Query 031338
Match_columns 161
No_of_seqs 114 out of 132
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 12:40:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031338.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031338hhsearch_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 2.1E-25 4.6E-30 153.5 6.4 57 105-161 1-60 (60)
2 TIGR00870 trp transient-recept 71.1 36 0.00079 32.3 9.5 101 59-159 403-524 (743)
3 COG3619 Predicted membrane pro 62.8 42 0.00091 28.7 7.4 51 63-113 148-205 (226)
4 PF05957 DUF883: Bacterial pro 60.6 25 0.00055 25.1 5.0 35 62-99 56-91 (94)
5 PF11982 DUF3483: Domain of un 46.5 49 0.0011 28.6 5.2 26 76-101 125-150 (224)
6 PF11712 Vma12: Endoplasmic re 45.7 43 0.00092 25.9 4.4 21 112-132 117-137 (142)
7 PRK13747 putative mercury resi 45.7 48 0.0011 24.4 4.4 52 75-128 11-71 (78)
8 COG0818 DgkA Diacylglycerol ki 43.6 1.5E+02 0.0033 23.3 7.2 68 54-127 5-75 (123)
9 KOG3609 Receptor-activated Ca2 40.7 2.6E+02 0.0055 28.6 9.8 95 66-160 405-521 (822)
10 TIGR02161 napC_nirT periplasmi 39.1 51 0.0011 27.2 4.1 30 69-100 3-32 (185)
11 PF11833 DUF3353: Protein of u 38.6 98 0.0021 25.7 5.8 32 74-105 135-166 (194)
12 PRK15071 lipopolysaccharide AB 38.3 1E+02 0.0022 26.5 6.1 8 77-84 270-277 (356)
13 PRK10404 hypothetical protein; 37.9 66 0.0014 24.1 4.2 32 65-99 66-98 (101)
14 COG4575 ElaB Uncharacterized c 37.2 81 0.0018 24.3 4.7 38 58-95 62-101 (104)
15 PF04246 RseC_MucC: Positive r 36.9 88 0.0019 23.6 4.9 44 84-131 77-120 (135)
16 COG3086 RseC Positive regulato 34.3 1.3E+02 0.0029 24.6 5.7 52 77-128 73-124 (150)
17 PF05052 MerE: MerE protein; 32.9 92 0.002 22.8 4.1 49 77-127 13-70 (75)
18 TIGR00807 malonate_madL malona 32.6 1.1E+02 0.0024 24.3 4.9 36 83-118 7-42 (125)
19 PRK10132 hypothetical protein; 32.5 90 0.0019 23.7 4.3 32 65-99 72-104 (108)
20 COG2966 Uncharacterized conser 32.3 3.3E+02 0.0071 23.4 8.6 47 68-118 110-156 (250)
21 PF06912 DUF1275: Protein of u 30.9 2.1E+02 0.0045 22.8 6.4 35 84-118 166-201 (209)
22 PRK10617 cytochrome c-type pro 30.8 81 0.0017 26.4 4.1 31 69-101 12-42 (200)
23 PF06738 DUF1212: Protein of u 30.1 2.7E+02 0.0059 21.8 9.9 91 55-154 79-171 (193)
24 PF03739 YjgP_YjgQ: Predicted 29.9 2.2E+02 0.0047 24.1 6.6 25 93-117 315-339 (354)
25 TIGR00400 mgtE Mg2+ transporte 29.8 2.4E+02 0.0053 25.6 7.3 30 80-109 283-312 (449)
26 PF07694 5TM-5TMR_LYT: 5TMR of 29.0 2.5E+02 0.0055 21.2 6.3 48 80-127 47-98 (169)
27 PF03817 MadL: Malonate transp 28.2 1.4E+02 0.003 23.8 4.8 34 83-116 7-40 (125)
28 PF11808 DUF3329: Domain of un 25.6 2.6E+02 0.0056 20.1 5.6 23 76-98 2-29 (90)
29 PF06645 SPC12: Microsomal sig 25.5 2E+02 0.0042 20.4 4.8 43 84-132 20-62 (76)
30 PF02674 Colicin_V: Colicin V 25.5 2.8E+02 0.006 20.4 6.7 33 71-104 14-46 (146)
31 COG3739 Uncharacterized integr 25.0 47 0.001 29.2 1.8 32 80-111 190-229 (263)
32 PF09911 DUF2140: Uncharacteri 25.0 68 0.0015 26.2 2.6 21 77-97 1-21 (187)
33 PF05961 Chordopox_A13L: Chord 24.1 1.1E+02 0.0025 21.9 3.3 24 110-133 4-27 (68)
34 COG4064 MtrG Tetrahydromethano 23.6 50 0.0011 24.1 1.4 10 145-154 49-58 (75)
35 PF13807 GNVR: G-rich domain o 22.9 1.2E+02 0.0026 21.0 3.2 21 80-100 57-77 (82)
36 PF06177 QueT: QueT transporte 22.9 3.5E+02 0.0075 21.6 6.3 41 86-130 46-86 (152)
37 PRK11056 hypothetical protein; 22.4 4E+02 0.0086 21.1 7.7 79 77-155 4-84 (120)
38 PF06305 DUF1049: Protein of u 21.6 1.2E+02 0.0026 20.0 2.9 20 82-101 21-40 (68)
39 PF12732 YtxH: YtxH-like prote 21.1 66 0.0014 22.1 1.6 15 90-104 2-16 (74)
40 PF05675 DUF817: Protein of un 20.9 56 0.0012 28.5 1.4 26 79-104 178-205 (235)
41 PF09964 DUF2198: Uncharacteri 20.1 1.2E+02 0.0027 22.0 2.9 27 73-99 41-67 (74)
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=99.92 E-value=2.1e-25 Score=153.52 Aligned_cols=57 Identities=53% Similarity=0.869 Sum_probs=53.6
Q ss_pred ccccchHHHHHHHHHHHHHHHHHhccCCCC---CchhhhhhHHHHHHHHHHHHHHhccCC
Q 031338 105 ALGVNDVIAAVLCVLLTEYVTRFYYSRPKV---TFPLALLNNFKMGFTYGLFIDAFKLAS 161 (161)
Q Consensus 105 q~g~wD~l~A~liVl~~Evi~rl~Y~r~~~---~l~~~lLN~fKIGllYGLflEAFKLGS 161 (161)
|+|+|||++|+++|+++|++++++|+++++ +++++++|+||||++||||+|||||||
T Consensus 1 Q~g~wD~i~a~~iv~~~E~i~~l~Y~~~~~~~~~~~~~~lN~~KiGl~YgLfleAFKLGS 60 (60)
T PF04483_consen 1 QTGDWDVIAAAIIVLFIEVISRLRYSKPKKKRKSLLVELLNNFKIGLLYGLFLEAFKLGS 60 (60)
T ss_pred CCchhHHHHHHHHHHHHHHHHHHhhccccccccchHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 789999999999999999999999997643 478999999999999999999999998
No 2
>TIGR00870 trp transient-receptor-potential calcium channel protein. after chronic exposure to capsaicin. (McCleskey and Gold, 1999).
Probab=71.11 E-value=36 Score=32.33 Aligned_cols=101 Identities=14% Similarity=0.115 Sum_probs=55.2
Q ss_pred hHHHHHHHhhHHHHhHhhcchhhhHHHHHHHHHHHHHHHHHHhhhhc------cc----------cchHHHHHHHHHHHH
Q 031338 59 RLVDIVRLVPELSRNYFRSPSRRALFGGISLLGGFYVAQTISLSFGA------LG----------VNDVIAAVLCVLLTE 122 (161)
Q Consensus 59 RL~~ii~~~~~~l~~~~~nPWRR~Sl~lIsLL~GFflg~~ist~~Gq------~g----------~wD~l~A~liVl~~E 122 (161)
++......+-..+..|+++.|.-.-+..+++.+..++...+..+... .. ....++.++++.++-
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 44455555666677889998877666555554444433333322111 11 122344444444444
Q ss_pred HHHHHhccCC---C-CCchhhhh-hHHHHHHHHHHHHHHhcc
Q 031338 123 YVTRFYYSRP---K-VTFPLALL-NNFKMGFTYGLFIDAFKL 159 (161)
Q Consensus 123 vi~rl~Y~r~---~-~~l~~~lL-N~fKIGllYGLflEAFKL 159 (161)
++-.++..+. . .++...+. |.+|..++|.+|+=||=.
T Consensus 483 ll~~~~~~~~lGp~~i~l~~mi~~dl~~F~~i~~v~l~aF~~ 524 (743)
T TIGR00870 483 LLYIFRGNQHLGPLQIMIGRMILGDILRFLFIYAVVLFGFAC 524 (743)
T ss_pred HHHHHhhchhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4433322221 1 11334667 999999999999999843
No 3
>COG3619 Predicted membrane protein [Function unknown]
Probab=62.81 E-value=42 Score=28.66 Aligned_cols=51 Identities=18% Similarity=0.059 Sum_probs=27.8
Q ss_pred HHHHhhHHHHhHhhc---c----hhhhHHHHHHHHHHHHHHHHHHhhhhccccchHHH
Q 031338 63 IVRLVPELSRNYFRS---P----SRRALFGGISLLGGFYVAQTISLSFGALGVNDVIA 113 (161)
Q Consensus 63 ii~~~~~~l~~~~~n---P----WRR~Sl~lIsLL~GFflg~~ist~~Gq~g~wD~l~ 113 (161)
-+++.++.+.+|+.. + |.+......++..|-.+|+.++..+|....|-|.+
T Consensus 148 nl~~~~~~l~~~l~~k~~~~~~~~~~~~~~il~f~~GAi~g~ll~~~~g~~al~~~~~ 205 (226)
T COG3619 148 NLKSAGRGLGRYLSGKDKEKLRDWLIYLSLILSFIVGAICGALLTLFFGLKALWVVAA 205 (226)
T ss_pred hHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence 355666777777765 4 44444444455555555555555555555554433
No 4
>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=60.59 E-value=25 Score=25.11 Aligned_cols=35 Identities=26% Similarity=0.450 Sum_probs=23.5
Q ss_pred HHHHHhhHHHHhHhh-cchhhhHHHHHHHHHHHHHHHHH
Q 031338 62 DIVRLVPELSRNYFR-SPSRRALFGGISLLGGFYVAQTI 99 (161)
Q Consensus 62 ~ii~~~~~~l~~~~~-nPWRR~Sl~lIsLL~GFflg~~i 99 (161)
+-.+.......+|.+ |||.-. .|++.+||.+|-.+
T Consensus 56 ~~~~~~~~~~~~~V~e~P~~sv---giAagvG~llG~Ll 91 (94)
T PF05957_consen 56 EQAREAAEQTEDYVRENPWQSV---GIAAGVGFLLGLLL 91 (94)
T ss_pred HHHHHHHHHHHHHHHHChHHHH---HHHHHHHHHHHHHH
Confidence 334455667777875 899984 44777777777654
No 5
>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=46.52 E-value=49 Score=28.61 Aligned_cols=26 Identities=19% Similarity=0.243 Sum_probs=23.2
Q ss_pred hcchhhhHHHHHHHHHHHHHHHHHHh
Q 031338 76 RSPSRRALFGGISLLGGFYVAQTISL 101 (161)
Q Consensus 76 ~nPWRR~Sl~lIsLL~GFflg~~ist 101 (161)
++||-|++..+.++-.|||+.+....
T Consensus 125 ~G~w~rLP~sL~afa~g~~l~tL~~a 150 (224)
T PF11982_consen 125 KGPWMRLPKSLLAFALGFFLATLPAA 150 (224)
T ss_pred CCChhHhHHHHHHHHHHHHHHHHHhh
Confidence 68999999999999999999888654
No 6
>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=45.70 E-value=43 Score=25.89 Aligned_cols=21 Identities=33% Similarity=0.401 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHhccCC
Q 031338 112 IAAVLCVLLTEYVTRFYYSRP 132 (161)
Q Consensus 112 l~A~liVl~~Evi~rl~Y~r~ 132 (161)
+.++++|++.|+.....|.++
T Consensus 117 l~~al~vlvAEv~l~~~y~~k 137 (142)
T PF11712_consen 117 LFGALLVLVAEVVLYIRYLRK 137 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 567788999999988887643
No 7
>PRK13747 putative mercury resistance protein; Provisional
Probab=45.66 E-value=48 Score=24.37 Aligned_cols=52 Identities=23% Similarity=0.302 Sum_probs=39.5
Q ss_pred hhcchhhhHHHHHH---------HHHHHHHHHHHHhhhhccccchHHHHHHHHHHHHHHHHHh
Q 031338 75 FRSPSRRALFGGIS---------LLGGFYVAQTISLSFGALGVNDVIAAVLCVLLTEYVTRFY 128 (161)
Q Consensus 75 ~~nPWRR~Sl~lIs---------LL~GFflg~~ist~~Gq~g~wD~l~A~liVl~~Evi~rl~ 128 (161)
-.+||+-..|.+.+ +|.+.+.|++.+.+++. .|++.+..+..+|.=-+.+..
T Consensus 11 ~~~~~~~YlWg~lAvLTCPCHLpiLa~lLAGTa~Gafl~e--~w~iaal~lt~LFvlsl~~~l 71 (78)
T PRK13747 11 THKPITGYLWGALAVLTCPCHLPILAAVLAGTTAGAFLGE--HWGIAALTLTGLFVLSVTRLL 71 (78)
T ss_pred hcCcchhhhhHHHHHhcCcchHHHHHHHHccchHHHHHHH--hHHHHHHHHHHHHHHHHHHHH
Confidence 35688887777665 45888889999888775 889888888888876666653
No 8
>COG0818 DgkA Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]
Probab=43.62 E-value=1.5e+02 Score=23.34 Aligned_cols=68 Identities=18% Similarity=0.215 Sum_probs=46.0
Q ss_pred CCCcchHHHHHHHhhHHHHhHhhc--chhh-hHHHHHHHHHHHHHHHHHHhhhhccccchHHHHHHHHHHHHHHHHH
Q 031338 54 NGGPRRLVDIVRLVPELSRNYFRS--PSRR-ALFGGISLLGGFYVAQTISLSFGALGVNDVIAAVLCVLLTEYVTRF 127 (161)
Q Consensus 54 ~~g~tRL~~ii~~~~~~l~~~~~n--PWRR-~Sl~lIsLL~GFflg~~ist~~Gq~g~wD~l~A~liVl~~Evi~rl 127 (161)
..|.||+.+...---+-+..-+++ ..|- ....+..+-+|||++.+.-.. .=.+.+.++|+..|++|--
T Consensus 5 ~~g~~rl~~a~~ys~~Gl~~a~~~E~afR~e~~~~~~~i~~~~~l~~~~~e~------lll~~si~lvl~vEllNTA 75 (123)
T COG0818 5 TTGFRRLIKAFGYSLKGLKAAWKEEAAFRQELLAALVALVLAFFLGVSAIEW------LLLILSIFLVLIVELLNTA 75 (123)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhCCcHHHH------HHHHHHHHHHHHHHHHHHH
Confidence 356788888887666666666653 3455 555677778888887663322 1246778888999998764
No 9
>KOG3609 consensus Receptor-activated Ca2+-permeable cation channels (STRPC family) [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=40.68 E-value=2.6e+02 Score=28.59 Aligned_cols=95 Identities=15% Similarity=0.121 Sum_probs=59.5
Q ss_pred HhhHHHHhHhhcchhhhHHHHHHHHHHHHHHHHHHhhhhcc--------ccc---hH-------HHHHHHHHHHHHHHHH
Q 031338 66 LVPELSRNYFRSPSRRALFGGISLLGGFYVAQTISLSFGAL--------GVN---DV-------IAAVLCVLLTEYVTRF 127 (161)
Q Consensus 66 ~~~~~l~~~~~nPWRR~Sl~lIsLL~GFflg~~ist~~Gq~--------g~w---D~-------l~A~liVl~~Evi~rl 127 (161)
-...-..+|+.+.|+-+.++.+++.+--|+.=+.+-.--.. -.| || +|++.+.-+.+++-.+
T Consensus 405 lw~~G~~~y~~~~Wn~lDf~m~siyl~s~~lr~~a~~~~~~~~~~~~~R~~W~~~dp~ll~E~lfAiA~V~S~lrl~~i~ 484 (822)
T KOG3609|consen 405 LWRVGRDGYLAFWWNWLDFAMISIYLASFILRAVAWGKREAFDPSSVDRMHWPSFDPSLLAEGLFAIANVLSFLKLFYIF 484 (822)
T ss_pred HHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccchhhCCCCcHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34456778889999999999999877666655543221111 234 33 2333333444443332
Q ss_pred hccC---C-CCCchhhhhhHHHHHHHHHHHHHHhccC
Q 031338 128 YYSR---P-KVTFPLALLNNFKMGFTYGLFIDAFKLA 160 (161)
Q Consensus 128 ~Y~r---~-~~~l~~~lLN~fKIGllYGLflEAFKLG 160 (161)
--+. | +.++.-.+.|-+|.=++|-+++-||-.|
T Consensus 485 t~n~~lGPlqISlGrmv~Di~kF~~I~~lvl~aF~iG 521 (822)
T KOG3609|consen 485 TMNPSLGPLQISLGRMVGDIYKFLFIFVLVLVAFSIG 521 (822)
T ss_pred hccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 2121 1 2235568899999999999999999877
No 10
>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=39.05 E-value=51 Score=27.17 Aligned_cols=30 Identities=33% Similarity=0.540 Sum_probs=18.4
Q ss_pred HHHHhHhhcchhhhHHHHHHHHHHHHHHHHHH
Q 031338 69 ELSRNYFRSPSRRALFGGISLLGGFYVAQTIS 100 (161)
Q Consensus 69 ~~l~~~~~nPWRR~Sl~lIsLL~GFflg~~is 100 (161)
.++.+|+.+|+ +++++++ +++||.+|-.+.
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 45677888888 6655443 456665555443
No 11
>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=38.63 E-value=98 Score=25.68 Aligned_cols=32 Identities=16% Similarity=0.078 Sum_probs=26.3
Q ss_pred HhhcchhhhHHHHHHHHHHHHHHHHHHhhhhc
Q 031338 74 YFRSPSRRALFGGISLLGGFYVAQTISLSFGA 105 (161)
Q Consensus 74 ~~~nPWRR~Sl~lIsLL~GFflg~~ist~~Gq 105 (161)
.-+++||-..+.+..|.+|.++|+.+....-.
T Consensus 135 K~~~~~rA~~~~~~~L~~G~~lGs~l~~~l~~ 166 (194)
T PF11833_consen 135 KERKLGRAFLWTLGGLVVGLILGSLLASWLPV 166 (194)
T ss_pred hcchHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 33567899999999999999999999876643
No 12
>PRK15071 lipopolysaccharide ABC transporter permease; Provisional
Probab=38.31 E-value=1e+02 Score=26.48 Aligned_cols=8 Identities=13% Similarity=0.060 Sum_probs=3.7
Q ss_pred cchhhhHH
Q 031338 77 SPSRRALF 84 (161)
Q Consensus 77 nPWRR~Sl 84 (161)
.-|+|++.
T Consensus 270 ~l~~r~a~ 277 (356)
T PRK15071 270 AMWRKIFQ 277 (356)
T ss_pred HHHHHHHH
Confidence 34555443
No 13
>PRK10404 hypothetical protein; Provisional
Probab=37.89 E-value=66 Score=24.11 Aligned_cols=32 Identities=9% Similarity=0.140 Sum_probs=20.8
Q ss_pred HHhhHHHHhHhh-cchhhhHHHHHHHHHHHHHHHHH
Q 031338 65 RLVPELSRNYFR-SPSRRALFGGISLLGGFYVAQTI 99 (161)
Q Consensus 65 ~~~~~~l~~~~~-nPWRR~Sl~lIsLL~GFflg~~i 99 (161)
+...+..++|.+ |||.-.- |+..+||.+|-.+
T Consensus 66 k~aa~~td~yV~e~Pw~avG---iaagvGlllG~Ll 98 (101)
T PRK10404 66 KQAVYRADDYVHEKPWQGIG---VGAAVGLVLGLLL 98 (101)
T ss_pred HHHHHHHHHHHHhCcHHHHH---HHHHHHHHHHHHH
Confidence 444555677775 8999643 4666777777654
No 14
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=37.17 E-value=81 Score=24.32 Aligned_cols=38 Identities=18% Similarity=0.363 Sum_probs=23.4
Q ss_pred chHHHHHHHhhHHHHhHhh-cchhhhHH-HHHHHHHHHHH
Q 031338 58 RRLVDIVRLVPELSRNYFR-SPSRRALF-GGISLLGGFYV 95 (161)
Q Consensus 58 tRL~~ii~~~~~~l~~~~~-nPWRR~Sl-~lIsLL~GFfl 95 (161)
++.+.-.+.....-+.|.. |||.-.-+ ..+.||+|+.+
T Consensus 62 d~v~~~sk~a~~~tD~yV~e~PWq~VGvaAaVGlllGlLl 101 (104)
T COG4575 62 DAVVQRSKAAADATDDYVRENPWQGVGVAAAVGLLLGLLL 101 (104)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHHH
Confidence 4555555566677788886 89998655 33444444443
No 15
>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=36.91 E-value=88 Score=23.58 Aligned_cols=44 Identities=14% Similarity=0.232 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccccchHHHHHHHHHHHHHHHHHhccC
Q 031338 84 FGGISLLGGFYVAQTISLSFGALGVNDVIAAVLCVLLTEYVTRFYYSR 131 (161)
Q Consensus 84 l~lIsLL~GFflg~~ist~~Gq~g~wD~l~A~liVl~~Evi~rl~Y~r 131 (161)
+=++.+++|.++|+.++. ...+.++.++..+++.=++.+++.++
T Consensus 77 lPll~li~g~~l~~~~~~----~e~~~~l~~l~~l~~~~~~~~~~~~~ 120 (135)
T PF04246_consen 77 LPLLALIAGAVLGSYLGG----SELWAILGGLLGLALGFLILRLFDRR 120 (135)
T ss_pred HHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 334555666666655543 35555666666666666667776654
No 16
>COG3086 RseC Positive regulator of sigma E activity [Signal transduction mechanisms]
Probab=34.26 E-value=1.3e+02 Score=24.57 Aligned_cols=52 Identities=21% Similarity=0.160 Sum_probs=34.9
Q ss_pred cchhhhHHHHHHHHHHHHHHHHHHhhhhccccchHHHHHHHHHHHHHHHHHh
Q 031338 77 SPSRRALFGGISLLGGFYVAQTISLSFGALGVNDVIAAVLCVLLTEYVTRFY 128 (161)
Q Consensus 77 nPWRR~Sl~lIsLL~GFflg~~ist~~Gq~g~wD~l~A~liVl~~Evi~rl~ 128 (161)
.+-+...+.=|.=|+|++++..++..++..-.|..+.+++..++-=++.+-|
T Consensus 73 slL~sA~LvYi~PL~~l~v~~~La~~L~~~e~~~~~~~~lg~~l~fl~~r~y 124 (150)
T COG3086 73 SLLKSALLVYIFPLVGLFLGAILAQYLFFSELIVIFGAFLGLALGFLLARRY 124 (150)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666777888999999999877766555555555555555554445443
No 17
>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=32.87 E-value=92 Score=22.80 Aligned_cols=49 Identities=20% Similarity=0.210 Sum_probs=33.1
Q ss_pred cchhhhHHHHHH---------HHHHHHHHHHHHhhhhccccchHHHHHHHHHHHHHHHHH
Q 031338 77 SPSRRALFGGIS---------LLGGFYVAQTISLSFGALGVNDVIAAVLCVLLTEYVTRF 127 (161)
Q Consensus 77 nPWRR~Sl~lIs---------LL~GFflg~~ist~~Gq~g~wD~l~A~liVl~~Evi~rl 127 (161)
.||+-..+.+.. ++...+.|++.++++++ .|++.+..+..+|.=-..+.
T Consensus 13 k~i~gy~Wg~lA~lTCPCHLpil~~vLaGTaaGafl~e--~w~iaal~l~~LF~lsl~~~ 70 (75)
T PF05052_consen 13 KPITGYLWGLLALLTCPCHLPILAPVLAGTAAGAFLGE--HWVIAALTLTGLFVLSLTRA 70 (75)
T ss_pred CcchhhhhHHHHHhhCcchHHHHHHHHccchHHHHHHH--HHHHHHHHHHHHHHHHHHHH
Confidence 556655555444 44567888888888887 48888888777776554443
No 18
>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=32.62 E-value=1.1e+02 Score=24.31 Aligned_cols=36 Identities=11% Similarity=0.258 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhccccchHHHHHHHH
Q 031338 83 LFGGISLLGGFYVAQTISLSFGALGVNDVIAAVLCV 118 (161)
Q Consensus 83 Sl~lIsLL~GFflg~~ist~~Gq~g~wD~l~A~liV 118 (161)
-++.++-|.|-|+|..++..+|..++-..+.-+.++
T Consensus 7 alLa~C~L~G~~lGdlLG~llGV~aNVGGVGiAMlL 42 (125)
T TIGR00807 7 ALLAVCHLLGVYLGNILGMALGVKANVGGVGIAMIL 42 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCcccchHHHHHHH
Confidence 356789999999999999999987766655544433
No 19
>PRK10132 hypothetical protein; Provisional
Probab=32.47 E-value=90 Score=23.75 Aligned_cols=32 Identities=13% Similarity=0.186 Sum_probs=21.5
Q ss_pred HHhhHHHHhHhh-cchhhhHHHHHHHHHHHHHHHHH
Q 031338 65 RLVPELSRNYFR-SPSRRALFGGISLLGGFYVAQTI 99 (161)
Q Consensus 65 ~~~~~~l~~~~~-nPWRR~Sl~lIsLL~GFflg~~i 99 (161)
+......++|.. |||.-.- |+.-+||.+|-.+
T Consensus 72 ~~a~~~~~~~V~~~Pw~svg---iaagvG~llG~Ll 104 (108)
T PRK10132 72 RDAVGCADTFVRERPWCSVG---TAAAVGIFIGALL 104 (108)
T ss_pred HHHHHHHHHHHHhCcHHHHH---HHHHHHHHHHHHH
Confidence 444556666775 8999754 4666788777664
No 20
>COG2966 Uncharacterized conserved protein [Function unknown]
Probab=32.29 E-value=3.3e+02 Score=23.43 Aligned_cols=47 Identities=19% Similarity=0.160 Sum_probs=25.0
Q ss_pred hHHHHhHhhcchhhhHHHHHHHHHHHHHHHHHHhhhhccccchHHHHHHHH
Q 031338 68 PELSRNYFRSPSRRALFGGISLLGGFYVAQTISLSFGALGVNDVIAAVLCV 118 (161)
Q Consensus 68 ~~~l~~~~~nPWRR~Sl~lIsLL~GFflg~~ist~~Gq~g~wD~l~A~liV 118 (161)
-+++++-.++|-+.-.+ ..++.=.+.|..|+..+| |+|......++.
T Consensus 110 ~~~l~~i~~~~~~y~~~--l~~~~~g~~~~~f~~l~g--G~w~d~~iaf~~ 156 (250)
T COG2966 110 HKKLDEIQKQPLRYSRW--LVLLMAGLAAAAFALLFG--GGWLDFLIAFFA 156 (250)
T ss_pred HHHHHHhhhCccccccH--HHHHHHHHHHHHHHHHcC--CchHHHHHHHHH
Confidence 35666666666544323 133344455667777777 777544433333
No 21
>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=30.90 E-value=2.1e+02 Score=22.78 Aligned_cols=35 Identities=9% Similarity=0.194 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcc-ccchHHHHHHHH
Q 031338 84 FGGISLLGGFYVAQTISLSFGAL-GVNDVIAAVLCV 118 (161)
Q Consensus 84 l~lIsLL~GFflg~~ist~~Gq~-g~wD~l~A~liV 118 (161)
..-...+++|++|..++....+. +.+....+..++
T Consensus 166 ~~~~~~i~~f~~Ga~~ga~l~~~~~~~al~~~~~~l 201 (209)
T PF06912_consen 166 LRYLLIILSFFIGAILGALLYRRLGFWALLLPALLL 201 (209)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 33444455555555555444432 234444444333
No 22
>PRK10617 cytochrome c-type protein NapC; Provisional
Probab=30.84 E-value=81 Score=26.44 Aligned_cols=31 Identities=29% Similarity=0.340 Sum_probs=18.9
Q ss_pred HHHHhHhhcchhhhHHHHHHHHHHHHHHHHHHh
Q 031338 69 ELSRNYFRSPSRRALFGGISLLGGFYVAQTISL 101 (161)
Q Consensus 69 ~~l~~~~~nPWRR~Sl~lIsLL~GFflg~~ist 101 (161)
.++.+|+.+|+ ++++++ .+++||.+|-.+.+
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 45677888888 444433 34567766655543
No 23
>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=30.07 E-value=2.7e+02 Score=21.78 Aligned_cols=91 Identities=21% Similarity=0.243 Sum_probs=51.9
Q ss_pred CCcchHHHHHHHhhHHHHhHhhcc--hhhhHHHHHHHHHHHHHHHHHHhhhhccccchHHHHHHHHHHHHHHHHHhccCC
Q 031338 55 GGPRRLVDIVRLVPELSRNYFRSP--SRRALFGGISLLGGFYVAQTISLSFGALGVNDVIAAVLCVLLTEYVTRFYYSRP 132 (161)
Q Consensus 55 ~g~tRL~~ii~~~~~~l~~~~~nP--WRR~Sl~lIsLL~GFflg~~ist~~Gq~g~wD~l~A~liVl~~Evi~rl~Y~r~ 132 (161)
+|+-.+.+.. +++++--+.| +.++.. .+.--..+..++..+| -+.+|.+.|+++-++.-++..+.-+++
T Consensus 79 ~~~~~~~ea~----~~L~~I~~~~~~y~~~~~----~l~~~l~~~~fa~lfg-g~~~~~~~a~i~g~~~~~~~~~~~r~~ 149 (193)
T PF06738_consen 79 AGQLSLEEAI----ERLDEIDREPPRYPPWLV----ILAAGLASAAFALLFG-GSWIDMIVAFILGLLVGLLRQLLSRRR 149 (193)
T ss_pred cCCCCHHHHH----HHHHHHhhCCCCCCHHHH----HHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3455555555 3444443344 333222 2222333445555555 447788888888777777766655455
Q ss_pred CCCchhhhhhHHHHHHHHHHHH
Q 031338 133 KVTFPLALLNNFKMGFTYGLFI 154 (161)
Q Consensus 133 ~~~l~~~lLN~fKIGllYGLfl 154 (161)
...+..+.+-.|=.+++..++.
T Consensus 150 ~~~~~~~~~aa~~~~~~a~~~~ 171 (193)
T PF06738_consen 150 LNSFIQEFIAAFLASLLAALLA 171 (193)
T ss_pred chHHHHHHHHHHHHHHHHHHHH
Confidence 4556667777777777766655
No 24
>PF03739 YjgP_YjgQ: Predicted permease YjgP/YjgQ family; InterPro: IPR005495 Members of this family are predicted integral membrane proteins of unknown function. They are about 350 amino acids long, contain about 6 transmembrane regions and may be permeases, although there is no verification of this.; GO: 0016021 integral to membrane
Probab=29.91 E-value=2.2e+02 Score=24.05 Aligned_cols=25 Identities=20% Similarity=0.228 Sum_probs=10.4
Q ss_pred HHHHHHHHhhhhccccchHHHHHHH
Q 031338 93 FYVAQTISLSFGALGVNDVIAAVLC 117 (161)
Q Consensus 93 Fflg~~ist~~Gq~g~wD~l~A~li 117 (161)
|+....++...|..+..+|+.|+.+
T Consensus 315 ~~~~~~~~~~l~~~~~l~p~~a~w~ 339 (354)
T PF03739_consen 315 YYILFSFFSSLGENGNLPPFIAAWL 339 (354)
T ss_pred HHHHHHHHHHHHHcCCccHHHHHHH
Confidence 3344444444444444444444333
No 25
>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=29.85 E-value=2.4e+02 Score=25.62 Aligned_cols=30 Identities=20% Similarity=0.069 Sum_probs=23.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhhhhccccc
Q 031338 80 RRALFGGISLLGGFYVAQTISLSFGALGVN 109 (161)
Q Consensus 80 RR~Sl~lIsLL~GFflg~~ist~~Gq~g~w 109 (161)
+|..|+++.++.|++.|..+..+-..+..+
T Consensus 283 ~R~~wL~v~~~~~~~t~~ii~~f~~~l~~~ 312 (449)
T TIGR00400 283 NRIIWLLVLLVSSTFTATIISNYEDLLLSL 312 (449)
T ss_pred hccchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 689999999999999988887654444333
No 26
>PF07694 5TM-5TMR_LYT: 5TMR of 5TMR-LYT; InterPro: IPR011620 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents the transmembrane region of the 5TM-Lyt (5TM Receptors of the LytS-YhcK type) histidine kinase []. The two-component regulatory system LytS/LytT probably regulates genes involved in cell wall metabolism. ; GO: 0000155 two-component sensor activity, 0004673 protein histidine kinase activity, 0000160 two-component signal transduction system (phosphorelay), 0007047 cellular cell wall organization, 0016021 integral to membrane
Probab=28.97 E-value=2.5e+02 Score=21.21 Aligned_cols=48 Identities=23% Similarity=0.241 Sum_probs=21.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhhhh----ccccchHHHHHHHHHHHHHHHHH
Q 031338 80 RRALFGGISLLGGFYVAQTISLSFG----ALGVNDVIAAVLCVLLTEYVTRF 127 (161)
Q Consensus 80 RR~Sl~lIsLL~GFflg~~ist~~G----q~g~wD~l~A~liVl~~Evi~rl 127 (161)
|-.++.+-.+..|-..|-..+.+.+ ..|+++...+.+..++.=+..-+
T Consensus 47 R~i~iil~~lygG~~~~li~~~i~~~~R~~~gg~~~~~~~i~~~~~~i~~~l 98 (169)
T PF07694_consen 47 RFIPIILAGLYGGPISGLIAGLIIGIYRFLLGGPTAIPAFIIIILIGILAGL 98 (169)
T ss_pred HHHHHHHHHHHcChHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHH
Confidence 3344444444444444433333333 23555555555555444444333
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=28.23 E-value=1.4e+02 Score=23.77 Aligned_cols=34 Identities=12% Similarity=0.227 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhccccchHHHHHH
Q 031338 83 LFGGISLLGGFYVAQTISLSFGALGVNDVIAAVL 116 (161)
Q Consensus 83 Sl~lIsLL~GFflg~~ist~~Gq~g~wD~l~A~l 116 (161)
.++.++.|.|-|+|..++...|..++-..+.-+.
T Consensus 7 AlLa~C~l~G~~~GdlLG~llGV~aNVGGVGiAM 40 (125)
T PF03817_consen 7 ALLAICTLAGVFLGDLLGALLGVKANVGGVGIAM 40 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCcccccHHHHH
Confidence 4677899999999999999999877665554443
No 28
>PF11808 DUF3329: Domain of unknown function (DUF3329); InterPro: IPR021766 This family of proteins are functionally uncharacterised. This family is only found in bacteria. ; GO: 0004673 protein histidine kinase activity
Probab=25.62 E-value=2.6e+02 Score=20.07 Aligned_cols=23 Identities=26% Similarity=0.288 Sum_probs=10.4
Q ss_pred hcchhhhH-----HHHHHHHHHHHHHHH
Q 031338 76 RSPSRRAL-----FGGISLLGGFYVAQT 98 (161)
Q Consensus 76 ~nPWRR~S-----l~lIsLL~GFflg~~ 98 (161)
+++|++.. +.++++++|.++|..
T Consensus 2 ~~~w~~~l~~l~~~~l~~~lvG~~~g~~ 29 (90)
T PF11808_consen 2 RNSWRRELWRLLLLLLAAALVGWLFGHL 29 (90)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 35666632 233444444444443
No 29
>PF06645 SPC12: Microsomal signal peptidase 12 kDa subunit (SPC12); InterPro: IPR009542 This family consists of several microsomal signal peptidase 12 kDa subunit proteins. Translocation of polypeptide chains across the endoplasmic reticulum (ER) membrane is triggered by signal sequences. Subsequently, signal recognition particle interacts with its membrane receptor and the ribosome-bound nascent chain is targeted to the ER where it is transferred into a protein-conducting channel. At some point, a second signal sequence recognition event takes place in the membrane and translocation of the nascent chain through the membrane occurs. The signal sequence of most secretory and membrane proteins is cleaved off at this stage. Cleavage occurs by the signal peptidase complex (SPC) as soon as the lumenal domain of the translocating polypeptide is large enough to expose its cleavage site to the enzyme. The signal peptidase complex is possibly also involved in proteolytic events in the ER membrane other than the processing of the signal sequence, for example the further digestion of the cleaved signal peptide or the degradation of membrane proteins. Mammalian signal peptidase is as a complex of five different polypeptide chains. This family represents the 12 kDa subunit (SPC12).; GO: 0008233 peptidase activity, 0006465 signal peptide processing, 0005787 signal peptidase complex, 0016021 integral to membrane
Probab=25.54 E-value=2e+02 Score=20.40 Aligned_cols=43 Identities=21% Similarity=0.139 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccccchHHHHHHHHHHHHHHHHHhccCC
Q 031338 84 FGGISLLGGFYVAQTISLSFGALGVNDVIAAVLCVLLTEYVTRFYYSRP 132 (161)
Q Consensus 84 l~lIsLL~GFflg~~ist~~Gq~g~wD~l~A~liVl~~Evi~rl~Y~r~ 132 (161)
..+|+++.||+..+.--|...- .++.++.+++=+=.+=+|+|+
T Consensus 20 ~~iisfi~Gy~~q~~~~~~~~~------~~g~~~~~lv~vP~Wp~y~r~ 62 (76)
T PF06645_consen 20 SAIISFIVGYITQSFSYTFYIY------GAGVVLTLLVVVPPWPFYNRH 62 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHhheeCCcHhhcCC
Confidence 4678888888888776655441 222222222223366667765
No 30
>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=25.50 E-value=2.8e+02 Score=20.43 Aligned_cols=33 Identities=27% Similarity=0.351 Sum_probs=19.1
Q ss_pred HHhHhhcchhhhHHHHHHHHHHHHHHHHHHhhhh
Q 031338 71 SRNYFRSPSRRALFGGISLLGGFYVAQTISLSFG 104 (161)
Q Consensus 71 l~~~~~nPWRR~Sl~lIsLL~GFflg~~ist~~G 104 (161)
...|.++.+|- .+.+++++.|+++|.......+
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 44455555554 3455677777777766655544
No 31
>COG3739 Uncharacterized integral membrane protein [Function unknown]
Probab=24.99 E-value=47 Score=29.16 Aligned_cols=32 Identities=25% Similarity=0.353 Sum_probs=24.1
Q ss_pred hhhHHHHHHHHHHHH--HHHHHHhhhh------ccccchH
Q 031338 80 RRALFGGISLLGGFY--VAQTISLSFG------ALGVNDV 111 (161)
Q Consensus 80 RR~Sl~lIsLL~GFf--lg~~ist~~G------q~g~wD~ 111 (161)
||.+++.=.+|.||| +|-+++|.+| |.+.|.+
T Consensus 190 ~kMPl~~sfvlIgfFIw~AENi~tFfGaW~YPnQ~~aW~~ 229 (263)
T COG3739 190 RKMPLLFSFVLIGFFIWLAENIGTFFGAWKYPNQIDAWSM 229 (263)
T ss_pred cccchHHHHHHHHHHHHHHHHHHhHhhhhcCcccccceEE
Confidence 567777777888887 5899999998 5666654
No 32
>PF09911 DUF2140: Uncharacterized protein conserved in bacteria (DUF2140); InterPro: IPR018672 This family of conserved hypothetical proteins has no known function.
Probab=24.96 E-value=68 Score=26.23 Aligned_cols=21 Identities=14% Similarity=-0.001 Sum_probs=16.8
Q ss_pred cchhhhHHHHHHHHHHHHHHH
Q 031338 77 SPSRRALFGGISLLGGFYVAQ 97 (161)
Q Consensus 77 nPWRR~Sl~lIsLL~GFflg~ 97 (161)
|+|++.-+.++++++++.+.-
T Consensus 1 N~WK~aF~~Lla~~l~~~~~~ 21 (187)
T PF09911_consen 1 NWWKWAFLILLALNLAFVIVV 21 (187)
T ss_pred ChHHHHHHHHHHHHHHHHhhe
Confidence 789998888888888776653
No 33
>PF05961 Chordopox_A13L: Chordopoxvirus A13L protein; InterPro: IPR009236 This family consists of A13L proteins from the Chordopoxviruses. A13L or p8 is one of the three most abundant membrane proteins of the intracellular mature Vaccinia virus [].
Probab=24.06 E-value=1.1e+02 Score=21.95 Aligned_cols=24 Identities=29% Similarity=0.527 Sum_probs=20.5
Q ss_pred hHHHHHHHHHHHHHHHHHhccCCC
Q 031338 110 DVIAAVLCVLLTEYVTRFYYSRPK 133 (161)
Q Consensus 110 D~l~A~liVl~~Evi~rl~Y~r~~ 133 (161)
|.+...+||+++-++.+-.|+|.+
T Consensus 4 d~iLi~ICVaii~lIlY~iYnr~~ 27 (68)
T PF05961_consen 4 DFILIIICVAIIGLILYGIYNRKK 27 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccc
Confidence 678889999999999999998754
No 34
>COG4064 MtrG Tetrahydromethanopterin S-methyltransferase, subunit G [Coenzyme metabolism]
Probab=23.59 E-value=50 Score=24.09 Aligned_cols=10 Identities=50% Similarity=1.059 Sum_probs=7.3
Q ss_pred HHHHHHHHHH
Q 031338 145 KMGFTYGLFI 154 (161)
Q Consensus 145 KIGllYGLfl 154 (161)
-||++||+++
T Consensus 49 DIGILYGlVI 58 (75)
T COG4064 49 DIGILYGLVI 58 (75)
T ss_pred hHHHHHHHHH
Confidence 4788888765
No 35
>PF13807 GNVR: G-rich domain on putative tyrosine kinase
Probab=22.88 E-value=1.2e+02 Score=21.04 Aligned_cols=21 Identities=24% Similarity=0.426 Sum_probs=15.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHH
Q 031338 80 RRALFGGISLLGGFYVAQTIS 100 (161)
Q Consensus 80 RR~Sl~lIsLL~GFflg~~is 100 (161)
++..+.++++++|+++|-.+.
T Consensus 57 ~~~lil~l~~~~Gl~lgi~~~ 77 (82)
T PF13807_consen 57 KRALILALGLFLGLILGIGLA 77 (82)
T ss_pred cHHHHHHHHHHHHHHHHHHHH
Confidence 556667788888888887654
No 36
>PF06177 QueT: QueT transporter; InterPro: IPR010387 This entry is represented by Bacteriophage Dp-1, QueT. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family includes the queT gene encoding a hypothetical integral membrane protein with 5 predicted transmembrane regions. The queT genes in Firmicutes are often preceded by the PreQ1 (7-aminomethyl-7-deazaguanine) riboswitches of two distinct classes [, ], suggesting involvement of the QueT transporters in uptake of a queuosine biosynthetic intermediate.
Probab=22.88 E-value=3.5e+02 Score=21.60 Aligned_cols=41 Identities=27% Similarity=0.369 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHhhhhccccchHHHHHHHHHHHHHHHHHhcc
Q 031338 86 GISLLGGFYVAQTISLSFGALGVNDVIAAVLCVLLTEYVTRFYYS 130 (161)
Q Consensus 86 lIsLL~GFflg~~ist~~Gq~g~wD~l~A~liVl~~Evi~rl~Y~ 130 (161)
...+..|.+++|.+ +..|.+|.+...+.-++.=.+.+...+
T Consensus 46 i~Gl~lG~~iaNl~----sp~G~iD~i~G~l~tlia~~l~~~~~~ 86 (152)
T PF06177_consen 46 IPGLTLGCFIANLF----SPFGIIDVIFGTLATLIAAYLTYKLKK 86 (152)
T ss_pred HHHHHHHHHHHHhc----ccchhHHHhhhHHHHHHHHHHHHHHHH
Confidence 45777788888876 457999999888877666666655544
No 37
>PRK11056 hypothetical protein; Provisional
Probab=22.37 E-value=4e+02 Score=21.09 Aligned_cols=79 Identities=18% Similarity=0.265 Sum_probs=53.5
Q ss_pred cchhhhHHHHHHHHHHHHHHHHHHhhhhccccchHHHHHHHHHHHHHHHHHhccCCCC-CchhhhhhHHHHHH-HHHHHH
Q 031338 77 SPSRRALFGGISLLGGFYVAQTISLSFGALGVNDVIAAVLCVLLTEYVTRFYYSRPKV-TFPLALLNNFKMGF-TYGLFI 154 (161)
Q Consensus 77 nPWRR~Sl~lIsLL~GFflg~~ist~~Gq~g~wD~l~A~liVl~~Evi~rl~Y~r~~~-~l~~~lLN~fKIGl-lYGLfl 154 (161)
+|-+....++.+++.|.-.-.++++.+-..-...++--.-+|+.+...-.-|-+++.. ..+.-..-+|=+|+ .|.=|+
T Consensus 4 ~~~~ek~tLlLaliaGl~~ng~fs~Lf~s~VpFSiFPlIaLvLavycLyQ~Yl~~~m~eg~P~~a~acFflG~f~ySA~v 83 (120)
T PRK11056 4 QSRQEKGTLLLALIAGLSINGTFAALFSSIVPFSIFPLIALVLAVYCLHQRYLNRPMPEGLPGLAAACFFLGVFLYSAFV 83 (120)
T ss_pred ccccchhhHHHHHHHHHhhchhhHHHHccccccHHHHHHHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHH
Confidence 3445566788899999998889998888888888776666666665554444444432 26666777777774 455554
Q ss_pred H
Q 031338 155 D 155 (161)
Q Consensus 155 E 155 (161)
.
T Consensus 84 r 84 (120)
T PRK11056 84 R 84 (120)
T ss_pred H
Confidence 3
No 38
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=21.64 E-value=1.2e+02 Score=19.95 Aligned_cols=20 Identities=30% Similarity=0.266 Sum_probs=13.0
Q ss_pred hHHHHHHHHHHHHHHHHHHh
Q 031338 82 ALFGGISLLGGFYVAQTISL 101 (161)
Q Consensus 82 ~Sl~lIsLL~GFflg~~ist 101 (161)
..+.++++++|+.+|..++.
T Consensus 21 ~l~il~~f~~G~llg~l~~~ 40 (68)
T PF06305_consen 21 GLLILIAFLLGALLGWLLSL 40 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34566777777777766543
No 39
>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria. Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.
Probab=21.12 E-value=66 Score=22.07 Aligned_cols=15 Identities=27% Similarity=0.401 Sum_probs=8.2
Q ss_pred HHHHHHHHHHHhhhh
Q 031338 90 LGGFYVAQTISLSFG 104 (161)
Q Consensus 90 L~GFflg~~ist~~G 104 (161)
+.||.+|.++++..|
T Consensus 2 ~~g~l~Ga~~Ga~~g 16 (74)
T PF12732_consen 2 LLGFLAGAAAGAAAG 16 (74)
T ss_pred HHHHHHHHHHHHHHH
Confidence 456666665554444
No 40
>PF05675 DUF817: Protein of unknown function (DUF817); InterPro: IPR008535 This family consists of several bacterial proteins of unknown function.
Probab=20.85 E-value=56 Score=28.48 Aligned_cols=26 Identities=35% Similarity=0.468 Sum_probs=17.2
Q ss_pred hhhhHHHHHHHHHHHH--HHHHHHhhhh
Q 031338 79 SRRALFGGISLLGGFY--VAQTISLSFG 104 (161)
Q Consensus 79 WRR~Sl~lIsLL~GFf--lg~~ist~~G 104 (161)
-||.++.+-.+|.||| +|-|++|..|
T Consensus 178 ~~~MPlll~f~Li~fFIW~AENi~Tf~g 205 (235)
T PF05675_consen 178 RRRMPLLLSFVLIGFFIWIAENIGTFFG 205 (235)
T ss_pred EeecchHHHHHHHHHHHHHHhhhhhhhh
Confidence 3556666777777776 3667777665
No 41
>PF09964 DUF2198: Uncharacterized protein conserved in bacteria (DUF2198); InterPro: IPR019242 This family of various hypothetical archaeal proteins has no known function.
Probab=20.07 E-value=1.2e+02 Score=22.01 Aligned_cols=27 Identities=19% Similarity=0.305 Sum_probs=22.3
Q ss_pred hHhhcchhhhHHHHHHHHHHHHHHHHH
Q 031338 73 NYFRSPSRRALFGGISLLGGFYVAQTI 99 (161)
Q Consensus 73 ~~~~nPWRR~Sl~lIsLL~GFflg~~i 99 (161)
.-+.+||.-+-+-+.|++.||..++-.
T Consensus 41 kGyt~~~~ii~iD~~Sl~aGf~~a~~m 67 (74)
T PF09964_consen 41 KGYTHTWWIIFIDAVSLTAGFLYAKKM 67 (74)
T ss_pred hccccchHHHHHHHHHHHHHHHHHHHH
Confidence 334688999999999999999988753
Done!