Query 034455
Match_columns 94
No_of_seqs 122 out of 668
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 03:03:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034455.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034455hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1773 Stress responsive prot 99.9 3E-27 6.4E-32 152.3 6.5 61 1-61 1-61 (63)
2 COG0401 Uncharacterized homolo 99.9 2.7E-25 5.8E-30 140.4 5.1 56 3-58 1-56 (56)
3 PF01679 Pmp3: Proteolipid mem 99.9 4.8E-23 1E-27 127.4 3.3 50 7-57 2-51 (51)
4 PF14373 Imm_superinfect: Supe 87.2 0.62 1.4E-05 27.9 2.3 23 30-52 18-42 (43)
5 PF11298 DUF3099: Protein of u 64.4 4.7 0.0001 26.5 1.6 21 7-27 44-64 (73)
6 PLN00082 photosystem II reacti 59.9 5 0.00011 26.4 1.1 26 37-62 33-58 (67)
7 PF07123 PsbW: Photosystem II 58.2 4.6 9.9E-05 29.8 0.7 25 37-61 105-129 (138)
8 PLN00077 photosystem II reacti 53.6 6.9 0.00015 28.5 1.0 26 37-62 94-119 (128)
9 PLN00092 photosystem I reactio 52.5 8.1 0.00017 28.5 1.2 25 37-61 104-128 (137)
10 PRK14584 hmsS hemin storage sy 41.9 7.2 0.00016 29.0 -0.4 43 30-73 12-54 (153)
11 COG4665 FcbT2 TRAP-type mannit 30.3 38 0.00082 26.1 1.9 27 30-56 88-114 (182)
12 PF02046 COX6A: Cytochrome c o 25.5 13 0.00029 26.2 -1.2 46 30-77 41-89 (116)
13 PF11204 DUF2985: Protein of u 24.5 48 0.0011 22.3 1.4 15 36-50 25-39 (81)
14 PF05351 GMP_PDE_delta: GMP-PD 21.9 61 0.0013 24.1 1.6 15 73-88 93-107 (157)
15 PRK10525 cytochrome o ubiquino 21.8 1.2E+02 0.0026 24.7 3.4 29 33-61 44-72 (315)
16 KOG4040 NADH:ubiquinone oxidor 21.7 77 0.0017 24.4 2.2 26 34-59 128-153 (186)
17 PF11284 DUF3085: Protein of u 21.4 70 0.0015 21.6 1.7 25 50-76 9-33 (90)
18 PF12273 RCR: Chitin synthesis 20.9 16 0.00036 25.1 -1.5 12 63-74 26-37 (130)
19 COG3152 Predicted membrane pro 20.5 72 0.0016 22.6 1.7 62 8-72 56-121 (125)
20 PF04246 RseC_MucC: Positive r 20.4 16 0.00034 25.1 -1.6 65 6-71 65-130 (135)
21 KOG4753 Predicted membrane pro 20.0 77 0.0017 23.1 1.8 39 20-59 72-110 (124)
No 1
>KOG1773 consensus Stress responsive protein [General function prediction only]
Probab=99.94 E-value=3e-27 Score=152.29 Aligned_cols=61 Identities=49% Similarity=0.949 Sum_probs=59.7
Q ss_pred CCcchHHHHHHHHHHhcccceeeecccCCchhHHHHHHHHHHHhhhhhhhheeeEEeeCcc
Q 034455 1 MPTRCEIFCEILLAVLLPPVGVCLRHGCCSVEFCICLLLTILGYVPGIIYALYAIVFVDRD 61 (94)
Q Consensus 1 M~~~~~~i~liiLAi~lPPLaV~l~~G~~~~~~~InllLTllGwiPGiIHA~yvi~~~~~~ 61 (94)
|++|+++++++++|+++||+||++++|+|++|++||++||++||+||+|||+|++.+++|+
T Consensus 1 m~~~~~~~~~iilai~lPP~aV~l~~g~C~~~~~InilL~~L~~iPgiIhA~yii~~~~r~ 61 (63)
T KOG1773|consen 1 MATDCDDILLIILAIFLPPLAVFLRRGGCTVDVLINILLTLLGFIPGIIHAIYIIFFRGRE 61 (63)
T ss_pred CCCcHHHHHHHHHHHHcCchheeeecCCCchhhHHHHHHHHHHHhHHHHhhEEEEEEecCC
Confidence 8999999999999999999999999999999999999999999999999999999999887
No 2
>COG0401 Uncharacterized homolog of Blt101 [Function unknown]
Probab=99.92 E-value=2.7e-25 Score=140.42 Aligned_cols=56 Identities=50% Similarity=0.830 Sum_probs=52.8
Q ss_pred cchHHHHHHHHHHhcccceeeecccCCchhHHHHHHHHHHHhhhhhhhheeeEEee
Q 034455 3 TRCEIFCEILLAVLLPPVGVCLRHGCCSVEFCICLLLTILGYVPGIIYALYAIVFV 58 (94)
Q Consensus 3 ~~~~~i~liiLAi~lPPLaV~l~~G~~~~~~~InllLTllGwiPGiIHA~yvi~~~ 58 (94)
++..|++++++|+|+||+||++++|.|++|+++|++||++||+||+|||+|++.++
T Consensus 1 ~~~~d~~~iilaiflPP~~VfL~~G~~~~df~iNiLLtlLg~~PGiiHA~yvi~~~ 56 (56)
T COG0401 1 MTLMDFIRIVLAIFLPPLGVFLRRGFGGKDFLINILLTLLGYIPGIIHALYVILRD 56 (56)
T ss_pred CcHHHHHHHHHHHHcCchhhhhhccCCcHHHHHHHHHHHHHhhhhhHhheEEEEeC
Confidence 36789999999999999999999998899999999999999999999999999764
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=99.87 E-value=4.8e-23 Score=127.37 Aligned_cols=50 Identities=52% Similarity=0.934 Sum_probs=48.0
Q ss_pred HHHHHHHHHhcccceeeecccCCchhHHHHHHHHHHHhhhhhhhheeeEEe
Q 034455 7 IFCEILLAVLLPPVGVCLRHGCCSVEFCICLLLTILGYVPGIIYALYAIVF 57 (94)
Q Consensus 7 ~i~liiLAi~lPPLaV~l~~G~~~~~~~InllLTllGwiPGiIHA~yvi~~ 57 (94)
|++++++|+++||+||++++| |++|+++|++||++||+||++||+|++++
T Consensus 2 ~~~~~ilai~lPPlaV~~~~g-~~~~~~inl~Ltl~g~iPg~ihA~y~i~~ 51 (51)
T PF01679_consen 2 DILLIILAIFLPPLAVFLKKG-CSKDFWINLLLTLLGWIPGVIHALYVIYK 51 (51)
T ss_pred cHHHHHHHHHcccHHHHHHcC-CchhhHHHHHHHHHHHHHHHHHeeEEEeC
Confidence 689999999999999999999 99999999999999999999999999864
No 4
>PF14373 Imm_superinfect: Superinfection immunity protein
Probab=87.18 E-value=0.62 Score=27.94 Aligned_cols=23 Identities=43% Similarity=0.661 Sum_probs=19.8
Q ss_pred chhHHHHHHH--HHHHhhhhhhhhe
Q 034455 30 SVEFCICLLL--TILGYVPGIIYAL 52 (94)
Q Consensus 30 ~~~~~InllL--TllGwiPGiIHA~ 52 (94)
..=+++|++| |++||+-+.++|+
T Consensus 18 ~~I~~~Nl~lGWT~iGWv~aLiwA~ 42 (43)
T PF14373_consen 18 WAIFLLNLLLGWTGIGWVAALIWAL 42 (43)
T ss_pred hhhHhHHHHHHhHHHHHHHHHHHhc
Confidence 4457899999 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=64.45 E-value=4.7 Score=26.46 Aligned_cols=21 Identities=33% Similarity=0.371 Sum_probs=17.2
Q ss_pred HHHHHHHHHhcccceeeeccc
Q 034455 7 IFCEILLAVLLPPVGVCLRHG 27 (94)
Q Consensus 7 ~i~liiLAi~lPPLaV~l~~G 27 (94)
.+..+..|+.+|++||.+-.+
T Consensus 44 a~~~~~~av~LPwvAVviAN~ 64 (73)
T PF11298_consen 44 AWAIIVGAVPLPWVAVVIANA 64 (73)
T ss_pred HHHHHHHhcccchhheeeccC
Confidence 456778899999999999765
No 6
>PLN00082 photosystem II reaction centre W protein (PsbW); Provisional
Probab=59.90 E-value=5 Score=26.39 Aligned_cols=26 Identities=35% Similarity=0.240 Sum_probs=19.9
Q ss_pred HHHHHHHhhhhhhhheeeEEeeCcch
Q 034455 37 LLLTILGYVPGIIYALYAIVFVDRDE 62 (94)
Q Consensus 37 llLTllGwiPGiIHA~yvi~~~~~~~ 62 (94)
.+-+++.-+|+.|+++|.++.+.-++
T Consensus 33 ~LgwIL~gvf~liw~ly~~~~~~l~~ 58 (67)
T PLN00082 33 KLTWILVGVTALIWALYFSYSSTLPE 58 (67)
T ss_pred hhhhHHHHHHHHHHHHHhheecccCC
Confidence 44577778899999999997665444
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=58.19 E-value=4.6 Score=29.77 Aligned_cols=25 Identities=40% Similarity=0.384 Sum_probs=20.1
Q ss_pred HHHHHHHhhhhhhhheeeEEeeCcc
Q 034455 37 LLLTILGYVPGIIYALYAIVFVDRD 61 (94)
Q Consensus 37 llLTllGwiPGiIHA~yvi~~~~~~ 61 (94)
++-+++.-++|.||++|.++.+.=+
T Consensus 105 ~LgwIL~gVf~lIWslY~~~~~~l~ 129 (138)
T PF07123_consen 105 LLGWILLGVFGLIWSLYFVYTSTLD 129 (138)
T ss_pred hhHHHHHHHHHHHHHHHHhhccccC
Confidence 5558888899999999999766544
No 8
>PLN00077 photosystem II reaction centre W protein; Provisional
Probab=53.62 E-value=6.9 Score=28.53 Aligned_cols=26 Identities=42% Similarity=0.396 Sum_probs=20.5
Q ss_pred HHHHHHHhhhhhhhheeeEEeeCcch
Q 034455 37 LLLTILGYVPGIIYALYAIVFVDRDE 62 (94)
Q Consensus 37 llLTllGwiPGiIHA~yvi~~~~~~~ 62 (94)
++-+++.-++|.||++|.++.+.-++
T Consensus 94 ~LgwIL~gVf~liw~ly~~~~~~l~~ 119 (128)
T PLN00077 94 LLGWILLGVFGLIWSLYTTYTSDLPE 119 (128)
T ss_pred hhhHHHHhHHHHHHHHHhheecccCC
Confidence 55577888899999999998765543
No 9
>PLN00092 photosystem I reaction center subunit V (PsaG); Provisional
Probab=52.48 E-value=8.1 Score=28.45 Aligned_cols=25 Identities=36% Similarity=0.357 Sum_probs=19.8
Q ss_pred HHHHHHHhhhhhhhheeeEEeeCcc
Q 034455 37 LLLTILGYVPGIIYALYAIVFVDRD 61 (94)
Q Consensus 37 llLTllGwiPGiIHA~yvi~~~~~~ 61 (94)
.+-+++.-++|.||++|.++...-+
T Consensus 104 ~LgwIL~gVf~lIWslYf~~~~~l~ 128 (137)
T PLN00092 104 LLGWILLGVFGLIWSLYFVYTSTLE 128 (137)
T ss_pred chhhHHHhHHHHHHHHHheeecccC
Confidence 4557778889999999999876444
No 10
>PRK14584 hmsS hemin storage system protein; Provisional
Probab=41.94 E-value=7.2 Score=29.02 Aligned_cols=43 Identities=19% Similarity=0.213 Sum_probs=26.0
Q ss_pred chhHHHHHHHHHHHhhhhhhhheeeEEeeCcchhhhccCcccee
Q 034455 30 SVEFCICLLLTILGYVPGIIYALYAIVFVDRDEYFDEYRRPLKV 73 (94)
Q Consensus 30 ~~~~~InllLTllGwiPGiIHA~yvi~~~~~~~~~~~grRp~~~ 73 (94)
-...++..+||+++|+ |.++-+|--.-.-=+...+.|.||.++
T Consensus 12 ~~p~liD~~lT~~aW~-gfi~l~~~~~~~~~~~~~~~gp~~~~~ 54 (153)
T PRK14584 12 LLPRLIDIILTALAWF-GFLFLLVRGLLEMISRAPHMGPIPLRI 54 (153)
T ss_pred hHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhccCcccCCcchhH
Confidence 3456899999999997 555555443221122233567777653
No 11
>COG4665 FcbT2 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=30.28 E-value=38 Score=26.07 Aligned_cols=27 Identities=22% Similarity=0.199 Sum_probs=23.3
Q ss_pred chhHHHHHHHHHHHhhhhhhhheeeEE
Q 034455 30 SVEFCICLLLTILGYVPGIIYALYAIV 56 (94)
Q Consensus 30 ~~~~~InllLTllGwiPGiIHA~yvi~ 56 (94)
..+.|++++.|+++.+|+.+.-+|.-.
T Consensus 88 R~qa~vDllGtifFLlPfc~l~iy~~~ 114 (182)
T COG4665 88 RTQAWVDLLGTIFFLLPFCLLVIYLSW 114 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 458899999999999999998888643
No 12
>PF02046 COX6A: Cytochrome c oxidase subunit VIa; InterPro: IPR001349 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as VIa in vertebrates and fungi. Mammals have two tissue-specific isoforms of VIa, a liver and a heart form. Only one form is found in fish [].; GO: 0004129 cytochrome-c oxidase activity, 0005743 mitochondrial inner membrane, 0005751 mitochondrial respiratory chain complex IV; PDB: 2DYR_G 2EIM_G 2Y69_T 1OCC_G 3AG4_G 3AG2_G 3ASN_G 3ABL_G 1V55_T 2EIJ_T ....
Probab=25.51 E-value=13 Score=26.18 Aligned_cols=46 Identities=15% Similarity=0.252 Sum_probs=19.7
Q ss_pred chhHHHHHHHHHHHhhhhhhhheeeEE---eeCcchhhhccCccceeeeee
Q 034455 30 SVEFCICLLLTILGYVPGIIYALYAIV---FVDRDEYFDEYRRPLKVPYTF 77 (94)
Q Consensus 30 ~~~~~InllLTllGwiPGiIHA~yvi~---~~~~~~~~~~grRp~~~~~~~ 77 (94)
+..+|-+ +|+++-+|+++-+.+.++ ..+.+.+.+...||=++.|++
T Consensus 41 ~~~~Wk~--iS~~v~iP~i~l~~~n~~~l~~~H~eH~~h~~~~pe~~~Y~y 89 (116)
T PF02046_consen 41 TAKLWKK--ISFFVAIPAIALCMLNAYYLEKEHHEHREHLPERPEFVPYPY 89 (116)
T ss_dssp SHHHHHH--HHHHTHHHHHHHHHHHHH-HSTS-----------------TT
T ss_pred hhHHHHH--HHHHHHHHHHHHHHHHHHHHhhccccccccCCCCCCCCCCcc
Confidence 5677877 577888999887655443 233333334446777777764
No 13
>PF11204 DUF2985: Protein of unknown function (DUF2985); InterPro: IPR021369 This eukaryotic family of proteins has no known function.
Probab=24.51 E-value=48 Score=22.27 Aligned_cols=15 Identities=20% Similarity=0.359 Sum_probs=12.6
Q ss_pred HHHHHHHHhhhhhhh
Q 034455 36 CLLLTILGYVPGIIY 50 (94)
Q Consensus 36 nllLTllGwiPGiIH 50 (94)
-++|-++||+|+..|
T Consensus 25 ~lfllL~g~~~~~~~ 39 (81)
T PF11204_consen 25 MLFLLLCGMLNAMCH 39 (81)
T ss_pred HHHHHHHccchhccC
Confidence 466788999999988
No 14
>PF05351 GMP_PDE_delta: GMP-PDE, delta subunit; InterPro: IPR008015 GMP-PDE delta subunit was originally identified as a fourth subunit of rod-specific cGMP phosphodiesterase (PDE) (3.1.4.35 from EC). The precise function of PDE delta subunit in the rod specific GMP-PDE complex is unclear. In addition, PDE delta subunit is not confined to photoreceptor cells but is widely distributed in different tissues. PDE delta subunit is thought to be a specific soluble transport factor for certain prenylated proteins and Arl2-GTP a regulator of PDE-mediated transport [].; PDB: 3RBQ_B 3GQQ_C 3T5I_A 3T5G_B 1KSG_B 1KSJ_B 1KSH_B.
Probab=21.87 E-value=61 Score=24.14 Aligned_cols=15 Identities=40% Similarity=1.107 Sum_probs=10.5
Q ss_pred eeeeeeeeeeeccCCC
Q 034455 73 VPYTFTFSAFCLPSSH 88 (94)
Q Consensus 73 ~~~~~~~~~~~~~~~~ 88 (94)
=.+||.| .||.|.|.
T Consensus 93 k~~dF~F-GFcIP~S~ 107 (157)
T PF05351_consen 93 KSFDFEF-GFCIPNST 107 (157)
T ss_dssp EEEEEEE-EEE-TTCE
T ss_pred eEEEeee-eeEcCCCc
Confidence 3578888 49999984
No 15
>PRK10525 cytochrome o ubiquinol oxidase subunit II; Provisional
Probab=21.75 E-value=1.2e+02 Score=24.67 Aligned_cols=29 Identities=14% Similarity=0.107 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHhhhhhhhheeeEEeeCcc
Q 034455 33 FCICLLLTILGYVPGIIYALYAIVFVDRD 61 (94)
Q Consensus 33 ~~InllLTllGwiPGiIHA~yvi~~~~~~ 61 (94)
+++.+.+.++.++|-++-++|++.++.++
T Consensus 44 i~~~~~~~liv~i~V~~l~~~f~~ryR~~ 72 (315)
T PRK10525 44 ILTAFGLMLIVVIPAILMAVGFAWKYRAS 72 (315)
T ss_pred HHHHHHHHHhhHHHHHHHHheeEEEEecC
Confidence 45566778888999998888888777654
No 16
>KOG4040 consensus NADH:ubiquinone oxidoreductase, NDUFB8/ASHI subunit [Energy production and conversion]
Probab=21.73 E-value=77 Score=24.39 Aligned_cols=26 Identities=19% Similarity=0.220 Sum_probs=22.1
Q ss_pred HHHHHHHHHHhhhhhhhheeeEEeeC
Q 034455 34 CICLLLTILGYVPGIIYALYAIVFVD 59 (94)
Q Consensus 34 ~InllLTllGwiPGiIHA~yvi~~~~ 59 (94)
|-.++.+++|.+|+.+.|+|+...++
T Consensus 128 w~~~~mcl~g~~~~~l~~~y~~d~~p 153 (186)
T KOG4040|consen 128 WNSIVMCLRGLVPMALLAWYFTDEHP 153 (186)
T ss_pred HHHHHHHHHHHHHHHHHHHHHccccc
Confidence 66788899999999999999975544
No 17
>PF11284 DUF3085: Protein of unknown function (DUF3085); InterPro: IPR021436 This family of proteins with unknown function appears to be restricted to Proteobacteria.
Probab=21.40 E-value=70 Score=21.64 Aligned_cols=25 Identities=20% Similarity=0.303 Sum_probs=16.6
Q ss_pred hheeeEEeeCcchhhhccCccceeeee
Q 034455 50 YALYAIVFVDRDEYFDEYRRPLKVPYT 76 (94)
Q Consensus 50 HA~yvi~~~~~~~~~~~grRp~~~~~~ 76 (94)
|.+|+++..+++ ..+|+|+..+-|-
T Consensus 9 ~GVYlmsn~~~~--~~~G~r~~~vaYA 33 (90)
T PF11284_consen 9 HGVYLMSNGGER--LPDGERPKLVAYA 33 (90)
T ss_pred CeEEEEeCCCcc--CCCCccceEEEEe
Confidence 678888755543 3488888666553
No 18
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=20.92 E-value=16 Score=25.13 Aligned_cols=12 Identities=8% Similarity=-0.122 Sum_probs=7.7
Q ss_pred hhhccCccceee
Q 034455 63 YFDEYRRPLKVP 74 (94)
Q Consensus 63 ~~~~grRp~~~~ 74 (94)
|.++|.+|++=.
T Consensus 26 R~r~G~~P~~gt 37 (130)
T PF12273_consen 26 RRRRGLQPIYGT 37 (130)
T ss_pred HhhcCCCCcCCc
Confidence 334588888743
No 19
>COG3152 Predicted membrane protein [Function unknown]
Probab=20.50 E-value=72 Score=22.62 Aligned_cols=62 Identities=19% Similarity=0.282 Sum_probs=34.5
Q ss_pred HHHHHHHHhcccceeeecc----cCCchhHHHHHHHHHHHhhhhhhhheeeEEeeCcchhhhccCccce
Q 034455 8 FCEILLAVLLPPVGVCLRH----GCCSVEFCICLLLTILGYVPGIIYALYAIVFVDRDEYFDEYRRPLK 72 (94)
Q Consensus 8 i~liiLAi~lPPLaV~l~~----G~~~~~~~InllLTllGwiPGiIHA~yvi~~~~~~~~~~~grRp~~ 72 (94)
...+.+|.++|=+|+..|+ | .+.-..+-.+....|++=+. -++..+....+...+-|++|..
T Consensus 56 ~~l~~la~~~p~lal~vrRLHD~g-~sgw~~Ll~lip~vg~iv~l--li~~~~~~g~~g~N~yG~~p~~ 121 (125)
T COG3152 56 TALYLLALFLPTLALTVRRLHDRG-RSGWWALLALIPVVGWIVGL--LIVFGCLPGTPGENRYGPDPKD 121 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHHHHH--HHHHHhcCCCCCCCCCCCCCcc
Confidence 4577899999999999985 3 33333333334566655431 1222233334444455665544
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=20.44 E-value=16 Score=25.13 Aligned_cols=65 Identities=18% Similarity=0.190 Sum_probs=32.0
Q ss_pred HHHHH-HHHHHhcccceeeecccCCchhHHHHHHHHHHHhhhhhhhheeeEEeeCcchhhhccCccc
Q 034455 6 EIFCE-ILLAVLLPPVGVCLRHGCCSVEFCICLLLTILGYVPGIIYALYAIVFVDRDEYFDEYRRPL 71 (94)
Q Consensus 6 ~~i~l-iiLAi~lPPLaV~l~~G~~~~~~~InllLTllGwiPGiIHA~yvi~~~~~~~~~~~grRp~ 71 (94)
+..++ .+++.++|-++.++--. .+..+.-+-...+++-+=|.+-+++++...+++.+.+...+|.
T Consensus 65 ~~~~~aa~l~Y~lPll~li~g~~-l~~~~~~~e~~~~l~~l~~l~~~~~~~~~~~~~~~~~~~~~p~ 130 (135)
T PF04246_consen 65 SSLLKAAFLVYLLPLLALIAGAV-LGSYLGGSELWAILGGLLGLALGFLILRLFDRRLKKKSKFQPV 130 (135)
T ss_pred chHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCceE
Confidence 34443 44455555555444333 4545555555555555656666666554444443333334443
No 21
>KOG4753 consensus Predicted membrane protein [Function unknown]
Probab=20.03 E-value=77 Score=23.06 Aligned_cols=39 Identities=21% Similarity=0.238 Sum_probs=26.8
Q ss_pred ceeeecccCCchhHHHHHHHHHHHhhhhhhhheeeEEeeC
Q 034455 20 VGVCLRHGCCSVEFCICLLLTILGYVPGIIYALYAIVFVD 59 (94)
Q Consensus 20 LaV~l~~G~~~~~~~InllLTllGwiPGiIHA~yvi~~~~ 59 (94)
+++.+..| =+.+-.+=+++-++.++||.-|-.++-+-.+
T Consensus 72 ~~~~~~ag-~~~~gv~f~V~G~L~FiPGfYh~riayyA~K 110 (124)
T KOG4753|consen 72 AGGRVEAG-DRSQGVFFFVLGILLFIPGFYHTRIAYYAYK 110 (124)
T ss_pred eecceeeC-CCcceEEEehhhhHhcccchheEeeEEEeec
Confidence 34444434 2456667788899999999999888755443
Done!