Query psy17867
Match_columns 81
No_of_seqs 27 out of 29
Neff 2.1
Searched_HMMs 46136
Date Sat Aug 17 01:02:06 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17867.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17867hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14954 LIX1: Limb expression 100.0 1.7E-58 3.6E-63 353.5 6.3 80 2-81 117-196 (252)
2 PF08375 Rpn3_C: Proteasome re 41.1 32 0.00069 22.0 2.5 23 35-58 9-31 (68)
3 PF11060 DUF2861: Protein of u 38.4 32 0.0007 26.7 2.7 41 21-65 10-58 (257)
4 PF14410 GH-E: HNH/ENDO VII su 38.3 25 0.00055 22.1 1.8 24 49-73 29-52 (70)
5 PF12645 HTH_16: Helix-turn-he 34.8 17 0.00036 22.5 0.5 10 64-73 15-24 (65)
6 PF10815 ComZ: ComZ; InterPro 32.4 55 0.0012 20.9 2.6 21 25-45 20-40 (56)
7 KOG4014|consensus 31.3 18 0.00039 28.7 0.3 42 6-54 79-120 (248)
8 PF09549 RE_Bpu10I: Bpu10I res 30.0 35 0.00076 26.1 1.7 38 4-43 74-111 (203)
9 smart00188 IL10 Interleukin-10 28.7 81 0.0018 22.6 3.2 28 33-60 98-125 (137)
10 KOG0665|consensus 27.0 46 0.00099 27.8 1.9 21 32-52 87-107 (369)
11 PRK10234 DNA-binding transcrip 26.6 70 0.0015 22.3 2.6 26 36-61 13-38 (118)
12 PF12287 Caprin-1_C: Cytoplasm 26.5 22 0.00048 29.0 0.1 13 21-38 2-14 (316)
13 PF00912 Transgly: Transglycos 25.5 1.1E+02 0.0024 22.1 3.5 34 31-75 81-115 (178)
14 KOG1422|consensus 25.4 76 0.0016 24.8 2.8 32 44-75 186-217 (221)
15 PF14009 DUF4228: Domain of un 25.2 11 0.00024 24.4 -1.5 29 47-76 20-48 (181)
16 smart00535 RIBOc Ribonuclease 23.1 1.2E+02 0.0025 19.0 2.9 53 26-79 21-75 (129)
17 COG4628 Uncharacterized conser 22.4 69 0.0015 23.5 1.9 22 52-73 53-74 (136)
18 TIGR01663 PNK-3'Pase polynucle 21.9 31 0.00067 28.9 0.1 14 54-67 41-54 (526)
19 PF06923 GutM: Glucitol operon 21.8 1E+02 0.0022 20.7 2.5 23 37-59 13-35 (109)
20 PF10164 DUF2367: Uncharacteri 21.4 24 0.00051 24.5 -0.6 11 54-64 83-93 (98)
21 KOG4691|consensus 21.2 1.6E+02 0.0036 23.2 3.9 40 33-76 56-95 (227)
22 PF09905 DUF2132: Uncharacteri 20.5 1E+02 0.0022 20.1 2.2 21 51-71 43-63 (64)
23 smart00526 H15 Domain in histo 20.4 54 0.0012 19.3 0.9 21 54-74 15-36 (66)
24 cd04147 Ras_dva Ras-dva subfam 20.3 93 0.002 20.8 2.1 36 31-66 147-183 (198)
No 1
>PF14954 LIX1: Limb expression 1
Probab=100.00 E-value=1.7e-58 Score=353.53 Aligned_cols=80 Identities=81% Similarity=1.257 Sum_probs=78.8
Q ss_pred ccccccCCCCCCCCCCchHHHHHHHHHhcCCccHHHHHHHHHHHHHHhhcchhHHHHhhhhhHHHHHHHhhccccccccC
Q psy17867 2 NVFLLQGEPEEADNPNTGIGAFRFMLETNKGRTMLEFQELMTVFQLLHWNGSLKAMRERQCSRQEVVAHYSNRALDDDMR 81 (81)
Q Consensus 2 ~~~s~~g~~~d~~~p~t~igaf~~mLesn~GrtMLEFQElMTVFQLLHWNGSLKAmRer~CSRQeViahYs~r~LD~~mR 81 (81)
+++||+|+++|++|||||||||+||||+|+|||||||||+|||||||||||||||||||+|||||||||||||+||||||
T Consensus 117 A~~s~~~~~~~~~~p~t~igaf~~mLesn~GrtMLEFQElMTVFQLLHWNGSLKAmRer~CSRQeViahYs~r~LD~~mR 196 (252)
T PF14954_consen 117 AVASFSGKLEDADDPSTSIGAFRFMLESNKGRTMLEFQELMTVFQLLHWNGSLKAMRERQCSRQEVIAHYSQRSLDDDMR 196 (252)
T ss_pred HHHhcCCCcccccCCcchHHHHHHHHHhcCCchHHHHHHHHHHHHHHHhcchHHHHHHccccHHHHHHHHHhcchhHHHH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999998
No 2
>PF08375 Rpn3_C: Proteasome regulatory subunit C-terminal; InterPro: IPR013586 Intracellular proteins, including short-lived proteins such as cyclin, Mos, Myc, p53, NF-kappaB, and IkappaB, are degraded by the ubiquitin-proteasome system. The 26S proteasome is a self-compartmentalising protease responsible for the regulated degradation of intracellular proteins in eukaryotes [, ]. This giant intracellular protease is formed by several subunits arranged into two 19S polar caps, where protein recognition and ATP-dependent unfolding occur, flanking a 20S central barrel-shaped structure with an inner proteolytic chamber. This overall structure is highly conserved among eukaryotes and is essential for cell viability. Proteins targeted to the 26S proteasome are conjugated with a polyubiquitin chain by an enzymatic cascade before delivery to the 26S proteasome for degradation into oligopeptides. The 19S component is divided into a "base" subunit containing six ATPases (Rpt proteins) and two non-ATPases (Rpn1, Rpn2), and a "lid" subunit composed of eight stoichiometric proteins (Rpn3, Rpn5, Rpn6, Rpn7, Rpn8, Rpn9, Rpn11, Rpn12) []. Additional non-essential and species specific proteins may also be present. The 19S unit performs several essential functions including binding the specific protein substrates, unfolding them, cleaving the attached ubiquitin chains, opening the 20S subunit, and driving the unfolded polypeptide into the proteolytic chamber for degradation. The 26s proteasome and 19S regulator are of medical interest due to their involvement in burn rehabilitation []. This eukaryotic domain is found at the C terminus of 26S proteasome regulatory subunits such as the non-ATPase Rpn3 subunit which is essential for proteasomal function []. It occurs together with the PCI/PINT domain (IPR000717 from INTERPRO). ; GO: 0030234 enzyme regulator activity, 0042176 regulation of protein catabolic process, 0000502 proteasome complex
Probab=41.13 E-value=32 Score=22.02 Aligned_cols=23 Identities=35% Similarity=0.462 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHhhcchhHHHH
Q psy17867 35 MLEFQELMTVFQLLHWNGSLKAMR 58 (81)
Q Consensus 35 MLEFQElMTVFQLLHWNGSLKAmR 58 (81)
+..|++-.. |=|---|-++||||
T Consensus 9 q~aF~~RI~-FCL~lHneaVkAMR 31 (68)
T PF08375_consen 9 QEAFHQRIA-FCLQLHNEAVKAMR 31 (68)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHhc
Confidence 345655544 33444499999998
No 3
>PF11060 DUF2861: Protein of unknown function (DUF2861); InterPro: IPR021290 This bacterial family of proteins has no known function.
Probab=38.41 E-value=32 Score=26.73 Aligned_cols=41 Identities=29% Similarity=0.541 Sum_probs=35.1
Q ss_pred HHHHHHHHhcCCccHHHHHHHHHHHHHHh--------hcchhHHHHhhhhhHH
Q psy17867 21 GAFRFMLETNKGRTMLEFQELMTVFQLLH--------WNGSLKAMRERQCSRQ 65 (81)
Q Consensus 21 gaf~~mLesn~GrtMLEFQElMTVFQLLH--------WNGSLKAmRer~CSRQ 65 (81)
-||..+|+ |.+-+-||||--|.|.-+ |..=+.|+ +.+|-|+
T Consensus 10 ~ahq~LL~---~~~~~af~sLveawq~~~~~~i~~~lw~ll~qai-~~dCGk~ 58 (257)
T PF11060_consen 10 QAHQALLE---GDPQLAFQSLVEAWQQEPNSDIKPHLWQLLKQAI-QTDCGKS 58 (257)
T ss_pred HHHHHHHc---CCHHHHHHHHHHHHhcCcchhhhHHHHHHHHHHH-Hhhhccc
Confidence 37888887 888999999999999987 88888888 8999764
No 4
>PF14410 GH-E: HNH/ENDO VII superfamily nuclease with conserved GHE residues
Probab=38.28 E-value=25 Score=22.08 Aligned_cols=24 Identities=25% Similarity=0.439 Sum_probs=18.1
Q ss_pred hhcchhHHHHhhhhhHHHHHHHhhc
Q psy17867 49 HWNGSLKAMRERQCSRQEVVAHYSN 73 (81)
Q Consensus 49 HWNGSLKAmRer~CSRQeViahYs~ 73 (81)
|||=..+| ++..-+|+||+++|++
T Consensus 29 ~~~~~~~~-~~~~~t~ke~~d~~n~ 52 (70)
T PF14410_consen 29 YWRLVGRA-EEGGITRKEFLDWYND 52 (70)
T ss_pred HHHHHHHH-HhcCCCHHHHHHHHhC
Confidence 56655555 4588999999999983
No 5
>PF12645 HTH_16: Helix-turn-helix domain; InterPro: IPR024760 This domain appears to be a helix-turn-helix domain, suggesting a transcriptional regulatory protein. Some proteins with this domain are annotated as conjugative transposon proteins.
Probab=34.85 E-value=17 Score=22.45 Aligned_cols=10 Identities=30% Similarity=0.707 Sum_probs=7.0
Q ss_pred HHHHHHHhhc
Q psy17867 64 RQEVVAHYSN 73 (81)
Q Consensus 64 RQeViahYs~ 73 (81)
=++|+.||..
T Consensus 15 ~~~IL~~y~~ 24 (65)
T PF12645_consen 15 MEEILKHYEP 24 (65)
T ss_pred HHHHHHHHHH
Confidence 3678888874
No 6
>PF10815 ComZ: ComZ; InterPro: IPR024558 ComZ, which contains a leucine zipper motif, negatively regulates transcription of the ComG operon [].
Probab=32.41 E-value=55 Score=20.94 Aligned_cols=21 Identities=19% Similarity=0.142 Sum_probs=16.8
Q ss_pred HHHHhcCCccHHHHHHHHHHH
Q psy17867 25 FMLETNKGRTMLEFQELMTVF 45 (81)
Q Consensus 25 ~mLesn~GrtMLEFQElMTVF 45 (81)
+|=++-.--+|-.||.+|++|
T Consensus 20 ~L~k~GIeLsme~~qP~m~L~ 40 (56)
T PF10815_consen 20 ELDKKGIELSMEMLQPLMQLL 40 (56)
T ss_pred HHHHcCccCCHHHHHHHHHHH
Confidence 344566678999999999988
No 7
>KOG4014|consensus
Probab=31.27 E-value=18 Score=28.74 Aligned_cols=42 Identities=29% Similarity=0.398 Sum_probs=21.1
Q ss_pred ccCCCCCCCCCCchHHHHHHHHHhcCCccHHHHHHHHHHHHHHhhcchh
Q psy17867 6 LQGEPEEADNPNTGIGAFRFMLETNKGRTMLEFQELMTVFQLLHWNGSL 54 (81)
Q Consensus 6 ~~g~~~d~~~p~t~igaf~~mLesn~GrtMLEFQElMTVFQLLHWNGSL 54 (81)
+.|...+..+|+. |+|.|+..-.-... |- -----||||||+.
T Consensus 79 ~~GKgG~~~~l~~---a~r~~~~aC~~n~~---~a-C~~~gLl~~~g~~ 120 (248)
T KOG4014|consen 79 LAGKGGDDASLSK---AIRPMKIACDANIP---QA-CRYLGLLHWNGEK 120 (248)
T ss_pred hcccCCCccCHHH---HHHHHHHHhccCCH---HH-HhhhhhhhccCcC
Confidence 4555555555554 45555543221111 11 1123699999974
No 8
>PF09549 RE_Bpu10I: Bpu10I restriction endonuclease; InterPro: IPR018577 This entry includes Bpu10I which recognises and cleaves CCTNAGC (-5/-2)restriction endonucleases.
Probab=30.02 E-value=35 Score=26.11 Aligned_cols=38 Identities=24% Similarity=0.260 Sum_probs=31.5
Q ss_pred ccccCCCCCCCCCCchHHHHHHHHHhcCCccHHHHHHHHH
Q psy17867 4 FLLQGEPEEADNPNTGIGAFRFMLETNKGRTMLEFQELMT 43 (81)
Q Consensus 4 ~s~~g~~~d~~~p~t~igaf~~mLesn~GrtMLEFQElMT 43 (81)
.|+.++..+....+.-|++..-=.++|-.||| |||.-+
T Consensus 74 ~s~~~~~~~~~~~~~~i~~va~EcKTnLDKtM--~qea~a 111 (203)
T PF09549_consen 74 ISCDGDFNNEETTEIDIPYVAAECKTNLDKTM--FQEASA 111 (203)
T ss_pred EccCCCcCccceeeeehhhhhhHHHhhhhHHH--HHHHHH
Confidence 46677777888888999999999999999999 577643
No 9
>smart00188 IL10 Interleukin-10 family. Interleukin-10 inhibits the synthesis of a number of cytokines, including IFN-gamma, IL-2, IL-3, TNF and GM-CSF produced by activated macrophages and by helper T cells.
Probab=28.70 E-value=81 Score=22.63 Aligned_cols=28 Identities=25% Similarity=0.292 Sum_probs=21.1
Q ss_pred ccHHHHHHHHHHHHHHhhcchhHHHHhh
Q psy17867 33 RTMLEFQELMTVFQLLHWNGSLKAMRER 60 (81)
Q Consensus 33 rtMLEFQElMTVFQLLHWNGSLKAmRer 60 (81)
..+.-...+-..|-=|.|+|..|||-|-
T Consensus 98 ~~~~a~~qi~~~f~kl~~kG~~KAmgEl 125 (137)
T smart00188 98 NKSKAVEQVKNAFNKLQEKGVYKAMSEF 125 (137)
T ss_pred chhHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 4445455566777778899999999985
No 10
>KOG0665|consensus
Probab=27.00 E-value=46 Score=27.80 Aligned_cols=21 Identities=38% Similarity=0.494 Sum_probs=19.0
Q ss_pred CccHHHHHHHHHHHHHHhhcc
Q psy17867 32 GRTMLEFQELMTVFQLLHWNG 52 (81)
Q Consensus 32 GrtMLEFQElMTVFQLLHWNG 52 (81)
-++..||||.-||-.+.+||=
T Consensus 87 ~~~l~~~~e~y~v~e~m~~nl 107 (369)
T KOG0665|consen 87 QKTLEEFQEVYLVMELMDANL 107 (369)
T ss_pred cccHHHHHhHHHHHHhhhhHH
Confidence 578899999999999999984
No 11
>PRK10234 DNA-binding transcriptional activator GutM; Provisional
Probab=26.61 E-value=70 Score=22.28 Aligned_cols=26 Identities=12% Similarity=0.157 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHhhcchhHHHHhhh
Q psy17867 36 LEFQELMTVFQLLHWNGSLKAMRERQ 61 (81)
Q Consensus 36 LEFQElMTVFQLLHWNGSLKAmRer~ 61 (81)
-=.|-+++-||+=|.|...+.||.+.
T Consensus 13 ~llQ~~lg~~Qik~Fn~~~~~L~~~G 38 (118)
T PRK10234 13 WCAQLALGGWQISRFNRAFDTLCQQG 38 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 34699999999999999999999864
No 12
>PF12287 Caprin-1_C: Cytoplasmic activation/proliferation-associated protein-1 C term; InterPro: IPR022070 This family of proteins is found in eukaryotes. Proteins in this family are typically between 343 and 708 amino acids in length. This family is the C-terminal region of caprin-1. Caprin-1 is a protein involved in regulating cellular proliferation. In mutated phenotypes, the G1 phase of the cell cycle is greatly lengthened, impairing normal proliferation. The C-terminal region of caprin-1 contains RGG motifs which are characteristic of RNA binding domains. It is possible that caprin-1 functions through an RNA binding mechanism.
Probab=26.49 E-value=22 Score=28.98 Aligned_cols=13 Identities=46% Similarity=1.140 Sum_probs=10.5
Q ss_pred HHHHHHHHhcCCccHHHH
Q psy17867 21 GAFRFMLETNKGRTMLEF 38 (81)
Q Consensus 21 gaf~~mLesn~GrtMLEF 38 (81)
|+|.||=+ +||||
T Consensus 2 GTyNFMQD-----SmLDF 14 (316)
T PF12287_consen 2 GTYNFMQD-----SMLDF 14 (316)
T ss_pred CcchhhHH-----hhhhc
Confidence 78888876 68888
No 13
>PF00912 Transgly: Transglycosylase; InterPro: IPR001264 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. Glycosyltransferase family 51 GT51 from CAZY comprises enzymes with only one known activity; murein polymerases (2.4 from EC). These enzymes utilise MurNAc-GlcNAc-P-P-lipid II as the sugar donor. The family includes the bifunctional penicillin-binding proteins that have a transglycosylase (N terminus) and transpeptidase (C terminus) domain [] and the monofunctional biosynthetic peptidoglycan transglycosylases [].; GO: 0003824 catalytic activity, 0009252 peptidoglycan biosynthetic process, 0009274 peptidoglycan-based cell wall; PDB: 3VMT_A 3VMS_B 3VMQ_A 3VMR_A 3D3H_A 3NB7_A 3NB6_A 2OQO_A 2V2F_A 3HZS_A ....
Probab=25.54 E-value=1.1e+02 Score=22.08 Aligned_cols=34 Identities=29% Similarity=0.529 Sum_probs=25.0
Q ss_pred CCccHH-HHHHHHHHHHHHhhcchhHHHHhhhhhHHHHHHHhhccc
Q psy17867 31 KGRTML-EFQELMTVFQLLHWNGSLKAMRERQCSRQEVVAHYSNRA 75 (81)
Q Consensus 31 ~GrtML-EFQElMTVFQLLHWNGSLKAmRer~CSRQeViahYs~r~ 75 (81)
..+|.. -+||+....+| |+.-|++|++..|=|..
T Consensus 81 ~~~t~~rK~~E~~~A~~l-----------e~~~sK~~ILe~YLN~i 115 (178)
T PF00912_consen 81 NERTLRRKLREAILALRL-----------ERRYSKDEILELYLNSI 115 (178)
T ss_dssp SSSSHHHHHHHHHHHHHH-----------HHHSHHHHHHHHHHTCS
T ss_pred ccchhhHHHHHHHHHHHH-----------HHhcCHHHHHHHHHHHh
Confidence 344443 47777777666 89999999999997653
No 14
>KOG1422|consensus
Probab=25.40 E-value=76 Score=24.81 Aligned_cols=32 Identities=19% Similarity=0.220 Sum_probs=23.5
Q ss_pred HHHHHhhcchhHHHHhhhhhHHHHHHHhhccc
Q psy17867 44 VFQLLHWNGSLKAMRERQCSRQEVVAHYSNRA 75 (81)
Q Consensus 44 VFQLLHWNGSLKAmRer~CSRQeViahYs~r~ 75 (81)
|...|+=-=++.+.+.+.|+-||||+||..+.
T Consensus 186 V~rYl~~~ya~d~F~~tcp~d~ei~~~y~~~~ 217 (221)
T KOG1422|consen 186 VWRYLKNAYARDEFTNTCPADQEIILAYAPVA 217 (221)
T ss_pred HHHHHHHHHhHHHhhcCCchHHHHHHhhhhhh
Confidence 33333333467888999999999999998753
No 15
>PF14009 DUF4228: Domain of unknown function (DUF4228)
Probab=25.18 E-value=11 Score=24.36 Aligned_cols=29 Identities=17% Similarity=0.367 Sum_probs=23.1
Q ss_pred HHhhcchhHHHHhhhhhHHHHHHHhhcccc
Q psy17867 47 LLHWNGSLKAMRERQCSRQEVVAHYSNRAL 76 (81)
Q Consensus 47 LLHWNGSLKAmRer~CSRQeViahYs~r~L 76 (81)
++||||.+..+ .+-++=.||+..|.+..+
T Consensus 20 vv~~~G~v~~~-~~pv~a~evm~~~P~h~v 48 (181)
T PF14009_consen 20 VVHPDGKVEEF-KRPVTAAEVMLENPGHFV 48 (181)
T ss_pred EEcCCCcEEEe-CCCcCHHHHHHHCCCCEE
Confidence 57899999988 557888899988877643
No 16
>smart00535 RIBOc Ribonuclease III family.
Probab=23.10 E-value=1.2e+02 Score=19.00 Aligned_cols=53 Identities=19% Similarity=0.228 Sum_probs=36.0
Q ss_pred HHHhcCCccHHHHHHHHHHHHHH-hh-cchhHHHHhhhhhHHHHHHHhhccccccc
Q psy17867 26 MLETNKGRTMLEFQELMTVFQLL-HW-NGSLKAMRERQCSRQEVVAHYSNRALDDD 79 (81)
Q Consensus 26 mLesn~GrtMLEFQElMTVFQLL-HW-NGSLKAmRer~CSRQeViahYs~r~LD~~ 79 (81)
-|| ..|+++|++.=.--+|+.. .+ .|.|..+|..-+|.+-.-....+..|++.
T Consensus 21 ~Le-~lGd~vl~~~v~~~l~~~~p~~~~~~l~~~~~~lvsn~~la~~a~~~~l~~~ 75 (129)
T smart00535 21 RLE-FLGDAVLELVVTEYLYKKYPDLSEGDLSRLRSALVSNETLARLAKKLGLGEF 75 (129)
T ss_pred HHH-HHHHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHCHHHHHHHHHHCCcHHH
Confidence 344 6799999998877777753 34 37888999888886654444444455543
No 17
>COG4628 Uncharacterized conserved protein [Function unknown]
Probab=22.44 E-value=69 Score=23.53 Aligned_cols=22 Identities=36% Similarity=0.452 Sum_probs=19.7
Q ss_pred chhHHHHhhhhhHHHHHHHhhc
Q psy17867 52 GSLKAMRERQCSRQEVVAHYSN 73 (81)
Q Consensus 52 GSLKAmRer~CSRQeViahYs~ 73 (81)
.|||-||...--||.|-|.|-.
T Consensus 53 SSlKfLrkT~WARekvEa~Yl~ 74 (136)
T COG4628 53 SSLKFLRKTPWAREKVEALYLY 74 (136)
T ss_pred HHHHHHhcCHhHHHHHHHHHHH
Confidence 3899999999999999999854
No 18
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=21.92 E-value=31 Score=28.90 Aligned_cols=14 Identities=29% Similarity=0.871 Sum_probs=11.3
Q ss_pred hHHHHhhhhhHHHH
Q psy17867 54 LKAMRERQCSRQEV 67 (81)
Q Consensus 54 LKAmRer~CSRQeV 67 (81)
.--+|+++|||+.|
T Consensus 41 et~i~d~~cs~~qv 54 (526)
T TIGR01663 41 ETGIRDRKCSKRQI 54 (526)
T ss_pred ccccchhhhchhhh
Confidence 34578999999987
No 19
>PF06923 GutM: Glucitol operon activator protein (GutM); InterPro: IPR009693 This family consists of several glucitol operon activator (GutM) proteins. Expression of the glucitol (gut) operon in Escherichia coli is regulated by an unusual, complex system, which consists of an activator (encoded by the gutM gene) and a repressor (encoded by the gutR gene) in addition to the cAMP-CRP complex (CRP, cAMP receptor protein). Synthesis of the mRNA, which initiates at the promoter specific to the gutR gene, occurs within the gutM gene. Expressional control of the gut operon appears to occur as a consequence of the antagonistic action of the products of the autogenously regulated gutM and gutR genes [].
Probab=21.76 E-value=1e+02 Score=20.71 Aligned_cols=23 Identities=30% Similarity=0.482 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHhhcchhHHHHh
Q psy17867 37 EFQELMTVFQLLHWNGSLKAMRE 59 (81)
Q Consensus 37 EFQElMTVFQLLHWNGSLKAmRe 59 (81)
=.|=+++.||+=|.|-+++.||.
T Consensus 13 ~lQ~~l~~~Qik~f~~~~~~l~~ 35 (109)
T PF06923_consen 13 LLQILLGWFQIKNFNKAYKELRK 35 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 36889999999999999999994
No 20
>PF10164 DUF2367: Uncharacterized conserved protein (DUF2367); InterPro: IPR019317 This is a highly conserved set of proteins which contains three pairs of cysteine residues within a length of 42 amino acids and is rich in proline residues towards the N terminus. It includes a membrane protein that has been found to be highly expressed in the mouse brain and consequently, several members have been assigned as brain protein i3 (Bri3). Their function is unknown.
Probab=21.36 E-value=24 Score=24.55 Aligned_cols=11 Identities=64% Similarity=0.957 Sum_probs=8.6
Q ss_pred hHHHHhhhhhH
Q psy17867 54 LKAMRERQCSR 64 (81)
Q Consensus 54 LKAmRer~CSR 64 (81)
+=+||||+|+|
T Consensus 83 c~~~r~~rC~n 93 (98)
T PF10164_consen 83 CLAMRERRCSN 93 (98)
T ss_pred hhhcCccccCC
Confidence 45789999986
No 21
>KOG4691|consensus
Probab=21.19 E-value=1.6e+02 Score=23.20 Aligned_cols=40 Identities=33% Similarity=0.415 Sum_probs=32.8
Q ss_pred ccHHHHHHHHHHHHHHhhcchhHHHHhhhhhHHHHHHHhhcccc
Q psy17867 33 RTMLEFQELMTVFQLLHWNGSLKAMRERQCSRQEVVAHYSNRAL 76 (81)
Q Consensus 33 rtMLEFQElMTVFQLLHWNGSLKAmRer~CSRQeViahYs~r~L 76 (81)
-+--||-|||--+| |+|-.+.++|+- =|.||..|-+.+.=
T Consensus 56 q~pee~~eLm~r~~--~Y~~~vrslR~~--fr~Ev~r~~e~~~g 95 (227)
T KOG4691|consen 56 QDPEEFFELMERYQ--HYRQTVRSLRME--FRSEVQRVHEARAG 95 (227)
T ss_pred CCHHHHHHHHHHHH--HHHHHHHHHHHH--HHHHHHHHHhhcch
Confidence 34568999999887 899999999874 58899998887653
No 22
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=20.52 E-value=1e+02 Score=20.14 Aligned_cols=21 Identities=33% Similarity=0.499 Sum_probs=18.8
Q ss_pred cchhHHHHhhhhhHHHHHHHh
Q psy17867 51 NGSLKAMRERQCSRQEVVAHY 71 (81)
Q Consensus 51 NGSLKAmRer~CSRQeViahY 71 (81)
..|||-||...--|+.|=+.|
T Consensus 43 kSSLkFLRkTpWAR~KVE~lY 63 (64)
T PF09905_consen 43 KSSLKFLRKTPWAREKVENLY 63 (64)
T ss_dssp HHHHHHHHHSHHHHHHHHHHH
T ss_pred HHHHHHHhcCHhHHHHHHHhc
Confidence 368999999999999998887
No 23
>smart00526 H15 Domain in histone families 1 and 5.
Probab=20.41 E-value=54 Score=19.27 Aligned_cols=21 Identities=24% Similarity=0.346 Sum_probs=14.9
Q ss_pred hHHHHhhh-hhHHHHHHHhhcc
Q psy17867 54 LKAMRERQ-CSRQEVVAHYSNR 74 (81)
Q Consensus 54 LKAmRer~-CSRQeViahYs~r 74 (81)
+++|.||. ||++.+-.|=..+
T Consensus 15 I~~l~er~GsS~~aI~kyi~~~ 36 (66)
T smart00526 15 ISALKERKGSSLQAIKKYIEAN 36 (66)
T ss_pred HHHcCCCCCCCHHHHHHHHHHh
Confidence 56777766 8999887665443
No 24
>cd04147 Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.
Probab=20.32 E-value=93 Score=20.83 Aligned_cols=36 Identities=19% Similarity=0.170 Sum_probs=26.3
Q ss_pred CCccHHH-HHHHHHHHHHHhhcchhHHHHhhhhhHHH
Q psy17867 31 KGRTMLE-FQELMTVFQLLHWNGSLKAMRERQCSRQE 66 (81)
Q Consensus 31 ~GrtMLE-FQElMTVFQLLHWNGSLKAmRer~CSRQe 66 (81)
.|.-+.+ |+.+....+..+|.+.+=.-|...|+||+
T Consensus 147 ~g~gv~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 183 (198)
T cd04147 147 DNENVLEVFKELLRQANLPYNLSPALRRRRESLPSEI 183 (198)
T ss_pred CCCCHHHHHHHHHHHhhcccccchhhHHHHhhccHhh
Confidence 3444433 56666677788899988888888999985
Done!