0 23 121-143 233-256 (292)
35 PF06738 DUF1212: Protein of u 23.5 4.2E+02 0.0092 21.9 10.0 84 106-197 88-171 (193)
36 COG4064 MtrG Tetrahydromethano 23.1 50 0.0011 25.4 1.4 11 188-198 49-59 (75)
37 PF11683 DUF3278: Protein of u 22.7 4.1E+02 0.0089 21.4 7.2 17 181-197 107-123 (129)
38 PRK11056 hypothetical protein; 22.4 3.7E+02 0.0081 22.5 6.4 79 115-197 4-83 (120)
39 PF01219 DAGK_prokar: Prokaryo 22.1 1.8E+02 0.004 23.0 4.5 45 115-166 17-62 (104)
40 PF07226 DUF1422: Protein of u 22.1 3.6E+02 0.0078 22.5 6.3 78 116-197 5-83 (117)
41 PF05957 DUF883: Bacterial pro 21.9 2.1E+02 0.0045 21.5 4.6 28 107-137 63-91 (94)
42 PRK13747 putative mercury resi 21.7 1.3E+02 0.0028 23.5 3.4 46 115-162 13-67 (78)
43 PF02674 Colicin_V: Colicin V 20.4 4.2E+02 0.0091 20.6 7.2 33 109-142 14-46 (146)
No 1
>PF04483 DUF565: Protein of unknown function (DUF565); InterPro: IPR007572 This family represents Ycf20, it is found in cyanobacteria and is also encoded in plant and algal chloroplasts; its function is unknown. As the family is exclusively found in phototrophic organisms it may therefore play a role in photosynthesis.
Probab=99.88 E-value=3.3e-23 Score=149.55 Aligned_cols=59 Identities=41% Similarity=0.757 Sum_probs=54.4
Q ss_pred cccCchHHHHHHHHHHHHHhhhhhccchhhhhhhhchHHHHHHHHHHHHHHHHHHHHhccc
Q 027293 143 QTGDWDILSAALAVVVVEGIGALMYRASLRLLSKIRNLITMFNYWKAGLTLGLFLDSFKYE 203 (225)
Q Consensus 143 q~g~wD~laA~iiVl~iEvis~l~YR~~~~~~~~~~l~~~lLN~fKIGllYGLFLEAFKL~ 203 (225)
|+|+|||++|+++|+++|++++++|+++.. .+.+++++++|+||||++||||+||||||
T Consensus 1 Q~g~wD~i~a~~iv~~~E~i~~l~Y~~~~~--~~~~~~~~~lN~~KiGl~YgLfleAFKLG 59 (60)
T PF04483_consen 1 QTGDWDVIAAAIIVLFIEVISRLRYSKPKK--KRKSLLVELLNNFKIGLLYGLFLEAFKLG 59 (60)
T ss_pred CCchhHHHHHHHHHHHHHHHHHHhhccccc--cccchHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 899999999999999999999999999763 23557999999999999999999999998
No 2
>TIGR00870 trp transient-receptor-potential calcium channel protein. after chronic exposure to capsaicin. (McCleskey and Gold, 1999).
Probab=74.94 E-value=33 Score=34.38 Aligned_cols=112 Identities=13% Similarity=0.087 Sum_probs=65.3
Q ss_pred cHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHhhhhhhhhhc----------------ccCchHHHHHHHHHHHH
Q 027293 97 RLIRVIQAFQTRIGARIQELRKDFPTKLLFFLVGFYCATAFATVIGQ----------------TGDWDILSAALAVVVVE 160 (225)
Q Consensus 97 RL~rli~~l~~~L~~~~~npWRRlSl~LIsLL~GFflgna~sTi~Gq----------------~g~wD~laA~iiVl~iE 160 (225)
|+......+...+..|+++.|.-+-...+++.+..++...+..+... ......++.++++.++-
T Consensus 403 ~~~e~~~~~~~g~~~y~~~~wn~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~a~~~~l~~~r 482 (743)
T TIGR00870 403 RLGEEKLIWLGGIFEYIHQLWNILDFGMNSFYLATFLDRPFAILFVTQAFLVLREHWLRFDPTLIEEALFAFALVLSWLN 482 (743)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhhhhhhhhhhhcccCchhHHHHHHHHHHHHHHHH
Confidence 44555566667777889999987777665555544444333322211 11223455555555555
Q ss_pred Hhhhhhccchhhhhhhh--chHHHHH-HHHHHHHHHHHHHHHhcccchhhhccc
Q 027293 161 GIGALMYRASLRLLSKI--RNLITMF-NYWKAGLTLGLFLDSFKYEMDNIIGSC 211 (225)
Q Consensus 161 vis~l~YR~~~~~~~~~--~l~~~lL-N~fKIGllYGLFLEAFKL~~~~~~~~~ 211 (225)
++-. .|. .+..+.. .+.-.+. |.+|..++|.+|+=||=.+.--+...+
T Consensus 483 ll~~--~~~-~~~lGp~~i~l~~mi~~dl~~F~~i~~v~l~aF~~~~~~l~~~~ 533 (743)
T TIGR00870 483 LLYI--FRG-NQHLGPLQIMIGRMILGDILRFLFIYAVVLFGFACGLNQLYQYY 533 (743)
T ss_pred HHHH--Hhh-chhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 5522 222 1111212 2344567 999999999999999998877666543
No 3
>COG3619 Predicted membrane protein [Function unknown]
Probab=61.44 E-value=47 Score=29.95 Aligned_cols=57 Identities=12% Similarity=0.185 Sum_probs=30.8
Q ss_pred CCccHHHHHHHHHHHHHHHHhh---hhhhhhHHHHHHHHHHHHh----hhhhhhhhcccCchHH
Q 027293 94 GRTRLIRVIQAFQTRIGARIQE---LRKDFPTKLLFFLVGFYCA----TAFATVIGQTGDWDIL 150 (225)
Q Consensus 94 q~TRL~rli~~l~~~L~~~~~n---pWRRlSl~LIsLL~GFflg----na~sTi~Gq~g~wD~l 150 (225)
.+|=..--+.+.++.+.+|+.. ..+|.++.-+++..||.+| +.++..+|....|-+.
T Consensus 141 ~~t~~TGnl~~~~~~l~~~l~~k~~~~~~~~~~~~~~il~f~~GAi~g~ll~~~~g~~al~~~~ 204 (226)
T COG3619 141 GTTYVTGNLKSAGRGLGRYLSGKDKEKLRDWLIYLSLILSFIVGAICGALLTLFFGLKALWVVA 204 (226)
T ss_pred cchhhhhhHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence 3344444456777777777776 4444444444555555555 4445555555555433
No 4
>COG3619 Predicted membrane protein [Function unknown]
Probab=55.28 E-value=56 Score=29.45 Aligned_cols=44 Identities=14% Similarity=0.082 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHH---HHhhhhhhhhHHHHHHHH----HHHHhhhhhhhh
Q 027293 98 LIRVIQAFQTRIGA---RIQELRKDFPTKLLFFLV----GFYCATAFATVI 141 (225)
Q Consensus 98 L~rli~~l~~~L~~---~~~npWRRlSl~LIsLL~----GFflgna~sTi~ 141 (225)
|.+.-..+++.+.. .....|.+....++++.. |-+++..++...
T Consensus 149 l~~~~~~l~~~l~~k~~~~~~~~~~~~~~il~f~~GAi~g~ll~~~~g~~a 199 (226)
T COG3619 149 LKSAGRGLGRYLSGKDKEKLRDWLIYLSLILSFIVGAICGALLTLFFGLKA 199 (226)
T ss_pred HHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH
Confidence 44666677777776 666777777776666654 356666665544
No 5
>TIGR00400 mgtE Mg2+ transporter (mgtE). This family of prokaryotic proteins models a class of Mg++ transporter first described in Bacillus firmus. May form a homodimer.
Probab=48.54 E-value=60 Score=31.15 Aligned_cols=36 Identities=11% Similarity=0.058 Sum_probs=27.0
Q ss_pred hhhhhHHHHHHHHHHHHhhhhhhhhhcccCchHHHH
Q 027293 117 RKDFPTKLLFFLVGFYCATAFATVIGQTGDWDILSA 152 (225)
Q Consensus 117 WRRlSl~LIsLL~GFflgna~sTi~Gq~g~wD~laA 152 (225)
++|++++++.++.|+..|..++.+-..+..+-.++.
T Consensus 282 ~~R~~wL~v~~~~~~~t~~ii~~f~~~l~~~~~l~~ 317 (449)
T TIGR00400 282 KNRIIWLLVLLVSSTFTATIISNYEDLLLSLVALAN 317 (449)
T ss_pred HhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 479999999999999999888876555544433333
No 6
>TIGR03469 HonB hopene-associated glycosyltransferase HpnB. This family of genes include a glycosyl transferase, group 2 domain (pfam00535) which are responsible, generally for the transfer of nucleotide-diphosphate sugars to substrates such as polysaccharides and lipids. The genes of this family are often found in the same genetic locus with squalene-hopene cyclase genes, and are never associated with genes for the metabolism of phytoene. Indeed, the members of this family appear to never be found in a genome lacking squalene-hopene cyclase (SHC), although not all genomes encoding SHC have this glycosyl transferase. In the organism Zymomonas mobilis the linkage of this gene to hopanoid biosynthesis has been noted and the gene named HpnB. Hopanoids are known to feature polar glycosyl head groups in many organisms.
Probab=47.49 E-value=2e+02 Score=26.60 Aligned_cols=43 Identities=7% Similarity=-0.049 Sum_probs=22.7
Q ss_pred cccccceeEEeeeccCCCCCCCCCCCCCCCccHHHHHHHHHHHHHHHHh
Q 027293 66 NNLKKMSWAIGSSVDDNGFDPSSSDSSNGRTRLIRVIQAFQTRIGARIQ 114 (225)
Q Consensus 66 ~~~rr~~w~i~~~~~~~~~~p~~~~~~lq~TRL~rli~~l~~~L~~~~~ 114 (225)
...|+.++++....+.... +..+. ..+..+.+...+.......
T Consensus 242 ~r~~~~G~~v~~~~~~~~~-----s~r~~-~~~~~~~~~~~r~~~~~~~ 284 (384)
T TIGR03469 242 AAVKRSGGRIWLGLAARTR-----SLRPY-DGLGEIWRMIARTAYTQLR 284 (384)
T ss_pred HHHHHcCCcEEEEecCceE-----EEEec-CCHHHHHHHHHHhHHHHcC
Confidence 4457788888876544332 11122 2445565655555554443
No 7
>PF09925 DUF2157: Predicted membrane protein (DUF2157); InterPro: IPR018677 This family of various hypothetical prokaryotic proteins has no known function.
Probab=44.96 E-value=1.7e+02 Score=23.70 Aligned_cols=98 Identities=10% Similarity=0.096 Sum_probs=53.7
Q ss_pred HHHHHHHhhhhhh--hhHHHHHHHHHHHHhhhhhhhhhc----ccCc-hHHHHHHHHHHHHHhhhhhccchhhhhhhhch
Q 027293 107 TRIGARIQELRKD--FPTKLLFFLVGFYCATAFATVIGQ----TGDW-DILSAALAVVVVEGIGALMYRASLRLLSKIRN 179 (225)
Q Consensus 107 ~~L~~~~~npWRR--lSl~LIsLL~GFflgna~sTi~Gq----~g~w-D~laA~iiVl~iEvis~l~YR~~~~~~~~~~l 179 (225)
+++.+..+++.+| ....++..+.+.+++..+.++... .++. ...++...++..-+.....++++.+ ...-
T Consensus 16 ~~i~~~~~~~~~~~~~~~~~l~~lGall~~~gii~fvA~nW~~i~~~~k~~~~~~~~~~~~~~~~~~~~~~~~---~~~~ 92 (145)
T PF09925_consen 16 EAILAFYGERPSRSSWLARILLYLGALLLGLGIILFVAANWDDIPRLAKLGLLLALLLLSYVGGFWLWRRRSP---RLAE 92 (145)
T ss_pred HHHHHHhhccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHhccCc---HHHH
Confidence 3444444443222 245666677777777777666543 2221 2223333333333333333333221 1333
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcccchhh
Q 027293 180 LITMFNYWKAGLTLGLFLDSFKYEMDNI 207 (225)
Q Consensus 180 ~~~lLN~fKIGllYGLFLEAFKL~~~~~ 207 (225)
...++-.+=+|..-+++-+-|.++.|..
T Consensus 93 ~l~~l~~~l~ga~ialigQ~y~~~~~~~ 120 (145)
T PF09925_consen 93 ALLLLGAVLFGALIALIGQIYQTGADPW 120 (145)
T ss_pred HHHHHHHHHHHHHHHHHHhHhcCCCchH
Confidence 4555666669999999999999999973
No 8
>KOG4112 consensus Signal peptidase subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=44.83 E-value=11 Score=30.44 Aligned_cols=24 Identities=8% Similarity=0.105 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHhcccchhhhccc
Q 027293 188 KAGLTLGLFLDSFKYEMDNIIGSC 211 (225)
Q Consensus 188 KIGllYGLFLEAFKL~~~~~~~~~ 211 (225)
=+|++||.+.+-|+..|--+..+|
T Consensus 37 iVg~i~Gf~~Qqls~tvy~vg~~~ 60 (101)
T KOG4112|consen 37 IVGFIYGFAQQQLSVTVYIVGAGF 60 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 589999999999999998888776
No 9
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=38.43 E-value=1.2e+02 Score=24.73 Aligned_cols=20 Identities=35% Similarity=0.245 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHhhhhhcc
Q 027293 149 ILSAALAVVVVEGIGALMYR 168 (225)
Q Consensus 149 ~laA~iiVl~iEvis~l~YR 168 (225)
.+.++++|+++|+.-.+.|-
T Consensus 116 gl~~al~vlvAEv~l~~~y~ 135 (142)
T PF11712_consen 116 GLFGALLVLVAEVVLYIRYL 135 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 36678889999998554443
No 10
>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=35.93 E-value=99 Score=27.09 Aligned_cols=51 Identities=18% Similarity=0.309 Sum_probs=36.0
Q ss_pred HHHHHHHhhhhhhhhHHHHHHHHHHHHhhhhhhhhhcc---cCc--hHHHHHHHHH
Q 027293 107 TRIGARIQELRKDFPTKLLFFLVGFYCATAFATVIGQT---GDW--DILSAALAVV 157 (225)
Q Consensus 107 ~~L~~~~~npWRRlSl~LIsLL~GFflgna~sTi~Gq~---g~w--D~laA~iiVl 157 (225)
=.+.++-++.+|-+-+.+..|.+|..+|+.+...+... +.| +.+.+.++.+
T Consensus 130 yfl~~K~~~~~rA~~~~~~~L~~G~~lGs~l~~~l~~~~~p~~~s~~~~~sl~~~i 185 (194)
T PF11833_consen 130 YFLNRKERKLGRAFLWTLGGLVVGLILGSLLASWLPVDIVPGPWSPEQLVSLFTYI 185 (194)
T ss_pred HHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHhhcccccCCCCCCHHHHHHHHHHH
Confidence 35566677788999999999999999999998766443 233 4455544433
No 11
>TIGR00383 corA magnesium Mg(2+) and cobalt Co(2+) transport protein (corA). The article in Microb Comp Genomics 1998;3(3):151-69 (Medline:98448512) discusses this family and suggests that some members may have functions other than Mg2+ transport.
Probab=34.81 E-value=2.2e+02 Score=25.39 Aligned_cols=73 Identities=10% Similarity=0.154 Sum_probs=32.9
Q ss_pred cHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHH----hhhhhhhhhcccCchHHHHHHHHHHHHHhhhhhccc
Q 027293 97 RLIRVIQAFQTRIGARIQELRKDFPTKLLFFLVGFYC----ATAFATVIGQTGDWDILSAALAVVVVEGIGALMYRA 169 (225)
Q Consensus 97 RL~rli~~l~~~L~~~~~npWRRlSl~LIsLL~GFfl----gna~sTi~Gq~g~wD~laA~iiVl~iEvis~l~YR~ 169 (225)
+++.+++......++...+.-|++++.-..++-==++ |-++....+....|.-.+++++.+++-++..++.|+
T Consensus 238 ~l~~l~d~~~~~~s~~~N~~mk~LTvvt~IflP~t~IaGiyGMNf~~mP~l~~~~gy~~~l~~m~~i~~~~~~~fkr 314 (318)
T TIGR00383 238 LLSSLMDLYLSLVNNKMNEIMKILTVVSTIFIPLTFIAGIYGMNFKFMPELNWKYGYPAVLIVMAVIALGPLIYFRR 314 (318)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccCccccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444455555555666666644443332223 333333344333344444444444444443344433
No 12
>PF11982 DUF3483: Domain of unknown function (DUF3483); InterPro: IPR021872 This presumed domain is functionally uncharacterised. This domain is found in bacteria. This domain is about 230 amino acids in length. This domain is found associated with PF02754 from PFAM.
Probab=34.22 E-value=78 Score=28.93 Aligned_cols=25 Identities=36% Similarity=0.491 Sum_probs=22.5
Q ss_pred hhhhhhhHHHHHHHHHHHHhhhhhh
Q 027293 115 ELRKDFPTKLLFFLVGFYCATAFAT 139 (225)
Q Consensus 115 npWRRlSl~LIsLL~GFflgna~sT 139 (225)
+||.|++..+.++-.|+++.+....
T Consensus 126 G~w~rLP~sL~afa~g~~l~tL~~a 150 (224)
T PF11982_consen 126 GPWMRLPKSLLAFALGFFLATLPAA 150 (224)
T ss_pred CChhHhHHHHHHHHHHHHHHHHHhh
Confidence 8999999999999999999887555
No 13
>KOG3609 consensus Receptor-activated Ca2+-permeable cation channels (STRPC family) [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=33.59 E-value=4.4e+02 Score=28.46 Aligned_cols=103 Identities=11% Similarity=0.042 Sum_probs=65.6
Q ss_pred HHHHHHHHHhhhhhhhhHHHHHHHHHHHHhhhhhhhhhcc--------cCch---H-------HHHHHHHHHHHHhhhhh
Q 027293 105 FQTRIGARIQELRKDFPTKLLFFLVGFYCATAFATVIGQT--------GDWD---I-------LSAALAVVVVEGIGALM 166 (225)
Q Consensus 105 l~~~L~~~~~npWRRlSl~LIsLL~GFflgna~sTi~Gq~--------g~wD---~-------laA~iiVl~iEvis~l~ 166 (225)
....+.+++.+-|+-+..+.+++.+--++.=+.+-.--.. -+|| | +|++.+.-+.+++-.+.
T Consensus 406 w~~G~~~y~~~~Wn~lDf~m~siyl~s~~lr~~a~~~~~~~~~~~~~R~~W~~~dp~ll~E~lfAiA~V~S~lrl~~i~t 485 (822)
T KOG3609|consen 406 WRVGRDGYLAFWWNWLDFAMISIYLASFILRAVAWGKREAFDPSSVDRMHWPSFDPSLLAEGLFAIANVLSFLKLFYIFT 485 (822)
T ss_pred HhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccchhhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3445677888999999999888877665554443322211 2443 3 34455555555552222
Q ss_pred ccchhhhhhhhchHHHHHHHHHHHHHHHHHHHHhcccchhhh
Q 027293 167 YRASLRLLSKIRNLITMFNYWKAGLTLGLFLDSFKYEMDNII 208 (225)
Q Consensus 167 YR~~~~~~~~~~l~~~lLN~fKIGllYGLFLEAFKL~~~~~~ 208 (225)
-.... +.-+.++.-.+.|-+|.=++|-|++=||-+|+...+
T Consensus 486 ~n~~l-GPlqISlGrmv~Di~kF~~I~~lvl~aF~iGl~qLy 526 (822)
T KOG3609|consen 486 MNPSL-GPLQISLGRMVGDIYKFLFIFVLVLVAFSIGLNQLY 526 (822)
T ss_pred ccccc-cchhhhHHHHHHHHHHHHHHHHHHHHHHHhccchHh
Confidence 22221 112345688899999999999999999999987654
No 14
>PF06912 DUF1275: Protein of unknown function (DUF1275); InterPro: IPR010699 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown although a few members are thought to be membrane proteins.
Probab=32.50 E-value=2.2e+02 Score=23.95 Aligned_cols=61 Identities=11% Similarity=0.353 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHhhhhh--hhhHHHHHHHHHHHHhhhhhhhhhcc-cCchHHHHHHHHHH
Q 027293 98 LIRVIQAFQTRIGARIQELRK--DFPTKLLFFLVGFYCATAFATVIGQT-GDWDILSAALAVVV 158 (225)
Q Consensus 98 L~rli~~l~~~L~~~~~npWR--RlSl~LIsLL~GFflgna~sTi~Gq~-g~wD~laA~iiVl~ 158 (225)
..--+..+.+.+.+++.+.-+ +....-...+++|++|..++....+. +.+-.+.+.+++++
T Consensus 140 ~TG~l~~~~~~l~~~~~~~~~~~~~~~~~~~~i~~f~~Ga~~ga~l~~~~~~~al~~~~~~l~~ 203 (209)
T PF06912_consen 140 MTGNLTDLGIDLARYLRGKDRALRRALRYLLIILSFFIGAILGALLYRRLGFWALLLPALLLLL 203 (209)
T ss_pred hHhhHHHHHHHHHHHHhCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 333445555555555554433 44445555555666666555555443 33444444444443
No 15
>PF05052 MerE: MerE protein; InterPro: IPR007746 The prokaryotic MerE (or URF-1) protein is part of the mercury resistance operon often located on plasmids or transposons [, ]. It has been suggested that MerE is a broad mercury transporter mediating transport across the bacterial membrane [].
Probab=32.26 E-value=75 Score=24.59 Aligned_cols=35 Identities=23% Similarity=0.360 Sum_probs=25.6
Q ss_pred HHHHHHHHhhhhhhhhhcccCchHHHHHHHHHHHHHh
Q 027293 126 FFLVGFYCATAFATVIGQTGDWDILSAALAVVVVEGI 162 (225)
Q Consensus 126 sLL~GFflgna~sTi~Gq~g~wD~laA~iiVl~iEvi 162 (225)
.+|...+.|++.++++++ .|++.+..+..++.=-.
T Consensus 33 pil~~vLaGTaaGafl~e--~w~iaal~l~~LF~lsl 67 (75)
T PF05052_consen 33 PILAPVLAGTAAGAFLGE--HWVIAALTLTGLFVLSL 67 (75)
T ss_pred HHHHHHHccchHHHHHHH--HHHHHHHHHHHHHHHHH
Confidence 345578888999988888 48888777777765433
No 16
>PF07787 DUF1625: Protein of unknown function (DUF1625); InterPro: IPR012430 Sequences making up this family are derived from hypothetical proteins expressed by both prokaryotic and eukaryotic species. The region in question is approximately 250 residues long.
Probab=31.76 E-value=2.3e+02 Score=24.97 Aligned_cols=96 Identities=11% Similarity=0.093 Sum_probs=51.3
Q ss_pred ceeEEeeeccCCCCCCCCCCCC-------CCCccHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHhhhhhhhh--
Q 027293 71 MSWAIGSSVDDNGFDPSSSDSS-------NGRTRLIRVIQAFQTRIGARIQELRKDFPTKLLFFLVGFYCATAFATVI-- 141 (225)
Q Consensus 71 ~~w~i~~~~~~~~~~p~~~~~~-------lq~TRL~rli~~l~~~L~~~~~npWRRlSl~LIsLL~GFflgna~sTi~-- 141 (225)
-..+|.+.+.++.+.|-..+.. .+.--.+++.+ ......-..-|-=+.++.+.+.+|+.+-...-.++
T Consensus 134 ~~vTVVa~q~g~~l~py~t~~g~~i~ll~~G~~s~~e~f~---~~~~~n~~~tW~lR~~G~llmf~G~~~~~~~l~~l~~ 210 (248)
T PF07787_consen 134 GPVTVVAKQRGNTLVPYTTKNGDKILLLEEGKVSAEEMFA---KEHSANNTLTWILRFIGWLLMFIGFFLLFSPLYTLVD 210 (248)
T ss_pred ceEEEEEEEeCCEEEEEEecCCCEEEEEEcCCcCHHHHHH---HHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3456777777777766443331 22222233333 22333333345444777778888877654433222
Q ss_pred -----hcc-----cCchHHHHHHHHHHHHHhhhhhccc
Q 027293 142 -----GQT-----GDWDILSAALAVVVVEGIGALMYRA 169 (225)
Q Consensus 142 -----Gq~-----g~wD~laA~iiVl~iEvis~l~YR~ 169 (225)
|++ .....++|+.+-+++-.+.|++||+
T Consensus 211 ~~P~lg~l~~~~~~~~~~~~s~~lsl~~Ia~aW~~yRP 248 (248)
T PF07787_consen 211 WIPLLGNLVGFGLFLVAFIISFSLSLLTIALAWLFYRP 248 (248)
T ss_pred hhceeechhhhHHHHHHHHHHHHHHHHHHHHhheeeCc
Confidence 211 1223455666677788888888884
No 17
>COG0598 CorA Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]
Probab=31.53 E-value=1.8e+02 Score=26.61 Aligned_cols=77 Identities=17% Similarity=0.188 Sum_probs=44.8
Q ss_pred CCccHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHhhhhhhhhh--cccCch---HHHHHHHHHHHHHhhhhhcc
Q 027293 94 GRTRLIRVIQAFQTRIGARIQELRKDFPTKLLFFLVGFYCATAFATVIG--QTGDWD---ILSAALAVVVVEGIGALMYR 168 (225)
Q Consensus 94 q~TRL~rli~~l~~~L~~~~~npWRRlSl~LIsLL~GFflgna~sTi~G--q~g~wD---~laA~iiVl~iEvis~l~YR 168 (225)
.+.|++.+.+.....++....+.-|.+++.-..++-==++++..|+=++ ...+|. +++.+++++++=++.+.+.|
T Consensus 239 ~~~~l~~l~d~~~s~is~~~N~imk~LTi~s~iflPpTlIagiyGMNf~~mPel~~~~Gy~~~l~~m~~~~~~~~~~frr 318 (322)
T COG0598 239 LRERLSSLLDAYLSLINNNQNEIMKILTIVSTIFLPPTLITGFYGMNFKGMPELDWPYGYPIALILMLLLALLLYLYFRR 318 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHcccccCCCCCcCCCCcccHHHHHHHHHHHHHHHHHHHHh
Confidence 5677888888888888777777777777765555544444444444333 123333 55555555555555444444
Q ss_pred ch
Q 027293 169 AS 170 (225)
Q Consensus 169 ~~ 170 (225)
++
T Consensus 319 k~ 320 (322)
T COG0598 319 KG 320 (322)
T ss_pred cC
Confidence 43
No 18
>COG0818 DgkA Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]
Probab=31.23 E-value=3.1e+02 Score=22.84 Aligned_cols=66 Identities=15% Similarity=0.274 Sum_probs=39.6
Q ss_pred CccHHHHHHHHHHHHHHHHh---hhhhhhhHHHHHHHHHHHHhhhhhhhhhcccCchHHHHHHHHHHHHHhhhhh
Q 027293 95 RTRLIRVIQAFQTRIGARIQ---ELRKDFPTKLLFFLVGFYCATAFATVIGQTGDWDILSAALAVVVVEGIGALM 166 (225)
Q Consensus 95 ~TRL~rli~~l~~~L~~~~~---npWRRlSl~LIsLL~GFflgna~sTi~Gq~g~wD~laA~iiVl~iEvis~l~ 166 (225)
.||+-.-..--.+-+..-++ +-+....+.++.+-+||+++-+.-... =.+.+.++|+..|++|.-.
T Consensus 8 ~~rl~~a~~ys~~Gl~~a~~~E~afR~e~~~~~~~i~~~~~l~~~~~e~l------ll~~si~lvl~vEllNTAI 76 (123)
T COG0818 8 FRRLIKAFGYSLKGLKAAWKEEAAFRQELLAALVALVLAFFLGVSAIEWL------LLILSIFLVLIVELLNTAI 76 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhCCcHHHHH------HHHHHHHHHHHHHHHHHHH
Confidence 34444443333444444444 224556678888888999887543322 1467788889999987643
No 19
>TIGR00807 malonate_madL malonate transporter, MadL subunit. The MSS family includes the monobasic malonate:Na+ symporter of Malonomonas rubra. It consists of two integral membrane proteins, MadL and MadM. The transporter is believed to catalyze the electroneutral reversible uptake of H+-malonate with one Na+, and both subunits have been shown to be essential for activity.
Probab=31.16 E-value=1.1e+02 Score=25.75 Aligned_cols=38 Identities=13% Similarity=0.298 Sum_probs=30.3
Q ss_pred hHHHHHHHHHHHHhhhhhhhhhcccCchHHHHHHHHHH
Q 027293 121 PTKLLFFLVGFYCATAFATVIGQTGDWDILSAALAVVV 158 (225)
Q Consensus 121 Sl~LIsLL~GFflgna~sTi~Gq~g~wD~laA~iiVl~ 158 (225)
.++.++-|.|-|+|..++..+|..++-..+..+.++++
T Consensus 7 alLa~C~L~G~~lGdlLG~llGV~aNVGGVGiAMlLLi 44 (125)
T TIGR00807 7 ALLAVCHLLGVYLGNILGMALGVKANVGGVGIAMILLI 44 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCcccchHHHHHHHHH
Confidence 46789999999999999999999887766655544443
No 20
>PF01595 DUF21: Domain of unknown function DUF21; InterPro: IPR002550 This transmembrane region has no known function. Many of the sequences in this family are annotated as hemolysins, however this is due to a similarity to Q54318 from SWISSPROT that does not contain this domain. This domain is found in the N terminus of the proteins adjacent to two intracellular CBS domains (IPR000644 from INTERPRO).
Probab=30.96 E-value=2.3e+02 Score=22.73 Aligned_cols=30 Identities=17% Similarity=0.182 Sum_probs=15.6
Q ss_pred CCCccHHHHHHH---HHHHHHHHHhhhhhhhhH
Q 027293 93 NGRTRLIRVIQA---FQTRIGARIQELRKDFPT 122 (225)
Q Consensus 93 lq~TRL~rli~~---l~~~L~~~~~npWRRlSl 122 (225)
..+.|++.+.+. -.+++....++|-|-+..
T Consensus 26 l~~~~l~~~~~~~~~~a~~~~~l~~~~~~~l~t 58 (183)
T PF01595_consen 26 LSRSRLEELAEEGDKRARRLLKLLERPERLLST 58 (183)
T ss_pred cCHHHHHHHHHcCCHHHHHHHHHHhCchHHHHH
Confidence 345666666652 455555555555443333
No 21
>KOG3676 consensus Ca2+-permeable cation channel OSM-9 and related channels (OTRPC family) [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=30.93 E-value=2.4e+02 Score=30.18 Aligned_cols=64 Identities=16% Similarity=0.168 Sum_probs=40.4
Q ss_pred hHHHHHHHHHHHHHhhhhhccchhhhhhhhch---HHHHHHHHHHHHHHHHHHHHhcccchhhhcccCC
Q 027293 148 DILSAALAVVVVEGIGALMYRASLRLLSKIRN---LITMFNYWKAGLTLGLFLDSFKYEMDNIIGSCHP 213 (225)
Q Consensus 148 D~laA~iiVl~iEvis~l~YR~~~~~~~~~~l---~~~lLN~fKIGllYGLFLEAFKL~~~~~~~~~~~ 213 (225)
-++.+.-+++-+=. .++|-|..+..+.... ..-+=|.+|-.++|++|+=+|--..-=+.++|.+
T Consensus 504 ~~~lvfAl~lgW~~--~Lyf~Rgfq~~Gpf~~MIykmI~~DL~RF~~IY~Vfl~GFsqAfy~if~~~~~ 570 (782)
T KOG3676|consen 504 LALLVFALVLGWKN--LLYFTRGFQLTGPFVIMIYKMIFGDLFRFLLIYLVFLVGFSQAFYSIFQTCDR 570 (782)
T ss_pred HHHHHHHHHHHHHH--HHHHHhcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCc
Confidence 33333333333333 4788887766444333 2233488999999999999998777666666543
No 22
>TIGR02161 napC_nirT periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family. Nearly every member of this subfamily is NapC, a predicted membrane-anchored four-heme c-type cytochrome that forms one component of the periplasmic nitrate reductase along with NapA, NapB, NapD, NapE, and NapF subunits. A single known exception at this time is NirT, which is instead a component of a nitrite reductase. This family excludes TorC subunits of trimethylamine N-oxide (TMAO) reductases.
Probab=30.82 E-value=72 Score=27.76 Aligned_cols=30 Identities=20% Similarity=0.234 Sum_probs=17.8
Q ss_pred HHHHHHHhhhhhhhhHHHHHHHHHHHHhhhhh
Q 027293 107 TRIGARIQELRKDFPTKLLFFLVGFYCATAFA 138 (225)
Q Consensus 107 ~~L~~~~~npWRRlSl~LIsLL~GFflgna~s 138 (225)
+++.+++.+|+ ++++.++ +++||.+|-.+.
T Consensus 3 ~~~~~~~~k~~-~~~~~~l-l~~g~~~G~~~~ 32 (185)
T TIGR02161 3 KRFWKWLRRPS-RLALGTL-LLGGFVGGIVFW 32 (185)
T ss_pred HHHHHHHHhhH-HHHHHHH-HHHHHHHHHHHH
Confidence 45777787887 6655443 445665554443
No 23
>PRK15071 lipopolysaccharide ABC transporter permease; Provisional
Probab=30.62 E-value=1.1e+02 Score=27.68 Aligned_cols=16 Identities=6% Similarity=-0.110 Sum_probs=7.3
Q ss_pred HHhhhhhhhhHHHHHH
Q 027293 112 RIQELRKDFPTKLLFF 127 (225)
Q Consensus 112 ~~~npWRRlSl~LIsL 127 (225)
+..+-|+|++.-+.++
T Consensus 267 ~~~~l~~r~a~Pl~~~ 282 (356)
T PRK15071 267 YELAMWRKIFQPLSVA 282 (356)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3334455555443333
No 24
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=29.91 E-value=50 Score=30.92 Aligned_cols=21 Identities=33% Similarity=0.441 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHhhhhhccchhh
Q 027293 150 LSAALAVVVVEGIGALMYRASLR 172 (225)
Q Consensus 150 laA~iiVl~iEvis~l~YR~~~~ 172 (225)
++.+++++++=+| ++|||++.
T Consensus 266 liIVLIMvIIYLI--LRYRRKKK 286 (299)
T PF02009_consen 266 LIIVLIMVIIYLI--LRYRRKKK 286 (299)
T ss_pred HHHHHHHHHHHHH--HHHHHHhh
Confidence 3344444455556 67777543
No 25
>TIGR02245 HAD_IIID1 HAD-superfamily subfamily IIID hydrolase, TIGR02245. This family of sequences appears to belong to the Haloacid Dehalogenase (HAD) superfamily of enzymes by virtue of the presence of three catalytic domains, in this case: LLVLD(ILV)D(YH)T, I(VMG)IWS, and (DN)(VC)K(PA)Lx{15-17}T(IL)(MH)(FV)DD(IL)(GRS)(RK)N. Since this family has no large "cap" domain between motifs 1 and 2 or between 2 and 3, it is formally a "class III" HAD.
Probab=28.49 E-value=16 Score=31.97 Aligned_cols=20 Identities=15% Similarity=0.248 Sum_probs=17.9
Q ss_pred cchhhhcccCCeeEeeccccc
Q 027293 203 EMDNIIGSCHPFIFAIDIFPT 223 (225)
Q Consensus 203 ~~~~~~~~~~~~~~~~~~~~~ 223 (225)
++||||+.|.. +|||-|||.
T Consensus 49 ~l~eFL~~~~~-~feIvVwTA 68 (195)
T TIGR02245 49 YLHEFLTSAYE-DYDIVIWSA 68 (195)
T ss_pred CHHHHHHHHHh-CCEEEEEec
Confidence 68999999999 899999974
No 26
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=27.21 E-value=51 Score=26.29 Aligned_cols=23 Identities=17% Similarity=0.264 Sum_probs=13.8
Q ss_pred hhccchhhhhhhhchHHHHHHHHHHH
Q 027293 165 LMYRASLRLLSKIRNLITMFNYWKAG 190 (225)
Q Consensus 165 l~YR~~~~~~~~~~l~~~lLN~fKIG 190 (225)
+.+|+.+++ .+-.-++.+++|.|
T Consensus 34 ~~~RpqkK~---~k~~~~~~~~Lk~G 56 (106)
T PRK05585 34 LIIRPQQKR---QKEHKKMLSSLAKG 56 (106)
T ss_pred HhccHHHHH---HHHHHHHHHhcCCC
Confidence 445544332 33357889998876
No 27
>PF03817 MadL: Malonate transporter MadL subunit; InterPro: IPR004690 The MSS family includes the monobasic malonate:Na+ symporter of Malonomonas rubra. It consists of two integral membrane proteins, MadL and MadM. The transporter is believed to catalyze the electroneutral reversible uptake of H+-malonate with one Na+, and both subunits have been shown to be essential for activity.
Probab=26.92 E-value=1.4e+02 Score=25.10 Aligned_cols=38 Identities=11% Similarity=0.264 Sum_probs=30.0
Q ss_pred hHHHHHHHHHHHHhhhhhhhhhcccCchHHHHHHHHHH
Q 027293 121 PTKLLFFLVGFYCATAFATVIGQTGDWDILSAALAVVV 158 (225)
Q Consensus 121 Sl~LIsLL~GFflgna~sTi~Gq~g~wD~laA~iiVl~ 158 (225)
.++.++.|.|-|+|..++..+|..++-..+..+.++++
T Consensus 7 AlLa~C~l~G~~~GdlLG~llGV~aNVGGVGiAMlLLI 44 (125)
T PF03817_consen 7 ALLAICTLAGVFLGDLLGALLGVKANVGGVGIAMLLLI 44 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCcccccHHHHHHHHH
Confidence 57789999999999999999999887766655444433
No 28
>PTZ00046 rifin; Provisional
Probab=26.31 E-value=62 Score=31.30 Aligned_cols=19 Identities=32% Similarity=0.511 Sum_probs=11.1
Q ss_pred HHHHHHHHHhhhhhccchhhh
Q 027293 153 ALAVVVVEGIGALMYRASLRL 173 (225)
Q Consensus 153 ~iiVl~iEvis~l~YR~~~~~ 173 (225)
.++.+++=+| |||||++.-
T Consensus 328 VLIMvIIYLI--LRYRRKKKM 346 (358)
T PTZ00046 328 VLIMVIIYLI--LRYRRKKKM 346 (358)
T ss_pred HHHHHHHHHH--HHhhhcchh
Confidence 3334455566 788887544
No 29
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=26.08 E-value=64 Score=31.18 Aligned_cols=21 Identities=29% Similarity=0.422 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHhhhhhccchhhh
Q 027293 151 SAALAVVVVEGIGALMYRASLRL 173 (225)
Q Consensus 151 aA~iiVl~iEvis~l~YR~~~~~ 173 (225)
+..++.+++=+| |||||++.-
T Consensus 321 vIVLIMvIIYLI--LRYRRKKKM 341 (353)
T TIGR01477 321 IIVLIMVIIYLI--LRYRRKKKM 341 (353)
T ss_pred HHHHHHHHHHHH--HHhhhcchh
Confidence 333344455566 788887544
No 30
>PRK10617 cytochrome c-type protein NapC; Provisional
Probab=25.95 E-value=1e+02 Score=27.25 Aligned_cols=31 Identities=16% Similarity=0.217 Sum_probs=18.5
Q ss_pred HHHHHHHhhhhhhhhHHHHHHHHHHHHhhhhhh
Q 027293 107 TRIGARIQELRKDFPTKLLFFLVGFYCATAFAT 139 (225)
Q Consensus 107 ~~L~~~~~npWRRlSl~LIsLL~GFflgna~sT 139 (225)
+++.+|+.+|+ ++++.+ .+++||.+|-.+.+
T Consensus 12 ~~~~~~~~k~~-~~~l~~-lll~g~~~G~~~~~ 42 (200)
T PRK10617 12 KRLWKWWRTPS-RLALGT-LLLIGFVGGIIFWG 42 (200)
T ss_pred HHHHHHHHhhH-HHHHHH-HHHHHHHHHHHHHH
Confidence 45677777777 444433 34567766655444
No 31
>TIGR02251 HIF-SF_euk Dullard-like phosphatase domain. This domain is related to domains found in FCP1-like phosphatases (TIGR02250), and together both are detected by the Pfam model pfam03031.
Probab=25.15 E-value=21 Score=29.34 Aligned_cols=20 Identities=15% Similarity=0.499 Sum_probs=16.3
Q ss_pred cchhhhcccCCeeEeeccccc
Q 027293 203 EMDNIIGSCHPFIFAIDIFPT 223 (225)
Q Consensus 203 ~~~~~~~~~~~~~~~~~~~~~ 223 (225)
|++|||+.|.++ |+|-|||.
T Consensus 46 gl~eFL~~l~~~-yei~I~Ts 65 (162)
T TIGR02251 46 HVDEFLERVSKW-YELVIFTA 65 (162)
T ss_pred CHHHHHHHHHhc-CEEEEEcC
Confidence 678899999887 88888863
No 32
>PF13150 DUF3989: Protein of unknown function (DUF3989)
Probab=24.98 E-value=2.1e+02 Score=22.13 Aligned_cols=19 Identities=11% Similarity=0.274 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHhhhhhhhh
Q 027293 103 QAFQTRIGARIQELRKDFP 121 (225)
Q Consensus 103 ~~l~~~L~~~~~npWRRlS 121 (225)
..+.+++..++++-|+++|
T Consensus 5 ~~~~~~~~~~Lr~~c~~Ls 23 (85)
T PF13150_consen 5 RKIKDRADDRLRRYCGRLS 23 (85)
T ss_pred HHHHHHHHHHHHHHHhcCC
Confidence 3444445555555555444
No 33
>PF04246 RseC_MucC: Positive regulator of sigma(E), RseC/MucC; InterPro: IPR007359 This bacterial family of integral membrane proteins represents a positive regulator of the sigma(E) transcription factor, namely RseC/MucC. The sigma(E) transcription factor is up-regulated by cell envelope protein misfolding, and regulates the expression of genes that are collectively termed ECF (devoted to Extra-Cellular Functions) []. In Pseudomonas aeruginosa, derepression of sigma(E) is associated with the alginate-overproducing phenotype characteristic of chronic respiratory tract colonization in cystic fibrosis patients. The mechanism by which RseC/MucC positively regulates the sigma(E) transcription factor is unknown. RseC is also thought to have a role in thiamine biosynthesis in Salmonella typhimurium []. In addition, this family also includes an N-terminal part of RnfF, a Rhodobacter capsulatus protein, of unknown function, that is essential for nitrogen fixation. This protein also contains a domain found in ApbE protein IPR003374 from INTERPRO, which is itself involved in thiamine biosynthesis.
Probab=24.94 E-value=1.2e+02 Score=24.10 Aligned_cols=43 Identities=23% Similarity=0.238 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHhhhhhhhhhcccCchHHHHHHHHHHHHHhhhhhcc
Q 027293 122 TKLLFFLVGFYCATAFATVIGQTGDWDILSAALAVVVVEGIGALMYR 168 (225)
Q Consensus 122 l~LIsLL~GFflgna~sTi~Gq~g~wD~laA~iiVl~iEvis~l~YR 168 (225)
+=++.+++|.++|+.++.. ..|-++++++.+++.=++.+.+.|
T Consensus 77 lPll~li~g~~l~~~~~~~----e~~~~l~~l~~l~~~~~~~~~~~~ 119 (135)
T PF04246_consen 77 LPLLALIAGAVLGSYLGGS----ELWAILGGLLGLALGFLILRLFDR 119 (135)
T ss_pred HHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3455566666666655543 444555555555555555444433
No 34
>PF01544 CorA: CorA-like Mg2+ transporter protein; InterPro: IPR002523 The CorA transport system is the primary Mg2+ influx system of Salmonella typhimurium and Escherichia coli [, ]. CorA is virtually ubiquitous in the Bacteria and Archaea. There are also eukaryotic relatives of this protein. Transporter ZntB mediates efflux of zinc ions [].; GO: 0046873 metal ion transmembrane transporter activity, 0030001 metal ion transport, 0055085 transmembrane transport, 0016020 membrane; PDB: 2HN1_A 3NWI_D 3NVO_B 3CK6_A 2IUB_E 2BBJ_E 2HN2_A 2BBH_A.
Probab=24.33 E-value=1.7e+02 Score=25.00 Aligned_cols=23 Identities=17% Similarity=0.335 Sum_probs=10.5
Q ss_pred hHHHHHHHHHHHHh-hhhhhhhhc
Q 027293 121 PTKLLFFLVGFYCA-TAFATVIGQ 143 (225)
Q Consensus 121 Sl~LIsLL~GFflg-na~sTi~Gq 143 (225)
.+..++.+.-.|+- +.++.++|.
T Consensus 233 ~m~~LT~~t~iflPlt~i~g~fGM 256 (292)
T PF01544_consen 233 VMKVLTIVTAIFLPLTFITGIFGM 256 (292)
T ss_dssp HHHHHHHHHHHHHHHHHHTTSTTS
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhC
Confidence 33444444444444 445555543
No 35
>PF06738 DUF1212: Protein of unknown function (DUF1212); InterPro: IPR010619 This entry represents a predicted domain found within a number of hypothetical proteins of unknown function found in eukaryotes, bacteria and archaea. Some of these sequences are predicted to be membrane proteins.
Probab=23.54 E-value=4.2e+02 Score=21.86 Aligned_cols=84 Identities=21% Similarity=0.275 Sum_probs=45.0
Q ss_pred HHHHHHHHhhhhhhhhHHHHHHHHHHHHhhhhhhhhhcccCchHHHHHHHHHHHHHhhhhhccchhhhhhhhchHHHHHH
Q 027293 106 QTRIGARIQELRKDFPTKLLFFLVGFYCATAFATVIGQTGDWDILSAALAVVVVEGIGALMYRASLRLLSKIRNLITMFN 185 (225)
Q Consensus 106 ~~~L~~~~~npWRRlSl~LIsLL~GFflgna~sTi~Gq~g~wD~laA~iiVl~iEvis~l~YR~~~~~~~~~~l~~~lLN 185 (225)
.++|++--+.| .+.+..+..+-.| ..+..++..+|- +-+|.++|+++-++.=++..+.-|++. .....+.+-
T Consensus 88 ~~~L~~I~~~~-~~y~~~~~~l~~~-l~~~~fa~lfgg-~~~~~~~a~i~g~~~~~~~~~~~r~~~-----~~~~~~~~a 159 (193)
T PF06738_consen 88 IERLDEIDREP-PRYPPWLVILAAG-LASAAFALLFGG-SWIDMIVAFILGLLVGLLRQLLSRRRL-----NSFIQEFIA 159 (193)
T ss_pred HHHHHHHhhCC-CCCCHHHHHHHHH-HHHHHHHHHHCC-CHHHHHHHHHHHHHHHHHHHHHHhccc-----hHHHHHHHH
Confidence 34444444444 3444443333333 333355555442 245777777776666666443322222 345677788
Q ss_pred HHHHHHHHHHHH
Q 027293 186 YWKAGLTLGLFL 197 (225)
Q Consensus 186 ~fKIGllYGLFL 197 (225)
.+=.|++..++.
T Consensus 160 a~~~~~~a~~~~ 171 (193)
T PF06738_consen 160 AFLASLLAALLA 171 (193)
T ss_pred HHHHHHHHHHHH
Confidence 888888777776
No 36
>COG4064 MtrG Tetrahydromethanopterin S-methyltransferase, subunit G [Coenzyme metabolism]
Probab=23.08 E-value=50 Score=25.44 Aligned_cols=11 Identities=27% Similarity=0.649 Sum_probs=8.3
Q ss_pred HHHHHHHHHHH
Q 027293 188 KAGLTLGLFLD 198 (225)
Q Consensus 188 KIGllYGLFLE 198 (225)
-||++||+++-
T Consensus 49 DIGILYGlVIG 59 (75)
T COG4064 49 DIGILYGLVIG 59 (75)
T ss_pred hHHHHHHHHHH
Confidence 47889988763
No 37
>PF11683 DUF3278: Protein of unknown function (DUF3278); InterPro: IPR021697 This bacterial family of proteins has no known function.
Probab=22.68 E-value=4.1e+02 Score=21.37 Aligned_cols=17 Identities=29% Similarity=0.311 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHHH
Q 027293 181 ITMFNYWKAGLTLGLFL 197 (225)
Q Consensus 181 ~~lLN~fKIGllYGLFL 197 (225)
..-...+|+|+.+|++.
T Consensus 107 ~~~~~~i~~Gi~~~l~~ 123 (129)
T PF11683_consen 107 KLRKKGIKAGIFFGLIM 123 (129)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34567899999999874
No 38
>PRK11056 hypothetical protein; Provisional
Probab=22.43 E-value=3.7e+02 Score=22.48 Aligned_cols=79 Identities=16% Similarity=0.134 Sum_probs=53.0
Q ss_pred hhhhhhhHHHHHHHHHHHHhhhhhhhhhcccCchHHHHHHHHHHHHHhhhhhccchhhhhhhhchHHHHHHHHHHHH-HH
Q 027293 115 ELRKDFPTKLLFFLVGFYCATAFATVIGQTGDWDILSAALAVVVVEGIGALMYRASLRLLSKIRNLITMFNYWKAGL-TL 193 (225)
Q Consensus 115 npWRRlSl~LIsLL~GFflgna~sTi~Gq~g~wD~laA~iiVl~iEvis~l~YR~~~~~~~~~~l~~~lLN~fKIGl-lY 193 (225)
++.+....++++++.|.-.-..+++..-....+.++--+.+|+.+.-. |.+-.+..-.-.......-+|=+|+ .|
T Consensus 4 ~~~~ek~tLlLaliaGl~~ng~fs~Lf~s~VpFSiFPlIaLvLavycL----yQ~Yl~~~m~eg~P~~a~acFflG~f~y 79 (120)
T PRK11056 4 QSRQEKGTLLLALIAGLSINGTFAALFSSIVPFSIFPLIALVLAVYCL----HQRYLNRPMPEGLPGLAAACFFLGVFLY 79 (120)
T ss_pred ccccchhhHHHHHHHHHhhchhhHHHHccccccHHHHHHHHHHHHHHH----HHHHhcCCCCCCChHHHHHHHHHHHHHH
Confidence 456677889999999999999999998888888888777777777665 3332221111223455666676764 35
Q ss_pred HHHH
Q 027293 194 GLFL 197 (225)
Q Consensus 194 GLFL 197 (225)
.=|+
T Consensus 80 SA~v 83 (120)
T PRK11056 80 SAFV 83 (120)
T ss_pred HHHH
Confidence 4444
No 39
>PF01219 DAGK_prokar: Prokaryotic diacylglycerol kinase; InterPro: IPR000829 Diacylglycerol kinase (2.7.1.107 from EC) (DAGK) is an enzyme that catalyses the formation of phosphatidic acid from diacylglycerol and ATP, an important step in phospholipid biosynthesis. In bacteria DAGK is very small (13 to 15 kD) membrane protein which seems to contain three transmembrane domains []. The best conserved region, is a stretch of 12 residues which are located in a cytoplasmic loop between the second and third transmembrane domains.; GO: 0004143 diacylglycerol kinase activity, 0008654 phospholipid biosynthetic process, 0016020 membrane; PDB: 2KDC_B.
Probab=22.12 E-value=1.8e+02 Score=22.96 Aligned_cols=45 Identities=16% Similarity=0.388 Sum_probs=28.3
Q ss_pred hhhhhhhHHHHHHHHHHHHhhhhhhhhhcccCc-hHHHHHHHHHHHHHhhhhh
Q 027293 115 ELRKDFPTKLLFFLVGFYCATAFATVIGQTGDW-DILSAALAVVVVEGIGALM 166 (225)
Q Consensus 115 npWRRlSl~LIsLL~GFflgna~sTi~Gq~g~w-D~laA~iiVl~iEvis~l~ 166 (225)
|-+..+...++.+..|++++-+. .+| =.+.+..+|+..|++|--.
T Consensus 17 ~fr~~~~~~~~v~~~~~~l~~s~-------~ew~~li~~~~~Vl~~EllNTAI 62 (104)
T PF01219_consen 17 NFRIHLVAAVLVLIAAFFLGLSP-------WEWALLILAIFLVLIAELLNTAI 62 (104)
T ss_dssp HHHHHHHHHHHHHHHHHH------------SHHHHHHHHHHHHHHHHTHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHccH-------HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33556677888888888887533 233 2466778899999987654
No 40
>PF07226 DUF1422: Protein of unknown function (DUF1422); InterPro: IPR009867 This family consists of several hypothetical bacterial proteins of around 120 residues in length. The function of this family is unknown.
Probab=22.11 E-value=3.6e+02 Score=22.47 Aligned_cols=78 Identities=18% Similarity=0.227 Sum_probs=52.5
Q ss_pred hhhhhhHHHHHHHHHHHHhhhhhhhhhcccCchHHHHHHHHHHHHHhhhhhccchhhhhhhhchHHHHHHHHHHHH-HHH
Q 027293 116 LRKDFPTKLLFFLVGFYCATAFATVIGQTGDWDILSAALAVVVVEGIGALMYRASLRLLSKIRNLITMFNYWKAGL-TLG 194 (225)
Q Consensus 116 pWRRlSl~LIsLL~GFflgna~sTi~Gq~g~wD~laA~iiVl~iEvis~l~YR~~~~~~~~~~l~~~lLN~fKIGl-lYG 194 (225)
+.+....++++++.|.-.-..+++..-..-.+.++--+-+|+.+.-. |.+-.+..-.-......+-+|=+|+ .|.
T Consensus 5 ~~~ek~tLlLaliaGl~~n~~~s~L~~s~VpFSiFPlIaLvLavy~L----yQ~Yl~~~m~eg~P~~a~acFflG~f~yS 80 (117)
T PF07226_consen 5 NRSEKKTLLLALIAGLCGNATFSALFSSEVPFSIFPLIALVLAVYCL----YQRYLNHPMPEGTPKLALACFFLGLFGYS 80 (117)
T ss_pred cCCchhhHHHHHHHHHhccchhHHHHhcccccHHHHHHHHHHHHHHH----HHHHhcCCCCCCChHHHHHHHHHHHHHHH
Confidence 35566889999999999999999999888888888777777777765 3332211111223556666777775 344
Q ss_pred HHH
Q 027293 195 LFL 197 (225)
Q Consensus 195 LFL 197 (225)
=|+
T Consensus 81 A~v 83 (117)
T PF07226_consen 81 AFV 83 (117)
T ss_pred HHH
Confidence 444
No 41
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=21.89 E-value=2.1e+02 Score=21.53 Aligned_cols=28 Identities=11% Similarity=0.058 Sum_probs=15.7
Q ss_pred HHHHHHHh-hhhhhhhHHHHHHHHHHHHhhhh
Q 027293 107 TRIGARIQ-ELRKDFPTKLLFFLVGFYCATAF 137 (225)
Q Consensus 107 ~~L~~~~~-npWRRlSl~LIsLL~GFflgna~ 137 (225)
....++++ +||.- ..|++.+||.+|-.+
T Consensus 63 ~~~~~~V~e~P~~s---vgiAagvG~llG~Ll 91 (94)
T PF05957_consen 63 EQTEDYVRENPWQS---VGIAAGVGFLLGLLL 91 (94)
T ss_pred HHHHHHHHHChHHH---HHHHHHHHHHHHHHH
Confidence 33444444 66765 455666777766543
No 42
>PRK13747 putative mercury resistance protein; Provisional
Probab=21.70 E-value=1.3e+02 Score=23.47 Aligned_cols=46 Identities=17% Similarity=0.295 Sum_probs=34.8
Q ss_pred hhhhhhhHHHHH---------HHHHHHHhhhhhhhhhcccCchHHHHHHHHHHHHHh
Q 027293 115 ELRKDFPTKLLF---------FLVGFYCATAFATVIGQTGDWDILSAALAVVVVEGI 162 (225)
Q Consensus 115 npWRRlSl~LIs---------LL~GFflgna~sTi~Gq~g~wD~laA~iiVl~iEvi 162 (225)
+||+-..+.+.+ +|.+...|++.+.+++. .|++.+..+.++|.=-+
T Consensus 13 ~~~~~YlWg~lAvLTCPCHLpiLa~lLAGTa~Gafl~e--~w~iaal~lt~LFvlsl 67 (78)
T PRK13747 13 KPITGYLWGALAVLTCPCHLPILAAVLAGTTAGAFLGE--HWGIAALTLTGLFVLSV 67 (78)
T ss_pred CcchhhhhHHHHHhcCcchHHHHHHHHccchHHHHHHH--hHHHHHHHHHHHHHHHH
Confidence 666666666554 56888899999988876 88888888887776555
No 43
>PF02674 Colicin_V: Colicin V production protein; InterPro: IPR003825 Colicin V is a small extracellular protein toxin which kills sensitive cells by disrupting their membrane potential []. Colicin V is produced from large low-copy plasmids and requires four plasmid genes for synthesis export and immunity [ 3034857). The cvaC gene is the structural gene for colicin V and cvaA and cvaB are required for processing and export of the toxin through the inner and outer membranes cvi confers immunity to the host cell. There are several stages at which host factors could play a role in colicin V production and mutations that alter any of these functions should result in lowered levels of extracellular colicin V ]. Colicin V production protein is required in Escherichia coli for colicin V production from plasmid pColV-K30 []. This entry represent the CvpA protein, which is involved in colicin V production. It is coded for by the cvpA gene, which is found upstream of the purF gene in the purF operon []. ; GO: 0009403 toxin biosynthetic process, 0016020 membrane
Probab=20.35 E-value=4.2e+02 Score=20.61 Aligned_cols=33 Identities=15% Similarity=0.237 Sum_probs=18.0
Q ss_pred HHHHHhhhhhhhhHHHHHHHHHHHHhhhhhhhhh
Q 027293 109 IGARIQELRKDFPTKLLFFLVGFYCATAFATVIG 142 (225)
Q Consensus 109 L~~~~~npWRRlSl~LIsLL~GFflgna~sTi~G 142 (225)
+..+.++.+|. .+.+++++.|+++|..+....+
T Consensus 14 ~~G~~rG~~~~-~~~l~~~i~a~~~a~~~~~~~~ 46 (146)
T PF02674_consen 14 IKGYRRGFIRE-LFSLIGLIVALFVAFLFYPPLA 46 (146)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444433 3556667777777666655444
Done!