Query psy14327
Match_columns 140
No_of_seqs 38 out of 40
Neff 3.4
Searched_HMMs 46136
Date Fri Aug 16 17:01:28 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14327.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14327hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01284 MARVEL: Membrane-asso 97.2 0.0022 4.8E-08 45.7 7.4 84 48-131 54-144 (144)
2 KOG4788|consensus 62.7 41 0.00089 26.4 6.9 78 46-133 76-159 (172)
3 PF03189 Otopetrin: Otopetrin; 57.5 11 0.00023 33.9 3.1 101 28-132 307-407 (441)
4 PF13121 DUF3976: Domain of un 54.3 14 0.0003 23.8 2.4 21 60-84 12-34 (41)
5 PF09157 TruB-C_2: Pseudouridi 47.2 16 0.00034 23.3 1.9 15 10-24 31-46 (58)
6 PF12650 DUF3784: Domain of un 47.0 29 0.00062 24.3 3.3 61 72-134 6-66 (97)
7 PRK12870 ubiA 4-hydroxybenzoat 44.5 53 0.0011 27.5 5.1 74 46-125 24-98 (290)
8 PF11694 DUF3290: Protein of u 41.1 53 0.0011 25.8 4.3 47 65-118 11-57 (149)
9 PF13755 Sensor_TM1: Sensor N- 41.1 18 0.00039 26.1 1.6 39 56-98 7-45 (79)
10 PF07444 Ycf66_N: Ycf66 protei 39.1 35 0.00075 24.8 2.8 31 58-93 27-57 (84)
11 PF03729 DUF308: Short repeat 32.2 1.3E+02 0.0028 18.7 5.0 51 69-126 21-71 (72)
12 PRK12847 ubiA 4-hydroxybenzoat 31.3 1.1E+02 0.0023 25.3 4.8 47 48-95 24-70 (285)
13 PF05884 ZYG-11_interact: Inte 28.1 1.2E+02 0.0025 26.9 4.7 76 42-124 105-180 (299)
14 PRK12873 ubiA prenyltransferas 27.7 1.5E+02 0.0032 25.5 5.2 77 45-126 21-97 (294)
15 PRK12848 ubiA 4-hydroxybenzoat 26.8 1.7E+02 0.0036 24.2 5.3 45 49-95 23-67 (282)
16 PF10781 DSRB: Dextransucrase 23.0 52 0.0011 23.0 1.3 12 23-34 43-54 (62)
17 KOG1705|consensus 23.0 47 0.001 25.3 1.2 22 97-118 2-23 (110)
18 COG1286 CvpA Uncharacterized m 22.6 2.6E+02 0.0056 22.2 5.5 44 48-97 7-50 (182)
19 PRK12886 ubiA prenyltransferas 22.1 3E+02 0.0066 23.1 6.0 70 51-125 25-94 (291)
20 PF04246 RseC_MucC: Positive r 21.8 76 0.0016 23.3 2.1 51 41-95 70-120 (135)
21 TIGR00704 NaPi_cotrn_rel Na/Pi 21.2 2.7E+02 0.0058 24.1 5.6 24 61-84 231-255 (307)
22 PF13038 DUF3899: Domain of un 20.1 2.2E+02 0.0047 19.6 4.0 22 71-93 10-31 (92)
No 1
>PF01284 MARVEL: Membrane-associating domain; InterPro: IPR021128 This entry represents the ~130-residue MARVEL (MAL and related proteins for vesicle trafficking and membrane link) domain. The MARVEL domain is a module with a four transmembrane-helix architecture that has been identified in proteins of the myelin and lymphocyte (MAL), physins, gyrins and occludin families. All described MARVEL domain-containing proteins are consistent with the M-shaped topology: four transmembrane-helix region architecture with cytoplasmic N- and C-terminal regions. Their function could be related to cholesterol-rich membrane apposition events in a variety of cellular processes, such as biogenesis of vesicular transport carriers or tight junction regulation [].
Probab=97.20 E-value=0.0022 Score=45.74 Aligned_cols=84 Identities=20% Similarity=0.250 Sum_probs=61.4
Q ss_pred hhhHHHHHHHhh---cCcccchhhHHHHHHHHHHHHHHHHhhhhhhhhccccc----ccccceeccccchhhhhhhHHhh
Q psy14327 48 VYTTVILISYGF---GTTQQNETLVDIIMNFIAIFLWIAVGGIALHYWIGYQN----EHHYQQVTSERGIGITLGILCIF 120 (140)
Q Consensus 48 Ii~~~~ligy~~---gt~~~kr~~iDi~~nliGc~LFIAvGal~l~~w~gy~~----e~~~~~~~~~R~~gLA~GsL~II 120 (140)
+++...++.+++ ..+....+..|..++.+.++||+++++..-++|.+... +.......+..+...|..+++.+
T Consensus 54 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~v~~il~l~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~Aa~~f~~~ 133 (144)
T PF01284_consen 54 LYTLIFLLLYLFSLKYRPRIPWPLVEFIFDAVFAILWLAAFIALAAYLSDHSCSNTGNDYSYSGCSRCGAWKAAAAFGFL 133 (144)
T ss_pred HHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHHHHHHHHHhcCcccccCCCCcCCCCCCcchhHHHHHHHHHH
Confidence 446666777775 23334446799999999999999999999999987211 11122333445568899999999
Q ss_pred hhHHHHHHHHH
Q psy14327 121 SGALYLIDTVL 131 (140)
Q Consensus 121 nGa~fLvDavl 131 (140)
|-++|++|++|
T Consensus 134 ~~~l~~~s~~l 144 (144)
T PF01284_consen 134 NWLLFIVSAVL 144 (144)
T ss_pred HHHHHHHHHHC
Confidence 99999999875
No 2
>KOG4788|consensus
Probab=62.73 E-value=41 Score=26.41 Aligned_cols=78 Identities=23% Similarity=0.292 Sum_probs=52.3
Q ss_pred eehhhHHHHHHHhhcCcc-----cchh-hHHHHHHHHHHHHHHHHhhhhhhhhcccccccccceeccccchhhhhhhHHh
Q psy14327 46 YFVYTTVILISYGFGTTQ-----QNET-LVDIIMNFIAIFLWIAVGGIALHYWIGYQNEHHYQQVTSERGIGITLGILCI 119 (140)
Q Consensus 46 ylIi~~~~ligy~~gt~~-----~kr~-~iDi~~nliGc~LFIAvGal~l~~w~gy~~e~~~~~~~~~R~~gLA~GsL~I 119 (140)
.++++...++-|+++... -++| +.|++...+.+++++++=..+.+.=.++ . ..+.-.+.+..|.
T Consensus 76 ~~i~tl~fl~~~~~~~~~~~~~~i~wp~~~~l~~~~v~~~~~~i~~~~~~~~~~~~--------~--g~~~~~~~~vf~~ 145 (172)
T KOG4788|consen 76 AFLLTLAFLILYLTLLHETIVLPIRWPFLLDLLNLVVALLLFAIASWVLAQFSATT--------G--GGGAWIAAAVFAF 145 (172)
T ss_pred HHHHHHHHHHHHHHHhhhccccccCcHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc--------C--CCccHHHHHHHHH
Confidence 456777777777766543 2566 8899999999999888765554433221 0 2222334568888
Q ss_pred hhhHHHHHHHHHHH
Q psy14327 120 FSGALYLIDTVLSF 133 (140)
Q Consensus 120 InGa~fLvDavlt~ 133 (140)
+.-.+|-.|+.+++
T Consensus 146 ~at~~y~~~~~~~~ 159 (172)
T KOG4788|consen 146 LATALYAYDTVFSL 159 (172)
T ss_pred HHHHHHHHHHHHhh
Confidence 88889988887665
No 3
>PF03189 Otopetrin: Otopetrin; InterPro: IPR004878 The otopetrins are a group of proteins that are restricted to the metazoa. The structure of otopetrin-1 (Q80VM9 from SWISSPROT) shows it to have 12 transmembrane domains, with three conserved sub-domains (OD-1 to OD-III) []. Otopetrins modulate calcium homeostasis and influx of calcium in response to extracellular ATP. The otopetrins are required for normal formation of otoconia/otoliths in the inner ear. Otoconia are minute biomineral particles embedded in a gelatinous membrane that overlies the sensory epithelium in the inner ear. Gravity and acceleration cause the octoconia to deflect the stereocilia of sensory hair cells. Otoconia are required for normal processing of information regarding spatial orientation and acceleration.
Probab=57.46 E-value=11 Score=33.93 Aligned_cols=101 Identities=19% Similarity=0.216 Sum_probs=71.3
Q ss_pred CCCCCCCeeEEEeeeeeeeehhhHHHHHHHhhcCcccchhhHHHHHHHHHHHHHHHHhhhhhhhhcccccccccceeccc
Q psy14327 28 NEEKNPDVEIIASGVFVGYFVYTTVILISYGFGTTQQNETLVDIIMNFIAIFLWIAVGGIALHYWIGYQNEHHYQQVTSE 107 (140)
Q Consensus 28 ne~~~~d~eivasGtfvGylIi~~~~ligy~~gt~~~kr~~iDi~~nliGc~LFIAvGal~l~~w~gy~~e~~~~~~~~~ 107 (140)
++..+.|. ++=.+...|.++|+...+++...+.+.++.+.+.+..+++-.+==+.=-.+++|-|+-..+....+.+..-
T Consensus 307 ~~~~~LD~-iLL~va~~G~~ly~~fsIia~~~~~~~~~~~~l~l~~~ll~iiQv~~QtlFIl~a~rR~~~~~~~~~~kpg 385 (441)
T PF03189_consen 307 NPGRSLDV-ILLVVAAFGEFLYSYFSIIAGIFTDPHGSLNWLNLIYSLLRIIQVTLQTLFILDASRRRCSSEEQQRRKPG 385 (441)
T ss_pred CccccHhH-HHHHHHHHHHHHHHHHHHHHHHhcCCCCCcChHHHHHHHHHHHHHHHHHHHHHHHHhccccccccccchHH
Confidence 55666776 67788899999999999999999888777555777777776665555566788888764332222233333
Q ss_pred cchhhhhhhHHhhhhHHHHHHHHHH
Q psy14327 108 RGIGITLGILCIFSGALYLIDTVLS 132 (140)
Q Consensus 108 R~~gLA~GsL~IInGa~fLvDavlt 132 (140)
||+ .-=|-+.|-++++++|.-+
T Consensus 386 rq~---itFLl~~N~~lw~~~tf~~ 407 (441)
T PF03189_consen 386 RQI---ITFLLVCNISLWIINTFEA 407 (441)
T ss_pred HHH---HHHHHHHHHHHHHHHHhhc
Confidence 442 3457788999999988643
No 4
>PF13121 DUF3976: Domain of unknown function (DUF3976)
Probab=54.25 E-value=14 Score=23.83 Aligned_cols=21 Identities=14% Similarity=0.338 Sum_probs=15.6
Q ss_pred cCcccchhhHHHHHHHHHHH--HHHHH
Q psy14327 60 GTTQQNETLVDIIMNFIAIF--LWIAV 84 (140)
Q Consensus 60 gt~~~kr~~iDi~~nliGc~--LFIAv 84 (140)
+.+..|| -||-++||. ||++.
T Consensus 12 ~ntltkr----gfykligclvvmfigi 34 (41)
T PF13121_consen 12 DNTLTKR----GFYKLIGCLVVMFIGI 34 (41)
T ss_pred CCeeehh----hHHHHHHHHHHHHHHH
Confidence 3556788 799999994 67654
No 5
>PF09157 TruB-C_2: Pseudouridine synthase II TruB, C-terminal; InterPro: IPR015240 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an alpha+beta structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are []: Pseudouridine synthase I, TruA. Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain. Pseudouridine synthase RsuA (ribosomal small subunit) and RluC/RluD (ribosomal large subunits), both of which contain an additional N-terminal alpha-L RNA-binding motif. Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific alpha+beta subdomain. TruB is responsible for the pseudouridine residue present in the T loops of virtually all tRNAs. TruB recognises the preformed 3-D structure of the T loop primarily through shape complementarity. It accesses its substrate uridyl residue by flipping out the nucleotide and disrupts the tertiary structure of tRNA []. The C-terminal domain adopts a secondary structure consisting of a four-stranded beta sheet and one alpha helix, similar to that found in PUA domains. It is predominantly involved in RNA-binding, being mostly found in tRNA pseudouridine synthase B (TruB) []. ; GO: 0003723 RNA binding, 0009982 pseudouridine synthase activity, 0001522 pseudouridine synthesis, 0009451 RNA modification; PDB: 1ZL3_A 1K8W_A 1R3F_A.
Probab=47.24 E-value=16 Score=23.32 Aligned_cols=15 Identities=40% Similarity=0.780 Sum_probs=10.7
Q ss_pred EEe-ccCCceeeeeee
Q psy14327 10 YRT-GYGGQFLGVGGT 24 (140)
Q Consensus 10 yr~-gy~g~flgvGgt 24 (140)
+|. +-.|.|+|+|--
T Consensus 31 vrvy~~~~~FlGig~~ 46 (58)
T PF09157_consen 31 VRVYDEDGRFLGIGEI 46 (58)
T ss_dssp EEEETTTTEEEEEEEE
T ss_pred EEEECCCCEEEEEEEE
Confidence 444 238999999864
No 6
>PF12650 DUF3784: Domain of unknown function (DUF3784); InterPro: IPR017259 This group represents an uncharacterised conserved protein.
Probab=47.01 E-value=29 Score=24.32 Aligned_cols=61 Identities=18% Similarity=0.314 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHhhhhhhhhcccccccccceeccccchhhhhhhHHhhhhHHHHHHHHHHHH
Q psy14327 72 IMNFIAIFLWIAVGGIALHYWIGYQNEHHYQQVTSERGIGITLGILCIFSGALYLIDTVLSFI 134 (140)
Q Consensus 72 ~~nliGc~LFIAvGal~l~~w~gy~~e~~~~~~~~~R~~gLA~GsL~IInGa~fLvDavlt~~ 134 (140)
++-++|..++.-=|..-+.-|+.--+|++ -+-|++...-..|-.+.+.|+++++.+++.+.
T Consensus 6 if~ilg~li~~~k~~~LIaGyntms~eEk--~~~D~~~l~r~~g~~~~~~~i~~li~~l~~~~ 66 (97)
T PF12650_consen 6 IFFILGILILKGKGYFLIAGYNTMSKEEK--EKYDKKKLCRFMGKFMLIIGIILLIGGLLSFF 66 (97)
T ss_pred HHHHHHHHHHhcCcccchhhcccCCHHHH--HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34444444444444444444432111212 22334445666777777777777777776553
No 7
>PRK12870 ubiA 4-hydroxybenzoate polyprenyltransferase; Reviewed
Probab=44.46 E-value=53 Score=27.54 Aligned_cols=74 Identities=9% Similarity=0.019 Sum_probs=37.8
Q ss_pred eehhhHHHHHHHhhcCcccchhhHHHHHHHHHHHHHHHHhhhhhhhhcccccccc-cceeccccchhhhhhhHHhhhhHH
Q psy14327 46 YFVYTTVILISYGFGTTQQNETLVDIIMNFIAIFLWIAVGGIALHYWIGYQNEHH-YQQVTSERGIGITLGILCIFSGAL 124 (140)
Q Consensus 46 ylIi~~~~ligy~~gt~~~kr~~iDi~~nliGc~LFIAvGal~l~~w~gy~~e~~-~~~~~~~R~~gLA~GsL~IInGa~ 124 (140)
......+.+.|+.+.+..+- ++...+.-++|.+ ...+++.++..|.++ |-| ...++++| =++.|.++.-++.+
T Consensus 24 ~~l~~~~~~~g~~lA~~~~~-~~~~~~l~~lg~~-~~~~a~~~~Nd~~D~--~iD~~~~Rt~~R--PL~sG~is~~~a~~ 97 (290)
T PRK12870 24 RLILMIPALWAVFLAAHGLP-PLPLVGIIILGAL-ATSAAGCVVNDLWDR--DIDPQVERTRFR--PLASRRLSVKVGIV 97 (290)
T ss_pred HHHHHHHHHHHHHHHccCCC-CHHHHHHHHHHHH-HHHHHHHHHHhHHHh--ccCCCCCcccCC--CCCCCCcCHHHHHH
Confidence 34445667777777654322 2223444555544 455566666666653 212 11233334 36667666655544
Q ss_pred H
Q psy14327 125 Y 125 (140)
Q Consensus 125 f 125 (140)
+
T Consensus 98 ~ 98 (290)
T PRK12870 98 I 98 (290)
T ss_pred H
Confidence 4
No 8
>PF11694 DUF3290: Protein of unknown function (DUF3290); InterPro: IPR021707 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=41.12 E-value=53 Score=25.75 Aligned_cols=47 Identities=17% Similarity=0.158 Sum_probs=36.3
Q ss_pred chhhHHHHHHHHHHHHHHHHhhhhhhhhcccccccccceeccccchhhhhhhHH
Q psy14327 65 NETLVDIIMNFIAIFLWIAVGGIALHYWIGYQNEHHYQQVTSERGIGITLGILC 118 (140)
Q Consensus 65 kr~~iDi~~nliGc~LFIAvGal~l~~w~gy~~e~~~~~~~~~R~~gLA~GsL~ 118 (140)
+....|.+.-.+..++.++.....+.|+++. ..+..||.++-..-+.
T Consensus 11 q~~~~~~~~~~~i~~ll~~l~~~~~~Y~r~r-------~~tKyRDL~II~~L~l 57 (149)
T PF11694_consen 11 QQSQNDYLRYILIIILLLVLIFFFIKYLRNR-------LDTKYRDLSIIALLLL 57 (149)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHhc-------CcchhhhHHHHHHHHH
Confidence 3445788888888899999999999999875 7788899666554443
No 9
>PF13755 Sensor_TM1: Sensor N-terminal transmembrane domain
Probab=41.09 E-value=18 Score=26.06 Aligned_cols=39 Identities=10% Similarity=0.078 Sum_probs=31.2
Q ss_pred HHhhcCcccchhhHHHHHHHHHHHHHHHHhhhhhhhhcccccc
Q psy14327 56 SYGFGTTQQNETLVDIIMNFIAIFLWIAVGGIALHYWIGYQNE 98 (140)
Q Consensus 56 gy~~gt~~~kr~~iDi~~nliGc~LFIAvGal~l~~w~gy~~e 98 (140)
..+..+|..+| + +.+|+++-++.+ +|.+-++.|++.+-+
T Consensus 7 ~~l~~S~Ltrr--I-l~~Nl~aL~vLv-~G~LyLn~~R~~Li~ 45 (79)
T PF13755_consen 7 FRLRRSPLTRR--I-LAFNLLALAVLV-GGILYLNQYRDGLID 45 (79)
T ss_pred hhhcCCcHHHH--H-HHHHHHHHHHHH-HHHHhhhHHHHHHHH
Confidence 45678889999 6 789999988764 699999999875433
No 10
>PF07444 Ycf66_N: Ycf66 protein N-terminus; InterPro: IPR010004 This entry represents Ycf66, a protein that is restricted to the chloroplasts of simple plants and algae. It is also found in the cyanobacteria. The function is unknown. As the family is exclusively found in phototrophic organisms it may play a role in photosynthesis.
Probab=39.11 E-value=35 Score=24.77 Aligned_cols=31 Identities=13% Similarity=0.172 Sum_probs=25.5
Q ss_pred hhcCcccchhhHHHHHHHHHHHHHHHHhhhhhhhhc
Q psy14327 58 GFGTTQQNETLVDIIMNFIAIFLWIAVGGIALHYWI 93 (140)
Q Consensus 58 ~~gt~~~kr~~iDi~~nliGc~LFIAvGal~l~~w~ 93 (140)
.+.+..||+ -|++++-+|. +..+.+..+.|+
T Consensus 27 ~~~Pev~Rd--~D~~fs~vgL---l~g~IL~~~gwR 57 (84)
T PF07444_consen 27 FFRPEVSRD--YDIFFSSVGL---LYGLILWFQGWR 57 (84)
T ss_pred HHCcchhhh--hhHHHHHHHH---HHHHHHHHHhhc
Confidence 456777999 9999999997 567788899995
No 11
>PF03729 DUF308: Short repeat of unknown function (DUF308); InterPro: IPR005325 This represents a group of short repeats that occurs in a limited number of membrane proteins. It may divide further in short repeats of around 7-10 residues of the pattern G-#-X(2)-#(2)-X (#=hydrophobic).
Probab=32.19 E-value=1.3e+02 Score=18.72 Aligned_cols=51 Identities=18% Similarity=0.150 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHHHhhhhhhhhcccccccccceeccccchhhhhhhHHhhhhHHHH
Q psy14327 69 VDIIMNFIAIFLWIAVGGIALHYWIGYQNEHHYQQVTSERGIGITLGILCIFSGALYL 126 (140)
Q Consensus 69 iDi~~nliGc~LFIAvGal~l~~w~gy~~e~~~~~~~~~R~~gLA~GsL~IInGa~fL 126 (140)
.+.+.-++|+.+.+..-.-..++|+.. .+.+.|..-+..|.++++=|++.+
T Consensus 21 ~~~~~~i~g~~~i~~Gi~~l~~~~~~~-------~~~~~~~~~l~~gi~~i~~Gi~~l 71 (72)
T PF03729_consen 21 LAALAIILGIWLIISGIFQLISAFRRR-------KGSKGWWWSLLSGILSIVLGIILL 71 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcc-------ccchhhHHHHHHHHHHHHHHHHHH
Confidence 677788888887776666666777521 234466677888888887777665
No 12
>PRK12847 ubiA 4-hydroxybenzoate polyprenyltransferase; Reviewed
Probab=31.28 E-value=1.1e+02 Score=25.31 Aligned_cols=47 Identities=9% Similarity=0.039 Sum_probs=26.4
Q ss_pred hhhHHHHHHHhhcCcccchhhHHHHHHHHHHHHHHHHhhhhhhhhccc
Q psy14327 48 VYTTVILISYGFGTTQQNETLVDIIMNFIAIFLWIAVGGIALHYWIGY 95 (140)
Q Consensus 48 Ii~~~~ligy~~gt~~~kr~~iDi~~nliGc~LFIAvGal~l~~w~gy 95 (140)
....+.++|+.++.+...-.+...+.-++|+++.-++|- ++..|-++
T Consensus 24 l~~~~~~~g~~la~~~~~~~~~~~ll~~l~~~l~~~a~~-~~Nd~~D~ 70 (285)
T PRK12847 24 LVFFPTLFGLLLASHSLLPDISLLVLFIIGSVLMRSAGC-IINDIFDR 70 (285)
T ss_pred HHHHHHHHHHHHHhCccCCcHHHHHHHHHHHHHHHHHHH-HHHhHHHh
Confidence 445667777777654432223445667777765555544 55555443
No 13
>PF05884 ZYG-11_interact: Interactor of ZYG-11; InterPro: IPR008574 This family consists of proteins of unknown function found in Caenorhabditis species.
Probab=28.11 E-value=1.2e+02 Score=26.91 Aligned_cols=76 Identities=20% Similarity=0.169 Sum_probs=52.9
Q ss_pred eeeeeehhhHHHHHHHhhcCcccchhhHHHHHHHHHHHHHHHHhhhhhhhhcccccccccceeccccchhhhhhhHHhhh
Q psy14327 42 VFVGYFVYTTVILISYGFGTTQQNETLVDIIMNFIAIFLWIAVGGIALHYWIGYQNEHHYQQVTSERGIGITLGILCIFS 121 (140)
Q Consensus 42 tfvGylIi~~~~ligy~~gt~~~kr~~iDi~~nliGc~LFIAvGal~l~~w~gy~~e~~~~~~~~~R~~gLA~GsL~IIn 121 (140)
||.=-.|.+.+.-+++++|.-.-. ++.++++.-+|.+++.+...=++-|+ +.++ ..++.+..=++.-..+.++
T Consensus 105 tF~~ssIlLl~~Siss~iG~YiLa-pl~~~i~~~~gAaila~iviP~~~~y--~ln~----~~~s~~~~R~~ll~~a~~Q 177 (299)
T PF05884_consen 105 TFSWSSILLLGFSISSFIGGYILA-PLFGIIFGPFGAAILAYIVIPLIAYY--YLNK----EDGSLAESRLALLFFALFQ 177 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHhcchhHHHHHHHHHHHHHHh--hccc----ccCchHHHHHHHHHHHHHH
Confidence 454455677777788888886655 89999999999999999888887777 3332 1223332335566677777
Q ss_pred hHH
Q psy14327 122 GAL 124 (140)
Q Consensus 122 Ga~ 124 (140)
|++
T Consensus 178 GvL 180 (299)
T PF05884_consen 178 GVL 180 (299)
T ss_pred HHH
Confidence 775
No 14
>PRK12873 ubiA prenyltransferase; Reviewed
Probab=27.68 E-value=1.5e+02 Score=25.53 Aligned_cols=77 Identities=10% Similarity=0.091 Sum_probs=41.7
Q ss_pred eeehhhHHHHHHHhhcCcccchhhHHHHHHHHHHHHHHHHhhhhhhhhcccccccccceeccccchhhhhhhHHhhhhHH
Q psy14327 45 GYFVYTTVILISYGFGTTQQNETLVDIIMNFIAIFLWIAVGGIALHYWIGYQNEHHYQQVTSERGIGITLGILCIFSGAL 124 (140)
Q Consensus 45 GylIi~~~~ligy~~gt~~~kr~~iDi~~nliGc~LFIAvGal~l~~w~gy~~e~~~~~~~~~R~~gLA~GsL~IInGa~ 124 (140)
+......+.+.|+++.++..-. +...+.-++|.++ +++++.++..+.+..-+. .--+|+.| =++.|.++.-++.+
T Consensus 21 ~~~ll~~p~~~g~~la~~~~~~-~~~~~~~~~g~~l-~~~a~~~~Nd~~D~~iD~-~~~RT~~R--Pl~sG~is~~~A~~ 95 (294)
T PRK12873 21 GRLILLIPAGWSLWLTPSAPPS-LLLLLLIILGGLA-VSGAGCIANDLWDRRIDR-KVERTKNR--PLARGKISLKTAYS 95 (294)
T ss_pred hHHHHHHHHHHHHHHccCCCCC-HHHHHHHHHHHHH-HHHHHHHHHHHHHHhhcc-CCCcCCCC--CCCCCCCCHHHHHH
Confidence 4566677788888886543211 2234555666665 455666777776641111 11222333 46777766655555
Q ss_pred HH
Q psy14327 125 YL 126 (140)
Q Consensus 125 fL 126 (140)
|.
T Consensus 96 ~~ 97 (294)
T PRK12873 96 LL 97 (294)
T ss_pred HH
Confidence 43
No 15
>PRK12848 ubiA 4-hydroxybenzoate octaprenyltransferase; Reviewed
Probab=26.83 E-value=1.7e+02 Score=24.24 Aligned_cols=45 Identities=9% Similarity=0.135 Sum_probs=25.0
Q ss_pred hhHHHHHHHhhcCcccchhhHHHHHHHHHHHHHHHHhhhhhhhhccc
Q psy14327 49 YTTVILISYGFGTTQQNETLVDIIMNFIAIFLWIAVGGIALHYWIGY 95 (140)
Q Consensus 49 i~~~~ligy~~gt~~~kr~~iDi~~nliGc~LFIAvGal~l~~w~gy 95 (140)
...+.+.|+.++++.+. +....+.-++|.+ ++.+++.++..+-++
T Consensus 23 ~~~p~~~g~~la~~~~~-~~~~~~l~~~g~~-l~~~a~~~~Nd~~D~ 67 (282)
T PRK12848 23 LLWPTLWALWLAADGIP-DLWVLVVFVLGVF-LMRAAGCVINDYADR 67 (282)
T ss_pred HHHHHHHHHHHHcCCCC-CHHHHHHHHHHHH-HHHHHHHHHHhhHHh
Confidence 33455667776643322 2223445556655 666777777777664
No 16
>PF10781 DSRB: Dextransucrase DSRB; InterPro: IPR019717 DSRB is a novel dextransucrase which produces a dextran different from the typical dextran, as it contains (1-6) and (1-2) linkages, when this strain is grown in the presence of sucrose [].
Probab=23.00 E-value=52 Score=22.98 Aligned_cols=12 Identities=50% Similarity=1.149 Sum_probs=10.9
Q ss_pred eeecCCCCCCCC
Q psy14327 23 GTWNLNEEKNPD 34 (140)
Q Consensus 23 gt~nlne~~~~d 34 (140)
|-|-|||.+++|
T Consensus 43 GiWFFNE~~~~d 54 (62)
T PF10781_consen 43 GIWFFNEKDSPD 54 (62)
T ss_pred ceEEEecCCCCC
Confidence 569999999999
No 17
>KOG1705|consensus
Probab=22.98 E-value=47 Score=25.34 Aligned_cols=22 Identities=32% Similarity=0.680 Sum_probs=19.3
Q ss_pred cccccceeccccchhhhhhhHH
Q psy14327 97 NEHHYQQVTSERGIGITLGILC 118 (140)
Q Consensus 97 ~e~~~~~~~~~R~~gLA~GsL~ 118 (140)
..|+++..--.||.|+|.|-||
T Consensus 2 skHhpDLi~CrkQPGi~~G~LC 23 (110)
T KOG1705|consen 2 AKHHPDLIMCRKQPGIAIGRLC 23 (110)
T ss_pred CCcCCcEEEEecCCCchhhhhH
Confidence 4678889999999999999997
No 18
>COG1286 CvpA Uncharacterized membrane protein, required for colicin V production [General function prediction only]
Probab=22.64 E-value=2.6e+02 Score=22.24 Aligned_cols=44 Identities=14% Similarity=0.391 Sum_probs=30.2
Q ss_pred hhhHHHHHHHhhcCcccchhhHHHHHHHHHHHHHHHHhhhhhhhhccccc
Q psy14327 48 VYTTVILISYGFGTTQQNETLVDIIMNFIAIFLWIAVGGIALHYWIGYQN 97 (140)
Q Consensus 48 Ii~~~~ligy~~gt~~~kr~~iDi~~nliGc~LFIAvGal~l~~w~gy~~ 97 (140)
|+.+.+..+.+.|- +|=++.-+.+++| |+++-..+.+++....+
T Consensus 7 iil~ii~~~~~~g~---~RGfi~e~~sl~s---~i~a~~vA~~fy~~~~~ 50 (182)
T COG1286 7 IILIIIVASFLLGL---RRGFIREVLSLLS---WILAAFVASLFYKPLAP 50 (182)
T ss_pred HHHHHHHHHHHHHH---HHHHHHHHHHHHH---HHHHHHHHHHHhHHHHH
Confidence 45555666666666 7888888888887 56677777777765433
No 19
>PRK12886 ubiA prenyltransferase; Reviewed
Probab=22.07 E-value=3e+02 Score=23.10 Aligned_cols=70 Identities=13% Similarity=0.076 Sum_probs=35.0
Q ss_pred HHHHHHHhhcCcccchhhHHHHHHHHHHHHHHHHhhhhhhhhcccccccccceeccccchhhhhhhHHhhhhHHH
Q psy14327 51 TVILISYGFGTTQQNETLVDIIMNFIAIFLWIAVGGIALHYWIGYQNEHHYQQVTSERGIGITLGILCIFSGALY 125 (140)
Q Consensus 51 ~~~ligy~~gt~~~kr~~iDi~~nliGc~LFIAvGal~l~~w~gy~~e~~~~~~~~~R~~gLA~GsL~IInGa~f 125 (140)
...+.|+.++++..- +..+++.-++|.++-. +++.++..|.++.-+.+.+ +|..| =++.|.++.-++..+
T Consensus 25 ~~~~~g~~lA~~~~~-~~~~l~~~~l~~~l~~-~a~~~~Nd~~D~~iD~~~~-RT~~R--PL~sG~is~~~A~~~ 94 (291)
T PRK12886 25 PFAGIGAVLAALGLP-GASQLDWILMAMVGAR-TAAMGFNRLIDAEIDARNP-RTAGR--AIPAGLISKGSAILF 94 (291)
T ss_pred HHHHHHHHHhccCCC-CHHHHHHHHHHHHHHH-HHHHHHHhHHhhccCCCCC-CCCCC--CCCCCCcCHHHHHHH
Confidence 335667777643322 2234555566666544 4456666666541111111 22233 467776666665544
No 20
>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=21.79 E-value=76 Score=23.35 Aligned_cols=51 Identities=14% Similarity=0.202 Sum_probs=38.5
Q ss_pred eeeeeeehhhHHHHHHHhhcCcccchhhHHHHHHHHHHHHHHHHhhhhhhhhccc
Q psy14327 41 GVFVGYFVYTTVILISYGFGTTQQNETLVDIIMNFIAIFLWIAVGGIALHYWIGY 95 (140)
Q Consensus 41 GtfvGylIi~~~~ligy~~gt~~~kr~~iDi~~nliGc~LFIAvGal~l~~w~gy 95 (140)
..|.-|++=++.+++++.++...... -..++++.+.+.+.|-+.+.++...
T Consensus 70 aa~l~Y~lPll~li~g~~l~~~~~~~----e~~~~l~~l~~l~~~~~~~~~~~~~ 120 (135)
T PF04246_consen 70 AAFLVYLLPLLALIAGAVLGSYLGGS----ELWAILGGLLGLALGFLILRLFDRR 120 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 44566666667777888888765554 5678888889999999999999764
No 21
>TIGR00704 NaPi_cotrn_rel Na/Pi-cotransporter. This model describes essentially the full length of an uncharacterized protein from Bacillus subtilis and correponding lengths of longer proteins from E. coli and Treponema pallidum. PSI-BLAST analysis converges to demonstrate homology to one other group of proteins, type II sodium/phosphate (Na/Pi) cotransporters. A well-conserved repeated domain in this family, approximately 60 residues in length, is also repeated in the Na/Pi cotransporters, although with greater spacing between the repeats. The two families share additional homology in the region after the first repeat, share the properly of having extensive hydrophobic regions, and may be similar in function.
Probab=21.19 E-value=2.7e+02 Score=24.10 Aligned_cols=24 Identities=8% Similarity=0.314 Sum_probs=18.4
Q ss_pred Ccccch-hhHHHHHHHHHHHHHHHH
Q psy14327 61 TTQQNE-TLVDIIMNFIAIFLWIAV 84 (140)
Q Consensus 61 t~~~kr-~~iDi~~nliGc~LFIAv 84 (140)
++.-|| .+...+||++|+.+|...
T Consensus 231 ~~~arr~Alahllfn~~g~ll~lp~ 255 (307)
T TIGR00704 231 NAAARRVALGHVLFNVVGSLIILPF 255 (307)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHH
Confidence 444565 678899999999998764
No 22
>PF13038 DUF3899: Domain of unknown function (DUF3899)
Probab=20.12 E-value=2.2e+02 Score=19.63 Aligned_cols=22 Identities=23% Similarity=0.451 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHhhhhhhhhc
Q psy14327 71 IIMNFIAIFLWIAVGGIALHYWI 93 (140)
Q Consensus 71 i~~nliGc~LFIAvGal~l~~w~ 93 (140)
.+.=++|+++|+..++. .|.|+
T Consensus 10 l~lliig~~~~v~~~Gf-Fd~~~ 31 (92)
T PF13038_consen 10 LILLIIGGFLFVFQSGF-FDGFS 31 (92)
T ss_pred HHHHHHHHHHHHHhcCc-hHHHH
Confidence 34556777788777776 56665
Done!