Query 035456
Match_columns 58
No_of_seqs 106 out of 645
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 03:06:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035456.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035456hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0401 Uncharacterized homolo 99.9 3.4E-27 7.4E-32 134.6 5.7 54 5-58 2-56 (56)
2 KOG1773 Stress responsive prot 99.9 1.6E-26 3.4E-31 134.6 4.5 56 3-58 2-58 (63)
3 PF01679 Pmp3: Proteolipid mem 99.9 1.9E-25 4.1E-30 125.0 4.8 51 7-57 1-51 (51)
4 PF14373 Imm_superinfect: Supe 92.0 0.29 6.3E-06 26.4 3.2 33 20-52 5-42 (43)
5 PF11298 DUF3099: Protein of u 65.9 2.8 6.1E-05 24.7 0.6 24 6-29 42-65 (73)
6 PF09964 DUF2198: Uncharacteri 55.4 25 0.00055 21.0 3.5 33 11-43 2-34 (74)
7 PF07123 PsbW: Photosystem II 52.8 6.2 0.00013 26.1 0.6 41 17-57 79-125 (138)
8 COG4665 FcbT2 TRAP-type mannit 45.9 17 0.00037 25.1 1.9 26 30-55 88-113 (182)
9 COG4897 CsbA Uncharacterized p 44.6 55 0.0012 19.8 3.8 46 11-56 3-52 (78)
10 TIGR02230 ATPase_gene1 F0F1-AT 42.8 20 0.00043 22.3 1.7 37 21-57 62-98 (100)
11 PLN00082 photosystem II reacti 42.4 12 0.00026 22.0 0.7 21 37-57 33-53 (67)
12 PF12555 TPPK_C: Thiamine pyro 40.7 62 0.0013 17.5 4.3 39 3-41 10-48 (53)
13 PLN00077 photosystem II reacti 39.0 14 0.00031 24.1 0.7 43 15-57 66-114 (128)
14 PLN00092 photosystem I reactio 36.0 18 0.00039 23.9 0.8 40 18-57 79-124 (137)
15 COG3152 Predicted membrane pro 33.1 1.3E+02 0.0028 19.1 4.6 36 9-44 56-95 (125)
16 KOG3249 Uncharacterized conser 32.5 93 0.002 21.4 3.9 34 6-44 104-137 (181)
17 PF13396 PLDc_N: Phospholipase 31.8 52 0.0011 16.6 2.1 20 5-24 19-38 (46)
18 COG3093 VapI Plasmid maintenan 31.7 47 0.001 20.9 2.2 19 19-37 52-72 (104)
19 TIGR02973 nitrate_rd_NapE peri 30.7 94 0.002 16.7 3.4 33 6-38 4-36 (42)
20 PF05915 DUF872: Eukaryotic pr 29.8 1E+02 0.0023 19.3 3.5 25 29-53 72-96 (115)
21 TIGR02972 TMAO_torE trimethyla 29.7 1E+02 0.0022 16.9 3.1 33 6-38 9-41 (47)
22 PHA00724 hypothetical protein 29.6 1.3E+02 0.0029 18.1 4.4 34 10-52 8-41 (83)
23 PF03376 Adeno_E3B: Adenovirus 29.4 64 0.0014 19.0 2.3 24 18-41 9-32 (67)
24 KOG4040 NADH:ubiquinone oxidor 29.1 42 0.0009 23.2 1.7 24 33-56 127-150 (186)
25 cd00495 Ribosomal_L25_TL5_CTC 27.5 12 0.00026 21.9 -1.0 10 42-51 22-31 (91)
26 PF06796 NapE: Periplasmic nit 26.7 1.2E+02 0.0026 17.1 3.1 31 8-38 19-49 (56)
27 PF05478 Prominin: Prominin; 26.4 54 0.0012 26.3 2.1 22 32-53 769-790 (806)
28 PRK05943 50S ribosomal protein 25.3 14 0.0003 22.0 -1.0 9 43-51 24-32 (94)
29 KOG4753 Predicted membrane pro 25.3 20 0.00044 23.3 -0.3 26 30-55 81-106 (124)
30 COG5605 Predicted small integr 24.4 68 0.0015 20.4 2.0 16 11-26 77-92 (115)
31 PF08139 LPAM_1: Prokaryotic m 22.8 53 0.0011 15.8 1.0 15 16-30 10-24 (25)
32 PF10348 DUF2427: Domain of un 20.1 2.2E+02 0.0048 17.3 4.9 43 9-51 23-69 (105)
No 1
>COG0401 Uncharacterized homolog of Blt101 [Function unknown]
Probab=99.94 E-value=3.4e-27 Score=134.62 Aligned_cols=54 Identities=54% Similarity=0.933 Sum_probs=51.6
Q ss_pred chHHHHHHHHHHhhchhHHHhHhc-cchhHHHHHHHHHHHhhhhhhhheeeeecC
Q 035456 5 GTATCIDIILAIILPPLGVFLKFG-CKVEFWICLLLTIFGYIPGIIYAVYAITKN 58 (58)
Q Consensus 5 ~~~~~~~~ilai~lPPlaV~l~~G-~~~~~~inllLtllg~iPg~IhA~yii~~~ 58 (58)
+.+|+.++++|+|+||++|++++| |++|+++|++||++||+||+|||+|++.|+
T Consensus 2 ~~~d~~~iilaiflPP~~VfL~~G~~~~df~iNiLLtlLg~~PGiiHA~yvi~~~ 56 (56)
T COG0401 2 TLMDFIRIVLAIFLPPLGVFLRRGFGGKDFLINILLTLLGYIPGIIHALYVILRD 56 (56)
T ss_pred cHHHHHHHHHHHHcCchhhhhhccCCcHHHHHHHHHHHHHhhhhhHhheEEEEeC
Confidence 578999999999999999999999 579999999999999999999999999986
No 2
>KOG1773 consensus Stress responsive protein [General function prediction only]
Probab=99.93 E-value=1.6e-26 Score=134.55 Aligned_cols=56 Identities=50% Similarity=0.860 Sum_probs=53.3
Q ss_pred ccchHHHHHHHHHHhhchhHHHhHhc-cchhHHHHHHHHHHHhhhhhhhheeeeecC
Q 035456 3 DEGTATCIDIILAIILPPLGVFLKFG-CKVEFWICLLLTIFGYIPGIIYAVYAITKN 58 (58)
Q Consensus 3 ~~~~~~~~~~ilai~lPPlaV~l~~G-~~~~~~inllLtllg~iPg~IhA~yii~~~ 58 (58)
+++++++.++++|+|+||+||++++| |++|++||++||++||+||+|||+|++.++
T Consensus 2 ~~~~~~~~~iilai~lPP~aV~l~~g~C~~~~~InilL~~L~~iPgiIhA~yii~~~ 58 (63)
T KOG1773|consen 2 ATDCDDILLIILAIFLPPLAVFLRRGGCTVDVLINILLTLLGFIPGIIHAIYIIFFR 58 (63)
T ss_pred CCcHHHHHHHHHHHHcCchheeeecCCCchhhHHHHHHHHHHHhHHHHhhEEEEEEe
Confidence 56899999999999999999999998 899999999999999999999999999864
No 3
>PF01679 Pmp3: Proteolipid membrane potential modulator; InterPro: IPR000612 Proteolipid membrane potential modulator is an evolutionarily conserved proteolipid in the plasma membrane which, in S. pombe, is transcriptionally regulated by the Spc1 stress MAPK (mitogen-activated protein kinases) pathway. It functions to modulate the membrane potential, particularly to resist high cellular cation concentration. In eukaryotic organisms, stress-activated mitogen-activated protein kinases play crucial roles in transmitting environmental signals that will regulate gene expression for allowing the cell to adapt to cellular stress. Pmp3-like proteins are highly conserved in bacteria, yeast, nematode and plants. Proteins in this entry include the PMP3 as well as several other proteins that have been shown [] to be evolutionary related. These are small proteins of from 52 to 140 amino-acid resiudes that contain two transmembrane domains and belong to the UPF0057 (PMP3) protein family.; GO: 0016021 integral to membrane
Probab=99.92 E-value=1.9e-25 Score=125.00 Aligned_cols=51 Identities=61% Similarity=1.093 Sum_probs=48.8
Q ss_pred HHHHHHHHHHhhchhHHHhHhccchhHHHHHHHHHHHhhhhhhhheeeeec
Q 035456 7 ATCIDIILAIILPPLGVFLKFGCKVEFWICLLLTIFGYIPGIIYAVYAITK 57 (58)
Q Consensus 7 ~~~~~~ilai~lPPlaV~l~~G~~~~~~inllLtllg~iPg~IhA~yii~~ 57 (58)
+|++++++|+++||+||++++||++|+++|++||++||+||++||+|+++|
T Consensus 1 ~~~~~~ilai~lPPlaV~~~~g~~~~~~inl~Ltl~g~iPg~ihA~y~i~~ 51 (51)
T PF01679_consen 1 MDILLIILAIFLPPLAVFLKKGCSKDFWINLLLTLLGWIPGVIHALYVIYK 51 (51)
T ss_pred CcHHHHHHHHHcccHHHHHHcCCchhhHHHHHHHHHHHHHHHHHeeEEEeC
Confidence 378999999999999999999999999999999999999999999999976
No 4
>PF14373 Imm_superinfect: Superinfection immunity protein
Probab=92.02 E-value=0.29 Score=26.40 Aligned_cols=33 Identities=27% Similarity=0.418 Sum_probs=25.0
Q ss_pred hhHHHhHhc---cchhHHHHHHH--HHHHhhhhhhhhe
Q 035456 20 PLGVFLKFG---CKVEFWICLLL--TIFGYIPGIIYAV 52 (58)
Q Consensus 20 PlaV~l~~G---~~~~~~inllL--tllg~iPg~IhA~ 52 (58)
|-.+..+++ ...-+.+|++| |..||+-+.++|+
T Consensus 5 P~iiA~~r~~~~~~~I~~~Nl~lGWT~iGWv~aLiwA~ 42 (43)
T PF14373_consen 5 PSIIAFRRKHPNKWAIFLLNLLLGWTGIGWVAALIWAL 42 (43)
T ss_pred hHHHHHHcCCCcchhhHhHHHHHHhHHHHHHHHHHHhc
Confidence 344445444 35678999999 9999999999886
No 5
>PF11298 DUF3099: Protein of unknown function (DUF3099); InterPro: IPR021449 Some members in this family of proteins are annotated as membrane proteins however this cannot be confirmed. Currently no function is known.
Probab=65.92 E-value=2.8 Score=24.73 Aligned_cols=24 Identities=21% Similarity=0.084 Sum_probs=18.6
Q ss_pred hHHHHHHHHHHhhchhHHHhHhcc
Q 035456 6 TATCIDIILAIILPPLGVFLKFGC 29 (58)
Q Consensus 6 ~~~~~~~ilai~lPPlaV~l~~G~ 29 (58)
.-.+..+..|+.+|++||.+..+.
T Consensus 42 ~la~~~~~~av~LPwvAVviAN~~ 65 (73)
T PF11298_consen 42 WLAWAIIVGAVPLPWVAVVIANAR 65 (73)
T ss_pred HHHHHHHHHhcccchhheeeccCC
Confidence 345667788999999999887653
No 6
>PF09964 DUF2198: Uncharacterized protein conserved in bacteria (DUF2198); InterPro: IPR019242 This family of various hypothetical archaeal proteins has no known function.
Probab=55.37 E-value=25 Score=21.00 Aligned_cols=33 Identities=24% Similarity=0.297 Sum_probs=26.9
Q ss_pred HHHHHHhhchhHHHhHhccchhHHHHHHHHHHH
Q 035456 11 DIILAIILPPLGVFLKFGCKVEFWICLLLTIFG 43 (58)
Q Consensus 11 ~~ilai~lPPlaV~l~~G~~~~~~inllLtllg 43 (58)
.+++|.++|=+-|.+-...+..-++-.+||..-
T Consensus 2 ~~~~Al~~P~lLVvlFtrVT~n~~vg~~lt~~L 34 (74)
T PF09964_consen 2 KYLLALFFPCLLVVLFTRVTYNHYVGTILTVAL 34 (74)
T ss_pred HHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHH
Confidence 468999999999988877788888888887654
No 7
>PF07123 PsbW: Photosystem II reaction centre W protein (PsbW); InterPro: IPR009806 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbW found in PSII, where it is a subunit of the oxygen-evolving complex. PsbW appears to have several roles, including guiding PSII biogenesis and assembly, stabilising dimeric PSII [], and facilitating PSII repair after photo-inhibition []. There appears to be two classes of PsbW, class 1 being found predominantly in algae and cyanobacteria, and class 2 being found predominantly in plants. This entry represents class 2 PsbW.; GO: 0015979 photosynthesis, 0009507 chloroplast, 0009523 photosystem II
Probab=52.81 E-value=6.2 Score=26.10 Aligned_cols=41 Identities=22% Similarity=0.285 Sum_probs=26.3
Q ss_pred hhchhHHHhHh----ccchhHHH--HHHHHHHHhhhhhhhheeeeec
Q 035456 17 ILPPLGVFLKF----GCKVEFWI--CLLLTIFGYIPGIIYAVYAITK 57 (58)
Q Consensus 17 ~lPPlaV~l~~----G~~~~~~i--nllLtllg~iPg~IhA~yii~~ 57 (58)
-.|=+|..-.+ |-|..+=+ |++-+++.-++|.||++|.+++
T Consensus 79 a~PA~ALVDeRlsteGTGL~lGlsn~~LgwIL~gVf~lIWslY~~~~ 125 (138)
T PF07123_consen 79 ASPALALVDERLSTEGTGLPLGLSNNLLGWILLGVFGLIWSLYFVYT 125 (138)
T ss_pred cCcHHHHHHHHhcCCCccccccccCchhHHHHHHHHHHHHHHHHhhc
Confidence 46766655543 33333333 3455777779999999998874
No 8
>COG4665 FcbT2 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=45.95 E-value=17 Score=25.07 Aligned_cols=26 Identities=31% Similarity=0.552 Sum_probs=22.3
Q ss_pred chhHHHHHHHHHHHhhhhhhhheeee
Q 035456 30 KVEFWICLLLTIFGYIPGIIYAVYAI 55 (58)
Q Consensus 30 ~~~~~inllLtllg~iPg~IhA~yii 55 (58)
..+.|++++.|+++.+|+.+.-+|.-
T Consensus 88 R~qa~vDllGtifFLlPfc~l~iy~~ 113 (182)
T COG4665 88 RTQAWVDLLGTIFFLLPFCLLVIYLS 113 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 46889999999999999998777653
No 9
>COG4897 CsbA Uncharacterized protein conserved in bacteria [Function unknown]
Probab=44.65 E-value=55 Score=19.75 Aligned_cols=46 Identities=28% Similarity=0.319 Sum_probs=32.7
Q ss_pred HHHHHHhhchhHHHhHhccchhHHHHHHHHHHH----hhhhhhhheeeee
Q 035456 11 DIILAIILPPLGVFLKFGCKVEFWICLLLTIFG----YIPGIIYAVYAIT 56 (58)
Q Consensus 11 ~~ilai~lPPlaV~l~~G~~~~~~inllLtllg----~iPg~IhA~yii~ 56 (58)
.++-|.|+|=+-|.+-...+..=++.++||... ..-|.-|..|++.
T Consensus 3 ~~~sAlfFPc~LVvLF~riT~n~yVa~vLt~vLi~AS~~kgYt~~~wii~ 52 (78)
T COG4897 3 QIISALFFPCLLVVLFARITYNRYVALVLTVVLIAASAKKGYTSSFWIIT 52 (78)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccceeeeee
Confidence 457899999998887766666667777776543 4566777777764
No 10
>TIGR02230 ATPase_gene1 F0F1-ATPase subunit, putative. This model represents a protein found encoded in F1F0-ATPase operons in several genomes, including Methanosarcina barkeri (archaeal) and Chlorobium tepidum (bacterial). It is a small protein (about 100 amino acids) with long hydrophic stretches and is presumed to be a subunit of the enzyme.
Probab=42.81 E-value=20 Score=22.28 Aligned_cols=37 Identities=22% Similarity=0.328 Sum_probs=27.6
Q ss_pred hHHHhHhccchhHHHHHHHHHHHhhhhhhhheeeeec
Q 035456 21 LGVFLKFGCKVEFWICLLLTIFGYIPGIIYAVYAITK 57 (58)
Q Consensus 21 laV~l~~G~~~~~~inllLtllg~iPg~IhA~yii~~ 57 (58)
++.++.+-++.+.+..+.+.++|..-|...|.+.+.|
T Consensus 62 lG~WLD~~~~t~~~~tl~~lllGv~~G~~n~w~wi~r 98 (100)
T TIGR02230 62 VGIWLDRHYPSPFSWTLTMLIVGVVIGCLNAWHWVSR 98 (100)
T ss_pred HHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3555555566677888889999999999888776654
No 11
>PLN00082 photosystem II reaction centre W protein (PsbW); Provisional
Probab=42.37 E-value=12 Score=22.04 Aligned_cols=21 Identities=24% Similarity=0.264 Sum_probs=16.1
Q ss_pred HHHHHHHhhhhhhhheeeeec
Q 035456 37 LLLTIFGYIPGIIYAVYAITK 57 (58)
Q Consensus 37 llLtllg~iPg~IhA~yii~~ 57 (58)
.+-.++.-+|+.|+++|.+++
T Consensus 33 ~LgwIL~gvf~liw~ly~~~~ 53 (67)
T PLN00082 33 KLTWILVGVTALIWALYFSYS 53 (67)
T ss_pred hhhhHHHHHHHHHHHHHhhee
Confidence 344666678999999998865
No 12
>PF12555 TPPK_C: Thiamine pyrophosphokinase C terminal; InterPro: IPR022215 This domain family is found in bacteria, and is approximately 50 amino acids in length. The proteins in this family catalyses the pyrophosphorylation of thiamine in yeast and synthesizes thiamine pyrophosphate (TPP), a thiamine coenzyme.
Probab=40.73 E-value=62 Score=17.54 Aligned_cols=39 Identities=15% Similarity=-0.038 Sum_probs=30.6
Q ss_pred ccchHHHHHHHHHHhhchhHHHhHhccchhHHHHHHHHH
Q 035456 3 DEGTATCIDIILAIILPPLGVFLKFGCKVEFWICLLLTI 41 (58)
Q Consensus 3 ~~~~~~~~~~ilai~lPPlaV~l~~G~~~~~~inllLtl 41 (58)
+.....+...++|.++|=.++....+.+.+++=++..+.
T Consensus 10 ris~~~~~~lvlaaLvav~v~l~~s~~g~~~~~~l~~~w 48 (53)
T PF12555_consen 10 RISGWALALLVLAALVAVAVALLISPAGQSFLDLLADTW 48 (53)
T ss_pred CCchHHHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence 345567889999999998888888888888777766543
No 13
>PLN00077 photosystem II reaction centre W protein; Provisional
Probab=38.96 E-value=14 Score=24.14 Aligned_cols=43 Identities=21% Similarity=0.271 Sum_probs=27.0
Q ss_pred HHhhchhHHHhHh----ccchhHHH--HHHHHHHHhhhhhhhheeeeec
Q 035456 15 AIILPPLGVFLKF----GCKVEFWI--CLLLTIFGYIPGIIYAVYAITK 57 (58)
Q Consensus 15 ai~lPPlaV~l~~----G~~~~~~i--nllLtllg~iPg~IhA~yii~~ 57 (58)
+.-.|-+|..-.+ |-|..+=+ |.+-+++.-++|.||++|.+++
T Consensus 66 a~a~PA~AlVDeRlsteGtGl~lGlsn~~LgwIL~gVf~liw~ly~~~~ 114 (128)
T PLN00077 66 AYAHPAFALVDERMSTEGTGLSLGLSNNLLGWILLGVFGLIWSLYTTYT 114 (128)
T ss_pred hccccHHHHHhHhhcCCCccccccccCchhhHHHHhHHHHHHHHHhhee
Confidence 3456766765543 33333333 3444666779999999998875
No 14
>PLN00092 photosystem I reaction center subunit V (PsaG); Provisional
Probab=36.01 E-value=18 Score=23.91 Aligned_cols=40 Identities=23% Similarity=0.330 Sum_probs=25.6
Q ss_pred hchhHHHhHh----ccchhHHH--HHHHHHHHhhhhhhhheeeeec
Q 035456 18 LPPLGVFLKF----GCKVEFWI--CLLLTIFGYIPGIIYAVYAITK 57 (58)
Q Consensus 18 lPPlaV~l~~----G~~~~~~i--nllLtllg~iPg~IhA~yii~~ 57 (58)
.|-+|..-.+ |-|..+=+ |.+-+++.-+++.||++|.+++
T Consensus 79 ~PA~AlVDeRlsteGTGlplGlsn~~LgwIL~gVf~lIWslYf~~~ 124 (137)
T PLN00092 79 SPAMALVDERMSTEGTGLPFGLSNNLLGWILLGVFGLIWSLYFVYT 124 (137)
T ss_pred CcHHHHHHHhhcCCCccccccccCcchhhHHHhHHHHHHHHHheee
Confidence 6766665543 33333333 3444666679999999999875
No 15
>COG3152 Predicted membrane protein [Function unknown]
Probab=33.10 E-value=1.3e+02 Score=19.08 Aligned_cols=36 Identities=25% Similarity=0.479 Sum_probs=23.6
Q ss_pred HHHHHHHHhhchhHHHhHh--ccchhHHHHHH--HHHHHh
Q 035456 9 CIDIILAIILPPLGVFLKF--GCKVEFWICLL--LTIFGY 44 (58)
Q Consensus 9 ~~~~ilai~lPPlaV~l~~--G~~~~~~inll--Ltllg~ 44 (58)
...+.+|.++|=+++..|| ..++.-|..++ ....|+
T Consensus 56 ~~l~~la~~~p~lal~vrRLHD~g~sgw~~Ll~lip~vg~ 95 (125)
T COG3152 56 TALYLLALFLPTLALTVRRLHDRGRSGWWALLALIPVVGW 95 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHH
Confidence 4677899999999999987 44444444333 344443
No 16
>KOG3249 consensus Uncharacterized conserved protein [Function unknown]
Probab=32.49 E-value=93 Score=21.45 Aligned_cols=34 Identities=26% Similarity=0.560 Sum_probs=23.6
Q ss_pred hHHHHHHHHHHhhchhHHHhHhccchhHHHHHHHHHHHh
Q 035456 6 TATCIDIILAIILPPLGVFLKFGCKVEFWICLLLTIFGY 44 (58)
Q Consensus 6 ~~~~~~~ilai~lPPlaV~l~~G~~~~~~inllLtllg~ 44 (58)
...++.+++.+.+-|+|+-+..| .+=++|+++.|
T Consensus 104 ~~~~v~vllW~vL~~ia~~l~fG-----lvff~lSlf~~ 137 (181)
T KOG3249|consen 104 LKMWVIVLLWFVLAPIAHRLDFG-----LVFFLLSLFSI 137 (181)
T ss_pred hhHHHHHHHHHHHHHHHHHHHhh-----HHHHHHHHHHH
Confidence 34467888889999999888766 33345555554
No 17
>PF13396 PLDc_N: Phospholipase_D-nuclease N-terminal
Probab=31.84 E-value=52 Score=16.62 Aligned_cols=20 Identities=15% Similarity=0.415 Sum_probs=13.9
Q ss_pred chHHHHHHHHHHhhchhHHH
Q 035456 5 GTATCIDIILAIILPPLGVF 24 (58)
Q Consensus 5 ~~~~~~~~ilai~lPPlaV~ 24 (58)
+.++..-.+..+++|.++..
T Consensus 19 ~~~k~~W~~~i~~~P~iG~i 38 (46)
T PF13396_consen 19 PSSKILWLIVILFFPIIGPI 38 (46)
T ss_pred CchhhHHHHHHHHHHHHHHh
Confidence 35666667777778888754
No 18
>COG3093 VapI Plasmid maintenance system antidote protein [General function prediction only]
Probab=31.71 E-value=47 Score=20.92 Aligned_cols=19 Identities=32% Similarity=0.632 Sum_probs=13.4
Q ss_pred chhHHHhHh--ccchhHHHHH
Q 035456 19 PPLGVFLKF--GCKVEFWICL 37 (58)
Q Consensus 19 PPlaV~l~~--G~~~~~~inl 37 (58)
|..|+=+.+ |-+.|||+|+
T Consensus 52 ~dmAlrL~k~fGtspefWlNl 72 (104)
T COG3093 52 ADMALRLAKVFGTSPEFWLNL 72 (104)
T ss_pred HHHHHHHHHHhCCCHHHHHHH
Confidence 445554544 7799999997
No 19
>TIGR02973 nitrate_rd_NapE periplasmic nitrate reductase, NapE protein. NapE, homologous to TorE (TIGR02972), is a membrane protein of unknown function that is part of the periplasmic nitrate reductase system; it may be part of the enzyme complex. The periplasmic nitrate reductase allows for nitrate respiration in anaerobic conditions.
Probab=30.69 E-value=94 Score=16.66 Aligned_cols=33 Identities=21% Similarity=0.366 Sum_probs=25.7
Q ss_pred hHHHHHHHHHHhhchhHHHhHhccchhHHHHHH
Q 035456 6 TATCIDIILAIILPPLGVFLKFGCKVEFWICLL 38 (58)
Q Consensus 6 ~~~~~~~ilai~lPPlaV~l~~G~~~~~~inll 38 (58)
+-+-...+..+++|=++|..-.|.|--.|..=+
T Consensus 4 El~~flfl~~~l~PiLsV~~V~~YGF~vWm~Q~ 36 (42)
T TIGR02973 4 ELNTFLFLAAVIWPVLSVITVGGYGFAVWMYQI 36 (42)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445667788899999999999888877776544
No 20
>PF05915 DUF872: Eukaryotic protein of unknown function (DUF872); InterPro: IPR008590 This entry represents several uncharacterised eukaryotic transmembrane proteins. The function of this currently unknown.
Probab=29.81 E-value=1e+02 Score=19.26 Aligned_cols=25 Identities=28% Similarity=0.490 Sum_probs=20.1
Q ss_pred cchhHHHHHHHHHHHhhhhhhhhee
Q 035456 29 CKVEFWICLLLTIFGYIPGIIYAVY 53 (58)
Q Consensus 29 ~~~~~~inllLtllg~iPg~IhA~y 53 (58)
-+.+-+.-+++.++.++||.=|-..
T Consensus 72 ~~~~~~~llilG~L~fIPG~Y~~~i 96 (115)
T PF05915_consen 72 DRDRGWALLILGILCFIPGFYHTRI 96 (115)
T ss_pred CCcccchHHHHHHHHHhccHHHHHH
Confidence 3567788889999999999877643
No 21
>TIGR02972 TMAO_torE trimethylamine N-oxide reductase system, TorE protein. Members of this small, apparent transmembrane protein are designated TorE and occur in operons for the trimethylamine N-oxide (TMAO) reductase system. Members are closely related to the NapE protein of the related periplasmic nitrate reductase system. It may be that TorE is an integral membrane subunit of a complex with the reductase TorA.
Probab=29.73 E-value=1e+02 Score=16.87 Aligned_cols=33 Identities=18% Similarity=0.335 Sum_probs=25.6
Q ss_pred hHHHHHHHHHHhhchhHHHhHhccchhHHHHHH
Q 035456 6 TATCIDIILAIILPPLGVFLKFGCKVEFWICLL 38 (58)
Q Consensus 6 ~~~~~~~ilai~lPPlaV~l~~G~~~~~~inll 38 (58)
+-+....+..+++|=++|..-.|.|--.|..=+
T Consensus 9 El~~flfl~v~l~PiLsV~~Vg~YGF~vWm~Q~ 41 (47)
T TIGR02972 9 ELKALGFIIVVLFPILSVAGIGGYGFIIWMIQA 41 (47)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344667788889999999999888877776554
No 22
>PHA00724 hypothetical protein
Probab=29.65 E-value=1.3e+02 Score=18.13 Aligned_cols=34 Identities=29% Similarity=0.686 Sum_probs=21.2
Q ss_pred HHHHHHHhhchhHHHhHhccchhHHHHHHHHHHHhhhhhhhhe
Q 035456 10 IDIILAIILPPLGVFLKFGCKVEFWICLLLTIFGYIPGIIYAV 52 (58)
Q Consensus 10 ~~~ilai~lPPlaV~l~~G~~~~~~inllLtllg~iPg~IhA~ 52 (58)
..+++++++|-++...+ .+.+|+ .|++-|.+--+
T Consensus 8 viyilgil~p~lgli~r-----nyl~nl----mgfvmgtigfl 41 (83)
T PHA00724 8 VIYILGILIPLLGLIVR-----NYLVNL----MGFVMGTIGFL 41 (83)
T ss_pred hHHHHHHHHHHHHHHHH-----HHHHHH----HHHHHhHhhee
Confidence 35788999998886544 455554 45555555433
No 23
>PF03376 Adeno_E3B: Adenovirus E3B protein; InterPro: IPR005041 Adenoviruses are medium-sized, non-enveloped viruses containing double-stranded DNA. They can cause a variety of diseases including pneumonia, cystitis, conjunctivitis and diarrhoea, all of which can be fatal to patients who are immunocompromised []. These viruses have many mechanisms to evade the host immune response, including several proteins which are expressed as part of the early transcription unit 3 (E3) []. One of the regions of E3, known as the E3B region, encodes three proteins known as 10.4K, 14.5K and 14.7K. Two of these proteins, 10.4K and 14.5K, form the RID complex (receptor internalisation and degradation) which protects the infected cell from host-induced lysis by clearing the the TNF and Fas receptors from the cell surface []. Other receptors, such as the epidermal growth factor receptor, are also known to be cleared by RID []. This entry represents the E3B region 10.4K protein, also known as the RID alpha subunit.; GO: 0016020 membrane
Probab=29.40 E-value=64 Score=19.01 Aligned_cols=24 Identities=33% Similarity=0.686 Sum_probs=15.0
Q ss_pred hchhHHHhHhccchhHHHHHHHHH
Q 035456 18 LPPLGVFLKFGCKVEFWICLLLTI 41 (58)
Q Consensus 18 lPPlaV~l~~G~~~~~~inllLtl 41 (58)
+||.+|++..++-.-..++-+.|+
T Consensus 9 l~pf~vYlif~fv~c~~iCSi~~~ 32 (67)
T PF03376_consen 9 LPPFAVYLIFAFVTCTCICSIVCF 32 (67)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHH
Confidence 799999998765333344444443
No 24
>KOG4040 consensus NADH:ubiquinone oxidoreductase, NDUFB8/ASHI subunit [Energy production and conversion]
Probab=29.13 E-value=42 Score=23.16 Aligned_cols=24 Identities=21% Similarity=0.505 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHhhhhhhhheeeee
Q 035456 33 FWICLLLTIFGYIPGIIYAVYAIT 56 (58)
Q Consensus 33 ~~inllLtllg~iPg~IhA~yii~ 56 (58)
-|-.++.+++|.+|+.+.+.|+.-
T Consensus 127 ~w~~~~mcl~g~~~~~l~~~y~~d 150 (186)
T KOG4040|consen 127 TWNSIVMCLRGLVPMALLAWYFTD 150 (186)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHcc
Confidence 367788899999999999998753
No 25
>cd00495 Ribosomal_L25_TL5_CTC Ribosomal_L25_TL5_CTC: Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain. L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC, which each contain two domains. CTC is a known stress protein, and proteins of this family are believed to have two functions, acting as both ribosomal and stress proteins. In Escherichia coli, cells deleted for L25 were found to be viable; however, these cells grew slowly and had impaired protein synthesis capability. In Bacillus subtilis, CTC is induced under stress conditions and located in the ribosome; it has been proposed that CTC may be necessary for accurate translation under stress conditions. Ribosomal_L25_TL5_CTC is found only in bacteria and some plastids. Due to its limited taxonomic diversity and the viability of cells deleted for L25, this protein is not believed to be necessary for ribosomal assembly. Eukaryotes contain a protein called L25, which is not homologous to bacterial L
Probab=27.54 E-value=12 Score=21.87 Aligned_cols=10 Identities=40% Similarity=0.959 Sum_probs=7.7
Q ss_pred HHhhhhhhhh
Q 035456 42 FGYIPGIIYA 51 (58)
Q Consensus 42 lg~iPg~IhA 51 (58)
-|++||++|.
T Consensus 22 ~G~iPavvYG 31 (91)
T cd00495 22 AGKVPAVIYG 31 (91)
T ss_pred CCCCCEEEEC
Confidence 3788998875
No 26
>PF06796 NapE: Periplasmic nitrate reductase protein NapE; InterPro: IPR010649 This family consists of several bacterial periplasmic nitrate reductase NapE proteins. Seven genes, napKEFDABC, encoding the periplasmic nitrate reductase system were cloned from the denitrifying phototrophic bacterium Rhodobacter sphaeroides. NapE is thought to be a transmembrane protein [].
Probab=26.66 E-value=1.2e+02 Score=17.13 Aligned_cols=31 Identities=16% Similarity=0.365 Sum_probs=23.9
Q ss_pred HHHHHHHHHhhchhHHHhHhccchhHHHHHH
Q 035456 8 TCIDIILAIILPPLGVFLKFGCKVEFWICLL 38 (58)
Q Consensus 8 ~~~~~ilai~lPPlaV~l~~G~~~~~~inll 38 (58)
+....+..+++|=++|..-.|.|--.|..=+
T Consensus 19 ~~flfl~~~l~PiL~v~~Vg~YGF~VWm~Q~ 49 (56)
T PF06796_consen 19 KAFLFLAVVLFPILAVAFVGGYGFIVWMYQI 49 (56)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566777889999999998888877776544
No 27
>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology. Mouse and Homo sapiens prominin and (Mus musculus) prominin-like 1 (PROML1) are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain []. The exact function of prominin is unknown although in humans defects in PROM1, the gene coding for prominin, cause retinal degeneration [].; GO: 0016021 integral to membrane
Probab=26.37 E-value=54 Score=26.27 Aligned_cols=22 Identities=41% Similarity=0.649 Sum_probs=19.8
Q ss_pred hHHHHHHHHHHHhhhhhhhhee
Q 035456 32 EFWICLLLTIFGYIPGIIYAVY 53 (58)
Q Consensus 32 ~~~inllLtllg~iPg~IhA~y 53 (58)
-||.++.++.+.++|++|.|.-
T Consensus 769 ~fWf~l~~c~~~liP~ii~avk 790 (806)
T PF05478_consen 769 GFWFGLGWCTLFLIPSIIFAVK 790 (806)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 6899999999999999998864
No 28
>PRK05943 50S ribosomal protein L25; Reviewed
Probab=25.33 E-value=14 Score=21.95 Aligned_cols=9 Identities=56% Similarity=1.106 Sum_probs=7.3
Q ss_pred Hhhhhhhhh
Q 035456 43 GYIPGIIYA 51 (58)
Q Consensus 43 g~iPg~IhA 51 (58)
|++||++|.
T Consensus 24 G~vPaViYG 32 (94)
T PRK05943 24 GKFPAIIYG 32 (94)
T ss_pred CCCCEEEEC
Confidence 788998874
No 29
>KOG4753 consensus Predicted membrane protein [Function unknown]
Probab=25.31 E-value=20 Score=23.33 Aligned_cols=26 Identities=23% Similarity=0.323 Sum_probs=19.9
Q ss_pred chhHHHHHHHHHHHhhhhhhhheeee
Q 035456 30 KVEFWICLLLTIFGYIPGIIYAVYAI 55 (58)
Q Consensus 30 ~~~~~inllLtllg~iPg~IhA~yii 55 (58)
+.+-.+-+++-++.++||.-|..++-
T Consensus 81 ~~~gv~f~V~G~L~FiPGfYh~riay 106 (124)
T KOG4753|consen 81 RSQGVFFFVLGILLFIPGFYHTRIAY 106 (124)
T ss_pred CcceEEEehhhhHhcccchheEeeEE
Confidence 45556667888899999999877653
No 30
>COG5605 Predicted small integral membrane protein [Function unknown]
Probab=24.36 E-value=68 Score=20.43 Aligned_cols=16 Identities=50% Similarity=0.806 Sum_probs=11.9
Q ss_pred HHHHHHhhchhHHHhH
Q 035456 11 DIILAIILPPLGVFLK 26 (58)
Q Consensus 11 ~~ilai~lPPlaV~l~ 26 (58)
-.+-|+++||+-|..-
T Consensus 77 al~yaiilppllvlvf 92 (115)
T COG5605 77 ALVYAIILPPLLVLVF 92 (115)
T ss_pred HHHHHHHhhHHHHHHH
Confidence 3456899999987653
No 31
>PF08139 LPAM_1: Prokaryotic membrane lipoprotein lipid attachment site; InterPro: IPR012640 In prokaryotes, membrane lipoproteins are synthesized with a precursor signal peptide, which is cleaved by a specific lipoprotein signal peptidase (signal peptidase II). The peptidase recognises a conserved sequence and cuts upstream of a cysteine residue to which a glyceride-fatty acid lipid is attached [,]. This lipid attachment site is found in homologues of the VirB proteins of type IV secretion systems (T4SS). Conjugal transfer across the cell envelope of Gram-negative bacteria is mediated by a supramolecular structure termed mating pair formation (Mpf) complex. Collectively, secretion pathways ancestrally related to bacterial conjugation systems are now known as T4SS. T4SS are involved in the delivery of effector molecules to eukaryotic target cells; each of these systems exports distinct DNA or protein substrates to effect a myriad of changes in host cell physiology during infection [].
Probab=22.76 E-value=53 Score=15.77 Aligned_cols=15 Identities=40% Similarity=0.977 Sum_probs=9.9
Q ss_pred HhhchhHHHhHhccc
Q 035456 16 IILPPLGVFLKFGCK 30 (58)
Q Consensus 16 i~lPPlaV~l~~G~~ 30 (58)
+++|=++++...||.
T Consensus 10 il~~l~a~~~LagCs 24 (25)
T PF08139_consen 10 ILFPLLALFMLAGCS 24 (25)
T ss_pred HHHHHHHHHHHhhcc
Confidence 455666777677875
No 32
>PF10348 DUF2427: Domain of unknown function (DUF2427); InterPro: IPR018825 This entry represents the N-terminal region of a family of proteins conserved in fungi. Several of these proteins are annotated as being Ftp1 but this could not be confirmed. Their function is not known.
Probab=20.14 E-value=2.2e+02 Score=17.28 Aligned_cols=43 Identities=26% Similarity=0.394 Sum_probs=30.4
Q ss_pred HHHHHHHHhhchhHHHhHhccc----hhHHHHHHHHHHHhhhhhhhh
Q 035456 9 CIDIILAIILPPLGVFLKFGCK----VEFWICLLLTIFGYIPGIIYA 51 (58)
Q Consensus 9 ~~~~ilai~lPPlaV~l~~G~~----~~~~inllLtllg~iPg~IhA 51 (58)
.++.+..+++=|+++.+....+ .--.++.+++..|++=|.+|.
T Consensus 23 ~lm~la~~il~Pi~lvL~~~~sr~~~~~q~~~~~l~~~g~~~g~~~~ 69 (105)
T PF10348_consen 23 VLMTLAWVILYPIGLVLGNARSRWHLPVQTVFLVLMILGLFLGSVYN 69 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3555666778889988876432 234678888999988887764
Done!